Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 187 of 344
Found at i:62456138 original size:54 final size:54
Alignment explanation
Indices: 62456080--62456183 Score: 120
Period size: 54 Copynumber: 1.9 Consensus size: 54
62456070 TATTTCGGTC
* ** *
62456080 ATTTTACCCTATAAGGGT-ATTTCCGTCATTTTACCACATGAGGGCAAAATCATA
1 ATTTTACCCTAGAAGGGTAAAAT-CGTCATTTTACCACATGAGGGAAAAATCATA
* * * *
62456134 ATTTTATCGTAGAATGGTAAAATCGTCATTTTATCACATGAGGGAAAAAT
1 ATTTTACCCTAGAAGGGTAAAATCGTCATTTTACCACATGAGGGAAAAAT
62456184 TGTCATTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
54 39 0.95
55 2 0.05
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (54 bp):
ATTTTACCCTAGAAGGGTAAAATCGTCATTTTACCACATGAGGGAAAAATCATA
Found at i:62456192 original size:54 final size:54
Alignment explanation
Indices: 62456103--62456254 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
62456093 AGGGTATTTC
* * ** * ** * *
62456103 CGTCATTTTACCACATGAGGGCAAAATCATAATTTTATCGTAGAATGGTAAAAT
1 CGTCATTTTATCACATGAGGGAAAAATTGTCATTTTATCACAGAAGGGCAAAAT
*
62456157 CGTCATTTTATCACATGAGGGAAAAATTGTCATTTTATCACATAAGGGCAAAAT
1 CGTCATTTTATCACATGAGGGAAAAATTGTCATTTTATCACAGAAGGGCAAAAT
* * *
62456211 CGACATTTTATCACTACATAAGGGAAAAATTGACATTTTATCAC
1 CGTCATTTTAT--C-ACATGAGGGAAAAATTGTCATTTTATCAC
62456255 TTGAGGGTTC
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
54 54 0.66
56 1 0.01
57 27 0.33
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (54 bp):
CGTCATTTTATCACATGAGGGAAAAATTGTCATTTTATCACAGAAGGGCAAAAT
Found at i:62456255 original size:30 final size:30
Alignment explanation
Indices: 62456169--62456255 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
62456159 TCATTTTATC
* *
62456169 ACATGAGGGAAAAATTGTCATTTTAT--C-
1 ACATAAGGGAAAAATTGACATTTTATCACT
* *
62456196 ACATAAGGGCAAAATCGACATTTTATCACT
1 ACATAAGGGAAAAATTGACATTTTATCACT
62456226 ACATAAGGGAAAAATTGACATTTTATCACT
1 ACATAAGGGAAAAATTGACATTTTATCACT
62456256 TGAGGGTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
27 22 0.43
29 1 0.02
30 28 0.55
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (30 bp):
ACATAAGGGAAAAATTGACATTTTATCACT
Found at i:62464815 original size:24 final size:24
Alignment explanation
Indices: 62464788--62464849 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
62464778 TGGAGTTTCT
62464788 CGATATGGTTCTTTGTA-AACTTCC
1 CGATATGGTTCTTTG-AGAACTTCC
*
62464812 CGATAAGGTTCTTTGAGAACTTCC
1 CGATATGGTTCTTTGAGAACTTCC
* *
62464836 TGATTATGGCTCTT
1 CGA-TATGGTTCTT
62464850 ATAAGCTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 23 0.72
25 8 0.25
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (24 bp):
CGATATGGTTCTTTGAGAACTTCC
Found at i:62466107 original size:57 final size:57
Alignment explanation
Indices: 62466046--62466179 Score: 141
Period size: 57 Copynumber: 2.4 Consensus size: 57
62466036 ATGGCCCACT
* *
62466046 AGGCCCAA-TCTCATTTATATAGCCCATCT-GGCCCAACTCACATTCATATGGCCTATC
1 AGGCCCAATTCACATTCATATAGCCCAT-TAGGCCCAA-TCACATTCATATGGCCTATC
* * * * *
62466103 AGGCCTAATTCACATTCATATGGCCCATTAGGCCCAATCTCATTTATATGGCCCATCC
1 AGGCCCAATTCACATTCATATAGCCCATTAGGCCCAATCACATTCATATGGCCTAT-C
*
62466161 A-GCCCAAATCACATT-ATAT
1 AGGCCCAATTCACATTCATAT
62466180 TCATGCTCAT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
56 4 0.06
57 36 0.55
58 25 0.38
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.28
Consensus pattern (57 bp):
AGGCCCAATTCACATTCATATAGCCCATTAGGCCCAATCACATTCATATGGCCTATC
Found at i:62466165 original size:28 final size:30
Alignment explanation
Indices: 62466034--62466179 Score: 146
Period size: 29 Copynumber: 5.1 Consensus size: 30
62466024 ACATACATGA
* *
62466034 ATATGGCCCA-CTAGGCCCAA-TCTCATTT
1 ATATGGCCCATCTAGGCCCAACTCACATTC
*
62466062 ATATAGCCCATCT-GGCCCAACTCACATTC
1 ATATGGCCCATCTAGGCCCAACTCACATTC
* * *
62466091 ATATGGCCTATC-AGGCCTAATTCACATTC
1 ATATGGCCCATCTAGGCCCAACTCACATTC
* *
62466120 ATATGGCCCAT-TAGGCCCAA-TCTCATTT
1 ATATGGCCCATCTAGGCCCAACTCACATTC
* *
62466148 ATATGGCCCATCCA-GCCCAAATCACATT-
1 ATATGGCCCATCTAGGCCCAACTCACATTC
62466176 ATAT
1 ATAT
62466180 TCATGCTCAT
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
28 43 0.43
29 56 0.57
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (30 bp):
ATATGGCCCATCTAGGCCCAACTCACATTC
Found at i:62467653 original size:17 final size:17
Alignment explanation
Indices: 62467631--62467664 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62467621 GAAAAAAAAA
*
62467631 TTCGAGATTTTTTGGGT
1 TTCGAGATTTTTAGGGT
62467648 TTCGAGATTTTTAGGGT
1 TTCGAGATTTTTAGGGT
62467665 GTTACAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.29, T:0.50
Consensus pattern (17 bp):
TTCGAGATTTTTAGGGT
Found at i:62473033 original size:29 final size:29
Alignment explanation
Indices: 62472991--62473094 Score: 129
Period size: 29 Copynumber: 3.6 Consensus size: 29
62472981 GGCCTAATCT
* *
62472991 CATTTATATGGCCCATCCGGCCCAACTCA
1 CATTCATATGGCCCATCAGGCCCAACTCA
* * *
62473020 CGTTCATGTGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAACTCA
* *
62473049 CATTCATATGGCCCATTAGGCCCAA-TCT
1 CATTCATATGGCCCATCAGGCCCAACTCA
*
62473077 CATTTATATGGCCCATCA
1 CATTCATATGGCCCATCA
62473095 CATTATATTC
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 18 0.28
29 46 0.72
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAACTCA
Found at i:62477420 original size:26 final size:27
Alignment explanation
Indices: 62477369--62477421 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
62477359 TTGCCTCAAA
*
62477369 TTCAAATCTTTTTGAGTCATCAAATAT
1 TTCAAATCTTTTTGAGTCAGCAAATAT
*
62477396 TTCAAA-CTTTTGTGA-TCAGCGAATAT
1 TTCAAATCTTTT-TGAGTCAGCAAATAT
62477422 GTGGCACTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (27 bp):
TTCAAATCTTTTTGAGTCAGCAAATAT
Found at i:62484073 original size:24 final size:23
Alignment explanation
Indices: 62484030--62484075 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
62484020 GGGCGTTACA
* *
62484030 TTCCCGATAGGCTCTTTATGAGC
1 TTCCCGAAAGGCTCTATATGAGC
62484053 TTCCCGAAATGGCTCTATATGAG
1 TTCCCGAAA-GGCTCTATATGAG
62484076 TGTACACTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (23 bp):
TTCCCGAAAGGCTCTATATGAGC
Found at i:62487167 original size:25 final size:25
Alignment explanation
Indices: 62487122--62487169 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
62487112 TGATGCAATG
* *
62487122 TATTAAATATTTATATGTGATTACT
1 TATTAAATATATATATATGATTACT
62487147 TATTAAAT-TATATAATATGATTA
1 TATTAAATATATAT-ATATGATTA
62487170 AATGATTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (25 bp):
TATTAAATATATATATATGATTACT
Found at i:62487231 original size:37 final size:37
Alignment explanation
Indices: 62487189--62487266 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
62487179 ACATAGTTAC
62487189 TAAGAATTTGCTTTTAATGTTAAATCATGAATGACAT
1 TAAGAATTTGCTTTTAATGTTAAATCATGAATGACAT
62487226 TAAGAATTTGCTTTTAATGTTAAATCATGAATGACAT
1 TAAGAATTTGCTTTTAATGTTAAATCATGAATGACAT
62487263 TAAG
1 TAAG
62487267 TGAACAATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (37 bp):
TAAGAATTTGCTTTTAATGTTAAATCATGAATGACAT
Found at i:62493831 original size:39 final size:40
Alignment explanation
Indices: 62493680--62493849 Score: 209
Period size: 40 Copynumber: 4.3 Consensus size: 40
62493670 GGACTAAGAT
* * *
62493680 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-TCCGGGTTAAGTC
* *
62493720 CCGAAGGCCTTCGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
62493760 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
62493800 CCGAAGGTATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
62493839 CCGAAGGCATT
1 CCGAAGGCATT
62493850 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:62501666 original size:40 final size:40
Alignment explanation
Indices: 62501622--62501793 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
62501612 GAACTAAGAT
*
62501622 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
62501662 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
62501702 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
62501742 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
62501781 CCGAAGGCATTTG
1 CCGAAGGCATTTG
62501794 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.29
40 81 0.69
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:62501707 original size:80 final size:79
Alignment explanation
Indices: 62501622--62501793 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
62501612 GAACTAAGAT
*
62501622 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
62501686 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
62501702 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
62501767 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
62501781 CCGAAGGCATTTG
1 CCGAAGGCATTTG
62501794 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:62501811 original size:79 final size:80
Alignment explanation
Indices: 62501649--62501826 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
62501639 AGATACAAAT
* * * *
62501649 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
62501714 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
62501729 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
62501793 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
62501808 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
62501827 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:62511888 original size:37 final size:37
Alignment explanation
Indices: 62511829--62511974 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
62511819 AGCTCAGACG
* *
62511829 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
62511866 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * * *
62511903 TAATCTCTACATGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
62511940 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
62511975 ATATATTTCC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:62512175 original size:48 final size:48
Alignment explanation
Indices: 62512121--62512255 Score: 261
Period size: 48 Copynumber: 2.8 Consensus size: 48
62512111 GAACATCGCC
*
62512121 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
62512169 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
62512217 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
62512256 TGCATGTTCA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:62512304 original size:47 final size:47
Alignment explanation
Indices: 62512225--62512418 Score: 291
Period size: 47 Copynumber: 4.1 Consensus size: 47
62512215 CATACATATT
* * *
62512225 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
62512272 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
62512319 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
62512366 TCACATTGGCCATTCGGCCTTATCTCATATATAC-TCATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCAT-GTTCACATTCA
62512413 TCACAT
1 TCACAT
62512419 AAAATCCTAA
Statistics
Matches: 134, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 133 0.99
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:62512345 original size:22 final size:22
Alignment explanation
Indices: 62512318--62512389 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
62512308 GCTCACATTC
62512318 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
62512340 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
62512364 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
62512387 ATC
1 ATC
62512390 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:62512408 original size:94 final size:94
Alignment explanation
Indices: 62512129--62512418 Score: 306
Period size: 94 Copynumber: 3.1 Consensus size: 94
62512119 CCTACATATT
* * * * *
62512129 TCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATACATAT-TTCACATTAGCCATT
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATGT-TC--ACAT-TCATCACATTGGCCATT
* * * *
62512191 CGGCTTTACCACATATACATATCTCATACATATT--
62 CGGCCTTATCACATAT--ATA-CTCATTCACATTCA
* *
62512225 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
* *
62512290 CTTATCACACATAT--GCATGCTCACATTCA
66 CTTATCACATATATACTCAT--TCACATTCA
* *
62512319 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
*
62512384 CTTATCTCATATATACTCATTCACATTCA
66 CTTATCACATATATACTCATTCACATTCA
62512413 TCACAT
1 TCACAT
62512419 AAAATCCTAA
Statistics
Matches: 167, Mismatches: 18, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
90 3 0.02
92 5 0.03
93 2 0.01
94 89 0.53
95 29 0.17
96 33 0.20
97 2 0.01
98 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACATATATACTCATTCACATTCA
Found at i:62521443 original size:119 final size:120
Alignment explanation
Indices: 62521237--62521459 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
62521227 TCCTCGTTCA
* *
62521237 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGAAT
* *
62521302 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * ** *
62521357 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGA
* * *
62521419 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
62521460 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 65 0.74
120 20 0.23
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGAAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:62521459 original size:40 final size:40
Alignment explanation
Indices: 62521235--62521459 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
62521225 GCTCCTCGTT
* *
62521235 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
62521275 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
62521315 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
62521355 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
62521394 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
62521435 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62521460 CATCATTCAA
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 31 0.19
40 117 0.73
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:62523239 original size:93 final size:93
Alignment explanation
Indices: 62523127--62523298 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
62523117 CGCCCATAAG
*
62523127 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
62523191 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
62523220 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
62523285 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
62523299 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:62523293 original size:46 final size:46
Alignment explanation
Indices: 62523120--62523295 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
62523110 TGTAACCCGC
* *
62523120 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
62523166 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
62523216 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
62523259 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
62523296 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62549116 original size:34 final size:34
Alignment explanation
Indices: 62549070--62549138 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
62549060 GCACAGTTAA
* *
62549070 AACAGTCTTGGGCCCAAGCCCTTTTCAGTATCAGT
1 AACAGTCTTGGGCCCAAGCCCATCTCAGTA-CAGT
*
62549105 AACAGT-TTGGGCCCTAGCCCATCTCAGTACAGT
1 AACAGTCTTGGGCCCAAGCCCATCTCAGTACAGT
62549138 A
1 A
62549139 TCGAATATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 5 0.16
34 20 0.65
35 6 0.19
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (34 bp):
AACAGTCTTGGGCCCAAGCCCATCTCAGTACAGT
Found at i:62553237 original size:41 final size:41
Alignment explanation
Indices: 62553176--62553298 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
62553166 TAAAAGCTAC
* * *
62553176 CGGTGGATCCACGGTCGTCAAGCAGCCATGCGATCCTTAAT
1 CGGTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAAT
*
62553217 CGGTGGATCCACGGTTGTCAAGCAACCATACGATCCTCAAT
1 CGGTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAAT
*
62553258 CGGTAGATCCACGGTTGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAAT
62553299 TTCTTCCTCT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (41 bp):
CGGTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAAT
Found at i:62553587 original size:27 final size:27
Alignment explanation
Indices: 62553555--62553851 Score: 227
Period size: 27 Copynumber: 11.0 Consensus size: 27
62553545 TTGATAAATC
* *
62553555 TACAAACCAATGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * * **
62553582 TGCAAACCAATGGTATTTATGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
** **
62553609 TTGAAAGTCAAGGGTATTTTTGTAATTT
1 TACAAA-TCAAGGGTATTTCGGTAATTT
* *
62553637 TCCAAATCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* **
62553664 TCCAAATCAAGGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
62553691 TACAAGTCTAGGTTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
62553718 TACAAGTCTAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
** * * *
62553745 TACAGGTCGAGGGTATTTGGGAAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
62553772 CACAAATCATGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
62553799 TACAAA-CTAGAGGTATTTTGTTAATTT
1 TACAAATCAAG-GGTATTTCGGTAATTT
** * * *
62553826 TGTAAACCAATGGTATTTCAGTAATT
1 TACAAATCAAGGGTATTTCGGTAATT
62553852 CTACCCTACA
Statistics
Matches: 222, Mismatches: 45, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
26 2 0.01
27 196 0.88
28 24 0.11
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGGTAATTT
Found at i:62553917 original size:21 final size:21
Alignment explanation
Indices: 62553884--62553924 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
62553874 CATGGGTCGG
* *
62553884 GCCGCGCTGGGTTCGGGCCGA
1 GCCGCGCTAGGTTCAGGCCGA
*
62553905 GCCGGGCTAGGTTCAGGCCG
1 GCCGCGCTAGGTTCAGGCCG
62553925 GGCCCAGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.32, G:0.46, T:0.15
Consensus pattern (21 bp):
GCCGCGCTAGGTTCAGGCCGA
Found at i:62556401 original size:48 final size:48
Alignment explanation
Indices: 62556337--62556442 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 48
62556327 CAAGATAAAT
* * * *
62556337 ATATATATGTGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
62556385 ATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
62556433 ATGTGTATAT
1 ATATGTATAT
62556443 ATTGTGGCCG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:62556626 original size:37 final size:37
Alignment explanation
Indices: 62556576--62556647 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
62556566 GAAATATATT
*
62556576 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
62556613 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
62556648 TCAGGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:62557838 original size:25 final size:26
Alignment explanation
Indices: 62557810--62557860 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
62557800 CTTATTTCAT
*
62557810 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
62557835 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
62557861 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:62557852 original size:26 final size:24
Alignment explanation
Indices: 62557822--62557870 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
62557812 AATAAAAAAT
*
62557822 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
62557848 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
62557871 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:62568445 original size:40 final size:40
Alignment explanation
Indices: 62568390--62568570 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
62568380 TATTCGGATG
* * *
62568390 ATATCCAGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
62568430 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
62568470 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
62568510 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
62568550 ATATCC-GGCTAAATCCCGAAG
1 ATATCCAGGCTAAGTCCCGAAG
62568571 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.10
40 112 0.88
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (40 bp):
ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:62583746 original size:19 final size:19
Alignment explanation
Indices: 62583710--62583748 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
62583700 TTTTCATCAT
* *
62583710 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
62583729 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
62583748 A
1 A
62583749 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:62584298 original size:28 final size:27
Alignment explanation
Indices: 62584212--62584301 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
62584202 GAGACAGAGT
* *
62584212 CACCAGATACTGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
62584241 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
62584268 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
62584296 CACCAG
1 CACCAG
62584302 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:62584454 original size:28 final size:28
Alignment explanation
Indices: 62584407--62584471 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
62584397 AAATTAACCC
*
62584407 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
62584435 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
62584463 TAGGGGTAT
1 TAGGGGTAT
62584472 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:62587338 original size:6 final size:6
Alignment explanation
Indices: 62587326--62587487 Score: 95
Period size: 6 Copynumber: 26.3 Consensus size: 6
62587316 AAGAAACATT
* *
62587326 ATCAGA A-CTAGA ATCAGA ATCAGA A-CTAGA ATCAG- GTGACAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATC-AGA ATCAGA AT--CAGA ATCAGA
* * * *
62587375 ATCAGA ATTAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT ATTAGGTA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
62587426 A-CAGA ATTAGA ATCAGA ACCAGA ATCAGA ATCAGTA A-CAGGTA A-CAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCA-G-A ATCAGA
*
62587474 ATCAGA ATTAGA AT
1 ATCAGA ATCAGA AT
62587488 GTGAATAGAA
Statistics
Matches: 123, Mismatches: 17, Indels: 32
0.72 0.10 0.19
Matches are distributed among these distances:
5 9 0.07
6 93 0.76
7 17 0.14
8 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:62587338 original size:18 final size:18
Alignment explanation
Indices: 62587305--62587356 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
62587295 GGCTTTAACC
62587305 CATTA-CAGAA-TAAGAAA
1 CATTATCAGAACT-AGAAA
*
62587322 CATTATCAGAACTAGAAT
1 CATTATCAGAACTAGAAA
**
62587340 CAGAATCAGAACTAGAA
1 CATTATCAGAACTAGAA
62587357 TCAGGTGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.17
18 24 0.80
19 1 0.03
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.19
Consensus pattern (18 bp):
CATTATCAGAACTAGAAA
Found at i:62587369 original size:37 final size:37
Alignment explanation
Indices: 62587335--62587487 Score: 128
Period size: 37 Copynumber: 4.3 Consensus size: 37
62587325 TATCAGAACT
*
62587335 AGAATCAGAATCAGAA-CTAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATC-AGAATCAGGTAACAGAATC
* * *
62587372 AAAATCAGAATTAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* *
62587409 AGAATCAGTATTAGGTAA-CAGAAT----T---AGAATC
1 AGAATCAGAATCA-G-AATCAGAATCAGGTAACAGAATC
*
62587440 AGAACCAGAATCAGAATCAGTAA-CAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAG-AATCAGGTAACAGAATC
*
62587477 AGAATTAGAAT
1 AGAATCAGAAT
62587488 GTGAATAGAA
Statistics
Matches: 93, Mismatches: 11, Indels: 24
0.73 0.09 0.19
Matches are distributed among these distances:
29 2 0.02
30 4 0.04
31 18 0.19
34 2 0.02
37 57 0.61
38 8 0.09
39 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:62587405 original size:25 final size:25
Alignment explanation
Indices: 62587377--62587443 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
62587367 GAATCAAAAT
62587377 CAGAATTAGAATCAGAATTAGGTAA
1 CAGAATTAGAATCAGAATTAGGTAA
* *
62587402 CAGAATCAGAATCAGTATTAGGTAA
1 CAGAATTAGAATCAGAATTAGGTAA
62587427 CAGAATTAGAATCAGAA
1 CAGAATTAGAATCAGAA
62587444 CCAGAATCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (25 bp):
CAGAATTAGAATCAGAATTAGGTAA
Found at i:62587449 original size:43 final size:43
Alignment explanation
Indices: 62587384--62587486 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
62587374 AATCAGAATT
* **
62587384 AGAATCAGAATTAGGTAA-CAGAATCAGAATCAGTATTAGGTAAC
1 AGAATCAGAATCA-G-AACCAGAATCAGAATCAGTAACAGGTAAC
*
62587428 AGAATTAGAATCAGAACCAGAATCAGAATCAGTAACAGGTAAC
1 AGAATCAGAATCAGAACCAGAATCAGAATCAGTAACAGGTAAC
*
62587471 AGAATCAGAATTAGAA
1 AGAATCAGAATCAGAA
62587487 TGTGAATAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.04
43 39 0.75
44 11 0.21
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (43 bp):
AGAATCAGAATCAGAACCAGAATCAGAATCAGTAACAGGTAAC
Found at i:62587654 original size:27 final size:26
Alignment explanation
Indices: 62587606--62587665 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
62587596 GCGAGGCTGC
*
62587606 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
62587633 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
62587659 CAGATAT
1 CAGATAT
62587666 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:62588061 original size:27 final size:27
Alignment explanation
Indices: 62588020--62588251 Score: 239
Period size: 27 Copynumber: 8.6 Consensus size: 27
62588010 TACCCCAAAA
* * * *
62588020 GGGTATCTCGATAATTCTACCTTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
62588047 GAGTACTTCAGTAATTTTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
62588074 GGGTATTTCGATATTTCAACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
62588101 GGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
62588128 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
62588155 GGGTATTTTGGTATTTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
62588182 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
** * *
62588209 GGGTATTTCGACATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
62588236 GGGTATTTCGATAATT
1 GGGTATTTCGGTAATT
62588252 TTGTAAATCG
Statistics
Matches: 171, Mismatches: 34, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 171 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:62588127 original size:81 final size:80
Alignment explanation
Indices: 62588018--62588248 Score: 277
Period size: 81 Copynumber: 2.9 Consensus size: 80
62588008 TTTACCCCAA
* * * *
62588018 AAGGGTATCTCGATAATTCTACCTTATAGGAGTACTTCAGTAATTTTACCCTACAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTATAGG-GTATTTCAGTAATTTTACCCTACAGGGGTATTTC
62588083 GATATTTCAACCCTAC
65 GATATTTCAACCCTAC
* * *
62588099 AAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTT
1 AAGGGTATTTCGGTAATTCTACCCTATA-GGGTATTTCAGTAATTTTACCCTACAGGGGTATTTC
* * *
62588164 GGTATTTCTACCTTAC
65 GATATTTCAACCCTAC
* * * *
62588180 AGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-G-ACATTTCTACCCTACAAGGGTATT
1 AAGGGTATTTCGGTAATTCTACCCTA-TAGGGTATTTCAGTA-ATTT-TACCCTACAGGGGTATT
62588243 TCGATA
63 TCGATA
62588249 ATTTTGTAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 4 0.03
81 120 0.94
82 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (80 bp):
AAGGGTATTTCGGTAATTCTACCCTATAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCG
ATATTTCAACCCTAC
Found at i:62588265 original size:27 final size:27
Alignment explanation
Indices: 62588235--62588500 Score: 128
Period size: 27 Copynumber: 9.9 Consensus size: 27
62588225 CTACCCTACA
* **
62588235 AGGGTATTTCGATAATTTTGTAAATCG
1 AGGGTATTTCAATAATTTTACAAATCG
*** * ** *
62588262 AGGGTAAAACAATAATTCTGTAAATCA
1 AGGGTATTTCAATAATTTTACAAATCG
** *
62588289 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAATAATTTTACAAATCG
*
62588316 AGGGTATTTCAATAATTTTACAAGTCG
1 AGGGTATTTCAATAATTTTACAAATCG
* * **
62588343 AGGGTATTTCAGTAATTTCACAAATTA
1 AGGGTATTTCAATAATTTTACAAATCG
*** *
62588370 AGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGTATTTCAATAATTTTACAAATCG
** *
62588396 AGAGGTATTTTGATAATTTTACAAA-CT
1 AG-GGTATTTCAATAATTTTACAAATCG
*** * *
62588423 AGGGGTATTTTGGTAATTTCACAAA-CT
1 A-GGGTATTTCAATAATTTTACAAATCG
** * * *
62588450 AGAGGTATTT-GGTAATTTTATAAACCA
1 AG-GGTATTTCAATAATTTTACAAATCG
* *
62588477 AGGGTATTTTAGTAATTTTACAAA
1 AGGGTATTTCAATAATTTTACAAA
62588501 CTAAAGGTAT
Statistics
Matches: 196, Mismatches: 36, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
26 25 0.13
27 170 0.87
28 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAATAATTTTACAAATCG
Found at i:62588320 original size:81 final size:80
Alignment explanation
Indices: 62588235--62588420 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 80
62588225 CTACCCTACA
** **
62588235 AGGGTATTTCGATAATTTTGTAAATCGAGGGTAAAACAATAA-TTCTGTAAATCAAGGGTACTTT
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTAAAACAATAATTTC-ACAAATCAAGGGTACTTT
*
62588299 GGTAATTTTACAAGTCG
65 GGTAATTTTACAA-ACG
* * *** * * *
62588316 AGGGTATTTCAATAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATTAAGGGTATTTTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTAAAACAATAATTTCACAAATCAAGGGTACTTTG
*
62588381 GTAATTTTACAAACT
66 GTAATTTTACAAACG
*
62588396 AGAGGTATTTTGATAATTTTACAAA
1 AG-GGTATTTCGATAATTTTACAAA
62588421 CTAGGGGTAT
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
80 3 0.03
81 80 0.93
82 3 0.03
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (80 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTAAAACAATAATTTCACAAATCAAGGGTACTTTG
GTAATTTTACAAACG
Found at i:62588429 original size:81 final size:82
Alignment explanation
Indices: 62588287--62588574 Score: 295
Period size: 81 Copynumber: 3.6 Consensus size: 82
62588277 TTCTGTAAAT
* * * ** * *
62588287 CAAGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTAC-AAGTCGAGGGTAT
1 CAAGGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTTGATAATTTTACAAACTAG-GGGTAT
** *
62588350 TTCAGTAATTTCACAAAT
65 TTTGGTAATTTCACAAAC
*
62588368 TAAGGGTATTTTGGTAATTTTACAAACTAGA-GGTATTTTGATAATTTTACAAACTAGGGGTATT
1 CAAGGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTTGATAATTTTACAAACTAGGGGTATT
62588432 TTGGTAATTTCACAAA-
66 TTGGTAATTTCACAAAC
* * * **
62588448 CTAGAGGTA-TTTGGTAATTTTATAAACCA-AGGGTATTTT-AGTAATTTTACAAACTAAAGGTA
1 CAAG-GGTATTTTGGTAATTTTACAAACTAGAGGGTATTTTGA-TAATTTTACAAACTAGGGGTA
* * *
62588510 TTTTGGTGATTTTATAAAC
64 TTTTGGTAATTTCACAAAC
* * *
62588529 CAAGGGTATTTTAGAAATTTTACAAACTAG-GGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTTGATAATT
62588575 GGTAAACTAA
Statistics
Matches: 173, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
79 2 0.01
80 66 0.38
81 96 0.55
82 9 0.05
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (82 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTTGATAATTTTACAAACTAGGGGTATT
TTGGTAATTTCACAAAC
Found at i:62588501 original size:27 final size:27
Alignment explanation
Indices: 62588287--62588574 Score: 258
Period size: 27 Copynumber: 10.7 Consensus size: 27
62588277 TTCTGTAAAT
* **
62588287 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** **
62588314 CGAGGGTATTTCAATAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** * *
62588341 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
62588368 TAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
62588394 CTAGAGGTATTTTGATAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* * *
62588422 TAGGGGTATTTTGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
62588448 CTAGAGGTA-TTTGGTAATTTTATAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
*
62588475 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
62588502 TAAAGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
62588529 CAAGGGTATTTTAGAAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
62588556 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
62588575 GGTAAACTAA
Statistics
Matches: 212, Mismatches: 44, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
26 22 0.10
27 189 0.89
28 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:62588501 original size:107 final size:108
Alignment explanation
Indices: 62588369--62588574 Score: 306
Period size: 107 Copynumber: 1.9 Consensus size: 108
62588359 TTCACAAATT
* * * *
62588369 AAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGATAATTTTACAAACTAGGGGTATTTT
1 AAGGGTATTTTAGTAATTTTACAAACTAAAGGTATTTTGATAATTTTACAAACCAAGGGTATTTT
* *
62588434 GGTAATTTCACAAACTAGAGGTA-TTTGGTAATTTTATAAACC
66 AGAAATTTCACAAACTAGAGGTATTTTGGTAATTTTATAAACC
* * *
62588476 AAGGGTATTTTAGTAATTTTACAAACTAAAGGTATTTTGGTGATTTTATAAACCAAGGGTATTTT
1 AAGGGTATTTTAGTAATTTTACAAACTAAAGGTATTTTGATAATTTTACAAACCAAGGGTATTTT
* *
62588541 AGAAATTTTACAAACTAGGGGTATTTTGGTAATT
66 AGAAATTTCACAAACTAGAGGTATTTTGGTAATT
62588575 GGTAAACTAA
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
107 77 0.89
108 10 0.11
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (108 bp):
AAGGGTATTTTAGTAATTTTACAAACTAAAGGTATTTTGATAATTTTACAAACCAAGGGTATTTT
AGAAATTTCACAAACTAGAGGTATTTTGGTAATTTTATAAACC
Found at i:62591396 original size:59 final size:61
Alignment explanation
Indices: 62591331--62591445 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 61
62591321 ATCACTTTAA
* * * *
62591331 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTG-AATTTAATATTAAATAT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATTA-AATGAAATTTAATATTAAATAT
*
62591390 TATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATGAAATTTAATATT
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATTAAATGAAATTTAATATT
62591446 TGTTGGGATC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 19 0.40
61 4 0.09
62 24 0.51
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATGAAATTTAATATTAAATAT
Found at i:62593120 original size:43 final size:43
Alignment explanation
Indices: 62593072--62593158 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
62593062 TGTGACTTAA
62593072 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGAAAAATAAGGT
1 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGAAAAATAAGGT
*
62593115 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGGAAAATAAGGT
1 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGAAAAATAAGGT
62593158 T
1 T
62593159 TTCTCCATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (43 bp):
TCGTATAAAAAGTTTCTAACCTTTTCCACAAGAAAAATAAGGT
Found at i:62599237 original size:14 final size:14
Alignment explanation
Indices: 62599204--62599230 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62599194 TTGGGGATTA
62599204 AGTGTTAATAAGAG
1 AGTGTTAATAAGAG
62599218 AGTGTTAATAAGA
1 AGTGTTAATAAGA
62599231 AGGTGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (14 bp):
AGTGTTAATAAGAG
Found at i:62599855 original size:27 final size:27
Alignment explanation
Indices: 62599825--62600250 Score: 407
Period size: 27 Copynumber: 16.0 Consensus size: 27
62599815 CCCCACAGGG
*
62599825 TAAAATGACTATTTTACCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* *
62599852 TAAAGTGACAATTTTGCCC--ATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
*
62599877 TAAAATGACTATTTTGCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGT
** ** * *
62599904 TAAAATGACGGTTTT-ATCGTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGT
* *
62599930 CAAAATGACTATTTTACCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* *
62599957 CAAAATGACTTTTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
62599984 TAAAATTACAATTTTGCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGT
* *
62600011 TAAAATGAC-AGTTTTGCCCTTATGGGG
1 TAAAATGACTA-TTTTGCCCTTATGTGT
* * *
62600038 CAAAATGACTGTTTTGCGC-T-TGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
62600063 CAAAATGGCTGTTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
62600090 TAAAATGACAATTTTGCCCTCATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGT
* * * *
62600117 TAAAATGA-TAGTTTTGCCTTTTTATGG
1 TAAAATGACTA-TTTTGCCCTTATGTGT
* * *
62600144 AAAAATGAATGTTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
** *
62600171 TAAAATGACGGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGT
* * * *
62600198 TAAAATGACAATTTTTCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGTGT
62600225 TAAAATGACTATTTTGCCCTTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
62600251 GTAGGATGAT
Statistics
Matches: 325, Mismatches: 65, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
25 43 0.13
26 23 0.07
27 258 0.79
28 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGT
Found at i:62600661 original size:18 final size:18
Alignment explanation
Indices: 62600600--62600674 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
62600590 AGGACTTGCA
*
62600600 TACTGTTTACTGTTATTG
1 TACTGTTTACTGTTACTG
* * *
62600618 CATAATG-TTACTGCTGCTG
1 --TACTGTTTACTGTTACTG
* * *
62600637 CACTGTTTAGTGTTATTG
1 TACTGTTTACTGTTACTG
62600655 TACTGTTTACTGTTACTG
1 TACTGTTTACTGTTACTG
62600673 TA
1 TA
62600675 ATGGGCCAAG
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
17 3 0.07
18 25 0.61
19 9 0.22
20 4 0.10
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (18 bp):
TACTGTTTACTGTTACTG
Found at i:62603453 original size:24 final size:24
Alignment explanation
Indices: 62603385--62603454 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
62603375 GTGAAACTGC
* *
62603385 AAAGGCTGAAAAGCTGAAAACCCG
1 AAAGGCTGAAAAGCCGAAAAGCCG
* *
62603409 AACGGCTGAAAAGCCGAAAAGTCG
1 AAAGGCTGAAAAGCCGAAAAGCCG
*
62603433 AAAGGTTGAAAAGCCGAAAAGC
1 AAAGGCTGAAAAGCCGAAAAGC
62603455 GGGTTGTAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.46, C:0.19, G:0.27, T:0.09
Consensus pattern (24 bp):
AAAGGCTGAAAAGCCGAAAAGCCG
Found at i:62603899 original size:27 final size:27
Alignment explanation
Indices: 62603869--62604293 Score: 311
Period size: 27 Copynumber: 16.0 Consensus size: 27
62603859 TCCCATAGGG
*
62603869 TAAAATGACTGTTTTGCCCTTATATGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
62603896 TAAAATGAC-GATTTT-CCCTTATGTGT
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* *
62603922 TAAAATGA-TGATTTTGCCCGTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* *
62603949 TAAAATGA-TGGTTT-CACC--ATGTGG
1 TAAAATGACTGTTTTGC-CCTTATGTGT
* * *
62603973 CAAAATGACTGTCTTT-CCCTTATATTT
1 TAAAATGACTGT-TTTGCCCTTATGTGT
*
62604000 TAAAATGA-TGATTTTGCCCTTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* * * *
62604027 TAAAATGACGGTTTTTCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
62604054 CAAAATGAATGTTTTACCCTTATGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
*
62604081 CAAAATGACTGTTTTTG-CCTTATGTGT
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* * *
62604108 TAACAT-AATGATTTTGCCCTTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGT
** * *
62604135 TAAAATGACAATTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
62604162 CAAAATGATTGTTTTG-CCTT-GGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
62604187 TAAAATGACGGATTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGT
** * * *
62604214 TAAAATGACAATTTTTCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* *
62604241 TAAAATGACTAATTTT-CCCTTATGTGG
1 TAAAATGACT-GTTTTGCCCTTATGTGT
** * *
62604268 TAGGATGACTATTTTGCCCCTATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
62604294 ATGTATGTTT
Statistics
Matches: 319, Mismatches: 61, Indels: 36
0.77 0.15 0.09
Matches are distributed among these distances:
24 12 0.04
25 20 0.06
26 60 0.19
27 216 0.68
28 11 0.03
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGT
Found at i:62604087 original size:81 final size:81
Alignment explanation
Indices: 62603869--62604295 Score: 344
Period size: 81 Copynumber: 5.3 Consensus size: 81
62603859 TCCCATAGGG
* * * * *
62603869 TAAAATGACTGTTTTGCCCTTATATGTTAAAATG-ACGATTTTCCCTTATGTGTTAAAATGA-TG
1 TAAAATGACGGTTTTGCCCTTATGTGATAAAATGAATG-TTTTCCCTTATGTGTCAAAATGACTG
*
62603932 ATTTTGCCCGTATGTGA
65 ATTTTGCCCTTATGTGA
* ** * * * *
62603949 TAAAATGATGG-TTT-CACC--ATGTGGCAAAATGACTGTCTTTCCCTTATATTTTAAAATGA-T
1 TAAAATGACGGTTTTGC-CCTTATGTGATAAAATGAATGT-TTTCCCTTATGTGTCAAAATGACT
62604009 GATTTTGCCCTTATGTGA
64 GATTTTGCCCTTATGTGA
* * **
62604027 TAAAATGACGGTTTTTCCCTTATATGGCAAAATGAATGTTTTACCCTTATGTGTCAAAATGACTG
1 TAAAATGACGGTTTTGCCCTTATGTGATAAAATGAATGTTTT-CCCTTATGTGTCAAAATGACTG
* *
62604092 TTTTTG-CCTTATGTGT
65 ATTTTGCCCTTATGTGA
* * * * * *
62604108 TAACATAATGATTTTGCCCTTATGTGATAAAATGACAAT-TTTTCCCTTATGTGGCAAAATGATT
1 TAAAATGACGGTTTTGCCCTTATGTGATAAAATG--AATGTTTTCCCTTATGTGTCAAAATGACT
* *
62604172 G-TTTTG-CCTT-GGTGT
64 GATTTTGCCCTTATGTGA
* *
62604187 TAAAATGACGGATTTGCCCTTATGTGATAAAATGACAAT-TTTTCCCTTATGAGGT-AAAATGAC
1 TAAAATGACGGTTTTGCCCTTATGTGATAAAATG--AATGTTTTCCCTTATG-TGTCAAAATGAC
* *
62604250 TAATTTT-CCCTTATGTGG
63 TGATTTTGCCCTTATGTGA
** ** *
62604268 TAGGATGACTATTTTGCCCCTATGTGAT
1 TAAAATGACGGTTTTGCCCTTATGTGAT
62604296 GTATGTTTAT
Statistics
Matches: 286, Mismatches: 46, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
77 11 0.04
78 50 0.17
79 68 0.24
80 31 0.11
81 112 0.39
82 11 0.04
83 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (81 bp):
TAAAATGACGGTTTTGCCCTTATGTGATAAAATGAATGTTTTCCCTTATGTGTCAAAATGACTGA
TTTTGCCCTTATGTGA
Found at i:62606981 original size:180 final size:180
Alignment explanation
Indices: 62606674--62607033 Score: 612
Period size: 180 Copynumber: 2.0 Consensus size: 180
62606664 AAATCATATT
** * *
62606674 CTTGTATTTAAAGTACATTTTCATAATAATTTGTCCCGAGTTCAGACTATTTCATGTCAGAAGTT
1 CTTGTATTTAAAGTACATTTTCATAATAATTCATCCCGAGTTCAAACTATTTCATGTCAGAACTT
* * *
62606739 TGCCCATTAAATCATTTGAAATGTTAGTGTCACACAGGTAGTACGCTAAAGGTGTTCAAATCTAT
66 TGCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACACTAAAGGTGTACAAATCTAT
62606804 GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
131 GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
*
62606854 CTTGTATTTAAAGTACATTTTCATAATAATTCATCTCGAGTTCAAACTATTTCATGTCAGAACTT
1 CTTGTATTTAAAGTACATTTTCATAATAATTCATCCCGAGTTCAAACTATTTCATGTCAGAACTT
* * *
62606919 TTCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACATTCAAGGTGTACAAATCTAT
66 TGCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACACTAAAGGTGTACAAATCTAT
*
62606984 GATCATGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
131 GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
62607034 ATCTCATATT
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
180 168 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (180 bp):
CTTGTATTTAAAGTACATTTTCATAATAATTCATCCCGAGTTCAAACTATTTCATGTCAGAACTT
TGCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACACTAAAGGTGTACAAATCTAT
GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
Found at i:62607285 original size:25 final size:25
Alignment explanation
Indices: 62607257--62607304 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
62607247 AACCCTCTCT
62607257 TGAGCC-TAATAACAGGAAGCTCAGG
1 TGAGCCAT-ATAACAGGAAGCTCAGG
* *
62607282 TGAGCCATGTAACGGGAAGCTCA
1 TGAGCCATATAACAGGAAGCTCA
62607305 TAGGAGCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
TGAGCCATATAACAGGAAGCTCAGG
Found at i:62607435 original size:23 final size:23
Alignment explanation
Indices: 62607390--62607440 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
62607380 CAGATAACCA
*
62607390 AATATCGGGAAGTTCAAGCGAGC
1 AATATCGGGAAGTTCAAGAGAGC
*
62607413 AATATCTGGAAGCTTC-AGAGAGC
1 AATATCGGGAAG-TTCAAGAGAGC
*
62607436 CATAT
1 AATAT
62607441 AATAAGGCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (23 bp):
AATATCGGGAAGTTCAAGAGAGC
Found at i:62614061 original size:25 final size:25
Alignment explanation
Indices: 62614033--62614125 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 25
62614023 AACCCTCTCT
*
62614033 TGAGCCATATAATAGGAAGCTCATG
1 TGAGCCATATAATAGGAAGCTCATA
* *
62614058 TGAGCCATGTAATAGGAAGC-CTATC
1 TGAGCCATATAATAGGAAGCTC-ATA
* * * *
62614083 TGGGCTATATAATGGGAAGCTTATA
1 TGAGCCATATAATAGGAAGCTCATA
* *
62614108 AGAGCCATA-ATTAGGAAG
1 TGAGCCATATAATAGGAAG
62614126 TTCACAAAGA
Statistics
Matches: 53, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
24 8 0.15
25 45 0.85
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (25 bp):
TGAGCCATATAATAGGAAGCTCATA
Found at i:62614364 original size:64 final size:64
Alignment explanation
Indices: 62614258--62614377 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 64
62614248 TCTGGAGAGC
* * ** * *
62614258 CATATAATAGGATGCTCATAAAGAGTTACGGTATGCCCGCAACACATGCATGATCACTACCAAT
1 CATATAATAGAATGCTCAAAAAGACCTACGGTATGCCCGCAACACATCCAGGATCACTACCAAT
* * *
62614322 CATATAATAGAATGCTTAAAAAGACCTACGGTATGTCTGCAACACATCCAGGATCA
1 CATATAATAGAATGCTCAAAAAGACCTACGGTATGCCCGCAACACATCCAGGATCA
62614378 ATAGTGATCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (64 bp):
CATATAATAGAATGCTCAAAAAGACCTACGGTATGCCCGCAACACATCCAGGATCACTACCAAT
Found at i:62623090 original size:21 final size:21
Alignment explanation
Indices: 62623042--62623090 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
62623032 AATAATTTTC
*
62623042 ATTTTTT-TTTCATGTTCAAG
1 ATTTTTTATTTCATGTACAAG
*
62623062 TTTTTTTATTTCAT-TACAAG
1 ATTTTTTATTTCATGTACAAG
62623082 ATTTCTTTA
1 ATTT-TTTA
62623091 CTCCATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.61
Consensus pattern (21 bp):
ATTTTTTATTTCATGTACAAG
Found at i:62642881 original size:34 final size:34
Alignment explanation
Indices: 62642833--62642918 Score: 163
Period size: 34 Copynumber: 2.5 Consensus size: 34
62642823 ATGTAAGACA
*
62642833 ATGTTTGGGACATGGCATCGACATTGATATGTCC
1 ATGTCTGGGACATGGCATCGACATTGATATGTCC
62642867 ATGTCTGGGACATGGCATCGACATTGATATGTCC
1 ATGTCTGGGACATGGCATCGACATTGATATGTCC
62642901 ATGTCTGGGACATGGCAT
1 ATGTCTGGGACATGGCAT
62642919 TGGCCACATT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (34 bp):
ATGTCTGGGACATGGCATCGACATTGATATGTCC
Found at i:62642998 original size:48 final size:48
Alignment explanation
Indices: 62642899--62643112 Score: 215
Period size: 48 Copynumber: 4.5 Consensus size: 48
62642889 ATTGATATGT
* *
62642899 CCATGTCTGGGACATGGCATTGGCCACATT---ATGA-AGCCAGTGTAAGA
1 CCATGTCTGGGACATGGCA-T--CGACATTGAGATGAGAGCTAGTGTAAGA
*
62642946 CCATGT-TCGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGA
1 CCATGTCT-GGGACATGGCATCGACATTGAGATGAGAGCTAGTGTAAGA
* * * * * *
62642994 CCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGA
1 CCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTGTAAGA
* * * *
62643042 CCATGTCTAGTACATAGCATC-AGTATTGAGATGAGAGCTAGTGTAAGA
1 CCATGTCTGGGACATGGCATCGA-CATTGAGATGAGAGCTAGTGTAAGA
*
62643090 CCATGTCTGGGGCATGGCATCGA
1 CCATGTCTGGGACATGGCATCGA
62643113 TTTCGACTTT
Statistics
Matches: 135, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
44 6 0.04
46 2 0.01
47 20 0.15
48 105 0.78
49 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
CCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTGTAAGA
Found at i:62643062 original size:96 final size:94
Alignment explanation
Indices: 62642899--62643161 Score: 300
Period size: 96 Copynumber: 2.8 Consensus size: 94
62642889 ATTGATATGT
* *
62642899 CCATGTCTGGGACATGGCATTGGC-C-ACATTATGAAGCCAGTGTAAGACCATGTTCGGGACATG
1 CCATGTCTGGGACATGGCATCGGCTCGACA-TATG-AGCCAGTGTAAGACCATGTT-GGAACATG
62642962 GCATCGACATTGAGACGAGAGCTAGTGTAAGA
63 GCATCGACATTGAGACGAGAGCTAGTGTAAGA
* * * *
62642994 CCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTAGTACATAG
1 CCATGTCTGGGACATGGCATCGG-CTCGACATATGAGCCAGTGTAAGACCATGT-TGGAACATGG
* *
62643059 CATC-AGTATTGAGATGAGAGCTAGTGTAAGA
64 CATCGA-CATTGAGACGAGAGCTAGTGTAAGA
* ** * * *
62643090 CCATGTCTGGGGCATGGCATCGATTTCGACTTTTG-GCCAGTGTAAAACCATGTTTGGAACATGG
1 CCATGTCTGGGACATGGCATCG-GCTCGACATATGAGCCAGTGTAAGACCATG-TTGGAACATGG
62643154 CATCGACA
64 CATCGACA
62643162 ATTCACCTTC
Statistics
Matches: 143, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
95 51 0.36
96 84 0.59
97 5 0.03
98 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (94 bp):
CCATGTCTGGGACATGGCATCGGCTCGACATATGAGCCAGTGTAAGACCATGTTGGAACATGGCA
TCGACATTGAGACGAGAGCTAGTGTAAGA
Found at i:62650699 original size:48 final size:48
Alignment explanation
Indices: 62650564--62650941 Score: 301
Period size: 48 Copynumber: 7.9 Consensus size: 48
62650554 GACATTTGGG
* * * ** * *
62650564 TGATATGTGTGCTAGTGTAGGACCATGTTTGAAACATGACATCGGCAA
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* * ** * * *
62650612 TGTTGTGAGAGCTAGTGTAAGATTATGTCTGGGAAATGGCATTGGCAT
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* * ** * *
62650660 TGATATGTGCGCTAGTGTAAGACCATGTCCGAGACATGGCATCGACCA-
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCG-GCAT
* * * * *
62650708 TGTTATGAAAGCCAATGTAAGACCATGTTTGGGATATGGCATCGGCAT
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* * *
62650756 TGAGACGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCT
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* * * * * * * * *
62650804 CGACATGTGAGCCACTGTACGACCATGTCTAGGACATGGCATCGGTAT
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* * * *
62650852 TGAGACT-AGAGATAGTGTAAGACCATGTTTGGGACATGGCATTGGCCT
1 TGATA-TGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* * * * * *
62650900 CGACATGTGAGCCAGTGTAAGGCCATGTTTGGAACATGGCAT
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCAT
62650942 TGGCTACTCA
Statistics
Matches: 252, Mismatches: 74, Indels: 8
0.75 0.22 0.02
Matches are distributed among these distances:
47 3 0.01
48 246 0.98
49 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
Found at i:62663080 original size:20 final size:21
Alignment explanation
Indices: 62663042--62663081 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62663032 GTTAAGAAGA
*
62663042 CACATGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
62663063 CACACGGGCGTG-TGCCCTT
1 CACACGGGCGTGTTGCCCTT
62663082 GTCAGCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:62664847 original size:43 final size:41
Alignment explanation
Indices: 62664763--62664882 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 41
62664753 AGGGTAACTA
*
62664763 AGATTACGTGTAAGACCATATCTGAGATATGGCATCGATATG
1 AGATTACGTGTAAGACCATAT-TGGGATATGGCATCGATATG
* *
62664805 AGACTT-TGTGTAAGACCATAGTTGGGTTATTGGCATCGATATG
1 AGA-TTACGTGTAAGACCATA-TTGGGATA-TGGCATCGATATG
*
62664848 AGATTACATGTAAGACCATATTTGGGATATGGCAT
1 AGATTACGTGTAAGACCATA-TTGGGATATGGCAT
62664883 TGGCATGGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
42 29 0.43
43 38 0.57
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (41 bp):
AGATTACGTGTAAGACCATATTGGGATATGGCATCGATATG
Found at i:62671786 original size:43 final size:42
Alignment explanation
Indices: 62671682--62671799 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
62671672 AGGGTTACTA
*
62671682 AGATTACATGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGATTACATGTAAGACCATAACTGGGATATGGCATCGATATG
* *
62671724 AGGCTT-CATGTAAGACCATAACTGGGCTATTGGCATCGATATG
1 A-GATTACATGTAAGACCATAACTGGGATA-TGGCATCGATATG
* *
62671767 AGATTACATAG-AAGTCCATACCTGGGATATGGC
1 AGATTACAT-GTAAGACCATAACTGGGATATGGC
62671800 TTTGGTATGG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 29 0.45
43 35 0.54
44 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
AGATTACATGTAAGACCATAACTGGGATATGGCATCGATATG
Found at i:62672385 original size:18 final size:19
Alignment explanation
Indices: 62672359--62672402 Score: 81
Period size: 18 Copynumber: 2.4 Consensus size: 19
62672349 TGGTTGTGGC
62672359 TGATTTGGTTTTATGTATA
1 TGATTTGGTTTTATGTATA
62672378 TG-TTTGGTTTTATGTATA
1 TGATTTGGTTTTATGTATA
62672396 TGATTTG
1 TGATTTG
62672403 TCCATACGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.18, C:0.00, G:0.23, T:0.59
Consensus pattern (19 bp):
TGATTTGGTTTTATGTATA
Found at i:62674157 original size:16 final size:16
Alignment explanation
Indices: 62674138--62674169 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62674128 AATTGTTTTA
62674138 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
62674154 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
62674170 ATTCCATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:62674455 original size:50 final size:50
Alignment explanation
Indices: 62674380--62674762 Score: 417
Period size: 50 Copynumber: 7.6 Consensus size: 50
62674370 CGGGTATGCA
* * *
62674380 TAGTAGCCTGCACTTAGTACTACACATGCGACGTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * *
62674430 TAGTAGCCTGCACTTAGTACTACACATGTGACTTATCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * *
62674480 TAGTAGCCTGCAATTAGTACTACACATGCGTCCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * * * *
62674530 TAGTAGCATGCACTTAGGACCACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* ** * * *
62674580 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATC-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTAACAATCTG-GTACACG
* ** *
62674631 TAGCAGCCTATACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * *** *
62674681 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACTATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACAATCTGGTACACG
*
62674733 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
62674763 TTATCACAAC
Statistics
Matches: 277, Mismatches: 51, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
50 200 0.72
51 38 0.14
52 39 0.14
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
Found at i:62689551 original size:47 final size:47
Alignment explanation
Indices: 62689500--62689792 Score: 388
Period size: 47 Copynumber: 6.1 Consensus size: 47
62689490 TTAGGATTTT
* *
62689500 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
62689547 ATGTGATGAATGTGAACCTGTATATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-------ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
62689602 ATGTGATGAATGTGAACATTCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
62689649 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
62689696 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
62689743 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
62689790 ATG
1 ATG
62689793 CGAAACGTGT
Statistics
Matches: 221, Mismatches: 17, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
47 177 0.80
48 1 0.00
54 1 0.00
55 42 0.19
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:62689832 original size:46 final size:46
Alignment explanation
Indices: 62689766--62689856 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
62689756 GAACATGAAT
* * *
62689766 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
62689812 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
62689857 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:62689863 original size:141 final size:140
Alignment explanation
Indices: 62689511--62689841 Score: 364
Period size: 141 Copynumber: 2.3 Consensus size: 140
62689501 TGTGATGGAT
* * **
62689511 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATAT
1 GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAA-C-----ATGCAT
* *** *
62689576 ATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATTCGTATGTGTGATAAGGCCG
60 ATAT--GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCG
* *
62689641 AATGGCCAATGTGATGAAT
123 AATGGCCAATGCGA-GAAC
* *
62689660 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGA
1 GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGA
* *
62689725 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
66 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
62689790 ATGCGA-AAC
131 ATGCGAGAAC
* *
62689799 GTGTATGAGATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
1 GTG-A--ACATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
62689842 GATATGTATG
Statistics
Matches: 163, Mismatches: 15, Indels: 17
0.84 0.08 0.09
Matches are distributed among these distances:
139 5 0.03
140 20 0.12
141 67 0.41
142 10 0.06
143 8 0.05
148 1 0.01
149 52 0.32
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (140 bp):
GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGA
GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
ATGCGAGAAC
Found at i:62690052 original size:37 final size:37
Alignment explanation
Indices: 62690002--62690145 Score: 234
Period size: 37 Copynumber: 3.9 Consensus size: 37
62689992 AAATATATTT
*
62690002 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTTTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* *
62690039 CGGGTAAGACCCGATGACTACGTGTGAAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
62690076 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* * *
62690113 CGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
62690146 CGTCTGAGCT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:62692290 original size:15 final size:15
Alignment explanation
Indices: 62692264--62692308 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
62692254 AAATAGGATT
*
62692264 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
* *
62692279 GATAAATCCAAGATA
1 AAGAAATCCAAGATA
62692294 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
62692309 CAATATCATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.56, C:0.13, G:0.16, T:0.16
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:62694539 original size:40 final size:40
Alignment explanation
Indices: 62694484--62694563 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
62694474 ACCAAGTTAG
62694484 ACATTCTAATTCACATTCTACAATTGTTCATATTCAATCA
1 ACATTCTAATTCACATTCTACAATTGTTCATATTCAATCA
62694524 ACATTCTAATTCACATTCTACAATTGTTCATATTCAATCA
1 ACATTCTAATTCACATTCTACAATTGTTCATATTCAATCA
62694564 TTATCAACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.40
Consensus pattern (40 bp):
ACATTCTAATTCACATTCTACAATTGTTCATATTCAATCA
Found at i:62694558 original size:23 final size:23
Alignment explanation
Indices: 62694492--62694559 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
62694482 AGACATTCTA
62694492 ATTCACATTCTACAATTGTTCAT
1 ATTCACATTCTACAATTGTTCAT
* *
62694515 ATTCA-A-TCAAC-ATT-CT-A-
1 ATTCACATTCTACAATTGTTCAT
62694532 ATTCACATTCTACAATTGTTCAT
1 ATTCACATTCTACAATTGTTCAT
62694555 ATTCA
1 ATTCA
62694560 ATCATTATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
17 5 0.14
18 2 0.06
19 5 0.14
20 6 0.17
21 5 0.14
22 2 0.06
23 10 0.29
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (23 bp):
ATTCACATTCTACAATTGTTCAT
Found at i:62696818 original size:105 final size:105
Alignment explanation
Indices: 62696636--62696848 Score: 349
Period size: 105 Copynumber: 2.0 Consensus size: 105
62696626 AAAACTAAGT
*
62696636 GAATAACTCTAAAGAATAATGATGGGTTGGAAATTATTGTTGGTAGTGAAAGACTGGGTTTTATG
1 GAATAACTCTAAAGAATAATGATAGGTTGGAAATTATTGTTGGTAGTGAAAGACTGGGTTTTATG
62696701 TATAATGTGGTTTC-GACAATGAAGGCTGAAAAGATTATGG
66 TATAATGTGGTTTCTG-CAATGAAGGCTGAAAAGATTATGG
* *
62696741 GAATAACTCTAAGGAATAATGATAGGTTGGAAATTATTGTTGGTGGTGAAAGA-TCGGGTTTTAT
1 GAATAACTCTAAAGAATAATGATAGGTTGGAAATTATTGTTGGTAGTGAAAGACT-GGGTTTTAT
* *
62696805 GTCTAATGTGGTTTCTGCTATGAAGGCTGAAAAGATTATGG
65 GTATAATGTGGTTTCTGCAATGAAGGCTGAAAAGATTATGG
62696846 GAA
1 GAA
62696849 AAGGTTGTAG
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
104 1 0.01
105 99 0.98
106 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (105 bp):
GAATAACTCTAAAGAATAATGATAGGTTGGAAATTATTGTTGGTAGTGAAAGACTGGGTTTTATG
TATAATGTGGTTTCTGCAATGAAGGCTGAAAAGATTATGG
Found at i:62698434 original size:6 final size:6
Alignment explanation
Indices: 62698424--62698460 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
62698414 AAGGAGATTT
* *
62698424 TGATGT TGATGT TGATGG TGATGG TGATGG TGATGG T
1 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG T
62698461 ATCTTAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.16, C:0.00, G:0.43, T:0.41
Consensus pattern (6 bp):
TGATGG
Found at i:62703924 original size:390 final size:389
Alignment explanation
Indices: 62703180--62704343 Score: 1555
Period size: 390 Copynumber: 3.0 Consensus size: 389
62703170 CCACGTCGCG
* * *
62703180 TGAACTTTTGATTTCTTGGGC-TTCCCTCTATCATCGAATGAGAATTAAATGAACTCTTCGACCT
1 TGAACTTTTGATTGCTTGAGCTTTCCCTCTATCATCGAATGAGAATTAAACGAACTCTTCGACCT
* *
62703244 CTTCAGTTGGCATCTCTTCAATCTTGGCCAGAAAGTGTATTGGATCTTCTACACTTTCATTCAGA
66 TTTCAGTTGGCATCTCTTCAATCTTGGCCAGAAAGTGTATTGGCTCTTCTACACTTTCATTCAGA
* *
62703309 ATCAGTTTAAGCTCCATGGTAGTGGTTAGATTATCTGTTACTTCTACATCTACAGTAACATTTGC
131 ATCAGTTTAAGCTCCATGGTAGTGGTTAGATCATCTGTTACTTCTACATCTACAGTTACATTTGC
* ** * * *
62703374 TGCTATGTCAATTATATTGGAGATTGCTTCAATTATATTCAAATCATCTCCATGATCTAC-GGTT
196 TGCTATGTCAATT-GATTGGAGACCGCTTCAACTATATTCAAATCATCCCCATGATCT-CTAGTT
* * * *
62703438 CCAAACTCTTGTTGAATTTCACCATTAAACTCATCATGGTTGACGATAGTGCAAAGGTCCTTATG
259 CCAGACTCTTGTTTAATTTCACCATTAAACTCATCATGGTTGACGATAGTACAAAGGTCCTCATG
* * *
62703503 ATCAAAATT-GAGAACATCATGCACGACCTCTTTCAATTGAGGCAGTGCCTCAGATATTTATAGG
324 ATCAAAATTGGA-AACATCATGCACGACCTCTTTCAGTGGAGGCAGCGCCTCAGATATTTATAGG
62703567 AA
388 AA
* * *
62703569 TGAACTTTTGATTGCTCGAGCTTTCACTCTATCATCGAATGAGAATGAAACGAACTCTTCGACCT
1 TGAACTTTTGATTGCTTGAGCTTTCCCTCTATCATCGAATGAGAATTAAACGAACTCTTCGACCT
* * * * *
62703634 TTTCGGTTGGAACCTCTTCAATCTTGGCCAGAAAGTGTATTAGCTCTTCTACACTTTCATTCAAA
66 TTTCAGTTGGCATCTCTTCAATCTTGGCCAGAAAGTGTATTGGCTCTTCTACACTTTCATTCAGA
* * * *
62703699 ACCAGTTTAAGCTCTAAGGTAGTGGTTAGATCATCTGTTACTTCTACATCTACAGTTGCATTTGC
131 ATCAGTTTAAGCTCCATGGTAGTGGTTAGATCATCTGTTACTTCTACATCTACAGTTACATTTGC
** ** *
62703764 TATTATGTCAATTGGATTGGAGACCATTTCAACTATATTCAAATCATCCCCTTGATCTCTAGTTC
196 TGCTATGTCAATT-GATTGGAGACCGCTTCAACTATATTCAAATCATCCCCATGATCTCTAGTTC
* * *
62703829 CAGACTCTTATTTAATTTCACCATTAAACTCATCATGGTTGATGATAGTACAAAGATCCTCATGA
260 CAGACTCTTGTTTAATTTCACCATTAAACTCATCATGGTTGACGATAGTACAAAGGTCCTCATGA
* * * * * * **
62703894 TCAGAATTGGAAACATCATGCACGACCTCTTTCAGTGGAGGTAACGCCTTAGATATTTGTTGGCG
325 TCAAAATTGGAAACATCATGCACGACCTCTTTCAGTGGAGGCAGCGCCTCAGATATTTATAGGAA
* ** * **
62703959 TGAAGTTTCAATTGCTTGAGCTTTCCCTCTATCATCGAATGAGAATTTTAAACAAACTCTTTAAC
1 TGAACTTTTGATTGCTTGAGCTTTCCCTCTATCATCGAATGAGAA--TTAAACGAACTCTTCGAC
* * *
62704024 CTCTTT-AGTTGGCATATCTTCAATCTTGGCCAGAAATTGTATTGGCTTTTCTACACTTTCATTC
64 CT-TTTCAGTTGGCATCTCTTCAATCTTGGCCAGAAAGTGTATTGGCTCTTCTACACTTTCATTC
* * ** *
62704088 AGAATCAGTTTAAGCTCCATGGTAATGGTTAGATGATCTAATACTTCTACAT-TGACGGTTACAT
128 AGAATCAGTTTAAGCTCCATGGTAGTGGTTAGATCATCTGTTACTTCTACATCT-ACAGTTACAT
*
62704152 TTGCTGCTATGTCAATATGATTGGAGACCGCTTCAACTATATTCAAATCATCCTCATGATCTCTA
192 TTGCTGCTATGTCAAT-TGATTGGAGACCGCTTCAACTATATTCAAATCATCCCCATGATCTCTA
* * * * *
62704217 ATTTCTGACTCTTGTTTAATTTCACCATTAAACTCATCATGGTTGACCATAGTACATAGGTCCTC
256 GTTCCAGACTCTTGTTTAATTTCACCATTAAACTCATCATGGTTGACGATAGTACAAAGGTCCTC
* * * * *
62704282 ATGATTAAAATTGGGAACATCATGCACAACCTCTTTCAGTGGAGGCAGCGCATCAAATATTT
321 ATGATCAAAATTGGAAACATCATGCACGACCTCTTTCAGTGGAGGCAGCGCCTCAGATATTT
62704344 TTTAAAGCAT
Statistics
Matches: 669, Mismatches: 98, Indels: 13
0.86 0.13 0.02
Matches are distributed among these distances:
389 19 0.03
390 357 0.53
391 3 0.00
392 286 0.43
393 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (389 bp):
TGAACTTTTGATTGCTTGAGCTTTCCCTCTATCATCGAATGAGAATTAAACGAACTCTTCGACCT
TTTCAGTTGGCATCTCTTCAATCTTGGCCAGAAAGTGTATTGGCTCTTCTACACTTTCATTCAGA
ATCAGTTTAAGCTCCATGGTAGTGGTTAGATCATCTGTTACTTCTACATCTACAGTTACATTTGC
TGCTATGTCAATTGATTGGAGACCGCTTCAACTATATTCAAATCATCCCCATGATCTCTAGTTCC
AGACTCTTGTTTAATTTCACCATTAAACTCATCATGGTTGACGATAGTACAAAGGTCCTCATGAT
CAAAATTGGAAACATCATGCACGACCTCTTTCAGTGGAGGCAGCGCCTCAGATATTTATAGGAA
Found at i:62705194 original size:24 final size:24
Alignment explanation
Indices: 62705162--62705210 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
62705152 CAACCTAGAA
62705162 TTAATTGAAAATCTAATTATTAAC
1 TTAATTGAAAATCTAATTATTAAC
62705186 TTAATTGAAAATCTAATTATTAAC
1 TTAATTGAAAATCTAATTATTAAC
62705210 T
1 T
62705211 AAGTTAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAATTGAAAATCTAATTATTAAC
Found at i:62721030 original size:34 final size:34
Alignment explanation
Indices: 62720982--62721054 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
62720972 TCATTTGACA
*
62720982 AAAAGTTAACCATATTAAATTTATTATTAATTTT
1 AAAACTTAACCATATTAAATTTATTATTAATTTT
62721016 AAAACTTAACCATATTAAATTTATTATTAATTTT
1 AAAACTTAACCATATTAAATTTATTATTAATTTT
62721050 AAAAC
1 AAAAC
62721055 AATATATCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (34 bp):
AAAACTTAACCATATTAAATTTATTATTAATTTT
Found at i:62729459 original size:41 final size:43
Alignment explanation
Indices: 62729410--62729503 Score: 104
Period size: 41 Copynumber: 2.2 Consensus size: 43
62729400 TGTGGTTACG
* * *
62729410 TGTAAGACCATGTTTAGGACA-TCGACATCG-TATTTGAT-TCA
1 TGTAAGACCATGTCTAGGACAGT-GACATCGATATGTGATAGCA
* * *
62729451 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAGCA
1 TGTAAGACCATGTCTAGGACAGTGACATCGATATGTGATAGCA
62729494 TGTAAGACCA
1 TGTAAGACCA
62729504 CATCTAAGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 24 0.56
42 8 0.19
43 11 0.26
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTGACATCGATATGTGATAGCA
Found at i:62732838 original size:46 final size:46
Alignment explanation
Indices: 62732788--62732961 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
62732778 GATTGAGCAT
*
62732788 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* * * * *
62732834 CGAACTCGTTCAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTC
*
62732881 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* *
62732926 CTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62732962 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 59 0.56
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
Found at i:62732947 original size:93 final size:92
Alignment explanation
Indices: 62732784--62732954 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 92
62732774 GGATGATTGA
*
62732784 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTCAGTT
1 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTCAGTT
62732849 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* * *
62732876 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTCAG
62732940 TTGAGTCCGAGTTCG
64 TTGAGTCCGAGTTCG
62732955 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 6 0.08
93 67 0.92
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTCAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62738589 original size:29 final size:28
Alignment explanation
Indices: 62738553--62738630 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
62738543 TCATGAGATT
*
62738553 GGCACTAAGTGTGCGGGTTTAATTTGTACA
1 GGCACTAAGTGTGCGGGTTTAA--AGTACA
*
62738583 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
62738610 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
62738631 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:62738905 original size:173 final size:174
Alignment explanation
Indices: 62738583--62738909 Score: 557
Period size: 173 Copynumber: 1.9 Consensus size: 174
62738573 AATTTGTACA
* *
62738583 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
62738648 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGTGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
62738713 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
62738757 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
62738822 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
62738886 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
62738910 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
173 79 0.55
174 64 0.45
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:62743532 original size:46 final size:46
Alignment explanation
Indices: 62743482--62743657 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
62743472 TGATTGAGCA
62743482 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62743528 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62743573 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
62743621 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62743658 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62743638 original size:93 final size:93
Alignment explanation
Indices: 62743479--62743650 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
62743469 GGATGATTGA
*
62743479 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
62743544 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62743572 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
62743636 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
62743651 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62747667 original size:40 final size:40
Alignment explanation
Indices: 62747593--62747777 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
62747583 GCTCCTCGTT
*
62747593 CAAATGCCTTC-GGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
62747632 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
62747672 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
62747712 CAAATGCCTTC-GGACCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
62747753 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62747778 CATCATTCAA
Statistics
Matches: 130, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 14 0.11
40 103 0.79
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:62756683 original size:46 final size:47
Alignment explanation
Indices: 62756623--62756796 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 47
62756613 GGATTATTGT
* * *
62756623 GAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCATATTATAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TATGATAA
* * *
62756669 GAGCCAGTGTAAGACCATGTCTGCGACATGGCATCGGCGT-TGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAT--GATAA
* * * * * *
62756717 GTGCTACTGTAAGA-CATGTTTGGGACAT-GCATCGG-CTATGAGAG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTATGATAA
*
62756761 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
62756797 ACACAGATAT
Statistics
Matches: 103, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
44 14 0.14
45 14 0.14
46 28 0.27
47 25 0.24
48 22 0.21
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTATGATAA
Found at i:62756792 original size:92 final size:94
Alignment explanation
Indices: 62756625--62756796 Score: 276
Period size: 92 Copynumber: 1.9 Consensus size: 94
62756615 ATTATTGTGA
* * *
62756625 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTATAAGAGCCAGTGTAAGACCATGTC
1 GCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATGTC
62756690 TGCGACATGGCATCGGCGTTGAGATGAGT
66 TGCGACATGGCATCGGCGTTGAGATGAGT
* *
62756719 GCTACTGTAAGACATGTTTGGGACATGCATCGG-C-TATGAGAGGTGCCAGTGTAAGACCATGTC
1 GCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATGTC
*
62756782 TGGGACATGGCATCG
66 TGCGACATGGCATCG
62756797 ACACAGATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 39 0.54
93 1 0.01
94 32 0.44
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (94 bp):
GCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATGTC
TGCGACATGGCATCGGCGTTGAGATGAGT
Found at i:62756822 original size:94 final size:94
Alignment explanation
Indices: 62756623--62756830 Score: 251
Period size: 92 Copynumber: 2.2 Consensus size: 94
62756613 GGATTATTGT
* * *
62756623 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTATAAGAGCCAGTGTAAGACCATG
1 GAGCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATG
* ***
62756688 TCTGCGACATGGCATCGGCGTTGAGATGA
66 TCTGCGACATGGCATCGACACAGAGATGA
* * *
62756717 GTGCTACTGTAAGACATGTTTGGGACATGCATCGG-C-TATGAGAGGTGCCAGTGTAAGACCATG
1 GAGCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATG
* *
62756780 TCTGGGACATGGCATCGACACAGATATGCTA
66 TCTGCGACATGGCATCGACACAGAGATG--A
62756811 GAGCTTA-TGTAAGACCATGT
1 GAGC-TACTGTAAGA-CATGT
62756831 CTAGGACGTG
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
92 45 0.46
93 1 0.01
94 44 0.45
95 7 0.07
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
GAGCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATG
TCTGCGACATGGCATCGACACAGAGATGA
Found at i:62765801 original size:64 final size:64
Alignment explanation
Indices: 62765721--62765892 Score: 170
Period size: 67 Copynumber: 2.7 Consensus size: 64
62765711 AGACATTATG
* *
62765721 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAAAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAAAGAGCTACGAGATAA
* * * * * * *
62765785 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAAAGAGCTACGAGAT
62765850 AA
63 AA
* * *
62765852 ACTG--GCTAGGTCACATGGGTGGTACTAAT-TGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGT
62765893 GTACAAGAGA
Statistics
Matches: 86, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
63 9 0.10
64 20 0.23
65 8 0.09
66 17 0.20
67 30 0.35
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAAAGAGCTACGAGATAA
Found at i:62767965 original size:46 final size:44
Alignment explanation
Indices: 62767860--62768018 Score: 153
Period size: 46 Copynumber: 3.5 Consensus size: 44
62767850 AGGGCGAGTA
* *
62767860 TAAGACCATGTTTGGGACATGGCATCGGCGTTGA-GATGA-GTGCTAGTG
1 TAAGA-CATGTTTGGGACAT-GCATTGGC--T-ACGA-GACGTGCCAGTG
62767908 TAAGACATGTTTGGGACATGCATTGGCCT-CGAGACGTAAGCCAGTG
1 TAAGACATGTTTGGGACATGCATTGG-CTACGAGACGT--GCCAGTG
* * * *
62767954 TAAGACTTGTTTGGGACATGCATTGGCTACTAGAGGTGTCAGTG
1 TAAGACATGTTTGGGACATGCATTGGCTACGAGACGTGCCAGTG
62767998 TAAGACCATGTTTGGGACATG
1 TAAGA-CATGTTTGGGACATG
62768019 GTATCAACAC
Statistics
Matches: 97, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
43 2 0.02
44 15 0.15
45 17 0.18
46 43 0.44
47 15 0.15
48 5 0.05
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.28
Consensus pattern (44 bp):
TAAGACATGTTTGGGACATGCATTGGCTACGAGACGTGCCAGTG
Found at i:62770821 original size:20 final size:20
Alignment explanation
Indices: 62770792--62770838 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
62770782 ATTTTGATAA
*
62770792 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
62770812 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
62770832 ACGTGAT
1 ACATGAT
62770839 GTAATCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62770919 original size:23 final size:23
Alignment explanation
Indices: 62770889--62771029 Score: 237
Period size: 23 Copynumber: 6.1 Consensus size: 23
62770879 AGGAAGTGAA
62770889 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
62770912 AAAGGGCTTGTGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
62770935 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
62770958 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
62770981 AAAGGGCTCATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
62771004 AAAGGGCTTTTGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
62771027 AAA
1 AAA
62771030 AGAGGCTAGG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 110 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:62772253 original size:21 final size:22
Alignment explanation
Indices: 62772214--62772254 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
62772204 TCAAATTGGT
62772214 CACACGAGCGTGTTGCCCCTCC
1 CACACGAGCGTGTTGCCCCTCC
*
62772236 CACACGGGCGTG-TGCCCCT
1 CACACGAGCGTGTTGCCCCT
62772255 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGAGCGTGTTGCCCCTCC
Found at i:62775772 original size:37 final size:37
Alignment explanation
Indices: 62775722--62775795 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
62775712 TCATTCCATC
* * *
62775722 AGATTTACTAGTAACTATGCACTTTTCTTTAGTGAAA
1 AGATTTAATAGTAACTATACACTTGTCTTTAGTGAAA
62775759 AGATTTAATAGTAACTATACACTTGTCTTTAGTGAAA
1 AGATTTAATAGTAACTATACACTTGTCTTTAGTGAAA
62775796 TTAACAAGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (37 bp):
AGATTTAATAGTAACTATACACTTGTCTTTAGTGAAA
Found at i:62778307 original size:22 final size:23
Alignment explanation
Indices: 62778270--62778313 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
62778260 TTTGTTGAAA
* *
62778270 ATTATCAAAATTAATTGAAATTT
1 ATTATCAAAATCAATTAAAATTT
62778293 ATTAT-AAAATCAATTAAAATT
1 ATTATCAAAATCAATTAAAATT
62778314 CAACATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATCAATTAAAATTT
Found at i:62785461 original size:40 final size:40
Alignment explanation
Indices: 62785410--62785605 Score: 268
Period size: 40 Copynumber: 4.9 Consensus size: 40
62785400 GGATATAGCT
* * *
62785410 ACTCGCTCAAATGTCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* *
62785450 ACTGGCACAAATGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* * *
62785490 ACTCCCACAAATGCCTTCGAGACTTAGCCCGGATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* *
62785530 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAATA
* *
62785570 ACTAGCACAAATGCCTTCGGGACTTAGCTCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
62785606 CATCCGAATA
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
39 2 0.01
40 134 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
Found at i:62793436 original size:40 final size:40
Alignment explanation
Indices: 62793385--62793580 Score: 250
Period size: 40 Copynumber: 4.9 Consensus size: 40
62793375 GGATATAGCT
* * *
62793385 ACTCGCTCAAATGTCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* *
62793425 ACTGGCACAAATGCCTTCGGGACTTAGCCCAGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* **
62793465 ACTCCCACAAATGCCTTCGGGACTTAGCCCGAATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* * * * *
62793505 ACTCGCACAAATGCCCTCAGGACTTAGCTCGGATT-TAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAATA
*
62793545 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
62793581 CATCCGAATA
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
39 2 0.02
40 129 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
Found at i:62802757 original size:28 final size:28
Alignment explanation
Indices: 62802691--62802925 Score: 357
Period size: 28 Copynumber: 8.4 Consensus size: 28
62802681 GAGATTGGCG
* * *
62802691 CTAAGTGTGCGGGTTTAAAT-TGTACGGCA
1 CTAAGTGTGCGAGTTTGATTATGTA--GCA
62802720 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
62802748 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
62802776 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
62802804 CTAAGTGTGCGAGTTTGATTACGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
62802832 CTAAGTGTGCGAGTTTGATTACGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
62802860 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
* *
62802888 CTAAGTGTGTGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
62802915 CTGAGTGTGCG
1 CTAAGTGTGCG
62802926 GACTTAATAT
Statistics
Matches: 196, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
27 23 0.12
28 152 0.78
29 17 0.09
30 4 0.02
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:62810998 original size:28 final size:28
Alignment explanation
Indices: 62810932--62811166 Score: 366
Period size: 28 Copynumber: 8.4 Consensus size: 28
62810922 GAGATTGGCG
* * *
62810932 CTAAGTGTGCGGGTTTAAAT-TGTACGGCA
1 CTAAGTGTGCGAGTTTGATTATGTA--GCA
62810961 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
62810989 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
62811017 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
62811045 CTAAGTGTGCGAGTTTGATTACGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
62811073 CTAAGTGTGCGAGTTTGATTACGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
62811101 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
62811129 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
62811156 CTGAGTGTGCG
1 CTAAGTGTGCG
62811167 GACTTAATAT
Statistics
Matches: 198, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
27 24 0.12
28 153 0.77
29 17 0.09
30 4 0.02
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:62814586 original size:94 final size:94
Alignment explanation
Indices: 62814418--62814683 Score: 269
Period size: 94 Copynumber: 2.8 Consensus size: 94
62814408 CCATTTGTGT
* * *
62814418 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAGGACCATGTC
1 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTC
62814483 TGGGACATGGCATCGACATTGAGACAAGA
66 TGGGACATGGCATCGACATTGAGACAAGA
* *
62814512 GCTAGTGTAAGACATGTATGGGACATGCATTGGCCTCGA-GATGTA-AGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCAC-ATGATG-AGAGCCAGTGTAAGACCATG
* ** * * *
62814575 TTTGGTTCATGGCATCAACCA-TGAG--ATGT
64 TCTGGGACATGGCATCGA-CATTGAGACAAGA
* *
62814604 G-TCAGTGTAAGACCATGTTTGGGACATGGCATC-GACACGGAT-ATGTAAGAGCCAGTGTAAGA
1 GCT-AGTGTAAGA-CATGTATGGGACAT-GCATCGGCCAC--ATGATG--AGAGCCAGTGTAAGA
62814666 CCATGTCTGGGACATGGC
59 CCATGTCTGGGACATGGC
62814684 GTCAGCCTTA
Statistics
Matches: 143, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
91 1 0.01
92 12 0.08
93 16 0.11
94 81 0.57
95 5 0.03
96 28 0.20
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTATGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACATTGAGACAAGA
Found at i:62814682 original size:96 final size:90
Alignment explanation
Indices: 62814421--62814785 Score: 301
Period size: 96 Copynumber: 3.9 Consensus size: 90
62814411 TTTGTGTGCT
* * *
62814421 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-AGAGCCAGTGTAGGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGACC-GA-TATGTAGAGCCAGTGTAAGACCATGTCTG
* *
62814485 GGACATGGCATCGA-CATTGAGACAAGAG-C
64 GGACATGGCATCAACCA-TGAG--ATG-GTC
* * * * *
62814514 TAGTGTAAGACATGTATGGGACATGCATTGGCCTCGAGATGTA-AGCCAGTGTAAGACCATGTTT
1 -AGTGTAAGACATGTCTGGGACATGCA-TCGAC-CGATATGTAGAGCCAGTGTAAGACCATGTCT
**
62814578 GGTTCATGGCATCAACCATGAGATGTGTC
63 GGGACATGGCATCAACCATGAGATG-GTC
*
62814607 AGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-C-GATATGT-AGAGCCAGTGTAAGACCATGT
* * *
62814672 CTGGGACATGGCGTCAGCCTTAATCGCGATGGTC
61 CTGGGACATGGCATCAACC---AT-GAGATGGTC
* * * *
62814706 AATGTAAGACCATGTCTGGGACATGGCTTCGA-C-TTGATGTATGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCGAT-ATGTA-GAGCCAGTGTAAGACCATGTC
62814769 TGGGACATGGCATCAAC
62 TGGGACATGGCATCAAC
62814786 ATCCTACCCT
Statistics
Matches: 225, Mismatches: 30, Indels: 30
0.79 0.11 0.11
Matches are distributed among these distances:
92 12 0.05
93 18 0.08
94 72 0.32
95 10 0.04
96 73 0.32
97 1 0.00
99 34 0.15
100 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCGATATGTAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCAACCATGAGATGGTC
Found at i:62814721 original size:49 final size:47
Alignment explanation
Indices: 62814609--62814779 Score: 155
Period size: 49 Copynumber: 3.5 Consensus size: 47
62814599 GATGTGTCAG
* * ** * * *
62814609 TGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCGTCG--ACTTA-ATGGATGAGCCAA
* *
62814659 TGTAAGACCATGTCTGGGACATGGCGTCAGCCTTAATCGCGATG-GTCAA
1 TGTAAGACCATGTCTGGGACATGGCGTC-GACTTAAT-G-GATGAGCCAA
* * * *
62814708 TGTAAGACCATGTCTGGGACATGGCTTCGACTTGATGTATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCGTCGACTTAATGGATGAGCCAA
*
62814755 TGTAAGACCATGTTTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
62814780 ATCAACATCC
Statistics
Matches: 101, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
46 3 0.03
47 28 0.28
48 8 0.08
49 33 0.33
50 28 0.28
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCGTCGACTTAATGGATGAGCCAA
Found at i:62818290 original size:29 final size:29
Alignment explanation
Indices: 62818258--62818346 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
62818248 CTACCTAACA
62818258 GGCCATATAAATGTGATTTGGGCCTAATG
1 GGCCATATAAATGTGATTTGGGCCTAATG
* *
62818287 GGCCATATACAGGTGATTTGGGCCTAATG
1 GGCCATATAAATGTGATTTGGGCCTAATG
* * *
62818316 GGCCATATGAATATGA-TTGGGCTTAATG
1 GGCCATATAAATGTGATTTGGGCCTAATG
62818344 GGC
1 GGC
62818347 TAGATACAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 14 0.26
29 39 0.74
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
GGCCATATAAATGTGATTTGGGCCTAATG
Found at i:62826684 original size:29 final size:29
Alignment explanation
Indices: 62826642--62826707 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
62826632 AGACTATGAC
62826642 TGTGATTTGGGCCTAATGGGCCATACGAA
1 TGTGATTTGGGCCTAATGGGCCATACGAA
* *
62826671 TGTGATTTGGGCCTAATGGGCTATATGAA
1 TGTGATTTGGGCCTAATGGGCCATACGAA
*
62826700 TGAGATTT
1 TGTGATTT
62826708 CCTCGTAGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.33
Consensus pattern (29 bp):
TGTGATTTGGGCCTAATGGGCCATACGAA
Found at i:62829918 original size:29 final size:27
Alignment explanation
Indices: 62829900--62829969 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
62829890 ATATTAAGTC
62829900 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
62829927 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
62829955 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
62829970 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:62829963 original size:28 final size:28
Alignment explanation
Indices: 62829900--62829997 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
62829890 ATATTAAGTC
*
62829900 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
62829927 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
62829955 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
62829984 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62829998 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62845172 original size:40 final size:41
Alignment explanation
Indices: 62845088--62845193 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 41
62845078 TACTAGCTCG
* * *
62845088 TAGCCTGCGGGTCTCT-AGCCCAGATAGCATTCCAGCACGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
* * *
62845128 -AGCCTGTGGGTCTTTAAGCCTGGATAACATTCCAGCA-TA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
62845167 TAGCCTGCGGGTCTTTAAGCCCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
62845194 CAATTCCTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 14 0.25
40 42 0.75
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (41 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
Found at i:62846914 original size:26 final size:26
Alignment explanation
Indices: 62846874--62846925 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
62846864 ACATGCATTT
* *
62846874 ACACATATTAGAAACTTAGAATATAA
1 ACACATATAAGAAACATAGAATATAA
*
62846900 ACACATATAATAAACATAGAATATAA
1 ACACATATAAGAAACATAGAATATAA
62846926 CGGTTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.25
Consensus pattern (26 bp):
ACACATATAAGAAACATAGAATATAA
Found at i:62856302 original size:39 final size:40
Alignment explanation
Indices: 62856250--62856334 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
62856240 CGGTATAATA
* * * *
62856250 CCAGCTCGTAGCCTGCGGGTCTCTA-GCCCGAATAGCATT
1 CCAGCACGAAGCCTGAGGGTCTCTATGCCCGAATAACATT
* *
62856289 CTAGCACGAAGCCTGAGGGTCTTTATGCCCGAATAACATT
1 CCAGCACGAAGCCTGAGGGTCTCTATGCCCGAATAACATT
62856329 CCAGCA
1 CCAGCA
62856335 TATACCCTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 20 0.53
40 18 0.47
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (40 bp):
CCAGCACGAAGCCTGAGGGTCTCTATGCCCGAATAACATT
Found at i:62856349 original size:40 final size:39
Alignment explanation
Indices: 62856261--62856358 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 39
62856251 CAGCTCGTAG
* * * *
62856261 CCTGCGGGTCTCTAGCCCGAATAGCATTCTAGCACGAAG
1 CCTGCGGGTCTTTAGCCCGAATAACATTCCAGCACGAAC
* *
62856300 CCTGAGGGTCTTTATGCCCGAATAACATTCCAGCA-TATAC
1 CCTGCGGGTCTTTA-GCCCGAATAACATTCCAGCACGA-AC
62856340 CCTGCGGGTCTTTAAGCCC
1 CCTGCGGGTCTTT-AGCCC
62856359 AGAGACAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
39 13 0.27
40 35 0.71
41 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTGCGGGTCTTTAGCCCGAATAACATTCCAGCACGAAC
Found at i:62860503 original size:20 final size:18
Alignment explanation
Indices: 62860473--62860515 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
62860463 TTTGTAAAGT
*
62860473 TTGTAAAATAAGTTGTAAA
1 TTGTGAAATAA-TTGTAAA
62860492 TGTGTGAAATAATTG-AAA
1 T-TGTGAAATAATTGTAAA
62860510 TTGTGA
1 TTGTGA
62860516 GTTTCTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (18 bp):
TTGTGAAATAATTGTAAA
Done.