Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000485.1 Hibiscus syriacus cultivar Beakdansim tig00000925_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: 155581
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:362 original size:18 final size:20
Alignment explanation
Indices: 327--431 Score: 160
Period size: 20 Copynumber: 5.3 Consensus size: 20
317 GAAACTTAAA
* **
327 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAATTTGACT
*
347 ATCGC-ATGCGAA-ATGACT
1 ATCGCAATGCGAATTTGACT
365 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAATTTGACT
385 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAATTTGACT
405 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAATTTGACT
425 ATCGCAA
1 ATCGCAA
432 CGAGAGAATC
Statistics
Matches: 81, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
18 11 0.14
19 13 0.16
20 57 0.70
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATTTGACT
Found at i:448 original size:34 final size:36
Alignment explanation
Indices: 327--450 Score: 128
Period size: 40 Copynumber: 3.3 Consensus size: 36
317 GAAACTTAAA
* ** *
327 ATCGCAACGCGAAAATGACTATCGCATGCGAAATGAC
1 ATCGCAATGCGAATTTGACTATCGCAAGCG-AATGAC
364 TATCGCAATGCGAATTTGACTATCGCAATGCGAATTTGAC
1 -ATCGCAATGCGAATTTGACTATCGCAA-GCGAA--TGAC
404 TATCGCAATGCGAATTTGACTATCGCAA-CGAGA-GA-
1 -ATCGCAATGCGAATTTGACTATCGCAAGCGA-ATGAC
439 ATCGCAATGCGA
1 ATCGCAATGCGA
451 TTTTCATTTC
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
34 12 0.15
36 2 0.03
38 28 0.36
39 4 0.05
40 32 0.41
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (36 bp):
ATCGCAATGCGAATTTGACTATCGCAAGCGAATGAC
Found at i:503 original size:20 final size:20
Alignment explanation
Indices: 478--524 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
468 GATTCTTTCG
478 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
498 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
518 TTGCGAT
1 TTGCGAT
525 TTGTTGTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:554 original size:32 final size:33
Alignment explanation
Indices: 498--589 Score: 123
Period size: 32 Copynumber: 2.8 Consensus size: 33
488 CAAATTCGCA
* * * *
498 TTGCGATAGTCATTTTCGCGTTGCGATTTGTTG
1 TTGCGATAGTCATTTTCGCATTGCGATCTCTCG
**
531 TTGCGATTTTCA-TTTCGCATTGCGATCTCTCG
1 TTGCGATAGTCATTTTCGCATTGCGATCTCTCG
563 TTGCGATAGTCATTTTCGCATTGCGAT
1 TTGCGATAGTCATTTTCGCATTGCGAT
590 AGTAAACTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
32 26 0.52
33 24 0.48
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.43
Consensus pattern (33 bp):
TTGCGATAGTCATTTTCGCATTGCGATCTCTCG
Found at i:2504 original size:20 final size:20
Alignment explanation
Indices: 2446--2519 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
2436 GAAACTTTAA
* **
2446 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
2466 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
2486 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
2506 ATAGCAACGCGAAA
1 ATCGCAACGCGAAA
2520 TGAAAATCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:2898 original size:21 final size:22
Alignment explanation
Indices: 2865--2925 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
2855 TGACCGTGAA
2865 TGATTTCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGAGAC
* * *
2887 TGATATCG-CGGAGATGGGGAT
1 TGATTTCGTCGGAGATGGAGAC
2908 TGATTTCGTCGGAGATGG
1 TGATTTCGTCGGAGATGG
2926 GGATGGATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.21, C:0.11, G:0.39, T:0.28
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGAGAC
Found at i:2923 original size:22 final size:22
Alignment explanation
Indices: 2865--2929 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
2855 TGACCGTGAA
* *
2865 TGATTTCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAT
*
2887 TGATATCG-CGGAGATGGGGAT
1 TGATTTCGTCGGAGATGGGGAT
2908 TGATTTCGTCGGAGATGGGGAT
1 TGATTTCGTCGGAGATGGGGAT
2930 GGATGTCGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 18 0.47
22 20 0.53
ACGTcount: A:0.22, C:0.11, G:0.40, T:0.28
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAT
Found at i:3123 original size:20 final size:20
Alignment explanation
Indices: 3098--3149 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
3088 GCTATGTAAA
3098 TCGCATTGCGATAGTCAGAT
1 TCGCATTGCGATAGTCAGAT
3118 TCGCATTGCGATAGTCAGAT
1 TCGCATTGCGATAGTCAGAT
3138 TCGCATTGCGAT
1 TCGCATTGCGAT
3150 TTACGTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (20 bp):
TCGCATTGCGATAGTCAGAT
Found at i:3161 original size:20 final size:19
Alignment explanation
Indices: 3138--3208 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
3128 ATAGTCAGAT
3138 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTT-CGTAA
**
3158 TCGCATTGCGATTTTCCCAA
1 TCGCATTGCGA-TTTCGTAA
* *
3178 TTCGCGTTGCGATTTCGTAT
1 -TCGCATTGCGATTTCGTAA
3198 TCGCATTGCGA
1 TCGCATTGCGA
3209 ATTAGGAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
19 10 0.24
20 19 0.45
21 13 0.31
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (19 bp):
TCGCATTGCGATTTCGTAA
Found at i:3162 original size:40 final size:39
Alignment explanation
Indices: 3118--3208 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
3108 ATAGTCAGAT
3118 TCGCATTGCGATAGT-CAGATTCGCATTGCGATTTACGTAA
1 TCGCATTGCGATAGTCCA-ATTCGCATTGCGATTT-CGTAA
** * *
3158 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTCGTAT
1 TCGCATTGCGATAGT-CCAATTCGCATTGCGATTTCGTAA
3198 TCGCATTGCGA
1 TCGCATTGCGA
3209 ATTAGGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 28 0.62
41 15 0.33
42 2 0.04
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (39 bp):
TCGCATTGCGATAGTCCAATTCGCATTGCGATTTCGTAA
Found at i:3229 original size:21 final size:21
Alignment explanation
Indices: 3205--3250 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
3195 TATTCGCATT
3205 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
3226 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
3247 GCGA
1 GCGA
3251 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:5498 original size:2 final size:2
Alignment explanation
Indices: 5491--5532 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
5481 AGTTTGCACG
5491 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5533 GGGATAGGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5967 original size:13 final size:13
Alignment explanation
Indices: 5949--5973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5939 ATTACAGATG
5949 TGCATATGTAGAC
1 TGCATATGTAGAC
5962 TGCATATGTAGA
1 TGCATATGTAGA
5974 TTGTTTAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (13 bp):
TGCATATGTAGAC
Found at i:6148 original size:3 final size:3
Alignment explanation
Indices: 6140--6164 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6130 GAATAGGGTT
6140 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
6165 ATTTAAACCC
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:8139 original size:34 final size:32
Alignment explanation
Indices: 8077--8163 Score: 76
Period size: 34 Copynumber: 2.8 Consensus size: 32
8067 TATTTAATCA
*
8077 TTTTATATAAAAATTATATTTATGATAAATTG
1 TTTTATATAAAAATTATATTTATAATAAATTG
* *
8109 TTTTACTATAAAATTTTATATTT-TAAATAAAAT-
1 TTTTA-TATAAAA-ATTATATTTAT-AATAAATTG
*
8142 TTGT-TAT--AAATTATATTTATAA
1 TTTTATATAAAAATTATATTTATAA
8164 AGTGGATGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
28 10 0.22
29 3 0.07
31 3 0.07
32 5 0.11
33 11 0.24
34 14 0.30
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (32 bp):
TTTTATATAAAAATTATATTTATAATAAATTG
Found at i:9889 original size:9 final size:10
Alignment explanation
Indices: 9860--9893 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
9850 TATGTCTTTT
*
9860 ATTTTTCTTT
1 ATTTTTCTTA
9870 ATTTTTCTTA
1 ATTTTTCTTA
9880 ATTTTT-TTA
1 ATTTTTCTTA
9889 ATTTT
1 ATTTT
9894 AAATAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTTTCTTA
Found at i:26860 original size:10 final size:10
Alignment explanation
Indices: 26845--26922 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 10
26835 CATTTAAATG
26845 ATAAACGAAC
1 ATAAACGAAC
*
26855 ATAAACAAAC
1 ATAAACGAAC
*
26865 GTAAACGAAC
1 ATAAACGAAC
*
26875 ACAAACGAATGAAC
1 ATAAAC----GAAC
26889 ATAAACGAACAC
1 ATAAACG-A-AC
26901 AATAAACGAAC
1 -ATAAACGAAC
*
26912 ATAAATGAAC
1 ATAAACGAAC
26922 A
1 A
26923 ACACAAACAC
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
10 32 0.59
11 3 0.06
12 3 0.06
13 7 0.13
14 9 0.17
ACGTcount: A:0.60, C:0.19, G:0.10, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:26930 original size:23 final size:23
Alignment explanation
Indices: 26857--26930 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
26847 AAACGAACAT
* *
26857 AAACAAACGTAAACGAACACAAAC
1 AAACGAACATAAACGAACAC-AAC
* * *
26881 GAATGAACATAAACGAACACAAT
1 AAACGAACATAAACGAACACAAC
*
26904 AAACGAACATAAATGAACA-ACAC
1 AAACGAACATAAACGAACACA-AC
26927 AAAC
1 AAAC
26931 ACACACAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 1 0.03
23 23 0.57
24 16 0.40
ACGTcount: A:0.61, C:0.22, G:0.09, T:0.08
Consensus pattern (23 bp):
AAACGAACATAAACGAACACAAC
Found at i:27552 original size:21 final size:21
Alignment explanation
Indices: 27528--27567 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27518 TACAAAGCAA
27528 TATTTAAAAAAAAAATTAATT
1 TATTTAAAAAAAAAATTAATT
* *
27549 TATTTAAATATAAAATTAA
1 TATTTAAAAAAAAAATTAA
27568 GAGATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATTTAAAAAAAAAATTAATT
Found at i:28598 original size:18 final size:18
Alignment explanation
Indices: 28575--28615 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
28565 TGAGCAAAAG
* *
28575 TTGTTTTTGCTTTTGCTT
1 TTGTTTTTACTTTTACTT
28593 TTGTTTTTACTTTTACTT
1 TTGTTTTTACTTTTACTT
28611 TTGTT
1 TTGTT
28616 CTAATCCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.10, G:0.12, T:0.73
Consensus pattern (18 bp):
TTGTTTTTACTTTTACTT
Found at i:28668 original size:15 final size:15
Alignment explanation
Indices: 28648--28676 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
28638 TAGCTTACCT
28648 TTATTCATATGTAAA
1 TTATTCATATGTAAA
28663 TTATTCATATGTAA
1 TTATTCATATGTAA
28677 TGGGCTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
TTATTCATATGTAAA
Found at i:29666 original size:2 final size:2
Alignment explanation
Indices: 29659--29720 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
29649 CTTTTATGCA
29659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29701 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
29721 TTGCATTTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29962 original size:23 final size:23
Alignment explanation
Indices: 29905--29971 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
29895 GTTCGTGAAC
*
29905 GTGTTCGCGAACATGATT-GTTTA
1 GTGTTCGCGAACATG-TTCGTTCA
* * *
29928 GCGTTTGTGAACATGTTCGTTCA
1 GTGTTCGCGAACATGTTCGTTCA
29951 GTGTTCGCGAACATGTTCGTT
1 GTGTTCGCGAACATGTTCGTT
29972 TAGAATAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 2 0.06
23 34 0.94
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (23 bp):
GTGTTCGCGAACATGTTCGTTCA
Found at i:32111 original size:20 final size:21
Alignment explanation
Indices: 32082--32130 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
32072 TTATTGTGTA
32082 AGTTACAGAG-TAATTACAAG
1 AGTTACAGAGTTAATTACAAG
* *
32102 AGTTATAGAGTTAATTACATGG
1 AGTTACAGAGTTAATTACA-AG
32124 AGTTACA
1 AGTTACA
32131 AGCGACTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.38
21 8 0.33
22 7 0.29
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (21 bp):
AGTTACAGAGTTAATTACAAG
Found at i:32704 original size:25 final size:28
Alignment explanation
Indices: 32672--32734 Score: 89
Period size: 25 Copynumber: 2.4 Consensus size: 28
32662 TATTAACATG
32672 AAAAATATTTTTA-TATTAATTT-AT-T
1 AAAAATATTTTTATTATTAATTTAATAT
*
32697 AAATATA-TTTTATTATTAATTTAATAT
1 AAAAATATTTTTATTATTAATTTAATAT
32724 AAAAATATTTT
1 AAAAATATTTT
32735 ATTTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 5 0.16
25 15 0.47
26 2 0.06
27 7 0.22
28 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AAAAATATTTTTATTATTAATTTAATAT
Found at i:32743 original size:25 final size:23
Alignment explanation
Indices: 32672--32743 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 23
32662 TATTAACATG
*
32672 AAAAATATTTTTATATTAATTTATT
1 AAAAATA-TTTTAT-TTTATTTATT
*
32697 AAATATATTTTATTATTAATTTAATAT
1 AAAAATATTTTATT-TT-ATTT-AT-T
32724 AAAAATATTTTATTTTATTT
1 AAAAATATTTTATTTTATTT
32744 TTCATTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.03
24 7 0.17
25 14 0.35
26 4 0.10
27 14 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AAAAATATTTTATTTTATTTATT
Found at i:32753 original size:27 final size:27
Alignment explanation
Indices: 32672--32767 Score: 76
Period size: 27 Copynumber: 3.7 Consensus size: 27
32662 TATTAACATG
*
32672 AAAAATATTTTTATATTA-ATTT-A-TT
1 AAAAATA-TTTTATTTTATATTTAATTT
* *
32697 AAATATATTTTATTATTA-ATTTAATAT
1 AAAAATATTTTATT-TTATATTTAATTT
* *
32724 AAAAATATTTTATTTTATTTTTCATTT
1 AAAAATATTTTATTTTATATTTAATTT
* *
32751 AAAGATA-TATATTTTAT
1 AAAAATATTTTATTTTAT
32768 GTTAAAATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
24 6 0.10
25 13 0.22
26 13 0.22
27 26 0.45
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (27 bp):
AAAAATATTTTATTTTATATTTAATTT
Found at i:37169 original size:14 final size:14
Alignment explanation
Indices: 37126--37169 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
37116 TAACAAAAAA
37126 TAATAATTTTATAC
1 TAATAATTTTATAC
* *
37140 TAAT--TTTTTTAG
1 TAATAATTTTATAC
37152 TAATAATTTTATAC
1 TAATAATTTTATAC
37166 TAAT
1 TAAT
37170 TGAATGAGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 10 0.42
14 14 0.58
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (14 bp):
TAATAATTTTATAC
Found at i:37925 original size:2 final size:2
Alignment explanation
Indices: 37920--37945 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37910 TAACTTTTTA
37920 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
37946 TGTTTCTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39382 original size:14 final size:15
Alignment explanation
Indices: 39360--39393 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
39350 TAATAGTAAA
*
39360 AATAGTAATG-AAAT
1 AATAATAATGAAAAT
39374 AATAATAATGAAAAT
1 AATAATAATGAAAAT
39389 AATAA
1 AATAA
39394 ATAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (15 bp):
AATAATAATGAAAAT
Found at i:39469 original size:12 final size:13
Alignment explanation
Indices: 39446--39474 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
39436 TGAAAGATAT
39446 GTAAAAATAAAAG
1 GTAAAAATAAAAG
39459 GTAAAAA-AAAAG
1 GTAAAAATAAAAG
39471 GTAA
1 GTAA
39475 TACATACACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (13 bp):
GTAAAAATAAAAG
Found at i:41108 original size:18 final size:16
Alignment explanation
Indices: 41077--41117 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
41067 AAAAAAAATG
41077 TAAATATAATTTATAA
1 TAAATATAATTTATAA
41093 TAAATATATATATTAT-A
1 TAAATATA-AT-TTATAA
41110 T-AATATAA
1 TAAATATAA
41118 GGATGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 14 0.61
17 4 0.17
18 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATATAATTTATAA
Found at i:41261 original size:1 final size:1
Alignment explanation
Indices: 41255--41280 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
41245 TAGAGTCTGG
41255 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
41281 AAAACACGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:41373 original size:20 final size:20
Alignment explanation
Indices: 41350--41391 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
41340 GAATCCTTCG
41350 TCGTGAAATTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
* *
41370 TCGTGAAGTTGAAGTCGAAC
1 TCGTGAAATTGAAATCGAAC
41390 TC
1 TC
41392 AGAGTTCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (20 bp):
TCGTGAAATTGAAATCGAAC
Found at i:41634 original size:105 final size:105
Alignment explanation
Indices: 41472--42186 Score: 1376
Period size: 105 Copynumber: 6.8 Consensus size: 105
41462 ATTGTTTATC
* * *
41472 GACAACCAGCGGTCCCTTCGTCATGAAGTTGAACCTGCGTTGTCTGGAGTCCAATATCCTTCGTT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
41537 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
41577 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
41642 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
41682 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
41747 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
41787 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
41852 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
41892 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
*
41957 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTAGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
41997 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
*
42062 GTGAAGTTGAAATTGGCTTTAAATTTGAGAAATGTTTGGT
66 GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
*
42102 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTT
1 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
42167 GTGAAGTTGAAATTGGCTCT
66 GTGAAGTTGAAATTGGCTCT
42187 GGGTAAAACC
Statistics
Matches: 602, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 602 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (105 bp):
GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
GTGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGGT
Found at i:43024 original size:61 final size:61
Alignment explanation
Indices: 42929--43043 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
42919 TTTTCTCTTC
* *
42929 TTTTTTCTTTTTTTTTTTTTAATTTTAGGGCGCCCT-TCCGGGTTCTCACCCTAAACGTTTT
1 TTTTTTCTTTTTTTTTTTTTAATCTTAGGACGCCCTCT-CGGGTTCTCACCCTAAACGTTTT
* * *
42990 TTTTTTTTTTTTTTTTTTTTCAA-CTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTTCTTTTTTTTTTTTT-AATCTTAGGACGCCCTCTCGGGTTCTCACCCTAA
43044 GCGAAGTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
61 44 0.94
62 3 0.06
ACGTcount: A:0.12, C:0.21, G:0.12, T:0.55
Consensus pattern (61 bp):
TTTTTTCTTTTTTTTTTTTTAATCTTAGGACGCCCTCTCGGGTTCTCACCCTAAACGTTTT
Found at i:53670 original size:14 final size:15
Alignment explanation
Indices: 53648--53681 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
53638 TAATAGTAAA
*
53648 AATAGTAATG-AAAT
1 AATAATAATGAAAAT
53662 AATAATAATGAAAAT
1 AATAATAATGAAAAT
53677 AATAA
1 AATAA
53682 ATAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (15 bp):
AATAATAATGAAAAT
Found at i:53760 original size:15 final size:15
Alignment explanation
Indices: 53736--53765 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53726 AAAGATATGT
*
53736 AAAAATAAAAGGTAA
1 AAAAAAAAAAGGTAA
53751 AAAAAAAAAAGGTAA
1 AAAAAAAAAAGGTAA
53766 TACATACACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAAGGTAA
Found at i:53819 original size:23 final size:22
Alignment explanation
Indices: 53779--53821 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
53769 ATACACGAAT
53779 ATAAAAAATATAATATAATAGC
1 ATAAAAAATATAATATAATAGC
53801 ATAAATAAATA-AATAATAATA
1 ATAAA-AAATATAAT-ATAATA
53822 ATAGTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
ATAAAAAATATAATATAATAGC
Found at i:54312 original size:3 final size:3
Alignment explanation
Indices: 54304--54342 Score: 51
Period size: 3 Copynumber: 12.3 Consensus size: 3
54294 ATATATACGT
*
54304 ATA ATA ATA ATA ATA ACA ATA ATA ATA TATA TATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA ATA A
54343 AAAACGTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 26 0.79
4 7 0.21
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:55445 original size:18 final size:16
Alignment explanation
Indices: 55414--55454 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
55404 AAAAAAAATG
55414 TAAATATAATTTATAA
1 TAAATATAATTTATAA
55430 TAAATATATATATTAT-A
1 TAAATATA-AT-TTATAA
55447 T-AATATAA
1 TAAATATAA
55455 GGATGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 14 0.61
17 4 0.17
18 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATATAATTTATAA
Found at i:61855 original size:184 final size:184
Alignment explanation
Indices: 61600--61974 Score: 628
Period size: 184 Copynumber: 2.0 Consensus size: 184
61590 AACCGAAATT
* * *
61600 AAATTTTAAATATATTATATATAACATATGGGCTTAGCCCAAACCATTTAAAATCCAATTAATAG
1 AAATATTAAATATATTATATATAACATATGGGCTTAGCCCAAACCATTTAAAACCCAATTAATAA
61665 TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
66 TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
*
61730 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACT-ATTTTTTAATTTAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTGATTTTTTAA-TTAA
* *
61784 AAATATTATATATATTATATATAACATATGGG-TTCAGCCCAAATCATTTAAAACCCAATTAATA
1 AAATATTAAATATATTATATATAACATATGGGCTT-AGCCCAAACCATTTAAAACCCAATTAATA
** *
61848 ATTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAATTTTATATAAATTT
65 ATTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATT
*
61913 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAATTAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGATTTTTTAATTAA
61968 AAATATT
1 AAATATT
61975 TAATTTTTTA
Statistics
Matches: 179, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
183 2 0.01
184 169 0.94
185 8 0.04
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGGCTTAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTGATTTTTTAATTAA
Found at i:83364 original size:23 final size:23
Alignment explanation
Indices: 83338--83385 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
83328 ATAAAGTACA
*
83338 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
83361 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
83384 AT
1 AT
83386 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:83753 original size:21 final size:22
Alignment explanation
Indices: 83728--83779 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
83718 ACACTTTACA
*
83728 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
83751 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
83774 ATATAA
1 ATATAA
83780 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:83764 original size:23 final size:23
Alignment explanation
Indices: 83738--83800 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
83728 ATATAACCAC
83738 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
83761 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
83784 TACCTATTACATCATAT
1 TACCTATTACATTATAT
83801 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:84254 original size:39 final size:39
Alignment explanation
Indices: 84200--84286 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
84190 TCAAGTTGTA
*
84200 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
84239 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
84278 GATTTTGAT
1 GATTTTGAT
84287 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:84568 original size:18 final size:18
Alignment explanation
Indices: 84545--84581 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
84535 CGAAATATAT
84545 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
84563 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
84581 A
1 A
84582 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:84857 original size:25 final size:25
Alignment explanation
Indices: 84829--84879 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
84819 TTAATCCAAA
*
84829 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
84854 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
84879 T
1 T
84880 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:85125 original size:20 final size:20
Alignment explanation
Indices: 85100--85138 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
85090 TCCACAGTGA
* *
85100 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
85120 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
85139 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:85166 original size:21 final size:22
Alignment explanation
Indices: 85141--85192 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
85131 ACACTTTACA
*
85141 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
85164 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
85187 ATATAA
1 ATATAA
85193 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:85177 original size:23 final size:23
Alignment explanation
Indices: 85151--85213 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
85141 ATATAACCAC
85151 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
85174 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
85197 TACCTATTACATCATAT
1 TACCTATTACATTATAT
85214 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:85590 original size:22 final size:23
Alignment explanation
Indices: 85551--85612 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
85541 ATATAACCAC
85551 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
85574 TACCTATTAC-TTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
85596 TACCTATTACATCATAT
1 TACCTATTACATTATAT
85613 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:85697 original size:400 final size:403
Alignment explanation
Indices: 84910--86096 Score: 2232
Period size: 403 Copynumber: 3.0 Consensus size: 403
84900 TTTGAATTAT
84910 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTATAAAATAATATT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTATAAAATAATATT
84975 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAT-AATCATTATACGCCTATAA
66 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTATACGCCTATAA
85039 TTACTAAATT-ATATCTTAAAACTCACTC-AAA-ATAACCTTAAATTAATGTTTTCCACAGTGAA
131 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
85101 AAAAGTATGGACAC-TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
196 AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
85165 TATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATT
261 TATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATT
*
85230 GAAAGTGTTCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTATGTAATTCATGTTT
326 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTCATGTTT
85294 TCCA-CTACAATA
391 TCCACCTACAATA
85306 TTGATTTAATAATTTCATTTGCAC-AAAAATTATTTGATTGTTTTGATATTTATAAAATAATATT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTATAAAATAATATT
85370 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTATACGCCTATAA
66 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTATACGCCTATAA
*
85435 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACGGTGAA
131 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
85500 AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
196 AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
85565 TATAAACGATACCTATTAC-TTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATT
261 TATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATT
85629 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTCATGTTT
326 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTCATGTTT
85694 TCCACCTACAATA
391 TCCACCTACAATA
* *
85707 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATA-TTTATAAAATAATAT
* *
85772 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
65 TTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTATACGCCTATA
85837 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
130 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
85902 AAAAAGTATGGACACTTTTAT-AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
195 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
85966 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
260 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
*
86031 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
325 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTCATGTT
86096 T
390 T
86097 CAATTTTTTT
Statistics
Matches: 773, Mismatches: 8, Indels: 13
0.97 0.01 0.02
Matches are distributed among these distances:
395 85 0.11
396 53 0.07
397 18 0.02
398 3 0.00
399 109 0.14
400 116 0.15
401 32 0.04
402 86 0.11
403 271 0.35
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (403 bp):
TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTATAAAATAATATT
TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTATACGCCTATAA
TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
TATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATT
GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTCATGTTT
TCCACCTACAATA
Found at i:85979 original size:23 final size:23
Alignment explanation
Indices: 85953--86015 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
85943 ATATAACCAC
85953 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
85976 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
85999 TACCTATTACATCATAT
1 TACCTATTACATTATAT
86016 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:89008 original size:183 final size:184
Alignment explanation
Indices: 88542--89614 Score: 1980
Period size: 182 Copynumber: 5.9 Consensus size: 184
88532 TTCAAATTAC
* * *
88542 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* * *
88607 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
88672 ATATTACAAAATTATCTATTACATTATAATTAT-GGTTCCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
88725 CGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
88789 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
88854 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
*
88908 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACACT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
88973 ATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
89037 ATATTAC-AAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
89090 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
89155 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
89220 ATATTACAAAATTATCTATTAC-TTATAATTATGGGTTCCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
89273 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
89338 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
89403 ATATTACAAAATTATCTATTACATTAT-ATTATGGGTTCCGATGTGT-AAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
89455 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
89520 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGGCCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
* * * **
89585 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTATCTATTACATTATAAT
89615 ATGTTGAAAG
Statistics
Matches: 870, Mismatches: 14, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
182 420 0.48
183 372 0.43
184 78 0.09
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (184 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
Found at i:89282 original size:365 final size:367
Alignment explanation
Indices: 88542--89614 Score: 1978
Period size: 365 Copynumber: 2.9 Consensus size: 367
88532 TTCAAATTAC
* * *
88542 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* *
88607 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTA-AAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
88672 ATATTACAAAATTATCTATTACATTATAATTAT-GGTTCCGATGTGTAAAATGTCGACAC-TTTT
130 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTT
88735 TAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTG
195 TAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTG
88800 TCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAA
260 TCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAA
88865 TTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
325 TTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
*
88908 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACACT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
88973 ATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTA
66 ATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTA
89038 TATTAC-AAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTTT
131 TATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTTT
89102 AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGT
196 AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGT
89167 CGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAAT
261 CGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAAT
89232 TATCTATTAC-TTATAATTATGGGTTCCGATGTGTAAAATGT
326 TATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
89273 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
89338 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
89403 ATATTACAAAATTATCTATTACATTAT-ATTATGGGTTCCGATGTGT-AAATGTCGACACTTTTT
130 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTT
89466 TAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTG
195 TAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTG
* * *
89531 TCGATATAGGTTGTAGACCTATTCGCGCATAAGGCCGGTATATTTATACCGGTTATATTGCAAAT
260 TCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAA
* **
89596 TTACCTATTTTATTATAAT
325 TTATCTATTACATTATAAT
89615 ATGTTGAAAG
Statistics
Matches: 689, Mismatches: 13, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
364 25 0.04
365 341 0.49
366 304 0.44
367 19 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (367 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTA
TATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTTT
AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGT
CGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAAT
TATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
Found at i:91084 original size:3 final size:3
Alignment explanation
Indices: 91076--91162 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
91066 TCTTGTTTGG
* * * **
91076 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
91124 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
91163 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:91099 original size:18 final size:18
Alignment explanation
Indices: 91076--91177 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
91066 TCTTGTTTGG
91076 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
91094 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
91112 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
91130 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
91148 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
91166 AGCTTCATCTTC
1 ATCATCATCTTC
91178 TGCGACCGCT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:91143 original size:42 final size:42
Alignment explanation
Indices: 91084--91174 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
91074 GGATCATCAT
*
91084 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
91126 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
91168 CTTCATC
1 CTTCATC
91175 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:93061 original size:198 final size:199
Alignment explanation
Indices: 92629--94045 Score: 2625
Period size: 198 Copynumber: 7.1 Consensus size: 199
92619 TTTAAATTAG
92629 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
92694 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
92758 CGACAC-TTTTATATATGGATCGACACTTTATTGGTGCACCTTG-TTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
92821 AAAA
196 AAAA
92825 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
92890 ATTGTACCGGTTAGATTGAAAAATTACATTTTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
92955 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
93019 AAAA
196 AAAA
*
93023 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
93088 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
93153 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACC-TG-TTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAA
93216 AAAAA
195 AAAAA
93221 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
93286 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
93351 CGACAC-TTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
93415 AAAA
196 AAAA
*
93419 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
93484 ATTGTACCGGTTAGATTAAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
93548 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAA
93613 AAAAA
195 AAAAA
93618 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
93683 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
93748 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
93813 AAAA
196 AAAA
*
93817 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
93882 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
93947 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAA
94012 AAAAA
195 AAAAA
*
94017 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
94046 TGACCCTTAA
Statistics
Matches: 1187, Mismatches: 23, Indels: 18
0.97 0.02 0.01
Matches are distributed among these distances:
196 116 0.10
197 109 0.09
198 435 0.37
199 398 0.34
200 129 0.11
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:94161 original size:19 final size:18
Alignment explanation
Indices: 94122--94169 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
94112 TTATATTCAC
*
94122 ATACAAAAATATAATCGT
1 ATACAAAATTATAATCGT
*
94140 ATACAAAATTATAAATCTT
1 ATACAAAATTAT-AATCGT
94159 ATACAAAATTA
1 ATACAAAATTA
94170 ACTCGACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (18 bp):
ATACAAAATTATAATCGT
Found at i:95983 original size:33 final size:33
Alignment explanation
Indices: 95946--96011 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
95936 CATCTTAATA
*
95946 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
95979 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
96012 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:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:98371 original size:20 final size:18
Alignment explanation
Indices: 98317--98362 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
98307 TCCGGTATCA
98317 TTTTACCGTTTTATCATT
1 TTTTACCGTTTTATCATT
*
98335 TTGATACCGGTTTTATCATAT
1 TT-TTACC-GTTTTATCAT-T
98356 TTTTACC
1 TTTTACC
98363 TGTTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 4 0.17
20 14 0.61
21 3 0.13
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (18 bp):
TTTTACCGTTTTATCATT
Found at i:99733 original size:31 final size:33
Alignment explanation
Indices: 99648--99733 Score: 90
Period size: 36 Copynumber: 2.5 Consensus size: 33
99638 TTGTATATTA
99648 TTAC-AAATTATAAAATATTTATATATATTTTCT
1 TTACAAAATTA-AAAATATTTATATATATTTTCT
99681 TTA-AAAATTAAATTCATAATATTTATATA-ATTTT-T
1 TTACAAAATT-AA---A-AATATTTATATATATTTTCT
99716 TTACAAAATTAAAAATAT
1 TTACAAAATTAAAAATAT
99734 AAAAAAAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
31 5 0.11
32 1 0.02
33 9 0.20
34 1 0.02
35 6 0.13
36 12 0.26
37 12 0.26
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (33 bp):
TTACAAAATTAAAAATATTTATATATATTTTCT
Found at i:104413 original size:21 final size:21
Alignment explanation
Indices: 104387--104443 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
104377 TTCATATTCG
104387 CAACGCGATAGTCAAAAATCA
1 CAACGCGATAGTCAAAAATCA
* * *
104408 CAACGCGATAATC-AAATTTA
1 CAACGCGATAGTCAAAAATCA
*
104428 CAACGCGAAAGTCAAA
1 CAACGCGATAGTCAAA
104444 TCCAAAATCG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.47, C:0.23, G:0.14, T:0.16
Consensus pattern (21 bp):
CAACGCGATAGTCAAAAATCA
Found at i:105222 original size:31 final size:29
Alignment explanation
Indices: 105154--105284 Score: 70
Period size: 31 Copynumber: 4.3 Consensus size: 29
105144 AAATATTTTT
*
105154 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
105184 TGGTATATTTTATTGAAATAAAAATATT-ATAAA
1 T--TATATTTTATT--AATAAAAATATTAAT-AA
* * * * * *
105217 TTATATTAATTATTTATTAAAGTAATAGT-G
1 TTATATT--TTATTAATAAAAATATTAATAA
* * *
105247 TTATATTATATT-TTAAAAATATTAATTA
1 TTATATTTTATTAATAAAAATATTAATAA
*
105275 GTATATTTTA
1 TTATATTTTA
105285 AATATCTTTA
Statistics
Matches: 76, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
27 9 0.12
28 12 0.16
30 8 0.11
31 22 0.29
32 6 0.08
33 19 0.25
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:105303 original size:23 final size:23
Alignment explanation
Indices: 105254--105304 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
105244 GTGTTATATT
**
105254 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
105277 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
105300 ATATT
1 ATATT
105305 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:105502 original size:22 final size:22
Alignment explanation
Indices: 105472--105518 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
105462 TATAATTGAT
*
105472 TATTTTATTATAATATTAAAAA
1 TATTATATTATAATATTAAAAA
* *
105494 TATTATATTATATTATTAGAAA
1 TATTATATTATAATATTAAAAA
105516 TAT
1 TAT
105519 ATTTTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTATATTATAATATTAAAAA
Found at i:105527 original size:11 final size:11
Alignment explanation
Indices: 105513--105540 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
105503 ATATTATTAG
105513 AAATATATTTT
1 AAATATATTTT
105524 AAATATATTTT
1 AAATATATTTT
105535 AAATAT
1 AAATAT
105541 TTTAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATATTTT
Found at i:105532 original size:22 final size:23
Alignment explanation
Indices: 105484--105541 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
105474 TTTTATTATA
*
105484 ATATTAAAAATATTATATTATAT
1 ATATTAAAAATATTATATTAAAT
* *
105507 -TATTAGAAATA-TATTTTAAAT
1 ATATTAAAAATATTATATTAAAT
**
105528 ATATTTTAAATATT
1 ATATTAAAAATATT
105542 TTAATAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 8 0.29
22 19 0.68
23 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATTAAAAATATTATATTAAAT
Found at i:105540 original size:9 final size:10
Alignment explanation
Indices: 105514--105547 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
105504 TATTATTAGA
105514 AATATATTTT
1 AATATATTTT
105524 AAATATATTTT
1 -AATATATTTT
105535 AA-ATATTTT
1 AATATATTTT
105544 AATA
1 AATA
105548 ATTAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 3 0.14
11 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AATATATTTT
Found at i:105540 original size:53 final size:53
Alignment explanation
Indices: 105419--105595 Score: 131
Period size: 55 Copynumber: 3.4 Consensus size: 53
105409 ATAATTTATT
* * *
105419 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTGA
1 ATATATTATTAAATATTAAAAATAT-ATATATTATATTATTAAAATATAATTAA
* * *
105471 TTATTTTATTATAATATTAAAAATAT-TATATTATATTATTAGAAATATATTTTAA
1 ATATATTATTA-AATATTAAAAATATATATATTATATTATTA-AAATATA-ATTAA
* *
105526 ATATATT-TTAAATATTTTAATAAT-TA-ATATT-T-TGATTAAAATGAT-ATTAAA
1 ATATATTATTAAATA--TTAAAAATATATATATTATATTATTAAAAT-ATAATT-AA
*
105577 ATATTTTATT-AATATTAAA
1 ATATATTATTAAATATTAAA
105596 TTCATAAAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
49 4 0.04
50 2 0.02
51 16 0.16
52 18 0.18
53 21 0.21
54 16 0.16
55 24 0.24
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (53 bp):
ATATATTATTAAATATTAAAAATATATATATTATATTATTAAAATATAATTAA
Found at i:107815 original size:2 final size:2
Alignment explanation
Indices: 107808--107841 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
107798 TTCAAAATCC
107808 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
107842 AACTTGGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:108042 original size:28 final size:28
Alignment explanation
Indices: 108010--108066 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
108000 TAGAAAAAAG
108010 TAACAAAAAAATAGACTATATATATATA
1 TAACAAAAAAATAGACTATATATATATA
108038 TAACAAAAAAATAGACTATATATATATA
1 TAACAAAAAAATAGACTATATATATATA
108066 T
1 T
108067 GTGTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.30
Consensus pattern (28 bp):
TAACAAAAAAATAGACTATATATATATA
Found at i:110351 original size:20 final size:20
Alignment explanation
Indices: 110328--110366 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
110318 TACAAGGACC
110328 TTTATCTGGGAACATTTAGA
1 TTTATCTGGGAACATTTAGA
110348 TTTATCTGGGAACATTTAG
1 TTTATCTGGGAACATTTAG
110367 TAAGTTGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (20 bp):
TTTATCTGGGAACATTTAGA
Found at i:114143 original size:24 final size:24
Alignment explanation
Indices: 114116--114169 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
114106 GTATTCGAAA
*
114116 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
114140 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
114164 TTTGAT
1 TTTGAT
114170 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:116712 original size:19 final size:20
Alignment explanation
Indices: 116631--116713 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
116621 GGCAATCATT
*
116631 TGACTATCGCAACACAGAAA
1 TGACTATCGCAACGCAGAAA
* **
116651 TGACGT-TCGCAA-TCATCTTAA
1 TGAC-TATCGCAACGCA--GAAA
*
116672 TGTCTATCGCAACGCAGAAA
1 TGACTATCGCAACGCAGAAA
*
116692 TGACTATCGCAATGC-GAAA
1 TGACTATCGCAACGCAGAAA
116711 TGA
1 TGA
116714 AAATCACAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
19 9 0.18
20 26 0.53
21 12 0.24
22 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCAGAAA
Found at i:116739 original size:33 final size:33
Alignment explanation
Indices: 116697--116823 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
116687 AGAAATGACT
*
116697 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
116730 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
116763 ATCGCAATGCGAAATGAAAATTGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
116796 ATCACAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
116824 CGAATTTAGT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:116753 original size:19 final size:19
Alignment explanation
Indices: 116677--116788 Score: 82
Period size: 19 Copynumber: 6.4 Consensus size: 19
116667 CTTAATGTCT
* **
116677 ATCGCAACGCAGAAATGACT
1 ATCGCAATGC-GAAATGAAA
116697 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
116716 ATCACAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
116730 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
116749 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
116763 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
116782 ATTGCAA
1 ATCGCAA
116789 CGAGGGAATC
Statistics
Matches: 72, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
14 19 0.26
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.44
20 9 0.12
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:116826 original size:19 final size:18
Alignment explanation
Indices: 116677--116827 Score: 74
Period size: 19 Copynumber: 8.7 Consensus size: 18
116667 CTTAATGTCT
**
116677 ATCGCAACGCAGAAATGACT
1 ATCGCAA-GC-GAAATGAAA
116697 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
* *
116716 ATCACAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
116730 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
116749 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
116763 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
* **
116782 ATTGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
*
116796 ATCACAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
116815 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
116828 TTTAGTTTCG
Statistics
Matches: 98, Mismatches: 17, Indels: 33
0.66 0.11 0.22
Matches are distributed among these distances:
14 24 0.24
15 5 0.05
16 6 0.06
17 6 0.06
18 5 0.05
19 43 0.44
20 9 0.09
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:116892 original size:19 final size:19
Alignment explanation
Indices: 116833--116884 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
116823 GCGAATTTAG
116833 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
116852 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
116871 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
116885 AGTCATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:117010 original size:14 final size:14
Alignment explanation
Indices: 116991--117041 Score: 84
Period size: 14 Copynumber: 3.6 Consensus size: 14
116981 CATCAATTAA
116991 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
117005 ACAAATCATCTTTT
1 ACAAATCAACTTTT
*
117019 ACAAATCATCTTTT
1 ACAAATCAACTTTT
117033 ACAAATCAA
1 ACAAATCAA
117042 TTAAACAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:118434 original size:21 final size:21
Alignment explanation
Indices: 118405--118485 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
118395 GAATGGTGGG
*
118405 AGGGACCTCTTCAACGATGAT
1 AGGGGCCTCTTCAACGATGAT
* * * **
118426 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTCAACGATGAT
* * *
118447 AGGGGACTC-TCGAGGAATGAT
1 AGGGGCCTCTTCAACG-ATGAT
118468 AGGGGCCTCTTCAACGAT
1 AGGGGCCTCTTCAACGAT
118486 AGGAGTGGAC
Statistics
Matches: 41, Mismatches: 17, Indels: 4
0.66 0.27 0.06
Matches are distributed among these distances:
20 3 0.07
21 34 0.83
22 4 0.10
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.22
Consensus pattern (21 bp):
AGGGGCCTCTTCAACGATGAT
Found at i:118467 original size:42 final size:41
Alignment explanation
Indices: 118390--118508 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 41
118380 GTGAATCGGG
* * * *
118390 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGATAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
118432 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
118474 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGA
118509 CAGGCGAGTC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 4 0.06
42 55 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.24
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:119062 original size:94 final size:94
Alignment explanation
Indices: 118901--119112 Score: 388
Period size: 94 Copynumber: 2.3 Consensus size: 94
118891 GAATAGTTTC
* * *
118901 AATTGGCAACAAACGAACAAATATACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
118966 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
118995 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
119060 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
*
119089 AATTGGCAGCAACCGAATAAATTT
1 AATTGGCAGCAACCGAACAAATTT
119113 CTGAATGATT
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 114 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.20
Consensus pattern (94 bp):
AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
ACAGTGTTAAAGAATACACAGTTTAGCAG
Found at i:119434 original size:41 final size:41
Alignment explanation
Indices: 119389--119565 Score: 130
Period size: 41 Copynumber: 4.3 Consensus size: 41
119379 CGATAGTCAG
* *
119389 ATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTATCCAAATTCGCATTGCGATTTACGT
* * ** *
119430 ATTCGCATTGCGAATTAT-GAAAATCGCAACGCGA-ATACGT
1 ATTCGCATTGCG-ATTATCCAAATTCGCATTGCGATTTACGT
* * *** *
119470 AAATCGCAATGCGAATTAGGAAAATT-GCATTGCGATAGT-CAGT
1 -ATTCGCATTGCG-ATTATCCAAATTCGCATTGCGAT-TTAC-GT
* * *
119513 A-TCGCATTGCAATTTTCCAAATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTATCCAAATTCGCATTGCGATTTACGT
119553 ATTCGCATTGCGA
1 ATTCGCATTGCGA
119566 ATTGGGAAAA
Statistics
Matches: 103, Mismatches: 24, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
40 16 0.16
41 74 0.72
42 10 0.10
43 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (41 bp):
ATTCGCATTGCGATTATCCAAATTCGCATTGCGATTTACGT
Found at i:119435 original size:20 final size:21
Alignment explanation
Indices: 119389--119442 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
119379 CGATAGTCAG
*
119389 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACCTA
*
119410 ATTCGCATTGCGATTTACGT-
1 ATTCGCATTGCGATTTACCTA
119430 ATTCGCATTGCGA
1 ATTCGCATTGCGA
119443 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (21 bp):
ATTCGCATTGCGATTTACCTA
Found at i:119463 original size:21 final size:21
Alignment explanation
Indices: 119439--119494 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
119429 TATTCGCATT
*
119439 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
119460 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
119480 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
119495 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:119503 original size:21 final size:21
Alignment explanation
Indices: 119432--119504 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
119422 ATTTACGTAT
* *
119432 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
119453 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
119473 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
119494 TTGCATTGCGA
1 TCGCAATGCGA
119505 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:119607 original size:21 final size:22
Alignment explanation
Indices: 119555--119607 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
119545 ATTTACTTAT
119555 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
119576 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
119597 TCGCATTGCGA
1 TCGCATTGCGA
119608 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:119627 original size:123 final size:123
Alignment explanation
Indices: 119368--119607 Score: 365
Period size: 123 Copynumber: 1.9 Consensus size: 123
119358 GGCGCTATGT
* *
119368 AAATCGCATTGCGATAGTCAGATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTATT
1 AAATCGCATTGCGATAGTCAGATTCGCATTGCAATTTTCCAAATTCGCATTGCGATTTACGTATT
* *
119433 CGCATTGCGAATTATGAAAATCGCAACGCGAATACGTAAATCGCAATGCGAATTAGGA
66 CGCATTGCGAATTAGGAAAATCGCAACGCGAATACGAAAATCGCAATGCGAATTAGGA
* *
119491 AAATTGCATTGCGATAGTCAG-TATCGCATTGCAATTTTCCAAATTCGCATTGCGATTTACTTAT
1 AAATCGCATTGCGATAGTCAGAT-TCGCATTGCAATTTTCCAAATTCGCATTGCGATTTACGTAT
* ** *
119555 TCGCATTGCGAATTGGGAAAATCGCAACGCGAAATTGGAAAATCGCATTGCGA
65 TCGCATTGCGAATTAGGAAAATCGCAACGCG-AATACGAAAATCGCAATGCGA
119608 TAGTAATAAT
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
122 1 0.01
123 87 0.83
124 17 0.16
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (123 bp):
AAATCGCATTGCGATAGTCAGATTCGCATTGCAATTTTCCAAATTCGCATTGCGATTTACGTATT
CGCATTGCGAATTAGGAAAATCGCAACGCGAATACGAAAATCGCAATGCGAATTAGGA
Found at i:124642 original size:22 final size:22
Alignment explanation
Indices: 124602--124678 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
124592 ATCGCGTTGC
124602 ATCGCAACGCGA--TTCCAAGA
1 ATCGCAACGCGATCTTCCAAGA
124622 ATCGCAACGCGATCTTCCAAGA
1 ATCGCAACGCGATCTTCCAAGA
124644 ATCGCAACGCGATCTTCCAAGA
1 ATCGCAACGCGATCTTCCAAGA
*
124666 ATCGCAATGCGAT
1 ATCGCAACGCGAT
124679 AGTCTACAGT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
20 12 0.22
22 42 0.78
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGCGATCTTCCAAGA
Found at i:124809 original size:6 final size:6
Alignment explanation
Indices: 124798--124858 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
124788 GACACGTATT
124798 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
124846 A-CACG ACC-CG ACC
1 ACCACG ACCACG ACC
124859 CGAGACGAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
5 10 0.19
6 44 0.81
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:125588 original size:6 final size:6
Alignment explanation
Indices: 125547--125585 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
125537 TCTCGTCTCG
*
125547 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTAGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
125586 AGTACGTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.03, C:0.13, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:125680 original size:20 final size:20
Alignment explanation
Indices: 125657--125764 Score: 137
Period size: 20 Copynumber: 5.4 Consensus size: 20
125647 ATTTTCAACG
* * *
125657 TTGCGATTCTCTCAGTCGCG
1 TTGCGATTCTATCAATCGCA
* *
125677 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTATCAATCGCA
*
125697 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTATCAATCGCA
*
125717 TTGCGATTGC-ATAAATCGCA
1 TTGCGATT-CTATCAATCGCA
125737 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
125757 TTGCGATT
1 TTGCGATT
125765 TTCTTCTAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.01
20 77 0.97
21 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (20 bp):
TTGCGATTCTATCAATCGCA
Found at i:125824 original size:20 final size:20
Alignment explanation
Indices: 125799--125852 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
125789 TAGATGCTCG
*
125799 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
125819 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
125839 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
125853 AAATCGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:125879 original size:19 final size:20
Alignment explanation
Indices: 125839--125889 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
125829 TTCTTTTTAA
*
125839 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
125859 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
125878 CGTTGCGATTTT
1 CGTTGCGATTTT
125890 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:132637 original size:2 final size:2
Alignment explanation
Indices: 132632--132657 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
132622 ATATAGATAT
132632 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
132658 GGTGAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:137998 original size:58 final size:59
Alignment explanation
Indices: 137930--138044 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 59
137920 ATACAAATAG
* * *
137930 TCATCGACTATAG-AGTTTTGTTTTATTGAGTTA-CCTATTATCAAAAGTTATAAAATCA
1 TCATCGACTATAGCA-TCTTGTTTTATTGAATTATCCAATTATCAAAAGTTATAAAATCA
* * *
137988 TCATCGACTATCGCATCTTGTTTTATTGAATTATTCAATTATTAAAAGTTATAAAAT
1 TCATCGACTATAGCATCTTGTTTTATTGAATTATCCAATTATCAAAAGTTATAAAAT
138045 AGTCACCTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
58 28 0.57
59 21 0.43
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (59 bp):
TCATCGACTATAGCATCTTGTTTTATTGAATTATCCAATTATCAAAAGTTATAAAATCA
Found at i:150749 original size:2 final size:2
Alignment explanation
Indices: 150742--150783 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
150732 CAGAAGATCC
150742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
150784 GTATTTTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.