Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 32
Found at i:634716 original size:43 final size:42
Alignment explanation
Indices: 634609--634717 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
634599 TTTCACCTCG
634609 CTTAAACCCGA-GAA-AGAGAGTCATCCGAAGAACACTTCACGA
1 CTTAAACCC-ACGAAGAG-GAGTCATCCGAAGAACACTTCACGA
* * * *
634651 TTTAAACCCATGAAGGGGAGTCATCCGAAGAACATTTCACCTGA
1 CTTAAACCCACGAAGAGGAGTCATCCGAAGAACACTTCA-C-GA
*
634695 CTT-AACCCACGAATAGGAGTCAT
1 CTTAAACCCACGAAGAGGAGTCAT
634718 TAAAAGAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 32 0.57
43 19 0.34
44 4 0.07
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (42 bp):
CTTAAACCCACGAAGAGGAGTCATCCGAAGAACACTTCACGA
Found at i:634785 original size:43 final size:43
Alignment explanation
Indices: 634662--634820 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
634652 TTAAACCCAT
* * **
634662 GAAGGGGAGTCATCCGAAGAACATTTCACCTGACTTAACCCAC
1 GAAGGGGAGTCATTCGAAGAACATTTCACATGACTTAACCTTC
** ** * * ** *
634705 GAATAGGAGTCATTAAAAGAATATTTTATTTGGCTTAACCTTC
1 GAAGGGGAGTCATTCGAAGAACATTTCACATGACTTAACCTTC
* * *
634748 GAAGGGGAGTCATTCGAAGAATATTTCACATGTCTTAAATCTGT-
1 GAAGGGGAGTCATTCGAAGAACATTTCACATGACTT-AACCT-TC
*
634792 GAAGGGGAATCA-TCTGAAGAACATTTCAC
1 GAAGGGGAGTCATTC-GAAGAACATTTCAC
634821 CTGGCTCAAT
Statistics
Matches: 90, Mismatches: 23, Indels: 5
0.76 0.19 0.04
Matches are distributed among these distances:
43 61 0.68
44 28 0.31
45 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (43 bp):
GAAGGGGAGTCATTCGAAGAACATTTCACATGACTTAACCTTC
Found at i:634840 original size:44 final size:44
Alignment explanation
Indices: 634747--634842 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
634737 GCTTAACCTT
* * *
634747 CGAAGGGGAGTCATTCGAAGAATATTTCACATGTCTTAAATCTG
1 CGAAGGGGAATCATTCGAAGAACATTTCACATGGCTTAAATCTG
* * *
634791 TGAAGGGGAATCA-TCTGAAGAACATTTCACCTGGC-TCAATCCTG
1 CGAAGGGGAATCATTC-GAAGAACATTTCACATGGCTTAAAT-CTG
634835 CGAAGGGG
1 CGAAGGGG
634843 TCACCCAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
43 6 0.14
44 37 0.86
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (44 bp):
CGAAGGGGAATCATTCGAAGAACATTTCACATGGCTTAAATCTG
Found at i:635063 original size:74 final size:74
Alignment explanation
Indices: 635002--635145 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 74
634992 TTTAAATTGT
* * *
635002 AAAGGAGAGTCGTCTCACTTGACTTGGACACACTAAGGGGAGTCATCCAAAGAATCAAGACTGAC
1 AAAGGAGAATCGTCTCACTTGACTTAGACACACAAAGGGGAGTCATCCAAAGAATCAAGACTGAC
635067 TTAAAACGC
66 TTAAAACGC
* * * * * *
635076 AAAGGGGAATTGTCTCACTTGACTTAGACCCCCAAAGGGGGGTCATCCAAAGAATCAAGACTAAC
1 AAAGGAGAATCGTCTCACTTGACTTAGACACACAAAGGGGAGTCATCCAAAGAATCAAGACTGAC
635141 TTAAA
66 TTAAA
635146 CCGTGAAGCG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (74 bp):
AAAGGAGAATCGTCTCACTTGACTTAGACACACAAAGGGGAGTCATCCAAAGAATCAAGACTGAC
TTAAAACGC
Found at i:635172 original size:74 final size:74
Alignment explanation
Indices: 635011--635181 Score: 189
Period size: 74 Copynumber: 2.3 Consensus size: 74
635001 TAAAGGAGAG
* * * * * *
635011 TCGTCTCACTTGACTTGGACACACTAAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAAACGC
1 TCGTATCACTTGACTTAGACCCCCAAAGGGGAGTCATCCAAAGAATCAAGACTAACTTAAAACGC
*
635076 AAAGGGGAA
66 AAAGCGGAA
* * * * *
635085 TTGTCTCACTTGACTTAGACCCCCAAAGGGGGGTCATCCAAAGAATCAAGACTAACTTAAACCGT
1 TCGTATCACTTGACTTAGACCCCCAAAGGGGAGTCATCCAAAGAATCAAGACTAACTTAAAACGC
* *
635150 GAAGCGGAG
66 AAAGCGGAA
***
635159 TCGTATTGTTTGACTTAGACCCC
1 TCGTATCACTTGACTTAGACCCC
635182 TGAAGGAAAG
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
74 80 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (74 bp):
TCGTATCACTTGACTTAGACCCCCAAAGGGGAGTCATCCAAAGAATCAAGACTAACTTAAAACGC
AAAGCGGAA
Found at i:637628 original size:21 final size:20
Alignment explanation
Indices: 637601--637699 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
637591 AATCAGTTTC
637601 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
637622 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
637643 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
637663 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
637684 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
637700 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 15 0.25
21 44 0.75
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:637761 original size:20 final size:20
Alignment explanation
Indices: 637667--637772 Score: 133
Period size: 20 Copynumber: 5.3 Consensus size: 20
637657 GATTTTCCAG
* ** *
637667 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
637687 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
637707 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
637727 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
637747 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
637767 AATCGC
1 AATCGC
637773 TGCAAAATGA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.01
20 72 0.96
21 2 0.03
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:638056 original size:14 final size:14
Alignment explanation
Indices: 638037--638072 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
638027 ATTGTTTAAT
638037 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
638051 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
638065 TGATTTGT
1 TGATTTGT
638073 GTAATTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:638215 original size:19 final size:19
Alignment explanation
Indices: 638179--638277 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
638169 AAAAATGACT
638179 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
*
638199 ATCGCAATGCTAAATGAAA
1 ATCGCAATGCGAAATGAAA
638218 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
638232 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
638251 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
638271 ATCGCAA
1 ATCGCAA
638278 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 11 0.15
15 1 0.01
16 2 0.03
17 1 0.01
18 1 0.01
19 29 0.41
20 26 0.37
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:638237 original size:33 final size:33
Alignment explanation
Indices: 638195--638257 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
638185 ATGCGGAAAT
*
638195 GAAAATCGCAATGCTAAATGAAAATCGCAACGA
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGA
638228 GAAAATCGCAATGCGAAATGAAAATCGCAA
1 GAAAATCGCAATGCGAAATGAAAATCGCAA
638258 TGCGGAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.14
Consensus pattern (33 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAACGA
Found at i:638309 original size:53 final size:53
Alignment explanation
Indices: 638179--638296 Score: 202
Period size: 53 Copynumber: 2.2 Consensus size: 53
638169 AAAAATGACT
*
638179 ATCGCAATGCGGAAATGAAAATCGCAATGC-TAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGC-GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAA
*
638232 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAA
638285 ATCGCAATGCGA
1 ATCGCAATGCGA
638297 TTTTCATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 19 0.31
53 43 0.69
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAA
Found at i:638355 original size:53 final size:52
Alignment explanation
Indices: 638292--638509 Score: 311
Period size: 53 Copynumber: 4.1 Consensus size: 52
638282 AGAATCGCAA
638292 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
638345 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
638398 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
*
638456 TGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
638503 TGCGATT
1 TGCGATT
638510 GTAATTTCCG
Statistics
Matches: 156, Mismatches: 3, Indels: 18
0.88 0.02 0.10
Matches are distributed among these distances:
47 8 0.05
49 2 0.01
50 2 0.01
51 3 0.02
52 10 0.06
53 110 0.71
54 3 0.02
55 3 0.02
56 3 0.02
58 12 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:638373 original size:72 final size:71
Alignment explanation
Indices: 638286--638495 Score: 264
Period size: 72 Copynumber: 2.9 Consensus size: 71
638276 AACGAGAGAA
* * *
638286 TCGCAATGCGATTTTCATTT-CGCATTGCGATTTTCATTTCCGCA-TTGCGATTCTCTCGTTGCG
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCCG-ATTTGC-ATT-TCGCATTGCG
638349 ATTTTCATT
63 ATTTTCATT
* * *
638358 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCATTGCGA
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATT-T-TCATTTCCGATTTGCATTTCGCATTGCGA
638422 TTTTCATT
64 TTTTCATT
** *
638430 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-TTCCGATTTGCATTTCGCATTGCGAT
638495 T
65 T
638496 CTCTCGTTGC
Statistics
Matches: 124, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
70 2 0.02
71 1 0.01
72 95 0.77
73 16 0.13
74 8 0.06
75 2 0.02
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (71 bp):
TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCCGATTTGCATTTCGCATTGCGATT
TTCATT
Found at i:638517 original size:33 final size:33
Alignment explanation
Indices: 638363--638509 Score: 188
Period size: 33 Copynumber: 4.2 Consensus size: 33
638353 TCATTTCGCA
638363 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
638397 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
638433 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
638469 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
638502 TTGCGATT
1 TTGCGATT
638510 GTAATTTCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 32 0.32
34 29 0.29
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.15
39 10 0.10
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:639621 original size:20 final size:20
Alignment explanation
Indices: 639593--639821 Score: 244
Period size: 20 Copynumber: 11.4 Consensus size: 20
639583 AAATTTCAGT
* * *
639593 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
639613 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
639633 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
639653 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
639673 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
639693 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
639713 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
639733 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
639753 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
639773 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
639793 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
639813 GTTGCGATT
1 GTTGCGATT
639822 CTGGAAAATC
Statistics
Matches: 183, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 182 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:644253 original size:28 final size:29
Alignment explanation
Indices: 644188--644259 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
644178 ATCAACCATT
644188 TTACAAAAATAGCACCCTTTTAAAAATAA
1 TTACAAAAATAGCACCCTTTTAAAAATAA
* *
644217 TTACGAAAATAGCACCCTTTT-AGAATAA
1 TTACAAAAATAGCACCCTTTTAAAAATAA
*
644245 TTACTAAAATAGCAC
1 TTACAAAAATAGCAC
644260 TCGGTCAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 20 0.50
29 20 0.50
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.28
Consensus pattern (29 bp):
TTACAAAAATAGCACCCTTTTAAAAATAA
Found at i:650653 original size:24 final size:24
Alignment explanation
Indices: 650581--650653 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
650571 AAACATAATT
* *
650581 CAGGTCAAGTAGCATATCAGAATC
1 CAGGTCAAGTATCATATCAAAATC
* * * *
650605 AATGTCATGTATCATATAAAAATC
1 CAGGTCAAGTATCATATCAAAATC
650629 CAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
650653 C
1 C
650654 TGTCAAAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAAAATC
Found at i:650665 original size:23 final size:24
Alignment explanation
Indices: 650615--650671 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
650605 AATGTCATGT
**
650615 ATCATATAAAAATCCAGGTCAAGT
1 ATCATATAAAAATCCAGGTCAAAA
* *
650639 ATCATATCAAAATCC-TGTCAAAA
1 ATCATATAAAAATCCAGGTCAAAA
*
650662 ATCAAATAAA
1 ATCATATAAA
650672 CTATCCATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.25
Consensus pattern (24 bp):
ATCATATAAAAATCCAGGTCAAAA
Found at i:650678 original size:48 final size:48
Alignment explanation
Indices: 650581--650671 Score: 112
Period size: 48 Copynumber: 1.9 Consensus size: 48
650571 AAACATAATT
* *** *
650581 CAGGTCAAGTAGCATATCAGAATCAATGTCATGTATCATATAAAAATC
1 CAGGTCAAGTAGCATATCAAAATCAATGTCAAAAATCAAATAAAAATC
* *
650629 CAGGTCAAGTATCATATCAAAATC-CTGTCAAAAATCAAATAAA
1 CAGGTCAAGTAGCATATCAAAATCAATGTCAAAAATCAAATAAA
650672 CTATCCATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 14 0.39
48 22 0.61
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (48 bp):
CAGGTCAAGTAGCATATCAAAATCAATGTCAAAAATCAAATAAAAATC
Found at i:651423 original size:29 final size:29
Alignment explanation
Indices: 651364--651466 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
651354 ATCAACCATT
*
651364 TTACGAAAATAGGACCC-TTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
651392 TTACGAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
* *
651421 TTATGAAAATAGCACCCTTTTAGAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
* *
651450 TTACTAAAATAGTACCC
1 TTACGAAAATAGCACCC
651467 GATCAACGGT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 16 0.24
29 52 0.76
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.28
Consensus pattern (29 bp):
TTACGAAAATAGCACCCTTTTAAAAATAA
Found at i:653399 original size:22 final size:22
Alignment explanation
Indices: 653371--653416 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
653361 CTCCTCCATC
* *
653371 GGTTGAGAATGTGGTTTGCATG
1 GGTTGAGAATGGGGTTCGCATG
653393 GGTTGAGAATGGGGTTCGCATG
1 GGTTGAGAATGGGGTTCGCATG
653415 GG
1 GG
653417 CCAGTATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.07, G:0.46, T:0.30
Consensus pattern (22 bp):
GGTTGAGAATGGGGTTCGCATG
Found at i:660717 original size:216 final size:218
Alignment explanation
Indices: 660343--660779 Score: 860
Period size: 216 Copynumber: 2.0 Consensus size: 218
660333 AAGATCTCTG
660343 AAATCTGATGGCTGATGTTAACTCACTGAGATATTTCTTTGTATAGGTTTCTGAGAATTTTGCAG
1 AAATCTGATGGCTGATGTTAACTCACTGAGATATTTCTTTGTATAGGTTTCTGAGAATTTTGCAG
660408 AGTAAAATAACAGAAAGAAGAAAAAGGGACAGATTTAAAGATAAAAATAGAGATTGAAGGAACCC
66 AGTAAAATAACAGAAAGAAGAAAAAGGGACAGATTTAAAGATAAAAATAGAGATTGAAGGAACCC
660473 CACAGTCCTATTTTCCCCCACCGGGAACCAGATAAAACGTTTTCTAGGCTCAGAAAAG-CAAAAG
131 CACAGTCCTATTTTCCCCCACCGGGAACCAGATAAAACGTTTTCTAGGCTCAGAAAAGCCAAAAG
660537 GAAAACCAAAAG-GAAAGTGAAC
196 GAAAACCAAAAGAGAAAGTGAAC
660559 AAATCTGATGGCTGATGTTAACTCACTGAGATATTTCTTTGTATAGGTTTCTGAGAATTTTGCAG
1 AAATCTGATGGCTGATGTTAACTCACTGAGATATTTCTTTGTATAGGTTTCTGAGAATTTTGCAG
660624 AGTAAAATAACAGAAAGAAGAAAAAGGGACAGATTTAAAGATAAAAATAGAGATTGAAGGAACCC
66 AGTAAAATAACAGAAAGAAGAAAAAGGGACAGATTTAAAGATAAAAATAGAGATTGAAGGAACCC
660689 CACAGTCCTATTTTCCCCCACCGGGAACCAGATAAAACGTTTTCTAGGCTCAGAAAAGCCAAAAG
131 CACAGTCCTATTTTCCCCCACCGGGAACCAGATAAAACGTTTTCTAGGCTCAGAAAAGCCAAAAG
660754 GAAAACCAAAAGAGAAAGTGAAC
196 GAAAACCAAAAGAGAAAGTGAAC
660777 AAA
1 AAA
660780 GAAAATAGAG
Statistics
Matches: 219, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
216 188 0.86
217 18 0.08
218 13 0.06
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (218 bp):
AAATCTGATGGCTGATGTTAACTCACTGAGATATTTCTTTGTATAGGTTTCTGAGAATTTTGCAG
AGTAAAATAACAGAAAGAAGAAAAAGGGACAGATTTAAAGATAAAAATAGAGATTGAAGGAACCC
CACAGTCCTATTTTCCCCCACCGGGAACCAGATAAAACGTTTTCTAGGCTCAGAAAAGCCAAAAG
GAAAACCAAAAGAGAAAGTGAAC
Found at i:663865 original size:58 final size:58
Alignment explanation
Indices: 663791--663907 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
663781 GTTACTGTTG
663791 TTGAAAGTGAAGAAAACGTGATGAGCGTGGAGGTTGAGGTTGAAGTTAATATTCCAGT
1 TTGAAAGTGAAGAAAACGTGATGAGCGTGGAGGTTGAGGTTGAAGTTAATATTCCAGT
663849 TTGAAAGTGAAGAAAACGTGATGAGCGTGGAGGTTGAGGTTGAAGTTAATATTCCAGT
1 TTGAAAGTGAAGAAAACGTGATGAGCGTGGAGGTTGAGGTTGAAGTTAATATTCCAGT
663907 T
1 T
663908 AGAATAGAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.28
Consensus pattern (58 bp):
TTGAAAGTGAAGAAAACGTGATGAGCGTGGAGGTTGAGGTTGAAGTTAATATTCCAGT
Found at i:669811 original size:21 final size:21
Alignment explanation
Indices: 669786--669826 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
669776 ATTTTGTAGT
*
669786 TTTTGAGATATATATATCAAA
1 TTTTGAGACATATATATCAAA
669807 TTTTGAGACATATATATCAA
1 TTTTGAGACATATATATCAA
669827 GTTAAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (21 bp):
TTTTGAGACATATATATCAAA
Found at i:672561 original size:2 final size:2
Alignment explanation
Indices: 672549--672578 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
672539 TAATATAAAA
672549 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
672579 ATCGGGGCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:689972 original size:19 final size:19
Alignment explanation
Indices: 689944--689995 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
689934 TTTAAGGGGG
*
689944 TGCATTGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
689963 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
689982 TGCATCGATGCACT
1 TGCATCGATGCACT
689996 AATTGCATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:691359 original size:20 final size:19
Alignment explanation
Indices: 691334--691373 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
691324 CTCAATCCCT
*
691334 TTCATTTCTTTATTCCATTA
1 TTCATTTATTTATTCC-TTA
691354 TTCATTTATTTATTCCTTA
1 TTCATTTATTTATTCCTTA
691373 T
1 T
691374 ACACAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCATTTATTTATTCCTTA
Found at i:694057 original size:21 final size:21
Alignment explanation
Indices: 694033--694074 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
694023 AGCTCTAGTA
694033 GCATATAACATGAGCATTTTC
1 GCATATAACATGAGCATTTTC
694054 GCATATAACATGAGCATTTTC
1 GCATATAACATGAGCATTTTC
694075 ATTTATATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (21 bp):
GCATATAACATGAGCATTTTC
Found at i:704494 original size:21 final size:21
Alignment explanation
Indices: 704452--704495 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
704442 ACTCCGGGAG
* *
704452 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
704473 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
704494 CT
1 CT
704496 CCTCTGGCAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:705199 original size:16 final size:16
Alignment explanation
Indices: 705178--705233 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
705168 TTAATATGTT
705178 TTAAAGGGGAGAAGTG
1 TTAAAGGGGAGAAGTG
** * *
705194 TTAAAGTGTTAAAATGTT
1 TTAAAG-GGGAGAA-GTG
705212 TTAAAGGGGAGAAGTG
1 TTAAAGGGGAGAAGTG
705228 TTAAAG
1 TTAAAG
705234 TAAGGGGGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
16 14 0.47
17 8 0.27
18 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (16 bp):
TTAAAGGGGAGAAGTG
Found at i:705229 original size:18 final size:18
Alignment explanation
Indices: 705174--705229 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
705164 AGTGTTAATA
705174 TGTTTTAAAGGGGAGAAG
1 TGTTTTAAAGGGGAGAAG
** *
705192 TG--TTAAAGTGTTA-AAA
1 TGTTTTAAAG-GGGAGAAG
705208 TGTTTTAAAGGGGAGAAG
1 TGTTTTAAAGGGGAGAAG
705226 TGTT
1 TGTT
705230 AAAGTAAGGG
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
16 10 0.36
17 4 0.14
18 14 0.50
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (18 bp):
TGTTTTAAAGGGGAGAAG
Found at i:705232 original size:34 final size:34
Alignment explanation
Indices: 705150--705234 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
705140 TAACAAAAAG
*
705150 GGGGAGAAGTGTT-AAGTGTTAATATGTTTTAAA
1 GGGGAGAAGTGTTAAAGTGTTAAAATGTTTTAAA
705183 GGGGAGAAGTGTTAAAGTGTTAAAATGTTTTAAA
1 GGGGAGAAGTGTTAAAGTGTTAAAATGTTTTAAA
705217 GGGGAGAAGTGTTAAAGT
1 GGGGAGAAGTGTTAAAGT
705235 AAGGGGGATG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 13 0.26
34 37 0.74
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.32
Consensus pattern (34 bp):
GGGGAGAAGTGTTAAAGTGTTAAAATGTTTTAAA
Found at i:705891 original size:18 final size:17
Alignment explanation
Indices: 705868--705929 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
705858 ACTGAATATT
705868 TGTCCCGAATGACCACTA
1 TGTCCCGAA-GACCACTA
*
705886 TGTCCCCAAGGACCACTGA
1 TGTCCCGAA-GACCACT-A
*
705905 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAG-ACCACTA
705924 TGTCCC
1 TGTCCC
705930 AAAGGACTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 20 0.56
19 3 0.08
20 13 0.36
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.23
Consensus pattern (17 bp):
TGTCCCGAAGACCACTA
Found at i:709849 original size:102 final size:102
Alignment explanation
Indices: 709673--709877 Score: 401
Period size: 102 Copynumber: 2.0 Consensus size: 102
709663 AACATCATTT
709673 TCTGTAGGAATTAACTCAGCAATGAAGCGGCTCAACTTGTTGAATTCACATTCATACTCACACAC
1 TCTGTAGGAATTAACTCAGCAATGAAGCGGCTCAACTTGTTGAATTCACATTCATACTCACACAC
709738 TGTACGATTACATTGCTTCAAGTTCATGAACTCTTGC
66 TGTACGATTACATTGCTTCAAGTTCATGAACTCTTGC
*
709775 TCTGTAGGAATTAACTCAGCAGTGAAGCGGCTCAACTTGTTGAATTCACATTCATACTCACACAC
1 TCTGTAGGAATTAACTCAGCAATGAAGCGGCTCAACTTGTTGAATTCACATTCATACTCACACAC
709840 TGTACGATTACATTGCTTCAAGTTCATGAACTCTTGC
66 TGTACGATTACATTGCTTCAAGTTCATGAACTCTTGC
709877 T
1 T
709878 TCATTTGTCG
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (102 bp):
TCTGTAGGAATTAACTCAGCAATGAAGCGGCTCAACTTGTTGAATTCACATTCATACTCACACAC
TGTACGATTACATTGCTTCAAGTTCATGAACTCTTGC
Found at i:711175 original size:18 final size:18
Alignment explanation
Indices: 711152--711224 Score: 85
Period size: 18 Copynumber: 3.9 Consensus size: 18
711142 ACTGAATATT
711152 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
*
711170 TGTCCCGAAGGACCACTGA
1 TGTCCCGAATGACCACT-A
*
711189 TTGTTCCGAA-GAACCACTA
1 -TGTCCCGAATG-ACCACTA
*
711208 TGTCCCAAATGACCACT
1 TGTCCCGAATGACCACT
711225 GATAATCCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
18 29 0.62
19 4 0.09
20 14 0.30
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.22
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:711912 original size:64 final size:64
Alignment explanation
Indices: 711789--711914 Score: 155
Period size: 64 Copynumber: 2.0 Consensus size: 64
711779 TCCCTTGACG
* * * * * **
711789 GGTGCATCGATGCACTTCCTGTGTATCGGTGCATAAATCTCATTCGATGTTTGTAATTTAAGCA
1 GGTGCATCGATGCACTTCCTATGCATCGATGCACAAATCACATTCGATGTTCATAATTTAAGCA
* *
711853 GGTGCATCGATGCAC-TCCTTATGCATCGATGCACAAATGACATTCGATGTTCATTATTTAAG
1 GGTGCATCGATGCACTTCC-TATGCATCGATGCACAAATCACATTCGATGTTCATAATTTAAG
711915 AGTGTATCGG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 3 0.06
64 49 0.94
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (64 bp):
GGTGCATCGATGCACTTCCTATGCATCGATGCACAAATCACATTCGATGTTCATAATTTAAGCA
Found at i:712913 original size:17 final size:18
Alignment explanation
Indices: 712885--712923 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
712875 TTTCAATGAA
**
712885 CATCGAATGCATTTCATG
1 CATCGAATGCATACCATG
712903 CATCG-ATGCATACCATG
1 CATCGAATGCATACCATG
712920 CATC
1 CATC
712924 AAACACTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (18 bp):
CATCGAATGCATACCATG
Found at i:713308 original size:90 final size:90
Alignment explanation
Indices: 713155--713335 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
713145 TGAATTTATT
713155 AATTGTTTTCACACTTAAACGGCTCTATTGACTCCACTAAGCATCCCCAACGTTCAAAATCAATT
1 AATTGTTTTCACACTTAAACGGCTCTATTGACTCCACTAAGCATCCCCAACGTTCAAAATCAATT
713220 GAAGGAGTATTTAAACAAGTTCTAA
66 GAAGGAGTATTTAAACAAGTTCTAA
713245 AATTGTTTTCACACTTAAACGGCTCTATTGACTCCACTAAGCATCCCCAACGTTCAAAATCAATT
1 AATTGTTTTCACACTTAAACGGCTCTATTGACTCCACTAAGCATCCCCAACGTTCAAAATCAATT
713310 GAAGGAGTATTTAAACAAGTTCTAA
66 GAAGGAGTATTTAAACAAGTTCTAA
713335 A
1 A
713336 GCCATTGATT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (90 bp):
AATTGTTTTCACACTTAAACGGCTCTATTGACTCCACTAAGCATCCCCAACGTTCAAAATCAATT
GAAGGAGTATTTAAACAAGTTCTAA
Found at i:719518 original size:7 final size:8
Alignment explanation
Indices: 719498--719571 Score: 55
Period size: 8 Copynumber: 9.1 Consensus size: 8
719488 ATGAAATTAA
719498 AAAATATAT
1 AAAATAT-T
719507 AAAAT-TT
1 AAAATATT
719514 AAAATATT
1 AAAATATT
*
719522 AAAA-AGAT
1 AAAATA-TT
719530 AAATATATT
1 AAA-ATATT
719539 AAAATATT
1 AAAATATT
* *
719547 CAAAAAAAT
1 -AAAATATT
*
719556 AATATATT
1 AAAATATT
719564 AAAA-ATT
1 AAAATATT
719571 A
1 A
719572 CTAAATATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
7 11 0.21
8 24 0.46
9 16 0.31
10 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (8 bp):
AAAATATT
Found at i:719540 original size:25 final size:25
Alignment explanation
Indices: 719493--719571 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
719483 AAAAAATGAA
*
719493 ATTAAAAAATATATAAAAT-TTAAAAT
1 ATTAAAAAA-ATA-AATATATTAAAAT
*
719519 ATTAAAAAGATAAATATATTAAAAT
1 ATTAAAAAAATAAATATATTAAAAT
719544 ATTCAAAAAAAT-AATATATTAAAA-
1 ATT-AAAAAAATAAATATATTAAAAT
719568 ATTA
1 ATTA
719572 CTAAATATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
23 1 0.02
24 7 0.15
25 25 0.52
26 15 0.31
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (25 bp):
ATTAAAAAAATAAATATATTAAAAT
Found at i:721178 original size:14 final size:15
Alignment explanation
Indices: 721159--721195 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
721149 AAGTCAACGG
*
721159 GTTGACTCATA-CGA
1 GTTGACTCAGACCGA
721173 GTTGACTCAGACCGA
1 GTTGACTCAGACCGA
721188 GTTGACTC
1 GTTGACTC
721196 GGTGACTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (15 bp):
GTTGACTCAGACCGA
Found at i:722373 original size:14 final size:14
Alignment explanation
Indices: 722354--722382 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
722344 TTAATATTAT
722354 TTTATATAATAAAA
1 TTTATATAATAAAA
722368 TTTATATAATAAAA
1 TTTATATAATAAAA
722382 T
1 T
722383 AAGAAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTATATAATAAAA
Found at i:726473 original size:21 final size:20
Alignment explanation
Indices: 726434--726484 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
726424 TTACAATGGA
*
726434 TGTAGGACTTTCAACAGTGG
1 TGTAGGATTTTCAACAGTGG
**
726454 CTGTAGGATTTTCAGTAGTGG
1 -TGTAGGATTTTCAACAGTGG
726475 TGGTAGGATT
1 T-GTAGGATT
726485 GATAGAGTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.22, C:0.10, G:0.33, T:0.35
Consensus pattern (20 bp):
TGTAGGATTTTCAACAGTGG
Found at i:728491 original size:32 final size:32
Alignment explanation
Indices: 728454--728738 Score: 387
Period size: 32 Copynumber: 9.0 Consensus size: 32
728444 CCAAGAGTCG
* *
728454 AGGATTACTTATGTCTTTCGGGACATATGAAC
1 AGGATTACCTATGTCTTTCGGGACATATGGAC
*
728486 AGGATTACCTATGTCTTTCGGGACATATGGAT
1 AGGATTACCTATGTCTTTCGGGACATATGGAC
* *
728518 ATGATTACCTATGTCTTTCGGGACATATGAAC
1 AGGATTACCTATGTCTTTCGGGACATATGGAC
*
728550 AGGATTACCTATGTCTTTTGGGACATATGGAC
1 AGGATTACCTATGTCTTTCGGGACATATGGAC
* *
728582 ATGATTACCTATGTCTTTTGGGACATATGGAC
1 AGGATTACCTATGTCTTTCGGGACATATGGAC
728614 AGGATTACCTATGTCTTTCGGGACATATGGAC
1 AGGATTACCTATGTCTTTCGGGACATATGGAC
* * * *
728646 ATGATGACTTATGCCTTTCGGGACATATGGAC
1 AGGATTACCTATGTCTTTCGGGACATATGGAC
* * *
728678 AAGATTACCTATGTTTTTCGGAACATATGGAC
1 AGGATTACCTATGTCTTTCGGGACATATGGAC
* *
728710 A-G-TTACCTATGT-TCTTAGGAACATATGGA
1 AGGATTACCTATGTCT-TTCGGGACATATGGA
728739 TAGGTCCTTC
Statistics
Matches: 229, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
29 1 0.00
30 24 0.10
31 1 0.00
32 203 0.89
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (32 bp):
AGGATTACCTATGTCTTTCGGGACATATGGAC
Found at i:730184 original size:18 final size:18
Alignment explanation
Indices: 730163--730201 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
730153 TAATTGATAT
*
730163 TATTAAATTAT-ATTTTTA
1 TATT-AATTATGATTATTA
730181 TATTAATTATGATTATTA
1 TATTAATTATGATTATTA
730199 TAT
1 TAT
730202 AAAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TATTAATTATGATTATTA
Found at i:730559 original size:22 final size:20
Alignment explanation
Indices: 730516--730560 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
730506 ATAGGTAAAC
730516 TATATAGTTTATATATTATA
1 TATATAGTTTATATATTATA
*
730536 TATATAGTTTTTATA-TATA
1 TATATAGTTTATATATTATA
730555 GTATAT
1 -TATAT
730561 GCTATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (20 bp):
TATATAGTTTATATATTATA
Found at i:730560 original size:31 final size:30
Alignment explanation
Indices: 730516--730581 Score: 71
Period size: 31 Copynumber: 2.1 Consensus size: 30
730506 ATAGGTAAAC
* *
730516 TATATAGTTTATATATTATATATATAGTTTTTA
1 TATATAG-TTATATACTATATAAATA--TTTTA
*
730549 TATATAG-TATATGCTATATAAATATTTTA
1 TATATAGTTATATACTATATAAATATTTTA
730578 TATA
1 TATA
730582 ATTCATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.30
31 14 0.47
33 7 0.23
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (30 bp):
TATATAGTTATATACTATATAAATATTTTA
Found at i:731030 original size:13 final size:13
Alignment explanation
Indices: 731014--731081 Score: 55
Period size: 13 Copynumber: 5.0 Consensus size: 13
731004 CAACTATAGC
731014 ATATAGTTTATAT
1 ATATAGTTTATAT
*
731027 ATATAGTTCATAT
1 ATATAGTTTATAT
* * *
731040 GTAAACTATATAGTAT
1 ATATAGT-T-TA-TAT
*
731056 ATATAGTTTATAC
1 ATATAGTTTATAT
*
731069 ATATAGTTCATAT
1 ATATAGTTTATAT
731082 GTAAACTATA
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
13 29 0.71
14 3 0.07
15 2 0.05
16 7 0.17
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (13 bp):
ATATAGTTTATAT
Found at i:731073 original size:42 final size:41
Alignment explanation
Indices: 731014--731101 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 41
731004 CAACTATAGC
*
731014 ATATAGTTTATATATATAGTTCATATGTAAACTATATAGTAT
1 ATATAGTTTATACATATAGTTCATATGTAAACTATATA-TAT
731056 ATATAGTTTATACATATAGTTCATATGTAAACTATATATAT
1 ATATAGTTTATACATATAGTTCATATGTAAACTATATATAT
731097 ATATA
1 ATATA
731102 TATAGTTCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 8 0.18
42 37 0.82
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (41 bp):
ATATAGTTTATACATATAGTTCATATGTAAACTATATATAT
Found at i:731094 original size:22 final size:22
Alignment explanation
Indices: 731024--731095 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
731014 ATATAGTTTA
731024 TATATATAGTTCATATGTAAAC
1 TATATATAGTTCATATGTAAAC
**
731046 --TATATAGTAT-ATATAGTTTA-
1 TATATATAGT-TCATAT-GTAAAC
*
731066 TACATATAGTTCATATGTAAAC
1 TATATATAGTTCATATGTAAAC
731088 TATATATA
1 TATATATA
731096 TATATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 12 0.32
21 8 0.21
22 18 0.47
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (22 bp):
TATATATAGTTCATATGTAAAC
Found at i:731142 original size:29 final size:29
Alignment explanation
Indices: 731069--731163 Score: 136
Period size: 29 Copynumber: 3.2 Consensus size: 29
731059 TAGTTTATAC
*
731069 ATATAGTTCATATGTAAACTATATATATATAT
1 ATATAGTTCATATGTAAACTATATA-GT-T-T
*
731101 ATATAGTTCATATGTAAACTATGTAGTTT
1 ATATAGTTCATATGTAAACTATATAGTTT
*
731130 ATATAGTTCATATGTAAACTATATAGTAT
1 ATATAGTTCATATGTAAACTATATAGTTT
731159 ATATA
1 ATATA
731164 ATTTAAATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
29 33 0.56
30 1 0.02
31 1 0.02
32 24 0.41
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.43
Consensus pattern (29 bp):
ATATAGTTCATATGTAAACTATATAGTTT
Found at i:731173 original size:20 final size:20
Alignment explanation
Indices: 731150--731203 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
731140 TATGTAAACT
731150 ATATAGTATATATAATTTAA
1 ATATAGTATATATAATTTAA
** *
731170 ATATTA-TATATATGGTTTAT
1 ATA-TAGTATATATAATTTAA
*
731190 ATATAGTTTATATA
1 ATATAGTATATATA
731204 CTACTATCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
ATATAGTATATATAATTTAA
Found at i:731307 original size:11 final size:11
Alignment explanation
Indices: 731293--731317 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
731283 ATATAAAAAC
731293 TATATAGTTTA
1 TATATAGTTTA
731304 TATATAGTTTA
1 TATATAGTTTA
731315 TAT
1 TAT
731318 TAATAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:731307 original size:33 final size:34
Alignment explanation
Indices: 731270--731751 Score: 116
Period size: 31 Copynumber: 14.5 Consensus size: 34
731260 ATCCTAAACC
* *
731270 ATATATACTATATATATAA-AAACTATATAGTTT
1 ATATATAATATATATATAATAAACTATATAATTT
* *
731303 ATATATAGTTTATAT-TAATAAACTATATAATTT
1 ATATATAATATATATATAATAAACTATATAATTT
731336 AT-TCAT-A-ATATATATAAT----TA-ATAA-TT
1 ATAT-ATAATATATATATAATAAACTATATAATTT
* * ** * *
731362 ATAAATAATATATAAAT-ATAAGTTGTATAGTTT
1 ATATATAATATATATATAATAAACTATATAATTT
* *
731395 ATATATAAT-T-CATAT-ATAAATTATATAATTT
1 ATATATAATATATATATAATAAACTATATAATTT
* * *
731426 ATAT-TAATAAACTATATAATATA-TATAT-AGTT
1 ATATATAATATA-TATATAATAAACTATATAATTT
* * * *
731458 -CA-ATAGT-T-CATAT-ATAAACTATATAGTTT
1 ATATATAATATATATATAATAAACTATATAATTT
* ** * * *
731487 ATACATGGTATATATAGTTTATACATATTATATATAGATT
1 ATATATAATATATATA--TAATA-A-ACTATATA-A-TTT
* * * *
731527 ATCTATAGTATACAATAATATAAATATAAACTATATAGTTT
1 ATATATA--ATA-TAT-ATAT-AATAAA--CTATATAATTT
*
731568 ATATATAATATATATATACTTTGTATATACACTATATATTTT
1 ATATATAATATATATATA------ATA-A-ACTATATAATTT
* *
731610 ATATATAGT-TATATATTAATAAACTGTATAATTT
1 ATATATAATATATATA-TAATAAACTATATAATTT
* ** * *
731644 GTATAT-A-ATATATATAATTTA-TATATAGTAT
1 ATATATAATATATATATAATAAACTATATAATTT
* *
731675 CTA-ATAATATA-A-AT-ATAAACTATATAGTTT
1 ATATATAATATATATATAATAAACTATATAATTT
* * * *
731705 ATATATACT-T-TATGT-ATAAATTATATAGTTT
1 ATATATAATATATATATAATAAACTATATAATTT
731736 ATATAT-ATATATATAT
1 ATATATAATATATATAT
731752 TATATTATTT
Statistics
Matches: 328, Mismatches: 66, Indels: 111
0.65 0.13 0.22
Matches are distributed among these distances:
26 6 0.02
27 11 0.03
28 18 0.05
29 5 0.02
30 23 0.07
31 72 0.22
32 28 0.09
33 58 0.18
34 19 0.06
35 2 0.01
36 7 0.02
37 5 0.02
38 9 0.03
39 3 0.01
40 6 0.02
41 15 0.05
42 26 0.08
43 11 0.03
44 4 0.01
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (34 bp):
ATATATAATATATATATAATAAACTATATAATTT
Found at i:731338 original size:20 final size:20
Alignment explanation
Indices: 731315--731354 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
731305 ATATAGTTTA
731315 TATTAATAA-ACTATATAATT
1 TATTAATAATA-TATATAATT
*
731335 TATTCATAATATATATAATT
1 TATTAATAATATATATAATT
731355 AATAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTAATAATATATATAATT
Found at i:731409 original size:11 final size:10
Alignment explanation
Indices: 731326--731670 Score: 57
Period size: 11 Copynumber: 33.6 Consensus size: 10
731316 ATTAATAAAC
731326 TATATAATT-
1 TATATAATTA
731335 TATTCATAA-TA
1 TA-T-ATAATTA
731346 TATATAA-T-
1 TATATAATTA
731354 TA-ATAATTA
1 TATATAATTA
*
731363 TAAATAATATA
1 TATATAAT-TA
*
731374 TAAATATAAGTTG
1 T--ATATAA-TTA
731387 TATAGT--TTA
1 TATA-TAATTA
731396 TATATAATTCA
1 TATATAATT-A
*
731407 TATATAAAT-
1 TATATAATTA
731416 TATATAATT-
1 TATATAATTA
*
731425 TATATTAATAAA
1 TATA-TAAT-TA
731437 CTATATAATATA
1 -TATATAAT-TA
*
731449 TATATAGTT-
1 TATATAATTA
* *
731458 CA-ATAGTTCA
1 TATATAATT-A
731468 TATATAA--A
1 TATATAATTA
*
731476 CTATATAGTT-
1 -TATATAATTA
*
731486 TATA-CATGGTA
1 TATATAAT--TA
*
731497 TATATAGTT-
1 TATATAATTA
*
731506 TATACATATTA
1 TATATA-ATTA
731517 TATATAGATTA
1 TATATA-ATTA
* *
731528 TCTAT-AGTA
1 TATATAATTA
*
731537 TACAATAATATA
1 TA-TATAAT-TA
*
731549 AATATAA--A
1 TATATAATTA
*
731557 CTATATAGTTTA
1 -TATATA-ATTA
731569 TATATAATATA
1 TATATAAT-TA
* *
731580 TATATACTTTG
1 TATATA-ATTA
*
731591 TATATACACTA
1 TATATA-ATTA
*
731602 TATAT-TTTA
1 TATATAATTA
*
731611 TATATAGTTA
1 TATATAATTA
*
731621 TATATTAATAAA
1 TATA-TAAT-TA
* *
731633 CTGTATAATTTG
1 -TATATAA-TTA
731645 TATATAA-TA
1 TATATAATTA
731654 TATATAATTTA
1 TATATAA-TTA
731665 TATATA
1 TATATA
731671 GTATCTAATA
Statistics
Matches: 245, Mismatches: 45, Indels: 90
0.64 0.12 0.24
Matches are distributed among these distances:
7 4 0.02
8 13 0.05
9 67 0.27
10 30 0.12
11 98 0.40
12 17 0.07
13 15 0.06
14 1 0.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (10 bp):
TATATAATTA
Found at i:731435 original size:22 final size:21
Alignment explanation
Indices: 731396--731451 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
731386 GTATAGTTTA
* *
731396 TATATAATTCATA-TATAAAT
1 TATATAATTTATATTATAAAC
731416 TATATAATTTATATTAATAAAC
1 TATATAATTTATATT-ATAAAC
*
731438 TATATAATATATAT
1 TATATAATTTATAT
731452 ATAGTTCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 12 0.39
21 1 0.03
22 18 0.58
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATAATTTATATTATAAAC
Found at i:731500 original size:20 final size:20
Alignment explanation
Indices: 731477--731538 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
731467 ATATATAAAC
*
731477 TATATAGTTTATACATGGTA
1 TATATAGTTTATACATAGTA
*
731497 TATATAGTTTATACATATTA
1 TATATAGTTTATACATAGTA
*
731517 TATATAGATTAT-CTATAGTA
1 TATATAGTTTATAC-ATAGTA
731537 TA
1 TA
731539 CAATAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 1 0.03
20 36 0.97
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.47
Consensus pattern (20 bp):
TATATAGTTTATACATAGTA
Found at i:731575 original size:20 final size:20
Alignment explanation
Indices: 731550--731711 Score: 99
Period size: 20 Copynumber: 8.2 Consensus size: 20
731540 AATAATATAA
*
731550 ATATAAACTATATAGTTTAT
1 ATATAAACTATATAATTTAT
*
731570 ATATAATA-TATATATACTTTGT
1 ATATAA-ACTATATA-A-TTTAT
*
731592 ATATACACTATAT-ATTT-T
1 ATATAAACTATATAATTTAT
* * *
731610 ATATATAGT-TAT-ATAT-T
1 ATATAAACTATATAATTTAT
* *
731627 A-ATAAACTGTATAATTTGT
1 ATATAAACTATATAATTTAT
731646 ATATAATA-TATATAATTTAT
1 ATATAA-ACTATATAATTTAT
* * *
731666 ATATAGTATCTA-ATAATATAA
1 ATATA--AACTATATAATTTAT
*
731687 ATATAAACTATATAGTTTAT
1 ATATAAACTATATAATTTAT
731707 ATATA
1 ATATA
731712 CTTTATGTAT
Statistics
Matches: 111, Mismatches: 18, Indels: 26
0.72 0.12 0.17
Matches are distributed among these distances:
16 5 0.05
17 11 0.10
18 11 0.10
19 9 0.08
20 43 0.39
21 15 0.14
22 17 0.15
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATAAACTATATAATTTAT
Found at i:731755 original size:9 final size:9
Alignment explanation
Indices: 731558--731793 Score: 65
Period size: 9 Copynumber: 26.2 Consensus size: 9
731548 AAATATAAAC
731558 TATATAGTT-
1 TATATA-TTA
731567 TATATA-TA
1 TATATATTA
731575 -ATATA-TA
1 TATATATTA
*
731582 TATACTTTGTA
1 TATA-TAT-TA
* *
731593 TATACACTA
1 TATATATTA
*
731602 TATATTTTA
1 TATATATTA
*
731611 TATATAGT-
1 TATATATTA
731619 TATATATTA
1 TATATATTA
*
731628 -ATAAACTGTA
1 TATATA-T-TA
*
731638 TA-AT-TTG
1 TATATATTA
*
731645 TATATAATA
1 TATATATTA
731654 TATATAATT-
1 TATAT-ATTA
731663 TATATA-TA
1 TATATATTA
* *
731671 GTATCTAATA
1 -TATATATTA
*
731681 -ATATA-AA
1 TATATATTA
* *
731688 TATAAACTA
1 TATATATTA
731697 TATAGT-TTA
1 TATA-TATTA
731706 TATATACTTTA
1 TATATA--TTA
*
731717 TGTATAAATTA
1 --TATATATTA
731728 TATAGT-TTA
1 TATA-TATTA
731737 TATATA-TA
1 TATATATTA
731745 TATATATTA
1 TATATATTA
*
731754 TAT-TATTTT
1 TATATA-TTA
731763 TATTATTATTA
1 TA-TA-TATTA
731774 TTATATATTA
1 -TATATATTA
731784 -ATATATTA
1 TATATATTA
731792 TA
1 TA
731794 ATTGTTTTAT
Statistics
Matches: 168, Mismatches: 27, Indels: 64
0.65 0.10 0.25
Matches are distributed among these distances:
7 13 0.08
8 46 0.27
9 70 0.42
10 13 0.08
11 17 0.10
12 4 0.02
13 5 0.03
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (9 bp):
TATATATTA
Found at i:733272 original size:21 final size:20
Alignment explanation
Indices: 733247--733296 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
733237 AAACTAAAAT
*
733247 TTATAAACTATAAATCCTAAA
1 TTATAAACTATAAA-CATAAA
*
733268 TTATAAATTATAAACATAAA
1 TTATAAACTATAAACATAAA
*
733288 TTTTAAACT
1 TTATAAACT
733297 CTTAATCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
TTATAAACTATAAACATAAA
Found at i:739523 original size:18 final size:18
Alignment explanation
Indices: 739502--739537 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
739492 TTATTATTAT
* *
739502 ATTAATTTAAATTATATA
1 ATTAATTAAAACTATATA
739520 ATTAATTAAAACTATATA
1 ATTAATTAAAACTATATA
739538 TATATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAATTAAAACTATATA
Found at i:741199 original size:12 final size:12
Alignment explanation
Indices: 741177--741211 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
741167 AAATATATTA
741177 AATTA-TTTTAT
1 AATTATTTTTAT
*
741188 ATTTATTTTTAT
1 AATTATTTTTAT
741200 AATTATTTTTAT
1 AATTATTTTTAT
741212 TAAAGTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
AATTATTTTTAT
Found at i:742831 original size:13 final size:14
Alignment explanation
Indices: 742815--742849 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
742805 TATTTTAAGT
*
742815 ATTTATTTAAGCG-
1 ATTTAATTAAGCGC
742828 ATTTAATTAAGCGC
1 ATTTAATTAAGCGC
742842 ATTTAATT
1 ATTTAATT
742850 TGAGGGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (14 bp):
ATTTAATTAAGCGC
Found at i:747215 original size:192 final size:195
Alignment explanation
Indices: 746864--747252 Score: 739
Period size: 194 Copynumber: 2.0 Consensus size: 195
746854 TTTTAAATGA
746864 TTAAAAGTATTTGAAGGGACACAATTAAGTGAATAAAATAGAAAATTTATAATAATTTACATTTT
1 TTAAAAGTATTTGAAGGGACACAATTAAGTGAATAAAATAGAAAATTTATAATAATTTACATTTT
746929 TTACTAAATAAAAAAAAAAAACAAGAGTGATTGCGGATTTGATATATTTTCTTTCACTCATTTTC
66 TTACTAAAT-AAAAAAAAAAACAAGAGTGATTGCGGATTTGATATATTTTCTTTCACTCATTTTC
746994 CTGCTGCTTGTCCAGGCTTTGA-CTCTCTCTCTCTCTAAAAATACCTCAAAAC-AAAGCAATTAA
130 CTGCTGCTTGTCCAGGCTTTGACCTCTCTCTCTCTCTAAAAATACCTCAAAACAAAAGCAATTAA
747057 G
195 G
747058 TTAAAAGTATTTGAAGGGACACAATTAAGTGAATAAAATAGAAAATTTATAATAATTTACATTTT
1 TTAAAAGTATTTGAAGGGACACAATTAAGTGAATAAAATAGAAAATTTATAATAATTTACATTTT
747123 TTACTAAAT-AAAAAAAAAACAAGAGTGATTGCGGATTTGATATATTTTCTTTCACTCATTTTCC
66 TTACTAAATAAAAAAAAAAACAAGAGTGATTGCGGATTTGATATATTTTCTTTCACTCATTTTCC
747187 TGCTGCTTGTCCAGGCTTTGACTCTCTCTCTCTCTCTAAAAATACCTCAAAACAAAAGCAATTAA
131 TGCTGCTTGTCCAGGCTTTGAC-CTCTCTCTCTCTCTAAAAATACCTCAAAACAAAAGCAATTAA
747252 G
195 G
747253 AAGTGTCATT
Statistics
Matches: 192, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
192 76 0.40
194 104 0.54
195 12 0.06
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (195 bp):
TTAAAAGTATTTGAAGGGACACAATTAAGTGAATAAAATAGAAAATTTATAATAATTTACATTTT
TTACTAAATAAAAAAAAAAACAAGAGTGATTGCGGATTTGATATATTTTCTTTCACTCATTTTCC
TGCTGCTTGTCCAGGCTTTGACCTCTCTCTCTCTCTAAAAATACCTCAAAACAAAAGCAATTAAG
Found at i:756554 original size:17 final size:17
Alignment explanation
Indices: 756513--756557 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
756503 CCCTACTTGA
756513 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** **
756530 TTTTATATTTTTTAAAT
1 TTAAATATTTAATAAAT
756547 TTAAATATTTA
1 TTAAATATTTA
756558 TTTTGACATG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:757388 original size:15 final size:15
Alignment explanation
Indices: 757368--757397 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
757358 TTTGACAAGA
*
757368 TGAAAAGGTTAAAAT
1 TGAAAAAGTTAAAAT
757383 TGAAAAAGTTAAAAT
1 TGAAAAAGTTAAAAT
757398 CTAGCATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.27
Consensus pattern (15 bp):
TGAAAAAGTTAAAAT
Found at i:758486 original size:3 final size:3
Alignment explanation
Indices: 758480--758566 Score: 115
Period size: 3 Copynumber: 28.7 Consensus size: 3
758470 CTCCATTTTC
758480 TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT T-T TAT ATAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* *
758526 TAT TAT TAT T-T TATT TAT TAT TAT TAA AAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
758567 CAAACAGGCC
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
2 4 0.05
3 62 0.83
4 9 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:758520 original size:24 final size:24
Alignment explanation
Indices: 758480--758565 Score: 127
Period size: 24 Copynumber: 3.5 Consensus size: 24
758470 CTCCATTTTC
758480 TATTATTATTATTTATTATTATTAT
1 TATTATT-TTATTTATTATTATTAT
*
758505 TATTATTTTATATATTATTATTAT
1 TATTATTTTATTTATTATTATTAT
*
758529 TATTATTTTATTTATTATTATTAA
1 TATTATTTTATTTATTATTATTAT
*
758553 AATTATTATTATT
1 TATTATT-TTATT
758566 ACAAACAGGC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
24 44 0.79
25 12 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TATTATTTTATTTATTATTATTAT
Found at i:759028 original size:19 final size:19
Alignment explanation
Indices: 759004--759041 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
758994 TTCGCCTAAA
759004 AACAGAGGAA-AAAAAAAAG
1 AACAGA-GAACAAAAAAAAG
759023 AACAGAGAACAAAAAAAAG
1 AACAGAGAACAAAAAAAAG
759042 GGGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.74, C:0.08, G:0.18, T:0.00
Consensus pattern (19 bp):
AACAGAGAACAAAAAAAAG
Found at i:760280 original size:116 final size:114
Alignment explanation
Indices: 760060--760291 Score: 288
Period size: 117 Copynumber: 2.0 Consensus size: 114
760050 TATTTTAATC
* * * *
760060 TTGTTTTAATATTTATTTATTTTTCAATATTAAGAAAGGGCAGTCTTAAAACAACTGGATGTCCA
1 TTGTTTTAATATTTATTTATTTTTCAATATGAAGAAAGAGCAGTCTTAAAACAACTAGAAGTCCA
* *
760125 TTTTCTAAATTTTTAAATAAATAAATATCCTATTTTATAAATATATTAA
66 TTTTCTAAATTTCTAAATAAATAAATATCCTATTTTATAAATATATAAA
* * * ** *
760174 TTGTTTTAATTATTTATTTATTTTTTAATATCGAGGAAAAGAGCTGTCTTAAGGCACCTAGAAGT
1 TTGTTTTAA-TATTTATTTATTTTTCAATAT-GAAG-AAAGAGCAGTCTTAAAACAACTAGAAGT
**
760239 -CATTTTCTAATATTTCTAAATAAATAAATATTTTA-TTTATAAATATATAAA
63 CCATTTTCTAA-ATTTCTAAATAAATAAATATCCTATTTTATAAATATATAAA
760290 TT
1 TT
760292 AATATATATT
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
114 9 0.09
115 20 0.20
116 29 0.29
117 42 0.42
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (114 bp):
TTGTTTTAATATTTATTTATTTTTCAATATGAAGAAAGAGCAGTCTTAAAACAACTAGAAGTCCA
TTTTCTAAATTTCTAAATAAATAAATATCCTATTTTATAAATATATAAA
Found at i:763262 original size:20 final size:20
Alignment explanation
Indices: 763221--763268 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
763211 TTATGTTTCC
*
763221 TTTTGTATTGTACAATTTACA
1 TTTT-TATTGTACAATTCACA
763242 TTTTTATTGTTAC-ATTCACA
1 TTTTTATTG-TACAATTCACA
*
763262 TATTTAT
1 TTTTTAT
763269 ATTTGCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTATTGTACAATTCACA
Found at i:763311 original size:26 final size:26
Alignment explanation
Indices: 763282--763342 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
763272 TGCATTTACA
*
763282 TTTACATTTAGCATTT-TTTTTTCATT
1 TTTACATTTA-CATTTATATTTTCATT
* *
763308 TTTACGTTTATATTTATATTTTCATT
1 TTTACATTTACATTTATATTTTCATT
*
763334 TTTGCATTT
1 TTTACATTT
763343 GTATATTTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.20, C:0.10, G:0.05, T:0.66
Consensus pattern (26 bp):
TTTACATTTACATTTATATTTTCATT
Found at i:767604 original size:114 final size:114
Alignment explanation
Indices: 767398--767621 Score: 358
Period size: 114 Copynumber: 2.0 Consensus size: 114
767388 GTGCCACGTT
*
767398 CTCATAGCAGAAATAAGGAGACCCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGCAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * *
767463 ATTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTG
66 ATTCGGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTG
*
767512 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGCAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * *
767577 GTTCGGTAGGAACCCCAGAACCGATCATTAGAATTGAAAGATGAA
66 ATTCGGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAA
767622 CTGCATGATT
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (114 bp):
CTCATAGCAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
ATTCGGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTG
Found at i:770268 original size:22 final size:22
Alignment explanation
Indices: 770240--770317 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
770230 CATCTACATC
* *
770240 CTTCAAAGATGATAAATTTTCT
1 CTTCAAAGATGATAGATTCTCT
*
770262 CTTCAAATATGATAGATTCTCT
1 CTTCAAAGATGATAGATTCTCT
* * *
770284 TTTTAAAGATGACAGATTCTCT
1 CTTCAAAGATGATAGATTCTCT
*
770306 TTTCAAAGATGA
1 CTTCAAAGATGA
770318 AAGCTTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (22 bp):
CTTCAAAGATGATAGATTCTCT
Found at i:771093 original size:76 final size:76
Alignment explanation
Indices: 770994--771254 Score: 400
Period size: 76 Copynumber: 3.4 Consensus size: 76
770984 CTATTTCCCA
770994 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGATTTT-A
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTTCA
*
771058 AAACCTTCGGGT
65 AAACCTTAGGGT
* *
771070 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
771135 AGCCTTAGGGT
66 AACCTTAGGGT
* *
771146 CATCTATAAGTCCTACAGTGCATGATGTGTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
771211 AACCTTTGAGT
66 AACCTTAGGGT
* *
771222 CAGCTGTAAGCCCTACAGTGCA-GAATGTTTCCA
1 CATCTGTAAGTCCTACAGTGCATG-ATGTTTCCA
771255 GGTAGAGTTC
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
75 5 0.03
76 163 0.97
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:771459 original size:113 final size:113
Alignment explanation
Indices: 771249--771553 Score: 506
Period size: 113 Copynumber: 2.7 Consensus size: 113
771239 GTGCAGAATG
*
771249 TTTCCAGGTAGAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * * *
771314 AGAACTTGTTCAACTTTTTGCTTGAATTCATCA-TTCGATGGATCAGCA
66 AGAACTTGTTCAACCTTTTGCTTAAATCCATCACTT-GATGGATCAACA
*
771362 TTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAATGAGA
1 TTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
771427 AGAACTTGTTTAACCTTTTG-TTCAAATCCATCACTTGATGGATCAACA
66 AGAACTTGTTCAACCTTTTGCTT-AAATCCATCACTTGATGGATCAACA
*
771475 TTTCCAGGTAGAATTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
771540 AGAACTTGTTCAAC
66 AGAACTTGTTCAAC
771554 TAATTTCAAT
Statistics
Matches: 180, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
112 2 0.01
113 176 0.98
114 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (113 bp):
TTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTGCTTAAATCCATCACTTGATGGATCAACA
Found at i:771868 original size:20 final size:19
Alignment explanation
Indices: 771843--771884 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
771833 CTATTTTATA
771843 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
771863 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
771882 AAT
1 AAT
771885 ATCGAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:771963 original size:23 final size:26
Alignment explanation
Indices: 771931--771980 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
771921 TATTTTCTGA
*
771931 TATTTCTAAATA-AA-TAA-ATATTT
1 TATTTATAAATATAATTAATATATTT
771954 TATTTATAAATATAATTAATATATTT
1 TATTTATAAATATAATTAATATATTT
771980 T
1 T
771981 TCATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 2 0.09
25 3 0.13
26 7 0.30
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATAATTAATATATTT
Found at i:777829 original size:70 final size:70
Alignment explanation
Indices: 777711--777848 Score: 222
Period size: 70 Copynumber: 2.0 Consensus size: 70
777701 TCAATTGGTA
* *
777711 ACATAATTAAAACACAATGATTGGGCATACTTGTTCCTTAAAACAAGAATCTTGCTTCATCATTC
1 ACATAATTAAAACACAATGATTAGACATACTTGTTCCTTAAAACAAGAATCTTGCTTCATCATTC
777776 AAGCG
66 AAGCG
* * * *
777781 ACATAATTAAAGCACAATGATTAGACATATTTTTTCCTTAAAATAAGAATCTTGCTTCATCATTC
1 ACATAATTAAAACACAATGATTAGACATACTTGTTCCTTAAAACAAGAATCTTGCTTCATCATTC
777846 AAG
66 AAG
777849 TAACGGAAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (70 bp):
ACATAATTAAAACACAATGATTAGACATACTTGTTCCTTAAAACAAGAATCTTGCTTCATCATTC
AAGCG
Found at i:780436 original size:37 final size:38
Alignment explanation
Indices: 780386--780460 Score: 91
Period size: 41 Copynumber: 1.9 Consensus size: 38
780376 AACTTAACAT
780386 TAAATTTTG-AA-AGGGTACTAAAATGAAACAAAAAAC
1 TAAATTTTGAAAGAGGGTACTAAAATGAAACAAAAAAC
* *
780422 TAAAGTTTTTAAAGGCAGGGTACTAAAATGAAATAAAAA
1 TAAA-TTTTGAAA-G-AGGGTACTAAAATGAAACAAAAA
780461 TTAAAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 4 0.12
37 4 0.12
38 2 0.06
41 22 0.69
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.24
Consensus pattern (38 bp):
TAAATTTTGAAAGAGGGTACTAAAATGAAACAAAAAAC
Found at i:780731 original size:174 final size:174
Alignment explanation
Indices: 780441--780788 Score: 680
Period size: 174 Copynumber: 2.0 Consensus size: 174
780431 TAAAGGCAGG
780441 GTACTAAAATGAAATAAAAATTAAAATTTTGGTATGATTTTAGAAAAAAATTAAAAGTTTAGATA
1 GTACTAAAATGAAATAAAAATTAAAATTTTGGTATGATTTTAGAAAAAAATTAAAAGTTTAGATA
780506 TTAAAATAGACAAAAACTTATACTTAGATACTAAATGCATAATTTACCGCTTTTATTATTAGGCT
66 TTAAAATAGACAAAAACTTATACTTAGATACTAAATGCATAATTTACCGCTTTTATTATTAGGCT
780571 TAATGATCATTTGCCCGTATAT-TATTTTTTTTCGTTTTCCTCTT
131 TAATGATCATTTGCCCGTATATATA-TTTTTTTCGTTTTCCTCTT
780615 GTACTAAAATGAAATAAAAATTAAAATTTTGGTATGATTTTAGAAAAAAATTAAAAGTTTAGATA
1 GTACTAAAATGAAATAAAAATTAAAATTTTGGTATGATTTTAGAAAAAAATTAAAAGTTTAGATA
780680 TTAAAATAGACAAAAACTTATACTTAGATACTAAATGCATAATTTACCGCTTTTATTATTAGGCT
66 TTAAAATAGACAAAAACTTATACTTAGATACTAAATGCATAATTTACCGCTTTTATTATTAGGCT
780745 TAATGATCATTTGCCCGTATATATATTTTTTTCGTTTTCCTCTT
131 TAATGATCATTTGCCCGTATATATATTTTTTTCGTTTTCCTCTT
780789 AAATGTATGT
Statistics
Matches: 173, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
174 171 0.99
175 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (174 bp):
GTACTAAAATGAAATAAAAATTAAAATTTTGGTATGATTTTAGAAAAAAATTAAAAGTTTAGATA
TTAAAATAGACAAAAACTTATACTTAGATACTAAATGCATAATTTACCGCTTTTATTATTAGGCT
TAATGATCATTTGCCCGTATATATATTTTTTTCGTTTTCCTCTT
Found at i:781272 original size:3 final size:3
Alignment explanation
Indices: 781264--781308 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
781254 CTTGTACTTG
781264 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
781309 TTGGGGGTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:781387 original size:3 final size:3
Alignment explanation
Indices: 781379--783220 Score: 2406
Period size: 3 Copynumber: 633.7 Consensus size: 3
781369 CTTGTACTTG
781379 GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
781426 GAA GAA GAA GAA GAA -AA GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
781472 GAA GAA GAA GAA GAA GAA -AA -AA GAA GAA GAAA GAAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA G-AA GAA GAA GAA
781517 GAA G-A GAA GAA GAA -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-A
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
781562 GAA GAA GAA GGA G-A GAAA GGA GAA GAA GAA GGA GAA GAA G-A GAA
1 GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
781606 -AA -AA GAA G-A GAA G-A GAA GAA GAA GAA GGAA -AA GGA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA
781647 GAA -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA G-A GAA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
781691 GAA GAA GAA GAA GAA GAA GAA GAAA GAGA GAA GAA -AA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA G-AA GA-A GAA GAA GAA GAA GAA GAA
*
781737 TAA GAAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
781782 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
781830 -AA GAA GAA GAA G-A GAA G-A GAA GAA GAAA GAA GAA G-A GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA
*
781872 G-A GAA GAA GAA GGA GAA GAA GAA GAA GAA GAA -AA GAA G-A GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
781917 GAA GAA GAA GAA G-A GAAA GAA GAA G-A GAA G-A GAA GAA -AA G-A
1 GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * *
781958 GAA GAG GAA -AA GAA AAA GGA GAA GAA GAA -AA GAA G-A GAA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
782003 GAA -AA GAA GGA GAA GAAA GGA GAA GAA GAA GAA G-A GAAA GGA GAA
1 GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA G-AA GAA GAA
* *
782048 GAA GAA GGAA GAA GAA GGA GAA GAA GAA GGA GAA G-A GAA GAA GAA
1 GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
782093 GAA GAA GAA -AA GAA GAA GGA GAA GAA GGA GAA GAA GAGA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA GAA
* *
782138 GAA GAA GAA GGA -AA GAA GAA GAA GAA GAA GAA GGA GAA GAA GAA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
782184 G-A GAA GAA GGA GAAA GAA GAGA GAA GAA GAA -AA GAA GAA GAA G-A
1 GAA GAA GAA GAA G-AA GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA
* *
782228 GGA GAA -AA GAA GAA G-A GAA -AA GAA GAA GAA GAA TAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
782273 GAAA GAA GAA GAA -AA GAA GAA GAA GAA GAA GAA GAA GAAA GAA G-A
1 G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA
* * *
782318 GAA GAA GAA GGA -AA GAA GAA GAA GAA GGA GAA GAA -AA GAA GAA GGA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
782364 GAA GAA G-A GAA AAA G-A GAA GAA GGA GAA GAA G-A GAA GAA GGTA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA
* *
782407 GAA G-A GAA GGA GAA GAA G-A GAA GAA GGA GAA GAA GAA G-A GAA G-A
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
782451 GAA G-A GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
782496 GAA -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA GAA GAGA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GA-A
*
782542 GAA GAA GAA -AA GAA GAG GAAA GAA GAA G-A GAA G-A GAA GAA G-A
1 GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
782584 GAA -AA GGA GAGA GAA GAGA GAA GAA GGA GAA GAA GAA AAA GAGA GAA
1 GAA GAA GAA GA-A GAA GA-A GAA GAA GAA GAA GAA GAA GAA GA-A GAA
782631 GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA G-A GAA GAA GAA GAA G-A
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
782676 GAA G-A GAA GAA -AA GAA GAA GAA GGA GAA GAAA GAA GAA G-A GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA
* * * *
782719 GAA AAA G-A GAA G-A GAA GAA GAA GAA AAA GAA GAA GGA GAA GAA TAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
782765 GAA GAA G-A GAGA GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
782809 GAA -AA GAA G-A GAAA GAA GAA GGAA GAA AAA GAA GAA GAA GAAA GAA
1 GAA GAA GAA GAA G-AA GAA GAA -GAA GAA GAA GAA GAA GAA G-AA GAA
782855 G-A GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
782901 -AA GAAA GAA G-A GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
782945 GAA GAA GAA -AA GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
782991 GAA GAA GAA GAA GAA GAA GAA G-A GAA -AA GAA GAAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA
783035 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
783082 G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
783129 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
783177 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
783221 CATAGCGCCA
Statistics
Matches: 1641, Mismatches: 80, Indels: 236
0.84 0.04 0.12
Matches are distributed among these distances:
2 178 0.11
3 1376 0.84
4 87 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:781396 original size:115 final size:114
Alignment explanation
Indices: 781194--781422 Score: 449
Period size: 115 Copynumber: 2.0 Consensus size: 114
781184 AACTATTTCT
781194 TTGGGGGTAGCTTTTAACAATGCTACGATGATTCATAAAAAAGGGCATTTGTTGAAATTGCTTGT
1 TTGGGGGTAGCTTTTAACAATGCTACGATGATTCATAAAAAAGGGCATTTGTTGAAATTGCTTGT
781259 ACTTGGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA
66 ACTTGGAAGAAGAAGAAGAAGAAGAAGAAG-AGAAGAAGAAGAAGAAGAA
781309 TTGGGGGTAGCTTTTAACAATGCTACGATGATTCATAAAAAAGGGCATTTGTTGAAATTGCTTGT
1 TTGGGGGTAGCTTTTAACAATGCTACGATGATTCATAAAAAAGGGCATTTGTTGAAATTGCTTGT
781374 ACTTGGAAGAAGAAGAAGAAGAAGAAGAAGAGAAGAAGAAGAAGAAGAA
66 ACTTGGAAGAAGAAGAAGAAGAAGAAGAAGAGAAGAAGAAGAAGAAGAA
781423 GAAGAAGAAG
Statistics
Matches: 114, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 19 0.17
115 95 0.83
ACGTcount: A:0.43, C:0.07, G:0.28, T:0.22
Consensus pattern (114 bp):
TTGGGGGTAGCTTTTAACAATGCTACGATGATTCATAAAAAAGGGCATTTGTTGAAATTGCTTGT
ACTTGGAAGAAGAAGAAGAAGAAGAAGAAGAGAAGAAGAAGAAGAAGAA
Found at i:783869 original size:27 final size:27
Alignment explanation
Indices: 783839--783892 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
783829 TCAATGACGA
*
783839 AAAACGTTGGTCAAACTCTTTTTTTTT
1 AAAACATTGGTCAAACTCTTTTTTTTT
783866 AAAACATTGGTCAAACTCTTTTTTTTT
1 AAAACATTGGTCAAACTCTTTTTTTTT
783893 CTAGTTGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (27 bp):
AAAACATTGGTCAAACTCTTTTTTTTT
Found at i:788976 original size:13 final size:12
Alignment explanation
Indices: 788958--789009 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
788948 TAGATACTCG
788958 TTTTATTATATAT
1 TTTTATTATA-AT
*
788971 TTTTATTTTAAT
1 TTTTATTATAAT
*
788983 TTATATTA-AAT
1 TTTTATTATAAT
788994 TTTTATTTATAAT
1 TTTTA-TTATAAT
789007 TTT
1 TTT
789010 CAAATTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 7 0.21
12 11 0.33
13 15 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTATTATAAT
Found at i:789263 original size:7 final size:7
Alignment explanation
Indices: 789251--789281 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
789241 TTTATAGACC
789251 TTTAAAT
1 TTTAAAT
789258 TTTAAAT
1 TTTAAAT
789265 TTTAAAT
1 TTTAAAT
789272 TTTAAAT
1 TTTAAAT
789279 TTT
1 TTT
789282 TTCTATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTAAAT
Found at i:789547 original size:29 final size:28
Alignment explanation
Indices: 789514--789572 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
789504 TTTGAAGAAA
*
789514 AAAATATTAAATATAATATTCATAATTTT
1 AAAATATTAAATACAATATTCAT-ATTTT
* * *
789543 AAAATATTTAATGCAATATTTATATTTT
1 AAAATATTAAATACAATATTCATATTTT
789571 AA
1 AA
789573 TAACATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (28 bp):
AAAATATTAAATACAATATTCATATTTT
Found at i:789736 original size:22 final size:18
Alignment explanation
Indices: 789687--789734 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
789677 ATCATACCAC
789687 TTAATTAATTAAACGATA
1 TTAATTAATTAAACGATA
789705 TTAATTAATTAAACGATA
1 TTAATTAATTAAACGATA
* *
789723 CTAATCAATTAA
1 TTAATTAATTAA
789735 TTTGTTGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (18 bp):
TTAATTAATTAAACGATA
Found at i:790555 original size:65 final size:65
Alignment explanation
Indices: 790449--790581 Score: 212
Period size: 65 Copynumber: 2.0 Consensus size: 65
790439 ACATAGTGCA
* *
790449 TTTCAAACAAGCCCGGAGTGGATCAATACATGGTATGTGCATCGATGCATAAAATGCATTCGATG
1 TTTCAAACAAGCCCGGAGTGCATCAATACATGGTATATGCATCGATGCATAAAATGCATTCGATG
* * * *
790514 TTTCAAACAAGCCTGGAGTGCATCGATGCATGGTATATGCATCGATGTATAAAATGCATTCGATG
1 TTTCAAACAAGCCCGGAGTGCATCAATACATGGTATATGCATCGATGCATAAAATGCATTCGATG
790579 TTT
1 TTT
790582 TAACAAAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (65 bp):
TTTCAAACAAGCCCGGAGTGCATCAATACATGGTATATGCATCGATGCATAAAATGCATTCGATG
Found at i:790598 original size:65 final size:64
Alignment explanation
Indices: 790449--790632 Score: 184
Period size: 65 Copynumber: 2.9 Consensus size: 64
790439 ACATAGTGCA
* * * * * *
790449 TTTCAAACAAGCCCGGAGTGGATCAATACATGGTATGTGCATCGATGCATAAAATGCATTCGATG
1 TTTCAAACAAACCTGGAGTGCA-CGATGCATGGTATATGCATCGATGCATAAAATGCATTCGATG
* *
790514 TTTCAAACAAGCCTGGAGTGCATCGATGCATGGTATATGCATCGATGTATAAAATGCATTCGATG
1 TTTCAAACAAACCTGGAGTGCA-CGATGCATGGTATATGCATCGATGCATAAAATGCATTCGATG
* * * *
790579 TTT-TAACAAAATCTTGAGTGCACGATGC----TATGTGC-TCGATGCAT-AAATGCATTC
1 TTTCAAAC-AAACCTGGAGTGCACGATGCATGGTATATGCATCGATGCATAAAATGCATTC
790633 AAAATGGGGT
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
58 10 0.09
59 8 0.08
60 6 0.06
64 9 0.08
65 73 0.69
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (64 bp):
TTTCAAACAAACCTGGAGTGCACGATGCATGGTATATGCATCGATGCATAAAATGCATTCGATG
Found at i:792709 original size:23 final size:23
Alignment explanation
Indices: 792669--792747 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 23
792659 CATGGCAGTG
*
792669 TGCATCGATAG-ACATTCAAGGAA
1 TGCATCGAT-GCATATTCAAGGAA
* * *
792692 TGCATCGGTGCATCTTC-ATG-A
1 TGCATCGATGCATATTCAAGGAA
*
792713 TGTATCGATGCATATTCAAGGAA
1 TGCATCGATGCATATTCAAGGAA
792736 TGCATCGATGCA
1 TGCATCGATGCA
792748 CTGAATAGTG
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
21 15 0.34
22 5 0.11
23 24 0.55
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (23 bp):
TGCATCGATGCATATTCAAGGAA
Found at i:792730 original size:44 final size:43
Alignment explanation
Indices: 792682--792768 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 43
792672 ATCGATAGAC
* **
792682 ATTCAAGGAATGCATCGGTGCATCTTCAT-GATGTATCGATGCAT
1 ATTCAAGGAATGCATCGATGCA-CTGAATAG-TGTATCGATGCAT
792726 ATTCAAGGAATGCATCGATGCACTGAATAGTGTATCGATGCAT
1 ATTCAAGGAATGCATCGATGCACTGAATAGTGTATCGATGCAT
792769 TATGCACAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 17 0.44
44 22 0.56
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
ATTCAAGGAATGCATCGATGCACTGAATAGTGTATCGATGCAT
Found at i:796593 original size:20 final size:21
Alignment explanation
Indices: 796552--796592 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
796542 AAGACTATTT
796552 TCATTTTTCAATTTTGAAAAA
1 TCATTTTTCAATTTTGAAAAA
**
796573 TCATTTTTGTATTTTGAAAA
1 TCATTTTTCAATTTTGAAAA
796593 TAAAGTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAAAA
Found at i:798584 original size:65 final size:64
Alignment explanation
Indices: 798515--798690 Score: 203
Period size: 65 Copynumber: 2.7 Consensus size: 64
798505 TGGAAGACAT
* * * * *
798515 AGTGCATCGATACACTAGGGGTGCATCGATACATAAAATGCAGTCGATGTTTCAA-ACAAGCCTG
1 AGTGCATCGATGCA-TAGGTGTGCATCGATGCATAAAATGCATTCGATGTTTCAACAAAAGCCTG
* * *
798579 AAGTGCATCGATGCAT-GGTATGTGCATCGATGCATAAAATGCATTTGATGTTTTAACAAAATCC
1 -AGTGCATCGATGCATAGG--TGTGCATCGATGCATAAAATGCATTCGATGTTTCAACAAAAGCC
798643 TG
63 TG
* * *
798645 AGTGCATCTATGCATAGCTGTGCATCGATGTATAAAATGCATTCGA
1 AGTGCATCGATGCATAGGTGTGCATCGATGCATAAAATGCATTCGA
798691 AATGGGGTGT
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
63 2 0.02
64 27 0.28
65 58 0.61
66 8 0.08
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (64 bp):
AGTGCATCGATGCATAGGTGTGCATCGATGCATAAAATGCATTCGATGTTTCAACAAAAGCCTG
Found at i:799594 original size:21 final size:20
Alignment explanation
Indices: 799546--799594 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
799536 AAAAATAAAT
* *
799546 TAAATAAAATATAAAATTAA
1 TAAATTAAATATAAAACTAA
* *
799566 GAACTTAAATCATAAAACTAA
1 TAAATTAAAT-ATAAAACTAA
799587 TAAATTAA
1 TAAATTAA
799595 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (20 bp):
TAAATTAAATATAAAACTAA
Found at i:799809 original size:12 final size:13
Alignment explanation
Indices: 799765--799807 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
799755 TTCTTTAATT
799765 ATTTAAATTTTATAA
1 ATTTAAA-TTT-TAA
*
799780 ATTTAAA-TTCAA
1 ATTTAAATTTTAA
799792 ATTTAAATTTTAA
1 ATTTAAATTTTAA
799805 ATT
1 ATT
799808 AACTCAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 9 0.36
13 9 0.36
15 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTAAATTTTAA
Found at i:802863 original size:44 final size:44
Alignment explanation
Indices: 802800--802884 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
802790 GTGGTTAAAC
* ** *
802800 GGTCGATTTTTTTAAAAAAATTTCAATGAAACTTGTCACGCAAT
1 GGTCGATTTTTTAAAAAAAAACTCAATGAAACTCGTCACGCAAT
802844 GGTCGATTTTTTAAAAAAAAACTCAATGAAACTCGTCACGC
1 GGTCGATTTTTTAAAAAAAAACTCAATGAAACTCGTCACGC
802885 CGGTGTGACG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (44 bp):
GGTCGATTTTTTAAAAAAAAACTCAATGAAACTCGTCACGCAAT
Found at i:806593 original size:2 final size:2
Alignment explanation
Indices: 806588--806657 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
806578 ACACACACAC
806588 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
806630 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
806658 TAGATAAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:807294 original size:18 final size:18
Alignment explanation
Indices: 807271--807305 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
807261 GGGAGATGTT
807271 ATTATTATAAAA-AATATA
1 ATTATT-TAAAATAATATA
807289 ATTATTTAAAATAATAT
1 ATTATTTAAAATAATAT
807306 TTAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTATTTAAAATAATATA
Found at i:811188 original size:21 final size:19
Alignment explanation
Indices: 811151--811188 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
811141 TGAATTTTGG
811151 TTAAACACAATTTTTTTTA
1 TTAAACACAATTTTTTTTA
*
811170 TTAAACACACATTTGTTTT
1 TTAAACACA-ATTTTTTTT
811189 GTTTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (19 bp):
TTAAACACAATTTTTTTTA
Found at i:812173 original size:21 final size:21
Alignment explanation
Indices: 812140--812186 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
812130 AATTTTATTT
* *
812140 AAAGGTGATTTTAAATTCATG
1 AAAGATGACTTTAAATTCATG
*
812161 AAAGATGACTTTAAATTCATT
1 AAAGATGACTTTAAATTCATG
812182 AAAGA
1 AAAGA
812187 GAACGACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (21 bp):
AAAGATGACTTTAAATTCATG
Found at i:818138 original size:189 final size:191
Alignment explanation
Indices: 817904--818277 Score: 734
Period size: 189 Copynumber: 2.0 Consensus size: 191
817894 AATGTTACAA
817904 ATAGCTATTTCCTCACTCAAAAGAAGCTTTCTCCCAAGTAAACTTGTTGGCAAGAGTTCCTTGCT
1 ATAGCTATTTCCTCACTCAAAAGAAGCTTTCTCCCAAGTAAACTTGTTGGCAAGAGTTCCTTGCT
817969 GAGTTTGACTTTTTCATAGAGTACAAGCCTGGAAAGGTGAACTGTGTTGT-GATGGCTTAAGCCG
66 GAGTTTGACTTTTTCATAGAGTACAAGCCTGGAAAGGTGAACTGTGTTGTGGATGGCTTAAGCCG
818033 GAGGTATACCATCGAGATGATGGA-GGTTATTTGCTCCATAGAATCAAGGAAGGGTACTCT
131 GAGGTATACCATCGAGATGATGGAGGGTTATTTGCTCCATAGAATCAAGGAAGGGTACTCT
818093 ATAGCTATTTCCTCACTCAAAAGAAGCTTTCTCCCAAGTAAACTTGTTGGCAAGAGTTCCTTGCT
1 ATAGCTATTTCCTCACTCAAAAGAAGCTTTCTCCCAAGTAAACTTGTTGGCAAGAGTTCCTTGCT
818158 GAGTTTGACTTTTTCATAGAGTACAAGCCTGGAAAGGTGAACTGTGTTGTGGATGGCTTAAGCCG
66 GAGTTTGACTTTTTCATAGAGTACAAGCCTGGAAAGGTGAACTGTGTTGTGGATGGCTTAAGCCG
818223 GAGGTATACCATCGAGATGATGGAGGGTTATTTGCTCCATAGAATCAAGGAAGGG
131 GAGGTATACCATCGAGATGATGGAGGGTTATTTGCTCCATAGAATCAAGGAAGGG
818278 CAATATGGAA
Statistics
Matches: 183, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
189 115 0.63
190 38 0.21
191 30 0.16
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (191 bp):
ATAGCTATTTCCTCACTCAAAAGAAGCTTTCTCCCAAGTAAACTTGTTGGCAAGAGTTCCTTGCT
GAGTTTGACTTTTTCATAGAGTACAAGCCTGGAAAGGTGAACTGTGTTGTGGATGGCTTAAGCCG
GAGGTATACCATCGAGATGATGGAGGGTTATTTGCTCCATAGAATCAAGGAAGGGTACTCT
Found at i:822797 original size:34 final size:30
Alignment explanation
Indices: 822759--822827 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
822749 TCGATATAAC
*
822759 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTATTTGGACTT-AATTG
822793 AATTT-ACAAAATGTATTTGGACTTAATTG
1 AATTTAACAAAATGTATTTGGACTTAATTG
822822 AATTTA
1 AATTTA
822828 TTCAAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.30
30 11 0.33
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.41
Consensus pattern (30 bp):
AATTTAACAAAATGTATTTGGACTTAATTG
Found at i:822835 original size:31 final size:31
Alignment explanation
Indices: 822768--822827 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
822758 CAATTTAAGG
*
822768 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
822799 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
822828 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:841206 original size:2 final size:2
Alignment explanation
Indices: 841187--841254 Score: 115
Period size: 2 Copynumber: 35.5 Consensus size: 2
841177 CCGTATACCC
841187 AT AT -T AT A- AT AT -T 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
841226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
841255 CAATAAAGCT
Statistics
Matches: 63, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 60 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:841415 original size:95 final size:95
Alignment explanation
Indices: 841245--841505 Score: 328
Period size: 95 Copynumber: 2.7 Consensus size: 95
841235 TATATATATA
* * *
841245 TATATATATACAATAAAGCTTGAGCTT-TCCCTCTAAAGCAATTGGTTAAACGCCCCGCCTCTAT
1 TATA-ATATACAATAAAGCTTGAG-TTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTAT
*
841309 GGATAAGATTCAGCTATCCTGATAAAGGCGAT
64 GGATAAGATTCAGCTAGCCTGATAAAGGCGAT
* *
841341 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTAGTTAAGCGCCCCGACTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGG
* * *
841406 ATGATATTCAGCTAGCCTGATAAAGGTGAT
66 ATAAGATTCAGCTAGCCTGATAAAGGCGAT
** * * *
841436 TATAATAT-CTATATAATGATATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTCGGCTTT
1 TATAATATAC-A-ATAA--AGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTT
841500 ATGGAT
62 ATGGAT
841506 TCAGCTAGCC
Statistics
Matches: 144, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
94 3 0.02
95 88 0.61
96 8 0.06
98 45 0.31
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (95 bp):
TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGG
ATAAGATTCAGCTAGCCTGATAAAGGCGAT
Found at i:842165 original size:18 final size:18
Alignment explanation
Indices: 842144--842193 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
842134 TTCCTTTGAT
*
842144 TTATTTAATATTTATTTC
1 TTATTTAATATTTATTTA
842162 TTATTTAATATTTATTTA
1 TTATTTAATATTTATTTA
*
842180 TTATTTATTATTTA
1 TTATTTAATATTTA
842194 ATATTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTAATATTTATTTA
Found at i:842173 original size:25 final size:25
Alignment explanation
Indices: 842145--842199 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
842135 TCCTTTGATT
*
842145 TATTTA-ATATTTATTTCTTATTTAA
1 TATTTATATA-TTATTTATTATTTAA
*
842170 TATTTATTTATTATTTATTATTTAA
1 TATTTATATATTATTTATTATTTAA
842195 TATTT
1 TATTT
842200 TTTACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTTATATATTATTTATTATTTAA
Found at i:843277 original size:15 final size:16
Alignment explanation
Indices: 843244--843275 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
843234 ATAATTTGAT
843244 ATTTTTTTATTCTAAA
1 ATTTTTTTATTCTAAA
843260 ATTTTTTTATTCTAAA
1 ATTTTTTTATTCTAAA
843276 TTCAGTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTTTATTCTAAA
Found at i:843693 original size:56 final size:59
Alignment explanation
Indices: 843627--843745 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 59
843617 GTTGCTTTAA
*
843627 TATTTAAATGATGAG-AT-T-ACTTTATATTTGCTTTAGTACATGAGACTTTTTAAAGG
1 TATTTAAATGATGAGAATATGACTTTATATTTACTTTAGTACATGAGACTTTTTAAAGG
* *
843683 TATTTGAATGATGAGATAATATGATTTTATATTTACTTTAGTACATGAGACTTTTTAAAGG
1 TATTTAAATGATGAG--AATATGACTTTATATTTACTTTAGTACATGAGACTTTTTAAAGG
843744 TA
1 TA
843746 AGGGTGTTGA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
56 14 0.25
59 2 0.04
60 1 0.02
61 38 0.69
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.45
Consensus pattern (59 bp):
TATTTAAATGATGAGAATATGACTTTATATTTACTTTAGTACATGAGACTTTTTAAAGG
Found at i:844522 original size:14 final size:14
Alignment explanation
Indices: 844499--844531 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
844489 AAGTAAATTA
844499 CTCC-ATTTTCTTT
1 CTCCTATTTTCTTT
844512 CTCCTATTTTCTTT
1 CTCCTATTTTCTTT
*
844526 TTCCTA
1 CTCCTA
844532 ATCAAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (14 bp):
CTCCTATTTTCTTT
Found at i:846783 original size:103 final size:103
Alignment explanation
Indices: 846604--846802 Score: 362
Period size: 103 Copynumber: 1.9 Consensus size: 103
846594 AAAACAACAC
*
846604 AATGAATCAACAAAAGCTCAGGTTACTATTCAATTCAAAAAGGTGTTGACCAAGACAACATCCTG
1 AATGAATCAACAAAAGCTCAGGTTACTATTCAATTCAAAAAGATGTTGACCAAGACAACATCCTG
* *
846669 CCCTGTATTGTTTGTTTATAGTTGGGACAAGAGCTATA
66 CCCTGAATTGTTTGTTTATAGTCGGGACAAGAGCTATA
846707 AATGAATCAACAAAAGCTCAGGTTACTATTCAATTCAAAAAGATGTTGACCAAGACAACATCCTG
1 AATGAATCAACAAAAGCTCAGGTTACTATTCAATTCAAAAAGATGTTGACCAAGACAACATCCTG
*
846772 CCCTGAATTGTTTGTTTATGGTCGGGACAAG
66 CCCTGAATTGTTTGTTTATAGTCGGGACAAG
846803 GGCCATAACA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (103 bp):
AATGAATCAACAAAAGCTCAGGTTACTATTCAATTCAAAAAGATGTTGACCAAGACAACATCCTG
CCCTGAATTGTTTGTTTATAGTCGGGACAAGAGCTATA
Found at i:852431 original size:12 final size:12
Alignment explanation
Indices: 852414--852441 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
852404 GAAAGTCAAC
852414 GGTCAACGGTCG
1 GGTCAACGGTCG
852426 GGTCAACGGTCG
1 GGTCAACGGTCG
852438 GGTC
1 GGTC
852442 GGGTCAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.43, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:852485 original size:20 final size:19
Alignment explanation
Indices: 852443--852494 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
852433 GGTCGGGTCG
* *
852443 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAAACC
*
852462 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AAACC
*
852482 GGTCAAATCGGTT
1 GGTCAAACCGGTT
852495 TTCCAGCAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (19 bp):
GGTCAAACCGGTTCAAACC
Found at i:854808 original size:21 final size:20
Alignment explanation
Indices: 854722--854879 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
854712 AAATGACCAA
**
854722 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
854741 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
854761 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
854781 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
854802 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
854823 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
854843 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
854864 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
854880 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:854872 original size:20 final size:20
Alignment explanation
Indices: 854847--855040 Score: 196
Period size: 20 Copynumber: 9.7 Consensus size: 20
854837 GATTTTCCAG
** *
854847 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
*
854867 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
* *
854887 AATCGCAACGCGTAGT-TGTA
1 AATCGCAACGCG-AATCCGTA
* *
854907 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
854927 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
854947 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
854967 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
854987 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
*
855008 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
855028 AATCGCAACGCGA
1 AATCGCAACGCGA
855041 TTTTTAAAGC
Statistics
Matches: 146, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
19 1 0.01
20 127 0.87
21 18 0.12
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:854930 original size:60 final size:60
Alignment explanation
Indices: 854847--855039 Score: 230
Period size: 60 Copynumber: 3.2 Consensus size: 60
854837 GATTTTCCAG
* ** * * *
854847 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTAGT-TGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTAAATCGCAACGCGTA-TCCGTA
* * *
854907 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACGTAAATCGCAACGCGTATCCGTA
* *
854967 TATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGTAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGAACACGT-AAATCGCAACGCGTATCCGTA
855028 AATCGCAACGCG
1 AATCGCAACGCG
855040 ATTTTTAAAG
Statistics
Matches: 113, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
59 2 0.02
60 77 0.68
61 34 0.30
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTAAATCGCAACGCGTATCCGTA
Found at i:855458 original size:33 final size:33
Alignment explanation
Indices: 855419--855489 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
855409 TTCACTTATA
855419 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
855452 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
855485 TTTCA
1 TTTCA
855490 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Done.