Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 84 of 230
Found at i:23328081 original size:23 final size:23
Alignment explanation
Indices: 23327786--23328088 Score: 200
Period size: 23 Copynumber: 13.3 Consensus size: 23
23327776 AATGGAAAGT
* *
23327786 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTGC
*
23327809 AGCGA-TAAAACA-TCTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTGC
23327832 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
23327855 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
**
23327878 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
23327901 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
* *
23327923 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTGC
*
23327946 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
**
23327969 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
23327992 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
* *
23328014 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTGC
*
23328037 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
23328060 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
*
23328083 AACACT
1 AGCACT
23328089 ATCAAATTTC
Statistics
Matches: 219, Mismatches: 40, Indels: 42
0.73 0.13 0.14
Matches are distributed among these distances:
22 37 0.17
23 178 0.81
24 4 0.02
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.29
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTGC
Found at i:23328086 original size:91 final size:91
Alignment explanation
Indices: 23327846--23328079 Score: 418
Period size: 91 Copynumber: 2.6 Consensus size: 91
23327836 ACTAAACACT
* *
23327846 TCAATTTGCAGC-ACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTAT
1 TCAATTTCCAGCAAC-TAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTAT
23327910 ACACCTCAATTACAGCGATAAAACATC
65 ACACCTCAATTACAGCGATAAAACATC
23327937 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
1 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
23328002 CACCTCAATTACAGCGATAAAACATC
66 CACCTCAATTACAGCGATAAAACATC
23328028 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACT-TCAATT
1 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACA-TATCAATT
23328080 TGCAACACTA
Statistics
Matches: 139, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
91 136 0.98
92 3 0.02
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.29
Consensus pattern (91 bp):
TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
CACCTCAATTACAGCGATAAAACATC
Found at i:23328506 original size:41 final size:39
Alignment explanation
Indices: 23328423--23328506 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
23328413 GCACAATACA
* * **
23328423 ATATAAAAAGCATATATAAGTATATGAATGTAGAGGCAT
1 ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
*
23328462 ATATAAAAAGCATATATAAATATATGTATGTCACAGAAACT
1 ATATAAAAAGCATATATAAATATATGAATGT-ACAGAAA-T
23328503 ATAT
1 ATAT
23328507 TCATTTATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 29 0.76
40 4 0.11
41 5 0.13
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (39 bp):
ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
Found at i:23330605 original size:146 final size:146
Alignment explanation
Indices: 23330494--23331030 Score: 891
Period size: 146 Copynumber: 3.7 Consensus size: 146
23330484 TGTTTTCATA
* * * * * *
23330494 AAAACGCAGCAAATTTTTTTCATTTTGAATAAAACGACGCTGTTTTACTATTCT-AATTTTTTTT
1 AAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTA
* *
23330558 TATTTTTTAATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAACGTCGCTATTGCTTACCT
66 T-TTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGTCGCTATTGCTTACCT
23330623 TTAGCGGCGCTTCTTAT
130 TTAGCGGCGCTTCTTAT
* *
23330640 AAAACGCCGCAAAATTTTTTTATTTCGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTT
1 AAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAA-TTTTTTT
* *
23330705 ATTTTTTT-ATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAATGCCGCTATTGCTTACCT
65 ATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGTCGCTATTGCTTACCT
23330769 TTAGCGGCGCTTCTTAT
130 TTAGCGGCGCTTCTTAT
* *
23330786 AAAAAGCCGCAAAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTA
1 AAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTA
23330851 TTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACG-CTGCTATTGCTTACCT
66 TTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGTC-GCTATTGCTTACCT
23330915 TTAGCGGCGCTTCTTAT
130 TTAGCGGCGCTTCTTAT
23330932 AAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTA
1 AAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTA
*
23330997 TTTTTTTAATAAACTGATTTATTCTTTGCGGCGT
66 TTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
23331031 AAACGCCGCT
Statistics
Matches: 367, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
145 16 0.04
146 335 0.91
147 8 0.02
148 8 0.02
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (146 bp):
AAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTA
TTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGTCGCTATTGCTTACCTT
TAGCGGCGCTTCTTAT
Found at i:23331062 original size:32 final size:32
Alignment explanation
Indices: 23331021--23331085 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
23331011 TGATTTATTC
23331021 TTTGCGGCGTAAACGCCGCTATTGCTTACCTT
1 TTTGCGGCGTAAACGCCGCTATTGCTTACCTT
23331053 TTTGCGGCGTAAACGCCGCTATTGCTTACCTT
1 TTTGCGGCGTAAACGCCGCTATTGCTTACCTT
23331085 T
1 T
23331086 AGCAGCGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.15, C:0.28, G:0.22, T:0.35
Consensus pattern (32 bp):
TTTGCGGCGTAAACGCCGCTATTGCTTACCTT
Found at i:23331186 original size:169 final size:169
Alignment explanation
Indices: 23330894--23331222 Score: 577
Period size: 169 Copynumber: 1.9 Consensus size: 169
23330884 TTTTTATAGA
* *
23330894 AAACGCTGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTG
1 AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTG
** *
23330959 AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTATTTTTTTAATAAACTGATTTATTCTTT
66 AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAACTGATTTATTCTTT
*
23331024 GCGGCGTAAACGCCGCTATTGCTTACCTTTTTGCGGCGT
131 GCGGCGTAAACGCCACTATTGCTTACCTTTTTGCGGCGT
23331063 AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTG
1 AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTG
* *
23331128 AACAAAACGGCGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAATTGATTTATTCTTT
66 AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAACTGATTTATTCTTT
*
23331193 GCGGCGTAAACGCCACTATTGTTTACCTTT
131 GCGGCGTAAACGCCACTATTGCTTACCTTT
23331223 AGCGGCGCTT
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
169 151 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (169 bp):
AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTG
AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTAAATTTTTTAAATAAACTGATTTATTCTTT
GCGGCGTAAACGCCACTATTGCTTACCTTTTTGCGGCGT
Found at i:23331299 original size:137 final size:137
Alignment explanation
Indices: 23331053--23331603 Score: 750
Period size: 137 Copynumber: 4.0 Consensus size: 137
23331043 TGCTTACCTT
*
23331053 TTTGCGGCGTAAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTT
1 TTTGCGGCGTAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
* **
23331118 TTTCATTTTGAACAAAACGGCGCCGTTTTGCTATTCT-AAATTTTTAAATTTTTTAAATAAATTG
66 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTT-AATAAATTG
23331182 ATTTATTC
130 ATTTATTC
* *
23331190 TTTGCGGCGTAAACGCCACTATTGTTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
1 TTTGCGGCGTAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
* * * *
23331255 TTTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTTATTTTTTTATAAATTGA
66 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTAATAAATTGA
23331320 TTTATTC
131 TTTATTC
*
23331327 TTTGTGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCC
1 TTTGCGGCG------T---AAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCC
* * * *
23331392 ACAAATTTTTTTCATTTTGAACAAAACGACGCTGTTTTGCTATTCTAAAATTTTTTTATTTTTTT
57 GCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTA
23331457 ATAAATTGATTTA---
122 ATAAATTGATTTATTC
* *
23331470 ---------AAAATGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
1 TTTGCGGCGTAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
*
23331526 TTTCATTTTGAACAAAACGACGTCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTG
66 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTA-TTTTTTAATAAATTG
23331591 ATTTATTC
130 ATTTATTC
23331599 TTTGC
1 TTTGC
23331604 AACGTTTTTA
Statistics
Matches: 369, Mismatches: 26, Indels: 41
0.85 0.06 0.09
Matches are distributed among these distances:
125 99 0.27
126 19 0.05
137 120 0.33
138 14 0.04
143 1 0.00
146 116 0.31
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (137 bp):
TTTGCGGCGTAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTAATAAATTGA
TTTATTC
Found at i:23331350 original size:452 final size:454
Alignment explanation
Indices: 23330602--23331469 Score: 1422
Period size: 452 Copynumber: 1.9 Consensus size: 454
23330592 TTTTTATAGA
* * *
23330602 AAACGTCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTTATTTCG
1 AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTCG
** *
23330667 AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTATAAATTGATTTATTCTTT
66 AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTAAATTTTTTAATAAATTGATTTATTCTTT
* *
23330732 GCGGCGTTTTTATAGAAAATGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCA
131 GCGGCG----T-T--AAAACGCCACTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCA
* *
23330797 AAAGTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTATTTTTTTAATA
189 AAAGTTTTTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTATTTTTTTAATA
*
23330862 AATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCTGCTATTGCTTACCTTTAGCGGCGCTT
254 AATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTT
*
23330927 CTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AAATT
319 CTTATAAAACGCCACAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATT
23330991 TTTTTATTTTTTTAATAAACTGATTTATTCTTTGCGGCGTAAACGCCGCTATTGCTTACCTTTTT
384 TTTTTATTTTTTT-ATAAACTGATTTATTCTTTGCGGCGTAAACGCCGCTATTGCTTACCTTTTT
23331056 GCGGCGT
448 GCGGCGT
*
23331063 AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTG
1 AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTCG
*
23331128 AACAAAACGGCGCCGTTTTGCTATTCTAAA-TTTTTAAATTTTTTAAATAAATTGATTTATTCTT
66 AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTAAATTTTTT-AATAAATTGATTTATTCTT
* * *
23331192 TGCGGCG-T-AAACGCCACTATTGTTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTT
130 TGCGGCGTTAAAACGCCACTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCAAAAGTT
23331255 TTTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTTATTTTTTT-ATAAATTG
195 TTTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAA-TTTTTTTATTTTTTTAATAAATTG
*
23331319 ATTTATTCTTTGTGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTAT
259 ATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTAT
* *
23331384 AAAACGCCACAAATTTTTTTCATTTTGAACAAAACGACGCTGTTTTGCTATTCTAAAATTTTTTT
324 AAAACGCCACAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTT
*
23331449 ATTTTTTTATAAATTGATTTA
389 ATTTTTTTATAAACTGATTTA
23331470 AAAATGCCGC
Statistics
Matches: 383, Mismatches: 21, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
452 222 0.58
453 33 0.09
455 1 0.00
460 12 0.03
461 115 0.30
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (454 bp):
AAACGCCGCTATTGCTTACCTTTAGCAGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTCG
AACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTAAATTTTTTAATAAATTGATTTATTCTTT
GCGGCGTTAAAACGCCACTATTGCTTACCTTTAGCGGCGCTTCTTATAAAAAGCCGCAAAAGTTT
TTCATTTCGAACAAAACGACGCCATTTTGCTATTCTAAATTTTTTTATTTTTTTAATAAATTGAT
TTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAA
AACGCCACAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTAT
TTTTTTATAAACTGATTTATTCTTTGCGGCGTAAACGCCGCTATTGCTTACCTTTTTGCGGCGT
Found at i:23331502 original size:125 final size:126
Alignment explanation
Indices: 23331345--23331595 Score: 452
Period size: 125 Copynumber: 2.0 Consensus size: 126
23331335 GTTTTTATAG
*
23331345 AAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCACAAATTTTTTTCATTTT
1 AAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCACAAAATTTTTTCATTTT
23331410 GAACAAAACGACG-CTGTTTTGCTATTCTAAAATTTTTTTATTTTTTT-ATAAATTGATTTA
66 GAACAAAACGACGTC-GTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTA
* *
23331470 AAAATGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTT
1 AAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCACAAAATTTTTTCATTTT
23331535 GAACAAAACGACGTCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTA
66 GAACAAAACGACGTCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTA
23331596 TTCTTTGCAA
Statistics
Matches: 121, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
125 107 0.88
126 14 0.12
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (126 bp):
AAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCACAAAATTTTTTCATTTT
GAACAAAACGACGTCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTA
Found at i:23331942 original size:7 final size:7
Alignment explanation
Indices: 23331922--23331970 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
23331912 AACCTTAAAT
23331922 CCCTAAC
1 CCCTAAC
* *
23331929 TCTTAAC
1 CCCTAAC
23331936 CCCTAAC
1 CCCTAAC
**
23331943 ATCTAAC
1 CCCTAAC
23331950 CCCTAAAC
1 CCCT-AAC
23331958 CCCTAAC
1 CCCTAAC
23331965 CCCTAA
1 CCCTAA
23331971 ACTTTAAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:23331965 original size:15 final size:15
Alignment explanation
Indices: 23331932--23331972 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
23331922 CCCTAACTCT
*
23331932 TAACCCCT-AACATC
1 TAACCCCTAAACACC
*
23331946 TAACCCCTAAACCCC
1 TAACCCCTAAACACC
23331961 TAACCCCTAAAC
1 TAACCCCTAAAC
23331973 TTTAAATCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (15 bp):
TAACCCCTAAACACC
Found at i:23332035 original size:15 final size:15
Alignment explanation
Indices: 23331989--23332026 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
23331979 TCTCAACACT
23331989 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
23332003 T-AATTCATAATCCC
1 TAAATCCATAATCCC
23332017 TAAATCCATA
1 TAAATCCATA
23332027 CTCCTTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.55
15 7 0.35
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:23332233 original size:22 final size:20
Alignment explanation
Indices: 23332208--23332256 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
23332198 ATCCCGGAAT
* *
23332208 CCCTAACTTTTAATCCATAAAC
1 CCCTAACCTTAAATCC-T-AAC
23332230 CCCTAAACCTTAAATCCTAAC
1 CCCT-AACCTTAAATCCTAAC
23332251 CCCTAA
1 CCCTAA
23332257 TCCATAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 7 0.29
22 5 0.21
23 10 0.42
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (20 bp):
CCCTAACCTTAAATCCTAAC
Found at i:23332269 original size:21 final size:21
Alignment explanation
Indices: 23332218--23332270 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
23332208 CCCTAACTTT
* *
23332218 TAATCCATAAACCCCTAAACCT
1 TAATCCCT-AACCCCTAAACCA
*
23332240 TAAAT-CCTAACCCCTAATCCA
1 T-AATCCCTAACCCCTAAACCA
23332261 TAATCCCTAA
1 TAATCCCTAA
23332271 ACCCATACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 3 0.12
23 3 0.12
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
TAATCCCTAACCCCTAAACCA
Found at i:23332282 original size:15 final size:15
Alignment explanation
Indices: 23332218--23332288 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 15
23332208 CCCTAACTTT
* *
23332218 TAATCCATAAACCCC
1 TAATCCCTAAACCCA
* * *
23332233 TAAACCTTAAATCC-
1 TAATCCCTAAACCCA
* *
23332247 TAACCCCT-AATCCA
1 TAATCCCTAAACCCA
23332261 TAATCCCTAAACCCA
1 TAATCCCTAAACCCA
*
23332276 TACTCCCTAAACC
1 TAATCCCTAAACC
23332289 TTAAAATATG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
13 5 0.11
14 13 0.28
15 28 0.61
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (15 bp):
TAATCCCTAAACCCA
Found at i:23332381 original size:252 final size:257
Alignment explanation
Indices: 23331987--23332613 Score: 989
Period size: 252 Copynumber: 2.4 Consensus size: 257
23331977 AATCTCAACA
* * * *
23331987 CTTAAA-CCATAATCCCTAATTCATAATCCCTAAATCCATACTCCTTAAACCTT-AAATATGAAC
1 CTTAAATCC-TAACCCCTAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAAC
23332050 TCCTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTA
65 TCCTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTA
23332115 TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT-AAAAATAATTAATCTA
130 TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTA
* *
23332179 AACCTAAAACCCTAACTCGATCCCGGAATCCCTAACTTTTAATCC-A-T-A-AACCCCTAAAC
195 AACCCAAAACCCTAACTCGACCCCGGAATCCCTAACTTTTAATCCAACTAACAACCCCTAAAC
23332238 CTTAAATCCTAACCCCTAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACT
1 CTTAAATCCTAACCCCTAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACT
*
23332303 CCTAAACCAGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTAT
66 CCTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTAT
23332368 TATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTAA
131 TATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTAA
*
23332433 ACCCAAAACCCTAACTCGACCCCTGAATCCCTAACTTTTAATCCATAAACCCCTAACCCTCTAAC
196 ACCCAAAACCCTAACTCGACCCCGGAATCCCTAACTTTTAATCC---AA---CTAA----C-AAC
23332498 CCCTAAAC
250 CCCTAAAC
*
23332506 CTTAAATCCTAACCCCTAATCCATAATCCTTAAACCCATACTCCCTAAACCTTAAAATATGAACT
1 CTTAAATCCTAACCCCTAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACT
* * *
23332571 CCTAAATCGGCCTTAAATCTTAAATAAATCATATACCCTAAAC
66 CCTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAAC
23332614 AAATTTATTA
Statistics
Matches: 345, Mismatches: 13, Indels: 19
0.92 0.03 0.05
Matches are distributed among these distances:
251 46 0.13
252 124 0.36
253 58 0.17
257 1 0.00
261 1 0.00
262 1 0.00
268 114 0.33
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (257 bp):
CTTAAATCCTAACCCCTAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACT
CCTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTAT
TATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTAA
ACCCAAAACCCTAACTCGACCCCGGAATCCCTAACTTTTAATCCAACTAACAACCCCTAAAC
Found at i:23333009 original size:41 final size:41
Alignment explanation
Indices: 23332958--23333048 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 41
23332948 TAGGTTTTTT
* *
23332958 GCGGCACTTTCCCAAAAACGCTGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
23332999 GCGGCGCTTTCCCAATAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
23333040 GCGGCGCTT
1 GCGGCGCTT
23333049 CCTTTTAAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:23333060 original size:41 final size:42
Alignment explanation
Indices: 23332958--23333067 Score: 154
Period size: 41 Copynumber: 2.7 Consensus size: 42
23332948 TAGGTTTTTT
* *
23332958 GCGGCACTTTCCCAA-AAACGCTGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCCAATAAACGCCGCTAAAGCCCTGAGCATTA
23332999 GCGGCGCTTTCCCAAT-AACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCCAATAAACGCCGCTAAAGCCCTGAGCATTA
***
23333040 GCGGCGC-TTCCTTTTAAACGCCGCTAAA
1 GCGGCGCTTTCCCAATAAACGCCGCTAAA
23333068 TCCCCGAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
40 5 0.08
41 57 0.92
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (42 bp):
GCGGCGCTTTCCCAATAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:23339765 original size:16 final size:17
Alignment explanation
Indices: 23339734--23339766 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23339724 ATTTTAATAA
*
23339734 TTTAAATTATTTATTAC
1 TTTAAATTAATTATTAC
23339751 TTTAAA-TAATTATTAC
1 TTTAAATTAATTATTAC
23339767 ATGATGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAATTAATTATTAC
Found at i:23341588 original size:31 final size:31
Alignment explanation
Indices: 23341552--23341618 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
23341542 AGTTCAGAAG
23341552 TACTTGGTAAAGGAATGATTTTACTCAAACT
1 TACTTGGTAAAGGAATGATTTTACTCAAACT
23341583 TACTTGGTAAAGGAATGATTTTACTCAAACT
1 TACTTGGTAAAGGAATGATTTTACTCAAACT
23341614 TACTT
1 TACTT
23341619 CTGGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (31 bp):
TACTTGGTAAAGGAATGATTTTACTCAAACT
Found at i:23344687 original size:87 final size:86
Alignment explanation
Indices: 23344580--23344741 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 86
23344570 CATGCATAAG
* *
23344580 GTTGAGTTCTTACTCTTAATGAATTCA-TATC-TCATG-TTTTAGGTGGTCCTATTTAGACGGAC
1 GTTGAGTTCTTACTCTTAATGAATT-ATTATCGT-A-GAGTTTAGGTGGTCCTATTGAGACGGAC
23344642 ATGATGAATTCACCGACATGTGAA
63 ATGATGAATTCACCGACATGTGAA
* * * *
23344666 GTTGAGTTTCTTACTTTTAATGAGTTATTATCGTAGAGTTTAGTTGGTCCTATTGAGACGGACTT
1 GTTGAG-TTCTTACTCTTAATGAATTATTATCGTAGAGTTTAGGTGGTCCTATTGAGACGGACAT
23344731 GATGAATTCAC
65 GATGAATTCAC
23344742 TGAATTTAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
86 8 0.12
87 57 0.86
88 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (86 bp):
GTTGAGTTCTTACTCTTAATGAATTATTATCGTAGAGTTTAGGTGGTCCTATTGAGACGGACATG
ATGAATTCACCGACATGTGAA
Found at i:23352177 original size:36 final size:36
Alignment explanation
Indices: 23352137--23352208 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
23352127 TGAGATTGTC
23352137 AAATTGCTTGGTGTACCATTGTCAATCATTTCTGAT
1 AAATTGCTTGGTGTACCATTGTCAATCATTTCTGAT
23352173 AAATTGCTTGGTGTACCATTGTCAATCATTTCTGAT
1 AAATTGCTTGGTGTACCATTGTCAATCATTTCTGAT
23352209 CGCGATTCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (36 bp):
AAATTGCTTGGTGTACCATTGTCAATCATTTCTGAT
Found at i:23353762 original size:77 final size:77
Alignment explanation
Indices: 23353674--23353827 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 77
23353664 AGAGTTTGGT
* * * *
23353674 TATTAAATAGGGCTATTTTGTAAAGAAATTTTTTTTAGTTTCGAGTTTAGGTACTAAATTGATAG
1 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTGTTAGTTTCGAGTTTAAGTACCAAATTGATAG
23353739 AGATCTAATTTA
66 AGATCTAATTTA
*
23353751 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTGTTAGTTTTGAGTTTAAGTACCAAATTGATAG
1 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTGTTAGTTTCGAGTTTAAGTACCAAATTGATAG
*
23353816 AGATTTAATTTA
66 AGATCTAATTTA
23353828 ACATGTAATT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.44
Consensus pattern (77 bp):
TATTAAATAGGGCTATGTTGTAAAGAAATTTTTGTTAGTTTCGAGTTTAAGTACCAAATTGATAG
AGATCTAATTTA
Found at i:23365466 original size:21 final size:19
Alignment explanation
Indices: 23365440--23365489 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
23365430 TAACCAGACC
*
23365440 AAAAAATATAAAATAATTGT
1 AAAAAATATAAAA-AATAGT
*
23365460 ACAAAAATTATTAAAAATAGT
1 A-AAAAA-TATAAAAAATAGT
23365481 AAAAAATAT
1 AAAAAATAT
23365490 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.12
20 6 0.23
21 11 0.42
22 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAAATATAAAAAATAGT
Found at i:23365628 original size:21 final size:21
Alignment explanation
Indices: 23365567--23365685 Score: 88
Period size: 20 Copynumber: 5.8 Consensus size: 21
23365557 AAACTTTTTT
23365567 ATTATTTTAAAA-TTGTTAAAACA
1 ATTA-TTTAAAATTTG-TAAAA-A
*
23365590 GA-TATTTAAAA-TTATAAAAA
1 -ATTATTTAAAATTTGTAAAAA
23365610 ATTATTTAAAATTTGT-AAAA
1 ATTATTTAAAATTTGTAAAAA
*
23365630 ATTA-TTAAAATTTGT-GAAA
1 ATTATTTAAAATTTGTAAAAA
* * * * *
23365649 GTTATTAAAAAATTGCAAATA
1 ATTATTTAAAATTTGTAAAAA
*
23365670 ATTATTAAAAATTTGT
1 ATTATTTAAAATTTGT
23365686 GAACAAGTGG
Statistics
Matches: 79, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
19 18 0.23
20 26 0.33
21 23 0.29
22 9 0.11
23 2 0.03
24 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (21 bp):
ATTATTTAAAATTTGTAAAAA
Found at i:23365637 original size:19 final size:20
Alignment explanation
Indices: 23365606--23365685 Score: 99
Period size: 20 Copynumber: 4.0 Consensus size: 20
23365596 TAAAATTATA
*
23365606 AAAAATTATTTAAAATTTGT
1 AAAAATTATTAAAAATTTGT
23365626 AAAAATTATT-AAAATTTGT
1 AAAAATTATTAAAAATTTGT
* * * *
23365645 GAAAGTTATTAAAAAATTGC
1 AAAAATTATTAAAAATTTGT
23365665 AAATAATTATTAAAAATTTGT
1 AAA-AATTATTAAAAATTTGT
23365686 GAACAAGTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 17 0.34
20 19 0.38
21 14 0.28
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (20 bp):
AAAAATTATTAAAAATTTGT
Found at i:23365673 original size:40 final size:40
Alignment explanation
Indices: 23365611--23365688 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
23365601 TTATAAAAAA
* * *
23365611 TTATTTAAAATTTGTAAAAATTATT-AAAATTTGTGAAAG
1 TTATTAAAAAATTGCAAAAATTATTAAAAATTTGTGAAAG
23365650 TTATTAAAAAATTGCAAATAATTATTAAAAATTTGTGAA
1 TTATTAAAAAATTGCAAA-AATTATTAAAAATTTGTGAA
23365689 CAAGTGGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 15 0.44
40 7 0.21
41 12 0.35
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (40 bp):
TTATTAAAAAATTGCAAAAATTATTAAAAATTTGTGAAAG
Found at i:23365682 original size:10 final size:10
Alignment explanation
Indices: 23365592--23365682 Score: 57
Period size: 10 Copynumber: 9.1 Consensus size: 10
23365582 TTAAAACAGA
*
23365592 TATTTAAAAT
1 TATTAAAAAT
*
23365602 TATAAAAAAT
1 TATTAAAAAT
*
23365612 TATTTAAAAT
1 TATTAAAAAT
23365622 T-TGTAAAAAT
1 TAT-TAAAAAT
23365632 TATT-AAAAT
1 TATTAAAAAT
* *
23365641 T-TGTGAAAGT
1 TAT-TAAAAAT
23365651 TATTAAAAA-
1 TATTAAAAAT
23365660 -ATTGCAAATAAT
1 TATT--AAA-AAT
23365672 TATTAAAAAT
1 TATTAAAAAT
23365682 T
1 T
23365683 TGTGAACAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
8 4 0.06
9 8 0.13
10 41 0.65
11 7 0.11
13 3 0.05
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:23372310 original size:23 final size:24
Alignment explanation
Indices: 23372283--23372333 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 24
23372273 CAAGAATATA
23372283 TTACATAAATATCGAATAATTTT-
1 TTACATAAATATCGAATAATTTTC
23372306 TTACATAAATATCGAATAATTTTC
1 TTACATAAATATCGAATAATTTTC
23372330 TTAC
1 TTAC
23372334 TCTATAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (24 bp):
TTACATAAATATCGAATAATTTTC
Found at i:23373103 original size:41 final size:41
Alignment explanation
Indices: 23373058--23373174 Score: 162
Period size: 41 Copynumber: 2.9 Consensus size: 41
23373048 ACCGACAATT
* **
23373058 AGCCTGCTAGACTTATCGTCCGAATTATTTCACCGGCACAA
1 AGCCTGCTAGACATAAAGTCCGAATTATTTCACCGGCACAA
* *
23373099 AGCCTGCTAGACATAAAATCCTAATTATTTCACCGGCACAA
1 AGCCTGCTAGACATAAAGTCCGAATTATTTCACCGGCACAA
* * *
23373140 AGCTTGCTAGACATAAAGTCCGAATAACTTCACCG
1 AGCCTGCTAGACATAAAGTCCGAATTATTTCACCG
23373175 ACCTTAAGCC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCCGAATTATTTCACCGGCACAA
Found at i:23375150 original size:47 final size:47
Alignment explanation
Indices: 23375088--23375217 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
23375078 AGTCGATAAT
* * * * *
23375088 TCATCTGTTTGACCAGTGGGTTATCCGCAACTTATTCTAG-TCGGCAA
1 TCATCTGCTCGACCAGTGGTTTATCCACAACGTATTCTAGCT-GGCAA
* *
23375135 TCATTTGCTCGACCAGTGGTTTATCCACAACGTATTCTAGCTGGCAG
1 TCATCTGCTCGACCAGTGGTTTATCCACAACGTATTCTAGCTGGCAA
*
23375182 TCATCTGCTCGACCATTGGTTTATCCACAACGTATT
1 TCATCTGCTCGACCAGTGGTTTATCCACAACGTATT
23375218 AGTAGCTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 72 0.99
48 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (47 bp):
TCATCTGCTCGACCAGTGGTTTATCCACAACGTATTCTAGCTGGCAA
Found at i:23375336 original size:91 final size:92
Alignment explanation
Indices: 23375151--23375347 Score: 236
Period size: 91 Copynumber: 2.2 Consensus size: 92
23375141 GCTCGACCAG
* * * * * *
23375151 TGGTTTATCCACAACGTATTCTAGCTGGCAGTCATCTGCTCGACCATTGGTTTATCCACAACGTA
1 TGGTTCATCCACCACGTATTCTAGCTGACAGTCATATGCTCAACCAATGGTTTATCCACAACGTA
* * * * **
23375216 TTAGTAGCTTTTATATGCACAAATGGA
66 TTAGCAACTTTCATATACACAAACAGA
23375243 TGGTTCATCCACCA-GTATTCTAG-TAGACAGTCATATGCTCAACCAATGGTTTATCCACAACGT
1 TGGTTCATCCACCACGTATTCTAGCT-GACAGTCATATGCTCAACCAATGGTTTATCCACAACGT
* * *
23375306 ATTAGCAACTTTCATCTACATAGACAGA
65 ATTAGCAACTTTCATATACACAAACAGA
23375334 TGGTTCATCCACCA
1 TGGTTCATCCACCA
23375348 ATAAATTTAT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
90 1 0.01
91 76 0.85
92 12 0.13
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (92 bp):
TGGTTCATCCACCACGTATTCTAGCTGACAGTCATATGCTCAACCAATGGTTTATCCACAACGTA
TTAGCAACTTTCATATACACAAACAGA
Found at i:23376315 original size:20 final size:21
Alignment explanation
Indices: 23376292--23376336 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
23376282 ATTTAAAAAA
*
23376292 TTAAATAA-TGTTTT-ATAATT
1 TTAAATAACT-TTTTAACAATT
23376312 TT-AATAACTTTTTAACAATT
1 TTAAATAACTTTTTAACAATT
23376332 TTAAA
1 TTAAA
23376337 ATGTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
19 9 0.43
20 10 0.48
21 2 0.10
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAAATAACTTTTTAACAATT
Found at i:23376343 original size:20 final size:20
Alignment explanation
Indices: 23376320--23376386 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
23376310 TTTTAATAAC
23376320 TTTTTAACAATTTTAAAATGT
1 TTTTTAACAATTTTAAAAT-T
* *
23376341 TTTTTTACAATTTT-TAATAT
1 TTTTTAACAATTTTAAAAT-T
* * *
23376361 TTTTTAATAATTTCAATATT
1 TTTTTAACAATTTTAAAATT
23376381 TTTTTA
1 TTTTTA
23376387 CAGTTTTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (20 bp):
TTTTTAACAATTTTAAAATT
Found at i:23376362 original size:9 final size:9
Alignment explanation
Indices: 23376350--23376433 Score: 53
Period size: 10 Copynumber: 8.7 Consensus size: 9
23376340 TTTTTTTACA
23376350 ATTTTTAAT
1 ATTTTTAAT
23376359 ATTTTTTAAT
1 A-TTTTTAAT
* *
23376369 AATTTCAAT
1 ATTTTTAAT
* *
23376378 ATTTTTTTAC
1 A-TTTTTAAT
23376388 AGTTTTTATAT
1 A-TTTTTA-AT
23376399 ATTTTTAAAT
1 ATTTTT-AAT
23376409 AATTTTTACA-
1 -ATTTTTA-AT
*
23376419 ATTGTTAAT
1 ATTTTTAAT
23376428 ATTTTT
1 ATTTTT
23376434 TTACAATTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
8 1 0.02
9 19 0.33
10 27 0.47
11 10 0.18
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:23376365 original size:19 final size:19
Alignment explanation
Indices: 23376341--23376404 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
23376331 TTTAAAATGT
23376341 TTTTTTACAATTTTTAATA
1 TTTTTTACAATTTTTAATA
* *
23376360 TTTTTTA-ATAATTTCAATA
1 TTTTTTACA-ATTTTTAATA
*
23376379 TTTTTTTACAGTTTTTATATA
1 -TTTTTTACAATTTTTA-ATA
23376400 TTTTT
1 TTTTT
23376405 AAATAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.42
20 16 0.44
21 4 0.11
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTTACAATTTTTAATA
Found at i:23376393 original size:50 final size:50
Alignment explanation
Indices: 23376339--23376445 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
23376329 ATTTTAAAAT
* *
23376339 GTTTTTTTACAATTTTT-AATATTTTTTAATAATT-TCAATATTTTTTTACA
1 GTTTTTTTA-AATTTTTAAATAATTTTT-ACAATTGTCAATATTTTTTTACA
* * *
23376389 GTTTTTATATATTTTTAAATAATTTTTACAATTGTTAATATTTTTTTACA
1 GTTTTTTTAAATTTTTAAATAATTTTTACAATTGTCAATATTTTTTTACA
*
23376439 ATTTTTT
1 GTTTTTT
23376446 GGACTGGTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 11 0.23
50 37 0.77
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (50 bp):
GTTTTTTTAAATTTTTAAATAATTTTTACAATTGTCAATATTTTTTTACA
Found at i:23376445 original size:30 final size:28
Alignment explanation
Indices: 23376380--23376445 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
23376370 ATTTCAATAT
* *
23376380 TTTTTTACAGTTTTTATATATTTTTAAA
1 TTTTTTACAATTTTAATATATTTTTAAA
*
23376408 TAATTTTTACAATTGTTAATATTTTTTTACAA
1 T--TTTTTACAATT-TTAATATATTTTTA-AA
23376440 TTTTTT
1 TTTTTT
23376446 GGACTGGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 1 0.03
30 15 0.48
31 12 0.39
32 3 0.10
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTTTTACAATTTTAATATATTTTTAAA
Found at i:23382483 original size:48 final size:48
Alignment explanation
Indices: 23382415--23382547 Score: 194
Period size: 48 Copynumber: 2.8 Consensus size: 48
23382405 CTATTTATCA
*
23382415 TGTAGGTTCAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
1 TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
* * *
23382463 TGTAGGTTTAACCTTGACGGGTAACCATGCACTATTATTCATTATTTG
1 TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
** **
23382511 TGTAGGTTTAACCCAAATAGGTAACCAGGCACTATTA
1 TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTA
23382548 TTTTCACTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (48 bp):
TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
Found at i:23385369 original size:26 final size:25
Alignment explanation
Indices: 23385313--23385374 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
23385303 AATTTTACTA
*
23385313 GGGGTAAAATCACCAAAATTTTATC
1 GGGGTAAAATCACCAAAATTTAATC
* *
23385338 GAGGGTAAAATCATCAAAATTTAAATT
1 G-GGGTAAAATCACCAAAATTT-AATC
23385365 GGGGTAAAAT
1 GGGGTAAAAT
23385375 AGGGATGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.03
26 28 0.88
27 3 0.09
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (25 bp):
GGGGTAAAATCACCAAAATTTAATC
Found at i:23403752 original size:26 final size:26
Alignment explanation
Indices: 23403723--23403900 Score: 106
Period size: 24 Copynumber: 7.2 Consensus size: 26
23403713 CTTATAAGCG
* *
23403723 TCCCGATTTATGGTTCTTCGTGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* *
23403749 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* * * *
23403775 TTCTGATTAATGGCTCTCCG-AAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* * *
23403800 TCCCGA-TATATGGCTATCCG-AAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
*
23403825 TCCCG-TTAATGGCTCTTCG-AAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* * * *
23403849 ACCTG-TTATTGGCT-TGT-ATGAGCT
1 TCCCGATTAATGGCTCT-TCGTGAGCT
* *
23403873 TCCTGATT-ATGGCTCTT-ATGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
23403897 TCCC
1 TCCC
23403901 TATACAGCCT
Statistics
Matches: 123, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
23 1 0.01
24 52 0.42
25 33 0.27
26 37 0.30
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCGTGAGCT
Found at i:23403812 original size:25 final size:24
Alignment explanation
Indices: 23403782--23403848 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
23403772 GCTTTCTGAT
23403782 TAATGGCTCTCCGAAGCTTCCCGA
1 TAATGGCTCTCCGAAGCTTCCCGA
* *
23403806 TATATGGCTATCCGAAGCTTCCCGT
1 TA-ATGGCTCTCCGAAGCTTCCCGA
*
23403831 TAATGGCTCTTCGAAGCT
1 TAATGGCTCTCCGAAGCT
23403849 ACCTGTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 16 0.42
25 22 0.58
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (24 bp):
TAATGGCTCTCCGAAGCTTCCCGA
Found at i:23403845 original size:24 final size:25
Alignment explanation
Indices: 23403718--23403848 Score: 113
Period size: 26 Copynumber: 5.2 Consensus size: 25
23403708 CAGCTCTTAT
* * *
23403718 AAGCGTCCCGATTTATGGTTCTTCG
1 AAGCTTCCCGATTAATGGCTCTTCG
* * *
23403743 TGAGCTTCCCGATTAAAGGCTCTTTG
1 -AAGCTTCCCGATTAATGGCTCTTCG
* * * *
23403769 TGAGCTTTCTGATTAATGGCTCTCCG
1 -AAGCTTCCCGATTAATGGCTCTTCG
* *
23403795 AAGCTTCCCGA-TATATGGCTATCCG
1 AAGCTTCCCGATTA-ATGGCTCTTCG
23403820 AAGCTTCCCG-TTAATGGCTCTTCG
1 AAGCTTCCCGATTAATGGCTCTTCG
23403844 AAGCT
1 AAGCT
23403849 ACCTGTTATT
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
24 16 0.19
25 30 0.35
26 40 0.47
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (25 bp):
AAGCTTCCCGATTAATGGCTCTTCG
Found at i:23405349 original size:12 final size:11
Alignment explanation
Indices: 23405327--23405357 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
23405317 ATTAAGTAAA
23405327 TAAATAAATAT
1 TAAATAAATAT
23405338 TAAATGAAATAT
1 TAAAT-AAATAT
23405350 TAAATAAA
1 TAAATAAA
23405358 CTGTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:23406950 original size:44 final size:43
Alignment explanation
Indices: 23406883--23407443 Score: 411
Period size: 44 Copynumber: 12.8 Consensus size: 43
23406873 GATTTGTGGC
*
23406883 TTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAG
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAG
* * ** *
23406927 CTTCAATCTGCTCCACTATAACTTCAGGGAGATAAGGTTTGTTA-
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTG-TAG
* * *
23406971 TTTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATG
1 TTTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TA-G
* * * * * * *
23407018 GTGTGATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGTTAT
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TAG
* * *
23407063 TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTTCTTATG
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-GTA-G
* * * * *
23407109 GTGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT-G
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTAG
* * *
23407152 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGT-T
1 -TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAG
** * * *
23407196 TCTTTCGTCTACTCCACTGCAACATCAGGGAGATAAGACTG--G
1 T-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAG
* * * * * *
23407238 ATGTGATCTGCTCTATTGCAACTTCAGAGAGATAAGATTTGT-G
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAG
* * *
23407281 TTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGT-T
1 -TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAG
*
23407325 TCTTTTATCTGCTCCACTGCAACTTCAGGGAGATAAGATTG--G
1 T-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAG
* * * * * * *
23407367 ATGTGATCTGCTCTACTGCAACTTCAGAGACATAAGATCTATAG
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTAG
* *
23407411 TTTTAATCTACTCCACTGTAACTTCAGGGAGAT
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
23407444 CGGATTGGCT
Statistics
Matches: 399, Mismatches: 98, Indels: 40
0.74 0.18 0.07
Matches are distributed among these distances:
41 60 0.15
42 3 0.01
43 9 0.02
44 189 0.47
45 73 0.18
46 63 0.16
47 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (43 bp):
TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAG
Found at i:23407060 original size:91 final size:90
Alignment explanation
Indices: 23406883--23407443 Score: 462
Period size: 91 Copynumber: 6.4 Consensus size: 90
23406873 GATTTGTGGC
* * *
23406883 TTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAG-TA-GCT-TCAATCTGCTCCACT
1 TTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTTATGGTGT-GATCTGCTCTACT
* * *
23406944 ATAACTTCAGGGAGATAAGGTTTGTTA
64 ACAACTTCAGAGAGATAAGATTTGTTA
* *
23406971 TTTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGGTGTGATCTGCTCTACTA
1 TTTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTGTGATCTGCTCTACTA
23407036 CAACTTCAGAGAGATAAGATTTGTTA
65 CAACTTCAGAGAGATAAGATTTGTTA
* * *
23407062 TTTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTTCTTATGGTGTGATCTGCTCTACTG
1 -TTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTGTGATCTGCTCTACTA
* *
23407127 CAACTTCAGAGAGATAAGATCTGTGA
65 CAACTTCAGAGAGATAAGATTTGTTA
* * * * * * *
23407153 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTT-T-CTTTCG-TCTACTCCACT
1 TTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTTATGGTGT-GATCTGCTCTACT
* * * * *
23407214 GCAACATCAGGGAGATAAGA-CTG-GA
64 ACAACTTCAGAGAGATAAGATTTGTTA
* * * * * * * * * * *
23407239 TGTGA-TCTGCTCTATTGCAACTTCAGAGAGATAAGATTTGTGT-T--TTTAATCCGCTCCACTG
1 TTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-TATGGTGTGATCTGCTCTACTA
* * * *
23407300 CAACTTCAGGGAGATAGGATTGGTTTC
65 CAACTTCAGAGAGATAAGATTTG-TTA
* *
23407327 TTTTA-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG----GATGTGATCTGCTCTACTGC
1 TTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTGTGATCTGCTCTACTAC
* * *
23407386 AACTTCAGAGACATAAGATCT-ATA
66 AACTTCAGAGAGATAAGATTTGTTA
* * *
23407410 GTTTTAATCTACTCCACTGTAACTTCAGGGAGAT
1 -TTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
23407444 CGGATTGGCT
Statistics
Matches: 397, Mismatches: 58, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
83 1 0.00
84 5 0.01
85 113 0.28
86 10 0.03
87 6 0.02
88 64 0.16
89 36 0.09
90 39 0.10
91 118 0.30
92 5 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (90 bp):
TTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTGTGATCTGCTCTACTAC
AACTTCAGAGAGATAAGATTTGTTA
Found at i:23407296 original size:85 final size:88
Alignment explanation
Indices: 23406892--23407457 Score: 283
Period size: 85 Copynumber: 6.4 Consensus size: 88
23406882 CTTTTAGTCT
* * ** * * **
23406892 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTATAACTTCAGGGA
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGTTTCTTTAATCCGCTCCACTGCAACTTCAGGGA
* * * * * *
23406957 GATAAGGTTTGTTATTTTCAGTCT
66 GATAAGATCTGTGATTGT-AATCC
* * * * * * * * *
23406981 GTTCCACTGCAACTTCAGGGAGATAAAACTT-GTTATGGTGTGATCTGCTCTACTACAACTTCAG
1 GCTCCACTGCAACTTCAGAGAGATAAGA-TTGGTT-T-CTTTAATCCGCTCCACTGCAACTTCAG
* * * * * *
23407045 AGAGATAAGATTTGTTATTTTTAGTCT
63 GGAGATAAGATCTGTGA-TTGTAATCC
* * * * * * * *
23407072 GTTCCACTGCAACTTCAGGGAGATAAGACTT-CTTATGGTGTGATCTGCTCTACTGCAACTTCAG
1 GCTCCACTGCAACTTCAGAGAGATAAGA-TTGGTT-T-CTTTAATCCGCTCCACTGCAACTTCAG
* *
23407136 AGAGATAAGATCTGTGATTTTAATCC
63 GGAGATAAGATCTGTGATTGTAATCC
* * ** ** *
23407162 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTCGTCTACTCCACTGCAACATCAGGGA
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGTTTCTTTAATCCGCTCCACTGCAACTTCAGGGA
* *
23407227 GATAAGA-CTG-GA-TGTGATCT
66 GATAAGATCTGTGATTGTAATCC
* * *
23407247 GCTCTATTGCAACTTCAGAGAGATAAGATTTGTGTT-TTTAATCCGCTCCACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGT-TTCTTTAATCCGCTCCACTGCAACTTCAGGG
* * * * *
23407311 AGATAGGAT-TG-GTTTCTTTTATCT
65 AGATAAGATCTGTG-AT-TGTAATCC
* * * * * * *
23407335 GCTCCACTGCAACTTCAGGGAGATAAGATTGG---ATGTGATCTGCTCTACTGCAACTTCAGAGA
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGTTTCTTTAATCCGCTCCACTGCAACTTCAGGGA
* * * *
23407397 CATAAGATCTAT-AGTTTTAATCT
66 GATAAGATCTGTGA-TTGTAATCC
* * * ** *
23407420 ACTCCACTGTAACTTCAGGGAGATCGGATTGGCTTCTT
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGTTTCTT
23407458 CTATCTAACT
Statistics
Matches: 393, Mismatches: 67, Indels: 35
0.79 0.14 0.07
Matches are distributed among these distances:
85 131 0.33
86 6 0.02
87 3 0.01
88 64 0.16
89 31 0.08
90 37 0.09
91 117 0.30
92 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (88 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATTGGTTTCTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAAGATCTGTGATTGTAATCC
Found at i:23407463 original size:129 final size:128
Alignment explanation
Indices: 23406883--23407463 Score: 583
Period size: 129 Copynumber: 4.4 Consensus size: 128
23406873 GATTTGTGGC
* * * * ** * **
23406883 TTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTATAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT-TATCTGCTCCACTGCAA
* * * * * * * *
23406948 CTTCAGGGAGATAAGGTTTGTTATTTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAA-AACTT
65 CTTCAGGGAGATAA-GATTG-GA-TGTGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGATC-T
*
23407012 GTTA
125 GTGA
* * * * * * * * * *
23407016 TGGTGTGATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGTTATTTTTAGTCTGTTCCACTG
1 T--TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTT-TCTTTA-TCTGCTCCACTG
23407081 CAACTTCAGGGAGATAAGACTTCTTATGG-TGTGATCTGCTCTACTGCAACTTCAGAGAGATAAG
62 CAACTTCAGGGAGATAAGA-----T-TGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAG
23407145 ATCTGTGA
121 ATCTGTGA
* *
23407153 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTCGTCTACTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTT-ATCTGCTCCACTGCAA
* * * * *
23407218 CATCAGGGAGATAAGACTGGATGTGATCTGCTCTATTGCAACTTCAGAGAGATAAGATTTGTGT
65 CTTCAGGGAGATAAGATTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGA
23407282 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTATCTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC-TTTATCTGCTCCACTGCAA
* *
23407347 CTTCAGGGAGATAAGATTGGATGTGATCTGCTCTACTGCAACTTCAGAGACATAAGATCTAT-A
65 CTTCAGGGAGATAAGATTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGA
** * * *
23407410 GTTTTAATCTACTCCACTGTAACTTCAGGGAGATCGGATTGGCTTCTTCTATCT
1 -TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT-TATCT
23407464 AACTACAATT
Statistics
Matches: 378, Mismatches: 54, Indels: 36
0.81 0.12 0.08
Matches are distributed among these distances:
128 5 0.01
129 200 0.53
130 3 0.01
133 1 0.00
134 32 0.08
135 70 0.19
136 28 0.07
137 31 0.08
138 5 0.01
140 1 0.00
141 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (128 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTATCTGCTCCACTGCAAC
TTCAGGGAGATAAGATTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGA
Found at i:23407608 original size:49 final size:49
Alignment explanation
Indices: 23407537--23407905 Score: 220
Period size: 49 Copynumber: 7.5 Consensus size: 49
23407527 GGGAAGTAAA
* *
23407537 ATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAG
1 ATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGTCGGGGAACAAG
* * * ** * ** * *
23407586 ATTCACCGTTGTAGCTTTAATCTATTCCACTGCACCG-CTAGGGAAGTAAG
1 ATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGTC-GGGGAA-CAAG
** * * *
23407636 ATTTGCCATTGCGGCTTCAATCTTTTAAATTGCAATGTTGGGGAACAAG
1 ATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGTCGGGGAACAAG
* * * ** * ** * ** *
23407685 ATTCACCGTTGTATCTTCAATCTGTTCCACTGCACCGCCAAGGAAGTAAG
1 ATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA-CAAG
** * *
23407735 ATTCGTCGTTGCAGCTTCAATATTTTAAATTGCAATTTCGGGGAACAAG
1 ATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGTCGGGGAACAAG
** * ** * * * * *
23407784 ATTCACCGTTTTAGCTTCAATCTATTCCACTGCACTG-CTAGGAAAGTAAG
1 ATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGTC-GGGGAA-CAAG
**** *
23407834 ATTTGTTGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAACAAG
1 ATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGTCGGGGAACAAG
** *
23407883 ATTTGCCGTTGTAGCTTCAATCT
1 ATTCACCGTTGCAGCTTCAATCT
23407906 GTTCCACTGC
Statistics
Matches: 221, Mismatches: 92, Indels: 14
0.68 0.28 0.04
Matches are distributed among these distances:
48 2 0.01
49 120 0.54
50 98 0.44
51 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (49 bp):
ATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGTCGGGGAACAAG
Found at i:23407629 original size:99 final size:99
Alignment explanation
Indices: 23407484--23407967 Score: 680
Period size: 99 Copynumber: 4.9 Consensus size: 99
23407474 TTTGGGAAGT
* * * * * * *
23407484 AAGATTCGCCGTCGTAGCTTCAACCTATTCCACTACACTGCCAGGGAAGTAAAATTCACCGTTGC
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
*
23407549 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
66 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAC
* * * *
23407583 AAGATTCACCGTTGTAGCTTTAATCTATTCCACTGCACCGCTAGGGAAGTAAGATTTGCCATTGC
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
*
23407648 GGCTTCAATCTTTTAAATTGCAATGTTGGGGAAC
66 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAC
* * * *
23407682 AAGATTCACCGTTGTATCTTCAATCTGTTCCACTGCACCGCCAAGGAAGTAAGATTCGTCGTTGC
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
* * *
23407747 AGCTTCAATATTTTAAATTGCAATTTCGGGGAAC
66 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAC
* * * * * **
23407781 AAGATTCACCGTTTTAGCTTCAATCTATTCCACTGCACTGCTAGGAAAGTAAGATTTGTTGTTGC
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
23407846 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAC
66 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAC
** * * *
23407880 AAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCACCACCAGGGAAGTAAGATTCGCCGTTAC
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
23407945 GGCTTCAATCTTTTAAATTGCAA
66 GGCTTCAATCTTTTAAATTGCAA
23407968 CCTCAGGGGT
Statistics
Matches: 336, Mismatches: 49, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
99 336 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (99 bp):
AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAC
Found at i:23408898 original size:16 final size:16
Alignment explanation
Indices: 23408879--23408912 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
23408869 TTTTTTGTTC
23408879 TTCTTTTCT-TTTCTTT
1 TTCTTTT-TGTTTCTTT
23408895 TTCTTTTTGTTTCTTT
1 TTCTTTTTGTTTCTTT
23408911 TT
1 TT
23408913 TTCAAGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TTCTTTTTGTTTCTTT
Found at i:23408898 original size:19 final size:19
Alignment explanation
Indices: 23408863--23408913 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
23408853 AGCCTCTCCT
23408863 TTTTCCTTTTTTGTTCTTC
1 TTTTCCTTTTTTGTTCTTC
* *
23408882 TTTT-CTTTTCTTTTTCTTT
1 TTTTCCTTTT-TTGTTCTTC
*
23408901 TTGTTTCTTTTTT
1 TT-TTCCTTTTTT
23408914 TCAAGTGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 13 0.48
20 4 0.15
21 5 0.19
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (19 bp):
TTTTCCTTTTTTGTTCTTC
Found at i:23411149 original size:18 final size:17
Alignment explanation
Indices: 23411116--23411154 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
23411106 TTTTATAAAT
23411116 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
23411134 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
23411151 TGTG
1 TGTG
23411155 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:23411286 original size:8 final size:8
Alignment explanation
Indices: 23411273--23411298 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
23411263 CACTAGAGAT
23411273 CAGTGTTA
1 CAGTGTTA
23411281 CAGTGTTA
1 CAGTGTTA
23411289 CAGTGTTA
1 CAGTGTTA
23411297 CA
1 CA
23411299 ATGAGTCCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (8 bp):
CAGTGTTA
Found at i:23411414 original size:23 final size:23
Alignment explanation
Indices: 23411388--23411509 Score: 208
Period size: 23 Copynumber: 5.3 Consensus size: 23
23411378 AGTGTTATTG
23411388 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
23411411 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
23411434 ATCAGTGGTAGCTTCGGCTGCAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
23411457 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
23411480 TTTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
23411503 ATCAGTG
1 ATCAGTG
23411510 TGGCACTTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 93 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:23411681 original size:38 final size:37
Alignment explanation
Indices: 23411639--23411711 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
23411629 ATGCGTGGAA
* *
23411639 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
23411677 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
23411712 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:23421742 original size:23 final size:24
Alignment explanation
Indices: 23421705--23421751 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
23421695 GAATATTTTT
23421705 AATCTTAGTAGATTTGATTCTGTA
1 AATCTTAGTAGATTTGATTCTGTA
*
23421729 AATCTTA-TAGATTTGATTTTGTA
1 AATCTTAGTAGATTTGATTCTGTA
23421752 GATTGCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (24 bp):
AATCTTAGTAGATTTGATTCTGTA
Found at i:23431766 original size:75 final size:74
Alignment explanation
Indices: 23431643--23431780 Score: 213
Period size: 75 Copynumber: 1.9 Consensus size: 74
23431633 AGAAAAAAAA
* * *
23431643 AGAGATTATCAATTCTGTTTTACTTTCTCTTCCCTATTAAAACTTGTTATCCATATGAATCATAC
1 AGAGATTATCAATTCTGTTTTACTTTCTCTTCCCTATCAAAACGTGTTATCCAAATGAATCATAC
23431708 AAAGTAGGG
66 AAAGTAGGG
* * *
23431717 AGAGATTATTAATTCTTTTCTTACTTTCTCTTCCCTATCCAAACGTGTTATCCAAATGAATCAT
1 AGAGATTATCAATTCTGTT-TTACTTTCTCTTCCCTATCAAAACGTGTTATCCAAATGAATCAT
23431781 TCCCTATTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
74 17 0.30
75 40 0.70
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.41
Consensus pattern (74 bp):
AGAGATTATCAATTCTGTTTTACTTTCTCTTCCCTATCAAAACGTGTTATCCAAATGAATCATAC
AAAGTAGGG
Found at i:23434342 original size:24 final size:25
Alignment explanation
Indices: 23434310--23434364 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
23434300 CACTATTTTA
* * *
23434310 AATATAAAATATTCATT-TTTATAT
1 AATAAAAAATATACATTAATTATAT
23434334 AATAAAAAATATACATTAATTATAT
1 AATAAAAAATATACATTAATTATAT
*
23434359 ATTAAA
1 AATAAA
23434365 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
AATAAAAAATATACATTAATTATAT
Found at i:23434741 original size:7 final size:7
Alignment explanation
Indices: 23434731--23434757 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23434721 ATTATAGATT
23434731 ATAAATG
1 ATAAATG
23434738 ATAAATG
1 ATAAATG
23434745 ATAAATG
1 ATAAATG
23434752 ATAAAT
1 ATAAAT
23434758 ATGGTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (7 bp):
ATAAATG
Found at i:23435165 original size:20 final size:20
Alignment explanation
Indices: 23435137--23435177 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23435127 CTTAATTACC
* *
23435137 AAATTTAAACATGAAAATGA
1 AAATATAAACATCAAAATGA
*
23435157 AAATATAAATATCAAAATGA
1 AAATATAAACATCAAAATGA
23435177 A
1 A
23435178 TTTAATTTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (20 bp):
AAATATAAACATCAAAATGA
Found at i:23445302 original size:21 final size:21
Alignment explanation
Indices: 23445276--23445316 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23445266 ATCTGCTCAA
* *
23445276 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
23445297 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
23445317 TTGCTCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:23451591 original size:16 final size:16
Alignment explanation
Indices: 23451570--23451605 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
23451560 TTTGGTTCGC
23451570 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23451586 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23451602 TGTA
1 TGTA
23451606 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23451670 original size:44 final size:45
Alignment explanation
Indices: 23451586--23451676 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
23451576 GGATTAGAGG
* * *
23451586 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
23451631 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
23451675 TG
1 TG
23451677 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:23451858 original size:16 final size:16
Alignment explanation
Indices: 23451821--23451862 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23451811 TTAATCATAT
*
23451821 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23451837 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23451852 TTAAAATATAT
1 TTAAAATATAT
23451863 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23451869 original size:14 final size:15
Alignment explanation
Indices: 23451830--23451871 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23451820 TTTAAACATA
*
23451830 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23451845 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23451859 A-TATAATTTAATA
1 ATTATAATTAAATA
23451872 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23452449 original size:26 final size:25
Alignment explanation
Indices: 23452400--23452453 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
23452390 AAATCATAAT
23452400 ATATAATACTATAAAATATAATTTA
1 ATATAATACTATAAAATATAATTTA
* *
23452425 ATATAATTATTATTAAATATAATTTA
1 ATATAA-TACTATAAAATATAATTTA
23452451 ATA
1 ATA
23452454 AAAATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATAATACTATAAAATATAATTTA
Found at i:23452580 original size:16 final size:17
Alignment explanation
Indices: 23452559--23452600 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
23452549 AATTATTATT
23452559 AAATATATTA-TAAATA
1 AAATATATTATTAAATA
* *
23452575 AAATATATAATTTAATA
1 AAATATATTATTAAATA
23452592 AAAT-TATTA
1 AAATATATTA
23452601 ATAATCAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATATTATTAAATA
Found at i:23452702 original size:18 final size:18
Alignment explanation
Indices: 23452681--23452728 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
23452671 TTATTATTAA
23452681 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
23452699 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
23452716 -TAT-TAATAATTAA
1 ATATATTATAATTAA
23452729 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:23452709 original size:14 final size:15
Alignment explanation
Indices: 23452660--23452711 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
23452650 ATAAAATATA
23452660 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
23452675 TATTAAATATATTAT
1 AATTAAATATATTAT
23452690 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
23452703 AATTTAATA
1 AATTAAATA
23452712 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:23452847 original size:120 final size:120
Alignment explanation
Indices: 23451824--23452836 Score: 1645
Period size: 120 Copynumber: 8.4 Consensus size: 120
23451814 ATCATATTTA
*
23451824 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
23451889 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
23451944 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * * *
23452009 TATTCTTATATTAATTTATTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
23452064 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
23452129 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
23452184 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
23452249 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAATTATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
23452304 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
* * * *
23452368 ATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
23452424 AATATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
23452488 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * *
23452544 AACATAATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
23452609 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
23452664 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
23452729 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
23452784 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
23452837 TAAAATAATT
Statistics
Matches: 851, Mismatches: 39, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
119 3 0.00
120 844 0.99
121 4 0.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:23452883 original size:101 final size:93
Alignment explanation
Indices: 23452777--23453060 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
23452767 ACTATAAAAG
* * * *
23452777 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
*
23452841 ATAATTACAACTAATAAATTATCTTATATGAATTTGT
62 -T-ATT--AA-TAATAAATTATCTTATATGAATTTAT
* * *
23452878 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
* *
23452941 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* * *
23452969 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
* *
23453032 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
23453060 A
1 A
23453061 CAATAGATAT
Statistics
Matches: 168, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
91 112 0.67
92 1 0.01
94 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
AATAATAAATTATCTTATATGAATTTAT
Found at i:23452906 original size:26 final size:28
Alignment explanation
Indices: 23452877--23452937 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
23452867 TATGAATTTG
*
23452877 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
23452903 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
23452931 TAAAATT
1 TATAATT
23452938 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:23452935 original size:47 final size:46
Alignment explanation
Indices: 23452884--23453027 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
23452874 TTGTATAATT
23452884 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
23452931 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
23452975 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
23453022 TAAAAT
1 TAAAAT
23453028 TCTTGATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:23452947 original size:91 final size:91
Alignment explanation
Indices: 23452852--23453064 Score: 372
Period size: 91 Copynumber: 2.3 Consensus size: 91
23452842 TAATTACAAC
* * * * *
23452852 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
23452917 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
23452943 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
23453008 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
23453034 TAATAAATTTTCTTATATGAATTTATACAAT
1 TAATAAATTTTCTTATATGAATTTATACAAT
23453065 AGATATTTAA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:23453041 original size:47 final size:47
Alignment explanation
Indices: 23452902--23453041 Score: 139
Period size: 47 Copynumber: 3.0 Consensus size: 47
23452892 TTATTATTAC
*
23452902 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
* * * ** * *
23452949 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTGATAATAA
23452993 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
23453040 AT
1 AT
23453042 TTTCTTATAT
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
Found at i:23466695 original size:41 final size:41
Alignment explanation
Indices: 23466576--23466733 Score: 156
Period size: 41 Copynumber: 3.9 Consensus size: 41
23466566 GGAGTGAAAC
** * * * *
23466576 AACAATTTAAGCTTGTATTTAGGAGCCTCATTTTTTGGATA
1 AACAATTTAAGCTCATGTTTAGGAGCATCATATTTTGGATG
* ** * *
23466617 AACAATTTAAGTTTGTGCTTAAGAG-ATCATATTTTGGATG
1 AACAATTTAAGCTCATGTTTAGGAGCATCATATTTTGGATG
*
23466657 ACCAATTTAAGCTCATGTTTAGGAGCATCATATTTTGGATG
1 AACAATTTAAGCTCATGTTTAGGAGCATCATATTTTGGATG
* * * * *
23466698 AATAGTTTAAGTTCATGTTAAGGAGCATCATTTTTT
1 AACAATTTAAGCTCATGTTTAGGAGCATCATATTTT
23466734 TTTCTTTGAG
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 31 0.32
41 66 0.68
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (41 bp):
AACAATTTAAGCTCATGTTTAGGAGCATCATATTTTGGATG
Found at i:23477907 original size:21 final size:21
Alignment explanation
Indices: 23477881--23477936 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
23477871 AACAGCGGTG
*
23477881 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
23477902 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
23477923 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
23477937 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:23478367 original size:17 final size:17
Alignment explanation
Indices: 23478347--23478391 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
23478337 TATTACTAGA
23478347 AATTTTTAATTATAAAT
1 AATTTTTAATTATAAAT
** *
23478364 AATTTAAAATAATAAAT
1 AATTTTTAATTATAAAT
23478381 AATTTTTAATT
1 AATTTTTAATT
23478392 TTTAATTATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTTAATTATAAAT
Found at i:23483289 original size:6 final size:6
Alignment explanation
Indices: 23483275--23483316 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
23483265 GGTTTTATCA
* *
23483275 AAATTG AAATGG AAATGG AAATGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
23483317 ATTTATTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (6 bp):
AAATGG
Found at i:23491415 original size:25 final size:24
Alignment explanation
Indices: 23491387--23491446 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
23491377 TTCTTTTCTT
* *
23491387 TTTTCTTTTTCATTTTTAGATTAGG
1 TTTTCTTTTTC-TTTTTAGAATAGA
*
23491412 TTTTCCCTTTTCTTTTTAGAATAGA
1 TTTT-CTTTTTCTTTTTAGAATAGA
*
23491437 TTTTATTTTT
1 TTTTCTTTTT
23491447 GTTGCTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 4 0.14
25 19 0.66
26 6 0.21
ACGTcount: A:0.17, C:0.10, G:0.08, T:0.65
Consensus pattern (24 bp):
TTTTCTTTTTCTTTTTAGAATAGA
Found at i:23498839 original size:14 final size:15
Alignment explanation
Indices: 23498820--23498853 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
23498810 CAATTTAGTC
23498820 TAATTTTTTCATT-T
1 TAATTTTTTCATTAT
23498834 TAATTTTTTCATTAT
1 TAATTTTTTCATTAT
23498849 TAATT
1 TAATT
23498854 AGATCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TAATTTTTTCATTAT
Found at i:23500420 original size:29 final size:31
Alignment explanation
Indices: 23500380--23500442 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
23500370 CCTTTTAATA
*
23500380 TTTTTTAAAAA-TCTTATTAAAT-TCTAAAT
1 TTTTTTAAAAATTCTAATTAAATCTCTAAAT
* *
23500409 TTTTTTGAAAATTCTAATTAAATCTTTAAAT
1 TTTTTTAAAAATTCTAATTAAATCTCTAAAT
23500440 TTT
1 TTT
23500443 CTAAAAGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.34
30 10 0.34
31 9 0.31
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (31 bp):
TTTTTTAAAAATTCTAATTAAATCTCTAAAT
Found at i:23500429 original size:30 final size:30
Alignment explanation
Indices: 23500380--23500442 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
23500370 CCTTTTAATA
*
23500380 TTTTTTAAAAATCTTATTAAAT-TCTAAAT
1 TTTTTTAAAAATCTAATTAAATCTCTAAAT
* *
23500409 TTTTTTGAAAATTCTAATTAAATCTTTAAAT
1 TTTTTT-AAAAATCTAATTAAATCTCTAAAT
23500440 TTT
1 TTT
23500443 CTAAAAGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.21
30 14 0.48
31 9 0.31
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTTTTAAAAATCTAATTAAATCTCTAAAT
Found at i:23500448 original size:29 final size:28
Alignment explanation
Indices: 23500372--23500448 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 28
23500362 TCAATAATCC
*
23500372 TTTTAATATTTTTTAAAAATCTTATTAAA
1 TTTTAA-ATTTTTTAAAAATCTAATTAAA
* *
23500401 TTCTAAATTTTTTTGAAAATTCTAATTAAA
1 TTTTAAA-TTTTTT-AAAAATCTAATTAAA
*
23500431 TCTTTAAATTTTCTAAAA
1 T-TTTAAATTTTTTAAAA
23500449 GTTTTGATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 15 0.38
30 19 0.47
31 5 0.12
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.52
Consensus pattern (28 bp):
TTTTAAATTTTTTAAAAATCTAATTAAA
Found at i:23501439 original size:13 final size:13
Alignment explanation
Indices: 23501418--23501458 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
23501408 CTCTTGCTTC
23501418 TTCCGTTTTCTTT
1 TTCCGTTTTCTTT
*
23501431 TTCCTTTTTTCTTT
1 TTCC-GTTTTCTTT
*
23501445 TTCGGTTTTCTTT
1 TTCCGTTTTCTTT
23501458 T
1 T
23501459 CGGTTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (13 bp):
TTCCGTTTTCTTT
Found at i:23501453 original size:14 final size:14
Alignment explanation
Indices: 23501423--23501465 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
23501413 GCTTCTTCCG
**
23501423 TTTTCTTTTTCCTT
1 TTTTCTTTTTCGGT
23501437 TTTTCTTTTTCGG-
1 TTTTCTTTTTCGGT
23501450 TTTTC-TTTTCGGT
1 TTTTCTTTTTCGGT
23501463 TTT
1 TTT
23501466 GGTTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 7 0.27
13 8 0.31
14 11 0.42
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.74
Consensus pattern (14 bp):
TTTTCTTTTTCGGT
Found at i:23501460 original size:12 final size:13
Alignment explanation
Indices: 23501422--23501465 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
23501412 TGCTTCTTCC
*
23501422 GTTTTCTTTTTCCT
1 GTTTTCTTTTT-CG
*
23501436 TTTTTCTTTTTCG
1 GTTTTCTTTTTCG
23501449 GTTTTC-TTTTCG
1 GTTTTCTTTTTCG
23501461 GTTTT
1 GTTTT
23501466 GGTTTTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 11 0.41
13 6 0.22
14 10 0.37
ACGTcount: A:0.00, C:0.16, G:0.11, T:0.73
Consensus pattern (13 bp):
GTTTTCTTTTTCG
Found at i:23502228 original size:26 final size:25
Alignment explanation
Indices: 23502192--23502253 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
23502182 TTTATATACT
* *
23502192 ATTTAGTTTAAGTCA-TTTATTTTA
1 ATTTATTTTAAATCAGTTTATTTTA
*
23502216 TATGTTATTTTAAAATTAGTTTATTTTA
1 -AT-TTATTTT-AAATCAGTTTATTTTA
23502244 ATTTATTTTA
1 ATTTATTTTA
23502254 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 3 0.10
26 13 0.42
27 6 0.19
28 9 0.29
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (25 bp):
ATTTATTTTAAATCAGTTTATTTTA
Found at i:23502255 original size:15 final size:16
Alignment explanation
Indices: 23502220--23502262 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
23502210 ATTTTATATG
23502220 TTATTTTAAAATTAGT
1 TTATTTTAAAATTAGT
* *
23502236 TTATTTT-AATTTATT
1 TTATTTTAAAATTAGT
23502251 TTA-TTTAAAATT
1 TTATTTTAAAATT
23502263 TCCCGTGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 3 0.13
15 13 0.57
16 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTATTTTAAAATTAGT
Found at i:23506914 original size:13 final size:13
Alignment explanation
Indices: 23506896--23506922 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23506886 TAGCGACTAT
23506896 GGCATCTAACAAG
1 GGCATCTAACAAG
23506909 GGCATCTAACAAG
1 GGCATCTAACAAG
23506922 G
1 G
23506923 AGATCGGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (13 bp):
GGCATCTAACAAG
Found at i:23509876 original size:158 final size:158
Alignment explanation
Indices: 23509649--23510607 Score: 1596
Period size: 158 Copynumber: 6.0 Consensus size: 158
23509639 GAAATGTACT
* *
23509649 AACAAATGGCTAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAAAAACACACTAAATTAATA
1 AACAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATAT---AAAAAACACACTAAATTAATA
*
23509714 CATTTCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACAAAAATAGTATATTTTTTGA
62 CATTTCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGA
**
23509779 AAGTAATAAAATATGAAAATAAGAAAAATACG
127 AAGTAATAAAATCCGAAAATAAGAAAAATACG
* *
23509811 AACAAAGGGCTAAAATAAGGGTTTTTTACTAAATTTATATAAAAAATACACTAAATTAATACATT
1 AACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATT
23509876 TCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGT
66 TCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGT
* *
23509941 AATAAAATCCGAAAAAAAGAAAAATACA
131 AATAAAATCCGAAAATAAGAAAAATACG
*
23509969 AACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAACACACACTAAATTAATACATT
1 AACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATT
* * * *
23510034 TCAAAATTTATGTACTAAAATCATATAAAATAAGAAAATAAGAAAATAGTATATTTTTTGAAAGT
66 TCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGT
*
23510099 AATAAAATCCGAAAATAAGAAAAATATG
131 AATAAAATCCGAAAATAAGAAAAATACG
* * *
23510127 AATAAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTATA-AAAAAACACAATAAATTAATATAT
1 AACAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACAT
23510191 TTCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAG
65 TTCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAG
*
23510256 TAATAAAATCCAAAAATAAGAAAAATACG
130 TAATAAAATCCGAAAATAAGAAAAATACG
* * * *
23510285 AATAAAGGGCCAAAATAAGGATTTTTTACTAAATTTATAAAAAAAACACAATAAATTAATACATT
1 AACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATT
*
23510350 TCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTGAAAGT
66 TCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGT
*
23510415 AATAAAATCCGAAAAAAAGAAAAATACG
131 AATAAAATCCGAAAATAAGAAAAATACG
* * *
23510443 AACAAAGGGCCAAAATAAAGGGTTTTCTACTAAATTTATATAAAAAATACACTAAAATAATACAT
1 AACAAAGGGCCAAAAT-AAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACAT
*
23510508 TTCAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAG
65 TTCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAG
23510573 TAATAAAATCCGAAAATAAGAAAAATACG
130 TAATAAAATCCGAAAATAAGAAAAATACG
23510602 AACAAA
1 AACAAA
23510608 TGGGGTGCCG
Statistics
Matches: 752, Mismatches: 42, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
157 18 0.02
158 538 0.72
159 157 0.21
161 19 0.03
162 20 0.03
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.29
Consensus pattern (158 bp):
AACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATT
TCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGT
AATAAAATCCGAAAATAAGAAAAATACG
Found at i:23512793 original size:22 final size:22
Alignment explanation
Indices: 23512750--23512809 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
23512740 GTACGGGATC
23512750 GCACTTCGGTGCCTC--TATTT
1 GCACTTCGGTGCCTCTGTATTT
23512770 GCACTTCGGTGCCTCTGTATTT
1 GCACTTCGGTGCCTCTGTATTT
23512792 GCACTAT-GGTGCCTCTGT
1 GCACT-TCGGTGCCTCTGT
23512810 TAGCATTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.41
22 21 0.57
23 1 0.03
ACGTcount: A:0.10, C:0.28, G:0.23, T:0.38
Consensus pattern (22 bp):
GCACTTCGGTGCCTCTGTATTT
Found at i:23520177 original size:14 final size:15
Alignment explanation
Indices: 23520148--23520180 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
23520138 TTTCCTTTTA
*
23520148 TTCTCTTTTTTTCTT
1 TTCTCTTTTCTTCTT
23520163 TTCTC-TTTCTTCTT
1 TTCTCTTTTCTTCTT
23520177 TTCT
1 TTCT
23520181 TGCCTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTCTTTTCTTCTT
Found at i:23520811 original size:62 final size:62
Alignment explanation
Indices: 23520745--23520888 Score: 159
Period size: 63 Copynumber: 2.3 Consensus size: 62
23520735 GGAGACAAAT
* * * *
23520745 GTGTGTCCAAGCCGTGTAACTTATTGTTTGTA-ATTTTA-GTCACACGAGCT-AGAGATACGGGC
1 GTGTGTCCAGGCCGTGTAACTCACTGTTT-TAGA-TTTAGGTCACACG-GCTCAGAGACACGGGC
* * * *
23520807 GTGTGTCCAGGCCGTATAACTCACTGTTTTAGATTTAGGGTCATACGGGTCAGGGACACGGGC
1 GTGTGTCCAGGCCGTGTAACTCACTGTTTTAGATTTA-GGTCACACGGCTCAGAGACACGGGC
23520870 GTGTGTCCAGGCCGTGTAA
1 GTGTGTCCAGGCCGTGTAA
23520889 GGGCTTGTGA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
61 6 0.09
62 28 0.41
63 35 0.51
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (62 bp):
GTGTGTCCAGGCCGTGTAACTCACTGTTTTAGATTTAGGTCACACGGCTCAGAGACACGGGC
Found at i:23528271 original size:43 final size:44
Alignment explanation
Indices: 23528214--23528296 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
23528204 TCTCAATTCA
* * *
23528214 TCATTTCATAATTCATTTCTCATCTTTTCCATTTCAATATTTTC
1 TCATCTCATAATTCATTTCTCATCTTTGCAATTTCAATATTTTC
23528258 TCATCTCAT-ATTCATTTCTCATCTTTGCAATTTCAATAT
1 TCATCTCATAATTCATTTCTCATCTTTGCAATTTCAATAT
23528297 CAATCACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 28 0.78
44 8 0.22
ACGTcount: A:0.24, C:0.23, G:0.01, T:0.52
Consensus pattern (44 bp):
TCATCTCATAATTCATTTCTCATCTTTGCAATTTCAATATTTTC
Found at i:23528989 original size:19 final size:18
Alignment explanation
Indices: 23528949--23528989 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
23528939 AATATTATAC
*
23528949 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
23528967 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
23528986 ATTT
1 ATTT
23528990 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:23538957 original size:13 final size:15
Alignment explanation
Indices: 23538927--23538958 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23538917 CCATTTCATG
23538927 CATTTCATCAATAAT
1 CATTTCATCAATAAT
23538942 CATTTCAT-AA-AAT
1 CATTTCATCAATAAT
23538955 CATT
1 CATT
23538959 ATTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (15 bp):
CATTTCATCAATAAT
Found at i:23539235 original size:20 final size:20
Alignment explanation
Indices: 23539210--23539271 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
23539200 TCAATTAAAA
23539210 TTCAAATATTATTTCACTAT
1 TTCAAATATTATTTCACTAT
*
23539230 TTCAAATCA--CTTT-A--A-
1 TTCAAAT-ATTATTTCACTAT
*
23539245 TTCAAGTATTATTTCACTAT
1 TTCAAATATTATTTCACTAT
23539265 TTCAAAT
1 TTCAAAT
23539272 CACTTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
14 1 0.03
15 6 0.19
16 4 0.13
17 1 0.03
18 1 0.03
19 4 0.13
20 13 0.42
21 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCAAATATTATTTCACTAT
Found at i:23539247 original size:35 final size:35
Alignment explanation
Indices: 23539208--23539278 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
23539198 ATTCAATTAA
23539208 AATTCAAATATTATTTCACTATTTCAAATCACTTT
1 AATTCAAATATTATTTCACTATTTCAAATCACTTT
*
23539243 AATTCAAGTATTATTTCACTATTTCAAATCACTTT
1 AATTCAAATATTATTTCACTATTTCAAATCACTTT
23539278 A
1 A
23539279 TTTTCACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.01, T:0.45
Consensus pattern (35 bp):
AATTCAAATATTATTTCACTATTTCAAATCACTTT
Found at i:23539902 original size:18 final size:18
Alignment explanation
Indices: 23539834--23539902 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
23539824 TTAGTAGGGT
*
23539834 ATTCAAATT-ATTTTTCTA
1 ATTCAAATTCACTTTTC-A
* *
23539852 TTTCAAATTCAC-TTTCT
1 ATTCAAATTCACTTTTCA
**
23539869 ATTC-AA-TCACAATTCA
1 ATTCAAATTCACTTTTCA
23539885 ATTCAAATTCACTTTTCA
1 ATTCAAATTCACTTTTCA
23539903 CTTTATAATC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
15 4 0.10
16 9 0.23
17 5 0.13
18 20 0.51
19 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCAAATTCACTTTTCA
Found at i:23539943 original size:41 final size:40
Alignment explanation
Indices: 23539859--23539936 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
23539849 CTATTTCAAA
* * * *
23539859 TTCACTTTCTATTCAATCACAATTCAATTCAAATTCACTT
1 TTCACTTTATAATCAATCACAATTCAATACAAATACACTT
*
23539899 TTCACTTTATAATCAATACACAATTCAATACCAATACA
1 TTCACTTTATAATCAAT-CACAATTCAATACAAATACA
23539937 TATTTCAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 15 0.47
41 17 0.53
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.37
Consensus pattern (40 bp):
TTCACTTTATAATCAATCACAATTCAATACAAATACACTT
Found at i:23540500 original size:11 final size:11
Alignment explanation
Indices: 23540484--23540508 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23540474 TTAAATTTTC
23540484 CTATTCAATTT
1 CTATTCAATTT
23540495 CTATTCAATTT
1 CTATTCAATTT
23540506 CTA
1 CTA
23540509 CCGTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
CTATTCAATTT
Found at i:23541038 original size:3 final size:3
Alignment explanation
Indices: 23541030--23541055 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23541020 TATATTAGTT
23541030 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
23541056 TAATATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:23542709 original size:13 final size:13
Alignment explanation
Indices: 23542691--23542727 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
23542681 ATAGGGGACA
23542691 CATGGTCGTGTCG
1 CATGGTCGTGTCG
23542704 CATGGTCGTGTCG
1 CATGGTCGTGTCG
23542717 CATGGTCGTGT
1 CATGGTCGTGT
23542728 GTCACACACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.08, C:0.22, G:0.38, T:0.32
Consensus pattern (13 bp):
CATGGTCGTGTCG
Found at i:23542934 original size:91 final size:91
Alignment explanation
Indices: 23542788--23542972 Score: 334
Period size: 91 Copynumber: 2.0 Consensus size: 91
23542778 AATTGGCCAA
* **
23542788 AATCAAGCCATTTATTTCACCCATTCAAGCATGAACCTACAAGAAACTTGTACATATAACCAAGA
1 AATCAAGCCATTTATTTCACCCATTCAAGCATGAACCTACAAAAAACTTACACATATAACCAAGA
23542853 CCTTAAAATATTCCCAAATTATGTAT
66 CCTTAAAATATTCCCAAATTATGTAT
*
23542879 AATCAAGCCATTTCTTTCACCCATTCAAGCATGAACCTACAAAAAACTTACACATATAACCAAGA
1 AATCAAGCCATTTATTTCACCCATTCAAGCATGAACCTACAAAAAACTTACACATATAACCAAGA
23542944 CCTTAAAATATTCCCAAATTATGTAT
66 CCTTAAAATATTCCCAAATTATGTAT
23542970 AAT
1 AAT
23542973 AAGACCAATT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (91 bp):
AATCAAGCCATTTATTTCACCCATTCAAGCATGAACCTACAAAAAACTTACACATATAACCAAGA
CCTTAAAATATTCCCAAATTATGTAT
Found at i:23557839 original size:22 final size:22
Alignment explanation
Indices: 23557811--23557855 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
23557801 GGACTGAGCA
* *
23557811 ATTAGGCTAAAGAATTCCAAAG
1 ATTAGGCCAAAGAAATCCAAAG
23557833 ATTAGGCCAAAGAAATCCAAAG
1 ATTAGGCCAAAGAAATCCAAAG
23557855 A
1 A
23557856 GAAGCACACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (22 bp):
ATTAGGCCAAAGAAATCCAAAG
Found at i:23560230 original size:16 final size:15
Alignment explanation
Indices: 23560205--23560234 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23560195 ATTAAATTAA
23560205 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
23560220 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
23560235 ATGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:23563426 original size:49 final size:49
Alignment explanation
Indices: 23563243--23563486 Score: 190
Period size: 50 Copynumber: 4.8 Consensus size: 49
23563233 GATAATAACA
** ** *
23563243 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT-GGATGT-TTTTGTAC--
1 TGCC-AAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** *
23563290 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAA-GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
23563340 TGCCCATGCCATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TG-CCAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
23563390 TGCCAAGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAGTCTCAATGA
1 TGCCAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--A-TCTC---GG
* *
23563445 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 TGCCAA-GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23563487 TTACCCAAAT
Statistics
Matches: 159, Mismatches: 25, Indels: 17
0.79 0.12 0.08
Matches are distributed among these distances:
46 2 0.01
47 28 0.18
48 4 0.03
49 38 0.24
50 40 0.25
51 4 0.03
52 4 0.03
55 7 0.04
56 32 0.20
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (49 bp):
TGCCAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:23564293 original size:17 final size:17
Alignment explanation
Indices: 23564271--23564308 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
23564261 TGGCTTCCTT
23564271 CAAATTTCGGCAGCAAG
1 CAAATTTCGGCAGCAAG
* *
23564288 CAAATTTTGGTAGCAAG
1 CAAATTTCGGCAGCAAG
23564305 CAAA
1 CAAA
23564309 GATGATGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (17 bp):
CAAATTTCGGCAGCAAG
Found at i:23570984 original size:50 final size:50
Alignment explanation
Indices: 23570798--23571044 Score: 201
Period size: 50 Copynumber: 4.8 Consensus size: 50
23570788 GATAATAACA
* * ** * ** *
23570798 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTTTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** * *
23570847 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
23570897 TGCCCATGCCATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
23570947 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAGTCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--A-TCTC---GG
*
23571003 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23571045 TCACCCAAAT
Statistics
Matches: 159, Mismatches: 31, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
49 38 0.24
50 77 0.48
52 1 0.01
53 4 0.03
56 39 0.25
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:23573446 original size:138 final size:137
Alignment explanation
Indices: 23573263--23573542 Score: 409
Period size: 138 Copynumber: 2.0 Consensus size: 137
23573253 GAGAACATAT
* * * *
23573263 ATATAATTAATATATGAATTTGATTCATATAATATATTAATTGTATATGTTTTACCAAATTTAGT
1 ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAGT
* * *
23573328 AATATAAATAATTATATTAATTAATTTCGATCC-AAATATAAAAGACATGAAAATTAACATTCTT
66 AATATAAACAATTATATTAATTAATTTCG-GCCAAAATATAAAAGACATG-AAATTAACATTATT
*
23573392 TTGGAAAGA
129 TTGAAAAGA
* *
23573401 ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATTTATT
1 ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAGT
* * * *
23573466 AATATAAACAATTATATTAATTAATTTTGGCCAAAATATAAAAGATATGGAATTAATATTATTTT
66 AATATAAACAATTATATTAATTAATTTCGGCCAAAATATAAAAGACATGAAATTAACATTATTTT
23573531 GAAAAGA
131 GAAAAGA
23573538 ATATA
1 ATATA
23573543 CTTCCTGTTT
Statistics
Matches: 127, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
137 26 0.20
138 101 0.80
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (137 bp):
ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAGT
AATATAAACAATTATATTAATTAATTTCGGCCAAAATATAAAAGACATGAAATTAACATTATTTT
GAAAAGA
Found at i:23573681 original size:74 final size:75
Alignment explanation
Indices: 23573560--23573727 Score: 232
Period size: 74 Copynumber: 2.3 Consensus size: 75
23573550 TTTTTAACTT
* * * *
23573560 TCTATTAATAAGAGAATAATCTTATATTCTTTTAGAAAATATATAATTCTTTTTTCTAACTTTCC
1 TCTATTAATAAGAGAATAATCCTACATTATTTTAGAAAATATATAATTCATTTTTCTAACTTTCC
23573625 ATTT-CATTC
66 ATTTGCATTC
* * *
23573634 TCTATTAATAAGGGAATAATCCTACATTATTTTCGAAAGA-ATATAATTCATTTTTCTAACTTTT
1 TCTATTAATAAGAGAATAATCCTACATTATTTTAGAAA-ATATATAATTCATTTTTCTAACTTTC
*
23573698 CATTTGCCTTC
65 CATTTGCATTC
*
23573709 TCTATTAATAAGAGGATAA
1 TCTATTAATAAGAGAATAA
23573728 AAGAGGATAA
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
74 60 0.73
75 22 0.27
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.45
Consensus pattern (75 bp):
TCTATTAATAAGAGAATAATCCTACATTATTTTAGAAAATATATAATTCATTTTTCTAACTTTCC
ATTTGCATTC
Found at i:23576185 original size:20 final size:20
Alignment explanation
Indices: 23576160--23576198 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23576150 TTGCTTGTTC
23576160 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
23576180 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
23576199 AAATAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:23576543 original size:50 final size:50
Alignment explanation
Indices: 23576489--23576595 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
23576479 ACATGAGAGT
* ***
23576489 TCTCATATCGGTGCCCTTGCCATGTCCAAGACATGGTCTTACGGGGGACC
1 TCTCATATAGGTGCCAACGCCATGTCCAAGACATGGTCTTACGGGGGACC
* * * *
23576539 TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCTTATGTGGGACC
1 TCTCATATAGGTGCCAACGCCATGTCCAAGACATGGTCTTACGGGGGACC
*
23576589 TTTCATA
1 TCTCATA
23576596 ACCTCAATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.28
Consensus pattern (50 bp):
TCTCATATAGGTGCCAACGCCATGTCCAAGACATGGTCTTACGGGGGACC
Found at i:23585641 original size:23 final size:20
Alignment explanation
Indices: 23585614--23585656 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
23585604 TAAACATAAG
23585614 CATTTTAGTTAAAGTTTTAGTTA
1 CATTTTAG-T-AAG-TTTAGTTA
23585637 CATTTTAGTAAGTTTAGTTA
1 CATTTTAGTAAGTTTAGTTA
23585657 AGTTTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 1 0.05
23 8 0.40
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (20 bp):
CATTTTAGTAAGTTTAGTTA
Found at i:23587536 original size:167 final size:165
Alignment explanation
Indices: 23587238--23587571 Score: 623
Period size: 167 Copynumber: 2.0 Consensus size: 165
23587228 GACCCGAAAC
23587238 AACTAGATTCTGAAGAAATAAAAGACACTTTTGTTGACGAGAAATTGTTCAGAGTCGATATCCAC
1 AACTAGATTCTGAAGAAATAAAAGACACTTTTGTTGACGAGAAATTGTTCAGAGTCGATATCCAC
23587303 AAAAAAAGGTTAAGAAATAATGGCACTCTATGGTATGTTGATTATGTAAACTATATTGCTAAAGG
66 AAAAAAAGGTTAAGAAATAATGGCACTCTATGGTATGTTGATTATGTAAACTATATTGCTAAAGG
23587368 TGTCTTTCCACCACAATTATCATGGAAACAAAAGA
131 TGTCTTTCCACCACAATTATCATGGAAACAAAAGA
* *
23587403 AACTGGATTCTGAAGAAATAAAAGAGACTTTTGTTGACGAGAAATTGTTCAGAGTCGATATCCAC
1 AACTAGATTCTGAAGAAATAAAAGACACTTTTGTTGACGAGAAATTGTTCAGAGTCGATATCCAC
*
23587468 AAAAAAAAAGGTTAAGAAATAATGGCACTCTATGGTATGTTGATTATGTAAACTATATTGTTAAA
66 --AAAAAAAGGTTAAGAAATAATGGCACTCTATGGTATGTTGATTATGTAAACTATATTGCTAAA
23587533 GGTGTCTTTCCACCACAATTATCATGGAAACAAAAGA
129 GGTGTCTTTCCACCACAATTATCATGGAAACAAAAGA
23587570 AA
1 AA
23587572 ATGATCATAA
Statistics
Matches: 164, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
165 63 0.38
167 101 0.62
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (165 bp):
AACTAGATTCTGAAGAAATAAAAGACACTTTTGTTGACGAGAAATTGTTCAGAGTCGATATCCAC
AAAAAAAGGTTAAGAAATAATGGCACTCTATGGTATGTTGATTATGTAAACTATATTGCTAAAGG
TGTCTTTCCACCACAATTATCATGGAAACAAAAGA
Found at i:23591025 original size:14 final size:13
Alignment explanation
Indices: 23591006--23591039 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
23590996 TAAACAATGT
23591006 TAAAGAAATAGATA
1 TAAAGAAATAGA-A
23591020 TAAAG-AATAGAA
1 TAAAGAAATAGAA
23591032 TAAAGAAA
1 TAAAGAAA
23591040 AAGAGATGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.32
13 8 0.42
14 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.18
Consensus pattern (13 bp):
TAAAGAAATAGAA
Found at i:23591036 original size:12 final size:13
Alignment explanation
Indices: 23591006--23591038 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
23590996 TAAACAATGT
23591006 TAAAGAAATAGATA
1 TAAAG-AATAGATA
23591020 TAAAGAATAGA-A
1 TAAAGAATAGATA
23591032 TAAAGAA
1 TAAAGAA
23591039 AAAGAGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 6 0.32
14 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (13 bp):
TAAAGAATAGATA
Found at i:23596539 original size:40 final size:40
Alignment explanation
Indices: 23596495--23596642 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
23596485 GCAAACACAT
* * *
23596495 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
23596535 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
23596575 TTGCCTTCGAGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
23596615 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
23596643 TCCAATGCTC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Done.