Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 185 of 297
Found at i:62599083 original size:31 final size:31
Alignment explanation
Indices: 62599043--62599112 Score: 131
Period size: 31 Copynumber: 2.2 Consensus size: 31
62599033 GAAGTTGTTT
62599043 TAAATTAAACTTTCTTATTGATATAAAACTCC
1 TAAA-TAAACTTTCTTATTGATATAAAACTCC
62599075 TAAATAAACTTTCTTATTGATATAAAACTCC
1 TAAATAAACTTTCTTATTGATATAAAACTCC
62599106 TAAATAA
1 TAAATAA
62599113 CTTAAACTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 34 0.89
32 4 0.11
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (31 bp):
TAAATAAACTTTCTTATTGATATAAAACTCC
Found at i:62601343 original size:51 final size:50
Alignment explanation
Indices: 62601288--62601428 Score: 212
Period size: 51 Copynumber: 2.8 Consensus size: 50
62601278 TTAATTTAAA
*
62601288 GATGCAAACTTTAACTAACATGTGAGTTACGTAATGCATGTCATTATTTAT
1 GATGCAAAC-TTAACTAACATGAGAGTTACGTAATGCATGTCATTATTTAT
* *
62601339 GATGCAAACTTAACTAATCATGAGAGTTGCATAATGCATGTCATTATTTAT
1 GATGCAAACTTAACTAA-CATGAGAGTTACGTAATGCATGTCATTATTTAT
*
62601390 GATGCATACTTAACTAACATGAGAGTTACAG-AATGCATG
1 GATGCAAACTTAACTAACATGAGAGTTAC-GTAATGCATG
62601429 ACTTTATTAA
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 27 0.33
51 55 0.67
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (50 bp):
GATGCAAACTTAACTAACATGAGAGTTACGTAATGCATGTCATTATTTAT
Found at i:62601436 original size:50 final size:50
Alignment explanation
Indices: 62601271--62601436 Score: 201
Period size: 51 Copynumber: 3.3 Consensus size: 50
62601261 GTTACTTAAC
* *
62601271 GCATGAC-TTAATTTAAAGATGCAAACTTTAACTAACATGTGAGTTAC-GTAAT
1 GCATGACATT-ATTT-ATGATGCAAAC-TTAACTAACATGAGAGTTACAG-AAT
* * *
62601323 GCATGTCATTATTTATGATGCAAACTTAACTAATCATGAGAGTTGCATAAT
1 GCATGACATTATTTATGATGCAAACTTAACTAA-CATGAGAGTTACAGAAT
* *
62601374 GCATGTCATTATTTATGATGCATACTTAACTAACATGAGAGTTACAGAAT
1 GCATGACATTATTTATGATGCAAACTTAACTAACATGAGAGTTACAGAAT
*
62601424 GCATGACTTTATT
1 GCATGACATTATT
62601437 AAATGTAGAA
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
50 34 0.34
51 55 0.54
52 10 0.10
53 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.35
Consensus pattern (50 bp):
GCATGACATTATTTATGATGCAAACTTAACTAACATGAGAGTTACAGAAT
Found at i:62604102 original size:100 final size:100
Alignment explanation
Indices: 62603929--62604114 Score: 345
Period size: 100 Copynumber: 1.9 Consensus size: 100
62603919 GTTGACTGTC
*
62603929 GTCGTGGTGTTGCTCTGTGAAACTTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
1 GTCGTGGTGTTGCTCTGTGAAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
62603994 GCTCGAACACCAAAGTGCCCCCTATAAGGACTATT
66 GCTCGAACACCAAAGTGCCCCCTATAAGGACTATT
* *
62604029 GTCGTGGTGTTGCTCTGTGGAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACTATGAT
1 GTCGTGGTGTTGCTCTGTGAAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
62604094 GCTCGAACACCAAAGTGCCCC
66 GCTCGAACACCAAAGTGCCCC
62604115 TTGCAAGGCC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (100 bp):
GTCGTGGTGTTGCTCTGTGAAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
GCTCGAACACCAAAGTGCCCCCTATAAGGACTATT
Found at i:62612703 original size:42 final size:42
Alignment explanation
Indices: 62612639--62612722 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
62612629 TAATCAGCGT
*
62612639 CTGAAACCACAAATTTAGATGATAAATATATATTTAAAAATA
1 CTGAAACCACAAATTTAAATGATAAATATATATTTAAAAATA
*
62612681 CTGAAACCATAAATTTAAATGATAAATATATATTTAAAAATA
1 CTGAAACCACAAATTTAAATGATAAATATATATTTAAAAATA
62612723 AAATAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (42 bp):
CTGAAACCACAAATTTAAATGATAAATATATATTTAAAAATA
Found at i:62612726 original size:19 final size:19
Alignment explanation
Indices: 62612662--62612727 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
62612652 TTTAGATGAT
62612662 AAATATATATTTAAAAATA
1 AAATATATATTTAAAAATA
* * *
62612681 CTGAAACCATAAATTTAAATGAT-
1 ---AAA-TATATATTTAAA-AATA
62612704 AAATATATATTTAAAAATA
1 AAATATATATTTAAAAATA
62612723 AAATA
1 AAATA
62612728 AAATAAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
18 2 0.06
19 15 0.43
20 3 0.09
22 3 0.09
23 10 0.29
24 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATATATATTTAAAAATA
Found at i:62613091 original size:20 final size:20
Alignment explanation
Indices: 62613062--62613102 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
62613052 TGAATCTCAC
62613062 TATATACATATTTTCTTGAT
1 TATATACATATTTTCTTGAT
*
62613082 TATATGCATATTTTCTTGAT
1 TATATACATATTTTCTTGAT
62613102 T
1 T
62613103 TTTGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (20 bp):
TATATACATATTTTCTTGAT
Found at i:62616019 original size:43 final size:42
Alignment explanation
Indices: 62615864--62616020 Score: 120
Period size: 43 Copynumber: 3.7 Consensus size: 42
62615854 TGTGTTTTCT
* *
62615864 TGTAAGACCACTTCTGGGACGTTGGCGTCGAT-TTATGACTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-ATATT-TGA-TTACG
* * * * * **
62615908 TGTGAGACCATGTCTGGGACATCGGCATCGTATTTGATTTTG
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACG
*** * * *
62615950 TGTAAGACCTTTTCTAGGATAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATC-ATATTTGATTACG
62615993 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
62616021 TGTATGAGCT
Statistics
Matches: 84, Mismatches: 25, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
42 25 0.30
43 34 0.40
44 25 0.30
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACG
Found at i:62618643 original size:40 final size:40
Alignment explanation
Indices: 62618543--62618807 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
62618533 GCTCCTCGTT
* * * *
62618543 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
62618583 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
62618622 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
62618662 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
62618702 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
62618742 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
62618783 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
62618808 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:62618767 original size:80 final size:80
Alignment explanation
Indices: 62618510--62618807 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
62618500 AAATCACGTA
* ** * * *
62618510 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
62618572 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
62618588 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
62618651 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
62618668 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
62618732 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
62618748 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
62618808 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:62618816 original size:41 final size:41
Alignment explanation
Indices: 62618739--62618816 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
62618729 TTTGTATCTC
* * *
62618739 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
62618780 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
62618817 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:62625932 original size:27 final size:27
Alignment explanation
Indices: 62625859--62625972 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 27
62625849 AGCATGGCTG
* * * *
62625859 CCAGAACAGATA-TTGTGACATAGTCA
1 CCAGAAAAGATATTTGTGGCGTAGCCA
* * *
62625885 CCAGATACAGATA-TTGCGGCGGAGCCA
1 CCAGA-AAAGATATTTGTGGCGTAGCCA
62625912 CCAGAAAAGATATTTGTGGCGTAGCCA
1 CCAGAAAAGATATTTGTGGCGTAGCCA
** *
62625939 TAAGAAATAGATATTTGTGGCATAGCCA
1 CCAGAAA-AGATATTTGTGGCGTAGCCA
62625967 CCAGAA
1 CCAGAA
62625973 CGCTTCCTCC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 11 0.15
27 38 0.53
28 23 0.32
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (27 bp):
CCAGAAAAGATATTTGTGGCGTAGCCA
Found at i:62625959 original size:28 final size:27
Alignment explanation
Indices: 62625914--62625966 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
62625904 CGGAGCCACC
*
62625914 AGAAAAGATATTTGTGGCGTAGCCATA
1 AGAAAAGATATTTGTGGCATAGCCATA
62625941 AGAAATAGATATTTGTGGCATAGCCA
1 AGAAA-AGATATTTGTGGCATAGCCA
62625967 CCAGAACGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (27 bp):
AGAAAAGATATTTGTGGCATAGCCATA
Found at i:62629628 original size:27 final size:27
Alignment explanation
Indices: 62629555--62629668 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 27
62629545 AGCATGGCTG
* * * *
62629555 CCAGAACAGATA-TTGTGACATAGTCA
1 CCAGAAAAGATATTTGTGGCGTAGCCA
* * *
62629581 CCAGATACAGATA-TTGCGGCGGAGCCA
1 CCAGA-AAAGATATTTGTGGCGTAGCCA
62629608 CCAGAAAAGATATTTGTGGCGTAGCCA
1 CCAGAAAAGATATTTGTGGCGTAGCCA
** *
62629635 TAAGAAATAGATATTTGTGGCATAGCCA
1 CCAGAAA-AGATATTTGTGGCGTAGCCA
62629663 CCAGAA
1 CCAGAA
62629669 CGCTTCCTCC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 11 0.15
27 38 0.53
28 23 0.32
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (27 bp):
CCAGAAAAGATATTTGTGGCGTAGCCA
Found at i:62629655 original size:28 final size:27
Alignment explanation
Indices: 62629610--62629662 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
62629600 CGGAGCCACC
*
62629610 AGAAAAGATATTTGTGGCGTAGCCATA
1 AGAAAAGATATTTGTGGCATAGCCATA
62629637 AGAAATAGATATTTGTGGCATAGCCA
1 AGAAA-AGATATTTGTGGCATAGCCA
62629663 CCAGAACGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (27 bp):
AGAAAAGATATTTGTGGCATAGCCATA
Found at i:62631239 original size:51 final size:50
Alignment explanation
Indices: 62631175--62631278 Score: 154
Period size: 51 Copynumber: 2.1 Consensus size: 50
62631165 TCCAACTCCT
* * *
62631175 TCCCCACACGAGCAGCAAAATTGGTCCTTCGCGCGCACAGCCGCTCGAAC
1 TCCCCACACGAGCAGCAAAATTAGTCCTTCGCGCGCACAGCAGCTCAAAC
* *
62631225 TCCNCCACGCGAGCAGCAAAATTAGTCCTTCGCGCGCATAGCAGCTCAAAC
1 TCC-CCACACGAGCAGCAAAATTAGTCCTTCGCGCGCACAGCAGCTCAAAC
62631276 TCC
1 TCC
62631279 AGACCTCCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 3 0.06
51 45 0.94
ACGTcount: A:0.25, C:0.38, G:0.20, T:0.15
Consensus pattern (50 bp):
TCCCCACACGAGCAGCAAAATTAGTCCTTCGCGCGCACAGCAGCTCAAAC
Found at i:62639010 original size:28 final size:28
Alignment explanation
Indices: 62638947--62639097 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
62638937 ATATTAAGTC
*
62638947 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
62638974 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62639002 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62639030 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
62639058 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
62639087 CGCACACTTAG
1 CGCACACTTAG
62639098 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62639564 original size:12 final size:12
Alignment explanation
Indices: 62639547--62639573 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62639537 TGGGCATACT
62639547 TATGTATATATA
1 TATGTATATATA
62639559 TATGTATATATA
1 TATGTATATATA
62639571 TAT
1 TAT
62639574 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:62647354 original size:28 final size:28
Alignment explanation
Indices: 62647291--62647556 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
62647281 ATATTAAGTC
*
62647291 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
62647318 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62647346 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62647374 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62647402 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62647430 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62647458 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62647486 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
62647514 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
62647543 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62647557 CAATCTCATG
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.10
28 187 0.82
29 19 0.08
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62648024 original size:14 final size:14
Alignment explanation
Indices: 62648005--62648034 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62647995 TGGGCATACT
*
62648005 TATGTATATGTATA
1 TATGTATATATATA
62648019 TATGTATATATATA
1 TATGTATATATATA
62648033 TA
1 TA
62648035 CTTCGGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:62654168 original size:101 final size:99
Alignment explanation
Indices: 62654001--62654181 Score: 263
Period size: 101 Copynumber: 1.8 Consensus size: 99
62653991 CTGGTACGCA
* * *
62654001 TAGTAGCCTACACTTAGTACTACACATGCGACAAATTATCCGGTACACGTAGTAGCTTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACAAATTATCCGGTACACATAGTAGCCTGCACTTA
62654066 GTACTACACACGTGACCTAACCATCTGATACATG
66 GTACTACACACGTGACCTAACCATCTGATACATG
* * * * * *
62654100 TAGTAGCCTGCAGTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGCGA-C-AAATTATCCGGTACACATAGTAGCCTGCACT
62654165 TAGTACTACACACGTGA
64 TAGTACTACACACGTGA
62654182 TCGAAGTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 27 0.38
100 1 0.01
101 43 0.61
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACAAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACATG
Found at i:62654169 original size:51 final size:51
Alignment explanation
Indices: 62653988--62654206 Score: 246
Period size: 51 Copynumber: 4.4 Consensus size: 51
62653978 TAGCCAAAGC
* * * * *
62653988 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGA-C-AAAT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * * * * * *
62654037 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA-C
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * * *** *
62654087 CATCTGATACATGTAGTAGCCTGCAGTTAGTACTACACACGTGATCGAAGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
62654138 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
62654189 TATCGGGTACGCATAGTA
1 TATCGGGTACGCATAGTA
62654207 TCGTTTCTAT
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 37 0.26
50 42 0.29
51 64 0.45
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (51 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:62656691 original size:15 final size:15
Alignment explanation
Indices: 62656652--62656693 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
62656642 GAAGCCCAGA
*
62656652 ATAAGGAAAGCCAAG
1 ATAAGGAAATCCAAG
* *
62656667 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
62656682 ATAAGGAAATCC
1 ATAAGGAAATCC
62656694 CATTTACAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.14
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:62659963 original size:38 final size:38
Alignment explanation
Indices: 62659920--62660127 Score: 157
Period size: 38 Copynumber: 5.0 Consensus size: 38
62659910 TTTCAAATTA
62659920 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
62659958 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTCAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGT---T
* * *
62659999 GAATCAATATATGTAACTGTGGCATATCCACCTAGCACCAC-TT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
**
62660042 ACATGTATCAATATGTGTAATCATGCTATATCCACTTAGCACCACGTT
1 ACATGTAT-AA-CCGTG-------GC-ATATCCACTTAGCACCACGTT
* *
62660090 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
62660128 TTTCCATTCC
Statistics
Matches: 136, Mismatches: 14, Indels: 40
0.72 0.07 0.21
Matches are distributed among these distances:
37 1 0.01
38 58 0.43
39 9 0.07
40 1 0.01
41 2 0.01
43 2 0.01
44 1 0.01
45 3 0.02
46 6 0.04
47 44 0.32
48 9 0.07
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:62660052 original size:47 final size:47
Alignment explanation
Indices: 62659965--62660097 Score: 137
Period size: 47 Copynumber: 2.8 Consensus size: 47
62659955 GTTACATGTT
* * * *
62659965 TAACCGTGGTATATCCACTTAGCACCACGT-CAATGAATCAATATATG
1 TAACTGTGGCATATCCACTTAGCACCACTTAC-ATGTATCAATATATG
* *
62660012 TAACTGTGGCATATCCACCTAGCACCACTTACATGTATCAATATGTG
1 TAACTGTGGCATATCCACTTAGCACCACTTACATGTATCAATATATG
* *
62660059 TAA-TCAT-GCTATATCCACTTAGCACCACGTTACACGTAT
1 TAACT-GTGGC-ATATCCACTTAGCACCAC-TTACATGTAT
62660098 AACCGTGGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
46 3 0.04
47 60 0.82
48 10 0.14
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (47 bp):
TAACTGTGGCATATCCACTTAGCACCACTTACATGTATCAATATATG
Found at i:62663464 original size:50 final size:50
Alignment explanation
Indices: 62663406--62663743 Score: 395
Period size: 50 Copynumber: 6.9 Consensus size: 50
62663396 TGATGCTAGG
* *
62663406 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGACCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
62663456 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGTACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * *
62663506 GAAATATGAGAGCTAGTGTAAGACCATGTTTGGGATATGGCAAT-GGCCTT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC-ATCGGCCTC
* *
62663556 GAGATATGAGAGCTAGTGTAAGACCGTGTCTAGGACATGGCATCGG-CT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * * *
62663604 -TGATATGTG-TC-AGTGTAAGACCATGTCTGGGAAATGGTATTGGCACT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
* * * * *
62663651 GATAGATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATTGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* *
62663701 GATATACGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCAT
62663744 TGACTTTGAT
Statistics
Matches: 246, Mismatches: 33, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
45 27 0.11
46 1 0.00
47 9 0.04
48 5 0.02
49 7 0.03
50 195 0.79
51 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:62668904 original size:39 final size:39
Alignment explanation
Indices: 62668841--62668954 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 39
62668831 TTCAGTGATG
* * *
62668841 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
*
62668880 TATATCCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
* * * * *
62668919 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGG
62668955 TATTATACCG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 5 0.08
39 59 0.92
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
Found at i:62670534 original size:14 final size:14
Alignment explanation
Indices: 62670515--62670546 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
62670505 TTAAATTAAA
62670515 ATAATATAAAATTT
1 ATAATATAAAATTT
*
62670529 ATAATATAACATTT
1 ATAATATAAAATTT
62670543 ATAA
1 ATAA
62670547 AAATAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATATAAAATTT
Found at i:62675625 original size:26 final size:26
Alignment explanation
Indices: 62675595--62675646 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
62675585 TCATCTACTT
62675595 CACATTTTAACTAAGTGTAACATCTC
1 CACATTTTAACTAAGTGTAACATCTC
62675621 CACATTTTAACTAAGTGTAACATCTC
1 CACATTTTAACTAAGTGTAACATCTC
62675647 AATTTTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (26 bp):
CACATTTTAACTAAGTGTAACATCTC
Found at i:62677831 original size:14 final size:15
Alignment explanation
Indices: 62677794--62677838 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
62677784 AACTACAGCA
*
62677794 AATAACAGCAAGGAG
1 AATAACAGCAAAGAG
62677809 AATTAACAGCAAAGAG
1 AA-TAACAGCAAAGAG
*
62677825 -ATAACAGAAAAGAG
1 AATAACAGCAAAGAG
62677839 GGATGATGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 12 0.44
15 3 0.11
16 12 0.44
ACGTcount: A:0.58, C:0.11, G:0.22, T:0.09
Consensus pattern (15 bp):
AATAACAGCAAAGAG
Found at i:62678610 original size:22 final size:21
Alignment explanation
Indices: 62678569--62678626 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
62678559 ATTTTAATCG
**
62678569 AGATTTTATT-TACTTATTTA
1 AGATTTTATTATTTTTATTTA
* *
62678589 TGTTTTTATTCATTTTTATTTA
1 AGATTTTATT-ATTTTTATTTA
62678611 AGATTTTATTATTTTT
1 AGATTTTATTATTTTT
62678627 TTAAATTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 8 0.27
21 6 0.20
22 16 0.53
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.67
Consensus pattern (21 bp):
AGATTTTATTATTTTTATTTA
Found at i:62678627 original size:22 final size:22
Alignment explanation
Indices: 62678582--62678626 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
62678572 TTTTATTTAC
* *
62678582 TTATTTATGTTTTTATTCATTT
1 TTATTTAAGATTTTATTCATTT
62678604 TTATTTAAGATTTTATT-ATTT
1 TTATTTAAGATTTTATTCATTT
62678625 TT
1 TT
62678627 TTAAATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (22 bp):
TTATTTAAGATTTTATTCATTT
Found at i:62678780 original size:33 final size:30
Alignment explanation
Indices: 62678741--62678821 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 30
62678731 AAATTTTCTT
62678741 TATACATGTATTTTTTATTCAAAATTTATACAC
1 TATACAT-TATTTTTTATTCAAAATTTA-A-AC
* * * *
62678774 TATACATTATATATTATTTTAAAATTTAAAT
1 TATACATTATTTTTTA-TTCAAAATTTAAAC
62678805 TATACATTATTTTTTAT
1 TATACATTATTTTTTAT
62678822 ATATATTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
30 1 0.02
31 15 0.37
32 8 0.20
33 17 0.41
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.53
Consensus pattern (30 bp):
TATACATTATTTTTTATTCAAAATTTAAAC
Found at i:62678812 original size:31 final size:31
Alignment explanation
Indices: 62678724--62678814 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 31
62678714 GTAAAATTTC
*** * *
62678724 TATTTTAAAATTTTCTTTATACATGTATTTTT
1 TATTTTAAAATTTAAATTATACAT-TATATAT
* *
62678756 TA-TTCAAAATTTATACACTATACATTATATAT
1 TATTTTAAAATTTA-A-ATTATACATTATATAT
62678788 TATTTTAAAATTTAAATTATACATTAT
1 TATTTTAAAATTTAAATTATACATTAT
62678815 TTTTTATATA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
31 20 0.43
32 10 0.21
33 17 0.36
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (31 bp):
TATTTTAAAATTTAAATTATACATTATATAT
Found at i:62679008 original size:29 final size:29
Alignment explanation
Indices: 62678976--62679048 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
62678966 CATCTGTTAT
62678976 TTTATACATATAATTT-TTTTTAAAATATA
1 TTTATA-ATATAATTTGTTTTTAAAATATA
* *
62679005 TTTAT-ATATATTTGTGTTTTTAAAATTTA
1 TTTATAATATAATT-TGTTTTTAAAATATA
*
62679034 -TTACATATATAATTT
1 TTTATA-ATATAATTT
62679049 AAGATAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
27 7 0.19
28 4 0.11
29 18 0.50
30 7 0.19
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTATAATATAATTTGTTTTTAAAATATA
Found at i:62690346 original size:37 final size:37
Alignment explanation
Indices: 62690296--62690374 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62690286 TTATTACGAA
* * *
62690296 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
62690333 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
62690370 GTCTT
1 GTCTT
62690375 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:62690571 original size:47 final size:47
Alignment explanation
Indices: 62690493--62690834 Score: 540
Period size: 47 Copynumber: 7.2 Consensus size: 47
62690483 CCCTTCGGGA
* * * * * *
62690493 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62690540 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62690587 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
62690636 CTTATCATGCATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62690683 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62690730 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62690779 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62690826 CTTATCACA
1 CTTATCACA
62690835 ATTTAGAATT
Statistics
Matches: 273, Mismatches: 18, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 181 0.66
49 92 0.34
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62690751 original size:143 final size:143
Alignment explanation
Indices: 62690493--62690834 Score: 567
Period size: 143 Copynumber: 2.4 Consensus size: 143
62690483 CCCTTCGGGA
** * * * * * * *
62690493 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
62690558 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACA
62690623 TCGGCCATTAGGC
131 TCGGCCATTAGGC
**
62690636 CTTATCATGCATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
62690701 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACA
62690766 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
62690779 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
62690835 ATTTAGAATT
Statistics
Matches: 184, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
143 184 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:62690833 original size:96 final size:96
Alignment explanation
Indices: 62690493--62690834 Score: 539
Period size: 96 Copynumber: 3.6 Consensus size: 96
62690483 CCCTTCGGGA
* * * * * * * *
62690493 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
62690556 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
**
62690587 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CATGCATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
62690650 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
62690683 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
62690748 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
62690779 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
62690835 ATTTAGAATT
Statistics
Matches: 228, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
94 52 0.23
96 176 0.77
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62696118 original size:28 final size:28
Alignment explanation
Indices: 62696078--62696156 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
62696068 GCAATCAAAT
* * *
62696078 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
62696106 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
62696134 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
62696157 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:62697882 original size:57 final size:57
Alignment explanation
Indices: 62697799--62698042 Score: 346
Period size: 57 Copynumber: 4.2 Consensus size: 57
62697789 AAGTGAACAT
* * * * *
62697799 AGGCACTGTGTGTGTGAGTTCTGTAACCGAGTATTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
62697856 AGGCACTGTATGTGCGTGTTTCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
*
62697913 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGATTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
62697970 AGGCACTGTGTGTGCGAGTTCCATAACCAAGCACTGTGTGTGCAAGATCAGTTGTT-
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
62698026 AGGGCACTAAGTGTGTG
1 A-GGCACT--GTGTGTG
62698043 AAATGAGATC
Statistics
Matches: 168, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
56 1 0.01
57 160 0.95
59 7 0.04
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:62697920 original size:29 final size:29
Alignment explanation
Indices: 62697833--62697987 Score: 136
Period size: 29 Copynumber: 5.4 Consensus size: 29
62697823 AACCGAGTAT
62697833 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
* * * **** *
62697862 TGTATGTGCGTGTTTC-G-TAACCAAGCAC
1 TGTGTGTGCGAG-ATCGGTTGTTGAGGCAC
62697890 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
* * **** *
62697919 TGTGTGTGCGAGTTCCG-TAACCAAGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
*
62697947 TGTGTGTGCGAGATCGATTGTTGAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
62697976 TGTGTGTGCGAG
1 TGTGTGTGCGAG
62697988 TTCCATAACC
Statistics
Matches: 91, Mismatches: 31, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
27 2 0.02
28 37 0.41
29 50 0.55
30 2 0.02
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.30
Consensus pattern (29 bp):
TGTGTGTGCGAGATCGGTTGTTGAGGCAC
Found at i:62697955 original size:28 final size:28
Alignment explanation
Indices: 62697858--62698012 Score: 123
Period size: 28 Copynumber: 5.5 Consensus size: 28
62697848 GGTTGTTGAG
* * *
62697858 GCACTGTATGTGCGTGTTTCGTAACCAA
1 GCACTGTGTGTGCGAGTTCCGTAACCAA
* * **** *
62697886 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGTTCCG-TAACCAA
62697915 GCACTGTGTGTGCGAGTTCCGTAACCAA
1 GCACTGTGTGTGCGAGTTCCGTAACCAA
* **** *
62697943 GCACTGTGTGTGCGAGAT-CGATTGTTGAG
1 GCACTGTGTGTGCGAGTTCCG--TAACCAA
*
62697972 GCACTGTGTGTGCGAGTTCCATAACCAA
1 GCACTGTGTGTGCGAGTTCCGTAACCAA
62698000 GCACTGTGTGTGC
1 GCACTGTGTGTGC
62698013 AAGATCAGTT
Statistics
Matches: 93, Mismatches: 30, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
27 2 0.02
28 50 0.54
29 40 0.43
30 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCAA
Found at i:62699476 original size:17 final size:18
Alignment explanation
Indices: 62699446--62699485 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 18
62699436 TCATATGAGA
62699446 ATATTATCTATATATATTG
1 ATATTATC-ATATATATTG
62699465 ATATTATC-TATATATTG
1 ATATTATCATATATATTG
62699482 ATAT
1 ATAT
62699486 ATGAAAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (18 bp):
ATATTATCATATATATTG
Found at i:62701240 original size:40 final size:40
Alignment explanation
Indices: 62701147--62701362 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
62701137 AAGCCAAGTA
* * *
62701147 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
62701185 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
62701225 CCTTCGGGACTTAGCCCGAATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
62701265 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
62701305 CCTTCGGGACTTAGCCCGGA-ACTAGT-CCTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
62701344 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
62701363 TTATCATCCA
Statistics
Matches: 160, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 12 0.08
39 47 0.29
40 101 0.63
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:62704084 original size:13 final size:13
Alignment explanation
Indices: 62704066--62704093 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62704056 ACATATTATA
62704066 AATATTTTGTGTT
1 AATATTTTGTGTT
62704079 AATATTTTGTGTT
1 AATATTTTGTGTT
62704092 AA
1 AA
62704094 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:62705557 original size:40 final size:40
Alignment explanation
Indices: 62705509--62705914 Score: 625
Period size: 40 Copynumber: 10.2 Consensus size: 40
62705499 GGACTAAGAT
62705509 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
62705549 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
62705589 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
62705629 CCGAAGGCATTTGTACAAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
62705669 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
62705709 CCGAAGGCATTTGTACAAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
62705749 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
62705789 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
62705829 CCGAAGGCATTTGTGCTAGTAATTATATCCGAGCAAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
62705869 CCAAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
62705908 CCGAAGG
1 CCGAAGG
62705915 TACTTGGGTT
Statistics
Matches: 331, Mismatches: 35, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 12 0.04
40 319 0.96
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:62709954 original size:28 final size:28
Alignment explanation
Indices: 62709914--62709992 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
62709904 GCAATCAAAT
* * *
62709914 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
62709942 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
62709970 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
62709993 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:62713531 original size:18 final size:17
Alignment explanation
Indices: 62713501--62713556 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
62713491 GAAACTTTTT
* *
62713501 AAAAAAATCAAAATAAA
1 AAAAAAATAAAAAGAAA
62713518 AAAAGAAATAAAAAGAAA
1 AAAA-AAATAAAAAGAAA
**
62713536 AAATCCAA-AAAAAGAAA
1 AAA-AAAATAAAAAGAAA
62713553 AAAA
1 AAAA
62713557 GAACTAATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAAAATAAAAAGAAA
Found at i:62714735 original size:64 final size:64
Alignment explanation
Indices: 62714660--62714851 Score: 312
Period size: 64 Copynumber: 3.0 Consensus size: 64
62714650 TCATTCATAA
* ** *
62714660 CACATCCAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
* * *
62714724 CACATCTAGTTAGGTGCATTTGATTCATTTTGATCATATCATCCTAATTATTTGACATAAACAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
*
62714788 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
62714852 GATACATGAA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 118 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
Found at i:62724510 original size:40 final size:39
Alignment explanation
Indices: 62724466--62724570 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
62724456 AGTGACCATA
*
62724466 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
62724506 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
62724544 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
62724571 AACGAGGAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:62724527 original size:39 final size:40
Alignment explanation
Indices: 62724426--62724570 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
62724416 TTGAATGATG
* *
62724426 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
62724466 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
62724505 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
62724545 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62724571 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
39 34 0.37
40 46 0.51
41 10 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:62724584 original size:40 final size:39
Alignment explanation
Indices: 62724427--62724589 Score: 100
Period size: 40 Copynumber: 4.1 Consensus size: 39
62724417 TGAATGATGT
** * * *
62724427 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTATAA
* * ** *
62724467 CCGGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAG-TGACTATA-A
** *
62724507 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
62724546 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
62724586 CCGG
1 CCGG
62724590 TTAAATTCCA
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 34 0.33
40 60 0.58
41 8 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:62724589 original size:79 final size:80
Alignment explanation
Indices: 62724426--62724576 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
62724416 TTGAATGATG
*
62724426 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
62724491 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
62724506 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
62724568 TTGAACGAG
64 TTGAACGAG
62724577 GAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:62725891 original size:180 final size:179
Alignment explanation
Indices: 62725584--62726091 Score: 632
Period size: 180 Copynumber: 2.8 Consensus size: 179
62725574 CGGGGTGTTA
* * * *
62725584 CAGATCTTCACAGATGTCTAATCTTATCTCCATGTATCGGCAATGGGGCAGATTTAAGCCATCAG
1 CAGATCTTCACAAATGGCTAATCTTATCTCCATGTATAGGCAATGGGGCAGATTTAAGCCACCAG
*
62725649 CCTTATCTCTCTGAGGTAATAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGTAA
66 CCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGTAA
* * **
62725714 GGAAGTAGACTGG-GAATTGAAAATTTTATCTCCCTGAAGTTGCAGCGGAG
131 GGAAGCAGACTGGCG-ATTGAAAATCTTATCTCCCT-AAGCAGCAGCGGAG
* **
62725764 CAGATCTTCACAAATGGCTAATCTTATCTCCATGTATTGGCAATGGGGTGGATTTAAGCCACCAG
1 CAGATCTTCACAAATGGCTAATCTTATCTCCATGTATAGGCAATGGGGCAGATTTAAGCCACCAG
*
62725829 CCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGTAA
66 CCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGTAA
* * * * *
62725894 GAAAGCGGATTGGCGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAG
131 GGAAGCAGACTGGCGATTGAAAATCTTATCTCCCTAAGCAGCAGCGGAG
* ** * * * * * * **
62725943 CAGA--TTGA-AAATGGAGAATCTTATATTCATTTACAGGCAATGGAGCAGATTTTAGCCACTGG
1 CAGATCTTCACAAATGGCTAATCTTATCTCCATGTATAGGCAATGGGGCAGATTTAAGCCACCAG
*
62726005 CCTTATTTCTCTGAGG-AAGCAAGAGAGCAGGTTGAAG-ATGGTAGTCTTATCTTCCTGAGGTAG
66 CCTTATCTCTCTGAGGTAA-CAAGAGAGCAGGTTGAAGAAT-G-AGTCTTATCTTCCTGAGGTAG
* **
62726068 CAAGGAAGCAGACTGAAGATTGAA
128 TAAGGAAGCAGACTGGCGATTGAA
62726092 GATTGGAAGA
Statistics
Matches: 285, Mismatches: 39, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
175 4 0.01
176 75 0.26
177 41 0.14
179 15 0.05
180 149 0.52
181 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (179 bp):
CAGATCTTCACAAATGGCTAATCTTATCTCCATGTATAGGCAATGGGGCAGATTTAAGCCACCAG
CCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGTAA
GGAAGCAGACTGGCGATTGAAAATCTTATCTCCCTAAGCAGCAGCGGAG
Found at i:62726208 original size:43 final size:45
Alignment explanation
Indices: 62726154--62726248 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 45
62726144 GCCTCAAGCT
* **
62726154 TTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AG-TC
1 TTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
* *
62726197 TTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAAGATTGAAGATC
1 TTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
62726242 TTATCTC
1 TTATCTC
62726249 CCTAAGCAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 34 0.77
44 2 0.05
45 8 0.18
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (45 bp):
TTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
Found at i:62726374 original size:323 final size:323
Alignment explanation
Indices: 62725783--62726417 Score: 930
Period size: 323 Copynumber: 2.0 Consensus size: 323
62725773 ACAAATGGCT
* * * *
62725783 AATCTTATCTCCATGTATTGGCAATGGGGTGGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAA
1 AATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAA
* * * **
62725848 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGTAAGAAAGCGGATTGGCGATTG
66 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTG
* * *
62725913 AAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATTGAAAATGGAGAATCTTATATTCATTTACA
131 AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAAATGGAGAATCTTATATCCATGTACA
* * *
62725978 GGCAATGGAGCAGATTTTAGCCACTGGCCTTATTTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGA
196 GACAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGA
62726043 TGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAGGCA
261 TGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAGGCA
* * * *
62726106 AATCTTATCTCTATGTATCGGCAATGGAGTAGATTTAAGCCTCAAGCTTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAA
* * * *
62726171 CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAAGATTG
66 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTG
* * * *
62726236 AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAGATGGCGAGTCTTATCTCCATGTATC
131 AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAAATGGAGAATCTTATATCCATGTA-C
* * * * **
62726301 -GATAATGGAGCAGATTTTAGCCATTAGCCTTATCTCTCTGAGGTAGTAAGAGAGCAGGTTGGCG
195 AGACAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAG
* * *
62726365 ATTGTAGTCTTATCTTCTTGAGGTAGGAAGGAAGCAGACTGAAGATTGAAGAT
260 ATGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
62726418 CTATTTCCGT
Statistics
Matches: 275, Mismatches: 36, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
323 274 1.00
324 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (323 bp):
AATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAA
CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTG
AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAAATGGAGAATCTTATATCCATGTACA
GACAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGA
TGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAGGCA
Found at i:62726433 original size:176 final size:176
Alignment explanation
Indices: 62726091--62726494 Score: 505
Period size: 176 Copynumber: 2.3 Consensus size: 176
62726081 TGAAGATTGA
* ** * *
62726091 AGATTGGAAGA-GGCAAATCTTATCTCTATGTATCGGCAATGGAGTAGATTTAAGCCTCAAGCTT
1 AGATT-GAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAGCCTCAAGCCT
62726155 TATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAA
65 TATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAA
*
62726220 AGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
130 AGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
* * * * *
62726267 AGATTGAAGATGGCGAGTCTTATCTCCATGTATCGATAATGGAGCAGATTTTAGCCAT-TAGCCT
1 AGATTGAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAGCC-TCAAGCCT
* ** *
62726331 TATCTCTCTGAGGTAGTAAGAGAGCAGGTTGGCGATTGTAGTCTTATC-TTCTTGAGGTAGGAAG
65 TATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTTC-TGAGGTAGCAAG
* * * * **
62726395 GAAGCAGACTGAAGATTGAAGATC-TATTTCCGTAAGCAGTTGTGGAGC
128 AAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
* * * *
62726443 --ATCGAGGATGGAGAATCTTATCTCTATTTATCGAAAATGGAGCAGATTTAAG
1 AGATTGAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAG
62726495 TCACCAGTCC
Statistics
Matches: 196, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
174 44 0.22
175 5 0.03
176 104 0.53
177 43 0.22
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (176 bp):
AGATTGAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAGCCTCAAGCCTT
ATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAA
GCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
Found at i:62729058 original size:50 final size:50
Alignment explanation
Indices: 62728954--62729059 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 50
62728944 CCATATGGCA
* * * *
62728954 TCTTTCTTCTTTGGAGTCAATGGCAATCCTGTTATGAAATACATAGTAAC
1 TCTTTCTTCTTTGGAGTCAATGGCAATCCAGTGACGAAATACATAATAAC
* * * * * *
62729004 TCTTTCTTTTTTGGGGTCAATGGTAATCCAGTGACGAAGTCCATAATAAT
1 TCTTTCTTCTTTGGAGTCAATGGCAATCCAGTGACGAAATACATAATAAC
62729054 TCTTTC
1 TCTTTC
62729060 CCACTTCCAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (50 bp):
TCTTTCTTCTTTGGAGTCAATGGCAATCCAGTGACGAAATACATAATAAC
Found at i:62729457 original size:46 final size:46
Alignment explanation
Indices: 62729390--62729477 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
62729380 TTTTAGCTTG
*
62729390 CAAGTCATCATCATTAGTTTGAGCATCCTAGATTTCCTGAAGGATA
1 CAAGTCATCATCATTAGTTTGAGCATCATAGATTTCCTGAAGGATA
62729436 CAAGTCATCATCATTAGTTTGAGCATCATAGATTTCCTGAAG
1 CAAGTCATCATCATTAGTTTGAGCATCATAGATTTCCTGAAG
62729478 AAATGCCGGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (46 bp):
CAAGTCATCATCATTAGTTTGAGCATCATAGATTTCCTGAAGGATA
Found at i:62738278 original size:48 final size:48
Alignment explanation
Indices: 62738207--62738333 Score: 164
Period size: 48 Copynumber: 2.6 Consensus size: 48
62738197 ATATCGACGT
*
62738207 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGGC
* * * * * *
62738255 CGATGACATGTTCCAAACATGGTCTTACACTTGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGGC
* * *
62738303 AGACGCCGTGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
62738334 AACACACATA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGGC
Found at i:62738298 original size:130 final size:130
Alignment explanation
Indices: 62738077--62738322 Score: 341
Period size: 130 Copynumber: 1.9 Consensus size: 130
62738067 ATGTCGAGGC
* ** * * * *
62738077 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGTCTCAATGCTGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATATCAATGCCGATGACATGTCCCAAA
* *
62738142 CATGGTCTTACACTTACTCTCGTAATGTGGCCGACACCATGTCCCAGACATACACATATCGACGT
66 CATGGTCTTACACTTACTCTCATAATGTGGCAGACACCATGTCCCAGACATACACATATCGACGT
* * *
62738207 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-ATTGCCGATGACATGTTCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT-ATCAATGCCGATGACATGTCCCAA
* * *
62738271 ACATGGTCTTACACTTGCTCTCATAATGTGGCAGACGCCGTGTCCCAGACAT
65 ACATGGTCTTACACTTACTCTCATAATGTGGCAGACACCATGTCCCAGACAT
62738323 GGTCTTACAC
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
130 99 0.99
131 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (130 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATATCAATGCCGATGACATGTCCCAAA
CATGGTCTTACACTTACTCTCATAATGTGGCAGACACCATGTCCCAGACATACACATATCGACGT
Found at i:62744531 original size:148 final size:147
Alignment explanation
Indices: 62744264--62744552 Score: 560
Period size: 148 Copynumber: 2.0 Consensus size: 147
62744254 CTTATATCCG
62744264 AACAGTAAAAATTTTGAATTTTTTTATAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCAG
1 AACAGTAAAAATTTTGAATTTTTTTATAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCAG
62744329 GGATACAATTTAACTGCTATAAGTACACATACAAAATATGCCATTTTCGCATGGCTTATATACAT
66 GGATACAATTTAACTGCTATAAGTACACATACAAAATATGCCATTTTCGCATGGCTTATATACAT
62744394 TAACCAAAATACATTTT
131 TAACCAAAATACATTTT
*
62744411 AACAGTAAAAATTTTGAATTTTTTTTATAAAGAACGTTCTTTTAGGTAAATACTAAAGACAGTCA
1 AACAGTAAAAATTTTGAA-TTTTTTTATAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCA
62744476 GGGATACAATTTAACTGCTATAAGTACACATACAAAATATGCCATTTTCGCATGGCTTATATACA
65 GGGATACAATTTAACTGCTATAAGTACACATACAAAATATGCCATTTTCGCATGGCTTATATACA
62744541 TTAACCAAAATA
130 TTAACCAAAATA
62744553 TTCTTCGGCC
Statistics
Matches: 140, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
147 18 0.13
148 122 0.87
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (147 bp):
AACAGTAAAAATTTTGAATTTTTTTATAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCAG
GGATACAATTTAACTGCTATAAGTACACATACAAAATATGCCATTTTCGCATGGCTTATATACAT
TAACCAAAATACATTTT
Found at i:62744956 original size:87 final size:87
Alignment explanation
Indices: 62744810--62744986 Score: 336
Period size: 87 Copynumber: 2.0 Consensus size: 87
62744800 CCTTCGGGCA
*
62744810 TACCATCCCTTTACCGAATATGCCCATCTCATCATATGTAATAGGCAGATAAATTCTCACTTGAT
1 TACCATCCCTTTACCGAATATGCCCATCTCATCATATATAATAGGCAGATAAATTCTCACTTGAT
62744875 AGTGATCTCTTATAAACATAGG
66 AGTGATCTCTTATAAACATAGG
*
62744897 TACCATCCCTTTACCGAATATGCCCATCTTATCATATATAATAGGCAGATAAATTCTCACTTGAT
1 TACCATCCCTTTACCGAATATGCCCATCTCATCATATATAATAGGCAGATAAATTCTCACTTGAT
62744962 AGTGATCTCTTATAAACATAGG
66 AGTGATCTCTTATAAACATAGG
62744984 TAC
1 TAC
62744987 ATTACATATT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (87 bp):
TACCATCCCTTTACCGAATATGCCCATCTCATCATATATAATAGGCAGATAAATTCTCACTTGAT
AGTGATCTCTTATAAACATAGG
Found at i:62745507 original size:48 final size:48
Alignment explanation
Indices: 62745451--62745581 Score: 235
Period size: 48 Copynumber: 2.7 Consensus size: 48
62745441 ACACATCTCC
62745451 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGCA
*
62745499 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGCA
**
62745547 TACATATTTCACCCTAGCCATTCGGCTTTACCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACA
62745582 NNNNNNNNNN
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGCA
Found at i:62757741 original size:45 final size:45
Alignment explanation
Indices: 62757685--62757779 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
62757675 ACCACTGCTC
*
62757685 GAGGTAGACCATCTGGAAATACGGGCAATGCTAGTGGTGGTCAAA
1 GAGGAAGACCATCTGGAAATACGGGCAATGCTAGTGGTGGTCAAA
* * *
62757730 GAGGAAGACCATCTGGAAATATGGGCAATGCTGGTGGTGGTCAGA
1 GAGGAAGACCATCTGGAAATACGGGCAATGCTAGTGGTGGTCAAA
62757775 GAGGA
1 GAGGA
62757780 TCTAGAGATG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.19
Consensus pattern (45 bp):
GAGGAAGACCATCTGGAAATACGGGCAATGCTAGTGGTGGTCAAA
Found at i:62758463 original size:232 final size:232
Alignment explanation
Indices: 62758046--62758508 Score: 761
Period size: 232 Copynumber: 2.0 Consensus size: 232
62758036 TCGACAAAGT
62758046 GTGTAAGAAATGTCCCCTAGTAATTCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGT
1 GTGTAAGAAATGTCCCCTAGTAATTCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGT
* * *
62758111 TTGATGAATTTGATGTTATTCTTGGTTTGGATTGGTTGACCGCGCATGATGCGGTTGTGAATTGC
66 TTGATGAATTTGATGTTATCCTTGGGTTGGATTGGTTGACCGCGCATGATGCGATTGTGAATTGC
*
62758176 AAAAGCAAGACTATTAATTTGAGGTGCGCAAATAACGAGATGATCCGAGTTGAGTCT-ACGGACT
131 AAAAGCAAGACTATTAATTTGAGGTGCGCAAATAACGAGATGATCCGAATTGAGTCTGA-GGACT
* * **
62758240 TAAAGGGGTTGTCAGCTGTAATATCCTCAATGTTGGCC
195 TAAAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCC
62758278 GTGTAAGAAATGTCCCCTAGTAATTCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGT
1 GTGTAAGAAATGTCCCCTAGTAATTCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGT
*
62758343 TTGATGAATTTGATGTTATCCTTGGGTTGGATTGGTTGACTGCGCATGATGCGATTGTGAATTGC
66 TTGATGAATTTGATGTTATCCTTGGGTTGGATTGGTTGACCGCGCATGATGCGATTGTGAATTGC
* *
62758408 AAGAGCAAGACTATTGATTTGAGGTGCGCAAATAACGA-A-GTAGTCCGAATTGAGTCTGAGGAC
131 AAAAGCAAGACTATTAATTTGAGGTGCGCAAATAACGAGATG-A-TCCGAATTGAGTCTGAGGAC
**
62758471 TTGGAGGGGATGCCAGCTGTAATATCAGCAATGTTGGC
194 TTAAAGGGGATGCCAGCTGTAATATCAGCAATGTTGGC
62758509 ACAGAAATAT
Statistics
Matches: 215, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
230 1 0.00
231 2 0.01
232 211 0.98
233 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (232 bp):
GTGTAAGAAATGTCCCCTAGTAATTCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGT
TTGATGAATTTGATGTTATCCTTGGGTTGGATTGGTTGACCGCGCATGATGCGATTGTGAATTGC
AAAAGCAAGACTATTAATTTGAGGTGCGCAAATAACGAGATGATCCGAATTGAGTCTGAGGACTT
AAAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCC
Found at i:62761656 original size:11 final size:11
Alignment explanation
Indices: 62761640--62761669 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
62761630 TTTACCACAT
62761640 ATACATATCTC
1 ATACATATCTC
62761651 ATACATATCTC
1 ATACATATCTC
62761662 ATACATAT
1 ATACATAT
62761670 TTCACACTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (11 bp):
ATACATATCTC
Found at i:62761695 original size:59 final size:59
Alignment explanation
Indices: 62761603--62761717 Score: 212
Period size: 59 Copynumber: 1.9 Consensus size: 59
62761593 AATTCATTCG
*
62761603 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTC
1 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTC
*
62761662 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
62761718 TTCACATTCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (59 bp):
ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTC
Found at i:62761703 original size:48 final size:48
Alignment explanation
Indices: 62761651--62761786 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 48
62761641 TACATATCTC
*
62761651 ATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACAT
62761699 ATACATATCTCATATATATTT----C-A--CATTCGGCTTTACCACAT
1 ATACATATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACAT
*
62761740 ATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATACATATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACA
62761787 CACATATATA
Statistics
Matches: 79, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
41 39 0.49
43 1 0.01
44 1 0.01
46 1 0.01
48 37 0.47
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATACATATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACAT
Found at i:62762327 original size:67 final size:66
Alignment explanation
Indices: 62762242--62762564 Score: 522
Period size: 67 Copynumber: 4.8 Consensus size: 66
62762232 AACACTTAGT
* * * * * * *
62762242 ACCACCCATGTGACCTAGC-CATTTTATCTCGTAGCTCTCCTGTCTCCAATGTTGTCCTTCACCT
1 ACCACGCATGCGACCTAGCACA-TATATCCCGTAGCTCTCTTGTCTAC-ATGGTGTCCTTCACCT
62762306 GGA
64 GGA
62762309 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGC-ACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
62762374 GA
65 GA
62762376 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGC-ACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
62762441 GA
65 GA
62762443 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGC-ACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
62762508 GA
65 GA
62762510 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 ACCACGCATGCGACCTAGC-ACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
62762565 ACACATAGTA
Statistics
Matches: 247, Mismatches: 7, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
67 224 0.91
68 21 0.09
69 2 0.01
ACGTcount: A:0.20, C:0.33, G:0.17, T:0.29
Consensus pattern (66 bp):
ACCACGCATGCGACCTAGCACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
A
Found at i:62765718 original size:34 final size:34
Alignment explanation
Indices: 62765680--62765747 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
62765670 CTGCAACTGA
62765680 GTTCATTTATTAAACCATTCTCAAATGCTATCAC
1 GTTCATTTATTAAACCATTCTCAAATGCTATCAC
62765714 GTTCATTTATTAAACCATTCTCAAATGCTATCAC
1 GTTCATTTATTAAACCATTCTCAAATGCTATCAC
62765748 ATTGTCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (34 bp):
GTTCATTTATTAAACCATTCTCAAATGCTATCAC
Found at i:62766500 original size:138 final size:138
Alignment explanation
Indices: 62766327--62766601 Score: 523
Period size: 138 Copynumber: 2.0 Consensus size: 138
62766317 ACGAACATGG
62766327 ATGAGTTTATAACGAGGTAAACTTTCGTTTCTTTTCACTTTTCTATATTTCTCCACTTATGTCTA
1 ATGAGTTTATAACGAGGTAAACTTTCGTTTCTTTTCACTTTTCTATATTTCTCCACTTATGTCTA
*
62766392 TTTCATTTTACACTTGATCTCACACATATCATCACAAGTCACCAAGATCAATTTAAGTACACCAA
66 TTTCATTTTACACTTGATCTCACACATATCATCACAAGTCACCAAGATCAATTTAAATACACCAA
62766457 TATATCCA
131 TATATCCA
62766465 ATGAGTTTATAACGAGGTAAACTTTCGTTTCTTTTCACTTTTCTATATTTCTCCACTTATGTCTA
1 ATGAGTTTATAACGAGGTAAACTTTCGTTTCTTTTCACTTTTCTATATTTCTCCACTTATGTCTA
* *
62766530 TTTCATTTTACACTTGATCTCACACATATCATCACAAGTCACCAAGATCAGTTTAAATACACTAA
66 TTTCATTTTACACTTGATCTCACACATATCATCACAAGTCACCAAGATCAATTTAAATACACCAA
62766595 TATATCC
131 TATATCC
62766602 TCCAAATTAT
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 134 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (138 bp):
ATGAGTTTATAACGAGGTAAACTTTCGTTTCTTTTCACTTTTCTATATTTCTCCACTTATGTCTA
TTTCATTTTACACTTGATCTCACACATATCATCACAAGTCACCAAGATCAATTTAAATACACCAA
TATATCCA
Found at i:62773480 original size:157 final size:157
Alignment explanation
Indices: 62773194--62773513 Score: 615
Period size: 157 Copynumber: 2.0 Consensus size: 157
62773184 CCTTTGTCTC
* *
62773194 TGAAAGAGAAAGATGCTATTTGGGTTGTCATTGATTGATTAGCGAAATCAACATATTTCATCCTG
1 TGAAAGAGAAAGATGCTATTTGGGTTGTCATTGATTGATTAACGAAATCAACACATTTCATCCTG
62773259 GTACATACTAACTTTTTACTTGATAAATTGGTTGAGTTGTATATTTCTAAAATCATTAGATTGCA
66 GTACATACTAACTTTTTACTTGATAAATTGGTTGAGTTGTATATTTCTAAAATCATTAGATTGCA
62773324 CGGGGTACCAGTTTTGATTATTTCGAA
131 CGGGGTACCAGTTTTGATTATTTCGAA
62773351 TGAAAGAGAAAGATGCTATTTGGGTTGTCATTGATTGATTAACGAAATCAACACATTTCATCCTG
1 TGAAAGAGAAAGATGCTATTTGGGTTGTCATTGATTGATTAACGAAATCAACACATTTCATCCTG
62773416 GTACATACTAACTTTTTACTTGATAAATTGGTTGAGTTGTATATTTCTAAAATCATTAGATTGCA
66 GTACATACTAACTTTTTACTTGATAAATTGGTTGAGTTGTATATTTCTAAAATCATTAGATTGCA
62773481 CGGGGTACCAGTTTTGATTATTTCGAA
131 CGGGGTACCAGTTTTGATTATTTCGAA
62773508 T-AAAGA
1 TGAAAGA
62773514 TTCGAAATTC
Statistics
Matches: 161, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
156 5 0.03
157 156 0.97
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (157 bp):
TGAAAGAGAAAGATGCTATTTGGGTTGTCATTGATTGATTAACGAAATCAACACATTTCATCCTG
GTACATACTAACTTTTTACTTGATAAATTGGTTGAGTTGTATATTTCTAAAATCATTAGATTGCA
CGGGGTACCAGTTTTGATTATTTCGAA
Found at i:62781939 original size:43 final size:43
Alignment explanation
Indices: 62781841--62782124 Score: 310
Period size: 43 Copynumber: 6.7 Consensus size: 43
62781831 AAAAAACTCT
*
62781841 GCTATAGAACATGACCTTTAGCGGCG-TTTCTCACAA-AAA-TCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTT-T-ACAACAAACGCC
* *
62781883 GCTATAGACCATGACATTTAGCGGCGCTTTTACAACAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
* * *
62781926 GCTATTGAACATGACCTTTAGTGGCGCTTTTACAAGAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
** * *
62781969 ATTATAGAACATGGCCTTTAGCGGCGCTTTTACCACAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
* *
62782012 GCTATAGAACATGGCCTTTAGCGGCGCTTTTACTACAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
* * * * ** *
62782055 GCTATAGAACGTTAGCTTTAGCGGCACTTCCA-AACAAA--AC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
* * *
62782095 GCTAAAGAACAAGACTTTTAGCGGCGCTTT
1 GCTATAGAACATGACCTTTAGCGGCGCTTT
62782125 AGTGAAAAAC
Statistics
Matches: 204, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
40 23 0.11
41 4 0.02
42 33 0.16
43 144 0.71
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
Found at i:62782559 original size:21 final size:21
Alignment explanation
Indices: 62782533--62782578 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
62782523 TACTCTACTT
* *
62782533 TGCTTCTCTCGCTGCTGCCTC
1 TGCTTCCCTCACTGCTGCCTC
62782554 TGCTTCCCTCACTGCTGCCTC
1 TGCTTCCCTCACTGCTGCCTC
62782575 TGCT
1 TGCT
62782579 CTATGTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.43, G:0.17, T:0.37
Consensus pattern (21 bp):
TGCTTCCCTCACTGCTGCCTC
Found at i:62787050 original size:9 final size:9
Alignment explanation
Indices: 62787031--62787147 Score: 73
Period size: 9 Copynumber: 13.2 Consensus size: 9
62787021 TGTATTACAC
*
62787031 AAGTTAAGT
1 AAGTTATGT
*
62787040 AAGTTTTGT
1 AAGTTATGT
62787049 AAGTTATGT
1 AAGTTATGT
62787058 AAGTTATG-
1 AAGTTATGT
* *
62787066 ATA-TGATAT
1 A-AGTTATGT
*
62787075 ACATTTATGT
1 A-AGTTATGT
62787085 AAGTTATGT
1 AAGTTATGT
62787094 AAGTTATGAT
1 AAGTTATG-T
* * *
62787104 ATGATATAT
1 AAGTTATGT
*
62787113 -ATTTATGT
1 AAGTTATGT
62787121 -A-TTATGT
1 AAGTTATGT
*
62787128 AAGTTTTGT
1 AAGTTATGT
*
62787137 AAGTTTTGT
1 AAGTTATGT
62787146 AA
1 AA
62787148 TGTAACGTCC
Statistics
Matches: 85, Mismatches: 17, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
7 6 0.07
8 10 0.12
9 58 0.68
10 11 0.13
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (9 bp):
AAGTTATGT
Found at i:62787088 original size:36 final size:36
Alignment explanation
Indices: 62787046--62787132 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
62787036 AAGTAAGTTT
62787046 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
*
62787082 TGTAAGTTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
62787118 TGT-A-TTATGTAAGTT
1 TGTAAGTTATGTAAGTT
62787133 TTGTAAGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 11 0.22
35 1 0.02
36 38 0.76
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (36 bp):
TGTAAGTTATGTAAGTTATGATATGATATACATTTA
Found at i:62793296 original size:46 final size:46
Alignment explanation
Indices: 62793205--62793468 Score: 451
Period size: 46 Copynumber: 5.8 Consensus size: 46
62793195 TGTAACCCGC
* * *
62793205 CCATAAGTGAACTCAGACTCAACT-AACGAGCTC-GAGCATTCGCAT
1 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
*
62793250 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
62793296 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
62793342 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
62793388 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
62793434 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCG
1 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCG
62793469 AGTCGCTTAA
Statistics
Matches: 212, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
45 23 0.11
46 187 0.88
47 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62794142 original size:27 final size:27
Alignment explanation
Indices: 62794111--62794165 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
62794101 AGGATATTAC
62794111 ATGTAAGTTATGATATGATATATATTT
1 ATGTAAGTTATGATATGATATATATTT
*
62794138 ATGTAAGTTATTATATGATATATATTT
1 ATGTAAGTTATGATATGATATATATTT
62794165 A
1 A
62794166 ACATTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (27 bp):
ATGTAAGTTATGATATGATATATATTT
Found at i:62794508 original size:14 final size:14
Alignment explanation
Indices: 62794489--62794535 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
62794479 CATGGAAAAT
62794489 ATTATTTTAATTAA
1 ATTATTTTAATTAA
62794503 ATTATTTTAATTAA
1 ATTATTTTAATTAA
* *
62794517 ATAATATTTAAATAA
1 ATTAT-TTTAATTAA
62794532 ATTA
1 ATTA
62794536 ATCCAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTATTTTAATTAA
Found at i:62794518 original size:177 final size:175
Alignment explanation
Indices: 62794327--62794971 Score: 786
Period size: 177 Copynumber: 3.7 Consensus size: 175
62794317 TGAAAAAAAT
* * *
62794327 TTATTTTTATTAAATAATATTTAAATAAATTAATCTAAATTATATAATTTAAAAAATTGTTTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
* *
62794392 AAAATTTGAAAATCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAAGAAAAATAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAA-AAAAATAA
*
62794457 AATTTGACAATGCGAAAAATCACATGGAAAATATTATTTTAATTAAA
130 AATTTGACGATGCGAAAAATCACATGGAAAATATTATTTTAA-TAAA
*
62794504 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTTAAAAATTGTGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
* * * * *
62794569 AAAAGTTGAAAACCGTATAAGTTAAAATTTTAACTTTGTTCCATGGAAAAAAAGAATAAAAATAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAA-AAAAATAA
* * *
62794634 AATTAGACGATGCGGAAAATCAGATGGGAAAAAAATATTTTTATTAAATAATATTTAAATAAA
130 AATTTGACGATGCGAAAAATCACAT-GG----AAA-A----TA-T---T-AT-TTT-AATAAA
* *
62794697 TTATTTTAATTAAATAATATTTAAATAAATTAATTCAAATTATATAATTTAAAAATTTGTGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
*
62794762 AAAAGTTGAAAACTGTATAAGATGAAATGTCAACTTTGTTCCATGG-AAAAAAT---AAAATAAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAAAAAAATAAA
*
62794823 ATTTGATGATGCGAAAAATCACAT-G--AA-A--A----AA-AAA
131 ATTTGACGATGCGAAAAATCACATGGAAAATATTATTTTAATAAA
*
62794857 -TATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTATGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
* *
62794921 AAAAGTTGAAAGCCGTATAAGATGAAA--TCAACTTTGTTCCATGAAAAAAAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAA
62794972 AATTGAACCT
Statistics
Matches: 415, Mismatches: 35, Indels: 55
0.82 0.07 0.11
Matches are distributed among these distances:
157 16 0.04
158 6 0.01
159 86 0.21
160 3 0.01
161 2 0.00
167 1 0.00
174 1 0.00
177 139 0.33
178 2 0.00
179 1 0.00
180 1 0.00
182 3 0.01
183 1 0.00
186 1 0.00
187 2 0.00
188 29 0.07
191 1 0.00
192 8 0.02
193 110 0.27
194 2 0.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (175 bp):
TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAAAAAAATAAA
ATTTGACGATGCGAAAAATCACATGGAAAATATTATTTTAATAAA
Found at i:62794682 original size:13 final size:13
Alignment explanation
Indices: 62794666--62794726 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 13
62794656 GATGGGAAAA
*
62794666 AAATATTTTTATT
1 AAATATTTTAATT
*
62794679 AAATAATATTTAAAT
1 AAAT-AT-TTTAATT
62794694 AAATTATTTTAATT
1 AAA-TATTTTAATT
*
62794708 AAATAATATTTAAAT
1 AAAT-AT-TTTAATT
62794723 AAAT
1 AAAT
62794727 TAATTCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 5 0.13
14 13 0.33
15 20 0.51
16 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTTAATT
Found at i:62794686 original size:16 final size:16
Alignment explanation
Indices: 62794667--62794718 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 16
62794657 ATGGGAAAAA
*
62794667 AATATTTTTATTAAAT
1 AATATTTTAATTAAAT
*
62794683 AATA-TTTAAATAAAT
1 AATATTTTAATTAAAT
62794698 --TATTTTAATTAAAT
1 AATATTTTAATTAAAT
62794712 AATATTT
1 AATATTT
62794719 AAATAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 9 0.30
16 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATTTTAATTAAAT
Found at i:62794701 original size:29 final size:29
Alignment explanation
Indices: 62794669--62794728 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
62794659 GGGAAAAAAA
*
62794669 TATTTTTATTAAATAATATTTAAATAAAT
1 TATTTTAATTAAATAATATTTAAATAAAT
62794698 TATTTTAATTAAATAATATTTAAATAAAT
1 TATTTTAATTAAATAATATTTAAATAAAT
62794727 TA
1 TA
62794729 ATTCAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TATTTTAATTAAATAATATTTAAATAAAT
Found at i:62794725 original size:15 final size:15
Alignment explanation
Indices: 62794678--62794726 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
62794668 ATATTTTTAT
62794678 TAAATAATATTTAAA
1 TAAATAATATTTAAA
* *
62794693 TAAATTAT-TTTAAT
1 TAAATAATATTTAAA
62794707 TAAATAATATTTAAA
1 TAAATAATATTTAAA
62794722 TAAAT
1 TAAAT
62794727 TAATTCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATAATATTTAAA
Found at i:62799164 original size:43 final size:44
Alignment explanation
Indices: 62799117--62799200 Score: 118
Period size: 43 Copynumber: 1.9 Consensus size: 44
62799107 AGGGATTTCA
62799117 AATTGAGG-AAAAAGGGGTGATTACTTT-CGGATTTCAGATTTTG
1 AATTG-GGAAAAAAGGGGTGATTACTTTACGGATTTCAGATTTTG
* * *
62799160 AATTGGGAAAAAATGGGTGATTACTTTATGGATTTCGGATT
1 AATTGGGAAAAAAGGGGTGATTACTTTACGGATTTCAGATT
62799201 AGGGAAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 2 0.06
43 23 0.64
44 11 0.31
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (44 bp):
AATTGGGAAAAAAGGGGTGATTACTTTACGGATTTCAGATTTTG
Found at i:62799816 original size:7 final size:7
Alignment explanation
Indices: 62799804--62799945 Score: 112
Period size: 7 Copynumber: 19.7 Consensus size: 7
62799794 TTGATCTTCT
62799804 CTAAACC
1 CTAAACC
62799811 CTAAACC
1 CTAAACC
62799818 CTAAACC
1 CTAAACC
62799825 C-AAA-C
1 CTAAACC
62799830 CTCAAGACC
1 CT-AA-ACC
62799839 CTAAACC
1 CTAAACC
62799846 C-AAA-C
1 CTAAACC
62799851 CTCAAGACC
1 CT-AA-ACC
62799860 CTAAACC
1 CTAAACC
62799867 CATAAACC
1 C-TAAACC
*
62799875 TCGAAACC
1 -CTAAACC
* *
62799883 ATAAACT
1 CTAAACC
*
62799890 CAAAACC
1 CTAAACC
*
62799897 ATAAACC
1 CTAAACC
62799904 CTAAAACC
1 CT-AAACC
*
62799912 CAGAAACC
1 C-TAAACC
*
62799920 CTAAACT
1 CTAAACC
62799927 CTAAACC
1 CTAAACC
*
62799934 ATAAACC
1 CTAAACC
62799941 CTAAA
1 CTAAA
62799946 TTACTTAGTT
Statistics
Matches: 107, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.04
6 6 0.06
7 61 0.57
8 29 0.27
9 7 0.07
ACGTcount: A:0.47, C:0.37, G:0.03, T:0.13
Consensus pattern (7 bp):
CTAAACC
Found at i:62799882 original size:37 final size:34
Alignment explanation
Indices: 62799841--62799945 Score: 104
Period size: 37 Copynumber: 2.9 Consensus size: 34
62799831 TCAAGACCCT
*
62799841 AAACCCAAACCTCAAGACCCTAAACCCATAAACCTC-G
1 AAACCCAAA-CTCAA-ACCATAAACCC-TAAACC-CAG
*
62799878 AAACCATAAACTCAAAACCATAAACCCTAAAACCCAG
1 AAACC-CAAACTC-AAACCATAAACCCT-AAACCCAG
62799915 AAACCCTAAACTCTAAACCATAAACCCTAAA
1 AAACCC-AAACTC-AAACCATAAACCCTAAA
62799946 TTACTTAGTT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
36 5 0.08
37 49 0.83
38 5 0.08
ACGTcount: A:0.50, C:0.35, G:0.03, T:0.12
Consensus pattern (34 bp):
AAACCCAAACTCAAACCATAAACCCTAAACCCAG
Found at i:62800431 original size:41 final size:41
Alignment explanation
Indices: 62800374--62800490 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
62800364 AGTTAAATAA
* * * *
62800374 TAATGCTTGACTTTTTGCGGCGTTTGTTA-CATAAATGCCGC
1 TAATGCTGGACCTTTTGCGGTGTTT-TTATCATAAACGCCGC
* *
62800415 TAATTCTGGACCTTTTGCGGTGTTTTTATCATAAACGCTGC
1 TAATGCTGGACCTTTTGCGGTGTTTTTATCATAAACGCCGC
*
62800456 TAATGCTGGACCTTTTGCGGTGTTTTTCTCATAAA
1 TAATGCTGGACCTTTTGCGGTGTTTTTATCATAAA
62800491 AGTTGCTATA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.04
41 64 0.96
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (41 bp):
TAATGCTGGACCTTTTGCGGTGTTTTTATCATAAACGCCGC
Found at i:62801703 original size:27 final size:27
Alignment explanation
Indices: 62801673--62801850 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
62801663 ATATTGAGTC
* * * *
62801673 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
62801700 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
62801727 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
62801755 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
62801782 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
62801809 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
62801836 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62801851 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:62801812 original size:82 final size:81
Alignment explanation
Indices: 62801694--62801849 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62801684 TGCTATATAA
* *
62801694 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
62801759 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
62801776 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
62801840 CACTTAGTGC
65 CACTTAGTGC
62801850 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:62802349 original size:12 final size:12
Alignment explanation
Indices: 62802332--62802358 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62802322 ATGGCATACT
62802332 TATGTATATATA
1 TATGTATATATA
62802344 TATGTATATATA
1 TATGTATATATA
62802356 TAT
1 TAT
62802359 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:62806450 original size:18 final size:18
Alignment explanation
Indices: 62806427--62806464 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
62806417 ACCAAAGAAA
62806427 AATTAATATG-ACAAAATT
1 AATTAATATGTA-AAAATT
62806445 AATTAATATGTAAAAATT
1 AATTAATATGTAAAAATT
62806463 AA
1 AA
62806465 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTAATATGTAAAAATT
Found at i:62809679 original size:17 final size:17
Alignment explanation
Indices: 62809657--62809690 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
62809647 TGACGACTCT
62809657 TGACAATTTGAATTGTG
1 TGACAATTTGAATTGTG
62809674 TGACAATTTGAATTGTG
1 TGACAATTTGAATTGTG
62809691 ATTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (17 bp):
TGACAATTTGAATTGTG
Found at i:62813124 original size:41 final size:42
Alignment explanation
Indices: 62813036--62813138 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 42
62813026 AATACTCGAT
* * * *
62813036 ATCTCGCACACCAAGTGCCAATACATAGCTGAAGTTATTATA
1 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTACA
*
62813078 ATCTCGCACACTAAGTGCC-TTACATAGCCGAAGCTATCT-CA
1 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTAT-TACA
*
62813119 GTCTCGCACACTAAGTGCCA
1 ATCTCGCACACTAAGTGCCA
62813139 TATTGTTACA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 34 0.64
42 19 0.36
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTACA
Found at i:62814774 original size:48 final size:48
Alignment explanation
Indices: 62814507--62814776 Score: 310
Period size: 48 Copynumber: 5.6 Consensus size: 48
62814497 TAAGGTACCA
* *
62814507 ATGCCATGTCCTC-GACATGGTCTTACATGAATC-CACATATCATCGCCG
1 ATGCCATGTCC-CAGACATGGTCTTACA-CAAGCACACATATCATCGCCG
* * * * *
62814555 TTGCCATGTCCCAGACATGGTATTACACTAGCATACATATCATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* ** * *
62814603 ACGCCATGTCCCAGACATGGTCTTACACTGGAACACATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* * * * *
62814651 ATGCCATGCCCCAGACATGGTCTTACACAGGCACATATATCATTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* * *
62814699 ATGCCATGTCCCAAACATGGTCTTACACAAGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* *
62814747 ATGCCATGTCTCAGACACGGTCTTACACAA
1 ATGCCATGTCCCAGACATGGTCTTACACAA
62814777 AATCTCATTT
Statistics
Matches: 190, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
47 3 0.02
48 187 0.98
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
Found at i:62826313 original size:50 final size:51
Alignment explanation
Indices: 62826209--62826345 Score: 145
Period size: 50 Copynumber: 2.7 Consensus size: 51
62826199 TTCGATCACG
* * * **
62826209 TGTGTAGTATTAAGTGCAAGCTACTACGTGTA-TCAGACGGATAAGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGACGGATAAGTAACA
** **
62826259 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGATGGGTAACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGACGGATAAGTAACA
* * *
62826309 TGTGTAGTAGTAAATGCAGGCTACTATGTGTAC-CAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGA
62826346 GAGCTTTGGT
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
50 72 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGACGGATAAGTAACA
Found at i:62827158 original size:180 final size:181
Alignment explanation
Indices: 62826903--62827255 Score: 485
Period size: 180 Copynumber: 2.0 Consensus size: 181
62826893 CTGAGGTCAG
* * * *
62826903 TACCATGAGATATATAATTTTTATTGAAGAAAGATCAGAACTGTCGGATAGTGAAACAGGGGTAT
1 TACCATGAGATATATAATTTTTAGTGAAGAAAGATCAGAACTGTCGGACAGTGAAACAAGGGTAA
* * *
62826968 TTTTAATGAATAAATTGTACTAATTGGCTAAACC-AAAAATTTTGAAAATTTTATGGTAAGAATA
66 CTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAAATTCTGAAAATTTTATGGTAAGAATA
* * * * * *
62827032 TACGTGAGTCTAGTTTCTGGGAAAATTAGCAGTTCTTAATTTCGTGTCCCA
131 TACATGAGCCTAATTTCTAGGAAAATTAACAGATCTTAATTTCGTGTCCCA
* * * ** *
62827083 TACCGTGAGATA-ACTAATTTTTAGTGAAGAGAGGTTGGAACTGTTGGACAGTGAAACAAGGGTA
1 TACCATGAGATATA-TAATTTTTAGTGAAGAAAGATCAGAACTGTCGGACAGTGAAACAAGGGTA
62827147 ACTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAAAATTCTGAAAATTTTATGGTAAGAA
65 ACTTTAATGAATAAACTGTACTAATTGGCTAAACC-AAAAAATTCTGAAAATTTTATGGTAAGAA
* *
62827212 TATATATGAGCCTAATTTCTAGGAAAATTAACGGATCTTAATTT
129 TATACATGAGCCTAATTTCTAGGAAAATTAACAGATCTTAATTT
62827256 GGAGTTCCAT
Statistics
Matches: 149, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
179 1 0.01
180 85 0.57
182 63 0.42
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (181 bp):
TACCATGAGATATATAATTTTTAGTGAAGAAAGATCAGAACTGTCGGACAGTGAAACAAGGGTAA
CTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAAATTCTGAAAATTTTATGGTAAGAATA
TACATGAGCCTAATTTCTAGGAAAATTAACAGATCTTAATTTCGTGTCCCA
Found at i:62827290 original size:182 final size:179
Alignment explanation
Indices: 62826940--62827291 Score: 447
Period size: 182 Copynumber: 1.9 Consensus size: 179
62826930 AGAAAGATCA
* * ** *
62826940 GAACTGTCGGATAGTGAAACAGGGGTATTTTTAATGAATAAATTGTACTAATTGGCTAAACCAAA
1 GAACTGTCGGACAGTGAAACAAGGGTAACTTTAATGAATAAACTGTACTAATTGGCTAAACCAAA
* * * * * * *
62827005 AATTTTGAAAATTTTATGGTAAGAATATACGTGAGTCTAGTTTCTGGGAAAATTAGCAGTTCTTA
66 AATTCTGAAAATTTTATGGTAAGAATATACATGAGCCTAATTTCTAGGAAAATTAACAGATCTTA
* * *
62827070 ATTTCGTGTCCCATACCGTGAGATAACTAATTTTTAGTGAAGAGAGGTTG
131 ATTTCGAGTCCCATACCGTCAGATAAATAA-TTTTAGTGAAGAGAGGTTG
*
62827120 GAACTGTTGGACAGTGAAACAAGGGTAACTTTAATGAATAAACTGTACTAATTGGCTAAACCAAA
1 GAACTGTCGGACAGTGAAACAAGGGTAACTTTAATGAATAAACTGTACTAATTGGCTAAACC--A
* *
62827185 AAAATTCTGAAAATTTTATGGTAAGAATATATATGAGCCTAATTTCTAGGAAAATTAACGGATCT
64 AAAATTCTGAAAATTTTATGGTAAGAATATACATGAGCCTAATTTCTAGGAAAATTAACAGATCT
* * *
62827250 TAATTTGGAGTTCCATAGC-TCCAGCTATAAATAA-TTTAGTGA
129 TAATTTCGAGTCCCATACCGT-CAG--ATAAATAATTTTAGTGA
62827292 TTGTGACTCA
Statistics
Matches: 146, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
180 56 0.38
181 1 0.01
182 82 0.56
184 7 0.05
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (179 bp):
GAACTGTCGGACAGTGAAACAAGGGTAACTTTAATGAATAAACTGTACTAATTGGCTAAACCAAA
AATTCTGAAAATTTTATGGTAAGAATATACATGAGCCTAATTTCTAGGAAAATTAACAGATCTTA
ATTTCGAGTCCCATACCGTCAGATAAATAATTTTAGTGAAGAGAGGTTG
Found at i:62830676 original size:48 final size:48
Alignment explanation
Indices: 62830265--62830678 Score: 546
Period size: 48 Copynumber: 8.6 Consensus size: 48
62830255 TAAGGTATCA
* * **
62830265 ATGCCATGTCCCTGACATGGTCTTACATGAATC-CACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATCACCG
62830313 ATGCCATGTCCCAGACATGGTCTTACACTA-GCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGGCACACATATCATCACCG
* * **
62830361 ATGCCATATCCCAAACATGGTCTTACATTGGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* ** * *
62830409 ATTCCATGTCTTAGACATGGTCTTACATAGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* * * *
62830457 ATGCCATGTCCCAGACATTGTCTTACACAGGCATAGATATCATCACCA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* * * * *
62830505 ATGCCATGTCCCAAACTTGGTCTTTCACATGG-ACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACA-GGCACACATATCATCACCG
* *
62830553 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* *
62830601 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
62830649 ATGCCATGTCCCAGACATGGTCTTACACAG
1 ATGCCATGTCCCAGACATGGTCTTACACAG
62830679 AAGCTCATTT
Statistics
Matches: 325, Mismatches: 36, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
47 3 0.01
48 320 0.98
49 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
Found at i:62832829 original size:45 final size:44
Alignment explanation
Indices: 62832699--62832831 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 44
62832689 ATGCTATCTC
* *
62832699 ATATCGATGCC-ACTGTCCGAAACATGGTCTTACAC-GAA-TCAT
1 ATATCGATGCCAAC-GTCCCAAACATGGTCTTACACAGAACACAT
* * *
62832741 ATA-CGATGCCAATGTCCCATACATGGTCTTACACATGACCACAT
1 ATATCGATGCCAACGTCCCAAACATGGTCTTACACA-GAACACAT
* *
62832785 ATATCGATGCCAACGTCCCAGACATGGTCTTACACAAAAACACAT
1 ATATCGATGCCAACGTCCCAAACATGGTCTTACAC-AGAACACAT
62832830 AT
1 AT
62832832 CGGATCCTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
41 26 0.34
42 4 0.05
43 2 0.03
44 6 0.08
45 37 0.49
46 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (44 bp):
ATATCGATGCCAACGTCCCAAACATGGTCTTACACAGAACACAT
Found at i:62833424 original size:15 final size:15
Alignment explanation
Indices: 62833412--62833442 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62833402 TCAAACATTC
62833412 CAATACAAAACATAT
1 CAATACAAAACATAT
*
62833427 CAATCCAAAACATAT
1 CAATACAAAACATAT
62833442 C
1 C
62833443 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:62836324 original size:13 final size:13
Alignment explanation
Indices: 62836306--62836353 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
62836296 AAATTGAAGT
*
62836306 CACACGGCTAATG
1 CACACGGCCAATG
62836319 CACACGGCCAATG
1 CACACGGCCAATG
62836332 CACACGGCCAATG
1 CACACGGCCAATG
*
62836345 CACATGGCC
1 CACACGGCC
62836354 GTGTGCTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.29, C:0.38, G:0.23, T:0.10
Consensus pattern (13 bp):
CACACGGCCAATG
Found at i:62837489 original size:42 final size:42
Alignment explanation
Indices: 62837370--62837531 Score: 207
Period size: 42 Copynumber: 3.8 Consensus size: 42
62837360 TACTGTACCA
* * *
62837370 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * *
62837412 ATGCCAATAGCCCAGCTATGGTCTTACACGGAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * * *
62837455 ATTCCATATCCTAGATATGGTCTTACATGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* *
62837497 ATGCCATATCCTAGATATGATCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
62837532 TAATAACCCT
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 68 0.66
43 35 0.34
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
Found at i:62837500 original size:85 final size:84
Alignment explanation
Indices: 62837373--62837531 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 84
62837363 TGTACCAATG
* * *
62837373 CCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCCAGCTATGGTCTTA
1 CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCC-ATAGCCCAGATATGATCTTA
62837438 CACGGAGTCTCATATCGATT
65 CACGGAGTCTCATATCGATT
* * * * *
62837458 CCATATCCTAGATATGGTCTTACATGTAGTCTCATATTGATGCCATATCCTAGATATGATCTTAC
1 CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCATAGCCCAGATATGATCTTAC
*
62837523 ACGTAGTCT
66 ACGGAGTCT
62837532 TAATAACCCT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 25 0.38
85 40 0.62
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (84 bp):
CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCATAGCCCAGATATGATCTTAC
ACGGAGTCTCATATCGATT
Found at i:62845067 original size:41 final size:40
Alignment explanation
Indices: 62844996--62845133 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 40
62844986 GATATCTCCT
* *
62844996 ACACTAAGTGCCAATACATAGCTGAAGCTATTATAATCTCAC
1 ACACTAAGTGCC-ATACATAGCCGAAGCTATT-TAATCTCGC
* * * *
62845038 ACACTAAGTGCCTTACATAGCCAAAGCTATCTCAGTCTCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTAT-TTAATCTCGC
*
62845079 ACACTAAGTGCCATATATAGCCGAAGCTATTCTGAA--TCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATT-T-AATCTCGC
62845119 ACACTAAGTGCCATA
1 ACACTAAGTGCCATA
62845134 TATATATATC
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
40 20 0.24
41 48 0.59
42 14 0.17
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATTTAATCTCGC
Found at i:62849071 original size:46 final size:46
Alignment explanation
Indices: 62848965--62849169 Score: 193
Period size: 46 Copynumber: 4.4 Consensus size: 46
62848955 GGGCCATTTG
* * *
62848965 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCATTGAGA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCGTCGAC-TAGAGA
* * * * *
62849013 TGAGTGCTAGTGTAAGACATGTCTGGGAAAT-GCATCGGCCTAGAGA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGGCGTC-GACTAGAGA
*
62849059 TGTA-AGCCAGTGTAAGACATGTCTGAGACAT-GCGTCGACTACGAGA
1 TG-AGAGCCAGTGTAAGACATGTCTGGGACATGGCGTCGACTA-GAGA
* * * *
62849105 TGATAGTCAGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCGTCGACTAGAGA
*
62849152 T-ATAAGCCAGTGTAAGAC
1 TGA-GAGCCAGTGTAAGAC
62849170 CGTGTCTAGG
Statistics
Matches: 133, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
45 5 0.04
46 58 0.44
47 46 0.35
48 24 0.18
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
TGAGAGCCAGTGTAAGACATGTCTGGGACATGGCGTCGACTAGAGA
Found at i:62849133 original size:93 final size:93
Alignment explanation
Indices: 62848973--62849169 Score: 233
Period size: 93 Copynumber: 2.1 Consensus size: 93
62848963 TGTGAGAGCT
* * *
62848973 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCATTGAGATGAGTGCTAGTGTAAGACATGTCTG
1 AGTGTAAGA-CATGTCTGAGACATGGCGTCGACATCGAGATGAGTGCTAGTGTAAGACATGTCTG
* *
62849038 GGAAAT-GCATCGGCCTAGAGATGTAAGCC
65 GGAAATGGCATC-GACTAGAGATATAAGCC
62849067 AGTGTAAGACATGTCTGAGACAT-GCGTCGAC-TACGAGATGA-TAG-TCAGTGTAAGACCATGT
1 AGTGTAAGACATGTCTGAGACATGGCGTCGACAT-CGAGATGAGT-GCT-AGTGTAAGA-CATGT
* * *
62849128 CTGGGACATGGCTTCGACTTGAGATATAAGCC
62 CTGGGAAATGGCATCGACTAGAGATATAAGCC
62849160 AGTGTAAGAC
1 AGTGTAAGAC
62849170 CGTGTCTAGG
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
91 3 0.03
92 24 0.27
93 50 0.56
94 13 0.14
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGAGACATGGCGTCGACATCGAGATGAGTGCTAGTGTAAGACATGTCTGG
GAAATGGCATCGACTAGAGATATAAGCC
Found at i:62849152 original size:47 final size:46
Alignment explanation
Indices: 62848973--62849182 Score: 203
Period size: 47 Copynumber: 4.5 Consensus size: 46
62848963 TGTGAGAGCT
* * *
62848973 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCATTGAGATG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCGTCGAC-TTGAGATGTA-AGCC
* * * *
62849021 AGTGTAAGA-CATGTCTGGGAAATGCATCGGCCTAGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCGTC-GACTTGAGATGTAAGCC
* * *
62849067 AGTGTAAGA-CATGTCTGAGACATGCGTCGACTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCGTCGACT-TGAGATGTA-AGCC
* *
62849113 AGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCGTCGACTTGAGATGTAAGCC
* *
62849160 AGTGTAAGACCGTGTCTAGGACA
1 AGTGTAAGACCATGTCTGGGACA
62849183 CGACATCGGC
Statistics
Matches: 136, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
45 4 0.03
46 56 0.41
47 58 0.43
48 18 0.13
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCGTCGACTTGAGATGTAAGCC
Found at i:62856244 original size:13 final size:13
Alignment explanation
Indices: 62856222--62856254 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
62856212 AATTTTATTT
62856222 AGTG-ATTAAATA
1 AGTGTATTAAATA
62856234 AGTGTATTAAATA
1 AGTGTATTAAATA
62856247 AGTGTATT
1 AGTGTATT
62856255 TTGCTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (13 bp):
AGTGTATTAAATA
Found at i:62856589 original size:23 final size:23
Alignment explanation
Indices: 62856559--62856605 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
62856549 TAGTGTAAAA
62856559 CCATGTCTGGGACATGCATCGGC
1 CCATGTCTGGGACATGCATCGGC
62856582 CCATGTCTGGGACATGCATCGGC
1 CCATGTCTGGGACATGCATCGGC
62856605 C
1 C
62856606 TCGAGACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.32, G:0.30, T:0.21
Consensus pattern (23 bp):
CCATGTCTGGGACATGCATCGGC
Found at i:62856690 original size:47 final size:47
Alignment explanation
Indices: 62856582--62856690 Score: 134
Period size: 46 Copynumber: 2.3 Consensus size: 47
62856572 ATGCATCGGC
*
62856582 CCATGTCTGGGACATGCATCGGCCTCGAGACATAAGCCAATGTAAGA
1 CCATGTCTGGGACATGCATAGGCCTCGAGACATAAGCCAATGTAAGA
* * * *
62856629 -CATGTCTGGGACATGCGTAGG-CTACGAGATGAT-AGTCAGTGTAAGA
1 CCATGTCTGGGACATGCATAGGCCT-CGAGA-CATAAGCCAATGTAAGA
62856675 CCATGTCTGGGACATG
1 CCATGTCTGGGACATG
62856691 GCTTCGACTT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
45 2 0.04
46 35 0.65
47 17 0.31
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (47 bp):
CCATGTCTGGGACATGCATAGGCCTCGAGACATAAGCCAATGTAAGA
Found at i:62856705 original size:47 final size:47
Alignment explanation
Indices: 62856582--62856733 Score: 132
Period size: 47 Copynumber: 3.3 Consensus size: 47
62856572 ATGCATCGGC
* * * * *
62856582 CCATGTCTGGGACATGCATCGGCCT-CGAGACATAAGCCAATGTAAGA
1 CCATGTCTGGGACATGCGT-AGACTACGAGATATAAGCCAGTGTAAGA
* *
62856629 -CATGTCTGGGACATGCGTAGGCTACGAGATGAT-AGTCAGTGTAAGA
1 CCATGTCTGGGACATGCGTAGACTACGAGAT-ATAAGCCAGTGTAAGA
* * * *
62856675 CCATGTCTGGGACATGGCTTCGACT-TGAGATATAAGCCAGTGCAAGA
1 CCATGTCTGGGACAT-GCGTAGACTACGAGATATAAGCCAGTGTAAGA
**
62856722 CTGTGTCTGGGA
1 CCATGTCTGGGA
62856734 TACAGCATCA
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
45 3 0.03
46 35 0.41
47 42 0.49
48 6 0.07
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
CCATGTCTGGGACATGCGTAGACTACGAGATATAAGCCAGTGTAAGA
Found at i:62862377 original size:3 final size:3
Alignment explanation
Indices: 62862369--62862433 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
62862359 TCCGTTTCAC
62862369 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62862417 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
62862434 GGTTTAATGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:62863204 original size:11 final size:12
Alignment explanation
Indices: 62863165--62863216 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
62863155 TATAAAATTC
62863165 ATTAAGGTTAAAT
1 ATTAA-GTTAAAT
*
62863178 ATGTAAATTAAAT
1 AT-TAAGTTAAAT
62863191 ATTAAGTT-AAT
1 ATTAAGTTAAAT
62863202 ATTAAGTTAATAT
1 ATTAAGTTAA-AT
62863215 AT
1 AT
62863217 GTTATATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 11 0.32
12 6 0.18
13 14 0.41
14 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (12 bp):
ATTAAGTTAAAT
Found at i:62866640 original size:46 final size:48
Alignment explanation
Indices: 62866486--62866657 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 48
62866476 CATCAAAATT
* ** * *
62866486 GAGGCCGATGCCATGTCTGAGACATGGTCTTACACTAGCTCTCACATATC
1 GAGGCCAATGCCATGTCCCAGACATAGTCTTACACTAGCT-T-ACATCTC
*
62866536 TG-TGCCAATGCCATGTCCCAGACATAGTCTTACACTAGC--ACATCTC
1 -GAGGCCAATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATCTC
* *
62866582 GTA-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTC
1 G-AGGCCAATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATCTC
62866628 GAGGCCAATG-CATGTCCCAGACAT-GTCTTA
1 GAGGCCAATGCCATGTCCCAGACATAGTCTTA
62866658 AACTGGCACA
Statistics
Matches: 107, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
44 12 0.11
45 16 0.15
46 46 0.43
50 32 0.30
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
GAGGCCAATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATCTC
Found at i:62875713 original size:49 final size:47
Alignment explanation
Indices: 62875590--62875809 Score: 182
Period size: 50 Copynumber: 4.6 Consensus size: 47
62875580 GGGTATAATA
* * *
62875590 CCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATCCATCAGG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGACTCATCAATCAGG
* * *
62875637 TCGATGCCACATCCCAGACATGGTCTTACATTGACT-ATCGAAATCGAGG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGACTCATC--AATC-AGG
* * * *
62875686 CCGACGCCATTTCCCAGACATGGTCTTACACT-AGCTCTTACATATCCGTG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGA-CTCAT-CA-ATCAG-G
* * * * *
62875736 CCAATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TTGTA-G
1 CCGATGCCATATCCCAGACATGGTCTTACACTGACTCATCAAT-CAGG
*
62875782 CCTATG-CATATCCCAGACAT-GTCTTACA
1 CCGATGCCATATCCCAGACATGGTCTTACA
62875810 TTGGCACACA
Statistics
Matches: 140, Mismatches: 23, Indels: 23
0.75 0.12 0.12
Matches are distributed among these distances:
44 8 0.06
45 13 0.09
46 9 0.06
47 32 0.23
48 4 0.03
49 35 0.25
50 37 0.26
51 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (47 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTGACTCATCAATCAGG
Found at i:62876976 original size:3 final size:3
Alignment explanation
Indices: 62876968--62877054 Score: 51
Period size: 3 Copynumber: 29.3 Consensus size: 3
62876958 AATATATTAA
*
62876968 ATT ATT ATT CTT ATT ATTT ATT ATT A-T AGTT -TT A-T ACTT AATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT ATT A-TT -ATT ATT
* * *
62877014 ATT GTT ATT GTT ATT ATT ATT -TA ATT GA-T ATT A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT A
62877055 AATTAGATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
2 10 0.15
3 46 0.71
4 8 0.12
5 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:62877002 original size:27 final size:28
Alignment explanation
Indices: 62876969--62877031 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
62876959 ATATATTAAA
62876969 TTATTATTCTT-ATTATTTATTATTATAG
1 TTATTATTCTTAATTA-TTATTATTATAG
* * *
62876997 TT-TTATACTTAATTATTATTGTTATTG
1 TTATTATTCTTAATTATTATTATTATAG
62877024 TTATTATT
1 TTATTATT
62877032 ATTTAATTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (28 bp):
TTATTATTCTTAATTATTATTATTATAG
Done.