Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 224 of 318
Found at i:71178046 original size:653 final size:650
Alignment explanation
Indices: 71176706--71177953 Score: 2113
Period size: 653 Copynumber: 1.9 Consensus size: 650
71176696 TCCAGAAATG
71176706 TGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAATTTAGGTTAAATGAATTAA
1 TGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAATTTAGGTTAAATGAATTAA
71176771 TTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTGAACCGAATGAAGTGAGCCGA
66 TTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTGAACCGAATGAAGTGAGCCGA
* ***
71176836 ACCAGCCACTAATTGGGCTGACCAGAACCGTCCATTGGCTGACCCAAATCAGGCAATTAGCTGAT
131 ACCAGCCACTAATTGGGCTGACCAGAACCGTCCATTAGCTGACCCAAATCAAAAAATTAGCTGAT
* *
71176901 AAAATATTCTTGCAAAAAGGCCCTTGAAAAACCTTCAAATTACGTTCAAACCCCATCTTTATTTT
196 AAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACGTTCAAACCCCATCTTTATTTT
71176966 AGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAGCTTCAACCTTGCCATGTGTG
261 AGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAGCTTCAACCTTGCCATGTGTG
** *
71177031 TGGCCAACGGTGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTTTTACCAGCCCTCTTTAGCTA
326 TGGCCAACCATGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTTTTACCAGCCCTCTTCAGCTA
* * *
71177096 TAAAATCCACCCTATGCTGGCCATTTCAAGGCATCCCTCAACATCCCTCATTCCACAACATTCTT
391 TAAAAGCCACCCTATGCTGCCCATTTCAAGGCATCCCTCAACATCCCTCATTCCACAACATTCTC
71177161 TCACCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCATCCCATTTTCCCTTCCTCTT
456 TCACCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCATCCCATTTTCCCTTCCTCTT
* *
71177226 GTGCTGATTTCCTCTCTTGAGAAAGAGGTGTTCTTCAGCCATCTTGGGCAGTAATCAAGGATTCA
521 GTGCTGATTTCCTCTCTTGAGAAAGAGGTGATCTTCAGCCATCTTGGGCAGCAATCAAGGATTCA
* ** * ***
71177291 TAGAAGCCTTGAAATCCAGAAATATGTATTGAGACCAATTAATTTCCAGCCCAAGACATCCAAAA
586 TAGAAGCCTTG-AATCCAGAAACA--TACGGAGACCAATGAAGAGCCAGCCCAAGACATCCAAAA
**
71177356 ATG
648 AAC
71177359 TGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAATTTAGGTTAAATGAATTAA
1 TGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAATTTAGGTTAAATGAATTAA
* *
71177424 TTTTAATTAATTATGAAGAAATGGCCTAGTGAACCGCAGTGGTTGAACCGAATGAAGTGAGCCGA
66 TTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTGAACCGAATGAAGTGAGCCGA
* * *
71177489 ACCAGCCACTAATTGGGCTGACCAGGATCGTCCATTAGCTGACGCAAATCAAAAAATTAGCTGAT
131 ACCAGCCACTAATTGGGCTGACCAGAACCGTCCATTAGCTGACCCAAATCAAAAAATTAGCTGAT
*
71177554 AAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACGTTCAAACCCCATTTTTATTTT
196 AAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACGTTCAAACCCCATCTTTATTTT
*
71177619 AGGCTTTGTAGATTTGCCCCAGTCTATTTTTAGCAAGGTTGAAAGCTTCAACCTTGCCATGTGTG
261 AGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAGCTTCAACCTTGCCATGTGTG
*** * *
71177684 TGGCTGGCCATGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTTTTAGCAGCCCTCTTCATCTA
326 TGGCCAACCATGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTTTTACCAGCCCTCTTCAGCTA
71177749 TAAAAGCCACCCTATGCTGCCCATTTCAAGGCATCCCTCAACATCCCTCATTCCACAACATTCTC
391 TAAAAGCCACCCTATGCTGCCCATTTCAAGGCATCCCTCAACATCCCTCATTCCACAACATTCTC
*
71177814 TCACCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCCA-TTTTCCATCCCATTTTCCCTTCCTCTT
456 TCACCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCATCCCATTTTCCCTTCCTCTT
*
71177878 GTGCTGATTTCCTCTTTTGAGAAAGAGGAT-ATCTTCAGCCATCTTGGGCAGCAATCAAGGATTC
521 GTGCTGATTTCCTCTCTTGAGAAAGAGG-TGATCTTCAGCCATCTTGGGCAGCAATCAAGGATTC
71177942 ATAGAAGCCTTG
585 ATAGAAGCCTTG
71177954 CTCGGCGAAG
Statistics
Matches: 566, Mismatches: 28, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
652 98 0.17
653 468 0.83
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (650 bp):
TGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAATTTAGGTTAAATGAATTAA
TTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTGAACCGAATGAAGTGAGCCGA
ACCAGCCACTAATTGGGCTGACCAGAACCGTCCATTAGCTGACCCAAATCAAAAAATTAGCTGAT
AAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACGTTCAAACCCCATCTTTATTTT
AGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAGCTTCAACCTTGCCATGTGTG
TGGCCAACCATGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTTTTACCAGCCCTCTTCAGCTA
TAAAAGCCACCCTATGCTGCCCATTTCAAGGCATCCCTCAACATCCCTCATTCCACAACATTCTC
TCACCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCATCCCATTTTCCCTTCCTCTT
GTGCTGATTTCCTCTCTTGAGAAAGAGGTGATCTTCAGCCATCTTGGGCAGCAATCAAGGATTCA
TAGAAGCCTTGAATCCAGAAACATACGGAGACCAATGAAGAGCCAGCCCAAGACATCCAAAAAAC
Found at i:71180875 original size:10 final size:11
Alignment explanation
Indices: 71180858--71180883 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71180848 TAAGTTTATT
71180858 GACAAAAATTG
1 GACAAAAATTG
71180869 GACAAAAATTG
1 GACAAAAATTG
71180880 GACA
1 GACA
71180884 TGGATGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.12, G:0.19, T:0.15
Consensus pattern (11 bp):
GACAAAAATTG
Found at i:71181923 original size:46 final size:46
Alignment explanation
Indices: 71181856--71182033 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
71181846 GATATTTGGG
* *
71181856 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAA
*
71181902 CATCCTAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAA
** * * * * * *
71181948 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-GCTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCCA-A
*
71181995 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71182034 GCGGGTTTGC
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 77 0.69
47 32 0.29
48 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAA
Found at i:71188537 original size:26 final size:26
Alignment explanation
Indices: 71188508--71188558 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
71188498 TCACCAAGAC
71188508 ATTCATGTTACATTTGCATTTACTAT
1 ATTCATGTTACATTTGCATTTACTAT
71188534 ATTCATGTTACATTTGCATTTACTA
1 ATTCATGTTACATTTGCATTTACTA
71188559 CCTTACCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.49
Consensus pattern (26 bp):
ATTCATGTTACATTTGCATTTACTAT
Found at i:71193043 original size:43 final size:43
Alignment explanation
Indices: 71192980--71193146 Score: 217
Period size: 43 Copynumber: 3.9 Consensus size: 43
71192970 TATTTAAAAA
** * *
71192980 AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTTCTCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCGC
*
71193023 AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCGT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCGC
* * *
71193066 AAACGCCGTTAAAGACCATGACCTTTAGCGACGCTTTTCCCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCGC
* * * * *
71193109 AAACGCCGCTAAAAATCATGACCTTTAGTGGCACTTTT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTT
71193147 TTTGAAAACG
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 109 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCGC
Found at i:71193156 original size:43 final size:43
Alignment explanation
Indices: 71192979--71193166 Score: 205
Period size: 43 Copynumber: 4.4 Consensus size: 43
71192969 TTATTTAAAA
** * *
71192979 AAAACGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTTCTCG
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
*
71193022 CAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
* * * *
71193065 TAAACGCCGTTAAAGACCATGACCTTTAGCGACGCTTTTCCCG
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
* * * * * * ***
71193108 CAAACGCCGCTAAAAATCATGACCTTTAGTGGCACTTTTTTTG
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
*
71193151 AAAACGCCACTAAAGA
1 AAAACGCCGCTAAAGA
71193167 ACATATCTTT
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 123 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
AAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
Found at i:71193215 original size:22 final size:24
Alignment explanation
Indices: 71193190--71193233 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
71193180 AAAAAATTAT
71193190 TAAATAATAT-TTAT-TTTTATGA
1 TAAATAATATATTATGTTTTATGA
*
71193212 TAAATATTATATTATGTTTTAT
1 TAAATAATATATTATGTTTTAT
71193234 TTTTGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
TAAATAATATATTATGTTTTATGA
Found at i:71193402 original size:24 final size:24
Alignment explanation
Indices: 71193375--71193421 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
71193365 ATAATAGAAG
71193375 CTACAAAACTAGTAATAATTAACA
1 CTACAAAACTAGTAATAATTAACA
**
71193399 CTACAAAACTCTTAATAATTAAC
1 CTACAAAACTAGTAATAATTAAC
71193422 CATCATGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (24 bp):
CTACAAAACTAGTAATAATTAACA
Found at i:71198457 original size:7 final size:7
Alignment explanation
Indices: 71198441--71198509 Score: 52
Period size: 7 Copynumber: 9.7 Consensus size: 7
71198431 CATAGAATAT
71198441 AACCCATA
1 AACCC-TA
71198449 AACCCTA
1 AACCCTA
71198456 AACCCCT-
1 AA-CCCTA
*
71198463 AACCTTA
1 AACCCTA
*
71198470 AACCC-C
1 AACCCTA
71198476 AACCCTTA
1 AACCC-TA
*
71198484 AACCATA
1 AACCCTA
* *
71198491 AATCATA
1 AACCCTA
71198498 AACCCTA
1 AACCCTA
71198505 AACCC
1 AACCC
71198510 ATAACCCATG
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
6 8 0.16
7 28 0.57
8 13 0.27
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:71198523 original size:22 final size:21
Alignment explanation
Indices: 71198444--71198528 Score: 55
Period size: 22 Copynumber: 4.0 Consensus size: 21
71198434 AGAATATAAC
* **
71198444 CCATAAACCCTAAACCCCTAA
1 CCATAAACCATAAACCCTAAA
* **
71198465 CCTTAAACC-CCAACCCTTAAA
1 CCATAAACCATAAACCC-TAAA
*
71198486 CCATAAATCATAAACCCTAAA
1 CCATAAACCATAAACCCTAAA
* * *
71198507 CCCATAACCCATGAACCTTAAA
1 -CCATAAACCATAAACCCTAAA
71198529 ATAGTAACTC
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
20 5 0.10
21 21 0.44
22 22 0.46
ACGTcount: A:0.44, C:0.38, G:0.01, T:0.18
Consensus pattern (21 bp):
CCATAAACCATAAACCCTAAA
Found at i:71198910 original size:82 final size:81
Alignment explanation
Indices: 71198731--71198911 Score: 197
Period size: 82 Copynumber: 2.2 Consensus size: 81
71198721 AGACAGATAT
* *
71198731 ATTTTTTGAGGCGTTTTTCAAAAGCGCCACTAAAAGCTCGATCTATAGCGGCGCTTCTGGAAAAA
1 ATTTTTTGCGGCGTTTTTCAAAAGCGCCACTAAAACCTCGATCTATAGCGGCGCTTCTGGAAAAA
71198796 CGCCGCTATAACCTCA
66 CGCCGCTATAACCTCA
** * * * * * *
71198812 ACCTATAGCAGTGTTTTTCCAGAAGCGCCGCTAAAACCTCGATCTATAGCGGCG-TT-TGGACCA
1 ATTTTTTGCGGCGTTTTT-CAAAAGCGCCACTAAAACCTCGATCTATAGCGGCGCTTCTGG---A
**
71198875 AAAACGCCGCTAT-TGCTCA
62 AAAACGCCGCTATAACCTCA
71198894 ATTTTTTGCGGCGTTTTT
1 ATTTTTTGCGGCGTTTTT
71198912 TATCCAAACA
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
80 3 0.04
81 13 0.17
82 48 0.62
83 14 0.18
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (81 bp):
ATTTTTTGCGGCGTTTTTCAAAAGCGCCACTAAAACCTCGATCTATAGCGGCGCTTCTGGAAAAA
CGCCGCTATAACCTCA
Found at i:71204318 original size:26 final size:24
Alignment explanation
Indices: 71204288--71204337 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
71204278 TAAATAAAAA
*
71204288 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
*
71204314 ATTTAAAAGCATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
71204338 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:71205182 original size:17 final size:18
Alignment explanation
Indices: 71205156--71205203 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
71205146 TTTGGTTAAA
*
71205156 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
*
71205174 -ATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
*
71205191 AATTACCCAAATT
1 AATTACCCGAATT
71205204 GAATCACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:71205196 original size:9 final size:9
Alignment explanation
Indices: 71205156--71205203 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
71205146 TTTGGTTAAA
*
71205156 AATTAACCG
1 AATTACCCG
*
71205165 AATTAACCG
1 AATTACCCG
71205174 -ATTACCCG
1 AATTACCCG
71205182 AATTACCCG
1 AATTACCCG
*
71205191 AATTACCCA
1 AATTACCCG
71205200 AATT
1 AATT
71205204 GAATCACTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 7 0.19
9 29 0.81
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:71205307 original size:17 final size:17
Alignment explanation
Indices: 71205285--71205345 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
71205275 TATGAGTCAC
71205285 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
71205302 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
71205322 AACATAATTAAAAACAT
1 TACATAATTAAAAACAT
71205339 TACATAA
1 TACATAA
71205346 GTCTTGAAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 19 0.61
20 12 0.39
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:71205367 original size:37 final size:37
Alignment explanation
Indices: 71205202--71205350 Score: 226
Period size: 37 Copynumber: 4.0 Consensus size: 37
71205192 ATTACCCAAA
**
71205202 TTGAATCACTACATAATTAAAAACATTATGTAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* * *
71205239 TTGAATCACTACATAATTAAAAATATTATATAAGCCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
71205276 ATGAGTCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
71205313 TTGAATCACAACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
71205350 T
1 T
71205351 GAAATTAACA
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:71207724 original size:28 final size:28
Alignment explanation
Indices: 71207684--71207754 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
71207674 TGGTACTCAG
71207684 TGTACGAAATATTGAGAATGACACTTAA
1 TGTACGAAATATTGAGAATGACACTTAA
* *
71207712 TGTACGAGATATTGAGAATGACACTTAG
1 TGTACGAAATATTGAGAATGACACTTAA
* *
71207740 TGTGCAAAATATTGA
1 TGTACGAAATATTGA
71207755 ATGATTAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (28 bp):
TGTACGAAATATTGAGAATGACACTTAA
Found at i:71207871 original size:39 final size:39
Alignment explanation
Indices: 71207827--71208049 Score: 340
Period size: 39 Copynumber: 5.7 Consensus size: 39
71207817 GACTTTATAA
*
71207827 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
** *
71207866 TGGTGTTATATCCGGGCTAAGTCCTAAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
71207905 TGGTGTTATATCCGGGCTAAGTCCCAAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
71207944 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
71207983 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
71208022 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
71208050 TATGCTTTGT
Statistics
Matches: 172, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 150 0.87
40 22 0.13
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:71210131 original size:47 final size:47
Alignment explanation
Indices: 71210001--71211357 Score: 2214
Period size: 47 Copynumber: 28.5 Consensus size: 47
71209991 GGGGAAAAGA
* *
71210001 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71210048 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71210097 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71210144 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71210191 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71210240 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71210287 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATAT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71210334 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71210381 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71210430 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71210477 GAAAGTGTATATATGTGATAAGG-CTGAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGT
* *
71210524 GAAAGTGTATATATATGTGGTAAGGCCGAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71210573 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71210622 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71210669 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71210716 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71210765 GAAAGTGTATATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71210814 GAAAGTGTAGATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71210861 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71210908 GAAAGTGTATATATATGTGATAA-GCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71210956 GAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71211003 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71211050 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71211097 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71211146 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71211195 GAAAGTGTATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71211242 GAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
71211289 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71211336 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
71211358 TCCCGAAGGG
Statistics
Matches: 1237, Mismatches: 56, Indels: 34
0.93 0.04 0.03
Matches are distributed among these distances:
46 16 0.01
47 765 0.62
48 30 0.02
49 425 0.34
50 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:71210259 original size:143 final size:141
Alignment explanation
Indices: 71210001--71211357 Score: 2214
Period size: 143 Copynumber: 9.5 Consensus size: 141
71209991 GGGGAAAAGA
*
71210001 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGT
*
71210066 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
71210131 ATGTGATGAATGT
129 ATGTGATGAATGT
*
71210144 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGT
*
71210209 GATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
71210274 ATGTGATGAATGT
129 ATGTGATGAATGT
* *
71210287 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
* *
71210352 TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
71210417 ATGTGATGAATGT
129 ATGTGATGAATGT
*
71210430 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
* *
71210495 TAAGG-CTGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCCGAATGGCC
66 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
71210559 GATGTGATGAATGT
128 GATGTGATGAATGT
*
71210573 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
* *
71210638 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
71210703 ATGTGATGAATGT
129 ATGTGATGAATGT
*
71210716 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATAT
* * *
71210781 GAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAGATATGTGATAAGGCCTAATAGC
62 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
71210846 CGATGTGATGAATGT
127 CGATGTGATGAATGT
*
71210861 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGT
*
71210926 GATAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
71210990 ATGTGATGAATGT
129 ATGTGATGAATGT
71211003 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
* *
71211068 TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
71211133 ATGTGATGAATGT
129 ATGTGATGAATGT
*
71211146 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
* * *
71211211 GATAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
71211276 ATGTGATGAATGT
129 ATGTGATGAATGT
* * * * * * *
71211289 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
71211354 TAAG
66 TAAG
71211358 TCCCGAAGGG
Statistics
Matches: 1157, Mismatches: 44, Indels: 28
0.94 0.04 0.02
Matches are distributed among these distances:
140 14 0.01
141 128 0.11
142 123 0.11
143 621 0.54
145 269 0.23
146 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (141 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGT
Found at i:71210396 original size:192 final size:191
Alignment explanation
Indices: 71210001--71211357 Score: 2295
Period size: 192 Copynumber: 7.1 Consensus size: 191
71209991 GGGGAAAAGA
* *
71210001 GAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATAT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT
*
71210064 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
64 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
71210129 CGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
129 CGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGT
*
71210191 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
71210256 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
66 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
71210321 ATGTGATGAATATGAAAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
131 ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGT
71210381 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
71210446 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCC
66 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCC
*
71210510 GATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCCGAATGGCCGATGTGATGAATGT
130 GATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGT
71210573 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
* *
71210638 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
66 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
71210703 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
131 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGT
* *
71210765 GAAAGTGTATATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAGATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
* * *
71210830 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
66 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
71210895 ATGTGATGAATGTGAAAGTGTATATATATGTGATAA-GCCTAATGGCCGATGTGATGAATGT
131 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGT
*
71210956 GAAAGTG--TATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
* * *
71211019 GATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
66 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
71211084 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
131 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGT
71211146 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
* * *
71211211 GATAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
66 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
71211276 ATGTGATGAATGTGAAAGTG-TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
131 ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGT
71211336 GAAAGTGTATA-A-ATGTGATAAG
1 GAAAGTGTATATATATGTGATAAG
71211358 TCCCGAAGGG
Statistics
Matches: 1123, Mismatches: 35, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
188 10 0.01
189 155 0.14
190 360 0.32
191 32 0.03
192 565 0.50
193 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (191 bp):
GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGT
Found at i:71213941 original size:40 final size:40
Alignment explanation
Indices: 71213582--71213929 Score: 511
Period size: 40 Copynumber: 8.7 Consensus size: 40
71213572 AGGTCTCGAC
*
71213582 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
71213621 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
71213661 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
71213701 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
71213741 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* ** *
71213781 GATGTATCCGGACTAAGTTTCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
71213821 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * * *
71213861 AATATATCCGTGCTAA-ACCTCAAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * *
71213901 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
71213930 ATCATGCTGG
Statistics
Matches: 281, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 5 0.02
40 274 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:71215678 original size:47 final size:47
Alignment explanation
Indices: 71215548--71216807 Score: 2108
Period size: 47 Copynumber: 26.5 Consensus size: 47
71215538 GGGGAAAAGA
*
71215548 GAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGT
71215595 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71215644 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71215691 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71215738 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71215787 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71215834 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71215881 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71215928 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71215977 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71216024 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71216071 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71216120 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71216167 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71216214 GAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71216263 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
71216312 GAAAGTGTATATATGTGATTAGGCGTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
71216359 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71216406 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71216455 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71216502 GAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71216549 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
71216596 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71216645 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71216692 GAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
71216739 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
71216786 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
71216808 TCCCGAAGGG
Statistics
Matches: 1149, Mismatches: 49, Indels: 30
0.94 0.04 0.02
Matches are distributed among these distances:
47 786 0.68
49 361 0.31
50 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:71215806 original size:143 final size:141
Alignment explanation
Indices: 71215548--71216807 Score: 2108
Period size: 143 Copynumber: 8.8 Consensus size: 141
71215538 GGGGAAAAGA
*
71215548 GAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
1 GAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
*
71215612 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
63 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
71215677 GATGTGATGAATGT
128 GATGTGATGAATGT
* *
71215691 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGT
71215756 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
71215821 ATGTGATGAATGT
129 ATGTGATGAATGT
71215834 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
71215899 TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
71215964 ATGTGATGAATGT
129 ATGTGATGAATGT
71215977 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
71216042 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
71216107 ATGTGATGAATGT
129 ATGTGATGAATGT
71216120 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
71216185 TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
71216250 ATGTGATGAATGT
129 ATGTGATGAATGT
* *
71216263 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
* * * * *
71216328 GATTAGGCGTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
71216393 ATGTGATGAATGT
129 ATGTGATGAATGT
71216406 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
71216471 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
71216536 ATGTGATGAATGT
129 ATGTGATGAATGT
*
71216549 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGT
*
71216614 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
71216679 ATGTGATGAATGT
129 ATGTGATGAATGT
*
71216692 GAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
71216757 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
71216808 TCCCGAAGGG
Statistics
Matches: 1068, Mismatches: 42, Indels: 16
0.95 0.04 0.01
Matches are distributed among these distances:
141 145 0.14
143 835 0.78
144 1 0.00
145 87 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (141 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGT
Found at i:71215871 original size:190 final size:188
Alignment explanation
Indices: 71215548--71216807 Score: 2117
Period size: 190 Copynumber: 6.6 Consensus size: 188
71215538 GGGGAAAAGA
*
71215548 GAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
1 GAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
* *
71215612 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
63 TGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
71215677 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
128 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
71215738 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
71215803 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
64 GATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
71215868 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
129 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
71215928 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
71215993 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
64 GATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
71216058 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
129 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
71216120 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
71216185 TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCG
66 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
71216250 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGT
129 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
* * *
71216312 GAAAGTGTATATATGTGATTAGGCGTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
71216377 TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
66 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
71216442 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
129 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
*
71216502 GAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
71216567 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
66 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
71216632 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
129 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
*
71216692 GAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
71216757 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
71216808 TCCCGAAGGG
Statistics
Matches: 1033, Mismatches: 30, Indels: 16
0.96 0.03 0.01
Matches are distributed among these distances:
188 14 0.01
190 697 0.67
192 320 0.31
193 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (188 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
Found at i:71218965 original size:28 final size:27
Alignment explanation
Indices: 71218925--71218983 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
71218915 GCTATGATAC
* *
71218925 TTTTGAAGGTTTTGGGAGATTTTAAAT
1 TTTTGAAGGTTTTGAGAGATTTGAAAT
71218952 ATTTTGAAGGTTTTGAGAGATTTGAAAT
1 -TTTTGAAGGTTTTGAGAGATTTGAAAT
71218980 TTTT
1 TTTT
71218984 AATTAGGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (27 bp):
TTTTGAAGGTTTTGAGAGATTTGAAAT
Found at i:71219159 original size:13 final size:13
Alignment explanation
Indices: 71219141--71219174 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
71219131 ATTTGTATTG
*
71219141 GGTTGGGTAATTA
1 GGTTGGGTAAATA
*
71219154 GGTTGGGTAAATG
1 GGTTGGGTAAATA
71219167 GGTTGGGT
1 GGTTGGGT
71219175 TTGGTTGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (13 bp):
GGTTGGGTAAATA
Found at i:71219235 original size:6 final size:6
Alignment explanation
Indices: 71219224--71219249 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
71219214 TTATGTTGGA
71219224 TTGGGT TTGGGT TTGGGT TTGGGT TT
1 TTGGGT TTGGGT TTGGGT TTGGGT TT
71219250 TGTTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (6 bp):
TTGGGT
Found at i:71219397 original size:18 final size:18
Alignment explanation
Indices: 71219374--71219409 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
71219364 TTCGGTTAAC
71219374 CGATCGATTAACTGAATT
1 CGATCGATTAACTGAATT
*
71219392 CGATCGGTTAACTGAATT
1 CGATCGATTAACTGAATT
71219410 TTTTTGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (18 bp):
CGATCGATTAACTGAATT
Found at i:71219972 original size:44 final size:42
Alignment explanation
Indices: 71219904--71220063 Score: 141
Period size: 44 Copynumber: 3.8 Consensus size: 42
71219894 TATGTGTTAT
* *
71219904 CGTGTAAGACCACGTTTGGAACGTTGGCATTGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGA-TT-TGATTTA
71219948 CGTGTAAGACCACGTCTGGGACGTTGGCATCAT-ATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT--TGATTTGATTTA
** *
71219990 CGTGTAAGACC-TTTCTGGGATAG-TGGCATTGATATTTGA-TTA
1 CGTGTAAGACCACGTCTGGGA-CGTTGGCATTG--ATTTGATTTA
* * * *
71220032 CATGTTACACCACGTCTAGGACGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTG
71220064 TACGAGCTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
39 1 0.01
41 15 0.16
42 27 0.28
43 20 0.21
44 30 0.32
45 1 0.01
46 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATTGATTTGATTTA
Found at i:71220025 original size:42 final size:44
Alignment explanation
Indices: 71219904--71220063 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 44
71219894 TATGTGTTAT
* *
71219904 CGTGTAAGACCACGT-TTGGAACGTTGGCATTGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGAA-GTTGGCATTGA-TATTTGATTTA
* *
71219948 CGTGTAAGACCACGTCTGGGACGTTGGCA-TCATATTTGATTT-
1 CGTGTAAGACCACGTCTGGGAAGTTGGCATTGATATTTGATTTA
**
71219990 CGTGTAAGACC-TTTCTGGGATAG-TGGCATTGATATTTGA-TTA
1 CGTGTAAGACCACGTCTGGGA-AGTTGGCATTGATATTTGATTTA
* * * * *
71220032 CATGTTACACCACGTCTAGGACGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGAAGTTGGCATTG
71220064 TACGAGCTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
41 14 0.15
42 31 0.33
43 23 0.24
44 22 0.23
45 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGAAGTTGGCATTGATATTTGATTTA
Found at i:71222324 original size:27 final size:27
Alignment explanation
Indices: 71222256--71222328 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
71222246 ATTGTTGAAA
71222256 TACCCCAG--TTGTAAAATTACCAAAG
1 TACCCCAGATTTGTAAAATTACCAAAG
* *
71222281 TACCCCAGGTTTATAAAATTACCCAAA-
1 TACCCCAGATTTGTAAAATTA-CCAAAG
*
71222308 TATCCTC-GATTTGTAAAATTA
1 TA-CCCCAGATTTGTAAAATTA
71222329 TTGAAATACA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 8 0.20
27 24 0.60
28 8 0.20
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
TACCCCAGATTTGTAAAATTACCAAAG
Found at i:71222354 original size:26 final size:27
Alignment explanation
Indices: 71222313--71222363 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
71222303 CCAAATATCC
* *
71222313 TCGATTTGTAAAATTATTGAAATACAG
1 TCGATTTGTAAAATTACTAAAATACAG
71222340 TCGA-TTGTAAAATTACTAAAATAC
1 TCGATTTGTAAAATTACTAAAATAC
71222364 CCCTGTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (27 bp):
TCGATTTGTAAAATTACTAAAATACAG
Found at i:71222382 original size:27 final size:27
Alignment explanation
Indices: 71222350--71222687 Score: 412
Period size: 27 Copynumber: 12.6 Consensus size: 27
71222340 TCGATTGTAA
*
71222350 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
71222377 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
71222404 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
***
71222431 AATTACTGAAATACCCCTGTAAAATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
71222458 AATTACCGAAATACCCCTTTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
71222485 AATTACTTAAATACCCCTATCA-AGTAG
1 AATTACTGAAATACCCCTGT-AGGGTAG
71222512 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
71222539 AATTACTGAAATA-CCCTATAAAGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
71222565 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
71222592 AATTACTAAAATA-CCCTATAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
71222618 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
71222645 AAATACTGAAATACCCCTATACGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
71222672 AATTACTGAGATACCC
1 AATTACTGAAATACCC
71222688 TCATGGGTTA
Statistics
Matches: 260, Mismatches: 47, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
26 44 0.17
27 215 0.83
28 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:71222418 original size:54 final size:54
Alignment explanation
Indices: 71222358--71222687 Score: 468
Period size: 54 Copynumber: 6.1 Consensus size: 54
71222348 AAAATTACTA
* *
71222358 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
* **
71222412 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAAATAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
* * *
71222466 AAATACCCCTTTAGGGTAGAATTACTTAAATACCCCTATCAA-GTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTAT-AAGGTAGAATTACCG
*
71222520 AAATACCCCTGTAGGGTAGAATTACTGAAATA-CCCTATAAAGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
* * * *
71222573 AAATACCCTTGTAGGGTAGAATTACTAAAATA-CCCTATAGGGTAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
* * * *
71222626 AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATACGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
*
71222680 AGATACCC
1 AAATACCC
71222688 TCATGGGTTA
Statistics
Matches: 251, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
52 2 0.01
53 95 0.38
54 152 0.61
55 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
Found at i:71222715 original size:27 final size:27
Alignment explanation
Indices: 71222685--71222742 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
71222675 TACTGAGATA
*
71222685 CCCTCATGGGT-TAAAATTACCATTTTG
1 CCCTCA-GGGTGTAAAATGACCATTTTG
* * *
71222712 CCCTTAGGGTGTTAAATGACTATTTTG
1 CCCTCAGGGTGTAAAATGACCATTTTG
71222739 CCCT
1 CCCT
71222743 TGTGGGCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (27 bp):
CCCTCAGGGTGTAAAATGACCATTTTG
Found at i:71223065 original size:22 final size:22
Alignment explanation
Indices: 71223040--71223091 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
71223030 TCAATGGCCC
71223040 TGTGCCAACCTAAATATGGCTT
1 TGTGCCAACCTAAATATGGCTT
* * * *
71223062 TGTGCCATCTTGACTATGGCTT
1 TGTGCCAACCTAAATATGGCTT
*
71223084 CGTGCCAA
1 TGTGCCAA
71223092 ACGTATTTAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (22 bp):
TGTGCCAACCTAAATATGGCTT
Found at i:71223279 original size:27 final size:26
Alignment explanation
Indices: 71223249--71223357 Score: 137
Period size: 27 Copynumber: 4.1 Consensus size: 26
71223239 ATTCTGTTAA
* *
71223249 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
71223276 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
71223303 GTGGCTCTGCCACAATATCTGTATCTA
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
71223330 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
71223356 GT
1 GT
71223358 AGTCATGCTG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 52 0.71
28 7 0.10
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:71223506 original size:25 final size:25
Alignment explanation
Indices: 71223477--71223540 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
71223467 CATTCACATT
* *
71223477 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTTTGATTCTGTCACCTAATA
*
71223502 CTGATTTTGATTCTGTCACCTAATT
1 CTGATTTTGATTCTGTCACCTAATA
71223527 CTGATTTTGATTCT
1 CTGATTTTGATTCT
71223541 AATTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (25 bp):
CTGATTTTGATTCTGTCACCTAATA
Found at i:71223531 original size:31 final size:31
Alignment explanation
Indices: 71223496--71223609 Score: 90
Period size: 31 Copynumber: 3.7 Consensus size: 31
71223486 ATTCTGTTAC
*
71223496 CTGATACTGATTTTGATTCTGTCACCTAATT
1 CTGATACTGATTCTGATTCTGTCACCTAATT
** * * * *
71223527 CTGATTTTGATTCTAATT-T-TGATTCT-GTT
1 CTGATACTGATTCTGATTCTGTCA-CCTAATT
* *
71223556 ACCTGATACTGATTCTGATTTTGTCACTTAATT
1 --CTGATACTGATTCTGATTCTGTCACCTAATT
*
71223589 CTGATTCTGATTCTGATTCTG
1 CTGATACTGATTCTGATTCTG
71223610 ATTCTCATTT
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
29 4 0.07
30 3 0.05
31 48 0.79
32 2 0.03
33 4 0.07
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (31 bp):
CTGATACTGATTCTGATTCTGTCACCTAATT
Found at i:71223546 original size:37 final size:37
Alignment explanation
Indices: 71223496--71223575 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
71223486 ATTCTGTTAC
* * *
71223496 CTGATACTGATTTTGATTCTGTCACCTAATTCTGATT
1 CTGATTCTAATTTTGATTCTGTCACCTAATACTGATT
* * *
71223533 TTGATTCTAATTTTGATTCTGTTACCTGATACTGATT
1 CTGATTCTAATTTTGATTCTGTCACCTAATACTGATT
71223570 CTGATT
1 CTGATT
71223576 TTGTCACTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (37 bp):
CTGATTCTAATTTTGATTCTGTCACCTAATACTGATT
Found at i:71223550 original size:62 final size:62
Alignment explanation
Indices: 71223474--71223614 Score: 228
Period size: 62 Copynumber: 2.3 Consensus size: 62
71223464 TTGCATTCAC
* *
71223474 ATTCTGATTTTGATTCTGTTACCTGATACTGATTTTGATTCTGTCACCTAATTCTGATTTTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTG
* * *
71223536 ATTCTAATTTTGATTCTGTTACCTGATACTGATTCTGATTTTGTCACTTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTG
*
71223598 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
71223615 CATTTTGATT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 72 1.00
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.50
Consensus pattern (62 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTG
Found at i:71223573 original size:6 final size:6
Alignment explanation
Indices: 71223474--71223635 Score: 82
Period size: 6 Copynumber: 26.3 Consensus size: 6
71223464 TTGCATTCAC
* * * * *
71223474 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTTTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
71223524 ATTCTG ATTTTG ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * *
71223573 ATTTTG -TCACTTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
71223622 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
71223636 AATGTTTCTT
Statistics
Matches: 114, Mismatches: 28, Indels: 28
0.67 0.16 0.16
Matches are distributed among these distances:
5 7 0.06
6 92 0.81
7 11 0.10
8 4 0.04
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:71227761 original size:48 final size:47
Alignment explanation
Indices: 71227661--71227762 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 47
71227651 ACATAATAAG
* * * *
71227661 ATGCCAAAGCCATGTCCTAGATATGGTCCTACATGGGATTAGCACTCG
1 ATGCCAAAGCCATGTCCTAGACATGGTCCTACATCGGATTA-CAATCA
* *
71227709 ATGCCAATGCCATGTCCTAGACATGGTCTTACATCGGATCT-CATATCA
1 ATGCCAAAGCCATGTCCTAGACATGGTCCTACATCGGAT-TACA-ATCA
71227757 ATGCCA
1 ATGCCA
71227763 TATCCCAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.04
48 43 0.93
49 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (47 bp):
ATGCCAAAGCCATGTCCTAGACATGGTCCTACATCGGATTACAATCA
Found at i:71230042 original size:27 final size:27
Alignment explanation
Indices: 71230009--71230209 Score: 267
Period size: 27 Copynumber: 7.4 Consensus size: 27
71229999 TGAATAAGTT
*
71230009 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTATAGG
*
71230036 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGG
** *
71230063 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGG
*
71230090 GTAGAATTACCGAAATACCCCTTGTAGG
1 GTAGAATTACCGAAATACCCC-TATAGG
*
71230118 ATAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* *
71230145 GTAGAAATACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* * * *
71230172 GTAGAATTACTGAGATACCCTTATCGG
1 GTAGAATTACCGAAATACCCCTATAGG
*
71230199 GTAAAATTACC
1 GTAGAATTACC
71230210 ATTTTGCCCC
Statistics
Matches: 156, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 130 0.83
28 26 0.17
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTATAGG
Found at i:71230145 original size:82 final size:81
Alignment explanation
Indices: 71230009--71230209 Score: 278
Period size: 82 Copynumber: 2.5 Consensus size: 81
71229999 TGAATAAGTT
* * *
71230009 GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACT
*
71230074 GAAATACCCCTGTAGG
66 GAAATACCCCTATAGG
*
71230090 GTAGAATTACCGAAATACCCCT-TGTAGGATAGAATTACCGAAATACCCCTATAGGGTAGAAATA
1 GTAGAATTACCGAAATACCCCTAT-AAGG-TAGAATTACCGAAATACCCCTATAGGGTAGAAATA
71230154 CTGAAATACCCCTATAGG
64 CTGAAATACCCCTATAGG
* * * ** *
71230172 GTAGAATTACTGAGATACCCTTATCGGGTAAAATTACC
1 GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACC
71230210 ATTTTGCCCC
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.01
81 34 0.32
82 70 0.66
83 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACT
GAAATACCCCTATAGG
Found at i:71230220 original size:109 final size:109
Alignment explanation
Indices: 71230010--71230209 Score: 310
Period size: 109 Copynumber: 1.8 Consensus size: 109
71230000 GAATAAGTTG
* * *
71230010 TAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
1 TAGAATTACCGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTG
* *
71230075 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTTGTAGGA
66 AAATACCCCTATAGGGTAAAATTACCGAAATACCCCTTGTAGGA
* *
71230119 TAGAATTACCGAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTATAGGGTAGAATTACTG
1 TAGAATTACCGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTG
* * *
71230184 AGATACCCTTATCGGGTAAAATTACC
66 AAATACCCCTATAGGGTAAAATTACC
71230210 ATTTTGCCCC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
109 81 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (109 bp):
TAGAATTACCGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTG
AAATACCCCTATAGGGTAAAATTACCGAAATACCCCTTGTAGGA
Found at i:71231894 original size:33 final size:33
Alignment explanation
Indices: 71231803--71231895 Score: 125
Period size: 32 Copynumber: 2.8 Consensus size: 33
71231793 AATATACAAA
*
71231803 ACAATCTGGGCTTTAGCCCTATACAGTACCAGT
1 ACAATCTGGGCCTTAGCCCTATACAGTACCAGT
* * * *
71231836 ACAGTCCGGG-CATAGCCCTATACAGTAGCAGT
1 ACAATCTGGGCCTTAGCCCTATACAGTACCAGT
*
71231868 ACAATCTGGGCCTTAGTCCTATACAGTA
1 ACAATCTGGGCCTTAGCCCTATACAGTA
71231896 AAAGTGTGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 27 0.54
33 23 0.46
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (33 bp):
ACAATCTGGGCCTTAGCCCTATACAGTACCAGT
Found at i:71232283 original size:27 final size:27
Alignment explanation
Indices: 71232252--71232556 Score: 398
Period size: 27 Copynumber: 11.3 Consensus size: 27
71232242 GGGCATAATC
* *
71232252 GTCATTTTACCATGA-AGGGGTATTACA
1 GTCATTTTACCAT-ACAGGGGCATTACG
*
71232279 GTCATTTTACCATATAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* * *
71232306 ATCATTTTATCC-TATAGGGGCATTACA
1 GTCATTTTA-CCATACAGGGGCATTACG
71232333 GTCATTTTACCATACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
*
71232360 GTCATTTTACCATACAGGGGCATTACA
1 GTCATTTTACCATACAGGGGCATTACG
* * *
71232387 GTCATTTTACCCTATAGGGGCATTATG
1 GTCATTTTACCATACAGGGGCATTACG
*
71232414 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* *
71232441 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* *
71232468 GTCATTTTACCTTACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* *
71232495 ATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
** *
71232522 GTCATTTTACGTTATAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
71232549 GTCATTTT
1 GTCATTTT
71232557 GCCTAGTTTA
Statistics
Matches: 252, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
26 3 0.01
27 247 0.98
28 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCATTACG
Found at i:71232703 original size:17 final size:17
Alignment explanation
Indices: 71232681--71232719 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
71232671 TCAGCCCAAA
71232681 TGGCCTACACGCTCGTG
1 TGGCCTACACGCTCGTG
*
71232698 TGGCCTACATGCTCGTG
1 TGGCCTACACGCTCGTG
71232715 TGGCC
1 TGGCC
71232720 CATTTAGCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (17 bp):
TGGCCTACACGCTCGTG
Found at i:71235502 original size:50 final size:50
Alignment explanation
Indices: 71235394--71235529 Score: 177
Period size: 50 Copynumber: 2.8 Consensus size: 50
71235384 AGATATCAAC
* * * * *
71235394 GCCATATCCCAAATATGGTCTTACATGGGATCAC-CA-CTCGATGCCAAT
1 GCCATATCCCAGACATGGTCTTACATGGGATCTCATATCTAGATGCCAAT
* *
71235442 GCCATGTCCCAGACATGGTCTTACATGGGATCTCATATGTAGATGCCAAT
1 GCCATATCCCAGACATGGTCTTACATGGGATCTCATATCTAGATGCCAAT
* *
71235492 GCCATATCCCAGACATGGTCTTACTTGGGAACTCATAT
1 GCCATATCCCAGACATGGTCTTACATGGGATCTCATAT
71235530 TAACACCATA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
48 30 0.39
49 1 0.01
50 45 0.59
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (50 bp):
GCCATATCCCAGACATGGTCTTACATGGGATCTCATATCTAGATGCCAAT
Found at i:71238499 original size:119 final size:120
Alignment explanation
Indices: 71238323--71238545 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
71238313 TACTCGTTCA
* * *
71238323 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
71238388 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* *
71238443 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
71238505 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
71238546 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 4 0.04
119 67 0.74
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:71238545 original size:40 final size:40
Alignment explanation
Indices: 71238302--71238545 Score: 300
Period size: 40 Copynumber: 6.1 Consensus size: 40
71238292 CGGAATTTAA
** *
71238302 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71238342 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71238382 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71238422 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71238461 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
71238501 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
71238541 CCGGA
1 CCGGA
71238546 CATCATTCAA
Statistics
Matches: 180, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.18
40 133 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:71249443 original size:14 final size:15
Alignment explanation
Indices: 71249424--71249453 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
71249414 ATATTTGACT
71249424 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
71249438 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
71249453 T
1 T
71249454 TCTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:71254460 original size:22 final size:23
Alignment explanation
Indices: 71254416--71254460 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
71254406 TGGTCTTAGG
* *
71254416 AACAAGAAAAGAAACAAAGGAAA
1 AACAAGAAAAGAAAAAAAAGAAA
*
71254439 AACAA-AAATGAAAAAAAAGAAA
1 AACAAGAAAAGAAAAAAAAGAAA
71254461 GGGCTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.78, C:0.07, G:0.13, T:0.02
Consensus pattern (23 bp):
AACAAGAAAAGAAAAAAAAGAAA
Found at i:71255008 original size:55 final size:55
Alignment explanation
Indices: 71254943--71255052 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
71254933 TGTATGGTAA
71254943 CCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
1 CCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
*
71254998 CCTTGTATTTGAAATTTGAAATTCAAACACAAACTAGTTGATCTTATCCTTGAAG
1 CCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
71255053 TTGACGCCAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (55 bp):
CCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
Found at i:71260664 original size:16 final size:16
Alignment explanation
Indices: 71260643--71260675 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
71260633 CACAAGTTTC
71260643 TTTTCTT-TTTTTATTT
1 TTTTCTTCTTTTT-TTT
71260659 TTTTCTTCTTTTTTTT
1 TTTTCTTCTTTTTTTT
71260675 T
1 T
71260676 GAATTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTCTTCTTTTTTTT
Found at i:71261550 original size:55 final size:55
Alignment explanation
Indices: 71261461--71261569 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
71261451 TGTATAGCAA
71261461 CCTTGTATTTGAAATTTAAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
1 CCTTGTATTTGAAATTTAAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
* *
71261516 CCTTGTATTTGAAATTTGAAATTCAAACATAAACTACTTGATCTTATCCTTGAA
1 CCTTGTATTTGAAATTTAAAATTCAAACACAAACTACTTGATCTTATCCTTGAA
71261570 ATTGACGCCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (55 bp):
CCTTGTATTTGAAATTTAAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
Found at i:71266087 original size:38 final size:38
Alignment explanation
Indices: 71266036--71266196 Score: 243
Period size: 38 Copynumber: 4.3 Consensus size: 38
71266026 ATATTCGATG
*
71266036 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
71266074 TATATCCAGGTTAAATCCCGCAGGCTTCGTGC-GGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
71266111 TATATCCGGGTTAAATCCCGCAGGCTTCTTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
** * *
71266149 TATATCCGGGTTAAATCTTGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
71266187 TATATTCGGG
1 TATATCCGGG
71266197 CCTTTGAGCC
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
37 34 0.30
38 78 0.70
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:71266161 original size:75 final size:76
Alignment explanation
Indices: 71266036--71266196 Score: 243
Period size: 75 Copynumber: 2.1 Consensus size: 76
71266026 ATATTCGATG
*
71266036 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCCT
*
71266101 CGTGC-GGTAT
66 AGTGCTGGTAT
* * * **
71266111 TATATCCGGGTTAAATCCCGCAGGCTTCTTGCTGGTATTATATCCGGGTTAAATCTTGCAGGCCT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCCT
71266176 AGTGCTGGTAT
66 AGTGCTGGTAT
*
71266187 TATATTCGGG
1 TATATCCGGG
71266197 CCTTTGAGCC
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 63 0.82
76 14 0.18
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.32
Consensus pattern (76 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCCT
AGTGCTGGTAT
Found at i:71270929 original size:22 final size:23
Alignment explanation
Indices: 71270848--71270958 Score: 111
Period size: 22 Copynumber: 4.7 Consensus size: 23
71270838 GGACTCACCA
71270848 CAGCTCGTATGAGCTTACTGATAT
1 CAGCTCGTATGAGCTTACTG-TAT
* * * *
71270872 ACCAGCTTGTAAGAGCTTACTATTCT
1 --CAGCTCGTATGAGCTTACT-GTAT
*
71270898 CAGCTAGTATGAGCTTACTGT-T
1 CAGCTCGTATGAGCTTACTGTAT
71270920 CAGCTCGTATGAGCTTACTGT-T
1 CAGCTCGTATGAGCTTACTGTAT
71270942 CAGCTCGTCA-GAGCTTA
1 CAGCTCGT-ATGAGCTTA
71270959 TCGTTTCAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
22 37 0.49
23 2 0.03
24 17 0.23
26 19 0.25
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTAT
Found at i:71294535 original size:24 final size:25
Alignment explanation
Indices: 71294487--71294537 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
71294477 GCATGCAAAC
71294487 CCATCTGGGGAGACTACTCAACCCA
1 CCATCTGGGGAGACTACTCAACCCA
71294512 CCATCTGGGGA-A-TATCTCAACCCA
1 CCATCTGGGGAGACTA-CTCAACCCA
71294536 CC
1 CC
71294538 CAGCCTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 2 0.08
24 12 0.48
25 11 0.44
ACGTcount: A:0.27, C:0.37, G:0.18, T:0.18
Consensus pattern (25 bp):
CCATCTGGGGAGACTACTCAACCCA
Found at i:71324104 original size:15 final size:15
Alignment explanation
Indices: 71324080--71324109 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71324070 ACTAATGTAT
71324080 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
71324095 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
71324110 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:71328923 original size:25 final size:25
Alignment explanation
Indices: 71328893--71329152 Score: 326
Period size: 25 Copynumber: 10.4 Consensus size: 25
71328883 GACCTCAGCA
* *
71328893 TGCTCTCTGATTATTAGCACGTCAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
71328918 TGCTCTCT-AATTATTAGCATGTCAG
1 TGCTCTCTGAA-TATTAGCACGCCAG
* *
71328943 TGCTATCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
71328968 TGCTCTCTGAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
71328993 TGCTCTCTGAATATTAGCACGCCAA
1 TGCTCTCTGAATATTAGCACGCCAG
* * *
71329018 TGCTATCTAAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
* * *
71329043 TGCTCTTTGAATATTAGCATGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
71329068 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
71329093 TTCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
71329118 TGCTCTTTG-ATATTTAGCACGTCAG
1 TGCTCTCTGAATA-TTAGCACGCCAG
71329143 TGCTCTCTGA
1 TGCTCTCTGA
71329153 TTAGCACATT
Statistics
Matches: 202, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
24 3 0.01
25 198 0.98
26 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (25 bp):
TGCTCTCTGAATATTAGCACGCCAG
Found at i:71329196 original size:22 final size:21
Alignment explanation
Indices: 71329131--71329197 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
71329121 TCTTTGATAT
*
71329131 TTAGCACGTCAGTGCTCTCTG
1 TTAGCACTTCAGTGCTCTCTG
*
71329152 ATTAGCACATT-TGTGCTCTCTG
1 -TTAGCAC-TTCAGTGCTCTCTG
71329174 TGTAGCACTTCAGTGCTCTCTG
1 T-TAGCACTTCAGTGCTCTCTG
71329196 TT
1 TT
71329198 CATTAGTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (21 bp):
TTAGCACTTCAGTGCTCTCTG
Found at i:71336185 original size:40 final size:40
Alignment explanation
Indices: 71336116--71336318 Score: 327
Period size: 40 Copynumber: 5.1 Consensus size: 40
71336106 AACCCAAGTA
* **
71336116 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
71336155 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71336195 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
71336235 CCTTCGGGACTTAGCCCGGATATAGTAACTCTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
71336275 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71336315 CCTT
1 CCTT
71336319 TGGATCTTAG
Statistics
Matches: 153, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 12 0.08
40 141 0.92
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:71339825 original size:46 final size:46
Alignment explanation
Indices: 71339775--71340042 Score: 391
Period size: 46 Copynumber: 5.8 Consensus size: 46
71339765 TGTTTGGGCA
71339775 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
71339821 TCCGAACTCGTTTAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
71339867 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
71339913 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* *
71339958 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
71340006 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71340043 GCGGGTTACA
Statistics
Matches: 202, Mismatches: 11, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
42 1 0.00
43 7 0.03
44 1 0.00
45 2 0.01
46 154 0.76
47 27 0.13
48 2 0.01
49 1 0.00
50 6 0.03
51 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:71360062 original size:30 final size:30
Alignment explanation
Indices: 71360028--71360088 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
71360018 TCCTTAACTC
71360028 AAACTTTGGCAAAACTACAATTTTGCCCCT
1 AAACTTTGGCAAAACTACAATTTTGCCCCT
* * ** *
71360058 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAACTACAATTTTGCCCCT
71360088 A
1 A
71360089 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAACTACAATTTTGCCCCT
Found at i:71364614 original size:15 final size:14
Alignment explanation
Indices: 71364591--71364626 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
71364581 AAATAATCCA
*
71364591 AATAAAAATGAATT
1 AATAAAAATGAATG
71364605 AATAAGAAATGAATG
1 AATAA-AAATGAATG
71364620 AATAAAA
1 AATAAAA
71364627 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AATAAAAATGAATG
Found at i:71365895 original size:24 final size:24
Alignment explanation
Indices: 71365869--71366004 Score: 139
Period size: 24 Copynumber: 5.7 Consensus size: 24
71365859 GAAATGGCTT
71365869 TGGCACTATGTGTGCGAATTTG-A
1 TGGCACTATGTGTGCGAATTTGTA
*
71365892 TTGGCACTATGTGTACGAATTTGTA
1 -TGGCACTATGTGTGCGAATTTGTA
* *
71365917 CGGCACTATGTGTGTGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGTA
* *
71365941 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGTA
* * * * * **
71365965 TGTCAATATGTATGTGCATTACTA
1 TGGCACTATGTGTGCGAATTTGTA
*
71365989 AGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
71366005 GGTAAACATG
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
24 89 0.99
25 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGTA
Found at i:71367039 original size:18 final size:18
Alignment explanation
Indices: 71367016--71367053 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
71367006 AATGGATATG
71367016 ATAAATCTACAATGCAAT
1 ATAAATCTACAATGCAAT
71367034 ATAAATCTACAATGCAAT
1 ATAAATCTACAATGCAAT
71367052 AT
1 AT
71367054 TTACTTAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (18 bp):
ATAAATCTACAATGCAAT
Found at i:71372421 original size:28 final size:28
Alignment explanation
Indices: 71372361--71372422 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
71372351 AATGACCAAA
* *
71372361 ATACCCCTAAGGGGTAAAAATTACTATT
1 ATACCTCTAAGGGGTAAAAATGACTATT
* * * *
71372389 CTACCTCTAATGGGTGAAAATGACTGTT
1 ATACCTCTAAGGGGTAAAAATGACTATT
71372417 ATACCT
1 ATACCT
71372423 TAGAGGTAGG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (28 bp):
ATACCTCTAAGGGGTAAAAATGACTATT
Found at i:71377255 original size:30 final size:30
Alignment explanation
Indices: 71377160--71377256 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
71377150 AGCTCACTCC
* *
71377160 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAGCCT
* * * * *
71377190 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAGCCT
* *
71377220 CAGCTCAACTTTAGCTCACGAGCTAAGGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAGCCT
71377250 TAGCTCA
1 TAGCTCA
71377257 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAGCCT
Found at i:71385720 original size:31 final size:31
Alignment explanation
Indices: 71385675--71385753 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
71385665 TTTAACGGTT
*
71385675 ACTAGGCTGAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
*
71385706 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
* *
71385737 ATTAGGCCGAAACCTTT
1 ACTAGGCCGAAGCCTTT
71385754 ACTGTAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (31 bp):
ACTAGGCCGAAGCCTTTTCATAAATCATATC
Found at i:71386037 original size:51 final size:52
Alignment explanation
Indices: 71385959--71386093 Score: 190
Period size: 51 Copynumber: 2.7 Consensus size: 52
71385949 CTGGAGGCCT
* * *
71385959 AGCCTCTTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGGTAAATTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
*
71386008 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTCCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
71386060 AG-CCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
71386094 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 9 0.12
51 53 0.69
52 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
Found at i:71386049 original size:26 final size:26
Alignment explanation
Indices: 71385959--71386093 Score: 154
Period size: 25 Copynumber: 5.3 Consensus size: 26
71385949 CTGGAGGCCT
*
71385959 AGCCTCTTTT-AAT-AACTAGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
71385983 AGCCCTTTTCGGTAAATTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
71386008 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* ** *
71386034 AGCCCTTTCCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
71386060 AG-CCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
71386085 AGCCCTTTT
1 AGCCCTTTT
71386094 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 51 0.55
26 31 0.34
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:71386922 original size:27 final size:27
Alignment explanation
Indices: 71386892--71386983 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
71386882 GGGCACATTC
*
71386892 GTCATTTTACCATACAGGGG-TATTACG
1 GTCATTTTACCCTACAGGGGCT-TTACG
*
71386919 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
71386946 GTC-TCTTTACCCTACAGGGGCTTTACG
1 GTCAT-TTTACCCTACAGGGGCTTTACG
* *
71386973 GACTTTTTACC
1 GTCATTTTACC
71386984 TAATAGGGGT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
27 56 0.97
28 2 0.03
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCTTTACG
Found at i:71387216 original size:81 final size:81
Alignment explanation
Indices: 71387098--71387360 Score: 322
Period size: 81 Copynumber: 3.3 Consensus size: 81
71387088 TTTAGAAAGT
*
71387098 CAAGGGTATTTCT-GTAACTTTGTA-AATCT-GGGGTATTTTGGTAATTTTACAAATCGAAGGTA
1 CAAGGGTATTT-TAGTAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAAGGTA
*
71387160 TTTCGGTAATTTCACAAAC
63 TTTCGGTAATTTTACAAAC
* *
71387179 C-AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAT-TAAGGGTAT
1 CAAG-GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAA-GGTAT
71387242 TTCGGTAATTTTACAAAC
64 TTCGGTAATTTTACAAAC
* * ** *
71387260 CAAGGGTATTTTAGCAATTTTACAGACTA-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTT
* **
71387324 TGGTAATTTTGTAAAC
66 CGGTAATTTTACAAAC
*
71387340 CGAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
71387361 GTAAATCAAG
Statistics
Matches: 160, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
79 2 0.01
80 73 0.46
81 83 0.52
82 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (81 bp):
CAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTT
CGGTAATTTTACAAAC
Found at i:71387361 original size:27 final size:27
Alignment explanation
Indices: 71387014--71387401 Score: 232
Period size: 27 Copynumber: 14.3 Consensus size: 27
71387004 TTTCATCCTA
* * * *
71387014 CAAGGGTGTTTTGGTAAATCTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * *
71387040 CTAAGGGTATTTCAGTAATTTTGTTAAAC
1 C-AAGGGTATTTTGGTAATTTT-ATAAAT
* *** *
71387069 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-T
* *
71387098 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAT
** *
71387125 CTGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
71387152 CGAA-GGTATTTCGGTAATTTCACAAA-
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* *
71387178 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* *
71387205 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* * * *
71387233 TAAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
71387260 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
71387286 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAT
* * *
71387313 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
71387340 CGAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*** * *
71387367 CAAGGGTAAAATAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
71387394 CAAGGGTA
1 CAAGGGTA
71387402 AAATAGTAAT
Statistics
Matches: 291, Mismatches: 56, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.00
26 25 0.09
27 221 0.76
28 26 0.09
29 18 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:71387373 original size:54 final size:54
Alignment explanation
Indices: 71387014--71387401 Score: 275
Period size: 54 Copynumber: 7.1 Consensus size: 54
71387004 TTTCATCCTA
* * * *
71387014 CAAGGGTGTTTTGGTAAATCTACAAA-CTAAGGGTATTTCAGTAATTTTGTTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTTAGTAATTTTG-TAAAC
* *** * * *
71387069 CAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-TCAAGGGTATTT-TAGTAATTTTGTAAAC
** ** ***
71387125 CTGGGGTATTTTGGTAATTTTACAAATCGAA-GGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTTAGTAATTTTGTAAAC
* * ** *
71387179 C-AGTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTTGGTAATTTTACAAATC-AAGGGTATTTTAGTAATTTTGTAAAC
* * * * ** *
71387233 TAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTGTAAAC
* ** * *
71387286 CTAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTGTAAAC
* * ** *** *
71387340 CGAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTGTAAAC
71387394 CAAGGGTA
1 CAAGGGTA
71387402 AAATAGTAAT
Statistics
Matches: 261, Mismatches: 61, Indels: 23
0.76 0.18 0.07
Matches are distributed among these distances:
53 44 0.17
54 152 0.58
55 25 0.10
56 21 0.08
57 18 0.07
58 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTGTAAAC
Found at i:71387386 original size:107 final size:108
Alignment explanation
Indices: 71387165--71387387 Score: 243
Period size: 107 Copynumber: 2.1 Consensus size: 108
71387155 AGGTATTTCG
* *
71387165 GTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACA
1 GTAATTTTACAAACCAGTGGTATTTTGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACA
** * ***
71387230 AATTAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTA
66 AACCAAGGGTATTTCAGTAATTTTACAAACCAAGGGTAAAATA
* * * * * **
71387273 GCAATTTTACAGACTAG-GGTATTTTGGTAATTTTACTGATCGA-GGGTATTTTGGTAATTTTGT
1 GTAATTTTACAAACCAGTGGTATTTTGGTAATTTTAC-AAACGAGGGGTATTTTGGTAATTTTAC
* * ** *
71387336 AAACCGAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAATA
65 AAACCAAGGGTATTTCAGTAATTTTACAAACCAAGGGTAAAATA
71387380 GTAATTTT
1 GTAATTTT
71387388 GTAAATCAAG
Statistics
Matches: 93, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
107 77 0.83
108 16 0.17
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (108 bp):
GTAATTTTACAAACCAGTGGTATTTTGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACA
AACCAAGGGTATTTCAGTAATTTTACAAACCAAGGGTAAAATA
Found at i:71387402 original size:27 final size:27
Alignment explanation
Indices: 71387326--71387482 Score: 172
Period size: 27 Copynumber: 5.8 Consensus size: 27
71387316 GGGTATTTTG
* * ***
71387326 GTAATTTTGTAAACCGAGGGTATTTTA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
71387353 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
71387380 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * *
71387407 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
71387434 GTAATTCCGTAAATCGAGGGTAAAA-A
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
71387460 GATAATTCTATAAATCGAGGGTA
1 G-TAATTCTGTAAATCGAGGGTA
71387483 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 112 0.99
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.32
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:71387409 original size:54 final size:54
Alignment explanation
Indices: 71387326--71387482 Score: 190
Period size: 54 Copynumber: 2.9 Consensus size: 54
71387316 GGGTATTTTG
* *** * * *
71387326 GTAATTTTGTAAACCGAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATA
* * *
71387380 GTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATA
**
71387434 GTAATTCCGTAAATCGAGGGTAAAA-AGATAATTCTATAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTAAAATAG-TAATTCTATAAATCGAGGGTA
71387483 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.02
54 86 0.98
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.32
Consensus pattern (54 bp):
GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATA
Found at i:71387426 original size:81 final size:81
Alignment explanation
Indices: 71387341--71387527 Score: 178
Period size: 81 Copynumber: 2.3 Consensus size: 81
71387331 TTTGTAAACC
* * *
71387341 GAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAATAG-TAATTTTGTAAATCAAGGGTAAAA
1 GAGGGTATTTTAGTAATTTCGTAAATCAAGGGTAAAA-AGATAATTCTATAAATCAAGGGTAAAA
*
71387405 TAGTAATTCTATAAATT
65 TAGTAATTCTACAAATT
*** * * * * ***
71387422 GAGGGTAAAATGGTAATTCCGTAAATCGAGGGTAAAAAGATAATTCTATAAATCGAGGGTACTTT
1 GAGGGTATTTTAGTAATTTCGTAAATCAAGGGTAAAAAGATAATTCTATAAATCAAGGGTAAAAT
* * *
71387487 GGTAATTTTACAATTT
66 AGTAATTCTACAAATT
* * *
71387503 GAAGGTATTTCAGTAATTTGGTAAA
1 GAGGGTATTTTAGTAATTTCGTAAA
71387528 CTAAAGTATT
Statistics
Matches: 80, Mismatches: 25, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
80 2 0.03
81 78 0.98
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.35
Consensus pattern (81 bp):
GAGGGTATTTTAGTAATTTCGTAAATCAAGGGTAAAAAGATAATTCTATAAATCAAGGGTAAAAT
AGTAATTCTACAAATT
Found at i:71389800 original size:31 final size:31
Alignment explanation
Indices: 71389757--71389835 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
71389747 TTTAGCGGTT
71389757 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCATATC
*
71389788 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCATATC
71389819 ACTGGGCTGAAGCCTTT
1 ACTGGGCTGAAGCCTTT
71389836 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCTGAAGCCTTTTCATAAATCATATC
Found at i:71390131 original size:26 final size:26
Alignment explanation
Indices: 71390041--71390176 Score: 154
Period size: 26 Copynumber: 5.3 Consensus size: 26
71390031 CTGGAGGCCT
71390041 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
71390065 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
71390090 AGCCCTTTACAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* ** *
71390116 AACCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
71390142 AGCCTTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
71390168 AGCCCTTTT
1 AGCCCTTTT
71390177 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 31 0.33
26 52 0.56
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:71390167 original size:52 final size:51
Alignment explanation
Indices: 71390041--71390176 Score: 188
Period size: 52 Copynumber: 2.7 Consensus size: 51
71390031 CTGGAGGCCT
*
71390041 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCT-TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCAA
* * * *
71390090 AGCCCTTTACAATAAACTAGGGCATAAACCCTTTTCGGTAAACTAGGGCATA
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCA-A
71390142 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTT
71390177 GCACTTCCTC
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 3 0.04
49 7 0.09
50 9 0.12
51 23 0.31
52 32 0.43
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (51 bp):
AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCAA
Found at i:71391180 original size:27 final size:28
Alignment explanation
Indices: 71391045--71391403 Score: 237
Period size: 27 Copynumber: 13.2 Consensus size: 28
71391035 TCATCCTACA
* * * *
71391045 AGGGTGTTTTGGTAAATCTACAAACCA-
1 AGGGTATTTTGGTAATTTTACAAATCAG
* * *
71391072 AGGGTATTTTAGTAATTTTATTAAACCA-
1 AGGGTATTTTGGTAATTTTA-CAAATCAG
* *** * *
71391100 ATGGTATTTCCATAATTTTTAGAAAGTTA-
1 AGGGTATTTTGGTAA-TTTTACAAA-TCAG
* **
71391129 AGGGTATTTCT-GTAACTTTGTAAATCAG
1 AGGGTATTT-TGGTAATTTTACAAATCAG
*
71391157 A-GGTATTTTAGTAATTTTACAAATC-G
1 AGGGTATTTTGGTAATTTTACAAATCAG
* * *
71391183 AGGGTATTTCGGTAATTTCACAAACCAG
1 AGGGTATTTTGGTAATTTTACAAATCAG
*
71391211 -TGGTATTTTGGTAATTTTACAAA-CTAG
1 AGGGTATTTTGGTAATTTTACAAATC-AG
*
71391238 -GGGTATTTTGGTAATTTTACAAAT-TG
1 AGGGTATTTTGGTAATTTTACAAATCAG
* *
71391264 AGGGTATTTCGGTAATTTTACAAACCA-
1 AGGGTATTTTGGTAATTTTACAAATCAG
* * * *
71391291 AGGGTATTTTAGCAATTTTACAGA-C-T
1 AGGGTATTTTGGTAATTTTACAAATCAG
**
71391317 AGGGTATTTTGGTAATTTTACTGATC-G
1 AGGGTATTTTGGTAATTTTACAAATCAG
** *
71391344 AGGGTATTTTGGTAATTTTGTAAA-CCG
1 AGGGTATTTTGGTAATTTTACAAATCAG
* **
71391371 AGGGTATTTTAGTAATTTTGTAAATC-G
1 AGGGTATTTTGGTAATTTTACAAATCAG
71391398 AGGGTA
1 AGGGTA
71391404 AAATAGTAAT
Statistics
Matches: 269, Mismatches: 47, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
26 28 0.10
27 195 0.72
28 29 0.11
29 17 0.06
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (28 bp):
AGGGTATTTTGGTAATTTTACAAATCAG
Found at i:71391216 original size:54 final size:53
Alignment explanation
Indices: 71391045--71391403 Score: 272
Period size: 54 Copynumber: 6.6 Consensus size: 53
71391035 TCATCCTACA
* * * * * * *
71391045 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTATTAAACC
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA-CAAACC
* *** * ** * ** *
71391099 AATGGTATTTCCATAATTTTTAGAAAGTTAAGGGTATTTCT-GTAACTTTGTAAATC
1 -AGGGTATTTTGGTAA-TTTTACAAA-TCGAGGGTATTT-TGGTAATTTTACAAACC
* * *
71391155 AGAGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACC
1 AG-GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACC
* **
71391209 AGTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAA-CC
* * * * * * *
71391264 AGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACT
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACC
** **
71391317 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACC
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACC
* **
71391370 GAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 -AGGGTATTTTGGTAATTTTACAAATCGAGGGTA
71391404 AAATAGTAAT
Statistics
Matches: 239, Mismatches: 56, Indels: 19
0.76 0.18 0.06
Matches are distributed among these distances:
53 44 0.18
54 133 0.56
55 23 0.10
56 21 0.09
57 17 0.07
58 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACC
Found at i:71391252 original size:81 final size:80
Alignment explanation
Indices: 71391158--71391389 Score: 331
Period size: 81 Copynumber: 2.9 Consensus size: 80
71391148 GTAAATCAGA
* * *
71391158 GGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTTGG
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAG-GGTATTTTAG
71391222 TAATTTTACAAACTAGG
65 TAATTTTACAAACTA-G
* *
71391239 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGC
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGT
*
71391304 AATTTTACAGACTAG
66 AATTTTACAAACTAG
** * ** *
71391319 GGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTATTTTAGT
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGT
71391384 AATTTT
66 AATTTT
71391390 GTAAATCGAG
Statistics
Matches: 136, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 64 0.47
81 70 0.51
82 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (80 bp):
GGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGT
AATTTTACAAACTAG
Found at i:71391519 original size:27 final size:27
Alignment explanation
Indices: 71391129--71391525 Score: 257
Period size: 27 Copynumber: 14.7 Consensus size: 27
71391119 TAGAAAGTTA
* *
71391129 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTATAAATCG
* *
71391155 AGAGGTATTTTAGTAATTTTACAAATCG
1 AG-GGTATTTTGGTAATTTTATAAATCG
* * * *
71391183 AGGGTATTTCGGTAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
71391209 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTATAAATCG
* *
71391236 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * * *
71391264 AGGGTATTTCGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * * *
71391291 AGGGTATTTTAGCAATTTTACAGA-CT
1 AGGGTATTTTGGTAATTTTATAAATCG
*
71391317 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
* *
71391344 AGGGTATTTTGGTAATTTTGTAAACCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
71391371 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * * *
71391398 AGGGTAAAATAGTAATTCTATAAATCA
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * * *
71391425 AGGGTAAAATAGTAATTCTATAGATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * *
71391452 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** *
71391479 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*
71391506 AGGGTACTTTGGTAATTTTA
1 AGGGTATTTTGGTAATTTTA
71391526 CAATTTGAAG
Statistics
Matches: 314, Mismatches: 48, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
26 28 0.09
27 282 0.90
28 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:71391548 original size:81 final size:80
Alignment explanation
Indices: 71391340--71391549 Score: 213
Period size: 81 Copynumber: 2.6 Consensus size: 80
71391330 AATTTTACTG
* * * * *
71391340 ATCGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTAT-AATCGAGGGTATTTCAGTAATTCTGTAAATCGAGGGTAA
*
71391405 AATAGTAATTCTATAA
65 AACAGTAATTCTATAA
* ** * * *** *
71391421 ATCAAGGGTAAAATAGTAATTCTATAGATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATA-ATCGAGGGTATTTCAGTAATTCTGTAAATCGAGGGTAA
*
71391486 AACGGTAATTCTATAA
65 AACAGTAATTCTATAA
* * * *
71391502 ATCGAGGGTACTTTGGTAATTTTACAATTTGAAGGTATTTCAGTAATT
1 ATCGAGGGTAATTTGGTAATTTTATAA-TCGAGGGTATTTCAGTAATT
71391550 TGGTAAACTA
Statistics
Matches: 98, Mismatches: 29, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
80 2 0.02
81 96 0.98
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (80 bp):
ATCGAGGGTAATTTGGTAATTTTATAATCGAGGGTATTTCAGTAATTCTGTAAATCGAGGGTAAA
ACAGTAATTCTATAA
Found at i:71395286 original size:29 final size:29
Alignment explanation
Indices: 71395223--71395290 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
71395213 TAATCAACCG
71395223 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
71395252 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
71395281 CGCACACTTA
1 CGCACACTTA
71395291 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:71395402 original size:174 final size:174
Alignment explanation
Indices: 71395112--71395439 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
71395102 AACTCAAGGT
* *
71395112 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
71395177 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
71395242 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
71395286 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
71395351 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
71395416 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
71395440 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:71395431 original size:29 final size:30
Alignment explanation
Indices: 71395392--71395470 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
71395382 CTTAATAATC
71395392 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
71395422 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
71395451 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
71395471 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:71399980 original size:22 final size:23
Alignment explanation
Indices: 71399955--71400000 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
71399945 CAACCAAATC
71399955 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
71399977 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
71400000 A
1 A
71400001 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:71400006 original size:23 final size:23
Alignment explanation
Indices: 71399962--71400006 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71399952 ATCAATTCAA
*
71399962 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
71399985 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
71400007 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:71415285 original size:18 final size:18
Alignment explanation
Indices: 71415259--71415296 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
71415249 CTTGGCCCAT
*
71415259 TACAGTAACAGTAAACAG
1 TACAATAACAGTAAACAG
71415277 TACAATAACAGTAAACAG
1 TACAATAACAGTAAACAG
71415295 TA
1 TA
71415297 TGCAAGTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (18 bp):
TACAATAACAGTAAACAG
Found at i:71415778 original size:27 final size:26
Alignment explanation
Indices: 71415719--71415780 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
71415709 GGTTACTGTA
*** *
71415719 GTCATTTTACCCTATAGGGTATTTTG
1 GTCATTTTACCCTATAGGGTAAAATC
*
71415745 GTTATTTTACCCTATGAGGGTAAAATC
1 GTCATTTTACCCTAT-AGGGTAAAATC
71415772 GTCATTTTA
1 GTCATTTTA
71415781 TCACATAAGG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (26 bp):
GTCATTTTACCCTATAGGGTAAAATC
Found at i:71415791 original size:27 final size:27
Alignment explanation
Indices: 71415769--71415981 Score: 345
Period size: 27 Copynumber: 7.9 Consensus size: 27
71415759 TGAGGGTAAA
71415769 ATCGTCATTTTATCACATAAGGGCAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
*
71415796 ATCGTTATTTTTATCACATAAGGGCAAT
1 ATCGTCA-TTTTATCACATAAGGGCAAT
* *
71415824 ATCGTTATTTTATCACATAAGGACAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
* *
71415851 ATTGTCATTTTATCACATAAGGACAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
**
71415878 ATCGTCATTTTATCACATAAGGATAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
71415905 ATCGTCATTTTATCACATAAGGGCAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
*
71415932 ATAGTCATTTTATCACATAAGGGCAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
71415959 ATCGTCATTTTATCACATAAGGG
1 ATCGTCATTTTATCACATAAGGG
71415982 TTCAAGTACG
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 148 0.85
28 27 0.15
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (27 bp):
ATCGTCATTTTATCACATAAGGGCAAT
Found at i:71416340 original size:16 final size:16
Alignment explanation
Indices: 71416319--71416385 Score: 82
Period size: 16 Copynumber: 4.2 Consensus size: 16
71416309 ACAACCCACT
71416319 TTTTGGCTTTTCAGCC
1 TTTTGGCTTTTCAGCC
*
71416335 TTTTGGCTTTTCAG-G
1 TTTTGGCTTTTCAGCC
**
71416350 TTTTCGGCTTTTCAGGT
1 TTTT-GGCTTTTCAGCC
*
71416367 TTTTGGCTTTTCATCC
1 TTTTGGCTTTTCAGCC
71416383 TTT
1 TTT
71416386 GCAGTTTCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
15 4 0.09
16 36 0.82
17 4 0.09
ACGTcount: A:0.06, C:0.19, G:0.19, T:0.55
Consensus pattern (16 bp):
TTTTGGCTTTTCAGCC
Found at i:71416364 original size:32 final size:32
Alignment explanation
Indices: 71416318--71416379 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
71416308 GACAACCCAC
*
71416318 TTTTTGGCTTTTCAGCCTTTTGGCTTTTCAGG
1 TTTTCGGCTTTTCAGCCTTTTGGCTTTTCAGG
**
71416350 TTTTCGGCTTTTCAGGTTTTTGGCTTTTCA
1 TTTTCGGCTTTTCAGCCTTTTGGCTTTTCA
71416380 TCCTTTGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.06, C:0.18, G:0.21, T:0.55
Consensus pattern (32 bp):
TTTTCGGCTTTTCAGCCTTTTGGCTTTTCAGG
Found at i:71417910 original size:43 final size:43
Alignment explanation
Indices: 71417788--71417920 Score: 135
Period size: 43 Copynumber: 3.1 Consensus size: 43
71417778 AAACACATAT
* * * *
71417788 ATCACATA-CAATGCC-ATATACCAGATATGGTCTTACATGTT
1 ATCACATATCGATGCCAATATCCCAGATATGGTCTTACACGTA
** *
71417829 ATCACATATCGATGCCTCTATCCCAGATAGGGTCTTACACGTA
1 ATCACATATCGATGCCAATATCCCAGATATGGTCTTACACGTA
* * * * * *
71417872 ATCTCATATCGATGCCAATGTCCCAGACATGGTTTTACATGAA
1 ATCACATATCGATGCCAATATCCCAGATATGGTCTTACACGTA
71417915 ATCACA
1 ATCACA
71417921 CCTCAAAAGT
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
41 8 0.11
42 6 0.08
43 60 0.81
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
ATCACATATCGATGCCAATATCCCAGATATGGTCTTACACGTA
Found at i:71421491 original size:29 final size:29
Alignment explanation
Indices: 71421447--71421508 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
71421437 GTGAGCATGA
*
71421447 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
71421475 ATATGAATATGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
71421504 ATATG
1 ATATG
71421509 CATGTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:71434896 original size:28 final size:28
Alignment explanation
Indices: 71434847--71435015 Score: 182
Period size: 28 Copynumber: 6.0 Consensus size: 28
71434837 GCATGAATAT
* *
71434847 AATATGATTTGGGCCTAATGGGCCATAG
1 AATATGAATTGGGCCTAGTGGGCCATAG
* *
71434875 AATGTGAATTGGGCCTAGTGGGTCATAAG
1 AATATGAATTGGGCCTAGTGGGCCAT-AG
*
71434904 AATATAAATTGGGCCATA-TGGGCCATAG
1 AATATGAATTGGGCC-TAGTGGGCCATAG
* *
71434932 AATGTGAATTGGGCCTAGTGGGTCATAAG
1 AATATGAATTGGGCCTAGTGGGCCAT-AG
* *
71434961 AATATAAATTGGGCCATA-TGGGCCATTTG
1 AATATGAATTGGGCC-TAGTGGGCCA-TAG
*
71434990 AATAAG-ATTGGGCCTAGTGGGCCATA
1 AATATGAATTGGGCCTAGTGGGCCATA
71435016 TGCATGTATG
Statistics
Matches: 117, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
27 5 0.04
28 59 0.50
29 48 0.41
30 5 0.04
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (28 bp):
AATATGAATTGGGCCTAGTGGGCCATAG
Found at i:71434925 original size:57 final size:57
Alignment explanation
Indices: 71434855--71435015 Score: 254
Period size: 57 Copynumber: 2.8 Consensus size: 57
71434845 ATAATATGAT
71434855 TTGGGCC-TAATGGGCCATAGAATGTGAATTGGGCCTAGTGGGTCATAAGAATATAAA
1 TTGGGCCAT-ATGGGCCATAGAATGTGAATTGGGCCTAGTGGGTCATAAGAATATAAA
71434912 TTGGGCCATATGGGCCATAGAATGTGAATTGGGCCTAGTGGGTCATAAGAATATAAA
1 TTGGGCCATATGGGCCATAGAATGTGAATTGGGCCTAGTGGGTCATAAGAATATAAA
* ** *
71434969 TTGGGCCATATGGGCCATTTGAATAAG-ATTGGGCCTAGTGGGCCATA
1 TTGGGCCATATGGGCCA-TAGAATGTGAATTGGGCCTAGTGGGTCATA
71435016 TGCATGTATG
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
57 91 0.93
58 7 0.07
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (57 bp):
TTGGGCCATATGGGCCATAGAATGTGAATTGGGCCTAGTGGGTCATAAGAATATAAA
Found at i:71442610 original size:23 final size:23
Alignment explanation
Indices: 71442578--71442621 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
71442568 AAAATTTCAC
* *
71442578 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
71442601 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
71442622 TATTTTTTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:71442746 original size:11 final size:12
Alignment explanation
Indices: 71442722--71442757 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
71442712 TCTAAAGCAG
*
71442722 AGAAAAGGAAAA
1 AGAAAAAGAAAA
71442734 AGAAAAA-AAAA
1 AGAAAAAGAAAA
71442745 AGAAAAAGAAAA
1 AGAAAAAGAAAA
71442757 A
1 A
71442758 AGGAAGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAAA
Found at i:71442759 original size:7 final size:6
Alignment explanation
Indices: 71442722--71442757 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
71442712 TCTAAAGCAG
*
71442722 AGAAAA GGAAAA AGAAAA A-AAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A
71442758 AGGAAGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:71442769 original size:17 final size:17
Alignment explanation
Indices: 71442724--71442758 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
71442714 TAAAGCAGAG
*
71442724 AAAAGGAAAAAGAAAAA
1 AAAAAGAAAAAGAAAAA
71442741 AAAAAGAAAAAGAAAAA
1 AAAAAGAAAAAGAAAAA
71442758 A
1 A
71442759 GGAAGAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAA
Found at i:71442818 original size:39 final size:39
Alignment explanation
Indices: 71442772--71442851 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
71442762 AGAGAAAGGA
71442772 TGAGGGACAGTGAGAGAAAAAAATGGGAAAATTTTAATG
1 TGAGGGACAGTGAGAGAAAAAAATGGGAAAATTTTAATG
71442811 TGAGGGACAGTGAGAGAAAAAAATGGGAAAATTTTAATG
1 TGAGGGACAGTGAGAGAAAAAAATGGGAAAATTTTAATG
71442850 TG
1 TG
71442852 GTTATTTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.45, C:0.03, G:0.31, T:0.21
Consensus pattern (39 bp):
TGAGGGACAGTGAGAGAAAAAAATGGGAAAATTTTAATG
Found at i:71446600 original size:40 final size:40
Alignment explanation
Indices: 71446517--71446662 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
71446507 TTGAATGATG
* * * *
71446517 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
*
71446557 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
71446597 TCCGGGTTCAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71446638 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71446663 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 79 0.87
41 11 0.12
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71454531 original size:40 final size:40
Alignment explanation
Indices: 71454448--71454633 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
71454438 TTGAATGATG
* * * *
71454448 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
*
71454488 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71454528 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71454568 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71454609 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71454634 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.91
41 11 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71454640 original size:80 final size:79
Alignment explanation
Indices: 71454501--71454666 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
71454491 GGACTAAGAT
* **
71454501 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
71454565 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
71454581 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
71454645 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
71454660 CCGAAGG
1 CCGAAGG
71454667 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:71456594 original size:27 final size:27
Alignment explanation
Indices: 71456563--71456614 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
71456553 CATCTGATAT
*
71456563 TGATTCTG-TATTGGGCTTAGGCCCACC
1 TGATTCTGTTAATGGGC-TAGGCCCACC
71456590 TGATTCTGTTAATGGGCTAGGCCCA
1 TGATTCTGTTAATGGGCTAGGCCCA
71456615 ACTATTACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (27 bp):
TGATTCTGTTAATGGGCTAGGCCCACC
Found at i:71469314 original size:38 final size:38
Alignment explanation
Indices: 71469272--71469388 Score: 180
Period size: 38 Copynumber: 3.1 Consensus size: 38
71469262 AATTATATTA
* * *
71469272 TCAGCACAAAGCCTGTGGGACTTTAACCCGGATACATT
1 TCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATT
*
71469310 TCAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATT
1 TCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATT
*
71469348 TCCAGCACGAAGCCTGCGGGACTTTAGCTCGGATACATT
1 T-CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATT
71469387 TC
1 TC
71469389 CAGTGTCTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
38 36 0.50
39 36 0.50
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (38 bp):
TCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATT
Found at i:71469365 original size:39 final size:39
Alignment explanation
Indices: 71469273--71469391 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
71469263 ATTATATTAT
* * *
71469273 CAGCACAAAGCCTGTGGGACTTTAACCCGGATACATTT-
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
71469311 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
71469350 CAGCACGAAGCCTGCGGGACTTTAGCTCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
71469389 CAG
1 CAG
71469392 TGTCTTGCAT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
38 34 0.46
39 40 0.54
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:71488904 original size:70 final size:67
Alignment explanation
Indices: 71488764--71488904 Score: 158
Period size: 67 Copynumber: 2.1 Consensus size: 67
71488754 GAGGAAGCGT
* * * * * *
71488764 TCTGGCAGCCTCGCTGCAATTTGGTGGCCTCGCCACATATATTTGTTCTGGTGACTTTGTCACAA
1 TCTGGCAGCCTCCCTGCAATCTGGTGGCCTCGCCACATATATTTATTCTGGTGACCTAGCCACAA
*
71488829 TA
66 CA
* *
71488831 TCTGGCAGCCTCCCTGCAATCTGGT-GCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCCCTGCAATCTGGTGGCCTCGCCAC--ATATAT-T-TATTCTGGTGACCTAGCC
71488895 ACAACA
62 ACAACA
71488901 TCTG
1 TCTG
71488905 TATCTAGTGA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
66 9 0.15
67 23 0.38
68 6 0.10
69 1 0.02
70 22 0.36
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (67 bp):
TCTGGCAGCCTCCCTGCAATCTGGTGGCCTCGCCACATATATTTATTCTGGTGACCTAGCCACAA
CA
Found at i:71496080 original size:27 final size:26
Alignment explanation
Indices: 71496036--71496087 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
71496026 CTCGCTGCAA
*
71496036 TCTGGTGTCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
71496063 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
71496088 GCAGCTTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:71500539 original size:30 final size:30
Alignment explanation
Indices: 71500505--71500562 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
71500495 TTTTCAAATA
* * *
71500505 TAGGGGTAGAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
*
71500535 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
71500563 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Done.