Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000028.1 Hibiscus syriacus cultivar Beakdansim tig00000047_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 109176
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:732 original size:198 final size:197
Alignment explanation
Indices: 278--824 Score: 807
Period size: 196 Copynumber: 2.8 Consensus size: 197
268 TATTTTTGGG
278 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGACCAAAA--ATCGACACAAAATT
1 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGACCAAAAGTATCGACACAAAATT
*
341 AAAAA-TGTCGATACATGTTGTAGA-CTATTCTCTCATAAAATGGTATA-TTATACCGGTTTACA
66 AAAAAGTGTCGATACATGTTGT-GACCTATTCTCTCATAAAACGGTATATTTATACCGG-TTACA
* * *
403 TTGTAAATTTACCTATTACATTATAATTATGGGTTTGATGTTTTTGGGGTCGGCACTTTTTGAAA
129 TTGTAAATTTACCTATTACATTATAATTATGGGTTTGATGTTTTTGGGATCGACACGTTTTGAAA
468 ATGT
194 ATGT
*
472 ATCGACACTTTAT--GTTCACCCTTTTTTGGAAT-CATTCTGGACCAAAAGTATCGACACAAAAT
1 ATCGACACTTTATGCGTTCACCC-TTTTTGGCATCCATTCTGGACCAAAAGTATCGACACAAAAT
* *
534 TAAAAAGTATCGATACATGTTGTTGACCTA-TCTCTCATAAAACCGGTATATTTATACCGGTTAT
65 TAAAAAGTGTCGATACATGTTG-TGACCTATTCTCTCATAAAA-CGGTATATTTATACCGGTTAC
598 ATTGTAAATTTACCTATTACATTATAATTATGGGTTTTGATGTTTTTGGGATCGACACGTTTTGA
128 ATTGTAAATTTACCTATTACATTATAATTATGGG-TTTGATGTTTTTGGGATCGACACGTTTTG-
663 AAAATGT
191 AAAATGT
* *
670 ATCGACACTTTATGCGTTCACCC-TTTTGGCATCCATT-AGGACCAAAAGTATCGACGCAAAATT
1 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGACCAAAAGTATCGACACAAAATT
* *
733 AAAATGTGTCGATACATGTTG-AACCTATTCTCTCATAAAATCGGTATATTTATACC-GTTACAT
66 AAAAAGTGTCGATACATGTTGTGACCTATTCTCTCATAAAA-CGGTATATTTATACCGGTTACAT
* *
796 TGAAAATTTACCTA-TACATTATACTTATG
130 TGTAAATTTACCTATTACATTATAATTATG
825 ACGCATATGT
Statistics
Matches: 322, Mismatches: 17, Indels: 27
0.88 0.05 0.07
Matches are distributed among these distances:
192 23 0.07
193 9 0.03
194 32 0.10
195 42 0.13
196 71 0.22
197 62 0.19
198 71 0.22
199 4 0.01
200 8 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (197 bp):
ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGACCAAAAGTATCGACACAAAATT
AAAAAGTGTCGATACATGTTGTGACCTATTCTCTCATAAAACGGTATATTTATACCGGTTACATT
GTAAATTTACCTATTACATTATAATTATGGGTTTGATGTTTTTGGGATCGACACGTTTTGAAAAT
GT
Found at i:1128 original size:19 final size:19
Alignment explanation
Indices: 1104--1148 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
1094 TTACATTCAC
1104 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
1123 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
1142 ATA-AAAA
1 ATACAAAA
1149 AATTACCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCTT
Found at i:2858 original size:33 final size:33
Alignment explanation
Indices: 2821--2886 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2811 TATCTTAAGA
* *
2821 TCACCTCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
* *
2854 TCACCCCTCAACACCTCTACTTCTTTTACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
2887 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.44, G:0.00, T:0.33
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:2945 original size:21 final size:21
Alignment explanation
Indices: 2920--2963 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2910 CCCCTTATGC
*
2920 CTCTCAAGTATATCTTCGACT
1 CTCTCAAGTATATCTTCAACT
* *
2941 CTCTCAAGTTTCTCTTCAACT
1 CTCTCAAGTATATCTTCAACT
2962 CT
1 CT
2964 TAATTATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.32, G:0.07, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTATATCTTCAACT
Found at i:3366 original size:19 final size:22
Alignment explanation
Indices: 3338--3392 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
3328 GCAACCTATA
3338 TTTATAATAAAATT-TA-TA-AT
1 TTTAT-ATAAAATTATACTACAT
3358 TTTATATAATAATTATACTATCAT
1 TTTATATAA-AATTATACTA-CAT
3382 TTTATATAAAA
1 TTTATATAAAA
3393 GCACAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.13
20 9 0.30
21 2 0.07
22 2 0.07
23 2 0.07
24 11 0.37
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTATATAAAATTATACTACAT
Found at i:5456 original size:183 final size:182
Alignment explanation
Indices: 5141--5616 Score: 690
Period size: 183 Copynumber: 2.6 Consensus size: 182
5131 CGTACTTATG
* * *
5141 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACGGGTTTTATCATTTTGATACCAGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCGGTTT
*
5206 TATCATA-TTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTATAT
66 TATCATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTATAT
5270 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATT
131 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATT
* * * *
5322 AAAGTACCGACACTTTAAAAATATCCGGTAGCTCTTTACCGGTTTTATCATTTCGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCGG-TT
* *
5387 TTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTA
65 TTATCATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTATA
* *
5452 TAGGCGTTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
130 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATT
* * * * *
5505 AAAGTATCGACA-TGTTCAATATATCCGGTAAG-GATTTATCGGTATTATCTTTTCG-TGACAGG
1 AAAGTATCGACACT-TTCAATATATCCGGT-AGCGCTTTACCGGTTTTATCATTTCGAT-ACCGG
* * * *
5567 TTTTATCGATATTTTTACATGTTATATTGATATGGATCGATACTTTTTTA
63 TTTTATC-ATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTA
5617 ATTTGGATCG
Statistics
Matches: 263, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
181 55 0.21
182 17 0.06
183 189 0.72
184 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCGGTTT
TATCATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTATAT
AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATT
Found at i:11889 original size:55 final size:55
Alignment explanation
Indices: 11830--11936 Score: 205
Period size: 55 Copynumber: 1.9 Consensus size: 55
11820 AAGTCCAACG
11830 GCTTTAAAAAAAGGAAATAAAAATTTTAAAATTAATTATAAAAACAAAAAAAATA
1 GCTTTAAAAAAAGGAAATAAAAATTTTAAAATTAATTATAAAAACAAAAAAAATA
*
11885 GCTTTAAAAAAAGGAAATAAAAATTTTAAAATTAGTTATAAAAACAAAAAAA
1 GCTTTAAAAAAAGGAAATAAAAATTTTAAAATTAATTATAAAAACAAAAAAA
11937 TTAACATTCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (55 bp):
GCTTTAAAAAAAGGAAATAAAAATTTTAAAATTAATTATAAAAACAAAAAAAATA
Found at i:14653 original size:49 final size:48
Alignment explanation
Indices: 14591--14684 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 48
14581 ATATTTACAC
* * *
14591 TTATATATGAATTATATCGATTTAAACTATAATAAATTTAAAAAAAATA
1 TTATATATAAATTATATCAATTTAAA-TATAATAAAATTAAAAAAAATA
*
14640 TTATATATAAATTATATCAATTTAAATATAATAAAATTATAAAAA
1 TTATATATAAATTATATCAATTTAAATATAATAAAATTAAAAAAA
14685 TATAAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 17 0.41
49 24 0.59
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.39
Consensus pattern (48 bp):
TTATATATAAATTATATCAATTTAAATATAATAAAATTAAAAAAAATA
Found at i:14690 original size:25 final size:25
Alignment explanation
Indices: 14613--14692 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
14603 TATATCGATT
* *
14613 TAAACTATAATAAATTTA-AAAAAAA
1 TAAA-TATAATAAAATTATAAAAATA
* ** *
14638 T-ATTAT-ATATAAATTATATCAATT
1 TAAATATAATA-AAATTATAAAAATA
14662 TAAATATAATAAAATTATAAAAATA
1 TAAATATAATAAAATTATAAAAATA
14687 TAAATA
1 TAAATA
14693 AAAATATATT
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
22 3 0.07
23 8 0.20
24 5 0.12
25 22 0.54
26 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (25 bp):
TAAATATAATAAAATTATAAAAATA
Found at i:14694 original size:20 final size:19
Alignment explanation
Indices: 14663--14700 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
14653 ATATCAATTT
*
14663 AAATATAATAAAATTATAA
1 AAATATAATAAAAATATAA
14682 AAATATAAATAAAAATATA
1 AAATAT-AATAAAAATATA
14701 TTTTATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATATAATAAAAATATAA
Found at i:22703 original size:23 final size:23
Alignment explanation
Indices: 22677--22724 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
22667 AGCTCGTATA
* * *
22677 AAATGTACATAAGTGCCACGTAG
1 AAATGCACAGAAGTGCCACATAG
*
22700 AAATGCACCGAAGTGCCACATAG
1 AAATGCACAGAAGTGCCACATAG
22723 AA
1 AA
22725 TATCCCGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.17
Consensus pattern (23 bp):
AAATGCACAGAAGTGCCACATAG
Found at i:24656 original size:24 final size:24
Alignment explanation
Indices: 24628--24674 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24618 TTTTTATATA
*
24628 TAATAATACTACATATTTAATTAT
1 TAATAATACTACATATTAAATTAT
* *
24652 TAATAATTCTATATATTAAATTA
1 TAATAATACTACATATTAAATTA
24675 AACTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (24 bp):
TAATAATACTACATATTAAATTAT
Found at i:25958 original size:25 final size:25
Alignment explanation
Indices: 25924--25979 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
25914 AGTTATGCAC
*
25924 AAATGCTATCACAACAGCTCATATA
1 AAATGCTATCACAACAACTCATATA
* *
25949 AAATGTTATCACAACAACTCGTATA
1 AAATGCTATCACAACAACTCATATA
25974 AAATGC
1 AAATGC
25980 ACCGAAGTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (25 bp):
AAATGCTATCACAACAACTCATATA
Found at i:25999 original size:22 final size:22
Alignment explanation
Indices: 25971--26017 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
25961 AACAACTCGT
25971 ATAAAATGCACCGAAGTG-CCAC
1 ATAAAATGCACCGAA-TGACCAC
*
25993 ATAAAATGTACCGAATGACCAC
1 ATAAAATGCACCGAATGACCAC
26015 ATA
1 ATA
26018 TATATCCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (22 bp):
ATAAAATGCACCGAATGACCAC
Found at i:34101 original size:148 final size:149
Alignment explanation
Indices: 33832--34137 Score: 587
Period size: 148 Copynumber: 2.1 Consensus size: 149
33822 ATTTAACCCG
*
33832 AAAATTTATCCAAACTTTGCTAACTTTCTCATTTAACACTTCTTTAAAGCTTTTAAACTCATTTA
1 AAAATTTATCCAAACTTTGCTAACTTTCTCATCTAACACTTCTTTAAAGCTTTTAAACTCATTTA
33897 TACTCTTACAAACCAACTTATTTCACTTTAGTACTTCTAAACATCTAAATTCTCAATAGCTTACT
66 TACTCTTACAAACCAACTTATTTCACTTTAGTACTTCTAAACATCTAAATTCTCAATAGCTTACT
33962 TGGAATCAGAAATCATACC
131 TGGAATCAGAAATCATACC
33981 -AAATTTATCCAAACTTTGCTAACTTTCTCATCTAACACTTCTTTAAAGCTTTTAAACTCATTTA
1 AAAATTTATCCAAACTTTGCTAACTTTCTCATCTAACACTTCTTTAAAGCTTTTAAACTCATTTA
*
34045 TACTCTTACAACCCAACTTATTTCACTTTAGTACTTCTAAACATCTAAATTCTCAATAGCTTACT
66 TACTCTTACAAACCAACTTATTTCACTTTAGTACTTCTAAACATCTAAATTCTCAATAGCTTACT
34110 TGGAATCAGAAATCATACC
131 TGGAATCAGAAATCATACC
34129 AAAATTTAT
1 AAAATTTAT
34138 ATCAAAAAAT
Statistics
Matches: 154, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
148 146 0.95
149 8 0.05
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (149 bp):
AAAATTTATCCAAACTTTGCTAACTTTCTCATCTAACACTTCTTTAAAGCTTTTAAACTCATTTA
TACTCTTACAAACCAACTTATTTCACTTTAGTACTTCTAAACATCTAAATTCTCAATAGCTTACT
TGGAATCAGAAATCATACC
Found at i:39303 original size:3 final size:3
Alignment explanation
Indices: 39295--39319 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
39285 GAATTGGGTT
39295 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
39320 ATTTTAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:46420 original size:176 final size:178
Alignment explanation
Indices: 46116--46473 Score: 598
Period size: 176 Copynumber: 2.0 Consensus size: 178
46106 ATAAAAATTA
*
46116 AATATTTTTTAATTCAAAAAAACAGTTTCTAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTTTAATTCAAAAAAACAGTTTCTAATTAATTTAAATAATATAAAATTATAAAATAAAA
46181 AATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGAATCTTAAAT
66 AATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGAATCTTAAAT
* * *
46246 TATTAATAGGGTTTTAAATGGT-TTGAGCTGAGTCCATATGTTATATAT
131 TATTAATAGAGTTTTAAATGGTCTGGA-CTGAGCCCATATGTTATATAT
46294 AATA-TTTTTAATTCAAAAAAACAGTTTAC-AATTAATTTAAATAATATAAAATTATAAAAT-AA
1 AATATTTTTTAATTCAAAAAAACAGTTT-CTAATTAATTTAAATAATATAAAATTATAAAATAAA
* * *
46356 AAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAATTTATTGGATCTTAAA
65 AAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGAATCTTAAA
*
46421 TTATTAATTGAGTTTTAAATGGTCTGGACTGAGCCCATATGTTATATAT
130 TTATTAATAGAGTTTTAAATGGTCTGGACTGAGCCCATATGTTATATAT
46470 AATA
1 AATA
46474 ATATATTTAA
Statistics
Matches: 170, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
176 109 0.64
177 56 0.33
178 5 0.03
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (178 bp):
AATATTTTTTAATTCAAAAAAACAGTTTCTAATTAATTTAAATAATATAAAATTATAAAATAAAA
AATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGAATCTTAAAT
TATTAATAGAGTTTTAAATGGTCTGGACTGAGCCCATATGTTATATAT
Found at i:50956 original size:142 final size:143
Alignment explanation
Indices: 50698--51308 Score: 764
Period size: 142 Copynumber: 4.3 Consensus size: 143
50688 AAGTTTGTGA
* * * * * *** *
50698 ACTGAAAAGTTTCTACCGTGGTGTATTATTTTGCCCATGAGAAATACATGTTTTTTCTGGTATGA
1 ACTGAAAAGTTTCTACCATGGTGCATTATTTTGCCTATGAGGAATGCA-CACTTTTCTGATATGA
* *
50763 AGTGATATATCACCACTGAAAAATTTTCTAAAATAAATTGATATATCACTGAAAAGTTGTTGAAG
65 AGTGATATATCACCACTGAAAAATTTTCTGAAATGAATTGATATATCACTGAAAAGTTGTTGAAG
50828 ATGATTAATTGGGC
130 ATGATTAATTGGGC
* * * * *
50842 ACTGAAAAGTTTCTGCCAAGGTGTATTATTTTACCTATGAGGAATGCACACTTTT-TGATATAAA
1 ACTGAAAAGTTTCTACCATGGTGCATTATTTTGCCTATGAGGAATGCACACTTTTCTGATATGAA
* * *
50906 ATGATATATCACCACTGAAAAGTTTTCTGAAATTAATTGATATATCACTGAAAAGTTGTTGAAGA
66 GTGATATATCACCACTGAAAAATTTTCTGAAATGAATTGATATATCACTGAAAAGTTGTTGAAGA
* *
50971 TAATTAATTGAGC
131 TGATTAATTGGGC
* * * *
50984 ACTGAAAAGTTTCTATCATGGTGTATTATTTTGCCTATGTA-GAATGCAC-GTTTTCTAATATGA
1 ACTGAAAAGTTTCTACCATGGTGCATTATTTTGCCTATG-AGGAATGCACACTTTTCTGATATGA
* * * * *
51047 AGTGATATATCACCACTGAAAAGTTTTTTGAAATGAGTTAATATATCACTGAAAAGTTGCTGAAG
65 AGTGATATATCACCACTGAAAAATTTTCTGAAATGAATTGATATATCACTGAAAAGTTGTTGAAG
* *
51112 ATGATTAATTAGGT
130 ATGATTAATTGGGC
* * * * *
51126 ATTGAAATGTTT-TAACCATGCTGCATTATTTTGCCTATAAGGAATGCACATTTTTCTGATATGA
1 ACTGAAAAGTTTCT-ACCATGGTGCATTATTTTGCCTATGAGGAATGCACACTTTTCTGATATGA
* * * * *
51190 AGTGATATATCACCAATGAAAAATTTTCTGAAATGAGTTGATATATCACTAAAAAGTTGATCAAG
65 AGTGATATATCACCACTGAAAAATTTTCTGAAATGAATTGATATATCACTGAAAAGTTGTTGAAG
*
51255 ATGATTAATT-GAC
130 ATGATTAATTGGGC
*
51268 ACTGAAAAGTTTCTTCCATGGTGCATTATTTTGCCTATGAG
1 ACTGAAAAGTTTCTACCATGGTGCATTATTTTGCCTATGAG
51309 ATGATATTTC
Statistics
Matches: 404, Mismatches: 57, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
141 6 0.01
142 271 0.67
143 86 0.21
144 41 0.10
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (143 bp):
ACTGAAAAGTTTCTACCATGGTGCATTATTTTGCCTATGAGGAATGCACACTTTTCTGATATGAA
GTGATATATCACCACTGAAAAATTTTCTGAAATGAATTGATATATCACTGAAAAGTTGTTGAAGA
TGATTAATTGGGC
Found at i:50960 original size:33 final size:32
Alignment explanation
Indices: 50918--50995 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
50908 GATATATCAC
* *
50918 CACTGAAAAGTTTTCTGAA-ATTAATTGATAT-AT
1 CACTGAAAAGTTTT-TGAAGA-TAATTAAT-TGAG
*
50951 CACTGAAAAGTTGTTGAAGATAATTAATTGAG
1 CACTGAAAAGTTTTTGAAGATAATTAATTGAG
50983 CACTGAAAAGTTT
1 CACTGAAAAGTTT
50996 CTATCATGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 1 0.03
32 24 0.62
33 14 0.36
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.35
Consensus pattern (32 bp):
CACTGAAAAGTTTTTGAAGATAATTAATTGAG
Found at i:55096 original size:15 final size:15
Alignment explanation
Indices: 55061--55102 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
55051 ACATTTTTAC
55061 AATATAAAATAATTAA
1 AATATAAAAT-ATTAA
* *
55077 TATATTAAATATTAA
1 AATATAAAATATTAA
55092 AATATAAAATA
1 AATATAAAATA
55103 ATTTTAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:56920 original size:14 final size:14
Alignment explanation
Indices: 56898--56930 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
56888 ATACATAACT
*
56898 TTAATTTAAATATA
1 TTAAATTAAATATA
56912 TTAAATTAAATATA
1 TTAAATTAAATATA
56926 TTAAA
1 TTAAA
56931 ATCTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAATTAAATATA
Found at i:56938 original size:22 final size:23
Alignment explanation
Indices: 56903--56947 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
56893 TAACTTTAAT
56903 TTAAATATATTAAATTAAATATA
1 TTAAATATATTAAATTAAATATA
* *
56926 TTAAA-ATCTTAAATTAATTATA
1 TTAAATATATTAAATTAAATATA
56948 AATAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAAATATATTAAATTAAATATA
Found at i:57835 original size:14 final size:14
Alignment explanation
Indices: 57799--57837 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
57789 TGGTTTTTTA
*
57799 GAAATTGAATTGTG
1 GAAATTGAATTCTG
*
57813 GAATTTGAATTCTG
1 GAAATTGAATTCTG
*
57827 GAAAATGAATT
1 GAAATTGAATT
57838 ACATTTCTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (14 bp):
GAAATTGAATTCTG
Found at i:57880 original size:14 final size:14
Alignment explanation
Indices: 57848--57881 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57838 ACATTTCTCG
*
57848 AAAACGTTTTCCGA
1 AAAATGTTTTCCGA
*
57862 AAAATGTTTTCCGT
1 AAAATGTTTTCCGA
57876 AAAATG
1 AAAATG
57882 AATTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (14 bp):
AAAATGTTTTCCGA
Found at i:58060 original size:23 final size:23
Alignment explanation
Indices: 58012--58060 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
58002 ATACAATAAA
*
58012 TAATATTATTTTATTGTAAAACT
1 TAATATTATTTTATTGTAAAAAT
58035 TAATATTATTATT-TT-TAAAATAT
1 TAATATTATT-TTATTGTAAAA-AT
58058 TAA
1 TAA
58061 ATAATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
23 16 0.70
24 2 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TAATATTATTTTATTGTAAAAAT
Found at i:58069 original size:26 final size:27
Alignment explanation
Indices: 58008--58085 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 27
57998 TTAAATACAA
*
58008 TAAATAATATTATTTTATT-GTAAA-ACT
1 TAAATAATATTA-TTTATTATTAAATA-T
*
58035 T-AATATTATTATTT-TTA--AAATAT
1 TAAATAATATTATTTATTATTAAATAT
58058 TAAATAAT-TTATTTATTATTAAATAT
1 TAAATAATATTATTTATTATTAAATAT
58084 TA
1 TA
58086 TTTTTATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
23 11 0.26
24 11 0.26
25 3 0.07
26 17 0.40
27 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (27 bp):
TAAATAATATTATTTATTATTAAATAT
Found at i:58091 original size:19 final size:19
Alignment explanation
Indices: 58041--58092 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
58031 AACTTAATAT
*
58041 TATTATTTTTAAAATATTAAA
1 TATTATTTTT--ATTATTAAA
*
58062 TAATT-TATTTATTATTAAA
1 T-ATTATTTTTATTATTAAA
58081 TATTATTTTTAT
1 TATTATTTTTAT
58093 AATTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.12
19 15 0.58
21 5 0.19
22 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATTTTTATTATTAAA
Found at i:58158 original size:26 final size:27
Alignment explanation
Indices: 58107--58158 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
58097 TTATTAATAA
* * *
58107 AAATAAAAATATTGGTATATTTTATTG
1 AAATAAAAATATTGATAAATTATATTG
58134 AAATAAAAATATT-ATAAATTATATT
1 AAATAAAAATATTGATAAATTATATT
58159 AATTATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (27 bp):
AAATAAAAATATTGATAAATTATATTG
Found at i:58435 original size:22 final size:23
Alignment explanation
Indices: 58407--58453 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
58397 TTGATTATTT
58407 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
58429 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
58452 TA
1 TA
58454 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:58458 original size:22 final size:22
Alignment explanation
Indices: 58415--58458 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
58405 TTTATTATAA
*
58415 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
58437 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
58459 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:58758 original size:42 final size:42
Alignment explanation
Indices: 58695--58804 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 42
58685 AAATACTGGG
* *
58695 AAACATTTTTCGGAAAACGAATTACGTGAAACAAACAC-GAGA
1 AAACATTTTCCGGAAAACGAATTACGTAAAACAAACACGGA-A
* *
58737 AAATATTTTCCGGAAAACGAATTACGTAAAATAAACACGGAA
1 AAACATTTTCCGGAAAACGAATTACGTAAAACAAACACGGAA
58779 AAACATTTTCC-GAAATACGAATTACG
1 AAACATTTTCCGGAAA-ACGAATTACG
58805 GTCTAATCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
41 4 0.07
42 55 0.90
43 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (42 bp):
AAACATTTTCCGGAAAACGAATTACGTAAAACAAACACGGAA
Found at i:60492 original size:236 final size:237
Alignment explanation
Indices: 60066--60515 Score: 812
Period size: 236 Copynumber: 1.9 Consensus size: 237
60056 TCCCAGGCTT
*
60066 CTTAAAATAATAGGTCGATGGATGAAGTGTCAAGAAGATTCAAGTACACTTGCGATCCTTTTTAT
1 CTTAAAATAATAGGTCGATGGATGAAGTGCCAAGAAGATTCAAGTACACTTGCGATCCTTTTTAT
* *
60131 ATCTGTAAAGCATTCTGAGATTCATTATTACTTAAACAAAAGCCATGAGGAAGTTTAATGCTGAA
66 ATCTGTAAAGCATTCTGAGATTCATTAATACATAAACAAAAGCCATGAGGAAGTTTAATGCTGAA
*
60196 ATTCACATAACACCTCCACGACAAAATTATTTGTACGAACTCCAATAGATGCATAGAAAGTAGAT
131 ATTCACATAACACCTCCACGACAAAATTATTTGTACGAACTCCAATAGATGCAGAGAAAGTAGAT
60261 TAACAGGTTCTCTATATATGAATAAACATTAGGGAGTCGAAA
196 TAACAGGTTCTCTATATATGAATAAACATTAGGGAGTCGAAA
* *
60303 CTTAAAATAATAGGTCGATGGATGAAGTGCCAAGAAGATTC-AGTACACTTGTGATCCTTTTTGT
1 CTTAAAATAATAGGTCGATGGATGAAGTGCCAAGAAGATTCAAGTACACTTGCGATCCTTTTTAT
*
60367 ATCTGTAAAGCATTCTGAGATTCATTAATACATAAACAAAAGCCATGAGGAAGTTTAATGTTGAA
66 ATCTGTAAAGCATTCTGAGATTCATTAATACATAAACAAAAGCCATGAGGAAGTTTAATGCTGAA
* *
60432 ATTCACATAACACCTCCACGACAAAATTATTTGTACGAACTCCTATAGGTGCAGAGAAAGTAGAT
131 ATTCACATAACACCTCCACGACAAAATTATTTGTACGAACTCCAATAGATGCAGAGAAAGTAGAT
60497 TAACAGGTTCTCTATATAT
196 TAACAGGTTCTCTATATAT
60516 AAATTATTTG
Statistics
Matches: 204, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
236 164 0.80
237 40 0.20
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (237 bp):
CTTAAAATAATAGGTCGATGGATGAAGTGCCAAGAAGATTCAAGTACACTTGCGATCCTTTTTAT
ATCTGTAAAGCATTCTGAGATTCATTAATACATAAACAAAAGCCATGAGGAAGTTTAATGCTGAA
ATTCACATAACACCTCCACGACAAAATTATTTGTACGAACTCCAATAGATGCAGAGAAAGTAGAT
TAACAGGTTCTCTATATATGAATAAACATTAGGGAGTCGAAA
Found at i:60981 original size:16 final size:17
Alignment explanation
Indices: 60960--60992 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
60950 TTTTTTTTAG
60960 AATTCGGTTAA-CGGTT
1 AATTCGGTTAATCGGTT
60976 AATTCGGTTAATCGGTT
1 AATTCGGTTAATCGGTT
60993 CGAAATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (17 bp):
AATTCGGTTAATCGGTT
Found at i:61062 original size:16 final size:16
Alignment explanation
Indices: 61024--61055 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61014 ATTAACCGAA
61024 ATTAAAT-T-TTAAAT
1 ATTAAATATATTAAAT
61038 ATTAAATATATTAAAT
1 ATTAAATATATTAAAT
61054 AT
1 AT
61056 AACATATGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 1 0.06
16 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAAATATATTAAAT
Found at i:71118 original size:20 final size:21
Alignment explanation
Indices: 71081--71133 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
71071 AACCCCTAAG
*
71081 TATCGATACTCC-ATGAACA-A
1 TATCGATAC-CCTAAGAACATA
*
71101 TATCGATACCCTAAGAACATC
1 TATCGATACCCTAAGAACATA
71122 TATCGATACCCT
1 TATCGATACCCT
71134 TCTCACAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 15 0.52
21 12 0.41
ACGTcount: A:0.36, C:0.28, G:0.09, T:0.26
Consensus pattern (21 bp):
TATCGATACCCTAAGAACATA
Found at i:73759 original size:18 final size:18
Alignment explanation
Indices: 73738--73773 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
73728 TTAGGTAAGA
*
73738 TATGCAAGTATATAATTG
1 TATGAAAGTATATAATTG
*
73756 TATGAAAGTATGTAATTG
1 TATGAAAGTATATAATTG
73774 CATGTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (18 bp):
TATGAAAGTATATAATTG
Found at i:76188 original size:19 final size:19
Alignment explanation
Indices: 76161--76229 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
76151 ACGGAGGAGA
76161 AGCACTGCAGTTGCTCGCT
1 AGCACTGCAGTTGCTCGCT
* *
76180 AGCATTGCAGTTGCTTGCT
1 AGCACTGCAGTTGCTCGCT
*
76199 AGCACTGCAGTTGCTTGCT
1 AGCACTGCAGTTGCTCGCT
* *
76218 TGCACTTCAGTT
1 AGCACTGCAGTT
76230 AAAGCTCTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.33
Consensus pattern (19 bp):
AGCACTGCAGTTGCTCGCT
Found at i:89786 original size:15 final size:15
Alignment explanation
Indices: 89750--89787 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
89740 ATGTGACAAG
*
89750 CTAAGTAAAACTGAA
1 CTAAGTGAAACTGAA
89765 CTAAGTGAAACTGAA
1 CTAAGTGAAACTGAA
89780 CTAAGTGA
1 CTAAGTGA
89788 TTACATGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (15 bp):
CTAAGTGAAACTGAA
Found at i:89862 original size:16 final size:15
Alignment explanation
Indices: 89820--89862 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
89810 ATGGGACATG
89820 AGCTATGTGATAACA
1 AGCTATGTGATAACA
*
89835 AGCTATGAGATAACA
1 AGCTATGTGATAACA
*
89850 TGCCTATGTGATA
1 AG-CTATGTGATA
89863 TAAGATTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (15 bp):
AGCTATGTGATAACA
Found at i:90284 original size:23 final size:23
Alignment explanation
Indices: 90258--90304 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
90248 TTAGGTAAGA
* * *
90258 TATGCAAGTATGTGACTGTATGT
1 TATGAAAGTATGTAACTGCATGT
90281 TATGAAAGTATGTAACTGCATGT
1 TATGAAAGTATGTAACTGCATGT
90304 T
1 T
90305 TCATTAGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (23 bp):
TATGAAAGTATGTAACTGCATGT
Found at i:91311 original size:36 final size:36
Alignment explanation
Indices: 91266--91345 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
91256 ATGTTGCTTC
* *
91266 TGTACTGTAATGTAATGTAGGAGTTAATACTTCTAA
1 TGTAATGTAATATAATGTAGGAGTTAATACTTCTAA
* **
91302 TGTGATGTAATATAATGTAGGAGTTAATGTTTCTAA
1 TGTAATGTAATATAATGTAGGAGTTAATACTTCTAA
91338 TGTAATGT
1 TGTAATGT
91346 GTTGTATGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (36 bp):
TGTAATGTAATATAATGTAGGAGTTAATACTTCTAA
Found at i:91341 original size:31 final size:31
Alignment explanation
Indices: 91271--91373 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
91261 GCTTCTGTAC
*
91271 TGTAATGTAATGTAGGAGTTAAT-ACTTCTAATGTGA
1 TGTAATATAATGTAGGAGTTAATGA-TTCT-A----A
*
91307 TGTAATATAATGTAGGAGTTAATGTTTCTAA
1 TGTAATATAATGTAGGAGTTAATGATTCTAA
* ** * *
91338 TGTAATGTGTTGTATGAGTTAGTGATTCTAA
1 TGTAATATAATGTAGGAGTTAATGATTCTAA
91369 TGTAA
1 TGTAA
91374 AATTTAATAG
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
31 31 0.53
35 1 0.02
36 26 0.45
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.42
Consensus pattern (31 bp):
TGTAATATAATGTAGGAGTTAATGATTCTAA
Found at i:92787 original size:22 final size:22
Alignment explanation
Indices: 92762--92808 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
92752 AAAATCTCAA
92762 CATCAATCTTTAATAGAAATAT
1 CATCAATCTTTAATAGAAATAT
92784 CATCAATCTTTAATAGAAATAT
1 CATCAATCTTTAATAGAAATAT
92806 CAT
1 CAT
92809 ACTGATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (22 bp):
CATCAATCTTTAATAGAAATAT
Found at i:92891 original size:65 final size:65
Alignment explanation
Indices: 92815--92945 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
92805 TCATACTGAT
92815 AAAATCTTAAGAATAAGTCAATCCAAAAAATATAAAAAGTTAATTGGTTCTTAGTATTTAATATA
1 AAAATCTTAAGAATAAGTCAATCCAAAAAATATAAAAAGTTAATTGGTTCTTAGTATTTAATATA
* *
92880 AAAATCTTAAGAATAAGTCAATCCGAAAAATATAAAAAGTTGATTGGTTCTTAGTATTTAATATA
1 AAAATCTTAAGAATAAGTCAATCCAAAAAATATAAAAAGTTAATTGGTTCTTAGTATTTAATATA
92945 A
1 A
92946 TAAGATACTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.34
Consensus pattern (65 bp):
AAAATCTTAAGAATAAGTCAATCCAAAAAATATAAAAAGTTAATTGGTTCTTAGTATTTAATATA
Found at i:93868 original size:17 final size:16
Alignment explanation
Indices: 93846--93894 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
93836 TATTATTATT
93846 ATTAAATATAATAAATA
1 ATTAAATATAAT-AATA
93863 ATTAAAATATAATAATA
1 ATT-AAATATAATAATA
* *
93880 AATAAATATAGTAAT
1 ATTAAATATAATAAT
93895 TAAAATAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 11 0.38
17 9 0.31
18 9 0.31
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTAAATATAATAATA
Found at i:93951 original size:2 final size:2
Alignment explanation
Indices: 93946--94000 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
93936 AATAAAAAAT
93946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93988 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
94001 TAAATATAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:94015 original size:9 final size:11
Alignment explanation
Indices: 93946--94013 Score: 57
Period size: 12 Copynumber: 5.9 Consensus size: 11
93936 AATAAAAAAT
*
93946 TATATATATATA
1 TATATAT-TAAA
*
93958 TATATATATATA
1 TATATAT-TAAA
*
93970 TATATATATATA
1 TATATAT-TAAA
*
93982 TATATATATATA
1 TATATAT-TAAA
93994 TATATATTAAA
1 TATATATTAAA
94005 TATA-ATTAA
1 TATATATTAA
94014 TAATTAATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
10 5 0.09
11 7 0.13
12 43 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TATATATTAAA
Found at i:94554 original size:18 final size:18
Alignment explanation
Indices: 94533--94592 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
94523 TATGTTGTAA
94533 TTTTAATTATTGTTAATT
1 TTTTAATTATTGTTAATT
* *
94551 TTTTATTTA-T-TTATTT
1 TTTTAATTATTGTTAATT
* *
94567 TTTTAA-TATTAGTTTATA
1 TTTTAATTATT-GTTAATT
94585 TTTTAATT
1 TTTTAATT
94593 TCTATAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
15 2 0.06
16 11 0.34
17 1 0.03
18 17 0.53
19 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTAATTATTGTTAATT
Found at i:94593 original size:27 final size:27
Alignment explanation
Indices: 94515--94603 Score: 64
Period size: 27 Copynumber: 3.4 Consensus size: 27
94505 ACGGTAATAA
94515 TTTTAA-ATTATGTTGTA-ATTTTAATTAT
1 TTTTAATATTA-GTT-TATATTTTAATT-T
* *
94543 TGTTAAT-TT--TTTAT-TTATTTATTT
1 TTTTAATATTAGTTTATATT-TTAATTT
94567 TTTTAATATTAGTTTATATTTTAATTT
1 TTTTAATATTAGTTTATATTTTAATTT
* *
94594 CTATAATATT
1 TTTTAATATT
94604 TATTAAATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
24 11 0.23
25 9 0.19
27 19 0.40
28 9 0.19
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (27 bp):
TTTTAATATTAGTTTATATTTTAATTT
Found at i:96738 original size:17 final size:17
Alignment explanation
Indices: 96716--96753 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
96706 ATTGTTCGAA
96716 TTGTTTTTATTATTT-AG
1 TTGTTTTTATT-TTTGAG
96733 TTGTTTTTATTTTTGAG
1 TTGTTTTTATTTTTGAG
96750 TTGT
1 TTGT
96754 ATCTTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.13, C:0.00, G:0.16, T:0.71
Consensus pattern (17 bp):
TTGTTTTTATTTTTGAG
Found at i:96869 original size:25 final size:25
Alignment explanation
Indices: 96841--96899 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
96831 CAAATGAGAT
*
96841 TAACTGAAAGTAAATGAAAATTAAA
1 TAACTGAAAGTAAATCAAAATTAAA
96866 TAACTGAAAGTAAATCAAAATTAAA
1 TAACTGAAAGTAAATCAAAATTAAA
96891 TAACTGAAA
1 TAACTGAAA
96900 CTTAGATTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (25 bp):
TAACTGAAAGTAAATCAAAATTAAA
Found at i:97306 original size:24 final size:24
Alignment explanation
Indices: 97279--97386 Score: 67
Period size: 24 Copynumber: 4.3 Consensus size: 24
97269 TTTTATCTTT
97279 GTATTTTAGTTTAAATAGGTTTTA
1 GTATTTTAGTTTAAATAGGTTTTA
* * *
97303 GTATTTTA-ATTAAGTTTTAGGGTATTA
1 GTATTTTAGTTTAA---ATA-GGTTTTA
* * * **
97330 -TTTTTATATTTTATATTTGTTTTA
1 GTATTT-TAGTTTAAATAGGTTTTA
*
97354 GATATTTTAGTTTAAATAGGATTTA
1 G-TATTTTAGTTTAAATAGGTTTTA
97379 GTATTTTA
1 GTATTTTA
97387 ATTAGGATTT
Statistics
Matches: 60, Mismatches: 16, Indels: 16
0.65 0.17 0.17
Matches are distributed among these distances:
23 4 0.07
24 20 0.33
25 15 0.25
26 10 0.17
27 8 0.13
28 3 0.05
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (24 bp):
GTATTTTAGTTTAAATAGGTTTTA
Found at i:97407 original size:63 final size:63
Alignment explanation
Indices: 97340--97460 Score: 174
Period size: 63 Copynumber: 1.9 Consensus size: 63
97330 TTTTTATATT
*
97340 TTATATT-TGTTTTAGATATTTTAGTTTAAATAGGATTT-AGTATTTTAATTAGGATTTAGAATA
1 TTATATTAT-TTTTAGATATTTTACTTTAAATA-GATTTAAGTATTTTAATTAGGATTTAGAATA
* * *
97403 TTATATTATTTTTAGGTATTTTACTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTA
1 TTATATTATTTTTAGATATTTTACTTTAAATAGATTTAAGTATTTTAATTAGGATTTA
97461 AGATGTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
62 4 0.08
63 47 0.90
64 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (63 bp):
TTATATTATTTTTAGATATTTTACTTTAAATAGATTTAAGTATTTTAATTAGGATTTAGAATA
Found at i:102222 original size:6 final size:6
Alignment explanation
Indices: 102211--102238 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
102201 ATTAACACCT
102211 TTTGCA TTTGCA TTTGCA TTTGCA TTTG
1 TTTGCA TTTGCA TTTGCA TTTGCA TTTG
102239 AATTGCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.54
Consensus pattern (6 bp):
TTTGCA
Found at i:105933 original size:16 final size:18
Alignment explanation
Indices: 105905--105944 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
105895 CAATGGGATA
105905 AAAATGTATGAAG-AGTG
1 AAAATGTATGAAGCAGTG
105922 AAAATG-ATGAAGCAGTG
1 AAAATGTATGAAGCAGTG
*
105939 ACAATG
1 AAAATG
105945 GAGTTTACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.47, C:0.05, G:0.28, T:0.20
Consensus pattern (18 bp):
AAAATGTATGAAGCAGTG
Found at i:107283 original size:42 final size:41
Alignment explanation
Indices: 107217--107318 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 41
107207 TTCACAATTT
* * *
107217 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * * *
107258 CTTAATTCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
107300 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
107319 CACAAGACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (41 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:108351 original size:42 final size:41
Alignment explanation
Indices: 108292--108385 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 41
108282 TTATAAGTCT
* * *
108292 TTCGGGCCAT-TAGTAAGTCTTTCGAGCATGATGCTTAAATCC
1 TTCGGGCCATCT-GTAAGTCTTTAGAGCAAGATG-ATAAATCC
* *
108334 TTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAAGTCC
1 TTCGGGCCATCTGTAAGTCTTTAGAGCAAGATGATAAATCC
108375 TTCGGGCCATC
1 TTCGGGCCATC
108386 CATAAGACCT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 16 0.36
42 28 0.62
43 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (41 bp):
TTCGGGCCATCTGTAAGTCTTTAGAGCAAGATGATAAATCC
Found at i:108572 original size:214 final size:215
Alignment explanation
Indices: 107018--109176 Score: 3226
Period size: 216 Copynumber: 10.2 Consensus size: 215
107008 GAAGCAACTA
* * *
107018 CATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTATAAGCCTTTAGAGCAAG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
*
107083 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAAT
66 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT
* *
107148 G-AAAAATGATATTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCAC
131 GAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCAC
*
107212 AATTTATAAGTCCTTCGGGC
196 AATTTATAAGTCCCTCGGGC
* *
107232 CATCAGTAAGTCTTTCGAGCATGATGCTTAATTCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
*
107297 ATGATAAGTCCTTCGGGCCATCCACAAGACCTTCGGG-AGGGATGTTTTCAAATGAATTTGAAAA
66 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTA-GGATGTTTTCAAATGAATTTGAAAA
*
107361 TGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATACGATTTTCAAAATTTC
130 TG-AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTC
* *
107426 ACAATTTATAAGTCCCTCGAGA
194 ACAATTTATAAGTCCCTCGGGC
* * *
107448 CATCAGTAAATCTTTCAAGCATGA-ATTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
* * * * * *
107512 ATGATAAGTCATTCGGGCCATCCATAAGACATTCGGGTAAGATATTTTCACATGAATTTGAGAAT
66 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT
107577 GAAAAAATGATG--TT-----G--G-AATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCAC
131 GAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCAC
* * * *
107632 AATGTATAAGTCCTTCAGAC
196 AATTTATAAGTCCCTCGGGC
* *
107652 CATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
*
107717 ATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGG-AGGGATGTTTTCAAATGAATTTGAAAA
66 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTA-GGATGTTTTCAAATGAATTTGAAAA
* *
107781 TGAAAACAATGATGTTTTAAGAAGATGAAATTTTTGAAAATGAAGAATGCAATTTTCAAAATTTC
130 TGAAAA-AATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTC
*
107846 ACAATTTATAAGTCCCTCTGGC
194 ACAATTTATAAGTCCCTCGGGC
* * *
107868 CATCAGTAAGTCTTTCGAGTATGATGTTTAAATCCTTCGAGTCATTTGTAAGCCTTTAGAGCAAG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
*
107933 ATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGG-AGGGATGTTTTCAAATGAATTTGAAAA
66 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTA-GGATGTTTTCAAATGAATTTGAAAA
107997 TGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTC
130 TG-AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTC
*
108062 ATAATTTATAAGTCCCTCGGGC
194 ACAATTTATAAGTCCCTCGGGC
* * * *
108084 TATCAATAAGTCTTTCGAGCACGATGTTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGCAAG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
* *
108149 ATGATGAGTCCTTCGGGCCATCCATAAGACTTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT
66 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT
* * * * *
108214 GAGAAAATGATGTTTCAAGAAGATGGAATTTTTGAAAACGAAGAATGAGATTTTCAAAATTTTAC
131 GAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCAC
**
108279 AATTTATAAGTCTTTCGGGC
196 AATTTATAAGTCCCTCGGGC
* * *
108299 CATTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
108364 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT
66 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT
* * * *
108429 G-AAAAATGATGTTTTAAGAAGATAAAAGTTTTGAAAACGAAGAATGTGATTTTTAAAATTTCAC
131 GAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCAC
*
108493 AATTTATAAGTCCCTCGGGT
196 AATTTATAAGTCCCTCGGGC
* * * *
108513 CATCAGTAACTCTTTTGAGCATGATGTTTAAATCCTTCAGGTCATCGGTAAGCCTTTAGAGCAAG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
* * *
108578 ATGATAAGTCCTTCAGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAAT
66 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT
*
108643 GAAAAAAATGATGTTTTAAGAAGATGAAA-TTTTGAAAACAAAGAATGCGA-TTTCAAAATTTCA
131 G-AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCA
108706 C-ATTTATAAGTCCCTC-GGC
195 CAATTTATAAGTCCCTCGGGC
* *
108725 CATTAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCTAG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
* *
108790 ATGATAAGTCCTTCGGGCCATCCATAA-ACCTTCGGGTAGGATGTTTTCACATGAA-TTGAGAAT
66 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT
* *
108853 G--AAAATGATG--TT-----G--G-AATTTTTGAAGACGAAAAATGCGATTTTCAAAATTTCAC
131 GAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCAC
* * *
108906 AATGTATAAGTCCTTCAGGC
196 AATTTATAAGTCCCTCGGGC
* * *
108926 CATCAGTAAGTCTTTCGAGCGTGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
*
108991 AAGATAAGTCCTTC-GGCCATCCATAAGACCTTCGGG-AGGGATGTTTTC-AATGAATTTG-AAA
66 ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTA-GGATGTTTTCAAATGAATTTGAAAA
*
109052 TGAAAAAAATGATGTTTTAAGAAGATG-AATTTTTGAAAACGAAGAATGCAATTTTCAAAATTTC
130 TG-AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTC
*
109116 ACAATTTATAAGTCCCTCTGGC
194 ACAATTTATAAGTCCCTCGGGC
*
109138 CATCAGTAAGTCTTTCGAGTATGATGTTTAAATCCTTCG
1 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCG
Statistics
Matches: 1767, Mismatches: 138, Indels: 82
0.89 0.07 0.04
Matches are distributed among these distances:
197 2 0.00
198 19 0.01
199 14 0.01
200 36 0.02
201 98 0.06
203 9 0.01
204 75 0.04
205 105 0.06
206 7 0.00
207 10 0.01
208 2 0.00
210 9 0.01
211 28 0.02
212 179 0.10
213 17 0.01
214 341 0.19
215 312 0.18
216 499 0.28
217 5 0.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (215 bp):
CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAG
ATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT
GAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCAC
AATTTATAAGTCCCTCGGGC
Found at i:108575 original size:42 final size:41
Alignment explanation
Indices: 108510--108599 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 41
108500 AAGTCCCTCG
* * *
108510 GGTCATCAGTAACTCTTTTGAGCATGATGTTTAAATCCTTCA
1 GGTCATCAGTAACTCTTTAGAGCAAGATG-ATAAATCCTTCA
* *
108552 GGTCATCGGTAAGC-CTTTAGAGCAAGATGATAAGTCCTTCA
1 GGTCATCAGTAA-CTCTTTAGAGCAAGATGATAAATCCTTCA
*
108593 GGCCATC
1 GGTCATC
108600 CATAAAACCT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 16 0.39
42 24 0.59
43 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (41 bp):
GGTCATCAGTAACTCTTTAGAGCAAGATGATAAATCCTTCA
Done.