Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001728.1 Hibiscus syriacus cultivar Beakdansim tig00003493_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: 128489
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:714 original size:26 final size:26
Alignment explanation
Indices: 678--727 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
668 AATTCACGGT
678 ATTTATCGATGATGAAGCATCTTTAA
1 ATTTATCGATGATGAAGCATCTTTAA
*
704 ATTTCTCGATGATGAAGCATCTTT
1 ATTTATCGATGATGAAGCATCTTT
728 TCAAATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (26 bp):
ATTTATCGATGATGAAGCATCTTTAA
Found at i:1327 original size:2 final size:2
Alignment explanation
Indices: 1320--1357 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
1310 TTACCATCTC
1320 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
1358 TCTCTTGGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5802 original size:2 final size:2
Alignment explanation
Indices: 5795--5830 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
5785 TAGATTATCA
5795 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
5831 TGAATGTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6636 original size:18 final size:18
Alignment explanation
Indices: 6613--6647 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6603 CACCCACCTA
*
6613 TTATTTAGTTTTTTTTAG
1 TTATTTAATTTTTTTTAG
6631 TTATTTAATTTTTTTTA
1 TTATTTAATTTTTTTTA
6648 AATAACATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTATTTAATTTTTTTTAG
Found at i:7254 original size:24 final size:21
Alignment explanation
Indices: 7218--7260 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 21
7208 TATTTTTTTT
7218 TATTTTTTAAATGATGATGTGA
1 TATTTTTTAAATGAT-ATGTGA
7240 TATTATTTTATAATGATATGT
1 TATT-TTTTA-AATGATATGT
7261 CAACATCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 9 0.47
24 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (21 bp):
TATTTTTTAAATGATATGTGA
Found at i:7665 original size:13 final size:13
Alignment explanation
Indices: 7647--7671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7637 TCACAATATC
7647 ATATTTAAAAAAA
1 ATATTTAAAAAAA
7660 ATATTTAAAAAA
1 ATATTTAAAAAA
7672 CCTATGGTCT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATTTAAAAAAA
Found at i:15439 original size:22 final size:22
Alignment explanation
Indices: 15391--15432 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15381 TCTTAATACT
* *
15391 TGAATGAAATATACTGAATTTG
1 TGAATGAAATAAACTAAATTTG
*
15413 TGAATGAAATAAATTAAATT
1 TGAATGAAATAAACTAAATT
15433 GTGGAATCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (22 bp):
TGAATGAAATAAACTAAATTTG
Found at i:20275 original size:23 final size:23
Alignment explanation
Indices: 20226--20280 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
20216 ATAATATCTC
* **
20226 AATTGAAATGTTTTTTTCTTCTTA
1 AATTTAAATGTTTTTTTCTT-AAA
*
20250 ATTTTAAATGTTTTTTT-TTAAA
1 AATTTAAATGTTTTTTTCTTAAA
20272 AATTTAAAT
1 AATTTAAAT
20281 AAGAGTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 9 0.35
23 2 0.08
24 15 0.58
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (23 bp):
AATTTAAATGTTTTTTTCTTAAA
Found at i:20504 original size:25 final size:25
Alignment explanation
Indices: 20461--20509 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
20451 ATAACTATAT
* * *
20461 TTTTTATGTATATTTAATAATTAAC
1 TTTTTATGTAAAATAAATAATTAAC
*
20486 TTTTTATGTAAAATAAATATTTAA
1 TTTTTATGTAAAATAAATAATTAA
20510 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTTTATGTAAAATAAATAATTAAC
Found at i:31782 original size:18 final size:18
Alignment explanation
Indices: 31752--31794 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
31742 ATTATATAAG
31752 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
31769 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
31787 TAAAATAC
1 TAAAATAC
31795 AAAATATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:34967 original size:24 final size:24
Alignment explanation
Indices: 34935--34996 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
34925 CCATCTCCAG
*
34935 CTCCTTCGCCATCAGAAACACCAT
1 CTCCATCGCCATCAGAAACACCAT
*
34959 CTCCATCGCCATCAGAATCACCAT
1 CTCCATCGCCATCAGAAACACCAT
* *
34983 CACCATCGTCATCA
1 CTCCATCGCCATCA
34997 ATTCCCGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.29, C:0.42, G:0.08, T:0.21
Consensus pattern (24 bp):
CTCCATCGCCATCAGAAACACCAT
Found at i:37129 original size:3 final size:3
Alignment explanation
Indices: 37116--37175 Score: 77
Period size: 3 Copynumber: 20.3 Consensus size: 3
37106 CTACCAAAAA
** *
37116 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GGT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
37163 TAT TAA TAT TAT T
1 TAT TAT TAT TAT T
37176 TACATTTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:38000 original size:22 final size:21
Alignment explanation
Indices: 37966--38008 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
37956 CTTATTCCGG
* *
37966 CCGCCATGCGCCGTCGTAGGCT
1 CCGCCACGAGCCGTCGT-GGCT
37988 CCGCCACGAGCCGTCGTGGCT
1 CCGCCACGAGCCGTCGTGGCT
38009 AACGCCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.09, C:0.42, G:0.33, T:0.16
Consensus pattern (21 bp):
CCGCCACGAGCCGTCGTGGCT
Found at i:38614 original size:30 final size:30
Alignment explanation
Indices: 38580--38725 Score: 172
Period size: 30 Copynumber: 4.9 Consensus size: 30
38570 TCCCTAAACA
38580 TTCTATTTTT-TCTATTTTAGTCCTTTAACT
1 TTCTATTTTTGT-TATTTTAGTCCTTTAACT
38610 TTCTATTTTTGTTATTTTAGTCCTTTAACT
1 TTCTATTTTTGTTATTTTAGTCCTTTAACT
* * * *
38640 TTCTGTTTTTATTATTTTAATCCTTTAAGT
1 TTCTATTTTTGTTATTTTAGTCCTTTAACT
* * *
38670 TTCTATTTTTGTTGTTTTAGTCCTGTAAAT
1 TTCTATTTTTGTTATTTTAGTCCTTTAACT
**
38700 TTCCGTTTTT-TCTA-TTTAGTCCTTTA
1 TTCTATTTTTGT-TATTTTAGTCCTTTA
38726 TTTTACTAAG
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
29 12 0.12
30 87 0.87
31 1 0.01
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.62
Consensus pattern (30 bp):
TTCTATTTTTGTTATTTTAGTCCTTTAACT
Found at i:38649 original size:60 final size:60
Alignment explanation
Indices: 38580--38725 Score: 206
Period size: 60 Copynumber: 2.5 Consensus size: 60
38570 TCCCTAAACA
* * *
38580 TTCTATTTTTTCTATTTTAGTCCTTTAACTTTCTATTTTTGTTATTTTAGTCCTTTAACT
1 TTCTGTTTTTTCTATTTTAGTCCTTTAACTTTCTATTTTTGTTATTTTAGTCCTGTAAAT
* * *
38640 TTCTGTTTTTAT-TATTTTAATCCTTTAAGTTTCTATTTTTGTTGTTTTAGTCCTGTAAAT
1 TTCTGTTTTT-TCTATTTTAGTCCTTTAACTTTCTATTTTTGTTATTTTAGTCCTGTAAAT
*
38700 TTCCGTTTTTTCTA-TTTAGTCCTTTA
1 TTCTGTTTTTTCTATTTTAGTCCTTTA
38726 TTTTACTAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
59 12 0.16
60 63 0.83
61 1 0.01
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.62
Consensus pattern (60 bp):
TTCTGTTTTTTCTATTTTAGTCCTTTAACTTTCTATTTTTGTTATTTTAGTCCTGTAAAT
Found at i:47033 original size:3 final size:3
Alignment explanation
Indices: 47025--47079 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
47015 TGAAGATAAC
47025 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
47073 ATA ATA A
1 ATA ATA A
47080 ATAAATAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49128 original size:60 final size:60
Alignment explanation
Indices: 49029--49149 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
49019 AGAACCCACG
*
49029 CAAGGCATCGTCACCTAATTTTTCAATGTTCCAAAGTCTACCCCAGTTTCTGGTTCTCCT
1 CAAGGCATCGTCACCTAATTTTTCAATGTGCCAAAGTCTACCCCAGTTTCTGGTTCTCCT
*
49089 CAAGGCATCGTCACCTAATTTTTCAATGTGCCAATGTCTACCCCAGTTTCTGGTTCTCCT
1 CAAGGCATCGTCACCTAATTTTTCAATGTGCCAAAGTCTACCCCAGTTTCTGGTTCTCCT
49149 C
1 C
49150 TCTTTTCATC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.35
Consensus pattern (60 bp):
CAAGGCATCGTCACCTAATTTTTCAATGTGCCAAAGTCTACCCCAGTTTCTGGTTCTCCT
Found at i:49575 original size:2 final size:2
Alignment explanation
Indices: 49568--49594 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49558 TCATAAAATT
49568 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
49595 TACAAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51764 original size:11 final size:11
Alignment explanation
Indices: 51745--51811 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
51735 GTTCGGTGAG
*
51745 AAATTGAGCTT
1 AAATCGAGCTT
*
51756 AAATCGAGCTCA
1 AAATCGAGCT-T
51768 AAATCGAGCTT
1 AAATCGAGCTT
* *
51779 GAATCGAGCTCA
1 AAATCGAGCT-T
51791 AAATCGAGCTT
1 AAATCGAGCTT
* *
51802 GAATTGAGCT
1 AAATCGAGCT
51812 CGAGTCTCGA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
11 26 0.58
12 19 0.42
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (11 bp):
AAATCGAGCTT
Found at i:51771 original size:23 final size:23
Alignment explanation
Indices: 51745--51812 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
51735 GTTCGGTGAG
* *
51745 AAATTGAGCTTAAATCGAGCTCA
1 AAATCGAGCTTGAATCGAGCTCA
51768 AAATCGAGCTTGAATCGAGCTCA
1 AAATCGAGCTTGAATCGAGCTCA
*
51791 AAATCGAGCTTGAATTGAGCTC
1 AAATCGAGCTTGAATCGAGCTC
51813 GAGTCTCGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (23 bp):
AAATCGAGCTTGAATCGAGCTCA
Found at i:51773 original size:12 final size:12
Alignment explanation
Indices: 51756--51800 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
51746 AATTGAGCTT
51756 AAATCGAGCTCA
1 AAATCGAGCTCA
*
51768 AAATCGAGCT-T
1 AAATCGAGCTCA
*
51779 GAATCGAGCTCA
1 AAATCGAGCTCA
51791 AAATCGAGCT
1 AAATCGAGCT
51801 TGAATTGAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (12 bp):
AAATCGAGCTCA
Found at i:59731 original size:2 final size:2
Alignment explanation
Indices: 59724--59769 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
59714 AAATTTAAAA
59724 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
59766 AT AT
1 AT AT
59770 GAAAGTAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61314 original size:55 final size:51
Alignment explanation
Indices: 61291--61769 Score: 586
Period size: 51 Copynumber: 9.2 Consensus size: 51
61281 AAGACTCGAA
* * *
61291 CAATCTTCATA-AAACGTGTCTGCTCTCTATTCATTCAGAGAGTATAAGACTT
1 CAATCTTCA-ACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGAC-T
* * * * * * * *
61343 GAACAATCTTTAATAAAACGGGTCCGCTCTCTCTTCCTTTAGAGAGTATAGAACT
1 ---CAATCTTCAA-CAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* * *
61398 CGAAAAATCTTCAATAAACAG-GTCCGCTCCCTATTCTTTCAGGGAGTATAGGACT
1 C----AATCTTCAACAAAC-GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* *
61453 CAATCTTCAACGAAC-TAGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGT-GTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* *
61504 CAATCTTCAACGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* * *
61555 CAATCTTCAACGAACTTGTCTGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* *
61606 CAATCTTCAACGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* *
61657 CAATCTTCAACGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* *
61708 CAATCTTCAACGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
61759 CAATCTTCAAC
1 CAATCTTCAAC
61770 GAACTTGTTT
Statistics
Matches: 391, Mismatches: 23, Indels: 24
0.89 0.05 0.05
Matches are distributed among these distances:
51 305 0.78
52 2 0.01
54 1 0.00
55 42 0.11
56 41 0.10
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
Found at i:61387 original size:56 final size:56
Alignment explanation
Indices: 61257--61453 Score: 197
Period size: 55 Copynumber: 3.6 Consensus size: 56
61247 TGACGAGCCT
* * * * *
61257 GCTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATC-TTCATAAAACGTGTCT
1 GCTCTCTATTCCTTTAGAG-AGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* * *
61312 GCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTTAATAAAACGGGTCC
1 GCTCTCTATTCCTTTAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* * * *
61368 GCTCTCTCTTCCTTTAGAGAGTAT-AGAACTCGAAAAATCTTCAAT-AAACAGGTCC
1 GCTCTCTATTCCTTTAGAGAGTATAAG-ACTCGAACAATCTTTAATAAAACGGGTCC
* * *
61423 GCTCCCTATT-CTTTCAGGGAGTATAGGACTC
1 GCTCTCTATTCCTTT-AGAGAGTATAAGACTC
61454 AATCTTCAAC
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
54 4 0.03
55 65 0.54
56 51 0.43
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (56 bp):
GCTCTCTATTCCTTTAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
Found at i:61477 original size:51 final size:51
Alignment explanation
Indices: 61419--61777 Score: 673
Period size: 51 Copynumber: 7.0 Consensus size: 51
61409 CAATAAACAG
* * *
61419 GTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCAATCTTCAACGAACTA
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
61470 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
61521 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
61572 GTCTGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
61623 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
61674 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
61725 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
61776 GT
1 GT
61778 TTGCTTCACT
Statistics
Matches: 302, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 302 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (51 bp):
GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
Found at i:61547 original size:102 final size:102
Alignment explanation
Indices: 61257--61777 Score: 668
Period size: 102 Copynumber: 5.0 Consensus size: 102
61247 TGACGAGCCT
* * * * *
61257 GCTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTTCATA-AAACGTGTCTGCTCTCTA
1 GCTCCCTATTCCTTCAGAG-AGTATAGGACT----CAATCTTCA-ACGAACTTGTCCGCTCCCTA
* * ** **
61320 TTCATTCAGAGAGTATAAGACTTGAACAATCTTTAATAAAACGGGTCC
60 TTCATTCAGAGAGTATAGGAC-T---CAATCTTCAA-CGAACTTGTCC
* * * * ** **
61368 GCTCTCTCTTCCTTTAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAGGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTC----AATCTTCAACGAACTTGTCCGCTCCCTATT
* * *
61433 CTTTCAGGGAGTATAGGACTCAATCTTCAACGAACTAGTCC
62 CATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
61474 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCATT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCATT
*
61539 CAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCT
66 CAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
*
61576 GCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCATT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCATT
61641 CAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
66 CAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
*
61678 GCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCATT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCATT
61743 CAGAGAGTATAGGACTCAATCTTCAACGAACTTGT
66 CAGAGAGTATAGGACTCAATCTTCAACGAACTTGT
61778 TTGCTTCACT
Statistics
Matches: 373, Mismatches: 31, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
102 263 0.71
106 34 0.09
107 10 0.03
110 2 0.01
111 63 0.17
112 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (102 bp):
GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCATT
CAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
Found at i:62922 original size:15 final size:15
Alignment explanation
Indices: 62902--62933 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
62892 TGAACCCTCC
62902 TTTTATTTCTCTTTT
1 TTTTATTTCTCTTTT
62917 TTTTATTTCTCTTTT
1 TTTTATTTCTCTTTT
62932 TT
1 TT
62934 CATTTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTCTCTTTT
Found at i:62963 original size:24 final size:23
Alignment explanation
Indices: 62913--62970 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
62903 TTTATTTCTC
62913 TTTTT-TTTATTTCTCTTTTTTCA
1 TTTTTCTTT-TTTCTCTTTTTTCA
*
62936 TTTTTCATTTTTTCTCTTCTTTT-T
1 TTTTTC-TTTTTTCTCTT-TTTTCA
62960 TTTTTCTTTTT
1 TTTTTCTTTTT
62971 CGTTTTTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 10 0.32
24 14 0.45
25 7 0.23
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTCTTTTTTCTCTTTTTTCA
Found at i:62988 original size:29 final size:31
Alignment explanation
Indices: 62928--62989 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
62918 TTTATTTCTC
* *
62928 TTTTTTCATTTTTCATTTTTTCTCTTCTTTT
1 TTTTTTCATTTTTCATTTTTTCTCATCATTT
*
62959 TTTTTTC-TTTTTCGTTTTTTC-CATCATTT
1 TTTTTTCATTTTTCATTTTTTCTCATCATTT
62988 TT
1 TT
62990 CGTTTTTCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.29
30 13 0.46
31 7 0.25
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (31 bp):
TTTTTTCATTTTTCATTTTTTCTCATCATTT
Found at i:72739 original size:47 final size:49
Alignment explanation
Indices: 72671--72776 Score: 144
Period size: 47 Copynumber: 2.2 Consensus size: 49
72661 TGTTATCCAC
*
72671 AAAAAGAAATCCTAACTGCATGATATCTAATTCGCATGC-TTATTCAAA
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCAAA
* * *
72719 AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCATTTATTCGAA
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA-TTATTCAAA
*
72768 AAAACGAAA
1 AAAAAGAAA
72777 ATAAATGACT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
47 27 0.54
48 8 0.16
49 15 0.30
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.26
Consensus pattern (49 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCAAA
Found at i:84158 original size:2 final size:2
Alignment explanation
Indices: 84147--84182 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
84137 CACCACATCG
84147 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
84183 GAAAGGGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:84830 original size:8 final size:8
Alignment explanation
Indices: 84817--84878 Score: 58
Period size: 8 Copynumber: 8.1 Consensus size: 8
84807 GTTTAAAGTA
84817 TATTTTAT
1 TATTTTAT
84825 TATTTT-T
1 TATTTTAT
84832 TATTTT-T
1 TATTTTAT
*
84839 TATTTTTT
1 TATTTTAT
* *
84847 TATTTAAG
1 TATTTTAT
*
84855 TATTTAAT
1 TATTTTAT
*
84863 T-TTTTAA
1 TATTTTAT
84870 TATTTTAT
1 TATTTTAT
84878 T
1 T
84879 TAATTAAGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
7 19 0.42
8 26 0.58
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (8 bp):
TATTTTAT
Found at i:84835 original size:15 final size:15
Alignment explanation
Indices: 84817--84851 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
84807 GTTTAAAGTA
84817 TATTTTATTA-TTTTT
1 TATTTT-TTATTTTTT
84832 TATTTTTTATTTTTT
1 TATTTTTTATTTTTT
84847 TATTT
1 TATTT
84852 AAGTATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TATTTTTTATTTTTT
Found at i:84844 original size:6 final size:7
Alignment explanation
Indices: 84817--84851 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
84807 GTTTAAAGTA
84817 TATTTTAT
1 TATTTT-T
84825 TATTTTT
1 TATTTTT
84832 TATTTTT
1 TATTTTT
84839 TATTTTTT
1 TA-TTTTT
84847 TATTT
1 TATTT
84852 AAGTATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.50
8 13 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:84858 original size:16 final size:16
Alignment explanation
Indices: 84839--84893 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
84829 TTTTATTTTT
84839 TATTTTTTTATTTAAG
1 TATTTTTTTATTTAAG
*
84855 TATTTAATTT-TTTAA-
1 TATTT-TTTTATTTAAG
*
84870 TATTTTATTTAATTAAG
1 TATTTT-TTTATTTAAG
84887 T-TTTTTT
1 TATTTTTT
84894 GTAGATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
15 10 0.31
16 18 0.56
17 4 0.12
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
TATTTTTTTATTTAAG
Found at i:84879 original size:15 final size:15
Alignment explanation
Indices: 84829--84879 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
84819 TTTTATTATT
84829 TTTTATTTTTT-AT-
1 TTTTATTTTTTAATA
*
84842 TTTT-TTATTTAAGTA
1 TTTTATTTTTTAA-TA
*
84857 TTTAATTTTTTAATA
1 TTTTATTTTTTAATA
84872 TTTTATTT
1 TTTTATTT
84880 AATTAAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 5 0.17
13 5 0.17
14 1 0.03
15 12 0.40
16 7 0.23
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTATTTTTTAATA
Found at i:85911 original size:13 final size:13
Alignment explanation
Indices: 85885--85917 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
85875 ATAATTATTT
85885 TTTCTTTTCTTCC
1 TTTCTTTTCTTCC
85898 TTTCATTTTC-TCC
1 TTTC-TTTTCTTCC
85911 TTTCTTT
1 TTTCTTT
85918 ATTTATTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 11 0.58
14 5 0.26
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTCTTTTCTTCC
Found at i:85914 original size:21 final size:20
Alignment explanation
Indices: 85879--85937 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
85869 TCATCTATAA
* * *
85879 TTATTTTTTCTTTTCTTCCT
1 TTATTTTCTCCTTTCTTCAT
*
85899 TTCATTTTCTCCTTTCTTTAT
1 TT-ATTTTCTCCTTTCTTCAT
85920 TTATTCTTCTCC-TTCTTC
1 TTATT-TTCTCCTTTCTTC
85938 TCTCCTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 10 0.31
21 22 0.69
ACGTcount: A:0.07, C:0.25, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTTTCTCCTTTCTTCAT
Found at i:87084 original size:110 final size:108
Alignment explanation
Indices: 86961--87182 Score: 308
Period size: 112 Copynumber: 2.0 Consensus size: 108
86951 TTATGACACT
*
86961 ATGGGAATGCTCGGCGTCTTCAAGTAATT-GG-C-CT-GTGGGATATCTCGGCGTCTTCTGCATG
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGACTCTGGTGGGATATCTCGGCGTCTTCTGCA--
87022 CTACAAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
64 -T---AGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
*
87071 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGATCTCTCGGAGTGGGATCTCTCGGCGTCTTCTG
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGA-CTCT--G-GTGGGATATCTCGGCGTCTTCTG
87136 CATAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
62 CATAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
87183 GCGGGAATCT
Statistics
Matches: 102, Mismatches: 2, Indels: 14
0.86 0.02 0.12
Matches are distributed among these distances:
110 28 0.27
111 2 0.02
112 44 0.43
113 1 0.01
114 2 0.02
115 1 0.01
118 24 0.24
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.29
Consensus pattern (108 bp):
ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGACTCTGGTGGGATATCTCGGCGTCTTCTGCATA
GGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
Found at i:90861 original size:8 final size:8
Alignment explanation
Indices: 90850--91383 Score: 304
Period size: 8 Copynumber: 71.8 Consensus size: 8
90840 ATTATTTAAC
90850 TTTAATGA
1 TTTAATGA
90858 TTTAAT-A
1 TTTAATGA
* *
90865 -ATAATTA
1 TTTAATGA
*
90872 TTTAA--C
1 TTTAATGA
90878 TTTAATGA
1 TTTAATGA
90886 TTTAAT-A
1 TTTAATGA
* *
90893 -ATAATTA
1 TTTAATGA
*
90900 TTTAA--C
1 TTTAATGA
90906 TTTAATGA
1 TTTAATGA
90914 TTTAAT-A
1 TTTAATGA
* *
90921 -ATAATTA
1 TTTAATGA
90928 CTTTAATGA
1 -TTTAATGA
90937 TTTAAT--
1 TTTAATGA
90943 TTTAATGA
1 TTTAATGA
90951 TTTAATGA
1 TTTAATGA
*
90959 TTTAA--C
1 TTTAATGA
90965 TTTAATGA
1 TTTAATGA
90973 TTTAAT-A
1 TTTAATGA
* *
90980 -ATAATTA
1 TTTAATGA
90987 CTTTAATGA
1 -TTTAATGA
*
90996 TTTAA--C
1 TTTAATGA
91002 TTTAATGA
1 TTTAATGA
91010 TTTAAT-A
1 TTTAATGA
* *
91017 -ATAATTA
1 TTTAATGA
91024 CTTTAATGA
1 -TTTAATGA
*
91033 TTTAA--C
1 TTTAATGA
91039 TTTAATGA
1 TTTAATGA
91047 TTTAAT-A
1 TTTAATGA
* *
91054 -ATAATTA
1 TTTAATGA
91061 CTTTAATGA
1 -TTTAATGA
*
91070 TTTAA--C
1 TTTAATGA
91076 TTTAATGA
1 TTTAATGA
91084 TTTAAT-A
1 TTTAATGA
* *
91091 -ATAATTA
1 TTTAATGA
91098 CTTTAATGA
1 -TTTAATGA
*
91107 TTTAA--C
1 TTTAATGA
91113 TTTAATGA
1 TTTAATGA
91121 TTTAAT-A
1 TTTAATGA
* *
91128 -ATAATTA
1 TTTAATGA
91135 CTTTAATGA
1 -TTTAATGA
91144 TTTAATGA
1 TTTAATGA
91152 TTTAATGA
1 TTTAATGA
91160 TTTAATGA
1 TTTAATGA
91168 TTTAATGA
1 TTTAATGA
91176 TTTAATGA
1 TTTAATGA
91184 TTTAATGA
1 TTTAATGA
91192 TTTAAT-A
1 TTTAATGA
* *
91199 -ATAATTA
1 TTTAATGA
91206 CTTTAATGA
1 -TTTAATGA
*
91215 TTTAA--C
1 TTTAATGA
91221 TTTAATGA
1 TTTAATGA
91229 TTTAAT-A
1 TTTAATGA
* *
91236 -ATAATTA
1 TTTAATGA
91243 CTTTAATGA
1 -TTTAATGA
91252 TTTAATGA
1 TTTAATGA
91260 TTTAATGA
1 TTTAATGA
91268 TTTAAT-A
1 TTTAATGA
* *
91275 -ATAATTA
1 TTTAATGA
91282 TTTTAATGA
1 -TTTAATGA
91291 TTTAATGA
1 TTTAATGA
91299 TTTAAT-A
1 TTTAATGA
* *
91306 -ATAATTA
1 TTTAATGA
91313 CTTTAATGA
1 -TTTAATGA
91322 TTTAAT--
1 TTTAATGA
*
91328 TTTAATAA
1 TTTAATGA
91336 TTTAAT-A
1 TTTAATGA
* *
91343 -ATAATTA
1 TTTAATGA
*
91350 CTTAAT--
1 TTTAATGA
91356 TTTAATGA
1 TTTAATGA
91364 TTTAATG-
1 TTTAATGA
91371 -TTAATGA
1 TTTAATGA
91378 TTTAAT
1 TTTAAT
91384 AATAATTACT
Statistics
Matches: 413, Mismatches: 53, Indels: 120
0.70 0.09 0.20
Matches are distributed among these distances:
6 115 0.28
7 26 0.06
8 222 0.54
9 50 0.12
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (8 bp):
TTTAATGA
Found at i:90941 original size:37 final size:36
Alignment explanation
Indices: 90894--91234 Score: 142
Period size: 37 Copynumber: 9.3 Consensus size: 36
90884 GATTTAATAA
*
90894 TAATTATTTAACTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAA-TTTAATGATTTAATAATAATTACTT
*
90931 TAATGATTTAATTTTAATGATTTAATGAT--TTAACTT
1 TAATGATTTAA-TTTAATGATTTAATAATAATT-ACTT
* * *
90967 TAATGATTTAATAATAATTACTTTAATGAT--TTAACTT
1 TAATGATTTAAT-TTAATGA-TTTAATAATAATT-ACTT
* * *
91004 TAATGATTTAATAATAATTACTTTAATGAT--TTAACTT
1 TAATGATTTAAT-TTAATGA-TTTAATAATAATT-ACTT
* * *
91041 TAATGATTTAATAATAATTACTTTAATGAT--TTAACTT
1 TAATGATTTAAT-TTAATGA-TTTAATAATAATT-ACTT
* * *
91078 TAATGATTTAATAATAATTACTTTAATGAT--TTAACTT
1 TAATGATTTAAT-TTAATGA-TTTAATAATAATT-ACTT
* * * *
91115 TAATGATTTAA--TAAT-AATTACT-TTAATGA-TT
1 TAATGATTTAATTTAATGATTTAATAATAATTACTT
* *
91146 TAATGATTTAATGATTTAATGATTTAATGATTTAATGA-TT
1 TAATGATTT-A--ATTTAATGATTTAAT-A-ATAATTACTT
* * *
91186 TAATGATTTAATAATAATTACTTTAATGAT--TTAACTT
1 TAATGATTTAAT-TTAATGA-TTTAATAATAATT-ACTT
91223 TAATGATTTAAT
1 TAATGATTTAAT
91235 AATAATTACT
Statistics
Matches: 270, Mismatches: 16, Indels: 36
0.84 0.05 0.11
Matches are distributed among these distances:
31 12 0.04
32 6 0.02
33 2 0.01
34 5 0.02
35 4 0.01
36 25 0.09
37 186 0.69
38 5 0.02
39 7 0.03
40 18 0.07
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (36 bp):
TAATGATTTAATTTAATGATTTAATAATAATTACTT
Found at i:91258 original size:31 final size:31
Alignment explanation
Indices: 91144--91336 Score: 194
Period size: 31 Copynumber: 5.8 Consensus size: 31
91134 ACTTTAATGA
* *
91144 TTTAATGATTTAATGATTTAATGATTTAATGA-
1 TTTAATGATTTAATGATTTAAT-A-ATAATTAC
91176 TTTAATGATTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATGATTTAATAATAATTAC
91207 TTTAATGATTTAACTTTAATGATTTAATAATAATTAC
1 TTTAATG-----A-TTTAATGATTTAATAATAATTAC
*
91244 TTTAATGATTTAATGATTTAATGATTTAATAATAATTAT
1 --------TTTAATGATTTAATGATTTAATAATAATTAC
91283 TTTAATGATTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATGATTTAATAATAATTAC
91314 TTTAATGATTTAAT--TTTAATAAT
1 TTTAATGATTTAATGATTTAATAAT
91337 TTAATAATAA
Statistics
Matches: 142, Mismatches: 4, Indels: 33
0.79 0.02 0.18
Matches are distributed among these distances:
29 9 0.06
30 5 0.04
31 52 0.37
32 22 0.15
36 1 0.01
37 23 0.16
39 22 0.15
40 1 0.01
45 7 0.05
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (31 bp):
TTTAATGATTTAATGATTTAATAATAATTAC
Found at i:91333 original size:23 final size:23
Alignment explanation
Indices: 90848--91341 Score: 229
Period size: 23 Copynumber: 20.3 Consensus size: 23
90838 TAATTATTTA
*
90848 ACTTTAATGATTTAATAATAATTATTT
1 ACTTTAATGATTTAAT--T--TTAATT
*
90875 AACTTTAATGATTTAATAATAATTATTT
1 -ACTTTAATGATTTAAT--T--TTAATT
**
90903 AACTTTAATGATTTAATAATAATT
1 -ACTTTAATGATTTAATTTTAATT
*
90927 ACTTTAATGATTTAATTTTAATG
1 ACTTTAATGATTTAATTTTAATT
* *
90950 A-TTTAATGATTTAACTTTAATG
1 ACTTTAATGATTTAATTTTAATT
* * *
90972 A-TTTAATAATAATTACTTTAATGATTT
1 ACTTTAATGAT--TTAATTT--T-AATT
**
90999 AACTTTAATGATTTAATAATAATT
1 -ACTTTAATGATTTAATTTTAATT
* *
91023 ACTTTAATGATTTAACTTTAATG
1 ACTTTAATGATTTAATTTTAATT
* * *
91046 A-TTTAATAATAATTACTTTAATGATTT
1 ACTTTAATGAT--TTAATTT--T-AATT
**
91073 AACTTTAATGATTTAATAATAATT
1 -ACTTTAATGATTTAATTTTAATT
* *
91097 ACTTTAATGATTTAACTTTAATG
1 ACTTTAATGATTTAATTTTAATT
* * *
91120 A-TTTAATAATAATT-ACTTTAATG
1 ACTTTAATGAT--TTAATTTTAATT
*
91143 A-TTTAATGATTTAATGATTTAATG
1 ACTTTAATGATTTAAT--TTTAATT
*
91167 A-TTTAATGATTTAATGATTTAATG
1 ACTTTAATGATTTAAT--TTTAATT
* * *
91191 A-TTTAATAATAATTACTTTAATGATTT
1 ACTTTAATGAT--TTAATTT--T-AATT
**
91218 AACTTTAATGATTTAATAATAATT
1 -ACTTTAATGATTTAATTTTAATT
*
91242 ACTTTAATGATTTAATGATTTAATG
1 ACTTTAATGATTTAAT--TTTAATT
* *
91267 A-TTTAATAATAATT-ATTTTAATG
1 ACTTTAATGAT--TTAATTTTAATT
**
91290 A-TTTAATGATTTAATAATAATT
1 ACTTTAATGATTTAATTTTAATT
91312 ACTTTAATGATTTAATTTTAA-T
1 ACTTTAATGATTTAATTTTAATT
*
91334 AATTTAAT
1 ACTTTAAT
91342 AATAATTACT
Statistics
Matches: 376, Mismatches: 58, Indels: 70
0.75 0.12 0.14
Matches are distributed among these distances:
21 4 0.01
22 61 0.16
23 128 0.34
24 75 0.20
25 10 0.03
26 9 0.02
27 18 0.05
28 47 0.12
29 24 0.06
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (23 bp):
ACTTTAATGATTTAATTTTAATT
Found at i:91415 original size:14 final size:13
Alignment explanation
Indices: 90824--91425 Score: 323
Period size: 14 Copynumber: 45.9 Consensus size: 13
90814 TATTTAATAA
*
90824 TAATTATTTAAATT
1 TAATGATTT-AATT
*
90838 TAATTATTTAACTT
1 TAATGATTTAA-TT
*
90852 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
90866 TAATTATTTAACTT
1 TAATGATTTAA-TT
*
90880 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
90894 TAATTATTTAACTT
1 TAATGATTTAA-TT
90908 TAATGATTTAA--
1 TAATGATTTAATT
* *
90919 TAAT-AATTACTT
1 TAATGATTTAATT
90931 TAATGATTTAATTT
1 TAATGATTTAA-TT
90945 TAATG-----ATT
1 TAATGATTTAATT
90953 TAATGATTTAACTT
1 TAATGATTTAA-TT
90967 TAATGATTTAA--
1 TAATGATTTAATT
* *
90978 TAAT-AATTACTT
1 TAATGATTTAATT
90990 TAATGATTTAACTT
1 TAATGATTTAA-TT
91004 TAATGATTTAA--
1 TAATGATTTAATT
* *
91015 TAAT-AATTACTT
1 TAATGATTTAATT
91027 TAATGATTTAACTT
1 TAATGATTTAA-TT
91041 TAATGATTTAA--
1 TAATGATTTAATT
* *
91052 TAAT-AATTACTT
1 TAATGATTTAATT
91064 TAATGATTTAACTT
1 TAATGATTTAA-TT
91078 TAATGATTTAA--
1 TAATGATTTAATT
* *
91089 TAAT-AATTACTT
1 TAATGATTTAATT
91101 TAATGATTTAACTT
1 TAATGATTTAA-TT
91115 TAATGATTTAA--
1 TAATGATTTAATT
* *
91126 TAAT-AATTACTT
1 TAATGATTTAATT
91138 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
91154 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
91170 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
91186 TAATGATTTAA--
1 TAATGATTTAATT
* *
91197 TAAT-AATTACTT
1 TAATGATTTAATT
91209 TAATGATTTAACTT
1 TAATGATTTAA-TT
91223 TAATGATTTAA--
1 TAATGATTTAATT
* *
91234 TAAT-AATTACTT
1 TAATGATTTAATT
91246 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
*
91262 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
91276 TAATTATTTTAATGATT
1 TAATGA-TTT-A--ATT
91293 TAATGATTTAA--
1 TAATGATTTAATT
* *
91304 TAAT-AATTACTT
1 TAATGATTTAATT
91316 TAATGATTTAATTT
1 TAATGATTTAA-TT
* *
91330 TAATAATTTAATAA
1 TAATGATTTAAT-T
* *
91344 TAATTACTTAATTT
1 TAATGATTTAA-TT
91358 TAATGATTTAATGT
1 TAATGATTTAAT-T
*
91372 TAATGATTTAATAA
1 TAATGATTTAAT-T
* * *
91386 TAATTACTTGACTT
1 TAATGA-TTTAATT
91400 TAATGATTTATATT
1 TAATGATTTA-ATT
* *
91414 TACTGATATAAT
1 TAATGATTTAAT
91426 AATAGTAAAT
Statistics
Matches: 460, Mismatches: 67, Indels: 123
0.71 0.10 0.19
Matches are distributed among these distances:
8 7 0.02
9 1 0.00
10 36 0.08
11 36 0.08
12 36 0.08
13 50 0.11
14 216 0.47
15 13 0.03
16 58 0.13
17 5 0.01
18 2 0.00
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (13 bp):
TAATGATTTAATT
Found at i:91894 original size:6 final size:6
Alignment explanation
Indices: 91883--91907 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
91873 GGTGAGAAGA
91883 ACTCCC ACTCCC ACTCCC ACTCCC A
1 ACTCCC ACTCCC ACTCCC ACTCCC A
91908 GTCCTTCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.64, G:0.00, T:0.16
Consensus pattern (6 bp):
ACTCCC
Found at i:93944 original size:172 final size:173
Alignment explanation
Indices: 93649--94007 Score: 569
Period size: 172 Copynumber: 2.1 Consensus size: 173
93639 CATCAAATAT
* *
93649 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
93714 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* * *
93779 TTTTTATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTGC
131 TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* *
93822 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
93886 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
93950 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
93994 AAAACGGTCCCTAA
1 AAAACGATCCCTAA
94008 AACTTTACAA
Statistics
Matches: 171, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
172 111 0.65
173 60 0.35
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:94549 original size:22 final size:22
Alignment explanation
Indices: 94521--94574 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
94511 AGGACCCAGG
94521 ACCCGTGATTTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
* *
94543 ACCCGTGCTCTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
94565 ACCCGTGATT
1 ACCCGTGATT
94575 CTCACGTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (22 bp):
ACCCGTGATTTCTCCTTGCAGA
Found at i:105604 original size:27 final size:27
Alignment explanation
Indices: 105574--105674 Score: 145
Period size: 27 Copynumber: 3.9 Consensus size: 27
105564 CGATTTTTTT
* *
105574 ACCGGATTAAAAATCGGTTTTTTTCAA
1 ACCGGATAAAAAACCGGTTTTTTTCAA
105601 ACCGGATAAAAAACCGG-TTTTTT--A
1 ACCGGATAAAAAACCGGTTTTTTTCAA
*
105625 TCCGGATAAAAAACCGGTTTTTTTCAA
1 ACCGGATAAAAAACCGGTTTTTTTCAA
*
105652 ACCGGATAAAAAACTGGTTTTTT
1 ACCGGATAAAAAACCGGTTTTTT
105675 ATCCGAAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
24 17 0.26
25 6 0.09
26 6 0.09
27 37 0.56
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (27 bp):
ACCGGATAAAAAACCGGTTTTTTTCAA
Found at i:105630 original size:51 final size:51
Alignment explanation
Indices: 105568--105699 Score: 203
Period size: 51 Copynumber: 2.6 Consensus size: 51
105558 AACGGTCGAT
*
105568 TTTTTTA-CCGGATTAAAAATCGGTTTTTTTCAAACCGGATAAAAAACCGG
1 TTTTTTATCCGGATAAAAAATCGGTTTTTTTCAAACCGGATAAAAAACCGG
* *
105618 TTTTTTATCCGGATAAAAAACCGGTTTTTTTCAAACCGGATAAAAAACTGG
1 TTTTTTATCCGGATAAAAAATCGGTTTTTTTCAAACCGGATAAAAAACCGG
* *
105669 TTTTTTATCCGAAAAAAAAATCCGGTTTTTT
1 TTTTTTATCCGGATAAAAAAT-CGGTTTTTT
105700 AAAAAACTGG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
50 7 0.09
51 58 0.78
52 9 0.12
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (51 bp):
TTTTTTATCCGGATAAAAAATCGGTTTTTTTCAAACCGGATAAAAAACCGG
Found at i:105699 original size:27 final size:26
Alignment explanation
Indices: 105567--105699 Score: 123
Period size: 27 Copynumber: 5.2 Consensus size: 26
105557 GAACGGTCGA
* *
105567 TTTTTTTA-CCGGATTAAAAATCGGT
1 TTTTTTTATCCGGATAAAAAACCGGT
* *
105592 TTTTTTCAAACCGGATAAAAAACCGG-
1 TTTTTT-TATCCGGATAAAAAACCGGT
105618 -TTTTTTATCCGGATAAAAAACCGGT
1 TTTTTTTATCCGGATAAAAAACCGGT
* * *
105643 TTTTTTCAAACCGGATAAAAAACTGG-
1 TTTTTT-TATCCGGATAAAAAACCGGT
* *
105669 -TTTTTTATCCGAAAAAAAAATCCGGT
1 TTTTTTTATCCGGATAAAAAA-CCGGT
105695 TTTTT
1 TTTTT
105700 AAAAAACTGG
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
24 28 0.32
25 19 0.22
26 6 0.07
27 34 0.39
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (26 bp):
TTTTTTTATCCGGATAAAAAACCGGT
Found at i:105756 original size:41 final size:39
Alignment explanation
Indices: 105658--105755 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 39
105648 TCAAACCGGA
105658 TAAAAAACTGGTTTTTTATCCGAAAAAAAAATCCGGTTTTT
1 TAAAAAACTGGTTTTTTATCCG--AAAAAAATCCGGTTTTT
* *
105699 TAAAAAACTGGATTTTTATCCG-AAAAAATCCGATTTTTTT
1 TAAAAAACTGGTTTTTTATCCGAAAAAAATCCG--GTTTTT
* *
105739 TTAAAAACCGGTTTTTT
1 TAAAAAACTGGTTTTTT
105756 TGCAAACCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
38 10 0.20
40 19 0.38
41 21 0.42
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (39 bp):
TAAAAAACTGGTTTTTTATCCGAAAAAAATCCGGTTTTT
Found at i:121948 original size:17 final size:17
Alignment explanation
Indices: 121926--121960 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
121916 ATAAGTGAGG
*
121926 GGAAATAAGAAGGGTCA
1 GGAAATAAGAAAGGTCA
*
121943 GGAAATGAGAAAGGTCA
1 GGAAATAAGAAAGGTCA
121960 G
1 G
121961 ATTGGCTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.37, T:0.11
Consensus pattern (17 bp):
GGAAATAAGAAAGGTCA
Found at i:122462 original size:8 final size:8
Alignment explanation
Indices: 122449--122476 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
122439 AGATCCTCCC
122449 ATATGTAT
1 ATATGTAT
122457 ATATGTAT
1 ATATGTAT
122465 ATATGTAT
1 ATATGTAT
122473 ATAT
1 ATAT
122477 ATCTTCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:125972 original size:11 final size:11
Alignment explanation
Indices: 125956--126006 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
125946 TCGCTCGAAG
125956 AAGAAATAAAA
1 AAGAAATAAAA
125967 AAGAAAATGAAAA
1 AAG-AAAT-AAAA
125980 AA-ATAATAAAA
1 AAGA-AATAAAA
* *
125991 ATGAAAGAAAA
1 AAGAAATAAAA
126002 AAGAA
1 AAGAA
126007 GAAAAGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
11 19 0.58
12 8 0.24
13 6 0.18
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (11 bp):
AAGAAATAAAA
Found at i:125989 original size:24 final size:22
Alignment explanation
Indices: 125960--126003 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
125950 TCGAAGAAGA
125960 AATAAAAAAGAAAATGAAAAAAAT
1 AATAAAAAAG-AAA-GAAAAAAAT
*
125984 AATAAAAATGAAAGAAAAAA
1 AATAAAAAAGAAAGAAAAAA
126004 GAAGAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (22 bp):
AATAAAAAAGAAAGAAAAAAAT
Found at i:126033 original size:15 final size:14
Alignment explanation
Indices: 125994--126035 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
125984 AATAAAAATG
*
125994 AAAGAAAAAAGAAGA
1 AAAGAAAAATG-AGA
126009 AAAGAAAAATGAGA
1 AAAGAAAAATGAGA
126023 AAATGAAAAATGA
1 AAA-GAAAAATGA
126036 TGGAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (14 bp):
AAAGAAAAATGAGA
Found at i:126095 original size:14 final size:14
Alignment explanation
Indices: 125987--126095 Score: 61
Period size: 14 Copynumber: 7.8 Consensus size: 14
125977 AAAAAATAAT
125987 AAAAATG-AAAGA-
1 AAAAATGAAAAGAG
*
125999 AAAAA-GAAGAAAAG
1 AAAAATGAA-AAGAG
126013 AAAAATGAGAAA-ATG
1 AAAAATGA-AAAGA-G
**
126028 AAAAATG-ATGGA-
1 AAAAATGAAAAGAG
126040 AAAAATGGAAAATGGAAG
1 AAAAAT-GAAAA--G-AG
126058 AAAAATG-AAAGAG
1 AAAAATGAAAAGAG
**
126071 AAAAACAAAAAGAG
1 AAAAATGAAAAGAG
126085 AAAAATGAAAA
1 AAAAATGAAAA
126096 AATAAAGAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 26
0.68 0.08 0.24
Matches are distributed among these distances:
11 1 0.01
12 12 0.16
13 12 0.16
14 24 0.32
15 12 0.16
16 5 0.07
17 2 0.03
18 6 0.08
ACGTcount: A:0.71, C:0.01, G:0.20, T:0.08
Consensus pattern (14 bp):
AAAAATGAAAAGAG
Found at i:126106 original size:64 final size:60
Alignment explanation
Indices: 125970--126107 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 60
125960 AATAAAAAAG
* * *
125970 AAAATGAAA-AAAATAAT-AAAAATGAAAGAAAAAAGAAGAAAAGAAAAATGAGAAAATGA
1 AAAATGAAAGAAAA-AATGGAAAATGAAAGAAAAAAGAAGAAAAAAAAAAAGAGAAAATGA
** * *
126029 AAAATGATGGAAAAAATGGAAAATGGAAGAAAAATGAAAGAGAAAAACAAAAAGAGAAAAATGAA
1 AAAATGAAAGAAAAAATGGAAAATGAAAGAAAAAAG-AAGA-AAAAA-AAAAAGAG-AAAATG-A
126094 AAAAT-AAAGAAAAA
1 AAAATGAAAGAAAAA
126108 TAAAAGGGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
59 10 0.16
60 19 0.30
61 4 0.06
62 4 0.06
63 7 0.11
64 13 0.21
65 6 0.10
ACGTcount: A:0.72, C:0.01, G:0.17, T:0.09
Consensus pattern (60 bp):
AAAATGAAAGAAAAAATGGAAAATGAAAGAAAAAAGAAGAAAAAAAAAAAGAGAAAATGA
Found at i:127424 original size:34 final size:34
Alignment explanation
Indices: 127377--127445 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
127367 AAACAGGTCA
127377 ATCTTAAGCCTTCACGGAAG-AGTGAAGCAAACC
1 ATCTTAAGCCTTCACGGAAGTAGTGAAGCAAACC
127410 ATCTGTAAGCCTTCACGGAAGATTAGTGAAGCAAAC
1 ATCT-TAAGCCTTCACGGAAG--TAGTGAAGCAAAC
127446 TTATTTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 4 0.12
34 16 0.50
37 12 0.38
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (34 bp):
ATCTTAAGCCTTCACGGAAGTAGTGAAGCAAACC
Found at i:127636 original size:57 final size:54
Alignment explanation
Indices: 127459--127856 Score: 314
Period size: 50 Copynumber: 7.5 Consensus size: 54
127449 TTTATGAAGA
* * * **
127459 TCGAGTCATATACTCTCTAAAGGAATAGGGAGCGGACACGTTTTA--AAGA---T
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAAAC-CGTTTTATGAAGATTGT
* * * ** *
127509 T-GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACC-TGTTTATTG-AGATTTT
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAAACCGT-TTTA-TGAAGATTGT
127562 TCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCAAACTCGTTTTAATGAAGATTGT
1 TCGAGTCT-TATACTCTCTGAAGGAATAGAGAGCAAAC-CGTTTT-ATGAAGATTGT
* * * * **
127618 TCAAGTTTTTATACTCTCTGAATGAATAGAGAGCAGACACGTTTGCTGAAGATTGT
1 TCGAG-TCTTATACTCTCTGAAGGAATAGAGAGCAAAC-CGTTTTATGAAGATTGT
*
127674 TCGAGTCTTATACTCTCTGAAGGAAT--AGAG--AACCCTTTTATGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAAACCGTTTTATGAAGATTGT
* *
127724 TCGAGGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGT
1 TCGA-GTCT-TATACTCTCTGAAGGAATAGAGAGC-AAACCGTTTTATGAAGATTGT
* * * * *
127780 TCGAGTCTTATACTC-CTGAATGAAAAGGGAGCAGA-CG-TTT-GGAAGATTGGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAAACCGTTTTATGAAGATT-GT
*
127831 T-GAGTCTTATACTC-CTGAAGGGATAG
1 TCGAGTCTTATACTCTCTGAAGGAATAG
127857 GGAGAAGACC
Statistics
Matches: 290, Mismatches: 34, Indels: 48
0.78 0.09 0.13
Matches are distributed among these distances:
47 1 0.00
48 5 0.02
49 32 0.11
50 52 0.18
51 28 0.10
52 2 0.01
53 10 0.03
54 43 0.15
55 34 0.12
56 49 0.17
57 33 0.11
58 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (54 bp):
TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAAACCGTTTTATGAAGATTGT
Found at i:127755 original size:106 final size:109
Alignment explanation
Indices: 127515--127799 Score: 350
Period size: 106 Copynumber: 2.6 Consensus size: 109
127505 AGATTGAGTC
* * *
127515 CTATACTCTCTGAAAGAATAGGGAGCGGACCTGTTTATTG-AGATTTTTCGAGT-TCTATACTCT
1 CTATACTCTCTGAAAGAATAGAGAGCGGACC-GTTTAATGAAGATTGTTCGAGTCT-TATACTCT
* *
127578 CTGAAGGAATAGAGAGCAAACTCGTTTTAATGAAGATTGTTCAAGTTT
64 CTGAAGGAATA-AGAG-AAACTCCTTTTAATGAAGATTGTTCAAGGTT
* * * **
127626 TTATACTCTCTGAATGAATAGAGAGCAGACACGTTTGCTGAAGATTGTTCGAGTCTTATACTCTC
1 CTATACTCTCTGAAAGAATAGAGAGCGGAC-CGTTTAATGAAGATTGTTCGAGTCTTATACTCTC
*
127691 TGAAGGAAT-AGAG-AAC-CCTTTT-ATGAAGATTGTTCGAGGTT
65 TGAAGGAATAAGAGAAACTCCTTTTAATGAAGATTGTTCAAGGTT
* *
127732 CTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTCTTATACTC-C
1 CTATACTCTCTGAAAGAATAGAGAGCGGA-CCGTTTAATGAAGATTGTTCGAGTCTTATACTCTC
127796 TGAA
65 TGAA
127800 TGAAAAGGGA
Statistics
Matches: 155, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
105 5 0.03
106 73 0.47
107 6 0.04
108 3 0.02
110 4 0.03
111 32 0.21
112 31 0.20
113 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (109 bp):
CTATACTCTCTGAAAGAATAGAGAGCGGACCGTTTAATGAAGATTGTTCGAGTCTTATACTCTCT
GAAGGAATAAGAGAAACTCCTTTTAATGAAGATTGTTCAAGGTT
Found at i:127825 original size:106 final size:107
Alignment explanation
Indices: 127515--127856 Score: 337
Period size: 106 Copynumber: 3.2 Consensus size: 107
127505 AGATTGAGTC
* * * *
127515 CTATACTCTCTGAAAGAATAGGGAGCGGACCTG-TTTATTG-AGATTTTTCGAGT-TCTATACTC
1 CTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA-TGAAGATTGTTCGAGTCT-TATACTC
* *
127577 TCTGAAGGAATAGAGAGCAAACTCGTTTTAATGAAGATTGTTCAAGTTT
64 TCTGAAGGAATAG-GAGCAAA--CG-TTT-ATGAAGATTGTTCGAGGTT
* * * * **
127626 TTATACTCTCTGAATGAATAGAGAGCAGACACGTTTGCTGAAGATTGTTCGAGTCTTATACTCTC
1 CTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTCTTATACTCTC
* *
127691 TGAAGGAATA-GAG-AACCCTTTTATGAAGATTGTTCGAGGTT
66 TGAAGGAATAGGAGCAA-ACGTTTATGAAGATTGTTCGAGGTT
127732 CTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTCTTATACTC-C
1 CTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTCTTATACTCTC
* * * *
127796 TGAATGAAAAGGGAGCAGACGTTT-GGAAGATTGGTT-GA-G-T
66 TGAAGGAATA-GGAGCAAACGTTTATGAAGATT-GTTCGAGGTT
*
127836 CTTATACTC-CTGAAGGGATAG
1 C-TATACTCTCTGAAGGAATAG
127857 GGAGAAGACC
Statistics
Matches: 196, Mismatches: 26, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
104 13 0.07
105 17 0.09
106 83 0.42
107 13 0.07
108 2 0.01
109 2 0.01
110 3 0.02
111 29 0.15
112 33 0.17
113 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (107 bp):
CTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTCTTATACTCTC
TGAAGGAATAGGAGCAAACGTTTATGAAGATTGTTCGAGGTT
Done.