Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 198 of 335
Found at i:59414807 original size:27 final size:27
Alignment explanation
Indices: 59414777--59414834 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
59414767 TACTAAAATA
* *
59414777 CCCTAAGTATG-AAAATTACCATTATGC
1 CCCTAAG-ATGCAAAATGACCATTATAC
*
59414804 CCCT-AGGTGCAAAATGACCATTATAC
1 CCCTAAGATGCAAAATGACCATTATAC
59414830 CCCTA
1 CCCTA
59414835 GAGTTGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.08
26 20 0.77
27 4 0.15
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (27 bp):
CCCTAAGATGCAAAATGACCATTATAC
Found at i:59414979 original size:28 final size:28
Alignment explanation
Indices: 59414939--59415047 Score: 148
Period size: 28 Copynumber: 3.9 Consensus size: 28
59414929 GGAGGAAGCG
59414939 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
59414967 TTCTGGTGGCTCTGCCACAAATATTTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
59414995 TTCTAGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
59415023 ATCTGGTGACTCTGTCAC-AATATCT
1 TTCTGGTGGCTCTGCCACAAATATCT
59415048 ATTCTGGCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
27 6 0.09
28 64 0.91
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:59416543 original size:49 final size:50
Alignment explanation
Indices: 59416346--59416543 Score: 200
Period size: 50 Copynumber: 4.0 Consensus size: 50
59416336 ATTTATTGTG
* * *
59416346 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* * * * * * **
59416397 CGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * **
59416447 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * *
59416497 -GGTCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCAGATAA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA
59416544 CCTTGTCTAC
Statistics
Matches: 120, Mismatches: 27, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
49 40 0.33
50 43 0.36
51 37 0.31
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:59417947 original size:10 final size:10
Alignment explanation
Indices: 59417934--59417979 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
59417924 AGCTCACTTG
59417934 AGCTCGTTTT
1 AGCTCGTTTT
*
59417944 AGCTCGTTTG
1 AGCTCGTTTT
*
59417954 AGCTCGAATTT
1 AGCTCG-TTTT
*
59417965 AGCTCGTTTC
1 AGCTCGTTTT
59417975 AGCTC
1 AGCTC
59417980 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:59417967 original size:21 final size:20
Alignment explanation
Indices: 59417931--59417979 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
59417921 ATCAGCTCAC
*
59417931 TTGAGCTCGTTTTAGCTCGT
1 TTGAGCTCGATTTAGCTCGT
59417951 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCG-ATTTAGCTCGT
*
59417972 TTCAGCTC
1 TTGAGCTC
59417980 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTCGT
Found at i:59418222 original size:13 final size:13
Alignment explanation
Indices: 59418204--59418232 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
59418194 AATAGTTGTG
59418204 TGTTATTTAATTA
1 TGTTATTTAATTA
59418217 TGTTATTTAATTA
1 TGTTATTTAATTA
59418230 TGT
1 TGT
59418233 AGGTTAGCCG
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:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:59419953 original size:15 final size:15
Alignment explanation
Indices: 59419920--59419949 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
59419910 TATTTTCTAT
59419920 ATTTATTATGTGTGA
1 ATTTATTATGTGTGA
59419935 ATTTA-TATGTGTGA
1 ATTTATTATGTGTGA
59419949 A
1 A
59419950 ATTTTCGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (15 bp):
ATTTATTATGTGTGA
Found at i:59424311 original size:68 final size:66
Alignment explanation
Indices: 59424239--59424388 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
59424229 CATCATGTGT
* * * *
59424239 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
59424302 TGTAG
62 TGTAG
** * *
59424307 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
59424372 AG
65 AG
59424374 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
59424389 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:59424344 original size:64 final size:64
Alignment explanation
Indices: 59424263--59424446 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 64
59424253 AGACATTATG
* * *
59424263 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
59424327 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59424392 AA
63 AA
* *
59424394 ACTG--GCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
59424447 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 20 0.20
67 32 0.32
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59428767 original size:64 final size:64
Alignment explanation
Indices: 59428686--59428869 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
59428676 AGACATTATG
* * *
59428686 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
59428750 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGATAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59428815 AA
63 AA
* * *
59428817 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
59428870 CGAACTATCT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 25 0.26
66 21 0.22
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59429957 original size:2 final size:2
Alignment explanation
Indices: 59429950--59429976 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59429940 TCATGACATG
59429950 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
59429977 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59433221 original size:15 final size:13
Alignment explanation
Indices: 59433183--59433224 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
59433173 AACCTCTTTT
*
59433183 AAAAGAAAACGAG
1 AAAAGAAAAAGAG
59433196 AAAAGAAAAAGATG
1 AAAAGAAAAAGA-G
59433210 AAAAGCAAAAAGAG
1 AAAAG-AAAAAGAG
59433224 A
1 A
59433225 TCAAAAGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
14 8 0.31
15 7 0.27
ACGTcount: A:0.71, C:0.05, G:0.21, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAAGAG
Found at i:59434939 original size:27 final size:28
Alignment explanation
Indices: 59434909--59434964 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
59434899 CATGGCAAGA
59434909 AACGA-ATTTAATGAG-TGTTGGAGCATG
1 AACGACATTTAA-GAGATGTTGGAGCATG
*
59434936 AACGACATTTAAGAGATTGTTGGTGCATG
1 AACGACATTTAAGAGA-TGTTGGAGCATG
59434965 GCCAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 8 0.32
28 6 0.24
29 11 0.44
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (28 bp):
AACGACATTTAAGAGATGTTGGAGCATG
Found at i:59438880 original size:15 final size:14
Alignment explanation
Indices: 59438859--59438901 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
59438849 ACTTTTTCCA
59438859 CTCTTTTTCTTTT-
1 CTCTTTTTCTTTTG
*
59438872 CATTCTTTTTATTTTG
1 C--TCTTTTTCTTTTG
59438888 CTCTTTTTCTTTTG
1 CTCTTTTTCTTTTG
59438902 ATCTCTCCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 12 0.48
15 11 0.44
16 1 0.04
ACGTcount: A:0.05, C:0.19, G:0.05, T:0.72
Consensus pattern (14 bp):
CTCTTTTTCTTTTG
Found at i:59440995 original size:11 final size:10
Alignment explanation
Indices: 59440978--59441006 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
59440968 TTTCTGAAAT
59440978 ATTTTTTTGA
1 ATTTTTTTGA
59440988 ATTTTTTTGA
1 ATTTTTTTGA
59440998 ATTTTTTTG
1 ATTTTTTTG
59441007 CCAATATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.72
Consensus pattern (10 bp):
ATTTTTTTGA
Found at i:59446662 original size:9 final size:10
Alignment explanation
Indices: 59446569--59446669 Score: 95
Period size: 10 Copynumber: 10.2 Consensus size: 10
59446559 ACAATGTTCA
*
59446569 AATTTTTTTCA
1 AATTTTTTT-G
59446580 AATTTTTTTG
1 AATTTTTTTG
59446590 AATTTTTTTG
1 AATTTTTTTG
59446600 AATTTTTTTG
1 AATTTTTTTG
59446610 AATTTTTTTCG
1 AATTTTTTT-G
59446621 --TTTTTTTG
1 AATTTTTTTG
59446629 -ATTTTTTTG
1 AATTTTTTTG
**
59446638 --TTTTTTAA
1 AATTTTTTTG
59446646 AATTTTTTTTTG
1 AA--TTTTTTTG
*
59446658 ATTTTTTTTG
1 AATTTTTTTG
59446668 AA
1 AA
59446670 ACTTACTTGA
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
8 7 0.09
9 15 0.19
10 38 0.49
11 10 0.13
12 7 0.09
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (10 bp):
AATTTTTTTG
Found at i:59449231 original size:19 final size:20
Alignment explanation
Indices: 59449187--59449233 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
59449177 AGTAAGCGCG
59449187 ATTGAGCTCAAACGAGCTGA
1 ATTGAGCTCAAACGAGCTGA
* *
59449207 AATGAGCTCAAATGAG-TGA
1 ATTGAGCTCAAACGAGCTGA
59449226 ATTGAGCT
1 ATTGAGCT
59449234 GGACGGAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (20 bp):
ATTGAGCTCAAACGAGCTGA
Found at i:59452511 original size:46 final size:46
Alignment explanation
Indices: 59452355--59452768 Score: 322
Period size: 47 Copynumber: 8.8 Consensus size: 46
59452345 TTGGATTTCT
* * **
59452355 TGAGTGCCAGTGTAAGACATGTCTGGGACATACATCGGCCACA-TTA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATAGAGA
* *
59452401 TGAGTGCCAGTATAAGACCATGTCTGGGACATGGCATTGGCATAGAGA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATAGAGA
* **
59452449 TGAGTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCATA-TTA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATAGAGA
* **
59452495 TGAGTGCCAGTATAAGACCATGTCTGGGACATGGCATCGGTGTAGAGA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATAGAGA
* * * *
59452543 TGAGTGCCAATGTAAGACATGTCTGGGACATGCATCAGCCTCGATGA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGA-GA
* * *
59452590 TGA-TAGCTAGTGTAAGACGTGTCTGGGACACGCATCGGC-TA-AGA
1 TGAGT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGA
* * * * * *
59452634 -GTTGTGCTAGTGTAAGACGTGTCTAGGACATGCATCAGCAT-GTATA
1 TG-AGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAG-AGA
* * * * *
59452680 TACGAGAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGCTTCGATGA
1 T--GAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATAGA-GA
* *
59452731 TG-CTAGCCAGTGTAGGACCATGTCTGGGACATGGCATC
1 TGAGT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
59452769 AAAAACTTAT
Statistics
Matches: 299, Mismatches: 47, Indels: 41
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.00
44 33 0.11
45 3 0.01
46 52 0.17
47 97 0.32
48 57 0.19
49 44 0.15
50 9 0.03
51 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGA
Found at i:59452516 original size:94 final size:93
Alignment explanation
Indices: 59452355--59452769 Score: 441
Period size: 94 Copynumber: 4.4 Consensus size: 93
59452345 TTGGATTTCT
* * *
59452355 TGAGTGCCAGTGTAAGACATGTCTGGGACATACATCGGCCACATTATGAGTGCCAGTATAAGACC
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGTGCCAGTATAAGACC
*
59452420 ATGTCTGGGACATGGCATTGGCATAGAGA
66 ATGTCTGGGACATGGCATCGGC-TAGAGA
* *
59452449 TGAGTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTATGAGTGCCAGTATAAGACC
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGTGCCAGTATAAGACC
*
59452514 ATGTCTGGGACATGGCATCGGTGTAGAGA
66 ATGTCTGGGACATGGCATCGG-CTAGAGA
* * * *
59452543 TGAGTGCCAATGTAAGACATGTCTGGGACATGCATCAGCC-TCGATGATGA-TAGCTAGTGTAAG
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ATTATGAGT-GCCAGTATAAG
* *
59452606 A-CGTGTCTGGGACA-CGCATCGGCTA-AGA
63 ACCATGTCTGGGACATGGCATCGGCTAGAGA
* * * * * * *
59452634 -GTTGTGCTAGTGTAAGACGTGTCTAGGACATGCATCAG-CATGTATATACGAGAGCTAGTATAA
1 TG-AGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCA--TAT-TATGAGTGCCAGTATAA
*
59452697 GACCATGTCTGGGACATGGCATCGGCTTCGATGA
62 GACCATGTCTGGGACATGGCATCGGC-TAGA-GA
* *
59452731 TG-CTAGCCAGTGTAGGACCATGTCTGGGACATGGCATCA
1 TGAGT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCA
59452770 AAAACTTATC
Statistics
Matches: 271, Mismatches: 31, Indels: 33
0.81 0.09 0.10
Matches are distributed among these distances:
90 2 0.01
91 36 0.13
92 16 0.06
93 21 0.08
94 146 0.54
95 17 0.06
96 2 0.01
97 12 0.04
98 13 0.05
99 6 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (93 bp):
TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGTGCCAGTATAAGACC
ATGTCTGGGACATGGCATCGGCTAGAGA
Found at i:59453659 original size:55 final size:55
Alignment explanation
Indices: 59453533--59453659 Score: 173
Period size: 55 Copynumber: 2.3 Consensus size: 55
59453523 TAAAATTTTT
* * *
59453533 AGTCAGTGTTGTACACGGGTAGGCCACACGGGCGTGTGCCATGGCCGTGTCTTAA
1 AGTCAGTGTTGTACACGAGAAGGCCACACAGGCGTGTGCCATGGCCGTGTCTTAA
* * * * *
59453588 AGTCAGTATCGTACACGAGAAGGTCACACAGGCGTGTGCCATGGCCGTGTGTTGA
1 AGTCAGTGTTGTACACGAGAAGGCCACACAGGCGTGTGCCATGGCCGTGTCTTAA
*
59453643 AGTCAGTGTTGCACACG
1 AGTCAGTGTTGTACACG
59453660 GGCTAAGGGC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (55 bp):
AGTCAGTGTTGTACACGAGAAGGCCACACAGGCGTGTGCCATGGCCGTGTCTTAA
Found at i:59454775 original size:36 final size:36
Alignment explanation
Indices: 59454735--59454817 Score: 102
Period size: 36 Copynumber: 2.3 Consensus size: 36
59454725 TCTCGCACTC
*
59454735 TTTCTTTTTTTTCTTCA-A-TCTTTTTGCTTTTTCAAT
1 TTTCTTTTCTTT-TTCACATTCTTTTT-CTTTTTCAAT
59454771 TTTCTTTTCTTTTTCACATTCTTTTTCTTTTTC--T
1 TTTCTTTTCTTTTTCACATTCTTTTTCTTTTTCAAT
59454805 TTCTCTTTTCTTT
1 TT-TCTTTTCTTT
59454818 CAAGCTCTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
34 3 0.07
35 14 0.33
36 19 0.44
37 7 0.16
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.72
Consensus pattern (36 bp):
TTTCTTTTCTTTTTCACATTCTTTTTCTTTTTCAAT
Found at i:59454784 original size:6 final size:6
Alignment explanation
Indices: 59454753--59454817 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
59454743 TTTTCTTCAA
* ***
59454753 TCTTTT TGCTTTT TCAATTT TC-TTT TCTTTT TCACAT TCTTTT TCTTTT
1 TCTTTT T-CTTTT TC-TTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
*
59454802 TCTTTC TC-TTT TCTTT
1 TCTTTT TCTTTT TCTTT
59454818 CAAGCTCTCT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
5 9 0.20
6 26 0.57
7 11 0.24
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.72
Consensus pattern (6 bp):
TCTTTT
Found at i:59454784 original size:18 final size:18
Alignment explanation
Indices: 59454735--59454817 Score: 75
Period size: 18 Copynumber: 4.7 Consensus size: 18
59454725 TCTCGCACTC
*
59454735 TTTCTTTTTTTTCTTCAAT
1 TTTCTTTTCTTT-TTCAAT
* *
59454754 CTT-TTTGCTTTTTCAAT
1 TTTCTTTTCTTTTTCAAT
59454771 TTTCTTTTCTTTTTCACAT
1 TTTCTTTTCTTTTTCA-AT
*
59454790 TCT-TTTTCTTTTTC--T
1 TTTCTTTTCTTTTTCAAT
59454805 TTCTCTTTTCTTT
1 TT-TCTTTTCTTT
59454818 CAAGCTCTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
15 2 0.04
16 1 0.02
17 16 0.30
18 28 0.53
19 6 0.11
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.72
Consensus pattern (18 bp):
TTTCTTTTCTTTTTCAAT
Found at i:59455477 original size:24 final size:24
Alignment explanation
Indices: 59455445--59455490 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
59455435 AATTCACTCA
59455445 CTTGGCTTTTGTTCACTTGAATCT
1 CTTGGCTTTTGTTCACTTGAATCT
59455469 CTTGGCTTTTGTTCACTTGAAT
1 CTTGGCTTTTGTTCACTTGAAT
59455491 AGACTCACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (24 bp):
CTTGGCTTTTGTTCACTTGAATCT
Found at i:59457063 original size:50 final size:49
Alignment explanation
Indices: 59457021--59457166 Score: 231
Period size: 50 Copynumber: 3.0 Consensus size: 49
59457011 TAATTGCCAA
* *
59457021 AATTAGTTAAGCAACTAAAGAAAATTAAAAACAACTTAATTAATTAAAC
1 AATTATTTAAGCAACTAAAGACAATTAAAAACAACTTAATTAATTAAAC
*
59457070 TAATTATTTAAGCAACTAAAGACAATTAAAAACAAATTAATTAATTAAAC
1 -AATTATTTAAGCAACTAAAGACAATTAAAAACAACTTAATTAATTAAAC
*
59457120 TAATTATTTAAGAAACTAAAGACAATT-AAAACAACTTAATTAATTAA
1 -AATTATTTAAGCAACTAAAGACAATTAAAAACAACTTAATTAATTAA
59457167 GCTAAAATAA
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 19 0.21
50 72 0.79
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (49 bp):
AATTATTTAAGCAACTAAAGACAATTAAAAACAACTTAATTAATTAAAC
Found at i:59457124 original size:17 final size:16
Alignment explanation
Indices: 59457043--59457138 Score: 54
Period size: 17 Copynumber: 5.9 Consensus size: 16
59457033 AACTAAAGAA
59457043 AATTAA-AAAC-AACTT
1 AATTAATAAACTAA-TT
59457058 AATTAATTAAACTAATT
1 AATTAA-TAAACTAATT
* ** **
59457075 ATTTAAGCAACTAAAGAC
1 AATTAATAAACT-AA-TT
*
59457093 AATTAA-AAACAAATT
1 AATTAATAAACTAATT
59457108 AATTAATTAAACTAATT
1 AATTAA-TAAACTAATT
* *
59457125 ATTTAAGAAACTAA
1 AATTAATAAACTAA
59457139 AGACAATTAA
Statistics
Matches: 61, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
15 12 0.20
16 13 0.21
17 29 0.48
18 7 0.11
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (16 bp):
AATTAATAAACTAATT
Found at i:59460240 original size:43 final size:43
Alignment explanation
Indices: 59460192--59460358 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 43
59460182 GGTTACCGAG
* *
59460192 ATGTGATTACATGTAAGACCATGCCTAGGACATTGGCATTGTA
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTA
* * *
59460235 ATGTGATTACGTGTAAGACCATGTATGGGACATTGGCATCGTTA
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCG-TA
* * * * * *
59460279 AT-CGATTACGTGTAAGACCCTGTCTGGGACAGTGACATCG-A
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTA
** * *
59460320 TATGTGACAACATGTAAGACCATATCTAGGATA-TGGCAT
1 -ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCAT
59460359 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 90 0.88
44 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTA
Found at i:59461165 original size:15 final size:15
Alignment explanation
Indices: 59461145--59461192 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
59461135 TCAAAGATGG
59461145 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
59461160 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
59461174 GTTTATGGATATAAA
1 GTTTATGGATATGAA
59461189 GTTT
1 GTTT
59461193 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:59461179 original size:14 final size:14
Alignment explanation
Indices: 59461139--59461182 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
59461129 AAGGATTCAA
59461139 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
59461153 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
59461168 AGATGGGTTTATGG
1 AGATGGGTTTATGG
59461182 A
1 A
59461183 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:59461208 original size:29 final size:29
Alignment explanation
Indices: 59461139--59461198 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
59461129 AAGGATTCAA
*
59461139 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
59461168 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
59461197 AG
1 AG
59461199 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:59461578 original size:10 final size:10
Alignment explanation
Indices: 59461563--59461589 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
59461553 TACTCCTTCA
59461563 AGCTCAAATC
1 AGCTCAAATC
59461573 AGCTCAAATC
1 AGCTCAAATC
59461583 AGCTCAA
1 AGCTCAA
59461590 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:59466338 original size:29 final size:29
Alignment explanation
Indices: 59466298--59466400 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
59466288 GTTGAGAGAT
* *
59466298 TGGCACTGAGTGTCCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
59466327 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
59466356 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
59466385 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59466401 CGGCTGATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 5 0.07
29 63 0.93
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:59469191 original size:10 final size:10
Alignment explanation
Indices: 59469176--59469202 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
59469166 TACTCCTTCA
59469176 AGCTCAAATC
1 AGCTCAAATC
59469186 AGCTCAAATC
1 AGCTCAAATC
59469196 AGCTCAA
1 AGCTCAA
59469203 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:59473699 original size:30 final size:28
Alignment explanation
Indices: 59473646--59473701 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
59473636 TTCTTCCACG
* *
59473646 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
59473674 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
59473702 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:59475041 original size:29 final size:29
Alignment explanation
Indices: 59474996--59475055 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
59474986 AAGGATTCAA
* *
59474996 AGATGGGTTTATAGATATGAAGTTTATGT
1 AGATGGATTTATAGATATAAAGTTTATGT
* *
59475025 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATAGATATAAAGTTTATGT
59475054 AG
1 AG
59475056 GTTTGGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATAGATATAAAGTTTATGT
Found at i:59476676 original size:46 final size:46
Alignment explanation
Indices: 59476621--59476801 Score: 235
Period size: 46 Copynumber: 3.9 Consensus size: 46
59476611 TAGGATGGTT
59476621 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
59476667 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
59476713 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *
59476760 GAACGA-CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGC-ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59476802 GCGGGTTACA
Statistics
Matches: 117, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 34 0.29
48 2 0.02
50 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:59476782 original size:93 final size:93
Alignment explanation
Indices: 59476623--59476793 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
59476613 GGATGGTTGA
* *
59476623 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
59476688 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59476716 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
59476781 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59476794 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59480407 original size:30 final size:30
Alignment explanation
Indices: 59480312--59480408 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
59480302 AGCTCACTCC
*
59480312 TAGCTCATA-TTCAACTCACGAGATAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGATAAACCT
* * * * * *
59480342 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGATAAACCT
* * * *
59480372 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGATAAACCT
59480402 TAGCTCA
1 TAGCTCA
59480409 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGATAAACCT
Found at i:59491351 original size:22 final size:21
Alignment explanation
Indices: 59491320--59491360 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59491310 GTGATAGCCA
*
59491320 CTTTTATTTGGGTTTAATCTTT
1 CTTTTATTT-GATTTAATCTTT
*
59491342 CTTTTCTTTGATTTAATCT
1 CTTTTATTTGATTTAATCT
59491361 AAAAACATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.63
Consensus pattern (21 bp):
CTTTTATTTGATTTAATCTTT
Found at i:59493244 original size:50 final size:49
Alignment explanation
Indices: 59493126--59493301 Score: 194
Period size: 50 Copynumber: 3.5 Consensus size: 49
59493116 CTAGTACGCA
* * **
59493126 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
59493175 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* *** * *
59493225 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
59493276 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59493302 TGCGACCTCA
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 29 0.27
50 41 0.38
51 36 0.33
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:59493301 original size:101 final size:99
Alignment explanation
Indices: 59493126--59493312 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 99
59493116 CTAGTACGCA
* * *
59493126 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
59493191 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
59493225 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
59493289 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
59493313 AATAGATCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
101 43 0.56
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:59497588 original size:106 final size:107
Alignment explanation
Indices: 59497411--59497614 Score: 272
Period size: 106 Copynumber: 1.9 Consensus size: 107
59497401 GTAATATCCA
59497411 GAATTAGGGCCAAGTCAGAATAATGGTTTCGAGACCACAAATCTGAAGTAGAAATAATTATTTTA
1 GAATTAGGGCCAAGTCAGAATAATGGTTTCGAGACCACAAATCTGAAGTAGAAATAATTATTTTA
*
59497476 TGATTATTATGAGGTCTA-AATATGATTGCATGTGACAACCC
66 TAATTATTATGAGGTCTATAATATGATTGCATGTGACAACCC
* * * *
59497517 GAATTAGGGCCTAA-TCGGAATAGTGGTTTCGTGACCACAAAT-TCG-AGTTAGAAATAATTGTT
1 GAATTAGGGCC-AAGTCAGAATAATGGTTTCGAGACCACAAATCT-GAAG-TAGAAATAATTATT
* * * *
59497579 TTATAATTATTTTGGGGTTTATGATATGATTGCATG
63 TTATAATTATTATGAGGTCTATAATATGATTGCATG
59497615 ATTGTGTGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
105 3 0.04
106 67 0.79
107 15 0.18
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (107 bp):
GAATTAGGGCCAAGTCAGAATAATGGTTTCGAGACCACAAATCTGAAGTAGAAATAATTATTTTA
TAATTATTATGAGGTCTATAATATGATTGCATGTGACAACCC
Found at i:59498874 original size:41 final size:41
Alignment explanation
Indices: 59498829--59498946 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
59498819 TGAAAGATAA
59498829 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
59498870 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59498900 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59498941 ATGTAG
1 ATGTAG
59498947 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:59498885 original size:71 final size:71
Alignment explanation
Indices: 59498797--59498960 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59498787 GAGATGTATC
59498797 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59498862 AGGACA
66 AGGACA
59498868 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59498933 AGGACA
66 AGGACA
59498939 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
59498961 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:59513415 original size:29 final size:29
Alignment explanation
Indices: 59513381--59513483 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
59513371 TAATCAGCCG
** *
59513381 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
59513410 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
59513439 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
59513468 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
59513484 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:59518252 original size:64 final size:64
Alignment explanation
Indices: 59518151--59518277 Score: 245
Period size: 64 Copynumber: 2.0 Consensus size: 64
59518141 TGAAAGACTA
*
59518151 TAAAACATAGAAAAATAAACCAAGTAAACTATAAAGCCTAGTAAGTTCGTATGAAATTTACTCT
1 TAAAACATAGAAAAATAAACCAAGTAAACTATAAAGCCTAGTAAGTTCGTATGAAATATACTCT
59518215 TAAAACATAGAAAAATAAACCAAGTAAACTATAAAGCCTAGTAAGTTCGTATGAAATATACTC
1 TAAAACATAGAAAAATAAACCAAGTAAACTATAAAGCCTAGTAAGTTCGTATGAAATATACTC
59518278 AACAAATCAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (64 bp):
TAAAACATAGAAAAATAAACCAAGTAAACTATAAAGCCTAGTAAGTTCGTATGAAATATACTCT
Found at i:59518559 original size:13 final size:13
Alignment explanation
Indices: 59518541--59518567 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59518531 TTTGATTTTT
59518541 TCATTTTACCTTG
1 TCATTTTACCTTG
59518554 TCATTTTACCTTG
1 TCATTTTACCTTG
59518567 T
1 T
59518568 TTATTATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.56
Consensus pattern (13 bp):
TCATTTTACCTTG
Found at i:59523593 original size:25 final size:26
Alignment explanation
Indices: 59523496--59523631 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
59523486 GAGGAAGTGC
59523496 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
59523522 AAAAGGGCTTATGCCCTAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * *
59523548 AAAAAGGCTTATACCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
59523574 AAAAGGGATT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
59523599 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
59523622 AAAAGAGGCT
1 AAAAG-GGCT
59523632 AAGCCTCCAG
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 28 0.29
26 55 0.58
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:59525002 original size:46 final size:46
Alignment explanation
Indices: 59524952--59525217 Score: 253
Period size: 46 Copynumber: 5.7 Consensus size: 46
59524942 TGGTTGAGCA
59524952 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59524998 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59525043 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
59525091 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
59525136 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
59525184 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59525218 GGGGCGGGTT
Statistics
Matches: 177, Mismatches: 24, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
42 4 0.02
43 8 0.05
45 8 0.05
46 85 0.48
47 55 0.31
48 6 0.03
50 7 0.04
51 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59525072 original size:47 final size:47
Alignment explanation
Indices: 59524998--59525166 Score: 204
Period size: 47 Copynumber: 3.6 Consensus size: 47
59524988 GATGCGAATG
59524998 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
* * * * *
59525045 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACT--TATG-GA-T-GCGAA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCA
*
59525089 TGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAAATGTAACTAGGCA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
*
59525138 TCCGAACTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
59525167 ACTTATGGAT
Statistics
Matches: 100, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 30 0.30
47 58 0.58
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
Found at i:59525108 original size:93 final size:93
Alignment explanation
Indices: 59524949--59525212 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
59524939 GGATGGTTGA
*
59524949 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
59525014 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
59525042 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
59525107 TGAGTCCAAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
59525135 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
59525199 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
59525213 ACTTAGGGGC
Statistics
Matches: 165, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
92 2 0.01
93 163 0.99
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59529100 original size:30 final size:29
Alignment explanation
Indices: 59529028--59529092 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
59529018 TGACGAGATT
* *
59529028 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
59529057 GGCACTAAGTGTGCATGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAC
59529087 GGCACT
1 GGCACT
59529093 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:59530978 original size:2 final size:2
Alignment explanation
Indices: 59530971--59531001 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59530961 CTTGTATGTG
59530971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59531002 TCGGCCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59531943 original size:42 final size:42
Alignment explanation
Indices: 59531897--59531979 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
59531887 ATTCAAAATT
59531897 AACTTATTTAATCATCT-ATTCATTCAATTTAGTCCAAAACAA
1 AACTTATTTAATCATCTAATT-ATTCAATTTAGTCCAAAACAA
*
59531939 AACTTATTTAATCATCTAATTGTTCAATTTAGTCCAAAACA
1 AACTTATTTAATCATCTAATTATTCAATTTAGTCCAAAACA
59531980 CACTTTAAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 36 0.92
43 3 0.08
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.39
Consensus pattern (42 bp):
AACTTATTTAATCATCTAATTATTCAATTTAGTCCAAAACAA
Found at i:59535066 original size:9 final size:9
Alignment explanation
Indices: 59535052--59535076 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
59535042 TAAATTTGAT
59535052 TTTAGTTAA
1 TTTAGTTAA
59535061 TTTAGTTAA
1 TTTAGTTAA
59535070 TTTAGTT
1 TTTAGTT
59535077 TGAGTCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (9 bp):
TTTAGTTAA
Found at i:59535151 original size:39 final size:39
Alignment explanation
Indices: 59535077--59535192 Score: 112
Period size: 39 Copynumber: 3.0 Consensus size: 39
59535067 TAATTTAGTT
* * *
59535077 TGAGTCTTTAATTATTTCATAA-CTTGGACAACATTAATA
1 TGAGTCTTTAATTATGTCATAATC-TGAACATCATTAATA
* *
59535116 TGAGTTTTTAATTATGTCATAATCTGAACATCATT-ATT
1 TGAGTCTTTAATTATGTCATAATCTGAACATCATTAATA
* * * *
59535154 TGTA-TCTTTAATTATGTCCTAGTTTGAACATCTTTAATA
1 TG-AGTCTTTAATTATGTCATAATCTGAACATCATTAATA
59535193 CATGTTTTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
38 30 0.48
39 32 0.51
40 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (39 bp):
TGAGTCTTTAATTATGTCATAATCTGAACATCATTAATA
Found at i:59537252 original size:29 final size:28
Alignment explanation
Indices: 59537210--59537299 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
59537200 GTGTACTAAA
*
59537210 CGATGGTCAAAACCATCCCTTCTCATATT
1 CGATGGTC-AAACCATCCCTTTTCATATT
59537239 CGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTC-AAACCATCCCTTTTCATATT
*
59537268 CGATGGTCATCACCATCCCTTTTC-TATT
1 CGATGGTCA-AACCATCCCTTTTCATATT
59537296 CGAT
1 CGAT
59537300 AGGTGTCGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 9 0.16
29 48 0.84
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.34
Consensus pattern (28 bp):
CGATGGTCAAACCATCCCTTTTCATATT
Found at i:59538621 original size:16 final size:16
Alignment explanation
Indices: 59538600--59538631 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59538590 TGAATCGAGT
59538600 GAAATGAACAGCCCAA
1 GAAATGAACAGCCCAA
*
59538616 GAAATGGACAGCCCAA
1 GAAATGAACAGCCCAA
59538632 AACTATCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.25, G:0.22, T:0.06
Consensus pattern (16 bp):
GAAATGAACAGCCCAA
Found at i:59541441 original size:20 final size:20
Alignment explanation
Indices: 59541412--59541458 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
59541402 ATTTTGATAA
*
59541412 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
59541432 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
59541452 ACATGAT
1 ACATGAT
59541459 GTATTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59541534 original size:24 final size:24
Alignment explanation
Indices: 59541507--59541611 Score: 169
Period size: 24 Copynumber: 4.4 Consensus size: 24
59541497 GGAGGAAGTG
59541507 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
59541531 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
59541555 TAAAAGGGCTTATACCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
59541579 TAAAAGGGCTT-TG-CCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
59541601 TAAAAGAGGCT
1 TAAAAG-GGCT
59541612 AGGCCTCCTG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
22 14 0.18
23 5 0.07
24 57 0.75
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:59542478 original size:8 final size:8
Alignment explanation
Indices: 59542467--59542495 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
59542457 AAATTTTGAA
59542467 TTTTTCTT
1 TTTTTCTT
59542475 TTTTTCTT
1 TTTTTCTT
59542483 TTTTTCTT
1 TTTTTCTT
59542491 TTTTT
1 TTTTT
59542496 GAACATTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTCTT
Found at i:59543265 original size:37 final size:37
Alignment explanation
Indices: 59543202--59543347 Score: 202
Period size: 37 Copynumber: 3.9 Consensus size: 37
59543192 AGCTCAGATG
* * *
59543202 AAATCTCCACACGAAGTTATCTGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
59543239 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
59543276 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * ** *
59543313 TAATCTCCACACGTAATCATTAGGTCTTACTCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59543348 ATATATTTCC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:59543545 original size:48 final size:48
Alignment explanation
Indices: 59543486--59543966 Score: 836
Period size: 48 Copynumber: 10.0 Consensus size: 48
59543476 TATACACACG
* * * *
59543486 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
59543534 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
59543582 TCTCATATATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
59543630 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* * *
59543678 TCTCATATATATTTCATATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
59543726 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
59543774 TCTCATACATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
59543822 TCTCATACATATTTCACATTAGCCATTCGACTTTACCACATGTACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
59543870 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
59543918 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
59543966 T
1 T
59543967 ATTTATCTTG
Statistics
Matches: 411, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 411 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:59548389 original size:39 final size:39
Alignment explanation
Indices: 59548335--59548413 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
59548325 ATAATCATTT
59548335 ACACAAAGTGAGTATATTGCTATTTATGCCACACTCAAA
1 ACACAAAGTGAGTATATTGCTATTTATGCCACACTCAAA
59548374 ACACAAAGTGAGTATATTGCTATTTATGCCACACTCAAA
1 ACACAAAGTGAGTATATTGCTATTTATGCCACACTCAAA
59548413 A
1 A
59548414 TATACAATCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (39 bp):
ACACAAAGTGAGTATATTGCTATTTATGCCACACTCAAA
Found at i:59553604 original size:31 final size:31
Alignment explanation
Indices: 59553527--59553639 Score: 126
Period size: 31 Copynumber: 3.7 Consensus size: 31
59553517 TTAGTTTTGA
*
59553527 CATA-TACTGGGCCGAAGCC-TTTCATTTAA-
1 CATATTACTGGGCCGAAGCCTTTTCA-TAAAT
** * *
59553556 C-GGTTACTAGGCTGAAGCCTTTTCATAAAT
1 CATATTACTGGGCCGAAGCCTTTTCATAAAT
59553586 CATATTACTGGGCCGAAGCCTTTTCATAAAT
1 CATATTACTGGGCCGAAGCCTTTTCATAAAT
* *
59553617 CATATCATTGGGCCGAAGCCTTT
1 CATATTACTGGGCCGAAGCCTTT
59553640 ACTGTAAACG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
29 17 0.25
30 6 0.09
31 46 0.67
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (31 bp):
CATATTACTGGGCCGAAGCCTTTTCATAAAT
Found at i:59555521 original size:25 final size:25
Alignment explanation
Indices: 59555493--59555571 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
59555483 ACTCAGCCCT
*
59555493 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
59555518 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
59555540 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
59555565 ATCACAT
1 ATCACAT
59555572 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:59555617 original size:49 final size:49
Alignment explanation
Indices: 59555457--59555988 Score: 871
Period size: 49 Copynumber: 11.0 Consensus size: 49
59555447 ATCACATTTT
* * * * * *
59555457 ACACTTCCACATCCATCACGTTGGCCACTCA-GCCCTATCACATATAT--
1 ACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATAC
* *
59555504 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59555553 AC-C-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59555600 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
59555649 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
59555698 AC-C-TTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59555745 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
59555794 ACACTTTCACATTCATCACATGGGCCATTTGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59555843 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59555892 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
59555941 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
59555989 TATCTCATAC
Statistics
Matches: 458, Mismatches: 20, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 126 0.28
48 4 0.01
49 327 0.71
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:59555718 original size:145 final size:145
Alignment explanation
Indices: 59555457--59555988 Score: 935
Period size: 145 Copynumber: 3.7 Consensus size: 145
59555447 ATCACATTTT
* * * * * *
59555457 ACACTTCCACATCCATCACGTTGGCCACTCA-GCCCTATCACATATAT--ACACTTTCACATTCA
1 ACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATACACACTTTCACATTCA
59555519 TCACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
65 TCACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
59555584 CTTATCACATATATAC
130 CTTATCACATATATAC
59555600 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
59555665 CACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCC
66 CACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCC
*
59555730 TTATTACATATATAC
131 TTATCACATATATAC
59555745 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
* *
59555810 CACATGGGCCATTTGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGG
66 CACATTGGCCATTCGGCCTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGG
59555875 CCTTATCACATATATAC
129 CCTTATCACATATATAC
59555892 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
59555957 CACATTGGCCATTCGGCCTTATCACATATATA
66 CACATTGGCCATTCGGCCTTATCACATATATA
59555989 TATCTCATAC
Statistics
Matches: 372, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
142 2 0.01
143 38 0.10
145 193 0.52
146 1 0.00
147 138 0.37
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (145 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCC
TTATCACATATATAC
Found at i:59558586 original size:26 final size:26
Alignment explanation
Indices: 59558496--59558631 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
59558486 TTGGAGGCCT
59558496 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
59558520 AGCCCTTTTCGATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
59558545 AGTCCTTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
59558571 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
59558597 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
59558623 GGCCCTTTT
1 AGCCCTTTT
59558632 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 32 0.33
26 55 0.56
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:59559461 original size:27 final size:27
Alignment explanation
Indices: 59559431--59559522 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
59559421 GGGCACATTC
*
59559431 GTCATTTTACCATACAGGGG-TATTACG
1 GTCATTTTACCCTACAGGGGCT-TTACG
* *
59559458 GTCACTTTACCCTACAGGGGCTTTATG
1 GTCATTTTACCCTACAGGGGCTTTACG
*
59559485 GTC-TCTTTACCCTATAGGGGCTTTACG
1 GTCAT-TTTACCCTACAGGGGCTTTACG
*
59559512 GTCTTTTTACC
1 GTCATTTTACC
59559523 TAATAGGGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCTTTACG
Found at i:59559690 original size:27 final size:27
Alignment explanation
Indices: 59559660--59559870 Score: 191
Period size: 27 Copynumber: 7.9 Consensus size: 27
59559650 GTAACTTTGT
*
59559660 AAATCAGGGGTATTTAGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* ** *
59559687 AAAT-TGAGGGTATTTCAGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
59559714 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
59559741 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
* *
59559768 AAAT-TGAGGGTATTTCGGTAATTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * * *
59559795 AAACCAAGGGTATTTTAGCAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
*
59559822 AGA-CTA-GGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
**
59559848 TGATC-GAGGGTATTTTGGTAATT
1 AAATCAG-GGGTATTTTGGTAATT
59559871 CTGTAAACCG
Statistics
Matches: 151, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
26 24 0.16
27 126 0.83
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:59559726 original size:54 final size:53
Alignment explanation
Indices: 59559555--59559913 Score: 227
Period size: 54 Copynumber: 6.6 Consensus size: 53
59559545 TCATCCTACA
* * * * * **
59559555 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTTAAACC
1 AGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTT-ACAAACC
* *** * * * * ** *
59559609 AATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAATC
1 -AGGGTATTTTGGTAA-TTTTACAAA-CCGAGGGTATTT-TAGTAATTTTACAAACC
* ** * *
59559665 AGGGGTATTTAGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAACC
* * **
59559719 AGTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTTGGTAATTTTACAAACCGA-GGGTATTTTAGTAATTTTACAAA-CC
* * * * *
59559774 AGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACT
1 AGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAACC
** * * * **
59559827 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTCTGTAAACC
1 AGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAACC
* ** *
59559880 GAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 -AGGGTATTTTGGTAATTTTACAAACCGAGGGTA
59559914 AAACAGTAAT
Statistics
Matches: 236, Mismatches: 58, Indels: 21
0.75 0.18 0.07
Matches are distributed among these distances:
53 43 0.18
54 131 0.56
55 23 0.10
56 21 0.09
57 18 0.08
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAACC
Found at i:59559754 original size:81 final size:81
Alignment explanation
Indices: 59559665--59559899 Score: 296
Period size: 81 Copynumber: 2.9 Consensus size: 81
59559655 TTTGTAAATC
*
59559665 AGGGGTATTTAGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAG-GGTATTT
* *
59559729 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* *
59559746 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTT
*
59559811 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
** * ** ** *
59559827 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAA-TTCTGTAAACCGAGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTC-ACAAACCAAGGGTATTT
*
59559890 TAGTAATTTT
65 TAGCAATTTT
59559900 GTAAATCGAG
Statistics
Matches: 137, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
79 2 0.01
80 60 0.44
81 73 0.53
82 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:59559882 original size:27 final size:25
Alignment explanation
Indices: 59559667--59559913 Score: 138
Period size: 27 Copynumber: 9.2 Consensus size: 25
59559657 TGTAAATCAG
* **
59559667 GGGTATTTAGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTT--AAACCGA
** *
59559694 GGGTATTTCAGTAATTTCACAAACC-A
1 GGGTATTTTGGTAATTT--TAAACCGA
* *
59559720 GTGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTA-AACCGA
**
59559747 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTT--AAACCGA
* *
59559775 GGGTATTTCGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTT--AAACCGA
* * *
59559802 GGGTATTTTAGCAATTTTACAGA-CTA
1 GGGTATTTTGGTAATTTTA-A-ACCGA
* *
59559828 GGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTA--AACCGA
59559855 GGGTATTTTGGTAATTCTGTAAACCGA
1 GGGTATTTTGGTAATT-T-TAAACCGA
* *
59559882 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAA-TTT-TAAACCGA
59559909 GGGTA
1 GGGTA
59559914 AAACAGTAAT
Statistics
Matches: 176, Mismatches: 29, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
25 2 0.01
26 26 0.15
27 138 0.78
28 7 0.04
29 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (25 bp):
GGGTATTTTGGTAATTTTAAACCGA
Found at i:59559921 original size:27 final size:27
Alignment explanation
Indices: 59559865--59559967 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
59559855 GGGTATTTTG
* ****
59559865 GTAATTCTGTAAACCGAGGGTATTTTA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
59559892 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
59559919 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
59559946 GAAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
59559968 CTTTGGTAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:59562269 original size:31 final size:31
Alignment explanation
Indices: 59562234--59562303 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
59562224 TACTGGGCTG
59562234 AAGCCTTTTCATAAATCATATCATTGGGCCA
1 AAGCCTTTTCATAAATCATATCATTGGGCCA
*
59562265 AAGCCTTTTCATAAATCATATCATTGGGCCG
1 AAGCCTTTTCATAAATCATATCATTGGGCCA
59562296 AAGCCTTT
1 AAGCCTTT
59562304 ACTGTAAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (31 bp):
AAGCCTTTTCATAAATCATATCATTGGGCCA
Found at i:59562593 original size:26 final size:26
Alignment explanation
Indices: 59562509--59562644 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
59562499 CTGGAGGCCT
59562509 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
59562533 AGCCCTTTTCGATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
59562558 AGCCCTTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
59562584 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
59562610 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
59562636 AGCCCTTTT
1 AGCCCTTTT
59562645 GCACTTCCTC
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 33 0.33
26 57 0.56
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:59563115 original size:20 final size:20
Alignment explanation
Indices: 59563090--59563146 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
59563080 TGGGTCCAAA
*
59563090 AGCCCATTGGGCCCAATTTT
1 AGCCCATTGGGCCCAATTTC
*
59563110 AGCCCATTGAGCCCAATTTC
1 AGCCCATTGGGCCCAATTTC
59563130 AGCCCATTGAGGCCCAA
1 AGCCCATTG-GGCCCAA
59563147 CTTACCATCG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 27 0.82
21 6 0.18
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (20 bp):
AGCCCATTGGGCCCAATTTC
Found at i:59563494 original size:27 final size:26
Alignment explanation
Indices: 59563464--59563541 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
59563454 GGGCACATTC
59563464 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
59563491 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
59563518 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
59563542 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:59563761 original size:26 final size:27
Alignment explanation
Indices: 59563673--59563823 Score: 164
Period size: 27 Copynumber: 5.7 Consensus size: 27
59563663 TGTAAATTAG
**
59563673 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACCGA
* *
59563700 GGGTATTTCGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCGA
* * * *
59563727 GGGTATTTTAGCAATTTTACAGA-CTA
1 GGGTATTTTGGTAATTTTACAAACCGA
** *
59563753 GGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTACAAACCGA
59563780 GGGTATTTTGGTAATTTGT--AAACCGA
1 GGGTATTTTGGTAATTT-TACAAACCGA
*
59563806 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
59563824 GTAAATGAGG
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
25 1 0.01
26 42 0.40
27 61 0.58
28 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCGA
Found at i:59563783 original size:53 final size:52
Alignment explanation
Indices: 59563673--59563823 Score: 160
Period size: 53 Copynumber: 2.8 Consensus size: 52
59563663 TGTAAATTAG
* *
59563673 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTAC-AACT-AGGGTATTTTGGTAATTTTACAAACCAA
* * ** * *
59563727 GGGTATTTTAGCAATTTTACAGACTAGGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTACA-ACTAGGGTATTTTGGTAATTTTACAAACCAA
* *
59563780 GGGTATTTTGGTAATTTGTA-AACCGAGGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTT-TACAA-CTAGGGTATTTTGGTAATTTT
59563824 GTAAATGAGG
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 59 0.72
54 22 0.27
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.42
Consensus pattern (52 bp):
GGGTATTTTGGTAATTTTACAACTAGGGTATTTTGGTAATTTTACAAACCAA
Found at i:59563833 original size:26 final size:26
Alignment explanation
Indices: 59563645--59563836 Score: 131
Period size: 27 Copynumber: 7.2 Consensus size: 26
59563635 TAGAAAGTCA
* * *
59563645 AGGGTATTTCT-GTAACTTTGTAAATT
1 AGGGTATTT-TGGTAATTTTATAAATG
*
59563671 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTATAAA-TG
* * **
59563699 AGGGTATTTCGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAA-TG
* * * *
59563726 AGGGTATTTTAGCAATTTTACAGACT-
1 AGGGTATTTTGGTAATTTTATA-AATG
*
59563752 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTGGTAATTTTA-TAAAT-G
**
59563779 AGGGTATTTTGGTAATTTGTA-AACCG
1 AGGGTATTTTGGTAATTT-TATAAATG
* *
59563805 AGGGTATTTTAGTAATTTTGTAAATG
1 AGGGTATTTTGGTAATTTTATAAATG
59563831 AGGGTA
1 AGGGTA
59563837 AAACAGTAAT
Statistics
Matches: 131, Mismatches: 25, Indels: 20
0.74 0.14 0.11
Matches are distributed among these distances:
25 2 0.02
26 47 0.36
27 77 0.59
28 5 0.04
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTATAAATG
Found at i:59563869 original size:27 final size:27
Alignment explanation
Indices: 59563815--59563890 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
59563805 AGGGTATTTT
*
59563815 AGTAATTTTGTAAAT-GAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
59563841 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
59563868 AGAAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
59563891 CTTTGGTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 14 0.32
27 30 0.68
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:59567429 original size:39 final size:40
Alignment explanation
Indices: 59567308--59567446 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
59567298 GGATATAACG
* * *
59567308 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
*
59567348 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * *
59567388 ACTCGCACAAATGCCTTCGGG-CTTAACCTGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* *
59567427 ACTCGTACGAACGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
59567447 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.37
40 51 0.59
41 4 0.05
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:59595760 original size:68 final size:64
Alignment explanation
Indices: 59595613--59595769 Score: 181
Period size: 68 Copynumber: 2.4 Consensus size: 64
59595603 TTCACCTGGA
* * * *
59595613 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCCACATGGTGTGCACATAGT
1 ACCACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTACACATGATGTGCACATAGC
* * *
59595677 ATCACCCATGCGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGTACACATGATGTGCAC-T
1 ACCACACATGCGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGTACACATGATGTGCACAT
59595741 CAGC
62 -AGC
* *
59595745 ACCATACATGTGACCTAGCTACATA
1 ACCACACATGCGACCTAGCTACATA
59595770 CCATCTGTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
64 22 0.28
65 2 0.03
66 1 0.01
67 2 0.03
68 51 0.65
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (64 bp):
ACCACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTACACATGATGTGCACATAGC
Found at i:59596458 original size:30 final size:30
Alignment explanation
Indices: 59596424--59596484 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59596414 TCCTTAACTC
*
59596424 AAACTTTTCCAAAATTACAATTTTGCCCCT
1 AAACTTTTCCAAAATTACAATTTTACCCCT
* * * *
59596454 AAACTTTTGCATATTTACACTTTTACCCCT
1 AAACTTTTCCAAAATTACAATTTTACCCCT
59596484 A
1 A
59596485 GGCTCGAGAA
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:0.26, G:0.03, T:0.39
Consensus pattern (30 bp):
AAACTTTTCCAAAATTACAATTTTACCCCT
Found at i:59602812 original size:18 final size:19
Alignment explanation
Indices: 59602781--59602818 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
59602771 AGGCCTCTTT
*
59602781 GGATTTTATTTTTAATTTG
1 GGATTTTATATTTAATTTG
*
59602800 GGATTTTA-ATTTACTTTG
1 GGATTTTATATTTAATTTG
59602818 G
1 G
59602819 TTATAACTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (19 bp):
GGATTTTATATTTAATTTG
Found at i:59603836 original size:36 final size:35
Alignment explanation
Indices: 59603776--59603848 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 35
59603766 AGAGAAAGAA
*
59603776 GAAATCCATTTAGGGTCACATATTAGGCACACATT
1 GAAAGCCATTTAGGGTCACATATTAGGCACACATT
59603811 GAAAGCCATTTAGGGCTCACATATTAGGCACACATT
1 GAAAGCCATTTAGGG-TCACATATTAGGCACACATT
59603847 GA
1 GA
59603849 TCTTTATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 14 0.39
36 22 0.61
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (35 bp):
GAAAGCCATTTAGGGTCACATATTAGGCACACATT
Found at i:59606992 original size:40 final size:40
Alignment explanation
Indices: 59606937--59607153 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
59606927 CGGATGATAA
*
59606937 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
59606977 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
59607017 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
**
59607057 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
59607097 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
59607137 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
59607154 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 16 0.10
40 151 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:59616190 original size:30 final size:30
Alignment explanation
Indices: 59616135--59616265 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
59616125 ATAGTGAATC
*
59616135 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
59616164 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
59616194 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
59616222 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
59616252 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59616266 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:59616245 original size:58 final size:58
Alignment explanation
Indices: 59616134--59616265 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
59616124 TATAGTGAAT
* * * * *
59616134 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
59616193 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
59616251 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
59616266 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:59624143 original size:30 final size:30
Alignment explanation
Indices: 59624088--59624218 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
59624078 ATAGTGAATC
*
59624088 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
59624117 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
59624147 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
59624175 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
59624205 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59624219 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:59624198 original size:58 final size:58
Alignment explanation
Indices: 59624087--59624218 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
59624077 TATAGTGAAT
* * * * *
59624087 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
59624146 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
59624204 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
59624219 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:59626101 original size:40 final size:40
Alignment explanation
Indices: 59626046--59626268 Score: 310
Period size: 40 Copynumber: 5.6 Consensus size: 40
59626036 GATGATAACG
* *
59626046 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCC
*
59626086 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCC
59626126 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAT-TCC
* * *
59626166 GGGCTAAGTCCCAAAGGCATTTGTACGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAT-TCC
* *
59626206 GGGCTAAGTCCCGAAGGCATTTGTGCGAA-CTACGATATT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTA-ATTCC
59626246 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
59626269 AGCGAGTAGC
Statistics
Matches: 168, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 162 0.96
41 2 0.01
42 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCC
Found at i:59626183 original size:80 final size:80
Alignment explanation
Indices: 59626046--59626301 Score: 351
Period size: 80 Copynumber: 3.2 Consensus size: 80
59626036 GATGATAACG
* *
59626046 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGT
59626110 GCGAGTTACTA-ATTCC
65 GCGAGTTACTATA-TCC
* *
59626126 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCATTTGTA
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
59626191 CGAGTTACTATATCC
66 CGAGTTACTATATCC
* * * *
59626206 GGGCTAAGTCCCGAAGGCATTTGTGCGAA-CTACGATATTCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
59626270 GCGAG-TAGCTATATCC
65 GCGAGTTA-CTATATCC
* *
59626286 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
59626302 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
79 16 0.10
80 140 0.88
81 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:59626259 original size:120 final size:120
Alignment explanation
Indices: 59626046--59626287 Score: 355
Period size: 120 Copynumber: 2.0 Consensus size: 120
59626036 GATGATAACG
* * *
59626046 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCAAAGGCATTTGTACGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
** * *
59626111 CGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCC
66 CGAACTACGAATTCCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC
*
59626166 GGGCTAAGTCCCAAAGGCATTTGTACGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCAAAGGCATTTGTACGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
*
59626230 GCGAACTACGATATT-CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCC
65 GCGAACTACGA-ATTCCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC
59626286 GG
1 GG
59626288 TTAAATCCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
119 4 0.04
120 103 0.94
121 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
GGGCTAAGTCCCAAAGGCATTTGTACGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAACTACGAATTCCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC
Found at i:59628659 original size:31 final size:32
Alignment explanation
Indices: 59628608--59628726 Score: 159
Period size: 32 Copynumber: 3.8 Consensus size: 32
59628598 CAACCCATCA
* * * * *
59628608 CAATCTCAATTGGGCCTAGCCAATCTCAAAAT
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAT
* *
59628640 CACTATTAGTTGGG-CTAGCCCATATCAGAAT
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAT
*
59628671 CAATATCAGTTGGGCCTAGCCCATATCAGACT
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAT
59628703 CAATATCAGTTGGGCCTAGCCCAT
1 CAATATCAGTTGGGCCTAGCCCAT
59628727 TTCAATATCA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
31 26 0.34
32 50 0.66
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (32 bp):
CAATATCAGTTGGGCCTAGCCCATATCAGAAT
Found at i:59630007 original size:14 final size:14
Alignment explanation
Indices: 59629988--59630023 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
59629978 ACGAATAAAG
59629988 AAGGGAGATGAGAA
1 AAGGGAGATGAGAA
59630002 AAGGGAGATGAGAA
1 AAGGGAGATGAGAA
59630016 AAGGGAGA
1 AAGGGAGA
59630024 CCAAATTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (14 bp):
AAGGGAGATGAGAA
Found at i:59633669 original size:27 final size:26
Alignment explanation
Indices: 59633636--59633699 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
59633626 ACCCCAGTTG
59633636 TAAAATTACCAAAGTACCCCCGATTTA
1 TAAAATTACCAAA-TACCCCCGATTTA
* *
59633663 TAAAATTACCCAAATATCCTCGATTTA
1 TAAAATTA-CCAAATACCCCCGATTTA
*
59633690 CAAAATTACC
1 TAAAATTACC
59633700 GTTTTACCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.06
27 26 0.79
28 5 0.15
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCCGATTTA
Found at i:59633708 original size:54 final size:54
Alignment explanation
Indices: 59633650--59633870 Score: 174
Period size: 54 Copynumber: 4.1 Consensus size: 54
59633640 ATTACCAAAG
* *
59633650 TACCCCCGATTTATAAAATTACCCA-AATATCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTA-CCATAATACCCTCGATTTACAAAATTACCGTTT
* ** ** * *
59633704 TACCCTCGATTTATAGAATTATTATTTTACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCATAATACCCTCGATTTACAAAATTACCGTTT
* * * ** ** * * * **
59633758 TACCCTCGATTGACAGAATTACTGTTTTACCCTCAATTGACAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACCATAATACCCTCGATTTACAAAATTACCGTTT
* * ** ** *
59633812 TACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCATAATACCCTCGATTTACAAAATTACCGTTT
59633866 TACCC
1 TACCC
59633871 CTAGGATGTT
Statistics
Matches: 143, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 1 0.01
54 142 0.99
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCATAATACCCTCGATTTACAAAATTACCGTTT
Found at i:59633710 original size:27 final size:27
Alignment explanation
Indices: 59633680--59633870 Score: 258
Period size: 27 Copynumber: 7.1 Consensus size: 27
59633670 ACCCAAATAT
* *
59633680 CCTCGATTTACAAAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* * *
59633707 CCTCGATTTATAGAATTATTATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
59633734 CCTCGATTTACAGAATTA-TCGTTTTAC
1 CCTCGATTTACAGAATTACT-GTTTTAC
*
59633761 CCTCGATTGACAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* * *
59633788 CCTCAATTGACAGAATTATTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
59633815 CCTCAATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
59633842 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
59633869 CC
1 CC
59633871 CTAGGATGTT
Statistics
Matches: 146, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 144 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACTGTTTTAC
Found at i:59633890 original size:81 final size:80
Alignment explanation
Indices: 59633680--59633898 Score: 255
Period size: 81 Copynumber: 2.7 Consensus size: 80
59633670 ACCCAAATAT
* * * * *
59633680 CCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTATTATTTTACCCTCGATTTAC
1 CCTCGATTTACAGAATTACCGTTTTACCCTAGATGT-TAGAATTATTGTTTTACCCTCAATTTAC
*
59633745 AGAATTATCGTTTTAC
65 AAAATTATCGTTTTAC
* * **
59633761 CCTCGATTGACAGAATTACTGTTTTACCCTCA-ATTGACAGAATTATTGTTTTACCCTCAATTTA
1 CCTCGATTTACAGAATTACCGTTTTACCCT-AGA-TGTTAGAATTATTGTTTTACCCTCAATTTA
59633825 CAAAATTA-CTGTTTTAC
64 CAAAATTATC-GTTTTAC
* *
59633842 CCTCGATTTACAGAATTACCGTTTTACCCCTAGGATGTTA-AATGATTGTTTTGCCCT
1 CCTCGATTTACAGAATTACCGTTTTA-CCCTA-GATGTTAGAATTATTGTTTTACCCT
59633899 TGTGGGCAAG
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
80 1 0.01
81 106 0.91
82 8 0.07
83 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (80 bp):
CCTCGATTTACAGAATTACCGTTTTACCCTAGATGTTAGAATTATTGTTTTACCCTCAATTTACA
AAATTATCGTTTTAC
Found at i:59634807 original size:6 final size:6
Alignment explanation
Indices: 59634796--59634927 Score: 114
Period size: 6 Copynumber: 21.8 Consensus size: 6
59634786 AACCAAAATG
* *
59634796 AGAATC AGAATC AGAATC AGTAAT- AGAATT AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
59634844 AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAAT- AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
* *
59634892 AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
59634928 GTGAATGCAA
Statistics
Matches: 105, Mismatches: 8, Indels: 26
0.76 0.06 0.19
Matches are distributed among these distances:
5 11 0.10
6 83 0.79
7 8 0.08
8 3 0.03
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (6 bp):
AGAATC
Found at i:59634830 original size:30 final size:30
Alignment explanation
Indices: 59634797--59634927 Score: 176
Period size: 30 Copynumber: 4.3 Consensus size: 30
59634787 ACCAAAATGA
* * *
59634797 GAATCAGAATCAGA-ATCAGTAATAGAATTA
1 GAATCAGAATCA-ATATTAGTAACAGAATCA
59634827 GAATCAGAATCAATATTAGTAACAGAATCA
1 GAATCAGAATCAATATTAGTAACAGAATCA
*
59634857 GAATCAGAATCAATATTAGTAATAGAATCA
1 GAATCAGAATCAATATTAGTAACAGAATCA
*
59634887 GAATCAGAATCAGA-ATTAGGTGACAGAATCA
1 GAATCAGAATCA-ATATTA-GTAACAGAATCA
59634918 GAATCAGAAT
1 GAATCAGAAT
59634928 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
29 1 0.01
30 70 0.76
31 21 0.23
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (30 bp):
GAATCAGAATCAATATTAGTAACAGAATCA
Found at i:59635082 original size:27 final size:26
Alignment explanation
Indices: 59635045--59635110 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
59635035 AGCATGGCTG
*
59635045 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
59635071 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
59635098 CCAGAATCAGATA
1 CCAGAA-CAGATA
59635111 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:59635115 original size:27 final size:27
Alignment explanation
Indices: 59635045--59635118 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
59635035 AGCATGGCTG
* *
59635045 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
59635071 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
59635098 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
59635119 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:59635125 original size:27 final size:27
Alignment explanation
Indices: 59635069--59635126 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
59635059 GTGACAGAGT
* * *
59635069 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
59635096 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
59635123 CACC
1 CACC
59635127 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:59635331 original size:22 final size:22
Alignment explanation
Indices: 59635283--59635341 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
59635273 GTAAATACGT
*
59635283 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
59635305 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
59635327 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
59635342 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:59635473 original size:27 final size:26
Alignment explanation
Indices: 59635429--59635511 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
59635419 TCGATCGGTC
* * *
59635429 AACAGATATTGTGACAGAGTCACTAG
1 AACAAATATTGTGGCAGAGCCACTAG
*
59635455 ATACAAATATTGTGGCAGAGCCACCAG
1 A-ACAAATATTGTGGCAGAGCCACTAG
* *
59635482 AACAGATATTTGTGGCATAGCCACTAG
1 AACAAATA-TTGTGGCAGAGCCACTAG
59635509 AAC
1 AAC
59635512 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
AACAAATATTGTGGCAGAGCCACTAG
Found at i:59635740 original size:27 final size:27
Alignment explanation
Indices: 59635710--59635905 Score: 216
Period size: 27 Copynumber: 7.3 Consensus size: 27
59635700 GGGGCAAAAT
* * *
59635710 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
59635737 GGTAATTCTACCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
*
59635764 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59635791 GATAATTCTACCCTAC-AGGAGTATTTT
1 GGTAATTCTACCCTACAAGG-GTATTTC
* *
59635818 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
59635845 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
59635872 AGAAATTCTACCCCACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
59635899 AGTAATT
1 GGTAATT
59635906 TCACAATCAA
Statistics
Matches: 147, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.04
27 135 0.92
28 6 0.04
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:59635776 original size:54 final size:54
Alignment explanation
Indices: 59635710--59635905 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 54
59635700 GGGGCAAAAT
* * *
59635710 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTCAGTAATTCTACCCTACAGGAGTATTTC
* * *
59635764 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGAGTATTTT
1 GGTAATTCTACCCCACAAGGGTATTTCAG-TAATTCTACCCTACAGGAGTATTTC
* * * * *
59635818 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTCAGTAATTCTACCCTACAGGAGTATTTC
* * *
59635872 AGAAATTCTACCCCACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCCACAAGGGTATTTCAGTAATT
59635906 TCACAATCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCCACAAGGGTATTTCAGTAATTCTACCCTACAGGAGTATTTC
Found at i:59635904 original size:81 final size:81
Alignment explanation
Indices: 59635712--59635905 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 81
59635702 GGCAAAATGG
* * * * * *
59635712 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGAGTATTTCGGTATTTCTACCC
1 TAATTCTACCCCACAGGGGTATTTCGGTAATTCTACCCTAAAGGAGTATTTCAGTAATTCTACCC
59635777 TACAAGGGTATTTCGA
66 TACAAGGGTATTTCGA
* * * *
59635793 TAATTCTACCCTACAGGAGTATTTTGGTAATTCTATCCTATAAGG-GTATTTCAGTAATTCTACC
1 TAATTCTACCCCACAGGGGTATTTCGGTAATTCTACCCTA-AAGGAGTATTTCAGTAATTCTACC
* *
59635857 CTATAGGGGTATTTCAGA
65 CTACAAGGGTATTTC-GA
*
59635875 -AATTCTACCCCACAGGGGTATTTCAGTAATT
1 TAATTCTACCCCACAGGGGTATTTCGGTAATT
59635906 TCACAATCAA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
81 90 0.95
82 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (81 bp):
TAATTCTACCCCACAGGGGTATTTCGGTAATTCTACCCTAAAGGAGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCGA
Found at i:59635940 original size:27 final size:27
Alignment explanation
Indices: 59635910--59636184 Score: 356
Period size: 27 Copynumber: 10.2 Consensus size: 27
59635900 GTAATTTCAC
* *
59635910 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59635937 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
59635964 AA-CAGAGGGTAAACCAATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
59635991 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59636018 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59636045 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
59636072 AATCGAGGGTAAAATGATAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59636099 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
59636126 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
59636153 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59636180 AATCG
1 AATCG
59636185 GGAGTACTTT
Statistics
Matches: 213, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.00
27 210 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:59636213 original size:54 final size:52
Alignment explanation
Indices: 59635910--59636215 Score: 285
Period size: 54 Copynumber: 5.7 Consensus size: 52
59635900 GTAATTTCAC
* * * *
59635910 AATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATT-T-TAAATCGAGGGTAAAACGGTAATTCTGTA
**** * *
59635964 AA-CAGAGGGTAAACCAATAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAATGGTAATT-T-TAAATCGAGGGTAAAACGGTAATTCTGTA
* *
59636018 AATTGAGGGTAAAACGGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATT-T-TAAATC-GAGGGTAAAACGGTAATTCTGTA
*
59636072 AATCGAGGGTAAAATGATAATTTTAAAAATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTT--AAATCGAGGGTAAAACGGTAATTCTGTA
** *
59636126 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATT-T-TAAATCGAGGGTAAAACGGTAATTCTGTA
***
59636180 AATCG-GGAGTACTTTGGTAATTTTACAAGTCGAGGG
1 AATCGAGG-GTAAAATGGTAATTTTA-AA-TCGAGGG
59636216 CATTTCAGTA
Statistics
Matches: 213, Mismatches: 28, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
52 3 0.01
53 8 0.04
54 199 0.93
55 2 0.01
56 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (52 bp):
AATCGAGGGTAAAATGGTAATTTTAAATCGAGGGTAAAACGGTAATTCTGTA
Found at i:59638608 original size:39 final size:39
Alignment explanation
Indices: 59638565--59638739 Score: 248
Period size: 39 Copynumber: 4.5 Consensus size: 39
59638555 GGATATAATG
* *
59638565 ACTCGCTCAAATGCCTTCGGGAC-AAACCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTT-TAGTA
*
59638604 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTAGTA
*
59638643 ACTCGCACAAATGCCTTCGGG-CTTAACCCGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTAGTA
*
59638681 ACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGG-TTTAGTA
* *
59638720 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
59638740 ATCTTAGTCC
Statistics
Matches: 125, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
38 46 0.37
39 70 0.56
40 9 0.07
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTAGTA
Found at i:59638722 original size:77 final size:78
Alignment explanation
Indices: 59638565--59638739 Score: 248
Period size: 77 Copynumber: 2.3 Consensus size: 78
59638555 GGATATAATG
* * *
59638565 ACTCGCTCAAATGCCTTCGGGACAAACCCGGTTATAGTAACTCGCACGAATGCCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACAAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTA
59638630 ACCCGGTTTAGTA
66 ACCCGGTTTAGTA
*
59638643 ACTCGCACAAATGCCTTCGGG-CTTAACCCGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTT
1 ACTCGCACAAATGCCTTCGGGAC-AAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTT
*
59638705 AACCCGGATTTATTA
65 AACCCGG-TTTAGTA
* *
59638720 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
59638740 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
76 10 0.11
77 50 0.57
78 28 0.32
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (78 bp):
ACTCGCACAAATGCCTTCGGGACAAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTA
ACCCGGTTTAGTA
Found at i:59638775 original size:116 final size:117
Alignment explanation
Indices: 59638565--59638789 Score: 264
Period size: 116 Copynumber: 1.9 Consensus size: 117
59638555 GGATATAATG
* *
59638565 ACTCGCTCAAATGCCTTCGGGACAAACCCGGTTATAGTAACTCGCACGAATGCCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACAAACCCGGTTATAGTAACTCGCACGAACGCCTTCGGGACTTA
* **
59638630 ACCCGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGATTTAGTA
66 ACCCGGTATAGTAACTAACACAAATGCCTTCGGGACTTAACCCGATTTAGTA
* *
59638681 ACTCGCACAAATGCCTTCGGG-CTTAACCCGGATT-TATTAACTCGCACGAACGCCTTC-GGATC
1 ACTCGCACAAATGCCTTCGGGAC-AAACCCGG-TTATAGTAACTCGCACGAACGCCTTCGGGA-C
** * *
59638743 TTAGTCCGG-ATATGTCACTTAACACAAA-GCCTTCGGGACTTAGCCCG
63 TTAACCCGGTATA-GTAAC-TAACACAAATGCCTTCGGGACTTAACCCG
59638790 GACATCATTC
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
115 6 0.07
116 69 0.75
117 17 0.18
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (117 bp):
ACTCGCACAAATGCCTTCGGGACAAACCCGGTTATAGTAACTCGCACGAACGCCTTCGGGACTTA
ACCCGGTATAGTAACTAACACAAATGCCTTCGGGACTTAACCCGATTTAGTA
Found at i:59646220 original size:39 final size:40
Alignment explanation
Indices: 59646104--59646281 Score: 229
Period size: 39 Copynumber: 4.5 Consensus size: 40
59646094 GGATATAATG
* * * *
59646104 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCAGATT-TAGTA
* *
59646144 ACTCGCACGAATGCCTTCGGGACTTAACCCAGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTA
59646184 ACTCGCACAAATGCCTTCGGG-CTTAACCC-GAATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCAG-ATTTAGTA
*
59646223 ACTCGCACAAATGCCTTCGGG-CTTAACCCAGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTA
* *
59646262 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
59646282 ATCTTAGTCC
Statistics
Matches: 126, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 47 0.37
41 9 0.07
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTA
Found at i:59646317 original size:78 final size:79
Alignment explanation
Indices: 59646137--59646326 Score: 206
Period size: 78 Copynumber: 2.4 Consensus size: 79
59646127 AAACCCCGGT
** * * *
59646137 TATAGTAACTCGCACGAATGCCTTCGGGACTTAACCCAGGTTTAGTAACTCGCACAAATGCCTTC
1 TATAGTAACTAACACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAAACGCCTTC
59646202 GGGCTTAACCCGAA
66 GGGCTTAACCCGAA
* ** * *
59646216 TTTAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCAGATTTATTAACTCGCACGAACGCCTTC
1 TATAGTAACTAACACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAAACGCCTTC
* ** *
59646280 GGATCTTAGTCCGGA
66 GG-GCTTAACCCGAA
*
59646295 TAT-GTCACTTAACACAAA-GCCTTCGGGACTTA
1 TATAGTAAC-TAACACAAATGCCTTCGGGACTTA
59646327 GCCCGGACAT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
78 47 0.50
79 47 0.50
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (79 bp):
TATAGTAACTAACACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAAACGCCTTC
GGGCTTAACCCGAA
Found at i:59653810 original size:10 final size:10
Alignment explanation
Indices: 59653797--59653842 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
59653787 AGCTCACTTG
59653797 AGCTCGTTTT
1 AGCTCGTTTT
*
59653807 AGCTCGTTTG
1 AGCTCGTTTT
*
59653817 AGCTCGAATTT
1 AGCTCG-TTTT
*
59653828 AGCTCGTTTC
1 AGCTCGTTTT
59653838 AGCTC
1 AGCTC
59653843 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTT
Done.