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 288 of 313
Found at i:88159244 original size:39 final size:39
Alignment explanation
Indices: 88159186--88159342 Score: 133
Period size: 39 Copynumber: 4.0 Consensus size: 39
88159176 TTCAGTGATG
**
88159186 TATATCCGGACTTAGGGT-CCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCCGCAGGCT-TGTGCTGGAAT
* * * *
88159225 TATATCCGGACTTAAGGT-CCGTAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCCGCAGGCT-TGTGCTGGAAT
* * * *
88159264 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAAGTCCCGCAGGCTT-GTGCTGGAAT
** *
88159303 TATA-CCGGGTTTAAATTCCCGCAGGCTTGTGCTGGTAAT
1 TATATCCGGACTTAAAGTCCCGCAGGCTTGTGCTGG-AAT
88159342 T
1 T
88159343 GGTTTCAAGT
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
38 16 0.16
39 81 0.84
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCCGCAGGCTTGTGCTGGAAT
Found at i:88161005 original size:41 final size:41
Alignment explanation
Indices: 88160947--88161025 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
88160937 TCCACACGGG
* *
88160947 TAGAGACACGAGTGTGTGTCTCAGCTGTGTGGGACACAGAT
1 TAGAGACACGAGCGTGTGTCTCAGCCGTGTGGGACACAGAT
* *
88160988 TAGAGACACCG-GCGTGTGTCTTAGCCGTGTGTGACACA
1 TAGAGACA-CGAGCGTGTGTCTCAGCCGTGTGGGACACA
88161026 CAGTCATGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (41 bp):
TAGAGACACGAGCGTGTGTCTCAGCCGTGTGGGACACAGAT
Found at i:88170664 original size:18 final size:18
Alignment explanation
Indices: 88170637--88170677 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
88170627 TGAGTTATAT
88170637 GTTG-AAATATTCAATTG
1 GTTGAAAATATTCAATTG
*
88170654 GTTGAAAATATTTAATTG
1 GTTGAAAATATTCAATTG
88170672 GTTGAA
1 GTTGAA
88170678 TTGTATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (18 bp):
GTTGAAAATATTCAATTG
Found at i:88173516 original size:24 final size:24
Alignment explanation
Indices: 88173489--88173547 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
88173479 TAGCTCAAAA
88173489 GAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACTGTTTTCAGCTCATTG
* * *
88173513 GAGCTTACCG-TTTCAGCTCGTTT
1 GAGCTTACTGTTTTCAGCTCATTG
*
88173536 GAGCTTATTGTT
1 GAGCTTACTGTT
88173548 CAGCTTGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.42
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCATTG
Found at i:88173552 original size:22 final size:22
Alignment explanation
Indices: 88173501--88173569 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
88173491 GCTTACTGTT
* * **
88173501 TTCAGCTCATTGGAGCTTACCG
1 TTCAGCTCGTTTGAGCTTATTG
88173523 TTTCAGCTCGTTTGAGCTTATTG
1 -TTCAGCTCGTTTGAGCTTATTG
* *
88173546 TTCAGCTTGTATGAGCTTATTG
1 TTCAGCTCGTTTGAGCTTATTG
88173568 TT
1 TT
88173570 TATCAGCTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 22 0.55
23 18 0.45
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.43
Consensus pattern (22 bp):
TTCAGCTCGTTTGAGCTTATTG
Found at i:88182417 original size:40 final size:40
Alignment explanation
Indices: 88182100--88182403 Score: 431
Period size: 40 Copynumber: 7.7 Consensus size: 40
88182090 TTGAATGATG
* * *
88182100 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
88182139 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88182179 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
88182218 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
88182258 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
88182298 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88182338 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
88182379 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
88182404 AACGAGGAGC
Statistics
Matches: 246, Mismatches: 12, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 53 0.22
40 183 0.74
41 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88185399 original size:27 final size:27
Alignment explanation
Indices: 88185369--88185428 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
88185359 CGACTGTGGA
*
88185369 CCCCTAACTGGTAAAATGACTATTATG
1 CCCCTAACTGATAAAATGACTATTATG
** * * *
88185396 CCCCTATGTGATAAAGTGAGTGTTATG
1 CCCCTAACTGATAAAATGACTATTATG
88185423 CCCCTA
1 CCCCTA
88185429 TGAGATGTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (27 bp):
CCCCTAACTGATAAAATGACTATTATG
Found at i:88199513 original size:44 final size:44
Alignment explanation
Indices: 88199434--88199550 Score: 179
Period size: 44 Copynumber: 2.8 Consensus size: 44
88199424 GTGAATTGTA
* *
88199434 ATAGCTTCGATT-ATATGA-GGCACTAAA-TGTACGATACCGAT
1 ATAGCTTCGTTTAATGTGATGGCACTAAAGTGTACGATACCGAT
88199475 ATAGCTTCGTTTAATGTGATGGCACTAAAGTGTACGATACCGAT
1 ATAGCTTCGTTTAATGTGATGGCACTAAAGTGTACGATACCGAT
*
88199519 ATAACTTCGTTTAATGTGATGGCACT-AAGTGT
1 ATAGCTTCGTTTAATGTGATGGCACTAAAGTGT
88199551 GCAAGATCGT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
41 11 0.16
42 5 0.07
43 15 0.21
44 39 0.56
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (44 bp):
ATAGCTTCGTTTAATGTGATGGCACTAAAGTGTACGATACCGAT
Found at i:88204847 original size:40 final size:39
Alignment explanation
Indices: 88204781--88204900 Score: 102
Period size: 40 Copynumber: 3.0 Consensus size: 39
88204771 AACACACAGT
* * *
88204781 GAGAAAATA-TAGTCTGGGCCTAAGCCCATATCAGTAACA
1 GAGACAATATTAGTTTGGGCCTTAGCCCAT-TCAGTAACA
* *
88204820 GAGACAATATTAGTTTGGGCTTTAGCCCATCTCAAT-ACA
1 GAGACAATATTAGTTTGGGCCTTAGCCCAT-TCAGTAACA
* * *
88204859 TAAACAATCATGT-GTTTGGGCCTTGGCCCATTACAGTAACA
1 GAGACAAT-AT-TAGTTTGGGCCTTAGCCCATT-CAGTAACA
88204900 G
1 G
88204901 TAAACAGTGT
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
39 18 0.28
40 42 0.66
41 4 0.06
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (39 bp):
GAGACAATATTAGTTTGGGCCTTAGCCCATTCAGTAACA
Found at i:88204939 original size:18 final size:18
Alignment explanation
Indices: 88204895--88204941 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
88204885 CCCATTACAG
*
88204895 TAACAGTAAACAGTGTAA
1 TAACAATAAACAGTGTAA
*
88204913 TAACGATAAACAGTGTAGA
1 TAACAATAAACAGTGTA-A
88204932 -AACAATAAAC
1 TAACAATAAAC
88204942 GGTATGCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (18 bp):
TAACAATAAACAGTGTAA
Found at i:88205002 original size:23 final size:24
Alignment explanation
Indices: 88204958--88205002 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
88204948 CAAGTCCTAC
*
88204958 CCATCCAGCCTCTACACTCCATCT
1 CCATCCAGCCTCTACACACCATCT
88204982 CCATCCAGCC-CTACACACCAT
1 CCATCCAGCCTCTACACACCAT
88205003 GTGGGGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.24, C:0.51, G:0.04, T:0.20
Consensus pattern (24 bp):
CCATCCAGCCTCTACACACCATCT
Found at i:88205366 original size:54 final size:53
Alignment explanation
Indices: 88205269--88205460 Score: 186
Period size: 54 Copynumber: 3.5 Consensus size: 53
88205259 AAACATACAT
* * * * *
88205269 CATATAGGGAAAAATAGTCATCTTACCATATAAGGGCAGAATAGTCATCTTACCA
1 CATA-AGGGAAAAACAATCATTTTACCACATAAGGGCAAAATAGTCAT-TTACCA
* * * *
88205324 CATAAGGGCAAAATAGTCATTTTACCACATAAGGGAAAAATAGTCATTCTACCA
1 CATAAGGGAAAAACAATCATTTTACCACATAAGGGCAAAATAGTCATT-TACCA
* * * * * *
88205378 CATAAGGAAAAAACAATCATTCTATCGCATAACGGCAAAATAGTCATTTCATCA
1 CATAAGGGAAAAACAATCATTTTACCACATAAGGGCAAAATAGTCATTT-ACCA
* * *
88205432 CATAGGGGTAATACAATCATTTTACCACA
1 CATAAGGGAAAAACAATCATTTTACCACA
88205461 AAAGAGGTCT
Statistics
Matches: 113, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
53 2 0.02
54 107 0.95
55 4 0.04
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (53 bp):
CATAAGGGAAAAACAATCATTTTACCACATAAGGGCAAAATAGTCATTTACCA
Found at i:88205397 original size:27 final size:27
Alignment explanation
Indices: 88205269--88205425 Score: 165
Period size: 27 Copynumber: 5.8 Consensus size: 27
88205259 AAACATACAT
88205269 CATATAGGGAAAAATAGTCA-TCTTACCA
1 CATA-AGGGAAAAATAGTCATTC-TACCA
* * *
88205297 TATAAGGGCAGAATAGTCA-TCTTACCA
1 CATAAGGGAAAAATAGTCATTC-TACCA
* *
88205324 CATAAGGGCAAAATAGTCATTTTACCA
1 CATAAGGGAAAAATAGTCATTCTACCA
88205351 CATAAGGGAAAAATAGTCATTCTACCA
1 CATAAGGGAAAAATAGTCATTCTACCA
* * * * *
88205378 CATAAGGAAAAAACAATCATTCTATCG
1 CATAAGGGAAAAATAGTCATTCTACCA
* *
88205405 CATAACGGCAAAATAGTCATT
1 CATAAGGGAAAAATAGTCATT
88205426 TCATCACATA
Statistics
Matches: 110, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
27 106 0.96
28 4 0.04
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (27 bp):
CATAAGGGAAAAATAGTCATTCTACCA
Found at i:88225107 original size:24 final size:24
Alignment explanation
Indices: 88225075--88225131 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 24
88225065 NNNNNNNNNN
88225075 AAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
*
88225099 AAAGGGCTTTTGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
88225123 AAAGAGGCT
1 AAAG-GGCT
88225132 AGGCCTCCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTA
Found at i:88225141 original size:25 final size:24
Alignment explanation
Indices: 88225075--88225141 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
88225065 NNNNNNNNNN
*
88225075 AAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTAGGCCCCAGTTATTA
**
88225099 AAAGGGCTTTTGCCCCAGTTATTA
1 AAAGGGCTTAGGCCCCAGTTATTA
88225123 AAAGAGGC-TAGGCCTCCAG
1 AAAG-GGCTTAGGCC-CCAG
88225142 ATATATGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 31 0.82
25 7 0.18
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAGGGCTTAGGCCCCAGTTATTA
Found at i:88225374 original size:31 final size:31
Alignment explanation
Indices: 88225339--88225402 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
88225329 CGTTTACAGT
*
88225339 AAAGGCTTCGGCCCAATAATATGAAATTTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* **
88225370 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
88225401 AA
1 AA
88225403 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:88225982 original size:31 final size:31
Alignment explanation
Indices: 88225947--88226010 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
88225937 CATTTACAGT
* *
88225947 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
**
88225978 AAAGGCTTCGACCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
88226009 AA
1 AA
88226011 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:88238754 original size:45 final size:45
Alignment explanation
Indices: 88238691--88238785 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
88238681 GATGAGCTCA
*
88238691 TCATGCTACACACTTTCAAGACATTATCATTTCATCTCATAATTC
1 TCATGCAACACACTTTCAAGACATTATCATTTCATCTCATAATTC
88238736 TCATGCAACACACTTTCAAGACATTATCATTTCATCTCATAATTC
1 TCATGCAACACACTTTCAAGACATTATCATTTCATCTCATAATTC
88238781 TCATG
1 TCATG
88238786 TCATGTCTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (45 bp):
TCATGCAACACACTTTCAAGACATTATCATTTCATCTCATAATTC
Found at i:88246719 original size:47 final size:48
Alignment explanation
Indices: 88246628--88246730 Score: 181
Period size: 47 Copynumber: 2.1 Consensus size: 48
88246618 TTAGGATTCT
*
88246628 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
88246677 ATGTGATAAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
88246724 ATGTGAT
1 ATGTGAT
88246731 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
47 34 0.64
49 19 0.36
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGTGATAAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
Found at i:88258013 original size:16 final size:16
Alignment explanation
Indices: 88257972--88258015 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
88257962 TTAGCTGCAC
88257972 AAAAAGAAAAAAGGAT
1 AAAAAGAAAAAAGGAT
* * * *
88257988 TAGAATAAAAAATGAT
1 AAAAAGAAAAAAGGAT
88258004 AAAAAGAAAAAA
1 AAAAAGAAAAAA
88258016 ATACTTACCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAAGAAAAAAGGAT
Found at i:88260926 original size:27 final size:27
Alignment explanation
Indices: 88260888--88260948 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
88260878 TAACATAGAG
88260888 TAAGCATTTAAGCTTAGTAAGTTCGTA
1 TAAGCATTTAAGCTTAGTAAGTTCGTA
88260915 TAAGCATTTAAGCTTAGTAAGTTCGTA
1 TAAGCATTTAAGCTTAGTAAGTTCGTA
88260942 TAA-CATT
1 TAAGCATT
88260949 GAATTTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (27 bp):
TAAGCATTTAAGCTTAGTAAGTTCGTA
Found at i:88262596 original size:28 final size:28
Alignment explanation
Indices: 88262564--88262619 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
88262554 AAGGGAAGAA
*
88262564 AAGCTCCATTATTGTACTTTGAAGCATT
1 AAGCTCCATTATTGCACTTTGAAGCATT
88262592 AAGCTCCATTATTGCACTTTGAAGCATT
1 AAGCTCCATTATTGCACTTTGAAGCATT
88262620 TGGCCATAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (28 bp):
AAGCTCCATTATTGCACTTTGAAGCATT
Found at i:88284478 original size:16 final size:17
Alignment explanation
Indices: 88284457--88284490 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
88284447 TATTTTTAAC
88284457 ATAATA-TAATTATTTT
1 ATAATATTAATTATTTT
88284473 ATAATATTTAATTATTTT
1 ATAATA-TTAATTATTTT
88284491 TCGACAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATAATATTAATTATTTT
Found at i:88296397 original size:40 final size:41
Alignment explanation
Indices: 88296353--88296458 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 41
88296343 GCTACTCATT
* * *
88296353 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* * * *
88296393 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCA
88296434 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88296459 CATCATTCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
39 3 0.06
40 40 0.74
41 11 0.20
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
Found at i:88307226 original size:33 final size:33
Alignment explanation
Indices: 88307182--88307285 Score: 145
Period size: 33 Copynumber: 3.2 Consensus size: 33
88307172 GTAACCAACA
*
88307182 CAGTATCAGTACAGTCTGGGCCAAAGCCCTATT
1 CAGTAACAGTACAGTCTGGGCCAAAGCCCTATT
* * *
88307215 CAGTAATAGTACAGTCTGGTCCAAAGCCATATT
1 CAGTAACAGTACAGTCTGGGCCAAAGCCCTATT
** *
88307248 CAGTAACAGTACAGTCTGGGCCTTAGCCCTATA
1 CAGTAACAGTACAGTCTGGGCCAAAGCCCTATT
88307281 CAGTA
1 CAGTA
88307286 GCATTGTGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (33 bp):
CAGTAACAGTACAGTCTGGGCCAAAGCCCTATT
Found at i:88326006 original size:42 final size:42
Alignment explanation
Indices: 88325930--88326016 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
88325920 GTCACTAGGA
88325930 ATTTTGTGATCTGAACTCATTGAGTTGTGGTCTGAGTTCACG
1 ATTTTGTGATCTGAACTCATTGAGTTGTGGTCTGAGTTCACG
* *
88325972 ATTTATGTGATTTGAACTCA-TGAGTTGTGGTCTGAGTTCATG
1 ATTT-TGTGATCTGAACTCATTGAGTTGTGGTCTGAGTTCACG
88326014 ATT
1 ATT
88326017 ATGAGACACA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 28 0.67
43 14 0.33
ACGTcount: A:0.21, C:0.11, G:0.25, T:0.43
Consensus pattern (42 bp):
ATTTTGTGATCTGAACTCATTGAGTTGTGGTCTGAGTTCACG
Found at i:88326012 original size:20 final size:20
Alignment explanation
Indices: 88325950--88326014 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
88325940 CTGAACTCAT
88325950 TGAGTTGTGGTCTGAGTTCA
1 TGAGTTGTGGTCTGAGTTCA
* * * * **
88325970 CGATTTATGTGATTTGAACTCA
1 TGA-GT-TGTGGTCTGAGTTCA
88325992 TGAGTTGTGGTCTGAGTTCA
1 TGAGTTGTGGTCTGAGTTCA
88326012 TGA
1 TGA
88326015 TTATGAGACA
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
20 16 0.52
21 2 0.06
22 13 0.42
ACGTcount: A:0.20, C:0.11, G:0.29, T:0.40
Consensus pattern (20 bp):
TGAGTTGTGGTCTGAGTTCA
Found at i:88341315 original size:15 final size:16
Alignment explanation
Indices: 88341295--88341329 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
88341285 CTCTCTTTTG
*
88341295 TTTTCT-TTTTCTTAT
1 TTTTCTCTTCTCTTAT
88341310 TTTTCTCTTCTCTTAT
1 TTTTCTCTTCTCTTAT
88341326 TTTT
1 TTTT
88341330 TCGCAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCTCTTCTCTTAT
Found at i:88343562 original size:80 final size:82
Alignment explanation
Indices: 88343461--88343632 Score: 226
Period size: 81 Copynumber: 2.1 Consensus size: 82
88343451 TTTTTCGATT
* * * * **
88343461 TTTTTTTACTTTACTTTTTTTTATAACT-ACTAAAATGATAATTACAATATAATACTTGA-ATTT
1 TTTTTTTACTATACTTTTTTTTATAAATGACTAAAATAAGAAAAACAATATAATACTT-ATATTT
*
88343524 CAGGAAGTAA-TTTTTTTA
65 CACGAAG-AATTTTTTTTA
88343542 TTTTTTTA-TATACTTTTTTTTATAAATGACTAAAATAAGAAAAACAATATAATACTTATATTTC
1 TTTTTTTACTATACTTTTTTTTATAAATGACTAAAATAAGAAAAACAATATAATACTTATATTTC
*
88343606 ACGAAGAATTTTTTTTC
66 ACGAAGAATTTTTTTTA
88343623 TTTTTTTACT
1 TTTTTTTACT
88343633 CTTTCTTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
80 20 0.25
81 58 0.73
82 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (82 bp):
TTTTTTTACTATACTTTTTTTTATAAATGACTAAAATAAGAAAAACAATATAATACTTATATTTC
ACGAAGAATTTTTTTTA
Found at i:88344785 original size:17 final size:17
Alignment explanation
Indices: 88344765--88344806 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
88344755 TTAACCGATT
*
88344765 CATGCATCTTGAG-TGTC
1 CATGCACCTT-AGCTGTC
88344782 CATGCACCTTAGCTGTC
1 CATGCACCTTAGCTGTC
88344799 CATGCACC
1 CATGCACC
88344807 CTCCAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (17 bp):
CATGCACCTTAGCTGTC
Found at i:88353299 original size:46 final size:46
Alignment explanation
Indices: 88353232--88353498 Score: 362
Period size: 46 Copynumber: 5.8 Consensus size: 46
88353222 TGTAACCCGC
* *
88353232 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
88353278 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
88353324 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
88353370 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
88353420 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
88353463 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
88353499 ATGCTCAACC
Statistics
Matches: 199, Mismatches: 13, Indels: 18
0.87 0.06 0.08
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 2 0.01
45 2 0.01
46 151 0.76
47 28 0.14
48 3 0.02
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:88361000 original size:47 final size:47
Alignment explanation
Indices: 88360938--88361161 Score: 448
Period size: 47 Copynumber: 4.8 Consensus size: 47
88360928 ATCCATAAGT
88360938 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
88360985 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
88361032 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
88361079 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
88361126 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG
88361162 CCATCCTAGT
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 177 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88364097 original size:50 final size:50
Alignment explanation
Indices: 88364034--88364269 Score: 220
Period size: 50 Copynumber: 4.7 Consensus size: 50
88364024 CAAAAATCCA
* * *
88364034 GTACACGTAGTAGCTTGCACTTAGTACTACATACGTGACCTAACCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTG
* * * * * * *** *
88364084 ATACACGTAGTAGCTTGCACTTAGTATTACACACGTGATCGAAGTTGTCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTG
* * * * *
88364135 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAACTAACTATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTG
*
88364185 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTACGACCATCTT
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTA--ACCATCTG
** * * * *
88364237 AAACACATAGCATCCTACACATAGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
88364270 TGTGTTCTCA
Statistics
Matches: 150, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
50 80 0.53
51 37 0.25
52 33 0.22
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTG
Found at i:88364159 original size:101 final size:101
Alignment explanation
Indices: 88364041--88364222 Score: 274
Period size: 101 Copynumber: 1.8 Consensus size: 101
88364031 CCAGTACACG
* * * * * *
88364041 TAGTAGCTTGCACTTAGTACTACATACGTGACCTAACCATCTGATACACGTAGTAGCTTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGAACTAACCATCTGATACACATAGTAGCCTGCACTT
*
88364106 AGTATTACACACGTGATCGAAGTTGTCGGGTACGCA
66 AGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
* * *
88364142 TAGTAGCCTGCACTTAGTACTACACATGCGAACTAACTATCTGGTACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGAACTAACCATCTGATACACATAGTAGCCTGCACTT
88364207 AGTACTACACACGTGA
66 AGTACTACACACGTGA
88364223 CCTACGACCA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGAACTAACCATCTGATACACATAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
Found at i:88365446 original size:49 final size:50
Alignment explanation
Indices: 88365382--88365495 Score: 151
Period size: 49 Copynumber: 2.3 Consensus size: 50
88365372 CTGGCACGCA
* * *
88365382 TAGTAGCCTGCACTTACTACTACACATGCGACC-AA-CAATCTGGTACACG
1 TAGTAGCTTGCACTTACTACTACACACGCGACCTAAGC-ATCTGATACACG
* * *
88365431 TAGTAGCTTGTACTTAGTACTACACACGTGACCTAAGCATCTGATACACG
1 TAGTAGCTTGCACTTACTACTACACACGCGACCTAAGCATCTGATACACG
88365481 TAGTAGCTTGCACTT
1 TAGTAGCTTGCACTT
88365496 TGTTCTACAC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
49 28 0.50
50 27 0.48
51 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCTTGCACTTACTACTACACACGCGACCTAAGCATCTGATACACG
Found at i:88365486 original size:50 final size:49
Alignment explanation
Indices: 88365382--88365511 Score: 163
Period size: 50 Copynumber: 2.6 Consensus size: 49
88365372 CTGGCACGCA
* * * * *
88365382 TAGTAGCCTGCACTTACTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCTTGCACTTAGTACTACACACGTGACCAACAATCTGATACACG
*
88365431 TAGTAGCTTGTACTTAGTACTACACACGTGACCTAAGC-ATCTGATACACG
1 TAGTAGCTTGCACTTAGTACTACACACGTGACC-AA-CAATCTGATACACG
* *
88365481 TAGTAGCTTGCACTTTGTTCTACACACGTGA
1 TAGTAGCTTGCACTTAGTACTACACACGTGA
88365512 TCGAAGTTGT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
49 28 0.40
50 41 0.59
51 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (49 bp):
TAGTAGCTTGCACTTAGTACTACACACGTGACCAACAATCTGATACACG
Found at i:88368464 original size:55 final size:54
Alignment explanation
Indices: 88368397--88368581 Score: 223
Period size: 55 Copynumber: 3.4 Consensus size: 54
88368387 ATTAGGGTTT
88368397 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-GTTTCATAAGGC
* * * * * * *
88368452 AAGGAAATCATGTAAGACCAAGTCAAGACATGGCATTGATAAGTTACCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-TCATAAGGC
* * *
88368507 AAAGG-TCCCATGTAAGACTATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTCATAAGGC
88368560 AAGGATACCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
88368582 TTAAGACAAG
Statistics
Matches: 107, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
52 4 0.04
53 26 0.24
54 9 0.08
55 64 0.60
56 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTCATAAGGC
Found at i:88371112 original size:15 final size:15
Alignment explanation
Indices: 88371062--88371122 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 15
88371052 ATATAGATAA
* *
88371062 AAAGAAAACCAGGAT
1 AAAGAAATCCAAGAT
* * *
88371077 TAAGAAGTCCAATAT
1 AAAGAAATCCAAGAT
* *
88371092 AGAGAAATTCAAGAT
1 AAAGAAATCCAAGAT
88371107 AAAGAAATCCAAGAT
1 AAAGAAATCCAAGAT
88371122 A
1 A
88371123 TAATATCATA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.56, C:0.11, G:0.16, T:0.16
Consensus pattern (15 bp):
AAAGAAATCCAAGAT
Found at i:88373030 original size:79 final size:79
Alignment explanation
Indices: 88372899--88373056 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
88372889 TAGTAGCCTG
88372899 TACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCTTGTACTTAGTACTACACA
1 TACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCTTGTACTTAGTACTACACA
*
88372964 CGTGACCTAAGCAT
66 CATGACCTAAGCAT
88372978 TACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCTTGTACTTAGTACTACACA
1 TACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCTTGTACTTAGTACTACACA
88373043 CATGACCTAAGCAT
66 CATGACCTAAGCAT
88373057 CTTATACACG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (79 bp):
TACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCTTGTACTTAGTACTACACA
CATGACCTAAGCAT
Found at i:88373381 original size:42 final size:42
Alignment explanation
Indices: 88373327--88373423 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
88373317 ACAGTTAACA
*
88373327 AATTCATTCATAGTCTATTTCGATTCGTAATTTACATCAAAT
1 AATTCATTCATAGTCTATTTCAATTCGTAATTTACATCAAAT
88373369 AATTCATTCATAGTCTATTTCAATTCGTAATTTACATCAAAT
1 AATTCATTCATAGTCTATTTCAATTCGTAATTTACATCAAAT
*
88373411 GA-TCATTCTATAG
1 AATTCATTC-ATAG
88373424 GTAGCGACAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 6 0.12
42 46 0.88
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.42
Consensus pattern (42 bp):
AATTCATTCATAGTCTATTTCAATTCGTAATTTACATCAAAT
Found at i:88376587 original size:30 final size:30
Alignment explanation
Indices: 88376553--88376612 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
88376543 ATTTAATACG
88376553 AACTTTAAAAAAATTACAATTTTGCCCCTA
1 AACTTTAAAAAAATTACAATTTTGCCCCTA
*** * *
88376583 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACAATTTTGCCCCTA
88376613 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACAATTTTGCCCCTA
Found at i:88379594 original size:113 final size:113
Alignment explanation
Indices: 88379396--88379605 Score: 420
Period size: 113 Copynumber: 1.9 Consensus size: 113
88379386 TTCTTCGAAA
88379396 CTCTATTGACATTCTTCCGTCCATTCAAATTTAACATCCTTTCAGAGTAGTCTAGTCATAGGAGC
1 CTCTATTGACATTCTTCCGTCCATTCAAATTTAACATCCTTTCAGAGTAGTCTAGTCATAGGAGC
88379461 AGCAATTATAGAAAATTCATTTACAAACCGCCACAAACCGCTAATAAT
66 AGCAATTATAGAAAATTCATTTACAAACCGCCACAAACCGCTAATAAT
88379509 CTCTATTGACATTCTTCCGTCCATTCAAATTTAACATCCTTTCAGAGTAGTCTAGTCATAGGAGC
1 CTCTATTGACATTCTTCCGTCCATTCAAATTTAACATCCTTTCAGAGTAGTCTAGTCATAGGAGC
88379574 AGCAATTATAGAAAATTCATTTACAAACCGCC
66 AGCAATTATAGAAAATTCATTTACAAACCGCC
88379606 GATAATACCC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 97 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (113 bp):
CTCTATTGACATTCTTCCGTCCATTCAAATTTAACATCCTTTCAGAGTAGTCTAGTCATAGGAGC
AGCAATTATAGAAAATTCATTTACAAACCGCCACAAACCGCTAATAAT
Found at i:88383259 original size:19 final size:20
Alignment explanation
Indices: 88383235--88383272 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
88383225 GGTACCACCA
88383235 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
88383254 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
88383273 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:88388986 original size:50 final size:50
Alignment explanation
Indices: 88388860--88389150 Score: 338
Period size: 50 Copynumber: 5.9 Consensus size: 50
88388850 CAAAGCTATG
* * *
88388860 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATG-GACC-AATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC
* * *
88388908 CGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCATG
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC
* * * *
88388958 TGATACACGTAGTAGACTGCACTTAGTACTACACACGTGATCGAAGTTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATC
* * * * * *
88389009 GGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACC-AATTAT-
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC
* **
88389057 TCGGTACACGTAGTAGCCTGCACTTAGTACCACACACGTGACCTAACCATC
1 T-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC
** *
88389108 TAATACACGTAGTAGTCTGCACTTAGTACTACACACGTGACCT
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
88389151 CAAAATAGAT
Statistics
Matches: 202, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
48 33 0.16
49 43 0.21
50 89 0.44
51 37 0.18
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC
Found at i:88389095 original size:150 final size:149
Alignment explanation
Indices: 88388861--88389147 Score: 502
Period size: 150 Copynumber: 1.9 Consensus size: 149
88388851 AAAGCTATGT
88388861 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGGACCAATTATCCGGTACACGTAGTAGCCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGGACCAATTATCCGGTACACGTAGTAGCCT
* * * *
88388926 GCACTTAGTACTACACACGTGACCTAATCATGTGATACACGTAGTAGACTGCACTTAGTACTACA
66 GCACTTAGTACCACACACGTGACCTAACCATCTAATACACGTAGTAGACTGCACTTAGTACTACA
88388991 CACGTGATCGAAGTTATCG
131 CACGTGATCGAAGTTATCG
* *
88389010 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATG-GACCAATTATCCGGTACACGTAGTAGCC
*
88389075 TGCACTTAGTACCACACACGTGACCTAACCATCTAATACACGTAGTAGTCTGCACTTAGTACTAC
65 TGCACTTAGTACCACACACGTGACCTAACCATCTAATACACGTAGTAGACTGCACTTAGTACTAC
88389140 ACACGTGA
130 ACACGTGA
88389148 CCTCAAAATA
Statistics
Matches: 130, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
149 35 0.27
150 95 0.73
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (149 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGGACCAATTATCCGGTACACGTAGTAGCCT
GCACTTAGTACCACACACGTGACCTAACCATCTAATACACGTAGTAGACTGCACTTAGTACTACA
CACGTGATCGAAGTTATCG
Found at i:88393366 original size:43 final size:43
Alignment explanation
Indices: 88393319--88393416 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
88393309 TGTGATTATG
** * * **
88393319 TGTAAGACCATGTCT-GGGACATTGGCATCGTTATTTGATTTCA
1 TGTAAGACCATAACTAGGG-CATTGGCATCGATATATGATAACA
*
88393362 TGTAAGACCATAACTAGGGTATTGGCATCGATATATGATAACA
1 TGTAAGACCATAACTAGGGCATTGGCATCGATATATGATAACA
88393405 TGTAAGACCATA
1 TGTAAGACCATA
88393417 TTTGGGATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 44 0.94
44 3 0.06
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATAACTAGGGCATTGGCATCGATATATGATAACA
Found at i:88394552 original size:65 final size:66
Alignment explanation
Indices: 88394443--88394589 Score: 235
Period size: 65 Copynumber: 2.2 Consensus size: 66
88394433 AGGCCGTCTG
*
88394443 TGACACATGGGCGTGTGGCCAGCTGTGTGACCTAAGTCAATATACCCTCCATATTTTACACGGGC
1 TGACACATGGGCGTGTGGCCAGCTGTGTGACCTAAGTCAATATACCCTCCATATTTTACACGGCC
88394508 -
66 A
* *
88394508 TGGCACATGGGCGTGTGGCCGGCTGTGTGACCTAAGT-AAGTATACCCTCCATATTTTACACGGC
1 TGACACATGGGCGTGTGGCCAGCTGTGTGACCTAAGTCAA-TATACCCTCCATATTTTACACGGC
88394572 CA
65 CA
*
88394574 TGACACATGAGCGTGT
1 TGACACATGGGCGTGT
88394590 CTCTGGCCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
64 2 0.03
65 59 0.79
66 14 0.19
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (66 bp):
TGACACATGGGCGTGTGGCCAGCTGTGTGACCTAAGTCAATATACCCTCCATATTTTACACGGCC
A
Found at i:88398269 original size:46 final size:46
Alignment explanation
Indices: 88397906--88398272 Score: 432
Period size: 46 Copynumber: 8.0 Consensus size: 46
88397896 TTATCTTCGA
* * * * * *
88397906 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTCATAT
* *** *
88397952 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ** ***
88397998 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
88398043 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACAAATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
88398089 CCTGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * *
88398135 CATGTTGCTATGGTGTCCTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** *
88398181 CCCGTTGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
88398227 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
88398273 TCTAATGCAT
Statistics
Matches: 275, Mismatches: 44, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
45 40 0.15
46 235 0.85
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:88404314 original size:22 final size:24
Alignment explanation
Indices: 88404245--88404314 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
88404235 GCATACCAGT
* *
88404245 GTATGAAAACCCTTTGTGTAGGAC
1 GTATGAAAGCCCTTTATGTAGGAC
*
88404269 GTTTGAAAGCCCTTTATGTAGGAC
1 GTATGAAAGCCCTTTATGTAGGAC
*
88404293 GTATGAGAGCCC-TTA-GTAGGAC
1 GTATGAAAGCCCTTTATGTAGGAC
88404315 AAATGGAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
22 7 0.17
23 3 0.07
24 31 0.76
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (24 bp):
GTATGAAAGCCCTTTATGTAGGAC
Found at i:88404419 original size:27 final size:27
Alignment explanation
Indices: 88404366--88404546 Score: 132
Period size: 27 Copynumber: 6.7 Consensus size: 27
88404356 AGTCCATCTG
* * * *
88404366 GACTATCTACTATGGAAAGCTCATCAA
1 GACTATCTAATGTGGAAAGCCCGTCAA
*
88404393 AACTATCTAATGTGGAAAGCCCGTCAA
1 GACTATCTAATGTGGAAAGCCCGTCAA
* * * * *
88404420 GAGTATCCAATGTGAAAAGTCTGTCAA
1 GACTATCTAATGTGGAAAGCCCGTCAA
* **
88404447 GACTATCTAATGTGGAAAACCTTTCAA
1 GACTATCTAATGTGGAAAGCCCGTCAA
* * * *
88404474 GACCATCTAATGT-AAGAAGTCTGTCAA
1 GACTATCTAATGTGGA-AAGCCCGTCAA
* * *
88404501 GACTATCTAATATGTGG-AGGTCCGTCAG
1 GACTATCT-A-ATGTGGAAAGCCCGTCAA
*
88404529 GACTATCTTATGTGGAAA
1 GACTATCTAATGTGGAAA
88404547 TCTATGTGGA
Statistics
Matches: 120, Mismatches: 29, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
26 7 0.06
27 92 0.77
28 17 0.14
29 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
GACTATCTAATGTGGAAAGCCCGTCAA
Found at i:88404486 original size:54 final size:54
Alignment explanation
Indices: 88404389--88404511 Score: 167
Period size: 54 Copynumber: 2.3 Consensus size: 54
88404379 GGAAAGCTCA
* * **
88404389 TCAAAACTATCTAATGTGGAAAGCCCGTCAAGAGTATCCAATGTGAA-AAGTCTG
1 TCAAGACTATCTAATGTGGAAAACCCGTCAAGACCATCCAATGT-AAGAAGTCTG
** *
88404443 TCAAGACTATCTAATGTGGAAAACCTTTCAAGACCATCTAATGTAAGAAGTCTG
1 TCAAGACTATCTAATGTGGAAAACCCGTCAAGACCATCCAATGTAAGAAGTCTG
88404497 TCAAGACTATCTAAT
1 TCAAGACTATCTAAT
88404512 ATGTGGAGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.03
54 59 0.97
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (54 bp):
TCAAGACTATCTAATGTGGAAAACCCGTCAAGACCATCCAATGTAAGAAGTCTG
Found at i:88408480 original size:27 final size:27
Alignment explanation
Indices: 88408447--88408663 Score: 281
Period size: 27 Copynumber: 8.0 Consensus size: 27
88408437 AAACATACAT
*
88408447 CACATAAGAGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
88408474 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
88408501 CACATAAGGGAAAAATAGTTATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
88408528 CACACAAGGGCGAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
88408555 CACATAAGGGCAAAACAGTTATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
88408582 CACATAAGGGCAAAACAATCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
88408609 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
88408636 CCCATAAAGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
88408663 C
1 C
88408664 GATTAGGGTC
Statistics
Matches: 166, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 166 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:88410878 original size:15 final size:16
Alignment explanation
Indices: 88410845--88410878 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
88410835 CCAACCCTAA
*
88410845 AAAGTGAAAAGAGAAG
1 AAAGTCAAAAGAGAAG
88410861 AAAGTCAAAAGA-AAG
1 AAAGTCAAAAGAGAAG
88410876 AAA
1 AAA
88410879 TGAGGGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.03, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAGTCAAAAGAGAAG
Found at i:88430142 original size:27 final size:27
Alignment explanation
Indices: 88430082--88430214 Score: 178
Period size: 27 Copynumber: 5.0 Consensus size: 27
88430072 GGGTAAGCAG
88430082 CCACATAAGGGCAAAATAGTCA-TTTA
1 CCACATAAGGGCAAAATAGTCATTTTA
* * *
88430108 CCATATAAGGGCAAAACAATCATTTTA
1 CCACATAAGGGCAAAATAGTCATTTTA
* * *
88430135 CCATATAAGGGCAAAATAGTTACTTTA
1 CCACATAAGGGCAAAATAGTCATTTTA
*
88430162 CCACATAAGGGAAAAATAGTCATTTTA
1 CCACATAAGGGCAAAATAGTCATTTTA
* *
88430189 CCACATAAGGGTAAAACAGTCATTTT
1 CCACATAAGGGCAAAATAGTCATTTT
88430215 CTCAATTTTG
Statistics
Matches: 93, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 19 0.20
27 74 0.80
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.26
Consensus pattern (27 bp):
CCACATAAGGGCAAAATAGTCATTTTA
Found at i:88430359 original size:17 final size:18
Alignment explanation
Indices: 88430334--88430373 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
88430324 CATAATGCGG
88430334 GCCCATGTGGCCCACAT-
1 GCCCATGTGGCCCACATA
*
88430351 GCCCGTGTGGCCCACATA
1 GCCCATGTGGCCCACATA
88430369 GCCCA
1 GCCCA
88430374 GAAATGGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.15
Consensus pattern (18 bp):
GCCCATGTGGCCCACATA
Found at i:88433171 original size:46 final size:46
Alignment explanation
Indices: 88433121--88433296 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
88433111 TGGTTGAGCA
88433121 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88433167 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
88433212 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88433260 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88433297 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88433277 original size:93 final size:93
Alignment explanation
Indices: 88433118--88433289 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88433108 GGATGGTTGA
* *
88433118 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88433183 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
88433211 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88433276 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
88433290 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88434205 original size:87 final size:87
Alignment explanation
Indices: 88434059--88434235 Score: 318
Period size: 87 Copynumber: 2.0 Consensus size: 87
88434049 TCACATGAAA
*
88434059 CAAATGAAATAGGTAAAGGAATTATATGTTACAAGATATTTGAATTTTAGTGAAACAGGGTCATA
1 CAAATGAAACAGGTAAAGGAATTATATGTTACAAGATATTTGAATTTTAGTGAAACAGGGTCATA
*
88434124 GCAGTTTCTGAATCCCCTGTTC
66 GCAGTTTCTGAATCCCCTATTC
*
88434146 CAAATGAAACAGGTAAAGGAATTATATGTTAGAAGATATTTGAATTTTAGTGAAACAGGGTCATA
1 CAAATGAAACAGGTAAAGGAATTATATGTTACAAGATATTTGAATTTTAGTGAAACAGGGTCATA
*
88434211 GCAGTTTTTGAATCCCCTATTC
66 GCAGTTTCTGAATCCCCTATTC
88434233 CAA
1 CAA
88434236 CTTTAGAAAT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (87 bp):
CAAATGAAACAGGTAAAGGAATTATATGTTACAAGATATTTGAATTTTAGTGAAACAGGGTCATA
GCAGTTTCTGAATCCCCTATTC
Found at i:88437204 original size:40 final size:40
Alignment explanation
Indices: 88437173--88437303 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
88437163 GGACTAAGAT
88437173 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
88437213 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
88437253 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
88437293 CCGAAGGCATT
1 CCGAAGGCATT
88437304 GTATGAGTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 81 0.99
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:88437260 original size:80 final size:81
Alignment explanation
Indices: 88437127--88437300 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 81
88437117 CTGTCTGGGC
* *
88437127 TAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGA
*
88437191 GTTATT-AATTCCGGGT
66 GTT-TTAAAATCCGGGT
**
88437207 TAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGCATTCGTG
1 TAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGCATTCGTG
88437268 CGAGTTTTAAAATCCGGGT
63 CGAGTTTTAAAATCCGGGT
88437287 TAAGTCCCGAAGGC
1 TAAGTCCCGAAGGC
88437301 ATTGTATGAG
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
79 4 0.05
80 71 0.85
81 9 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (81 bp):
TAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGA
GTTTTAAAATCCGGGT
Found at i:88440148 original size:43 final size:43
Alignment explanation
Indices: 88440085--88440166 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
88440075 TGATGATTTA
* *
88440085 TTTGATCAGCTAAAAGGAGCGACATGGTTTTCAAAGATTAACG
1 TTTGATCAGCTAAAAAGAGCGACACGGTTTTCAAAGATTAACG
88440128 TTTGATCAGCTAAAAAGAGCGACACGGTTTTCAAAGATT
1 TTTGATCAGCTAAAAAGAGCGACACGGTTTTCAAAGATT
88440167 GACTTGAGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (43 bp):
TTTGATCAGCTAAAAAGAGCGACACGGTTTTCAAAGATTAACG
Found at i:88445991 original size:13 final size:13
Alignment explanation
Indices: 88445973--88445997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88445963 TGTGTGATAT
88445973 GTGTGAAAATTTC
1 GTGTGAAAATTTC
88445986 GTGTGAAAATTT
1 GTGTGAAAATTT
88445998 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:88447265 original size:43 final size:42
Alignment explanation
Indices: 88447174--88447272 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 42
88447164 AGACCCTATT
* **
88447174 TGGGACATTGGCATCATATATGATTTCATGTAAGACCATGTC
1 TGGGACATTGGCATCATATATGATTACATGTAAGACCATACC
* *
88447216 TAGGACATTGGCATCGATATTTGATTACATGTAAGACC-TCACC
1 TGGGACATTGGCATC-ATATATGATTACATGTAAGACCAT-ACC
88447259 TGGGACATTGGCAT
1 TGGGACATTGGCAT
88447273 TGTATGAGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
42 15 0.31
43 34 0.69
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (42 bp):
TGGGACATTGGCATCATATATGATTACATGTAAGACCATACC
Found at i:88449834 original size:110 final size:110
Alignment explanation
Indices: 88449641--88450079 Score: 842
Period size: 110 Copynumber: 4.0 Consensus size: 110
88449631 CAAAGGCTAT
88449641 TGAGAGCTATTCTAGACGGGATCAAAACAAACCGCCTGTGAGTTCAAAAGCCACTTCTATAGCTA
1 TGAGAGCTATTCTAGACGGGATCAAAACAAACCGCCTGTGAGTTCAAAAGCCACTTCTATAGCTA
88449706 GTGTCGGTAATGTCAGACTAAATCAACTGAGTGCAAGCATTGCAC
66 GTGTCGGTAATGTCAGACTAAATCAACTGAGTGCAAGCATTGCAC
88449751 TGAGAGCTATTCTAGACGGGATCAAAACAAACCGCCTGTGAGTTCAAAAGCCACTTCTATAGCTA
1 TGAGAGCTATTCTAGACGGGATCAAAACAAACCGCCTGTGAGTTCAAAAGCCACTTCTATAGCTA
88449816 GTGTCGGTAATGTCAGACTAAATCAACTGAGTGCAAGCATTGCAC
66 GTGTCGGTAATGTCAGACTAAATCAACTGAGTGCAAGCATTGCAC
*
88449861 TGAGAGCTATTCTAGACGGGATCGAAACAAACCGCCTGTGAGTTCAAAAGCCACTTCTATAGCTA
1 TGAGAGCTATTCTAGACGGGATCAAAACAAACCGCCTGTGAGTTCAAAAGCCACTTCTATAGCTA
88449926 GTGTCGGTAATGTCAGACTAAATCAACTGAGTGCAAGCATTGCAC
66 GTGTCGGTAATGTCAGACTAAATCAACTGAGTGCAAGCATTGCAC
*
88449971 TGAGAGCTATTCTAGACGGGATCGAAACAAACCGCCTGTGAGTTCAAAAGCCACTTCTATAGCTA
1 TGAGAGCTATTCTAGACGGGATCAAAACAAACCGCCTGTGAGTTCAAAAGCCACTTCTATAGCTA
* *
88450036 GTGTCAGTAATGTCAGACTAAATCAATTGAGTGCAAGCATTGCA
66 GTGTCGGTAATGTCAGACTAAATCAACTGAGTGCAAGCATTGCA
88450080 GTAAATGACA
Statistics
Matches: 326, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 326 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (110 bp):
TGAGAGCTATTCTAGACGGGATCAAAACAAACCGCCTGTGAGTTCAAAAGCCACTTCTATAGCTA
GTGTCGGTAATGTCAGACTAAATCAACTGAGTGCAAGCATTGCAC
Found at i:88451391 original size:15 final size:15
Alignment explanation
Indices: 88451371--88451400 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88451361 TCTTGTCGAA
88451371 TAGGCATTCTCATTT
1 TAGGCATTCTCATTT
*
88451386 TAGGCATTCTTATTT
1 TAGGCATTCTCATTT
88451401 CTTTCTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (15 bp):
TAGGCATTCTCATTT
Found at i:88452516 original size:27 final size:27
Alignment explanation
Indices: 88452481--88452542 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
88452471 AGACCTTGTT
*
88452481 TGTAGAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
88452508 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
88452535 AGTAAAAT
1 TGTAAAAT
88452543 GACTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:88453371 original size:28 final size:28
Alignment explanation
Indices: 88453331--88453386 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
88453321 CTGATTCTGA
* *
88453331 TACTGTATTGGGCTTAA-GCCTACACTGT
1 TACTATATTGGGC-TAAGGCCCACACTGT
88453359 TACTATATTGGGCTAAGGCCCACACTGT
1 TACTATATTGGGCTAAGGCCCACACTGT
88453387 GCTGTTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (28 bp):
TACTATATTGGGCTAAGGCCCACACTGT
Found at i:88458236 original size:44 final size:44
Alignment explanation
Indices: 88458176--88458298 Score: 165
Period size: 44 Copynumber: 2.8 Consensus size: 44
88458166 CAATATGTGA
* *
88458176 TTTTGTGTAAGACCACGTCTGGGGCGTTGGCATCGATTTGAGAT
1 TTTTGTGTAAGACCACGTCTGAGACGTTGGCATCGATTTGAGAT
* * * *
88458220 TTTTGTCTAAGACCACGTTTGAGATGTTGGCATCAATTTGAGAT
1 TTTTGTGTAAGACCACGTCTGAGACGTTGGCATCGATTTGAGAT
* * *
88458264 TTATGTGTAAGACCATGTCTGAGACATTGGCATCG
1 TTTTGTGTAAGACCACGTCTGAGACGTTGGCATCG
88458299 CATATGATTT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (44 bp):
TTTTGTGTAAGACCACGTCTGAGACGTTGGCATCGATTTGAGAT
Found at i:88458332 original size:42 final size:42
Alignment explanation
Indices: 88458268--88458362 Score: 113
Period size: 42 Copynumber: 2.2 Consensus size: 42
88458258 TGAGATTTAT
* *
88458268 GTGTAAGACCATGTCTGAGACATTGGCATCGCATA-TGATTTC
1 GTGTAAGACCATATCTGAGACATTGGCATCG-ATATTGATTAC
*
88458310 GTGTAAGACCCTATCT-AGGACATTGGCATCGATATTTGATTAC
1 GTGTAAGACCATATCTGA-GACATTGGCATCGATA-TTGATTAC
*
88458353 ATGTAAGACC
1 GTGTAAGACC
88458363 TCGTTTAGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 4 0.09
42 27 0.59
43 15 0.33
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATCTGAGACATTGGCATCGATATTGATTAC
Found at i:88459849 original size:42 final size:42
Alignment explanation
Indices: 88459738--88459898 Score: 171
Period size: 42 Copynumber: 3.8 Consensus size: 42
88459728 GTGTTACATA
* * * *
88459738 CCATATCCCAAATATGGTCTTACATGTAA-TCTCGTGTCGTTG
1 CCATATCCCAAATATGGTCTTACACG-AAGTCTCATATCGATG
* **
88459780 CCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCGATG
1 CC-ATATCCCAAATATGGTCTTACACGAAGTCTCATATCGATG
* * * * * *
88459823 CCATATCCTAGATATTGTCTTGCACGAGGTCTCATATTGATG
1 CCATATCCCAAATATGGTCTTACACGAAGTCTCATATCGATG
*
88459865 CCATATCCCAAATATGGTCTTACACGTAGTCTCA
1 CCATATCCCAAATATGGTCTTACACGAAGTCTCA
88459899 GTAACCCTAA
Statistics
Matches: 97, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 65 0.67
43 32 0.33
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (42 bp):
CCATATCCCAAATATGGTCTTACACGAAGTCTCATATCGATG
Found at i:88461302 original size:15 final size:15
Alignment explanation
Indices: 88461270--88461298 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
88461260 ATTTTATGTG
88461270 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
88461285 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
88461299 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:88470412 original size:41 final size:44
Alignment explanation
Indices: 88470304--88470412 Score: 116
Period size: 45 Copynumber: 2.5 Consensus size: 44
88470294 AATATGTGTT
* * * *
88470304 TTCGTGTAAGACCATGTCTGGGACGTTGGCATCAATATATGTGG
1 TTCGTGTAAGACCATGTCTGGGACATGGGCATCAATATATGAGA
* * *
88470348 TTAAGAGTAAGACCATGTTTGGGACATGGGCATC-ATAT-T-AGA
1 TT-CGTGTAAGACCATGTCTGGGACATGGGCATCAATATATGAGA
*
88470390 TTCGTGTAAGACCCTGTCTGGGA
1 TTCGTGTAAGACCATGTCTGGGA
88470413 TAGTGGCATC
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
41 17 0.32
42 3 0.06
43 1 0.02
44 6 0.11
45 26 0.49
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (44 bp):
TTCGTGTAAGACCATGTCTGGGACATGGGCATCAATATATGAGA
Found at i:88470421 original size:41 final size:42
Alignment explanation
Indices: 88470304--88470461 Score: 113
Period size: 45 Copynumber: 3.7 Consensus size: 42
88470294 AATATGTGTT
* * * * *
88470304 TTCGTGTAAGACCATGTCTGGGACGTTGGCATCAATATATGTGG
1 TTCGTGTAAGACCATGTCTGGGACATGGGCATC--GATATGAGA
* * * *
88470348 TTAAGAGTAAGACCATGTTTGGGACATGGGCATC-ATATTAGA
1 TT-CGTGTAAGACCATGTCTGGGACATGGGCATCGATATGAGA
* *
88470390 TTCGTGTAAGACCCTGTCTGGGATA-GTGGCATCGATATGAGA
1 TTCGTGTAAGACCATGTCTGGGACATG-GGCATCGATATGAGA
* * * *
88470432 TAGCATGTATGACCACGTCTGGGACGATGG
1 T-TCGTGTAAGACCATGTCTGGGAC-ATGG
88470462 CATTGTTCAA
Statistics
Matches: 88, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
40 1 0.01
41 24 0.27
42 15 0.17
43 17 0.19
44 4 0.05
45 27 0.31
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (42 bp):
TTCGTGTAAGACCATGTCTGGGACATGGGCATCGATATGAGA
Found at i:88471937 original size:28 final size:27
Alignment explanation
Indices: 88471906--88471959 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
88471896 ATATTGACAT
* *
88471906 ATTGGTTCTGTTATGTGAATTTAATAAA
1 ATTGGTTATGTCATGTGAA-TTAATAAA
* *
88471934 ATTGTTTATGTCATGTGTATTAATAA
1 ATTGGTTATGTCATGTGAATTAATAA
88471960 TTCCAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (27 bp):
ATTGGTTATGTCATGTGAATTAATAAA
Found at i:88473850 original size:180 final size:181
Alignment explanation
Indices: 88473562--88473899 Score: 491
Period size: 180 Copynumber: 1.9 Consensus size: 181
88473552 TAATATTCGT
* * **
88473562 TAATTTTCCCAAAAAATAGACTCGCATATATTCTTACAAAAAAATTTTTAGAATTTTTTGTTTAG
1 TAATTTTCCCAAAAAATAGACTCACATATATTCCTACAAAAAAATTTTTAGAATTTTTCATTTAG
* *
88473627 CCAATTAGTACAGTTTATTCATTAAAGTTACACCTATTTCACTGTCCAACAGTTTCAACCTCTCT
66 CCAATTAGTACAGTTTATTCATTAAAGATACACCTATTTCACTGTCCAACAGTTCCAACCTCTCT
* * *
88473692 TCACTAAATATTATTTCTCTCAT-GGTACGGAAATCAAAATTAAGAACTAC
131 TCACAAAAAATTATTTATCTCATCGGTACGGAAATCAAAATTAAGAACTAC
* * *
88473742 TAATTTTCCCAAAAACTAGACTCATATATATTCCTATC-ATAAAATTTTTAGAATTTTTCATTTA
1 TAATTTTCCCAAAAAATAGACTCACATATATTCCTA-CAAAAAAATTTTTAGAATTTTTCATTTA
* * * * * *
88473806 GCCTATTAGTACAGTTTATTCATTAAAGATACCCCTATTTCACTGTCTAACAGTTCCGATCTTTC
65 GCCAATTAGTACAGTTTATTCATTAAAGATACACCTATTTCACTGTCCAACAGTTCCAACCTCTC
88473871 TTCACAAAAAATTATTTATCTCATCGGTA
130 TTCACAAAAAATTATTTATCTCATCGGTA
88473900 AAGATCTTGG
Statistics
Matches: 138, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
180 133 0.96
181 5 0.04
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (181 bp):
TAATTTTCCCAAAAAATAGACTCACATATATTCCTACAAAAAAATTTTTAGAATTTTTCATTTAG
CCAATTAGTACAGTTTATTCATTAAAGATACACCTATTTCACTGTCCAACAGTTCCAACCTCTCT
TCACAAAAAATTATTTATCTCATCGGTACGGAAATCAAAATTAAGAACTAC
Found at i:88476008 original size:40 final size:40
Alignment explanation
Indices: 88475908--88476132 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 40
88475898 GCTCCTCGTT
* * ** *
88475908 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
88475948 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* *
88475987 CAAATGCCTCCGGGACTTAACCCCGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
88476027 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * *
88476067 CGAATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCA
*
88476108 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
88476133 CAGCATTCAA
Statistics
Matches: 163, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.21
40 120 0.74
41 8 0.05
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:88483901 original size:40 final size:40
Alignment explanation
Indices: 88483803--88484825 Score: 1863
Period size: 40 Copynumber: 25.6 Consensus size: 40
88483793 TCCTCGTTCA
* * ** *
88483803 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
88483842 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
88483882 AATGCCTCCGGGACTTAACCCCGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88483922 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88483962 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484002 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484042 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484082 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484122 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484162 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484202 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484242 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484282 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484322 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484362 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484402 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484442 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484482 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484522 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484562 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484602 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484642 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484682 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88484722 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
88484762 AATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCACG
* *
88484802 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
88484826 CAGCATTCAA
Statistics
Matches: 962, Mismatches: 19, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
39 35 0.04
40 921 0.96
41 6 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:88485428 original size:96 final size:96
Alignment explanation
Indices: 88485259--88485456 Score: 362
Period size: 96 Copynumber: 2.1 Consensus size: 96
88485249 AACATTTAAT
* *
88485259 ACACA-CATATACCCACTAGTAAAGCATCCTCCCCCTTTTCATCGATTTAACACATGCATTGCTC
1 ACACATCATATACACACTAGTAAAGCATCCTCCCCCTTTTCATCAATTTAACACATGCATTGCTC
88485323 ATCAACATGCAAAGTTACATTCGGCCTTAGC
66 ATCAACATGCAAAGTTACATTCGGCCTTAGC
88485354 ACACATCATATACACACTAGTAAAGCATCCTCCCCCTTTTCATCAATTTAACACATGCATTGCTC
1 ACACATCATATACACACTAGTAAAGCATCCTCCCCCTTTTCATCAATTTAACACATGCATTGCTC
*
88485419 ATTAACATGCAAAGTTACATTCGGCCTTAGC
66 ATCAACATGCAAAGTTACATTCGGCCTTAGC
88485450 ACACATC
1 ACACATC
88485457 TTGCTAGCCG
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
95 5 0.05
96 94 0.95
ACGTcount: A:0.32, C:0.31, G:0.10, T:0.28
Consensus pattern (96 bp):
ACACATCATATACACACTAGTAAAGCATCCTCCCCCTTTTCATCAATTTAACACATGCATTGCTC
ATCAACATGCAAAGTTACATTCGGCCTTAGC
Found at i:88492688 original size:40 final size:40
Alignment explanation
Indices: 88492590--88492852 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
88492580 TCCTCGTTCA
* * * ** *
88492590 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
88492629 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88492669 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
88492709 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
88492749 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
88492789 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
88492829 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
88492853 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:88502336 original size:179 final size:179
Alignment explanation
Indices: 88502029--88502353 Score: 437
Period size: 179 Copynumber: 1.8 Consensus size: 179
88502019 ATTTTCCTCG
* ** *
88502029 AAACTAGACTCACATATATTCTAACCAAAAAAATTTTCGAATTTTTTGTTTAGCCAATTAGTACA
1 AAACGAGACTCACATATATTCTAACCAAAAAAATTTTCGAATTTTTCATTCAGCCAATTAGTACA
* *
88502094 GTTTATTCATTAAAGTTACCTCTATTTCGCTATCCAACAATTCTGACTTCTCTTCAATAAAAATT
66 GTTTATCCATTAAAGTTACCTCTATTTCACTATCCAACAATTCTGACTTCTCTTCAATAAAAATT
88502159 ATTTATCTCATGGTACGGGACTCCAAATTAATAAATGATAGTTTAAAAA
131 ATTTATCTCATGGTACGGGACTCCAAATTAATAAATGATAGTTTAAAAA
* *
88502208 AAACGAGACTCACATATATTCCT-ACC-ATAAAATTTTCAGAATTTTTCATTCATCCAATTAGTA
1 AAACGAGACTCACATATATT-CTAACCAAAAAAATTTTC-GAATTTTTCATTCAGCCAATTAGTA
* * * * *
88502271 CAGTTTATCCATTAAA-TATACC-CTTATTTCACTGTCCGACAGTTCCT-ATCTT-TCTTTACTA
64 CAGTTTATCCATTAAAGT-TACCTC-TATTTCACTATCCAACAATT-CTGA-CTTCTCTTCAATA
88502332 AAAATTATTTATCTCATGGTAC
125 AAAATTATTTATCTCATGGTAC
88502354 ACATCATGAA
Statistics
Matches: 127, Mismatches: 13, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
178 12 0.09
179 108 0.85
180 7 0.06
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (179 bp):
AAACGAGACTCACATATATTCTAACCAAAAAAATTTTCGAATTTTTCATTCAGCCAATTAGTACA
GTTTATCCATTAAAGTTACCTCTATTTCACTATCCAACAATTCTGACTTCTCTTCAATAAAAATT
ATTTATCTCATGGTACGGGACTCCAAATTAATAAATGATAGTTTAAAAA
Found at i:88503001 original size:50 final size:50
Alignment explanation
Indices: 88502918--88503310 Score: 313
Period size: 50 Copynumber: 7.8 Consensus size: 50
88502908 ACCAAAGCTC
* *
88502918 TCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCAACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAA
* * * * ** * *
88502968 TCTGGTACACGTAGTAGCCTGCACGTAGCACTACACACGTGACTTATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAA
* ** * ** *
88503018 TCTGATACATGTAGTAGCCTGCACTTAGTACTACACTCATG-ATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACA--CATGCAACCTA-TCAA
* **
88503070 T-GGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAA
* * * * ** * *
88503119 TCCGGTACACATAGTAGGCTGTACTTAGTACTACACATGTAATCGAAACTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAA-CCTATCAA
* * * * *
88503170 TCGGGTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAA
* * * * ** * *
88503220 TCTAGTGCACGTAGTAGCCTGCAATTAGTACTACACATGTGACCTAAAACTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCT--ATCAA
*** *
88503272 TCTTAAACACATAGTAGCCTGCACATAGTACTACACATG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
88503311 TGTTCTCACA
Statistics
Matches: 268, Mismatches: 67, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
49 8 0.03
50 150 0.56
51 68 0.25
52 42 0.16
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAA
Found at i:88503103 original size:101 final size:101
Alignment explanation
Indices: 88502929--88503310 Score: 319
Period size: 101 Copynumber: 3.8 Consensus size: 101
88502919 CTGGTACGCA
* ** * * * * *
88502929 TAGTAGCCTACACTTAGTACTACA-CATGCAA-CCTATCAATCTGGTACACGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACCATG-AATCGAAACTATCGGGTACGCATAGTAGCCTGCAC
* * * * * * *
88502992 GTAGCACTACACACGTGACTTATCCATCTGATACATG
65 TTAGTACTACACATGCGACCTATCAATCTGATACACG
** *
88503029 TAGTAGCCTGCACTTAGTACTACACTCATG-ATCGAAGTTAAT-GGGTATGCATAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACAC-CATGAATCGAAACT-ATCGGGTACGCATAGTAGCCTGCA
* * * *
88503092 CTTAGTACTACACATGCAACCTATCAATCCGGTACACA
64 CTTAGTACTACACATGCGACCTATCAATCTGATACACG
* * *
88503130 TAGTAGGCTGTACTTAGTACTACA-CATGTAATCGAAACTATCGGGTACGCATAGTAACCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACCATG-AATCGAAACTATCGGGTACGCATAGTAGCCTGCAC
* *
88503194 TTAGTACTACACATGCGACCTAACAATCT-AGTGCACG
65 TTAGTACTACACATGCGACCTATCAATCTGA-TACACG
* * * * **** *
88503231 TAGTAGCCTGCAATTAGTACTACA-CATGTGACCTAAAACTATCTTAAACACATAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACACCATG-AATC-GAAACTATCGGGTACGCATAGTAGCCTGCA
*
88503295 CATAGTACTACACATG
64 CTTAGTACTACACATG
88503311 TGTTCTCACA
Statistics
Matches: 227, Mismatches: 46, Indels: 16
0.79 0.16 0.06
Matches are distributed among these distances:
99 4 0.02
100 26 0.11
101 153 0.67
102 44 0.19
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACCATGAATCGAAACTATCGGGTACGCATAGTAGCCTGCACT
TAGTACTACACATGCGACCTATCAATCTGATACACG
Found at i:88503196 original size:51 final size:50
Alignment explanation
Indices: 88503029--88503208 Score: 186
Period size: 51 Copynumber: 3.6 Consensus size: 50
88503019 CTGATACATG
** *
88503029 TAGTAGCCTGCACTTAGTACTACACTCATG-ATCGAAGTTAAT-GGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACA--CATGAATCGAAACT-ATCGGGTACGCA
** * * * *
88503080 TAGTAGCCTGCACTTAGTACTACACATGCAA-CCTATCAATCCGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATG-AATCGAAACTATCGGGTACGCA
* *
88503130 TAGTAGGCTGTACTTAGTACTACACATGTAATCGAAACTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATG-AATCGAAACTATCGGGTACGCA
*
88503181 TAGTAACCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
88503209 CGACCTAACA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 6 0.06
50 36 0.34
51 63 0.60
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGAATCGAAACTATCGGGTACGCA
Found at i:88505066 original size:18 final size:18
Alignment explanation
Indices: 88505001--88505075 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 18
88504991 TATCAAAACT
*
88505001 AGAATCAAAATGAGAATC
1 AGAATCAAAATTAGAATC
*
88505019 AGAATCAAAAATAGAATCAGGTGAC
1 AGAATCAAAATTAG-A--A--T--C
88505044 AGAATCAAAATTAGAATC
1 AGAATCAAAATTAGAATC
*
88505062 AGAATCAGAATTAG
1 AGAATCAAAATTAG
88505076 GTAACAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
18 26 0.57
19 1 0.02
20 1 0.02
21 1 0.02
22 1 0.02
23 1 0.02
24 1 0.02
25 14 0.30
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (18 bp):
AGAATCAAAATTAGAATC
Found at i:88505100 original size:37 final size:36
Alignment explanation
Indices: 88505006--88505100 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 36
88504996 AAACTAGAAT
* * *
88505006 CAAAATGAGAATCAGAATCAAAAATAGAATCAGGTGA
1 CAAAATCAGAATCAGAATC-AGAATAGAATCAGGTAA
* * * *
88505043 CAGAATCAAAATTAGAATCAGAATCAGAATTAGGTAA
1 CAAAATCAGAATCAGAATCAGAAT-AGAATCAGGTAA
* *
88505080 CAAAATTAGAATCAGTATCAG
1 CAAAATCAGAATCAGAATCAG
88505101 GTAACAGAAC
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
36 4 0.09
37 41 0.91
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.20
Consensus pattern (36 bp):
CAAAATCAGAATCAGAATCAGAATAGAATCAGGTAA
Found at i:88505108 original size:62 final size:62
Alignment explanation
Indices: 88505034--88505184 Score: 230
Period size: 62 Copynumber: 2.4 Consensus size: 62
88505024 CAAAAATAGA
* * * *
88505034 ATCAGGTGACAGAATCAAAATTAGAATCAGAATCAGAATTAGGTAACAAAATTAGAATCAGT
1 ATCAGGTAACAGAATCAGAATTAGAATCAGAATCAAAATTAGGTAACAAAATCAGAATCAGT
* * *
88505096 ATCAGGTAACAGAACCAGAATTAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGT
1 ATCAGGTAACAGAATCAGAATTAGAATCAGAATCAAAATTAGGTAACAAAATCAGAATCAGT
*
88505158 ATCAGGTAACAGAATCAGAATCAGAAT
1 ATCAGGTAACAGAATCAGAATTAGAAT
88505185 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 79 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (62 bp):
ATCAGGTAACAGAATCAGAATTAGAATCAGAATCAAAATTAGGTAACAAAATCAGAATCAGT
Found at i:88505115 original size:25 final size:25
Alignment explanation
Indices: 88505056--88505121 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
88505046 AATCAAAATT
*
88505056 AGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* * *
88505081 AAAATTAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
88505106 AGAACCAGAATTAGAA
1 AGAATCAGAATCAGAA
88505122 CCAGAATCAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:88505177 original size:31 final size:31
Alignment explanation
Indices: 88505013--88505184 Score: 106
Period size: 31 Copynumber: 5.5 Consensus size: 31
88505003 AATCAAAATG
* *
88505013 AGAATCAGAATCAAAAAT-AGAATCAGGTGAC
1 AGAATCAGAATC-AGAATCAGAATCAGGTAAC
* * *
88505044 AGAATCAAAATTAGAATCAGAATCA-G-AATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-C
* * *
88505074 AGGTAA-CAAAATTAGAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAGAATCAGAATCAGGTAAC
* * * * *
88505106 AGAACCAGAATTAGAACCAGAATCA--AAATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-C
*
88505136 AGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAGAATCAGAATCAGGTAAC
88505168 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
88505185 GTGAATGCAA
Statistics
Matches: 111, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
29 3 0.03
30 11 0.10
31 86 0.77
32 7 0.06
33 4 0.04
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:88505181 original size:25 final size:25
Alignment explanation
Indices: 88505118--88505184 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
88505108 AACCAGAATT
* * *
88505118 AGAACCAGAATCAAAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
88505143 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
88505168 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
88505185 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:88505755 original size:27 final size:27
Alignment explanation
Indices: 88505708--88505948 Score: 241
Period size: 27 Copynumber: 8.9 Consensus size: 27
88505698 GGGTAAAATG
* * * * *
88505708 GTAATTTTACCCAACAAGGGTATCTCT
1 GTAATTCTACCCTACAGGGGTATTTCA
*
88505735 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
88505762 GTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
88505789 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
88505816 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
88505843 GTAATTCTACCCTATAGAGTTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
88505870 GTATTTCTACCTTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
88505896 GATATTTTTACCTTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
88505924 GTATTTCTACCCTATAAGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
88505949 TGGTAATCTT
Statistics
Matches: 181, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 179 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:88505835 original size:81 final size:81
Alignment explanation
Indices: 88505711--88505948 Score: 300
Period size: 81 Copynumber: 3.0 Consensus size: 81
88505701 TAAAATGGTA
* * * *
88505711 ATTT-TACCCAACAAGGGTATCTCT-GTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCT
1 ATTTCTACCCTACAAGGGTAT-TTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
88505774 TATAGGGGTATTTCAGT
65 TATAGGGGTATTTCAGT
*
88505791 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
* * *
88505856 ATAGAGTTATTTCGGT
66 ATAGGGGTATTTCAGT
* * * * * * * *
88505872 ATTTCTACCTTACAGGGGTATTTCGATATTTTTACCTTACAGGGGTATTTCAGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
88505937 ATAAGGGTATTT
66 ATAGGGGTATTT
88505949 TGGTAATCTT
Statistics
Matches: 136, Mismatches: 20, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
80 6 0.04
81 130 0.96
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ATAGGGGTATTTCAGT
Found at i:88505970 original size:27 final size:27
Alignment explanation
Indices: 88505940--88506452 Score: 238
Period size: 27 Copynumber: 19.0 Consensus size: 27
88505930 CTACCCTATA
*
88505940 AGGGTATTTTGGTAATCTTGTAAA-TAG
1 AGGGTATTTTGGTAAT-TTATAAACTAG
**** * * *
88505967 AGGGTAAAACGATAATTCTGTAAATTAG
1 AGGGTATTTTGGTAATT-TATAAACTAG
* * *
88505995 -GGGTACTTTGGTAATTT-TACAAGTCG
1 AGGGTATTTTGGTAATTTATA-AACTAG
** * *
88506021 AGGGTATTTTAATAATTT-TACAAGTCG
1 AGGGTATTTTGGTAATTTATA-AACTAG
** *
88506048 AGGGTATTTCAGTAATTTCACAAA-TCAG
1 AGGGTATTTTGGTAATTT-ATAAACT-AG
*
88506076 -GGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* *
88506103 -GGGTATTTTGGTAATTTTACAAACCA-
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* *
88506129 AGGGTATTTTGGTAATTTTACAAACCA-
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* *
88506156 TGGGTATTTTGGTAATTTTATAAACCAG
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* * *
88506184 -GGGTATTTTAGTAATTTTACAAACCAG
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* * *
88506211 -GGGTATTTTGATAATTTTGTAAAGTA-
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* *
88506237 AGGGTATTTTGGTAATTTTACAAACCAG
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* *
88506265 -GGGTATTTTGGTGATTTTATAAACCA-
1 AGGGTATTTTGGT-AATTTATAAACTAG
* * * *
88506291 ATGGTATTTTAGTAATTTTACAAACCA-
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* *
88506318 AGGGTATTTTGGTAATTTTGTAAACCA-
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* * *
88506345 ATGGTATTTTGGTAATTTTACAAACCAG
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* *
88506373 -GAGTATTTTGGTGATTTTATAAA-TCA-
1 AGGGTATTTTGGT-AATTTATAAACT-AG
* * *
88506399 AGGGTATTTTAGTAATTTTACAAACCA-
1 AGGGTATTTTGGTAA-TTTATAAACTAG
* *
88506426 AGGTTATTTTGGTAATTTGGTAAACTA
1 AGGGTATTTTGGTAATTT-ATAAACTA
88506453 AAGTACTCTA
Statistics
Matches: 398, Mismatches: 65, Indels: 46
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.01
26 11 0.03
27 372 0.93
28 12 0.03
29 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTATAAACTAG
Found at i:88506064 original size:81 final size:79
Alignment explanation
Indices: 88505988--88506443 Score: 439
Period size: 81 Copynumber: 5.6 Consensus size: 79
88505978 ATAATTCTGT
* * ** * * *
88505988 AAATTAGGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTTAATAATTTTACAAGTCGAGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTAGTAATTTTACAA-ACAAGGG
*
88506052 TATTTCAGTAATTTCAC
64 TATTT-AGTAATTTTAC
* *
88506069 AAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA-CAAGGGT
*
88506134 ATTTTGGTAATTTTAC
65 A-TTTAGTAATTTTAC
* * * *
88506150 AAACCATGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA-CAAGGGT
* **
88506215 ATTTTGATAATTTTGT
65 ATTTAG-TAATTTTAC
* * * * *
88506231 AAAGT-AAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAATGG
1 AAA-TCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA-CAAGGG
88506295 TATTTTAGTAATTTTAC
64 TA-TTTAGTAATTTTAC
* * ** ** * *
88506312 AAACCAAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTGGTAATTTTACAAACCAGGAGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACAAGG-GT
* * *
88506377 ATTTTGGTGATTTTAT
65 A-TTTAGTAATTTTAC
* * * * *
88506393 AAATCAAGGGTATTTTAGTAATTTTACAAACCAAGGTTATTTTGGTAATTT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTT
88506444 GGTAAACTAA
Statistics
Matches: 318, Mismatches: 49, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
80 7 0.02
81 303 0.95
82 8 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACAAGGGTA
TTTAGTAATTTTAC
Found at i:88506419 original size:54 final size:53
Alignment explanation
Indices: 88505995--88506443 Score: 538
Period size: 54 Copynumber: 8.3 Consensus size: 53
88505985 TGTAAATTAG
* * ** * * * *
88505995 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAATAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAA-ACCA
** * * * * * *
88506049 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCA
* *
88506102 GGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCA
*
88506156 TGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAGTAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCA
* * ** *
88506210 GGGGTATTTTGATAATTTTGTAAAGTAAGGGTATTTTGGTAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCA
* *
88506264 GGGGTATTTTGGTGATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC-A
* * *
88506319 GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTGGTAATTTTACAAACCA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCA
* *
88506372 GGAGTATTTTGGTGATTTTATAAATCAAGGGTATTTTAGTAATTTTACAAACCAA
1 GG-GTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC-A
*
88506427 GGTTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
88506444 GGTAAACTAA
Statistics
Matches: 346, Mismatches: 45, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
53 5 0.01
54 337 0.97
55 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCA
Found at i:88511171 original size:42 final size:43
Alignment explanation
Indices: 88511067--88511204 Score: 136
Period size: 42 Copynumber: 3.2 Consensus size: 43
88511057 TATGAGATGT
** * * *
88511067 CATGTAAGACCACGTCTAGGACGTTGGCATCGATTTGA-GATTTA
1 CATGTAAGACCATATCTGGGACATTGGCATCGATAT-ATGA-TTA
* * * * *
88511111 CGTGTAAGACCATGTCTGGGAGATTGGCATTG-TATATGATTT
1 CATGTAAGACCATATCTGGGACATTGGCATCGATATATGATTA
* *
88511153 CATGTAAGACCCTATCTGGGACATTGGCATCGATATTTGATTA
1 CATGTAAGACCATATCTGGGACATTGGCATCGATATATGATTA
88511196 CATGTAAGA
1 CATGTAAGA
88511205 TCACGTTTGG
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
42 30 0.39
43 21 0.27
44 26 0.34
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCATATCTGGGACATTGGCATCGATATATGATTA
Found at i:88511216 original size:43 final size:43
Alignment explanation
Indices: 88511067--88511225 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
88511057 TATGAGATGT
* * *
88511067 CATGTAAGACCACGTCTAGGACGTTGGCATCGAT-TTGAGATTTA
1 CATGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGA-TTA
* * * * * *
88511111 CGTGTAAGACCATGTCTGGGAGATTGGCATTG-TATATGATTT
1 CATGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
*
88511153 CATGTAAGACC-CTATCTGGGACATTGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTA
* * *
88511196 CATGTAAGATCACGTTTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACATTGGCAT
88511226 TGTACAAGCT
Statistics
Matches: 91, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
42 28 0.31
43 35 0.38
44 28 0.31
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:88511229 original size:85 final size:86
Alignment explanation
Indices: 88511066--88511229 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 86
88511056 ATATGAGATG
* * * *
88511066 TCATGTAAGACCACGTCTAGGACGTTGGCATCGATTTGAGATTTACGTGTAAGACCATGTCTGGG
1 TCATGTAAGACCACATCTAGGACATTGGCATCGATTTGAGATTTACATGTAAGACCACGTCTGGG
88511131 AGATTGGCATTGTATATGATT
66 AGATTGGCATTGTATATGATT
* * * *
88511152 TCATGTAAGACC-CTATCTGGGACATTGGCATCGATATT-TGA-TTACATGTAAGATCACGTTTG
1 TCATGTAAGACCAC-ATCTAGGACATTGGCATCGAT-TTGAGATTTACATGTAAGACCACGTCTG
88511214 GGACG-TTGGCATTGTA
64 GGA-GATTGGCATTGTA
88511230 CAAGCTTCTC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
85 32 0.48
86 33 0.49
87 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (86 bp):
TCATGTAAGACCACATCTAGGACATTGGCATCGATTTGAGATTTACATGTAAGACCACGTCTGGG
AGATTGGCATTGTATATGATT
Found at i:88514068 original size:43 final size:43
Alignment explanation
Indices: 88513989--88514070 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
88513979 GTCGTACAAT
* * **
88513989 GCCAATGTCCCAGACATGGTTTTACATGTAGTCACATATCGAA
1 GCCAATGTCCCAGACAGGGTCTTACATGTAAACACATATCGAA
* *
88514032 GCCACTGTCCCAGACAGGGTCTTACTTGTAAACACATAT
1 GCCAATGTCCCAGACAGGGTCTTACATGTAAACACATAT
88514071 TGGAATCACA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
GCCAATGTCCCAGACAGGGTCTTACATGTAAACACATATCGAA
Found at i:88516809 original size:16 final size:16
Alignment explanation
Indices: 88516788--88516820 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
88516778 TTGTAACGAC
*
88516788 CCAAAAATCCTGAAAT
1 CCAAAAATCCTAAAAT
88516804 CCAAAAATCCTAAAAT
1 CCAAAAATCCTAAAAT
88516820 C
1 C
88516821 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.27, G:0.03, T:0.18
Consensus pattern (16 bp):
CCAAAAATCCTAAAAT
Found at i:88518326 original size:29 final size:29
Alignment explanation
Indices: 88518261--88518375 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
88518251 GCATGAGTAT
* * *
88518261 AATATGATTTGGGCCTAATGAGCCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
** *
88518290 AAGGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* * *
88518319 AATATGAACTAGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATATG
* *
88518348 AATAAG-ATTGGGCCTAGTGGGCTATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
88518376 CATGTATGTA
Statistics
Matches: 67, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 17 0.25
29 50 0.75
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATATG
Found at i:88521246 original size:16 final size:16
Alignment explanation
Indices: 88521225--88521257 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
88521215 TTGTAACGCC
88521225 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
88521241 CCAAAAATCCTGAAAT
1 CCAAAAATCCCGAAAT
88521257 C
1 C
88521258 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.06, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:88522767 original size:29 final size:28
Alignment explanation
Indices: 88522734--88522838 Score: 95
Period size: 29 Copynumber: 3.7 Consensus size: 28
88522724 AATATGATTC
88522734 GGGCCTAATGGGCCATATGAAAGTGAATT
1 GGGCCTAATGGGCCATATGAAA-TGAATT
* * * *
88522763 GGGCCTAGTGAGCCATAAGATTATGAATT
1 GGGCCTAATGGGCCATATGA-AATGAATT
* * *
88522792 GGGCCAAATGGGCCATTTG-AATAAGATT
1 GGGCCTAATGGGCCATATGAAATGA-ATT
* *
88522820 GGGCCTAGTGGGCTATATG
1 GGGCCTAATGGGCCATATG
88522839 CATGTATGGA
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
27 3 0.05
28 18 0.31
29 37 0.63
30 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (28 bp):
GGGCCTAATGGGCCATATGAAATGAATT
Found at i:88523905 original size:17 final size:18
Alignment explanation
Indices: 88523872--88523906 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88523862 TTTTGAGAAG
88523872 AGTTTTCAATGAAAACAC
1 AGTTTTCAATGAAAACAC
*
88523890 AGTTTTCACT-AAAACAC
1 AGTTTTCAATGAAAACAC
88523907 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (18 bp):
AGTTTTCAATGAAAACAC
Found at i:88526391 original size:57 final size:57
Alignment explanation
Indices: 88526295--88526409 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
88526285 CAAGTTCGAC
*
88526295 ACTTTTAAGGTAAACAACACCCGATTAAAACCTTATTTTGATGAGATTGATAGCAGG
1 ACTTTTAAGGTAAACAACACCCGATTAAAACATTATTTTGATGAGATTGATAGCAGG
* *
88526352 ACTTTTAAGGTAAACAACACCCGATTAAAACATTGTTTTGATGAGATTGATAGTAGG
1 ACTTTTAAGGTAAACAACACCCGATTAAAACATTATTTTGATGAGATTGATAGCAGG
88526409 A
1 A
88526410 ATGAGGAGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (57 bp):
ACTTTTAAGGTAAACAACACCCGATTAAAACATTATTTTGATGAGATTGATAGCAGG
Found at i:88529544 original size:270 final size:270
Alignment explanation
Indices: 88529063--88529603 Score: 1073
Period size: 270 Copynumber: 2.0 Consensus size: 270
88529053 CCTCTACGAC
*
88529063 CGCCGGAGTATCCTCCTCCATTCTCGAACTGATCACACTCCAAAACTCTAGTTCGAGGAATTCAT
1 CGCCGGAGTATCCTCCTCCATTCTCGAACCGATCACACTCCAAAACTCTAGTTCGAGGAATTCAT
88529128 CATAAAAGAAGTTTCACTTCTCTCCCTATCTTATTTTTATATTCTAATATCTATCTTTTTACATT
66 CATAAAAGAAGTTTCACTTCTCTCCCTATCTTATTTTTATATTCTAATATCTATCTTTTTACATT
88529193 GAGGGCAATGTGTATCTTAAGTGTGGGGGGCATTCATTCATTATCAGAAAAATCCCTGAATAATC
131 GAGGGCAATGTGTATCTTAAGTGTGGGGGGCATTCATTCATTATCAGAAAAATCCCTGAATAATC
88529258 ATCTTATTCTCTTGAAAAACTCTCATATCATATTTAGGATAAATTTTAATTGATTTATGATTTTG
196 ATCTTATTCTCTTGAAAAACTCTCATATCATATTTAGGATAAATTTTAATTGATTTATGATTTTG
88529323 ATTGATGTAT
261 ATTGATGTAT
88529333 CGCCGGAGTATCCTCCTCCATTCTCGAACCGATCACACTCCAAAACTCTAGTTCGAGGAATTCAT
1 CGCCGGAGTATCCTCCTCCATTCTCGAACCGATCACACTCCAAAACTCTAGTTCGAGGAATTCAT
88529398 CATAAAAGAAGTTTCACTTCTCTCCCTATCTTATTTTTATATTCTAATATCTATCTTTTTACATT
66 CATAAAAGAAGTTTCACTTCTCTCCCTATCTTATTTTTATATTCTAATATCTATCTTTTTACATT
88529463 GAGGGCAATGTGTATCTTAAGTGTGGGGGGCATTCATTCATTATCAGAAAAATCCCTGAATAATC
131 GAGGGCAATGTGTATCTTAAGTGTGGGGGGCATTCATTCATTATCAGAAAAATCCCTGAATAATC
88529528 ATCTTATTCTCTTGAAAAACTCTCATATCATATTTAGGATAAATTTTAATTGATTTATGATTTTG
196 ATCTTATTCTCTTGAAAAACTCTCATATCATATTTAGGATAAATTTTAATTGATTTATGATTTTG
88529593 ATTGATGTAT
261 ATTGATGTAT
88529603 C
1 C
88529604 TTGAATTAAA
Statistics
Matches: 270, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
270 270 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (270 bp):
CGCCGGAGTATCCTCCTCCATTCTCGAACCGATCACACTCCAAAACTCTAGTTCGAGGAATTCAT
CATAAAAGAAGTTTCACTTCTCTCCCTATCTTATTTTTATATTCTAATATCTATCTTTTTACATT
GAGGGCAATGTGTATCTTAAGTGTGGGGGGCATTCATTCATTATCAGAAAAATCCCTGAATAATC
ATCTTATTCTCTTGAAAAACTCTCATATCATATTTAGGATAAATTTTAATTGATTTATGATTTTG
ATTGATGTAT
Found at i:88532176 original size:93 final size:93
Alignment explanation
Indices: 88532068--88532239 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
88532058 CGCCCATAAG
* * *
88532068 CGAACTCGGACTCAACTCAACGAGCTTGGGA-GTTTGCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
88532132 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* * *
88532161 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
88532226 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88532240 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 5 0.07
93 67 0.93
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88532232 original size:46 final size:45
Alignment explanation
Indices: 88532061--88532236 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
88532051 TGTAACCCGC
* * * *
88532061 CCATAAGCGAACTCGGACTCAACTCAACGAGCTTGGGAGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGAATTCGTAT
* * * *
88532107 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG-ATGCCTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAATTCGTA--T
* * *
88532153 ACATCTCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGTAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-ATTCGTAT
*
88532200 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
88532237 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
44 2 0.02
45 6 0.06
46 60 0.58
47 29 0.28
48 2 0.02
49 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAATTCGTAT
Found at i:88542587 original size:59 final size:59
Alignment explanation
Indices: 88542495--88542612 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
88542485 AAGGGTGACG
88542495 ACACTAGGCTCCTAAAAAGGTGGCATGTGGAGCATTGGGGAAGGCATGGGATCGATTCC
1 ACACTAGGCTCCTAAAAAGGTGGCATGTGGAGCATTGGGGAAGGCATGGGATCGATTCC
*
88542554 ACACTAGGCTCCTAAAAAGGTGGCGTGTGGAGCATTGGGGAAGGCATGGGATCGATTCC
1 ACACTAGGCTCCTAAAAAGGTGGCATGTGGAGCATTGGGGAAGGCATGGGATCGATTCC
88542613 CAGTGTTGAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.20
Consensus pattern (59 bp):
ACACTAGGCTCCTAAAAAGGTGGCATGTGGAGCATTGGGGAAGGCATGGGATCGATTCC
Found at i:88547919 original size:29 final size:29
Alignment explanation
Indices: 88547857--88547943 Score: 97
Period size: 29 Copynumber: 3.1 Consensus size: 29
88547847 ATACCTGTAA
* * * * *
88547857 ATGGCCCACTAGACCC-AATTATATTCAC
1 ATGGCCCATTAGGCCCAAATCATATTTAT
88547885 ATGGCCCATTAGGCCCAAATCATATTTAT
1 ATGGCCCATTAGGCCCAAATCATATTTAT
* *
88547914 ATGGCCCTTTAGGCCCAAATCACA-TTAT
1 ATGGCCCATTAGGCCCAAATCATATTTAT
88547942 AT
1 AT
88547944 TCATGCTCAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 20 0.39
29 31 0.61
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.29
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCATATTTAT
Found at i:88557980 original size:29 final size:29
Alignment explanation
Indices: 88557930--88558037 Score: 155
Period size: 29 Copynumber: 3.8 Consensus size: 29
88557920 TCTGGTCCAC
*
88557930 CAGGCCC-AATCACATTTGTATGGCCCAT
1 CAGGCCCAAATCACATTTATATGGCCCAT
* * **
88557958 TAGGCCCAATTTGCATTTATATGGCCCAT
1 CAGGCCCAAATCACATTTATATGGCCCAT
88557987 CAGGCCCAAATCACATTTATATGGCCCAT
1 CAGGCCCAAATCACATTTATATGGCCCAT
*
88558016 CAGGCCCAAATCACATTCATAT
1 CAGGCCCAAATCACATTTATAT
88558038 TCATGCTCGC
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 6 0.09
29 63 0.91
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
CAGGCCCAAATCACATTTATATGGCCCAT
Found at i:88558913 original size:4 final size:4
Alignment explanation
Indices: 88558904--88558930 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
88558894 ATTTATATAA
88558904 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
88558931 AATACACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:88560400 original size:17 final size:19
Alignment explanation
Indices: 88560358--88560401 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
88560348 ATGAAATTTT
*
88560358 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
88560377 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
88560395 AA-TATTA
1 AATTATTA
88560402 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:88562817 original size:25 final size:25
Alignment explanation
Indices: 88562788--88562835 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88562778 TTATAATATG
* * *
88562788 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
88562813 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
88562836 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:88562902 original size:20 final size:20
Alignment explanation
Indices: 88562879--88562936 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
88562869 TAAACATGGT
88562879 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
88562899 ATGTATGATATACACATGAT
1 ATGTATGATATGCACATGAC
*
88562919 ATGTATCATATGCACATG
1 ATGTATGATATGCACATG
88562937 GTGTATTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:88563117 original size:24 final size:23
Alignment explanation
Indices: 88562987--88563105 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
88562977 AGGAAGTGCA
88562987 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
88563010 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
88563033 GAAGGGCTTATGCCCCGGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
88563056 AAAGGGCTTATGCCCCAGCTATT
1 AAAGGGCTTATGCCCCAGTTATT
88563079 AAAAGGGCTT-TGGCCCCAGTTATT
1 -AAAGGGCTTAT-GCCCCAGTTATT
88563103 AAA
1 AAA
88563106 AGAGGCTAGG
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 68 0.77
24 20 0.23
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:88563355 original size:31 final size:31
Alignment explanation
Indices: 88563320--88563383 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
88563310 CGTTTACAGT
88563320 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
88563351 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
88563382 AA
1 AA
88563384 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:88577509 original size:26 final size:26
Alignment explanation
Indices: 88577472--88577577 Score: 167
Period size: 26 Copynumber: 4.1 Consensus size: 26
88577462 GTACAAATTA
*
88577472 ATAATGGGTTAGGTAGATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
88577498 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
88577524 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
88577550 ATAATAGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
88577576 AT
1 AT
88577578 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:88582127 original size:15 final size:15
Alignment explanation
Indices: 88582107--88582136 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
88582097 GTAAGAACAT
88582107 AGTAAATCTTTTAAC
1 AGTAAATCTTTTAAC
88582122 AGTAAATCTTTTAAC
1 AGTAAATCTTTTAAC
88582137 TTAACAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
AGTAAATCTTTTAAC
Found at i:88582315 original size:41 final size:41
Alignment explanation
Indices: 88582243--88582424 Score: 206
Period size: 41 Copynumber: 4.5 Consensus size: 41
88582233 AAACAAGGGG
* * * * *
88582243 GCACACATGTACAATTCATGGGCACTGAAGTACAAACAGGA
1 GCACATATGTGCAATTCAGGGGTACCGAAGTACAAACAGGA
* * ** * *
88582284 GCACGTATATGCAATTCAGGGGTACAAAAGTACCAACAAGA
1 GCACATATGTGCAATTCAGGGGTACCGAAGTACAAACAGGA
** *
88582325 GCACATATGTGCAATTTTGGGGTACCGAAGTACAAACAGGG
1 GCACATATGTGCAATTCAGGGGTACCGAAGTACAAACAGGA
*
88582366 GCACATATGTGCAATTTAGGGGTACCGAAGTACAAA-AGG-
1 GCACATATGTGCAATTCAGGGGTACCGAAGTACAAACAGGA
*
88582405 GCACGTATGTGCAATTCAGG
1 GCACATATGTGCAATTCAGG
88582425 AAATAATTAA
Statistics
Matches: 119, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
39 18 0.15
40 3 0.03
41 98 0.82
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (41 bp):
GCACATATGTGCAATTCAGGGGTACCGAAGTACAAACAGGA
Found at i:88588447 original size:47 final size:47
Alignment explanation
Indices: 88588386--88588735 Score: 547
Period size: 47 Copynumber: 7.4 Consensus size: 47
88588376 CAGCCAAGAC
*
88588386 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
88588433 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
88588480 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
88588527 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
88588576 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
88588623 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGTATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
88588670 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
88588717 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
88588736 TCCCGAAGGG
Statistics
Matches: 282, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
47 235 0.83
49 47 0.17
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Done.