Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 164 of 333
Found at i:53852335 original size:16 final size:16
Alignment explanation
Indices: 53852314--53852348 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
53852304 CCAGCCAAAC
*
53852314 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCAGCA
53852330 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
53852346 TTT
1 TTT
53852349 TTCTTTTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:53857797 original size:26 final size:26
Alignment explanation
Indices: 53857768--53857829 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
53857758 TCAGCTCAAT
*
53857768 GGAGCTTACTGTCCATCAGCTCAGGA
1 GGAGCTTACTGTCCATCAGCTAAGGA
*
53857794 GGAGCTTACTGTCTATCAGCTAAGGA
1 GGAGCTTACTGTCCATCAGCTAAGGA
53857820 GGAGCTTACT
1 GGAGCTTACT
53857830 AGTCATAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (26 bp):
GGAGCTTACTGTCCATCAGCTAAGGA
Found at i:53860165 original size:21 final size:22
Alignment explanation
Indices: 53860127--53860167 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
53860117 AGCCGTGTGT
*
53860127 CACACACGGGTAGAGACACAGG
1 CACACACGGCTAGAGACACAGG
53860149 CACACACGGCT-GAGACACA
1 CACACACGGCTAGAGACACA
53860168 CGCCCGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.37, C:0.32, G:0.27, T:0.05
Consensus pattern (22 bp):
CACACACGGCTAGAGACACAGG
Found at i:53861025 original size:14 final size:14
Alignment explanation
Indices: 53861006--53861035 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53860996 CCATATACAA
*
53861006 ATAAACTTATTAAC
1 ATAAACTTATAAAC
53861020 ATAAACTTATAAAC
1 ATAAACTTATAAAC
53861034 AT
1 AT
53861036 CATGAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAACTTATAAAC
Found at i:53861067 original size:232 final size:232
Alignment explanation
Indices: 53860651--53861100 Score: 801
Period size: 232 Copynumber: 1.9 Consensus size: 232
53860641 AAGTACCAAA
*
53860651 ATAAGGCTCAATAGTGTGGTGATGATCCTCGACGATCCCCGAGCTCACAGTAGCTTCGATATCAA
1 ATAAGGCTCAATAGTGTGGTGATGATCCTCGACGATCCCCGAGCTCACAGTAACTTCGATATCAA
53860716 TAAAACAATGCAAACATACATAGAGTAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACT
66 TAAAACAATGCAAACATACATAGAGTAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACT
*
53860781 TATCAACATATACTTATAAACATCATGAATACATGTACTTTATGACCAAGATACTAACATATATC
131 TATCAACATAAACTTATAAACATCATGAATACATGTACTTTATGACCAAGATACTAACATATATC
*
53860846 ACATGGTTTACCTATAATTCATACTAACATATGAATT
196 ACATGATTTACCTATAATTCATACTAACATATGAATT
* * * * *
53860883 ATAAGGTTCGATAGTGTGGTGATGATCCTCGATGATCCCTGAGCTCACAGTAACTTCGATATCTA
1 ATAAGGCTCAATAGTGTGGTGATGATCCTCGACGATCCCCGAGCTCACAGTAACTTCGATATCAA
*
53860948 TAAAACAATGCAAATATACATAGAGTAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACT
66 TAAAACAATGCAAACATACATAGAGTAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACT
* *
53861013 TATTAACATAAACTTATAAACATCATGAATACATGTACTTTATGACCAAGATACTAACTTATATC
131 TATCAACATAAACTTATAAACATCATGAATACATGTACTTTATGACCAAGATACTAACATATATC
53861078 ACATGATTTACCTATAATTCATA
196 ACATGATTTACCTATAATTCATA
53861101 TGTTCTCAAA
Statistics
Matches: 207, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
232 207 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (232 bp):
ATAAGGCTCAATAGTGTGGTGATGATCCTCGACGATCCCCGAGCTCACAGTAACTTCGATATCAA
TAAAACAATGCAAACATACATAGAGTAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACT
TATCAACATAAACTTATAAACATCATGAATACATGTACTTTATGACCAAGATACTAACATATATC
ACATGATTTACCTATAATTCATACTAACATATGAATT
Found at i:53862622 original size:29 final size:28
Alignment explanation
Indices: 53862562--53862697 Score: 123
Period size: 29 Copynumber: 4.8 Consensus size: 28
53862552 TACCTGCATG
* * *
53862562 TGGCCCACTAGGCCGAATCTCA-TTTATA
1 TGGCCCATTAGGCCCAAT-TCACTTCATA
* *
53862590 TGGCCCATTTGACCCAATTCACGTTCATA
1 TGGCCCATTAGGCCCAATTCAC-TTCATA
*
53862619 TGGCCCATCAGGCCCAATTCACATTCATA
1 TGGCCCATTAGGCCCAATTCAC-TTCATA
* *
53862648 TGGCCTATTAGGCCCAATCTCA-TTTATA
1 TGGCCCATTAGGCCCAAT-TCACTTCATA
** *
53862676 TGGCCCATCCGGCCCAAATCAC
1 TGGCCCATTAGGCCCAATTCAC
53862698 ATTATATTCA
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
27 6 0.07
28 33 0.38
29 46 0.52
30 3 0.03
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATTCACTTCATA
Found at i:53873059 original size:31 final size:31
Alignment explanation
Indices: 53873013--53873086 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
53873003 TAAAGTGTCA
* *
53873013 ACGCTCGTGTAGATGGGCTGTGTAGACTCAC
1 ACGCCCGTGTGGATGGGCTGTGTAGACTCAC
53873044 ACGCCCGTGTGGATGGGCTGTGTAGACTCAC
1 ACGCCCGTGTGGATGGGCTGTGTAGACTCAC
*
53873075 ACGCCCGGGTGG
1 ACGCCCGTGTGG
53873087 CTTGGGGCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.16, C:0.26, G:0.36, T:0.22
Consensus pattern (31 bp):
ACGCCCGTGTGGATGGGCTGTGTAGACTCAC
Found at i:53880610 original size:130 final size:130
Alignment explanation
Indices: 53880448--53880713 Score: 525
Period size: 130 Copynumber: 2.1 Consensus size: 130
53880438 CAAATTAACC
53880448 AAAA-AATCAAGATGGTGGCCGGCCATGCTATGGGTTAAAGCATATTATAAACATTTTGTGTTAA
1 AAAACAATCAAGATGGTGGCCGGCCATGCTATGGGTTAAAGCATATTATAAACATTTTGTGTTAA
53880512 TGTTTTATGTTAGAAATAATAAAATAAAAGGTTAGTAATAAAGTAATGAAAAGGGAGGGGTGATG
66 TGTTTTATGTTAGAAATAATAAAATAAAAGGTTAGTAATAAAGTAATGAAAAGGGAGGGGTGATG
53880577 AAAACAATCAAGATGGTGGCCGGCCATGCTATGGGTTAAAGCATATTATAAACATTTTGTGTTAA
1 AAAACAATCAAGATGGTGGCCGGCCATGCTATGGGTTAAAGCATATTATAAACATTTTGTGTTAA
53880642 TGTTTTATGTTAGAAATAATAAAATAAAAGGTTAGTAATAAAGTAATGAAAAGGGAGGGGTGATG
66 TGTTTTATGTTAGAAATAATAAAATAAAAGGTTAGTAATAAAGTAATGAAAAGGGAGGGGTGATG
53880707 AAAACAA
1 AAAACAA
53880714 AGTTGTCTCA
Statistics
Matches: 136, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
129 4 0.03
130 132 0.97
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (130 bp):
AAAACAATCAAGATGGTGGCCGGCCATGCTATGGGTTAAAGCATATTATAAACATTTTGTGTTAA
TGTTTTATGTTAGAAATAATAAAATAAAAGGTTAGTAATAAAGTAATGAAAAGGGAGGGGTGATG
Found at i:53882073 original size:40 final size:40
Alignment explanation
Indices: 53882018--53882199 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
53882008 TATTCGAATG
53882018 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
53882058 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
53882098 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
53882138 ATATCCGGGCTAAGACCCGAAGGTATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
53882178 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
53882200 TACTTGGGTT
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.10
40 118 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:53884329 original size:29 final size:29
Alignment explanation
Indices: 53884262--53884408 Score: 149
Period size: 29 Copynumber: 5.2 Consensus size: 29
53884252 TACATACTTG
* *
53884262 CATATGG-CCAACTAGGCCCAA-TCTCATT
1 CATATGGCCCATC-AGGCCCAATTCACATT
* * *
53884290 TATATGGCCCATCGGGCCCAATTCACGTT
1 CATATGGCCCATCAGGCCCAATTCACATT
*
53884319 CATATGACCCATCAGGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAATTCACATT
* *
53884348 CATATGGCCCATTAGGCCCAA-TCTCATT
1 CATATGGCCCATCAGGCCCAATTCACATT
* ** *
53884376 TATATGGCCCATCCTGCCCAAATCACATT
1 CATATGGCCCATCAGGCCCAATTCACATT
53884405 -ATAT
1 CATAT
53884409 TCATGCTCAC
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
28 40 0.40
29 59 0.60
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAATTCACATT
Found at i:53884522 original size:19 final size:19
Alignment explanation
Indices: 53884477--53884513 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
53884467 TGGGCCCAAC
*
53884477 AGCCC-TTCGGGCCCATTT
1 AGCCCATTCTGGCCCATTT
53884495 AGCCCATTCTGGCCCATTT
1 AGCCCATTCTGGCCCATTT
53884514 GGCCTATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.14, C:0.38, G:0.19, T:0.30
Consensus pattern (19 bp):
AGCCCATTCTGGCCCATTT
Found at i:53884645 original size:16 final size:16
Alignment explanation
Indices: 53884624--53884660 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
53884614 AAACTTTTGG
53884624 CTTTTCGACATTTCGA
1 CTTTTCGACATTTCGA
*
53884640 CTTTTCGGCATTTCGA
1 CTTTTCGACATTTCGA
53884656 CTTTT
1 CTTTT
53884661 ACCAATCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.49
Consensus pattern (16 bp):
CTTTTCGACATTTCGA
Found at i:53895051 original size:13 final size:13
Alignment explanation
Indices: 53895033--53895061 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
53895023 AATATAGACT
53895033 AAATATCAAGAAC
1 AAATATCAAGAAC
53895046 AAATATCAAGAAC
1 AAATATCAAGAAC
53895059 AAA
1 AAA
53895062 ACATAGCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.14, G:0.07, T:0.14
Consensus pattern (13 bp):
AAATATCAAGAAC
Found at i:53902967 original size:6 final size:6
Alignment explanation
Indices: 53902956--53902984 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
53902946 AAATATGCTA
53902956 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
53902985 GTAGTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:53907870 original size:13 final size:13
Alignment explanation
Indices: 53907852--53907877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53907842 TCGGCAGGGA
53907852 CACGCCCGTGTGC
1 CACGCCCGTGTGC
53907865 CACGCCCGTGTGC
1 CACGCCCGTGTGC
53907878 GTCGTCCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.46, G:0.31, T:0.15
Consensus pattern (13 bp):
CACGCCCGTGTGC
Found at i:53917600 original size:61 final size:61
Alignment explanation
Indices: 53917480--53917600 Score: 174
Period size: 61 Copynumber: 2.0 Consensus size: 61
53917470 ATAGCTTGGC
* * *
53917480 TATGGCAACCAATAGAGTCCACCTGTACATTAAACATGGGGTATAAGGTTTAAGACCATAA
1 TATGGCAACAAATAGAGTCCACCAGTACATTAAACATGGGGTATAAGGTTAAAGACCATAA
*
53917541 TATGGCAACAAATAGAGTCCACCAAG-ATATTAAACATGGGGTATAAGGTGTAAAG-CCATA
1 TATGGCAACAAATAGAGTCCACC-AGTACATTAAACATGGGGTATAAGGT-TAAAGACCATA
53917601 GCTCTACTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
61 49 0.91
62 5 0.09
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (61 bp):
TATGGCAACAAATAGAGTCCACCAGTACATTAAACATGGGGTATAAGGTTAAAGACCATAA
Found at i:53917649 original size:67 final size:67
Alignment explanation
Indices: 53917448--53917660 Score: 228
Period size: 67 Copynumber: 3.3 Consensus size: 67
53917438 ATGGCCTGTA
* * * * *
53917448 ATGGGGTATGAGGTGT-AAGACTATAGCTTGGCTATGGCAACCAATAGAGTCCACCTGTACATTA
1 ATGGGGTATAAGGTGTAAAGACCATAGCTT-ACTATGGCAACCAATAGAGTCCACCAGGACATTA
53917512 AAC
65 AAC
* * * *
53917515 ATGGGGTATAAGGT-TTAAGACCATA----A-TATGGCAACAAATAGAGTCCACCAAGATATTAA
1 ATGGGGTATAAGGTGTAAAGACCATAGCTTACTATGGCAACCAATAGAGTCCACCAGGACATTAA
53917574 AC
66 AC
* *
53917576 ATGGGGTATAAGGTGTAAAG-CCATAGCTCTACTATGGTAACCAATAGACTCCACCAGGACA-TA
1 ATGGGGTATAAGGTGTAAAGACCATAGCT-TACTATGGCAACCAATAGAGTCCACCAGGACATTA
53917639 ACAC
65 A-AC
*
53917643 ATGGGGTATGAGGTGTAA
1 ATGGGGTATAAGGTGTAA
53917661 GACTATATAC
Statistics
Matches: 122, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
61 49 0.40
62 4 0.03
66 5 0.04
67 64 0.52
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (67 bp):
ATGGGGTATAAGGTGTAAAGACCATAGCTTACTATGGCAACCAATAGAGTCCACCAGGACATTAA
AC
Found at i:53918806 original size:17 final size:16
Alignment explanation
Indices: 53918777--53918812 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
53918767 GTCATACTAC
53918777 CAATTCAATTCATGCT
1 CAATTCAATTCATGCT
*
53918793 CAATTCATATTCATGGT
1 CAATTCA-ATTCATGCT
53918810 CAA
1 CAA
53918813 AATATACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.36
Consensus pattern (16 bp):
CAATTCAATTCATGCT
Found at i:53927591 original size:47 final size:47
Alignment explanation
Indices: 53927528--53928124 Score: 876
Period size: 47 Copynumber: 12.6 Consensus size: 47
53927518 CCCTTCGGAA
* * *
53927528 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
53927575 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53927622 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
53927669 CTTATCACAGATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * **
53927716 CTTATCTCATATATGCAAGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
53927763 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
53927810 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53927859 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53927906 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
53927955 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53928002 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
53928049 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
53928098 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
53928125 TATTCAAATA
Statistics
Matches: 512, Mismatches: 28, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 375 0.73
49 135 0.26
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:53927888 original size:96 final size:94
Alignment explanation
Indices: 53927528--53928124 Score: 876
Period size: 96 Copynumber: 6.3 Consensus size: 94
53927518 CCCTTCGGAA
* * *
53927528 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
53927593 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTAGGC
* * * *
53927622 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAGATACACA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
*
53927686 -TGTTCACATTCATCACATTGGCCATTCGGC
65 CT-TTCACATTCATCACATTGGCCATTAGGC
* * ** * *
53927716 CTTATCTCATATATGCAAGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
53927780 TGTTCACATTCATCACATTGGTCATTCGGC
66 T-TTCACATTCATCACATTGGCCATTAGGC
53927810 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
53927875 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATTGGCCATTAGGC
* *
53927906 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
53927971 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATTGGCCATTAGGC
* *
53928002 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
53928067 ACTTTCACATTCATCACATTGGCCATTAGGC
64 ACTTTCACATTCATCACATTGGCCATTAGGC
53928098 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
53928125 TATTCAAATA
Statistics
Matches: 471, Mismatches: 24, Indels: 14
0.93 0.05 0.03
Matches are distributed among these distances:
93 2 0.00
94 227 0.48
96 241 0.51
97 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTAGGC
Found at i:53931456 original size:37 final size:37
Alignment explanation
Indices: 53931414--53931500 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
53931404 ATATCAACGA
* * *
53931414 CATGCTTTTCATACTTTTGGTTTAACAATTTCAATGG
1 CATGCTTATCATACTTTCGGTTTAACAATCTCAATGG
* *
53931451 CATGCTTATCATCCTTTCGTTTTAACAATCTCAATGG
1 CATGCTTATCATACTTTCGGTTTAACAATCTCAATGG
53931488 CATGCTTAATCAT
1 CATGCTT-ATCAT
53931501 GCATTCATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 39 0.89
38 5 0.11
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (37 bp):
CATGCTTATCATACTTTCGGTTTAACAATCTCAATGG
Found at i:53933517 original size:28 final size:27
Alignment explanation
Indices: 53933449--53933540 Score: 109
Period size: 28 Copynumber: 3.4 Consensus size: 27
53933439 GATATGACAT
** *
53933449 TGTGCTAAGTGAAATAAAACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGAA
53933476 --T-CTAAGTGAAATAAGTCCATGGTAA
1 TGTGCTAAGTGAAATAAGTCCATGG-AA
*
53933501 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGG-AA
53933529 TGTGCTAAGTGA
1 TGTGCTAAGTGA
53933541 GAAATTTCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
24 19 0.34
25 2 0.04
27 1 0.02
28 34 0.61
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGAA
Found at i:53939393 original size:28 final size:28
Alignment explanation
Indices: 53939325--53939415 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
53939315 GATATGACAT
*
53939325 TGTGCTAAGTGAAATAA-ACCATGGC-A
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
*
53939351 --T-ATAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
*
53939376 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
53939404 TGTGCTAAGTGA
1 TGTGCTAAGTGA
53939416 GAAATTTCCC
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.21
24 8 0.14
25 1 0.02
27 1 0.02
28 34 0.61
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (28 bp):
TGTGCTAAGTGAAATAAGTCCATGGCAA
Found at i:53939494 original size:51 final size:51
Alignment explanation
Indices: 53939439--53939637 Score: 319
Period size: 51 Copynumber: 3.9 Consensus size: 51
53939429 TGAACCTTAG
* *
53939439 GAATAAAATAGCTTTGGACACAAGTGTGGCACTATGTGAAGGTCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
53939490 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
53939541 GAATAAAATAGCTTTGGACACAATTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
53939592 AAATAAAATAGGTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
53939638 CGTGTATCTG
Statistics
Matches: 138, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 1 0.01
51 137 0.99
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:53950807 original size:5 final size:5
Alignment explanation
Indices: 53950797--53950842 Score: 83
Period size: 5 Copynumber: 9.0 Consensus size: 5
53950787 TCAAAGACTC
53950797 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT GAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
53950843 GTAAGAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 35 0.88
6 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:53958625 original size:21 final size:21
Alignment explanation
Indices: 53958565--53958626 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
53958555 TCTTGAAACA
* **
53958565 GGGC-ACACGCCCGTGTGGAA
1 GGGCAACACACCCGTGTGGTC
53958585 GGGCAACACACCCGTGTGGTC
1 GGGCAACACACCCGTGTGGTC
53958606 GGGCAACACACCCGTGTGGTC
1 GGGCAACACACCCGTGTGGTC
53958627 ATTATAACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 4 0.11
21 34 0.89
ACGTcount: A:0.19, C:0.32, G:0.35, T:0.13
Consensus pattern (21 bp):
GGGCAACACACCCGTGTGGTC
Found at i:53960002 original size:47 final size:45
Alignment explanation
Indices: 53959892--53960061 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 45
53959882 CTTGTAGTCG
* * * * **
53959892 ATGCATATCCCAAACATTTCTTACACTAGCT-TGCATCTCGAGGCTG
1 ATGCATGTCCCAAACATGTCTTACACTAGCTCT-C-TCTCAATGCCA
*
53959938 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCA
1 ATGCATGTCCCAAACATGTCTTACACTAGCTCTC-TCTCAATGCCA
* *
53959984 ATGGCATGTCCCAAACATGGTTTTACACTAG--CTCTCACAATGTGGCCA
1 AT-GCATGTCCCAAACAT-GTCTTACACTAGCTCTCTCTCAA--T-GCCA
*
53960032 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAAACATGTCTTACACTAGC
53960062 ACACAAATAA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
45 5 0.05
46 52 0.50
47 30 0.29
48 17 0.16
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAAACATGTCTTACACTAGCTCTCTCTCAATGCCA
Found at i:53972185 original size:46 final size:45
Alignment explanation
Indices: 53972124--53972299 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 45
53972114 TATTTGGGCA
*
53972124 TCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *** * *
53972170 TCTGAACTCGTTGAGTTGAGTCTGACTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
53972217 TCCGAGCTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
53972263 CCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53972300 GCAGGTTACA
Statistics
Matches: 100, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 62 0.62
47 28 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:53977640 original size:46 final size:45
Alignment explanation
Indices: 53977587--53977762 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
53977577 TATTTGGGCA
*
53977587 TCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
53977633 TCCGAACTCGTTGAGTTGAGTCCGACTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
53977680 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
53977726 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53977763 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:53980219 original size:26 final size:26
Alignment explanation
Indices: 53980190--53980245 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
53980180 TACAAGGTCC
53980190 AAAACATACATTAAAATTGATATGGG
1 AAAACATACATTAAAATTGATATGGG
*
53980216 AAAACATACATTAAAATTGATCTGGG
1 AAAACATACATTAAAATTGATATGGG
53980242 AAAA
1 AAAA
53980246 TATAAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (26 bp):
AAAACATACATTAAAATTGATATGGG
Found at i:53985022 original size:40 final size:40
Alignment explanation
Indices: 53984967--53985144 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
53984957 CGGATGATAA
* *
53984967 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
53985007 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53985047 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
53985087 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
53985127 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53985145 TACTTGGTTG
Statistics
Matches: 129, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 17 0.13
40 111 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53988806 original size:21 final size:21
Alignment explanation
Indices: 53988765--53988806 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
53988755 GCAGCCAAAA
*
53988765 CATGCCAATTCATACACATTT
1 CATGCCAATTCATAAACATTT
*
53988786 CATGCC-ATTTATAAACTATTT
1 CATGCCAATTCATAAAC-ATTT
53988807 TCTTAACTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (21 bp):
CATGCCAATTCATAAACATTT
Found at i:53989702 original size:43 final size:43
Alignment explanation
Indices: 53989651--53989807 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 43
53989641 TATCCTAGAT
* * * *
53989651 ATGGTCTTACATGTTATCACATATCGATGCCACTATCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * *
53989694 AGGGTCTTACACGAAATCATA-ATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGAC
* * * *
53989737 ATGGTCTTACACGTAATCACAAAACAATGCCAATGTCCCAGAA
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * * *
53989780 ATGGTCTTAGATGTAATCGCATCTCGAT
1 ATGGTCTTACACGTAATCACATATCGAT
53989808 AACCTAATGT
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
42 2 0.02
43 89 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:53993775 original size:43 final size:43
Alignment explanation
Indices: 53993743--53993829 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
53993733 ACGAAATTAT
* *
53993743 AATACGATGCCAATGTCCTAGACATGGTCTTACACATAATCAC
1 AATACAATGCCAATGTCCCAGACATGGTCTTACACATAATCAC
**
53993786 AATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAC
1 AATACAATGCCAATGTCCCAGACATGGTCTTACACATAATCAC
53993829 A
1 A
53993830 TCTCGTACCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (43 bp):
AATACAATGCCAATGTCCCAGACATGGTCTTACACATAATCAC
Found at i:54000691 original size:27 final size:27
Alignment explanation
Indices: 54000660--54000837 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
54000650 TAAATTGTAC
54000660 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
54000687 TGCACTGAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54000713 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54000741 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
54000769 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54000796 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54000823 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54000838 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54000774 original size:82 final size:81
Alignment explanation
Indices: 54000661--54000816 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
54000651 AAATTGTACA
* * *
54000661 GCACTAAGTGTGCGATTTGACTATGTTGCACTGAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
54000725 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
54000742 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
54000807 TGCGAGTTGA
65 TGCGAATTGA
54000817 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:54000828 original size:82 final size:81
Alignment explanation
Indices: 54000657--54000837 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
54000647 GATTAAATTG
* * *
54000657 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTGAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
54000722 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
54000738 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
54000802 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
54000820 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54000838 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:54006300 original size:30 final size:30
Alignment explanation
Indices: 54006266--54006326 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54006256 TTCCCGAGCC
54006266 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
54006296 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
54006326 T
1 T
54006327 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:54014552 original size:49 final size:49
Alignment explanation
Indices: 54014331--54014741 Score: 608
Period size: 47 Copynumber: 8.6 Consensus size: 49
54014321 CCCTTCGGGA
* * * * *
54014331 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54014378 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54014425 CTTATCAC--ATATATACACTTTCACATTTATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54014472 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54014519 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54014568 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54014617 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54014664 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54014713 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
54014742 TATTCAAATA
Statistics
Matches: 337, Mismatches: 21, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 176 0.52
49 160 0.47
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54014637 original size:145 final size:145
Alignment explanation
Indices: 54014331--54014741 Score: 659
Period size: 145 Copynumber: 2.9 Consensus size: 145
54014321 CCCTTCGGGA
* * * * * * * *
54014331 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * * *
54014394 ACTTTCACATTCATCACATCGACCATTAGGCCTTATCAC--ATATATACACTTTCACATTTATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
*
54014457 CATCGGCTATTAGGC
131 CATCGGCCATTAGGC
54014472 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
54014537 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
* *
54014602 CATTGGCCATTCGGC
131 CATCGGCCATTAGGC
54014617 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
54014682 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
54014742 TATTCAAATA
Statistics
Matches: 251, Mismatches: 15, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
141 47 0.19
143 44 0.18
145 160 0.64
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:54014691 original size:40 final size:42
Alignment explanation
Indices: 54014646--54014740 Score: 104
Period size: 49 Copynumber: 2.1 Consensus size: 42
54014636 TTCACATTCA
54014646 TCACAT-C-GGCCATTAGGCCTTATCACATATATATACACTT
1 TCACATACTGGCCATTAGGCCTTATCACATATATATACACTT
*
54014686 TCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTT
1 T--CA--CAT-AC--TGGCCATTAGGCCTTATCACATATATATACACTT
54014735 TCACAT
1 TCACAT
54014741 TTATTCAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
40 1 0.02
42 2 0.04
44 3 0.07
45 3 0.07
46 1 0.02
47 2 0.04
49 33 0.73
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (42 bp):
TCACATACTGGCCATTAGGCCTTATCACATATATATACACTT
Found at i:54018060 original size:40 final size:40
Alignment explanation
Indices: 54018016--54018283 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
54018006 CCAGCATGAT
* * * * *
54018016 TGCTCTTCGGGACCTAGCTCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
54018056 TGCTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAA
* *
54018096 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
**
54018136 TGCTCTTCGGGACTTAGTTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
54018176 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
54018216 TGCTCTTCGGGACTTAGCCCGGGTATATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
54018256 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
54018284 GTCGAGACCT
Statistics
Matches: 203, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 4 0.02
40 197 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:54020586 original size:47 final size:47
Alignment explanation
Indices: 54020508--54021155 Score: 954
Period size: 47 Copynumber: 13.6 Consensus size: 47
54020498 CCCTTCGGGA
* * * * * *
54020508 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54020555 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54020602 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54020649 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
54020696 CTTATCACATATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
54020745 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54020792 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54020839 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54020886 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
54020933 CTTATCACATATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54020982 CTTATCACATATGTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
54021031 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54021078 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54021127 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
54021156 TATGCAAATA
Statistics
Matches: 553, Mismatches: 40, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
47 353 0.64
49 200 0.36
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54020923 original size:237 final size:237
Alignment explanation
Indices: 54020490--54021155 Score: 1170
Period size: 237 Copynumber: 2.8 Consensus size: 237
54020480 ATAGTACTGA
* * *
54020490 CACAATTGCCCTTCGGGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CACATTTGCCATTC-GGCCTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
54020555 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
65 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
54020620 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
130 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
54020685 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
195 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
54020728 CACATTTGCCATTCGGCCTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
1 CACATTTGCCATTCGGCCTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
54020793 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
66 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
54020858 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
131 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
54020923 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
196 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
* * *
54020965 CACATTTGCCATTCGGCCTTATCACATATGTATACACTTTCACATTCATCACATTGGCCATTCGG
1 CACATTTGCCATTCGGCCTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG
* *
54021030 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
64 CCCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
* * *
54021095 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
127 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATT
54021156 TATGCAAATA
Statistics
Matches: 411, Mismatches: 11, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
237 249 0.61
238 13 0.03
239 86 0.21
241 44 0.11
243 19 0.05
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (237 bp):
CACATTTGCCATTCGGCCTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
Found at i:54021105 original size:40 final size:42
Alignment explanation
Indices: 54021060--54021154 Score: 104
Period size: 49 Copynumber: 2.1 Consensus size: 42
54021050 TTCACATTCA
54021060 TCACAT-C-GGCCATTAGGCCTTATCACATATATATACACTT
1 TCACATACTGGCCATTAGGCCTTATCACATATATATACACTT
*
54021100 TCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTT
1 T--CA--CAT-AC--TGGCCATTAGGCCTTATCACATATATATACACTT
54021149 TCACAT
1 TCACAT
54021155 TTATGCAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
40 1 0.02
42 2 0.04
44 3 0.07
45 3 0.07
46 1 0.02
47 2 0.04
49 33 0.73
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (42 bp):
TCACATACTGGCCATTAGGCCTTATCACATATATATACACTT
Found at i:54023586 original size:43 final size:43
Alignment explanation
Indices: 54023493--54023596 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 43
54023483 AGATGTGTTT
* * * *
54023493 ACATGTAAGACCATGTCTGGGACATTAGCATCGTTATATGATT
1 ACATGTAAGACCATATCTGGGACAGTAGCATCGATATATGATA
* * * * * *
54023536 TCGTGTAAGACCTTATCTGGGATAGTAGCATTGATATGTGATA
1 ACATGTAAGACCATATCTGGGACAGTAGCATCGATATATGATA
*
54023579 ACATGTAAGACCAAATCT
1 ACATGTAAGACCATATCT
54023597 AGGATATGGC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (43 bp):
ACATGTAAGACCATATCTGGGACAGTAGCATCGATATATGATA
Found at i:54026410 original size:13 final size:13
Alignment explanation
Indices: 54026392--54026416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54026382 TCAACAGGGA
54026392 CACGGCCGTGTGG
1 CACGGCCGTGTGG
54026405 CACGGCCGTGTG
1 CACGGCCGTGTG
54026417 AAGGTCGTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.44, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTGG
Found at i:54028618 original size:30 final size:29
Alignment explanation
Indices: 54028557--54028623 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
54028547 AAAGTCTTTT
* *
54028557 AAATAAAGTAAAAAAGAAACGCAAAAAGAA
1 AAATAAAATAAAAAAGAAACACAAAAAG-A
**
54028587 AAATAAAATAAAAAAGAGAA-ACAAATTGA
1 AAATAAAATAAAAAAGA-AACACAAAAAGA
54028616 AAATAAAA
1 AAATAAAA
54028624 GGACTCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 9 0.28
30 21 0.66
31 2 0.06
ACGTcount: A:0.75, C:0.04, G:0.10, T:0.10
Consensus pattern (29 bp):
AAATAAAATAAAAAAGAAACACAAAAAGA
Found at i:54043699 original size:43 final size:42
Alignment explanation
Indices: 54043606--54043771 Score: 165
Period size: 43 Copynumber: 3.9 Consensus size: 42
54043596 GATTACAGAG
* * *
54043606 ATGTGATTACATGTAAGACCATGTATGGGACATTGGCGTTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* *
54043648 ATTGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * * * *
54043692 ATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCACCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * *
54043735 ATGTGA-TAAATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
54043772 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
41 5 0.05
42 20 0.20
43 75 0.74
44 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:54044577 original size:22 final size:23
Alignment explanation
Indices: 54044523--54044570 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
54044513 GTTATGTAAA
*
54044523 TTTG-ATGATTTTGGCATATTGAT
1 TTTGTATG-TTTTGGCATATGGAT
54044546 TTTGTATGTTTTGGC-TATGGAT
1 TTTGTATGTTTTGGCATATGGAT
54044568 TTT
1 TTT
54044571 AGTTGTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 11 0.48
24 3 0.13
ACGTcount: A:0.17, C:0.04, G:0.23, T:0.56
Consensus pattern (23 bp):
TTTGTATGTTTTGGCATATGGAT
Found at i:54052580 original size:72 final size:72
Alignment explanation
Indices: 54052449--54052629 Score: 197
Period size: 72 Copynumber: 2.5 Consensus size: 72
54052439 TATGGGTCCG
* * ** * *
54052449 GGTGCTGACTTTGTGCATAAACCCATGAGTAACTCGCTGAGCAAGCATATCATGTTAATGTTTTG
1 GGTGCTGACTTTGTGTATAAACCCATGAGTAGCTCAATGAGCAAGCATATCATGATAATGCTTTG
*
54052514 GGGTCCA
66 GGGCCCA
* *
54052521 GGTAG-TGACTCTGTGTATAAACCCATGAGTAGCTCAATGAG-AGGGCAT-TACATGATAATGCT
1 GGT-GCTGACTTTGTGTATAAACCCATGAGTAGCTCAATGAGCA-AGCATAT-CATGATAATGCT
*
54052583 TTGGGGCCCG
63 TTGGGGCCCA
* * *
54052593 GGTGCTGACTTTGTGTACAGACCCGTGAGTAGCTCAA
1 GGTGCTGACTTTGTGTATAAACCCATGAGTAGCTCAA
54052630 ATGCGGGCAT
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
71 3 0.03
72 87 0.96
73 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (72 bp):
GGTGCTGACTTTGTGTATAAACCCATGAGTAGCTCAATGAGCAAGCATATCATGATAATGCTTTG
GGGCCCA
Found at i:54056594 original size:40 final size:40
Alignment explanation
Indices: 54056550--54056629 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
54056540 GATGTCTTGA
54056550 AAGAATATAGTATGATGAGCTCATCTATGCTTACTTGATG
1 AAGAATATAGTATGATGAGCTCATCTATGCTTACTTGATG
54056590 AAGAATATAGTATGATGAGCTCATCTATGCTTACTTGATG
1 AAGAATATAGTATGATGAGCTCATCTATGCTTACTTGATG
54056630 CATATGTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (40 bp):
AAGAATATAGTATGATGAGCTCATCTATGCTTACTTGATG
Found at i:54060182 original size:23 final size:24
Alignment explanation
Indices: 54060138--54060193 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
54060128 TGAGTATTTA
*
54060138 AATGTATAT-ATTTAATTGAATTG
1 AATGTATATGATTTAATTAAATTG
*
54060161 AATGTATATGATTTGA-TAAATTG
1 AATGTATATGATTTAATTAAATTG
54060184 AAT-TAT-TGAT
1 AATGTATATGAT
54060194 CATTAAAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 18 0.60
24 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
AATGTATATGATTTAATTAAATTG
Found at i:54060403 original size:23 final size:22
Alignment explanation
Indices: 54060373--54060475 Score: 77
Period size: 23 Copynumber: 4.5 Consensus size: 22
54060363 AGCTTACTAT
*
54060373 TTTCAGCTCATTGGAGCTTATCG
1 TTTCAGCTCATTAGAGCTTA-CG
*
54060396 TTTCAGCTC-GTATGAGCTTAC-
1 TTTCAGCTCATTA-GAGCTTACG
54060417 TATTCAGCTCGA-TAGAGCTTACCG
1 T-TTCAGCTC-ATTAGAGCTTA-CG
* *
54060441 TTTTAGCTCAATAGAGCTTACTG
1 TTTCAGCTCATTAGAGCTTAC-G
54060464 TTCATCAGCTCA
1 TT--TCAGCTCA
54060476 AAAGGAGCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
21 1 0.02
22 19 0.29
23 38 0.58
24 1 0.02
25 7 0.11
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (22 bp):
TTTCAGCTCATTAGAGCTTACG
Found at i:54060435 original size:45 final size:45
Alignment explanation
Indices: 54060361--54060467 Score: 119
Period size: 45 Copynumber: 2.3 Consensus size: 45
54060351 TTAGCTTCTA
* * *
54060361 AGAGCTTACTATTTTCAGCTCATTGGAGCTTATCGTTTCAGCTC-GT
1 AGAGCTTACTA--TTCAGCTCATTAGAGCTTACCGTTTCAGCTCAAT
*
54060407 ATGAGCTTACTATTCAGCTCGA-TAGAGCTTACCGTTTTAGCTCAAT
1 A-GAGCTTACTATTCAGCTC-ATTAGAGCTTACCGTTTCAGCTCAAT
*
54060453 AGAGCTTACTGTTCA
1 AGAGCTTACTATTCA
54060468 TCAGCTCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
45 39 0.74
46 4 0.08
47 10 0.19
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (45 bp):
AGAGCTTACTATTCAGCTCATTAGAGCTTACCGTTTCAGCTCAAT
Found at i:54060494 original size:26 final size:25
Alignment explanation
Indices: 54060420--54060507 Score: 65
Period size: 23 Copynumber: 3.6 Consensus size: 25
54060410 AGCTTACTAT
* * *
54060420 TCAGCTCGATAGAGCTTACCG-T-T
1 TCAGCTCAAAAGAGCTTACCGATCA
* * * *
54060443 TTAGCTCAATAGAGCTTACTGTTCA
1 TCAGCTCAAAAGAGCTTACCGATCA
54060468 TCAGCTCAAAAGGAGCTTACCGATCA
1 TCAGCTCAAAA-GAGCTTACCGATCA
* *
54060494 T-GGCTGAAAAGAGC
1 TCAGCTCAAAAGAGC
54060508 ATAAATGATA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
23 18 0.35
24 5 0.10
25 16 0.31
26 13 0.25
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (25 bp):
TCAGCTCAAAAGAGCTTACCGATCA
Found at i:54060719 original size:20 final size:19
Alignment explanation
Indices: 54060636--54060720 Score: 71
Period size: 20 Copynumber: 4.3 Consensus size: 19
54060626 AGATATGTGT
* *
54060636 TTATATGGATGAATTACTG
1 TTATACGGATGAACTACTG
*
54060655 TTGATACGGATGAATTACTG
1 TT-ATACGGATGAACTACTG
** * *
54060675 TTATTACTTATGAACTCCTAT
1 TTA-TACGGATGAACTACT-G
54060696 TTATACGGATGAACTACTGG
1 TTATACGGATGAACTACT-G
54060716 TTATA
1 TTATA
54060721 TGAATGAGTT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
19 3 0.06
20 46 0.88
21 3 0.06
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (19 bp):
TTATACGGATGAACTACTG
Found at i:54063503 original size:47 final size:47
Alignment explanation
Indices: 54063425--54064450 Score: 1732
Period size: 47 Copynumber: 21.6 Consensus size: 47
54063415 CCCTTCGGGA
* * * * * *
54063425 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54063472 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54063519 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54063564 CTTATCACATATATATACACTTTAACATTCATCACATCGGCTATTAGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54063613 CATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54063660 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54063707 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54063754 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54063803 CTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54063852 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54063899 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54063946 CTTATCACATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54063993 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54064040 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54064087 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54064134 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54064183 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54064232 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54064279 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54064326 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
54064375 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54064424 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
54064451 TATTCAAATA
Statistics
Matches: 935, Mismatches: 32, Indels: 24
0.94 0.03 0.02
Matches are distributed among these distances:
45 39 0.04
47 579 0.62
49 316 0.34
51 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54064137 original size:380 final size:380
Alignment explanation
Indices: 54063425--54064450 Score: 1808
Period size: 380 Copynumber: 2.7 Consensus size: 380
54063415 CCCTTCGGGA
* * * * * *
54063425 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
54063488 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--ACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * * *
54063551 TCGGCCATTAGGCCTTATCACATATATATACACTTTAACATTCATCACATCGGCTATTAGACCAT
131 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
54063616 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
194 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
*
54063681 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
259 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
*
54063746 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
324 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
*
54063803 CTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
*
54063868 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
54063933 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
54063998 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
196 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
54064063 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
261 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
54064128 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
326 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
* *
54064183 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
*
54064248 ACTTTCACATTCATCACATCGGCGATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
54064313 TCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 TCGGCCATTAGGCCTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
54064378 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
194 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
54064443 TTCACATT
257 TTCACATT
54064451 TATTCAAATA
Statistics
Matches: 620, Mismatches: 20, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
378 10 0.02
379 1 0.00
380 459 0.74
382 84 0.14
384 66 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (380 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
Found at i:54065899 original size:13 final size:13
Alignment explanation
Indices: 54065881--54065905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54065871 TACTAAATTT
54065881 TCATGGATTCAAA
1 TCATGGATTCAAA
54065894 TCATGGATTCAA
1 TCATGGATTCAA
54065906 TATACCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:54068494 original size:40 final size:40
Alignment explanation
Indices: 54068090--54068482 Score: 547
Period size: 40 Copynumber: 9.8 Consensus size: 40
54068080 CGAATACACG
* * * * *
54068090 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
* * * ** * *
54068130 ACACCAGCACAAATGCTCTTCGAGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
* *
54068170 TCACTAGCACGAATGCTCTTCG-GAACTTAGTCTGGATACA
1 TCACTAGCACGAATGCTCTTCGAG-ACTTAGCCCGGATACA
54068210 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
*
54068250 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
* * *
54068290 TCACTAGCACGAATGCTCTTTGAAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
* *
54068330 TCACTAGCACGAATGCTCTTCGAGACTTAGTCCGAATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
*
54068370 TCACTAGCACGAATGCTCTTCGAGACCTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
*
54068410 TCACTAGCACGAATGCTCTTCG-GAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAG-ACTTAGCCCGGATACA
*
54068450 TCACTAGCACGAATGCTCTTCGAGATTTAGCCC
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCC
54068483 AGACATTTCA
Statistics
Matches: 313, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 309 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
Found at i:54070023 original size:47 final size:47
Alignment explanation
Indices: 54069945--54070684 Score: 1246
Period size: 47 Copynumber: 15.6 Consensus size: 47
54069935 CCCTTCGGGA
* * * * * *
54069945 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54069992 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54070039 CTTATCACATGTATACACTTTCACATTCATCACATCGGCTACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070086 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54070133 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070180 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
54070227 CTTATCACATATATACACTTTCACATTCATCACATCCTCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54070274 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATGAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070321 CTTATCACATAAATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54070370 CTTCTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070419 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54070466 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070513 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070560 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070609 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070658 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
54070685 TATTCAAATA
Statistics
Matches: 655, Mismatches: 30, Indels: 16
0.93 0.04 0.02
Matches are distributed among these distances:
47 473 0.72
49 179 0.27
51 3 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54070472 original size:239 final size:236
Alignment explanation
Indices: 54069945--54070684 Score: 1268
Period size: 239 Copynumber: 3.1 Consensus size: 236
54069935 CCCTTCGGGA
* * * * * * * *
54069945 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
54070010 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
54070075 GGCTACTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCA-TAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
54070140 C--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
195 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070180 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
**
54070245 TTTCACATTCATCACATCCTCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
54070310 GGCCATGAGGCCTTATCACATAAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTCT
131 GGCCAT-AGGCCTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
54070375 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
193 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070419 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
54070484 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
54070549 GGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 GGCCA-TAGGCCTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
54070614 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
193 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54070658 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
54070685 TATTCAAATA
Statistics
Matches: 479, Mismatches: 18, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
234 1 0.00
235 136 0.28
237 44 0.09
239 296 0.62
240 1 0.00
241 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (236 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54072116 original size:13 final size:13
Alignment explanation
Indices: 54072098--54072122 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54072088 TACTAAATTT
54072098 TCATGGATTCAAA
1 TCATGGATTCAAA
54072111 TCATGGATTCAA
1 TCATGGATTCAA
54072123 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:54079016 original size:30 final size:29
Alignment explanation
Indices: 54078947--54079017 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
54078937 CTGACAATAG
* * *
54078947 AGTGCCTAATAATTGTAACACTGGTACAA
1 AGTGCCTGATAATTGTAACAATGGCACAA
* *
54078976 AGTACCTGATAATTGTAATCAATGGCACAT
1 AGTGCCTGATAATTGTAA-CAATGGCACAA
54079006 AGTGCCTGATAA
1 AGTGCCTGATAA
54079018 GCCCTATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 16 0.46
30 19 0.54
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (29 bp):
AGTGCCTGATAATTGTAACAATGGCACAA
Found at i:54085475 original size:28 final size:27
Alignment explanation
Indices: 54085418--54085569 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
54085408 TAAATTGTGC
* *
54085418 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
54085445 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
54085473 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
54085500 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
54085528 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
54085555 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54085570 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:54085483 original size:55 final size:55
Alignment explanation
Indices: 54085418--54085569 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
54085408 TAAATTGTGC
* *
54085418 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
54085473 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
54085528 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
54085570 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:54094085 original size:27 final size:27
Alignment explanation
Indices: 54094026--54094177 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
54094016 TAAATTGTAC
*
54094026 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
54094054 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
54094081 TGCACTAAGTGTGCGAATTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
54094108 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
54094136 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
54094163 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54094178 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 70 0.61
28 44 0.39
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:54094092 original size:55 final size:55
Alignment explanation
Indices: 54094026--54094177 Score: 225
Period size: 55 Copynumber: 2.8 Consensus size: 55
54094016 TAAATTGTAC
54094026 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * * *
54094081 TGCACTAAGTGTGCGAATTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
54094136 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
54094178 GACTTAATAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 23 0.27
55 63 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:54094140 original size:82 final size:82
Alignment explanation
Indices: 54094026--54094177 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
54094016 TAAATTGTAC
* *
54094026 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
54094091 GTGCGAATTGATTATGT
66 GTGCGAATTGATTATGT
* * * *
54094108 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
54094173 GTGCG
66 GTGCG
54094178 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGATTATGT
Found at i:54096706 original size:28 final size:27
Alignment explanation
Indices: 54096649--54096800 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
54096639 TAAATTGTGC
* *
54096649 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
54096676 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
54096704 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
54096731 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
54096759 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
54096786 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54096801 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:54096714 original size:55 final size:55
Alignment explanation
Indices: 54096649--54096800 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
54096639 TAAATTGTGC
* *
54096649 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
54096704 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
54096759 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
54096801 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:54099846 original size:13 final size:13
Alignment explanation
Indices: 54099828--54099852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54099818 GAAGAAATTG
54099828 AAGTCACACGACA
1 AAGTCACACGACA
54099841 AAGTCACACGAC
1 AAGTCACACGAC
54099853 CGTGTGCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.32, G:0.16, T:0.08
Consensus pattern (13 bp):
AAGTCACACGACA
Found at i:54101658 original size:30 final size:30
Alignment explanation
Indices: 54101604--54101686 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
54101594 TCAGTCTCAA
*
54101604 CATAT-ACTGGGCCGAAGGCTTTTCATTATT
1 CATATCACTGGGCCGAA-GCCTTTCATTATT
54101634 CATATCACTGGGCCGAAGCCTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTCATTATT
54101664 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
54101687 ATTGTAAACG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 40 0.78
31 11 0.22
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (30 bp):
CATATCACTGGGCCGAAGCCTTTCATTATT
Found at i:54101931 original size:25 final size:25
Alignment explanation
Indices: 54101903--54101973 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
54101893 CTCTTTTAGT
54101903 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
54101928 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
54101953 AACTGGGGCAAAGCCCTTTTT
1 AACTGGGGCAAAGCCCTTTTT
54101974 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:54102036 original size:10 final size:10
Alignment explanation
Indices: 54102021--54102057 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
54102011 ATATGAACAC
54102021 ATCATGGCAT
1 ATCATGGCAT
54102031 ATCATGTGCAT
1 ATCATG-GCAT
54102042 ATCATGGCAT
1 ATCATGGCAT
54102052 ATCATG
1 ATCATG
54102058 TACAAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (10 bp):
ATCATGGCAT
Found at i:54105260 original size:40 final size:40
Alignment explanation
Indices: 54105029--54105289 Score: 335
Period size: 39 Copynumber: 6.7 Consensus size: 40
54105019 TTGAATGATG
*
54105029 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
54105067 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
54105107 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
54105146 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
54105185 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
54105224 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
54105265 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54105290 AACGAGGAGC
Statistics
Matches: 204, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
38 18 0.09
39 116 0.57
40 67 0.33
41 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:54110228 original size:27 final size:27
Alignment explanation
Indices: 54110198--54110349 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
54110188 ATATTAAGTC
* * *
54110198 CGCACACTCAGTTCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
54110225 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
54110253 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
54110280 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
54110307 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
54110335 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54110350 GTACAATTTA
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 69 0.61
28 45 0.39
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:54110283 original size:55 final size:54
Alignment explanation
Indices: 54110198--54110349 Score: 223
Period size: 55 Copynumber: 2.8 Consensus size: 54
54110188 ATATTAAGTC
* * *
54110198 CGCACACTCAGTTCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
54110253 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
54110307 CGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
54110350 GTACAATTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 25 0.29
55 62 0.71
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:54116287 original size:25 final size:25
Alignment explanation
Indices: 54116259--54116327 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
54116249 CTCTTTTAAT
* * *
54116259 AACTGGGGCAAAACCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
54116284 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
54116309 AACTCGGGCAAAGCCCTTT
1 AACTAGGGCAAAGCCCTTT
54116328 CTCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:54116387 original size:10 final size:10
Alignment explanation
Indices: 54116374--54116413 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
54116364 CATATATGAA
54116374 CATATCATGG
1 CATATCATGG
54116384 CATATCATGTG
1 CATATCATG-G
*
54116395 CACATCATGG
1 CATATCATGG
54116405 CATATCATG
1 CATATCATG
54116414 TACAAAACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (10 bp):
CATATCATGG
Found at i:54117214 original size:45 final size:45
Alignment explanation
Indices: 54117145--54117239 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
54117135 TACTTACTCA
*
54117145 ACTTTACAACCCTACACATGCCATAGACTCGAAACACTAAGATTT
1 ACTTAACAACCCTACACATGCCATAGACTCGAAACACTAAGATTT
*
54117190 ACTTAACAACCCTATACATGCCATAGACTCGAAACACTAAGATTT
1 ACTTAACAACCCTACACATGCCATAGACTCGAAACACTAAGATTT
54117235 ACTTA
1 ACTTA
54117240 CGCCGATAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.25
Consensus pattern (45 bp):
ACTTAACAACCCTACACATGCCATAGACTCGAAACACTAAGATTT
Found at i:54123640 original size:57 final size:57
Alignment explanation
Indices: 54123581--54123936 Score: 570
Period size: 57 Copynumber: 6.2 Consensus size: 57
54123571 TCTCATTTCA
* * * *
54123581 CACACTCAGTGCCTCAACAACCGATCTCGCACACACAATGCTCGGTTACGAAAATCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* *
54123638 CACACACAGTGCCTCAACAACTGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* * *
54123695 TACACACAGTGCCTCAACAACTGATCTCGTACACACAGTGCTCGGTTAC-AGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGA-AACTCG
*
54123752 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
54123809 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* * *
54123866 CACACACAGTGCCTCAACAACTGATCTCGCACACACAGTGCTCGGTTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
*
54123923 CACACATAGTGCCT
1 CACACACAGTGCCT
54123937 ACGTTCACTT
Statistics
Matches: 279, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
57 279 1.00
ACGTcount: A:0.30, C:0.35, G:0.17, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
Found at i:54124548 original size:45 final size:45
Alignment explanation
Indices: 54124475--54124569 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
54124465 TACTTACTCA
* * *
54124475 ACTTTACAACCCTACACATGCCATAGACTCGAAAGACTAAGATTT
1 ACTTAACAACCCTACACATGCCAAAGACTCGAAACACTAAGATTT
*
54124520 ACTTAACAACCCTATACATGCCAAAGACTCGAAACACTAAGATTT
1 ACTTAACAACCCTACACATGCCAAAGACTCGAAACACTAAGATTT
54124565 ACTTA
1 ACTTA
54124570 CGCCGATAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.24
Consensus pattern (45 bp):
ACTTAACAACCCTACACATGCCAAAGACTCGAAACACTAAGATTT
Found at i:54135460 original size:14 final size:13
Alignment explanation
Indices: 54135437--54135468 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
54135427 GGGATATCAA
54135437 AACAATAATTAAG
1 AACAATAATTAAG
54135450 AACACATAATTAAG
1 AACA-ATAATTAAG
54135464 AACAA
1 AACAA
54135469 GTCACATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:54145592 original size:42 final size:42
Alignment explanation
Indices: 54145545--54145662 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 42
54145535 CGAGATTCCC
54145545 TATAAGACCATTTCTGGGATATGGCATCGATAT-ATAATTT-A
1 TATAAGACCATTTCTGGGATATGGCATCGATATGAT-ATTTCA
* * *
54145586 GTATAAGAGCATGTT-AGGGACATGGCATCGATATGATATTTCA
1 -TATAAGACCAT-TTCTGGGATATGGCATCGATATGATATTTCA
* * * *
54145629 TGTAAGACCATATCTAGGATATGGCATTGATATG
1 TATAAGACCATTTCTGGGATATGGCATCGATATG
54145663 GTACTATGGG
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
41 1 0.02
42 56 0.90
43 5 0.08
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (42 bp):
TATAAGACCATTTCTGGGATATGGCATCGATATGATATTTCA
Found at i:54148222 original size:30 final size:30
Alignment explanation
Indices: 54148188--54148248 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
54148178 TTCCCGATCC
54148188 TAGGGGCAAAAGTGTAAATTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATTTGCAAAAGTT
* * *
54148218 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATTTGCAAAAGTT
54148248 T
1 T
54148249 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATTTGCAAAAGTT
Found at i:54156312 original size:48 final size:48
Alignment explanation
Indices: 54156254--54156753 Score: 642
Period size: 48 Copynumber: 10.6 Consensus size: 48
54156244 TAATGACATA
*
54156254 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * *
54156302 TAAGATCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * *
54156350 TAAGACCATGTTTGGGACATGGCATTGGCATCAATATGTGATCCCGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * *
54156398 TAAGACCATATATGGGACATGGTATTGGCATCGATATGTGATCCCGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
*
54156446 TAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTGATCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* *
54156494 TAAGACCATGTCTGGGACATGGCATTGGAATCGATATGTAATCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * **
54156542 TAAGACCATGTTTGGGACATGGCACTATCATCG--A--T-AT--CATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * * *
54156583 TAAGACCATGTCTAGGACATGGTATTGCCACCGATATGTGATCCCGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
*
54156631 TAAGACCATATCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * **
54156679 TAAGACCATATC-GAAGATATGAG-ATTGGCATCGATATGTGATTTCATG
1 TAAGACCATGTCTG-GGACATG-GCATTGGCATCGATATGTGATCCCATG
54156727 TAAGACCATGTCCT-GGACATGGCATTG
1 TAAGACCATGT-CTGGGACATGGCATTG
54156754 ATATGAGACT
Statistics
Matches: 396, Mismatches: 44, Indels: 24
0.85 0.09 0.05
Matches are distributed among these distances:
41 30 0.08
43 3 0.01
44 1 0.00
45 1 0.00
46 3 0.01
47 2 0.01
48 354 0.89
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
Found at i:54156618 original size:41 final size:41
Alignment explanation
Indices: 54156538--54156619 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
54156528 TATGTAATCC
* * * *
54156538 CATGTAAGACCATGTTTGGGACATGGCACTATCATCGATAT
1 CATGTAAGACCATGTCTAGGACATGGCACTACCACCGATAT
* * *
54156579 CATGTAAGACCATGTCTAGGACATGGTATTGCCACCGATAT
1 CATGTAAGACCATGTCTAGGACATGGCACTACCACCGATAT
54156620 GTGATCCCGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
CATGTAAGACCATGTCTAGGACATGGCACTACCACCGATAT
Found at i:54156771 original size:42 final size:42
Alignment explanation
Indices: 54156704--54156794 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
54156694 GATATGAGAT
* *
54156704 TGGCATCGATATGTGATTTCATGTAAGACCAT-GTCCTGGAC-A
1 TGGCATCGATATGAGACTTCATGTAAGACCATAGT--TGGACAA
* *
54156746 TGGCATTGATATGAGACTTCGTGTAAGACCATAGTTGGACAA
1 TGGCATCGATATGAGACTTCATGTAAGACCATAGTTGGACAA
54156788 TGGCATC
1 TGGCATC
54156795 AAGTAAACGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 5 0.12
42 35 0.83
43 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
TGGCATCGATATGAGACTTCATGTAAGACCATAGTTGGACAA
Found at i:54162760 original size:40 final size:40
Alignment explanation
Indices: 54162730--54162917 Score: 288
Period size: 40 Copynumber: 4.7 Consensus size: 40
54162720 GCTACTTGCT
54162730 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
54162770 GAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
54162810 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*** * **
54162850 CAAATGCCTTCGGG-CTTAGCCCGAAAATAGTCACAAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
54162889 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
54162918 CATCCGAAAA
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.25
40 100 0.75
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:54170846 original size:40 final size:40
Alignment explanation
Indices: 54170802--54170948 Score: 208
Period size: 40 Copynumber: 3.7 Consensus size: 40
54170792 GCTACTTGCT
54170802 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
54170842 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * **
54170882 CAAATGCCTTCGTG-CTTAGCCCGG-AATTAGTCACAAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
**
54170921 CAAATGCCTTAAGGACTTAGCCCGGTTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA
54170949 CCATCCGAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 30 0.32
40 63 0.66
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:54170901 original size:79 final size:80
Alignment explanation
Indices: 54170802--54170948 Score: 208
Period size: 79 Copynumber: 1.9 Consensus size: 80
54170792 GCTACTTGCT
* ** **
54170802 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACAAGCACAAATGCCTTAAGGACTTAGCCCG
54170866 GTTATAGTAACTCGCA
65 GTTATAGTAACTCGCA
* *
54170882 CAAATGCCTTCGTG-CTTAGCCCGGAATTAGTCACAAGCACAAATGCCTTAAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACAAGCACAAATGCCTTAAGGACTTAGCCCGG
54170946 TTA
66 TTA
54170949 CCATCCGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
79 45 0.76
80 14 0.24
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACAAGCACAAATGCCTTAAGGACTTAGCCCGG
TTATAGTAACTCGCA
Found at i:54174515 original size:29 final size:29
Alignment explanation
Indices: 54174482--54174583 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
54174472 TGAATATGAC
*
54174482 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
54174511 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
54174540 TGGGCCTAATAGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
54174568 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
54174584 GATATAGGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 15 0.24
29 48 0.76
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:54174555 original size:58 final size:57
Alignment explanation
Indices: 54174482--54174592 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
54174472 TGAATATGAC
* * *
54174482 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACAGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
54174540 TGGGCCTAATAGGCCATATGAATATGATTGGGCTTAATGGGCCAGATATAGGT
1 TGGGCCTAACAGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGT
54174593 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 23 0.50
58 23 0.50
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACAGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:54179003 original size:28 final size:29
Alignment explanation
Indices: 54178891--54179003 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 29
54178881 GTGAGCATGA
*
54178891 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAACGGGCC
* *
54178919 TTATAAATGTGATTTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAACGGGCC
*
54178948 ATAT-ACAGGTGATTTGGGCCTAACGGGCC
1 ATATGA-ATGTGATTTGGGCCTAACGGGCC
* * *
54178977 ATATGAATATGA-TTGGGCTTAATGGGC
1 ATATGAATGTGATTTGGGCCTAACGGGC
54179004 TAGATATAGG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.33
29 48 0.66
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAACGGGCC
Found at i:54180745 original size:29 final size:29
Alignment explanation
Indices: 54180682--54180787 Score: 126
Period size: 29 Copynumber: 3.7 Consensus size: 29
54180672 TTCACATACT
* ** *
54180682 TGTATCTGGCCCATTAAACCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
54180710 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
54180739 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
54180768 TTTATATGGCCCGTTAGGCC
1 TGTATATGGCCCATTAGGCC
54180788 TAGTCACATT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 16 0.24
29 49 0.73
30 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:54183902 original size:29 final size:29
Alignment explanation
Indices: 54183830--54183934 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
54183820 TTCACATACT
* * *
54183830 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
54183858 T-TCA-ATGGCCCATTAGGCCCAAATCACCA
1 TGT-ATATGGCCCATTAGGCCCAAATCA-CA
*
54183887 -GTATATGGCCCCTTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
54183915 TTTATATGGCCCGTTAGGCC
1 TGTATATGGCCCATTAGGCC
54183935 TAGTCACATT
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
27 15 0.23
28 10 0.15
29 40 0.62
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:54191449 original size:15 final size:15
Alignment explanation
Indices: 54191429--54191466 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
54191419 GCTAAGTTTT
*
54191429 TATGTTTGATTTCAG
1 TATGTTTGATTTCAA
54191444 TATGTTTGATTTCAA
1 TATGTTTGATTTCAA
54191459 TATGTTTG
1 TATGTTTG
54191467 CTTATGATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.18, T:0.55
Consensus pattern (15 bp):
TATGTTTGATTTCAA
Found at i:54201083 original size:11 final size:10
Alignment explanation
Indices: 54201039--54201096 Score: 59
Period size: 9 Copynumber: 5.9 Consensus size: 10
54201029 TTTTGATAAA
*
54201039 CATGGTATG-
1 CATGATATGT
54201048 CATGATATGT
1 CATGATATGT
*
54201058 ACATGACATGT
1 -CATGATATGT
54201069 -ATGATATGCT
1 CATGATATG-T
54201079 CATGATATGT
1 CATGATATGT
54201089 -ATGATATG
1 CATGATATG
54201097 CACATGATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 23 0.55
10 2 0.05
11 17 0.40
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (10 bp):
CATGATATGT
Found at i:54201104 original size:20 final size:20
Alignment explanation
Indices: 54201038--54201104 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
54201028 ATTTTGATAA
* * *
54201038 ACATGGTATGCATGATATGT
1 ACATGATATGTATGATATGC
*
54201058 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
54201078 TCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
54201098 ACATGAT
1 ACATGAT
54201105 GTATTCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:54201210 original size:24 final size:23
Alignment explanation
Indices: 54201154--54201300 Score: 195
Period size: 24 Copynumber: 6.2 Consensus size: 23
54201144 GAGGAAGTGA
*
54201154 AAAAGGGGTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
54201177 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
54201200 CAAAAGGGCTTATGCCCCAGTTCT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
54201224 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
54201248 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
54201271 AAAAAGGGCTTTTGCCCTAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
54201296 AAAAG
1 AAAAG
54201301 AGGCAAGGCC
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
23 42 0.38
24 67 0.61
25 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:54201253 original size:47 final size:46
Alignment explanation
Indices: 54201155--54201298 Score: 198
Period size: 47 Copynumber: 3.1 Consensus size: 46
54201145 AGGAAGTGAA
* * *
54201155 AAAGGGGTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
* *
54201202 AAAGGGCTTATGCCCCAGTTCTCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* *
54201249 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
54201296 AAA
1 AAA
54201299 AGAGGCAAGG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 65 0.76
48 21 0.24
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:54201270 original size:71 final size:71
Alignment explanation
Indices: 54201154--54201292 Score: 233
Period size: 71 Copynumber: 2.0 Consensus size: 71
54201144 GAGGAAGTGA
* * *
54201154 AAAAGGGGTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
54201219 GTTCTC
66 GTTCTC
* *
54201225 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCTA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
54201290 GTT
66 GTT
54201293 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTCTC
Found at i:54208346 original size:20 final size:20
Alignment explanation
Indices: 54208286--54208346 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
54208276 ATAAACATTG
54208286 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
* *
54208306 CATGTATGATATGCCCATGA
1 TATGTATGATATGCACATGA
54208326 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
54208346 T
1 T
54208347 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:54208431 original size:23 final size:24
Alignment explanation
Indices: 54208396--54208535 Score: 178
Period size: 24 Copynumber: 6.0 Consensus size: 24
54208386 GAGGAAGTGA
54208396 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
54208419 TAAACGGCTTATG-CCCACTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
54208442 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
54208466 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
** * *
54208489 TTAAGGGTTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
*
54208513 AAAAGGGCTTTTGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
54208536 TAATAGAGGC
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.08
23 41 0.41
24 50 0.51
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:54208440 original size:22 final size:23
Alignment explanation
Indices: 54208396--54208481 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
54208386 GAGGAAGTGA
* *
54208396 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAACGGCTTATG-CCCACTTATC
*
54208419 TAAACGGCTTATGCCCACTTATC
1 AAAACGGCTTATGCCCACTTATC
* *
54208442 AAAAGGGCTTATGCCCCAGTTATC
1 AAAACGGCTTATG-CCCACTTATC
* *
54208466 AAAAGGGCTTACGCCC
1 AAAACGGCTTATGCCC
54208482 CAGTTATTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
22 8 0.15
23 25 0.46
24 21 0.39
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (23 bp):
AAAACGGCTTATGCCCACTTATC
Found at i:54208501 original size:47 final size:46
Alignment explanation
Indices: 54208397--54208538 Score: 178
Period size: 47 Copynumber: 3.0 Consensus size: 46
54208387 AGGAAGTGAA
* * * *
54208397 AAAGGGCTTATGCCCCAGTTATTAAACGGCTTATG-CCCACTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
*
54208443 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* * *
54208490 TAAGGGTTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
54208537 AA
1 AA
54208539 TAGAGGCAAG
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
46 22 0.27
47 53 0.64
48 8 0.10
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:54208817 original size:31 final size:30
Alignment explanation
Indices: 54208754--54208817 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
54208744 CGTTTACAGT
*
54208754 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATA-GAAATATGA
54208785 AAAGGCTTCGGCCCAGTGTAATA-AAATATGA
1 AAAGGCTTCGGCCCA--GTAATAGAAATATGA
54208816 AA
1 AA
54208818 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 24 0.80
33 6 0.20
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATAGAAATATGA
Found at i:54214444 original size:29 final size:30
Alignment explanation
Indices: 54214411--54214471 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
54214401 GTCCTTAACT
*
54214411 TAAAC-TTTGGAAAATTACAATTTTGCCCC
1 TAAACTTTTGCAAAATTACAATTTTGCCCC
* * *
54214440 TAAACTTTTGCATATTTACACTTTTGCCCC
1 TAAACTTTTGCAAAATTACAATTTTGCCCC
54214470 TA
1 TA
54214472 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
TAAACTTTTGCAAAATTACAATTTTGCCCC
Found at i:54218405 original size:30 final size:30
Alignment explanation
Indices: 54218371--54218431 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
54218361 TCCTTAACTC
54218371 AAACTTTGGCAAAATTACAAATTTGCCCCT
1 AAACTTTGGCAAAATTACAAATTTGCCCCT
* * * **
54218401 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAAATTTGCCCCT
54218431 A
1 A
54218432 GCTCGGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAAATTTGCCCCT
Found at i:54219608 original size:10 final size:10
Alignment explanation
Indices: 54219595--54219628 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
54219585 AGCCATATAA
54219595 ATTGGCTTAT
1 ATTGGCTTAT
54219605 ATTGGCTTAT
1 ATTGGCTTAT
54219615 ATTGGCTTAT
1 ATTGGCTTAT
54219625 ATTG
1 ATTG
54219629 ATATTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.21, T:0.50
Consensus pattern (10 bp):
ATTGGCTTAT
Found at i:54221316 original size:48 final size:48
Alignment explanation
Indices: 54221261--54227237 Score: 3406
Period size: 48 Copynumber: 124.9 Consensus size: 48
54221251 ATCGTAATGA
* *
54221261 CATGTAAGACCATGTTTGGGACATGACATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
*
54221309 CATGTAAGACTC-TGTCTCGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGAC-CATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54221357 CATGTAAGACCATGTCTAGGACATGGCAATGGCATCGATATGTGTTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54221405 CATATAAGACCATGTCTGGGACATGGCATTAGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54221453 CATGTAAGACCATGTCTAGTACATGGCATTAGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54221501 CGTGTAAGACCATGTCTGGGACATGACATTGGCATCGATATGTTATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * ** * * *
54221549 CCTGTAAAACCATGTCAAGGATATGGCATTAGCATCGAAATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *** *
54221597 CATGTAAGACCATATCTGGGACATTGCATTCAAATCGATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54221645 CATGTAAGGCCATGTCTGAGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54221693 CATGTAA-ATCCATGTTTGGGAAATGGCAGTGGCATCGATATGT--T--
1 CATGTAAGA-CCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * ** * * * **
54221737 C-TG--GGA-TATGGCATTAG-CATTG-ATAT---AT-TATTTCGTGTAAGAC
1 CATGTAAGACCATGTC-TGGGACATGGCAT-TGGCATCGATAT-GTG--ATCC
*
54221780 CATGT---C-------TGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* **
54221818 CTTGTAAGAAAATGTCTGGGACATGG-ATTTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCA-TTGGCATCGATATGTGATCC
54221866 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54221914 CGTGTAAGACCATGTCTGGGACATGGGATTGGCATCGTTATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** *
54221962 TGTGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54222010 CATGTTATACCATGTCTGCGACATGACATTGGCATCAATATGTGATTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54222058 CGTGTAACACCATGTCTGGGACATGGCATTGGCATCAATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * ** * *
54222106 CATGTAAGACCGTGTTTGGGGA-ATGAAATTGGCATTGATTTGTGATCC
1 CATGTAAGACCATGTCT-GGGACATGGCATTGGCATCGATATGTGATCC
* *
54222154 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATGTGTTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * ** **
54222202 CAAGTATGACAATGTTTGGGAAATGGCATTGGCATCGATACATGATTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54222250 CGTGTAAGACAATGTCTGGG--A---CA-TGGCATCG-TA-ATGA---
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
*
54222287 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTTATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *** * *
54222335 CCTGTAAGATCATGTCAATGATATGGCATTAGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54222383 CATGAAAGACCATGTCTAGGACATGGCATTCGAATCGATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54222431 CATGTAAGACCATGTCTGAGACATGGCATTGGCAGCCATATGTGATCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * * ** **
54222479 TAAGTAAAACCATGTTTGGGAAATGGGAGTGGCATCGATATGTTTTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * ** * * * **
54222527 GA--TATG-GCATTAGTAT-CGATATGTTATT-TCATGTAAGACCATGTCGGGGACATGG
1 CATGTAAGACCA-T-GTCTGGGACATGGCATTGGCA--T-CGA-TATGT----G--ATCC
* ** * * *
54222582 CATCGTATTGA-CATG--TAAGACCATGTC-TAGGACATGGCAT-TG-GCATCC
1 CAT-GTA-AGACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATCC
* * * *
54222630 CTTGTAACACCATGTCTGGGACATGGAATTGGCATCGAGATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
*
54222678 CATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54222726 CGTGTAAGACCATGTCTGGGACATGGCATTGGCTTCG-T-TG-CATTGGC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGA-T-CC
** * *
54222773 TTTGTTATGTGATCCTGTGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATG-TA--AGA-CC-ATGT-----C-----TGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54222836 CATGTTATACCATGTCTGCGACATGACATTGGCATCAATATGTGATTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54222884 CGTGTAACACCATGTCTGGGACATGGCATTGGCATCAATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * ** * *
54222932 CATGTAAGACCGTGTTTGGGGA-ATGAAATTGGCATTGATTTGTGATCC
1 CATGTAAGACCATGTCT-GGGACATGGCATTGGCATCGATATGTGATCC
* *
54222980 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATGTGTTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * ** **
54223028 CAAGTATGACAATGTTTGGGAAATGGCATTGGCATCGATACATGATTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54223076 CGTGTAAGACAATGTCTGGG--A---CA-TGGCATCG-TA-ATGA---
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54223113 CATGTAAGACCATGTCTGGGACACGGCATTGGCATCGATATGTTATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *** * *
54223161 CCTGTAAGATCATGTCAATGATATGGCATTAGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54223209 CATGAAAGACCATGTCTAGGACATGGCATTCGAATCGATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54223257 CATGTAAGACCATGTCTGAGACATGGCATTGGCAGTC-ATATGTGATCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCGATATGTGATCC
* * * * * * ** **
54223305 TAAGTAAAACCATGTCTGGGAAATGGGAGTGGCATCGATATGTTTTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * ** * * * **
54223353 GA--TATG-GCATTAGTAT-CGATATGTTATT-TCATGTAAGACCATGTCGGGGACATGG
1 CATGTAAGACCA-T-GTCTGGGACATGGCATTGGCA--T-CGA-TATGT----G--ATCC
* ** * * *
54223408 CATCGTATTGA-CATG--TAAGACCATGTC-TAGGACATGGCAT-TG-GCATCC
1 CAT-GTA-AGACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATCC
* * * *
54223456 CTTGTAACACCATGTCTGGGACATGGAATTGGCATCGAGATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
*
54223504 CATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54223552 CGTGTAAGACCATGTCTGGGACATGGCATTGGCTTCG-T-TG-CATTGGC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGA-T-CC
** * * * *
54223599 TTTGTTATGTGATCCTGTGTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATGTGATCT
1 CATG-TA--AGA-CC-ATGT-----C-----TGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54223662 CATGTTAGACCATGTCTGCGACATGGCTTTTGCATCAATATGTGATTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** *
54223710 TGTTTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* **
54223758 CTTGTAAGAAAATGTCTGGGACATGG-ATTTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCA-TTGGCATCGATATGTGATCC
*
54223806 CATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54223854 CATGTAAGACCATGTCTGGGACATGGGATTGGCATCGTTATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** *
54223902 TGTGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54223950 CATGTTATACCATGTCTGCGACATGGCATTGGCATCAATATGTGATTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** * * *
54223998 TGTGTAACACCATGTCTGGGACATGGCATTGGCATCAATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** * * ** * *
54224046 CATGTAAGACTGTGTTTGGGGCATGAAATTGGCATTGATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54224094 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATGTGTTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * ** **
54224142 CAAGTATGACAATATTTGGGAAATGGCATTGGCATCGATACATGATTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54224190 CGTGTAAGACAATGTCTGGG--A---CA-TGGCATCG-TA-ATGA---
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54224227 CATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGTTATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *** ** *
54224275 CCTGTAAGATCATGTCAATGATGTGGCATTAGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54224323 CATGAAAGACCATGTCTAGGACATGGCATTCGAATCGATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54224371 CATGTAAGACCATGTCTGGGACATGACATTGGCAGCCATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * ** **
54224419 TAAGTAAAACCATGTCTGGGAAATGGGAGTGGCATCGATATGTTTTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * ** * ** * * **
54224467 GA--TATG-GCATTAGTAT-CGATATGTTATTTCGTTTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCA-T-GTCTGGGACATGGCA-TTGGCAT-CGA-TATG--T--G--ATCC
* ** * * *
54224522 CATCGTATTGA-CATG--TAAGACCATGTC-TAGGACATGGCAT-TG-GCATCC
1 CAT-GTA-AGACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATCC
* * * *
54224570 CTTGTAACACCATGTCTGGGACATGGAATTGGCATCGATATGTGATGC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54224618 CATATAAGACCATGTATGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * **
54224666 CGTGTAAGACCATGTCTGGGACATGGCATTGGCTTCGTTGCATTGGCTTTGTTATGT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT--A-T-G---TG--ATCC
* * * * *
54224723 GATCCTATGTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATGTGATCT
1 CAT-GTA--A--GACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54224776 CATGTTAGACCATGTCTGCGACATGGCTTTCGCATCAATATGTGATTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** * *
54224824 TGTTTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** * * * * * * * **
54224872 CAACTATGACAATGTTTTGGAAATGACATTGGCATCGATATATGATTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54224920 CGTGTAAGACCATGTCTAGGACAT--C----GCATCG-TACTG-G----
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA-TGTGATCC
*
54224957 CATGTAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54225005 CATGTAAGACTATGTCTGGGACATGGCATTGGCATCGATATGTGATCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54225053 CGTGTAAGACCATTTTTGGGACATGGCATTGGCATCGATATGT-ATTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGA-TCC
* * * *
54225101 CGTATAAGACCATGTCTGAGACATGGCATTAGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * ** *
54225149 CGTGTAAGACCATGTCTAGTACATGGCATTATCATCGATATGTGATCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54225197 CGTGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATGTTAGCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * ** * * *
54225245 CTTATAAGACCATGTCAAGGATATGGCATTAGCATCGATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54225293 CATGTAACACCATATCTGGGACATGTCATTCGAATCGATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54225341 CATGTAAGACCATGTCTGAGATATGGCATTGGCATCTATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54225389 CATGTAAAACCATGTCTGGGAAATGGGAATGGCATCGATATGT--T--
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * ** * ** * **
54225433 C-TG--AGA-TATGGCATTAG-CATCG-ATATGTTATTTCG---TGTAAGGC
1 CATGTAAGACCATGTC-TGGGACATGGCAT-TGGCA--TCGATATGTGATCC
* *
54225476 CATGT---C-------TGGGACATGGCATTGGCATCGAAATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** * *
54225514 TTTGTAAGACCATGTCTGGGATATGGAATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54225562 CATGTAAGACCATGTCTAGGACATGACATTGACATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
*
54225610 CGA-GTAAGACCATGTCTGGGACATGGCATTGGCATCGTTATGTGATCC
1 C-ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** * * *
54225658 TGTGTAAGACCATATGTGGGACATAGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54225706 CATATTAGACCATGTCTGCGACATGGCATTGGCATCAATATGTGATTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54225754 CGTGTAAGACCATGTCCGGGACATGGCATTGGCATCAATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * *
54225802 CATGTAAGACCGTGTTTGGGGCATGGAATTGGCATTGATTTGTGATTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54225850 CATGTAAGACCATGTCTGGGACATGGGATTGACATCGATATGTG-TCCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGAT-CC
* * * * *
54225898 CAAGTATGACAATGTTTGGGAAATGGCATTGGCATCGATA--T-A-CTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC-C
* * * * ** * * * *
54225943 TAGGATATGA-CATTGGCATCGATACAT-G-ATTTCGTGTA-AGACCATGCCTGGGACATGGC
1 CATG-TAAGACCA-TGTC-T-GGGACATGGCA-TT-G-GCATCGA-TATG--T--G--AT-CC
* * *** * * * *
54226002 AACGTAATGA-CATG--TAAAACCATGTC-TAGGACATGGCAT-TG-GAATCGA
1 CATGTAA-GACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATC-C
* * ** * *** * * *
54226050 TATGTTATCCCTTGTAAGACCATGTCAAGGATATGGCATTAGCATTGATATGTGATCC
1 CATGTAAGACCATGT----CTGGG------ACATGGCATTGGCATCGATATGTGATCC
* * * * *
54226108 CATGAAAGACCATGTCTGGGAGATGGCATTTGAATCGATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54226156 CACGTAAGACCATGTTTGAGACATGTCATTGGCATTGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * *
54226204 CATATAAAACCATGTCTGGGAGATGGGATTTGAATCGATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54226252 CATGTAAGACCATGTTTGAGACATGTCATTGGCATTGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54226300 CATGTAAAACCATGTCTGGGAAATAGCAATGGCATCGATATGT--T--
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * ** * ** * **
54226344 C-TGT--GA-TATGGCATTAG-CATTG-ATATGTTATTTCG---TGTAAGAC
1 CATGTAAGACCATGTC-TGGGACATGGCAT-TGGCA--TCGATATGTGATCC
* * ** * * **
54226387 CATGT---C-------TGGGACATGGCATCGTAAT-GACATGTAAGAC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
*
54226424 CATGTCCAAGA-CA-----------TGGCATTGGCATCGATATGTGGTCC
1 CATGT--AAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54226462 CTTGTAAGACCATGTTTGGGACTTGGAATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
*
54226510 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54226558 CGTATAAGACTATGTCTGGGACATGGCATTGGCATCGTTATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** *
54226606 TGTGTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54226654 CATGTTAGACCATGTTTGCGACATGGCATTAGCATCAATATGTGATTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54226702 CGTGTAGGACCATG-CTTGGGACATGGCATTGGAATCAATTTGTGATCC
1 CATGTAAGACCATGTC-TGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54226750 CATGTAAGA-CATTGTTTGGGACATGGAATTGGCATTGATTTGTGATCC
1 CATGTAAGACCA-TGTCTGGGACATGGCATTGGCATCGATATGTGATCC
*
54226798 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * ** * * * **
54226846 CAAGTATGAAAATGTTTGGGAAATGGTATTGGCATCGATATGCTTGGGATATGTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG--T--G--A--TCC
*** * ** *** * * * *
54226902 CATCGATATATGATTTTGTGTAAGACCATGC-CTGGGA-C-AT-GGT-ATCGT
1 CAT-G-TA-A-GACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC-C
* ** ** *
54226950 AATG-ACATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTA-A-G-ACCA-TGT--CTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54227003 CATGTAAGACTATGTTTGGGACATGGCATTGGCGTCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* ** *
54227051 CGTGTAAGATAATGTCTGGGACATGGCATTGGCATCGATATGTGATTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54227099 TATGTAAGACCATATCTGGGAAATTGCATTGGCATTGATTTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
** * * * * *
54227147 TGTGTAAAACCATGTCTAGGACATGGCATTGACATTGATATATGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54227195 CAAGTATGACAATG-CTTGGGAAATGGCATTGGCATTGATATGT
1 CATGTAAGACCATGTC-TGGGACATGGCATTGGCATCGATATGT
54227238 CCTGGGATAT
Statistics
Matches: 4557, Mismatches: 1012, Indels: 720
0.72 0.16 0.11
Matches are distributed among these distances:
34 1 0.00
35 4 0.00
36 13 0.00
37 123 0.03
38 31 0.01
39 13 0.00
40 44 0.01
41 21 0.00
42 44 0.01
43 48 0.01
44 20 0.00
45 26 0.01
46 55 0.01
47 72 0.02
48 3655 0.80
49 64 0.01
50 11 0.00
51 9 0.00
52 12 0.00
53 15 0.00
54 20 0.00
55 30 0.01
56 19 0.00
57 23 0.01
58 41 0.01
59 41 0.01
60 17 0.00
62 70 0.02
63 7 0.00
64 6 0.00
65 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (48 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
Found at i:54221406 original size:96 final size:96
Alignment explanation
Indices: 54221261--54227237 Score: 3782
Period size: 96 Copynumber: 62.4 Consensus size: 96
54221251 ATCGTAATGA
* *
54221261 CATGTAAGACCATGTTTGGGACATGACATTGGCATCGATATGTGATCCCATGTAAGACTC-TGTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGAC-CATGTC
*
54221325 TCGGACATGGCATTGGCATCGATATGTGATCC
65 TGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54221357 CATGTAAGACCATGTCTAGGACATGGCAATGGCATCGATATGTGTTCCCATATAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
*
54221422 GGGACATGGCATTAGCATCGATATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54221453 CATGTAAGACCATGTCTAGTACATGGCATTAGCATCGATATGTGATCCCGTGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* *
54221518 GGGACATGACATTGGCATCGATATGTTATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * ** * * * *
54221549 CCTGTAAAACCATGTCAAGGATATGGCATTAGCATCGAAATGTGATCCCATGTAAGACCATATCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* *** *
54221614 GGGACATTGCATTCAAATCGATTTGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * *
54221645 CATGTAAGGCCATGTCTGAGACATGGCATTGGCATCGATATGTGATCCCATGTAA-ATCCATGTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGA-CCATGTC
* *
54221709 TGGGAAATGGCAGTGGCATCGATATGT--T--
65 TGGGACATGGCATTGGCATCGATATGTGATCC
* * * ** ** * **
54221737 C-TG---G--GA--TAT-GG-CATTAGCATTGATATATTATTTCGTGTAAGACCATGT-----C-
1 CATGTAAGACCATGTCTGGGACA-TGGCATTGGCAT-CGATAT-GTG--ATCCCATGTAAGACCA
54221786 ----TGGGACATGGCATTGGCATCGATATGTGATCC
61 TGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* **
54221818 CTTGTAAGAAAATGTCTGGGACATGG-ATTTGGCATCGATATGTGATCCCATGTAAGACCATGTC
1 CATGTAAGACCATGTCTGGGACATGGCA-TTGGCATCGATATGTGATCCCATGTAAGACCATGTC
54221882 TGGGACATGGCATTGGCATCGATATGTGATCC
65 TGGGACATGGCATTGGCATCGATATGTGATCC
* * * ** *
54221914 CGTGTAAGACCATGTCTGGGACATGGGATTGGCATCGTTATGTGATCCTGTGTAAGACCATGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
54221979 GGGACATGGCATTGGCATCGATATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * * *
54222010 CATGTTATACCATGTCTGCGACATGACATTGGCATCAATATGTGATTCCGTGTAACACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* *
54222075 GGGACATGGCATTGGCATCAATTTGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * ** * *
54222106 CATGTAAGACCGTGTTTGGGGA-ATGAAATTGGCATTGATTTGTGATCCCATGTAAGACCATGTC
1 CATGTAAGACCATGTCT-GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTC
* *
54222170 TGGGACATGGCATTGGCATCTATATGTGTTCC
65 TGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * ** ** * *
54222202 CAAGTATGACAATGTTTGGGAAATGGCATTGGCATCGATACATGATTTCGTGTAAGACAATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
*
54222267 GGG--A---CA-TGGCATCG-TA-ATGA---
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54222287 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTTATCCCCTGTAAGATCATGTCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
** * *
54222352 ATGATATGGCATTAGCATCGATATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54222383 CATGAAAGACCATGTCTAGGACATGGCATTCGAATCGATTTGTGATCCCATGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * *
54222448 GAGACATGGCATTGGCAGCCATATGTGATCT
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * * ** *** * *
54222479 TAAGTAAAACCATGTTTGGGAAATGGGAGTGGCATCGATATGTTTTGGGA--TATG-GCATTAGT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCA-T-GT
* * * ** * * * **
54222541 AT-CGATATGTTATT-TCATGTAAGACCATGTCGGGGACATGG
64 CTGGGACATGGCATTGGCA--T-CGA-TATGT----G--ATCC
* ** * * * * *
54222582 CATCGTATTGA-CATG--TAAGACCATGTC-TAGGACATGGCAT-TG-GCATCCCTTGTAACACC
1 CAT-GTA-AGACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATCCCATGTAAGACC
* *
54222641 ATGTCTGGGACATGGAATTGGCATCGAGATGTGATCC
60 ATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54222678 CATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCGTGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
*
54222743 GGGACATGGCATTGGCTTCGTTGCATTGGCTTTGTTATGTGATCC
66 GGGACATGGCA-----TT-G--GCA-T--C---GATATGTGATCC
** * * *
54222788 TGTGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATGTTATACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * *
54222853 GCGACATGACATTGGCATCAATATGTGATTC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54222884 CGTGTAACACCATGTCTGGGACATGGCATTGGCATCAATTTGTGATCCCATGTAAGACCGTGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
** * *
54222949 GGGGA-ATGAAATTGGCATTGATTTGTGATCC
66 -GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54222980 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATGTGTTCCCAAGTATGACAATGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* ** **
54223045 GGGAAATGGCATTGGCATCGATACATGATTT
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * *
54223076 CGTGTAAGACAATGTCTGGG--A---CA-TGGCATCG-TA-ATGA---CATGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* *
54223130 GGGACACGGCATTGGCATCGATATGTTATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * *** * * *
54223161 CCTGTAAGATCATGTCAATGATATGGCATTAGCATCGATATGTGATCCCATGAAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * *
54223226 AGGACATGGCATTCGAATCGATTTGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* ** * *
54223257 CATGTAAGACCATGTCTGAGACATGGCATTGGCAGTC-ATATGTGATCTTAAGTAAAACCATGTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCGATATGTGATCCCATGTAAGACCATGTC
* * * ** **
54223321 TGGGAAATGGGAGTGGCATCGATATGTTTTGG
65 TGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * ** * * * **
54223353 GA--TATG-GCATTAGTAT-CGATATGTTATT-TCATGTAAGACCATGTCGGGGACATGGCATCG
1 CATGTAAGACCA-T-GTCTGGGACATGGCATTGGCA--T-CGA-TATGT----G--ATCCCAT-G
* ** * * *
54223413 TATTGA-CATG--TAAGACCATGTC-TAGGACATGGCAT-TG-GCATCC
53 TA-AGACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATCC
* * * * *
54223456 CTTGTAACACCATGTCTGGGACATGGAATTGGCATCGAGATGTGATCCCATATAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
54223521 GGGACATGGCATTGGCATCGATATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * **
54223552 CGTGTAAGACCATGTCTGGGACATGGCATTGGCTTCGTTGCATTGGCTTTGTTATGTGATCCTGT
1 CATGTAAGACCATGTCTGGGACATGGCA-----TT-G--GCA-T--C---GATATGTGATCCCAT
* *
54223617 GTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATGTGATCT
52 GTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * ** *
54223662 CATGTTAGACCATGTCTGCGACATGGCTTTTGCATCAATATGTGATTCTGTTTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
54223727 GGGACATGGCATTGGCATCGATATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* **
54223758 CTTGTAAGAAAATGTCTGGGACATGG-ATTTGGCATCGATATGTGATCCCATGTAAGACCATGTC
1 CATGTAAGACCATGTCTGGGACATGGCA-TTGGCATCGATATGTGATCCCATGTAAGACCATGTC
*
54223822 TGGGACATGGCATTGGCATTGATATGTGATCC
65 TGGGACATGGCATTGGCATCGATATGTGATCC
* * ** *
54223854 CATGTAAGACCATGTCTGGGACATGGGATTGGCATCGTTATGTGATCCTGTGTAAGACCATGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
54223919 GGGACATGGCATTGGCATCGATATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * ** *
54223950 CATGTTATACCATGTCTGCGACATGGCATTGGCATCAATATGTGATTCTGTGTAACACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* *
54224015 GGGACATGGCATTGGCATCAATTTGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
** * * ** * *
54224046 CATGTAAGACTGTGTTTGGGGCATGAAATTGGCATTGATTTGTGATCCCATGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* *
54224111 GGGACATGGCATTGGCATCTATATGTGTTCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * ** ** * *
54224142 CAAGTATGACAATATTTGGGAAATGGCATTGGCATCGATACATGATTTCGTGTAAGACAATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
*
54224207 GGG--A---CA-TGGCATCG-TA-ATGA---
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54224227 CATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGTTATCCCCTGTAAGATCATGTCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
** ** *
54224292 ATGATGTGGCATTAGCATCGATATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54224323 CATGAAAGACCATGTCTAGGACATGGCATTCGAATCGATTTGTGATCCCATGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * *
54224388 GGGACATGACATTGGCAGCCATATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * ** *** * *
54224419 TAAGTAAAACCATGTCTGGGAAATGGGAGTGGCATCGATATGTTTTGGGA--TATG-GCATTAGT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCA-T-GT
* * * ** * ** * * **
54224481 AT-CGATATGTTATTTCGTTTAAGACCATGTCTGGGACATGG
64 CTGGGACATGGCA-TTGGCAT-CGA-TATG--T--G--ATCC
* ** * * * * *
54224522 CATCGTATTGA-CATG--TAAGACCATGTC-TAGGACATGGCAT-TG-GCATCCCTTGTAACACC
1 CAT-GTA-AGACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATCCCATGTAAGACC
* *
54224581 ATGTCTGGGACATGGAATTGGCATCGATATGTGATGC
60 ATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
54224618 CATATAAGACCATGTATGGGACATGGCATTGGCATCGATATGTGATCCCGTGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
*
54224683 GGGACATGGCATTGGCTTCGTTGCATTGGCTTTGTTATGTGATCC
66 GGGACATGGCA-----TT-G--GCA-T--C---GATATGTGATCC
* * * *
54224728 TATGTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATGTGATCTCATGTTAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * *
54224793 GCGACATGGCTTTCGCATCAATATGTGATTC
66 GGGACATGGCATTGGCATCGATATGTGATCC
** * * ** * * *
54224824 TGTTTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTTCCCAACTATGACAATGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * **
54224889 TGGAAATGACATTGGCATCGATATATGATTT
66 GGGACATGGCATTGGCATCGATATGTGATCC
* *
54224920 CGTGTAAGACCATGTCTAGGACAT--C----GCATCG-TACTG-G----CATGTAAGACCATGTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA-TGTGATCCCATGTAAGACCATGTC
*
54224973 TGGGACATGACATTGGCATCGATATGTGATCC
65 TGGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54225005 CATGTAAGACTATGTCTGGGACATGGCATTGGCATCGATATGTGATCTCGTGTAAGACCATTTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
54225070 GGGACATGGCATTGGCATCGATATGT-ATTCC
66 GGGACATGGCATTGGCATCGATATGTGA-TCC
* * * * *
54225101 CGTATAAGACCATGTCTGAGACATGGCATTAGCATCGATATGTGATCCCGTGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * ** *
54225166 AGTACATGGCATTATCATCGATATGTGATCT
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * *
54225197 CGTGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATGTTAGCCCTTATAAGACCATGTCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * *
54225262 AGGATATGGCATTAGCATCGATTTGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54225293 CATGTAACACCATATCTGGGACATGTCATTCGAATCGATTTGTGATCCCATGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * *
54225358 GAGATATGGCATTGGCATCTATATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54225389 CATGTAAAACCATGTCTGGGAAATGGGAATGGCATCGATATGT--T--C-TG--AGA-TATGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTC-
** * ** * **
54225446 TTAG-CATCG-ATATGTTATTTCG---TGTAAGGC
65 TGGGACATGGCAT-TGGCA--TCGATATGTGATCC
* **
54225476 CATGT-----C-----TGGGACATGGCATTGGCATCGAAATGTGATCCTTTGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* *
54225531 GGGATATGGAATTGGCATCGATATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * *
54225562 CATGTAAGACCATGTCTAGGACATGACATTGACATCGATATGTGATCCCGA-GTAAGACCATGTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC-ATGTAAGACCATGTC
*
54225626 TGGGACATGGCATTGGCATCGTTATGTGATCC
65 TGGGACATGGCATTGGCATCGATATGTGATCC
** * * * * *
54225658 TGTGTAAGACCATATGTGGGACATAGCATTGGCATCGATATGTGATCCCATATTAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * *
54225723 GCGACATGGCATTGGCATCAATATGTGATTC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54225754 CGTGTAAGACCATGTCCGGGACATGGCATTGGCATCAATTTGTGATCCCATGTAAGACCGTGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * *
54225819 GGGGCATGGAATTGGCATTGATTTGTGATTC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * *
54225850 CATGTAAGACCATGTCTGGGACATGGGATTGACATCGATATGTG-TCCCCAAGTATGACAATGTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGAT-CCCATGTAAGACCATGTC
*
54225914 TGGGAAATGGCATTGGCATCGATA--T-A-CTC
65 TGGGACATGGCATTGGCATCGATATGTGATC-C
* * * * ** * * * * *
54225943 TAGGATATGA-CATTGGCATCGATACAT-G-ATTTCGTGTA-AGACCATGCCTGGGACATGGCAA
1 CATG-TAAGACCA-TGTC-T-GGGACATGGCA-TT-G-GCATCGA-TATG--T--G--AT-CCCA
* *** * * * *
54226004 CGTAATGA-CATG--TAAAACCATGTC-TAGGACATGGCAT-TG-GAATCGA
51 TGTAA-GACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATC-C
* * ** * * * * *
54226050 TATGTTATCCCTTGTAAGACCATGTCAAGGATATGGCATTAGCATTGATATGTGATCCCATGAAA
1 CATGTAAGACCATGT-----C-TG----GGACATGGCATTGGCATCGATATGTGATCCCATGTAA
* * * *
54226115 GACCATGTCTGGGAGATGGCATTTGAATCGATTTGTGATCC
56 GACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * *
54226156 CACGTAAGACCATGTTTGAGACATGTCATTGGCATTGATATGTGATCCCATATAAAACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * *
54226221 GGGAGATGGGATTTGAATCGATTTGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54226252 CATGTAAGACCATGTTTGAGACATGTCATTGGCATTGATATGTGATCCCATGTAAAACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * *
54226317 GGGAAATAGCAATGGCATCGATATGT--T--
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * ** * ** * **
54226344 C-TGT--GA-TATGGCATTAG-CATTG-ATATGTTATTTCG---TGTAAGACCATGT-----C--
1 CATGTAAGACCATGTC-TGGGACATGGCAT-TGGCA--TCGATATGTGATCCCATGTAAGACCAT
* ** * * **
54226393 ---TGGGACATGGCATCGTAAT-GACATGTAAGAC
62 GTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
54226424 CATGTCCAAGA-C-----------ATGGCATTGGCATCGATATGTGGTCCCTTGTAAGACCATGT
1 CATGT--AAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGT
* * *
54226477 TTGGGACTTGGAATTGGCATCGATATGTGATCC
64 CTGGGACATGGCATTGGCATCGATATGTGATCC
* * * *
54226510 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCGTATAAGACTATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
*
54226575 GGGACATGGCATTGGCATCGTTATGTGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
** * * *
54226606 TGTGTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATGTGATCCCATGTTAGACCATGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * *
54226671 GCGACATGGCATTAGCATCAATATGTGATTC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54226702 CGTGTAGGACCATG-CTTGGGACATGGCATTGGAATCAATTTGTGATCCCATGTAAGA-CATTGT
1 CATGTAAGACCATGTC-TGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCA-TGT
* * * *
54226765 TTGGGACATGGAATTGGCATTGATTTGTGATCC
64 CTGGGACATGGCATTGGCATCGATATGTGATCC
* * * ** *
54226798 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTTCCCAAGTATGAAAATGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * **
54226863 GGGAAATGGTATTGGCATCGATATGCTTGGGATATGTGG
66 GGGACATGGCATTGGCATCGATATG--T--G--A--TCC
*** * ** * * * * **
54226902 CATCGATATATGATTTTGTGTAAGACCAT-GCCTGGGACAT-GGTATCGTAATGACATGTAAGAC
1 CAT-G-TA-A-GACCATGTCTGGGA-CATGGCATTGG-CATCGATAT-GTGATCCCATGTAAGAC
*
54226965 CATGTCTAGGACATGGCATTGGCATCGATATGTGATCC
59 CATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * **
54227003 CATGTAAGACTATGTTTGGGACATGGCATTGGCGTCGATATGTGATCCCGTGTAAGATAATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
*
54227068 GGGACATGGCATTGGCATCGATATGTGATTC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * * * ** *
54227099 TATGTAAGACCATATCTGGGAAATTGCATTGGCATTGATTTGTGATCCTGTGTAAAACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * *
54227164 AGGACATGGCATTGACATTGATATATGATCC
66 GGGACATGGCATTGGCATCGATATGTGATCC
* * * * *
54227195 CAAGTATGACAATG-CTTGGGAAATGGCATTGGCATTGATATGT
1 CATGTAAGACCATGTC-TGGGACATGGCATTGGCATCGATATGT
54227238 CCTGGGATAT
Statistics
Matches: 4521, Mismatches: 1009, Indels: 702
0.73 0.16 0.11
Matches are distributed among these distances:
72 3 0.00
74 6 0.00
75 10 0.00
76 6 0.00
77 61 0.01
79 2 0.00
80 2 0.00
81 4 0.00
82 9 0.00
83 13 0.00
84 14 0.00
85 245 0.05
86 33 0.01
87 35 0.01
88 29 0.01
89 26 0.01
90 48 0.01
91 46 0.01
92 12 0.00
93 25 0.01
94 58 0.01
95 57 0.01
96 3086 0.68
97 67 0.01
98 5 0.00
99 7 0.00
100 5 0.00
101 17 0.00
102 44 0.01
103 54 0.01
104 67 0.01
105 49 0.01
106 36 0.01
107 24 0.01
108 22 0.00
109 44 0.01
110 232 0.05
111 4 0.00
113 5 0.00
114 5 0.00
115 3 0.00
116 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (96 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
GGGACATGGCATTGGCATCGATATGTGATCC
Found at i:54221525 original size:144 final size:144
Alignment explanation
Indices: 54221261--54227237 Score: 3796
Period size: 144 Copynumber: 41.6 Consensus size: 144
54221251 ATCGTAATGA
* *
54221261 CATGTAAGACCATGTTTGGGACATGACATTGGCATCGATATGTGATCCCATGTAAGACTC-TGTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGAC-CATGTC
* * *
54221325 TCGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTAGGACATGGCAATGGC
65 TGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
*
54221390 ATCGATATGTGTTCC
130 ATCGATATGTGATCC
* *
54221405 CATATAAGACCATGTCTGGGACATGGCATTAGCATCGATATGTGATCCCATGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * *
54221470 AGTACATGGCATTAGCATCGATATGTGATCCCGTGTAAGACCATGTCTGGGACATGACATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
*
54221535 TCGATATGTTATCC
131 TCGATATGTGATCC
* * ** * * * *
54221549 CCTGTAAAACCATGTCAAGGATATGGCATTAGCATCGAAATGTGATCCCATGTAAGACCATATCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* *** * * *
54221614 GGGACATTGCATTCAAATCGATTTGTGATCCCATGTAAGGCCATGTCTGAGACATGGCATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
54221679 TCGATATGTGATCC
131 TCGATATGTGATCC
* * * * *
54221693 CATGTAA-ATCCATGTTTGGGAAATGGCAGTGGCATCGATATGT--T--C-TG---G--GA--TA
1 CATGTAAGA-CCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTC
* ** ** * **
54221745 T-GG-CATTAGCATTGATATATTATTTCGTGTAAGACCATGT-----C-----TGGGACATGGCA
65 TGGGACA-TGGCATTGGCAT-CGATAT-GTG--ATCCCATGTAAGACCATGTCTGGGACATGGCA
54221798 TTGGCATCGATATGTGATCC
125 TTGGCATCGATATGTGATCC
* **
54221818 CTTGTAAGAAAATGTCTGGGACATGG-ATTTGGCATCGATATGTGATCCCATGTAAGACCATGTC
1 CATGTAAGACCATGTCTGGGACATGGCA-TTGGCATCGATATGTGATCCCATGTAAGACCATGTC
* *
54221882 TGGGACATGGCATTGGCATCGATATGTGATCCCGTGTAAGACCATGTCTGGGACATGGGATTGGC
65 TGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
*
54221947 ATCGTTATGTGATCC
130 ATCGATATGTGATCC
** * * *
54221962 TGTGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATGTTATACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * * *
54222027 GCGACATGACATTGGCATCAATATGTGATTCCGTGTAACACCATGTCTGGGACATGGCATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
* *
54222092 TCAATTTGTGATCC
131 TCGATATGTGATCC
* * ** * *
54222106 CATGTAAGACCGTGTTTGGGGA-ATGAAATTGGCATTGATTTGTGATCCCATGTAAGACCATGTC
1 CATGTAAGACCATGTCT-GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTC
* * * * * * *
54222170 TGGGACATGGCATTGGCATCTATATGTGTTCCCAAGTATGACAATGTTTGGGAAATGGCATTGGC
65 TGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
** **
54222235 ATCGATACATGATTT
130 ATCGATATGTGATCC
* * *
54222250 CGTGTAAGACAATGTCTGGG--A---CA-TGGCATCG-TA-ATGA---CATGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * *** * *
54222304 GGGACATGGCATTGGCATCGATATGTTATCCCCTGTAAGATCATGTCAATGATATGGCATTAGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
54222369 TCGATATGTGATCC
131 TCGATATGTGATCC
* * * * *
54222383 CATGAAAGACCATGTCTAGGACATGGCATTCGAATCGATTTGTGATCCCATGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * ** * * * * * *
54222448 GAGACATGGCATTGGCAGCCATATGTGATCTTAAGTAAAACCATGTTTGGGAAATGGGAGTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
** **
54222513 TCGATATGTTTTGG
131 TCGATATGTGATCC
* * * * * * ** * * * **
54222527 GA--TATG-GCATTAGTAT-CGATATGTTATT-TCATGTAAGACCATGTCGGGGACATGGCATCG
1 CATGTAAGACCA-T-GTCTGGGACATGGCATTGGCA--T-CGA-TATGT----G--ATCCCAT-G
* ** * * * * *
54222587 TATTGA-CATG--TAAGACCATGTC-TAGGACATGGCAT-TG-GCATCCCTTGTAACACCATGTC
53 TA-AGACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATCCCATGTAAGACCATGTC
* *
54222646 TGGGACATGGAATTGGCATCGAGATGTGATCC
113 TGGGACATGGCATTGGCATCGATATGTGATCC
* *
54222678 CATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCGTGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* ** *
54222743 GGGACATGGCATTGGCTTCGTTGCATTGGCTTTGTTATGTGATCCTGTGTAAGACCATGTTTGGG
66 GGGACATGGCA-----TT-G--GCA-T--C---GATATGTGATCCCATGTAAGACCATGTCTGGG
54222808 ACATGGCATTGGCATCGATATGTGATCC
117 ACATGGCATTGGCATCGATATGTGATCC
* * * * * * * *
54222836 CATGTTATACCATGTCTGCGACATGACATTGGCATCAATATGTGATTCCGTGTAACACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * **
54222901 GGGACATGGCATTGGCATCAATTTGTGATCCCATGTAAGACCGTGTTTGGGGA-ATGAAATTGGC
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT-GGGACATGGCATTGGC
* *
54222965 ATTGATTTGTGATCC
130 ATCGATATGTGATCC
* * * * * *
54222980 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATGTGTTCCCAAGTATGACAATGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* ** ** * *
54223045 GGGAAATGGCATTGGCATCGATACATGATTTCGTGTAAGACAATGTCTGGG--A---CA-TGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
*
54223104 TCG-TA-ATGA---
131 TCGATATGTGATCC
* * * * *
54223113 CATGTAAGACCATGTCTGGGACACGGCATTGGCATCGATATGTTATCCCCTGTAAGATCATGTCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
** * * * * * *
54223178 ATGATATGGCATTAGCATCGATATGTGATCCCATGAAAGACCATGTCTAGGACATGGCATTCGAA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
*
54223243 TCGATTTGTGATCC
131 TCGATATGTGATCC
* ** * *
54223257 CATGTAAGACCATGTCTGAGACATGGCATTGGCAGTC-ATATGTGATCTTAAGTAAAACCATGTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCGATATGTGATCCCATGTAAGACCATGTC
* * * ** *** * * * * * **
54223321 TGGGAAATGGGAGTGGCATCGATATGTTTTGGGA--TATG-GCATTAGTAT-CGATATGTTATT-
65 TGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCA-T-GTCTGGGACATGGCATTG
* * * **
54223381 TCATGTAAGACCATGTCGGGGACATGG
128 GCA--T-CGA-TATGT----G--ATCC
* ** * * * * *
54223408 CATCGTATTGA-CATG--TAAGACCATGTC-TAGGACATGGCAT-TG-GCATCCCTTGTAACACC
1 CAT-GTA-AGACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATCCCATGTAAGACC
* * *
54223467 ATGTCTGGGACATGGAATTGGCATCGAGATGTGATCCCATATAAGACCATGTCTGGGACATGGCA
60 ATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCA
54223532 TTGGCATCGATATGTGATCC
125 TTGGCATCGATATGTGATCC
* * **
54223552 CGTGTAAGACCATGTCTGGGACATGGCATTGGCTTCGTTGCATTGGCTTTGTTATGTGATCCTGT
1 CATGTAAGACCATGTCTGGGACATGGCA-----TT-G--GCA-T--C---GATATGTGATCCCAT
* * * *
54223617 GTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATGTGATCTCATGTTAGACCATGTCTGCG
52 GTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGG
* * * *
54223682 ACATGGCTTTTGCATCAATATGTGATTC
117 ACATGGCATTGGCATCGATATGTGATCC
** * * **
54223710 TGTTTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCTTGTAAGAAAATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
54223775 GGGACATGG-ATTTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
66 GGGACATGGCA-TTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
*
54223839 ATTGATATGTGATCC
130 ATCGATATGTGATCC
* * ** *
54223854 CATGTAAGACCATGTCTGGGACATGGGATTGGCATCGTTATGTGATCCTGTGTAAGACCATGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * *
54223919 GGGACATGGCATTGGCATCGATATGTGATCCCATGTTATACCATGTCTGCGACATGGCATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
* *
54223984 TCAATATGTGATTC
131 TCGATATGTGATCC
** * * * ** *
54223998 TGTGTAACACCATGTCTGGGACATGGCATTGGCATCAATTTGTGATCCCATGTAAGACTGTGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* ** * *
54224063 GGGGCATGAAATTGGCATTGATTTGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
* *
54224128 TCTATATGTGTTCC
131 TCGATATGTGATCC
* * * * * * ** ** * *
54224142 CAAGTATGACAATATTTGGGAAATGGCATTGGCATCGATACATGATTTCGTGTAAGACAATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* *
54224207 GGG--A---CA-TGGCATCG-TA-ATGA---CATGTAAGACCATGTCTGGGAAATGGCATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
*
54224261 TCGATATGTTATCC
131 TCGATATGTGATCC
* * *** ** * *
54224275 CCTGTAAGATCATGTCAATGATGTGGCATTAGCATCGATATGTGATCCCATGAAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * *
54224340 AGGACATGGCATTCGAATCGATTTGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
* *
54224405 GCCATATGTGATCC
131 TCGATATGTGATCC
* * * * * * ** *** * *
54224419 TAAGTAAAACCATGTCTGGGAAATGGGAGTGGCATCGATATGTTTTGGGA--TATG-GCATTAGT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCA-T-GT
* * * ** * ** * * ** * **
54224481 AT-CGATATGTTATTTCGTTTAAGACCATGTCTGGGACATGGCATCGTATTGA-CATG--TAAGA
64 CTGGGACATGGCA-TTGGCAT-CGA-TATG--T--G--ATCCCAT-GTA-AGACCATGTCTGGGA
* * *
54224542 CCATGTC-TAGGACATGGCAT-TG-GCATCC
118 -CATGGCATTGG-CATCG-ATATGTG-ATCC
* * * * * *
54224570 CTTGTAACACCATGTCTGGGACATGGAATTGGCATCGATATGTGATGCCATATAAGACCATGTAT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
*
54224635 GGGACATGGCATTGGCATCGATATGTGATCCCGTGTAAGACCATGTCTGGGACATGGCATTGGCT
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCA-----T
*
54224700 TCGTTGCATTGGCTTTGTTATGTGATCC
126 T-G--GCA-T--C---GATATGTGATCC
* * * *
54224728 TATGTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATGTGATCTCATGTTAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * * ** *
54224793 GCGACATGGCTTTCGCATCAATATGTGATTCTGTTTAAGACCATGTCTGGGACATGGCATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
*
54224858 TCGATATGTGTTCC
131 TCGATATGTGATCC
** * * * * * * * ** *
54224872 CAACTATGACAATGTTTTGGAAATGACATTGGCATCGATATATGATTTCGTGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* *
54224937 AGGACAT--C----GCATCG-TACTG-G----CATGTAAGACCATGTCTGGGACATGACATTGGC
66 GGGACATGGCATTGGCATCGATA-TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
54224990 ATCGATATGTGATCC
130 ATCGATATGTGATCC
* * * * *
54225005 CATGTAAGACTATGTCTGGGACATGGCATTGGCATCGATATGTGATCTCGTGTAAGACCATTTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * *
54225070 GGGACATGGCATTGGCATCGATATGT-ATTCCCGTATAAGACCATGTCTGAGACATGGCATTAGC
66 GGGACATGGCATTGGCATCGATATGTGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
54225134 ATCGATATGTGATCC
130 ATCGATATGTGATCC
* * * ** * *
54225149 CGTGTAAGACCATGTCTAGTACATGGCATTATCATCGATATGTGATCTCGTGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * * ** * *
54225214 GGGACATGGCATTGGCATCTATATGTTAGCCCTTATAAGACCATGTCAAGGATATGGCATTAGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
*
54225279 TCGATTTGTGATCC
131 TCGATATGTGATCC
* * * * * *
54225293 CATGTAACACCATATCTGGGACATGTCATTCGAATCGATTTGTGATCCCATGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * * * *
54225358 GAGATATGGCATTGGCATCTATATGTGATCCCATGTAAAACCATGTCTGGGAAATGGGAATGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
54225423 TCGATATGT--T--
131 TCGATATGTGATCC
* * ** * ** * **
54225433 C-TG--AGA-TATGGCATTAG-CATCG-ATATGTTATTTCG---TGTAAGGCCATGT-----C--
1 CATGTAAGACCATGTC-TGGGACATGGCAT-TGGCA--TCGATATGTGATCCCATGTAAGACCAT
* ** * *
54225482 ---TGGGACATGGCATTGGCATCGAAATGTGATCCTTTGTAAGACCATGTCTGGGATATGGAATT
62 GTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATT
54225544 GGCATCGATATGTGATCC
127 GGCATCGATATGTGATCC
* * *
54225562 CATGTAAGACCATGTCTAGGACATGACATTGACATCGATATGTGATCCCGA-GTAAGACCATGTC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC-ATGTAAGACCATGTC
* ** * * *
54225626 TGGGACATGGCATTGGCATCGTTATGTGATCCTGTGTAAGACCATATGTGGGACATAGCATTGGC
65 TGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
54225691 ATCGATATGTGATCC
130 ATCGATATGTGATCC
* * * * * * *
54225706 CATATTAGACCATGTCTGCGACATGGCATTGGCATCAATATGTGATTCCGTGTAAGACCATGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * * *
54225771 GGGACATGGCATTGGCATCAATTTGTGATCCCATGTAAGACCGTGTTTGGGGCATGGAATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
* * *
54225836 TTGATTTGTGATTC
131 TCGATATGTGATCC
* * * * * *
54225850 CATGTAAGACCATGTCTGGGACATGGGATTGACATCGATATGTG-TCCCCAAGTATGACAATGTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGAT-CCCATGTAAGACCATGTC
* * * * * **
54225914 TGGGAAATGGCATTGGCATCGATA--T-A-CTCTAGGATATGA-CATTGGCATCGATACAT-G-A
65 TGGGACATGGCATTGGCATCGATATGTGATC-CCATG-TAAGACCA-TGTC-T-GGGACATGGCA
* * * *
54225972 TTTCGTGTA-AGACCATGCCTGGGACATGGC
125 -TT-G-GCATCGA-TATG--T--G--AT-CC
* * *** * * * ** * **
54226002 AACGTAATGA-CATG--TAAAACCATGTC-TAGGACATGGCAT-TG-GAATCGATATGTTATCCC
1 CATGTAA-GACCATGTCTGGGA-CATGGCATTGG-CATCG-ATATGTG-ATC-CCATGTAAGACC
* * * * *
54226061 TTGTAAGACCATGTCAAGGATATGGCATTAGCATTGATATGTGATCCCATGAAAGACCATGTCTG
60 ATGT-----C-TG----GGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTG
* * * *
54226126 GGAGATGGCATTTGAATCGATTTGTGATCC
115 GGACATGGCATTGGCATCGATATGTGATCC
* * * * * * *
54226156 CACGTAAGACCATGTTTGAGACATGTCATTGGCATTGATATGTGATCCCATATAAAACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * * * * *
54226221 GGGAGATGGGATTTGAATCGATTTGTGATCCCATGTAAGACCATGTTTGAGACATGTCATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
*
54226286 TTGATATGTGATCC
131 TCGATATGTGATCC
* * * * * *
54226300 CATGTAAAACCATGTCTGGGAAATAGCAATGGCATCGATATGT--T--C-TGT--GA-TATGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTC-
** * ** * ** *
54226357 TTAG-CATTG-ATATGTTATTTCG---TGTAAGACCATGT-----C-----TGGGACATGGCATC
65 TGGGACATGGCAT-TGGCA--TCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATT
** * * **
54226407 GTAAT-GACATGTAAGAC
127 GGCATCGATATGTGATCC
* * * * *
54226424 CATGT----CCAAGAC------ATGGCATTGGCATCGATATGTGGTCCCTTGTAAGACCATGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * *
54226479 GGGACTTGGAATTGGCATCGATATGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
54226544 TCGATATGTGATCC
131 TCGATATGTGATCC
* * * * **
54226558 CGTATAAGACTATGTCTGGGACATGGCATTGGCATCGTTATGTGATCCTGTGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * *
54226623 GGGGCATGGCATTGGCATCGATATGTGATCCCATGTTAGACCATGTTTGCGACATGGCATTAGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
* *
54226688 TCAATATGTGATTC
131 TCGATATGTGATCC
* * * * *
54226702 CGTGTAGGACCATG-CTTGGGACATGGCATTGGAATCAATTTGTGATCCCATGTAAGA-CATTGT
1 CATGTAAGACCATGTC-TGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCA-TGT
* * * *
54226765 TTGGGACATGGAATTGGCATTGATTTGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
64 CTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
*
54226830 CATCGATATGTGTTCC
129 CATCGATATGTGATCC
* * ** * * * **
54226846 CAAGTATGAAAATGTTTGGGAAATGGTATTGGCATCGATATGCTTGGGATATGTGGCATCGATAT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG--T--G--A--TCCCAT-G-TA-
*** * ** * * * * ** *
54226911 ATGATTTTGTGTAAGACCAT-GCCTGGGACAT-GGTATCGTAATGACATGTAAGACCATGTCTAG
55 A-GACCATGTCTGGGA-CATGGCATTGG-CATCGATAT-GTGATCCCATGTAAGACCATGTCTGG
54226974 GACATGGCATTGGCATCGATATGTGATCC
116 GACATGGCATTGGCATCGATATGTGATCC
* * * * **
54227003 CATGTAAGACTATGTTTGGGACATGGCATTGGCGTCGATATGTGATCCCGTGTAAGATAATGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
* * * * *
54227068 GGGACATGGCATTGGCATCGATATGTGATTCTATGTAAGACCATATCTGGGAAATTGCATTGGCA
66 GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
* *
54227133 TTGATTTGTGATCC
131 TCGATATGTGATCC
** * * * * * * * *
54227147 TGTGTAAAACCATGTCTAGGACATGGCATTGACATTGATATATGATCCCAAGTATGACAATG-CT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTC-
* *
54227211 TGGGAAATGGCATTGGCATTGATATGT
65 TGGGACATGGCATTGGCATCGATATGT
54227238 CCTGGGATAT
Statistics
Matches: 4474, Mismatches: 1007, Indels: 704
0.72 0.16 0.11
Matches are distributed among these distances:
114 19 0.00
116 1 0.00
118 1 0.00
119 3 0.00
120 8 0.00
121 4 0.00
122 9 0.00
123 12 0.00
124 14 0.00
125 143 0.03
126 1 0.00
127 2 0.00
128 1 0.00
129 2 0.00
130 9 0.00
131 14 0.00
132 11 0.00
133 410 0.09
134 28 0.01
135 37 0.01
136 30 0.01
137 18 0.00
138 55 0.01
139 39 0.01
140 9 0.00
141 22 0.00
142 52 0.01
143 55 0.01
144 2441 0.55
145 52 0.01
146 5 0.00
147 7 0.00
148 5 0.00
149 11 0.00
150 53 0.01
151 187 0.04
152 76 0.02
153 58 0.01
154 34 0.01
155 19 0.00
156 22 0.00
157 95 0.02
158 348 0.08
159 4 0.00
161 4 0.00
162 25 0.01
163 4 0.00
164 8 0.00
165 6 0.00
166 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (144 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCT
GGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
TCGATATGTGATCC
Found at i:54221756 original size:29 final size:28
Alignment explanation
Indices: 54221704--54221762 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
54221694 ATGTAAATCC
*
54221704 ATGTTTGGGAAATGGCAGTGGCATCGAT
1 ATGTTTGGGAAATGGCAGTAGCATCGAT
* * *
54221732 ATGTTCTGGGATATGGCATTAGCATTGAT
1 ATGTT-TGGGAAATGGCAGTAGCATCGAT
54221761 AT
1 AT
54221763 ATTATTTCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.34
Consensus pattern (28 bp):
ATGTTTGGGAAATGGCAGTAGCATCGAT
Found at i:54221856 original size:173 final size:173
Alignment explanation
Indices: 54221567--54221908 Score: 463
Period size: 173 Copynumber: 2.0 Consensus size: 173
54221557 ACCATGTCAA
* *
54221567 GGATATGGCATTAGCATCGAAATGTGATCCCATGTAAGACCATATCTGGGACATTGCATTCAAAT
1 GGATATGGCATTAGCATCGAAATATGATCCCATGTAAGACCATATCTGGGACATGGCATTCAAAT
* ***
54221632 CGATTTGTGATCCCATGTAAGGCCATGTCTGAGACATGGCATTGGCATCGATATGTGATCCCATG
66 CGATATGTGATCCCATGTAAGAAAATGTCTGAGACATGGCATTGGCATCGATATGTGATCCCATG
*
54221697 TAA-ATCCATGTTTGGGAAATGGCAGTGGCATCGATATGTTCTG
131 TAAGA-CCATGTCTGGGAAATGGCAGTGGCATCGATATGTTCTG
* * * ** * * ***
54221740 GGATATGGCATTAGCATTGATATATTATTTCGTGTAAGACCATGTCTGGGACATGGCATTGGCAT
1 GGATATGGCATTAGCATCGAAATATGATCCCATGTAAGACCATATCTGGGACATGGCATTCAAAT
* *
54221805 CGATATGTGATCCCTTGTAAGAAAATGTCTGGGACATGG-ATTTGGCATCGATATGTGATCCCAT
66 CGATATGTGATCCCATGTAAGAAAATGTCTGAGACATGGCA-TTGGCATCGATATGTGATCCCAT
* *
54221869 GTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
130 GTAAGACCATGTCTGGGAAATGGCAGTGGCATCGATATGT
54221909 GATCCCGTGT
Statistics
Matches: 146, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
172 1 0.01
173 144 0.99
174 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (173 bp):
GGATATGGCATTAGCATCGAAATATGATCCCATGTAAGACCATATCTGGGACATGGCATTCAAAT
CGATATGTGATCCCATGTAAGAAAATGTCTGAGACATGGCATTGGCATCGATATGTGATCCCATG
TAAGACCATGTCTGGGAAATGGCAGTGGCATCGATATGTTCTG
Found at i:54222392 original size:133 final size:133
Alignment explanation
Indices: 54222154--54222411 Score: 322
Period size: 133 Copynumber: 1.9 Consensus size: 133
54222144 TTTGTGATCC
* * **
54222154 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATGTGTTCCCAAGTATGACAATGTTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTTCCCAAGTAAGACAATGTCA
* * ** * * *
54222219 GGGAAATGGCATTGGCATCGATACATGATTTCGTGTAAGACAATGTCTGGGACATGGCATCGTAA
66 AGGAAATGGCATTAGCATCGATACATGATCCCATGAAAGACAATGTCTAGGACATGGCATCGTAA
54222284 TGA
131 TGA
**
54222287 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT-TATCCCCTGTAAGATC-ATGT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGT-TCCCAAGTAAGA-CAATGT
* * ** *
54222350 CAATGATATGGCATTAGCATCGATATGTGATCCCATGAAAGACCATGTCTAGGACATGGCAT
64 CAAGGAAATGGCATTAGCATCGATACATGATCCCATGAAAGACAATGTCTAGGACATGGCAT
54222412 TCGAATCGAT
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
132 1 0.01
133 103 0.98
134 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (133 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTTCCCAAGTAAGACAATGTCA
AGGAAATGGCATTAGCATCGATACATGATCCCATGAAAGACAATGTCTAGGACATGGCATCGTAA
TGA
Found at i:54222411 original size:181 final size:181
Alignment explanation
Indices: 54222106--54222459 Score: 395
Period size: 181 Copynumber: 2.0 Consensus size: 181
54222096 TTTGTGATCC
* * * * *
54222106 CATGTAAGACCGTGTTTGGGGAATGAAATTGGCATTGATTTGTGATCCCATGTAAGACCATGTCT
1 CATGTAAGACCATGTCTGGGGAATGAAATTGGCATCGATATGTGATCCCATGTAAGACCATGTCA
* * * * * * * * * *
54222171 GGGACATGGCATTGGCATCTATATGTGTTCCCAAGTATGACAATGTTTGGGAAATGGCATTGGCA
66 AGGACATGGCATTAGCATCGATATGTGATCCCAAGAAAGACAATGTCTAGGAAATGGCATTCGAA
** * *
54222236 TCGATACATGATTTCGTGTAAGACAATGTCTGGGACATGGCATCGTAATGA
131 TCGATACATGATCCCATGTAAGACAATGTCTGAGACATGGCATCGTAATGA
** * * *
54222287 CATGTAAGACCATGTCT-GGGACATGGCATTGGCATCGATATGTTATCCCCTGTAAGATCATGTC
1 CATGTAAGACCATGTCTGGGGA-ATGAAATTGGCATCGATATGTGATCCCATGTAAGACCATGTC
* * * * *
54222351 AATGATATGGCATTAGCATCGATATGTGATCCCATGAAAGACCATGTCTAGGACATGGCATTCGA
65 AAGGACATGGCATTAGCATCGATATGTGATCCCAAGAAAGACAATGTCTAGGAAATGGCATTCGA
*** *
54222416 ATCGATTTGTGATCCCATGTAAGACCATGTCTGAGACATGGCAT
130 ATCGATACATGATCCCATGTAAGACAATGTCTGAGACATGGCAT
54222460 TGGCAGCCAT
Statistics
Matches: 139, Mismatches: 33, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
180 4 0.03
181 135 0.97
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (181 bp):
CATGTAAGACCATGTCTGGGGAATGAAATTGGCATCGATATGTGATCCCATGTAAGACCATGTCA
AGGACATGGCATTAGCATCGATATGTGATCCCAAGAAAGACAATGTCTAGGAAATGGCATTCGAA
TCGATACATGATCCCATGTAAGACAATGTCTGAGACATGGCATCGTAATGA
Found at i:54222533 original size:29 final size:29
Alignment explanation
Indices: 54222493--54222551 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
54222483 TAAAACCATG
* *
54222493 TTTGGGAAATGGGAGTGGCATCGATATGT
1 TTTGGGAAATGGCAGTAGCATCGATATGT
* * *
54222522 TTTGGGATATGGCATTAGTATCGATATGT
1 TTTGGGAAATGGCAGTAGCATCGATATGT
54222551 T
1 T
54222552 ATTTCATGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.24, C:0.07, G:0.32, T:0.37
Consensus pattern (29 bp):
TTTGGGAAATGGCAGTAGCATCGATATGT
Done.