Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 29 of 136
Found at i:9268137 original size:41 final size:41
Alignment explanation
Indices: 9268022--9268138 Score: 117
Period size: 41 Copynumber: 2.9 Consensus size: 41
9268012 TAATTATTCA
* ** * ** *
9268022 CTGACTTGCACATGTGTTCCCCTATTTGTACTTAGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTACACTTCGGTACCC
**
9268063 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTACACTTCGGTACCC
* * * *
9268104 TTGAATTGTACATACTTGCCCCTGTTTACACTTCG
1 CTGAATTGCACATACGTGCCCCTATTTACACTTCG
9268139 ATAACTTTGA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (41 bp):
CTGAATTGCACATACGTGCCCCTATTTACACTTCGGTACCC
Found at i:9268149 original size:41 final size:41
Alignment explanation
Indices: 9268064--9268150 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
9268054 TAGGTACCCC
** * *
9268064 TGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTATTTACACTTCGATAACCT
* * * *
9268105 TGAATTGTACATACTTGCCCCTGTTTACACTTCGATAACTT
1 TGAATTGCACATACGTGCCCCTATTTACACTTCGATAACCT
9268146 TGAAT
1 TGAAT
9268151 CGAGTAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTATTTACACTTCGATAACCT
Found at i:9274006 original size:20 final size:19
Alignment explanation
Indices: 9273979--9274020 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
9273969 CCTTTCAAAT
9273979 TTTCTTATTTTC-ATTTGCA
1 TTTCTTATTTTCTA-TTGCA
9273998 TTTCATTATTTTCTATTGCA
1 TTTC-TTATTTTCTATTGCA
9274018 TTT
1 TTT
9274021 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 16 0.76
21 1 0.05
ACGTcount: A:0.17, C:0.14, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTCTTATTTTCTATTGCA
Found at i:9279764 original size:15 final size:16
Alignment explanation
Indices: 9279735--9279764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9279725 CAAACATACT
9279735 TTAACACATTATCAAA
1 TTAACACATTATCAAA
9279751 TTAACACA-TATCAA
1 TTAACACATTATCAA
9279765 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:9287336 original size:15 final size:15
Alignment explanation
Indices: 9287288--9287329 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
9287278 AACAAGCAAT
*
9287288 GAATCAAGAGGGTAA
1 GAATCAAGAGGGTCA
*
9287303 CAATCAAGAGGGTCA
1 GAATCAAGAGGGTCA
9287318 GAATCAATGAGG
1 GAATCAA-GAGG
9287330 TTAGAATGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.43, C:0.12, G:0.31, T:0.14
Consensus pattern (15 bp):
GAATCAAGAGGGTCA
Found at i:9301776 original size:10 final size:10
Alignment explanation
Indices: 9301761--9301801 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
9301751 ATCGAAAATG
9301761 ATTAAAATTT
1 ATTAAAATTT
9301771 ATTAAAATTT
1 ATTAAAATTT
*
9301781 ATTATAAAATTA
1 A-T-TAAAATTT
9301793 ATTAAAATT
1 ATTAAAATT
9301802 CAACATGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 18 0.64
11 2 0.07
12 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTAAAATTT
Found at i:9305885 original size:41 final size:41
Alignment explanation
Indices: 9305812--9305947 Score: 155
Period size: 41 Copynumber: 3.3 Consensus size: 41
9305802 CATTGAATGT
* * * *
9305812 AAGGGGTTGCTAAGTGTAGACTCCCAGGATCACTTATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCAGAATCACTGATCAAA
** *
9305853 AAGGGGTTGCTAAGTGCAGATTCCTTGAATCACTGATAAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCAGAATCACTGATCAAA
* * * * *
9305894 AAGAGGTTGATAAGTGCAGATTCCCCGAAACTCTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCAGAATCACTGATCAAA
*
9305935 AAGGTGTTGCTAA
1 AAGGGGTTGCTAA
9305948 AGGATATATA
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCAGAATCACTGATCAAA
Found at i:9306417 original size:50 final size:50
Alignment explanation
Indices: 9306362--9306465 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
9306352 ATATGTTATT
9306362 TGATAAATTATTTTATACAATGCTAATGATGATAGTTAAAATGTTAAGTA
1 TGATAAATTATTTTATACAATGCTAATGATGATAGTTAAAATGTTAAGTA
9306412 TGATAAATTATTTTATACAATGCTAATGATGATAGTTAAAATGTTAAGTA
1 TGATAAATTATTTTATACAATGCTAATGATGATAGTTAAAATGTTAAGTA
9306462 TGAT
1 TGAT
9306466 TTAAATATAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.40
Consensus pattern (50 bp):
TGATAAATTATTTTATACAATGCTAATGATGATAGTTAAAATGTTAAGTA
Found at i:9308041 original size:49 final size:49
Alignment explanation
Indices: 9307969--9308066 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
9307959 GAGGTAGACC
*
9307969 ACCGAGAAATACCAGAAGTGAAGTTAGCAGTAAAAGTGTGAAGAAAGAT
1 ACCGAGAAATACCAGAAGTGAAGTTAGAAGTAAAAGTGTGAAGAAAGAT
9308018 ACCGAGAAATACCAGAAGTGAAGTTAGAAGTAAAAGTGTGAAGAAAGAT
1 ACCGAGAAATACCAGAAGTGAAGTTAGAAGTAAAAGTGTGAAGAAAGAT
9308067 TTAGCTATGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.48, C:0.09, G:0.27, T:0.16
Consensus pattern (49 bp):
ACCGAGAAATACCAGAAGTGAAGTTAGAAGTAAAAGTGTGAAGAAAGAT
Found at i:9311112 original size:11 final size:11
Alignment explanation
Indices: 9311096--9311121 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9311086 AGAAGATTTT
9311096 TATTATCATTA
1 TATTATCATTA
9311107 TATTATCATTA
1 TATTATCATTA
9311118 TATT
1 TATT
9311122 TTTATGGCCT
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:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTATCATTA
Found at i:9312306 original size:41 final size:41
Alignment explanation
Indices: 9312244--9312391 Score: 224
Period size: 41 Copynumber: 3.6 Consensus size: 41
9312234 CATTGAATGT
* * * *
9312244 AAGGGGTTGCTAAGTGTAGATTCCCCGAATCACTAATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
**
9312285 AAGGGGTTGCTAAGTGCAGATTCCTGGAAACTCTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
*
9312326 AAGGGGTCGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
*
9312367 AAGGGGTTGCTGAGTGCAGATTCCC
1 AAGGGGTTGCTAAGTGCAGATTCCC
9312392 TGAGGGGTTG
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
Found at i:9315328 original size:14 final size:13
Alignment explanation
Indices: 9315311--9315349 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
9315301 AAAAAGAAAT
9315311 TAAACAAATAAAAA
1 TAAA-AAATAAAAA
9315325 TAAAAGAATAAAAA
1 TAAAA-AATAAAAA
*
9315339 TTAAAAATAAA
1 TAAAAAATAAA
9315350 TGAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:9319244 original size:62 final size:62
Alignment explanation
Indices: 9319169--9319294 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
9319159 AGAAGAGAAA
* * *
9319169 GTGAATGAAAGAGATAAAGATGTGAGGAATGAAAGGTGTGTTGAAATGAATAGGTGAATTGG
1 GTGAATGAAAGAGAGAAAGATATGAGGAATGAAAGGTGTGTTGAAATGAATAGGTGAATGGG
* * *
9319231 GTGAGTGAAAGAGAGAGAGATATGAGGAATGAAAGGTGTGTTGATATGAATAGGTGAATGGG
1 GTGAATGAAAGAGAGAAAGATATGAGGAATGAAAGGTGTGTTGAAATGAATAGGTGAATGGG
9319293 GT
1 GT
9319295 ATTTATAGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (62 bp):
GTGAATGAAAGAGAGAAAGATATGAGGAATGAAAGGTGTGTTGAAATGAATAGGTGAATGGG
Found at i:9324392 original size:458 final size:459
Alignment explanation
Indices: 9323524--9324442 Score: 1831
Period size: 458 Copynumber: 2.0 Consensus size: 459
9323514 TATTTTAGCT
9323524 GCTTTTAAAGATACTTACAAAAAGAGACAACTAATTTCAATATTTACAAAAAGAACAACCAAATT
1 GCTTTTAAAGATACTTACAAAAAGAGACAACTAATTTCAATATTTACAAAAAGAACAACCAAATT
9323589 TTGCAAATATTTCAATTAAGTACCTAAATTTAAAGAAAATTTGAAAATTGAGTTGAAATTAAAAC
66 TTGCAAATATTTCAATTAAGTACCTAAATTTAAAGAAAATTTGAAAATTGAGTTGAAATTAAAAC
9323654 TTGGATCAAAATTGACCCTTTTATTTCAAAAACTAGAAATTTATTTTTCCATTTGGAGAATAATT
131 TTGGATCAAAATTGACCCTTTTATTTCAAAAACTAGAAATTTATTTTTCCATTTGGAGAATAATT
9323719 TTGTAACACCCCTAACCTGTATCCATCGCCGAAATAGGGTTACGGAGCATTACCGTAAAAGCATA
196 TTGTAACACCCCTAACCTGTATCCATCGCCGAAATAGGGTTACGGAGCATTACCGTAAAAGCATA
9323784 GCTTAAATACATTCATTTCCAAACATTTCATAAATCATAGTGTAATTCATTCAAACACAAGCGTA
261 GCTTAAATACATTCATTTCCAAACATTTCATAAATCATAGTGTAATTCATTCAAACACAAGCGTA
9323849 TTGTCCCTTATTCGAGCCCTCGAGGCCTTAGAAACACTTTAAAAACGATTTGGGACTAAAATGGA
326 TTGTCCCTTATTCGAGCCCTCGAGGCCTTAGAAACACTTTAAAAACGATTTGGGACTAAAATGGA
9323914 AACATTTGAAACATTAAGGAAAAAGAGAGAAAATTTCATACTGCAGGGGTCATACAACCGTGTGC
391 AACATTTGAAACATTAAGGAAAAAGAGAGAAAATTTCATACTGCAGGGGTCATACAACCGTGTGC
9323979 CCAG
456 CCAG
9323983 GCTTTTAAAG-TACTTACAAAAAGAGACAACTAATTTCAATATTTACAAAAAGAACAACCAAATT
1 GCTTTTAAAGATACTTACAAAAAGAGACAACTAATTTCAATATTTACAAAAAGAACAACCAAATT
9324047 TTGCAAATATTTCAATTAAGTACCTAAATTTAAAGAAAATTTGAAAATTGAGTTGAAATTAAAAC
66 TTGCAAATATTTCAATTAAGTACCTAAATTTAAAGAAAATTTGAAAATTGAGTTGAAATTAAAAC
9324112 TTGGATCAAAATTGACCCTTTTATTTCAAAAACTAGAAATTTATTTTTCCATTTGGAGAATAATT
131 TTGGATCAAAATTGACCCTTTTATTTCAAAAACTAGAAATTTATTTTTCCATTTGGAGAATAATT
9324177 TTGTAACACCCCTAACCTGTATCCATCGCCGAAATAGGGTTACGGAGCATTACCGTAAAAGCATA
196 TTGTAACACCCCTAACCTGTATCCATCGCCGAAATAGGGTTACGGAGCATTACCGTAAAAGCATA
9324242 GCTTAAATACATTCATTTCCAAACATTTCATAAATCATAGTGTAATTCATTCAAACACAAGCGTA
261 GCTTAAATACATTCATTTCCAAACATTTCATAAATCATAGTGTAATTCATTCAAACACAAGCGTA
9324307 TTGTCCCTTATTCGAGCCCTCGAGGCCTTAGAAACACTTTAAAAACGATTTGGGACTAAAATGGA
326 TTGTCCCTTATTCGAGCCCTCGAGGCCTTAGAAACACTTTAAAAACGATTTGGGACTAAAATGGA
9324372 AACATTTGAAACATTAAGGAAAAAGAGAGAAAATTTCATACTGCAGGGGTCATACAACCGTGTGC
391 AACATTTGAAACATTAAGGAAAAAGAGAGAAAATTTCATACTGCAGGGGTCATACAACCGTGTGC
9324437 CCAG
456 CCAG
9324441 GC
1 GC
9324443 CATGTGACTC
Statistics
Matches: 460, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
458 450 0.98
459 10 0.02
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.29
Consensus pattern (459 bp):
GCTTTTAAAGATACTTACAAAAAGAGACAACTAATTTCAATATTTACAAAAAGAACAACCAAATT
TTGCAAATATTTCAATTAAGTACCTAAATTTAAAGAAAATTTGAAAATTGAGTTGAAATTAAAAC
TTGGATCAAAATTGACCCTTTTATTTCAAAAACTAGAAATTTATTTTTCCATTTGGAGAATAATT
TTGTAACACCCCTAACCTGTATCCATCGCCGAAATAGGGTTACGGAGCATTACCGTAAAAGCATA
GCTTAAATACATTCATTTCCAAACATTTCATAAATCATAGTGTAATTCATTCAAACACAAGCGTA
TTGTCCCTTATTCGAGCCCTCGAGGCCTTAGAAACACTTTAAAAACGATTTGGGACTAAAATGGA
AACATTTGAAACATTAAGGAAAAAGAGAGAAAATTTCATACTGCAGGGGTCATACAACCGTGTGC
CCAG
Found at i:9326103 original size:21 final size:21
Alignment explanation
Indices: 9326077--9326149 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
9326067 AATTCAATGT
9326077 ATTTAATTCACACACTATTCA
1 ATTTAATTCACACACTATTCA
* * * *
9326098 ATTTAATCCA-AAAATCATACA
1 ATTTAATTCACACACT-ATTCA
9326119 TGTATTTAATTCACACACTATTCA
1 ---ATTTAATTCACACACTATTCA
9326143 ATTTAAT
1 ATTTAAT
9326150 CCAAAAATCA
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 3 0.08
21 20 0.51
24 13 0.33
25 3 0.08
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.38
Consensus pattern (21 bp):
ATTTAATTCACACACTATTCA
Found at i:9326127 original size:45 final size:45
Alignment explanation
Indices: 9326073--9326162 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
9326063 AGAAAATTCA
9326073 ATGTATTTAATTCACACACTATTCAATTTAATCCAAAAATCATAC
1 ATGTATTTAATTCACACACTATTCAATTTAATCCAAAAATCATAC
9326118 ATGTATTTAATTCACACACTATTCAATTTAATCCAAAAATCATAC
1 ATGTATTTAATTCACACACTATTCAATTTAATCCAAAAATCATAC
9326163 TTTCACAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (45 bp):
ATGTATTTAATTCACACACTATTCAATTTAATCCAAAAATCATAC
Found at i:9333780 original size:23 final size:22
Alignment explanation
Indices: 9333753--9333828 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 22
9333743 AGTGTTATTG
9333753 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTC-GCTACAT
* * *
9333776 TTCAGTGGTAGCTATGGCTACGT
1 ATCAGTGGTAGCT-TCGCTACAT
9333799 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCG-CTACAT
9333822 ATCAGTG
1 ATCAGTG
9333829 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.04
23 42 0.93
24 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (22 bp):
ATCAGTGGTAGCTTCGCTACAT
Found at i:9334918 original size:16 final size:16
Alignment explanation
Indices: 9334890--9334929 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
9334880 TGATTGTTGC
9334890 GAAAGATAGATAAATTG
1 GAAAGA-AGATAAATTG
9334907 GAAAGAAGATAAATTG
1 GAAAGAAGATAAATTG
9334923 GAAAGAA
1 GAAAGAA
9334930 AGTTCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.17
Consensus pattern (16 bp):
GAAAGAAGATAAATTG
Found at i:9338872 original size:18 final size:17
Alignment explanation
Indices: 9338839--9338877 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9338829 TTTTATAAAT
9338839 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
9338857 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
9338874 TGTG
1 TGTG
9338878 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:9338968 original size:8 final size:8
Alignment explanation
Indices: 9338955--9338991 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
9338945 CACTAGAGAC
*
9338955 CAGTGTTG
1 CAGTGTTA
9338963 CAGTGTTA
1 CAGTGTTA
9338971 CAGTGTTA
1 CAGTGTTA
9338979 CAGTGTTA
1 CAGTGTTA
9338987 CAGTG
1 CAGTG
9338992 AGTCCTGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (8 bp):
CAGTGTTA
Found at i:9339105 original size:23 final size:23
Alignment explanation
Indices: 9339078--9339199 Score: 163
Period size: 23 Copynumber: 5.3 Consensus size: 23
9339068 AGTGTTATTG
9339078 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
9339101 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9339124 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* ** *
9339147 TTCAGTGGTAGCAACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
9339170 ATCAGTGGTGGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
9339193 ACCAGTG
1 ATCAGTG
9339200 TGGCACTTAT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 84 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9339199 original size:46 final size:46
Alignment explanation
Indices: 9339078--9339192 Score: 194
Period size: 46 Copynumber: 2.5 Consensus size: 46
9339068 AGTGTTATTG
*
9339078 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCAACGGCTACAT
*
9339124 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCAACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCAACGGCTACAT
* *
9339170 ATCAGTGGTGGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9339193 ACCAGTGTGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCAACGGCTACAT
Found at i:9353544 original size:27 final size:27
Alignment explanation
Indices: 9353506--9353635 Score: 154
Period size: 27 Copynumber: 4.9 Consensus size: 27
9353496 ACACGCTAGA
* ***
9353506 AAAATAGAAGCCTTTGTAATAATCTAT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
*
9353533 AAAATGGAAGCCTTTGTTGCAATCTAT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
*
9353560 AAAATGGAAGCCTTTGTGGCAATCTTT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
* * * *
9353587 AAAGTGAAAGCCTTAGTGGTAATCTAT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
*
9353614 AAAATCGAAGCC-TTGTGGCAAT
1 AAAATGGAAGCCTTTGTGGCAAT
9353636 ATATGATATG
Statistics
Matches: 87, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 8 0.09
27 79 0.91
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (27 bp):
AAAATGGAAGCCTTTGTGGCAATCTAT
Found at i:9353812 original size:26 final size:26
Alignment explanation
Indices: 9353782--9353868 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 26
9353772 ACAAACCCTG
9353782 GAAGAATGATATGCATGACTAACTTT
1 GAAGAATGATATGCATGACTAACTTT
* * * ** * *
9353808 GAAGAATGGTAAGTATGAAAAACCCTA
1 GAAGAATGATATGCATGACTAA-CTTT
*
9353835 GAAGAATGATATGCATGGCTAACTTT
1 GAAGAATGATATGCATGACTAACTTT
9353861 -AAGGAATG
1 GAA-GAATG
9353869 GTAAGTCTGA
Statistics
Matches: 44, Mismatches: 15, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
25 2 0.05
26 24 0.55
27 18 0.41
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.25
Consensus pattern (26 bp):
GAAGAATGATATGCATGACTAACTTT
Found at i:9353841 original size:27 final size:27
Alignment explanation
Indices: 9353754--9353842 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
9353744 ACCTTGAAAG
* *
9353754 AGAAAAATTGTAAGTATGACAAACCCT
1 AGAAGAATGGTAAGTATGACAAACCCT
* * * * * *
9353781 GGAAGAATGATATGCATGACTAA-CTT
1 AGAAGAATGGTAAGTATGACAAACCCT
* *
9353807 TGAAGAATGGTAAGTATGAAAAACCCT
1 AGAAGAATGGTAAGTATGACAAACCCT
9353834 AGAAGAATG
1 AGAAGAATG
9353843 ATATGCATGG
Statistics
Matches: 45, Mismatches: 16, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
26 19 0.42
27 26 0.58
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.22
Consensus pattern (27 bp):
AGAAGAATGGTAAGTATGACAAACCCT
Found at i:9353906 original size:53 final size:53
Alignment explanation
Indices: 9353763--9353906 Score: 195
Period size: 53 Copynumber: 2.7 Consensus size: 53
9353753 GAGAAAAATT
* * *
9353763 GTAAGTATGACAAACCCTGGAAGAATGATATGCATGACTAACTTTGAAGAATG
1 GTAAGTATGAAAAACCCTAGAAGAATGATATGCATGGCTAACTTTGAAGAATG
9353816 GTAAGTATGAAAAACCCTAGAAGAATGATATGCATGGCTAACTTT-AAGGAATG
1 GTAAGTATGAAAAACCCTAGAAGAATGATATGCATGGCTAACTTTGAA-GAATG
* *
9353869 GTAAGTCTGATAAAACCC-A-AAGAAATGATATGTATGGC
1 GTAAGTATGA-AAAACCCTAGAAG-AATGATATGCATGGC
9353907 CAGCTCTGAA
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
52 5 0.06
53 71 0.86
54 7 0.08
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.24
Consensus pattern (53 bp):
GTAAGTATGAAAAACCCTAGAAGAATGATATGCATGGCTAACTTTGAAGAATG
Found at i:9356220 original size:39 final size:40
Alignment explanation
Indices: 9356154--9356301 Score: 185
Period size: 40 Copynumber: 3.8 Consensus size: 40
9356144 AAGTTATTAG
* *
9356154 AGTATAAACAAGGACACGTATGTGCATTCAAGGGTATCGA
1 AGTACAAACAAGGACACGTATGTGCATTCAAGGGTACCGA
*
9356194 AGTACAAACAAGG-CACGTATGTGCATTC-CGGGTACCGA
1 AGTACAAACAAGGACACGTATGTGCATTCAAGGGTACCGA
* * * * *
9356232 AGTACCAATAGAGG-CACATATGTGCGTTCAAGGGTACCAA
1 AGTACAAACA-AGGACACGTATGTGCATTCAAGGGTACCGA
*
9356272 AGTACAAACAGGGACACGTATGTGCATTCA
1 AGTACAAACAAGGACACGTATGTGCATTCA
9356302 TTCAATAATT
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
38 16 0.18
39 33 0.36
40 42 0.46
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (40 bp):
AGTACAAACAAGGACACGTATGTGCATTCAAGGGTACCGA
Found at i:9357270 original size:16 final size:16
Alignment explanation
Indices: 9357251--9357283 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9357241 CCTTTTCCAA
*
9357251 TCTAGTCTTTTTTCTT
1 TCTAGTCCTTTTTCTT
9357267 TCTAGTCCTTTTTCTT
1 TCTAGTCCTTTTTCTT
9357283 T
1 T
9357284 AATTAGCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (16 bp):
TCTAGTCCTTTTTCTT
Found at i:9359025 original size:27 final size:27
Alignment explanation
Indices: 9358987--9359078 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
9358977 ACCCTGAAAG
*
9358987 AGAAGAATGATAAGTATGACAAACCCT
1 AGAAGAATGATAAGTATGACAAACCTT
* * * * *
9359014 AGAAGAATGATATGCATGGCTAACTTT
1 AGAAGAATGATAAGTATGACAAACCTT
*
9359041 A-AAGAATGGTAAGTATGACAAACCTT
1 AGAAGAATGATAAGTATGACAAACCTT
* *
9359067 GGGAGAATGATA
1 AGAAGAATGATA
9359079 TGCATGGCTA
Statistics
Matches: 49, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
26 19 0.39
27 30 0.61
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (27 bp):
AGAAGAATGATAAGTATGACAAACCTT
Found at i:9359129 original size:53 final size:53
Alignment explanation
Indices: 9358988--9359148 Score: 177
Period size: 53 Copynumber: 3.1 Consensus size: 53
9358978 CCCTGAAAGA
*
9358988 GAAGAATGATAAGTATGACAAACCCTAGA-AGAATGATATGCATGGCTAACTTT
1 GAAGAATGGTAAGTATGAC-AACCCTAGAGAGAATGATATGCATGGCTAACTTT
* * * *
9359041 AAAGAATGGTAAGTATGACAAACCTTGGGAGAATGATATGCATGGCTAACTTT
1 GAAGAATGGTAAGTATGACAACCCTAGAGAGAATGATATGCATGGCTAACTTT
* * * * * *
9359094 GAATAATTGTAAGTATGGCAGGCCCTAGAGA-AATGATGTG--TGGCTAGCTTT
1 GAAGAATGGTAAGTATGACA-ACCCTAGAGAGAATGATATGCATGGCTAACTTT
9359145 GAAG
1 GAAG
9359149 GACTAGAAGG
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
51 13 0.14
52 6 0.07
53 65 0.72
54 6 0.07
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (53 bp):
GAAGAATGGTAAGTATGACAACCCTAGAGAGAATGATATGCATGGCTAACTTT
Found at i:9359189 original size:27 final size:26
Alignment explanation
Indices: 9359159--9359223 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
9359149 GACTAGAAGG
**
9359159 TATGGTAAACTTTGAGAGAATAGTACA
1 TATGGTAAACTTAAAG-GAATAGTACA
9359186 TATGGTGAACAC-TAAAGGAATAGTACA
1 TATGGT-AA-ACTTAAAGGAATAGTACA
*
9359213 TATGGCAAACT
1 TATGGTAAACT
9359224 CTGAAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 2 0.06
26 2 0.06
27 21 0.66
28 5 0.16
29 2 0.06
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.26
Consensus pattern (26 bp):
TATGGTAAACTTAAAGGAATAGTACA
Found at i:9361094 original size:8 final size:8
Alignment explanation
Indices: 9361047--9361101 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
9361037 AATCATAAAA
9361047 TTAATAAT
1 TTAATAAT
*
9361055 GTTAACAAT
1 -TTAATAAT
*
9361064 ATAAT-AT
1 TTAATAAT
* *
9361071 TTAACAAA
1 TTAATAAT
9361079 TTAA-AAT
1 TTAATAAT
9361086 TTAATAAT
1 TTAATAAT
9361094 TTAATAAT
1 TTAATAAT
9361102 ATTTTCTAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
7 11 0.30
8 19 0.51
9 7 0.19
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (8 bp):
TTAATAAT
Found at i:9363530 original size:17 final size:17
Alignment explanation
Indices: 9363508--9363540 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9363498 CACTAACATT
*
9363508 AAAATGCGACGACAATA
1 AAAATGCAACGACAATA
9363525 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
9363541 GTTGACTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.18, G:0.15, T:0.12
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:9365469 original size:17 final size:17
Alignment explanation
Indices: 9365447--9365479 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9365437 CACTAACATT
*
9365447 AAAATGCGACGACAATA
1 AAAATGCAACGACAATA
9365464 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
9365480 GTTGACTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.18, G:0.15, T:0.12
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:9367786 original size:11 final size:11
Alignment explanation
Indices: 9367770--9367795 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9367760 ACTTGAACAG
9367770 AAATAAAAATA
1 AAATAAAAATA
9367781 AAATAAAAATA
1 AAATAAAAATA
9367792 AAAT
1 AAAT
9367796 TTCATAAGAA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:9367802 original size:16 final size:17
Alignment explanation
Indices: 9367783--9367814 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9367773 TAAAAATAAA
9367783 ATAA-AAATAAAATTTC
1 ATAAGAAATAAAATTTC
9367799 ATAAGAAATAAAATTT
1 ATAAGAAATAAAATTT
9367815 TTCGACCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAAGAAATAAAATTTC
Found at i:9375606 original size:22 final size:22
Alignment explanation
Indices: 9375578--9375622 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
9375568 AAGCTGCATC
*
9375578 CTTTTCATGTTGGTTCACCCGT
1 CTTTTCACGTTGGTTCACCCGT
9375600 CTTTTCACGTTGGTTCACCCGT
1 CTTTTCACGTTGGTTCACCCGT
9375622 C
1 C
9375623 GGAGCTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.31, G:0.18, T:0.42
Consensus pattern (22 bp):
CTTTTCACGTTGGTTCACCCGT
Found at i:9377016 original size:29 final size:29
Alignment explanation
Indices: 9376955--9377018 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
9376945 TTAATCTTAG
* *
9376955 TTAATTTTTTTAATAATACATGAATTAAA
1 TTAATTTATTTAATAATACATGAACTAAA
* *
9376984 TTAATTTATTTAATAATAATATG-ACTAAT
1 TTAATTTATTTAATAAT-ACATGAACTAAA
9377013 TTAATT
1 TTAATT
9377019 AATTCCTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (29 bp):
TTAATTTATTTAATAATACATGAACTAAA
Found at i:9386347 original size:31 final size:32
Alignment explanation
Indices: 9386312--9386375 Score: 76
Period size: 35 Copynumber: 1.9 Consensus size: 32
9386302 AAGAAACAAG
*
9386312 TTTTGG-GCAGAGATTTCAATTCCCTGTCTTC
1 TTTTGGAGCACAGATTTCAATTCCCTGTCTTC
*
9386343 TTTTGGTAAATCACAGATTTCAATTCCCTGTCT
1 TTTTGG---AGCACAGATTTCAATTCCCTGTCT
9386376 CCATTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 6 0.22
35 21 0.78
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (32 bp):
TTTTGGAGCACAGATTTCAATTCCCTGTCTTC
Found at i:9386799 original size:27 final size:27
Alignment explanation
Indices: 9386769--9386829 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
9386759 TGGTGAATGT
* *
9386769 GTGTTCGCCAGAAAGCTTTGCGAGTTG
1 GTGTTCGCCAGAAAGCCTGGCGAGTTG
* * *
9386796 GTGTTCACCAGTAGGCCTGGCGAGTTG
1 GTGTTCGCCAGAAAGCCTGGCGAGTTG
*
9386823 GTATTCG
1 GTGTTCG
9386830 GTAGTGGGCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.16, C:0.20, G:0.34, T:0.30
Consensus pattern (27 bp):
GTGTTCGCCAGAAAGCCTGGCGAGTTG
Found at i:9388253 original size:46 final size:46
Alignment explanation
Indices: 9388175--9388262 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 46
9388165 AAAAGTGTAG
* * * *
9388175 TGTGGGCCTTAGCCTATTACAGTATCAGAATCAGA-AATAGAATACA
1 TGTGGGCCTAAGCCCAATACAGTATCAAAATCA-ATAATAGAATACA
9388221 TGTGGGCCTAAGCCCAATACAGTGA-CAAAATCAATAATAGAA
1 TGTGGGCCTAAGCCCAATACAGT-ATCAAAATCAATAATAGAA
9388263 ATGCAACAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.03
46 34 0.94
47 1 0.03
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCAATACAGTATCAAAATCAATAATAGAATACA
Found at i:9388454 original size:22 final size:22
Alignment explanation
Indices: 9388435--9388486 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
9388425 AATGGCTAAG
* *
9388435 AGCCATAAACAGGATAGCTATA
1 AGCCATAAACAGAATAGCTACA
* *
9388457 AGCTATAAACAGAATCGCTACA
1 AGCCATAAACAGAATAGCTACA
9388479 AGCCATAA
1 AGCCATAA
9388487 GTACAGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAGAATAGCTACA
Found at i:9388546 original size:32 final size:32
Alignment explanation
Indices: 9388508--9388648 Score: 151
Period size: 32 Copynumber: 4.4 Consensus size: 32
9388498 TGATTGGCTG
*
9388508 AAAGCCATCAGTAGCAGTGA-TATGATC-AGCAC
1 AAAGCCATCAGTAACAGT-ATTATGATCGA-CAC
* * **
9388540 ACAGCCATCAGCAATGGTATTATGATCGACAC
1 AAAGCCATCAGTAACAGTATTATGATCGACAC
*
9388572 AAAGCCATCAATAACAGTATTATGATCGACAC
1 AAAGCCATCAGTAACAGTATTATGATCGACAC
* * **
9388604 AAAGCCATCAGTAACGGTAATATGATCGGTAC
1 AAAGCCATCAGTAACAGTATTATGATCGACAC
*
9388636 AAAGCGATCAGTA
1 AAAGCCATCAGTA
9388649 GCATCGCAGC
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
31 1 0.01
32 89 0.98
33 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (32 bp):
AAAGCCATCAGTAACAGTATTATGATCGACAC
Found at i:9388580 original size:64 final size:64
Alignment explanation
Indices: 9388508--9388651 Score: 175
Period size: 64 Copynumber: 2.2 Consensus size: 64
9388498 TGATTGGCTG
* * *
9388508 AAAGCCATCAGTAGCAGTGA-TATGATC-AGCACACAGCCATCAGCAATGGTATTATGATCGACA
1 AAAGCCATCAGTAGCAGT-ATTATGATCGA-CACAAAGCCATCAGCAACGGTAATATGATCGACA
9388571 C
64 C
* * * **
9388572 AAAGCCATCAATAACAGTATTATGATCGACACAAAGCCATCAGTAACGGTAATATGATCGGTAC
1 AAAGCCATCAGTAGCAGTATTATGATCGACACAAAGCCATCAGCAACGGTAATATGATCGACAC
*
9388636 AAAGCGATCAGTAGCA
1 AAAGCCATCAGTAGCA
9388652 TCGCAGCAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 1 0.01
64 65 0.97
65 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (64 bp):
AAAGCCATCAGTAGCAGTATTATGATCGACACAAAGCCATCAGCAACGGTAATATGATCGACAC
Found at i:9388902 original size:24 final size:24
Alignment explanation
Indices: 9388820--9388928 Score: 110
Period size: 24 Copynumber: 4.5 Consensus size: 24
9388810 CCTTGCTCAG
**
9388820 AATCAGTCATGCAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* ***
9388844 AACCAGTCATACCAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* *
9388868 AATTAGTCATTTAAATCACAAACA
1 AATCAGTCATTTAAATCACAGACA
* **
9388892 AATCAGTCATTTACATCATGGACA
1 AATCAGTCATTTAAATCACAGACA
*
9388916 AATCAATCATTTA
1 AATCAGTCATTTA
9388929 CACTCGAGGG
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.24
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:9389006 original size:27 final size:27
Alignment explanation
Indices: 9388976--9389280 Score: 210
Period size: 27 Copynumber: 11.3 Consensus size: 27
9388966 CATTATGGTA
* *
9388976 ATTTTACCTTATAAGGGTATTTCAGTC
1 ATTTTACCCTATAAGGGTATTTCGGTC
* * * *
9389003 ATTTAACCCTATAAGAGTTTTTCGATC
1 ATTTTACCCTATAAGGGTATTTCGGTC
* * * *
9389030 ATTTTACCCTAGAGGGGTATTACGGTT
1 ATTTTACCCTATAAGGGTATTTCGGTC
* * * * *
9389057 ATTTTACCTTACAGGGGCATTACGGTC
1 ATTTTACCCTATAAGGGTATTTCGGTC
* *
9389084 ATTTTACCCTATGA-GGTTTTTCCGGTC
1 ATTTTACCCTATAAGGGTATTT-CGGTC
*
9389111 ATTTTACCCTATAGGGGTATTAT-GGTC
1 ATTTTACCCTATAAGGGTATT-TCGGTC
* *
9389138 ATTTTA-CCT-TACAGAGGCATTAT-GATC
1 ATTTTACCCTATA-AG-GGTATT-TCGGTC
* * * *
9389165 ATTTTAACCTATAGGGGTTTTTCAGTC
1 ATTTTACCCTATAAGGGTATTTCGGTC
*
9389192 ATTTTACCCTAT-AGGTGTATTACGGTC
1 ATTTTACCCTATAAGG-GTATTTCGGTC
* * *
9389219 ATTTTACCCTACAAGGGCATTACGGTC
1 ATTTTACCCTATAAGGGTATTTCGGTC
* * * *
9389246 ATTTTATCTTAT-AGGGTTTTTTCAGTC
1 ATTTTACCCTATAAGGG-TATTTCGGTC
9389273 ATTTTACC
1 ATTTTACC
9389281 TATTTTGGGG
Statistics
Matches: 216, Mismatches: 51, Indels: 22
0.75 0.18 0.08
Matches are distributed among these distances:
25 2 0.01
26 15 0.07
27 184 0.85
28 12 0.06
29 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTATAAGGGTATTTCGGTC
Found at i:9389067 original size:81 final size:80
Alignment explanation
Indices: 9388961--9389280 Score: 317
Period size: 81 Copynumber: 4.0 Consensus size: 80
9388951 TTTAACCTCC
* * * * * *
9388961 AGGGGCATTATGGTAATTTTACCTTATAAGGGTATTTCAGTCATTTAACCCTATAAGAGTTTTTC
1 AGGGGTATTACGGTCATTTTACCTTACAAGGGCATTACAGTCATTTAACCCTATAAG-GTTTTTC
*
9389026 GATCATTTTACCCTAG
65 GATCATTTTACCCTAT
* * * * *
9389042 AGGGGTATTACGGTTATTTTACCTTACAGGGGCATTACGGTCATTTTACCCTATGAGGTTTTTCC
1 AGGGGTATTACGGTCATTTTACCTTACAAGGGCATTACAGTCATTTAACCCTATAAGGTTTTT-C
*
9389107 GGTCATTTTACCCTAT
65 GATCATTTTACCCTAT
* * *
9389123 AGGGGTATTATGGTCATTTTACCTTAC-AGAGGCATTA-TGATCATTTTAA-CCTATAGGGGTTT
1 AGGGGTATTACGGTCATTTTACCTTACAAG-GGCATTACAG-TCA-TTTAACCCTATA-AGGTTT
9389185 TTC-AGTCATTTTACCCTAT
62 TTCGA-TCATTTTACCCTAT
* * * * * * *
9389204 AGGTGTATTACGGTCATTTTACCCTACAAGGGCATTACGGTCATTTTATCTTATAGGGTTTTTTC
1 AGGGGTATTACGGTCATTTTACCTTACAAGGGCATTACAGTCATTTAACCCTATAAGG-TTTTTC
9389269 -AGTCATTTTACC
65 GA-TCATTTTACC
9389281 TATTTTGGGG
Statistics
Matches: 203, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
80 15 0.07
81 174 0.86
82 14 0.07
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (80 bp):
AGGGGTATTACGGTCATTTTACCTTACAAGGGCATTACAGTCATTTAACCCTATAAGGTTTTTCG
ATCATTTTACCCTAT
Found at i:9389259 original size:54 final size:53
Alignment explanation
Indices: 9388961--9389280 Score: 244
Period size: 54 Copynumber: 5.9 Consensus size: 53
9388951 TTTAACCTCC
* * * * * *
9388961 AGGGGCATTATGGTAATTTTACCTTATAAGGGTATTTCAGTCATTTAACCCTAT
1 AGGGGCATTACGGTCATTTTACCCTAT-AGGGTATTACGGTCATTTTACCCTAT
* * ** * * * * * *
9389015 AAGAGTTTTTCGATCATTTTACCCTAGAGGGGTATTACGGTTATTTTACCTTAC
1 AGGGGCATTACGGTCATTTTACCCTATA-GGGTATTACGGTCATTTTACCCTAT
* * *
9389069 AGGGGCATTACGGTCATTTTACCCTATGAGGTTTTTCCGGTCATTTTACCCTAT
1 AGGGGCATTACGGTCATTTTACCCTAT-AGGGTATTACGGTCATTTTACCCTAT
* * * * * * * *
9389123 AGGGGTATTATGGTCATTTTACCTTACAGAGGCATTATGATCATTTTAACCTAT
1 AGGGGCATTACGGTCATTTTACCCTATAG-GGTATTACGGTCATTTTACCCTAT
** * * *
9389177 AGGGGTTTTTCAGTCATTTTACCCTATAGGTGTATTACGGTCATTTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTATAGG-GTATTACGGTCATTTTACCCTAT
* * * * * *
9389231 AAGGGCATTACGGTCATTTTATCTTATAGGGTTTTTTCAGTCATTTTACC
1 AGGGGCATTACGGTCATTTTACCCTATAGGG-TATTACGGTCATTTTACC
9389281 TATTTTGGGG
Statistics
Matches: 200, Mismatches: 61, Indels: 10
0.74 0.23 0.04
Matches are distributed among these distances:
53 5 0.03
54 194 0.97
55 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (53 bp):
AGGGGCATTACGGTCATTTTACCCTATAGGGTATTACGGTCATTTTACCCTAT
Found at i:9392590 original size:22 final size:22
Alignment explanation
Indices: 9392565--9392634 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
9392555 ATAGGAGGGA
9392565 CAATTGATGATATTAAAGGAAT
1 CAATTGATGATATTAAAGGAAT
* * * *
9392587 CAATCCTG-CG-TTTTAGGAGGGA-
1 CAAT--TGATGATATTA-AAGGAAT
9392609 CAATTGATGATATTAAAGGAAT
1 CAATTGATGATATTAAAGGAAT
9392631 CAAT
1 CAAT
9392635 CTTGCGTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 5 0.15
22 20 0.59
23 5 0.15
24 2 0.06
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (22 bp):
CAATTGATGATATTAAAGGAAT
Found at i:9392619 original size:44 final size:44
Alignment explanation
Indices: 9392556--9392644 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
9392546 AAAAAAGCGA
9392556 TAGGAGGGACAATTGATGATATTAAAGGAATCAATCCTGCGTTT
1 TAGGAGGGACAATTGATGATATTAAAGGAATCAATCCTGCGTTT
*
9392600 TAGGAGGGACAATTGATGATATTAAAGGAATCAATCTTGCGTTT
1 TAGGAGGGACAATTGATGATATTAAAGGAATCAATCCTGCGTTT
9392644 T
1 T
9392645 GTCAACGCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (44 bp):
TAGGAGGGACAATTGATGATATTAAAGGAATCAATCCTGCGTTT
Found at i:9398376 original size:556 final size:555
Alignment explanation
Indices: 9397324--9398421 Score: 1414
Period size: 556 Copynumber: 2.0 Consensus size: 555
9397314 AAACGTGCAA
* * * *
9397324 GAGACCATTAGAAGGCATTTTAGAACAACACAATAAGCTATTTCGCAACACGGGAGGACTGATGT
1 GAGACCATTAGAAGGCATTTTAGAACAACACAAGAAGCTATGTCACAACACGGGAGGACTAATGT
* * * * * *
9397389 TGCAACATGGGGAACATAATGAGAAAATCTCAAGTCTGCCTTCGATGTCGTGACACAGACTGAGT
66 CGCAACATAGGGAACAAAATGAGAAAATCTCAAGTCTGCCTTCGATGTCGCGACACAAACTGAGG
* * *
9397454 GTGTCACGACATATCCCTAAAAATGGCTATAGAGGAGCATACTGGTTGCTATGTTGTGACACAGG
131 GTGTCACAACATACCCCTAAAAATGGCTACAGAGGAGCATACTGGTTGCTATGTTGTGACACAGG
*
9397519 TCCTGGTGTGTCACAACATCAACTCTAGGATAGAAATTAGACACAGAGCATGGGCATTTTGGTCC
196 TCCTGGTGTGTCACAACATCAACTCTAGGATAGAAATTAGACACAGAGCAGGGGCATTTTGGTCC
* ** * *
9397584 ACACAATCAAAATTAAAGCTCAAGAATGTCAGCATATCTAGGGTTAAGGATGACAACCACCTGAA
261 ACACAATCAAAATGAAAGCTCAAGAACATCAGCATACCTAGGGTTAAGGATGACAACCACCTAAA
* * * * *
9397649 GGCTATAAATAAGCTTATTTAGCACATGTTAAAGACATTTTTCCATCAAACTAGTTTCTTCCGTT
326 GGCTATAAATAAGCTCATTTAGCACATGTTAAAAACACTTTTACATCAAACTAGTTTCTTCCATT
* * * * * * *
9397714 AAATTTAGTTTTGTTTTATTTATTTCTTAAGATTTTAGAGTTTAGTTTATTTTTTCATTATTTTA
391 AAACTTAGTTTTATTTTATTTATTTCATAAGATTTAAGAGTTAAATTTATTTGTTCATTATTTTA
* * *
9397779 TTTCAAGTGATTTTGATTGTGGACTAATTCAACTCTGTGGATTTGTGCTTAATATCAACACAATC
456 TTTCAAGAGATTTTGATTATGGACTAATTCAACTCTGTGGATTTGCGCTTAATATCAACACAA-C
* *
9397844 AGGCTCTGTCATTTACTCTATCTTGTAAGTGTGTAG
520 AAGCTATGTCATTTACTCTATCTTGTAAGTGTGTAG
** * ** *
9397880 GAGACCATTAGAAGGCATTTTAGAATGATACTGGATGCTATGTCACAACACGGGAGGACTAATGT
1 GAGACCATTAGAAGGCATTTTAGAACAACACAAGAAGCTATGTCACAACACGGGAGGACTAATGT
* * *
9397945 CG-AAGCATAGGGAAGAAAATGATGAAAA-CTCAAGTCTGCCTTTGATGTTGCGACACAAACTGA
66 CGCAA-CATAGGGAACAAAATGA-GAAAATCTCAAGTCTGCCTTCGATGTCGCGACACAAACTGA
* * * * * *
9398008 GGGTTTCACAATATACCCCTGAAGATGGCTACAGAGGAGCATACTGGTTGCTATGTTGTGATATA
129 GGGTGTCACAACATACCCCTAAAAATGGCTACAGAGGAGCATACTGGTTGCTATGTTGTGACACA
* ** * * *
9398073 GGTCCTGGTGTGTCACGACATTGACTCTAGGATAGAAATTAGACA-TGAAGTAGGGGCGTTTTGG
194 GGTCCTGGTGTGTCACAACATCAACTCTAGGATAGAAATTAGACACAG-AGCAGGGGCATTTTGG
* * * *
9398137 TCTACACAATCAAACTGAAAGCT-AGGGAACATCAGC-TGACCTAGGGTTAAGGATGACGACCAC
258 TCCACACAATCAAAATGAAAGCTCA-AGAACATCAGCAT-ACCTAGGGTTAAGGATGACAACCAC
* * * * * *
9398200 CTAAAGGCTATAAATAGGCTCCTTTGGCACATGTTAAAAACACTTTTATATTAACCTAGTTTCTT
321 CTAAAGGCTATAAATAAGCTCATTTAGCACATGTTAAAAACACTTTTACATCAAACTAGTTTCTT
* * * *
9398265 CCATTAAACTTAGTTTTATTTTCTTTCTTTCATAGGATTTAAGAGTTAAATTTATTTGTTCATTG
386 CCATTAAACTTAGTTTTATTTTATTTATTTCATAAGATTTAAGAGTTAAATTTATTTGTTCATTA
* * * *
9398330 TTTTCTTTCAAGAGATTTTGATTATGGACTCATTCAACTCTGTGGATTTGCGCTTTATATCAATA
451 TTTTATTTCAAGAGATTTTGATTATGGACTAATTCAACTCTGTGGATTTGCGCTTAATATCAACA
* *
9398395 CAACAAGCTATTTTATTTACTCTATCT
516 CAACAAGCTATGTCATTTACTCTATCT
9398422 AGTCAATTTA
Statistics
Matches: 460, Mismatches: 77, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
555 25 0.05
556 430 0.93
557 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (555 bp):
GAGACCATTAGAAGGCATTTTAGAACAACACAAGAAGCTATGTCACAACACGGGAGGACTAATGT
CGCAACATAGGGAACAAAATGAGAAAATCTCAAGTCTGCCTTCGATGTCGCGACACAAACTGAGG
GTGTCACAACATACCCCTAAAAATGGCTACAGAGGAGCATACTGGTTGCTATGTTGTGACACAGG
TCCTGGTGTGTCACAACATCAACTCTAGGATAGAAATTAGACACAGAGCAGGGGCATTTTGGTCC
ACACAATCAAAATGAAAGCTCAAGAACATCAGCATACCTAGGGTTAAGGATGACAACCACCTAAA
GGCTATAAATAAGCTCATTTAGCACATGTTAAAAACACTTTTACATCAAACTAGTTTCTTCCATT
AAACTTAGTTTTATTTTATTTATTTCATAAGATTTAAGAGTTAAATTTATTTGTTCATTATTTTA
TTTCAAGAGATTTTGATTATGGACTAATTCAACTCTGTGGATTTGCGCTTAATATCAACACAACA
AGCTATGTCATTTACTCTATCTTGTAAGTGTGTAG
Found at i:9402550 original size:98 final size:98
Alignment explanation
Indices: 9402366--9402565 Score: 310
Period size: 98 Copynumber: 2.0 Consensus size: 98
9402356 AGCAGATCGC
* *
9402366 ATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAGCTAATCCTATATCCCTGAA
1 ATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAGCTAATCCTATATCCCTGAA
** * * *
9402431 GTTGTAGCGGAGTGGATTAAAATCACATATCTT
66 GTTGTAGCGGAACGGACTAAAATCAAAGATCTT
* *
9402464 ATCTAGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACAGAAGAAGCTAATCCTATCTCCCTGAA
1 ATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAGCTAATCCTATATCCCTGAA
*
9402529 GTTGTAGCGGAACGGACTAAAATGAAAGATCTT
66 GTTGTAGCGGAACGGACTAAAATCAAAGATCTT
9402562 ATCT
1 ATCT
9402566 CTCTAAAGTT
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (98 bp):
ATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAGCTAATCCTATATCCCTGAA
GTTGTAGCGGAACGGACTAAAATCAAAGATCTT
Found at i:9402678 original size:226 final size:225
Alignment explanation
Indices: 9402277--9402693 Score: 520
Period size: 226 Copynumber: 1.8 Consensus size: 225
9402267 GAAGCAGATT
* * *
9402277 GAAGAAACTAATCCTATCTCCCTGAAGTTGTAGTGGAGATGATTAAAATCACAAATCTTATCTCT
1 GAAGAAACTAATCCTATCTCCCTGAAGTTGTAGCGGAGAGGACTAAAATCACAAATCTTATCTCT
* * * * * **
9402342 TTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGA
66 CTAAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGATGCAGCAGAGCAGACAGA
* * * * *
9402407 AGAAGCTAATCCTATATCCCTGAAGTTGTAGCGGAGTGGATTAAAATCACAT-ATCTTATCTAGT
131 AGAA-CTAATCCTATATCCCTCAAGTTGCAGCGGAGCGAATTAAAACCAC-TGATCTTATCTAGT
9402471 CTTATCTCCTTGAAGTTGCAATGGAGCAGACA
194 CTTATCTCCTTGAAGTTGCAATGGAGCAGACA
* *
9402503 GAAGAAGCTAATCCTATCTCCCTGAAGTTGTAGCGGA-ACGGACTAAAATGA-AAGATCTTATCT
1 GAAGAAACTAATCCTATCTCCCTGAAGTTGTAGCGGAGA-GGACTAAAATCACAA-ATCTTATCT
* * *
9402566 CTCTAAAGTTGTAGAGAGTAGATCACATCTAGTCTTATCTCCCTGAAGATGCAGCAGAGTC-GAT
64 CTCTAAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGATGCAGCAGAG-CAGAC
* * * *
9402630 TGAAGCCAA-TAATCCTATCTCCCTCCAGTTGCAGTGGAGCGAATTAAAACCACTGATCTTATCT
128 AGAAG--AACTAATCCTATATCCCTCAAGTTGCAGCGGAGCGAATTAAAACCACTGATCTTATCT
9402694 CTCTAAAGTT
Statistics
Matches: 161, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
225 4 0.02
226 154 0.96
227 1 0.01
228 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (225 bp):
GAAGAAACTAATCCTATCTCCCTGAAGTTGTAGCGGAGAGGACTAAAATCACAAATCTTATCTCT
CTAAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGATGCAGCAGAGCAGACAGA
AGAACTAATCCTATATCCCTCAAGTTGCAGCGGAGCGAATTAAAACCACTGATCTTATCTAGTCT
TATCTCCTTGAAGTTGCAATGGAGCAGACA
Found at i:9402740 original size:41 final size:41
Alignment explanation
Indices: 9402686--9402877 Score: 147
Period size: 44 Copynumber: 4.6 Consensus size: 41
9402676 AAACCACTGA
*
9402686 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAG
1 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGAATCCAG
* * * *
9402727 TCTTATCTTTCTAAAGTTGCAGTGGAGTAGA-CAGAATAAACCAA
1 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATC-GAAT---CCAG
* * * * ** *
9402771 TCCTATTTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAG
1 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGAA-TC-CAG
* * *
9402814 ATCTTATCTCTCCAAAGTTGCAG-AGAGCAGATCGCATCAAG
1 -TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGAATCCAG
*
9402855 TCTTATCTCCCTGAAA-TTGCAGT
1 TCTTATCTCTCT-AAAGTTGCAGT
9402878 GAAGTAGACT
Statistics
Matches: 115, Mismatches: 26, Indels: 20
0.71 0.16 0.12
Matches are distributed among these distances:
40 17 0.15
41 36 0.31
42 2 0.02
43 11 0.10
44 49 0.43
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (41 bp):
TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGAATCCAG
Found at i:9402782 original size:129 final size:127
Alignment explanation
Indices: 9402468--9402893 Score: 424
Period size: 128 Copynumber: 3.3 Consensus size: 127
9402458 TATCTTATCT
* * * * * * * *
9402468 AGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTG
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAATAAAC-AATCCTATCTCCCTAAAGTTG
* * * * * ** * * * * *
9402533 TAGCGGAACGGACTAAAATGAAAGATCTTATCTCTCTAAAGTTGTAGAGAGTAGATCACATCT
65 CAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCA
* * ** * * ** * **
9402596 AGTCTTATCTCCCTGAAGATGCAGCAGAGTCGATTGAAGCCAATAATCCTATCTCCCTCCAGTTG
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAA-TAAACAATCCTATCTCCCTAAAGTTG
* *
9402661 CAGTGGAGC-GAATTAAAACCACTGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCC
65 CAGTGGAGCAG-ATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGATCGCATCA
** * *
9402725 AGTCTTATCTTTCTAAAGTTGCAGTGGAGTAGACAGAATAAACCAATCCTATTTCCCTAAAGTTG
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAATAAA-CAATCCTATCTCCCTAAAGTTG
* *
9402790 CAGTGGAGCAGATTAAAGCCACAGATCTTATCTCTCCAAAGTTGCAGAGAGCAGATCGCATCA
65 CAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCA
*
9402853 AGTCTTATCTCCCTGAAA-TTGCAGTGAAGTAGACTGAATAA
1 AGTCTTATCTCCCT-AAAGTTGCAGTGGAGTAGACTGAATAA
9402894 GTGAATCATG
Statistics
Matches: 242, Mismatches: 50, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
127 1 0.00
128 134 0.55
129 106 0.44
130 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (127 bp):
AGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAATAAACAATCCTATCTCCCTAAAGTTGC
AGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCA
Found at i:9402831 original size:44 final size:42
Alignment explanation
Indices: 9402656--9402845 Score: 131
Period size: 44 Copynumber: 4.4 Consensus size: 42
9402646 ATCTCCCTCC
* *
9402656 AGTTGCAGTGGAGC-GAATTAAAACCACTGATCTTATCTCTCTAA
1 AGTTGCAGTGGAGCAG-ATT-AAACC-CAGATCTTATCTCTCCAA
* *** * * *
9402700 AGTTGCAGTAGAGCAGATCGCATCCAG-TCTTATCTTTCTAA
1 AGTTGCAGTGGAGCAGATTAAACCCAGATCTTATCTCTCCAA
* * *
9402741 AGTTGCAGTGGAGTAGACAGAATAAA-CCA-ATCCTATTTC-CCTAA
1 AGTTGCAGT-G-G-AG-CAGATTAAACCCAGATCTTATCTCTCC-AA
9402785 AGTTGCAGTGGAGCAGATTAAAGCCACAGATCTTATCTCTCCAA
1 AGTTGCAGTGGAGCAGATTAAA-CC-CAGATCTTATCTCTCCAA
*
9402829 AGTTGCAG-AGAGCAGAT
1 AGTTGCAGTGGAGCAGAT
9402846 CGCATCAAGT
Statistics
Matches: 114, Mismatches: 20, Indels: 25
0.72 0.13 0.16
Matches are distributed among these distances:
40 8 0.07
41 24 0.21
42 4 0.04
43 15 0.13
44 55 0.48
45 8 0.07
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AGTTGCAGTGGAGCAGATTAAACCCAGATCTTATCTCTCCAA
Found at i:9402924 original size:128 final size:129
Alignment explanation
Indices: 9402656--9402893 Score: 347
Period size: 129 Copynumber: 1.9 Consensus size: 129
9402646 ATCTCCCTCC
* *
9402656 AGTTGCAGTGGAGCGAATTAAAACCACTGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGC
1 AGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCCAAAGTTGCAGTAGAGCAGATCGC
* ** * * *
9402721 ATCCAGTCTTATCTTTCTAAAGTTGCAGTGGAGTAGACAGAATAAACCAATCCTATTTCCCTAA
66 ATCAAGTCTTATCTCCCTAAAGTTGCAGTGAAGTAGACAGAATAAACCAATCATACTTCCCTAA
*
9402785 AGTTGCAGTGGAGC-AGATTAAAGCCACAGATCTTATCTCTCCAAAGTTGCAG-AGAGCAGATCG
1 AGTTGCAGTGGAGCGA-ATTAAAACCACAGATCTTATCTCTCCAAAGTTGCAGTAGAGCAGATCG
*
9402848 CATCAAGTCTTATCTCCCTGAAA-TTGCAGTGAAGTAGACTGAATAA
65 CATCAAGTCTTATCTCCCT-AAAGTTGCAGTGAAGTAGACAGAATAA
9402894 GTGAATCATG
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
128 49 0.49
129 50 0.51
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (129 bp):
AGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCCAAAGTTGCAGTAGAGCAGATCGC
ATCAAGTCTTATCTCCCTAAAGTTGCAGTGAAGTAGACAGAATAAACCAATCATACTTCCCTAA
Found at i:9406878 original size:76 final size:76
Alignment explanation
Indices: 9406790--9407020 Score: 435
Period size: 76 Copynumber: 3.0 Consensus size: 76
9406780 ACTTTCCTAC
*
9406790 TTTCTCTCTTAGTCTACTGTGTACATCTTGGAGTACTATTTATTTAGGTGCAGACTCTAACTATA
1 TTTCTCTCTTAGTCTACTCTGTACATCTTGGAGTACTATTTATTTAGGTGCAGACTCTAACTATA
9406855 GACATATTGAA
66 GACATATTGAA
*
9406866 TTTCTCTCTTAGTCTACTCTGTACATCTTGGATTACTATTTATTTAGGTGCAGACTCTAACTATA
1 TTTCTCTCTTAGTCTACTCTGTACATCTTGGAGTACTATTTATTTAGGTGCAGACTCTAACTATA
9406931 GACATATTGAA
66 GACATATTGAA
*
9406942 TGTCTCTCTTAGTCTACTCTGTACATCTTGGAGTACTATTTATTTAGGTGCAGACTCTAACTATA
1 TTTCTCTCTTAGTCTACTCTGTACATCTTGGAGTACTATTTATTTAGGTGCAGACTCTAACTATA
9407007 GACATATTGAA
66 GACATATTGAA
9407018 TTT
1 TTT
9407021 TGACTCCATT
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 150 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.42
Consensus pattern (76 bp):
TTTCTCTCTTAGTCTACTCTGTACATCTTGGAGTACTATTTATTTAGGTGCAGACTCTAACTATA
GACATATTGAA
Found at i:9409937 original size:19 final size:18
Alignment explanation
Indices: 9409906--9409944 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
9409896 GTAAAATAGC
9409906 ATAAAGAGTTGAGAGAATG
1 ATAAAGAGTTGAGAG-ATG
9409925 ATAAATGAG-TGAGAGATG
1 ATAAA-GAGTTGAGAGATG
9409943 AT
1 AT
9409945 GGGATGAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 11 0.58
20 3 0.16
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (18 bp):
ATAAAGAGTTGAGAGATG
Found at i:9420826 original size:43 final size:43
Alignment explanation
Indices: 9420789--9420916 Score: 175
Period size: 43 Copynumber: 3.0 Consensus size: 43
9420779 GAAATCTTGT
* * *
9420789 ATCGATGCCAATAGCTCAACTATGATCTTACACGAAATCTCAA
1 ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAA
* * * *
9420832 ATTGGTGCTAATAGCCCAGCTATGGTCTTACGCGAAATCTCAA
1 ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAA
* *
9420875 ATCGATGCCAATAACCCAGCTGTGGTCTTACACGAAATCTCA
1 ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCA
9420917 CCTCGGAAGT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAA
Found at i:9447719 original size:50 final size:50
Alignment explanation
Indices: 9447551--9447728 Score: 227
Period size: 50 Copynumber: 3.6 Consensus size: 50
9447541 TGTCACATCT
* ** * * *
9447551 CAGATATGGTCTTACATGGGAGTTCTCATATCGGT-CCCATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
* *
9447600 CAGACATGGTCTTAC-GGGAGACTTCTCATCTCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGG-GACCTCTCATCTCGGTGCCAACGCCATGTCC
*
9447650 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCCTGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
*
9447700 CTA-ACATGGTCTTAGATGGGACCTCTCAT
1 C-AGACATGGTCTTACATGGGACCTCTCAT
9447729 AATTTCAATA
Statistics
Matches: 115, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
48 2 0.02
49 28 0.24
50 82 0.71
51 3 0.03
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
Found at i:9450096 original size:18 final size:19
Alignment explanation
Indices: 9450064--9450099 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9450054 TTCAATCTTT
9450064 AACTTGATATTCTCTCTCA
1 AACTTGATATTCTCTCTCA
9450083 AACTTGAT-TTCTCTCTC
1 AACTTGATATTCTCTCTC
9450100 CTACAACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (19 bp):
AACTTGATATTCTCTCTCA
Found at i:9451361 original size:27 final size:27
Alignment explanation
Indices: 9451310--9451376 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
9451300 TTGCTCGCTA
* *
9451310 AGATAGTAACCACGGGATAGCCCATCG
1 AGATAGTAAACATGGGATAGCCCATCG
* * *
9451337 AGATAGTAAACATGGGGTAGTCCATTG
1 AGATAGTAAACATGGGATAGCCCATCG
* *
9451364 GGAAAGTAAACAT
1 AGATAGTAAACAT
9451377 TGGTTTACAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.19
Consensus pattern (27 bp):
AGATAGTAAACATGGGATAGCCCATCG
Found at i:9456100 original size:38 final size:38
Alignment explanation
Indices: 9456040--9456135 Score: 133
Period size: 38 Copynumber: 2.6 Consensus size: 38
9456030 GATTATCTTA
9456040 ATATTAAA-TTAATATAAAATTTATCGAGATAAATATT
1 ATATTAAATTTAATATAAAATTTATCGAGATAAATATT
* ** *
9456077 ATATTAAATTTAATATAATATTTATCTCGATAAATTTT
1 ATATTAAATTTAATATAAAATTTATCGAGATAAATATT
9456115 ATATT-AATTTAATATTAAAAT
1 ATATTAAATTTAATA-TAAAAT
9456136 GATTAACTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
37 17 0.33
38 35 0.67
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (38 bp):
ATATTAAATTTAATATAAAATTTATCGAGATAAATATT
Found at i:9456680 original size:25 final size:25
Alignment explanation
Indices: 9456652--9456699 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9456642 GGTTGATTCT
9456652 ACGCATAAAGGAAATGGGGTAGCGG
1 ACGCATAAAGGAAATGGGGTAGCGG
*
9456677 ACGCATAAAGGAAATGTGGTAGC
1 ACGCATAAAGGAAATGGGGTAGC
9456700 AGCGTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.35, T:0.15
Consensus pattern (25 bp):
ACGCATAAAGGAAATGGGGTAGCGG
Found at i:9467532 original size:20 final size:20
Alignment explanation
Indices: 9467495--9467534 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9467485 TATGAAATTT
*
9467495 CAAGTTTAAAATGTATTAAA
1 CAAGTTTAAAATATATTAAA
9467515 CAAG-TTAAAATATAATTAAA
1 CAAGTTTAAAATAT-ATTAAA
9467535 GAACAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (20 bp):
CAAGTTTAAAATATATTAAA
Found at i:9469449 original size:20 final size:19
Alignment explanation
Indices: 9469409--9469449 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
9469399 AAAATATTTG
*
9469409 AAATTCATTTTCTAAGTAT
1 AAATTCATTTTCTAAGAAT
*
9469428 AAATTCAATTTTCTAGGAAT
1 AAATTC-ATTTTCTAAGAAT
9469448 AA
1 AA
9469450 CAATTCTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (19 bp):
AAATTCATTTTCTAAGAAT
Found at i:9481271 original size:27 final size:27
Alignment explanation
Indices: 9481248--9481317 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
9481238 GTTGAGATAG
9481248 TAAATACAGGGTAGTCTGTCGAGACAT
1 TAAATACAGGGTAGTCTGTCGAGACAT
* * * *
9481275 TAAACACGGGGTAGTTTGTCGGGACAT
1 TAAATACAGGGTAGTCTGTCGAGACAT
*
9481302 TAAATACAGGCTAGTC
1 TAAATACAGGGTAGTC
9481318 CGCTAGGACA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (27 bp):
TAAATACAGGGTAGTCTGTCGAGACAT
Found at i:9481611 original size:26 final size:26
Alignment explanation
Indices: 9481575--9481624 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
9481565 ACATATTTTC
*
9481575 TCAAAATTTTACTAGGGG-TAAAATCA
1 TCAAAAATTTACT-GGGGCTAAAATCA
9481601 TCAAAAATTTACTGGGGCTAAAAT
1 TCAAAAATTTACTGGGGCTAAAAT
9481625 AGATTTGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (26 bp):
TCAAAAATTTACTGGGGCTAAAATCA
Found at i:9489549 original size:20 final size:19
Alignment explanation
Indices: 9489520--9489557 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
9489510 AGTTTATGCA
*
9489520 GTTTTAATTTAATTTTCTG
1 GTTTTAATTTAAATTTCTG
9489539 GTTTCTAATTTAAATTTCT
1 GTTT-TAATTTAAATTTCT
9489558 ATATTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.61
Consensus pattern (19 bp):
GTTTTAATTTAAATTTCTG
Found at i:9494368 original size:3 final size:3
Alignment explanation
Indices: 9494360--9494411 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
9494350 GTTTGGATAG
9494360 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9494408 ATA A
1 ATA A
9494412 AGAATCAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9495054 original size:10 final size:9
Alignment explanation
Indices: 9495034--9495093 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 9
9495024 TCTTAATTAA
9495034 TTTATTAATT
1 TTTA-TAATT
9495044 TCTTATAATT
1 T-TTATAATT
9495054 TTTAATAATT
1 TTT-ATAATT
9495064 TTTGAGTAA-T
1 TTT-A-TAATT
9495074 TTTATACATTT
1 TTTATA-A-TT
9495085 TTTATAATT
1 TTTATAATT
9495094 ATATAAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
8 2 0.05
9 6 0.14
10 22 0.51
11 13 0.30
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:9495092 original size:19 final size:18
Alignment explanation
Indices: 9495034--9495099 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 18
9495024 TCTTAATTAA
*
9495034 TTTATTAATTTCTTATAATT
1 TTTA-TAATTTTTTATAA-T
*
9495054 TTTAATAATTTTTGAGTAAT
1 TTT-ATAATTTTTTA-TAAT
9495074 TTTATACATTTTTTATAAT
1 TTTATA-ATTTTTTATAAT
*
9495093 TATATAA
1 TTTATAA
9495100 AAATCATGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.03
19 12 0.31
20 22 0.56
21 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTATAATTTTTTATAAT
Found at i:9495644 original size:24 final size:25
Alignment explanation
Indices: 9495617--9495664 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
9495607 ACAAGATTAC
9495617 TAAAATAACATAT-TACTAAAATTT
1 TAAAATAACATATATACTAAAATTT
* *
9495641 TAAAATAATATATATCCTAAAATT
1 TAAAATAACATATATACTAAAATT
9495665 AAAATTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAATAACATATATACTAAAATTT
Found at i:9500322 original size:6 final size:6
Alignment explanation
Indices: 9500311--9500352 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
9500301 AAGTTGCTCA
*
9500311 AAATGG AAATGG AAATGG AAATAG AAATGG AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
9500353 ATTCATTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:9523481 original size:926 final size:926
Alignment explanation
Indices: 9521690--9523539 Score: 3657
Period size: 926 Copynumber: 2.0 Consensus size: 926
9521680 ACGTGTTAGT
9521690 TCATGTAAACATGATTCATATGAATTTGACATGGATAAACATTATACTTGAGTATGATTCAATTG
1 TCATGTAAACATGATTCATATGAATTTGACATGGATAAACATTATACTTGAGTATGATTCAATTG
9521755 GATTTATCATCCATCACAACATATCATGTTTTTCCATGTATAACCATTCTATTGAATTTCATTTA
66 GATTTATCATCCATCACAACATATCATGTTTTTCCATGTATAACCATTCTATTGAATTTCATTTA
9521820 AACATGGCTTAGTTCTTATTGAACACTTACCATTTCATTTGCATACACATAAGACATAAACATAA
131 AACATGGCTTAGTTCTTATTGAACACTTACCATTTCATTTGCATACACATAAGACATAAACATAA
9521885 CATTTACCATAGCCACAGGCTAGTGATTAAACACATAACTTAGCAATATCATCACATGGTAAGAT
196 CATTTACCATAGCCACAGGCTAGTGATTAAACACATAACTTAGCAATATCATCACATGGTAAGAT
9521950 ATGGTACCTAACATAGCATCACTTATATCATACGTTTCATAAACATGAATATTCATACTTTGATC
261 ATGGTACCTAACATAGCATCACTTATATCATACGTTTCATAAACATGAATATTCATACTTTGATC
9522015 ATTGGTACATCATACCTTTCCATATTTGTCATATTGAAGTTAATCAGAATCCTTACCGGAGCTCA
326 ATTGGTACATCATACCTTTCCATATTTGTCATATTGAAGTTAATCAGAATCCTTACCGGAGCTCA
9522080 TATAAAGTGTGTTAAACGATGGTTGTGACCGTCCCTATAACGCCCCAAAATTTTAATTTTGGGTA
391 TATAAAGTGTGTTAAACGATGGTTGTGACCGTCCCTATAACGCCCCAAAATTTTAATTTTGGGTA
9522145 TTGTGAATGTGTGACACAAAATATCTGTCTGCTTTAGTGGTTATCTGTTCTGGGTGTGTTTTTAG
456 TTGTGAATGTGTGACACAAAATATCTGTCTGCTTTAGTGGTTATCTGTTCTGGGTGTGTTTTTAG
9522210 GCCTAGTCGGAATAGTGGTTTCGGGACCACAAATCTAATGAGGGAAAATATAATTATTATTATAT
521 GCCTAGTCGGAATAGTGGTTTCGGGACCACAAATCTAATGAGGGAAAATATAATTATTATTATAT
9522275 TTTTATGGTCTAAATTTCACGAAAAAATTTCATGAAAAGTTCGTTCGAAAATTTTGACGTTTGGG
586 TTTTATGGTCTAAATTTCACGAAAAAATTTCATGAAAAGTTCGTTCGAAAATTTTGACGTTTGGG
9522340 CACTCAATTTAGCCAAAAAGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTCTACATGTTAGAAG
651 CACTCAATTTAGCCAAAAAGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTCTACATGTTAGAAG
9522405 TGTCCAATTGTTATGAAATTTTAAATTGAAGGTCCTTAAATGGTAATTAGACCATTGGTTAAATT
716 TGTCCAATTGTTATGAAATTTTAAATTGAAGGTCCTTAAATGGTAATTAGACCATTGGTTAAATT
9522470 TTGGACAATAAATAACATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCATTTTGGTAAT
781 TTGGACAATAAATAACATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCATTTTGGTAAT
*
9522535 TTGGTAATTAAAAAGTATTAAAAAGACAAAATAGGCCAAAAATCATCATCTTCAACCTCATGGCC
846 TTGGTAATTAAAAAGTATTAAAAAGACAAAATAGGCAAAAAATCATCATCTTCAACCTCATGGCC
9522600 GAAATTAGCAAGGGCG
911 GAAATTAGCAAGGGCG
9522616 TCATGTAAACATGATTCATATGAATTTGACATGGATAAACATTATACTTGAGTATGATTCAATTG
1 TCATGTAAACATGATTCATATGAATTTGACATGGATAAACATTATACTTGAGTATGATTCAATTG
9522681 GATTTATCATCCATCACAACATATCATGTTTTTCCATGTATAACCATTCTATTGAATTTCATTTA
66 GATTTATCATCCATCACAACATATCATGTTTTTCCATGTATAACCATTCTATTGAATTTCATTTA
9522746 AACATGGCTTAGTTCTTATTGAACACTTACCATTTCATTTGCATACACATAAGACATAAACATAA
131 AACATGGCTTAGTTCTTATTGAACACTTACCATTTCATTTGCATACACATAAGACATAAACATAA
9522811 CATTTACCATAGCCACAGGCTAGTGATTAAACACATAACTTAGCAATATCATCACATGGTAAGAT
196 CATTTACCATAGCCACAGGCTAGTGATTAAACACATAACTTAGCAATATCATCACATGGTAAGAT
9522876 ATGGTACCTAACATAGCATCACTTATATCATACGTTTCATAAACATGAATATTCATACTTTGATC
261 ATGGTACCTAACATAGCATCACTTATATCATACGTTTCATAAACATGAATATTCATACTTTGATC
9522941 ATTGGTACCATCATACC-TTCCATATTTGTCATATTGAAGTTAATCAGAATCCTTACCGGAGCTC
326 ATTGGTA-CATCATACCTTTCCATATTTGTCATATTGAAGTTAATCAGAATCCTTACCGGAGCTC
9523005 ATATAAAGTGTGTTAAACGATGGTTGTGACCGTCCCTATAACGCCCCAAAATTTTAATTTTGGGT
390 ATATAAAGTGTGTTAAACGATGGTTGTGACCGTCCCTATAACGCCCCAAAATTTTAATTTTGGGT
9523070 ATTGTGAATGTGTGACACAAAATATCTGTCTGCTTTAGTGGTTATCTGTTCTGGGTGTGTTTTTA
455 ATTGTGAATGTGTGACACAAAATATCTGTCTGCTTTAGTGGTTATCTGTTCTGGGTGTGTTTTTA
9523135 GGCCTAGTCGGAATAGTGGTTTCGGGACCACAAATCTAATGAGGGAAAATATAATTATTATTATA
520 GGCCTAGTCGGAATAGTGGTTTCGGGACCACAAATCTAATGAGGGAAAATATAATTATTATTATA
9523200 TTTTTATGGTCTAAATTTCACGAAAAAATTTCATGAAAAGTTCGTTCGAAAATTTTGACGTTTGG
585 TTTTTATGGTCTAAATTTCACGAAAAAATTTCATGAAAAGTTCGTTCGAAAATTTTGACGTTTGG
9523265 GCACTCAATTTAGCCAAAAAGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTCTACATGTTAGAA
650 GCACTCAATTTAGCCAAAAAGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTCTACATGTTAGAA
9523330 GTGTCCAATTGTTATGAAATTTTAAATTGAAGGTCCTTAAATGGTAATTAGACCATTGGTTAAAT
715 GTGTCCAATTGTTATGAAATTTTAAATTGAAGGTCCTTAAATGGTAATTAGACCATTGGTTAAAT
9523395 TTTGGACAATAAATAACATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCATTTTGGTAA
780 TTTGGACAATAAATAACATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCATTTTGGTAA
* *
9523460 TTTGGTAATTAAAAAGTATTAAAAAGATAAAATAGGCAAAAAATCATCATCTTCAACCTTATGGC
845 TTTGGTAATTAAAAAGTATTAAAAAGACAAAATAGGCAAAAAATCATCATCTTCAACCTCATGGC
9523525 CGAAATTAGCAAGGG
910 CGAAATTAGCAAGGG
9523540 GGAAGCCATG
Statistics
Matches: 920, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
926 911 0.99
927 9 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (926 bp):
TCATGTAAACATGATTCATATGAATTTGACATGGATAAACATTATACTTGAGTATGATTCAATTG
GATTTATCATCCATCACAACATATCATGTTTTTCCATGTATAACCATTCTATTGAATTTCATTTA
AACATGGCTTAGTTCTTATTGAACACTTACCATTTCATTTGCATACACATAAGACATAAACATAA
CATTTACCATAGCCACAGGCTAGTGATTAAACACATAACTTAGCAATATCATCACATGGTAAGAT
ATGGTACCTAACATAGCATCACTTATATCATACGTTTCATAAACATGAATATTCATACTTTGATC
ATTGGTACATCATACCTTTCCATATTTGTCATATTGAAGTTAATCAGAATCCTTACCGGAGCTCA
TATAAAGTGTGTTAAACGATGGTTGTGACCGTCCCTATAACGCCCCAAAATTTTAATTTTGGGTA
TTGTGAATGTGTGACACAAAATATCTGTCTGCTTTAGTGGTTATCTGTTCTGGGTGTGTTTTTAG
GCCTAGTCGGAATAGTGGTTTCGGGACCACAAATCTAATGAGGGAAAATATAATTATTATTATAT
TTTTATGGTCTAAATTTCACGAAAAAATTTCATGAAAAGTTCGTTCGAAAATTTTGACGTTTGGG
CACTCAATTTAGCCAAAAAGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTCTACATGTTAGAAG
TGTCCAATTGTTATGAAATTTTAAATTGAAGGTCCTTAAATGGTAATTAGACCATTGGTTAAATT
TTGGACAATAAATAACATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCATTTTGGTAAT
TTGGTAATTAAAAAGTATTAAAAAGACAAAATAGGCAAAAAATCATCATCTTCAACCTCATGGCC
GAAATTAGCAAGGGCG
Found at i:9524522 original size:51 final size:51
Alignment explanation
Indices: 9524467--9524902 Score: 402
Period size: 51 Copynumber: 8.6 Consensus size: 51
9524457 GATGAACACT
* * *
9524467 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACG
* * * * * * * *
9524518 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGATGGTCACG
* * *
9524569 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACG
* * * * * * *
9524620 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACC-A-AAAAGCTTTGGTCAGG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATG--ATGGTCACG
* * * *
9524671 TGTGTAGTACTGTGTGAAGGCTACTACTTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACG
* *
9524722 TGTGTAGTACTAAGTGAAGGCTACT-CTGTGTACCGA-AAA-GATTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTAC-GTGAACCGATAAATGA--TGGTCACG
* * *** *
9524773 TGTGTAGTACTCTGTGAAGGCTACTATGTGAACCG-TAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACG
* *** * *
9524823 TGTGTAGTACTATGTGAAGGCTGCTACGTGAACC-ATAAAACTTGATAACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACG
*
9524873 TGTGTAGTACTATGTGAAGGCTACTGCGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
9524903 TATTGAATGA
Statistics
Matches: 310, Mismatches: 62, Indels: 27
0.78 0.16 0.07
Matches are distributed among these distances:
49 6 0.02
50 86 0.28
51 212 0.68
52 2 0.01
53 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACG
Found at i:9524643 original size:102 final size:102
Alignment explanation
Indices: 9524467--9524902 Score: 608
Period size: 102 Copynumber: 4.3 Consensus size: 102
9524457 GATGAACACT
9524467 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
* *
9524532 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCATG
66 TGAAGGCTACAATGTGTACCGAAAAGCTTTGGTCACG
9524569 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
* *
9524634 TGAAGGCTACAATGTGTACCAAAAAGCTTTGGTCAGG
66 TGAAGGCTACAATGTGTACCGAAAAGCTTTGGTCACG
*
9524671 TGTGTAGTACTGTGTGAAGGCTACTACTTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
** *
9524736 TGAAGGCTACTCTGTGTACCGAAAAGATTTGGTCACG
66 TGAAGGCTACAATGTGTACCGAAAAGCTTTGGTCACG
* * * *** * * *
9524773 TGTGTAGTACTCTGTGAAGGCTACTATGTGAACCG-TAAAACTTGATCACGTGTGTAGTACTATG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
* * * * * * *
9524837 TGAAGGCTGCTACGTGAACC-ATAAAAC-TTGATAACG
66 TGAAGGCTACAATGTGTACCGA-AAAGCTTTGGTCACG
* *
9524873 TGTGTAGTACTATGTGAAGGCTACTGCGTG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTG
9524903 TATTGAATGA
Statistics
Matches: 303, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
100 35 0.12
101 42 0.14
102 226 0.75
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
TGAAGGCTACAATGTGTACCGAAAAGCTTTGGTCACG
Found at i:9532422 original size:51 final size:51
Alignment explanation
Indices: 9532354--9532887 Score: 517
Period size: 51 Copynumber: 10.5 Consensus size: 51
9532344 GATGAACACT
* * * * *
9532354 TGTGTAATACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACG
* * * * * * *
9532405 TGTGTAGTACTAAGTGAAGGCTACAATGAGTACCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGTCACG
* * * *
9532456 TGTGTAGTACTCTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACG
* * * * * *
9532507 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGTCACG
* * * *
9532558 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACG
* * * * * * *
9532609 TGTGTAGTACTAAGTGAAAGCTACAATGTGTACCAAGAAGAT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGTCACG
* * *
9532660 TGTGTAGTACTATGTGAAGGCTACTACGTGAATC-ATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACG
* * * *
9532710 TGTGTAGTACTAAGTGAAGGCTACTACGTGTACCG--AAAGGCTTTCGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATG--TTGGTCACG
* * ** *
9532761 TGTGTAGTACTATGTGAAGGCTGCTATGTGAACCG-TAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACG
** **
9532811 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTTATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACG
*
9532861 TGTATAGTACTATGTGAAGGCTACTAC
1 TGTGTAGTACTATGTGAAGGCTACTAC
9532888 ATGTGTCGAA
Statistics
Matches: 391, Mismatches: 82, Indels: 21
0.79 0.17 0.04
Matches are distributed among these distances:
49 6 0.02
50 123 0.31
51 255 0.65
52 7 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACG
Found at i:9532530 original size:102 final size:102
Alignment explanation
Indices: 9532354--9532887 Score: 781
Period size: 102 Copynumber: 5.3 Consensus size: 102
9532344 GATGAACACT
* *
9532354 TGTGTAATACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
*
9532419 TGAAGGCTACAATGAGTACCGAGAAGCTTTGGTCACG
66 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
*
9532456 TGTGTAGTACTCTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
9532521 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
66 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
*
9532558 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
* * *
9532623 TGAAAGCTACAATGTGTACCAAGAAGATTTGGTCACG
66 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
9532660 TGTGTAGTACTATGTGAAGGCTACTACGTGAATC-ATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
* * *
9532724 TGAAGGCTACTACGTGTACCGA-AAGGCTTTCGTCACG
66 TGAAGGCTACAATGTGTACCGAGAA-GCTTTGGTCACG
* * * *** * * *
9532761 TGTGTAGTACTATGTGAAGGCTGCTATGTGAACCG-TAAAACTTGATCACGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
* * * * *
9532825 TGAAGGCTACTACGTGAACCGTA-AAACTTT-ATCACG
66 TGAAGGCTACAATGTGTACCG-AGAAGCTTTGGTCACG
*
9532861 TGTATAGTACTATGTGAAGGCTACTAC
1 TGTGTAGTACTATGTGAAGGCTACTAC
9532888 ATGTGTCGAA
Statistics
Matches: 400, Mismatches: 29, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
100 31 0.08
101 136 0.34
102 233 0.58
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
Found at i:9537266 original size:29 final size:30
Alignment explanation
Indices: 9537215--9537305 Score: 123
Period size: 29 Copynumber: 3.1 Consensus size: 30
9537205 TTTCATAGTC
**
9537215 GATGGTCGAAACCATCCCTTTTCATTAATT
1 GATGGTCGTCACCATCCCTTTTCATTAATT
* *
9537245 GATGGTCGTCACCATCCC-TTTCCTTAGTT
1 GATGGTCGTCACCATCCCTTTTCATTAATT
*
9537274 GATGGTCATCACCATCCCTTTTCA-TAATT
1 GATGGTCGTCACCATCCCTTTTCATTAATT
9537303 GAT
1 GAT
9537306 AACTGAAGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 33 0.62
30 20 0.38
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.37
Consensus pattern (30 bp):
GATGGTCGTCACCATCCCTTTTCATTAATT
Found at i:9537405 original size:29 final size:29
Alignment explanation
Indices: 9537373--9537450 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
9537363 TGCCATCACC
9537373 ATCCCTTTTCATAATCGATAGTCGAAACT
1 ATCCCTTTTCATAATCGATAGTCGAAACT
* * *
9537402 ATCCCTTTTCCTATTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATCGATAGTCGAAACT
*
9537431 ATCCTTTTTCATTAATCGAT
1 ATCCCTTTTCA-TAATCGAT
9537451 GATCATTGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 35 0.83
30 7 0.17
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGTCGAAACT
Found at i:9537409 original size:86 final size:86
Alignment explanation
Indices: 9537204--9537420 Score: 251
Period size: 86 Copynumber: 2.5 Consensus size: 86
9537194 TTATAGTTCA
* * * *
9537204 TTTTCATAGTCGATGGTCGAAACCATCCCTTTTCATTAATT-GATGGTCGTCACCATCCCTTTCC
1 TTTTCATAATCGATAGTCGAAACTATCCCTTTTC--T-ATTCGATGGTCATCACCATCCCTTTCC
*
9537268 TTAGTTGATGGTCATCACCATCCC
63 TTAGTTGATGGCCATCACCATCCC
* * * * * *
9537292 TTTTCATAATTGATA-ACTGAAGCTATACCTTTTCTATTCTATGGTCATCACCATCCCTTT-TTA
1 TTTTCATAATCGATAGTC-GAAACTATCCCTTTTCTATTCGATGGTCATCACCATCCCTTTCCT-
*
9537355 TAGTTGATTGCCATCACCATCCC
64 TAGTTGATGGCCATCACCATCCC
9537378 TTTTCATAATCGATAGTCGAAACTATCCCTTTTCCTATTCGAT
1 TTTTCATAATCGATAGTCGAAACTATCCCTTTT-CTATTCGAT
9537421 AGTCGAAGCT
Statistics
Matches: 107, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
85 4 0.04
86 68 0.64
87 10 0.09
88 25 0.23
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (86 bp):
TTTTCATAATCGATAGTCGAAACTATCCCTTTTCTATTCGATGGTCATCACCATCCCTTTCCTTA
GTTGATGGCCATCACCATCCC
Found at i:9543732 original size:20 final size:21
Alignment explanation
Indices: 9543676--9543732 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
9543666 CGATACCAAC
*
9543676 TAAAAAATATTGATA-CTTTT
1 TAAAAAATATTAATACCTTTT
*
9543696 TAAAAAATATCAATACCTTTT
1 TAAAAAATATTAATACCTTTT
9543717 T-AAAAATATTAATACC
1 TAAAAAATATTAATACC
9543733 ACGGGGTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 27 0.82
21 6 0.18
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAAAATATTAATACCTTTT
Found at i:9565342 original size:50 final size:50
Alignment explanation
Indices: 9565259--9565382 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 50
9565249 CATTGAGGTT
* * * ** * *
9565259 ATGAGAAGTCCTATGTAAGACCATTTCTGGGACATGGCGT-TGGCACCAAG
1 ATGAGAACTCCCACGTAAGACCATGCCTAGGACATGGCATGT-GCACCAAG
** * *
9565309 ATGAGAGGTCCCCCGTAAGACCATGCCTAGGACATGGCATGTGCACCAAT
1 ATGAGAACTCCCACGTAAGACCATGCCTAGGACATGGCATGTGCACCAAG
*
9565359 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAACTCCCACGTAAGACCAT
9565383 ATATGGGTTA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 59 0.98
51 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (50 bp):
ATGAGAACTCCCACGTAAGACCATGCCTAGGACATGGCATGTGCACCAAG
Found at i:9572739 original size:50 final size:50
Alignment explanation
Indices: 9572566--9572741 Score: 119
Period size: 56 Copynumber: 3.4 Consensus size: 50
9572556 ATTTGGGTAA
* * *
9572566 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
1 AGAGACTCCCATGTAAGACCATGCCTAGGACATGGCA-TGGCACCA---A-G--ATG
* * * * ** *
9572622 GGAG-GTCCCACGTAAGACCATGTCTAGGACATGGGTTGGCACCGAGATG
1 AGAGACTCCCATGTAAGACCATGCCTAGGACATGGCATGGCACCAAGATG
* * *
9572671 AGAGGTCCCCCAT-T-AGACCATGCCTAGGACATGGCATGTGCACCAATATG
1 AGA-GACTCCCATGTAAGACCATGCCTAGGACATGGCATG-GCACCAAGATG
9572721 AGA-ACTCCCATGTAAGACCAT
1 AGAGACTCCCATGTAAGACCAT
9572742 ATCTGGGATA
Statistics
Matches: 96, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
48 6 0.06
49 27 0.28
50 21 0.22
51 5 0.05
52 1 0.01
55 6 0.06
56 30 0.31
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
AGAGACTCCCATGTAAGACCATGCCTAGGACATGGCATGGCACCAAGATG
Found at i:9581092 original size:26 final size:26
Alignment explanation
Indices: 9581053--9581119 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
9581043 TACATCAATG
9581053 CTCACACGAGCTGTGAAATGGGCCTA
1 CTCACACGAGCTGTGAAATGGGCCTA
* *
9581079 CTTACACAAGCTGTGAAATGGGCCTA
1 CTCACACGAGCTGTGAAATGGGCCTA
9581105 CTCACACGAGCTGTG
1 CTCACACGAGCTGTG
9581120 GAGAATCCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATGGGCCTA
Found at i:9584797 original size:18 final size:18
Alignment explanation
Indices: 9584776--9584810 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9584766 TAAAAAAAAC
9584776 TAGAATAATAA-TACATAG
1 TAGAATAA-AATTACATAG
9584794 TAGAATAAAATTACATA
1 TAGAATAAAATTACATA
9584811 TAAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
TAGAATAAAATTACATAG
Found at i:9586479 original size:44 final size:44
Alignment explanation
Indices: 9586289--9586839 Score: 267
Period size: 44 Copynumber: 12.8 Consensus size: 44
9586279 GTTTGATGCG
* * * *
9586289 ATCTGCTCTATTGCAA-TTCATAGAGATAAGATCTGTAATTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTCATTTTA
* * * *
9586332 ATCCGCTCCACTGCAACTTTA-AGGAGATAGGAT-TGGT--TTCTTCT
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCT-GTCATT-TT-A
* * * * ***
9586376 GTCTGTTCCACTGCAACTTCAGGGAGATAAGA-CTG-GA-TGCG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTCATTTTA
*
9586417 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTCATTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTCATTTTA
* * * * *
9586461 AT-TCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGC--TTTA
1 ATCT-GCTCCACTGCAACTTCAGAGAGATAAGA-T-CTGTCATTTTA
* * *
9586505 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTCAT-TTTA
* * * * * **
9586550 GTCTACCCCACTGCAACTTCAGGGGGATAAGA-C--T-AGTTGCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTCA-TTTTA
* * *
9586591 ATCTGGT-CTCTGCAACTTCAGAAAGATAAGATCTGTCATTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTCATTTTA
* * * * *
9586634 ATCCGCTCCGCTGCAACTTCAGGGAGAT-AGCATTATTGGC--TTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAG-A-T-CTGTCATTTTA
* * * *
9586678 ATCTGCTCTACTGCAACTTCAGTGAGATAAGAT-TCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTCAT-TTTA
* * * * *
9586723 GTCTGCCCCACTGCAACTTCA-AGGGGATAAGA-C--T-AGTTGTG
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTGTCA-TTTTA
* * *
9586764 ATCTGCT-CTCTGCAACTTCAAAGAGATAAGATCTGTTATTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTCATTTTA
* *
9586807 ATCCGCTCCGCTGCAACTTCA-AGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGAT
9586840 TATTGGCTTT
Statistics
Matches: 384, Mismatches: 79, Indels: 89
0.70 0.14 0.16
Matches are distributed among these distances:
40 40 0.10
41 47 0.12
42 11 0.03
43 45 0.12
44 170 0.44
45 65 0.17
46 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTCATTTTA
Found at i:9586515 original size:129 final size:128
Alignment explanation
Indices: 9586283--9586536 Score: 368
Period size: 129 Copynumber: 2.0 Consensus size: 128
9586273 ACTGAGGTTT
* *
9586283 GATGCGATCTGCTCTATTGCAATTCATAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
1 GATGCGATCTGCTCTACTGCAATTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
* * * * *
9586348 CTTTAAGGAGATAGGATTGGTTTCTTCTGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTG
66 CTTCAAGGAGATAGGATTGATTGCTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTG
* * *
9586411 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTCATTTTAATTCGCTCCGCTGCA
1 GATGCGATCTGCTCTACTGCAA-TTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
*
9586476 ACTTCAGGGAGATAGGATT-ATTGGCTT-TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
65 ACTTCAAGGAGATAGGATTGATT-GCTTCT-ATCTGCTCCACTGCAACTTCAGGGAGATAAGA
9586537 TTCGCCATCT
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
128 24 0.21
129 88 0.79
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (128 bp):
GATGCGATCTGCTCTACTGCAATTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
CTTCAAGGAGATAGGATTGATTGCTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTG
Found at i:9586620 original size:173 final size:173
Alignment explanation
Indices: 9586328--9586886 Score: 789
Period size: 173 Copynumber: 3.2 Consensus size: 173
9586318 GATCTGTAAT
* * * * *** * **
9586328 TTTAATCCGCTCCACTGCAACTTTAAGGAGATAGGATT-GGTTTCTTCTGTCTGTTCCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAA
* * * *
9586392 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTCAT
66 CTTCAGGGGGATAAGACTAGTTGCGATCTGCTCT-CTGCAACTTCAGAAAGATAAGATCTGTCAT
*
9586457 TTTAATTCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGC
130 TTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGC
*
9586501 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTACCCCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAA
* *
9586566 CTTCAGGGGGATAAGACTAGTTGCAATCTGGTCTCTGCAACTTCAGAAAGATAAGATCTGTCATT
66 CTTCAGGGGGATAAGACTAGTTGCGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTGTCATT
*
9586631 TTAATCCGCTCCGCTGCAACTTCAGGGAGATAGCATTATTGGC
131 TTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGC
* *
9586674 TTTAATCTGCTCTACTGCAACTTCAGTGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAA
* * *
9586739 CTTCAAGGGGATAAGACTAGTTGTGATCTGCTCTCTGCAACTTCA-AAGAGATAAGATCTGTTAT
66 CTTCAGGGGGATAAGACTAGTTGCGATCTGCTCTCTGCAACTTCAGAA-AGATAAGATCTGTCAT
* *
9586803 TTTAATCCGCTCCGCTGCAACTTCAAGGAGATAAGATTATTGGC
130 TTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGC
* * *
9586847 TTTAATCAGTCTGCCCCATTGCAACTTCAGGGGGATAAGA
1 TTT-A--A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA
9586887 CCTGTTATCT
Statistics
Matches: 345, Mismatches: 35, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
172 2 0.01
173 267 0.77
174 49 0.14
176 1 0.00
177 26 0.08
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (173 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAA
CTTCAGGGGGATAAGACTAGTTGCGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTGTCATT
TTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGC
Found at i:9586743 original size:45 final size:44
Alignment explanation
Indices: 9586377--9586933 Score: 244
Period size: 44 Copynumber: 12.8 Consensus size: 44
9586367 GTTTCTTCTG
* * * * *
9586377 TCTGTTCCACTGCAACTTCAGGGAGATAAGACT-G-GA-TGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTCAA
* * * *
9586418 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTCATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCCATTTCAA
* * * *
9586462 T-TCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGC-TTT-AA
1 TCT-GCTCCACTGCAACTTCAGGGAGATAAGA-T-TCGCCATTTCAA
*
9586506 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT-TTCAA
* * * * * *
9586551 TCTACCCCACTGCAACTTCAGGGGGATAAGACTAG---TTGCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTCAA
* * ** * *
9586592 TCTGGT-CTCTGCAACTTCAGAAAGATAAGA-TCTGTCATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCCATTTCAA
* * * *
9586635 TCCGCTCCGCTGCAACTTCAGGGAGAT-AGCATTATTGGC-TTT-AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG-A-T-TCGCCATTTCAA
* * *
9586679 TCTGCTCTACTGCAACTTCAGTGAGATAAGATTCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT-TTCAA
* * * *
9586724 TCTGCCCCACTGCAACTTCAAGGG-GATAAGACTAG---TTGT-GA
1 TCTGCTCCACTGCAACTTC-AGGGAGATAAGATTCGCCATT-TCAA
* ** ** *
9586765 TCTGCT-CTCTGCAACTTCAAAGAGATAAGA-TCTGTTATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCCATTTCAA
* * * * * * *
9586808 TCCGCTCCGCTGCAACTTCAAGGAGATAAGATTATTGGCTTTAATCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TCGCCATT--TCAA
* * * * **
9586856 TCTGCCCCATTGCAACTTCAGGGGGATAAGA-CCTGTTATCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCCAT-TTCAA
* *
9586901 TAC-ACTCCACTGCAACTTCAGGGAGATAGGATT
1 T-CTGCTCCACTGCAACTTCAGGGAGATAAGATT
9586934 TGCGGTTTCA
Statistics
Matches: 384, Mismatches: 89, Indels: 81
0.69 0.16 0.15
Matches are distributed among these distances:
39 4 0.01
40 41 0.11
41 40 0.10
42 11 0.03
43 24 0.06
44 126 0.33
45 94 0.24
46 13 0.03
47 4 0.01
48 27 0.07
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTCAA
Found at i:9596092 original size:3 final size:3
Alignment explanation
Indices: 9596084--9596118 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
9596074 GTACTTACGC
*
9596084 TAA TAA TAA TAGA CAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA T
9596119 TTTTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.93
4 2 0.07
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:9597187 original size:14 final size:15
Alignment explanation
Indices: 9597168--9597197 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9597158 CCTAATTTTA
9597168 TTTGATTTA-TTATT
1 TTTGATTTATTTATT
9597182 TTTGATTTATTTATT
1 TTTGATTTATTTATT
9597197 T
1 T
9597198 GGGCCCAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (15 bp):
TTTGATTTATTTATT
Found at i:9599803 original size:112 final size:115
Alignment explanation
Indices: 9599598--9600015 Score: 530
Period size: 113 Copynumber: 3.6 Consensus size: 115
9599588 TCGCCCCAAT
* *
9599598 TTGAACATTTAGTAAAAAAAACACA-ATAGAAGTATTAACTTCTCAATTTTCATAAAGTAGAGGG
1 TTGAGCATTTAGTAAAAAAAACA-ATATAG-AGTACTAACTTCTCAATTTTCATAAAGTAGAGGG
* * * ** *
9599662 ATCGATTATGTTCTTAGACATTGTTTTGAAAAGAAGAA-GAGAAATAACAAC
64 ACCAATTTTGTAGTTAGACATTGTTTTGAAAAGAAAAAGGAGAAATAACAAC
*
9599713 TTGAGCATTTAGT-AAAAAAACAATATAG-GTACTAACTTTTCAATTTTCATAAAGTAGAGGGAC
1 TTGAGCATTTAGTAAAAAAAACAATATAGAGTACTAACTTCTCAATTTTCATAAAGTAGAGGGAC
* *
9599776 CAATTTTGTAGTTAGACATTGTTTTGAAAAAAAAAAAGGAGAAACAACAAC
66 CAATTTTGTAGTTAGACATTGTTTTG-AAAAGAAAAAGGAGAAATAACAAC
* *
9599827 TTGAGC-TTTAGT-AAAAAAACAATATAG-GTATTAACTTTTCAATTTTCATAAAGTAGAGGGAC
1 TTGAGCATTTAGTAAAAAAAACAATATAGAGTACTAACTTCTCAATTTTCATAAAGTAGAGGGAC
*
9599889 CAATTTTGTAGTTAGACATTGTTTTG-GAAGAAAAAGGAGAAATAACAAC
66 CAATTTTGTAGTTAGACATTGTTTTGAAAAGAAAAAGGAGAAATAACAAC
* *
9599938 TTGAGCATTTAGTTTTAAAAAAAAAAACAATAAAGAG-GCTAACTTCTCAATTTTCATAAAGTAG
1 TTGAGCATTTAG---T---AAAAAAAACAATATAGAGTACTAACTTCTCAATTTTCATAAAGTAG
**
9600002 AGGGATAAATTTTG
60 AGGGACCAATTTTG
9600016 GAATTAGAAC
Statistics
Matches: 270, Mismatches: 21, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
111 26 0.10
112 59 0.22
113 90 0.33
114 31 0.11
115 13 0.05
119 50 0.19
120 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (115 bp):
TTGAGCATTTAGTAAAAAAAACAATATAGAGTACTAACTTCTCAATTTTCATAAAGTAGAGGGAC
CAATTTTGTAGTTAGACATTGTTTTGAAAAGAAAAAGGAGAAATAACAAC
Found at i:9600083 original size:78 final size:78
Alignment explanation
Indices: 9599955--9600170 Score: 344
Period size: 78 Copynumber: 2.8 Consensus size: 78
9599945 TTTAGTTTTA
* *
9599955 AAAAAAAAAACAATAAAGAGG-CTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTGGAA
1 AAAACAAAAACAATAAAG-GGATTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTGGAA
9600019 TTAGAACATTCAGT
65 TTAGAACATTCAGT
9600033 AAAACAAAAACAATAAAGGGATTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTGGAAT
1 AAAACAAAAACAATAAAGGGATTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTGGAAT
*
9600098 TAGAACATTTAGT
66 TAGAACATTCAGT
* * * *
9600111 AAAACCAAAACAATAAAGGGATCAACTTCTCAATTTTCATGAACTAGAGGGATAATATTT
1 AAAACAAAAACAATAAAGGGATTAACTTCTCAATTTTCATAAAGTAGAGGGATAA-ATTT
9600171 ATAATTGGAC
Statistics
Matches: 129, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
77 2 0.02
78 123 0.95
79 4 0.03
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (78 bp):
AAAACAAAAACAATAAAGGGATTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTGGAAT
TAGAACATTCAGT
Found at i:9604402 original size:20 final size:22
Alignment explanation
Indices: 9604377--9604416 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
9604367 AAAATCTAAT
9604377 TAAATAAAAA-A-TTATATTAA
1 TAAATAAAAATATTTATATTAA
9604397 TAAATAAAAATATTTATATT
1 TAAATAAAAATATTTATATT
9604417 TATATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATAAAAATATTTATATTAA
Found at i:9604827 original size:25 final size:26
Alignment explanation
Indices: 9604793--9604852 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
9604783 AGAGGTTTTT
**
9604793 TTTTTATTTAATTTTAATATA-ATTA
1 TTTTTATTTAATACTAATATAGATTA
*
9604818 TTTTTATTTAATACTAATATAGATTT
1 TTTTTATTTAATACTAATATAGATTA
9604844 TTTTTATTT
1 TTTTTATTT
9604853 TGTTCAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 19 0.61
26 12 0.39
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTATTTAATACTAATATAGATTA
Found at i:9610314 original size:202 final size:203
Alignment explanation
Indices: 9609961--9610371 Score: 743
Period size: 202 Copynumber: 2.0 Consensus size: 203
9609951 CAATTGCCAT
* * **
9609961 TTTGCTCTTTTATAAAATAAAACCTATTTCTGTAAATCTGACCATCGAATATACAATTAAGTCAT
1 TTTGCACTTTTATAAAATAAAACCTATTTCTGCAAATCCAACCATCGAATATACAATTAAGTCAT
9610026 TAATAACACCAAATTAAACCTTTAATTTAACACATAATCAGACCAATTTACCAAATTTCCCTTAA
66 TAATAACACCAAATTAAACCTTTAATTTAACACATAATCAGACCAATTTACCAAATTTCCCTTAA
9610091 TATCACTCACCTCCACACTTAGCTCTTTAAGCAAAAATGTGTTCAAACAAGCAAGTTTGAGCTTC
131 TATCACTCACCTCCACACTTAGCTCTTTAAGCAAAAATGTGTTCAAACAAGCAAGTTTGAGCTTC
9610156 AATTCTGA
196 AATTCTGA
* * * *
9610164 TTTGCACTTTTATAAAATAGAACCTATTTTTGCAAATCCAACCATCTAATATGCAATTAAGTCAT
1 TTTGCACTTTTATAAAATAAAACCTATTTCTGCAAATCCAACCATCGAATATACAATTAAGTCAT
9610229 TAATAACACCAAA-TAAACCTTTAATTTAACACATAATCAGACCAATTTACCAAATTTCCCTTAA
66 TAATAACACCAAATTAAACCTTTAATTTAACACATAATCAGACCAATTTACCAAATTTCCCTTAA
9610293 TATCACTCACCTCCACACTTAGCTCTTTAAGCAAAAATGTGTTCAAACAAGCAAGTTTGAGCTTC
131 TATCACTCACCTCCACACTTAGCTCTTTAAGCAAAAATGTGTTCAAACAAGCAAGTTTGAGCTTC
9610358 AATTCTGA
196 AATTCTGA
9610366 TTTGCA
1 TTTGCA
9610372 TGTTCCTCCT
Statistics
Matches: 200, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
202 130 0.65
203 70 0.35
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.33
Consensus pattern (203 bp):
TTTGCACTTTTATAAAATAAAACCTATTTCTGCAAATCCAACCATCGAATATACAATTAAGTCAT
TAATAACACCAAATTAAACCTTTAATTTAACACATAATCAGACCAATTTACCAAATTTCCCTTAA
TATCACTCACCTCCACACTTAGCTCTTTAAGCAAAAATGTGTTCAAACAAGCAAGTTTGAGCTTC
AATTCTGA
Found at i:9613276 original size:33 final size:33
Alignment explanation
Indices: 9613225--9613451 Score: 133
Period size: 33 Copynumber: 6.5 Consensus size: 33
9613215 TTATCCGTTA
*
9613225 TCGGTGGATTCAGCACTTAGCAACCACCAATGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
* *
9613259 TCAGGGAATCAGCACTTAGCAACCCCTTTCACACTCAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A-T--GAT
* *
9613299 ACGGTGGAATCAGCACTTAGCAACCACCAATGGT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
9613333 TCGGGGAATCAACACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* * *
9613360 TGGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAA-CCAC--CA-A--T--GAT
* *
9613401 ACGGTGGAATCAGCACTTAGCAACCACCAAAGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
* *
9613435 TCAGGGAATCAACACTT
1 TCGGGGAATCAGCACTT
9613452 GGGGAATTAG
Statistics
Matches: 152, Mismatches: 18, Indels: 47
0.70 0.08 0.22
Matches are distributed among these distances:
27 22 0.14
28 2 0.01
29 1 0.01
31 1 0.01
32 2 0.01
33 51 0.34
34 13 0.09
36 3 0.02
37 2 0.01
38 4 0.03
39 2 0.01
40 5 0.03
41 27 0.18
42 17 0.11
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:9613419 original size:102 final size:101
Alignment explanation
Indices: 9613262--9613576 Score: 465
Period size: 90 Copynumber: 3.2 Consensus size: 101
9613252 CAATGATTCA
* * *
9613262 GGGAATCAGCACTTAGCAACCCCTTTCACA-CTCAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
* * *
9613326 CAATGGTTCGGGGAATCAACACTTAGCAACCCCTTGG
66 CAAAGATTCAGGGAATCAACACTTAGCAACCCCTT-G
*
9613363 GGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
9613428 CAAAGATTCAGGGAAT---CA---A-C-A---CTTG
66 CAAAGATTCAGGGAATCAACACTTAGCAACCCCTTG
*
9613453 GGGAATTAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
9613518 CAAAGATTCAGGGAATCAACACTTAGCAACCCCTTG
66 CAAAGATTCAGGGAATCAACACTTAGCAACCCCTTG
9613554 GGGAATCAGCACTTAGCAACCCC
1 GGGAATCAGCACTTAGCAACCCC
9613577 TTGGGGGAAT
Statistics
Matches: 192, Mismatches: 10, Indels: 24
0.85 0.04 0.11
Matches are distributed among these distances:
90 80 0.42
91 3 0.02
93 2 0.01
94 1 0.01
95 1 0.01
96 2 0.01
97 1 0.01
98 1 0.01
99 2 0.01
101 54 0.28
102 45 0.23
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.20
Consensus pattern (101 bp):
GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
CAAAGATTCAGGGAATCAACACTTAGCAACCCCTTG
Found at i:9613557 original size:26 final size:27
Alignment explanation
Indices: 9613528--9613605 Score: 122
Period size: 26 Copynumber: 2.9 Consensus size: 27
9613518 CAAAGATTCA
*
9613528 GGGAATCAACACTTAGCAACCCCTT-G
1 GGGAATCAGCACTTAGCAACCCCTTGG
9613554 GGGAATCAGCACTTAGCAACCCCTTGG
1 GGGAATCAGCACTTAGCAACCCCTTGG
9613581 GGGAATATCAGCACTTAGCAACCCC
1 GGG-A-ATCAGCACTTAGCAACCCC
9613606 CTTTATATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 24 0.50
27 4 0.08
28 1 0.02
29 19 0.40
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (27 bp):
GGGAATCAGCACTTAGCAACCCCTTGG
Found at i:9613976 original size:30 final size:30
Alignment explanation
Indices: 9613942--9613999 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
9613932 CCACCCAGTT
9613942 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * * *
9613972 TTTTGCATATTTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
9614000 GATCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:9618841 original size:32 final size:32
Alignment explanation
Indices: 9618800--9618861 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
9618790 AACTAAGTAT
9618800 AATTTCCTATAGGGCATTGTGTTCCCAAATAA
1 AATTTCCTATAGGGCATTGTGTTCCCAAATAA
*
9618832 AATTTCCTATAGGGCATTGTTTTCCCAAAT
1 AATTTCCTATAGGGCATTGTGTTCCCAAAT
9618862 CCTACCCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (32 bp):
AATTTCCTATAGGGCATTGTGTTCCCAAATAA
Found at i:9628324 original size:7 final size:7
Alignment explanation
Indices: 9628298--9628340 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
9628288 CTTCTTCATC
9628298 ATCACAT
1 ATCACAT
* * *
9628305 CTCATAA
1 ATCACAT
9628312 ATCACAT
1 ATCACAT
9628319 ATCACAT
1 ATCACAT
9628326 ATCACAT
1 ATCACAT
9628333 ATCACAT
1 ATCACAT
9628340 A
1 A
9628341 CTAGTGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
ATCACAT
Found at i:9630080 original size:20 final size:20
Alignment explanation
Indices: 9630055--9630105 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 20
9630045 TTGGATGTTC
9630055 TTATTTTTATTTAGACTTT-G
1 TTATTTTTATTTAG-CTTTAG
9630075 TTATTTATT-TTT-GCTTTAG
1 TTATTT-TTATTTAGCTTTAG
9630094 TT-TTTTTATTTA
1 TTATTTTTATTTA
9630106 ATTTCTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
17 2 0.07
18 10 0.37
19 4 0.15
20 9 0.33
21 2 0.07
ACGTcount: A:0.18, C:0.04, G:0.08, T:0.71
Consensus pattern (20 bp):
TTATTTTTATTTAGCTTTAG
Found at i:9645197 original size:98 final size:98
Alignment explanation
Indices: 9645078--9645274 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
9645068 TTAAAAATAA
* * *
9645078 TAAAGGAAATATTTCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTATGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTACCCTAACGTATTGGGTATGATTTC
9645143 TTAAATCTTGGATAAGTGGATGTTCTTTGAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTGAAAG
* *
9645176 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTACCGTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTACCCTAACGTATTGGGTATGATTTC
*
9645241 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTGAAAG
9645274 T
1 T
9645275 TTTATTGCAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTACCCTAACGTATTGGGTATGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTGAAAG
Found at i:9656802 original size:132 final size:132
Alignment explanation
Indices: 9656502--9657280 Score: 1207
Period size: 132 Copynumber: 6.0 Consensus size: 132
9656492 CTGAAGTTAC
* *
9656502 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCCGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
9656567 CAAGCCTTGTCTCCCCGAGCAGTAGC---GAA----GAAGGTTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
9656625 GT
131 GT
* *
9656627 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
9656692 CAAGCCTTGTCTCCCTGAGCATCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
9656757 GT
131 GT
* * * * * *
9656759 AGTGGAGCAGATCGAAGACGGTGAGTTTTATCTATCCAAGATAGTGGGAAGTAGATTTAGGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
9656824 CAAGCCTTGTTTCCCTGAGCAGCAGCAGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
9656889 GT
131 GT
* *
9656891 AGTGGAGAAGATCGAAGACGGCGAATCTTATCTTTCCAAGGTAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
9656956 CAAGCCTTGTCTCTCTAAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
*
9657021 AT
131 GT
9657023 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
9657088 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
9657153 GT
131 GT
* * *
9657155 AGTGGAGCAGATCGAAGACGGTGAATATTATCTTTCCAAGATAGTGGGAAGCAGATTAAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
9657220 CAAGCCTTGTCTCCCTGAGCAGCAGCAGAAAAGGTTGAAG-CTACA-AGTCTTATCTCCCTAA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGA-TCTTATCTCCCTAA
9657281 AGTTACAGAG
Statistics
Matches: 602, Mismatches: 44, Indels: 10
0.92 0.07 0.02
Matches are distributed among these distances:
125 84 0.14
128 3 0.00
130 1 0.00
131 16 0.03
132 498 0.83
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
GT
Found at i:9657172 original size:44 final size:43
Alignment explanation
Indices: 9656858--9657174 Score: 137
Period size: 44 Copynumber: 7.2 Consensus size: 43
9656848 GCAGAGAAGG
* *
9656858 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGA
1 TTGAAGA-CGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* ** *
9656902 TCGAAGACGGCGAATCTTATCTTTCC-AAG--GTAGTGGGAAGCAGA
1 TTGAAGACGTAG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* ** * * * * * * *
9656946 TTTAAGCCACCAAG-CCTTGTCTCTCTAAGCAGCAGCGGAGAAGG
1 TTGAAG--ACGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* *
9656990 TTGAAGATTGTAGATCTTATCTCCCTAAGCAATAGTGGAGCAGA
1 TTGAAGA-CGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* ** *
9657034 TCGAAGACGGCGAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGA
1 TTGAAGACGTAG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* ** * * * * * * *
9657078 TTTAAGCCACCAAG-CCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
1 TTGAAG--ACGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
9657122 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGA-CGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
9657166 TCGAAGACG
1 TTGAAGACG
9657175 GTGAATATTA
Statistics
Matches: 189, Mismatches: 62, Indels: 45
0.64 0.21 0.15
Matches are distributed among these distances:
42 11 0.06
43 19 0.10
44 137 0.72
45 11 0.06
46 11 0.06
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (43 bp):
TTGAAGACGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
Found at i:9658273 original size:23 final size:22
Alignment explanation
Indices: 9658229--9658271 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9658219 GGCTGAGAGA
**
9658229 GTTTTTTTTTTTTTAAGGTTTG
1 GTTTTTTTTTTTAAAAGGTTTG
*
9658251 GTTTTTTTTTTTAAAATGTTT
1 GTTTTTTTTTTTAAAAGGTTT
9658272 TGAAATGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (22 bp):
GTTTTTTTTTTTAAAAGGTTTG
Found at i:9672646 original size:12 final size:12
Alignment explanation
Indices: 9672631--9672663 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
9672621 CACGATCTGG
*
9672631 CACATGACCTAC
1 CACACGACCTAC
9672643 CACACGACCTAC
1 CACACGACCTAC
9672655 CACACGACC
1 CACACGACC
9672664 ATGTGGCGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.48, G:0.09, T:0.09
Consensus pattern (12 bp):
CACACGACCTAC
Found at i:9674115 original size:28 final size:27
Alignment explanation
Indices: 9674059--9674115 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
9674049 TATACAATTC
* *
9674059 TTTTAATTAAATAGAGATTTCTAGTCT
1 TTTTAATTAAATAGAGATTTCGAGACT
9674086 TTTTGAATTAAATAGAGATTTCGAGACT
1 TTTT-AATTAAATAGAGATTTCGAGACT
9674114 TT
1 TT
9674116 CTAACATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (27 bp):
TTTTAATTAAATAGAGATTTCGAGACT
Found at i:9678359 original size:15 final size:16
Alignment explanation
Indices: 9678328--9678360 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9678318 CTATATTCTC
*
9678328 TTAAAAATCGTCGTTG
1 TTAAAAATCGTCCTTG
9678344 TTAAAAAT-GTCCTTG
1 TTAAAAATCGTCCTTG
9678359 TT
1 TT
9678361 GAGAAAACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (16 bp):
TTAAAAATCGTCCTTG
Found at i:9679337 original size:36 final size:36
Alignment explanation
Indices: 9679295--9679416 Score: 102
Period size: 36 Copynumber: 3.2 Consensus size: 36
9679285 TTTTTCAGTA
9679295 GCATGCTTTACATGCAAATCAGATTTTTAGAATATG
1 GCATGCTTTACATGCAAATCAGATTTTTAGAATATG
* * * **
9679331 GCATGCTTAACATGCGAATAAGATCTTATATATTTTCATAATG
1 GCATGCTTTACATGCAAATCAGAT-TT-T-TA---GAAT-ATG
* *
9679374 GCATGC-TTATCATGCAAATCAGAATTTTAGAATAGG
1 GCATGCTTTA-CATGCAAATCAGATTTTTAGAATATG
9679410 GCATGCT
1 GCATGCT
9679417 CAATATGTGA
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
36 29 0.45
37 4 0.06
38 1 0.02
39 2 0.03
40 2 0.03
41 1 0.02
42 6 0.09
43 20 0.31
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (36 bp):
GCATGCTTTACATGCAAATCAGATTTTTAGAATATG
Found at i:9683121 original size:26 final size:26
Alignment explanation
Indices: 9683092--9683157 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
9683082 TACTCCACAA
9683092 CTCGTGTGAG-ATAACCCATTTCATAG
1 CTCGTGTGAGCAT-ACCCATTTCATAG
* **
9683118 CTCGTTTGAGCATACTTATTTCATAG
1 CTCGTGTGAGCATACCCATTTCATAG
9683144 CTCGTGTGAGCATA
1 CTCGTGTGAGCATA
9683158 TATGTACAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 33 0.94
27 2 0.06
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (26 bp):
CTCGTGTGAGCATACCCATTTCATAG
Found at i:9687826 original size:27 final size:28
Alignment explanation
Indices: 9687763--9687826 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
9687753 TTCAGATACG
*
9687763 ATGGATAA-TTTGATGGTTTTATTTTGT
1 ATGGATAATTTTGATGGTTGTATTTTGT
*
9687790 -TGGATCATTTTGATGGTTGTATTTT-T
1 ATGGATAATTTTGATGGTTGTATTTTGT
9687816 ATGGATAATTT
1 ATGGATAATTT
9687827 ATAGTGATCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 7 0.22
27 25 0.78
ACGTcount: A:0.22, C:0.02, G:0.22, T:0.55
Consensus pattern (28 bp):
ATGGATAATTTTGATGGTTGTATTTTGT
Found at i:9692961 original size:23 final size:23
Alignment explanation
Indices: 9692934--9692979 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9692924 ATACACCAAT
9692934 TTATTTATATTAGATAA-ATATAA
1 TTATTTAT-TTAGATAATATATAA
*
9692957 TTATTTATTTATATAATATATAA
1 TTATTTATTTAGATAATATATAA
9692980 ATATAAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATTTATTTAGATAATATATAA
Found at i:9692962 original size:27 final size:28
Alignment explanation
Indices: 9692932--9692985 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
9692922 AAATACACCA
9692932 ATTTATTTATAT-TAGATAAATATAATT
1 ATTTATTTATATATAGATAAATATAATT
*
9692959 ATTTATTTATATAATATATAAATATAA
1 ATTTATTTATAT-ATAGATAAATATAA
9692986 AAGGATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.50
29 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
ATTTATTTATATATAGATAAATATAATT
Found at i:9693073 original size:29 final size:29
Alignment explanation
Indices: 9693031--9693088 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
9693021 GGATTGGATC
* *
9693031 AAATCAAAATTTCATGTACAAAACTGCACA
1 AAATCAAAAGTTCATATACAAAA-TGCACA
*
9693061 AAATC-AAAGTTCATATATAAAATGCACA
1 AAATCAAAAGTTCATATACAAAATGCACA
9693089 TTAGACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.24
29 14 0.56
30 5 0.20
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (29 bp):
AAATCAAAAGTTCATATACAAAATGCACA
Found at i:9699028 original size:22 final size:21
Alignment explanation
Indices: 9698992--9699033 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
9698982 ACAAAAATAA
*
9698992 AATAAAATAGTAAAATTAAAT
1 AATAAAATAGGAAAATTAAAT
9699013 AATAATAATAGGAAAATTAAA
1 AATAA-AATAGGAAAATTAAA
9699034 AAAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
AATAAAATAGGAAAATTAAAT
Done.