Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009642.1 Hibiscus syriacus cultivar Beakdansim tig00117054_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: 216009
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:2639 original size:32 final size:32
Alignment explanation
Indices: 2602--2735 Score: 119
Period size: 32 Copynumber: 4.2 Consensus size: 32
2592 TATGTTCAAT
2602 TGATGATGTGTCATATGTCATGTCACCAAAAA
1 TGATGATGTGTCATATGTCATGTCACCAAAAA
** **
2634 TGATGATGCAAT-ATATGTCACATCACCAAAAA
1 TGATGATG-TGTCATATGTCATGTCACCAAAAA
* ** * * *
2666 TAATGACATGACATGTGTTATGTCACCAAAAA
1 TGATGATGTGTCATATGTCATGTCACCAAAAA
* * *
2698 TGATGATGTAG-CATGTGTCATGTAATCAAAAA
1 TGATGATGT-GTCATATGTCATGTCACCAAAAA
2730 TGATGA
1 TGATGA
2736 CATGAAATGT
Statistics
Matches: 79, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
32 77 0.97
33 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (32 bp):
TGATGATGTGTCATATGTCATGTCACCAAAAA
Found at i:2728 original size:64 final size:64
Alignment explanation
Indices: 2621--2745 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 64
2611 GTCATATGTC
* * *
2621 ATGTCACCAAAAATGATGATGCAATATATGTCACATCACCAAAAATAATGACATGACATGTGTT
1 ATGTCACCAAAAATGATGATGCAACATATGTCACATAACCAAAAATAATGACATGAAATGTGTT
* * * ** * *
2685 ATGTCACCAAAAATGATGATGTAGCATGTGTCATGTAATCAAAAATGATGACATGAAATGT
1 ATGTCACCAAAAATGATGATGCAACATATGTCACATAACCAAAAATAATGACATGAAATGT
2746 ACCACATAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (64 bp):
ATGTCACCAAAAATGATGATGCAACATATGTCACATAACCAAAAATAATGACATGAAATGTGTT
Found at i:2966 original size:18 final size:19
Alignment explanation
Indices: 2943--2980 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
2933 TATACCAAAT
2943 AAAATTAAAAAGGA-AGGG
1 AAAATTAAAAAGGATAGGG
*
2961 AAAATTTAAAAGGATAGGG
1 AAAATTAAAAAGGATAGGG
2980 A
1 A
2981 CCAGTGGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (19 bp):
AAAATTAAAAAGGATAGGG
Found at i:3151 original size:31 final size:33
Alignment explanation
Indices: 3085--3151 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 33
3075 AATATTTTCG
** *
3085 ATTAATTCGGTTAACCAAATAATTTCAAACATA
1 ATTAATTCGGTTAACCAAATAATTAAAAAAATA
3118 ATTAA-TC-GTTAACCAAAT-ATTAAAAAAATTA
1 ATTAATTCGGTTAACCAAATAATTAAAAAAA-TA
3149 ATT
1 ATT
3152 GTTTCCCAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 7 0.23
31 16 0.53
32 2 0.07
33 5 0.17
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.34
Consensus pattern (33 bp):
ATTAATTCGGTTAACCAAATAATTAAAAAAATA
Found at i:4580 original size:18 final size:18
Alignment explanation
Indices: 4559--4593 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4549 TATTGTGAAT
* *
4559 TATTTATTTATTTTTTAG
1 TATTAATTTATATTTTAG
4577 TATTAATTTATATTTTA
1 TATTAATTTATATTTTA
4594 ATTTGTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTAATTTATATTTTAG
Found at i:11104 original size:21 final size:21
Alignment explanation
Indices: 11078--11122 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11068 GTTAACATAT
11078 AATTAAAAT-AGTAAATTTTGA
1 AATTAAAATGAGTAAATTTT-A
* *
11099 AATTAAAGTGATTAAATTTTA
1 AATTAAAATGAGTAAATTTTA
11120 AAT
1 AAT
11123 AATTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
AATTAAAATGAGTAAATTTTA
Found at i:11129 original size:16 final size:15
Alignment explanation
Indices: 11109--11147 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
11099 AATTAAAGTG
11109 ATTAAATTTTAAATA
1 ATTAAATTTTAAATA
**
11124 ATTTAAAAATTAAATA
1 A-TTAAATTTTAAATA
11140 ATTAAATT
1 ATTAAATT
11148 AAAAATAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAAATTTTAAATA
Found at i:11169 original size:20 final size:22
Alignment explanation
Indices: 11121--11169 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
11111 TAAATTTTAA
11121 ATAATTTAAAAATTAAATAATT
1 ATAATTTAAAAATTAAATAATT
*
11143 A-AA-TTAAAAA-TAAA-ACTT
1 ATAATTTAAAAATTAAATAATT
11161 ATAATTTAA
1 ATAATTTAA
11170 GTACTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 4 0.17
19 6 0.25
20 11 0.46
21 2 0.08
22 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAATTTAAAAATTAAATAATT
Found at i:13894 original size:18 final size:18
Alignment explanation
Indices: 13873--13910 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13863 CCTTACACAC
13873 TTTGCCACAACAACACCA
1 TTTGCCACAACAACACCA
* *
13891 TTTGCCACGACAACGCCA
1 TTTGCCACAACAACACCA
13909 TT
1 TT
13911 CATACTTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.37, G:0.11, T:0.21
Consensus pattern (18 bp):
TTTGCCACAACAACACCA
Found at i:25462 original size:20 final size:20
Alignment explanation
Indices: 25439--25485 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
25429 CCACGTGAAT
25439 AGTATCGGTATTGTTCATGC
1 AGTATCGGTATTGTTCATGC
25459 AGTATCGGTATTGTTCATGC
1 AGTATCGGTATTGTTCATGC
25479 AGTATCG
1 AGTATCG
25486 ATACTGTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (20 bp):
AGTATCGGTATTGTTCATGC
Found at i:27208 original size:19 final size:18
Alignment explanation
Indices: 27180--27221 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27170 AAAGTACATG
*
27180 AAATGAAATAAGGAAAATA
1 AAATGAAATAA-AAAAATA
*
27199 AAATGCAATAAAAAAATA
1 AAATGAAATAAAAAAATA
27217 AAATG
1 AAATG
27222 TTAGTGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.17
Consensus pattern (18 bp):
AAATGAAATAAAAAAATA
Found at i:27992 original size:140 final size:140
Alignment explanation
Indices: 27737--27993 Score: 345
Period size: 140 Copynumber: 1.8 Consensus size: 140
27727 CCTTGATAGT
* * * *
27737 GACAACACATTTCCTTCACGTTGAGGAAGTCTGATTATCTGAGGATGACACTATTCGTTCGCGTT
1 GACAACACAGTTCCTTCACGTTGAAGAAGTCTGATTATCTGAGGATGACACTATTCCTTCGCATT
* * *
27802 GAGGAGATCTGGTCGGAGGAAAACATTGTTCCTTCGTGTTGAGGACATCTAGCTGTATTTGGAGA
66 GAGGAGATCTGATCAGAGGAAAACATTGTTCCTTCGTGTTGAGAACATCTAGCTGTATTTGGAGA
27867 TAATTTTGGA
131 TAATTTTGGA
* * * * * *
27877 GACAACACGGTTCCTTCACGTTGAAGAAGTTTGATTATCTGAGTATGATA-TTTCTCCTTCGTAT
1 GACAACACAGTTCCTTCACGTTGAAGAAGTCTGATTATCTGAGGATGACACTAT-TCCTTCGCAT
* * * *
27941 TGAGGAGATTTGATCAGTGGACAACATTGTTCCTTCGTGTTGAGAAGATCTAG
65 TGAGGAGATCTGATCAGAGGAAAACATTGTTCCTTCGTGTTGAGAACATCTAG
27994 TCATAGTTGT
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
139 2 0.02
140 97 0.98
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (140 bp):
GACAACACAGTTCCTTCACGTTGAAGAAGTCTGATTATCTGAGGATGACACTATTCCTTCGCATT
GAGGAGATCTGATCAGAGGAAAACATTGTTCCTTCGTGTTGAGAACATCTAGCTGTATTTGGAGA
TAATTTTGGA
Found at i:31477 original size:13 final size:13
Alignment explanation
Indices: 31459--31535 Score: 66
Period size: 13 Copynumber: 5.6 Consensus size: 13
31449 AGTTGATCCA
31459 TTTTCTTTCTTAT
1 TTTTCTTTCTTAT
31472 TTTTCTTTCTTAT
1 TTTTCTTTCTTAT
* *
31485 TTTTCTCTTTTCTCT
1 TTTTCT-TTCT-TAT
* *
31500 TTATTTTTTCGT-T
1 TT-TTCTTTCTTAT
31513 TTTTCTTTCTTTATT
1 TTTTCTTTC-TTA-T
31528 TTTTCTTT
1 TTTTCTTT
31536 ATTTTTTCTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
12 6 0.12
13 23 0.45
14 4 0.08
15 15 0.29
16 3 0.06
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.78
Consensus pattern (13 bp):
TTTTCTTTCTTAT
Found at i:31505 original size:19 final size:20
Alignment explanation
Indices: 31472--31550 Score: 63
Period size: 23 Copynumber: 3.8 Consensus size: 20
31462 TCTTTCTTAT
31472 TTTTCTT-TCTTATTTTTCTC
1 TTTTCTTCT-TTATTTTTCTC
*
31492 TTTTC-TCTTTATTTTTTCGTT
1 TTTTCTTCTTTA-TTTTTC-TC
*
31513 TTTTCTTTCTTTATTTTTTCTT
1 TTTTC-TTCTTTA-TTTTTCTC
*
31535 TATTTTTTCTTTATTT
1 T-TTTCTTCTTTATTT
31551 CTTTTTTTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.08
20 12 0.24
21 9 0.18
22 10 0.20
23 16 0.31
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.78
Consensus pattern (20 bp):
TTTTCTTCTTTATTTTTCTC
Found at i:31506 original size:11 final size:11
Alignment explanation
Indices: 31492--31550 Score: 84
Period size: 11 Copynumber: 5.3 Consensus size: 11
31482 TATTTTTCTC
*
31492 TTTTCTCTTTA
1 TTTTTTCTTTA
31503 TTTTTTCGTTT-
1 TTTTTTC-TTTA
31514 TTTCTTTCTTTA
1 TTT-TTTCTTTA
31526 TTTTTTCTTTA
1 TTTTTTCTTTA
31537 TTTTTTCTTTA
1 TTTTTTCTTTA
31548 TTT
1 TTT
31551 CTTTTTTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
11 34 0.77
12 10 0.23
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTA
Found at i:31540 original size:26 final size:26
Alignment explanation
Indices: 31459--31557 Score: 80
Period size: 26 Copynumber: 3.7 Consensus size: 26
31449 AGTTGATCCA
*
31459 TTTTCTTTC-TTATTTTTCTTTCTTATT
1 TTTTCTTTCTTTATTTTT-TCT-TTATT
*
31486 TTTCTCTTTTCTCTTTATTTTTTC---GTT
1 TTT-TC--TT-TCTTTATTTTTTCTTTATT
31513 TTTTCTTTCTTTATTTTTTCTTTATT
1 TTTTCTTTCTTTATTTTTTCTTTATT
* *
31539 TTTTCTTTATTTCTTTTTT
1 TTTTCTTTCTTTATTTTTT
31558 TCTGTTATCG
Statistics
Matches: 59, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
23 13 0.22
24 2 0.03
26 21 0.36
27 8 0.14
28 2 0.03
30 2 0.03
31 3 0.05
32 8 0.14
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.79
Consensus pattern (26 bp):
TTTTCTTTCTTTATTTTTTCTTTATT
Found at i:35009 original size:32 final size:33
Alignment explanation
Indices: 34968--35034 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 33
34958 GGTAAACATG
34968 AAAATAAGCTTACGAGCTTATATG-AT-AATGGT
1 AAAATAAGCTTACGAGCTTATA-GAATAAATGGT
35000 AAAATAAGCTTACGAGCTTATAGAATAAATGGT
1 AAAATAAGCTTACGAGCTTATAGAATAAATGGT
35033 AA
1 AA
35035 GTATATATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
31 1 0.03
32 24 0.73
33 8 0.24
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.28
Consensus pattern (33 bp):
AAAATAAGCTTACGAGCTTATAGAATAAATGGT
Found at i:35071 original size:45 final size:45
Alignment explanation
Indices: 34996--35215 Score: 354
Period size: 45 Copynumber: 4.9 Consensus size: 45
34986 TATATGATAA
*
34996 TGGTAAAATAAGCTTACGAGCTTATAGAATAAATGGTAAGTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
*
35041 AT-GTAAGATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
1 -TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
*
35086 TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
*
35131 TGGTAAAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
* *
35176 TGGTAGAATAAGCTTACGAGCTTATAGG-ATAAATGATAAG
1 TGGTAAAATAAGCTTACGAGCTTAT-GGAATAAATGGTAAG
35216 AAATTTTATA
Statistics
Matches: 163, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
44 1 0.01
45 159 0.98
46 3 0.02
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (45 bp):
TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
Found at i:39684 original size:23 final size:23
Alignment explanation
Indices: 39658--39754 Score: 79
Period size: 23 Copynumber: 4.2 Consensus size: 23
39648 TGTTAACTTA
* *
39658 ATTAAAAAATGAGTATATTATGG
1 ATTAAAAAATGAGAATATTATGC
* * * *
39681 ATTAATAGAT-AAATATATTATTC
1 ATTAAAAAATGAGA-ATATTATGC
** **
39704 ATTAAACGATGAGAATATTATAA
1 ATTAAAAAATGAGAATATTATGC
*
39727 ATTAAAAAATGAGAATAGTATGC
1 ATTAAAAAATGAGAATATTATGC
39750 ATTAA
1 ATTAA
39755 TGGTTCAATG
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
22 1 0.02
23 53 0.95
24 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (23 bp):
ATTAAAAAATGAGAATATTATGC
Found at i:42545 original size:10 final size:10
Alignment explanation
Indices: 42530--42561 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
42520 CGACGTCCTT
42530 GGAAAGGAGC
1 GGAAAGGAGC
42540 GGAAAGGAGC
1 GGAAAGGAGC
*
42550 AGAAAGGAGC
1 GGAAAGGAGC
42560 GG
1 GG
42562 TGAAGCTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.50, T:0.00
Consensus pattern (10 bp):
GGAAAGGAGC
Found at i:43110 original size:31 final size:31
Alignment explanation
Indices: 43037--43103 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
43027 CAGTTACATC
*
43037 AGGGACCATATTACAGACAAACTAAATGTTG
1 AGGGACCATATTACAGAAAAACTAAATGTTG
43068 AGGGACCATATTACA-AAAAGACTAAATGTTG
1 AGGGACCATATTACAGAAAA-ACTAAATGTTG
*
43099 GGGGA
1 AGGGA
43104 TTATATTGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (31 bp):
AGGGACCATATTACAGAAAAACTAAATGTTG
Found at i:44613 original size:12 final size:12
Alignment explanation
Indices: 44596--44621 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44586 CGTTGCAGCA
44596 GCAGTGGCGGTG
1 GCAGTGGCGGTG
44608 GCAGTGGCGGTG
1 GCAGTGGCGGTG
44620 GC
1 GC
44622 TGAGGAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.19, G:0.58, T:0.15
Consensus pattern (12 bp):
GCAGTGGCGGTG
Found at i:46173 original size:31 final size:31
Alignment explanation
Indices: 46062--46169 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
46052 CAAAAGTTAC
46062 GTTG-GGGACCATATTACAAACAGAATAAAT
1 GTTGAGGGACCATATTACAAACAGAATAAAT
46092 GTTGAGGGACCATATTACAAACAGAATAAAT
1 GTTGAGGGACCATATTACAAACAGAATAAAT
*
46123 GTTGAGAGACCATATTGA-AAACA-AACTAAAT
1 GTTGAGGGACCATATT-ACAAACAGAA-TAAAT
* *
46154 GTTGGGGGACGATATT
1 GTTGAGGGACCATATT
46170 GAAAGTTTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
30 6 0.08
31 64 0.90
32 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (31 bp):
GTTGAGGGACCATATTACAAACAGAATAAAT
Found at i:55446 original size:23 final size:23
Alignment explanation
Indices: 55391--55445 Score: 94
Period size: 22 Copynumber: 2.4 Consensus size: 23
55381 TTTAACATAT
*
55391 ATTCTCTTTTCAAGAGATGATAG
1 ATTCTCTTTTCAAGAAATGATAG
55414 ATTCTCTTTTCAA-AAATGATAG
1 ATTCTCTTTTCAAGAAATGATAG
55436 ATTCTCTTTT
1 ATTCTCTTTT
55446 TAATGATGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTCTCTTTTCAAGAAATGATAG
Found at i:58548 original size:71 final size:72
Alignment explanation
Indices: 58458--58870 Score: 241
Period size: 76 Copynumber: 5.5 Consensus size: 72
58448 AGAATTTTCT
** *
58458 TTTTCTTTTTGAAACATATAGT-T-T-TTTTTTTAAAAAATCTATTTTTGAAATTATATATAATA
1 TTTTCTTTTTGAAACATATA-TATATATAGTTTT-AAAAA-C-ATTTTTGAAAATATATATAATA
58520 TATAGTTTTGA
62 TATAGTTTTGA
*
58531 TTTT-TTTTTGAAA-ATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATAT
1 TTTTCTTTTTGAAACATATAT-ATATATAGTTTTAAAAACATTTTTGAAAATATATATAATATAT
*
58594 AGTTTTAA
65 AGTTTTGA
*** ** * * *
58602 AAATAATTTTGAAAATATATATGATATATAGTTTTTGAAAAC-GTTTTGAAAACATATATATAAT
1 TTTTCTTTTTG-AAACATATAT-ATATATAG-TTTTAAAAACATTTTTG-AAA-ATATATATAAT
58666 ATATAGTTTTTGA
61 ATATAG-TTTTGA
*** * * * *
58679 -AAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACA-TTTTGAAAATATATATGATAT
1 TTTTCTTTTTG-AAACATATAT-ATATATAG-TTTTAAAAACATTTTTGAAAATATATATAATAT
58742 ATAGTTTTTGA
63 ATAG-TTTTGA
*** * * * * * *
58753 -AAACATTTCGAATATATATATATATTATATAGTTTTGAAAAACAGTTTTTGGAAACATATATAT
1 TTTTCTTTTTG-A-A-ACATATATA-TATATAGTTTT-AAAAACA-TTTTTGAAAATATATATAA
58817 TATATAGTTTTGAA
60 TATATAGTTTTG-A
** ***
58831 AATAAATTTTGAAAGCATATATCATATATAGTTTTAAAAA
1 TTTTCTTTTTGAAA-CATATAT-ATATATAGTTTTAAAAA
58871 TGATTTTTTG
Statistics
Matches: 292, Mismatches: 26, Indels: 41
0.81 0.07 0.11
Matches are distributed among these distances:
70 1 0.00
71 37 0.13
72 16 0.05
73 12 0.04
74 58 0.20
75 22 0.08
76 87 0.30
77 28 0.10
78 24 0.08
79 7 0.02
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (72 bp):
TTTTCTTTTTGAAACATATATATATATAGTTTTAAAAACATTTTTGAAAATATATATAATATATA
GTTTTGA
Found at i:58585 original size:37 final size:37
Alignment explanation
Indices: 58498--58870 Score: 400
Period size: 37 Copynumber: 10.0 Consensus size: 37
58488 TAAAAAATCT
* ***
58498 ATTTTTGAAATTATATATAATATATAGTTTTG-ATTT
1 ATTTTTGAAAATATATATAATATATAGTTTTGAAAAC
*
58534 TTTTTTG-AAA-ATATATAATATATAGTTTTGAAAAC
1 ATTTTTGAAAATATATATAATATATAGTTTTGAAAAC
* *
58569 ATTTTTGAAAATATATATAATATATAGTTTTAAAAAT
1 ATTTTTGAAAATATATATAATATATAGTTTTGAAAAC
* *
58606 AATTTTGAAAATATATATGATATATAGTTTTTGAAAAC
1 ATTTTTGAAAATATATATAATATATAG-TTTTGAAAAC
*
58644 -GTTTTGAAAACATATATATAATATATAGTTTTTGAAAAC
1 ATTTTTG-AAA-ATATATATAATATATAG-TTTTGAAAAC
58683 A-TTTTGAAAATATATATAATATATAGTTTTTGAAAAC
1 ATTTTTGAAAATATATATAATATATAG-TTTTGAAAAC
*
58720 A-TTTTGAAAATATATATGATATATAGTTTTTGAAAAC
1 ATTTTTGAAAATATATATAATATATAG-TTTTGAAAAC
* *
58757 A-TTTCGAATATATATATATATTATATAGTTTTGAAAAAC
1 ATTTTTGAA-A-ATATATATAATATATAGTTTTG-AAAAC
* * * *
58796 AGTTTTTGGAAACATATATATTATATAGTTTTGAAAATA
1 A-TTTTTGAAAATATATATAATATATAGTTTTGAAAA-C
* ** * *
58835 AATTTTGAAAGCATATATCATATATAGTTTTAAAAA
1 ATTTTTGAAAATATATATAATATATAGTTTTGAAAA
58871 TGATTTTTTG
Statistics
Matches: 296, Mismatches: 28, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
34 20 0.07
35 9 0.03
36 9 0.03
37 124 0.42
38 53 0.18
39 75 0.25
40 1 0.00
41 5 0.02
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (37 bp):
ATTTTTGAAAATATATATAATATATAGTTTTGAAAAC
Found at i:58693 original size:113 final size:113
Alignment explanation
Indices: 58544--58865 Score: 468
Period size: 113 Copynumber: 2.8 Consensus size: 113
58534 TTTTTTGAAA
*
58544 ATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTAAAAATAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTGAAAATAAT
* *
58609 TTTGAAAATATATATGATATATAGTTTTTGAAAACGTTTTGAAAACAT
66 TTTGAAAATATATATGATATATAGTTTTTGAAAACATTTCGAAAACAT
*
58657 ATATATAATATATAGTTTTTGAAAACA-TTTTGAAAATATATATAATATATAGTTTTTGAAAA-C
1 ATATATAATATATAG-TTTTGAAAACATTTTTGAAAATATATATAATATATAG-TTTTGAAAATA
* *
58720 ATTTTGAAAATATATATGATATATAGTTTTTGAAAACATTTCGAATATAT
64 ATTTTGAAAATATATATGATATATAGTTTTTGAAAACATTTCGAAAACAT
* * * *
58770 ATATATATTATATAGTTTTGAAAAACAGTTTTTGGAAACATATATATTATATAGTTTTGAAAATA
1 ATATATAATATATAGTTTTG-AAAACA-TTTTTGAAAATATATATAATATATAGTTTTGAAAAT-
** *
58835 AATTTTGAAAGCATATATCATATATAGTTTT
63 AATTTTGAAAATATATATGATATATAGTTTT
58866 AAAAATGATT
Statistics
Matches: 188, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
112 5 0.03
113 106 0.56
114 28 0.15
115 22 0.12
116 27 0.14
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.43
Consensus pattern (113 bp):
ATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTGAAAATAAT
TTTGAAAATATATATGATATATAGTTTTTGAAAACATTTCGAAAACAT
Found at i:58694 original size:28 final size:28
Alignment explanation
Indices: 58645--58698 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
58635 TTTGAAAACG
*
58645 TTTTGAAAACATATATATAATATATAGT
1 TTTTGAAAACATATATAAAATATATAGT
*
58673 TTTTGAAAACAT-TTTGAAAATATATA
1 TTTTGAAAACATATAT-AAAATATATA
58699 TAATATATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (28 bp):
TTTTGAAAACATATATAAAATATATAGT
Found at i:60321 original size:19 final size:19
Alignment explanation
Indices: 60285--60322 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
60275 TCCCTTTAAA
*
60285 ATTTTATTTATTTGTTTTT
1 ATTTTATTTATTTCTTTTT
*
60304 ATTTTATTT-TTTCCTTTT
1 ATTTTATTTATTTCTTTTT
60322 A
1 A
60323 ACATTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (19 bp):
ATTTTATTTATTTCTTTTT
Found at i:64586 original size:100 final size:99
Alignment explanation
Indices: 64456--64646 Score: 283
Period size: 100 Copynumber: 1.9 Consensus size: 99
64446 TTATAATATT
* * * * * * *
64456 ATATGTATATAATAAAGCTTTAGCTGTCCCTCTAGAGCAATTGATTAAATGCCCCAGCTTTATGG
1 ATATATATACAATAAAGCTTGAGCTATCCCTCTAGAGAAATTGATTAAACGCCCCAACTTTATGG
64521 ATAAGATTCAGCTAGCCTGATAAAGGTGATTATA
66 ATAAGATTCAGCTAGCCTGATAAAGGTGATTATA
* * *
64555 ATATATATACAATAAAAGCTTGAGTTATCCCTTTAGAGAAATTGGTTAAACGCCCCAACTTTATG
1 ATATATATACAAT-AAAGCTTGAGCTATCCCTCTAGAGAAATTGATTAAACGCCCCAACTTTATG
64620 GATAAGATTCAGCTAGCCTGATAAAGG
65 GATAAGATTCAGCTAGCCTGATAAAGG
64647 CAAATTATAA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 11 0.14
100 70 0.86
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (99 bp):
ATATATATACAATAAAGCTTGAGCTATCCCTCTAGAGAAATTGATTAAACGCCCCAACTTTATGG
ATAAGATTCAGCTAGCCTGATAAAGGTGATTATA
Found at i:65134 original size:20 final size:20
Alignment explanation
Indices: 65109--65147 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
65099 GATATCGAAA
65109 ACTCAAGATATGTTCATTTT
1 ACTCAAGATATGTTCATTTT
65129 ACTCAAGATATGTTCATTT
1 ACTCAAGATATGTTCATTT
65148 AATATAGGAT
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:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (20 bp):
ACTCAAGATATGTTCATTTT
Found at i:69540 original size:212 final size:212
Alignment explanation
Indices: 69173--69597 Score: 760
Period size: 212 Copynumber: 2.0 Consensus size: 212
69163 GAGTGGGAGA
69173 ATGATACATGCACCAGAGTCCATAATACATGCTTCTTTGGACTAATGTTTCTACTCAAACCTATT
1 ATGATACATGCACCAGAGTCCATAATACATGCTTCTTTGGACTAATGTTTCTACTCAAACCTATT
*
69238 AGAAGAACAAAGTCTCAAAGATTCAAAGCATATCTATTTGGTAAGCATAATGTGAATGAATCATT
66 AGAAGAACAAAGTCTCAAAGATTCAAAGCATATCTATTCGGTAAGCATAATGTGAATGAATCATT
*
69303 AAACGATTCTAATGTTGCTCCCTTTAATCTTTCAGATTTGAGGTCGAATCTTTTTGAAAAAAGAG
131 AAACGATTCTAATGTTGCTCCCTTTAATCTTTCAGATTCGAGGTCGAATCTTTTTGAAAAAAGAG
69368 AGGATGATACATGCATC
196 AGGATGATACATGCATC
* *
69385 ATGATACATGCACCAGAGTCCATAATACATGCTTCTTTGGACTAATGTTTCTACTCGAACTTATT
1 ATGATACATGCACCAGAGTCCATAATACATGCTTCTTTGGACTAATGTTTCTACTCAAACCTATT
* *
69450 AGAAGAACAAAGTCTCGAAGATTCAAAGCATATCTATTCGGTAAGCATAATGTGAATGAATTATT
66 AGAAGAACAAAGTCTCAAAGATTCAAAGCATATCTATTCGGTAAGCATAATGTGAATGAATCATT
* * * *
69515 AAACTATTCTAATGTTGCTCCCTTTAATGTTTCAGATTCGAGGTCGAATCTTTTTGAAGAAAGGG
131 AAACGATTCTAATGTTGCTCCCTTTAATCTTTCAGATTCGAGGTCGAATCTTTTTGAAAAAAGAG
69580 AGGATGATACATGCATC
196 AGGATGATACATGCATC
69597 A
1 A
69598 CAAGGTTCAC
Statistics
Matches: 203, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
212 203 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (212 bp):
ATGATACATGCACCAGAGTCCATAATACATGCTTCTTTGGACTAATGTTTCTACTCAAACCTATT
AGAAGAACAAAGTCTCAAAGATTCAAAGCATATCTATTCGGTAAGCATAATGTGAATGAATCATT
AAACGATTCTAATGTTGCTCCCTTTAATCTTTCAGATTCGAGGTCGAATCTTTTTGAAAAAAGAG
AGGATGATACATGCATC
Found at i:70141 original size:8 final size:8
Alignment explanation
Indices: 70130--70192 Score: 69
Period size: 8 Copynumber: 8.0 Consensus size: 8
70120 TTTTTGGCTC
70130 TTTTTTTG
1 TTTTTTTG
70138 TTTTTTTG
1 TTTTTTTG
**
70146 -CCTTTT-
1 TTTTTTTG
70152 TTTTTTTG
1 TTTTTTTG
70160 CCTTTTTTTG
1 --TTTTTTTG
70170 -TTTTTTG
1 TTTTTTTG
70177 TTTTTTTG
1 TTTTTTTG
70185 TTTTTTTG
1 TTTTTTTG
70193 AAAAAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
7 15 0.33
8 23 0.50
10 8 0.17
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (8 bp):
TTTTTTTG
Found at i:70155 original size:14 final size:14
Alignment explanation
Indices: 70133--70173 Score: 64
Period size: 14 Copynumber: 2.8 Consensus size: 14
70123 TTGGCTCTTT
70133 TTTTGTTTTTTTGCC
1 TTTT-TTTTTTTGCC
70148 TTTTTTTTTTTGCC
1 TTTTTTTTTTTGCC
70162 TTTTTTTGTTTT
1 TTTTTTT-TTTT
70174 TTGTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTTTGCC
Found at i:70156 original size:20 final size:20
Alignment explanation
Indices: 70119--70155 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
70109 AAATTTTGGC
*
70119 TTTTTTGGCTCTTTTTTTGT
1 TTTTTTGCCTCTTTTTTTGT
70139 TTTTTTGCCT-TTTTTTT
1 TTTTTTGCCTCTTTTTTT
70156 TTTGCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.78
Consensus pattern (20 bp):
TTTTTTGCCTCTTTTTTTGT
Found at i:71301 original size:203 final size:201
Alignment explanation
Indices: 70940--71308 Score: 481
Period size: 202 Copynumber: 1.8 Consensus size: 201
70930 CCTATTCCAG
*
70940 CATAGCTCAAGGCGAGAAGGGTTATATGTCAATAAAAAATTTCGAATTCGATTCCATTCAGCTCG
1 CATAGCTCAAGGCGAGAAGGGTTATATGTCAATAAAAAACTTCGAATTCGATTCCATTCAGCTCG
* * * *
71005 ATGACATATCAACCGCATGGTAGCAGTGAGGAACTACTTTCCGGTTGAAGCGTAAACTGAGGTCT
66 AGGACATATAAACCACATGGTAGCAGTGAGGAACTACTTTCCGATTGAAGCGTAAACTGAGGTCT
** ** *
71070 TTAAGTCAAGAAGAAGACCTGGGTTGACTGCGATTTAGCAATAATGAACTATCTCCCAACCGAAT
131 TTAAACCAAGAAGAAGACCAAGGTTGACTACGATTTAGCAATAATGAACTATCTCCCAACCGAAT
71135 TCACAA
196 TCACAA
* * * * * *
71141 CATAGCTCTAGGCGAGAAGGGTTATCTTTCAA-ACAAAAACCTTCGAGTTTGATTTCATTCAGCT
1 CATAGCTCAAGGCGAGAAGGGTTATATGTCAATA-AAAAA-CTTCGAATTCGATTCCATTCAGCT
* * * ***
71205 CGAGGGCTTATAAACCACATGGTAGCA-TCGAGGAACTACTTTTCGATTGAATTTTCAAACTGAG
64 CGAGGACATATAAACCACATGGTAGCAGT-GAGGAACTACTTTCCGATTGAAGCGT-AAACTGAG
*
71269 GTCTTTAAACCGAGAAGAAGACCAAGGTTGACTACGATTT
127 GTCTTTAAACCAAGAAGAAGACCAAGGTTGACTACGATTT
71309 GACAACAAGA
Statistics
Matches: 141, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
200 1 0.01
201 35 0.25
202 63 0.45
203 42 0.30
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (201 bp):
CATAGCTCAAGGCGAGAAGGGTTATATGTCAATAAAAAACTTCGAATTCGATTCCATTCAGCTCG
AGGACATATAAACCACATGGTAGCAGTGAGGAACTACTTTCCGATTGAAGCGTAAACTGAGGTCT
TTAAACCAAGAAGAAGACCAAGGTTGACTACGATTTAGCAATAATGAACTATCTCCCAACCGAAT
TCACAA
Found at i:71720 original size:27 final size:27
Alignment explanation
Indices: 71684--71748 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
71674 AAAAAATCGG
* *
71684 TTTTTGAAAATATATATTATATATAGT
1 TTTTTGAAAACATATATAATATATAGT
71711 TTTTTGAAAACATATATAATATATAG-
1 TTTTTGAAAACATATATAATATATAGT
71737 -TTTTGAAAACAT
1 TTTTTGAAAACAT
71749 TTTTGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 12 0.33
27 24 0.67
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (27 bp):
TTTTTGAAAACATATATAATATATAGT
Found at i:71725 original size:25 final size:25
Alignment explanation
Indices: 71685--71871 Score: 127
Period size: 25 Copynumber: 7.4 Consensus size: 25
71675 AAAAATCGGT
* *
71685 TTTTGAAAATATATATTATATATAG
1 TTTTGAAAACATATATAATATATAG
71710 TTTTTTGAAAACATATATAATATATAG
1 --TTTTGAAAACATATATAATATATAG
* *
71737 TTTTGAAAACATTTTTGAA-A-ATA-
1 TTTTGAAAACATATAT-AATATATAG
* * * * * *
71760 -TAT-AATATATAGTTTTGAA-A-ACAT
1 TTTTGAAAACATA--TAT-AATATATAG
*
71784 TTTTGAAAAATATATATAATATATAG
1 TTTTG-AAAACATATATAATATATAG
*
71810 TTTTGAAAATATATATAATATATAG
1 TTTTGAAAACATATATAATATATAG
71835 TTTTTGAAAACATTTATATAATATATAG
1 -TTTTGAAAACA--TATATAATATATAG
71863 TTTTGAAAA
1 TTTTGAAAA
71872 TATTTTGAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
21 5 0.04
22 2 0.02
23 9 0.07
24 5 0.04
25 40 0.30
26 19 0.14
27 39 0.29
28 14 0.11
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.44
Consensus pattern (25 bp):
TTTTGAAAACATATATAATATATAG
Found at i:71763 original size:64 final size:63
Alignment explanation
Indices: 71684--71910 Score: 243
Period size: 64 Copynumber: 3.6 Consensus size: 63
71674 AAAAAATCGG
*
71684 TTTTTGAAAATATATATTATATATAGTTTTTTGAAAACATATATAATATATAGTTTTGAAAACA
1 TTTTTGAAAATATATATTATATATAG-TTTTTGAAAACATATATAATATATAGTTTTGAAAATA
* * * *
71748 TTTTTGAAAATATATA--ATATATAG-TTTTGAAAACATTTTTGAA-AAATA-TATAT-AATATA
1 TTTTTGAAAATATATATTATATATAGTTTTTGAAAACATATAT-AATATATAGT-TTTGAA-A-A
71807 TA
62 TA
* *
71809 GTTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTATATAATATATAGTTTTGAAAATA
1 TTTTTGAAAATATATATTATATATAGTTTTTGAAAACA--TATATAATATATAGTTTTGAAAATA
* *
71874 -TTTTGAAAACATATATATATTATATAGCTTTTGAAAA
1 TTTTTGAAAATATATAT-TA-TATATAGTTTTTGAAAA
71911 ACAATTTTTG
Statistics
Matches: 136, Mismatches: 13, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
59 3 0.02
60 21 0.15
61 19 0.14
62 8 0.06
63 8 0.06
64 42 0.31
65 6 0.04
66 26 0.19
67 3 0.02
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (63 bp):
TTTTTGAAAATATATATTATATATAGTTTTTGAAAACATATATAATATATAGTTTTGAAAATA
Found at i:71826 original size:91 final size:91
Alignment explanation
Indices: 71747--71910 Score: 239
Period size: 91 Copynumber: 1.8 Consensus size: 91
71737 TTTTGAAAAC
71747 ATTTTTG-AAA-A-TATATAATATATAGTTTTGAAAACATTTTTGAAAA-ATATATATAATATAT
1 ATTTTTGAAAACATTATATAATATATAGTTTTGAAAACA-TTTTGAAAACATATATATAATATAT
*
71808 AG-TTTTGAAAATATATATAATATATA
65 AGCTTTTGAAAATATATATAATATAAA
* * *
71834 GTTTTTGAAAACATTTATATAATATATAGTTTTGAAAATATTTTGAAAACATATATATATTATAT
1 ATTTTTGAAAACA-TTATATAATATATAGTTTTGAAAACATTTTGAAAACATATATATAATATAT
71899 AGCTTTTGAAAA
65 AGCTTTTGAAAA
71911 ACAATTTTTG
Statistics
Matches: 68, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
87 6 0.09
88 3 0.04
89 1 0.01
90 9 0.13
91 40 0.59
92 9 0.13
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (91 bp):
ATTTTTGAAAACATTATATAATATATAGTTTTGAAAACATTTTGAAAACATATATATAATATATA
GCTTTTGAAAATATATATAATATAAA
Found at i:71932 original size:40 final size:38
Alignment explanation
Indices: 71835--72011 Score: 159
Period size: 38 Copynumber: 4.5 Consensus size: 38
71825 TAATATATAG
* *
71835 TTTTTGAAAACATTTATATAATATATAGTTTTG-AAAATA
1 TTTTTGAAAACA--TATATATTATATAGTTTTGAAAAAAA
71874 -TTTTGAAAACATATATATATTATATAGCTTTTGAAAAACAA
1 TTTTTGAAAAC--ATATATATTATATAG-TTTTGAAAAA-AA
* *
71915 TTTTTGAAAACACATATATTATATAG-TTTCAAAAATAA
1 TTTTTGAAAACATATATATTATATAGTTTTGAAAAA-AA
* *
71953 ATTTTGAAAGCATATATCA-TATATAGTTTT-AAAAAAGA
1 TTTTTGAAAACATATAT-ATTATATAGTTTTGAAAAAA-A
71991 TTTTTTTGAAAACATAT-TATT
1 --TTTTTGAAAACATATATATT
72012 TTTTATTAAT
Statistics
Matches: 116, Mismatches: 10, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
37 1 0.01
38 61 0.53
39 11 0.09
40 32 0.28
41 1 0.01
42 10 0.09
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (38 bp):
TTTTTGAAAACATATATATTATATAGTTTTGAAAAAAA
Found at i:71950 original size:78 final size:78
Alignment explanation
Indices: 71835--72005 Score: 195
Period size: 78 Copynumber: 2.2 Consensus size: 78
71825 TAATATATAG
* ** *
71835 TTTTTGAAAACATTTATATAATATATAGTTTTGAAAAT-ATTTTGAAAACATATATATATTATAT
1 TTTTTGAAAACA-TCATATAATATATAGTTTCAAAAATAATTTTGAAAACATATAT-CA-TATAT
*
71899 AGCTTTTGAAAAACA-A
63 AG-TTTTAAAAAACATA
* *
71915 TTTTTGAAAACA-CATATATTATATAGTTTCAAAAATAAATTTTGAAAGCATATATCATATATAG
1 TTTTTGAAAACATCATATAATATATAGTTTCAAAAAT-AATTTTGAAAACATATATCATATATAG
* *
71979 TTTTAAAAAAGATT
65 TTTTAAAAAACATA
71993 TTTTTGAAAACAT
1 TTTTTGAAAACAT
72006 ATTATTTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
77 10 0.13
78 39 0.50
79 1 0.01
80 28 0.36
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (78 bp):
TTTTTGAAAACATCATATAATATATAGTTTCAAAAATAATTTTGAAAACATATATCATATATAGT
TTTAAAAAACATA
Found at i:73448 original size:18 final size:18
Alignment explanation
Indices: 73409--73449 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
73399 CCTTTAAATT
* **
73409 TTTTTTTTTATTTTTTGG
1 TTTTATTTTATTTTTTCC
73427 TTTTATTTTATTTTTTCC
1 TTTTATTTTATTTTTTCC
73445 TTTTA
1 TTTTA
73450 ACATTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTTATTTTATTTTTTCC
Found at i:75005 original size:3 final size:3
Alignment explanation
Indices: 74975--75081 Score: 97
Period size: 3 Copynumber: 33.0 Consensus size: 3
74965 ATTTATTTAT
* * * *
74975 TTA TTA CTA TATA TTG TTA TTA TATA TTA TTA ATA CTA TTTA TTTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA -TTA TTA
*
75024 TTA TTTA TTGA TTA TTGA TTA TTGA TTA ATA TTA TTA TTA TTA TTA TTA
1 TTA -TTA TT-A TTA TT-A TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
75073 TTA TTA TTA
1 TTA TTA TTA
75082 ACATTATATG
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
3 64 0.73
4 24 0.27
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:75015 original size:43 final size:42
Alignment explanation
Indices: 74968--75081 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
74958 CTTATTTATT
*
74968 TATTTATTTATTACTATATATTGTTATTATATATT-ATTAATAC
1 TATTTATTTATTATTAT-TATTGTTATTAT-TATTGATTAATAC
*
75011 TATTTATTTATTATTATTTATTGATTATTGATTATTGATTAATAT
1 TATTTATTTATTATTA-TTATTG-TTATT-ATTATTGATTAATAC
*
75056 TA-TTA-TTATTATTATTATTATTATTA
1 TATTTATTTATTATTATTATTGTTATTA
75082 ACATTATATG
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
40 1 0.02
41 5 0.08
42 5 0.08
43 29 0.45
44 13 0.20
45 11 0.17
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (42 bp):
TATTTATTTATTATTATTATTGTTATTATTATTGATTAATAC
Found at i:75060 original size:57 final size:53
Alignment explanation
Indices: 74960--75080 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 53
74950 ATTCGAGACT
*
74960 TATTTATTTA-T-TTATTTATTACTATATATTGTTATTATATATTATTAATAC
1 TATTTATTTATTATTATTTATTACTATATATTATTATTATATATTATTAATAC
* * *
75011 TATTTATTTATTATTATTTATTGATTAT-TGATTATTGATTA-ATATTATTATTAT
1 TATTTATTTATTATTATTTATT-ACTATAT-ATTATT-ATTATATATTATTAATAC
75065 TA-TTA-TTATTATTATT
1 TATTTATTTATTATTATT
75081 AACATTATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
51 10 0.16
52 12 0.20
53 13 0.21
54 22 0.36
55 4 0.07
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (53 bp):
TATTTATTTATTATTATTTATTACTATATATTATTATTATATATTATTAATAC
Found at i:75078 original size:18 final size:18
Alignment explanation
Indices: 74975--75081 Score: 97
Period size: 20 Copynumber: 5.5 Consensus size: 18
74965 ATTTATTTAT
* *
74975 TTATTACTATATATTGTTA
1 TTATTATTAT-TATTATTA
* *
74994 TTATATATTATTAATACTA
1 TTAT-TATTATTATTATTA
75013 TTTATTTATTATTATTTATTGA
1 -TTA-TTATTATTA-TTATT-A
*
75035 TTATTGATTATTGATTAATA
1 TTATT-ATTATT-ATTATTA
75055 TTATTATTATTATTATTA
1 TTATTATTATTATTATTA
75073 TTATTATTA
1 TTATTATTA
75082 ACATTATATG
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
18 15 0.21
19 15 0.21
20 24 0.33
21 17 0.23
22 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (18 bp):
TTATTATTATTATTATTA
Found at i:75842 original size:3 final size:3
Alignment explanation
Indices: 75812--75918 Score: 108
Period size: 3 Copynumber: 34.0 Consensus size: 3
75802 ATTTATTTAT
* * * *
75812 TTA TTA CTA TATA TTG TTA TTA TATA TTA TTA ATA CTA TTTA TTTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA -TTA TTA
*
75861 TTA TTA -TA TTA TTGA TTA TTGA TTA ATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
75907 TTA TTA TTA TTA
1 TTA TTA TTA TTA
75919 ACATTATATG
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.02
3 69 0.78
4 18 0.20
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:75852 original size:43 final size:42
Alignment explanation
Indices: 75805--75918 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 42
75795 CTTATTTATT
* *
75805 TATTTATTTATTACTATATATTGTTATTATATATT-ATTAATAC
1 TATTTATTTATTATTAT-TATTATTATTAT-TATTGATTAATAC
*
75848 TATTTATTTATTATTATTA-TATTATTGATTATTGATTAATAT
1 TATTTATTTATTATTATTATTATTATT-ATTATTGATTAATAC
75890 TA-TTA-TTATTATTATTATTATTATTATTA
1 TATTTATTTATTATTATTATTATTATTATTA
75919 ACATTATATG
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
40 16 0.25
41 20 0.31
42 13 0.20
43 16 0.25
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (42 bp):
TATTTATTTATTATTATTATTATTATTATTATTGATTAATAC
Found at i:75853 original size:51 final size:51
Alignment explanation
Indices: 75801--75916 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 51
75791 GAGACTTATT
*
75801 TATTTATTTATTTATTACTATA-TATTG-TTATT-A-T-ATATTATTAATAC
1 TATTTATTTA-TTATTATTATATTATTGATTATTGATTAATATTATTAATAC
* *
75848 TATTTATTTATTATTATTATATTATTGATTATTGATTAATATTATTATTAT
1 TATTTATTTATTATTATTATATTATTGATTATTGATTAATATTATTAATAC
75899 TA-TTA-TTATTATTATTAT
1 TATTTATTTATTATTATTAT
75917 TAACATTATA
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
46 10 0.16
47 15 0.25
48 5 0.08
49 14 0.23
50 4 0.07
51 13 0.21
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (51 bp):
TATTTATTTATTATTATTATATTATTGATTATTGATTAATATTATTAATAC
Found at i:75872 original size:31 final size:33
Alignment explanation
Indices: 75822--75909 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 33
75812 TTATTACTAT
* *
75822 ATATTGTTATTA-TATATTATTAATACT-ATTT
1 ATATTATTATTATTATATTATTAATACTGATTA
* *
75853 AT-TTATTATTATTATATTATTGATTATTGATTA
1 ATATTATTATTATTATATTATT-AATACTGATTA
75886 ATATTATTATTATTATTATTATTA
1 ATATTATTATTATTA-TATTATTA
75910 TTATTATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
30 8 0.17
31 11 0.23
32 4 0.08
33 5 0.10
34 13 0.27
35 7 0.15
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (33 bp):
ATATTATTATTATTATATTATTAATACTGATTA
Found at i:76185 original size:837 final size:835
Alignment explanation
Indices: 74570--76237 Score: 3236
Period size: 837 Copynumber: 2.0 Consensus size: 835
74560 TGTGTATATA
74570 TATCAATATTAAAAATCATTTAAATATCATGTGTACGGATATTAATAATATCAAATATCTGAAGT
1 TATCAATATTAAAAATCATTTAAATATCATGTGTACGGATATTAATAATATCAAATATCTGAAGT
74635 AAAACATAAATACAAATTCCGTAATACAATTTACTATCACCAAAATAAACAAATGAAAAATAGAA
66 AAAACATAAATACAAATTCCGTAATACAATTTACTATCACCAAAATAAACAAATGAAAAATAGAA
*
74700 GCACAACAACAGAAACAATTGAGCATCCGAATGTTAGTCCAAAACTTATAGTCCATTAGTATCTA
131 GCACAACAACAGAAACAATTGAGCATCCGAATGCTAGTCCAAAACTTATAGTCCATTAGTATCTA
74765 AAAAAAGTAAAACTAAGGAAAATGAGCAAAAAAAATGTCAGTATGCTCCTTAAAGTACAAAGAAA
196 AAAAAAGTAAAACTAAGGAAAATGAGCAAAAAAAATGTCAGTATGCTCCTTAAAGTACAAAGAAA
74830 CACATATATATTAAAAAAAACACATCAGTAAAAGTTGTTTGAAAATATGTTTTAAAAAATATGAT
261 CACATATATATTAAAAAAAACACATCAGTAAAAGTTGTTTGAAAATATGTTTTAAAAAATATGAT
74895 CACTATCGACATTCGATCACCATAAATATATAGGTTTTTGTAGACAATTATTTTTATTCGAGACT
326 CACTATCGACATTCGATCACCATAAATATATAGGTTTTTGTAGACAATTATTTTTATTCGAGACT
74960 TATTTATTTATTTATTTATTACTATATATTGTTATTATATATTATTAATACTATTTATTTATTAT
391 TATTTATTTATTTATTTATTACTATATATTGTTATTATATATTATTAATACTATTTATTTATTAT
75025 TATTTATTGATTATTGATTATTGATTAATATTATTATTATTATTATTATTATTATTAACATTATA
456 TATTTATTGATTATTGATTATTGATTAATATTATTATTATTATTATTATTATTATTAACATTATA
75090 TGGCTGTTGATTTATTTCTACAGGTCGAAGAAGCAGCAAGCCCATTTGAGAATCAAATTAGAAGT
521 TGGCTGTTGATTTATTTCTACAGGTCGAAGAAGCAGCAAGCCCATTTGAGAATCAAATTAGAAGT
75155 CCGGGTATCAATAGGGCTTGGGATTAACCCTCACCAAGTGTGTGCCGCCAAGGATTTTTTTCCCA
586 CCGGGTATCAATAGGGCTTGGGATTAACCCTCACCAAGTGTGTGCCGCCAAGGATTTTTTTCCCA
75220 ATACGACAAACATTTTTATCAATTAGCCTAATGAGATATATAAAAGTTTATTTTGAGATATATGA
651 ATACGACAAACATTTTTATCAATTAGCCTAATGAGATATATAAAAGTTTATTTTGAGATATATGA
75285 TATTTATTAAACTACTCAATGAAATTCATCATATCAAAGTAACGAGTTTTAATAAAATATAATTT
716 TATTTATTAAACTACTCAATGAAATTCATCATATCAAAGTAACGAGTTTTAATAAAATATAA-TT
75350 TTTTTATTAAGTTTTATCATATTGAGGGGAAAATTTTGAATAAAATATATAAAAGGTT
780 TTTTTATTAAGTTTTATCATATTGAGGGGAAAATTTTGAATAAAA-AT-TAAAAGGTT
75408 TATCAATATTAAAAATCATTTAAATATCATGTGTACGGATATTAATAATATCAAATATCTGAAGT
1 TATCAATATTAAAAATCATTTAAATATCATGTGTACGGATATTAATAATATCAAATATCTGAAGT
75473 AAAACATAAATACAAATTCCGTAATACAATTTACTATCACCAAAATAAACAAATGAAAAATAGAA
66 AAAACATAAATACAAATTCCGTAATACAATTTACTATCACCAAAATAAACAAATGAAAAATAGAA
75538 GCACAACAACAGAAACAATTGAGCATCCGAATGCTAGTCCAAAACTTATAGTCCATTAGTATCTA
131 GCACAACAACAGAAACAATTGAGCATCCGAATGCTAGTCCAAAACTTATAGTCCATTAGTATCTA
75603 AAAAAAGTAAAACTAAGGAAAATGAGC-AAAAAAATGTCAGTATGCTCCTTAAAGTACAAAGAAA
196 AAAAAAGTAAAACTAAGGAAAATGAGCAAAAAAAATGTCAGTATGCTCCTTAAAGTACAAAGAAA
75667 CACATATATATTAAAAAAAACACATCAGTAAAAGTTGTTTGAAAATATGTTTTAAAAAATATGAT
261 CACATATATATTAAAAAAAACACATCAGTAAAAGTTGTTTGAAAATATGTTTTAAAAAATATGAT
75732 CACTATCGACATTCGATCACCATAAATATATAGGTTTTTGTAGACAATTATTTTTATTCGAGACT
326 CACTATCGACATTCGATCACCATAAATATATAGGTTTTTGTAGACAATTATTTTTATTCGAGACT
75797 TATTTATTTATTTATTTATTACTATATATTGTTATTATATATTATTAATACTATTTATTTATTAT
391 TATTTATTTATTTATTTATTACTATATATTGTTATTATATATTATTAATACTATTTATTTATTAT
75862 TA-TTA-T-ATTATTGATTATTGATTAATATTATTATTATTATTATTATTATTATTATTAACATT
456 TATTTATTGATTATTGATTATTGATT-A-A-TATTATTATTATTATTATTATTATTATTAACATT
75924 ATATGGCTGTTGATTTATTTCTACAGGTCGAAGAAGCAGCAAGCCCATTTGAGAATCAAATTAGA
518 ATATGGCTGTTGATTTATTTCTACAGGTCGAAGAAGCAGCAAGCCCATTTGAGAATCAAATTAGA
75989 AGTCCGGGTATCAATAGGGCTTGGGATTAACCCTCACCAAGTGTGTGCCGCCAAGGATTTTTTTC
583 AGTCCGGGTATCAATAGGGCTTGGGATTAACCCTCACCAAGTGTGTGCCGCCAAGGATTTTTTTC
76054 CCAATACGACAAACATTTTTATCAATTAGCCTAATGAGATATATAAAAGTTTATTTTGAGATATA
648 CCAATACGACAAACATTTTTATCAATTAGCCTAATGAGATATATAAAAGTTTATTTTGAGATATA
*
76119 TGATATTTATTAAACTACTCAATGAAATTCATTATATCAAAGTAACGAGTTTTAATAAAATATAA
713 TGATATTTATTAAACTACTCAATGAAATTCATCATATCAAAGTAACGAGTTTTAATAAAATATAA
76184 TTTTTTTATTAAGTTTTATCATATTGAGGGGAAAATTTTGAATAAAAATTAAAA
778 TTTTTTTATTAAGTTTTATCATATTGAGGGGAAAATTTTGAATAAAAATTAAAA
76238 TTCATCACTT
Statistics
Matches: 825, Mismatches: 2, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
834 22 0.03
835 4 0.00
836 51 0.06
837 527 0.64
838 221 0.27
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (835 bp):
TATCAATATTAAAAATCATTTAAATATCATGTGTACGGATATTAATAATATCAAATATCTGAAGT
AAAACATAAATACAAATTCCGTAATACAATTTACTATCACCAAAATAAACAAATGAAAAATAGAA
GCACAACAACAGAAACAATTGAGCATCCGAATGCTAGTCCAAAACTTATAGTCCATTAGTATCTA
AAAAAAGTAAAACTAAGGAAAATGAGCAAAAAAAATGTCAGTATGCTCCTTAAAGTACAAAGAAA
CACATATATATTAAAAAAAACACATCAGTAAAAGTTGTTTGAAAATATGTTTTAAAAAATATGAT
CACTATCGACATTCGATCACCATAAATATATAGGTTTTTGTAGACAATTATTTTTATTCGAGACT
TATTTATTTATTTATTTATTACTATATATTGTTATTATATATTATTAATACTATTTATTTATTAT
TATTTATTGATTATTGATTATTGATTAATATTATTATTATTATTATTATTATTATTAACATTATA
TGGCTGTTGATTTATTTCTACAGGTCGAAGAAGCAGCAAGCCCATTTGAGAATCAAATTAGAAGT
CCGGGTATCAATAGGGCTTGGGATTAACCCTCACCAAGTGTGTGCCGCCAAGGATTTTTTTCCCA
ATACGACAAACATTTTTATCAATTAGCCTAATGAGATATATAAAAGTTTATTTTGAGATATATGA
TATTTATTAAACTACTCAATGAAATTCATCATATCAAAGTAACGAGTTTTAATAAAATATAATTT
TTTTATTAAGTTTTATCATATTGAGGGGAAAATTTTGAATAAAAATTAAAAGGTT
Found at i:77085 original size:22 final size:22
Alignment explanation
Indices: 77060--77111 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
77050 CTGAATTCTA
77060 AATCAAATAAATTGATTCAAAT
1 AATCAAATAAATTGATTCAAAT
77082 AATCAAATAAATTGATTCAAAT
1 AATCAAATAAATTGATTCAAAT
77104 AATCAAAT
1 AATCAAAT
77112 TCAAGTCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.31
Consensus pattern (22 bp):
AATCAAATAAATTGATTCAAAT
Found at i:78251 original size:171 final size:172
Alignment explanation
Indices: 77945--78294 Score: 562
Period size: 171 Copynumber: 2.0 Consensus size: 172
77935 AGTATCTAAG
*
77945 AAAA-ATAGAAGGGTTTGAAGCCATAAGTGTTACCACTTGATAAGTCGATAAAGTCTTTAGAAAG
1 AAAAGATAGAAGGGTTTGAAGCCACAAGTGTTACCACTTGATAAGTCGATAAAGTCTTTAGAAAG
* * * *
78009 ACTAATTAAAAAAAAGAATAATTCTCACAAGTATATTTGATGAACAAGAGTTGTTTTTACAATTA
66 ACCAAGTAAAAAAAAGAATAATTCTCACAAGTACATTTGATGAACAAGAGTTGTTTTTACAATGA
*
78074 AATAGGCAAGTCTATTTATAACGGATGAAAGGAAAA-TAGACC
131 AATAGGCAAGCCTATTTATAACGGATGAAA-GAAAACTAGACC
** *
78116 AAAAGATAGAAGGGTTTGACTCTACAAGTGTTACCACTTGATAAGTCGATAAAGTCTTTAGAAAG
1 AAAAGATAGAAGGGTTTGAAGCCACAAGTGTTACCACTTGATAAGTCGATAAAGTCTTTAGAAAG
*
78181 ACCAAGT-AAAAAGAGAATAATTCTCACAAGTACATTTGATGAACAAGAGTTGTTTTTACAATGA
66 ACCAAGTAAAAAAAAGAATAATTCTCACAAGTACATTTGATGAACAAGAGTTGTTTTTACAATGA
* *
78245 AATAGGCAAGCCTATTTATAATGGATGAAAGAAAACTAGCCC
131 AATAGGCAAGCCTATTTATAACGGATGAAAGAAAACTAGACC
78287 AAAAGATA
1 AAAAGATA
78295 CAAATGTATC
Statistics
Matches: 165, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
170 5 0.03
171 99 0.60
172 61 0.37
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (172 bp):
AAAAGATAGAAGGGTTTGAAGCCACAAGTGTTACCACTTGATAAGTCGATAAAGTCTTTAGAAAG
ACCAAGTAAAAAAAAGAATAATTCTCACAAGTACATTTGATGAACAAGAGTTGTTTTTACAATGA
AATAGGCAAGCCTATTTATAACGGATGAAAGAAAACTAGACC
Found at i:84487 original size:19 final size:19
Alignment explanation
Indices: 84465--84507 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
84455 CCATTGACTG
84465 TTGACACAGCT-ATTGACCA
1 TTGACACAG-TAATTGACCA
* *
84484 TTGACCCAGTAATTGACCG
1 TTGACACAGTAATTGACCA
84503 TTGAC
1 TTGAC
84508 TAGTCGTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (19 bp):
TTGACACAGTAATTGACCA
Found at i:101523 original size:20 final size:20
Alignment explanation
Indices: 101498--101542 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
101488 GGGTGTATCA
101498 ATGCACACCGATAGGAATCG
1 ATGCACACCGATAGGAATCG
* *
101518 ATGCACACCGGTAGGCATCG
1 ATGCACACCGATAGGAATCG
101538 ATGCA
1 ATGCA
101543 TGGAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.16
Consensus pattern (20 bp):
ATGCACACCGATAGGAATCG
Found at i:103014 original size:18 final size:17
Alignment explanation
Indices: 102993--103045 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
102983 TTTAGGATAA
102993 AGTGGTCCTTCGAGACAT
1 AGTGGTCCTTCG-GACAT
* *
103011 AGTGGTCATTTGGAACAT
1 AGTGGTCCTTCGG-ACAT
103029 AGTGGTCCTTCGTGACA
1 AGTGGTCCTTCG-GACA
103046 AATATTCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (17 bp):
AGTGGTCCTTCGGACAT
Found at i:105975 original size:10 final size:10
Alignment explanation
Indices: 105960--105999 Score: 53
Period size: 10 Copynumber: 3.7 Consensus size: 10
105950 TTTGTTTTTC
105960 AAAAAAACAA
1 AAAAAAACAA
105970 AAAAAAAGGCAA
1 AAAAAAA--CAA
105982 AAAAAAACAA
1 AAAAAAACAA
105992 ACAAAAAA
1 A-AAAAAA
106000 AGCCAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 11 0.41
11 6 0.22
12 10 0.37
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:105988 original size:22 final size:23
Alignment explanation
Indices: 105960--106009 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
105950 TTTGTTTTTC
*
105960 AAAAAAACAAA-AAAAAAGGCAA
1 AAAAAAACAAACAAAAAAAGCAA
*
105982 AAAAAAACAAACAAAAAAAGCCA
1 AAAAAAACAAACAAAAAAAGCAA
106005 AAAAA
1 AAAAA
106010 GCCAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (23 bp):
AAAAAAACAAACAAAAAAAGCAA
Found at i:113107 original size:17 final size:17
Alignment explanation
Indices: 113087--113139 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
113077 TTTAGGGAAG
113087 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
113104 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
113121 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
113138 TA
1 TA
113140 ACTCTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:122234 original size:21 final size:21
Alignment explanation
Indices: 122208--122254 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
122198 ATACAGGGGC
122208 AACATATCAAAGGGATATGGA
1 AACATATCAAAGGGATATGGA
*
122229 AACATATCAAAGGGATATGGT
1 AACATATCAAAGGGATATGGA
122250 AACAT
1 AACAT
122255 TATTTCATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (21 bp):
AACATATCAAAGGGATATGGA
Found at i:126110 original size:7 final size:7
Alignment explanation
Indices: 126098--126148 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
126088 TGACGGTTTC
126098 ATTATAT
1 ATTATAT
126105 ATTATAT
1 ATTATAT
*
126112 ATAATAT
1 ATTATAT
*
126119 ACTATATT
1 ATTATA-T
126127 ATTATAT
1 ATTATAT
126134 A-TAT-T
1 ATTATAT
126139 ATTAT-T
1 ATTATAT
126145 ATTA
1 ATTA
126149 CAAGACCCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
5 2 0.05
6 11 0.29
7 19 0.50
8 6 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTATAT
Found at i:126645 original size:38 final size:38
Alignment explanation
Indices: 126594--126709 Score: 124
Period size: 38 Copynumber: 3.1 Consensus size: 38
126584 CAAGCAACAA
* * *
126594 AGACACAGCAAGCAACGAAGAATAATGAACAACGACTG
1 AGACACAACAAGCAACGAAGAACAATGAACAACGACAG
* * *
126632 AGACACATCAAGCAACGAAGAACGATGAACAATGACAG
1 AGACACAACAAGCAACGAAGAACAATGAACAACGACAG
** * * * *
126670 AGATGCAACAACCAACGAAGAACGACGAACAACGATAG
1 AGACACAACAAGCAACGAAGAACAATGAACAACGACAG
126708 AG
1 AG
126710 GAGACACAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.07
Consensus pattern (38 bp):
AGACACAACAAGCAACGAAGAACAATGAACAACGACAG
Found at i:127418 original size:29 final size:28
Alignment explanation
Indices: 127385--127439 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
127375 AAATTATATT
127385 ATTAGA-ACTTATAGTTTATAATATTTTGA
1 ATTAGAGAC-TATAGTTT-TAATATTTTGA
*
127414 ATTAGAGACTATAGTTTTATTATTTT
1 ATTAGAGACTATAGTTTTAATATTTT
127440 ACAATTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 14 0.58
30 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (28 bp):
ATTAGAGACTATAGTTTTAATATTTTGA
Found at i:130196 original size:70 final size:71
Alignment explanation
Indices: 130058--130219 Score: 218
Period size: 70 Copynumber: 2.3 Consensus size: 71
130048 TTTTTGGATG
* * *
130058 AGTTCTTCTCATTATCAACTCTTCATTGGAAATACTGATCCACTTCATTTTGTGATGGACTTGAA
1 AGTTCTTCTCATTATGAACTCTTCA-TGGAAATACTGATCCACCTCATTTTGTGATGAACTTGAA
130123 AGGAACA
65 AGGAACA
** * * * * *
130130 AGTTCTTCTCATTATGAACTCTTC-TGGAAATGTTGGTTCACCTCCTTTTGTGGTGAATTTGAAA
1 AGTTCTTCTCATTATGAACTCTTCATGGAAATACTGATCCACCTCATTTTGTGATGAACTTGAAA
130194 GGAACA
66 GGAACA
130200 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
130220 TTCCCCTTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
70 57 0.71
72 23 0.29
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (71 bp):
AGTTCTTCTCATTATGAACTCTTCATGGAAATACTGATCCACCTCATTTTGTGATGAACTTGAAA
GGAACA
Found at i:130434 original size:136 final size:135
Alignment explanation
Indices: 130195--130811 Score: 866
Period size: 136 Copynumber: 4.6 Consensus size: 135
130185 AATTTGAAAG
* * *
130195 GAACAAGTTCTTCTCATTATGAAC--TTTC-CCCT-TTAGGACGAGTTCTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACTC
* * * * *
130256 TCCTTTAGAAATGTTAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCGTGATTTGAGTGAT
66 TCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGAT
130321 AGGTC
131 AGGTC
*
130326 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTATCGAATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCT-TCGGATGAGTTCTTCTCATTATGAACT
* * * * * *
130391 CTCAATTGGAAATGTCAATCCCTCAAGTGAGACGTCACTGATTCGAAATGCCGTGAATCGCGTGA
65 CTCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGA
*
130456 TAGGTT
130 TAGGTC
* * * * *
130462 GAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTTGGATGAGTTCTTTTCATTATGATCTC
1 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACTC
* * * *
130527 TCCATTGGAAATG-TAATCCCTCAAGTGAGGCGTCACTTATTTGAAATATCGTGAATCGAGTGAT
66 TCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGAT
130591 AGGTC
131 AGGTC
* * * *
130596 GAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTTTGGGTGAGTTTTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACTC
* *
130661 TACATTGGAAATGTTAATCCCTCAAGCGATGCGTCACTGATTCGAAATGTCGTGAATCGAGTGAT
66 TCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGAT
130726 AGGTC
131 AGGTC
* * *
130731 GAACAAGCTCTTCTCATTATGAACTTTTTTTCCCTCTGTCAGATGAGTTATTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCT-TCGGATGAGTTCTTCTCATTATGAACT
*
130796 ATCCATTGGAAATGTT
65 CTCCATTGGAAATGTT
130812 GAAAACATTC
Statistics
Matches: 428, Mismatches: 51, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
131 23 0.05
133 4 0.01
134 123 0.29
135 123 0.29
136 155 0.36
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACTC
TCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGAT
AGGTC
Found at i:134424 original size:16 final size:16
Alignment explanation
Indices: 134403--134453 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
134393 GTAAGGTCAA
134403 GGTCCTTGTTTTATCG
1 GGTCCTTGTTTTATCG
134419 GGTCCTTGTTTTATCG
1 GGTCCTTGTTTTATCG
*
134435 GGTCCTTATTTTATCG
1 GGTCCTTGTTTTATCG
134451 GGT
1 GGT
134454 TTCAATCTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.08, C:0.18, G:0.25, T:0.49
Consensus pattern (16 bp):
GGTCCTTGTTTTATCG
Found at i:138294 original size:21 final size:22
Alignment explanation
Indices: 138253--138297 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
138243 GTATTTCCAA
138253 TGTGAAGTGATCTTCATGTCTT
1 TGTGAAGTGATCTTCATGTCTT
*
138275 TGTGAAG-GGTCTTC-TCGTCTT
1 TGTGAAGTGATCTTCAT-GTCTT
138296 TG
1 TG
138298 GTATGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 13 0.62
22 7 0.33
ACGTcount: A:0.13, C:0.16, G:0.27, T:0.44
Consensus pattern (22 bp):
TGTGAAGTGATCTTCATGTCTT
Found at i:142591 original size:15 final size:15
Alignment explanation
Indices: 142571--142645 Score: 82
Period size: 15 Copynumber: 5.1 Consensus size: 15
142561 AATTGGTTTT
142571 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
**
142586 CTGGAATTTGAATTA
1 CTGGAAAATGAATTA
142601 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
* *
142616 -TTGAAATTTGAATT-
1 CTGGAAA-ATGAATTA
*
142630 CTAGAAAATGAATTA
1 CTGGAAAATGAATTA
142645 C
1 C
142646 ATTTCTGAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
14 11 0.22
15 38 0.78
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (15 bp):
CTGGAAAATGAATTA
Found at i:142605 original size:30 final size:29
Alignment explanation
Indices: 142569--142645 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 29
142559 GTAATTGGTT
*
142569 TTCTGGAAAATGAATTACTGGAATTTGAA
1 TTCTGGAAAATGAATTACTGAAATTTGAA
*
142598 TTACTGGAAAATGAATTATTGAAATTTGAA
1 TT-CTGGAAAATGAATTACTGAAATTTGAA
*
142628 TTCTAGAAAATGAATTAC
1 TTCTGGAAAATGAATTAC
142646 ATTTCTGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 16 0.37
30 27 0.63
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (29 bp):
TTCTGGAAAATGAATTACTGAAATTTGAA
Found at i:143044 original size:23 final size:23
Alignment explanation
Indices: 142995--143045 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
142985 GTGTTATATT
**
142995 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
143018 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
143041 ATATT
1 ATATT
143046 ATTATATTAT
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:143069 original size:30 final size:30
Alignment explanation
Indices: 143034--143224 Score: 89
Period size: 30 Copynumber: 6.4 Consensus size: 30
143024 TAAATATCTT
143034 TATTAAAATATTATTATATTATTATATTAA
1 TATTAAAATATTATTATATTATTATATTAA
* *
143064 TATTAAATATATAAATAATATTATTCATTATTAAA
1 TATTAAA-ATAT-TATTATATTATT-A-TATT-AA
* *
143099 TATATAAAAAAGTTATTATA-TATT-TATGAA
1 TAT-TAAAATA-TTATTATATTATTATATTAA
* * * *
143129 -AATAAAA-A-TATAATA-TCTTATATTAT
1 TATTAAAATATTATTATATTATTATATTAA
* * * *
143155 TA-TAATATAATTGATTATTTTATTATAATAT
1 TATTAAAAT-ATT-ATTATATTATTATATTAA
*
143186 TA-TAAATATAATATTATATTATTA-A--AA
1 TATTAAA-ATATTATTATATTATTATATTAA
143213 TATTTAAAATAT
1 TA-TTAAAATAT
143225 ATTTTAAAAT
Statistics
Matches: 123, Mismatches: 21, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
25 9 0.07
26 8 0.07
27 5 0.04
28 9 0.07
29 7 0.06
30 24 0.20
31 23 0.19
32 12 0.10
33 1 0.01
34 8 0.07
35 12 0.10
36 5 0.04
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (30 bp):
TATTAAAATATTATTATATTATTATATTAA
Found at i:143084 original size:24 final size:26
Alignment explanation
Indices: 143057--143215 Score: 73
Period size: 28 Copynumber: 5.8 Consensus size: 26
143047 TTATATTATT
143057 ATATTA-A-TATTAAATATATAAATA
1 ATATTATATTATTAAATATATAAATA
*
143081 ATATTATTCATTATTAAATATATAAAAA
1 ATATTA-T-ATTATTAAATATATAAATA
143109 AGTTATTATA-TATTTATGAA-A-ATAAA-A
1 A--TATTATATTA-TTA--AATATATAAATA
* * *
143136 ATATAATA-TCTTATATTATTATAATATA
1 ATATTATATTATTA-AATA-TATAA-ATA
*
143164 ATTGATTATTTTATTATAATATTATAAATATA
1 A-T-ATTATATTATTA-AATA-TAT-AA-ATA
143196 ATATTATATTATTAAA-ATAT
1 ATATTATATTATTAAATATAT
143216 TTAAAATATA
Statistics
Matches: 107, Mismatches: 10, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
23 1 0.01
24 10 0.09
25 7 0.07
26 4 0.04
27 9 0.08
28 29 0.27
29 5 0.05
30 22 0.21
31 13 0.12
32 7 0.07
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (26 bp):
ATATTATATTATTAAATATATAAATA
Found at i:143223 original size:25 final size:25
Alignment explanation
Indices: 143195--143283 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 25
143185 TTATAAATAT
143195 AATATTATATTATTAAAATATTT-A
1 AATATTATATTATTAAAATATTTAA
143219 AA-A-TATATT-TTAAAATATTTTAA
1 AATATTATATTATTAAAATA-TTTAA
* * *
143242 TAATTAATATTTTGATGAAAATTATATTAA
1 -AA-TATTATATT-ATTAAAA-TAT-TTAA
*
143272 AATATTTTATTA
1 AATATTATATTA
143284 ATATTAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
21 8 0.16
22 9 0.18
23 2 0.04
24 4 0.08
26 1 0.02
27 6 0.12
28 6 0.12
29 8 0.16
30 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
AATATTATATTATTAAAATATTTAA
Found at i:143225 original size:30 final size:32
Alignment explanation
Indices: 143152--143225 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 32
143142 TATCTTATAT
* *
143152 TATTAT-AATATAATTGATTATTTTATTATAA
1 TATTATAAATATAATTGATTATATTATTAAAA
143183 TATTATAAATATAA-T-ATTATATTATTAAAA
1 TATTATAAATATAATTGATTATATTATTAAAA
143213 TATT-TAAAATATA
1 TATTAT-AAATATA
143226 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 1 0.03
30 24 0.62
31 7 0.18
32 7 0.18
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
TATTATAAATATAATTGATTATATTATTAAAA
Found at i:148708 original size:20 final size:20
Alignment explanation
Indices: 148649--148801 Score: 68
Period size: 20 Copynumber: 7.6 Consensus size: 20
148639 AAATGGCCAA
* *
148649 CAAATTCGCAACGCGAA-CTC
1 CAAATTCGCAACAC-AATTTC
* *
148669 CAATTTCGCAACACAGTTTC
1 CAAATTCGCAACACAATTTC
*
148689 CAAATTCGCAACTCAATTTC
1 CAAATTCGCAACACAATTTC
*
148709 TGC-AA-TCGCAACGCGAATTT-
1 --CAAATTCGCAACAC-AATTTC
** *
148729 C-TTTCTCGCAACACGATTTTC
1 CAAAT-TCGCAACAC-AATTTC
148750 CAAATTCGCAACACAGAATTT-
1 CAAATTCGCAACAC--AATTTC
* *
148771 C-AATTAGCAACACGATTTC
1 CAAATTCGCAACACAATTTC
**
148790 TGAATTCGCAAC
1 CAAATTCGCAAC
148802 GCGAAGTTCT
Statistics
Matches: 103, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
18 5 0.05
19 1 0.01
20 72 0.70
21 18 0.17
22 7 0.07
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAACACAATTTC
Found at i:148738 original size:40 final size:40
Alignment explanation
Indices: 148693--148830 Score: 129
Period size: 40 Copynumber: 3.4 Consensus size: 40
148683 AGTTTCCAAA
*
148693 TTCGCAACTCAATTTCTGCAA-TCGCAACGCGAATTTCTT
1 TTCGCAACACAATTTCTGCAATTCGCAACGCGAATTTCTT
* * * **
148732 TCTCGCAACACGATTT-TCCAAATTCGCAACACAGAATTTCAA
1 T-TCGCAACACAATTTCTGC-AATTCGCAACGC-GAATTTCTT
* * *
148774 TTAGCAACACGATTTCTG-AATTCGCAACGCGAAGTTCTTT
1 TTCGCAACACAATTTCTGCAATTCGCAACGCGAATTTC-TT
148814 TTCGCAACACAAGTTTC
1 TTCGCAACACAA-TTTC
148831 CTTTTCGCAA
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
39 9 0.12
40 35 0.45
41 25 0.32
42 9 0.12
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (40 bp):
TTCGCAACACAATTTCTGCAATTCGCAACGCGAATTTCTT
Found at i:148781 original size:61 final size:59
Alignment explanation
Indices: 148674--148790 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 59
148664 AACTCCAATT
* * * *
148674 TCGCAACACAGTTTCCAAATTCGCAACTCAATTTCTGCAATCGCAACGCGAATTTCTTTC
1 TCGCAACACAGTTTCCAAATTCGCAACACAAATTCTGCAATAGCAACACG-ATTTCTTTC
*
148734 TCGCAACACGATTTTCCAAATTCGCAACACAGAATT-T-CAATTAGCAACACGATTTCT
1 TCGCAACAC-AGTTTCCAAATTCGCAACACA-AATTCTGCAA-TAGCAACACGATTTCT
148791 GAATTCGCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
60 18 0.37
61 28 0.57
62 3 0.06
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.29
Consensus pattern (59 bp):
TCGCAACACAGTTTCCAAATTCGCAACACAAATTCTGCAATAGCAACACGATTTCTTTC
Found at i:148831 original size:81 final size:81
Alignment explanation
Indices: 148667--148831 Score: 210
Period size: 81 Copynumber: 2.0 Consensus size: 81
148657 CAACGCGAAC
* * * *
148667 TCCAATTTCGCAACACAGTTTCCAAATTCGCAACTCAATTTCTGCAATCGCAACGCGAATTTCTT
1 TCCAAATTCGCAACACAGTTTCCAAATTAGCAACACAATTTCTGCAATCGCAACGCGAAGTTCTT
* *
148732 TCTCGCAACACGATTT
66 TCTCGCAACACAAGTT
*
148748 TCCAAATTCGCAACACAGAATTT-C-AATTAGCAACACGATTTCTG-AATTCGCAACGCGAAGTT
1 TCCAAATTCGCAACACAG--TTTCCAAATTAGCAACACAATTTCTGCAA-TCGCAACGCGAAGTT
*
148810 CTTTTTCGCAACACAAGTT
63 CTTTCTCGCAACACAAGTT
148829 TCC
1 TCC
148832 TTTTCGCAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 2 0.03
81 67 0.92
82 1 0.01
83 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (81 bp):
TCCAAATTCGCAACACAGTTTCCAAATTAGCAACACAATTTCTGCAATCGCAACGCGAAGTTCTT
TCTCGCAACACAAGTT
Found at i:148889 original size:40 final size:40
Alignment explanation
Indices: 148845--148921 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
148835 TCGCAACAAT
* * **
148845 ATTTTCTAAATCGTAACACGAATTTTTTTTTCGCAACTCG
1 ATTTTCGAAATCGCAACACGAATTTTAATTTCGCAACTCG
*
148885 ATTTTCGAATTCGCAACACGAATTTTAATTTCGCAAC
1 ATTTTCGAAATCGCAACACGAATTTTAATTTCGCAAC
148922 AGTTTTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (40 bp):
ATTTTCGAAATCGCAACACGAATTTTAATTTCGCAACTCG
Found at i:148917 original size:20 final size:19
Alignment explanation
Indices: 148734--148922 Score: 75
Period size: 20 Copynumber: 9.4 Consensus size: 19
148724 AATTTCTTTC
148734 TCGCAACACG-ATTTTCCAAAT
1 TCGCAACACGAATTTT---AAT
*
148755 TCGCAACACAGAATTTCAAT
1 TCGCAACAC-GAATTTTAAT
*
148775 TAGCAACACG-ATTTCTGAAT
1 TCGCAACACGAATTT-T-AAT
* *
148795 TCGCAACGCGAAGTTCTT-TT
1 TCGCAACACGAA-TT-TTAAT
*
148815 TCGCAACAC-AAGTTTCCT-TT
1 TCGCAACACGAA-TTT--TAAT
** * *
148835 TCGCAACAATATTTTCTAAA
1 TCGCAACACGAATTT-TAAT
* **
148855 TCGTAACACGAATTTTTTTT
1 TCGCAACACGAA-TTTTAAT
*
148875 TCGCAACTCG-ATTTTCGAAT
1 TCGCAACACGAATTTT--AAT
148895 TCGCAACACGAATTTTAATT
1 TCGCAACACGAATTTTAA-T
148915 TCGCAACA
1 TCGCAACA
148923 GTTTTTATTT
Statistics
Matches: 129, Mismatches: 23, Indels: 33
0.70 0.12 0.18
Matches are distributed among these distances:
18 9 0.07
19 11 0.09
20 81 0.63
21 19 0.15
22 4 0.03
23 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (19 bp):
TCGCAACACGAATTTTAAT
Found at i:152575 original size:29 final size:29
Alignment explanation
Indices: 152533--152592 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
152523 CGTTGCGATT
* *
152533 TTCGCATTGCGATTGTTGCAAAAGTTAAA
1 TTCGCATTGCGATTGTTACAAAAGATAAA
* *
152562 TTCGCGTTGCGATTGTTACGAAAGATAAA
1 TTCGCATTGCGATTGTTACAAAAGATAAA
152591 TT
1 TT
152593 TGCAACGCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (29 bp):
TTCGCATTGCGATTGTTACAAAAGATAAA
Found at i:152630 original size:20 final size:20
Alignment explanation
Indices: 152607--152647 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
152597 ACGCGAAAGC
* *
152607 CAAATTCGCAATGCAAAAAT
1 CAAATCCGCAACGCAAAAAT
152627 CAAATCCGCAACGCAAAAAT
1 CAAATCCGCAACGCAAAAAT
152647 C
1 C
152648 GCAACGCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.27, G:0.10, T:0.15
Consensus pattern (20 bp):
CAAATCCGCAACGCAAAAAT
Found at i:152728 original size:20 final size:20
Alignment explanation
Indices: 152705--152743 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
152695 TCGCAACGCG
152705 AATTTGACTTTCGCGTTGAA
1 AATTTGACTTTCGCGTTGAA
* *
152725 AATTTGATTTTTGCGTTGA
1 AATTTGACTTTCGCGTTGA
152744 GAAAGTGTAC
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:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGAA
Found at i:154242 original size:21 final size:21
Alignment explanation
Indices: 154211--154331 Score: 163
Period size: 21 Copynumber: 5.8 Consensus size: 21
154201 CATGTGAATC
*
154211 GGGCC-CTTGAACGGTGGGAG
1 GGGCCTCTTGAACGATGGGAG
* * *
154231 GGACCTCTTGAACAATGAGAG
1 GGGCCTCTTGAACGATGGGAG
*
154252 GGGCCTCTTGAATGATGGGAG
1 GGGCCTCTTGAACGATGGGAG
*
154273 GGGCCTCTTGAACGATGAGAG
1 GGGCCTCTTGAACGATGGGAG
* *
154294 AGGCCTCTTGAACGATAGGAG
1 GGGCCTCTTGAACGATGGGAG
154315 GGGCCTCTTGAACGATG
1 GGGCCTCTTGAACGATG
154332 AAAGGTGAAT
Statistics
Matches: 85, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
20 4 0.05
21 81 0.95
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.20
Consensus pattern (21 bp):
GGGCCTCTTGAACGATGGGAG
Found at i:154271 original size:42 final size:42
Alignment explanation
Indices: 154211--154332 Score: 183
Period size: 42 Copynumber: 2.9 Consensus size: 42
154201 CATGTGAATC
* * *
154211 GGGCC-CTTGAACGGTGGGAGGGACCTCTTGAACAATGAGAG
1 GGGCCTCTTGAACGATGGGAGGGGCCTCTTGAACGATGAGAG
*
154252 GGGCCTCTTGAATGATGGGAGGGGCCTCTTGAACGATGAGAG
1 GGGCCTCTTGAACGATGGGAGGGGCCTCTTGAACGATGAGAG
* *
154294 AGGCCTCTTGAACGATAGGAGGGGCCTCTTGAACGATGA
1 GGGCCTCTTGAACGATGGGAGGGGCCTCTTGAACGATGA
154333 AAGGTGAATC
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 5 0.07
42 68 0.93
ACGTcount: A:0.24, C:0.19, G:0.38, T:0.20
Consensus pattern (42 bp):
GGGCCTCTTGAACGATGGGAGGGGCCTCTTGAACGATGAGAG
Found at i:154768 original size:21 final size:21
Alignment explanation
Indices: 154744--154789 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
154734 TTGTCGTCAT
*
154744 GTAAAGTACCGACCTCATCAC
1 GTAAAGCACCGACCTCATCAC
*
154765 GTAAAGCACTGACCTCATCAC
1 GTAAAGCACCGACCTCATCAC
154786 GTAA
1 GTAA
154790 CTCCCCTAAC
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:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (21 bp):
GTAAAGCACCGACCTCATCAC
Found at i:156478 original size:20 final size:20
Alignment explanation
Indices: 156455--156506 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
156445 AAACTTAAAT
156455 TCGCAACGCGAAAAAGAAAA
1 TCGCAACGCGAAAAAGAAAA
** *
156475 TCGCAACGCTTAAATGAAAA
1 TCGCAACGCGAAAAAGAAAA
*
156495 TCACAACGCGAA
1 TCGCAACGCGAA
156507 TTTCATTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAAAAGAAAA
Found at i:157117 original size:20 final size:21
Alignment explanation
Indices: 157073--157118 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
157063 ACGCGCTTTG
157073 CGAATTTGACTTCTGTGTTGT
1 CGAATTTGACTTCTGTGTTGT
*
157094 -GAATTTGACTTTTGTGTT-T
1 CGAATTTGACTTCTGTGTTGT
157113 CGAATT
1 CGAATT
157119 ACAAATTCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.17, C:0.11, G:0.22, T:0.50
Consensus pattern (21 bp):
CGAATTTGACTTCTGTGTTGT
Found at i:157721 original size:24 final size:21
Alignment explanation
Indices: 157693--157739 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
157683 TTTAAATATC
157693 AATTTTTAAATGAAATAATATAAT
1 AATTTTTAAA-G-AA-AATATAAT
*
157717 AATTTTTTAAGAAAATATAAT
1 AATTTTTAAAGAAAATATAAT
157738 AA
1 AA
157740 AATATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 1 0.05
24 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
AATTTTTAAAGAAAATATAAT
Found at i:157751 original size:14 final size:15
Alignment explanation
Indices: 157732--157765 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
157722 TTTAAGAAAA
157732 TATAATAA-AATATT
1 TATAATAATAATATT
157746 TATAATAATAATATT
1 TATAATAATAATATT
157761 T-TAAT
1 TATAAT
157766 CTTTAAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATAATAATATT
Found at i:160183 original size:91 final size:91
Alignment explanation
Indices: 160008--160274 Score: 387
Period size: 91 Copynumber: 2.9 Consensus size: 91
159998 TGTTATTTGA
160008 TTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCTCTTG-TGGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTTGTTGGATGAGTTCTTCTCATTATGAA
* * *
160071 CTCTT-CACTGGAAATACTGATGCAAGG
65 CT-TTCCATTAGAAACACTGATGCAAGG
*
160098 TTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTGTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATGAGTTCTTCTCATTATGAAC
***
160163 TTTCCATTAGAAACACTGATGTGCGG
66 TTTCCATTAGAAACACTGATGCAAGG
* * *
160189 TTGAACAATTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT-TGTTGGATGAGTTCTTCTCATTATGAA
*
160254 CTCTCCATTAGAAACACTGAT
65 CTTTCCATTAGAAACACTGAT
160275 ACATCTCCTT
Statistics
Matches: 161, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
90 37 0.23
91 78 0.48
92 46 0.29
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (91 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATGAGTTCTTCTCATTATGAAC
TTTCCATTAGAAACACTGATGCAAGG
Found at i:160546 original size:136 final size:132
Alignment explanation
Indices: 160303--160647 Score: 410
Period size: 136 Copynumber: 2.6 Consensus size: 132
160293 GACTTGAAAG
* * **
160303 GAACAAGTTCTTATCATTATGAAC-TTTCTCCTT-TAAGATGAGTTCTTCTCATTATGAA-CTCT
1 GAACAAGCTCTTCTCATTATGAACTTTTCTCCTTGTCGGATGAGTTCTTCTCATTATGAACCTCT
* * * * * * *
160365 TCTAGAAATGTTAATCCATCCAGCGGGGTATCACTGATTCGAAATA-CTGTGAATCGAGTGATAG
66 TTTGGAAATGTCAAGCCATCAAGCGAGGTATCACTGACTCGAAATATC-GTGAATCGAGTGATAG
160429 GTC
130 GTC
160432 GAACAAGCTCTTCTCATTATGAACTTCTTCTCTCTCTGTCGGATGAGTTCTTCTCATTATGAACC
1 GAACAAGCTCTTCTCATTATGAACTT-TTCTC-CT-TGTCGGATGAGTTCTTCTCATTATGAA-C
* * *
160497 CTCTTTTGGAAATGTCAAGCCCTCAAGCGAGGTGTCACTGACTCTAAATATCGTGAATCGAGTGA
62 CTCTTTTGGAAATGTCAAGCCATCAAGCGAGGTATCACTGACTCGAAATATCGTGAATCGAGTGA
*
160562 TGGGTC
127 TAGGTC
* *
160568 GAACAAACTCTTCTCATTATGAACTTTTTCTCCCTTTGTCGGATGAGTTCTTGTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAAC-TTTTCT-CC-TTGTCGGATGAGTTCTTCTCATTATGAAC-
**
160633 CTCCATTGGAAATGT
62 CTCTTTTGGAAATGT
160648 TGGTTCACCT
Statistics
Matches: 185, Mismatches: 19, Indels: 17
0.84 0.09 0.08
Matches are distributed among these distances:
129 22 0.12
130 1 0.01
131 5 0.03
132 2 0.01
133 1 0.01
134 23 0.12
135 1 0.01
136 125 0.68
137 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (132 bp):
GAACAAGCTCTTCTCATTATGAACTTTTCTCCTTGTCGGATGAGTTCTTCTCATTATGAACCTCT
TTTGGAAATGTCAAGCCATCAAGCGAGGTATCACTGACTCGAAATATCGTGAATCGAGTGATAGG
TC
Found at i:161538 original size:9 final size:9
Alignment explanation
Indices: 161524--161570 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
161514 TCTCTCTTTA
161524 TTTTTTCAT
1 TTTTTTCAT
161533 TTTTTTCA-
1 TTTTTTCAT
161541 TTTTTTCAT
1 TTTTTTCAT
*
161550 TTTTCATC-T
1 TTTT-TTCAT
161559 TTTTTTC-T
1 TTTTTTCAT
161567 TTTT
1 TTTT
161571 CCTTCAAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 15 0.44
9 17 0.50
10 2 0.06
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:161561 original size:17 final size:17
Alignment explanation
Indices: 161523--161570 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
161513 TTCTCTCTTT
*
161523 ATTTTTTCATTTTTTTC
1 ATTTTTTCATTTTTATC
161540 ATTTTTTCATTTTTCATC
1 ATTTTTTCATTTTT-ATC
*
161558 TTTTTTTC-TTTTT
1 ATTTTTTCATTTTT
161571 CCTTCAAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTTCATTTTTATC
Found at i:172108 original size:22 final size:21
Alignment explanation
Indices: 172082--172138 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
172072 GACCGATCTG
*
172082 AAAACAAAAATCAAATGTTAGT
1 AAAACAAAAATCAAATG-AAGT
* *
172104 AAAACAATAATAAAATGAAGT
1 AAAACAAAAATCAAATGAAGT
172125 ACAAA-AAAAATCAA
1 A-AAACAAAAATCAA
172139 TAAAAGGATC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.18
Consensus pattern (21 bp):
AAAACAAAAATCAAATGAAGT
Found at i:172844 original size:14 final size:15
Alignment explanation
Indices: 172825--172858 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
172815 TTTAAGAAAA
172825 TATAATAA-AATATT
1 TATAATAATAATATT
172839 TATAATAATAATATT
1 TATAATAATAATATT
172854 T-TAAT
1 TATAAT
172859 CCTTATAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATAATAATATT
Found at i:172851 original size:25 final size:23
Alignment explanation
Indices: 172798--172852 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
172788 TTTTGCATGA
*
172798 AATAATATAATAAATTTTTTAAG
1 AATAATATAATAAATTTTATAAG
*
172821 AA-AATATAATAAAATATTTATAAT
1 AATAATATAAT-AAAT-TTTATAAG
172845 AATAATAT
1 AATAATAT
172853 TTTAATCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.30
23 6 0.22
24 8 0.30
25 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
AATAATATAATAAATTTTATAAG
Found at i:173530 original size:2 final size:2
Alignment explanation
Indices: 173523--173566 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
173513 TTTAAATGTT
173523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
173564 TA T
1 TA T
173567 GAACATGACT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:174868 original size:24 final size:24
Alignment explanation
Indices: 174835--174896 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
174825 ATGTAATATT
*
174835 ATTATTAATACTAATAA-CAACAATA
1 ATTA-TAATAATAATAATCAA-AATA
*
174860 CTTATAATAATAATAATCAAAATA
1 ATTATAATAATAATAATCAAAATA
174884 ATTATAATAATAA
1 ATTATAATAATAA
174897 ATATAATGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (24 bp):
ATTATAATAATAATAATCAAAATA
Found at i:174884 original size:18 final size:18
Alignment explanation
Indices: 174862--174903 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
174852 CAACAATACT
174862 TATAATAATAATAATCAAA
1 TATAATAATAATAAT-AAA
*
174881 -ATAATTATAATAATAAA
1 TATAATAATAATAATAAA
174898 TATAAT
1 TATAAT
174904 GTTTTTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAATAATAATAATAAA
Found at i:175821 original size:60 final size:60
Alignment explanation
Indices: 175728--175847 Score: 179
Period size: 60 Copynumber: 2.0 Consensus size: 60
175718 ATTAGATATC
* * *
175728 TATTTTGAAAGTATGTTTTAAAATTAAAAAATATATCAGTCAAAATGGATGGCTTATAAA
1 TATTTTGAAAGTATGTTTTAAAATTAAAAAATATATCAGTCAAAATAGATGACTAATAAA
**
175788 TATTTTGACAAGTATGTTTT-AAATTTTAAAATATATCAGTCAAAATAGATGACTAATAAA
1 TATTTTGA-AAGTATGTTTTAAAATTAAAAAATATATCAGTCAAAATAGATGACTAATAAA
175848 GAAGTATAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 43 0.80
61 11 0.20
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.38
Consensus pattern (60 bp):
TATTTTGAAAGTATGTTTTAAAATTAAAAAATATATCAGTCAAAATAGATGACTAATAAA
Found at i:178168 original size:43 final size:43
Alignment explanation
Indices: 178106--178201 Score: 158
Period size: 43 Copynumber: 2.3 Consensus size: 43
178096 TTTACTTCAA
* *
178106 TAGTGAC-AAAAATTATTATCGTCACAAATTACCAACTAAGAC
1 TAGTGACAAAAAATAATTATCGTCACAAATCACCAACTAAGAC
178148 TAGTGACAAAAAATAATTATCGTCACAAATCACCAACTAAGAC
1 TAGTGACAAAAAATAATTATCGTCACAAATCACCAACTAAGAC
*
178191 TAGTGGCAAAA
1 TAGTGACAAAA
178202 TGTTTTCATC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
42 7 0.14
43 43 0.86
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (43 bp):
TAGTGACAAAAAATAATTATCGTCACAAATCACCAACTAAGAC
Found at i:181643 original size:15 final size:17
Alignment explanation
Indices: 181618--181658 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
181608 ACCGTATCCG
181618 ATCCGAAAAAA-TCGGAT
1 ATCC-AAAAAATTCGGAT
*
181635 AT-CAAAAAATTTGGAT
1 ATCCAAAAAATTCGGAT
181651 ATCCAAAA
1 ATCCAAAA
181659 TTTCAGATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 8 0.38
17 7 0.33
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (17 bp):
ATCCAAAAAATTCGGAT
Found at i:184024 original size:33 final size:35
Alignment explanation
Indices: 183960--184057 Score: 164
Period size: 33 Copynumber: 2.8 Consensus size: 35
183950 TCTACCAAAC
*
183960 TTACCAAACTTTGAAAAACATTTTTCAAAGAAACAT
1 TTACCAAACTTTGAAAACCA-TTTTCAAAGAAACAT
183996 TTACCAAACTTTG-AAACCA-TTTCAAAGAAACAT
1 TTACCAAACTTTGAAAACCATTTTCAAAGAAACAT
184029 TTACCAAACTTTGAAAACCATTTTCAAAG
1 TTACCAAACTTTGAAAACCATTTTCAAAG
184058 TTGGTTGCCA
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
33 27 0.46
34 6 0.10
35 13 0.22
36 13 0.22
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (35 bp):
TTACCAAACTTTGAAAACCATTTTCAAAGAAACAT
Found at i:189315 original size:21 final size:20
Alignment explanation
Indices: 189288--189351 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
189278 TTTTTTAAAG
189288 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
189308 AAATCATTT-TCAAA----G-
1 AAA-CATTTACCAAACTTTGA
189323 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
189343 AAACCATTT
1 AAA-CATTT
189352 TCAAAGTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 1 0.03
19 1 0.03
20 10 0.29
21 10 0.29
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:189330 original size:35 final size:35
Alignment explanation
Indices: 189242--189357 Score: 162
Period size: 35 Copynumber: 3.3 Consensus size: 35
189232 ACCCATTCCT
* *
189242 ATTTTC-AACAAACATCTACCAAACTTTGAAAAAAC
1 ATTTTCAAAGAAACATTTACCAAACTTTG-AAAAAC
* *
189277 ATTTTTTAAAGAAACATTTACCAAACTTTGAAAATC
1 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
*
189313 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
189348 ATTTTCAAAG
1 ATTTTCAAAG
189358 TTAGTTGCCA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 43 0.59
36 10 0.14
37 20 0.27
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (35 bp):
ATTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
Found at i:191985 original size:13 final size:13
Alignment explanation
Indices: 191951--191994 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
191941 TATAGTTATC
*
191951 TTTTAATATACTAA
1 TTTTAATATA-TTA
*
191965 TATTAATATATTA
1 TTTTAATATATTA
*
191978 TTTTAATATTTTA
1 TTTTAATATATTA
191991 TTTT
1 TTTT
191995 GAAAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTAATATATTA
Found at i:192932 original size:22 final size:22
Alignment explanation
Indices: 192896--192937 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
192886 TATTTCAGAT
*
192896 AATTTAAAGTTTGTTGCGGTGC
1 AATTTAAAGTGTGTTGCGGTGC
*
192918 AATTTATAGTGTGTTGCGGT
1 AATTTAAAGTGTGTTGCGGT
192938 ATTACGAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (22 bp):
AATTTAAAGTGTGTTGCGGTGC
Found at i:195830 original size:24 final size:24
Alignment explanation
Indices: 195803--195909 Score: 133
Period size: 24 Copynumber: 4.5 Consensus size: 24
195793 ATTGGCGAAC
*
195803 GAGATCTACGATGCATAGGTGATG
1 GAGATCTACGACGCATAGGTGATG
*
195827 GAGATCTAGGACGCATAGGTGATG
1 GAGATCTACGACGCATAGGTGATG
* *
195851 GAGATCTATGACGCATAGGTGAAG
1 GAGATCTACGACGCATAGGTGATG
* * * *
195875 GAGATTTATGACACATAGGTGATA
1 GAGATCTACGACGCATAGGTGATG
*
195899 GACATCTACGA
1 GAGATCTACGA
195910 TATCGAACAG
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (24 bp):
GAGATCTACGACGCATAGGTGATG
Found at i:198254 original size:2 final size:2
Alignment explanation
Indices: 198247--198282 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
198237 TTTGTAGTGT
198247 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
198283 ATTTAAAATT
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):
TA
Found at i:199102 original size:20 final size:20
Alignment explanation
Indices: 199077--199171 Score: 59
Period size: 21 Copynumber: 4.7 Consensus size: 20
199067 GAGAAATAAA
199077 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATCTCCAG
** *
199097 AATCGCAAATCAGTTC-CCAG
1 AATCGCAACGC-GATCTCCAG
* * *
199117 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGAT-CTCCAG
** *
199137 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGA-TCTCCAG
199159 AATCGCAACGCGA
1 AATCGCAACGCGA
199172 ACATATAAAT
Statistics
Matches: 56, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
19 2 0.04
20 24 0.43
21 27 0.48
22 3 0.05
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGATCTCCAG
Found at i:199244 original size:20 final size:20
Alignment explanation
Indices: 199200--199410 Score: 233
Period size: 20 Copynumber: 10.4 Consensus size: 20
199190 GATTCTAACT
199200 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
199221 ATCGCAACGTGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
199241 ATCGCAACGAAAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
199262 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* * *
199282 ATCGCAAAGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* *
199302 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGTATCCGTAA
* *
199322 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* *
199342 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
199362 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
199383 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
199403 ATCGCAAC
1 ATCGCAAC
199411 ACGATTTTTA
Statistics
Matches: 153, Mismatches: 35, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
20 104 0.68
21 49 0.32
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
ATCGCAACGAGTATCCGTAA
Found at i:199315 original size:40 final size:41
Alignment explanation
Indices: 199200--199410 Score: 336
Period size: 41 Copynumber: 5.2 Consensus size: 41
199190 GATTCTAACT
* * *
199200 ATCGCAACGAGTATCCGTAAAATCGCAACGTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
199241 ATCGCAACGAAAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
199282 ATCGCAAAGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
199322 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
199362 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
199403 ATCGCAAC
1 ATCGCAAC
199411 ACGATTTTTA
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 75 0.48
41 82 0.52
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:199685 original size:27 final size:27
Alignment explanation
Indices: 199628--199685 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
199618 CATCTCCGGC
***
199628 GAAATCCCTCACAACCATTCACTGTTA
1 GAAATCCCTCACAACCATTCACAAATA
* * *
199655 GAAATCCCTCACAATCATTCAGAAATG
1 GAAATCCCTCACAACCATTCACAAATA
199682 GAAA
1 GAAA
199686 ATCAACCTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (27 bp):
GAAATCCCTCACAACCATTCACAAATA
Found at i:200032 original size:21 final size:21
Alignment explanation
Indices: 199971--200049 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
199961 TTCTAAACTT
199971 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
199991 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
200011 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
200032 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
200050 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:200053 original size:14 final size:14
Alignment explanation
Indices: 200031--200095 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
200021 CGAGAGAAAT
200031 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
200045 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
200063 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
200078 GATAATCGCAACGC
1 GAAAATCGCAACGA
200092 GAAA
1 GAAA
200096 CCAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:200067 original size:33 final size:33
Alignment explanation
Indices: 200026--200106 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
200016 CGCAACGAGA
200026 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
200059 GAAATGAAAATCGCAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
200092 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
200107 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:200124 original size:19 final size:19
Alignment explanation
Indices: 200102--200233 Score: 112
Period size: 19 Copynumber: 7.1 Consensus size: 19
200092 GAAACCAAAA
*
200102 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
200121 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
* *
200140 TCGTGTTGCGATTCTC--T
1 TCGCGTTGCGATTTTCATT
200157 T---GTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
200173 TCGTGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
200192 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
* *
200212 CTCTCGTTGTGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
200232 TC
1 TC
200234 AACCAAAAGA
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
14 11 0.12
16 2 0.02
17 2 0.02
19 46 0.49
20 31 0.33
21 1 0.01
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:200202 original size:20 final size:19
Alignment explanation
Indices: 200158--200211 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
200148 CGATTCTCTT
** *
200158 GTTGCGATTTTCATTTCGT
1 GTTGCGATAGTCATTTCGC
200177 GTTGCGATAGTCATTTCCGC
1 GTTGCGATAGTCATTT-CGC
200197 GTTGCGATAGTCATT
1 GTTGCGATAGTCATT
200212 CTCTCGTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.43
Consensus pattern (19 bp):
GTTGCGATAGTCATTTCGC
Done.