Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003806.1 Hibiscus syriacus cultivar Beakdansim tig00008146_pilon, whole genome shotgun sequence
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: 1419252
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:1084306 original size:81 final size:80
Alignment explanation
Indices: 1084171--1084324 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 80
1084161 CTGGAGCAAG
* *
1084171 AAATGATAAATGTTGGGGCACTTTTCAAGGCCCTTATCATCCAGAAGTAATAAATTTTAGGG-CA
1 AAATGATAAATGGTGGGGCACTTTTCAAGGCCCTTATCATCCAGAAGTAATAAATGTT-GGGTCA
1084235 TTTTTGAAGGGTCGTTT
65 -TTTTGAAGGGTCGTTT
* * *
1084252 AAATGATAAATGGTGGGGCATTTTTCAAGG-CCTCTGTCATTCAGAAGTAATAAATGTTGGGTCA
1 AAATGATAAATGGTGGGGCACTTTTCAAGGCCCT-TATCATCCAGAAGTAATAAATGTTGGGTCA
1084316 TTTTGAAGG
65 TTTTGAAGG
1084325 CATGTTTCAG
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
80 15 0.23
81 51 0.77
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (80 bp):
AAATGATAAATGGTGGGGCACTTTTCAAGGCCCTTATCATCCAGAAGTAATAAATGTTGGGTCAT
TTTGAAGGGTCGTTT
Found at i:1085414 original size:62 final size:62
Alignment explanation
Indices: 1085317--1085808 Score: 713
Period size: 62 Copynumber: 8.0 Consensus size: 62
1085307 TCTTGTTTGC
* *
1085317 TAGAGTCAACCCTTGA-ATTCTTCGTGAAGAGAATTCAACCTTTGTTATTTCTGACTCCCCAG
1 TAGAGTCAACCCTTGACTTTC-TCGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAG
* *
1085379 TAGAGTCAACCCTTGACTTTCTCGTGAAGAGAATTCAACCTTTGTTATTTCTGACTCCCCAA
1 TAGAGTCAACCCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAG
* * ** *
1085441 TAGAGTCAACCTTTGACTTCCTTATGACGAGAAGTCAA-CTTTGTTATTTCTGACT-CCCAG
1 TAGAGTCAACCCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAG
*
1085501 TAGAGTCAACCCTTGACTTTCTCATGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAG
1 TAGAGTCAACCCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAG
* *
1085563 TAGAGTCAACCCTTGAC-TTCATCGTGAAGAGAAGTCAACCTTTGTTATTTATAACTCCCCAG
1 TAGAGTCAACCCTTGACTTTC-TCGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAG
* * * * *
1085625 TAGAGTCAACCATTGACTTTCTCGTGAAGAGAAGTTAACTTTTGTTATTTCTGACTCCCTAA
1 TAGAGTCAACCCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAG
* * * * *
1085687 TAGAGTAAACCCTTGACTTCCTCATGAAGAGAACTCAACCTTTGTTATTTCTGACTCCCCAA
1 TAGAGTCAACCCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAG
* * *
1085749 TAGAGTCAACCATTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTTTTGACTCCCC
1 TAGAGTCAACCCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCC
1085809 GGTAAATCAA
Statistics
Matches: 389, Mismatches: 36, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
60 38 0.10
61 37 0.10
62 308 0.79
63 6 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (62 bp):
TAGAGTCAACCCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAG
Found at i:1085508 original size:31 final size:32
Alignment explanation
Indices: 1085473--1085573 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 32
1085463 TATGACGAGA
1085473 AGTCAA-CTTTGTTATTTCTGACTCCCAGTAG
1 AGTCAACCTTTGTTATTTCTGACTCCCAGTAG
* * **
1085504 AGTCAACCCTTG--ACTTTCTCA-T-GAAG-AG
1 AGTCAACCTTTGTTA-TTTCTGACTCCCAGTAG
1085532 AAGTCAACCTTTGTTATTTCTGACTCCCCAGTAG
1 -AGTCAACCTTTGTTATTTCTGACT-CCCAGTAG
1085566 AGTCAACC
1 AGTCAACC
1085574 CTTGACTTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
28 2 0.04
29 13 0.25
30 8 0.15
31 14 0.26
32 4 0.08
33 10 0.19
34 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (32 bp):
AGTCAACCTTTGTTATTTCTGACTCCCAGTAG
Found at i:1085631 original size:184 final size:185
Alignment explanation
Indices: 1085317--1085808 Score: 747
Period size: 184 Copynumber: 2.7 Consensus size: 185
1085307 TCTTGTTTGC
* * *
1085317 TAGAGTCAACCCTTGA-ATTCTTCGTGAAGAGAATTCAACCTTTGTTATTTCTGACTCCCCAGTA
1 TAGAGTCAACCCTTGACTTTC-TCATGAAGAGAACTCAACCTTTGTTATTTCTGACTCCCCAGTA
* *
1085381 GAGTCAACCCTTGACTTTCTCGTGAAGAGAATTCAACCTTTGTTATTTCTGACTCCCCAATAGAG
65 GAGTCAACCCTTGAC-TTCTCGTGAAGAGAAGTCAACCTTTGTTATTTATGACTCCCCAATAGAG
* * * *
1085446 TCAACCTTTGACTTCCTTATGACGAGAAGTCAAC-TTTGTTATTTCTGACTCCC-AG
129 TCAACCATTGACTTCCTCATGAAGAGAAGTCAACTTTTGTTATTTCTGACTCCCTAA
*
1085501 TAGAGTCAACCCTTGACTTTCTCATGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAG
1 TAGAGTCAACCCTTGACTTTCTCATGAAGAGAACTCAACCTTTGTTATTTCTGACTCCCCAGTAG
* *
1085566 AGTCAACCCTTGACTTCATCGTGAAGAGAAGTCAACCTTTGTTATTTATAACTCCCCAGTAGAGT
66 AGTCAACCCTTGACTTC-TCGTGAAGAGAAGTCAACCTTTGTTATTTATGACTCCCCAATAGAGT
* * *
1085631 CAACCATTGACTTTCTCGTGAAGAGAAGTTAACTTTTGTTATTTCTGACTCCCTAA
130 CAACCATTGACTTCCTCATGAAGAGAAGTCAACTTTTGTTATTTCTGACTCCCTAA
* * *
1085687 TAGAGTAAACCCTTGACTTCCTCATGAAGAGAACTCAACCTTTGTTATTTCTGACTCCCCAATAG
1 TAGAGTCAACCCTTGACTTTCTCATGAAGAGAACTCAACCTTTGTTATTTCTGACTCCCCAGTAG
* *
1085752 AGTCAACCATTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTTTTGACTCCCC
66 AGTCAACCCTTGACTT-CTCGTGAAGAGAAGTCAACCTTTGTTATTTATGACTCCCC
1085809 GGTAAATCAA
Statistics
Matches: 282, Mismatches: 21, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
183 3 0.01
184 142 0.50
185 22 0.08
186 114 0.40
187 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (185 bp):
TAGAGTCAACCCTTGACTTTCTCATGAAGAGAACTCAACCTTTGTTATTTCTGACTCCCCAGTAG
AGTCAACCCTTGACTTCTCGTGAAGAGAAGTCAACCTTTGTTATTTATGACTCCCCAATAGAGTC
AACCATTGACTTCCTCATGAAGAGAAGTCAACTTTTGTTATTTCTGACTCCCTAA
Found at i:1086005 original size:89 final size:89
Alignment explanation
Indices: 1085812--1086052 Score: 281
Period size: 89 Copynumber: 2.7 Consensus size: 89
1085802 ACTCCCCGGT
* * *
1085812 AAATCAATCTCGAGTATGATCTCCACGAAAGAGTAGTGGAACAGATTCTTC-TATTTTAGATTTG
1 AAATCAATCTCGAGTCTGATCTCCACGGAAGAGTAGTGGAACAGATTCTTCTTATTTCAGATTTG
* * * * * *
1085876 GTCTCCATGGAAGATTAGTGAGGT
66 GTCTCCACGAAAGAGTAGCGAAGC
** *
1085900 AAATCAATCTCGAGTCTGATCTCCACGGAAGAACAGTGGAACAAATTCTTCTTATTTCAGATTTG
1 AAATCAATCTCGAGTCTGATCTCCACGGAAGAGTAGTGGAACAGATTCTTCTTATTTCAGATTTG
*
1085965 GTCTTCC-CGAAAGGGTAGCGAAGC
66 GTC-TCCACGAAAGAGTAGCGAAGC
* * * * *
1085989 AAATCAATCTCAAGTCTGATCTCCCCAGAAGAGTAGAGGAGA-AGATTCTTCTTATTTCTGATTT
1 AAATCAATCTCGAGTCTGATCTCCACGGAAGAGTAGTGGA-ACAGATTCTTCTTATTTCAGATTT
1086053 AATATTTATA
Statistics
Matches: 129, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
88 46 0.36
89 79 0.61
90 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (89 bp):
AAATCAATCTCGAGTCTGATCTCCACGGAAGAGTAGTGGAACAGATTCTTCTTATTTCAGATTTG
GTCTCCACGAAAGAGTAGCGAAGC
Found at i:1086324 original size:82 final size:82
Alignment explanation
Indices: 1086139--1087058 Score: 1173
Period size: 82 Copynumber: 11.2 Consensus size: 82
1086129 AGATATCTCG
* * *
1086139 AGTCTGATCTCCCTTGAATAAATAGTGGAGCAGACACGTCTTCCAAAATTAATCTGACTA-CCGA
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCGA
* *
1086203 AAATGAGGCACAGATCA
66 AAAAGAGGCACATATCA
* * * * * *
1086220 AGTCTGATCTCCCCAGAATGAATAGTAGAGCATACAAGTCTTCTAAAATTGATCTGACTACCCAA
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCGA
1086285 AAAAGAGGCACATATCA
66 AAAAGAGGCACATATCA
* * * *
1086302 AGTCTGATCTCCCCTGAATGAATAGTAGAGCAGACACGTCTTCCAAATTTGATTTGACTACCCAA
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCGA
* *
1086367 AAAAGAAGCACAAATCA
66 AAAAGAGGCACATATCA
* * * * * *
1086384 AGTCTAATCTCCCCTAAATGAATAGTGGAGAAGACACGTCTTCTAAAATTGATCTGGCTACCTGA
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCGA
1086449 AAAAGAGGCACATATCA
66 AAAAGAGGCACATATCA
* *
1086466 AGTCTGATCTCCCTTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCAA
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCGA
1086531 AAAAGAGGCACATATCA
66 AAAAGAGGCACATATCA
* * * *
1086548 AGTATGATCTCGCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTTATCTGATTACCCGA
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCGA
* **
1086613 AAAAGAGACACGGATCA
66 AAAAGAGGCACATATCA
* * * * * *
1086630 AGGCTGATCTCCCCTGAATAAATAGTGTAGTAGACACATCTTTCCAAAATTGATCTGACTACCCT
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTC-TTCCAAAATTGATCTGACTACCCG
*
1086695 AAAAAGAGGCACATAACA
65 AAAAAGAGGCACATATCA
* * * * * *
1086713 AGTCTGATATCCCCTGAATGAATACTGGAGCAGACACATCTTTCCGAAATTAATCTGAATACCCG
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTC-TTCCAAAATTGATCTGACTACCCG
* *
1086778 AAAAATAGGCACAAATCA
65 AAAAAGAGGCACATATCA
* * * * * *
1086796 AGTATGATCTCCCATGAATGAATAGTGGAGCAAACACATCTTCCAAAGTTGATCTGACTACCCAA
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCGA
* **
1086861 AAAAGAGGTACAGGTCA
66 AAAAGAGGCACATATCA
*
1086878 AGTCTGATCT-CCCTGAATAAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCG-
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCGA
*
1086941 AAAAGAAGGCACGA-GTCA
66 AAAAG-AGGCAC-ATATCA
* * * * *
1086959 AGTCTGATCTCCCCTGAATGAATAGTAGAGCAGGCACGTCTTCAAAAATTGATATGACTACCTGA
1 AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCGA
* * *
1087024 AAAAGTGGCACAAATCG
66 AAAAGAGGCACATATCA
*
1087041 AGTCTGATCTCCCTTGAA
1 AGTCTGATCTCCCCTGAA
1087059 ATAAGAGTGG
Statistics
Matches: 725, Mismatches: 107, Indels: 13
0.86 0.13 0.02
Matches are distributed among these distances:
80 5 0.01
81 119 0.16
82 456 0.63
83 145 0.20
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.23
Consensus pattern (82 bp):
AGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCGA
AAAAGAGGCACATATCA
Found at i:1093012 original size:29 final size:30
Alignment explanation
Indices: 1092946--1093003 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
1092936 TAAACCCTTC
* *
1092946 AAAAATTTTAATTTAAACCTATAAATTTTA
1 AAAAAATTTAATTTAAACCCATAAATTTTA
1092976 AAAAAATTTAATTT-AACCCATAAATTTT
1 AAAAAATTTAATTTAAACCCATAAATTTT
1093004 TACTAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAAAATTTAATTTAAACCCATAAATTTTA
Found at i:1098818 original size:16 final size:15
Alignment explanation
Indices: 1098797--1098838 Score: 68
Period size: 14 Copynumber: 2.8 Consensus size: 15
1098787 TGTGCAAATC
1098797 CGGGTACCCGGATTTT
1 CGGGTACCCGGA-TTT
1098813 CGGGTACCC-GATTT
1 CGGGTACCCGGATTT
1098827 CGGGTACCCGGA
1 CGGGTACCCGGA
1098839 ACTTCGGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.48
15 4 0.16
16 9 0.36
ACGTcount: A:0.14, C:0.29, G:0.33, T:0.24
Consensus pattern (15 bp):
CGGGTACCCGGATTT
Found at i:1098846 original size:16 final size:16
Alignment explanation
Indices: 1098797--1098847 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
1098787 TGTGCAAATC
*
1098797 CGGGTACCCGGATTTT
1 CGGGTACCCGGAATTT
1098813 CGGGTACCC-G-ATTT
1 CGGGTACCCGGAATTT
*
1098827 CGGGTACCCGGAACTT
1 CGGGTACCCGGAATTT
1098843 CGGGT
1 CGGGT
1098848 CGACGATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 12 0.39
15 2 0.06
16 17 0.55
ACGTcount: A:0.14, C:0.27, G:0.33, T:0.25
Consensus pattern (16 bp):
CGGGTACCCGGAATTT
Found at i:1098855 original size:30 final size:30
Alignment explanation
Indices: 1098797--1098857 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
1098787 TGTGCAAATC
** *
1098797 CGGGTACCCGGATTTTCGGGTACCCGATTT
1 CGGGTACCCGGAACTTCGGGTACACGATTT
1098827 CGGGTACCCGGAACTTCGGGT-CGACGATTT
1 CGGGTACCCGGAACTTCGGGTAC-ACGATTT
1098857 C
1 C
1098858 TCGGCCCGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.15, C:0.28, G:0.31, T:0.26
Consensus pattern (30 bp):
CGGGTACCCGGAACTTCGGGTACACGATTT
Found at i:1100240 original size:22 final size:23
Alignment explanation
Indices: 1100212--1100257 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
1100202 CCTCTATGTT
1100212 GAAAGTCAATTAAG-GGGCTAAG
1 GAAAGTCAATTAAGCGGGCTAAG
*
1100234 GAAAGTCAATTAAGCGGGTTAAG
1 GAAAGTCAATTAAGCGGGCTAAG
1100257 G
1 G
1100258 GGCATCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.39, C:0.09, G:0.33, T:0.20
Consensus pattern (23 bp):
GAAAGTCAATTAAGCGGGCTAAG
Found at i:1100741 original size:16 final size:17
Alignment explanation
Indices: 1100720--1100751 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1100710 TATTCATATG
1100720 AATAGT-AAATTTTGTT
1 AATAGTAAAATTTTGTT
1100736 AATAGTAAAATTTTGT
1 AATAGTAAAATTTTGT
1100752 CGGCGATACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
AATAGTAAAATTTTGTT
Found at i:1103364 original size:21 final size:23
Alignment explanation
Indices: 1103340--1103398 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
1103330 GTAGAATTTG
* *
1103340 TCCCGAAGGACCACT-T-AGATA
1 TCCCGAAGGACCACTATAACACA
1103361 TCCCGAAGGACCACTATAACACA
1 TCCCGAAGGACCACTATAACACA
1103384 TCCCGAAGGACCACT
1 TCCCGAAGGACCACT
1103399 GTCCCGAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 15 0.44
22 1 0.03
23 18 0.53
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (23 bp):
TCCCGAAGGACCACTATAACACA
Found at i:1110878 original size:14 final size:14
Alignment explanation
Indices: 1110859--1110891 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1110849 ATTTCTATGT
*
1110859 AGGGAATTATTTGC
1 AGGGAATTATTTAC
1110873 AGGGAATTATTTAC
1 AGGGAATTATTTAC
1110887 AGGGA
1 AGGGA
1110892 TTACCCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (14 bp):
AGGGAATTATTTAC
Found at i:1124781 original size:121 final size:122
Alignment explanation
Indices: 1124594--1125015 Score: 537
Period size: 121 Copynumber: 3.5 Consensus size: 122
1124584 ATCACAAAAG
* * * * *
1124594 GAGAAGGAA-GTAGATCATCATCAAGATCTTGTCCGATTTCATCACAGAATGAGGTGGATAGACA
1 GAGAAGGAAGGTAGATCAACATCGAGATCTTGTTCGATTCCATCACAGAAGGAGGTGGATAGACA
*
1124658 TTTTCATCCAGCACATAAGCAGTTGGATCAGCTTCAACATTTTTCTCGATTCTATCA
66 TTTTCATCCAGCACATAAGGAGTTGGATCAGCTTCAACATTTTTCTCGATTCTATCA
* *
1124715 GAGAA-GAAGGTAGATCAACATCGAGATATTGTTCGATTCCATCACAGAAGGAGGTGGATAGGCA
1 GAGAAGGAAGGTAGATCAACATCGAGATCTTGTTCGATTCCATCACAGAAGGAGGTGGATAGACA
* * * *
1124779 TTTTCATCCAACACATAAGGAATTAGATCAACTTCAACATTTTTCTCGATTCTATCA
66 TTTTCATCCAGCACATAAGGAGTTGGATCAGCTTCAACATTTTTCTCGATTCTATCA
* * * *
1124836 TAGAAGG-AGGTAGATCAACATCGAGATCTTGTTCGATTCCATCATAGAAGGAGGTTGATAGATA
1 GAGAAGGAAGGTAGATCAACATCGAGATCTTGTTCGATTCCATCACAGAAGGAGGTGGATAGACA
* * * * *
1124900 TTTTCATCCTGCACATAAGGAGTTGGATAAGCTTCAACATTCTGCTTGATTCTATCA
66 TTTTCATCCAGCACATAAGGAGTTGGATCAGCTTCAACATTTTTCTCGATTCTATCA
* * * ** * * * * *
1124957 CAGAATG-AGGTAGAACAGTAACGATATCTCGTACGATTCCATTACAGAAGGAGGTGGAT
1 GAGAAGGAAGGTAGATCAACATCGAGATCTTGTTCGATTCCATCACAGAAGGAGGTGGAT
1125016 CAACGTTTCA
Statistics
Matches: 260, Mismatches: 39, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
120 3 0.01
121 256 0.98
122 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (122 bp):
GAGAAGGAAGGTAGATCAACATCGAGATCTTGTTCGATTCCATCACAGAAGGAGGTGGATAGACA
TTTTCATCCAGCACATAAGGAGTTGGATCAGCTTCAACATTTTTCTCGATTCTATCA
Found at i:1124850 original size:44 final size:44
Alignment explanation
Indices: 1124802--1124890 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
1124792 CATAAGGAAT
* * *
1124802 TAGATCAACTTCAACAT-TTTTCTCGATTCTATCATAGAAGGAGG
1 TAGATCAACATCAACATCTTGT-TCGATTCCATCATAGAAGGAGG
* *
1124846 TAGATCAACATCGAGATCTTGTTCGATTCCATCATAGAAGGAGG
1 TAGATCAACATCAACATCTTGTTCGATTCCATCATAGAAGGAGG
1124890 T
1 T
1124891 TGATAGATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 36 0.92
45 3 0.08
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
TAGATCAACATCAACATCTTGTTCGATTCCATCATAGAAGGAGG
Found at i:1126246 original size:16 final size:16
Alignment explanation
Indices: 1126225--1126272 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1126215 CAATTTAGTC
1126225 ATTATATTTAAATTTT
1 ATTATATTTAAATTTT
*
1126241 ATTATATTTAGATCTTT
1 ATTATATTTAAAT-TTT
* *
1126258 -GTATATTTTAATTTT
1 ATTATATTTAAATTTT
1126273 CTTTATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 3 0.11
16 21 0.78
17 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (16 bp):
ATTATATTTAAATTTT
Found at i:1128510 original size:23 final size:23
Alignment explanation
Indices: 1128475--1128547 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1128465 ATACTTTACA
*
1128475 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1128498 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1128521 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1128544 ATAT
1 ATAT
1128548 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1128940 original size:23 final size:23
Alignment explanation
Indices: 1128914--1128976 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1128904 CAATAACCAC
1128914 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1128937 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1128960 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1128977 TTTACCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1129128 original size:428 final size:429
Alignment explanation
Indices: 1128312--1129183 Score: 1583
Period size: 428 Copynumber: 2.0 Consensus size: 429
1128302 ATGTTTATTG
1128312 TTTTAATTTAATAAT-AATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
1 TTTTAATTTAATAATAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
1128376 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTA
66 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTA
* *
1128441 TGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAAC
131 TAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAAC
*
1128506 GCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTG
196 GATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTG
1128571 TCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
261 TCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
*
1128636 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
326 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
*
1128701 ATTTGATTGTTTAGATATTTTATAAAATAATATTTAGAA
391 ATTTGATTGTTTAGATACTTTATAAAATAATATTTAGAA
*
1128740 TTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACT
1 -TTTTAATTTAATAATAA-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1128805 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
64 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
1128870 TATAGACACTTTTATAAAAAGGATAGATACTTTAC-A-ATAACCACTACCTATTACATTATATAA
129 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
1128933 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAG
194 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
1128997 TGTCCATACTTTTTATAAAAATGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAATT
259 TGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATT
*
1129061 TTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
323 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
*
1129126 ATTATTTGATTGTTTTGATACTTTATAAAATAATATTTAGAA
388 ATTATTTGATTGTTTAGATACTTTATAAAATAATATTTAGAA
* *
1129168 TTTAAATTTAACAATA
1 TTTTAATTTAATAATA
1129184 TTAACCAAAG
Statistics
Matches: 429, Mismatches: 11, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
427 15 0.03
428 185 0.43
429 83 0.19
430 2 0.00
431 144 0.34
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (429 bp):
TTTTAATTTAATAATAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTA
TAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAAC
GATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTG
TCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
ATTTGATTGTTTAGATACTTTATAAAATAATATTTAGAA
Found at i:1129428 original size:23 final size:23
Alignment explanation
Indices: 1129393--1129465 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1129383 ATACTTTACA
*
1129393 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1129416 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1129439 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1129462 ATAT
1 ATAT
1129466 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1129517 original size:22 final size:22
Alignment explanation
Indices: 1129483--1129527 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1129473 TATTATATTG
*
1129483 AAAGTATCCATACTT-TTTATAA
1 AAAGGATCCATACTTCTTT-TAA
*
1129505 AAAGGATCGATACTTCTTTTAA
1 AAAGGATCCATACTTCTTTTAA
1129527 A
1 A
1129528 GTTATGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (22 bp):
AAAGGATCCATACTTCTTTTAA
Found at i:1129658 original size:490 final size:487
Alignment explanation
Indices: 1128741--1129812 Score: 1984
Period size: 490 Copynumber: 2.2 Consensus size: 487
1128731 TATTTAGAAT
*
1128741 TTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACTA
1 TTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
1128806 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
66 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
1128871 ATAGACACTTTTATAAAAAGGATAGATACTTTACAATAACCACTACCTATTACATTATATAAACG
131 ATAGACACTTTTATAAAAAGGATAGATACTTTACAATAACCACTACCTATTACATTATATAAACG
*
1128936 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTATTATATTGAAAGTGTC
196 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTATTATATTGAAAGTATC
*
1129001 CATACTTTTTATAAAAATGATCGATACTTTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
261 CATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
*
1129066 TAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTAT
326 TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTAT
1129131 TTGATTGTTTTGATACTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGAT
391 TTGATTGTTTTGATACTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGAT
1129196 AATAATAAATATGTAATATATATGTTTATTAC
456 AATAATAAATATGTAATATATATGTTTATTAC
*
1129228 TTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTTCTA
1 TTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
1129293 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
66 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
* *
1129358 ATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAA
131 ATAGACACTTTTATAAAAAGGATAGATACTTTAC-A-ATAACCACTACCTATTACATTATATAAA
*
1129423 CGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
194 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAGT
1129488 ATCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATTT
258 ATCCATACTTTTTATAAAAAGGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAATTT
1129552 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
322 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
1129617 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
387 TTATTTGATTGTTTTGATACTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
**
1129682 AGATAATAATAAATATGTAATATATATGTTTATTGT
452 AGATAATAATAAATATGTAATATATATGTTTATTAC
* *
1129718 TTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAGTTACTA
1 TTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
1129783 AATTAATATCTTAAAACTCACTCAAAAGAT
66 AATTAATATCTTAAAACTCACTCAAAAGAT
1129813 GTATATACCT
Statistics
Matches: 567, Mismatches: 14, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
487 161 0.28
488 1 0.00
489 68 0.12
490 336 0.59
491 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (487 bp):
TTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
ATAGACACTTTTATAAAAAGGATAGATACTTTACAATAACCACTACCTATTACATTATATAAACG
ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTATTATATTGAAAGTATC
CATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTAT
TTGATTGTTTTGATACTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGAT
AATAATAAATATGTAATATATATGTTTATTAC
Found at i:1129863 original size:25 final size:25
Alignment explanation
Indices: 1129812--1129875 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
1129802 ACTCAAAAGA
* *
1129812 TGTATATACCT-AATATGTAGTTAT
1 TGTACATACCTAAATATGTAATTAT
*
1129836 TGTACATACCTAAATATGTAATTTT
1 TGTACATACCTAAATATGTAATTAT
1129861 TGTACATACCTAAAT
1 TGTACATACCTAAAT
1129876 TTAATGATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 10 0.28
25 26 0.72
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAATTAT
Found at i:1132638 original size:183 final size:183
Alignment explanation
Indices: 1132329--1133635 Score: 2325
Period size: 183 Copynumber: 7.1 Consensus size: 183
1132319 TACTTAAAAT
* * *
1132329 TACCGACACAATATTA-AAACGTGTCGATATAAGTTGTAAGACCTATTTGCTTATAAAACCGGTA
1 TACCGACACAATATTAGAAA-GTGTCGATATAGGTTGT-AGACCTATTCGCTCATAAAACCGGTA
* *
1132393 TATTTATACCGGTTATATTACAAACTTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAAT
64 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAAT
1132458 GTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
129 GTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
1132513 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
1132578 TTTATACCAGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
1132643 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
1132696 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTATACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
1132761 TTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGTTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
*
1132826 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
1132879 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
1132944 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
1133009 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
1133062 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
1133127 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
*
1133192 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCGAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
1133245 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
1133310 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTTCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
*
1133375 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCCGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
1133428 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCAAAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
1133493 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAA
* *
1133558 --TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCTATTCTGGACATAAAG
128 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
1133612 TACAGACACAATATTAAAAAGTGT
1 TACCGACACAATATTAGAAAGTGT
1133636 GTAAACTTTG
Statistics
Matches: 1087, Mismatches: 30, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
182 3 0.00
183 969 0.89
184 108 0.10
185 3 0.00
186 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (183 bp):
TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:1134847 original size:3 final size:3
Alignment explanation
Indices: 1134839--1134907 Score: 75
Period size: 3 Copynumber: 23.0 Consensus size: 3
1134829 ACTTGTTTGG
* * * * * *
1134839 ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC AGC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
1134887 ATC ATC ATC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC
1134908 GTCAGCTTCA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:1134888 original size:24 final size:24
Alignment explanation
Indices: 1134843--1134919 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
1134833 GTTTGGATCA
* * * *
1134843 TCATCATCATCATCGTCATCATCT
1 TCATCATCAGCTTCATCGTCATCT
* *
1134867 TCATCGTCAGCTTCATCGTCATCA
1 TCATCATCAGCTTCATCGTCATCT
* *
1134891 TCATCATCATCTTCATCGTCAGCT
1 TCATCATCAGCTTCATCGTCATCT
1134915 TCATC
1 TCATC
1134920 TTCATTGACC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.36
Consensus pattern (24 bp):
TCATCATCAGCTTCATCGTCATCT
Found at i:1134890 original size:36 final size:36
Alignment explanation
Indices: 1134843--1134924 Score: 137
Period size: 36 Copynumber: 2.3 Consensus size: 36
1134833 GTTTGGATCA
*
1134843 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
*
1134879 TCATCGTCATCATCATCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
*
1134915 TCATCTTCAT
1 TCATCATCAT
1134925 TGACCGCTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.38
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:1134916 original size:12 final size:12
Alignment explanation
Indices: 1134865--1134919 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
1134855 TCGTCATCAT
1134865 CTTCATCGTCAG
1 CTTCATCGTCAG
*
1134877 CTTCATCGTCAT
1 CTTCATCGTCAG
* * *
1134889 CATCATCATCAT
1 CTTCATCGTCAG
1134901 CTTCATCGTCAG
1 CTTCATCGTCAG
1134913 CTTCATC
1 CTTCATC
1134920 TTCATTGACC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.20, C:0.35, G:0.09, T:0.36
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:1134918 original size:18 final size:18
Alignment explanation
Indices: 1134861--1134924 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
1134851 ATCATCGTCA
1134861 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
1134879 TCATCGTCATCATCATCA
1 TCATCTTCATCGTCAGCT
1134897 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
1134915 TCATCTTCAT
1 TCATCTTCAT
1134925 TGACCGCTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.20, C:0.33, G:0.08, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:1134922 original size:6 final size:6
Alignment explanation
Indices: 1134861--1134924 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
1134851 ATCATCGTCA
* * * * * *
1134861 TCATCT TCATCG TCAGCT TCATCG TCATCA TCATCA TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
1134909 TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCAT
1134925 TGACCGCTTG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.20, C:0.33, G:0.08, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:1137326 original size:198 final size:200
Alignment explanation
Indices: 1136388--1138742 Score: 4406
Period size: 199 Copynumber: 11.9 Consensus size: 200
1136378 TTTAAATTAG
1136388 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1136453 CCTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-TTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1136517 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1136581 AAAAA
196 AAAAA
1136586 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1136651 CTTGTACCGGTTAGATTGAAAAATTACATATTAGATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1136716 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1136781 AAAAA
196 AAAAA
1136786 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1136851 CTTATACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1136915 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1136980 AAAAA
196 AAAAA
*
1136985 TATCGACACAAACTAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1137050 CTTGTACCGGTTAGATTGAAAGATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1137115 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1137179 AAAAA
196 AAAAA
1137184 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1137248 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1137312 TCGACACTTTTTATATATGTATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1137377 -AAAA
196 AAAAA
*
1137381 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1137446 CTTGTACCGGTTAGATTG-AAAA-TACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGAA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1137509 TCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTG-TTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1137571 -AAAA
196 AAAAA
1137575 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1137639 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1137704 TCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1137767 AAAAA
196 AAAAA
*
1137772 TATCGACACAAACTAAAAAAGTGTCGACACTTTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1137837 CTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1137902 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1137967 -AAAA
196 AAAAA
1137971 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1138036 CTTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1138100 TCGACACTTTTTATATATGTATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1138165 AAAAA
196 AAAAA
* * **
1138170 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTTATAAAACATGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1138235 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1138300 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1138365 AAAAA
196 AAAAA
*
1138370 TATCGACACAAACTAAAAAAGTGTCGACACTTTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1138435 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1138500 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1138565 AAAAA
196 AAAAA
1138570 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1138634 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1138699 TCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACCCT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCT
1138743 TAATGTGTAT
Statistics
Matches: 2107, Mismatches: 35, Indels: 29
0.97 0.02 0.01
Matches are distributed among these distances:
193 29 0.01
194 79 0.04
195 114 0.05
196 40 0.02
197 137 0.07
198 525 0.25
199 600 0.28
200 583 0.28
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAA
Found at i:1138846 original size:18 final size:18
Alignment explanation
Indices: 1138823--1138883 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
1138813 TCTCATTCAT
*
1138823 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
1138841 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
1138860 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
1138879 AATTA
1 AATTA
1138884 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:1138859 original size:19 final size:19
Alignment explanation
Indices: 1138835--1138883 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1138825 TTATATTCAC
1138835 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1138854 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1138873 ATACAAAATTA
1 ATACAAAATTA
1138884 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1140710 original size:33 final size:33
Alignment explanation
Indices: 1140673--1140735 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1140663 CTTAATATCG
* *
1140673 CCCCTTAACACCCCAACTTCTTTCACCACTTCA
1 CCCCTCAACACACCAACTTCTTTCACCACTTCA
* *
1140706 CCCCTCAACACATCTACTTCTTTCACCACT
1 CCCCTCAACACACCAACTTCTTTCACCACT
1140736 CCATCTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
CCCCTCAACACACCAACTTCTTTCACCACTTCA
Found at i:1140794 original size:21 final size:21
Alignment explanation
Indices: 1140769--1140833 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
1140759 CCCCTTATGC
* *
1140769 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1140790 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
1140811 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1140832 CT
1 CT
1140834 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:1142885 original size:24 final size:24
Alignment explanation
Indices: 1142848--1142900 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1142838 CCGTTCTATC
1142848 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
1142872 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
1142896 TATTT
1 TATTT
1142901 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:1143092 original size:20 final size:19
Alignment explanation
Indices: 1143046--1143092 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1143036 TCCGGTATCA
*
1143046 TTTTACCGGTTTTATCATT
1 TTTTACCGATTTTATCATT
*
1143065 TTGATACCGATTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
1143086 TTTTACC
1 TTTTACC
1143093 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:1143254 original size:20 final size:20
Alignment explanation
Indices: 1143227--1143273 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1143217 TCCGGTAACG
1143227 TTTTACCGATTTTATCAT-T
1 TTTTACCGATTTTATCATAT
*
1143246 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGATTTTATCATAT
1143267 TTTTACC
1 TTTTACC
1143274 TGGTATATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGATTTTATCATAT
Found at i:1143485 original size:180 final size:181
Alignment explanation
Indices: 1143013--1143483 Score: 687
Period size: 180 Copynumber: 2.6 Consensus size: 181
1143003 CGTACTTACG
* * *
1143013 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGATTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
1143078 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
1143143 AGGCGCTAAAACTGCTTCTCTTTTAAATTCTCAAAGTGTCGATCCTTATAT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
1143194 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGATTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
1143259 TATCATATTTTTACCTGGTATATCG-TTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
1143323 AGGATTTAAAACTGCTTCTC-TTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * *
1143374 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * * *
1143438 TTGTTATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
1143484 AATTTGGATC
Statistics
Matches: 260, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
179 27 0.10
180 130 0.50
181 103 0.40
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:1143951 original size:229 final size:229
Alignment explanation
Indices: 1143549--1144044 Score: 906
Period size: 229 Copynumber: 2.2 Consensus size: 229
1143539 ACCTACTTTT
1143549 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
1143614 ATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
*
1143679 AAATTTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
131 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
* *
1143744 CCAAATATAATAATAAATATGTTTTCCACAGTGAA
196 CCAAAGATAATAATAAATATATTTT-CACAGTGAA
1143779 ATAAGTATGGACACTTTTATAAAAATGATATATA-TATTTTTTAAAGTTATGTAATTTATGTTTC
1 ATAAGTATGGACACTTTTATAAAAATGATATATACT-TTTTTTAAAGTTATGTAATTTATGTTTC
1143843 AA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
65 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
1143907 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTA
130 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTA
1143972 ACCAAAGATAATAATAAATATATTTTCACAGTGAA
195 ACCAAAGATAATAATAAATATATTTTCACAGTGAA
* *
1144007 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
1144045 ACAATATAAC
Statistics
Matches: 258, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
228 43 0.17
229 151 0.59
230 64 0.25
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (229 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
CCAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:1146324 original size:2 final size:2
Alignment explanation
Indices: 1146317--1146363 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1146307 GTTCTATCCC
1146317 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1146359 TA TA T
1 TA TA T
1146364 CTTTTTTTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1147025 original size:26 final size:27
Alignment explanation
Indices: 1146981--1147037 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
1146971 TTAAAAACAT
1146981 TTTTAAAAAAAAGAAAATATGTGATTA
1 TTTTAAAAAAAAGAAAATATGTGATTA
* * *
1147008 TTTTGAAAAAAA-ATAATATGTGTTTA
1 TTTTAAAAAAAAGAAAATATGTGATTA
1147034 TTTT
1 TTTT
1147038 TTCCTCATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (27 bp):
TTTTAAAAAAAAGAAAATATGTGATTA
Found at i:1147039 original size:28 final size:28
Alignment explanation
Indices: 1146979--1147038 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
1146969 TTTTAAAAAC
1146979 ATTTTTAAAAAAAAGAAAATATGTGATT
1 ATTTTTAAAAAAAAGAAAATATGTGATT
* * *
1147007 A-TTTTGAAAAAAA-ATAATATGTGTTT
1 ATTTTTAAAAAAAAGAAAATATGTGATT
1147033 ATTTTT
1 ATTTTT
1147039 TCCTCATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.43
27 15 0.54
28 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (28 bp):
ATTTTTAAAAAAAAGAAAATATGTGATT
Found at i:1148809 original size:29 final size:30
Alignment explanation
Indices: 1148745--1148811 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 30
1148735 CAACGGAGTG
1148745 GTATAATTGAAACAAAAATAAAAGTTCAGCAT
1 GTATAATTG-AACAAAAATAAAAGTTCA-CAT
*
1148777 -TATAATTG-ACAAAATTAAAAGTTCA-ATT
1 GTATAATTGAACAAAAATAAAAGTTCACA-T
1148805 GTATAAT
1 GTATAAT
1148812 CGATACAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 1 0.03
28 1 0.03
29 22 0.69
31 8 0.25
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.31
Consensus pattern (30 bp):
GTATAATTGAACAAAAATAAAAGTTCACAT
Found at i:1150307 original size:21 final size:21
Alignment explanation
Indices: 1150278--1150317 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1150268 TCAATTGCGA
1150278 TCAACGGTCAACGACCAACAG
1 TCAACGGTCAACGACCAACAG
* *
1150299 TCAAGGGTCAACGATCAAC
1 TCAACGGTCAACGACCAAC
1150318 GGGTGACCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.30, G:0.20, T:0.12
Consensus pattern (21 bp):
TCAACGGTCAACGACCAACAG
Found at i:1151151 original size:332 final size:332
Alignment explanation
Indices: 1150545--1151195 Score: 1293
Period size: 332 Copynumber: 2.0 Consensus size: 332
1150535 AACTTATCAA
1150545 GCTCGGTTCACAAAGGTGAACGACAGAGACTCGATTTCGCAACGTCGAAAACTTAATATTCCTCA
1 GCTCGGTTCACAAAGGTGAACGACAGAGACTCGATTTCGCAACGTCGAAAACTTAATATTCCTCA
*
1150610 CCCCTCCCACGTTGATGGCAACAGAGTCAAGATGGACAACGGTGGACTCGGTATTATGCAAGGAA
66 CCCCTCCCACGTTGATGGCAACAGAGACAAGATGGACAACGGTGGACTCGGTATTATGCAAGGAA
1150675 CACGATGGTACGGAAGGTGTTGAAAACAGAACAATGGTCGGTGACGAAACGTCGATTGAAGTTTT
131 CACGATGGTACGGAAGGTGTTGAAAACAGAACAATGGTCGGTGACGAAACGTCGATTGAAGTTTT
1150740 TTGCTAAAGGAGGAAAGCTTGAAGAGAGGAATGGGGTTTTTAAACAAGGAAACTTTCTAAATTTG
196 TTGCTAAAGGAGGAAAGCTTGAAGAGAGGAATGGGGTTTTTAAACAAGGAAACTTTCTAAATTTG
1150805 GGATTACATATTCCTTAAAAGGAAAATGGTAAAATTATGCCATAGGTCTTCTATTTTTTTCGACT
261 GGATTACATATTCCTTAAAAGGAAAATGGTAAAATTATGCCATAGGTCTTCTATTTTTTTCGACT
1150870 CTCGAAG
326 CTCGAAG
1150877 GCTCGGTTCACAAAGGTGAACGACAGAGACTCGATTTCGCAACGTCGAAAACTTAATATTCCTCA
1 GCTCGGTTCACAAAGGTGAACGACAGAGACTCGATTTCGCAACGTCGAAAACTTAATATTCCTCA
1150942 CCCCTCCCACGTTGATGGCAACAGAGACAAGATGGACAACGGTGGACTCGGTATTATGCAAGGAA
66 CCCCTCCCACGTTGATGGCAACAGAGACAAGATGGACAACGGTGGACTCGGTATTATGCAAGGAA
1151007 CACGATGGTACGGAAGGTGTTGAAAACAGAACAATGGTCGGTGACGAAACGTCGATTGAAGTTTT
131 CACGATGGTACGGAAGGTGTTGAAAACAGAACAATGGTCGGTGACGAAACGTCGATTGAAGTTTT
1151072 TTGCTAAAGGAGGAAAGCTTGAAGAGAGGAATGGGGTTTTTAAACAAGGAAACTTTCTAAATTTG
196 TTGCTAAAGGAGGAAAGCTTGAAGAGAGGAATGGGGTTTTTAAACAAGGAAACTTTCTAAATTTG
1151137 GGATTACATATTCCTTAAAAGGAAAATGGTAAAATTATGCCATAGGTCTTCTATTTTTT
261 GGATTACATATTCCTTAAAAGGAAAATGGTAAAATTATGCCATAGGTCTTCTATTTTTT
1151196 ATGCTTTCTA
Statistics
Matches: 318, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
332 318 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (332 bp):
GCTCGGTTCACAAAGGTGAACGACAGAGACTCGATTTCGCAACGTCGAAAACTTAATATTCCTCA
CCCCTCCCACGTTGATGGCAACAGAGACAAGATGGACAACGGTGGACTCGGTATTATGCAAGGAA
CACGATGGTACGGAAGGTGTTGAAAACAGAACAATGGTCGGTGACGAAACGTCGATTGAAGTTTT
TTGCTAAAGGAGGAAAGCTTGAAGAGAGGAATGGGGTTTTTAAACAAGGAAACTTTCTAAATTTG
GGATTACATATTCCTTAAAAGGAAAATGGTAAAATTATGCCATAGGTCTTCTATTTTTTTCGACT
CTCGAAG
Found at i:1158800 original size:2 final size:2
Alignment explanation
Indices: 1158793--1158830 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1158783 CTGCCCTAGT
1158793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1158831 GACATAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1169336 original size:16 final size:15
Alignment explanation
Indices: 1169296--1169339 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
1169286 GGTGTACGTG
1169296 TTATTTATTATATTA
1 TTATTTATTATATTA
1169311 -TATATT-TTATATTA
1 TTAT-TTATTATATTA
1169325 TTATTTAGTTATATT
1 TTATTTA-TTATATT
1169340 TATGAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 13 0.52
15 5 0.20
16 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTATTTATTATATTA
Found at i:1170510 original size:5 final size:5
Alignment explanation
Indices: 1170502--1170535 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
1170492 TTTATTTTTC
1170502 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
1170536 TATTATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:1174223 original size:24 final size:24
Alignment explanation
Indices: 1174196--1174241 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1174186 GCAAGGGGAC
*
1174196 TCATCTGCTGTAAAAACACAAGCT
1 TCATCTACTGTAAAAACACAAGCT
*
1174220 TCATCTACTGTAAAAGCACAAG
1 TCATCTACTGTAAAAACACAAG
1174242 TTTCGTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (24 bp):
TCATCTACTGTAAAAACACAAGCT
Found at i:1174252 original size:24 final size:24
Alignment explanation
Indices: 1174203--1174259 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
1174193 GACTCATCTG
* *
1174203 CTGTAAAAACACAAGCTTCATCTA
1 CTGTAAAAGCACAAGCTTCATATA
* *
1174227 CTGTAAAAGCACAAGTTTCGTATA
1 CTGTAAAAGCACAAGCTTCATATA
*
1174251 CTGCAAAAG
1 CTGTAAAAG
1174260 AACATGCCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (24 bp):
CTGTAAAAGCACAAGCTTCATATA
Found at i:1178860 original size:23 final size:22
Alignment explanation
Indices: 1178816--1178894 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
1178806 AATATTAAGA
*
1178816 GGTATCGATACCCCTATGAATG
1 GGTATCAATACCCCTATGAATG
*
1178838 GGTATCAATACCCTATATGAATG
1 GGTATCAATACCC-CTATGAATG
* *
1178861 GGTA-CTGATACCCCTATGAAAG
1 GGTATC-AATACCCCTATGAATG
1178883 GGTATCAATACC
1 GGTATCAATACC
1178895 ACATGAAGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
22 29 0.60
23 19 0.40
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (22 bp):
GGTATCAATACCCCTATGAATG
Found at i:1181470 original size:17 final size:17
Alignment explanation
Indices: 1181448--1181483 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1181438 AATTGGTAAC
1181448 AATTGGTATCCTTTTGT
1 AATTGGTATCCTTTTGT
1181465 AATTGGTATCCTTTTGT
1 AATTGGTATCCTTTTGT
1181482 AA
1 AA
1181484 ACAATTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (17 bp):
AATTGGTATCCTTTTGT
Found at i:1181495 original size:21 final size:20
Alignment explanation
Indices: 1181443--1181499 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 20
1181433 CCAACAATTG
1181443 GTAACAATTGGTATCCTTTT
1 GTAACAATTGGTATCCTTTT
1181463 GT---AATTGGTATCCTTTT
1 GTAACAATTGGTATCCTTTT
*
1181480 GTAAACAATTGATAT-CTTTT
1 GT-AACAATTGGTATCCTTTT
1181500 TCATTAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 17 0.53
20 7 0.22
21 8 0.25
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (20 bp):
GTAACAATTGGTATCCTTTT
Found at i:1181778 original size:22 final size:22
Alignment explanation
Indices: 1181721--1181794 Score: 103
Period size: 22 Copynumber: 3.3 Consensus size: 22
1181711 AGAGGTACCG
*
1181721 ATACCCCTATGAATGAGTATCA
1 ATACCCCTATGAATGGGTATCA
*
1181743 ATACCCGCTATGAATGGGTATCG
1 ATACCC-CTATGAATGGGTATCA
**
1181766 ATACCCCTATGAAAAGGTATCA
1 ATACCCCTATGAATGGGTATCA
1181788 ATACCCC
1 ATACCCC
1181795 CCATGAAGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 26 0.57
23 20 0.43
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (22 bp):
ATACCCCTATGAATGGGTATCA
Found at i:1181800 original size:23 final size:23
Alignment explanation
Indices: 1181724--1181801 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
1181714 GGTACCGATA
*
1181724 CCCCTATG-AATGAGTATCAATAC
1 CCCCTATGAAAAG-GTATCAATAC
* ** *
1181747 CCGCTATGAATGGGTATCGATA-
1 CCCCTATGAAAAGGTATCAATAC
1181769 CCCCTATGAAAAGGTATCAATAC
1 CCCCTATGAAAAGGTATCAATAC
*
1181792 CCCCCATGAA
1 CCCCTATGAA
1181802 GGCTCAAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
22 18 0.41
23 24 0.55
24 2 0.05
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (23 bp):
CCCCTATGAAAAGGTATCAATAC
Found at i:1181801 original size:45 final size:45
Alignment explanation
Indices: 1181714--1181801 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
1181704 AATATTAAGA
* * *
1181714 GGTACCGATACCCCTATGAATGAGTATCAATACCCGCTATGAATG
1 GGTACCGATACCCCTATGAAAGAGTATCAATACCCCCCATGAATG
*
1181759 GGTATCGATACCCCTATGAAA-AGGTATCAATACCCCCCATGAA
1 GGTACCGATACCCCTATGAAAGA-GTATCAATACCCCCCATGAA
1181802 GGCTCAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.03
45 37 0.97
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (45 bp):
GGTACCGATACCCCTATGAAAGAGTATCAATACCCCCCATGAATG
Found at i:1185026 original size:21 final size:21
Alignment explanation
Indices: 1185002--1185055 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
1184992 GACATTTACA
1185002 AAAATAATAAATCATGTTTAT
1 AAAATAATAAATCATGTTTAT
1185023 AAAATAATAAATCATGTTTAT
1 AAAATAATAAATCATGTTTAT
1185044 AAAATAATAAAT
1 AAAATAATAAAT
1185056 ATAATCTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (21 bp):
AAAATAATAAATCATGTTTAT
Found at i:1188188 original size:3 final size:3
Alignment explanation
Indices: 1188168--1188245 Score: 62
Period size: 3 Copynumber: 28.0 Consensus size: 3
1188158 TTTGGGCCTG
* *
1188168 TAA T-A TAA TAA -AA TTAA TAA TAA -AA AAA TAA TAA TAA T-A TTA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1188210 TAA -AA TAA TAA TAA TAT TAA -AA CAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1188246 ATAAAACAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
2 14 0.22
3 47 0.75
4 2 0.03
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1188194 original size:14 final size:15
Alignment explanation
Indices: 1188168--1188251 Score: 63
Period size: 14 Copynumber: 5.9 Consensus size: 15
1188158 TTTGGGCCTG
*
1188168 TAAT-ATAATAAAAT
1 TAATAATAATAAAAA
1188182 TAATAATAA-AAAAA
1 TAATAATAATAAAAA
**
1188196 TAATAATAAT-ATTA
1 TAATAATAATAAAAA
*
1188210 TAA-AATAATAATAA
1 TAATAATAATAAAAA
* *
1188224 TATTAA-AA-CAAAA
1 TAATAATAATAAAAA
1188237 TAATAATAAATAAAA
1 TAATAAT-AATAAAA
1188252 CAAATGAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
13 14 0.26
14 29 0.54
15 8 0.15
16 3 0.06
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAATAATAAAAA
Found at i:1188199 original size:11 final size:11
Alignment explanation
Indices: 1188172--1188223 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
1188162 GGCCTGTAAT
*
1188172 ATAATAAAATTA
1 ATAATAAAA-AA
1188184 ATAATAAAAAA
1 ATAATAAAAAA
* *
1188195 ATAATAATAAT
1 ATAATAAAAAA
* *
1188206 ATTATAAAATA
1 ATAATAAAAAA
1188217 ATAATAA
1 ATAATAA
1188224 TATTAAAACA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAATAAAAAA
Found at i:1188216 original size:19 final size:19
Alignment explanation
Indices: 1188168--1188244 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
1188158 TTTGGGCCTG
*
1188168 TAATATAATAAAAT--TAA
1 TAATATTATAAAATAATAA
*
1188185 TAATA--AAAAAATAATAA
1 TAATATTATAAAATAATAA
1188202 TAATATTATAAAATAATAA
1 TAATATTATAAAATAATAA
*
1188221 TAATATTA-AAACAAAATAA
1 TAATATTATAAA-ATAATAA
1188240 TAATA
1 TAATA
1188245 AATAAAACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
15 6 0.12
17 13 0.25
18 3 0.06
19 30 0.58
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (19 bp):
TAATATTATAAAATAATAA
Found at i:1188238 original size:16 final size:17
Alignment explanation
Indices: 1188182--1188246 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
1188172 ATAATAAAAT
** *
1188182 TAATAATAAAAAAATAA
1 TAATAATATTAAAACAA
*
1188199 TAATAATATTATAAAATAA
1 TAATAATA-T-TAAAACAA
1188218 TAATAATATTAAAACAA
1 TAATAATATTAAAACAA
*
1188235 -AATAATAATAAA
1 TAATAATATTAAA
1188247 TAAAACAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
16 11 0.26
17 15 0.36
18 1 0.02
19 15 0.36
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
TAATAATATTAAAACAA
Found at i:1188256 original size:19 final size:19
Alignment explanation
Indices: 1188182--1188256 Score: 80
Period size: 19 Copynumber: 3.7 Consensus size: 19
1188172 ATAATAAAAT
1188182 TAATAATAAAAAAATAATAA
1 TAAT-ATAAAAAAATAATAA
* *
1188202 TAATATTATAAAATAATAA
1 TAATATAAAAAAATAATAA
1188221 TAATATTAAAACAAAATAATAA
1 TAATA-T-AAA-AAAATAATAA
1188243 TAA-ATAAAACAAAT
1 TAATATAAAA-AAAT
1188257 GAAATAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.02
19 25 0.53
20 6 0.13
21 2 0.04
22 13 0.28
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
TAATATAAAAAAATAATAA
Found at i:1188681 original size:113 final size:112
Alignment explanation
Indices: 1188498--1189037 Score: 848
Period size: 113 Copynumber: 4.8 Consensus size: 112
1188488 AGAATCATGC
*
1188498 AAAAGATTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
1188563 TATGAACTCTCTCTGGAAAAGTTAATCCATTGAGTGATGAATTCGAGCA
65 TATGAACTCTC-CTGGAAATGTTGATCCATCGAATGATGAATTCAAGCA
*
1188612 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
1188677 ATGAACTCGCCCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCG
66 ATGAACTC-TCCTGGAAATGTTGATCCATCGAATGATGAATTCAAGCA
*
1188725 AAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * **
1188790 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGTG
66 ATGAACTC-TCCTGGAAATGTTGATCCATCGAATGATGAATTCAAGCA
1188838 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1188903 ATGAACT-TGACCTGGTAATGTTGATCTATCGAATGATGAATTCAAGCA
66 ATGAACTCT--CCTGGAAATGTTGATCCATCGAATGATGAATTCAAGCA
1188951 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1189016 ATGAACTCTACCTGGAAATGTT
66 ATGAACTCT-CCTGGAAATGTT
1189038 TTAAGAAAAA
Statistics
Matches: 399, Mismatches: 23, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
113 392 0.98
114 7 0.02
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (112 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTCCTGGAAATGTTGATCCATCGAATGATGAATTCAAGCA
Found at i:1189407 original size:76 final size:76
Alignment explanation
Indices: 1189067--1189380 Score: 556
Period size: 76 Copynumber: 4.1 Consensus size: 76
1189057 CATTGTAGAG
* * * * *
1189067 CTTACAGCTGAACCGAAGGTTTTGAAAACATCAAAAAGCTCCAGAAGGCTTTTTGGAAACATCAT
1 CTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
*
1189132 GCACTACAGGA
66 GCACTGCAGGA
*
1189143 CTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCTAAGGCTTTTTGGAAACATCAT
1 CTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
1189208 GCACTGCAGGA
66 GCACTGCAGGA
1189219 CTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
1 CTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
1189284 GCACTGCAGGA
66 GCACTGCAGGA
*
1189295 CTTACAGATGACCCTAAGGCTTTGAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
1 CTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
1189360 GCACTGCAGGA
66 GCACTGCAGGA
1189371 CTTACAGATG
1 CTTACAGATG
1189381 TTGGAAATAG
Statistics
Matches: 229, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 229 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (76 bp):
CTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
GCACTGCAGGA
Found at i:1189669 original size:164 final size:166
Alignment explanation
Indices: 1189381--1189705 Score: 519
Period size: 164 Copynumber: 2.0 Consensus size: 166
1189371 CTTACAGATG
*
1189381 TTGGAAATAGTTTAATAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATT
1 TTGGAAATAGTTTAATAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATT
** * ** *
1189446 TTTAAAAAAGATTGAATGAGAAACTATGGAAATTGTTTTCTCATTATTTTTCAAAATAACATGTT
66 TTTAAAAAAGATAAAATAAGAAACTATGGAAATCATTTTCTCATTATTTTTCAAAATAACATGTC
*
1189511 GATTGGGTAACATGCCCCAATCTAAAGATAAGACTA
131 GATTAGGTAACATGCCCCAATCTAAAGATAAGACTA
*
1189547 TTGGAAATAGTTTACTAAGT-AAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCA-T
1 TTGGAAATAGTTTAATAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATT
* **
1189610 TTTAGAAAAGATAAAATAAGAAACTATGGAAATCATTTTCTCATTATTTTTTGAAATAACATGTC
66 TTTAAAAAAGATAAAATAAGAAACTATGGAAATCATTTTCTCATTATTTTTCAAAATAACATGTC
*
1189675 GATTAGGTAACATGCCCCAATCTCAAGATAA
131 GATTAGGTAACATGCCCCAATCTAAAGATAA
1189706 TGTTCATTTT
Statistics
Matches: 146, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
164 86 0.59
165 41 0.28
166 19 0.13
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (166 bp):
TTGGAAATAGTTTAATAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATT
TTTAAAAAAGATAAAATAAGAAACTATGGAAATCATTTTCTCATTATTTTTCAAAATAACATGTC
GATTAGGTAACATGCCCCAATCTAAAGATAAGACTA
Found at i:1190248 original size:22 final size:22
Alignment explanation
Indices: 1190220--1190274 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1190210 CATAAAGCTT
1190220 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1190242 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1190264 TCATCTTTGAA
1 TCATCTTTGAA
1190275 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1197162 original size:21 final size:21
Alignment explanation
Indices: 1197138--1197177 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1197128 AAAAAGTAAG
1197138 AATACAAAATGA-AAATGCACA
1 AATACAAAAT-ATAAATGCACA
1197159 AATACAAAATATAAATGCA
1 AATACAAAATATAAATGCA
1197178 TGTATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.17
Consensus pattern (21 bp):
AATACAAAATATAAATGCACA
Found at i:1200218 original size:110 final size:109
Alignment explanation
Indices: 1200035--1200236 Score: 250
Period size: 110 Copynumber: 1.8 Consensus size: 109
1200025 TTTATATATT
* *
1200035 TTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCTTAAGACAG
1 TTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACTTCCAGGTGCCTTAAGACAG
* *
1200100 CTCTTTTCTTCGATATT-AAAAA-AAATTTTAAAAATAGATATAA
66 CTCATTTCTT-AATATTGAAAAATAAATTTTAAAAATAGATATAA
* * **
1200143 TTTATAAAAGTAAGATATTTATTTATTTAAAAATATCAGAAAATGGA-TATCCAGTTGTTTTAAG
1 TTTAT-AAA-TAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACT-TCCAGGTGCCTTAAG
*
1200207 ACTGC-CATTTCTTAATATTGAAAAATAAAT
62 ACAGCTCATTTCTTAATATTGAAAAATAAAT
1200237 AAATAAATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
108 5 0.06
109 8 0.10
110 45 0.57
111 21 0.27
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (109 bp):
TTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACTTCCAGGTGCCTTAAGACAG
CTCATTTCTTAATATTGAAAAATAAATTTTAAAAATAGATATAA
Found at i:1201788 original size:3 final size:3
Alignment explanation
Indices: 1201771--1201837 Score: 81
Period size: 3 Copynumber: 24.0 Consensus size: 3
1201761 TTTGGGCCTG
1201771 TAA T-A TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1201816 TAT TAA -AA CAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
1201838 ATAAAACAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
2 10 0.18
3 47 0.82
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1201844 original size:20 final size:19
Alignment explanation
Indices: 1201771--1201847 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 19
1201761 TTTGGGCCTG
*
1201771 TAAT-ATAATAAAATAATAA
1 TAATAATAATAAAACAA-AA
* *
1201790 TAATAATAATAATAATATAA
1 TAATAATAATAA-AACAAAA
*
1201810 TAATAATATTAAAACAAAA
1 TAATAATAATAAAACAAAA
1201829 TAATAATAAATAAAACAAA
1 TAATAAT-AATAAAACAAA
1201848 TGAAATAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.32
20 30 0.60
21 4 0.08
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
TAATAATAATAAAACAAAA
Found at i:1202569 original size:90 final size:90
Alignment explanation
Indices: 1202401--1202815 Score: 589
Period size: 90 Copynumber: 4.7 Consensus size: 90
1202391 AATGGAAATG
* * * * *
1202401 TTGAAAGCATCTTGC-CTGAAGGTCTTATAG-TTGCCCGAAGGACTTAAAAAATCAAGAAA-CTC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTT-AAAAATCAAGAAACCCC
*
1202463 CAGAAGGCTCAATTTCTTAAATCTCAT
65 CA-AAGGCTCAATTTCTTAGATCTCAT
1202490 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
*
1202555 AAAAGCTCAATTTCTTAGATCTCAT
66 AAAGGCTCAATTTCTTAGATCTCAT
* * *
1202580 TTGAAAATATCCTGCAC-GAAGGTCTTATGGATGGCCCGAAGTACTTAAAAATCAAGAAACCCCT
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
* *
1202644 GAAGGCTCAGTTTCTTAGATCTCAT
66 AAAGGCTCAATTTCTTAGATCTCAT
* *
1202669 TTGAAAACATCCTGCATTGAATGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
* * *
1202734 GAAGGCTCAGTTTCTTAGATCTAAT
66 AAAGGCTCAATTTCTTAGATCTCAT
1202759 TTG-AAACATCCTG---T-AA-GTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCC
1202816 TTGAAAATCA
Statistics
Matches: 303, Mismatches: 19, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
84 41 0.14
85 2 0.01
86 1 0.00
89 105 0.35
90 136 0.45
91 18 0.06
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (90 bp):
TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
AAAGGCTCAATTTCTTAGATCTCAT
Found at i:1202718 original size:179 final size:175
Alignment explanation
Indices: 1202418--1202820 Score: 603
Period size: 179 Copynumber: 2.3 Consensus size: 175
1202408 CATCTTGCCT
* * * *
1202418 GAAGGTCTTATAG-TTGCCCGAAGGACTTAAAAAATCAAGAAACTCCAGAAGGCTCAATTTCTTA
1 GAAGGTCTTATGGATGGCCCGAAGGACTT-AAAAATCAAGAAACCCCTGAAGGCTCAATTTCTTA
1202482 AATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAG
65 AATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAG
* *
1202547 AAACCCCCAAAAGCTCAATTTCTTAGATCTCATTTGAAAATATCCTG
130 AAACCCCCAAAAGCTCAATTTCTTAGATCTAATTTG-AAACATCCTG
* *
1202594 CACGAAGGTCTTATGGATGGCCCGAAGTACTTAAAAATCAAGAAACCCCTGAAGGCTCAGTTTCT
1 ---GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCTGAAGGCTCAATTTCT
* * *
1202659 TAGATCTCATTTGAAAACATCCTGCATTGAATGTCTTATGGATGGCCCGAAGGACTTAAAAATCA
63 TAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCA
* * *
1202724 AGAAACCCCCGAAGGCTCAGTTTCTTAGATCTAATTTGAAACATCCTG
128 AGAAACCCCCAAAAGCTCAATTTCTTAGATCTAATTTGAAACATCCTG
* *
1202772 TAA-GTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCTTGAA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCTGAA
1202821 AATCAAGCTC
Statistics
Matches: 206, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
174 44 0.21
175 2 0.01
178 9 0.04
179 138 0.67
180 13 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (175 bp):
GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCTGAAGGCTCAATTTCTTAA
ATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGA
AACCCCCAAAAGCTCAATTTCTTAGATCTAATTTGAAACATCCTG
Found at i:1202962 original size:43 final size:43
Alignment explanation
Indices: 1202901--1203367 Score: 443
Period size: 43 Copynumber: 10.3 Consensus size: 43
1202891 AAATTTGTCT
*
1202901 TCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
**
1202944 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTTTCA
1 TCAAGAAACCCCTACATATCACGATGG----TC---C----C-TCAAGCTTTTCA
* *
1202999 TCAAGGAACCCCTACATATCATGATGGTCCCTCAAGCTTTTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* *
1203042 TCAAGGAACCCCTACATATCATGATGGTCCCTCAAGCTTTTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
** * *
1203085 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCC
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* *
1203128 TTAA-AGAACCCCTACATATCACGATGGTCCTTCAAGCTTGTCATCAAA
1 TCAAGA-AACCCCTACATATCACGATGGTCCCTCAAGCTT-T--TC--A
* * *
1203176 TTTGTCATTAAGGAACCACTACATATCACGACGGTCCCTCAAGCTTTTCA
1 ----TC---AAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
** *
1203226 TCAAGAAACCCCTACATATCACGATGGTTTCTCAA-ATTTGTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTT-TCA
* * * *
1203269 TCAAGGAACCCCAACATATCACGACGCTCCCTCAAGCTTTTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* ** *
1203312 TCAAGAATCCCCTACATATCACGATGGTTTCTCAAGCTTTTCT
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
1203355 TCAAGAAACCCCT
1 TCAAGAAACCCCT
1203368 GAAAATCAGG
Statistics
Matches: 350, Mismatches: 46, Indels: 56
0.77 0.10 0.12
Matches are distributed among these distances:
42 4 0.01
43 259 0.74
44 4 0.01
46 4 0.01
47 2 0.01
48 1 0.00
50 2 0.01
51 2 0.01
52 3 0.01
54 2 0.01
55 67 0.19
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (43 bp):
TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
Found at i:1203042 original size:22 final size:22
Alignment explanation
Indices: 1203017--1203085 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
1203007 CCCCTACATA
1203017 TCATGATGGTCCCTCAAGCTTT
1 TCATGATGGTCCCTCAAGCTTT
* * * * * *
1203039 TCATCAAGGAACCC-CTA-CATA
1 TCATGATGG-TCCCTCAAGCTTT
1203060 TCATGATGGTCCCTCAAGCTTT
1 TCATGATGGTCCCTCAAGCTTT
1203082 TCAT
1 TCAT
1203086 CAAGAAACCC
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
20 3 0.09
21 11 0.34
22 15 0.47
23 3 0.09
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (22 bp):
TCATGATGGTCCCTCAAGCTTT
Found at i:1203063 original size:21 final size:21
Alignment explanation
Indices: 1202996--1203063 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
1202986 ATCAAATTTT
1202996 TCATCAAGGAACCCCTACATA
1 TCATCAAGGAACCCCTACATA
* * * * * *
1203017 TCATGATGG-TCCCTCAAGCTTT
1 TCATCAAGGAACCC-CTA-CATA
1203039 TCATCAAGGAACCCCTACATA
1 TCATCAAGGAACCCCTACATA
1203060 TCAT
1 TCAT
1203064 GATGGTCCCT
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
20 3 0.09
21 15 0.47
22 11 0.34
23 3 0.09
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (21 bp):
TCATCAAGGAACCCCTACATA
Found at i:1203077 original size:141 final size:140
Alignment explanation
Indices: 1202901--1203367 Score: 539
Period size: 141 Copynumber: 3.4 Consensus size: 140
1202891 AAATTTGTCT
1202901 TCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
1 TCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
*
1202966 GATGGTTTCTCAAGCTTGTCATCAAATTTTTCATCAAGGAACCCCTACATATCATGATGGTCCCT
66 GATGGTTTCTCAAGCTTGTC-TCAAATTTTTCATCAAGGAACCCCTACATATCACGATGGTCCCT
1203031 CAAGCTTTTCA
130 CAAGCTTTTCA
*
1203042 TCAAGGAACCCCTACATATCATGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
1 TCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
*
1203107 GATGGTTTCTCAAGCTTGTC-C------TT-A--AA-GAACCCCTACATATCACGATGGTCCTTC
66 GATGGTTTCTCAAGCTTGTCTCAAATTTTTCATCAAGGAACCCCTACATATCACGATGGTCCCTC
1203161 AAGCTTGTCATCAAA
131 AAGCTT-T--TC--A
* *
1203176 TTTGTCATTAAGGAACCACTACATATCACGACGGTCCCTCAAGCTTTTCATCAAGAAACCCCTAC
1 ----TC---AAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTAC
* * *
1203241 ATATCACGAT-G--------G-TT-TCTCAAATTTGTCATCAAGGAACCCCAACATATCACGACG
59 ATATCACGATGGTTTCTCAAGCTTGTCTCAAATTTTTCATCAAGGAACCCCTACATATCACGATG
*
1203295 CTCCCTCAAGCTTTTCA
124 GTCCCTCAAGCTTTTCA
** *
1203312 TCAA-GAATCCCCTACATATCACGATGGTTTCTCAAGCTTTTCTTCAAGAAACCCCT
1 TCAAGGAA-CCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCT
1203368 GAAAATCAGG
Statistics
Matches: 286, Mismatches: 16, Indels: 60
0.79 0.04 0.17
Matches are distributed among these distances:
128 3 0.01
129 77 0.27
130 5 0.02
131 3 0.01
132 6 0.02
133 2 0.01
134 1 0.00
136 1 0.00
137 1 0.00
138 5 0.02
139 1 0.00
140 4 0.01
141 177 0.62
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (140 bp):
TCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
GATGGTTTCTCAAGCTTGTCTCAAATTTTTCATCAAGGAACCCCTACATATCACGATGGTCCCTC
AAGCTTTTCA
Found at i:1203216 original size:184 final size:183
Alignment explanation
Indices: 1202889--1203350 Score: 667
Period size: 184 Copynumber: 2.5 Consensus size: 183
1202879 CGAGTGTTCA
*
1202889 TCAAATTTGTCTTCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACC
1 TCAAATTTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAG-AACC
* * *
1202954 CCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTTTCATCAAGGAACCCCTACATATC
65 CCTACATATCACGATGGTCTCTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCACTACATATC
* * * *
1203019 ATGATGGTCCCTCAAGCTTTTCATCAAGGAACCCCTACATATCATGATGGTCCC
130 ACGACGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCACGATGGTCCC
* * ** * * *
1203073 TCAAGCTTT-TCATCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCCTTAAAGAAC
1 TCAA-ATTTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTT-TTCATCAAGAAC
*
1203137 CCCTACATATCACGATGGTC-CTTCAAGCTTGTCATCAAATTTGTCATTAAGGAACCACTACATA
64 CCCTACATATCACGATGGTCTC-TCAAGCTTGTCATCAAATTTGTCATCAAGGAACCACTACATA
**
1203201 TCACGACGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCACGATGGTTTC
128 TCACGACGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCACGATGGTCCC
* * *
1203257 TCAAATTTGTCATCAAGGAACCCCAACATATCACGACGCTCCCTCAAGCTTTTCATCAAGAATCC
1 TCAAATTTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAA-CC
*
1203322 CCTACATATCACGATGGTTTCTCAAGCTT
65 CCTACATATCACGATGGTCTCTCAAGCTT
1203351 TTCTTCAAGA
Statistics
Matches: 243, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
183 12 0.05
184 221 0.91
185 10 0.04
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (183 bp):
TCAAATTTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAACCC
CTACATATCACGATGGTCTCTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCACTACATATCA
CGACGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCACGATGGTCCC
Found at i:1203499 original size:36 final size:36
Alignment explanation
Indices: 1203398--1203671 Score: 334
Period size: 36 Copynumber: 7.4 Consensus size: 36
1203388 AAAAATATTG
* * * * *
1203398 TGTTTCTAGTGAAACTATCTCAAGCGAGATAAAATCTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA--TT
* * *
1203436 CTATTTCAAGTGAAATTGTCTCAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* ** *
1203473 TGTTTAAAGGGAAACAATCTCAAGGGAGACAAAATC
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* *
1203509 TGTTTCAATGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
1203545 TGTTTCGAGGGAAACCT-TCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAA-CTGTCTCAAGGGAGACAAAATT
1203581 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1203617 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA---TT
*
1203656 TGTTTCGAGGGAAACT
1 TGTTTCAAGGGAAACT
1203672 ATCTTGAGTG
Statistics
Matches: 206, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
35 2 0.01
36 155 0.75
37 4 0.02
39 45 0.22
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
Found at i:1203590 original size:21 final size:21
Alignment explanation
Indices: 1203564--1203628 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
1203554 GGAAACCTTC
1203564 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
1203585 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
1203600 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
1203621 TCAAGGGA
1 TCAAGGGA
1203629 AACTGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 1 0.03
19 1 0.03
20 5 0.15
21 15 0.44
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:1203690 original size:39 final size:39
Alignment explanation
Indices: 1203389--1203699 Score: 186
Period size: 36 Copynumber: 8.4 Consensus size: 39
1203379 TTAGTTTCTA
* * * * * * *
1203389 AAAATATTGTGTTTCTAGTGAAACTATCTCAAGCGAGAT
1 AAAATGTTTTGTTTCAAGGGAAACTATCTCAAGGGAAAC
* * * * * * *
1203428 AAAATCTTCTATTTCAAGTGAAATTGTCTCAAGGGAGAC
1 AAAATGTTTTGTTTCAAGGGAAACTATCTCAAGGGAAAC
* * *
1203467 AAAA---TTTGTTTAAAGGGAAACAATCTCAAGGGAGAC
1 AAAATGTTTTGTTTCAAGGGAAACTATCTCAAGGGAAAC
* * * * *
1203503 AAAA---TCTGTTTCAATGGAAACTGTCTCAAGAGAGAC
1 AAAATGTTTTGTTTCAAGGGAAACTATCTCAAGGGAAAC
* *
1203539 AAAA---TTTGTTTCGAGGGAAACCT-TCTCAAGGGAGAC
1 AAAATGTTTTGTTTCAAGGGAAA-CTATCTCAAGGGAAAC
* *
1203575 AAAA---TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
1 AAAATGTTTTGTTTCAAGGGAAACTATCTCAAGGGAAAC
* *
1203611 AAAA---TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
1 AAAATGTTTTGTTTCAAGGGAAACTATCTCAAGGGAAAC
* * ** * *
1203647 AAAATTTTTTGTTTCGAGGGAAACTATCTTGAGTGAAAT
1 AAAATGTTTTGTTTCAAGGGAAACTATCTCAAGGGAAAC
*
1203686 AAAATGTCTTGTTT
1 AAAATGTTTTGTTT
1203700 AAAATAAAAC
Statistics
Matches: 232, Mismatches: 35, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
35 2 0.01
36 156 0.67
37 2 0.01
39 72 0.31
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (39 bp):
AAAATGTTTTGTTTCAAGGGAAACTATCTCAAGGGAAAC
Found at i:1204014 original size:34 final size:34
Alignment explanation
Indices: 1203974--1204098 Score: 196
Period size: 34 Copynumber: 3.7 Consensus size: 34
1203964 TCTCAGAGAA
**
1203974 AAATTGTCTCAAGCGAGACGGAATTTGTTTTGAG
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTGAG
1204008 AAATTGTCTCAAGCGAGACAAAATTTGTTTTGAG
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTGAG
* *
1204042 AAAGTGTCTCAAGTGAGACAAAATTTGTTTTGAG
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTGAG
* *
1204076 AAATTATCTCAAGTGAGACAAAA
1 AAATTGTCTCAAGCGAGACAAAA
1204099 AAACTTTTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 85 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (34 bp):
AAATTGTCTCAAGCGAGACAAAATTTGTTTTGAG
Found at i:1204266 original size:33 final size:32
Alignment explanation
Indices: 1204206--1204340 Score: 216
Period size: 32 Copynumber: 4.2 Consensus size: 32
1204196 AGGATATTGA
* * *
1204206 ATGCCCCAATATTCGATATTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
*
1204238 ATGCCCCAATATTTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACA-TTTGATGTTGAATCTCCAAAG
1204271 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
*
1204303 ATGCCCCAACATTTGATGTTGAATCTTCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
1204335 ATGCCC
1 ATGCCC
1204341 TCTATTGCTT
Statistics
Matches: 98, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
32 69 0.70
33 29 0.30
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCCAAAG
Found at i:1204310 original size:65 final size:64
Alignment explanation
Indices: 1204206--1204340 Score: 216
Period size: 65 Copynumber: 2.1 Consensus size: 64
1204196 AGGATATTGA
* *
1204206 ATGCCCCAATATTCGATATTGAATCTCCAAAGATGCCCCAATATTTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTCGATATTGAATCTCCAAAGATGCCCCAACA-TTTGATGTTGAATCTCCAAAG
* * *
1204271 ATGCCCCAACATTTGATGTTGAATCTCCAAAGATGCCCCAACATTTGATGTTGAATCTTCAAAG
1 ATGCCCCAACATTCGATATTGAATCTCCAAAGATGCCCCAACATTTGATGTTGAATCTCCAAAG
1204335 ATGCCC
1 ATGCCC
1204341 TCTATTGCTT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
64 26 0.40
65 39 0.60
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (64 bp):
ATGCCCCAACATTCGATATTGAATCTCCAAAGATGCCCCAACATTTGATGTTGAATCTCCAAAG
Found at i:1204489 original size:14 final size:14
Alignment explanation
Indices: 1204470--1204499 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1204460 TTTCAAAAGT
1204470 TTTGAAAATATCAA
1 TTTGAAAATATCAA
1204484 TTTGAAAATATCAA
1 TTTGAAAATATCAA
1204498 TT
1 TT
1204500 AGAAGAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
TTTGAAAATATCAA
Found at i:1205400 original size:21 final size:21
Alignment explanation
Indices: 1205374--1205413 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1205364 TTCTCGTCCC
1205374 TTTTTCTTTACTTTTTTTTCT
1 TTTTTCTTTACTTTTTTTTCT
*
1205395 TTTTTCTTTGCTTTTTTTT
1 TTTTTCTTTACTTTTTTTT
1205414 GCTCTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTTTCTTTACTTTTTTTTCT
Found at i:1210994 original size:2 final size:2
Alignment explanation
Indices: 1210987--1211023 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1210977 AGACAAACAA
1210987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1211024 ACAGTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1212549 original size:17 final size:17
Alignment explanation
Indices: 1212529--1212564 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1212519 TAAAATATTC
1212529 ATAGTAATAATAATAAT
1 ATAGTAATAATAATAAT
*
1212546 ATAGTAGTAATAATAAT
1 ATAGTAATAATAATAAT
1212563 AT
1 AT
1212565 TATTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (17 bp):
ATAGTAATAATAATAAT
Found at i:1213797 original size:22 final size:23
Alignment explanation
Indices: 1213760--1213805 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
1213750 TATAATTTTA
*
1213760 AAAATATAAAAAATATTTTTAAT
1 AAAATATAAAAAATATTTTAAAT
*
1213783 AAAATAT-TAAAATATTTTAAAT
1 AAAATATAAAAAATATTTTAAAT
1213805 A
1 A
1213806 TCAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATATAAAAAATATTTTAAAT
Found at i:1219755 original size:2 final size:2
Alignment explanation
Indices: 1219748--1219859 Score: 197
Period size: 2 Copynumber: 56.0 Consensus size: 2
1219738 AGGAGCATAC
* *
1219748 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1219790 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1219832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1219860 GTATTATTAT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 104 1.00
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1221099 original size:27 final size:27
Alignment explanation
Indices: 1221069--1221131 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
1221059 TTTAATTTTT
1221069 TTATTTTTTA-TATTACATTTATATATA
1 TTATTTTTTATTATTA-ATTTATATATA
*
1221096 TTATTTTCCTTATTATTATTTTATATATA
1 TTATTTT--TTATTATTAATTTATATATA
1221125 TT-TTTTT
1 TTATTTTT
1221132 CCTTCCTTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 1 0.03
27 7 0.22
28 4 0.12
29 15 0.47
30 5 0.16
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (27 bp):
TTATTTTTTATTATTAATTTATATATA
Found at i:1221336 original size:18 final size:17
Alignment explanation
Indices: 1221309--1221391 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 17
1221299 TATATATACA
*
1221309 TTATTTTTATTCTTATT
1 TTATTCTTATTCTTATT
1221326 CTTATTCTTATT-TTATT
1 -TTATTCTTATTCTTATT
* *
1221343 TTACTTTTTACTTTTTACTT
1 TTA-TTCTTA-TTCTTA-TT
* * *
1221363 TTAATTTTTATTTTTTTT
1 TT-ATTCTTATTCTTATT
*
1221381 TTATTTTTATT
1 TTATTCTTATT
1221392 TTGTTTCTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
16 3 0.05
17 19 0.33
18 16 0.28
19 8 0.14
20 10 0.18
21 1 0.02
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTCTTATTCTTATT
Found at i:1221375 original size:6 final size:6
Alignment explanation
Indices: 1221309--1221393 Score: 86
Period size: 6 Copynumber: 14.2 Consensus size: 6
1221299 TATATATACA
* * *
1221309 TTATTT TTATTC TTATTC TTATTC TTA-TT TTA-TT TTACTTT TTACTTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTA-TTT TTA-TTT
*
1221357 TTACTTT TAATTT TTATTT TT-TTT TTATTT TTATTT T
1 TTA-TTT TTATTT TTATTT TTATTT TTATTT TTATTT T
1221394 GTTTCTGTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
5 14 0.19
6 40 0.56
7 18 0.25
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:1221404 original size:17 final size:18
Alignment explanation
Indices: 1221367--1221410 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
1221357 TTACTTTTAA
* *
1221367 TTTTTATTTTTTTTTTA-
1 TTTTTATTTTGTTTCTAT
*
1221384 TTTTTATTTTGTTTCTGT
1 TTTTTATTTTGTTTCTAT
1221402 TTTTTATTT
1 TTTTTATTT
1221411 AATTCCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (18 bp):
TTTTTATTTTGTTTCTAT
Found at i:1221534 original size:18 final size:18
Alignment explanation
Indices: 1221513--1221581 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 18
1221503 TTTATCTTGT
1221513 TTTATTCTT-TTATTTTTA
1 TTTATT-TTATTATTTTTA
*
1221531 TTTATTTTATTATTTTTCC
1 TTTATTTTATTATTTTT-A
*
1221550 TTT-TTTTGTT-TTGTTTA
1 TTTATTTTATTATT-TTTA
1221567 -TTATTTTGATTATTT
1 TTTATTTT-ATTATTT
1221582 ATGCATTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
16 2 0.05
17 8 0.20
18 26 0.63
19 5 0.12
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTATTTTATTATTTTTA
Found at i:1227046 original size:21 final size:20
Alignment explanation
Indices: 1227018--1227061 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1227008 GATTTTTGGG
* *
1227018 CAAGGGAATCGGTACCCATT
1 CAAGGGAACCGATACCCATT
*
1227038 CAAGAGGAACCGATACCCCTT
1 CAAG-GGAACCGATACCCATT
1227059 CAA
1 CAA
1227062 ACGAACAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.16
Consensus pattern (20 bp):
CAAGGGAACCGATACCCATT
Found at i:1227666 original size:18 final size:18
Alignment explanation
Indices: 1227643--1227677 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1227633 CTAGGAGATT
1227643 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
1227661 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
1227678 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:1227774 original size:22 final size:21
Alignment explanation
Indices: 1227734--1227777 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
1227724 GTTGTATGAT
1227734 AGAAATTTATGAAGTTATATG
1 AGAAATTTATGAAGTTATATG
1227755 AGAAGATTATATG-AGTTATATG
1 AGAA-ATT-TATGAAGTTATATG
1227777 A
1 A
1227778 AATTGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 13 0.62
23 4 0.19
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.36
Consensus pattern (21 bp):
AGAAATTTATGAAGTTATATG
Found at i:1228839 original size:149 final size:150
Alignment explanation
Indices: 1228565--1228883 Score: 500
Period size: 149 Copynumber: 2.1 Consensus size: 150
1228555 GAGTCGAGGG
* **
1228565 TCTACGCGGTCCTTCGGGATATATATATATATATTCTTTGGAACATGTGTGAAGTATGGTGAGAC
1 TCTACGCGGTCCTTCGGG--A-ATATATATATATTCTGTGGAACATGTGTGAAGTATGGAAAGAC
1228630 ACATATATGATCCCTAGCATATGTATATAATTCTTAAGGAATTCTATGTGGTCCTTATGGACATC
63 ACATATATGATCCCTAGCATATGTATATAATTCTTAAGGAATTCTATGTGGTCCTTATGGACATC
1228695 ATTATATGGCACTACGGTGCAAT
128 ATTATATGGCACTACGGTGCAAT
* *
1228718 TCTACGCGGTCCTTCGGG-ATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACA
1 TCTACGCGGTCCTTCGGGAATATATATATATTCTGTGGAACATGTGTGAAGTATGGAAAGACACA
* *
1228782 TACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTAT
66 TA-TATGATCCCTAGCATATGTATATAATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCAT
*
1228846 TATATGGCACTACGGTGTAAT
130 TATATGGCACTACGGTGCAAT
1228867 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1228884 TGCAATTATA
Statistics
Matches: 156, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
148 1 0.01
149 136 0.87
150 1 0.01
153 18 0.12
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGAATATATATATATTCTGTGGAACATGTGTGAAGTATGGAAAGACACA
TATATGATCCCTAGCATATGTATATAATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:1228884 original size:23 final size:23
Alignment explanation
Indices: 1228851--1228895 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1228841 ATTATTATAT
* *
1228851 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
1228874 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
1228896 AGCTGTGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1232816 original size:18 final size:18
Alignment explanation
Indices: 1232793--1232827 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1232783 CTAGGAGATT
1232793 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
1232811 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
1232828 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:1233888 original size:147 final size:147
Alignment explanation
Indices: 1233697--1233998 Score: 491
Period size: 149 Copynumber: 2.1 Consensus size: 147
1233687 GAGTCGAGGG
* * ** *
1233697 TCTACGCGGTCCTTCGGGATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACATATA-
1 TCTACGCGGTCCTTAGGGATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACATAC
1233761 T-GATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATA
66 TGGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATA
1233825 TGGCACTACGGTGCAAT
131 TGGCACTACGGTGCAAT
* *
1233842 TCTACGCGGTCCTTTAGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCC-TTAGG-GATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
* *
1233907 ACTGGATCCCTAGGATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
64 ACTGGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
1233972 TATGGCACTACGGTGCAAT
129 TATGGCACTACGGTGCAAT
1233991 TCTACGCG
1 TCTACGCG
1233999 ACACTTCGGT
Statistics
Matches: 144, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
145 12 0.08
146 4 0.03
147 41 0.28
148 1 0.01
149 86 0.60
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (147 bp):
TCTACGCGGTCCTTAGGGATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACATAC
TGGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATA
TGGCACTACGGTGCAAT
Found at i:1234512 original size:22 final size:22
Alignment explanation
Indices: 1234471--1234512 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1234461 ATGTGAAATT
**
1234471 TGTCCCGAAGGACCTTTGTATA
1 TGTCCCGAAGGACCAATGTATA
1234493 TGTCCCGAAGGACCAATGTA
1 TGTCCCGAAGGACCAATGTA
1234513 ACCCTCGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
TGTCCCGAAGGACCAATGTATA
Found at i:1236884 original size:188 final size:192
Alignment explanation
Indices: 1236534--1236915 Score: 727
Period size: 189 Copynumber: 2.0 Consensus size: 192
1236524 GCTTGTCGAC
1236534 ACATACTTCAATGTTGGCACTATTATTGAACTCAGAAGCACACCGAGAGACACTATTGAAGGTCT
1 ACATACTTCAATGTTGGCACTATTATTGAACTCAGAAG-ACACCGAGAGACACTATTGAAGGTCT
1236599 TGAATCAGACGTTCGTGCCATAAAACATACCAGTCAGCAAGATGGATTGACTGGTAAACAACATT
65 TGAATCAGACGTTCGTGCCATAAAACATACCAGTCAGCAAGATGGATTGACTGGTAAACAACATT
1236664 CAAGCCGATAATCTCATGTTATTTTCAGATGATGAGATT-CATCTGAAAGGAGAGGCCGAACT
130 CAAGCCGATAATCTCATGTTATTTTCAGATGATGAGATTCCATCTGAAAGGAGAGGCCGAACT
1236726 ACATACTTCAATGTTGGCACTATT-TTGAACTCAGAAG-CACCGAGAGACACTATTGAAGGTCTT
1 ACATACTTCAATGTTGGCACTATTATTGAACTCAGAAGACACCGAGAGACACTATTGAAGGTCTT
1236789 GAATCAGACGTTCGTGCCATAAAACATACCAGTCA-CAAGATGGATTGACTGGTAAACAACATTC
66 GAATCAGACGTTCGTGCCATAAAACATACCAGTCAGCAAGATGGATTGACTGGTAAACAACATTC
1236853 AAGCCGATAATCTCATGTTATTTTCAGATGATGAGATTCCATCTGAAAGGAGAGGCCGAACT
131 AAGCCGATAATCTCATGTTATTTTCAGATGATGAGATTCCATCTGAAAGGAGAGGCCGAACT
1236915 A
1 A
1236916 AGGCGTTACA
Statistics
Matches: 189, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
188 67 0.35
189 85 0.45
191 13 0.07
192 24 0.13
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (192 bp):
ACATACTTCAATGTTGGCACTATTATTGAACTCAGAAGACACCGAGAGACACTATTGAAGGTCTT
GAATCAGACGTTCGTGCCATAAAACATACCAGTCAGCAAGATGGATTGACTGGTAAACAACATTC
AAGCCGATAATCTCATGTTATTTTCAGATGATGAGATTCCATCTGAAAGGAGAGGCCGAACT
Found at i:1241767 original size:6 final size:6
Alignment explanation
Indices: 1241709--1241761 Score: 97
Period size: 6 Copynumber: 8.7 Consensus size: 6
1241699 TTAAATTGAA
1241709 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAGAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA-AG
1241758 AAAA
1 AAAA
1241762 TAAAAAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 40 0.87
7 6 0.13
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1242675 original size:65 final size:65
Alignment explanation
Indices: 1242606--1242783 Score: 213
Period size: 65 Copynumber: 2.8 Consensus size: 65
1242596 AACTTACAAG
* *
1242606 AGATTAGATTTCAACTTCACAACGAAGGATATCTAACTCAAAGCGAATTCAGTGAAACTTACTCA
1 AGATTAGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTCAGTGAAACTTACTCA
** *
1242671 AGATTAGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAAC--AAT--
1 AGATTAGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTCAGTGAAACTTACTCA
* * * * *
1242732 A-CTTGGATTTCAACTTCACAACCAATGATATTCAACTCAAAGCTCAACTTCA
1 AGATTAGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC-CAA-TTCA
1242784 CGACGAAGGA
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
60 37 0.37
61 4 0.04
62 2 0.02
63 2 0.02
65 54 0.55
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (65 bp):
AGATTAGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTCAGTGAAACTTACTCA
Found at i:1243591 original size:2 final size:2
Alignment explanation
Indices: 1243584--1243636 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
1243574 AATTAGGAGC
1243584 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1243625 -T AT A- AT AT AT AT
1 AT AT AT AT AT AT AT
1243637 GTATTATTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1244844 original size:2 final size:2
Alignment explanation
Indices: 1244837--1244869 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1244827 TTATTATTAT
1244837 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1244870 TTCCTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1244910 original size:2 final size:2
Alignment explanation
Indices: 1244903--1244935 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1244893 ATTTTAACAT
1244903 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1244936 CATCTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1245061 original size:6 final size:6
Alignment explanation
Indices: 1245052--1245133 Score: 67
Period size: 6 Copynumber: 13.3 Consensus size: 6
1245042 TATATATATA
* * *
1245052 TTATTT TTATTT TTATTT TTATTT TTACTT TTACTT TTACTT TTACTTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTA-TTT
* * * *
1245101 TT-TTT CTTTTGTT TTATTG TTGTTT CTATTT TT
1 TTATTT -TTAT-TT TTATTT TTATTT TTATTT TT
1245134 TTAATTTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
5 3 0.05
6 50 0.79
7 8 0.13
8 2 0.03
ACGTcount: A:0.12, C:0.07, G:0.04, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:1247703 original size:20 final size:20
Alignment explanation
Indices: 1247678--1247718 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1247668 ACCACGTGAC
1247678 ATTAATTAAAGAATATTTTA
1 ATTAATTAAAGAATATTTTA
1247698 ATTAATTAAAGAATATTTTA
1 ATTAATTAAAGAATATTTTA
1247718 A
1 A
1247719 GTACTTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
ATTAATTAAAGAATATTTTA
Found at i:1248305 original size:16 final size:15
Alignment explanation
Indices: 1248280--1248310 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1248270 GTTTTTATTT
1248280 TTTTATAATTTATAA
1 TTTTATAATTTATAA
1248295 TTTTATCAATTTATAA
1 TTTTAT-AATTTATAA
1248311 CTTATGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTATAATTTATAA
Found at i:1248368 original size:14 final size:14
Alignment explanation
Indices: 1248349--1248376 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1248339 TCTAATAATA
1248349 ATTTTAGTATTTTT
1 ATTTTAGTATTTTT
1248363 ATTTTAGTATTTTT
1 ATTTTAGTATTTTT
1248377 TTGAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
ATTTTAGTATTTTT
Found at i:1248392 original size:6 final size:6
Alignment explanation
Indices: 1248381--1248405 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1248371 ATTTTTTTGA
1248381 ATATTT ATATTT ATATTT ATATTT A
1 ATATTT ATATTT ATATTT ATATTT A
1248406 AAATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:1251463 original size:21 final size:22
Alignment explanation
Indices: 1251438--1251486 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
1251428 AATATGCATA
*
1251438 AAAATTTC-TTTTAAAAATA-TT
1 AAAATTTCAGTTTAAAAA-ACTT
1251459 AAAA-TTCAGTTTAAAAAACTT
1 AAAATTTCAGTTTAAAAAACTT
1251480 AAAATTT
1 AAAATTT
1251487 TATAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 18 0.75
22 2 0.08
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATTTCAGTTTAAAAAACTT
Found at i:1260661 original size:31 final size:31
Alignment explanation
Indices: 1260617--1260675 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
1260607 TATGTGAATA
*
1260617 TGTTATATATGAATGTGTTCTACGTGGAAAT
1 TGTTATATATGAATGTGTGCTACGTGGAAAT
* * *
1260648 TGTTCTATGTGAATGTGTGCTATGTGGA
1 TGTTATATATGAATGTGTGCTACGTGGA
1260676 TAAAAGATGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.42
Consensus pattern (31 bp):
TGTTATATATGAATGTGTGCTACGTGGAAAT
Found at i:1260672 original size:15 final size:15
Alignment explanation
Indices: 1260607--1260673 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
1260597 ATTGTATTAG
* *
1260607 TATGTGAATATGTTA
1 TATGTGAATGTGTTC
*
1260622 TATATGAATGTGTTC
1 TATGTGAATGTGTTC
*
1260637 TACGTGGAAAT-TGTTC
1 TATGT-G-AATGTGTTC
*
1260653 TATGTGAATGTGTGC
1 TATGTGAATGTGTTC
1260668 TATGTG
1 TATGTG
1260674 GATAAAAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 3 0.07
15 26 0.62
16 10 0.24
17 3 0.07
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.43
Consensus pattern (15 bp):
TATGTGAATGTGTTC
Found at i:1260814 original size:24 final size:24
Alignment explanation
Indices: 1260779--1260851 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
1260769 GAGTCGAGGG
* *
1260779 TTCTACGCGGTCCTTCAGGACATA
1 TTCTACGCGGTCCTTCGGGACAAA
*
1260803 TTCTACGTGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
*
1260827 TTCTACGCGGTTCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
1260851 T
1 T
1260852 CTATGTGACA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAA
Done.