Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 172 of 313
Found at i:53573000 original size:15 final size:16
Alignment explanation
Indices: 53572973--53573002 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53572963 AAAACTGTAA
53572973 CTTAAAAACTTTCATT
1 CTTAAAAACTTTCATT
53572989 CTTAAAAA-TTTCAT
1 CTTAAAAACTTTCAT
53573003 ATATCATAAC
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:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (16 bp):
CTTAAAAACTTTCATT
Found at i:53574189 original size:71 final size:70
Alignment explanation
Indices: 53574058--53574214 Score: 208
Period size: 71 Copynumber: 2.2 Consensus size: 70
53574048 CAACTCTTAA
* * *
53574058 AACCGAATGTATATTCACTATAAACATGAATAGCCGAATGCTTATATACATATATGCTTAACAGA
1 AACCAAATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATA-GCTTAACAAA
53574123 TATTAG
65 TATTAG
** * *
53574129 CTCCAAATGTATATACACTTTGAACATGAATAGCCGAATGCATATATATACATATA-CTTAACAA
1 AACCAAATGTATATACACTATAAACATGAATAGCCGAATGC-T-TATATACATATAGCTTAACAA
*
53574193 ATATTAT
64 ATATTAG
53574200 AACCAAATGTATATA
1 AACCAAATGTATATA
53574215 TGTAATTATC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
71 61 0.82
72 1 0.01
73 12 0.16
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (70 bp):
AACCAAATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATAGCTTAACAAAT
ATTAG
Found at i:53574269 original size:35 final size:35
Alignment explanation
Indices: 53574197--53574276 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
53574187 TAACAAATAT
* * *
53574197 TATAACCAAATGTATATATGTAATTATCACCTGCA
1 TATAACCAAATGCATATATGTAATTAACACCTACA
* * **
53574232 TATATCCAAATGCATATATGTACTTAACATGTACA
1 TATAACCAAATGCATATATGTAATTAACACCTACA
*
53574267 TATAATCAAA
1 TATAACCAAA
53574277 CCTATACAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (35 bp):
TATAACCAAATGCATATATGTAATTAACACCTACA
Found at i:53574702 original size:41 final size:41
Alignment explanation
Indices: 53574668--53575589 Score: 1706
Period size: 41 Copynumber: 22.5 Consensus size: 41
53574658 ACCGACAATT
* * * *
53574668 AGCCTGTTAGACATAAAGTCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
* *
53574709 AGCCTGCTAGACATAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
*
53574750 A-CCTGCTAGACGTAAAGT-TCGAAATATTTCAGC-GGCATCA
1 AGCCTGCTAGACGTAAAGTCT-GAAACATTTCA-CTGGCATCA
53574790 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53574831 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53574872 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53574913 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53574954 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53574995 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575036 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575077 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575118 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575159 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575200 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575241 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575282 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575323 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575364 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575405 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575446 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
53575487 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
**
53575528 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
* *
53575569 AGCCTGCAAGATGTAAAGTCT
1 AGCCTGCTAGACGTAAAGTCT
53575590 AAATCATCTT
Statistics
Matches: 867, Mismatches: 9, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
39 1 0.00
40 35 0.04
41 830 0.96
42 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCA
Found at i:53576785 original size:9 final size:9
Alignment explanation
Indices: 53576771--53576795 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
53576761 CAAGTCCACA
53576771 TATTTCATT
1 TATTTCATT
53576780 TATTTCATT
1 TATTTCATT
53576789 TATTTCA
1 TATTTCA
53576796 CATTTTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
TATTTCATT
Found at i:53582360 original size:64 final size:64
Alignment explanation
Indices: 53582292--53582428 Score: 211
Period size: 64 Copynumber: 2.1 Consensus size: 64
53582282 ACAAGTAAGT
53582292 CACACGGGCGTGTATCCAGGTCGTGTAACTCCCTAAGTTAAGACTTGGAGTCACACGGGTAGGG
1 CACACGGGCGTGTATCCAGGTCGTGTAACTCCCTAAGTTAAGACTTGGAGTCACACGGGTAGGG
* * * * * *
53582356 CACACGGGTGTGTGTCTAGGTTGTGTAACTCCCTGAGTTTAGACTTGGAGTCACACGGGTAGGG
1 CACACGGGCGTGTATCCAGGTCGTGTAACTCCCTAAGTTAAGACTTGGAGTCACACGGGTAGGG
*
53582420 GACACGGGC
1 CACACGGGC
53582429 ATGTGCCGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (64 bp):
CACACGGGCGTGTATCCAGGTCGTGTAACTCCCTAAGTTAAGACTTGGAGTCACACGGGTAGGG
Found at i:53584505 original size:5 final size:5
Alignment explanation
Indices: 53584497--53584526 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
53584487 TATAAAATTA
53584497 AATAT AATAT AATAT AATAT AAATAT AATA
1 AATAT AATAT AATAT AATAT -AATAT AATA
53584527 ATTATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:53584512 original size:10 final size:11
Alignment explanation
Indices: 53584495--53584526 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
53584485 TTTATAAAAT
53584495 TAAATATAATA
1 TAAATATAATA
53584506 T-AATATAATA
1 TAAATATAATA
53584516 TAAATATAATA
1 TAAATATAATA
53584527 ATTATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATATAATA
Found at i:53589479 original size:17 final size:17
Alignment explanation
Indices: 53589457--53589492 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
53589447 AATTATATTT
53589457 ATTTAAAAAAAACATTA
1 ATTTAAAAAAAACATTA
* *
53589474 ATTTAAAATAAATATTA
1 ATTTAAAAAAAACATTA
53589491 AT
1 AT
53589493 ATCTACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAAAAAAAACATTA
Found at i:53592226 original size:13 final size:13
Alignment explanation
Indices: 53592208--53592232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53592198 ATAATAACAT
53592208 CAACATAAAAAAA
1 CAACATAAAAAAA
53592221 CAACATAAAAAA
1 CAACATAAAAAA
53592233 GAAGTAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
CAACATAAAAAAA
Found at i:53592346 original size:13 final size:13
Alignment explanation
Indices: 53592328--53592365 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
53592318 AATATTGAAA
53592328 ATTAAATAAAAAG
1 ATTAAATAAAAAG
*
53592341 ATTAAATGAAAAG
1 ATTAAATAAAAAG
53592354 ATTAAATCAAAA
1 ATTAAAT-AAAA
53592366 CCATAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (13 bp):
ATTAAATAAAAAG
Found at i:53593770 original size:28 final size:28
Alignment explanation
Indices: 53593724--53593780 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
53593714 TATAGTTTTT
53593724 ATAATAATTATAAAGGTTATAATAATAA
1 ATAATAATTATAAAGGTTATAATAATAA
*
53593752 ATAATATATTATAAA-GTTATTATAATAA
1 ATAATA-ATTATAAAGGTTATAATAATAA
53593780 A
1 A
53593781 AAAAAGGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (28 bp):
ATAATAATTATAAAGGTTATAATAATAA
Found at i:53595731 original size:73 final size:71
Alignment explanation
Indices: 53595611--53595761 Score: 169
Period size: 73 Copynumber: 2.1 Consensus size: 71
53595601 GTTTTCCATA
* * * *
53595611 AAGCGCCGCAAAAACCTAAGCCCAACGACGCCGTTTTCCGCCCATTCGGGGCTTTAGCGGCGATT
1 AAGCGCCGCAAAAACCGAAGCCCAACGACACCGTTTTCCGACCATTCGGGGATTTAGCGGCGATT
53595676 TT-GTGG
66 TTGGT-G
* * * ** * *
53595682 AAGCGCCGCAAAGCAATCGAAGCCCAATGACACCGTTTTCTGAGTATTCGGGGATTTAGCGGTGT
1 AAGCGCCGCAAA--AACCGAAGCCCAACGACACCGTTTTCCGACCATTCGGGGATTTAGCGGCGA
53595747 TTTTGGTG
64 TTTTGGTG
53595755 AAGCGCC
1 AAGCGCC
53595762 ACTACTGCTC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
71 12 0.18
73 52 0.79
74 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (71 bp):
AAGCGCCGCAAAAACCGAAGCCCAACGACACCGTTTTCCGACCATTCGGGGATTTAGCGGCGATT
TTGGTG
Found at i:53595863 original size:114 final size:115
Alignment explanation
Indices: 53595662--53596103 Score: 549
Period size: 114 Copynumber: 3.9 Consensus size: 115
53595652 CCATTCGGGG
* * *
53595662 CTTTAGCGGCGA-TTTTGTGG-AAGCGCCGCAAAGCAATCGAAGCCCAATGACACCGTTTTCTGA
1 CTTTAGCGGCGATTTTTG-GGTAAGCGCCGCAAAGAAACCGAAGCCCAACGACACCGTTTTCTGA
* * * *
53595725 GTATTCGGGGATTTAGCGGTGTTTTTGGTGAAGCGCCACTACTGCTCAGGA
65 GCATTCGGGGATTTAGCGGCGTTTTTGGTGAAGCGCCGCTAATGCTCAGGA
* * *
53595776 CTTTAGCGGC-ATTTTTGGGTAAGCGCTGCAAAGAAACCGAAGCCCAACGACGCTGTTTTCTGAG
1 CTTTAGCGGCGATTTTTGGGTAAGCGCCGCAAAGAAACCGAAGCCCAACGACACCGTTTTCTGAG
*
53595840 CATTCGGGGATTTAGTGGCGTTTTTGGTGAAGCGCCGCTAATGCTCAGGA
66 CATTCGGGGATTTAGCGGCGTTTTTGGTGAAGCGCCGCTAATGCTCAGGA
* * * * * *
53595890 CTTTAGCGACG-TTTTTGAGTAATCGCCGCAAAGAAACTGAAGCCTAACGACACTGTTTTCTGAG
1 CTTTAGCGGCGATTTTTGGGTAAGCGCCGCAAAGAAACCGAAGCCCAACGACACCGTTTTCTGAG
* * * * *
53595954 ----GGGGGATTTAGCGGCGTTTTCGGGGGAAACGCCGCTAATGCTCAGGG
66 CATTCGGGGATTTAGCGGCGTTTT-TGGTGAAGCGCCGCTAATGCTCAGGA
* * * * * **
53596001 CTTTAGCGGCGTTTTTTGTGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAG
1 CTTTAGCGGCGATTTTTGGGTAAGCGCCGCAAAGAAACCGAAGCCCAACGACACCGTTTTCTGAG
53596066 CATTCGGGGATTTAGCGGCGTTTTTGGTGAAGCGCCGC
66 CATTCGGGGATTTAGCGGCGTTTTTGGTGAAGCGCCGC
53596104 AAAATAATTA
Statistics
Matches: 280, Mismatches: 39, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
110 18 0.06
111 32 0.11
112 43 0.15
113 3 0.01
114 154 0.55
115 11 0.04
116 19 0.07
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (115 bp):
CTTTAGCGGCGATTTTTGGGTAAGCGCCGCAAAGAAACCGAAGCCCAACGACACCGTTTTCTGAG
CATTCGGGGATTTAGCGGCGTTTTTGGTGAAGCGCCGCTAATGCTCAGGA
Found at i:53597927 original size:146 final size:146
Alignment explanation
Indices: 53597560--53597939 Score: 385
Period size: 147 Copynumber: 2.6 Consensus size: 146
53597550 TTGTCTATGG
* * * * * ** *
53597560 TATTAGTGGCG-TTTTTCAGGAAACGCCACAAGCT-TGAGTTAACTGTTGGGGAAACGACTTCG-
1 TATTAGTGGCGATTTTTCA-AAAACGCCAC-GGGTGTGAGCTAAGTGTTGATGAAACGACTACGT
* * * *
53597622 TTTGAACTTATATTTAGTGGCGCTTTACTTAAAACGCCTCAAAATTGTTCTAACATTTATAGAAA
64 TTTG-ACTTATAGTTAGTGGCGCTTCACTTAAAACGCCACAAAAATGTTCTAACATTTATAGAAA
* *
53597687 CGATGCCGTTTTGTAAATGT
128 CGAGGCCGTTTTGT-AATAT
* ** * * * *
53597707 TATTCGTGGCGATTTTTTGAAAACGCCACGGGTTTGAGGTAAGTGTTGATGAAGCAACTACGTTT
1 TATTAGTGGCGATTTTTCAAAAACGCCACGGGTGTGAGCTAAGTGTTGATGAAACGACTACGTTT
* * * * *
53597772 TGATTTATAGTTAGTGGCGCTTCACTTTAAACGCCACAAAAATGTTTTAACATTTATTGATACGA
66 TGACTTATAGTTAGTGGCGCTTCACTTAAAACGCCACAAAAATGTTCTAACATTTATAGAAACGA
*
53597837 GGCCGTTTTGCT-GTAT
131 GGCCGTTTTG-TAATAT
** *
53597853 TATTAGTGGCG-TTTATTCAAAAACGCCA-GAGGTGTGAGCTATTTGTTGATGAAACGACTGCGT
1 TATTAGTGGCGATTT-TTCAAAAACGCCACG-GGTGTGAGCTAAGTGTTGATGAAACGACTACGT
53597916 TTTGACTTATAGTTAGTGGCGCTT
64 TTTGACTTATAGTTAGTGGCGCTT
53597940 ATTTATAAAC
Statistics
Matches: 191, Mismatches: 36, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
145 4 0.02
146 74 0.39
147 103 0.54
148 10 0.05
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (146 bp):
TATTAGTGGCGATTTTTCAAAAACGCCACGGGTGTGAGCTAAGTGTTGATGAAACGACTACGTTT
TGACTTATAGTTAGTGGCGCTTCACTTAAAACGCCACAAAAATGTTCTAACATTTATAGAAACGA
GGCCGTTTTGTAATAT
Found at i:53599786 original size:13 final size:13
Alignment explanation
Indices: 53599768--53599862 Score: 61
Period size: 13 Copynumber: 7.2 Consensus size: 13
53599758 TAAAATTTGG
53599768 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
53599781 TTAAATATGTTAC
1 TTAAATTTATTAC
53599794 TTAAATACATTACTTAC
1 TTAAAT---TTA-TTAC
* *
53599811 TAAAATTT-GT--
1 TTAAATTTATTAC
53599821 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
53599834 TTAAATATGTTAC
1 TTAAATTTATTAC
**
53599847 TTAAATACATTAC
1 TTAAATTTATTAC
53599860 TTA
1 TTA
53599863 CTAAAATTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
10 7 0.11
11 1 0.02
12 1 0.02
13 42 0.67
14 2 0.03
16 1 0.02
17 9 0.14
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.47
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:53599811 original size:53 final size:53
Alignment explanation
Indices: 53599744--53599871 Score: 247
Period size: 53 Copynumber: 2.4 Consensus size: 53
53599734 TTTACAATTT
53599744 AATACATTACTTACTAAAATTTGGTTAAATTTATTACTTAAATATGTTACTTA
1 AATACATTACTTACTAAAATTTGGTTAAATTTATTACTTAAATATGTTACTTA
*
53599797 AATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATATGTTACTTA
1 AATACATTACTTACTAAAATTTGGTTAAATTTATTACTTAAATATGTTACTTA
53599850 AATACATTACTTACTAAAATTT
1 AATACATTACTTACTAAAATTT
53599872 AAGTATATAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
53 74 1.00
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (53 bp):
AATACATTACTTACTAAAATTTGGTTAAATTTATTACTTAAATATGTTACTTA
Found at i:53600018 original size:9 final size:9
Alignment explanation
Indices: 53600004--53600047 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
53599994 TATGTACAAG
53600004 AACTTACAT
1 AACTTACAT
*
53600013 AACTTATAT
1 AACTTACAT
*
53600022 ACACGTACAT
1 A-ACTTACAT
53600032 AACTTACAT
1 AACTTACAT
*
53600041 AATTTAC
1 AACTTAC
53600048 TTAATACATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:53605561 original size:21 final size:21
Alignment explanation
Indices: 53605537--53605585 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
53605527 GGCAATGAGG
53605537 GAAGCAGAGGCTCCAGCGAGA
1 GAAGCAGAGGCTCCAGCGAGA
* *
53605558 GAAGCAGAGGCTGCAGCGTGA
1 GAAGCAGAGGCTCCAGCGAGA
53605579 GAAGCAG
1 GAAGCAG
53605586 CGAGAGAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.41, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTCCAGCGAGA
Found at i:53606124 original size:42 final size:42
Alignment explanation
Indices: 53605969--53606239 Score: 267
Period size: 43 Copynumber: 6.4 Consensus size: 42
53605959 AATCCCAAAA
* * * *
53605969 TTAGTGGCGTTTTTTATAAAAGCGTCGCTAAAGAACATTA-CTT
1 TTAGCGGCGTTTTTTAT-TAAGCGCCGCTAAAGAACATGATC-T
* * * * *
53606012 TTCGCGGCGTTTGTGATGAAAGCGCCACTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTAT-TAAGCGCCGCTAAAGAACATGATCT
* * ** *
53606055 ATAACGGCGTTTTTTTACCAAGCGCCGCTAAAGAATATGATCT
1 TTAGCGGCG-TTTTTTATTAAGCGCCGCTAAAGAACATGATCT
53606098 TTAGCGGCGTTTTTCT-TTAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTT-TATTAAGCGCCGCTAAAGAACATGATCT
* ** *
53606140 TTAGCGGCGTCTTTTTGTTAAGAACCGTTAAAGAACATGATCT
1 TTAGCGGCGT-TTTTTATTAAGCGCCGCTAAAGAACATGATCT
* * * *
53606183 TTAGTGGCGTTTTTTATGAAGTGCCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTTTTATTAAGCGCCGCTAAAGAACATGATCT
*
53606225 TTAGCGGCATTTTTT
1 TTAGCGGCGTTTTTT
53606240 TTTGTAAACG
Statistics
Matches: 189, Mismatches: 34, Indels: 11
0.81 0.15 0.05
Matches are distributed among these distances:
42 78 0.41
43 105 0.56
44 6 0.03
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTATTAAGCGCCGCTAAAGAACATGATCT
Found at i:53606148 original size:85 final size:85
Alignment explanation
Indices: 53605994--53606240 Score: 273
Period size: 85 Copynumber: 2.9 Consensus size: 85
53605984 ATAAAAGCGT
* * * * * *
53605994 CGCTAAAGAACATTA-CTTTTCGCGGCGTTTGTGATGAAAGCGCCACTAAAGAACATGATCTATA
1 CGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTATG-AAGCGCCGCTAAAGAACATGATCTTTA
* **
53606058 ACGGCGTTTTTTTACCAAGCGC
64 GCGGCGTTTTTTTACCAAGAAC
* *
53606080 CGCTAAAGAATATGATCTTTAGCGGCGTTTTTCT-TTAAGCGCCGCTAAAGAACATGATCTTTAG
1 CGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TATGAAGCGCCGCTAAAGAACATGATCTTTAG
* ***
53606144 CGGCGTCTTTTTGTTAAGAAC
65 CGGCGTTTTTTTACCAAGAAC
* * * *
53606165 CGTTAAAGAACATGATCTTTAGTGGCGTTTTTTATGAAGTGCCGCTAAAGAACATGACCTTTAGC
1 CGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATGAAGCGCCGCTAAAGAACATGATCTTTAGC
*
53606230 GGCATTTTTTT
66 GGCGTTTTTTT
53606241 TTGTAAACGC
Statistics
Matches: 135, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
84 1 0.01
85 106 0.79
86 27 0.20
87 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (85 bp):
CGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATGAAGCGCCGCTAAAGAACATGATCTTTAGC
GGCGTTTTTTTACCAAGAAC
Found at i:53608298 original size:94 final size:94
Alignment explanation
Indices: 53608134--53608593 Score: 559
Period size: 94 Copynumber: 4.9 Consensus size: 94
53608124 AGTATCACGG
* * * *
53608134 TTTCATTTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTTGTGGTAGATTCTAT-TCGACCC
1 TTTCA-TTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAATCT-GACCC
*
53608198 ACTGCAACTTTAGGGGTATAGAATTTGTAGC
64 ACTGCAACTTCAGGGGTATAGAATTTGTAGC
* * * * * *
53608229 -TTCATCTTGCTCCACTGTAACTTC-AGGAACACAAGATTTTCTGTGGTAGATTCAATCTGATCC
1 TTTCAT-TTGCTCCACTGCAACTTCAAGG-AGATAAGATTTGCTATGGTAGATTCAATCTGACCC
* * *
53608292 ATTGCAACTTCAAGGGTATAGAATTTTTAGC
64 ACTGCAACTTCAGGGGTATAGAATTTGTAGC
* * * *
53608323 -TTCAATTTGCTCCACTACAACTTTAGGGAGATAAGATTTGCTATGGTAGATTCAACCTGACCCA
1 TTTC-ATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAATCTGACCCA
*
53608387 CTGCAACTTCAGGGGTATAGGATTTGTAGC
65 CTGCAACTTCAGGGGTATAGAATTTGTAGC
* * * *
53608417 TTTAATATGCTCTACTGCAACTTCAATGAGATAAGATTTGCTATGGTAGATTCAATCTGACCCAC
1 TTTCATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAATCTGACCCAC
* * *
53608482 TGCAACTTTAAGGGTATAGGATTTGTAGC
66 TGCAACTTCAGGGGTATAGAATTTGTAGC
* * * * *
53608511 TTTAATCTGCTCTACTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCAC
1 TTTCATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAATCTGACCCAC
*
53608576 TGTAACTTCAGGGGTATA
66 TGCAACTTCAGGGGTATA
53608594 AGATTTATGG
Statistics
Matches: 316, Mismatches: 43, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
93 4 0.01
94 305 0.97
95 7 0.02
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (94 bp):
TTTCATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAATCTGACCCAC
TGCAACTTCAGGGGTATAGAATTTGTAGC
Found at i:53608411 original size:50 final size:49
Alignment explanation
Indices: 53608150--53608599 Score: 213
Period size: 50 Copynumber: 9.5 Consensus size: 49
53608140 TTTGCTCCAT
* * * *
53608150 TGCAACTTCAAGGAGATAAGATTTGTTGTGGTAGATTCTAT-TCGACCCAC
1 TGCAACTTC-AGGGGATAAGATTTGCTATGGTAGATTCAATCT-GACCCAC
* * *
53608200 TGCAACTTTAGGGG-TATAGA-AT--T-T-GTAGCTTC-ATCTTG-CTCCAC
1 TGCAACTTCAGGGGATA-AGATTTGCTATGGTAGATTCAATC-TGAC-CCAC
* ** * * * * *
53608244 TGTAACTTCAGGAACACAAGATTTTCTGTGGTAGATTCAATCTGATCCAT
1 TGCAACTTCAGG-GGATAAGATTTGCTATGGTAGATTCAATCTGACCCAC
* * * *
53608294 TGCAACTTCAAGGG-TATAGAATT--T-T--TAGCTTCAATTTG-CTCCAC
1 TGCAACTTCAGGGGATA-AGATTTGCTATGGTAGATTCAATCTGAC-CCAC
* * *
53608338 TACAACTTTAGGGAGATAAGATTTGCTATGGTAGATTCAACCTGACCCAC
1 TGCAACTTCAGGG-GATAAGATTTGCTATGGTAGATTCAATCTGACCCAC
* * * *
53608388 TGCAACTTCAGGGGTATAGGATTTG-TA-GCT---TT-AATATG-CTCTAC
1 TGCAACTTCAGGGG-ATAAGATTTGCTATGGTAGATTCAATCTGAC-CCAC
* *
53608432 TGCAACTTCAATGAGATAAGATTTGCTATGGTAGATTCAATCTGACCCAC
1 TGCAACTTC-AGGGGATAAGATTTGCTATGGTAGATTCAATCTGACCCAC
* * * * *
53608482 TGCAACTTTAAGGGTATAGGATTTG-TA-GCT---TT-AATCTG-CTCTAC
1 TGCAAC-TTCAGGGGATAAGATTTGCTATGGTAGATTCAATCTGAC-CCAC
* * *
53608526 TGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCAC
1 TGCAACTTC-AGGGGATAAGATTTGCTATGGTAGATTCAATCTGACCCAC
*
53608576 TGTAACTTCAGGGGTATAAGATTT
1 TGCAACTTCAGGGG-ATAAGATTT
53608600 ATGGTTTCAC
Statistics
Matches: 295, Mismatches: 61, Indels: 88
0.66 0.14 0.20
Matches are distributed among these distances:
43 7 0.02
44 97 0.33
45 22 0.07
46 10 0.03
47 2 0.01
48 10 0.03
49 26 0.09
50 113 0.38
51 8 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (49 bp):
TGCAACTTCAGGGGATAAGATTTGCTATGGTAGATTCAATCTGACCCAC
Found at i:53608455 original size:44 final size:43
Alignment explanation
Indices: 53608386--53608548 Score: 139
Period size: 44 Copynumber: 3.6 Consensus size: 43
53608376 AACCTGACCC
* * * *
53608386 ACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATATGCTCT
1 ACTGCAACTTCAAGAG-ATAAGATTTGTAGCTTTAATCTGCTCT
* *
53608430 ACTGCAACTTCAATGAGATAAGATTTGCTATGGTAGATTCAATCTGAC-CC
1 ACTGCAACTTCAA-GAGATAAGATTTG-TA-GCT---TT-AATCTG-CTCT
* * *
53608480 ACTGCAACTTTAAGGGTATAGGATTTGTAGCTTTAATCTGCTCT
1 ACTGCAACTTCAAGAG-ATAAGATTTGTAGCTTTAATCTGCTCT
53608524 ACTGCAACTTCAAGGAGATAAGATT
1 ACTGCAACTTCAA-GAGATAAGATT
53608549 CGCTATGGTA
Statistics
Matches: 94, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
43 1 0.01
44 47 0.50
45 8 0.09
46 2 0.02
48 2 0.02
49 6 0.06
50 27 0.29
51 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (43 bp):
ACTGCAACTTCAAGAGATAAGATTTGTAGCTTTAATCTGCTCT
Found at i:53614715 original size:13 final size:14
Alignment explanation
Indices: 53614678--53614718 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
53614668 ATGACAGATG
53614678 CAGATAA-CAGAAT
1 CAGATAACCAGAAT
*
53614691 CAGATAAGCAGAA-
1 CAGATAACCAGAAT
*
53614704 CAGATATCCAGAAT
1 CAGATAACCAGAAT
53614718 C
1 C
53614719 CTACCCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.15
Consensus pattern (14 bp):
CAGATAACCAGAAT
Found at i:53620176 original size:37 final size:38
Alignment explanation
Indices: 53620133--53620208 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
53620123 GCAAAAACCC
*
53620133 GAACATC-TAGTGACGTTTTTTTAAAAACGCCGTAAAA
1 GAACATCATAGTGACGTTTATTTAAAAACGCCGTAAAA
* ** *
53620170 GAACATCATTAGTGGCGTTTATTTGTAAGCGCCGTAAAA
1 GAACATCA-TAGTGACGTTTATTTAAAAACGCCGTAAAA
53620209 TACCTTAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 7 0.22
39 25 0.78
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (38 bp):
GAACATCATAGTGACGTTTATTTAAAAACGCCGTAAAA
Found at i:53620495 original size:17 final size:17
Alignment explanation
Indices: 53620475--53620507 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
53620465 TTATTTTCTA
53620475 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
53620492 TATAAGTTTTCTAAAT
1 TATAAGTTTTCTAAAT
53620508 AATTTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:53620502 original size:30 final size:30
Alignment explanation
Indices: 53620468--53620585 Score: 96
Period size: 30 Copynumber: 3.9 Consensus size: 30
53620458 TATTGTTTTA
*
53620468 TTTTCTATATAAGTTTTCTAAATTTATAAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
* *
53620498 TTTTCTAAATAATTTTTCTAAATTTATTAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
* ** * * *
53620528 -TATAAAAATTTAGTAGTAT-TAATTTTATAAG
1 TTTTCTAAA-TAAGT--TTTCTAAATTTATAAG
* *
53620559 TTTTCTAAATAAGTGTTCTAGATTTAT
1 TTTTCTAAATAAGTTTTCTAAATTTAT
53620586 TATTAATAAA
Statistics
Matches: 64, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
29 6 0.09
30 37 0.58
31 14 0.22
32 7 0.11
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.52
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTCTAAATTTATAAG
Found at i:53620518 original size:13 final size:13
Alignment explanation
Indices: 53620468--53620520 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
53620458 TATTGTTTTA
*
53620468 TTTTCTATATAAG
1 TTTTCTAAATAAG
53620481 TTTTCTAAATTTATAAG
1 TTTTCT-AA---ATAAG
*
53620498 TTTTCTAAATAAT
1 TTTTCTAAATAAG
53620511 TTTTCTAAAT
1 TTTTCTAAAT
53620521 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 20 0.59
14 1 0.03
16 2 0.06
17 11 0.32
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:53620556 original size:61 final size:61
Alignment explanation
Indices: 53620490--53620633 Score: 184
Period size: 61 Copynumber: 2.4 Consensus size: 61
53620480 GTTTTCTAAA
* *
53620490 TTTATAAGTTTTCTAAATAATTTTTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTATTAAT
1 TTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAAT-AAAATTTA-TAAGTATCAAT
* * *
53620551 TTTATAAGTTTTCTAAATAAGTGTTCTAGATTTATTATTAATAAAATTTATAAGTATCAAT
1 TTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAATAAAATTTATAAGTATCAAT
* * *
53620612 TTTACACGTTTTGTAAATAATT
1 TTTATAAGTTTTCTAAATAATT
53620634 ATATTTTTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
60 1 0.01
61 69 0.96
62 2 0.03
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (61 bp):
TTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAATAAAATTTATAAGTATCAAT
Found at i:53620838 original size:45 final size:45
Alignment explanation
Indices: 53620786--53620924 Score: 141
Period size: 45 Copynumber: 3.2 Consensus size: 45
53620776 GCTTACTTAA
*
53620786 TACATAATAACACAATACATAA-TTGGTATATAAGCTTGCATAACT
1 TACATAATAACACAATACATAACTT-ATATATAAGCTTGCATAACT
* * **
53620831 TACATAAT-A-AC-TTCCATAACTTATATATAA--TAACATAA--
1 TACATAATAACACAATACATAACTTATATATAAGCTTGCATAACT
* * *
53620869 TACATAATAACATAATACACAACTTATATATAAGCTTGTATAACT
1 TACATAATAACACAATACATAACTTATATATAAGCTTGCATAACT
53620914 TACATAATAAC
1 TACATAATAAC
53620925 TTCCATAACT
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
38 8 0.11
39 1 0.01
40 7 0.09
41 16 0.22
42 13 0.18
43 9 0.12
44 1 0.01
45 19 0.26
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.32
Consensus pattern (45 bp):
TACATAATAACACAATACATAACTTATATATAAGCTTGCATAACT
Found at i:53620848 original size:21 final size:21
Alignment explanation
Indices: 53620815--53621458 Score: 164
Period size: 18 Copynumber: 34.0 Consensus size: 21
53620805 TAATTGGTAT
*
53620815 ATAAGCTTGCATAACTTACATA
1 ATAA-CTTACATAACTTACATA
* *
53620837 ATAACTTCCATAACTTATAT-
1 ATAACTTACATAACTTACATA
*
53620857 ATAA-TAACATAA--TACATA
1 ATAACTTACATAACTTACATA
* *
53620875 ATAACATAATACACAACTTATAT-
1 ATAAC-T--TACATAACTTACATA
**
53620898 ATAAGCTTGTATAACTTACATA
1 ATAA-CTTACATAACTTACATA
*
53620920 ATAACTTCCATAACTTACATA
1 ATAACTTACATAACTTACATA
* *
53620941 GCTTACTTAATACATAACTTAC---
1 -ATAAC-T--TACATAACTTACATA
*
53620963 ATAACTT--ATACACGTAC---
1 ATAACTTACATA-ACTTACATA
*
53620980 ATAACTTACATAA--TATAT-
1 ATAACTTACATAACTTACATA
* * *
53620998 A-AACATATATAGAAACTCACAT-
1 ATAAC-T-TACA-TAACTTACATA
*
53621020 A-AA-TTAAATAACTTAC---
1 ATAACTTACATAACTTACATA
*
53621036 ATAACTTACATAAATT--A-A
1 ATAACTTACATAACTTACATA
*
53621054 ATAACTTACATAAATT--A-A
1 ATAACTTACATAACTTACATA
53621072 ATAACTTACATAACTTAC---
1 ATAACTTACATAACTTACATA
53621090 ATAACTTACATAACTTACAT-
1 ATAACTTACATAACTTACATA
* *
53621110 A-AA-TTAAATAATTTAC---
1 ATAACTTACATAACTTACATA
* *
53621126 ATAACTTATATAAATT--A-A
1 ATAACTTACATAACTTACATA
53621144 ATAACTTACATAACTTAC---
1 ATAACTTACATAACTTACATA
*
53621162 ATAACTTACATAAATTA-AT-
1 ATAACTTACATAACTTACATA
53621181 -TAACTTACATAACTTAACAT-
1 ATAACTTACATAACTT-ACATA
*
53621201 A-AAC-TAAATAACTTAC---
1 ATAACTTACATAACTTACATA
*
53621217 ATAACTTACATAAATT--A-A
1 ATAACTTACATAACTTACATA
53621235 ATAACTTACATAACTTACAT-
1 ATAACTTACATAACTTACATA
*
53621255 A-AA-TTAAATAACTTAC---
1 ATAACTTACATAACTTACATA
* *
53621271 ATAACTTACATAAATT---TT
1 ATAACTTACATAACTTACATA
*
53621289 ATAACTTACATAAATT--A-A
1 ATAACTTACATAACTTACATA
53621307 ATAACTTACATAACTTACAT-
1 ATAACTTACATAACTTACATA
* * *
53621327 A-AA-TTCCGTGGACTTAC---
1 ATAACTTACAT-AACTTACATA
* *
53621344 ATAACCTACATAAATT--A-A
1 ATAACTTACATAACTTACATA
**
53621362 ATAACTTACATAAACTGGCATTA
1 ATAACTTACAT-AACTTACA-TA
*
53621385 TTAACTTACATAACTTACAT-
1 ATAACTTACATAACTTACATA
*
53621405 A-AA-TTAAATAACTTAC---
1 ATAACTTACATAACTTACATA
*
53621421 ATAACTTACATAAATT--A-A
1 ATAACTTACATAACTTACATA
*
53621439 ATTACTTACATAACTTACAT
1 ATAACTTACATAACTTACAT
53621459 TATACATAAC
Statistics
Matches: 480, Mismatches: 68, Indels: 149
0.69 0.10 0.21
Matches are distributed among these distances:
16 10 0.02
17 31 0.06
18 269 0.56
19 45 0.09
20 20 0.04
21 44 0.09
22 28 0.06
23 17 0.04
24 5 0.01
25 11 0.02
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (21 bp):
ATAACTTACATAACTTACATA
Found at i:53620870 original size:8 final size:8
Alignment explanation
Indices: 53620857--53620885 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
53620847 TAACTTATAT
53620857 ATAATAAC
1 ATAATAAC
53620865 ATAAT-AC
1 ATAATAAC
53620872 ATAATAAC
1 ATAATAAC
53620880 ATAATA
1 ATAATA
53620886 CACAACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (8 bp):
ATAATAAC
Found at i:53620877 original size:15 final size:15
Alignment explanation
Indices: 53620857--53620887 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
53620847 TAACTTATAT
53620857 ATAATAACATAATAC
1 ATAATAACATAATAC
53620872 ATAATAACATAATAC
1 ATAATAACATAATAC
53620887 A
1 A
53620888 CAACTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:53620932 original size:9 final size:9
Alignment explanation
Indices: 53620920--53621592 Score: 546
Period size: 9 Copynumber: 75.4 Consensus size: 9
53620910 AACTTACATA
*
53620920 ATAACTTCC
1 ATAACTTAC
53620929 ATAACTTAC
1 ATAACTTAC
*
53620938 ATAGCTTAC
1 ATAACTTAC
*
53620947 TTAA--TAC
1 ATAACTTAC
53620954 ATAACTTAC
1 ATAACTTAC
53620963 ATAACTT--
1 ATAACTTAC
*
53620970 ATACACGTAC
1 ATA-ACTTAC
53620980 ATAACTTAC
1 ATAACTTAC
*
53620989 ATAA--TAT
1 ATAACTTAC
*
53620996 ATAAACATATAT
1 AT-AAC-T-TAC
* *
53621008 AGAAACTCAC
1 A-TAACTTAC
* *
53621018 ATAAATTAA
1 ATAACTTAC
53621027 ATAACTTAC
1 ATAACTTAC
53621036 ATAACTTAC
1 ATAACTTAC
* *
53621045 ATAAATTAA
1 ATAACTTAC
53621054 ATAACTTAC
1 ATAACTTAC
* *
53621063 ATAAATTAA
1 ATAACTTAC
53621072 ATAACTTAC
1 ATAACTTAC
53621081 ATAACTTAC
1 ATAACTTAC
53621090 ATAACTTAC
1 ATAACTTAC
53621099 ATAACTTAC
1 ATAACTTAC
* *
53621108 ATAAATTAA
1 ATAACTTAC
*
53621117 ATAATTTAC
1 ATAACTTAC
*
53621126 ATAACTTAT
1 ATAACTTAC
* *
53621135 ATAAATTAA
1 ATAACTTAC
53621144 ATAACTTAC
1 ATAACTTAC
53621153 ATAACTTAC
1 ATAACTTAC
53621162 ATAACTTAC
1 ATAACTTAC
*
53621171 ATAAATTA-
1 ATAACTTAC
53621179 ATTAACTTAC
1 A-TAACTTAC
53621189 ATAACTTAAC
1 ATAACTT-AC
*
53621199 ATAAAC-TAA
1 AT-AACTTAC
53621208 ATAACTTAC
1 ATAACTTAC
53621217 ATAACTTAC
1 ATAACTTAC
* *
53621226 ATAAATTAA
1 ATAACTTAC
53621235 ATAACTTAC
1 ATAACTTAC
53621244 ATAACTTAC
1 ATAACTTAC
* *
53621253 ATAAATTAA
1 ATAACTTAC
53621262 ATAACTTAC
1 ATAACTTAC
53621271 ATAACTTAC
1 ATAACTTAC
* **
53621280 ATAAATTTT
1 ATAACTTAC
53621289 ATAACTTAC
1 ATAACTTAC
* *
53621298 ATAAATTAA
1 ATAACTTAC
53621307 ATAACTTAC
1 ATAACTTAC
53621316 ATAACTTAC
1 ATAACTTAC
* *
53621325 ATAAATTCC
1 ATAACTTAC
* *
53621334 GTGGACTTAC
1 AT-AACTTAC
*
53621344 ATAACCTAC
1 ATAACTTAC
* *
53621353 ATAAATTAA
1 ATAACTTAC
53621362 ATAACTTAC
1 ATAACTTAC
* *
53621371 ATAAACTGGCATT
1 AT-AACT--TA-C
53621384 ATTAACTTAC
1 A-TAACTTAC
53621394 ATAACTTAC
1 ATAACTTAC
* *
53621403 ATAAATTAA
1 ATAACTTAC
53621412 ATAACTTAC
1 ATAACTTAC
53621421 ATAACTTAC
1 ATAACTTAC
* *
53621430 ATAAATTAA
1 ATAACTTAC
*
53621439 ATTACTTAC
1 ATAACTTAC
53621448 ATAACTTAC
1 ATAACTTAC
*
53621457 ATTA--TAC
1 ATAACTTAC
53621464 ATAACCTT-C
1 ATAA-CTTAC
*
53621473 TTAACTTAC
1 ATAACTTAC
*
53621482 ATTA--TAC
1 ATAACTTAC
* *
53621489 ACAACTCAC
1 ATAACTTAC
53621498 ATAA-TTA-
1 ATAACTTAC
*
53621505 AT-ATTATAC
1 ATAACT-TAC
*
53621514 ACAACTTAC
1 ATAACTTAC
53621523 ATAA--TAC
1 ATAACTTAC
*
53621530 ATTACTTAC
1 ATAACTTAC
53621539 ATAACTTAC
1 ATAACTTAC
*
53621548 ATTACTTAC
1 ATAACTTAC
53621557 AGT-ACTTAC
1 A-TAACTTAC
53621566 ATAA--TAC
1 ATAACTTAC
53621573 ATAA--TAC
1 ATAACTTAC
53621580 ATAACTTAC
1 ATAACTTAC
53621589 ATAA
1 ATAA
53621593 TACATAAAAA
Statistics
Matches: 525, Mismatches: 101, Indels: 76
0.75 0.14 0.11
Matches are distributed among these distances:
6 1 0.00
7 47 0.09
8 17 0.03
9 416 0.79
10 25 0.05
11 5 0.01
12 8 0.02
13 5 0.01
14 1 0.00
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:53620965 original size:83 final size:83
Alignment explanation
Indices: 53620775--53620966 Score: 262
Period size: 83 Copynumber: 2.3 Consensus size: 83
53620765 GACAATCATT
* * *
53620775 TGCTTACTTAATACATAATAACACAATACATAATTGGTATATAAGCTTGCATAACTTACATAATA
1 TGCTTACTTAATACATAATAACATAATACACAATTGATATATAAGCTTGCATAACTTACATAATA
*
53620840 ACTTCCATAACTTATATA
66 ACTTCCATAACTTACATA
** * * *
53620858 TAATAACATAATACATAATAACATAATACACAACTT-ATATATAAGCTTGTATAACTTACATAAT
1 TGCTTACTTAATACATAATAACATAATACACAA-TTGATATATAAGCTTGCATAACTTACATAAT
53620922 AACTTCCATAACTTACATA
65 AACTTCCATAACTTACATA
*
53620941 -GCTTACTTAATACATAACTTACATAA
1 TGCTTACTTAATACATAA-TAACATAA
53620967 CTTATACACG
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
82 13 0.14
83 78 0.84
84 2 0.02
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (83 bp):
TGCTTACTTAATACATAATAACATAATACACAATTGATATATAAGCTTGCATAACTTACATAATA
ACTTCCATAACTTACATA
Found at i:53621530 original size:66 final size:67
Alignment explanation
Indices: 53621391--53621599 Score: 214
Period size: 66 Copynumber: 3.1 Consensus size: 67
53621381 ATTATTAACT
* * * *
53621391 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAA-ATTACTTACATAACTT
1 TACATAACTTACATAACTTACATTAC-TACACAACTTACAT-AATTAATATTA--TACATAACTT
*
53621455 ACATTA
62 ACATAA
* * *
53621461 TACATAACCTT-CTTAACTTACATTA-TACACAACTCACATAATTAATATTATACACAACTTACA
1 TACATAA-CTTACATAACTTACATTACTACACAACTTACATAATTAATATTATACATAACTTACA
53621524 TAA
65 TAA
* **
53621527 TACATTACTTACATAACTTACATTACTTACAGTACTTACATAA-TACATA--ATACATAACTTAC
1 TACATAACTTACATAACTTACATTAC-TACACAACTTACATAATTA-ATATTATACATAACTTAC
53621589 ATAA
64 ATAA
53621593 TACATAA
1 TACATAA
53621600 AAATATATCA
Statistics
Matches: 118, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
65 3 0.03
66 55 0.47
67 8 0.07
68 32 0.27
70 17 0.14
71 3 0.03
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.34
Consensus pattern (67 bp):
TACATAACTTACATAACTTACATTACTACACAACTTACATAATTAATATTATACATAACTTACAT
AA
Found at i:53621539 original size:25 final size:25
Alignment explanation
Indices: 53621479--53621589 Score: 81
Period size: 25 Copynumber: 4.5 Consensus size: 25
53621469 CTTCTTAACT
*
53621479 TACATTA--TACACAACTCACATAA
1 TACATTACTTACACAACTTACATAA
*
53621502 TTA-A-TATTATACACAACTTACATAA
1 -TACATTACT-TACACAACTTACATAA
* *
53621527 TACATTACTTACATAACTTACATTACT
1 TACATTACTTACACAACTTACA-TA-A
* *
53621554 TACAGTACTTACATAA--TACATAA
1 TACATTACTTACACAACTTACATAA
*
53621577 TACATAACTTACA
1 TACATTACTTACA
53621590 TAATACATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
22 2 0.03
23 12 0.17
24 6 0.08
25 32 0.44
26 5 0.07
27 15 0.21
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (25 bp):
TACATTACTTACACAACTTACATAA
Found at i:53621541 original size:41 final size:42
Alignment explanation
Indices: 53621475--53621590 Score: 123
Period size: 41 Copynumber: 2.8 Consensus size: 42
53621465 TAACCTTCTT
* * *
53621475 AACTTACATTATACACAACTCACATAA-TTAATATTA-TACAC
1 AACTTACATAATACATAACTCACATAACTT-ACATTACTACAC
* * *
53621516 AACTTACATAATACATTACTTACATAACTTACATTACTTACAG
1 AACTTACATAATACATAACTCACATAACTTACATTAC-TACAC
*
53621559 TACTTACATAATACATAA-T-ACATAACTTACAT
1 AACTTACATAATACATAACTCACATAACTTACAT
53621591 AATACATAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 41 0.64
42 3 0.05
43 20 0.31
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.34
Consensus pattern (42 bp):
AACTTACATAATACATAACTCACATAACTTACATTACTACAC
Found at i:53621575 original size:7 final size:7
Alignment explanation
Indices: 53621563--53621599 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
53621553 TTACAGTACT
53621563 TACATAA
1 TACATAA
53621570 TACATAA
1 TACATAA
53621577 TACATAA
1 TACATAA
53621584 CTTACATAA
1 --TACATAA
53621593 TACATAA
1 TACATAA
53621600 AAATATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:53627124 original size:21 final size:21
Alignment explanation
Indices: 53627075--53627125 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
53627065 CTACAACTTA
* *
53627075 AAGCAGACGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
*
53627096 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
53627117 AAGCAGAGG
1 AAGCAGAGG
53627126 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.45, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:53627616 original size:41 final size:40
Alignment explanation
Indices: 53627571--53627659 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
53627561 AGCGGCGCTT
* *
53627571 TTAGCGGCATTTGGACAAAAAATGCCACTAACA-ATCGAGCA
1 TTAGCGGCATTT-GACAAAAAACGCCAC-AAAATATCGAGCA
* * *
53627612 TTAGCGGCATTTTACGAAAAACGCCGCAAAATATCGAGCA
1 TTAGCGGCATTTGACAAAAAACGCCACAAAATATCGAGCA
53627652 TTAGCGGC
1 TTAGCGGC
53627660 GTTACATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.07
40 27 0.64
41 12 0.29
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
TTAGCGGCATTTGACAAAAAACGCCACAAAATATCGAGCA
Found at i:53627648 original size:40 final size:38
Alignment explanation
Indices: 53627603--53627720 Score: 128
Period size: 40 Copynumber: 3.0 Consensus size: 38
53627593 TGCCACTAAC
*
53627603 AATCGAGCATTAGCGGCATTTTACGAAAAACGCCGCAAA
1 AATCGAGCATTAGCGGCGTTTTAC-AAAAACGCCGCAAA
* * * *
53627642 ATATCGAGCATTAGCGGCGTTACATAAAAAAACACCGCTAA
1 A-ATCGAGCATTAGCGGCGTT--TTACAAAAACGCCGCAAA
* *
53627683 AACCAAGCATTAGCGGCGTTTTACAAAAAGCGCCGCAA
1 AATCGAGCATTAGCGGCGTTTTACAAAAA-CGCCGCAA
53627721 TAGAGTAACA
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
38 7 0.11
39 7 0.11
40 35 0.55
41 13 0.20
42 2 0.03
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (38 bp):
AATCGAGCATTAGCGGCGTTTTACAAAAACGCCGCAAA
Found at i:53628048 original size:41 final size:41
Alignment explanation
Indices: 53628003--53628081 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
53627993 GCAAATGTTC
* * * *
53628003 CGGTCTATAGCGGCGTTTGTGTAACAGCGCCGGTAATTCTT
1 CGGTCTATAGCGGCATTTGTGTAAAAACGCCGCTAATTCTT
53628044 CGGTCTATAGCGGCATTTGTGTAAAAACGCCGCTAATT
1 CGGTCTATAGCGGCATTTGTGTAAAAACGCCGCTAATT
53628082 AGAAAATCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (41 bp):
CGGTCTATAGCGGCATTTGTGTAAAAACGCCGCTAATTCTT
Found at i:53628771 original size:59 final size:58
Alignment explanation
Indices: 53628701--53628812 Score: 179
Period size: 59 Copynumber: 1.9 Consensus size: 58
53628691 TCAATACATA
*
53628701 ATGTTTATTAATTTAGGATTACAATTTTATATTTAGGATTTTGGGTTTAAGGTTACGGC
1 ATGTTTATTAATTTAAGATTACAATTTTATATTTAGGATTTTGGGTTT-AGGTTACGGC
* * *
53628760 ATGTTTATTAATTTAAGATTATAATTTTATGTTTAGGGTTTTGGGTTTAGGTT
1 ATGTTTATTAATTTAAGATTACAATTTTATATTTAGGATTTTGGGTTTAGGTT
53628813 TACAGTTTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 5 0.10
59 44 0.90
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (58 bp):
ATGTTTATTAATTTAAGATTACAATTTTATATTTAGGATTTTGGGTTTAGGTTACGGC
Found at i:53629842 original size:16 final size:16
Alignment explanation
Indices: 53629818--53629848 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53629808 ATTTTTTCTC
53629818 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
53629834 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
53629849 CTCTATTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:53637173 original size:87 final size:87
Alignment explanation
Indices: 53637073--53637260 Score: 234
Period size: 87 Copynumber: 2.2 Consensus size: 87
53637063 AGGCAACATT
* * * *
53637073 GAGAGAAGCTGAGGTTCAA-AAAAGATATAAAGAACTCCAGCTACAACTTAAAGAAGATGCGGCA
1 GAGAGAAGTTGAGGTTCAACAAAAG-TATAAACAACTCCAGCAACAACTTAAAGAAGATACGGCA
*
53637137 GTAAGAGAAGCAGAGGCAGCAGC
65 GCAAGAGAAGCAGAGGCAGCAGC
* * * * *
53637160 GAGAGAAGTTGAGGTTCAACGAAAGTATGAACAAGTCCAGCAACAGCTTAAAGCAGATACGGCAG
1 GAGAGAAGTTGAGGTTCAACAAAAGTATAAACAACTCCAGCAACAACTTAAAGAAGATACGGCAG
* *
53637225 CGAGAGAAGCAGAGGCTGCAGC
66 CAAGAGAAGCAGAGGCAGCAGC
* *
53637247 GAGGGAAGTAGAGG
1 GAGAGAAGTTGAGG
53637261 CTGCAGCGAG
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
87 82 0.95
88 4 0.05
ACGTcount: A:0.40, C:0.16, G:0.31, T:0.12
Consensus pattern (87 bp):
GAGAGAAGTTGAGGTTCAACAAAAGTATAAACAACTCCAGCAACAACTTAAAGAAGATACGGCAG
CAAGAGAAGCAGAGGCAGCAGC
Found at i:53637276 original size:21 final size:21
Alignment explanation
Indices: 53637221--53637279 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
53637211 AGCAGATACG
* *
53637221 GCAGCGAGAGAAGCAGAGGCT
1 GCAGCGAGGGAAGTAGAGGCT
53637242 GCAGCGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGTAGAGGCT
53637263 GCAGCGAGGGAAGTAGA
1 GCAGCGAGGGAAGTAGA
53637280 ACAGCTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.32, C:0.15, G:0.46, T:0.07
Consensus pattern (21 bp):
GCAGCGAGGGAAGTAGAGGCT
Found at i:53637642 original size:43 final size:43
Alignment explanation
Indices: 53637593--53638918 Score: 2269
Period size: 43 Copynumber: 30.8 Consensus size: 43
53637583 GTTTTTCTAA
* * * *
53637593 AAGCGCCGCTAAAAACCATGAG-CTATAGCGGCGTTTGTTGGTT
1 AAGCGCCGCTAGAGACCATG-GTCTATAGCGGCGTTTGATGGAT
*
53637636 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTATGG-T
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTG-ATGGAT
* * * * * *
53637679 AAGCGCCGTTAAAGACCAAGATCTATAGCGGCGTTTTATGGGT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
* * * * *
53637722 AAGCACCGCTAAAGGCCATGGGCTATAGCGGCGTTTGATGGGT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
* * * * *
53637765 TAGCGCCGCTAAAGGCCATGGGCTATAGCGGCGTTTGATGGGT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
* * *
53637808 TAGCGCCGCTAAAGACCATGGTCTATAGCAGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53637851 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53637894 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53637937 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53637980 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638023 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638066 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638109 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638152 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638195 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638238 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638281 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638324 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638367 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638410 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638453 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638496 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638539 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638582 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
* *
53638625 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
* * * * *
53638668 AAGCGCCGCTAAAGACCATGGTATATAGCAGCGTTTTATGAAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
*
53638711 AAGCGCCGCGAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
53638754 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
* *
53638797 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTTATGAAT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
* * *
53638840 AAGCGCCGCGAAAGACCATGGTCTATAGCGGCGTTTGATGGTT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
* *
53638883 AAGCGCCGCTAAAGACCCTGGTCTATAGCGGCGTTT
1 AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTT
53638919 ATTATAAAAA
Statistics
Matches: 1237, Mismatches: 43, Indels: 6
0.96 0.03 0.00
Matches are distributed among these distances:
42 5 0.00
43 1229 0.99
44 3 0.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (43 bp):
AAGCGCCGCTAGAGACCATGGTCTATAGCGGCGTTTGATGGAT
Found at i:53638783 original size:25 final size:25
Alignment explanation
Indices: 53638755--53638826 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
53638745 TTGATGGATA
53638755 AGCGCCGCTAGAGACCATGGTCTAT
1 AGCGCCGCTAGAGACCATGGTCTAT
* ** *
53638780 AGCGGCG-T-TTG---ATGG-ATA-
1 AGCGCCGCTAGAGACCATGGTCTAT
53638798 AGCGCCGCTAGAGACCATGGTCTAT
1 AGCGCCGCTAGAGACCATGGTCTAT
53638823 AGCG
1 AGCG
53638827 GCGTTTTATG
Statistics
Matches: 32, Mismatches: 8, Indels: 14
0.59 0.15 0.26
Matches are distributed among these distances:
18 6 0.19
19 3 0.09
20 5 0.16
23 5 0.16
24 3 0.09
25 10 0.31
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.21
Consensus pattern (25 bp):
AGCGCCGCTAGAGACCATGGTCTAT
Found at i:53639142 original size:43 final size:43
Alignment explanation
Indices: 53639075--53639288 Score: 209
Period size: 43 Copynumber: 5.0 Consensus size: 43
53639065 AGTGTTTGTA
*
53639075 AAAAAAGCGCCGCTAAA-AATCATGTTCTTCAGCGGCGTTTTTAT
1 AAAAAA-CGCCGCTAAAGAA-CATGTTCTTTAGCGGCGTTTTTAT
* * * * *
53639119 ACAAAGCGCCGTTAAAGAACATGTTCTTTAGCGGCG-CTTAAT
1 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAT
* * * * *
53639161 AAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTATAGA
1 -AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTA-T
* *
53639206 AAAAAACGCCGCTAAAGAACATGTTCCTTAGCGGC-TTTTTTT
1 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAT
* * * **
53639248 TATAAACGCTGCTAAAGAACATGACCTTTAGCGGCGTTTTT
1 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
53639289 GGTTGTAAAC
Statistics
Matches: 137, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
42 33 0.24
43 64 0.47
44 40 0.29
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAT
Found at i:53639237 original size:87 final size:87
Alignment explanation
Indices: 53639073--53639240 Score: 230
Period size: 87 Copynumber: 1.9 Consensus size: 87
53639063 TTAGTGTTTG
* * * * * * *
53639073 TAAAAAAAGCGCCGCTAAAAATCATGTTCTTCAGCGGCGTTTTTATACAAAGCGCCGTTAAAGAA
1 TAAAAAAAGCGCCACTAAAAATCATGTTCTTCAGCGGCGCTTATAAAAAAAACGCCGCTAAAGAA
*
53639138 CATGTTCTTTAGCGGCGCTTAA
66 CATGTTCCTTAGCGGCGCTTAA
* *
53639160 TAAAAAAA-CGCCACTAAAGATCATGTTCTTTAGCGGCGCTTATAGAAAAAAACGCCGCTAAAGA
1 TAAAAAAAGCGCCACTAAAAATCATGTTCTTCAGCGGCGCTTATA-AAAAAAACGCCGCTAAAGA
53639224 ACATGTTCCTTAGCGGC
65 ACATGTTCCTTAGCGGC
53639241 TTTTTTTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
86 31 0.44
87 39 0.56
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (87 bp):
TAAAAAAAGCGCCACTAAAAATCATGTTCTTCAGCGGCGCTTATAAAAAAAACGCCGCTAAAGAA
CATGTTCCTTAGCGGCGCTTAA
Found at i:53643139 original size:49 final size:49
Alignment explanation
Indices: 53643075--53643172 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
53643065 GGGAAATGAA
53643075 GATTCTTTCATTTGTTTGGATAGATTTTTAAATTTAGGTAGGGGAAAGT
1 GATTCTTTCATTTGTTTGGATAGATTTTTAAATTTAGGTAGGGGAAAGT
*
53643124 GATTCTTTCATTTGTTTGGGTAGATTTTTAAATTTAGGTAGGGGAAAGT
1 GATTCTTTCATTTGTTTGGATAGATTTTTAAATTTAGGTAGGGGAAAGT
53643173 TGGTGAATGT
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:0.26, C:0.04, G:0.26, T:0.45
Consensus pattern (49 bp):
GATTCTTTCATTTGTTTGGATAGATTTTTAAATTTAGGTAGGGGAAAGT
Found at i:53643232 original size:29 final size:29
Alignment explanation
Indices: 53643200--53643255 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
53643190 CTAGGAACTT
53643200 GATCAAATTAGTCTATT-TACTATTAAATG
1 GATCAAATTAGTCT-TTGTACTATTAAATG
* *
53643229 GATCAATTTAGTCTTTGTATTATTAAA
1 GATCAAATTAGTCTTTGTACTATTAAA
53643256 AAGAACTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (29 bp):
GATCAAATTAGTCTTTGTACTATTAAATG
Found at i:53644156 original size:22 final size:22
Alignment explanation
Indices: 53644130--53644177 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
53644120 CTGAATTTTG
53644130 AAATTTG-AAAAATAAAAATACT
1 AAATTTGTAAAAATAAAAATA-T
*
53644152 AAATTTGTAAAAATAAAAGTAT
1 AAATTTGTAAAAATAAAAATAT
53644174 AAAT
1 AAAT
53644178 ATTAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (22 bp):
AAATTTGTAAAAATAAAAATAT
Found at i:53648433 original size:52 final size:52
Alignment explanation
Indices: 53648314--53648420 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 52
53648304 TTTAGGTCTT
* * *
53648314 TTTCATTT-TTCATTTTCATTTTGGAGGAAAACCACATTCATTTTCAAATGA
1 TTTCATTTATCCATTTTCATTTTGGAGGAAAACCACAATCATTTCCAAATGA
**
53648365 TTTCATTTATCCATTTTCATTTTGGA-GAAAACCTTAATCATTTCCAAATG-
1 TTTCATTTATCCATTTTCATTTTGGAGGAAAACCACAATCATTTCCAAATGA
53648415 TTTCAT
1 TTTCAT
53648421 ATTTCTCCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 6 0.12
51 28 0.56
52 16 0.32
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (52 bp):
TTTCATTTATCCATTTTCATTTTGGAGGAAAACCACAATCATTTCCAAATGA
Found at i:53649622 original size:23 final size:23
Alignment explanation
Indices: 53649596--53649644 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
53649586 TATGTTGCAA
53649596 AAAATTTAATCCCTTTTTCAAAT
1 AAAATTTAATCCCTTTTTCAAAT
** *
53649619 AAAATTTGCTCCCTTTTTCAAGT
1 AAAATTTAATCCCTTTTTCAAAT
53649642 AAA
1 AAA
53649645 TAAAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (23 bp):
AAAATTTAATCCCTTTTTCAAAT
Found at i:53661202 original size:109 final size:107
Alignment explanation
Indices: 53661086--53661452 Score: 332
Period size: 109 Copynumber: 3.3 Consensus size: 107
53661076 CAAGACCAAC
* * *
53661086 CTTTAAAAAAGGTTGGGATAGACTCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACTTTGTTT
1 CTTTAAAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACATTGTCT
*
53661151 AAGGCAACCTTAAAAAGGTTG-GTATAGTCAT-TGTCTAAGGCAA
66 AAGGCAACCTTAAAAAGGTTGTG-ATAGACATAT-T-TAAGGCAA
* * * * *
53661194 CTTTTAAAAATGGTTGGGATAAAGTCGTCTAAGGCAGCCTTAAAAAAGTTGGGATAGACATTGTC
1 C-TTTAAAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACATTGTC
** * *
53661259 TAAAACAACCTAAAAAATAAAGGTTGTGATAGACCTATTTAAGGCAA
65 TAAGGCAACCT---TAA-AAAGGTTGTGATAGACATATTTAAGGCAA
* * *
53661306 CCTT-AAACAGGTTGGGATAGAC-CTGTCTAAGGCAACCTTAAAAAAGATTGGGATAGACATTGT
1 CTTTAAAAAAGGTTGGGATAGACTC-GTCTAAGGCAACCTT-AAAAAGGTTGGGATAGACATTGT
* * * * * *
53661369 CTAAGGCAACTTTTAAAAATGATTGGGATAAAC-TCGTTTAAAGCAAA
64 CTAAGGCAAC-CTTAAAAA-GGTTGTGATAGACAT-ATTTAAGGC-AA
* * *
53661416 CTTT-AAAAAGGTTGGGATAAATCTTGTCTAAAGCAAC
1 CTTTAAAAAAGGTTGGGATAGA-CTCGTCTAAGGCAAC
53661453 TTTTTATAAA
Statistics
Matches: 209, Mismatches: 35, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
108 5 0.02
109 84 0.40
110 48 0.23
111 43 0.21
112 12 0.06
113 15 0.07
114 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (107 bp):
CTTTAAAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACATTGTCT
AAGGCAACCTTAAAAAGGTTGTGATAGACATATTTAAGGCAA
Found at i:53661454 original size:36 final size:35
Alignment explanation
Indices: 53661086--53661455 Score: 299
Period size: 36 Copynumber: 10.1 Consensus size: 35
53661076 CAAGACCAAC
**
53661086 CTTTAAAAAAGGTTGGGATAGACTCATCTAAGGCAA
1 CTTT-AAAAAGGTTGGGATAGACTTGTCTAAGGCAA
* *
53661122 CCTTAAAAAGGTTGGGATAGACTTTGTTTAAGGCAA
1 CTTTAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAA
* * *
53661158 CCTTAAAAAGGTTGGTATAGTCATTGTCTAAGGCAA
1 CTTTAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAA
* * * *
53661194 CTTTTAAAAATGGTTGGGATAAAGTCGTCTAAGGCAG
1 C-TTTAAAAA-GGTTGGGATAGACTTGTCTAAGGCAA
* * **
53661231 CCTTAAAAAAGTTGGGATAGACATTGTCTAAAACAA
1 CTTTAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAA
** * * * *
53661267 CCTAAAAAATAAAGGTTGTGATAGACCTATTTAAGGCAA
1 -CT--TTAA-AAAGGTTGGGATAGACTTGTCTAAGGCAA
* * *
53661306 CCTTAAACAGGTTGGGATAGACCTGTCTAAGGCAA
1 CTTTAAAAAGGTTGGGATAGACTTGTCTAAGGCAA
* *
53661341 CCTTAAAAAAGATTGGGATAGACATTGTCTAAGGCAA
1 -CTTTAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAA
* * * * *
53661378 CTTTTAAAAATGATTGGGATAAACTCGTTTAAAGCAAA
1 C-TTTAAAAA-GGTTGGGATAGACTTGTCTAAGGC-AA
* *
53661416 CTTTAAAAAGGTTGGGATAAATCTTGTCTAAAGCAA
1 CTTTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAA
53661452 CTTT
1 CTTT
53661456 TTATAAACTC
Statistics
Matches: 267, Mismatches: 53, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
35 53 0.20
36 100 0.37
37 65 0.24
38 25 0.09
39 10 0.04
40 14 0.05
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (35 bp):
CTTTAAAAAGGTTGGGATAGACTTGTCTAAGGCAA
Found at i:53663630 original size:29 final size:31
Alignment explanation
Indices: 53663599--53663669 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
53663589 AATCAATAAC
53663599 TTTAAAATTGAAC-AAAAAGTTATTCCCACT
1 TTTAAAATTGAACAAAAAAGTTATTCCCACT
* *
53663629 TTTATGAA-T-AACAAAAAAGTTATTCTCACT
1 TTTA-AAATTGAACAAAAAAGTTATTCCCACT
53663659 TTTAAAATTGA
1 TTTAAAATTGA
53663670 GAAGCTAAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
29 5 0.15
30 26 0.76
31 3 0.09
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.37
Consensus pattern (31 bp):
TTTAAAATTGAACAAAAAAGTTATTCCCACT
Found at i:53665279 original size:140 final size:139
Alignment explanation
Indices: 53665090--53665904 Score: 808
Period size: 140 Copynumber: 6.0 Consensus size: 139
53665080 TATGACACTA
* * * * * *
53665090 GTCGGCATAGTGTTAGATAAAGCCGACTCTTATTTAAACGTTGCCTTAGGCATTCATATTCCGAC
1 GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
* * * * * *
53665155 CCTTATACAAAGAGTTGACCAAAGCATATGTTAGCAAGTTTATCCCAACACTTAGGAAAGCGTTG
66 TCTTATACAAAGAGTTGGCCAAAGTATATATTAGCAAGTCTATCCCAACACTTAGGAAAGTGTT-
53665220 GCCCAAAAGT
130 GCCCAAAAGT
* * * * * * *
53665230 ATCGACATAGTGTTGGACAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGTATATACCAAT
1 GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
* *** ****
53665295 TCTTATACAAAAAGTTGGCCAAAACGTATGCCGGCAAGTCTATCCCAACACTT-----A-----G
66 TCTTATACAAAGAGTTGGCCAAAGTATATATTAGCAAGTCTATCCCAACACTTAGGAAAGTGTTG
53665350 --C-AAAGT
131 CCCAAAAGT
* ** * ** *
53665356 GTCGGCATAGTGTTGAACAAAGCTTACTCTTAATTAAGCGTTATCTTAGGCATGCATATCCTAAC
1 GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
* * * *
53665421 TCGTATACAAA-AGGTTGGCCAAAGTGTATATCAACAAGTCTATCCCAACACTT-----A--G--
66 TCTTATACAAAGA-GTTGGCCAAAGTATATATTAGCAAGTCTATCCCAACACTTAGGAAAGTGTT
53665476 G----AAAGT
130 GCCCAAAAGT
*
53665482 GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCTTTGCCTTA-GCATGCATATCCCAAC
1 GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
* * * * * * *
53665546 TCTTATATAAAGAATTGACCAAAGTGTATATTGGCAAGTCTATCCCAACATTTAGGAAAGTGTCG
66 TCTTATACAAAGAGTTGGCCAAAGTATATATTAGCAAGTCTATCCCAACACTTAGGAAAGTGT-T
53665611 GCCCAAAAGT
130 GCCCAAAAGT
* *
53665621 GTTGACATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
1 GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
* * * *
53665686 TCTTATATAAAGAGTTGGCCAAAATATATA-TCGACAAGTTTATCCCAACACTTAGGAAAGTGTC
66 TCTTATACAAAGAGTTGGCCAAAGTATATATTAG-CAAGTCTATCCCAACACTTAGGAAAGTGT-
*
53665750 GGCCCAAAAGT
129 TGCCCAAAAGT
* * *
53665761 GTCGGCATAGTATTGGACAAAGTCGACTCTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAAC
1 GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
* * * * *
53665826 TTTTATAAAAAGAGTTGGCCAAAGTATAT-GTCGACAAGTCTATCCCAACATTTAGGAAAGTGTT
66 TCTTATACAAAGAGTTGGCCAAAGTATATATTAG-CAAGTCTATCCCAACACTTAGGAAAGTGTT
53665890 GCTCCAAAAGT
130 GC-CCAAAAGT
53665901 GTCG
1 GTCG
53665905 CAGTAGGCCT
Statistics
Matches: 575, Mismatches: 79, Indels: 42
0.83 0.11 0.06
Matches are distributed among these distances:
125 59 0.10
126 148 0.26
127 2 0.00
129 1 0.00
130 1 0.00
132 1 0.00
135 2 0.00
139 54 0.09
140 307 0.53
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (139 bp):
GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
TCTTATACAAAGAGTTGGCCAAAGTATATATTAGCAAGTCTATCCCAACACTTAGGAAAGTGTTG
CCCAAAAGT
Found at i:53669996 original size:20 final size:21
Alignment explanation
Indices: 53669971--53670010 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
53669961 ATATTAAAAA
53669971 TAAAATAAAA-ATAAATAATC
1 TAAAATAAAACATAAATAATC
*
53669991 TAAAATAAAACATATATAAT
1 TAAAATAAAACATAAATAAT
53670011 AAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAATAAAACATAAATAATC
Found at i:53679011 original size:63 final size:63
Alignment explanation
Indices: 53678944--53679080 Score: 193
Period size: 63 Copynumber: 2.2 Consensus size: 63
53678934 AATAACAAAC
* * * * * *
53678944 AGTGAGTCATACGGCCTGGACACATGCTGGTGTCTCTAGCTTATTTGGTCTTTAATGGTAAAT
1 AGTGAGTCACACAGCCTGGACACACGCTGGTGTCTCTAGCTCATGTGGTCTTTAAAGGTAAAT
* * *
53679007 AGTGAGTCACACAGCTTGGACACACGCTTGTGTCTCTAGCTCGTGTGGTCTTTAAAGGTAAAT
1 AGTGAGTCACACAGCCTGGACACACGCTGGTGTCTCTAGCTCATGTGGTCTTTAAAGGTAAAT
53679070 AGTGAGTCACA
1 AGTGAGTCACA
53679081 GGGCCTAACA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (63 bp):
AGTGAGTCACACAGCCTGGACACACGCTGGTGTCTCTAGCTCATGTGGTCTTTAAAGGTAAAT
Found at i:53679660 original size:20 final size:20
Alignment explanation
Indices: 53679607--53679673 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
53679597 CAACCAAGCG
*
53679607 GAAAATAAAAGAGAAGCAAAGAA
1 GAAAACAAAAG-GAAG-AAA-AA
53679630 -AAAAGCAAAAGGAAGAAAAA
1 GAAAA-CAAAAGGAAGAAAAA
* *
53679650 GAAAACAAAAGTAAGAAGAA
1 GAAAACAAAAGGAAGAAAAA
53679670 GAAA
1 GAAA
53679674 GAAAGAAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 19 0.49
21 7 0.18
22 8 0.21
23 5 0.13
ACGTcount: A:0.72, C:0.04, G:0.21, T:0.03
Consensus pattern (20 bp):
GAAAACAAAAGGAAGAAAAA
Found at i:53682016 original size:25 final size:27
Alignment explanation
Indices: 53681988--53682044 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
53681978 TAAAATTAAT
*
53681988 TAATTGAGACT-AAAACTCTA-ATACA
1 TAATTGAGACTAAAAAATCTAGATACA
53682013 TAA-TGAGACTAAAAAATCTAGATACA
1 TAATTGAGACTAAAAAATCTAGATACA
53682039 TAATTG
1 TAATTG
53682045 TGTATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 7 0.25
25 11 0.39
26 8 0.29
27 2 0.07
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (27 bp):
TAATTGAGACTAAAAAATCTAGATACA
Found at i:53682019 original size:24 final size:26
Alignment explanation
Indices: 53681992--53682042 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
53681982 ATTAATTAAT
*
53681992 TGAGACT-AAAACTCTA-ATACATAA
1 TGAGACTAAAAAATCTAGATACATAA
53682016 TGAGACTAAAAAATCTAGATACATAA
1 TGAGACTAAAAAATCTAGATACATAA
53682042 T
1 T
53682043 TGTGTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 7 0.29
25 8 0.33
26 9 0.38
ACGTcount: A:0.51, C:0.14, G:0.10, T:0.25
Consensus pattern (26 bp):
TGAGACTAAAAAATCTAGATACATAA
Found at i:53683856 original size:14 final size:14
Alignment explanation
Indices: 53683817--53683858 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
53683807 TTTATTAGGT
53683817 TTTTAATACAT-TA
1 TTTTAATACATATA
* *
53683830 TTTTAAAATATATA
1 TTTTAATACATATA
*
53683844 TTTTGATACATATA
1 TTTTAATACATATA
53683858 T
1 T
53683859 GTGCTCTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (14 bp):
TTTTAATACATATA
Found at i:53689223 original size:25 final size:24
Alignment explanation
Indices: 53689154--53689245 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 24
53689144 CGGACTACCA
* *
53689154 CAGCTAGTATGAGCTTACCAATTT
1 CAGCTCGTATGAGCTTACCGATTT
*
53689178 ACAGCTCATGA-GAGCTTACCGATTCT
1 -CAGCTCGT-ATGAGCTTACCGATT-T
53689204 CAGCTCGTATGAGCTTACCGTATTT
1 CAGCTCGTATGAGCTTACCG-ATTT
* *
53689229 CAGCTTGGATGAGCTTA
1 CAGCTCGTATGAGCTTA
53689246 TTTTATTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
24 1 0.02
25 51 0.89
26 5 0.09
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACCGATTT
Found at i:53696242 original size:21 final size:21
Alignment explanation
Indices: 53696213--53696265 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
53696203 GGGTACATGG
* *
53696213 CCGTTTAACTGCGGGACACGC
1 CCGTGTAACTGAGGGACACGC
53696234 CCGTGTAACTGAGGGACACGC
1 CCGTGTAACTGAGGGACACGC
* *
53696255 TCGTGTGACTG
1 CCGTGTAACTG
53696266 GGTTACACGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.21
Consensus pattern (21 bp):
CCGTGTAACTGAGGGACACGC
Found at i:53697071 original size:17 final size:19
Alignment explanation
Indices: 53697049--53697084 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
53697039 TATTTTTTAA
53697049 AACAAA-TAAAA-TAAAAT
1 AACAAATTAAAACTAAAAT
53697066 AACAAATTAAAACTAAAAT
1 AACAAATTAAAACTAAAAT
53697085 GTAACTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (19 bp):
AACAAATTAAAACTAAAAT
Found at i:53704776 original size:19 final size:20
Alignment explanation
Indices: 53704736--53704779 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
53704726 GTCTCTTTTC
* *
53704736 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
53704755 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
53704774 GCATTA
1 GCATTA
53704780 AACACCTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:53706671 original size:19 final size:19
Alignment explanation
Indices: 53706643--53706682 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53706633 GCAAATGTTC
53706643 TTTCACTCTTTACGATTTT
1 TTTCACTCTTTACGATTTT
* **
53706662 TTTCATTCTTTTGGATTTT
1 TTTCACTCTTTACGATTTT
53706681 TT
1 TT
53706683 CTGCCAAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.07, T:0.65
Consensus pattern (19 bp):
TTTCACTCTTTACGATTTT
Found at i:53707629 original size:7 final size:7
Alignment explanation
Indices: 53707604--53707645 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
53707594 AATGATGTGA
53707604 AAAAATG
1 AAAAATG
53707611 AAAAGATG
1 AAAA-ATG
53707619 -AAAATG
1 AAAAATG
53707625 AAAAATG
1 AAAAATG
53707632 AAAAA-G
1 AAAAATG
53707638 TAAAAATG
1 -AAAAATG
53707646 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:53707643 original size:21 final size:21
Alignment explanation
Indices: 53707604--53707645 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
53707594 AATGATGTGA
*
53707604 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
53707625 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
53707646 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:53709355 original size:261 final size:260
Alignment explanation
Indices: 53708891--53709623 Score: 1337
Period size: 261 Copynumber: 2.8 Consensus size: 260
53708881 TAAAACCTTA
* *
53708891 TCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGA
1 TCTCCCTAAGCAGTAGT-GGGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGA
*
53708956 GTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATC
65 GTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATC
53709020 TTGTCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGA
129 TTGTCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGA
*
53709085 GTACATTGAAGCCAGTAATTCTACTTCACTAGGCAGTAGTGGAATAGATTGAAGATTTTAGATCT
194 GTACATTGAAGCCAGTAATTCTACTTCACTAGGCAGTAGTGGAATAGATTGAAGATTTCAGATCT
53709150 TG
259 TG
* *
53709152 TCTCCCTAAGTAGTAGTGGGGCAGATCAAAGATGGTGAATTTTACCTCTCTGTGGTTACAGTGGA
1 TCTCCCTAAGCAGTAGT-GGGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGA
53709217 GTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCT
65 GTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCT
53709282 TGTCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAG
130 TGTCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAG
* *
53709347 TACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTT
195 TACATTGAAGCCAGTAATTCTACTTCACTAGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTT
53709412 G
260 G
*
53709413 TCTCCCTAAGCAGTAGTGGG--GATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAG
1 TCTCCCTAAGCAGTAGTGGGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAG
53709476 TACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTT
66 TACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTT
53709541 GTCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGT
131 GTCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGT
53709606 ACATTGAAGCCAGTAATT
196 ACATTGAAGCCAGTAATT
53709624 TTATCTCCCT
Statistics
Matches: 459, Mismatches: 12, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
258 189 0.41
260 3 0.01
261 266 0.58
262 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (260 bp):
TCTCCCTAAGCAGTAGTGGGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAG
TACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTT
GTCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGT
ACATTGAAGCCAGTAATTCTACTTCACTAGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTG
Found at i:53709673 original size:129 final size:129
Alignment explanation
Indices: 53708891--53709658 Score: 1315
Period size: 129 Copynumber: 5.9 Consensus size: 129
53708881 TAAAACCTTA
* * *
53708891 TCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGA
1 TCTCCCTAAGCAGTAGT-G-G-GGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGA
*
53708956 GTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATC
63 GTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATC
53709020 TTG
127 TTG
53709023 TCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTA
1 TCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTA
* * *
53709088 CATTGAAGCCAGTAATTCTACTTCACTAGGCAGTAGTGGAATAGATTGAAGATTTTAGATCTTG
66 CATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTG
* * *
53709152 TCTCCCTAAGTAGTAGTGGGGCAGATCAAAGATGGTGAATTTTACCTCTCTGTGGTTACAGTGGA
1 TCTCCCTAAGCAGTAGT-GGG--GATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGA
53709217 GTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCT
63 GTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCT
53709282 TG
128 TG
53709284 TCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTA
1 TCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTA
53709349 CATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTG
66 CATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTG
53709413 TCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTA
1 TCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTA
53709478 CATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTG
66 CATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTG
53709542 TCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTA
1 TCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTA
* * * * *
53709607 CATTGAAGCCAGTAATTTTA-TCTCCCTGGTCGGCAGTGGAATAGATCGAAGA
66 CATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGTAGTGGAATAGATTGAAGA
53709659 AAACATATAT
Statistics
Matches: 610, Mismatches: 21, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
128 1 0.00
129 463 0.76
130 5 0.01
131 4 0.01
132 137 0.22
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (129 bp):
TCTCCCTAAGCAGTAGTGGGGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTA
CATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTG
Found at i:53709700 original size:390 final size:389
Alignment explanation
Indices: 53708913--53709673 Score: 1269
Period size: 390 Copynumber: 2.0 Consensus size: 389
53708903 GTAGTAGAGC
*
53708913 AGATCAAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
53708978 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGG
66 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGG
53709043 GATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
131 GATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
* *
53709108 CTTCACTAGGCAGTAGTGGAATAGATTGAAGATTTTAGATCTTGTCTCCCTAAGTAGTAGTGGGG
196 CTTCACTAGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGG
*
53709173 CAGATCAAAGATGGTGAATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
261 -AGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * *** * * *
53709238 TACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG
325 TACTTCCCTGGGCAGCAGTGGAATAGATCGAAGAAAACAGATATTGTCTCCATAAGCAGGAGTGG
* *
53709303 GGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
53709368 A-CTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG
66 ATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG
53709432 GGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
130 GGATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* *
53709497 ACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT-GG
195 ACTTCACTAGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGG
* *
53709561 G-GATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTT
260 GAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * *
53709625 TA-TCTCCCTGGTCGGCAGTGGAATAGATCGAAGAAAACATATATTGTCT
325 TACT-TCCCTGGGCAGCAGTGGAATAGATCGAAGAAAACAGATATTGTCT
53709674 TCATGTTTTG
Statistics
Matches: 349, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
386 1 0.00
387 98 0.28
389 4 0.01
390 246 0.70
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (389 bp):
AGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGG
GATCAAATATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
CTTCACTAGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGG
AGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
ACTTCCCTGGGCAGCAGTGGAATAGATCGAAGAAAACAGATATTGTCTCCATAAGCAGGAGTGG
Found at i:53709717 original size:44 final size:44
Alignment explanation
Indices: 53709668--53709757 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 44
53709658 AAAACATATA
*
53709668 TTGTCTTCATGTTTTGGCGTGAAGTAGATCAAAGA-TAGCAGATC
1 TTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATTA-CAGATC
*
53709712 TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTACAGATC
1 TTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATTACAGATC
53709756 TT
1 TT
53709758 ATCTCCCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 41 0.95
45 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (44 bp):
TTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATTACAGATC
Found at i:53710069 original size:44 final size:44
Alignment explanation
Indices: 53710020--53710198 Score: 216
Period size: 44 Copynumber: 4.0 Consensus size: 44
53710010 AAAACATATA
*
53710020 TTGTCTTCATGTTTTGGCGTGAAGTAGATCAAAGATAGCAGATC
1 TTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATC
*** * * * * * *
53710064 TTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATC
1 TTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGCAGATC
* *
53710109 TTTTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATC
1 TTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATC
*
53710153 TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTA-CAGATC
1 TTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGA-TAGCAGATC
53710197 TT
1 TT
53710199 ATCTCCCTAA
Statistics
Matches: 109, Mismatches: 24, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
44 73 0.67
45 36 0.33
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (44 bp):
TTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATC
Found at i:53710381 original size:44 final size:44
Alignment explanation
Indices: 53710175--53710382 Score: 134
Period size: 44 Copynumber: 4.7 Consensus size: 44
53710165 ATTGGCGTGA
** *
53710175 AGTAGATCGAAGATTACAGATCTTATCTCCCTA-AGCAGTAGTGG
1 AGTAGATCGAAGATGGCAGATTTTATCTCCCTAGA-CAGTAGTGG
* * * * **
53710219 AGCAGATCGAAGATGGCGGATTTTACCTTCCTGAGGTTA-TAGTGG
1 AGTAGATCGAAGATGGCAGATTTTATCTCCCT-A-GACAGTAGTGG
* * *** * * * * *
53710264 AGTACATTGAAGCCAGTA-ATTCTATCTCCCTGGGCAGCAGTGG
1 AGTAGATCGAAGATGGCAGATTTTATCTCCCTAGACAGTAGTGG
* * ** *
53710307 AATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGG
1 AGTAGATCGAAGATGGCAGATTTTATCTCCCTAGACAGTAGTGG
* *
53710351 AGTAGATCGAAGATGGTAGATTTTACCTCCCT
1 AGTAGATCGAAGATGGCAGATTTTATCTCCCT
53710383 GAGGTTACAG
Statistics
Matches: 116, Mismatches: 43, Indels: 10
0.69 0.25 0.06
Matches are distributed among these distances:
42 2 0.02
43 16 0.14
44 80 0.69
45 17 0.15
46 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
AGTAGATCGAAGATGGCAGATTTTATCTCCCTAGACAGTAGTGG
Found at i:53710425 original size:44 final size:44
Alignment explanation
Indices: 53710248--53710427 Score: 113
Period size: 44 Copynumber: 4.1 Consensus size: 44
53710238 ATTTTACCTT
*
53710248 CCTGAGGTTATAGTGGAGTACATTGAAGCCAGTA-ATTCTATCTC
1 CCTGAGG-TACAGTGGAGTACATTGAAGCCAGTACATTCTATCTC
* * * * *
53710292 CCTG-GGCAGCAGTGGAATAGATTGAAG--ATTACAGATCTTATCTC
1 CCTGAGGTA-CAGTGGAGTACATTGAAGCCAGTACA-TTC-TATCTC
* * * *** * * *
53710336 CCTAGACAGT--AGTGGAGTAGATCGAAGATGGTAGATTTTACCTC
1 CCT-GA-GGTACAGTGGAGTACATTGAAGCCAGTACATTCTATCTC
53710380 CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA-ATTCTATCTC
1 CCTGAGG-TACAGTGGAGTACATTGAAGCCAGTACATTCTATCTC
53710424 CCTG
1 CCTG
53710428 GGCACCAGTG
Statistics
Matches: 100, Mismatches: 24, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
41 3 0.03
42 3 0.03
43 22 0.22
44 48 0.48
45 20 0.20
46 3 0.03
47 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
CCTGAGGTACAGTGGAGTACATTGAAGCCAGTACATTCTATCTC
Found at i:53710489 original size:441 final size:441
Alignment explanation
Indices: 53709648--53710490 Score: 1296
Period size: 441 Copynumber: 1.9 Consensus size: 441
53709638 GGCAGTGGAA
* * *
53709648 TAGATCGAAGAAAACATATATTGTCTTCATGTTTTGGCGTGAAGTAGATCAAAGATAGCAGATCT
1 TAGATCGAAGAAAACAGATATTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCT
53709713 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
66 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
53709778 AGCAGATCGAAGATGGCGGATTTTACCTTCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAAT
131 AGCAGATCGAAGATGGCGGATTTTACCTTCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
53709843 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTACT
196 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAGTACT
* *
53709908 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTA
261 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTA
* * ** * * * ***** *
53709973 ATTTTATCTCCCTGGTCGGCAGTGGAATAGATCGAAGAAAACATATATTGTCTTCATGTTTTGGC
326 ATTCTATCTCCCTGGGCACCAGTGGAATAGATCGAAGAAAACAGATATTATCTCCATAAACAGGA
53710038 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAG
391 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAG
** * *
53710089 TAGATCGAAGAAAGTAGATCTTTTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCT
1 TAGATCGAAGAAAACAGATATTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCT
53710154 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
66 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
53710219 AGCAGATCGAAGATGGCGGATTTTACCTTCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAAT
131 AGCAGATCGAAGATGGCGGATTTTACCTTCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
53710284 TCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT-AGACAGTA
196 TCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAG-CAGTA
* * * * *
53710347 GTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
259 CTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAG
* * * ** * *
53710412 TAATTCTATCTCCCTGGGCACCAGTGGAATGGATTGAATATTACAGATCTTATCTCCCTAAACAG
324 TAATTCTATCTCCCTGGGCACCAGTGGAATAGATCGAAGAAAACAGATATTATCTCCATAAACAG
*
53710477 TAGT-AGAGTAGATC
389 GAGTGA-AGTAGATC
53710491 GAATATGGTA
Statistics
Matches: 361, Mismatches: 38, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
440 4 0.01
441 357 0.99
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (441 bp):
TAGATCGAAGAAAACAGATATTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCT
TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGATGGCGGATTTTACCTTCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAGTACT
GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTA
ATTCTATCTCCCTGGGCACCAGTGGAATAGATCGAAGAAAACAGATATTATCTCCATAAACAGGA
GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAG
Found at i:53710594 original size:132 final size:132
Alignment explanation
Indices: 53708887--53710583 Score: 881
Period size: 132 Copynumber: 12.9 Consensus size: 132
53708877 ATCATAAAAC
* * * * * * *
53708887 CTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGTGGTTACAG
1 CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCTCTGAGGTTACAG
*
53708952 TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAG
66 TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
53709017 AT
131 AT
* * * * * *
53709019 CTTGTCTCCCTAAGCAGTAGTGG-G--GATCAAATATGGT-GAATTTTACCTCCCTGTGGTTACA
1 CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAG-ATTTTACCTCTCTGAGGTTACA
* * * **
53709080 GTGGAGTACATTGAAGCCAGTAATTCTA-CTTCACTAGGCAGTAGTGGAATAGATTGAAGATTTT
65 GTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTAC
53709144 AGAT
129 AGAT
* ** * * * *
53709148 CTTGTCTCCCTAAGTAGTAGTGGGGCAGATCAAAGATGGT-GAATTTTACCTCTCTGTGGTTACA
1 CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAG-ATTTTACCTCTCTGAGGTTACA
* *
53709212 GTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTC
65 GTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTAC
53709276 AGAT
129 AGAT
* * * * * *
53709280 CTTGTCTCCCTAAGCAGTAGTGG-G--GATCAAATATGGT-GAATTTTACCTCCCTGTGGTTACA
1 CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAG-ATTTTACCTCTCTGAGGTTACA
* *
53709341 GTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTC
65 GTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTAC
53709405 AGAT
129 AGAT
* * * * * *
53709409 CTTGTCTCCCTAAGCAGTAGTGG-G--GATCAAATATGGT-GAATTTTACCTCCCTGTGGTTACA
1 CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAG-ATTTTACCTCTCTGAGGTTACA
* *
53709470 GTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTC
65 GTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTAC
53709534 AGAT
129 AGAT
* * * * * *
53709538 CTTGTCTCCCTAAGCAGTAGTGG-G--GATCAAATATGGT-GAATTTTACCTCCCTGTGGTTACA
1 CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAG-ATTTTACCTCTCTGAGGTTACA
* * * * **
53709599 GTGGAGTACATTGAAGCCAGTAATTTTATCTCCCTGGTCGGCAGTGGAATAGATCGAAGAAAACA
65 GTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACA
*
53709664 TAT
130 GAT
* * * * ***** ** * * * * * ** *
53709667 ATTGTCTTCATGTTTTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCT-TCATGTA--TTGG
1 CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCTC-TG-AGGTT-A
* * * * * ** * ** *
53709729 C-GTGAAGTAGATCGAAG--ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
63 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA
** *
53709791 TGGCGGAT
125 TTACAGAT
* * * *** * * *** * * * *
53709799 TTTACCTTCCTGAGGTTA-TAGTGGAGTACATTGAAGCCAGTA-ATTCTACTTCCCTG-GG-CAG
1 CTTATCTCCCT-A-AACAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCTCTGAGGTTA-
* * * * ** * * ** **
53709860 CAGTGGAATAGATTGAAG--ATTTCAGATAT-TGTCTCCCTAAGCAGTACTGGAGCAGATCAAAG
63 CAGTGGAGTACATTGAAGCCA-GT-A-AT-TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAG
** *
53709922 ATGGCGGAT
124 ATTACAGAT
* * *** * ** *** * * *
53709931 TTTACCTCCCT--GTGGTTACAGTGGAGTACATTAAAGCCAGTA-ATTTTATCTCCCT--GGTCG
1 CTTATCTCCCTAAACAG-T--AGTGGAGTAGATCGAAGATGGTAGATTTTACCTCTCTGAGGT-T
* * * * ** ** * * * **** **
53709991 GCAGTGGAATAGATCGAAGAAAACATATAT-TGTCTTCATGTTTTGGC-GT-GAAGTAGATCAAA
62 ACAGTGGAGTACATTGAAGCCAGTA-AT-TCTATCTCCCTG-GGCAGCAGTGGAA-TAGATTGAA
53710053 GA-TAGCAGAT
123 GATTA-CAGAT
* * * * * * ** *
53710063 CTTGTCTTCCC-ATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTT-TCT-TCATGTA--T
1 CTTATC-TCCCTAAAC-AGTAGTGGAGTAGATCGAAGATGGTAGAT-TTTACCTCTC-TG-AGGT
* * * ** ** * * * * **** *
53710123 TGGCA-TGAAGTAGATCAAAGATAGCAGA-TCTTGTCTTCATGTATTGGC-GT-GAAGTAGATCG
61 T-ACAGTGGAGTACATTGAAGCCAGTA-ATTC-TATCTCCCTG-GGCAGCAGTGGAA-TAGATTG
53710184 AAGATTACAGAT
121 AAGATTACAGAT
* * ** *
53710196 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCT-TCCTGAGGTTATA
1 CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCT-CTGAGGTTACA
53710260 GTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACA
65 GTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACA
53710325 GAT
130 GAT
* *
53710328 CTTATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAG
1 CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCTCTGAGGTTACAG
* * *
53710393 TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCACCAGTGGAATGGATTGAATATTACAG
66 TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
53710458 AT
131 AT
* * *
53710460 CTTATCTCCCTAAACAGTAGTAGAGTAGATCGAATATGGTAGATTTTACCTCTCTAAGGTTACAG
1 CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCTCTGAGGTTACAG
* * * * * * *
53710525 TGGAGTATATTGAAGCCAGTAATTCTAACTCTCTGGTCGGCAGTGGAATCGATCGAAGA
66 TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA
53710584 AAGTAGATCT
Statistics
Matches: 1305, Mismatches: 199, Indels: 122
0.80 0.12 0.08
Matches are distributed among these distances:
128 3 0.00
129 483 0.37
130 5 0.00
131 31 0.02
132 652 0.50
133 113 0.09
134 16 0.01
135 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
CTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCTCTGAGGTTACAG
TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
AT
Found at i:53710643 original size:44 final size:44
Alignment explanation
Indices: 53710575--53710864 Score: 436
Period size: 44 Copynumber: 6.6 Consensus size: 44
53710565 CAGTGGAATC
*
53710575 GATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCATGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
*
53710619 GATCGAAGAAAGCAGATCTGGTCTTCATGTATTGGCATGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* *
53710663 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGGAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* **
53710707 GATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGTGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * *
53710751 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGGAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* *
53710795 GATCGAAGAAAGCAGATTTTGTCTTCATGTATTAGCATGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * *
53710839 GATCAAAGAGATCAGATCTTATCTTC
1 GATCGAAGAAAGCAGATCTTGTCTTC
53710865 CCATACTGGT
Statistics
Matches: 224, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 224 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (44 bp):
GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
Found at i:53713064 original size:14 final size:14
Alignment explanation
Indices: 53713045--53713073 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
53713035 TGATGTACAA
53713045 GCCCAATAATGCCC
1 GCCCAATAATGCCC
53713059 GCCCAATAATGCCC
1 GCCCAATAATGCCC
53713073 G
1 G
53713074 GGCCCAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.41, G:0.17, T:0.14
Consensus pattern (14 bp):
GCCCAATAATGCCC
Found at i:53716415 original size:19 final size:20
Alignment explanation
Indices: 53716371--53716416 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
53716361 AATGTCTCTT
*
53716371 TATGCA-TTCATTTCATGCA
1 TATGCATTTCATTACATGCA
53716390 T-TCGCATTTCATTACAT-CA
1 TAT-GCATTTCATTACATGCA
53716409 TATGCATT
1 TATGCATT
53716417 AAACACCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (20 bp):
TATGCATTTCATTACATGCA
Found at i:53718815 original size:21 final size:21
Alignment explanation
Indices: 53718802--53718845 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
53718792 AAAGAGTGAT
53718802 ATGAAAAATGAAAAGATGAAA
1 ATGAAAAATGAAAAGATGAAA
*
53718823 ATGAAAAATGAAAA-AAGAAA
1 ATGAAAAATGAAAAGATGAAA
53718843 ATG
1 ATG
53718846 GAGAGGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.14
Consensus pattern (21 bp):
ATGAAAAATGAAAAGATGAAA
Found at i:53718826 original size:6 final size:7
Alignment explanation
Indices: 53718802--53718843 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
53718792 AAAGAGTGAT
53718802 ATGAAAA
1 ATGAAAA
53718809 ATGAAAA
1 ATGAAAA
53718816 GATG-AAA
1 -ATGAAAA
53718823 ATGAAAA
1 ATGAAAA
53718830 ATGAAAA
1 ATGAAAA
*
53718837 AAGAAAA
1 ATGAAAA
53718844 TGGAGAGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 3 0.09
7 26 0.81
8 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (7 bp):
ATGAAAA
Found at i:53720161 original size:50 final size:50
Alignment explanation
Indices: 53720102--53720360 Score: 211
Period size: 50 Copynumber: 5.2 Consensus size: 50
53720092 GCAGTGGAAC
*
53720102 AGATTGAAGCTACGACGACGGATTTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCAATTAAAA
* * * * ** * * * * ** *
53720152 AGATTGAAGCCACAACGGCGAATCCT-ACTT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCTACGACGACGGAT-CTGGTTTCCCTGA-TATTGCAATTAAAA
*
53720202 AGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCACTTAAAA
1 AGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCAATTAAAA
* * * *** * * * * ** *
53720252 AGATTGAAGCCACAACGGCGGA-CTTACTT-CCTTAGCAGTGCAGTGGAAT
1 AGATTGAAGCTACGACGACGGATCTGGTTTCCCTGA-TATTGCAATTAAAA
53720301 AGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCAATTAAAA
53720351 AGATTGAAGC
1 AGATTGAAGC
53720361 CACAACGGCA
Statistics
Matches: 149, Mismatches: 53, Indels: 14
0.69 0.25 0.06
Matches are distributed among these distances:
48 4 0.03
49 37 0.25
50 99 0.66
51 9 0.06
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCAATTAAAA
Found at i:53720250 original size:100 final size:100
Alignment explanation
Indices: 53720076--53720433 Score: 569
Period size: 100 Copynumber: 3.6 Consensus size: 100
53720066 ACCATAGATT
*
53720076 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATTTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
53720141 TGCAATTAAAAAGATTGAAGCCACAACGGCGAATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGAATC
*
53720176 CTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
* *
53720241 TGCACTTAAAAAGATTGAAGCCACAACGGCGGA-C
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGAATC
*
53720275 TTACTTCCTTAGCAGTGCAGTGGAATAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
53720340 TGCAATTAAAAAGATTGAAGCCACAACGGC-AGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGA-ATC
* * * * ** *
53720375 TTACTTCCCT-GACGGTACGGTGGAACAGATTGAAGCTACGACGGTGGATCTAGTTTCCC
1 TTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCC
53720434 CGACATTGTA
Statistics
Matches: 239, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
99 95 0.40
100 144 0.60
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (100 bp):
TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
TGCAATTAAAAAGATTGAAGCCACAACGGCGAATC
Found at i:53720383 original size:50 final size:50
Alignment explanation
Indices: 53720130--53720386 Score: 205
Period size: 50 Copynumber: 5.2 Consensus size: 50
53720120 CGGATTTGGT
* *
53720130 TTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCCTAC
1 TTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTAC
* * * * ** * * * * ***
53720180 TT-CCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGT
1 TTCCCTGA-TATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTAC
*
53720230 TTCCCTGATATTGCACTTAAAAAGATTGAAGCCACAACGGCGGA-CTTAC
1 TTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTAC
* * * * ** * * * * ***
53720279 TT-CCTTAGCAGTGCAGTGGAATAGATTGAAGCTACGACGACGGATCTGGT
1 TTCCCTGA-TATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTAC
*
53720329 TTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTAC
1 TTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTAC
53720379 TTCCCTGA
1 TTCCCTGA
53720387 CGGTACGGTG
Statistics
Matches: 147, Mismatches: 55, Indels: 10
0.69 0.26 0.05
Matches are distributed among these distances:
48 4 0.03
49 35 0.24
50 100 0.68
51 8 0.05
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
TTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTAC
Found at i:53720459 original size:199 final size:199
Alignment explanation
Indices: 53720076--53720441 Score: 592
Period size: 199 Copynumber: 1.8 Consensus size: 199
53720066 ACCATAGATT
*
53720076 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATTTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
* *
53720141 TGCAATTAAAAAGATTGAAGCCACAACGGCGAATCCTACTTCCTTAGCAGTGCAGTGGAACAGAT
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGAATCCTACTTCCTGAGCAGTACAGTGGAACAGAT
* * *
53720206 TGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCACTTAAAAAGATTGAAGCCACAACGGC
131 TGAAGCTACGACGACGGATCTAGTTTCCCCGACATTGCACTTAAAAAGATTGAAGCCACAACGGC
53720271 GGAC
196 GGAC
*
53720275 TTACTTCCTTAGCAGTGCAGTGGAATAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
* * *
53720340 TGCAATTAAAAAGATTGAAGCCACAACGGC-AGATCTTACTTCCCTGA-CGGTACGGTGGAACAG
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGA-ATCCTACTT-CCTGAGCAGTACAGTGGAACAG
**
53720403 ATTGAAGCTACGACGGTGGATCTAGTTTCCCCGACATTG
129 ATTGAAGCTACGACGACGGATCTAGTTTCCCCGACATTG
53720442 TAGTTGAACA
Statistics
Matches: 153, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
198 1 0.01
199 148 0.97
200 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (199 bp):
TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
TGCAATTAAAAAGATTGAAGCCACAACGGCGAATCCTACTTCCTGAGCAGTACAGTGGAACAGAT
TGAAGCTACGACGACGGATCTAGTTTCCCCGACATTGCACTTAAAAAGATTGAAGCCACAACGGC
GGAC
Found at i:53720607 original size:44 final size:44
Alignment explanation
Indices: 53720559--53720901 Score: 205
Period size: 44 Copynumber: 7.8 Consensus size: 44
53720549 CCAATAATTC
*
53720559 TATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTAAAGATAACAGATCT
** * * * * *
53720603 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTAAAGATAACAGATCT
* * * * * ** **
53720647 TACCTCCCAGAGGTTA-CAGTGGAGTATATTGAAGCCAGTA-AT-T
1 TATCTCCCTG-GG-CAGCAGTGGAGTAGATTAAAGATAACAGATCT
* * *
53720690 CTATCTCCCTGGACAGCAGTTGAATAGATTAAAGATAACAGATCT
1 -TATCTCCCTGGGCAGCAGTGGAGTAGATTAAAGATAACAGATCT
** * * * * *
53720735 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTAAAGATAACAGATCT
* ** * *
53720779 TACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAAC---TC-
1 TATCTCCCTG-GGCAGCAGTGGAGTAGATTAAAG--A-TAACAGATCT
* * * *
53720823 TATCTCCCTGGGCAGCAGTGGAATAGATTGAGGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTAAAGATAACAGATCT
** * * *
53720867 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTAAAGAT
53720902 GGCAGATTTT
Statistics
Matches: 213, Mismatches: 72, Indels: 28
0.68 0.23 0.09
Matches are distributed among these distances:
40 3 0.01
41 1 0.00
42 1 0.00
43 38 0.18
44 133 0.62
45 32 0.15
46 1 0.00
47 1 0.00
48 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAGTAGATTAAAGATAACAGATCT
Found at i:53721040 original size:132 final size:132
Alignment explanation
Indices: 53720457--53720978 Score: 821
Period size: 132 Copynumber: 4.0 Consensus size: 132
53720447 GAACAAATTG
* * * **
53720457 AAGATTACAGATCTTGTCTCCCTAAGCAGTAGAGGAGCAGATCAAAGATG-GTGAATTTTACCTC
1 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAG-ATTTTACCTC
* *
53720521 CCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAGCAGTGGAATAGA
65 CCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGA
53720586 TTA
130 TTA
53720589 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCC
1 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCC
* * *
53720654 CAGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGACAGCAGTTGAATAGAT
66 CTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGAT
53720719 TA
131 TA
53720721 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCC
1 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCC
* *
53720786 CTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGCAGCAGTGGAATAGAT
66 CTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGAT
*
53720851 TG
131 TA
* * * *
53720853 AGGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACGTCC
1 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCC
* * * * * *
53720918 CTGAAGTTGCAGTAGAGTATATTGAAGCCAGTAATTCTATTTCCCTGGTCGGCAGTGGAAT
66 CTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAAT
53720979 CGGTCGAAGA
Statistics
Matches: 363, Mismatches: 26, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
132 362 1.00
133 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCC
CTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGAT
TA
Found at i:53721085 original size:45 final size:45
Alignment explanation
Indices: 53721016--53721406 Score: 342
Period size: 45 Copynumber: 8.8 Consensus size: 45
53721006 ATGTACTGGC
*
53721016 GTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTG
1 GTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
* * * * **** *
53721061 GCGAAGTAGATCGAAGAAAACAGATCTTATCTTTATGTACTGG-C
1 GTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
* *
53721105 GTGAAGTAGATCAAAGATACCAGATCTTGTCTTTCCATACTGGTG
1 GTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
* * * * *** *
53721150 GCGAAGCAGATCGAAA-AAAATAGATCTTGTCTTCATGTACTAGT-
1 GTGAAGTAGATC-AAAGATAACAGATCTTGTCTTCCCATACTGGTG
*
53721194 GTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTG
1 GTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
* * * * * *** * **
53721239 GCGAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTA-TCGAC
1 GTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
* * * *
53721283 GTGAAGTAGATCAAATACAACAGATATTGTCTCCCCATACTGGTG
1 GTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
* * ** *
53721328 GTGGAGTAGATTAAAGATAGTAGATCTTGCCTTCCCATACTGGTG
1 GTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
* *
53721373 GCGAAGTAGATCAAAGATAGCA-AGTCTTGTCTTC
1 GTGAAGTAGATCAAAGATAACAGA-TCTTGTCTTC
53721407 ATGTATTAAC
Statistics
Matches: 262, Mismatches: 78, Indels: 12
0.74 0.22 0.03
Matches are distributed among these distances:
43 3 0.01
44 97 0.37
45 159 0.61
46 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
GTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
Found at i:53721109 original size:89 final size:89
Alignment explanation
Indices: 53720982--53721328 Score: 525
Period size: 89 Copynumber: 3.9 Consensus size: 89
53720972 GTGGAATCGG
*
53720982 TCGAAGAAAGCAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTC
1 TCGAAGAAAACAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTC
*
53721047 TTCCCATACTGGTGGCGAAGTAGA
66 TTCCCATACTGGTGGCGAAGCAGA
*
53721071 TCGAAGAAAACAGATCTTATCTTTATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTC
1 TCGAAGAAAACAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTC
*
53721136 TTTCCATACTGGTGGCGAAGCAGA
66 TTCCCATACTGGTGGCGAAGCAGA
* * * * *
53721160 TCGAAAAAAATAGATCTTGTCTTCATGTACTAGTGTGAAGTAGATCAAAGATACCAGATCTTGTC
1 TCGAAGAAAACAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTC
53721225 TTCCCATACTGGTGGCGAAGCAGA
66 TTCCCATACTGGTGGCGAAGCAGA
* * * * * * *
53721249 TCGAAGAAAACAAATCTTGTCTTCATGTA-TCGACGTGAAGTAGATCAAATACAACAGATATTGT
1 TCGAAGAAAACAGATCTTATCTTCATGTACT-GGCGTGAAGTAGATCAAAGATACCAGATCTTGT
*
53721313 CTCCCCATACTGGTGG
65 CTTCCCATACTGGTGG
53721329 TGGAGTAGAT
Statistics
Matches: 235, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
88 1 0.00
89 234 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (89 bp):
TCGAAGAAAACAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTC
TTCCCATACTGGTGGCGAAGCAGA
Found at i:53721354 original size:178 final size:178
Alignment explanation
Indices: 53720993--53721406 Score: 537
Period size: 178 Copynumber: 2.3 Consensus size: 178
53720983 CGAAGAAAGC
* *
53720993 AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
* * * * *
53721058 GTGGCGAAGTAGATCGAAGAAAACAGATCTTATCTTTATGTACTGGCGTGAAGTAGATCAAAGAT
66 GTGGCGAAGCAGATCGAAGAAAACAAATCTTATCTTCATGTACTGACGTGAAGTAGATCAAAGAC
* * **
53721123 ACCAGATCTTGTCTTTCCATACTGGTGGCGAAGCAGATCGAAAAAAAT
131 AACAGATATTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAAAAAAT
*
53721171 AGATCTTGTCTTCATGTACTAGTGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
* *
53721236 GTGGCGAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTA-TCGACGTGAAGTAGATCAAATA
66 GTGGCGAAGCAGATCGAAGAAAACAAATCTTATCTTCATGTACT-GACGTGAAGTAGATCAAAGA
* * * * * *
53721300 CAACAGATATTGTCTCCCCATACTGGTGGTGGAGTAGAT-TAAAGATAGT
130 CAACAGATATTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAA-AAAAT
* *** * *
53721349 AGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGATAGCA-AGTCTTGTCTTC
1 AGATCTTGTCTTCATGTACTGGT-GTGAAGTAGATCAAAGATACCAGA-TCTTGTCTTC
53721407 ATGTATTAAC
Statistics
Matches: 205, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
177 4 0.02
178 171 0.83
179 30 0.15
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (178 bp):
AGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
GTGGCGAAGCAGATCGAAGAAAACAAATCTTATCTTCATGTACTGACGTGAAGTAGATCAAAGAC
AACAGATATTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAAAAAAT
Found at i:53727869 original size:38 final size:38
Alignment explanation
Indices: 53727827--53727908 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
53727817 TACGAGCACG
53727827 AAGCCTACGGACATTAATCAGGATAATACTCTCGCATA
1 AAGCCTACGGACATTAATCAGGATAATACTCTCGCATA
53727865 AAGCCTACGGACATTAATCAGGATAATACTCTCGCATA
1 AAGCCTACGGACATTAATCAGGATAATACTCTCGCATA
53727903 AAGCCT
1 AAGCCT
53727909 GCGGGGTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (38 bp):
AAGCCTACGGACATTAATCAGGATAATACTCTCGCATA
Found at i:53728035 original size:25 final size:25
Alignment explanation
Indices: 53728007--53728084 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
53727997 CTCGGCCCTG
53728007 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
** * *** *
53728032 TCACATCGA-CCA-TTAGGC-CTCA
1 TCACATATATACACTTTCACATTCA
53728054 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
53728079 TCACAT
1 TCACAT
53728085 CGGCTATTAG
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 10 0.28
23 5 0.14
24 5 0.14
25 16 0.44
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.32
Consensus pattern (25 bp):
TCACATATATACACTTTCACATTCA
Found at i:53728318 original size:49 final size:49
Alignment explanation
Indices: 53727956--53729190 Score: 2103
Period size: 49 Copynumber: 25.6 Consensus size: 49
53727946 CCCTGCGGGA
*** * *
53727956 CTTATCACAT-T-TATACACTTTCACA-TCTATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTC-ATCACACCGGCCATTAGGC
* * * *
53728003 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
* * *
53728050 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
* *
53728097 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
* *
53728144 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
* *
53728191 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
*
53728238 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
*
53728285 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
*
53728334 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728383 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728432 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728481 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728530 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728579 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728628 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728677 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728726 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728775 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728824 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728873 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728922 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53728971 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
* *
53729020 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
* *
53729069 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53729118 CTTATCAC--ATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
53729165 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
53729191 CACAATTATC
Statistics
Matches: 1158, Mismatches: 23, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 320 0.28
48 2 0.00
49 835 0.72
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
Found at i:53736278 original size:13 final size:12
Alignment explanation
Indices: 53736256--53736288 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
53736246 TACCTGTTCC
53736256 TTTTTAACTCGA
1 TTTTTAACTCGA
53736268 TTTTTACACTCGA
1 TTTTTA-ACTCGA
53736281 -TTTTAACT
1 TTTTTAACT
53736289 TATTATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 11 0.55
13 6 0.30
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (12 bp):
TTTTTAACTCGA
Found at i:53741364 original size:90 final size:90
Alignment explanation
Indices: 53741265--53741443 Score: 322
Period size: 90 Copynumber: 2.0 Consensus size: 90
53741255 TAGTAATAAT
** *
53741265 TTTAAAAATAAAAATTTAAAAAAATGAATTGCAAAAAAGACAAAATAACCAAAAAATGAAATTAA
1 TTTAAAAATAAAAATAAAAAAAAACGAATTGCAAAAAAGACAAAATAACCAAAAAATGAAATTAA
*
53741330 AATAGAACAGGGACCAATTTGCAAA
66 AATAGAAAAGGGACCAATTTGCAAA
53741355 TTTAAAAATAAAAATAAAAAAAAACGAATTGCAAAAAAGACAAAATAACCAAAAAATGAAATTAA
1 TTTAAAAATAAAAATAAAAAAAAACGAATTGCAAAAAAGACAAAATAACCAAAAAATGAAATTAA
53741420 AATAGAAAAGGGACCAATTTGCAA
66 AATAGAAAAGGGACCAATTTGCAA
53741444 CGCATGCATT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.63, C:0.09, G:0.10, T:0.18
Consensus pattern (90 bp):
TTTAAAAATAAAAATAAAAAAAAACGAATTGCAAAAAAGACAAAATAACCAAAAAATGAAATTAA
AATAGAAAAGGGACCAATTTGCAAA
Found at i:53742676 original size:89 final size:88
Alignment explanation
Indices: 53742542--53742715 Score: 294
Period size: 89 Copynumber: 2.0 Consensus size: 88
53742532 GTAAGACTTG
* * *
53742542 TATCTTCGATCTACTTCACACTAGTATGGAAAGACACGATCTGCTATCTCTGATCTACTTCATGT
1 TATCTTCGATCTACTTCACACTAGTATGGAAAGACAAGATCTGCTATCTCTGATCTACTTCACGC
53742607 CAATACATGAAGACAAGATCCAT
66 CAATACATGAAGACAAGATCCAT
* *
53742630 TATCTTCGATCTACTTCACCACTAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACG
1 TATCTTCGATCTACTTCA-CACTAGTATGGAAAGACAAGATCTGCTATCTCTGATCTACTTCACG
53742695 CCAATACATGAAGACAAGATC
65 CCAATACATGAAGACAAGATC
53742716 TGCTGCTTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
88 18 0.22
89 62 0.77
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (88 bp):
TATCTTCGATCTACTTCACACTAGTATGGAAAGACAAGATCTGCTATCTCTGATCTACTTCACGC
CAATACATGAAGACAAGATCCAT
Found at i:53742679 original size:45 final size:45
Alignment explanation
Indices: 53742542--53742693 Score: 161
Period size: 44 Copynumber: 3.4 Consensus size: 45
53742532 GTAAGACTTG
* *
53742542 TATCTTCGATCTACTTCA-CACTAGTATGGAAAGACACGATCTGC
1 TATCTTCGATCTACTTCACCACTAGTATGGGAAGACAAGATCTGC
* * * ***
53742586 TATC-TCTGATCTACTTCATGTCAATA-CAT--GAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCA--CCACTAGTATGGGAAGACAAGATCTGC
53742630 TATCTTCGATCTACTTCACCACTAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACCACTAGTATGGGAAGACAAGATCTGC
*
53742675 TATCTTTGATCTACTTCAC
1 TATCTTCGATCTACTTCAC
53742694 GCCAATACAT
Statistics
Matches: 86, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
42 4 0.05
43 4 0.05
44 40 0.47
45 32 0.37
46 2 0.02
47 4 0.05
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTACTTCACCACTAGTATGGGAAGACAAGATCTGC
Found at i:53744013 original size:14 final size:14
Alignment explanation
Indices: 53743994--53744036 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
53743984 CCTTAGCCTC
53743994 TCCATTTTACTTTT
1 TCCATTTTACTTTT
*
53744008 TCCATTTTTCATTTT
1 TCCATTTTAC-TTTT
53744023 TCC-TTTTCACTTTT
1 TCCATTTT-ACTTTT
53744037 CATTTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (14 bp):
TCCATTTTACTTTT
Found at i:53744020 original size:21 final size:20
Alignment explanation
Indices: 53743996--53744042 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
53743986 TTAGCCTCTC
* *
53743996 CATTTTACTTTTTCCATTTTT
1 CATTTTACCTTTT-CACTTTT
*
53744017 CATTTTTCCTTTTCACTTTT
1 CATTTTACCTTTTCACTTTT
53744037 CATTTT
1 CATTTT
53744043 TTTCATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.66
Consensus pattern (20 bp):
CATTTTACCTTTTCACTTTT
Found at i:53746932 original size:19 final size:20
Alignment explanation
Indices: 53746908--53746951 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
53746898 TACCGGTGTT
* *
53746908 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
53746927 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
53746947 -AATGC
1 TAATGC
53746952 CTAAAGAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:53747423 original size:16 final size:16
Alignment explanation
Indices: 53747402--53747433 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
53747392 ATAATGAAAT
*
53747402 GCCATGTAGTCAAAAC
1 GCCATGCAGTCAAAAC
53747418 GCCATGCAGTCAAAAC
1 GCCATGCAGTCAAAAC
53747434 AAAATAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (16 bp):
GCCATGCAGTCAAAAC
Found at i:53750221 original size:3 final size:3
Alignment explanation
Indices: 53750213--53750253 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
53750203 TATGTATAGA
*
53750213 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT GAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A
53750254 CTATTGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:53751535 original size:19 final size:19
Alignment explanation
Indices: 53751513--53751570 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
53751503 AAATAGAAAT
53751513 AAATATATAAAATTCATAA
1 AAATATATAAAATTCATAA
* *
53751532 AAATATATATAA-TCTAGAA
1 AAATATATAAAATTC-ATAA
*
53751551 AAAAATAT-AAATT-ATAA
1 AAATATATAAAATTCATAA
53751568 AAA
1 AAA
53751571 ATTTACAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 6 0.19
18 4 0.12
19 22 0.69
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATATATAAAATTCATAA
Found at i:53751644 original size:11 final size:11
Alignment explanation
Indices: 53751628--53751653 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53751618 ATATTATTAG
53751628 AAAAAATTGTA
1 AAAAAATTGTA
53751639 AAAAAATTGTA
1 AAAAAATTGTA
53751650 AAAA
1 AAAA
53751654 TTATTAAAAA
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:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (11 bp):
AAAAAATTGTA
Found at i:53752194 original size:15 final size:15
Alignment explanation
Indices: 53752174--53752204 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53752164 ACTTTTTAGA
53752174 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
53752189 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
53752204 A
1 A
53752205 AAAAATTAAT
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:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:53754927 original size:20 final size:21
Alignment explanation
Indices: 53754880--53754927 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
53754870 TTGACTTGTT
53754880 TTAAAA-TAGTTTTAACTCAA
1 TTAAAATTAGTTTTAACTCAA
**
53754900 TTAAAATTA-TTTTAACTTGA
1 TTAAAATTAGTTTTAACTCAA
53754920 TTAAAATT
1 TTAAAATT
53754928 TGATTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (21 bp):
TTAAAATTAGTTTTAACTCAA
Found at i:53756374 original size:6 final size:6
Alignment explanation
Indices: 53756336--53756373 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
53756326 TTTTCTTGAG
*
53756336 AAAATA AAAATA AAAATA AAAATA AAAATA AACATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
53756374 CGTTTTAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:53757218 original size:13 final size:14
Alignment explanation
Indices: 53757200--53757228 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
53757190 GGAGTGAGCA
53757200 TTTTTCTTTT-ATT
1 TTTTTCTTTTCATT
53757213 TTTTTCTTTTCATT
1 TTTTTCTTTTCATT
53757227 TT
1 TT
53757229 CATTTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTCATT
Found at i:53759869 original size:20 final size:19
Alignment explanation
Indices: 53759839--53759878 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
53759829 TGAAAAATGA
53759839 TTTTCGGAAAATAATTTAC
1 TTTTCGGAAAATAATTTAC
*
53759858 TTTTCTGGAAAATGATTTAC
1 TTTTC-GGAAAATAATTTAC
53759878 T
1 T
53759879 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (19 bp):
TTTTCGGAAAATAATTTAC
Found at i:53768768 original size:17 final size:17
Alignment explanation
Indices: 53768743--53768777 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
53768733 CATGTTGCAT
*
53768743 GCCCTTGTGGCCCACAC
1 GCCCGTGTGGCCCACAC
53768760 GCCCGTGTGGCCCACAC
1 GCCCGTGTGGCCCACAC
53768777 G
1 G
53768778 GCCCAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.46, G:0.29, T:0.14
Consensus pattern (17 bp):
GCCCGTGTGGCCCACAC
Found at i:53769596 original size:138 final size:139
Alignment explanation
Indices: 53769338--53769603 Score: 410
Period size: 138 Copynumber: 1.9 Consensus size: 139
53769328 GGGAAAAACA
* * *
53769338 AATACTTACTGAATCGAGCGAGTTCAATCGTCGAGTACGATGGAGGCATAAAAGAAATCAAAAGA
1 AATACTTACCGAATCGAACGAGTTCAATCGTCGAGCACGATGGAGGCATAAAAGAAATCAAAAGA
** *
53769403 AAAGAGGGAGGAAACAATGAAAACTCGACAGAAAAGGGGTGAATAAATGTCAGAACGATGGAAGT
66 AAAGAGGGAGGAAACAATGAAAACTCGACAGAAAAGGGGTGAATAAACATCAGAACGAGGGAAGT
53769468 AGCAAAATG
131 AGCAAAATG
53769477 AATACTTACCGAATCGAACGAGTTCAATCGTCGAGCACGATGGAGGCATAAAA-AAATCAAAAGA
1 AATACTTACCGAATCGAACGAGTTCAATCGTCGAGCACGATGGAGGCATAAAAGAAATCAAAAGA
** * * *
53769541 AAAGAGGGA-GAAAGCAATGAAATTTCGGCAGAAAAGTGGTGAATAAACATTAGAACGAGGGAA
66 AAAGAGGGAGGAAA-CAATGAAAACTCGACAGAAAAGGGGTGAATAAACATCAGAACGAGGGAA
53769604 AAAATTTTGG
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
137 4 0.03
138 61 0.53
139 50 0.43
ACGTcount: A:0.45, C:0.13, G:0.26, T:0.16
Consensus pattern (139 bp):
AATACTTACCGAATCGAACGAGTTCAATCGTCGAGCACGATGGAGGCATAAAAGAAATCAAAAGA
AAAGAGGGAGGAAACAATGAAAACTCGACAGAAAAGGGGTGAATAAACATCAGAACGAGGGAAGT
AGCAAAATG
Found at i:53769945 original size:76 final size:76
Alignment explanation
Indices: 53769819--53769971 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
53769809 CACTCAAACA
53769819 CTACAGCATTTTGGTCAACCTACAACACTCACACGGCACAAGTAGTAAAAATAAATCCTTTGTTC
1 CTACAGCATTTTGGTCAACCTACAACACTCACACGGCACAAGTAGTAAAAATAAATCCTTTGTTC
53769884 ACGTAAAGTCT
66 ACGTAAAGTCT
53769895 CTACAGCATTTTGGTCAACCTACAACACTCACACGGCACAAGTAGTAAAAATAAATCCTTTGTTC
1 CTACAGCATTTTGGTCAACCTACAACACTCACACGGCACAAGTAGTAAAAATAAATCCTTTGTTC
*
53769960 AGGTAAAGTCT
66 ACGTAAAGTCT
53769971 C
1 C
53769972 GAACTCCTAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (76 bp):
CTACAGCATTTTGGTCAACCTACAACACTCACACGGCACAAGTAGTAAAAATAAATCCTTTGTTC
ACGTAAAGTCT
Found at i:53771457 original size:21 final size:21
Alignment explanation
Indices: 53771433--53771480 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
53771423 AAGTTAGTTC
53771433 TTTCTTCTTTAATCTTTTTTA
1 TTTCTTCTTTAATCTTTTTTA
53771454 TTTCTTCTTTAATCTTTTTTA
1 TTTCTTCTTTAATCTTTTTTA
53771475 TTTCTT
1 TTTCTT
53771481 TCTTCTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTCTTCTTTAATCTTTTTTA
Done.