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 73 of 136
Found at i:23968728 original size:8 final size:8
Alignment explanation
Indices: 23968684--23968744 Score: 70
Period size: 8 Copynumber: 7.6 Consensus size: 8
23968674 NNNNNNNNNN
*
23968684 TATATATA
1 TATACATA
*
23968692 TATATATA
1 TATACATA
*
23968700 TATATATA
1 TATACATA
23968708 TATACATA
1 TATACATA
*
23968716 AATACATA
1 TATACATA
23968724 TATACATGA
1 TATACAT-A
23968733 -ATACATA
1 TATACATA
23968740 TATAC
1 TATAC
23968745 TTTGAATCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
7 1 0.02
8 46 0.96
9 1 0.02
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (8 bp):
TATACATA
Found at i:23968743 original size:2 final size:2
Alignment explanation
Indices: 23968684--23968727 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
23968674 NNNNNNNNNN
* * *
23968684 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA AA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23968726 TA
1 TA
23968728 CATGAATACA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:23971047 original size:67 final size:67
Alignment explanation
Indices: 23970968--23971242 Score: 311
Period size: 67 Copynumber: 4.1 Consensus size: 67
23970958 GTCACATCTA
* * * * * *
23970968 TAACCCCATGTTTAGTGTCCTAGCGAACTCTATTTGATGCCATAGTCGAGTTATAGTCTTACACA
1 TAACCCCATGTTTAATGTCCTAGAGAACTCTATTGGATGCCATAGTCGAGCTATGGTCTTACACT
23971033 TG
66 TG
* * * * * * *
23971035 TAACCCCATGTTTAATATCCCGAAAGACCT-TATTAGATGTCATAGTCAAGCTATGGTCTTACAC
1 TAACCCCATGTTTAATGT-CCTAGAGAACTCTATTGGATGCCATAGTCGAGCTATGGTCTTACAC
23971099 TTG
65 TTG
* * * * *
23971102 CAACTCCATGTTTAATGTCATAGCGAAC-CTTATTGGATGTCATAGTCGAGCTATGGTCTTACAC
1 TAACCCCATGTTTAATGTCCTAGAGAACTC-TATTGGATGCCATAGTCGAGCTATGGTCTTACAC
*
23971166 CTG
65 TTG
* * * *
23971169 TAACCCCATGTTTAATGTCCTAGAGGACCCTATTGGATGCAATAGTCGAGCTATGGTCTTGCACT
1 TAACCCCATGTTTAATGTCCTAGAGAACTCTATTGGATGCCATAGTCGAGCTATGGTCTTACACT
23971234 TG
66 TG
23971236 TAACCCC
1 TAACCCC
23971243 GTTACAGCCC
Statistics
Matches: 172, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
66 5 0.03
67 159 0.92
68 8 0.05
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (67 bp):
TAACCCCATGTTTAATGTCCTAGAGAACTCTATTGGATGCCATAGTCGAGCTATGGTCTTACACT
TG
Found at i:23971214 original size:134 final size:134
Alignment explanation
Indices: 23970973--23971235 Score: 352
Period size: 134 Copynumber: 2.0 Consensus size: 134
23970963 ATCTATAACC
* * * *
23970973 CCATGTTTAGTGTCCTAGCGAACTCTATTTGATGCCATAGTCGAGTTATAGTCTTACACATGTAA
1 CCATGTTTAATGTCATAGCGAACTCTATTGGATGCCATAGTCGAGCTATAGTCTTACACATGTAA
* *
23971038 CCCCATGTTTAATATCCCGAAAGACCTTATTAGATGTCATAGTCAAGCTATGGTCTTACACTTGC
66 CCCCATGTTTAATATCCAGAAAGACCCTATTAGATGTCATAGTCAAGCTATGGTCTTACACTTGC
23971103 AACT
131 AACT
* * *
23971107 CCATGTTTAATGTCATAGCGAAC-CTTATTGGATGTCATAGTCGAGCTATGGTCTTACACCTGTA
1 CCATGTTTAATGTCATAGCGAACTC-TATTGGATGCCATAGTCGAGCTATAGTCTTACACATGTA
* * * * *
23971171 ACCCCATGTTTAATGTCCTAG-AGGACCCTATTGGATG-CAATAGTCGAGCTATGGTCTTGCACT
65 ACCCCATGTTTAATATCC-AGAAAGACCCTATTAGATGTC-ATAGTCAAGCTATGGTCTTACACT
23971234 TG
128 TG
23971236 TAACCCCGTT
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
133 2 0.02
134 109 0.97
135 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (134 bp):
CCATGTTTAATGTCATAGCGAACTCTATTGGATGCCATAGTCGAGCTATAGTCTTACACATGTAA
CCCCATGTTTAATATCCAGAAAGACCCTATTAGATGTCATAGTCAAGCTATGGTCTTACACTTGC
AACT
Found at i:23975721 original size:19 final size:19
Alignment explanation
Indices: 23975697--23975733 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
23975687 TACGAAATTC
23975697 CTAAGCTTTCTCTAACCTA
1 CTAAGCTTTCTCTAACCTA
23975716 CTAAGCTTTCTCTAACCT
1 CTAAGCTTTCTCTAACCT
23975734 CACTCTAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.38
Consensus pattern (19 bp):
CTAAGCTTTCTCTAACCTA
Found at i:23978127 original size:15 final size:15
Alignment explanation
Indices: 23978107--23978148 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
23978097 TGGCACCCAA
23978107 AGCCGAGAAGAAGCC
1 AGCCGAGAAGAAGCC
*
23978122 AGCCGAGAAAAAGCC
1 AGCCGAGAAGAAGCC
*
23978137 AGCCGAGGAGAA
1 AGCCGAGAAGAA
23978149 AAAAGCCGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.33, T:0.00
Consensus pattern (15 bp):
AGCCGAGAAGAAGCC
Found at i:23979294 original size:38 final size:38
Alignment explanation
Indices: 23979198--23979304 Score: 178
Period size: 39 Copynumber: 2.8 Consensus size: 38
23979188 ATTATCCAAC
*
23979198 CCAACTCAATAAAACTAAAACTAAAGTCTACCCAATTA
1 CCAACCCAATAAAACTAAAACTAAAGTCTACCCAATTA
*
23979236 CCTAACCCAATAAAACTAAAACTAAAATCTACCCAATTA
1 CC-AACCCAATAAAACTAAAACTAAAGTCTACCCAATTA
*
23979275 CCAACCCAATAAAAATAAAACTAAAGTCTA
1 CCAACCCAATAAAACTAAAACTAAAGTCTA
23979305 ATTCTTAAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 28 0.44
39 36 0.56
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.20
Consensus pattern (38 bp):
CCAACCCAATAAAACTAAAACTAAAGTCTACCCAATTA
Found at i:23979456 original size:17 final size:17
Alignment explanation
Indices: 23979436--23979498 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
23979426 TAATTTCAAG
23979436 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
23979453 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
23979471 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
23979490 AATTATGTA
1 AATTATGTA
23979499 GTGATTCAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:23979479 original size:37 final size:37
Alignment explanation
Indices: 23979433--23979507 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
23979423 TGTTAATTTC
*
23979433 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
*
23979470 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
23979507 A
1 A
23979508 TTCGGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
Found at i:23980184 original size:21 final size:22
Alignment explanation
Indices: 23980160--23980203 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
23980150 AAACTACATT
*
23980160 AAAAGAAATGAAGAAG-AGAAG
1 AAAACAAATGAAGAAGCAGAAG
*
23980181 AAAACAAATGGAGAAGCAGAAG
1 AAAACAAATGAAGAAGCAGAAG
23980203 A
1 A
23980204 GAATGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.64, C:0.05, G:0.27, T:0.05
Consensus pattern (22 bp):
AAAACAAATGAAGAAGCAGAAG
Found at i:23983759 original size:3 final size:3
Alignment explanation
Indices: 23983753--23983794 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
23983743 AAATTGTTTT
23983753 TTA TTA TTA CTTA TTA TTA TTA -TA TTTA TTA TTA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
23983795 TCCATGTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.06
3 29 0.81
4 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23983954 original size:17 final size:17
Alignment explanation
Indices: 23983921--23983954 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23983911 ATATATATAC
*
23983921 ATATACATTTACATTTT
1 ATATACATATACATTTT
*
23983938 ATATACATATACGTTTT
1 ATATACATATACATTTT
23983955 GTAACACATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (17 bp):
ATATACATATACATTTT
Found at i:23986230 original size:39 final size:39
Alignment explanation
Indices: 23986121--23986278 Score: 160
Period size: 39 Copynumber: 3.9 Consensus size: 39
23986111 AGTTTCGAGC
* *
23986121 CTAAATTT-TCCTGTTCATATTTTATTTTTAATCTTGTTT
1 CTAAATTTAT-CTGTTCATATTTTATTTTTAATCCTGATT
* *
23986160 CTAAATTATTTGTATATGTTCATAATTTATTTTTAATCCTGATT
1 CT-AA--A-TT-TATCTGTTCATATTTTATTTTTAATCCTGATT
*
23986204 CTACATTTATCTGTTCATATTTTATTTTTAATCCT-ATTT
1 CTAAATTTATCTGTTCATATTTTATTTTTAATCCTGA-TT
* *
23986243 CTAAATTTTTCTGGTT-GTATTTTATTTTTAATCCTG
1 CTAAATTTATCT-GTTCATATTTTATTTTTAATCCTG
23986279 GTTCAAAACT
Statistics
Matches: 100, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
38 1 0.01
39 58 0.58
40 7 0.07
41 1 0.01
42 1 0.01
43 3 0.03
44 28 0.28
45 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.06, T:0.58
Consensus pattern (39 bp):
CTAAATTTATCTGTTCATATTTTATTTTTAATCCTGATT
Found at i:23987387 original size:14 final size:14
Alignment explanation
Indices: 23987370--23987396 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23987360 TCTCTCTCCC
23987370 CATTTTTTTCTCTA
1 CATTTTTTTCTCTA
23987384 CATTTTTTTCTCT
1 CATTTTTTTCTCT
23987397 TTATCAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (14 bp):
CATTTTTTTCTCTA
Found at i:23992432 original size:60 final size:60
Alignment explanation
Indices: 23992339--23992457 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
23992329 CAAATTTCCG
*
23992339 TTGTTCCAAAAGGGAGCAAGACTGATGTTGTCTTAGCTTCTATTTCGAAATCATACCTAA
1 TTGTTCCAAAACGGAGCAAGACTGATGTTGTCTTAGCTTCTATTTCGAAATCATACCTAA
23992399 TTGTTCCAAAACGGAGCAAGACTGATGTTGTCTTAGCTTCTATTTCGAAATCATACCTA
1 TTGTTCCAAAACGGAGCAAGACTGATGTTGTCTTAGCTTCTATTTCGAAATCATACCTA
23992458 TGGAATCATT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (60 bp):
TTGTTCCAAAACGGAGCAAGACTGATGTTGTCTTAGCTTCTATTTCGAAATCATACCTAA
Found at i:23997665 original size:14 final size:14
Alignment explanation
Indices: 23997642--23997681 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23997632 ACAAAAAAGT
* *
23997642 AAAACATTTTCCAG
1 AAAACATTTTACAA
*
23997656 AAATCATTTTACAA
1 AAAACATTTTACAA
23997670 AAAACATTTTAC
1 AAAACATTTTAC
23997682 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAA
Found at i:23997673 original size:35 final size:35
Alignment explanation
Indices: 23997607--23997673 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
23997597 CAAACATCAG
*
23997607 AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
23997642 AAAACATTTTCCAG-AAATCATTTTACAAAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAA
23997674 CATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
Found at i:23998496 original size:15 final size:16
Alignment explanation
Indices: 23998459--23998501 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
23998449 TGTCGGCCTT
* *
23998459 TTTCTCCTCAGCTGGC
1 TTTCTTCTCGGCTGGC
23998475 TTT-TTCTCGGCTGG-
1 TTTCTTCTCGGCTGGC
23998489 TTTCTTCTCGGCT
1 TTTCTTCTCGGCT
23998502 TTGGGTGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.02, C:0.30, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTCTTCTCGGCTGGC
Found at i:24012198 original size:15 final size:15
Alignment explanation
Indices: 24012178--24012206 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24012168 ATTAAACTAT
24012178 TTCTTTTCAGTCAGA
1 TTCTTTTCAGTCAGA
24012193 TTCTTTTCAGTCAG
1 TTCTTTTCAGTCAG
24012207 TTCAACTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (15 bp):
TTCTTTTCAGTCAGA
Found at i:24012355 original size:31 final size:31
Alignment explanation
Indices: 24012320--24012382 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
24012310 ACAAGTCAAC
24012320 CACTCCAACCCTTTATTTAGAACCGATACCA
1 CACTCCAACCCTTTATTTAGAACCGATACCA
24012351 CACTCCAACCCTTTATTTAGAACCGATACCA
1 CACTCCAACCCTTTATTTAGAACCGATACCA
24012382 C
1 C
24012383 CAATTCTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.37, G:0.06, T:0.25
Consensus pattern (31 bp):
CACTCCAACCCTTTATTTAGAACCGATACCA
Found at i:24016549 original size:19 final size:20
Alignment explanation
Indices: 24016527--24016576 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
24016517 GGGTTTGAGA
24016527 GGAAGTAAAAGTT-TTGGGG
1 GGAAGTAAAAGTTATTGGGG
* * *
24016546 GGAAATAAAATTTATTTGGG
1 GGAAGTAAAAGTTATTGGGG
*
24016566 GAAAGTAAAAG
1 GGAAGTAAAAG
24016577 GGTTTGTTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (20 bp):
GGAAGTAAAAGTTATTGGGG
Found at i:24017180 original size:14 final size:14
Alignment explanation
Indices: 24017163--24017201 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
24017153 AATTAATAAA
* *
24017163 TAAAAATAAAATTC
1 TAAAACTAAAAGTC
24017177 TAAAACTAAAAGTC
1 TAAAACTAAAAGTC
24017191 TAAAACTAAAA
1 TAAAACTAAAA
24017202 CTAATACCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAAACTAAAAGTC
Found at i:24020531 original size:24 final size:24
Alignment explanation
Indices: 24020496--24020543 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
24020486 CTATATCACA
* * *
24020496 TTTGTGCTTAAATTGTAAACTTTT
1 TTTGTGCCTAAAATGAAAACTTTT
24020520 TTTGTGCCTAAAATGAAAACTTTT
1 TTTGTGCCTAAAATGAAAACTTTT
24020544 GAAAGTTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (24 bp):
TTTGTGCCTAAAATGAAAACTTTT
Found at i:24027440 original size:13 final size:13
Alignment explanation
Indices: 24027422--24027449 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24027412 GATTGGAATC
24027422 CAGTAAGTTAGGA
1 CAGTAAGTTAGGA
24027435 CAGTAAGTTAGGA
1 CAGTAAGTTAGGA
24027448 CA
1 CA
24027450 CAATCTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (13 bp):
CAGTAAGTTAGGA
Found at i:24027878 original size:20 final size:20
Alignment explanation
Indices: 24027853--24027890 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24027843 AAGCAAATAA
24027853 TATATATATATATATGTATG
1 TATATATATATATATGTATG
*
24027873 TATATATGTATATATGTA
1 TATATATATATATATGTA
24027891 AGAGTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
TATATATATATATATGTATG
Found at i:24027888 original size:8 final size:8
Alignment explanation
Indices: 24027852--24027890 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
24027842 AAAGCAAATA
*
24027852 ATATATAT
1 ATATGTAT
*
24027860 ATATATAT
1 ATATGTAT
*
24027868 GTATGTAT
1 ATATGTAT
24027876 ATATGTAT
1 ATATGTAT
24027884 ATATGTA
1 ATATGTA
24027891 AGAGTTTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (8 bp):
ATATGTAT
Found at i:24028862 original size:11 final size:11
Alignment explanation
Indices: 24028842--24028871 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24028832 AAAATAAAAG
24028842 AAAGAAAAACA
1 AAAGAAAAACA
*
24028853 AAATAAAAACA
1 AAAGAAAAACA
24028864 AAAGAAAA
1 AAAGAAAA
24028872 TCAGAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.83, C:0.07, G:0.07, T:0.03
Consensus pattern (11 bp):
AAAGAAAAACA
Found at i:24029399 original size:17 final size:17
Alignment explanation
Indices: 24029372--24029408 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24029362 GGGCTATTAC
24029372 AATTTATATATT-AAAT
1 AATTTATATATTAAAAT
24029388 AATTTAATATATTAAAAT
1 AATTT-ATATATTAAAAT
24029406 AAT
1 AAT
24029409 GATTATAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 7 0.37
18 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTATATATTAAAAT
Found at i:24040460 original size:24 final size:24
Alignment explanation
Indices: 24040427--24040478 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
24040417 TTTAAATTAA
*
24040427 AAAAATAAAAGAAGTAAAAT-CTT
1 AAAAATAAAAGAAATAAAATACTT
* *
24040450 AAAAATAAAAATAAATCAAATACTT
1 AAAAAT-AAAAGAAATAAAATACTT
24040475 AAAA
1 AAAA
24040479 CTTATTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 11 0.46
25 7 0.29
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (24 bp):
AAAAATAAAAGAAATAAAATACTT
Found at i:24048092 original size:6 final size:6
Alignment explanation
Indices: 24048081--24048105 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24048071 CAATTCTTTT
24048081 TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
24048106 ATACATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:24048360 original size:3 final size:3
Alignment explanation
Indices: 24048352--24048378 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24048342 TTACATGTCC
24048352 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
24048379 TAAATGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24048991 original size:22 final size:22
Alignment explanation
Indices: 24048948--24048992 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24048938 TCGTGGACCA
* *
24048948 AAATCATTGTTTTAATAAAATC
1 AAATCATTGTATTAAAAAAATC
24048970 AAATCATT-TATTAAAAATAATC
1 AAATCATTGTATTAAAAA-AATC
24048992 A
1 A
24048993 TTTTACGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATCATTGTATTAAAAAAATC
Found at i:24054566 original size:3 final size:3
Alignment explanation
Indices: 24054558--24054606 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
24054548 ATATGTAGGT
* *
24054558 ATA ATA ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA ACA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
24054603 ATA A
1 ATA A
24054607 CAAAATTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:24054607 original size:12 final size:12
Alignment explanation
Indices: 24054587--24054618 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24054577 TATATAATAT
24054587 AATAATAACAAA
1 AATAATAACAAA
24054599 AATAATAACAAA
1 AATAATAACAAA
*
24054611 ATTAATAA
1 AATAATAA
24054619 AATAGACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (12 bp):
AATAATAACAAA
Found at i:24054616 original size:27 final size:27
Alignment explanation
Indices: 24054557--24054618 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
24054547 TATATGTAGG
* * * *
24054557 TATAATAATAATAATAATAATATATAA
1 TATAATAATAACAAAAATAATACAAAA
24054584 TATAATAATAACAAAAATAATAACAAAA
1 TATAATAATAACAAAAATAAT-ACAAAA
24054612 T-TAATAA
1 TATAATAA
24054619 AATAGACTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (27 bp):
TATAATAATAACAAAAATAATACAAAA
Found at i:24054870 original size:19 final size:21
Alignment explanation
Indices: 24054832--24054870 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
24054822 CCTTTTTTAA
*
24054832 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
24054853 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
24054871 CAGTAAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:24055093 original size:21 final size:21
Alignment explanation
Indices: 24055067--24055121 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
24055057 TCATATCTTT
24055067 TAAGATTGTATATATCATATC
1 TAAGATTGTATATATCATATC
*
24055088 TAAGATTGCATATATCATATC
1 TAAGATTGTATATATCATATC
24055109 TAAGATTGTATAT
1 TAAGATTGTATAT
24055122 CCTCGAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (21 bp):
TAAGATTGTATATATCATATC
Found at i:24055100 original size:19 final size:20
Alignment explanation
Indices: 24055042--24055116 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 20
24055032 AAATTAAATC
* *
24055042 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
*
24055062 TCTTTTAAGATTGTATATATCATA
1 TC---TAAGATTGCA-ATATCATA
24055086 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
24055107 TCTAAGATTG
1 TCTAAGATTG
24055117 TATATCCTCG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 2 0.04
21 28 0.60
23 8 0.17
24 9 0.19
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:24057491 original size:29 final size:29
Alignment explanation
Indices: 24057436--24057505 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
24057426 ATATTTAAAG
* * * *
24057436 AAATAAATGT-ATTAATTTATTTTTATATT
1 AAATAAATATAATT-ATTTATGTATATAAT
*
24057465 AAATGAATATAATTATTTATGTATATAAT
1 AAATAAATATAATTATTTATGTATATAAT
*
24057494 ATATAAATATAA
1 AAATAAATATAA
24057506 AATGATGTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
29 30 0.91
30 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
AAATAAATATAATTATTTATGTATATAAT
Found at i:24057621 original size:113 final size:113
Alignment explanation
Indices: 24057479--24058058 Score: 1160
Period size: 113 Copynumber: 5.1 Consensus size: 113
24057469 GAATATAATT
24057479 ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
1 ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
24057544 GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
66 GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
24057592 ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
1 ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
24057657 GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
66 GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
24057705 ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
1 ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
24057770 GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
66 GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
24057818 ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
1 ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
24057883 GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
66 GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
24057931 ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
1 ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
24057996 GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
66 GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
24058044 ATTTATGTATATAAT
1 ATTTATGTATATAAT
24058059 GTCACATTAT
Statistics
Matches: 467, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 467 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (113 bp):
ATTTATGTATATAATATATAAATATAAAATGATGTTATATCAAAAATTATATTGATAATTTATAA
GAATAAGAGCAAATCAAAATTTAATATATAAAATTATACAAAATCAAA
Found at i:24062337 original size:47 final size:47
Alignment explanation
Indices: 24062268--24062361 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
24062258 AAGACAACAG
*
24062268 AATGTATGAATTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
1 AATGTATGAAGTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
24062315 AATGTATGAAGTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
1 AATGTATGAAGTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
24062362 TCAAACTTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (47 bp):
AATGTATGAAGTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
Found at i:24067915 original size:21 final size:21
Alignment explanation
Indices: 24067891--24067931 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24067881 TAACGAGACC
*
24067891 GCTGATGTGGCAAGTTAACTA
1 GCTGACGTGGCAAGTTAACTA
*
24067912 GCTGACGTGGCCAGTTAACT
1 GCTGACGTGGCAAGTTAACT
24067932 TACCACATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACTA
Found at i:24068849 original size:38 final size:39
Alignment explanation
Indices: 24068783--24068859 Score: 147
Period size: 38 Copynumber: 2.0 Consensus size: 39
24068773 TAAAAGGTTT
24068783 ACATTGGTGCTGATAGGGTTGTTTATCCTCTTCTTCTTC
1 ACATTGGTGCTGATAGGGTTGTTTATCCTCTTCTTCTTC
24068822 ACATTGGTGCTGAT-GGGTTGTTTATCCTCTTCTTCTTC
1 ACATTGGTGCTGATAGGGTTGTTTATCCTCTTCTTCTTC
24068860 TTCTTCTCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 24 0.63
39 14 0.37
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.47
Consensus pattern (39 bp):
ACATTGGTGCTGATAGGGTTGTTTATCCTCTTCTTCTTC
Found at i:24072104 original size:28 final size:28
Alignment explanation
Indices: 24072050--24072104 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
24072040 AGTCCTAAAA
*
24072050 GTTGGATAACCAATTAAGTATAATATTG
1 GTTGGATAACCAATTAAGAATAATATTG
*
24072078 GTTGGATAACCAAATTAA-AATAGTATT
1 GTTGGATAACC-AATTAAGAATAATATT
24072105 AATCGAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (28 bp):
GTTGGATAACCAATTAAGAATAATATTG
Found at i:24077063 original size:93 final size:94
Alignment explanation
Indices: 24076893--24077079 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 94
24076883 GCATTCATGT
24076893 CAAAAACCAATCAAAATCATACATATTGTCCCTTATACGAGCCCCCGAGGCCCAAATTACGCATC
1 CAAAAACCAATCAAAATCATACATATTGTCCCTTATACGAGCCCCCGAGGCCCAAATTACGCATC
24076958 AGAAACAAATCGGGACTAATTCGAAAATG
66 AGAAACAAATCGGGACTAATTCGAAAATG
24076987 CAAAAACCAA-CAAAATCATACATATTGTCCCTTATACGAGCCCCCGAGGCCCAAATTACGCATC
1 CAAAAACCAATCAAAATCATACATATTGTCCCTTATACGAGCCCCCGAGGCCCAAATTACGCATC
24077051 AGAAACAAATCGGGACTAATTCGAAAATG
66 AGAAACAAATCGGGACTAATTCGAAAATG
24077080 TAGAAATTTT
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 83 0.89
94 10 0.11
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.19
Consensus pattern (94 bp):
CAAAAACCAATCAAAATCATACATATTGTCCCTTATACGAGCCCCCGAGGCCCAAATTACGCATC
AGAAACAAATCGGGACTAATTCGAAAATG
Found at i:24077350 original size:56 final size:57
Alignment explanation
Indices: 24077229--24077352 Score: 171
Period size: 56 Copynumber: 2.2 Consensus size: 57
24077219 GCCATGTCCC
* * * * *
24077229 AGCCCGTGTGAATATATTGACTTAGGACACACAGCCAAGCCACACGCTCGTGTGCTA
1 AGCCCGTGTGAGTATACTAACTTAGGACACACAGCCAAACCACACGCCCGTGTGCTA
* *
24077286 AG-CAGTGTGAGTATACTAACTTAGGTCACACAGCCAAACCACACGCCCGTGTGCT-
1 AGCCCGTGTGAGTATACTAACTTAGGACACACAGCCAAACCACACGCCCGTGTGCTA
24077341 AGCCCGTGTGAG
1 AGCCCGTGTGAG
24077353 CAATTTGAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
55 2 0.03
56 54 0.93
57 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (57 bp):
AGCCCGTGTGAGTATACTAACTTAGGACACACAGCCAAACCACACGCCCGTGTGCTA
Found at i:24078423 original size:25 final size:25
Alignment explanation
Indices: 24078384--24078500 Score: 119
Period size: 25 Copynumber: 4.7 Consensus size: 25
24078374 CATATAAACG
* * *
24078384 GGAAGCTCTTCCGAGCTATATAACA
1 GGAAGCTCATGCGAGCTAAATAACA
* *
24078409 GGAAGCTTATGCGAGCTAAAAAAC-
1 GGAAGCTCATGCGAGCTAAATAACA
* ** *
24078433 GGAAAGCTCATGCGAGTTGTATATCA
1 GG-AAGCTCATGCGAGCTAAATAACA
*
24078459 GGAAGCTCATGCGAGCTAAATATCA
1 GGAAGCTCATGCGAGCTAAATAACA
*
24078484 GGAAGCTCATGAGAGCT
1 GGAAGCTCATGCGAGCT
24078501 GTGGTGTGTC
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
24 2 0.03
25 71 0.95
26 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (25 bp):
GGAAGCTCATGCGAGCTAAATAACA
Found at i:24078461 original size:50 final size:50
Alignment explanation
Indices: 24078379--24078478 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
24078369 ATGAGCATAT
* * *
24078379 AAACGGGAAGCTCTTCCGAGCTATATAACAGGAAGCTTATGCGAGCTAAA
1 AAACGGAAAGCTCATCCGAGCTATATAACAGGAAGCTCATGCGAGCTAAA
* * * *
24078429 AAACGGAAAGCTCATGCGAGTTGTATATCAGGAAGCTCATGCGAGCTAAA
1 AAACGGAAAGCTCATCCGAGCTATATAACAGGAAGCTCATGCGAGCTAAA
24078479 TATCAGGAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (50 bp):
AAACGGAAAGCTCATCCGAGCTATATAACAGGAAGCTCATGCGAGCTAAA
Found at i:24078490 original size:50 final size:49
Alignment explanation
Indices: 24078379--24078500 Score: 136
Period size: 50 Copynumber: 2.4 Consensus size: 49
24078369 ATGAGCATAT
* * *
24078379 AAACGGGAAGCTCTTCCGAGCTATATAACAGGAAGCTTATGCGAGCTAAA
1 AAAC-GGAAGCTCATGCGAGCTATATAACAGGAAGCTCATGCGAGCTAAA
* * *
24078429 AAACGGAAAGCTCATGCGAGTTGTATATCAGGAAGCTCATGCGAGCTAAA
1 AAACGG-AAGCTCATGCGAGCTATATAACAGGAAGCTCATGCGAGCTAAA
* * *
24078479 TATCAGGAAGCTCATGAGAGCT
1 AAAC-GGAAGCTCATGCGAGCT
24078501 GTGGTGTGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.03
50 56 0.93
51 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (49 bp):
AAACGGAAGCTCATGCGAGCTATATAACAGGAAGCTCATGCGAGCTAAA
Found at i:24081589 original size:25 final size:25
Alignment explanation
Indices: 24081514--24081621 Score: 108
Period size: 25 Copynumber: 4.3 Consensus size: 25
24081504 GGTCACCGAT
** * *
24081514 TTCAGCTCTTATGAGCTTCCTGATA
1 TTCAGCTCGCATGAGCTTCCCGTTA
* *
24081539 CTCAGCTCGCATGAGCTTCCTGTTA
1 TTCAGCTCGCATGAGCTTCCCGTTA
* * *
24081564 TTTAGCTCGTATGAGCTTCCCATTA
1 TTCAGCTCGCATGAGCTTCCCGTTA
* * *
24081589 TTCAGCTCACACGAGCTTTCCGTTA
1 TTCAGCTCGCATGAGCTTCCCGTTA
24081614 TTCAGCTC
1 TTCAGCTC
24081622 AGAGGAGCTT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 68 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.36
Consensus pattern (25 bp):
TTCAGCTCGCATGAGCTTCCCGTTA
Found at i:24081594 original size:50 final size:50
Alignment explanation
Indices: 24081512--24081621 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
24081502 AGGGTCACCG
* * * *
24081512 ATTTCAGCTCTTATGAGCTTCCTGATACTCAGCTCGCATGAGC-TTCCTGTT
1 ATTT-AGCTCGTATGAGCTTCCTCATACTCAGCTCACACGAGCTTTCC-GTT
*
24081563 ATTTAGCTCGTATGAGCTTCC-CATTATTCAGCTCACACGAGCTTTCCGTT
1 ATTTAGCTCGTATGAGCTTCCTCA-TACTCAGCTCACACGAGCTTTCCGTT
*
24081613 ATTCAGCTC
1 ATTTAGCTC
24081622 AGAGGAGCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
49 1 0.02
50 42 0.82
51 8 0.16
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.36
Consensus pattern (50 bp):
ATTTAGCTCGTATGAGCTTCCTCATACTCAGCTCACACGAGCTTTCCGTT
Found at i:24081622 original size:25 final size:25
Alignment explanation
Indices: 24081514--24081637 Score: 90
Period size: 25 Copynumber: 5.0 Consensus size: 25
24081504 GGTCACCGAT
** *
24081514 TTCAGCTCTTATGAGC-TTCCTGATA
1 TTCAGCTCACATGAGCTTTCC-GTTA
* *
24081539 CTCAGCTCGCATGAGC-TTCCTGTTA
1 TTCAGCTCACATGAGCTTTCC-GTTA
* ** * *
24081564 TTTAGCTCGTATGAGCTTCCCATTA
1 TTCAGCTCACATGAGCTTTCCGTTA
*
24081589 TTCAGCTCACACGAGCTTTCCGTTA
1 TTCAGCTCACATGAGCTTTCCGTTA
* * *
24081614 TTCAGCTCAGAGGAGCTTACCGTT
1 TTCAGCTCACATGAGCTTTCCGTT
24081638 TATAGCTCGT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
25 77 0.96
26 3 0.04
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (25 bp):
TTCAGCTCACATGAGCTTTCCGTTA
Found at i:24082357 original size:2 final size:2
Alignment explanation
Indices: 24082350--24082566 Score: 416
Period size: 2 Copynumber: 108.5 Consensus size: 2
24082340 TCAAACATAA
*
24082350 AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
24082392 AC GC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
24082434 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
24082476 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
24082518 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
24082560 AC AC AC A
1 AC AC AC A
24082567 TATAAAACCA
Statistics
Matches: 211, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 211 1.00
ACGTcount: A:0.50, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:24083178 original size:40 final size:40
Alignment explanation
Indices: 24083128--24083267 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
24083118 AACACACCAG
* *
24083128 TTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
* * *
24083168 TTTGACACCCAGTGTCTCATCGGCTAAATCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
* ** ** *
24083206 -TTGGCACATAGTGCCTCATCAAATATATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATTCGAAGTAATAA
* *
24083246 ATTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
24083268 ACTCAATGTC
Statistics
Matches: 77, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 18 0.23
38 9 0.12
39 2 0.03
40 32 0.42
41 16 0.21
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
Found at i:24084235 original size:22 final size:21
Alignment explanation
Indices: 24084198--24084255 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
24084188 CTTTCTATTC
24084198 TTTA-TTTATT-TCATTTACTT
1 TTTATTTTATTAT-ATTTACTT
24084218 ATTTATTTTATTATATTTACTT
1 -TTTATTTTATTATATTTACTT
*
24084240 TATTATTATATTATAT
1 T-TTATTTTATTATAT
24084256 ATATTCACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 5 0.15
22 27 0.82
23 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATTTTATTATATTTACTT
Found at i:24084236 original size:14 final size:14
Alignment explanation
Indices: 24084197--24084245 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
24084187 TCTTTCTATT
24084197 CTTTATT-TATTT-
1 CTTTATTATATTTA
*
24084209 CATTTACT-TATTTA
1 C-TTTATTATATTTA
*
24084223 TTTTATTATATTTA
1 CTTTATTATATTTA
24084237 CTTTATTAT
1 CTTTATTAT
24084246 TATATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 1 0.03
13 15 0.50
14 14 0.47
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTATTATATTTA
Found at i:24086228 original size:44 final size:44
Alignment explanation
Indices: 24086179--24087020 Score: 476
Period size: 45 Copynumber: 18.4 Consensus size: 44
24086169 AAAGATGAGA
* *
24086179 TTCAGGGAGATAAGATTAGTAGCTTCAA-CTTGCTCCACTGTAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATC-TGCTCCACTGCAAC
* * *
24086223 TTCAGGGGGATAAGATAAGTAACTTGTAGCTTTAATCTGTTCCACTGCAA-
1 TTCA--GGG---AGATAAG--ATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * * **
24086273 TTTAGGGAAATAAGATTCGTTGTCTTCAATCTGCTCTACTATAAC
1 TTCAGGGAGATAAGATTTGTAG-CTTCAATCTGCTCCACTGCAAC
* * *
24086318 TTCAGGGAGATAAGATTTGCTATGGCACATTTAATCTGAC-CCATTGTAAC
1 TTCAGGGAGATAAGATTTG-TA--G--C-TTCAATCTG-CTCCACTGCAAC
* * * * ** *
24086368 TTCAGAGG-TATAGGA-TT-TAGTTTCAATCTACTCTGCTGGAAC
1 TTCAG-GGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* *
24086410 TTCAGGGAGATACA-ATTTGTAGCTTTAATCTGCTCCACTGTAAC
1 TTCAGGGAGATA-AGATTTGTAGCTTCAATCTGCTCCACTGCAAC
** ** *
24086454 TTCAGGGTTATAAGATTTGCTATTTTCAATCTGCTCCACCGCAAC
1 TTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAAC
* * * **
24086499 TTTAGGGAAATAAGATTTTCTATTTTCAATCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGA-TTTGTAGCTTCAATCTGCTCCACTGCAAC
* * ** *
24086544 TTCAGGGAGATAAAGTTTGTAACTTGTAGCTTTAATCTTTTCCACGGCAAC
1 TTCAGGGAGAT-AA----G--ATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * ** *
24086595 TTCAGGGAAATAAGATTCGCTATATTCAATCTGCTCCACTACAAC
1 TTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAAC
* *
24086640 TTCAGGGAGATGAGATTTGTAGCTTCAATCTGCTCCATTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * *
24086684 TTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTACAAC
1 TTCAGGGAGATAAGA----T---TTGTAGCTTCAATCTGCTCCACTGCAAC
** * * * *
24086735 TTTTGGGAAATAAGATTTGCTATCTAT-AATCTGTTCCACTGCAAG
1 TTCAGGGAGATAAGATTTG-TAGCT-TCAATCTGCTCCACTGCAAC
* ** * * *
24086780 TTCATGGAGATAAGATTCACTATCTTCAATCTGCTTCACTTCAAC
1 TTCAGGGAGATAAGATT-TGTAGCTTCAATCTGCTCCACTGCAAC
* * ** * *
24086825 TTTAGAGAGATAAGATTTGCTATATTCAATCTGATCCACTGTAAC
1 TTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAAC
* * ** * *
24086870 TTCAGGGAAATAAGATTTTCTATTTTCAATCTGCTCTACTGTAAC
1 TTCAGGGAGATAAGA-TTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * * * * *
24086915 TTTAAGGTGATAAGATTTTTTTGTTTTAATCTGCTCCTCTGCAAC
1 TTCAGGGAGATAAGA-TTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
24086960 TTTAGGGAGATAAGATTTATGGCTTTAATCTGCTCCACTCCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
24087004 TTCAGGGAGATAAGATT
1 TTCAGGGAGATAAGATT
24087021 CACCACGATG
Statistics
Matches: 613, Mismatches: 139, Indels: 92
0.73 0.16 0.11
Matches are distributed among these distances:
41 3 0.00
42 22 0.04
43 8 0.01
44 135 0.22
45 289 0.47
46 14 0.02
47 3 0.00
48 5 0.01
49 10 0.02
50 31 0.05
51 91 0.15
52 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (44 bp):
TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
Found at i:24086727 original size:140 final size:140
Alignment explanation
Indices: 24086426--24087020 Score: 567
Period size: 140 Copynumber: 4.3 Consensus size: 140
24086416 GAGATACAAT
* **
24086426 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGTTATAAGATTTGCTATTTTCAATCTGCTCC
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTGCTCC
* * * ** * *
24086491 ACCGCAACTTTAGGGAAATAAGATTTTCTATTTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
66 ACTGCAACTTCAGGGAGATAAGATTTTCTAGCTTCAATCTGCTCCATTGCAACTTCAAGGAGATA
24086556 A-AGTTTGTAAC
131 AGA-TTTGT-AC
** * * *
24086567 TTGTAGCTTTAATCTTTTCCACGGCAACTTCAGGGAAATAAGATTCGCTATATTCAATCTGCTCC
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTGCTCC
* * *
24086632 ACTACAACTTCAGGGAGATGAGA-TTTGTAGCTTCAATCTGCTCCATTGCAACTTCAAGGAGATA
66 ACTGCAACTTCAGGGAGATAAGATTTTCTAGCTTCAATCTGCTCCATTGCAACTTCAAGGAGATA
24086696 AGATTTGTAAC
131 AGATTTGT-AC
* * ** * *
24086707 TTGTAGCTTTAATCTGTTCCACTACAACTTTTGGGAAATAAGATTTGCTATCTAT-AATCTGTTC
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT-TTTCAATCTGCTC
* * ** * * *
24086771 CACTGCAAGTTCATGGAGATAAGATTCACTATCTTCAATCTGCTTCACTT-CAACTT-TAGAGAG
65 CACTGCAACTTCAGGGAGATAAGATTTTCTAGCTTCAATCTGCTCCA-TTGCAACTTCAAG-GAG
24086834 ATAAGATTTG--C
128 ATAAGATTTGTAC
* * * * * *
24086845 -TATA--TTCAATCTGATCCACTGTAACTTCAGGGAAATAAGATTTTCTATTTTCAATCTGCTCT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTGCTCC
* * * * * * * * * *
24086907 ACTGTAACTTTAAGGTGATAAGATTTTTTTGTTTTAATCTGCTCC-TCTGCAACTTTAGGGAGAT
66 ACTGCAACTTCAGGGAGATAAGATTTTCTAGCTTCAATCTGCTCCAT-TGCAACTTCAAGGAGAT
24086971 AAGA-TT-TA-
130 AAGATTTGTAC
* *
24086979 -TG--GCTTTAATCTGCTCCACTCCAACTTCAGGGAGATAAGATT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT
24087021 CACCACGATG
Statistics
Matches: 372, Mismatches: 69, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
133 1 0.00
134 39 0.10
135 92 0.25
136 1 0.00
137 3 0.01
138 1 0.00
140 120 0.32
141 113 0.30
142 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (140 bp):
TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTGCTCC
ACTGCAACTTCAGGGAGATAAGATTTTCTAGCTTCAATCTGCTCCATTGCAACTTCAAGGAGATA
AGATTTGTAC
Found at i:24086748 original size:51 final size:51
Alignment explanation
Indices: 24086656--24086753 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
24086646 GAGATGAGAT
* * *
24086656 TTGTAGCTTCAATCTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTAAC
1 TTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAAATAAGATTTGTAAC
* * ***
24086707 TTGTAGCTTTAATCTGTTCCACTACAACTTTTGGGAAATAAGATTTG
1 TTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAAATAAGATTTG
24086754 CTATCTATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (51 bp):
TTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAAATAAGATTTGTAAC
Found at i:24095850 original size:15 final size:16
Alignment explanation
Indices: 24095830--24095863 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24095820 TTATTATTTA
24095830 TTTTTGGTT-TTTATT
1 TTTTTGGTTATTTATT
*
24095845 TTTTTGTTTATTTATT
1 TTTTTGGTTATTTATT
24095861 TTT
1 TTT
24095864 GATTTTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (16 bp):
TTTTTGGTTATTTATT
Found at i:24095864 original size:14 final size:14
Alignment explanation
Indices: 24095823--24095864 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
24095813 TTGGGTTTTA
24095823 TTATTTATTTTTGGT
1 TTATTTATTTTT-GT
*
24095838 TT-TTATTTTTTTGT
1 TTATT-TATTTTTGT
24095852 TTATTTATTTTTG
1 TTATTTATTTTTG
24095865 ATTTTGGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.79
Consensus pattern (14 bp):
TTATTTATTTTTGT
Found at i:24115889 original size:28 final size:28
Alignment explanation
Indices: 24115855--24115928 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
24115845 TTTTACTCTG
*
24115855 AACCTTGAATATTGAACCTTAAACTCCA
1 AACCTTGAACATTGAACCTTAAACTCCA
*
24115883 ACCCTTGAACATTGAACCTTAAACTCCA
1 AACCTTGAACATTGAACCTTAAACTCCA
*
24115911 AACCTTAAACATTGAACC
1 AACCTTGAACATTGAACC
24115929 CTGAACCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (28 bp):
AACCTTGAACATTGAACCTTAAACTCCA
Found at i:24115928 original size:14 final size:14
Alignment explanation
Indices: 24115853--24115928 Score: 57
Period size: 14 Copynumber: 5.4 Consensus size: 14
24115843 TTTTTTACTC
* *
24115853 TGAACCTTGAATAT
1 TGAACCTTAAACAT
24115867 TGAACCTTAAAC-T
1 TGAACCTTAAACAT
** *
24115880 CCAACCCTTGAACAT
1 TGAA-CCTTAAACAT
24115895 TGAACCTTAAAC-T
1 TGAACCTTAAACAT
**
24115908 CCAAACCTTAAACAT
1 -TGAACCTTAAACAT
24115923 TGAACC
1 TGAACC
24115929 CTGAACCTTG
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
13 4 0.09
14 38 0.83
15 4 0.09
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (14 bp):
TGAACCTTAAACAT
Found at i:24118139 original size:29 final size:30
Alignment explanation
Indices: 24118106--24118180 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 30
24118096 ATTATTCAAA
24118106 AAATTAAAAAAATAATTTA-AATTAAATTT
1 AAATTAAAAAAATAATTTATAATTAAATTT
* * * **
24118135 AAATT-TATATATTTTTTATAATTAAATTT
1 AAATTAAAAAAATAATTTATAATTAAATTT
24118164 AAA-TAAAAATAATAATT
1 AAATTAAAAA-AATAATT
24118181 AAACAATAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
28 9 0.27
29 20 0.61
30 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAATTAAAAAAATAATTTATAATTAAATTT
Found at i:24118418 original size:46 final size:44
Alignment explanation
Indices: 24118366--24118453 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
24118356 GGTTCGCTGT
24118366 AATGGAATAAAACTGTAATCAATAATTC-AAGTGTTTGGTTGAATGG
1 AATGGAATAAAACTGTAA-CAAT-ATTCTAA-TGTTTGGTTGAATGG
* *
24118412 AATGGAATAGAACTGTAACAATATTCTTATGTTTGGTTGAAT
1 AATGGAATAAAACTGTAACAATATTCTAATGTTTGGTTGAAT
24118454 AGATTGATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 17 0.44
45 5 0.13
46 17 0.44
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (44 bp):
AATGGAATAAAACTGTAACAATATTCTAATGTTTGGTTGAATGG
Found at i:24121924 original size:22 final size:21
Alignment explanation
Indices: 24121889--24121955 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 21
24121879 AAAGGGTATC
* *
24121889 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
24121910 TACGAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
24121933 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
24121952 TACA
1 TACA
24121956 TATCCCTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 11 0.28
21 3 0.08
22 15 0.38
23 10 0.26
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:24122737 original size:132 final size:132
Alignment explanation
Indices: 24122500--24123056 Score: 907
Period size: 132 Copynumber: 4.2 Consensus size: 132
24122490 NNNNNNNNNN
* **
24122500 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCT
1 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATATGAAATCTTCAATCT
* * *
24122565 ATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAG
66 ATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAG
24122630 GT
131 GT
* * * *
24122632 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAATTT
1 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATATGAAATCTTCAATCT
* **** * *
24122697 ATTCCACTGTTTTTTAGGGAAGTAGAATTAATGGCTTCAATGTACTCCACTGTAACCACAGGGAG
66 ATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAG
24122762 GT
131 GT
24122764 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATATGAAATCTTCAATCT
1 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATATGAAATCTTCAATCT
*
24122829 ATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACTGGGAG
66 ATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAG
24122894 GT
131 GT
24122896 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATATGAAATCTTCAATCT
1 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATATGAAATCTTCAATCT
* * *
24122961 ATTCCACTATTGCCCAAGGAAGTAGAATTACTGGCTTCAATATACTCCACTATAACCACAGGGAA
66 ATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAG
24123026 GT
131 GT
* *
24123028 AAAATCTGCCATCTTCGATCTGCTTCACT
1 AAAATCCGCCATCTTCGATCTGCTCCACT
24123057 GTCAATGCAG
Statistics
Matches: 400, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 400 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (132 bp):
AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATATGAAATCTTCAATCT
ATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAG
GT
Found at i:24122811 original size:44 final size:44
Alignment explanation
Indices: 24122755--24122969 Score: 114
Period size: 44 Copynumber: 4.9 Consensus size: 44
24122745 ACTGTAACCA
* * *
24122755 CAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT
1 CAGGGAGATAAAATCCGCCATCTTCAATCTACTCCACTACTGCT
* ** ** * * *
24122799 TAGGGAGATAAAATATGAAATCTTCAATCTATTCCACTATTGCC
1 CAGGGAGATAAAATCCGCCATCTTCAATCTACTCCACTACTGCT
* ** *** * *
24122843 CAGGGA-AGTAGAAT-TACTGGCTTCAATGTACTCCACTA-TAAC-
1 CAGGGAGA-TAAAATCCGCCATCTTCAATCTACTCCACTACT-GCT
* * *
24122885 CACTGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT
1 CA--GGGAGATAAAATCCGCCATCTTCAATCTACTCCACTACTGCT
* ** ** *
24122931 TAGGGAGATAAAATATGAAATCTTCAATCTATTCCACTA
1 CAGGGAGATAAAATCCGCCATCTTCAATCTACTCCACTA
24122970 TTGCCCAAGG
Statistics
Matches: 122, Mismatches: 41, Indels: 16
0.68 0.23 0.09
Matches are distributed among these distances:
42 3 0.02
43 19 0.16
44 81 0.66
45 17 0.14
46 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (44 bp):
CAGGGAGATAAAATCCGCCATCTTCAATCTACTCCACTACTGCT
Found at i:24123157 original size:127 final size:127
Alignment explanation
Indices: 24122979--24123232 Score: 402
Period size: 127 Copynumber: 2.0 Consensus size: 127
24122969 ATTGCCCAAG
**
24122979 GAAGTAGAATTACTGGCTTCAATATACTCCACTATAACCACAGGGAAGTAAAATCTGCCATCTTC
1 GAAGTAGAATTACTGGCTTCAATATACTCCACTATAACCACAGAAAAGTAAAATCTGCCATCTTC
* * * *
24123044 GATCTGCTTCACTGTCAATGCAGAAAGGCAAGATCTGCTATCTTTAACTTGCTCCACTACAA
66 GATATACTTCACTGTCAATGCAGAAAGGCAAGATCTGCTATCCTTAACCTGCTCCACTACAA
* *
24123106 GAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACA-AAAAGGTAAAATCTGCCATCTT
1 GAAGTAGAATTACTGGCTTCAATATACTCCACTATAACCACAGAAAA-GTAAAATCTGCCATCTT
* *
24123170 CGATATACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCCTTAACCTGCTCCACTACAA
65 CGATATACTTCACTGTCAATGCAGAAAGGCAAGATCTGCTATCCTTAACCTGCTCCACTACAA
24123233 CCGAGGAAGG
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
126 2 0.02
127 114 0.98
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (127 bp):
GAAGTAGAATTACTGGCTTCAATATACTCCACTATAACCACAGAAAAGTAAAATCTGCCATCTTC
GATATACTTCACTGTCAATGCAGAAAGGCAAGATCTGCTATCCTTAACCTGCTCCACTACAA
Found at i:24133125 original size:92 final size:92
Alignment explanation
Indices: 24132914--24133141 Score: 248
Period size: 92 Copynumber: 2.5 Consensus size: 92
24132904 TGCTTGAGAC
* * * * * * * *
24132914 CCATCCAAACACAATCAGAAAGCACATAATTACTAAGCCCAAAGGTATCATATCACGACCCTCCA
1 CCATCCAAACAAAACCA-AAAGCACATAAGTGCTAAGCTCGAAGGCATCACATCACGACCCTCCA
* *
24132979 AACAGAACCATATTGCACATAAGTGCAT
65 AACACAACCATATTACACATAAGTGCAT
* * *
24133007 CCATCCAAACACAATCGAAGAA-CACATAAGTGCTAAGCTCGAAGGCATCACATCAC-ATCCTTC
1 CCATCCAAACA-AAACCAA-AAGCACATAAGTGCTAAGCTCGAAGGCATCACATCACGA-CCCTC
*
24133070 C-AACACAACCATATTATACATGAA-TGCAT
63 CAAACACAACCATATTACACAT-AAGTGCAT
24133099 CCATCCAAACAAAACCATAAAGCACATAAGTGCTAAGCTCGAA
1 CCATCCAAACAAAACCA-AAAGCACATAAGTGCTAAGCTCGAA
24133142 AGCTAAAAAG
Statistics
Matches: 113, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
91 6 0.05
92 56 0.50
93 47 0.42
94 4 0.04
ACGTcount: A:0.42, C:0.29, G:0.11, T:0.18
Consensus pattern (92 bp):
CCATCCAAACAAAACCAAAAGCACATAAGTGCTAAGCTCGAAGGCATCACATCACGACCCTCCAA
ACACAACCATATTACACATAAGTGCAT
Found at i:24134184 original size:16 final size:16
Alignment explanation
Indices: 24134163--24134193 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24134153 ATCAAAATCT
24134163 CATAGATACTCGGGGC
1 CATAGATACTCGGGGC
24134179 CATAGATACTCGGGG
1 CATAGATACTCGGGG
24134194 AAGAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (16 bp):
CATAGATACTCGGGGC
Found at i:24134572 original size:33 final size:33
Alignment explanation
Indices: 24134535--24134624 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
24134525 TACTCTCTAT
* *
24134535 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATAAGCA
* *
24134568 TTGGTGTGATGGTCGGTTTAGCTCTTATAAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATAAGCA
* *
24134601 TTGGTGTGATGGATGGATTGGCTC
1 TTGGTGTGATGGTTGGATTAGCTC
24134625 AAGTGAGCGT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.16, C:0.11, G:0.34, T:0.39
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATAAGCA
Found at i:24136095 original size:20 final size:21
Alignment explanation
Indices: 24136070--24136117 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
24136060 AATTTTTTAA
24136070 CTTAAACCCTGAACTC-AAAT
1 CTTAAACCCTGAACTCTAAAT
* *
24136090 CTTAAAGCTTGAACTCTAAAT
1 CTTAAACCCTGAACTCTAAAT
24136111 CTTAAAC
1 CTTAAAC
24136118 TTGGCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (21 bp):
CTTAAACCCTGAACTCTAAAT
Found at i:24136166 original size:21 final size:21
Alignment explanation
Indices: 24136142--24136186 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
24136132 TAGGGTTAAA
*
24136142 GTTCAAGGTTCTAGGTTTGGG
1 GTTCAAGGTTCGAGGTTTGGG
* *
24136163 GTTCATGGTTCGGGGTTTGGG
1 GTTCAAGGTTCGAGGTTTGGG
24136184 GTT
1 GTT
24136187 TGGTGTTCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.42, T:0.40
Consensus pattern (21 bp):
GTTCAAGGTTCGAGGTTTGGG
Found at i:24136186 original size:14 final size:14
Alignment explanation
Indices: 24136155--24136215 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
24136145 CAAGGTTCTA
*
24136155 GGTTTGGGGTTCAT
1 GGTTTGGGGTTCAG
* **
24136169 GGTTCGGGGTTTGG
1 GGTTTGGGGTTCAG
* *
24136183 GGTTTGGTGTTCGG
1 GGTTTGGGGTTCAG
**
24136197 GGTTCAGGGTTCAG
1 GGTTTGGGGTTCAG
24136211 GGTTT
1 GGTTT
24136216 AGCTTACAAA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.05, C:0.08, G:0.48, T:0.39
Consensus pattern (14 bp):
GGTTTGGGGTTCAG
Found at i:24149093 original size:20 final size:20
Alignment explanation
Indices: 24149052--24149096 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24149042 CATTCACCAT
*
24149052 CTTTTCCATCTATCTTCTTC
1 CTTTTCCATCTATCTCCTTC
*
24149072 CTTTTCCA-CTTTCTCCTCTC
1 CTTTTCCATCTATCTCCT-TC
24149092 CTTTT
1 CTTTT
24149097 ATACTTATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.07, C:0.38, G:0.00, T:0.56
Consensus pattern (20 bp):
CTTTTCCATCTATCTCCTTC
Found at i:24151371 original size:248 final size:249
Alignment explanation
Indices: 24151065--24151564 Score: 984
Period size: 248 Copynumber: 2.0 Consensus size: 249
24151055 ATATTATTTA
24151065 ATAAAAATAGTTTAATTTAAATTAAATTGAGATTGATTATATAGGTACTTACCTTATCGCTTCAA
1 ATAAAAATAGTTTAATTTAAATTAAATTGAGATTGATTATATAGGTACTTACCTTATCGCTTCAA
24151130 GTATTTCAAACTTGAAAATAAAATTTCAAAACATAATTAAAGAAAATAATTATATTTAAAATAAA
66 GTATTTCAAACTTGAAAATAAAATTTCAAAACATAATTAAAGAAAATAATTATATTTAAAATAAA
*
24151195 TTACAACTATATATATTTTTAACAAAATTCAACGGCTTTTAAAAAAAGTTATGTATTTTTTTGGG
131 TTACAACTATATATATTTTTAACAAAATTCAACGGCTTGTAAAAAAAGTTATGTATTTTTTTGGG
24151260 ACGGCTTTAATTAAGAGTTTTGGTTGACTTTATGGATTTTTTAAAAGGGTTAAT
196 ACGGCTTTAATTAAGAGTTTTGGTTGACTTTATGGATTTTTTAAAAGGGTTAAT
24151314 ATAAAAATAGTTT-ATTTAAATTAAATTGAGATTGATTATATAGGTACTTACCTTATCGCTTCAA
1 ATAAAAATAGTTTAATTTAAATTAAATTGAGATTGATTATATAGGTACTTACCTTATCGCTTCAA
24151378 GTATTTCAAACTTGAAAATAAAATTTCAAAACATAATTAAAGAAAATAATTATATTTAAAATAAA
66 GTATTTCAAACTTGAAAATAAAATTTCAAAACATAATTAAAGAAAATAATTATATTTAAAATAAA
24151443 TTACAACTATATATATTTTTAACAAAATTCAACGGCTTGTAAAAAAAGTTATGTATTTTTTTGGG
131 TTACAACTATATATATTTTTAACAAAATTCAACGGCTTGTAAAAAAAGTTATGTATTTTTTTGGG
24151508 ACGGCTTTAATTAAGAGTTTTGGTTGACTTTATGGATTTTTTAAAAGGGTTAAT
196 ACGGCTTTAATTAAGAGTTTTGGTTGACTTTATGGATTTTTTAAAAGGGTTAAT
24151562 ATA
1 ATA
24151565 CGTGGGTATT
Statistics
Matches: 250, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
248 237 0.95
249 13 0.05
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (249 bp):
ATAAAAATAGTTTAATTTAAATTAAATTGAGATTGATTATATAGGTACTTACCTTATCGCTTCAA
GTATTTCAAACTTGAAAATAAAATTTCAAAACATAATTAAAGAAAATAATTATATTTAAAATAAA
TTACAACTATATATATTTTTAACAAAATTCAACGGCTTGTAAAAAAAGTTATGTATTTTTTTGGG
ACGGCTTTAATTAAGAGTTTTGGTTGACTTTATGGATTTTTTAAAAGGGTTAAT
Found at i:24159746 original size:4 final size:4
Alignment explanation
Indices: 24159737--24159762 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24159727 CTGCCGGGAC
24159737 CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CA
24159763 GTTGTTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:24162866 original size:6 final size:6
Alignment explanation
Indices: 24162855--24162886 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
24162845 CATCCGAAGA
24162855 TCCATT TCCATT TCCATT TCCATT TCCATT TC
1 TCCATT TCCATT TCCATT TCCATT TCCATT TC
24162887 TTTTTCCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCATT
Found at i:24171416 original size:30 final size:30
Alignment explanation
Indices: 24171355--24171428 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 30
24171345 AATTGTAGAA
*
24171355 TAAATTGT--AAATTTTGAGTAATATGGAC
1 TAAATTGTAAAAATTCTGAGTAATATGGAC
24171383 TAAATTGTGAAAAATTCTGAGTAATAT-GAC
1 TAAATTGT-AAAAATTCTGAGTAATATGGAC
24171413 TAAATTGTAAAAATTC
1 TAAATTGTAAAAATTC
24171429 AAAATTTAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
28 8 0.19
29 8 0.19
30 11 0.26
31 15 0.36
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.36
Consensus pattern (30 bp):
TAAATTGTAAAAATTCTGAGTAATATGGAC
Found at i:24171905 original size:5 final size:5
Alignment explanation
Indices: 24171895--24171921 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
24171885 TATTGATTAT
24171895 TTGAA TTGAA TTGAA TTGAA TTGAA TT
1 TTGAA TTGAA TTGAA TTGAA TTGAA TT
24171922 TCAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (5 bp):
TTGAA
Found at i:24172095 original size:17 final size:18
Alignment explanation
Indices: 24172073--24172107 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24172063 ATCTAAGAAG
24172073 TTAG-TTATTATAAAATA
1 TTAGTTTATTATAAAATA
24172090 TTAGTTTATTATAAAATA
1 TTAGTTTATTATAAAATA
24172108 AATTCCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
TTAGTTTATTATAAAATA
Found at i:24176229 original size:28 final size:29
Alignment explanation
Indices: 24176174--24176230 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
24176164 CACTTTCAAA
* *
24176174 TTTGACAGGGACTAAATTGCTCCAATTTT
1 TTTGACAGGGACCAAATTGCTCAAATTTT
* *
24176203 TTTGAGAGGGACCAATTTGCT-AAATTTT
1 TTTGACAGGGACCAAATTGCTCAAATTTT
24176231 AAAATTAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (29 bp):
TTTGACAGGGACCAAATTGCTCAAATTTT
Found at i:24180748 original size:61 final size:59
Alignment explanation
Indices: 24180671--24180783 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 59
24180661 CATATGCTCA
* *
24180671 TAATTATATTTATTAATTT-GTAAAAAGAATGAATCATATAATCAATTTCTAATTTAGTGTT
1 TAATTATATTTATTAATTTAATAAAAA-AATCAA-CAT-TAATCAATTTCTAATTTAGTGTT
*
24180732 TAATT-TATTTATTTAATTTAATAAAAAAATCAACATTAATCAATTTTTAATT
1 TAATTATATTTA-TTAATTTAATAAAAAAATCAACATTAATCAATTTCTAATT
24180784 ATACAATGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
59 15 0.32
60 9 0.19
61 17 0.36
62 6 0.13
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (59 bp):
TAATTATATTTATTAATTTAATAAAAAAATCAACATTAATCAATTTCTAATTTAGTGTT
Found at i:24198525 original size:35 final size:35
Alignment explanation
Indices: 24198477--24198547 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
24198467 TTTCTAAGTT
*
24198477 TGCAAAGGGCAATGGTGTATTTTTTAGTTTTATCC
1 TGCAAAGGACAATGGTGTATTTTTTAGTTTTATCC
*
24198512 TGCAAAGGACAATGGTTTATTTTTTAGTTTTATCC
1 TGCAAAGGACAATGGTGTATTTTTTAGTTTTATCC
24198547 T
1 T
24198548 AATTGTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (35 bp):
TGCAAAGGACAATGGTGTATTTTTTAGTTTTATCC
Found at i:24201178 original size:21 final size:21
Alignment explanation
Indices: 24201152--24201194 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
24201142 ATTGACTAAG
24201152 ATAGGTTTAAAGCTTAGTGGT
1 ATAGGTTTAAAGCTTAGTGGT
24201173 ATAGGTTTAAAGCTTAGTGGT
1 ATAGGTTTAAAGCTTAGTGGT
24201194 A
1 A
24201195 CACCAGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.37
Consensus pattern (21 bp):
ATAGGTTTAAAGCTTAGTGGT
Found at i:24210526 original size:24 final size:24
Alignment explanation
Indices: 24210494--24210541 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
24210484 AGGTAGGGGA
*
24210494 GAAACTACTTAAAGATATGAACCT
1 GAAACTACTTAAAGAGATGAACCT
24210518 GAAACTACTTAAAGAGATGAACCT
1 GAAACTACTTAAAGAGATGAACCT
24210542 TTCAACGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.23
Consensus pattern (24 bp):
GAAACTACTTAAAGAGATGAACCT
Found at i:24215489 original size:19 final size:19
Alignment explanation
Indices: 24215462--24215531 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
24215452 TCAACTCATT
*
24215462 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
24215481 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
24215499 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
24215518 TTTTAATTTAATAA
1 TTTTAATTTAATAA
24215532 AATATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:24215512 original size:37 final size:37
Alignment explanation
Indices: 24215467--24215537 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
24215457 TCATTTTTTT
*
24215467 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
24215504 ATTTAATAACTCTATTTTAATTTAATAAAATATT
1 ATTTAATAACTCTATTTTAATTTAATAAAATATT
24215538 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
Found at i:24227050 original size:27 final size:27
Alignment explanation
Indices: 24227020--24227087 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
24227010 AGGAGAGCAA
*
24227020 CCCATAGGCGGCACCAAAT-GTGCCATT
1 CCCATGGGCGGCACC-AATGGTGCCATT
*
24227047 CCCATGGGCGGCACCAATGGTGCCTTT
1 CCCATGGGCGGCACCAATGGTGCCATT
*
24227074 CCCATGGGTGGCAC
1 CCCATGGGCGGCAC
24227088 TGCCCATGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.08
27 34 0.92
ACGTcount: A:0.19, C:0.34, G:0.28, T:0.19
Consensus pattern (27 bp):
CCCATGGGCGGCACCAATGGTGCCATT
Found at i:24227178 original size:5 final size:5
Alignment explanation
Indices: 24227150--24227222 Score: 55
Period size: 5 Copynumber: 15.4 Consensus size: 5
24227140 GAAAGAAGAA
* * * *
24227150 GAAA- GAAA- GAAAG AAAAA GAAAG GAAAG GAAAG GAGAG GGAA- GAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG
* * *
24227197 AAAAA G-AAG GAAAG AAAAG GAAAG GA
1 GAAAG GAAAG GAAAG GAAAG GAAAG GA
24227223 GAAGAAGAAA
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
4 14 0.27
5 38 0.73
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:24227194 original size:38 final size:37
Alignment explanation
Indices: 24227152--24227312 Score: 129
Period size: 38 Copynumber: 4.3 Consensus size: 37
24227142 AAGAAGAAGA
24227152 AAGAAAGAAAGAA-AAAGAAAGGAAAGGAAAGGAGAGGG
1 AAGAAA-AAA-AAGAAAGAAAGGAAAGGAAAGGAGAGGG
* * *
24227190 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGA-AG
1 AAGAAA-AAAAAGAAAGAAAGGAAAGGAAAGGAGAGGG
* * * *
24227227 AAGAAAAAAGAAAGAAAAAAAGGAAAGAAAAGAAAAGGAG
1 AAG-AAAAA-AAAGAAAGAAAGGAAAGGAAAGGAGAGG-G
*
24227267 AAGAGAAAAAAA-AAAGAAA-G-AAGGAGAA-GAG-GGA
1 AAGA-AAAAAAAGAAAGAAAGGAAAGGA-AAGGAGAGGG
24227301 AAGAAAAAAAAG
1 AAGAAAAAAAAG
24227313 GTAATTTTTT
Statistics
Matches: 100, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
33 7 0.07
34 4 0.04
35 2 0.02
36 5 0.05
37 11 0.11
38 59 0.59
39 4 0.04
40 8 0.08
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (37 bp):
AAGAAAAAAAAGAAAGAAAGGAAAGGAAAGGAGAGGG
Found at i:24227199 original size:34 final size:35
Alignment explanation
Indices: 24227139--24227261 Score: 138
Period size: 33 Copynumber: 3.7 Consensus size: 35
24227129 AGAAGGAGAG
24227139 GGAAAGAAGAA-GAAA-GA-AAGAAAGAAAAAGAAA
1 GGAAAGAA-AAGGAAAGGAGAAGAAAGAAAAAGAAA
* *
24227172 GGAAAGGAAAGGAGAGG-GAAGAAAGAAAAAG-AA
1 GGAAAGAAAAGGAAAGGAGAAGAAAGAAAAAGAAA
24227205 GGAAAGAAAAGGAAAGGAGAAG-AAGAAAAAAGAAA
1 GGAAAGAAAAGGAAAGGAGAAGAAAG-AAAAAGAAA
*
24227240 -GAAA-AAAAGGAAA-GAAAAGAAA
1 GGAAAGAAAAGGAAAGGAGAAGAAA
24227262 AGGAGAAGAG
Statistics
Matches: 78, Mismatches: 5, Indels: 14
0.80 0.05 0.14
Matches are distributed among these distances:
32 7 0.09
33 41 0.53
34 28 0.36
35 2 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (35 bp):
GGAAAGAAAAGGAAAGGAGAAGAAAGAAAAAGAAA
Found at i:24227211 original size:48 final size:47
Alignment explanation
Indices: 24227129--24227270 Score: 154
Period size: 48 Copynumber: 3.1 Consensus size: 47
24227119 TGGGGGGAAG
*
24227129 AGAAGGAGAGGGAA-AGAAGAAGAAAGAAAGAAAGAAAAAGAAAGGA-A
1 AGAAGGAGAGGGAAGA-AAGAA-AAAGAAGGAAAGAAAAAGAAAGGAGA
*
24227176 AGGAAAGGAGAGGGAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGA
1 A-G-AAGGAGAGGGAAGAAAGAAAAAGAAGGAAAGAAAAAGAAAGGAGA
**
24227225 AGAA-GA-A-AAAAGAAAGAAAAA-AAGGAAAG-AAAAGAAAAGGAGA
1 AGAAGGAGAGGGAAGAAAGAAAAAGAAGGAAAGAAAAAG-AAAGGAGA
24227268 AGA
1 AGA
24227271 GAAAAAAAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
42 4 0.05
43 19 0.22
44 12 0.14
45 1 0.01
46 2 0.02
47 3 0.04
48 24 0.28
49 19 0.22
50 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (47 bp):
AGAAGGAGAGGGAAGAAAGAAAAAGAAGGAAAGAAAAAGAAAGGAGA
Found at i:24227250 original size:43 final size:42
Alignment explanation
Indices: 24227146--24227285 Score: 164
Period size: 38 Copynumber: 3.4 Consensus size: 42
24227136 GAGGGAAAGA
* * *
24227146 AGAAGAAAGAAAGAAAGAAAAAGAAAGGAAAGGAAAGGAG-AG
1 AGAAAAAAGAAAGAAA-AAAAGGAAAGAAAAGGAAAGGAGAAG
*
24227188 -G---GAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG
1 AGAAAAAAGAAAGAAAAA-AAGGAAAGAAAAGGAAAGGAGAAG
*
24227227 AAGAAAAAAGAAAGAAAAAAAGGAAAGAAAAGAAAAGGAGAAG
1 -AGAAAAAAGAAAGAAAAAAAGGAAAGAAAAGGAAAGGAGAAG
*
24227270 AGAAAAAAAAAAGAAA
1 AGAAAAAAGAAAGAAA
24227286 GAAGGAGAAG
Statistics
Matches: 85, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
37 2 0.02
38 29 0.34
39 2 0.02
41 2 0.02
42 15 0.18
43 23 0.27
44 12 0.14
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (42 bp):
AGAAAAAAGAAAGAAAAAAAGGAAAGAAAAGGAAAGGAGAAG
Found at i:24227278 original size:33 final size:32
Alignment explanation
Indices: 24227233--24227311 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 32
24227223 GAAGAAGAAA
24227233 AAAGAAAGAAAAAAAGGAAAGAA-AAGAAAAGGAG
1 AAAGAAA-AAAAAAA-GAAAGAAGAAGAAAAGG-G
* *
24227267 AAGAGAAAAAAAAAAGAAAGAAGGAGAAGAGGG
1 AA-AGAAAAAAAAAAGAAAGAAGAAGAAAAGGG
24227300 AAAGAAAAAAAA
1 AAAGAAAAAAAA
24227312 GGTAATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 10 0.24
33 10 0.24
34 16 0.39
35 5 0.12
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (32 bp):
AAAGAAAAAAAAAAGAAAGAAGAAGAAAAGGG
Found at i:24227307 original size:26 final size:26
Alignment explanation
Indices: 24227248--24227312 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
24227238 AAGAAAAAAA
24227248 GGAAAGAAAAG-AA-AAGGAGAAGAG
1 GGAAAGAAAAGAAAGAAGGAGAAGAG
** *
24227272 AAAAAAAAAAGAAAGAAGGAGAAGAG
1 GGAAAGAAAAGAAAGAAGGAGAAGAG
*
24227298 GGAAAGAAAAAAAAG
1 GGAAAGAAAAGAAAG
24227313 GTAATTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
24 8 0.25
25 2 0.06
26 22 0.69
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (26 bp):
GGAAAGAAAAGAAAGAAGGAGAAGAG
Found at i:24228780 original size:24 final size:24
Alignment explanation
Indices: 24228753--24228800 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
24228743 ATTTCAAACA
*
24228753 AAATGTACTGAAATAATATAAAAT
1 AAATGCACTGAAATAATATAAAAT
*
24228777 AAATGCACTGAAATAATGTAAAAT
1 AAATGCACTGAAATAATATAAAAT
24228801 TATAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.27
Consensus pattern (24 bp):
AAATGCACTGAAATAATATAAAAT
Found at i:24236124 original size:147 final size:147
Alignment explanation
Indices: 24235857--24236151 Score: 563
Period size: 147 Copynumber: 2.0 Consensus size: 147
24235847 ATGGCTTAGA
24235857 ATGGTTGCCTTATTAGTTAGAATAATTAAATTCATAATTTTTTAATTCATTTTAATACTAGTGAC
1 ATGGTTGCCTTATTAGTTAGAATAATTAAATTCATAATTTTTTAATTCATTTTAATACTAGTGAC
*
24235922 AAATTGTATAAATTGTTTATGCCATTGTTAGAATTAAGCCTCCCCATTCTTAATGTTGCCGATAA
66 AAACTGTATAAATTGTTTATGCCATTGTTAGAATTAAGCCTCCCCATTCTTAATGTTGCCGATAA
* *
24235987 ATTAAACCTTGAGTGTT
131 ATTAAACCTAGAGCGTT
24236004 ATGGTTGCCTTATTAGTTAGAATAATTAAATTCATAATTTTTTAATTCATTTTAATACTAGTGAC
1 ATGGTTGCCTTATTAGTTAGAATAATTAAATTCATAATTTTTTAATTCATTTTAATACTAGTGAC
24236069 AAACTGTATAAATTGTTTATGCCATTGTTAGAATTAAGCCTCCCCATTCTTAATGTTGCCGATAA
66 AAACTGTATAAATTGTTTATGCCATTGTTAGAATTAAGCCTCCCCATTCTTAATGTTGCCGATAA
24236134 ATTAAACCTAGAGCGTT
131 ATTAAACCTAGAGCGTT
24236151 A
1 A
24236152 AGTTATAAGA
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 145 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (147 bp):
ATGGTTGCCTTATTAGTTAGAATAATTAAATTCATAATTTTTTAATTCATTTTAATACTAGTGAC
AAACTGTATAAATTGTTTATGCCATTGTTAGAATTAAGCCTCCCCATTCTTAATGTTGCCGATAA
ATTAAACCTAGAGCGTT
Found at i:24237627 original size:20 final size:20
Alignment explanation
Indices: 24237602--24237646 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
24237592 AATTATATTT
*
24237602 TAAAATAATAATTTTATAAA
1 TAAAATAATAATCTTATAAA
**
24237622 TAAAATGTTAATCTTATAAA
1 TAAAATAATAATCTTATAAA
24237642 TAAAA
1 TAAAA
24237647 CAATTTAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:24239175 original size:2 final size:2
Alignment explanation
Indices: 24239168--24239201 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
24239158 ATAATGCTTT
24239168 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24239202 TCTTCATGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:24246556 original size:9 final size:9
Alignment explanation
Indices: 24246542--24246578 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
24246532 TATAGTTTGA
24246542 TATTCGAAT
1 TATTCGAAT
24246551 TATTCGAAT
1 TATTCGAAT
*
24246560 TATTCGAGT
1 TATTCGAAT
24246569 TATTCGAAT
1 TATTCGAAT
24246578 T
1 T
24246579 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24246649 original size:9 final size:9
Alignment explanation
Indices: 24246632--24246662 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24246622 TCGAGTTGAT
24246632 TCGAATAAC
1 TCGAATAAC
*
24246641 TCGATTAAC
1 TCGAATAAC
24246650 TCGAATAAC
1 TCGAATAAC
24246659 TCGA
1 TCGA
24246663 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:24254255 original size:15 final size:15
Alignment explanation
Indices: 24254235--24254265 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24254225 AAAATAACAT
24254235 AACTCTTAACCTTTC
1 AACTCTTAACCTTTC
*
24254250 AACTCTTGACCTTTC
1 AACTCTTAACCTTTC
24254265 A
1 A
24254266 CTTACATAAN
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (15 bp):
AACTCTTAACCTTTC
Found at i:24257869 original size:15 final size:15
Alignment explanation
Indices: 24257849--24257877 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24257839 TAAATAACAT
24257849 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
24257864 AACTCTTGACCTTT
1 AACTCTTGACCTTT
24257878 AAATATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.31, G:0.07, T:0.41
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:24257998 original size:15 final size:15
Alignment explanation
Indices: 24257975--24258005 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24257965 AAAACAACAT
*
24257975 AACTGTTGACCTTTC
1 AACTCTTGACCTTTC
24257990 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
24258005 A
1 A
24258006 CTTACATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:24258809 original size:148 final size:146
Alignment explanation
Indices: 24258538--24258995 Score: 447
Period size: 158 Copynumber: 3.0 Consensus size: 146
24258528 GTTATGGATT
** * * * *
24258538 TTACTCTTTATTTTCAATTTTTTTTATTGTTCCATTTAGTTTGATTATAATTTTACGAGGGGATC
1 TTACTCTTTATTTTC-ATTTTTTTTATTGTT-CATTTAGTTTGATTATAAGCTTATGAAGGAATT
* * * * * *
24258603 AGGCGAGTTGGGTTAGCATTTTAGGTTATATATTCTAATGCTTAATTTCGTAATTCTTATGCTGA
64 AAGCGATTTGAGTTAGCATTTTA-GTT-GATATCCCAATGCTTAATTTCGTAATTCTTATGCTGA
*
24258668 ATTATTTGTGATTTAATGGA
127 ATTATTTGTGGTTTAATGGA
* *
24258688 TTACTCTTTATTTTCATTTTTTTTCTCGTTCAATTTAGTTTGATTATAAGCTTATGAAGGAATTA
1 TTACTCTTTATTTTCATTTTTTTTATTGTTC-ATTTAGTTTGATTATAAGCTTATGAAGGAATTA
* *
24258753 AACGATTTCGCAG-TAGCATTTTAGTTGATATCCCAATGCTTAATTTCGTCATTCTTATGCTGAA
65 AGCGATTT-G-AGTTAGCATTTTAGTTGATATCCCAATGCTTAATTTCGTAATTCTTATGCTGAA
*
24258817 TTATTTGCGGTTTAATGGA
128 TTATTTGTGGTTTAATGGA
* *
24258836 TTTTACTCTCTATTCAATGCTAATTTTTGTGTTTATTGTTGCATTTAGTTTGATTATAAGCTTAT
1 --TTACTCTTTATT---T--TCA-TTTT-T-TTTATTGTT-CATTTAGTTTGATTATAAGCTTAT
* ** * * *
24258901 GATGGAA-TAAGGGCGATTTGAGTTTTCAGTTTAGGTGATATCCTGAA-GCTTAATTAT-GTAAT
55 GAAGGAATTAA--GCGATTTGAGTTAGCATTTTAGTTGATATCC-CAATGCTTAATT-TCGTAAT
*
24258963 TCTTATGCTGAATGATTTGTGGTTTAATGGA
116 TCTTATGCTGAATTATTTGTGGTTTAATGGA
24258994 TT
1 TT
24258996 TTATAGGTGA
Statistics
Matches: 257, Mismatches: 32, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
148 52 0.20
149 48 0.19
150 37 0.14
151 1 0.00
153 1 0.00
155 2 0.01
156 6 0.02
157 6 0.02
158 94 0.37
159 10 0.04
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.48
Consensus pattern (146 bp):
TTACTCTTTATTTTCATTTTTTTTATTGTTCATTTAGTTTGATTATAAGCTTATGAAGGAATTAA
GCGATTTGAGTTAGCATTTTAGTTGATATCCCAATGCTTAATTTCGTAATTCTTATGCTGAATTA
TTTGTGGTTTAATGGA
Found at i:24260512 original size:7 final size:7
Alignment explanation
Indices: 24260437--24260511 Score: 62
Period size: 7 Copynumber: 10.7 Consensus size: 7
24260427 AAATTATCCC
24260437 TAAATCT
1 TAAATCT
* * *
24260444 TATACCC
1 TAAATCT
*
24260451 TAAATCA
1 TAAATCT
*
24260458 TAAATAT
1 TAAATCT
24260465 TAAATCT
1 TAAATCT
24260472 TAAATCT
1 TAAATCT
*
24260479 TAAACCT
1 TAAATCT
24260486 TAAATAC-
1 TAAAT-CT
*
24260493 TAAATTT
1 TAAATCT
*
24260500 TAAATTT
1 TAAATCT
24260507 TAAAT
1 TAAAT
24260512 TCTAACATTA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
7 53 0.98
8 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATCT
Found at i:24262807 original size:16 final size:15
Alignment explanation
Indices: 24262760--24262811 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
24262750 TCGAAGAGTG
24262760 AGCCTGTCAAAATGCA
1 AGCCTGTCAAAA-GCA
* *
24262776 AGCATGTTAAAGAGCA
1 AGCCTGTCAAA-AGCA
24262792 AGCCTGTCGAAAAGCA
1 AGCCTGTC-AAAAGCA
24262808 AGCC
1 AGCC
24262812 AAAAATGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (15 bp):
AGCCTGTCAAAAGCA
Found at i:24262871 original size:28 final size:28
Alignment explanation
Indices: 24262836--24262900 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
24262826 AAGTTGGTGA
* *
24262836 AAGCCAAAGTGGCGAACAATCTAAGTGC
1 AAGCCAAAGTGACGAACAATCCAAGTGC
* * *
24262864 AAGCCAAAATGATGGACAATCCAAGTGC
1 AAGCCAAAGTGACGAACAATCCAAGTGC
24262892 AAGCCAAAG
1 AAGCCAAAG
24262901 CGGCAGGTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (28 bp):
AAGCCAAAGTGACGAACAATCCAAGTGC
Found at i:24262930 original size:101 final size:101
Alignment explanation
Indices: 24262814--24263199 Score: 367
Period size: 101 Copynumber: 3.9 Consensus size: 101
24262804 AGCAAGCCAA
* * * *
24262814 AAATGCAAGCC-AAAGTTGGTGAAAGCCAAAGTGGCGAACAATCTAAGTGCAAGCCAAAATGATG
1 AAATGCAAGCCAAAAGTGGGTGCAAGCCAAAATGGCGAACAATCCAAGTGCAAGCCAAAATGATG
*
24262878 GACAATCCAAGTGCAAGCCAAAGCGGCAGG-TAATCT
66 GACAATCCAAGTGCAAGCCAAAGCGGC-GGACAATCT
* * * * * * * *
24262914 AAATACAAGCCAAAAGTGGGTGCAAGCTAAAATGGTGGACAGTCCAAGTACAAGCTAAAATGGCT
1 AAATGCAAGCCAAAAGTGGGTGCAAGCCAAAATGGCGAACAATCCAAGTGCAAGCCAAAAT-GAT
* * *
24262979 -GACAATCCAAGTGTAAGTCAAAGCGGCGGACAACCT
65 GGACAATCCAAGTGCAAGCCAAAGCGGCGGACAATCT
* * * * * *
24263015 AAATGCAAGCCAAATGTGGGTGTAAGCCAAAGTGGTGGACAATCCAAGT---ACCCAAAATGA-G
1 AAATGCAAGCCAAAAGTGGGTGCAAGCCAAAATGGCGAACAATCCAAGTGCAAGCCAAAATGATG
* * *
24263076 AGACAGTTCAAGTGCAAGCCAAAGTGGCGGACAATCT
66 -GACAATCCAAGTGCAAGCCAAAGCGGCGGACAATCT
* * * * *
24263113 AAATGTAAGCCAAAAGTGAGTGCAAGCTAAAATGGC-AGACAA-CTCAAGTGCAAGCCAAAGTGG
1 AAATGCAAGCCAAAAGTGGGTGCAAGCCAAAATGGCGA-ACAATC-CAAGTGCAAGCCAAAATGA
* * *
24263176 CGGACAATCTAAATGCAAGCCAAA
64 TGGACAATCCAAGTGCAAGCCAAA
24263200 AGTAGGTGTA
Statistics
Matches: 229, Mismatches: 46, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
97 2 0.01
98 75 0.33
100 12 0.05
101 137 0.60
102 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (101 bp):
AAATGCAAGCCAAAAGTGGGTGCAAGCCAAAATGGCGAACAATCCAAGTGCAAGCCAAAATGATG
GACAATCCAAGTGCAAGCCAAAGCGGCGGACAATCT
Found at i:24262967 original size:28 final size:28
Alignment explanation
Indices: 24262936--24262990 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
24262926 AAAGTGGGTG
*
24262936 CAAGCTAAAATGG-TGGACAGTCCAAGTA
1 CAAGCTAAAATGGCT-GACAATCCAAGTA
24262964 CAAGCTAAAATGGCTGACAATCCAAGT
1 CAAGCTAAAATGGCTGACAATCCAAGT
24262991 GTAAGTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (28 bp):
CAAGCTAAAATGGCTGACAATCCAAGTA
Found at i:24263135 original size:45 final size:45
Alignment explanation
Indices: 24263086--24263171 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
24263076 AGACAGTTCA
* * *
24263086 AGTGCAAGCCAAAGTGGCGGACAA-TCTAAATGTAAGCCAAAAGTG
1 AGTGCAAGCCAAAATGGCAGACAACTC-AAATGCAAGCCAAAAGTG
* *
24263131 AGTGCAAGCTAAAATGGCAGACAACTCAAGTGCAAGCCAAA
1 AGTGCAAGCCAAAATGGCAGACAACTCAAATGCAAGCCAAA
24263172 GTGGCGGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
45 33 0.94
46 2 0.06
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (45 bp):
AGTGCAAGCCAAAATGGCAGACAACTCAAATGCAAGCCAAAAGTG
Found at i:24263162 original size:28 final size:28
Alignment explanation
Indices: 24263131--24263200 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
24263121 GCCAAAAGTG
*
24263131 AGTGCAAGCTAAAATGGCAGACAA-CTCA
1 AGTGCAAGCCAAAATGGCAGACAATCT-A
* *
24263159 AGTGCAAGCCAAAGTGGCGGACAATCTA
1 AGTGCAAGCCAAAATGGCAGACAATCTA
*
24263187 AATGCAAGCCAAAA
1 AGTGCAAGCCAAAA
24263201 GTAGGTGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (28 bp):
AGTGCAAGCCAAAATGGCAGACAATCTA
Found at i:24263240 original size:73 final size:73
Alignment explanation
Indices: 24263066--24263249 Score: 246
Period size: 73 Copynumber: 2.5 Consensus size: 73
24263056 ATCCAAGTAC
*
24263066 CCAAAATGAG-AGACAGTTCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGTAAGCCAAAAGT
1 CCAAAATG-GCAGACAGTTCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGT
24263130 GAGTGCAAG
65 GAGTGCAAG
* **
24263139 CTAAAATGGCAGACAACTCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGT-
1 CCAAAATGGCAGACAGTTCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGTG
*
24263203 AGGTGTAAG
66 A-GTGCAAG
* * * *
24263212 CCAAAGTGGCAGACAGTTTAAATACAAGCCAAAAGTGG
1 CCAAAATGGCAGACAGTTCAAGTGCAAGCC-AAAGTGG
24263250 GTGCAAGCCA
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
72 2 0.02
73 87 0.91
74 7 0.07
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.15
Consensus pattern (73 bp):
CCAAAATGGCAGACAGTTCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGTG
AGTGCAAG
Found at i:24263272 original size:45 final size:45
Alignment explanation
Indices: 24263160--24263272 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
24263150 GACAACTCAA
* * *
24263160 GTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGTAG
1 GTGCAAGCCAAAGTGGCAGACAGTCTAAATACAAGCCAAAAGTAG
* * *
24263205 GTGTAAGCCAAAGTGGCAGACAGTTTAAATACAAGCCAAAAGTGG
1 GTGCAAGCCAAAGTGGCAGACAGTCTAAATACAAGCCAAAAGTAG
*
24263250 GTGCAAGCCAAAATGGCAGACAG
1 GTGCAAGCCAAAGTGGCAGACAG
24263273 CCCAAGTGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (45 bp):
GTGCAAGCCAAAGTGGCAGACAGTCTAAATACAAGCCAAAAGTAG
Found at i:24263305 original size:118 final size:118
Alignment explanation
Indices: 24263091--24263317 Score: 303
Period size: 118 Copynumber: 1.9 Consensus size: 118
24263081 GTTCAAGTGC
* ** *
24263091 AAGCCAAAGTGGCGGACAATCTAAATGTAAGCCAAAAGTGAGTGCAAGCTAAAATGGCAGACAAC
1 AAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGAGTGCAAGCCAAAATGGCAGACAAC
* * * ***
24263156 TCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGTAGGTGT
66 CCAAGTGAAAGACAAAGCAACGGACAATCTAAATGCAAGCCAAAAGTAGGTGT
* * * *
24263209 AAGCCAAAGTGGCAGACAGTTTAAATACAAGCCAAAAGTGGGTGCAAGCCAAAATGGCAGACAGC
1 AAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGAGTGCAAGCCAAAATGGCAGACAAC
*
24263274 CCAAGTGAAAGACAAAGCAACAGG-CAGTCTAAATGCAAGCCAAA
66 CCAAGTGAAAGACAAAGCAAC-GGACAATCTAAATGCAAGCCAAA
24263318 GTTGGTGCCA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
118 91 0.98
119 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (118 bp):
AAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGAGTGCAAGCCAAAATGGCAGACAAC
CCAAGTGAAAGACAAAGCAACGGACAATCTAAATGCAAGCCAAAAGTAGGTGT
Found at i:24265689 original size:28 final size:28
Alignment explanation
Indices: 24265648--24265709 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
24265638 ATAGTCTAAA
*
24265648 TGCAAGCCAAAGTGGCGGACAATCCAAG
1 TGCAAGCCAAAGTGGCAGACAATCCAAG
* * * *
24265676 TGCAAGGCAGAGTGGCAGACAGTCGAAG
1 TGCAAGCCAAAGTGGCAGACAATCCAAG
24265704 TGCAAG
1 TGCAAG
24265710 ACACCCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.34, T:0.11
Consensus pattern (28 bp):
TGCAAGCCAAAGTGGCAGACAATCCAAG
Found at i:24267853 original size:39 final size:39
Alignment explanation
Indices: 24267762--24267853 Score: 91
Period size: 39 Copynumber: 2.4 Consensus size: 39
24267752 CCATTAGCTT
* * *
24267762 CCAAAA-TTTAAATAGATATCAAAATTTATAACTAAATA
1 CCAAAATTTTTAATGGATACCAAAATTTATAACTAAATA
* * *
24267800 CTAAAATCTCTAATGGATACCAAAATCTT-TAAC-ATAATA
1 CCAAAATTTTTAATGGATACCAAAAT-TTATAACTA-AATA
24267839 CCAAAATTTTTAATG
1 CCAAAATTTTTAATG
24267854 AATTACAGTT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
38 6 0.14
39 34 0.81
40 2 0.05
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (39 bp):
CCAAAATTTTTAATGGATACCAAAATTTATAACTAAATA
Found at i:24269125 original size:19 final size:19
Alignment explanation
Indices: 24269063--24269134 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
24269053 ACCCACCCTT
*
24269063 AGTTAGGAAATTTTGGTATCC
1 AGTTA-GAAATTTTGATAT-C
* *
24269084 A-TTAGAGATTTTGATATT
1 AGTTAGAAATTTTGATATC
*
24269102 TGTTAGAAATTTTGATATC
1 AGTTAGAAATTTTGATATC
24269121 AGTTA-AATATTTTG
1 AGTTAGAA-ATTTTG
24269135 GTACCCCTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 2 0.05
19 36 0.86
20 3 0.07
21 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (19 bp):
AGTTAGAAATTTTGATATC
Done.