Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold414
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: 2018024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 13
Found at i:522 original size:13 final size:13
Alignment explanation
Indices: 504--529 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
494 ACAAAGATCC
504 ATGTATCGATACA
1 ATGTATCGATACA
517 ATGTATCGATACA
1 ATGTATCGATACA
530 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:525 original size:33 final size:33
Alignment explanation
Indices: 483--549 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
473 AAAATTTCCA
***
483 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
516 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
549 A
1 A
550 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:593 original size:19 final size:18
Alignment explanation
Indices: 569--632 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
559 CAGTAGCTAA
569 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
588 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
603 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
620 TTATGTATCGATA
1 TTATGTATCGATA
633 GAAATCGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:609 original size:13 final size:13
Alignment explanation
Indices: 591--615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
581 ACAATACTTA
591 TGTATCGATACAT
1 TGTATCGATACAT
604 TGTATCGATACA
1 TGTATCGATACA
616 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:613 original size:32 final size:32
Alignment explanation
Indices: 572--632 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
562 TAGCTAATTA
*
572 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
604 TGTATCGATACAAAACTTATGTATCGATA
1 TGTATCGATACAAAACTTATGTATCGATA
633 GAAATCGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1526 original size:34 final size:33
Alignment explanation
Indices: 1483--1549 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
1473 AACTTCCTAG
* *
1483 ATGTATCGATACAAAGAATAGATGTATTGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
1517 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
1550 TTCCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:2263 original size:61 final size:60
Alignment explanation
Indices: 2074--2655 Score: 745
Period size: 61 Copynumber: 9.9 Consensus size: 60
2064 GACTAAAAAC
* *
2074 TGCCACCAACTCGTGTGGGCTTT----GA-AAGGCGTCCTGCTCTTTGAGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAA-G
* * * *
2129 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGG-GTCCCGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAG
*
2188 TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGATTGGGAAG
1 TGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAG
* *
2249 TGCCACCAACTTGTGTGGGCTTT-AAA-AG--GG-GTCCTGCTCTTTGGGGAC-GGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAA-G
* * * * * * *
2304 TGCCACCAATTTGTGTGGGCTTTGAAAGAAAAGGCATCCCGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAG
* *
2364 TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCTTGCTCTTTGAGGACTGGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCCTGCTCTTTGAGGACTGGG-AAG
2426 TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAG
1 TGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAG
* *
2487 TGCCAACAACTTGTGTGGGCTTT---A-A-AAGGTGTCCTGCTCTTTGAGGACT--GAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAA-G
* *
2541 TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATTCTGCTCTTTGAGGACTGGGAAG
1 TGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAG
*
2602 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTTGAGGACT
2656 TAAAAGTTAG
Statistics
Matches: 466, Mismatches: 35, Indels: 47
0.85 0.06 0.09
Matches are distributed among these distances:
53 3 0.01
54 27 0.06
55 84 0.18
56 6 0.01
57 2 0.00
58 3 0.01
59 50 0.11
60 102 0.22
61 126 0.27
62 63 0.14
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (60 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAG
Found at i:2370 original size:115 final size:117
Alignment explanation
Indices: 2048--2655 Score: 774
Period size: 115 Copynumber: 5.2 Consensus size: 117
2038 GAGTGAAATA
* * * *
2048 GGTCTTGCTCCTTGAGGACT-AAAAACTGCCACCAACTCGTGTGGGCTTT-----GA-AAGGCGT
1 GGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
*
2106 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
65 CCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG---AG
*
2162 GGTCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTC
1 GGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTC
*
2227 CTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-G
66 CTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAG
* * * * * *
2278 GGTCCTGCTCTTTGGGGAC-GGAAAGGTGCCACCAATTTGTGTGGGCTTTGAAA-GAAAAGGCAT
1 GGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
* * *
2341 CCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
65 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAA--AG-AG
*
2398 GCGTCTTGCTCTTTGAGGACTGGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 G-GTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
*
2463 TCCTGCTCTTTGAGGACTGGGAAGTGCCAACAACTTGTGTGGGCTTTAAAAG-G
64 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAG
* ** * *
2516 TGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATT
1 GGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTC
2580 CTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
66 CTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG---AG
2635 GCGTCCTGCTCTTTGAGGACT
1 G-GTCCTGCTCTTTGAGGACT
2656 TAAAAGTTAG
Statistics
Matches: 434, Mismatches: 37, Indels: 40
0.85 0.07 0.08
Matches are distributed among these distances:
114 39 0.09
115 148 0.34
116 46 0.11
117 18 0.04
118 3 0.01
119 3 0.01
120 75 0.17
121 19 0.04
122 28 0.06
123 55 0.13
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (117 bp):
GGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTC
CTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAG
Found at i:2486 original size:238 final size:236
Alignment explanation
Indices: 2098--2655 Score: 915
Period size: 238 Copynumber: 2.4 Consensus size: 236
2088 GTGGGCTTTG
*
2098 AAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
*
2162 G-GTCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
65 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
* *
2226 CCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGGTCCTGCTCTTT
130 CCTGCTCTTTGAGGACTGGGAAGTGCCAACAACTTGTGTGGGCTTTAAAAGGGGTCCTGCTCTTT
* * *
2291 GGGGACGGAAAGGTGCCACCAATTTGTGTGGGCTTTGAAA-GA
195 GAGGACGG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
2333 AAAGGCATCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAG
*
2398 GCGTCTTGCTCTTTGAGGACTGGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
65 GCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
*
2463 TCCTGCTCTTTGAGGACTGGGAAGTGCCAACAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTT
129 TCCTGCTCTTTGAGGACTGGGAAGTGCCAACAACTTGTGTGGGCTTTAAAAGGGGTCCTGCTCTT
*
2528 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
194 TGAGGACGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
2571 GAAGGCATTCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGG
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGG
2636 CGTCCTGCTCTTTGAGGACT
66 CGTCCTGCTCTTTGAGGACT
2656 TAAAAGTTAG
Statistics
Matches: 298, Mismatches: 20, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
235 50 0.17
236 10 0.03
237 71 0.24
238 167 0.56
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (236 bp):
AAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGG
CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTC
CTGCTCTTTGAGGACTGGGAAGTGCCAACAACTTGTGTGGGCTTTAAAAGGGGTCCTGCTCTTTG
AGGACGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:2687 original size:13 final size:13
Alignment explanation
Indices: 2669--2695 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2659 AAGTTAGGGG
2669 TACCTTACTTGGA
1 TACCTTACTTGGA
2682 TACCTTACTTGGA
1 TACCTTACTTGGA
2695 T
1 T
2696 GACTTTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (13 bp):
TACCTTACTTGGA
Found at i:3663 original size:13 final size:13
Alignment explanation
Indices: 3649--3702 Score: 60
Period size: 12 Copynumber: 4.4 Consensus size: 13
3639 TTTTTCTTTG
*
3649 TTTTGTTTTTTTG
1 TTTTGTTTTTTTC
3662 TTTT-TTTTTTTC
1 TTTTGTTTTTTTC
*
3674 CTTT-TTTTTTTC
1 TTTTGTTTTTTTC
*
3686 TTTTGCTTTTTT-
1 TTTTGTTTTTTTC
3698 TTTTG
1 TTTTG
3703 AAGAGAAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
12 26 0.72
13 10 0.28
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (13 bp):
TTTTGTTTTTTTC
Found at i:3671 original size:12 final size:12
Alignment explanation
Indices: 3623--3689 Score: 62
Period size: 12 Copynumber: 5.3 Consensus size: 12
3613 CTTAAGTAGG
3623 TTTTTTCTTTTCTC
1 TTTTTT-TTTT-TC
* * *
3637 TCTTTTTCTTTG
1 TTTTTTTTTTTC
*
3649 TTTTGTTTTTTTG
1 TTTT-TTTTTTTC
3662 TTTTTTTTTTTC
1 TTTTTTTTTTTC
*
3674 CTTTTTTTTTTC
1 TTTTTTTTTTTC
3686 TTTT
1 TTTT
3690 GCTTTTTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
12 25 0.57
13 14 0.32
14 5 0.11
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:3672 original size:29 final size:29
Alignment explanation
Indices: 3623--3701 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
3613 CTTAAGTAGG
* *
3623 TTTTTTCTTTT-C-TCTCTTTTT-CTTTGT
1 TTTTTTCTTTTGCTTTTTTTTTTCCTTT-T
*
3650 TTTGTTT-TTTTGTTTTTTTTTTTCCTTTT
1 TTT-TTTCTTTTGCTTTTTTTTTTCCTTTT
3679 TTTTTTCTTTTGCTTTTTTTTTT
1 TTTTTTCTTTTGCTTTTTTTTTT
3702 GAAGAGAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
27 7 0.16
28 6 0.14
29 26 0.60
30 4 0.09
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (29 bp):
TTTTTTCTTTTGCTTTTTTTTTTCCTTTT
Found at i:3682 original size:17 final size:17
Alignment explanation
Indices: 3662--3701 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3652 TGTTTTTTTG
3662 TTTTTTT-TTTTCCTTT
1 TTTTTTTCTTTTCCTTT
*
3678 TTTTTTTCTTTTGCTTT
1 TTTTTTTCTTTTCCTTT
3695 TTTTTTT
1 TTTTTTT
3702 GAAGAGAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.88
Consensus pattern (17 bp):
TTTTTTTCTTTTCCTTT
Found at i:3690 original size:37 final size:40
Alignment explanation
Indices: 3622--3698 Score: 106
Period size: 37 Copynumber: 2.0 Consensus size: 40
3612 GCTTAAGTAG
*
3622 GTTTTTTCTTTTCTCTCTTTTTCTTTGTTTTG-TTTTTTT
1 GTTTTTTCTTTTCTCTCTTTTTCTTTCTTTTGCTTTTTTT
* *
3661 GTTTTTTTTTTTC-CT-TTTTTTTTTCTTTTGCTTTTTTT
1 GTTTTTTCTTTTCTCTCTTTTTCTTTCTTTTGCTTTTTTT
3699 TTTGAAGAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 13 0.38
38 9 0.26
39 12 0.35
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (40 bp):
GTTTTTTCTTTTCTCTCTTTTTCTTTCTTTTGCTTTTTTT
Found at i:3695 original size:15 final size:14
Alignment explanation
Indices: 3623--3699 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
3613 CTTAAGTAGG
*
3623 TTTTTTCTTTTCTCT
1 TTTTTTCTTTTGT-T
*
3638 CTTTTTC-TTTGTT
1 TTTTTTCTTTTGTT
*
3651 TTGTTT-TTTTGTT
1 TTTTTTCTTTTGTT
*
3664 TTTTTT-TTTCCTTTT
1 TTTTTTCTTT--TGTT
3679 TTTTTTCTTTTGCTT
1 TTTTTTCTTTTG-TT
3694 TTTTTT
1 TTTTTT
3700 TTGAAGAGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
13 19 0.38
14 5 0.10
15 23 0.46
16 3 0.06
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (14 bp):
TTTTTTCTTTTGTT
Found at i:9386 original size:17 final size:17
Alignment explanation
Indices: 9364--9397 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9354 ACATCGATTC
*
9364 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
9381 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
9398 CTTACCTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Found at i:16302 original size:52 final size:50
Alignment explanation
Indices: 16239--16410 Score: 166
Period size: 52 Copynumber: 3.3 Consensus size: 50
16229 GAAATAACGA
*
16239 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGT-TTTTTAGAAATAAAATCG
** * **
16290 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTT-GAAAATAAAATCG
1 G-GTTGGAGTATCCCCGATT-GTGAAAAATTGGTTTTTTAG-AAATAAAATCG
* * ** *
16342 GGATTGGAGTATCCCCGATTGTGGAAAAAATTAGTGTTTTAGCGATAAAACCGG
1 GG-TTGGAGTATCCCCGATTGT-G-AAAAATTGGTTTTTTAGAAATAAAATC-G
16396 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
16411 TCAAAAATAA
Statistics
Matches: 99, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
51 3 0.03
52 51 0.52
53 41 0.41
54 4 0.04
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTTTTTTAGAAATAAAATCG
Found at i:16402 original size:53 final size:52
Alignment explanation
Indices: 16239--16579 Score: 195
Period size: 53 Copynumber: 6.5 Consensus size: 52
16229 GAAATAACGA
* *
16239 GGTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGT-GTTTTAGAAATAAAATCGG
* ** *
16291 AGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCGTTTT-GAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-GTGGAAAAATTGGTGTTTTAG-AAATAAAATCGG
* * ** *
16343 GATTGGAGTATCCCCGATTGTGGAAAAAATTAGTGTTTTAGCGATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGG-AAAAATTGGTGTTTTAGAAATAAAATCGG
* * * ** * *
16396 GGTTGGAGTATCCCC-----T-CAAAAATAACGGGGTTGGAGTATCCCCGATGATTAA-CGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAAT--TGGTGTTTTAG-A-----AAT-A-AAATCGG
*
16451 GGTTGGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAA-AAATTGGTG--TTTTAGAAATAAAATCGG
* * * * *
16505 AGTTAGAGTATCCCCGATTATAG-AAAATTAGTGTTTT-GAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAG-AAATAAAATCGG
* *
16556 AGTTGGAATATCCCCGATTGTGGA
1 GGTTGGAGTATCCCCGATTGTGGA
16580 GAATTGAGAA
Statistics
Matches: 221, Mismatches: 40, Indels: 56
0.70 0.13 0.18
Matches are distributed among these distances:
46 6 0.03
48 7 0.03
50 1 0.00
51 38 0.17
52 50 0.23
53 53 0.24
54 28 0.13
55 22 0.10
56 2 0.01
59 3 0.01
60 4 0.02
61 7 0.03
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAGAAATAAAATCGG
Found at i:16456 original size:27 final size:27
Alignment explanation
Indices: 16384--16468 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
16374 AGTGTTTTAG
*
16384 CGATAAA-ACCGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
* *
16410 CTCAAAAATAACGGGGTTGGAGTATCCC
1 C-GATAAATAACGGGGTTGGAGTATCCC
* *
16438 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
16465 CGAT
1 CGAT
16469 TGTGAAGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.02
27 30 0.60
28 19 0.38
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:16533 original size:213 final size:213
Alignment explanation
Indices: 16175--16579 Score: 618
Period size: 213 Copynumber: 1.9 Consensus size: 213
16165 AGAAGAAAAA
* ** *
16175 AAAATCGGGATTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGGATCCCCGATGAAATAACGAG
1 AAAACCGGGATTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGGATCCCCGATGAAATAACGAG
* *
16240 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTGGAGTATCCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTAGAGTATCCC
* *
16305 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAATCGG-GATTGGAGTATCCCCGATTGTGGAAA
131 CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAATCGGAG-TTGGAATATCCCCGATTGTGGAAA
16369 AAATTAGTGTTTTAGCGAT
195 AAATTAGTGTTTTAGCGAT
* * * *
16388 AAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGG
1 AAAACCGGGATTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGGATCCCCGATGAAATAACGAG
* *
16452 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATC
66 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTAGAAATAAAATCGGAGTTAGAGTATC
* *
16517 CCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
129 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
16580 GAATTGAGAA
Statistics
Matches: 173, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
212 29 0.17
213 105 0.61
214 39 0.23
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (213 bp):
AAAACCGGGATTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGGATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTAGAGTATCCC
CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGAAAA
AATTAGTGTTTTAGCGAT
Found at i:16552 original size:51 final size:53
Alignment explanation
Indices: 16456--16574 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
16446 AACGGGGTTG
* * *
16456 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
16510 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
16561 GAATATCCCCGATT
1 GAGTATCCCCGATT
16575 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:18400 original size:17 final size:17
Alignment explanation
Indices: 18378--18411 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18368 ATGGAATAGT
18378 GTTTTTCTTTGTTTTTG
1 GTTTTTCTTTGTTTTTG
* *
18395 GTTTTTTTTTTTTTTTG
1 GTTTTTCTTTGTTTTTG
18412 CTAAAGGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (17 bp):
GTTTTTCTTTGTTTTTG
Found at i:18950 original size:13 final size:13
Alignment explanation
Indices: 18932--18957 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18922 ACAAAGATCC
18932 ATGTATCGATACA
1 ATGTATCGATACA
18945 ATGTATCGATACA
1 ATGTATCGATACA
18958 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:18953 original size:33 final size:33
Alignment explanation
Indices: 18911--18977 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
18901 AAAATTTCCA
***
18911 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
18944 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
18977 A
1 A
18978 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:19021 original size:19 final size:18
Alignment explanation
Indices: 18997--19064 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
18987 CAGTAGCTAA
18997 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
19016 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
19031 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
19048 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
19065 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:19037 original size:13 final size:13
Alignment explanation
Indices: 19019--19043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19009 ACAATACTTA
19019 TGTATCGATACAT
1 TGTATCGATACAT
19032 TGTATCGATACA
1 TGTATCGATACA
19044 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:19041 original size:32 final size:32
Alignment explanation
Indices: 19000--19062 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
18990 TAGCTAATTA
*
19000 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
19032 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
19063 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:19400 original size:10 final size:11
Alignment explanation
Indices: 19368--19401 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
19358 TAATGGAATA
19368 GTGTTTTTTTGT
1 GTGTTTTTTT-T
19380 GTGTTTTTTTT
1 GTGTTTTTTTT
19391 G-GTTTTTTTT
1 GTGTTTTTTTT
19401 G
1 G
19402 CTAAAGGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
11 2 0.09
12 10 0.45
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (11 bp):
GTGTTTTTTTT
Found at i:19949 original size:34 final size:33
Alignment explanation
Indices: 19906--19972 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
19896 AACTTCCTAG
* *
19906 ATGTATCGATACAAAGAATAGATGTATTGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
19940 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
19973 TTCCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:20121 original size:21 final size:21
Alignment explanation
Indices: 20095--20174 Score: 99
Period size: 21 Copynumber: 3.8 Consensus size: 21
20085 GTTGGGACCC
***
20095 TGTATCGATACATTTGTGGAA
1 TGTATCGATACATTTGACAAA
**
20116 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTTGACAAA
20137 TGTATCGATACATTCT-ACAAA
1 TGTATCGATACATT-TGACAAA
20158 TGTATCGATACATTTGA
1 TGTATCGATACATTTGA
20175 AAGCTTATCA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
20 1 0.02
21 50 0.98
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTTGACAAA
Found at i:20632 original size:32 final size:30
Alignment explanation
Indices: 20596--20654 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
20586 GAAAACAAAT
20596 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
20628 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
20655 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:20930 original size:20 final size:20
Alignment explanation
Indices: 20905--20956 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
20895 TACAAGCCAA
** *
20905 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
20925 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
20944 TGTATCGATACAA
1 TGTATCGATACAA
20957 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:20962 original size:19 final size:18
Alignment explanation
Indices: 20905--20962 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
20895 TACAAGCCAA
*
20905 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
20925 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
20944 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
20963 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:23030 original size:21 final size:20
Alignment explanation
Indices: 23001--23043 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
22991 GACTAGTGTG
**
23001 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCATGACCT
*
23022 GGGAGTGCCGGTCATGACCT
1 GGGACTGCCGGTCATGACCT
23042 GG
1 GG
23044 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.26, G:0.42, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCATGACCT
Found at i:23493 original size:13 final size:13
Alignment explanation
Indices: 23475--23512 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
23465 ATAATCCCCC
23475 TGTATCGATACAG
1 TGTATCGATACAG
*
23488 TGTATCGATACAT
1 TGTATCGATACAG
23501 TGTATCGATACA
1 TGTATCGATACA
23513 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:27452 original size:21 final size:21
Alignment explanation
Indices: 27423--27467 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27413 AAGTTTTTAT
*
27423 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
27443 TTTTCATTAGCCAACTTCCTTA
1 TTTTC-TTAGCCAACTTCATTA
27465 TTT
1 TTT
27468 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.22, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:29384 original size:32 final size:30
Alignment explanation
Indices: 29348--29406 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
29338 GAAAACAAAT
29348 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
29380 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
29407 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:29705 original size:13 final size:13
Alignment explanation
Indices: 29687--29712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29677 CAATTTTTTA
29687 TGTATCGATACAT
1 TGTATCGATACAT
29700 TGTATCGATACAT
1 TGTATCGATACAT
29713 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:39507 original size:20 final size:19
Alignment explanation
Indices: 39482--39552 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
39472 ACCCTGAAAA
39482 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
39502 GTATCGATACATATTGCAT
1 GTATCGATACACATTAAAT
**
39521 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
39542 GTATCGATACA
1 GTATCGATACA
39553 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:39605 original size:53 final size:53
Alignment explanation
Indices: 39522--39658 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
39512 ATATTGCATA
39522 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
39576 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
39629 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
39659 TTGGTAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:39733 original size:21 final size:21
Alignment explanation
Indices: 39708--39748 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
39698 TTCATCATTG
*
39708 TTCATGTATCGATACATCACC
1 TTCATGTATCAATACATCACC
39729 TTCATGTATCAATACATCAC
1 TTCATGTATCAATACATCAC
39749 TGTTCACACT
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:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (21 bp):
TTCATGTATCAATACATCACC
Found at i:39830 original size:13 final size:13
Alignment explanation
Indices: 39812--39836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39802 TCACTATTCA
39812 TGTATCGATACAG
1 TGTATCGATACAG
39825 TGTATCGATACA
1 TGTATCGATACA
39837 TCATAAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:44384 original size:21 final size:20
Alignment explanation
Indices: 44340--44411 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
44330 ATTTGCCTGC
44340 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
* **
44360 ATGTATCGATTCATCTGGGTA
1 ATGTATCGATACAT-TGAATA
* *
44381 ATGTATCGATACAATGAATC
1 ATGTATCGATACATTGAATA
*
44401 ATGTATTGATA
1 ATGTATCGATA
44412 TAAAACTTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:51232 original size:28 final size:28
Alignment explanation
Indices: 51191--51264 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
51181 TTCTCAAAGC
*
51191 CCACTAGTTAGTGGCACCTCTACGAAGT
1 CCACAAGTTAGTGGCACCTCTACGAAGT
* * * *
51219 CCACAAGTCAGTGGTACCTTTTCGAAGT
1 CCACAAGTTAGTGGCACCTCTACGAAGT
*
51247 CCATAA-TTAGTGGCACCT
1 CCACAAGTTAGTGGCACCT
51265 GCTATATATA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 10 0.26
28 28 0.74
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (28 bp):
CCACAAGTTAGTGGCACCTCTACGAAGT
Found at i:51582 original size:32 final size:32
Alignment explanation
Indices: 51451--51722 Score: 230
Period size: 32 Copynumber: 8.3 Consensus size: 32
51441 TTCTCAAAAA
* * *
51451 CCCATACAAATTGTGGCAACCTTTCCTTTCAAAAG
1 CCCACACAAGTTGTGGCAACC-TT-C-TTCCAAAG
* * * *
51486 CCCACACAAGTCGGTAGCAACCTTTTTTCAAAG
1 CCCACACAAGT-TGTGGCAACCTTCTTCCAAAG
* **
51519 CCCACACAAGCTAGTGGCAATATT-TTCCCAAAG
1 CCCACACAAG-TTGTGGCAACCTTCTT-CCAAAG
51552 CCCACACAAGTTGTGGCAACCTTCTTCCAAAG
1 CCCACACAAGTTGTGGCAACCTTCTTCCAAAG
* * *
51584 CCCATACAAGTTGGTGGCAACCTTC-TCTAATG
1 CCCACACAAGTT-GTGGCAACCTTCTTCCAAAG
*
51616 CCCACACAAGCTGGTGGCAACCTTCTT-CAAAG
1 CCCACACAAG-TTGTGGCAACCTTCTTCCAAAG
* * * *
51648 CTCATACAAGTTAGTGGCAACCTT-TTCTAAAC
1 CCCACACAAGTT-GTGGCAACCTTCTTCCAAAG
* * *
51680 CCCACACAAGTCGGTGGCAACCTT-GTCAAAAG
1 CCCACACAAGT-TGTGGCAACCTTCTTCCAAAG
51712 CCCACACAAGT
1 CCCACACAAGT
51723 CAGTGCCATC
Statistics
Matches: 194, Mismatches: 33, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
31 3 0.02
32 116 0.60
33 55 0.28
34 1 0.01
35 11 0.06
36 8 0.04
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (32 bp):
CCCACACAAGTTGTGGCAACCTTCTTCCAAAG
Found at i:51654 original size:64 final size:64
Alignment explanation
Indices: 51451--51727 Score: 272
Period size: 64 Copynumber: 4.2 Consensus size: 64
51441 TTCTCAAAAA
* * * * *
51451 CCCATACAAATT-GTGGCAACCTTTCCTTTCAAAAGCCCACACAAGTCGGTAGCAACCTTTTTTC
1 CCCATACAAGTTAGTGGCAACC-TT-C--TCTAAAGCCCACACAAGT-GGTGGCAACCTTCTTCC
51515 AAAG
61 AAAG
* * ** * * *
51519 CCCACACAAGCTAGTGGCAATATTTTCCCAAAGCCCACACAAGTTGTGGCAACCTTCTTCCAAAG
1 CCCATACAAGTTAGTGGCAACCTTCT-CTAAAGCCCACACAAGTGGTGGCAACCTTCTTCCAAAG
* *
51584 CCCATACAAGTTGGTGGCAACCTTCTCTAATGCCCACACAAGCTGGTGGCAACCTTCTT-CAAAG
1 CCCATACAAGTTAGTGGCAACCTTCTCTAAAGCCCACACAAG-TGGTGGCAACCTTCTTCCAAAG
* * * * *
51648 CTCATACAAGTTAGTGGCAACCTTTTCTAAACCCCACACAAGTCGGTGGCAACCTT-GTCAAAAG
1 CCCATACAAGTTAGTGGCAACCTTCTCTAAAGCCCACACAAGT-GGTGGCAACCTTCTTCCAAAG
* *
51712 CCCACACAAGTCAGTG
1 CCCATACAAGTTAGTG
51728 CCATCTCTTT
Statistics
Matches: 174, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
63 2 0.01
64 85 0.49
65 53 0.30
66 16 0.09
68 11 0.06
69 7 0.04
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (64 bp):
CCCATACAAGTTAGTGGCAACCTTCTCTAAAGCCCACACAAGTGGTGGCAACCTTCTTCCAAAG
Found at i:51869 original size:52 final size:53
Alignment explanation
Indices: 51798--52052 Score: 203
Period size: 52 Copynumber: 4.7 Consensus size: 53
51788 TATCTCTTTC
* * *
51798 TAAGTCTAATGTCGCTGGCCTTGAATTAGCACATTGGCATATTTTTCTTTC-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATATTTTTCTTTCTT
* * *** * *
51850 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTC-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATATTTTTCTTTCTT
* * * *
51902 TAAGTCCAATATCGCTGGCCTTGTATCAGCATATCGACACCTTTATCATTCTTCTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----TAT--TT-TTCTT-TCTT
** ** * *
51963 TAAGTCCAATATCATTGGCCTTGAATCAGCACATTGGCA-CCTTGTC-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATATTTTTCTTTCTT
* * *
52014 TAAGCCCAATATCGCTGGCCTTGAATCAGGATATTGGCA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
52053 CTTTTATCAT
Statistics
Matches: 159, Mismatches: 34, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
51 40 0.25
52 73 0.46
53 2 0.01
54 2 0.01
56 1 0.01
58 2 0.01
59 2 0.01
61 37 0.23
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATATTTTTCTTTCTT
Found at i:51992 original size:61 final size:60
Alignment explanation
Indices: 51897--52202 Score: 215
Period size: 61 Copynumber: 5.2 Consensus size: 60
51887 CGCCTTTGTC
* * *
51897 ATCTTTAAGTCCAATATCGCTGGCCTTGTATCAGCATATCGACACCTTTATCATTCTTCTT
1 ATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATCGGCA-CTTTATCATTCTTCTT
* * * *
51958 ATCTTTAAGTCCAATATCATTGGCCTTGAATCAGCACATTGGCAC-----C-TT-GTC--
1 ATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATCGGCACTTTATCATTCTTCTT
* * * *
52009 ATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGGATATTGGCACTTTTATCATTC-TCTT
1 ATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATCGGCAC-TTTATCATTCTTCTT
* * * * * **
52069 CATCTTCAAG-CTCGATATCATTGGCCGTGAATCAGCATATC-GCATTTTCATCATTCTTCGC
1 -ATCTTTAAGTC-CAATATCGTTGGCCTTGAATCAGCATATCGGCACTTT-ATCATTCTTCTT
* * ** * * * * * *
52130 ATCTTTAAATCCAATATCGTTGACCTCAAATCAGCATGTTGGGACTCTTCTC-TTCTTATC
1 ATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATCGGCACT-TTATCATTCTTCTT
52190 ATCTTTAAGTCCA
1 ATCTTTAAGTCCA
52203 GTGTTGCAGG
Statistics
Matches: 190, Mismatches: 38, Indels: 35
0.72 0.14 0.13
Matches are distributed among these distances:
51 40 0.21
53 2 0.01
54 2 0.01
55 1 0.01
57 1 0.01
58 4 0.02
59 3 0.02
60 58 0.31
61 77 0.41
62 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (60 bp):
ATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATCGGCACTTTATCATTCTTCTT
Found at i:52059 original size:112 final size:113
Alignment explanation
Indices: 51842--52105 Score: 367
Period size: 112 Copynumber: 2.4 Consensus size: 113
51832 TGGCATATTT
* * *
51842 TTCTT-TC-TTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAA
1 TTCTTATCTTTAAGTCCAATATCATTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAA
* *
51905 GTCCAATATCGCTGGCCTTGTATCAGCATATCGACACCTTTATCATTC
66 GCCCAATATCGCTGGCCTTGAATCAGCATATCGACACCTTTATCATTC
51953 TTCTTATCTTTAAGTCCAATATCATTGGCCTTGAATCAGCACATTGGCACC-TTGTCATCTTTAA
1 TTCTTATCTTTAAGTCCAATATCATTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAA
* * * *
52017 GCCCAATATCGCTGGCCTTGAATCAGGATATTGGCACTTTTATCATTC
66 GCCCAATATCGCTGGCCTTGAATCAGCATATCGACACCTTTATCATTC
* * *
52065 -TCTTCATCTTCAAG-CTCGATATCATTGGCCGTGAATCAGCA
1 TTCTT-ATCTTTAAGTC-CAATATCATTGGCCTTGAATCAGCA
52106 TATCGCATTT
Statistics
Matches: 137, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
111 10 0.07
112 88 0.64
113 39 0.28
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (113 bp):
TTCTTATCTTTAAGTCCAATATCATTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAA
GCCCAATATCGCTGGCCTTGAATCAGCATATCGACACCTTTATCATTC
Found at i:52882 original size:34 final size:34
Alignment explanation
Indices: 52860--52941 Score: 137
Period size: 34 Copynumber: 2.4 Consensus size: 34
52850 TACAAACAGT
* *
52860 AAATGTATCGATACTATATATCGATATATGCCTA
1 AAATGTATCGATACTATATATCGATACATACCTA
*
52894 AAATGTATCGATACTATGTATCGATACATACCTA
1 AAATGTATCGATACTATATATCGATACATACCTA
52928 AAATGTATCGATAC
1 AAATGTATCGATAC
52942 AAAACCACAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (34 bp):
AAATGTATCGATACTATATATCGATACATACCTA
Found at i:52914 original size:13 final size:13
Alignment explanation
Indices: 52896--52920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52886 TATGCCTAAA
52896 ATGTATCGATACT
1 ATGTATCGATACT
52909 ATGTATCGATAC
1 ATGTATCGATAC
52921 ATACCTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACT
Found at i:53034 original size:20 final size:21
Alignment explanation
Indices: 52989--53043 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
52979 CATAAATAAA
52989 TGTATCGATACATTTACTATT
1 TGTATCGATACATTTACTATT
*
53010 TGTATCGATACA-TTATTCA-T
1 TGTATCGATACATTTACT-ATT
53030 TGTATCGATACATT
1 TGTATCGATACATT
53044 CTTGGTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATTTACTATT
Found at i:59873 original size:74 final size:74
Alignment explanation
Indices: 59752--59899 Score: 251
Period size: 74 Copynumber: 2.0 Consensus size: 74
59742 TAAGATTACA
59752 AAGTGAAATCATGGCAAAAACATAAGCAAAAGTTGACTCTTTGATTAAGCCAATTCAACTTATCC
1 AAGTGAAATCATGGCAAAAACATAAGCAAAAGTTGACTCTTTGATTAAGCCAATTCAACTTATCC
59817 TTGGGAGAT
66 TTGGGAGAT
* ** * *
59826 AAGTGAAATCATGGCCAAAACATAAGTTAAAGTTGAGTCTTTGATTAATCCAATTCAACTTATCC
1 AAGTGAAATCATGGCAAAAACATAAGCAAAAGTTGACTCTTTGATTAAGCCAATTCAACTTATCC
59891 TTGGGAGAT
66 TTGGGAGAT
59900 CCTTCTGAGA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (74 bp):
AAGTGAAATCATGGCAAAAACATAAGCAAAAGTTGACTCTTTGATTAAGCCAATTCAACTTATCC
TTGGGAGAT
Found at i:75249 original size:40 final size:41
Alignment explanation
Indices: 75173--75255 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 41
75163 AAGAAGATAG
* *
75173 AACACGTAAAGATAAAAATACACAAATGTGTTTGTGTCTAAT
1 AACACGTAAAGATAAAAACACACAAA-GTGTCTGTGTCTAAT
75215 AACACGTAAAGATAAAAACACACAAA-TGTCTGTGTCTAAT
1 AACACGTAAAGATAAAAACACACAAAGTGTCTGTGTCTAAT
75255 A
1 A
75256 CACAAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 14 0.36
42 25 0.64
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.25
Consensus pattern (41 bp):
AACACGTAAAGATAAAAACACACAAAGTGTCTGTGTCTAAT
Found at i:77886 original size:21 final size:21
Alignment explanation
Indices: 77845--77886 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
77835 ATATTAACAT
*
77845 AAAATATATATAAGTACGATA
1 AAAATATATATAAATACGATA
*
77866 AAAAT-TATTATAAATATGATA
1 AAAATATA-TATAAATACGATA
77887 CCATCATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAATATATATAAATACGATA
Found at i:78643 original size:30 final size:30
Alignment explanation
Indices: 78609--78694 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 30
78599 TTAAATTATA
** *
78609 TTAAGTATTTATTTAGGTATGAATTAAAGT
1 TTAAGTATTTATTTAGGTACAAATTAAAGG
* *
78639 TTAAG-GTTTATTTGGGTACAAATTAAAGG
1 TTAAGTATTTATTTAGGTACAAATTAAAGG
* *
78668 TTAAATATTTATTT-GATACAAATTAAA
1 TTAAGTATTTATTTAGGTACAAATTAAA
78695 TATCAAGAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 35 0.74
30 12 0.26
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (30 bp):
TTAAGTATTTATTTAGGTACAAATTAAAGG
Found at i:78954 original size:14 final size:16
Alignment explanation
Indices: 78932--78968 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
78922 TTTTTTTAGA
*
78932 TAATGTATTTA-AAG-
1 TAATTTATTTACAAGT
78946 TAATTTATTTACAAGT
1 TAATTTATTTACAAGT
78962 TAATTTA
1 TAATTTA
78969 AGATCCATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (16 bp):
TAATTTATTTACAAGT
Found at i:79290 original size:29 final size:30
Alignment explanation
Indices: 79235--79291 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
79225 AAAATAAGAG
79235 CTTATTTAGATATAAATAAAAATATAAAAA
1 CTTATTTAGATATAAATAAAAATATAAAAA
*
79265 CTTATTT-GAGTAT-AATAAAAGTATAAA
1 CTTATTTAGA-TATAAATAAAAATATAAA
79292 GGCTAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (30 bp):
CTTATTTAGATATAAATAAAAATATAAAAA
Found at i:85883 original size:32 final size:32
Alignment explanation
Indices: 85817--85885 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
85807 AATTCTATTA
* *
85817 AATAATTATCAAATAATTATTTAATTTACTAG
1 AATAATTATCAAATAATTATTTAATTAACAAG
*
85849 AATATTTATCAAAT-ATTATCTTAA-TAACCAAG
1 AATAATTATCAAATAATTAT-TTAATTAA-CAAG
85881 AATAA
1 AATAA
85886 AATTCAACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
31 7 0.23
32 24 0.77
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (32 bp):
AATAATTATCAAATAATTATTTAATTAACAAG
Found at i:89644 original size:58 final size:57
Alignment explanation
Indices: 89549--89778 Score: 259
Period size: 58 Copynumber: 4.0 Consensus size: 57
89539 CAAAGTGATC
* * * *
89549 CCTAGATTAT-ATAAAATAAACTAAGTTG-CCCTAAAATGATGGAATTTTATAAAATGA
1 CCTAGATTATGA-AAAATAACCTAA-ATGACCCTAAAATGATGAAATTTTCTAAAATGA
* * *
89606 CCTTAAATTATGAAAAATAACCTAAATGACCCTAAAATGATGAAACTTTCTAAAATGCC
1 CC-TAGATTATGAAAAATAACCTAAATGACCCTAAAATGATGAAATTTTCTAAAATG-A
* * * * *
89665 CCTAGATTATGTAAAATAACTTAAAT-AGTCTTAAAATAATGAAATTTTCTAAAATGA
1 CCTAGATTATGAAAAATAACCTAAATGA-CCCTAAAATGATGAAATTTTCTAAAATGA
* * *
89722 CCTAGATTATGAAAAATAATCTAAATGACACTAAAATGATAAAATTTTCTAAAATGA
1 CCTAGATTATGAAAAATAACCTAAATGACCCTAAAATGATGAAATTTTCTAAAATGA
89779 TGAAAATTTC
Statistics
Matches: 144, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
57 52 0.36
58 89 0.62
59 3 0.02
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (57 bp):
CCTAGATTATGAAAAATAACCTAAATGACCCTAAAATGATGAAATTTTCTAAAATGA
Found at i:89661 original size:29 final size:29
Alignment explanation
Indices: 89577--89778 Score: 87
Period size: 29 Copynumber: 7.0 Consensus size: 29
89567 AACTAAGTTG
* * *
89577 CCCTAAAATGATGGAATTTTATAAAATGA
1 CCCTAAAATGATGAAAATTTCTAAAATGA
* * **
89606 -CCTTAAATTATGAAAAATAACCT-AAATGA
1 CCCTAAAATGATG-AAAAT-TTCTAAAATGA
* *
89635 CCCTAAAATGATGAAACTTTCTAAAATGC
1 CCCTAAAATGATGAAAATTTCTAAAATGA
* * ** *
89664 CCCT-AGATTATGTAAAATAACTTAAAT-A
1 CCCTAAAATGATG-AAAATTTCTAAAATGA
* * * *
89692 GTCTTAAAATAATGAAATTTTCTAAAATGA
1 -CCCTAAAATGATGAAAATTTCTAAAATGA
* * *
89722 -CCT-AGATTATGAAAAATAATCT-AAATGA
1 CCCTAAAATGATG-AAAAT-TTCTAAAATGA
*
89750 CACTAAAATGAT-AAAATTTTCTAAAATGA
1 CCCTAAAATGATGAAAA-TTTCTAAAATGA
89779 TGAAAATTTC
Statistics
Matches: 122, Mismatches: 37, Indels: 28
0.65 0.20 0.15
Matches are distributed among these distances:
27 6 0.05
28 37 0.30
29 56 0.46
30 23 0.19
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (29 bp):
CCCTAAAATGATGAAAATTTCTAAAATGA
Found at i:89772 original size:28 final size:27
Alignment explanation
Indices: 89696--89774 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 27
89686 TAAATAGTCT
* *
89696 TAAAATAATGAAATTTTCTAAAATGACC
1 TAAAATGATAAAATTTTCT-AAATGACC
* **
89724 TAGATTATGA-AAAATAATCTAAATGACAC
1 TA-A-AATGATAAAATTTTCTAAATGAC-C
89753 TAAAATGATAAAATTTTCTAAA
1 TAAAATGATAAAATTTTCTAAA
89775 ATGATGAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
27 4 0.10
28 21 0.54
29 11 0.28
30 3 0.08
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.32
Consensus pattern (27 bp):
TAAAATGATAAAATTTTCTAAATGACC
Found at i:89773 original size:18 final size:18
Alignment explanation
Indices: 89752--89796 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
89742 CTAAATGACA
89752 CTAAAATGAT-AAAATTTT
1 CTAAAATGATGAAAA-TTT
89770 CTAAAATGATGAAAATTT
1 CTAAAATGATGAAAATTT
89788 CTAAAATGA
1 CTAAAATGA
89797 CCATAGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (18 bp):
CTAAAATGATGAAAATTT
Found at i:89775 original size:115 final size:116
Alignment explanation
Indices: 89548--89777 Score: 320
Period size: 115 Copynumber: 2.0 Consensus size: 116
89538 GCAAAGTGAT
* * * *
89548 CCCTAGATTATATAAAATAAACTAAGTTGCCCTAAAATGATGGAATTTTATAAAATGACCTTAAA
1 CCCTAGATTATATAAAATAAACTAAATAGCCCTAAAATAATGAAATTTTATAAAATGACCTTAAA
* *
89613 TTATGAAAAATAACCTAAATGACCCTAAAATGATGAAACTTTCTAAAATGC
66 TTATGAAAAATAACCTAAATGACACTAAAATGATAAAACTTTCTAAAATGC
* * * * *
89664 CCCTAGATTATGTAAAAT-AACTTAAATAGTCTTAAAATAATGAAATTTTCTAAAATGACC-TAG
1 CCCTAGATTATATAAAATAAAC-TAAATAGCCCTAAAATAATGAAATTTTATAAAATGACCTTAA
* *
89727 ATTATGAAAAATAATCTAAATGACACTAAAATGATAAAATTTTCTAAAATG
65 ATTATGAAAAATAACCTAAATGACACTAAAATGATAAAACTTTCTAAAATG
89778 ATGAAAATTT
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
115 52 0.52
116 48 0.48
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.31
Consensus pattern (116 bp):
CCCTAGATTATATAAAATAAACTAAATAGCCCTAAAATAATGAAATTTTATAAAATGACCTTAAA
TTATGAAAAATAACCTAAATGACACTAAAATGATAAAACTTTCTAAAATGC
Found at i:89786 original size:76 final size:75
Alignment explanation
Indices: 89696--89854 Score: 214
Period size: 76 Copynumber: 2.1 Consensus size: 75
89686 TAAATAGTCT
* *
89696 TAAAATAATGAAATTTTCTAAAATGACC-TAGATTATGAAAAATAATCTAAAT-GACACTAAAAT
1 TAAAATGATGAAA-TTTCTAAAATGACCATAGATTATGAAAAATAACCTAAATGGAC-CTAAAAT
*
89759 GATAAAATTTTC
64 AATAAAATTTTC
* * * *
89771 TAAAATGATGAAAATTTCTAAAATGACCATAGATTATGCAAAATTACCTAAATGGTCTTAAAATA
1 TAAAATGATG-AAATTTCTAAAATGACCATAGATTATGAAAAATAACCTAAATGGACCTAAAATA
89836 ATAAAATTTTC
65 ATAAAATTTTC
89847 TAAAATGA
1 TAAAATGA
89855 CCCAAAAATA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
75 23 0.31
76 49 0.66
77 2 0.03
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (75 bp):
TAAAATGATGAAATTTCTAAAATGACCATAGATTATGAAAAATAACCTAAATGGACCTAAAATAA
TAAAATTTTC
Found at i:90679 original size:7 final size:7
Alignment explanation
Indices: 90667--90712 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
90657 AGAAAAAAGC
90667 TTTCTCT
1 TTTCTCT
90674 TTTCTCT
1 TTTCTCT
90681 CTTT-TC-
1 -TTTCTCT
90687 TTTCTCT
1 TTTCTCT
*
90694 TTTCCCT
1 TTTCTCT
*
90701 TTTTTCT
1 TTTCTCT
90708 TTTCT
1 TTTCT
90713 TATCTCTTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 24 0.75
8 3 0.09
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCTCT
Found at i:90691 original size:20 final size:20
Alignment explanation
Indices: 90666--90719 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
90656 TAGAAAAAAG
90666 CTTTCTCTTTTCTCTCTTTT
1 CTTTCTCTTTTCTCTCTTTT
* *
90686 CTTTCTCTTTTCCCTTTTTT
1 CTTTCTCTTTTCTCTCTTTT
*
90706 CTTT-TCTTATCTCT
1 CTTTCTCTTTTCTCT
90720 TGCTTGAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.69
Consensus pattern (20 bp):
CTTTCTCTTTTCTCTCTTTT
Found at i:92448 original size:56 final size:55
Alignment explanation
Indices: 92388--92590 Score: 199
Period size: 56 Copynumber: 3.7 Consensus size: 55
92378 CTTTTACTTA
* * * ** *
92388 GAGCTATACCTACCGACTACTCTTAGGCTTTCTCATTTTGCTATTAATTTCAACTG
1 GAGCTATACCTACCAACTACTCTTGGGCTTTCTCATCTTG-TGCTAATTTCAAATG
* * * * * *
92444 GAGCTATTCTTACCAACTATTCTTGGGCTTTATCATCTTGTGCCAATTTCAAATA
1 GAGCTATACCTACCAACTACTCTTGGGCTTTCTCATCTTGTGCTAATTTCAAATG
* * * * * * **
92499 GAGCTATGCCTACTAGCTATTTTTGGGGTTTCTCATCTTGGTGCTAATTTCAGTTG
1 GAGCTATACCTACCAACTACTCTTGGGCTTTCTCATCTT-GTGCTAATTTCAAATG
*
92555 GAGCTATACCTACCAACTACTTTTGGGCTTTCTCAT
1 GAGCTATACCTACCAACTACTCTTGGGCTTTCTCAT
92591 TTAGGTGTGG
Statistics
Matches: 118, Mismatches: 28, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
55 42 0.36
56 76 0.64
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (55 bp):
GAGCTATACCTACCAACTACTCTTGGGCTTTCTCATCTTGTGCTAATTTCAAATG
Found at i:98131 original size:20 final size:20
Alignment explanation
Indices: 98106--98160 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
98096 CTTTCAATTT
*
98106 TATGTATCGATACAATTGAG
1 TATGTATCGATACAATTGAA
98126 TATGTATCGATACAA-TGAA
1 TATGTATCGATACAATTGAA
*
98145 CATGTATCGATACAAT
1 TATGTATCGATACAAT
98161 GTATCGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
TATGTATCGATACAATTGAA
Found at i:98164 original size:13 final size:13
Alignment explanation
Indices: 98146--98172 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98136 TACAATGAAC
98146 ATGTATCGATACA
1 ATGTATCGATACA
98159 ATGTATCGATACA
1 ATGTATCGATACA
98172 A
1 A
98173 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:99152 original size:15 final size:15
Alignment explanation
Indices: 99129--99160 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
99119 CTAATCCTAT
*
99129 GACTTATCGTCACTA
1 GACTCATCGTCACTA
99144 GACTCATCGTCACTA
1 GACTCATCGTCACTA
99159 GA
1 GA
99161 GGAAAAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (15 bp):
GACTCATCGTCACTA
Found at i:119027 original size:15 final size:14
Alignment explanation
Indices: 119009--119097 Score: 92
Period size: 15 Copynumber: 6.1 Consensus size: 14
118999 CGTCCTCCGC
*
119009 AAAAAAAAAGACAA
1 AAAAAAAAAAACAA
119023 AAAAAACAAAAACAGA
1 AAAAAA-AAAAACA-A
*
119039 AAACAAAAAAAC--
1 AAAAAAAAAAACAA
*
119051 AAAAACAAAAACAA
1 AAAAAAAAAAACAA
119065 AAACAACAAAAAACAA
1 AAA-AA-AAAAAACAA
119081 AAAGAAAAAAAACAA
1 AAA-AAAAAAAACAA
119096 AA
1 AA
119098 CAACAAAAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
12 10 0.16
14 9 0.14
15 25 0.40
16 19 0.30
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:119035 original size:6 final size:6
Alignment explanation
Indices: 119024--119106 Score: 75
Period size: 6 Copynumber: 13.8 Consensus size: 6
119014 AAAAGACAAA
*
119024 AAAAAC AAAAAC AGAAAAC AAAAAAAC AAAAAC AAAAAC AAAAAC -AACA-
1 AAAAAC AAAAAC A-AAAAC --AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
* *
119073 AAAAAC AAAAAG AAAAA- AAACAA- AACAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAA-AAC AAAAAC AAAAA
119107 GGGTCCACAT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
5 11 0.17
6 43 0.66
7 5 0.08
8 5 0.08
9 1 0.02
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:119044 original size:22 final size:21
Alignment explanation
Indices: 119008--119106 Score: 121
Period size: 21 Copynumber: 4.6 Consensus size: 21
118998 GCGTCCTCCG
119008 CAAAAA-AAAAGACAAAAAAAA
1 CAAAAACAAAA-ACAAAAAAAA
119029 CAAAAACAGAAAAC-AAAAAAA
1 CAAAAACA-AAAACAAAAAAAA
*
119050 CAAAAACAAAAACAAAAACAA
1 CAAAAACAAAAACAAAAAAAA
*
119071 CAAAAAACAAAAAGAAAAAAAA
1 C-AAAAACAAAAACAAAAAAAA
119093 CAAAACAACAAAAA
1 C-AAA-AACAAAAA
119107 GGGTCCACAT
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
20 5 0.07
21 28 0.40
22 26 0.37
23 11 0.16
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (21 bp):
CAAAAACAAAAACAAAAAAAA
Found at i:119059 original size:36 final size:35
Alignment explanation
Indices: 119009--119106 Score: 110
Period size: 36 Copynumber: 2.7 Consensus size: 35
118999 CGTCCTCCGC
* *
119009 AAAAAAAAAGACAAAAAAAACAAAAACAGAAAACA
1 AAAAAAAAAAACAAAAAAAACAAAAACAAAAAACA
*
119044 AAAAAACAAAAACAAAAACAAA-AACAACAAAAAACA
1 AAAAAA-AAAAACAAAAA-AAACAAAAACAAAAAACA
*
119080 AAAAGAAAAAAA-ACAAAACAACAAAAA
1 AAAA-AAAAAAACA-AAAAAAACAAAAA
119107 GGGTCCACAT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
35 9 0.17
36 39 0.74
37 5 0.09
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (35 bp):
AAAAAAAAAAACAAAAAAAACAAAAACAAAAAACA
Found at i:119106 original size:1 final size:1
Alignment explanation
Indices: 119009--119097 Score: 52
Period size: 1 Copynumber: 89.0 Consensus size: 1
118999 CGTCCTCCGC
* * * * * * * * * * *
119009 AAAAAAAAAGACAAAAAAAACAAAAACAGAAAACAAAAAAACAAAAACAAAAACAAAAACAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
119074 AAAACAAAAAGAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAA
119098 CAACAAAAAG
Statistics
Matches: 60, Mismatches: 28, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:120174 original size:37 final size:37
Alignment explanation
Indices: 120133--120214 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
120123 CACAATCATG
120133 CATTTGTGACATTCATAACATTTCATTTTGCATGATA
1 CATTTGTGACATTCATAACATTTCATTTTGCATGATA
*
120170 CATTTGTGACATTCATAACATTTCATTTTGCATGATG
1 CATTTGTGACATTCATAACATTTCATTTTGCATGATA
120207 CATTTGTG
1 CATTTGTG
120215 CTTTATCTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (37 bp):
CATTTGTGACATTCATAACATTTCATTTTGCATGATA
Found at i:120192 original size:18 final size:18
Alignment explanation
Indices: 120133--120192 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
120123 CACAATCATG
120133 CATTTGTGACATTCATAA
1 CATTTGTGACATTCATAA
* **
120151 CA-TT-TCATTTTGCATGATA
1 CATTTGTGACATT-CAT-A-A
120170 CATTTGTGACATTCATAA
1 CATTTGTGACATTCATAA
120188 CATTT
1 CATTT
120193 CATTTTGCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
16 4 0.13
17 5 0.16
18 9 0.29
19 4 0.13
20 5 0.16
21 4 0.13
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (18 bp):
CATTTGTGACATTCATAA
Found at i:120621 original size:29 final size:29
Alignment explanation
Indices: 120580--120900 Score: 274
Period size: 28 Copynumber: 11.3 Consensus size: 29
120570 CTCACCTTCC
* * *
120580 AAAGCCCATAAGTCAATGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
*
120609 AAAGCCTACAAGTCAGTGGCACCCTTTTC-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
* *
120638 AAAGCCCATAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* * *
120667 AAAGCCTA-AAGTTAATGGCACCTTTTC-
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
120694 AAAGCCCACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* * *
120722 AAAGCCCATACGTTAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* * *
120750 AAAGTCCACAAGTCAGTGGCATCATTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* *
120779 AAAGCTCACAAGTTAGTGGCACCTTTTC-
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* *
120807 AAAGCCCACAAGTCAGGGGCA-ATCTTT--
1 AAAGCCCACAAGTCAGTGGCACCT-TTTCA
*
120834 AAAGCCCACAAGGCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* ** *
120862 AAAGCACACAAGTTGGT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
120891 AAAGCCCACA
1 AAAGCCCACA
120901 TAAGTTGGTG
Statistics
Matches: 238, Mismatches: 39, Indels: 30
0.78 0.13 0.10
Matches are distributed among these distances:
26 2 0.01
27 37 0.16
28 107 0.45
29 86 0.36
30 6 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCA
Found at i:120710 original size:56 final size:57
Alignment explanation
Indices: 120579--120833 Score: 320
Period size: 56 Copynumber: 4.5 Consensus size: 57
120569 CCTCACCTTC
* * *
120579 CAAAGCCCATAAGTCAATGGCATCTTTTCAAAAGCCTACAAGTCAGTGGCACCCTTTT
1 CAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCTACAAGTTAGTGGCA-CCTTTT
* *
120637 CAAAGCCCATAAGTCAGTGGCATCTTTTCAAAAGCCTA-AAGTTAATGGCACCTTTT
1 CAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCTACAAGTTAGTGGCACCTTTT
* * * * *
120693 CAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCATACGTTAGTGGCAACC-TTT
1 CAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCTACAAGTTAGTGGC-ACCTTTT
* * *
120749 AAAAGTCCACAAGTCAGTGGCATCATTTCAAAAG-CTCACAAGTTAGTGGCACCTTTT
1 CAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCT-ACAAGTTAGTGGCACCTTTT
*
120806 CAAAGCCCACAAGTCAGGGGCAATCTTT
1 CAAAGCCCACAAGTCAGTGGC-ATCTTT
120834 AAAGCCCACA
Statistics
Matches: 171, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
55 11 0.06
56 65 0.38
57 53 0.31
58 42 0.25
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (57 bp):
CAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCTACAAGTTAGTGGCACCTTTT
Found at i:120740 original size:113 final size:113
Alignment explanation
Indices: 120579--120874 Score: 364
Period size: 112 Copynumber: 2.6 Consensus size: 113
120569 CCTCACCTTC
* * * * * * *
120579 CAAAGCCCATAAGTCAATGGCATCTTTTCAAAAGCCTACAAGTCAGTGGCACCCTTTTCAAAGCC
1 CAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAACC-TTTAAAAGCC
* *
120644 CATAAGTCAGTGGCATCTTTTCAAAAGC-CTA-AAGTTAATGGCACCTTTT
64 CACAAGTCAGTGGCATCATTTCAAAAGCTC-ACAAGTTAATGGCACCTTTT
* * * *
120693 CAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCATACGTTAGTGGCAACCTTTAAAAGTCCA
1 CAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCA
*
120758 CAAGTCAGTGGCATCATTTCAAAAGCTCACAAGTTAGTGGCACCTTTT
66 CAAGTCAGTGGCATCATTTCAAAAGCTCACAAGTTAATGGCACCTTTT
* * * * * *
120806 CAAAGCCCACAAGTCAGGGGCAATCTT-TAAAGCCCACAAGGCAGTGGCAACCTTCAAAAGCACA
1 CAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCA
120870 CAAGT
66 CAAGT
120875 TGGTGCAACC
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
112 69 0.44
113 66 0.42
114 21 0.13
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (113 bp):
CAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCA
CAAGTCAGTGGCATCATTTCAAAAGCTCACAAGTTAATGGCACCTTTT
Found at i:121042 original size:52 final size:49
Alignment explanation
Indices: 120922--121114 Score: 235
Period size: 49 Copynumber: 3.9 Consensus size: 49
120912 CATCTTTTTC
*
120922 TAAGTCCAATATTGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTT
* * * *
120971 TAAGTCCAATATCGATGGCCTTGAATTAGCATATTGGCACCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTAGCACC--T-TCATCTT
* * *
121023 TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTT
* * * *
121072 TAAGTCGAAAATCACTGGTCC-TGAATCAGCATATTAGCACCTT
1 TAAGTCCAATATCGCTGG-CCTTGAATCAGCACATTAGCACCTT
121115 TATCACTCTT
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
49 77 0.63
50 3 0.02
51 1 0.01
52 42 0.34
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTT
Found at i:121049 original size:101 final size:102
Alignment explanation
Indices: 120935--121124 Score: 287
Period size: 101 Copynumber: 1.9 Consensus size: 102
120925 GTCCAATATT
* * *
120935 GCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATATCGA-TGG-CCTTGAATT
1 GCTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAAAATC-ACTGGTCC-TGAATC
* *
120998 AGCATATTGGCACCTTTGTCA-TCTTTAAGTCTAATGTC
64 AGCATATTAGCACCTTTATCACTCTTTAAGTCTAATGTC
*
121036 GCTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCGAAAATCACTGGTCCTGAATCAG
1 GCTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAAAATCACTGGTCCTGAATCAG
121101 CATATTAGCACCTTTATCACTCTT
66 CATATTAGCACCTTTATCACTCTT
121125 CTCATCCTTA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
100 1 0.01
101 73 0.91
102 6 0.08
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (102 bp):
GCTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAAAATCACTGGTCCTGAATCAG
CATATTAGCACCTTTATCACTCTTTAAGTCTAATGTC
Found at i:121828 original size:20 final size:20
Alignment explanation
Indices: 121805--121864 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
121795 AAATGTATTA
121805 ATACATTATTCAATGTATCG
1 ATACATTATTCAATGTATCG
121825 ATAC---A-T---TGTATCG
1 ATACATTATTCAATGTATCG
121838 ATACATTATTCAATGTATCG
1 ATACATTATTCAATGTATCG
121858 ATACATT
1 ATACATT
121865 GTATCGATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
13 11 0.33
16 2 0.06
17 2 0.06
20 18 0.55
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
ATACATTATTCAATGTATCG
Found at i:121836 original size:13 final size:13
Alignment explanation
Indices: 121818--121874 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
121808 CATTATTCAA
121818 TGTATCGATACAT
1 TGTATCGATACAT
121831 TGTATCGATACA-
1 TGTATCGATACAT
*
121843 T-TAT---T-CAA
1 TGTATCGATACAT
121851 TGTATCGATACAT
1 TGTATCGATACAT
121864 TGTATCGATAC
1 TGTATCGATAC
121875 GTTGATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 3 0.08
11 3 0.08
12 2 0.05
13 25 0.68
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:121896 original size:33 final size:33
Alignment explanation
Indices: 121805--121874 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
121795 AAATGTATTA
121805 ATACATTATTCAATGTATCGATACATTGTATCG
1 ATACATTATTCAATGTATCGATACATTGTATCG
121838 ATACATTATTCAATGTATCGATACATTGTATCG
1 ATACATTATTCAATGTATCGATACATTGTATCG
121871 ATAC
1 ATAC
121875 GTTGATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (33 bp):
ATACATTATTCAATGTATCGATACATTGTATCG
Found at i:128639 original size:97 final size:96
Alignment explanation
Indices: 128472--128711 Score: 363
Period size: 97 Copynumber: 2.5 Consensus size: 96
128462 ATTTTTATTT
* **
128472 ATCGGGGATACTCCAACCCTATTCCTCCGAGGGGATACTCCAACTCTGCTTTTAAACACATCAAA
1 ATCGGGGATACTCCAACCC-ATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAA
128537 GTTTAAATCTTATTCTCACTTAAATTGTCATC
65 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* * *
128569 GTCGGGGATACTTCAACTCCATTCCTCCAAGGGGATACTCCAACCCCACTTTTAAACACATCAAA
1 ATCGGGGATACTCCAAC-CCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAA
*
128634 GTTTAAATTTTATTCTCACTTAAATTGTCATC
65 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* * *
128666 ATTGAGGATACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCC
1 ATCGGGGATACTCCAA-CCCATTCCTCCGAGGGGATACTCCAACCC
128712 TGGTTTTCAA
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
97 125 0.98
98 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (96 bp):
ATCGGGGATACTCCAACCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAG
TTTAAATCTTATTCTCACTTAAATTGTCATC
Found at i:142443 original size:8 final size:8
Alignment explanation
Indices: 142430--142495 Score: 64
Period size: 8 Copynumber: 8.1 Consensus size: 8
142420 CTTTATATCT
142430 AAAAAAAC
1 AAAAAAAC
142438 AAAAAAAC
1 AAAAAAAC
*
142446 AAAAAAAAATT
1 --AAAAAAA-C
142457 AAAAAAAC
1 AAAAAAAC
142465 AAAAAAAC
1 AAAAAAAC
*
142473 -AAAGAA-
1 AAAAAAAC
*
142479 AAAATAAC
1 AAAAAAAC
142487 AAAAAAAC
1 AAAAAAAC
142495 A
1 A
142496 GAAAGAGGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
7 10 0.21
8 24 0.50
9 7 0.15
10 7 0.15
ACGTcount: A:0.85, C:0.09, G:0.02, T:0.05
Consensus pattern (8 bp):
AAAAAAAC
Found at i:142454 original size:19 final size:19
Alignment explanation
Indices: 142430--142493 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
142420 CTTTATATCT
*
142430 AAAAAAACAAAAAAACAAA
1 AAAAAAAAAAAAAAACAAA
**
142449 AAAAAATTAAAAAAACAAA
1 AAAAAAAAAAAAAAACAAA
142468 AAAACAAAGAAAAAATAACAAA
1 AAAA-AAA-AAAAAA-AACAAA
142490 AAAA
1 AAAA
142494 CAGAAAGAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 21 0.55
20 2 0.05
21 5 0.13
22 10 0.26
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAAAAAAACAAA
Found at i:142459 original size:27 final size:28
Alignment explanation
Indices: 142429--142492 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
142419 CCTTTATATC
142429 TAAAAAAACAAAAAAACAAA-AAAAAAT
1 TAAAAAAACAAAAAAACAAAGAAAAAAT
142456 TAAAAAAACAAAAAAACAAAGAAAAAAT
1 TAAAAAAACAAAAAAACAAAGAAAAAAT
*
142484 AACAAAAAA
1 TA-AAAAAA
142493 ACAGAAAGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 20 0.59
28 8 0.24
29 6 0.18
ACGTcount: A:0.84, C:0.08, G:0.02, T:0.06
Consensus pattern (28 bp):
TAAAAAAACAAAAAAACAAAGAAAAAAT
Found at i:143786 original size:28 final size:28
Alignment explanation
Indices: 143710--144218 Score: 534
Period size: 28 Copynumber: 17.7 Consensus size: 28
143700 CTAGAACGTT
* * *
143710 CATCTTTTCAGAGCCCACAAGCCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * * *
143738 TAACTCTTTTCAAAGCTCACAAGTTAGTGG
1 -CA-TCCTTTCAAAGCCCACAAGTCAGTGG
143768 CATCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
** *
143796 CACTTTTTTCAAAGCCCACAAGAGTCGGTGG
1 CA-TCCTTTCAAAGCCCAC-A-AGTCAGTGG
*
143827 CAACTCTTTTCAAAGCCCACAAGTCAGTGG
1 C-A-TCCTTTCAAAGCCCACAAGTCAGTGG
*
143857 CATCCTTTCAAAACCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
143885 CACCCTTTCAAAGCTCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
143913 CACTCTTTTTAAAGCCTACACGAGTC-GATGG
1 CA-TCCTTTCAAAGCC--CACAAGTCAG-TGG
* *
143944 CATCTCTTTTTAAAGCCCACAAGTTAGTGG
1 CATC-C-TTTCAAAGCCCACAAGTCAGTGG
* *
143974 CATCCTTTCAAAGCCCACGAGTCGGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
144002 CATTCTTTCAAAGCCCACAAGTCTGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
144030 CACCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * * *
144058 CACCCTTTCAAAGCCTACAAGTCAATGA
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
144086 CATTCTTTTCAAAGCCCACAAGTTAGTGG
1 CA-TCCTTTCAAAGCCCACAAGTCAGTGG
*
144115 CATCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
144143 CACCCTTTCAAAGCCCACAAGTCAATGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
144171 CACCCTTTCAAAGCCCACAAATCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
**
144199 CACTATTTTCAAAGCCCACA
1 CA-TCCTTTCAAAGCCCACA
144219 CGAGTCAATA
Statistics
Matches: 409, Mismatches: 57, Indels: 28
0.83 0.12 0.06
Matches are distributed among these distances:
28 248 0.61
29 63 0.15
30 48 0.12
31 23 0.06
32 27 0.07
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (28 bp):
CATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:143927 original size:117 final size:114
Alignment explanation
Indices: 143712--144218 Score: 581
Period size: 117 Copynumber: 4.4 Consensus size: 114
143702 AGAACGTTCA
* * * * *
143712 TCTTTTCAGAGCCCACAAGCCAGTGGTAACTCTTTTCAAAGCTCACAAGTTAGTGGCATCCTTTC
1 TCTTTTCAAAGCCCACAAGTCAGTGG-CACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
** **
143777 AAAGCCCACAAGTCAGTGGCACTTTTTTCAAAGCCCACAAGAGTCGGTGGCAAC
65 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCAC-A-AGTCAATGGC-AC
* * *
143831 TCTTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAACCCACAAGTCAGTGGCACCCTTTCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
* * * * *
143895 AAGCTCACAAGTCAGTGGCACTCTTTTTAAAGCCTACACGAGTCGATGGCATC
66 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCC--CACAAGTCAATGGCA-C
* * * * * *
143948 TCTTTTTAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACGAGTCGGTGGCATTCTTTCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
* * *
144012 AAGCCCACAAGTCTGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAC
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCAC
* * * * * *
144061 -CCTTTCAAAGCCTACAAGTCAATGACATTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
*
144125 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCAC
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCAC
* * *
144174 -CCTTTCAAAGCCCACAAATCAGTGGCACTATTTTCAAAGCCCACA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA
144219 CGAGTCAATA
Statistics
Matches: 335, Mismatches: 49, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
112 21 0.06
113 116 0.35
114 11 0.03
116 11 0.03
117 148 0.44
118 1 0.00
119 27 0.08
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (114 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCAC
Found at i:147501 original size:97 final size:97
Alignment explanation
Indices: 147369--147603 Score: 371
Period size: 97 Copynumber: 2.4 Consensus size: 97
147359 TTATTTATCG
* * * **
147369 GGGATACTCTAACCCTATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTT
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTT
147434 AAATCTTATTCTCACTTAAATTGTCATCATCA
66 AAATCTTATTCTCACTTAAATTGTCATCATCA
* *
147466 GGGACACTTCAACCCCATTCCTCCAAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTT
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTT
* * *
147531 AAATTTTATTCTCATTTAAATTGTCATCATTA
66 AAATCTTATTCTCACTTAAATTGTCATCATCA
*
147563 GGGACACTCCAACCCCATTCCTCCGAGGGGGTACTCCAACC
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACC
147604 TCAGTTTTCA
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 125 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (97 bp):
GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTT
AAATCTTATTCTCACTTAAATTGTCATCATCA
Found at i:150033 original size:20 final size:20
Alignment explanation
Indices: 150008--150078 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
149998 TGCCAGTTTC
150008 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAATTGAGT
**
150028 ATGTATCGATACAA-TGAAC
1 ATGTATCGATACAATTGAGT
150047 ATGTATCGATAC-ATCT-AGAT
1 ATGTATCGATACAAT-TGAG-T
150067 ATGTATCGATAC
1 ATGTATCGATAC
150079 TTTTTAGGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 27 0.61
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATTGAGT
Found at i:150052 original size:19 final size:20
Alignment explanation
Indices: 150007--150059 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
149997 CTGCCAGTTT
*
150007 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAA
*
150027 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
150046 CATGTATCGATACA
1 CATGTATCGATACA
150060 TCTAGATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:153375 original size:10 final size:11
Alignment explanation
Indices: 153355--153400 Score: 51
Period size: 10 Copynumber: 4.2 Consensus size: 11
153345 TAGGTAGGGT
153355 GGCGTGGCAAG
1 GGCGTGGCAAG
153366 GGCG-GGCAAGG
1 GGCGTGGCAA-G
153377 GTGCGTGGCAAG
1 G-GCGTGGCAAG
*
153389 GGTG-GGCAAG
1 GGCGTGGCAAG
153399 GG
1 GG
153401 TGCATGGCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 13 0.42
11 8 0.26
12 5 0.16
13 5 0.16
ACGTcount: A:0.17, C:0.15, G:0.59, T:0.09
Consensus pattern (11 bp):
GGCGTGGCAAG
Found at i:153388 original size:13 final size:13
Alignment explanation
Indices: 153350--153415 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
153340 AATGCTAGGT
153350 AGGGTGGCGTGGCA
1 AGGGT-GCGTGGCA
153364 A-GG-GCG-GGCA
1 AGGGTGCGTGGCA
153374 AGGGTGCGTGGCA
1 AGGGTGCGTGGCA
153387 AGGGT--G-GGCA
1 AGGGTGCGTGGCA
*
153397 AGGGTGCATGGCA
1 AGGGTGCGTGGCA
*
153410 GGGGTG
1 AGGGTG
153416 GGTAGGGGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
10 14 0.32
11 6 0.14
12 3 0.07
13 20 0.45
14 1 0.02
ACGTcount: A:0.17, C:0.14, G:0.58, T:0.12
Consensus pattern (13 bp):
AGGGTGCGTGGCA
Found at i:153414 original size:23 final size:23
Alignment explanation
Indices: 153350--153417 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
153340 AATGCTAGGT
*
153350 AGGGTGGCGTGGCAAGGGCGGGCA
1 AGGGT-GCGTGGCAAGGGTGGGCA
153374 AGGGTGCGTGGCAAGGGTGGGCA
1 AGGGTGCGTGGCAAGGGTGGGCA
* *
153397 AGGGTGCATGGCAGGGGTGGG
1 AGGGTGCGTGGCAAGGGTGGG
153418 TAGGGGTGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 36 0.88
24 5 0.12
ACGTcount: A:0.16, C:0.13, G:0.59, T:0.12
Consensus pattern (23 bp):
AGGGTGCGTGGCAAGGGTGGGCA
Found at i:153424 original size:23 final size:23
Alignment explanation
Indices: 153375--153509 Score: 105
Period size: 23 Copynumber: 5.8 Consensus size: 23
153365 GGGCGGGCAA
* * * *
153375 GGGTGCGTGGCAAGGGTGGGCAA
1 GGGTGCATGGCAGGGGTGGGTAG
153398 GGGTGCATGGCAGGGGTGGGTAG
1 GGGTGCATGGCAGGGGTGGGTAG
* *
153421 GGGTGGATGG--GGGTGCTTGGTAG
1 GGGTGCATGGCAGGG-G-TGGGTAG
* ** *
153444 GGATGTTTGGCAGGGATGGGTAG
1 GGGTGCATGGCAGGGGTGGGTAG
153467 GTGGTGC-TCGGCAGGGGTGGGTAG
1 G-GGTGCAT-GGCAGGGGTGGGTAG
*
153491 GGGTGGCTTGGCAGGGGTG
1 GGGT-GCATGGCAGGGGTG
153510 TTGAGGCCTT
Statistics
Matches: 90, Mismatches: 14, Indels: 15
0.76 0.12 0.13
Matches are distributed among these distances:
21 3 0.03
22 1 0.01
23 52 0.58
24 30 0.33
25 4 0.04
ACGTcount: A:0.12, C:0.09, G:0.59, T:0.21
Consensus pattern (23 bp):
GGGTGCATGGCAGGGGTGGGTAG
Found at i:153481 original size:24 final size:24
Alignment explanation
Indices: 153452--153506 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
153442 AGGGATGTTT
153452 GGCAGGGATGGGTAGGTGGT-GCTC
1 GGCAGGGATGGGTAGG-GGTGGCTC
* *
153476 GGCAGGGGTGGGTAGGGGTGGCTT
1 GGCAGGGATGGGTAGGGGTGGCTC
153500 GGCAGGG
1 GGCAGGG
153507 GTGTTGAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.11, C:0.11, G:0.60, T:0.18
Consensus pattern (24 bp):
GGCAGGGATGGGTAGGGGTGGCTC
Found at i:153982 original size:47 final size:48
Alignment explanation
Indices: 153929--154039 Score: 152
Period size: 47 Copynumber: 2.3 Consensus size: 48
153919 TAATATAATG
*
153929 GATGTATCGATACATTAGTGATTGTATCGATACAATCTAG-AAACCCA
1 GATGTATCGATACATTAGTCATTGTATCGATACAATCTAGAAAACCCA
* * * *
153976 GATGTATTGATACATTATTCATTGTATTGATATAATCTAGAAAACCCA
1 GATGTATCGATACATTAGTCATTGTATCGATACAATCTAGAAAACCCA
* *
154024 AATATATCGATACATT
1 GATGTATCGATACATT
154040 CTAGAAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 35 0.64
48 20 0.36
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (48 bp):
GATGTATCGATACATTAGTCATTGTATCGATACAATCTAGAAAACCCA
Found at i:158425 original size:3 final size:3
Alignment explanation
Indices: 158417--158446 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
158407 TTCCTTAACC
158417 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
158447 CTTTGAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:160143 original size:21 final size:20
Alignment explanation
Indices: 160106--160171 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
160096 TTACCTTAGT
*
160106 TACATTCAACAAAATGTATTGA
1 TACATTC-AC-AAATGTATCGA
160128 TACATTCACAAGATGTATCGA
1 TACATTCACAA-ATGTATCGA
*
160149 TACATTTACATAATGTATCGA
1 TACATTCACA-AATGTATCGA
160170 TA
1 TA
160172 TATTTTCACT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.05
21 30 0.75
22 8 0.20
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (20 bp):
TACATTCACAAATGTATCGA
Found at i:160176 original size:21 final size:20
Alignment explanation
Indices: 160117--160191 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
160107 ACATTCAACA
* *
160117 AAATGTATTGATACATTCAC
1 AAATGTATCGATACATTTAC
160137 AAGATGTATCGATACATTTAC
1 AA-ATGTATCGATACATTTAC
* *
160158 ATAATGTATCGATATATTTTC
1 A-AATGTATCGATACATTTAC
**
160179 ACTTGTATCGATA
1 AAATGTATCGATA
160192 GAAATAAGGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 12 0.26
21 34 0.72
22 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (20 bp):
AAATGTATCGATACATTTAC
Found at i:161442 original size:12 final size:12
Alignment explanation
Indices: 161425--161457 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
161415 TGTTACACTT
161425 AATTTTTTTTT-
1 AATTTTTTTTTG
*
161436 CATTTTTTTTTG
1 AATTTTTTTTTG
161448 AATTTTTTTT
1 AATTTTTTTT
161458 GGTTTAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:166788 original size:61 final size:61
Alignment explanation
Indices: 166723--166848 Score: 144
Period size: 61 Copynumber: 2.1 Consensus size: 61
166713 ATATGCAAAT
* * * * * *
166723 AATGATGAAGGTGCCAATATGCTGATTCACGGTCAGCGATTTTGGGCTTGAAGATGAGAAG
1 AATGATAAAGGTGCCAATATGCTAATTCACGGCCAGCGATATTAGGCTTAAAGATGAGAAG
* * * * * *
166784 AATGATAAAGGTTCTAATATGCTAATTCAGGGCCAGTGATATTAGGCTTAAAGATGCGGAG
1 AATGATAAAGGTGCCAATATGCTAATTCACGGCCAGCGATATTAGGCTTAAAGATGAGAAG
166845 AATG
1 AATG
166849 CCAATATGCT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (61 bp):
AATGATAAAGGTGCCAATATGCTAATTCACGGCCAGCGATATTAGGCTTAAAGATGAGAAG
Found at i:166880 original size:52 final size:52
Alignment explanation
Indices: 166799--167176 Score: 332
Period size: 52 Copynumber: 7.3 Consensus size: 52
166789 TAAAGGTTCT
* * * * * *** *
166799 AATATGCTAATTCAGGGCCAGTGATATTAGGCTTAAAGATGCGGAGAATGCC
1 AATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAAAATGCC
* * *
166851 AATATGCTGATTCATGGCCAGTGACATTAGACTTGAAGATGAAAAGAAA-GCC
1 AATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAA-AAATGCC
* * * * *
166903 AATGTGCTGATTCAAGACCAGCAACATTGGACTTAAAAAT-AAGAAAAATGCC
1 AATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAA-AAAAATGCC
* * * * *
166955 AATGTACTGATTCAAGGCAAGCGACATTGGGCTTATAA-AT-AATAAAAATGCC
1 AATATGCTGATTCAAGGCCAGCGACATTAGACTTA-AAGATGAA-AAAAATGCC
* * * * * * *
167007 AATATGCTGATTTAAGCCCAACGATATCAGACTTAAAGATGACAAAAGTGCC
1 AATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAAAATGCC
* * * * * * *
167059 AATGTGCTGATTCAAGGCTAGCGACATTAGACTTAAAGGTGAGATAAGTACC
1 AATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAAAATGCC
* * * *
167111 AATATGCTGATTCAAGGCCAGCGACATTAGACTCAAAGATGAAGAAAGTGCT
1 AATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAAAATGCC
167163 AATATGCTGATTCA
1 AATATGCTGATTCA
167177 GGGCTAGTGA
Statistics
Matches: 265, Mismatches: 55, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
51 7 0.03
52 253 0.95
53 5 0.02
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (52 bp):
AATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAAAATGCC
Found at i:167192 original size:156 final size:155
Alignment explanation
Indices: 166799--167196 Score: 395
Period size: 156 Copynumber: 2.5 Consensus size: 155
166789 TAAAGGTTCT
* * * * **
166799 AATATGCTAATTCAGGGCCAGTGATATTAGGCTTAAAGATGCGGAGAATGCCAATATGCTGATTC
1 AATATGCTGATTCAAGGCCAGCGACATTAGGCTTAAAGATGAAGA-AATGCCAATATGCTGATTC
* * * *
166864 ATGGCCAGTGACATTAGACTTGAAGATGAAAAGAAAGCCAATGTGCTGATTCAAGACCAGCAACA
65 AAGGCCAGTGAAATCAGACTTAAAGATGAAAAGAAAGCCAATGTGCTGATTCAAGACCAGCAACA
* *
166929 TTGGACTTAAAAATAAGAAAAATGCC
130 TTAGACTTAAAAATAAGAAAAATACC
* * * * * *
166955 AATGTACTGATTCAAGGCAAGCGACATTGGGCTTATAA-ATAATAAAAATGCCAATATGCTGATT
1 AATATGCTGATTCAAGGCCAGCGACATTAGGCTTA-AAGATGA-AGAAATGCCAATATGCTGATT
* * ** * ** * * *
167019 TAAGCCCAACGATATCAGACTTAAAGATGACAAA-AGTGCCAATGTGCTGATTCAAGGCTAGCGA
64 CAAGGCCAGTGAAATCAGACTTAAAGATGA-AAAGAAAGCCAATGTGCTGATTCAAGACCAGCAA
** * * *
167083 CATTAGACTTAAAGGTGAGATAAGTACC
128 CATTAGACTTAAAAATAAGAAAAATACC
* * *
167111 AATATGCTGATTCAAGGCCAGCGACATTAGACTCAAAGATGAAGAAAGTGCTAATATGCTGATTC
1 AATATGCTGATTCAAGGCCAGCGACATTAGGCTTAAAGATGAAGAAA-TGCCAATATGCTGATTC
* *
167176 AGGGCTAGTGAAATCAGACTT
65 AAGGCCAGTGAAATCAGACTT
167197 TGAAAAGGAA
Statistics
Matches: 189, Mismatches: 48, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
155 6 0.03
156 177 0.94
157 6 0.03
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (155 bp):
AATATGCTGATTCAAGGCCAGCGACATTAGGCTTAAAGATGAAGAAATGCCAATATGCTGATTCA
AGGCCAGTGAAATCAGACTTAAAGATGAAAAGAAAGCCAATGTGCTGATTCAAGACCAGCAACAT
TAGACTTAAAAATAAGAAAAATACC
Found at i:167195 original size:104 final size:104
Alignment explanation
Indices: 167005--167196 Score: 260
Period size: 104 Copynumber: 1.8 Consensus size: 104
166995 AATAAAAATG
* * * *
167005 CCAATATGCTGATTTAAGCCCAACGATATCAGACTTAAAGATGACAAAAGTGCCAATGTGCTGAT
1 CCAATATGCTGATTCAAGCCCAACGACATCAGACTCAAAGATGACAAAAGTGCCAATATGCTGAT
* *
167070 TCAAGGCTAGCGACATTAGACTTAAAGGTGAGATAAGTA
66 TCAAGGCTAGCGAAATCAGACTTAAAGGTGAGATAAGTA
* * * *
167109 CCAATATGCTGATTCAAGGCCAGCGACATTAGACTCAAAGATGA-AGAAAGTGCTAATATGCTGA
1 CCAATATGCTGATTCAAGCCCAACGACATCAGACTCAAAGATGACA-AAAGTGCCAATATGCTGA
* *
167173 TTCAGGGCTAGTGAAATCAGACTT
65 TTCAAGGCTAGCGAAATCAGACTT
167197 TGAAAAGGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
103 1 0.01
104 74 0.99
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (104 bp):
CCAATATGCTGATTCAAGCCCAACGACATCAGACTCAAAGATGACAAAAGTGCCAATATGCTGAT
TCAAGGCTAGCGAAATCAGACTTAAAGGTGAGATAAGTA
Found at i:167957 original size:52 final size:52
Alignment explanation
Indices: 167865--167964 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
167855 CCAGCAAATA
* * *
167865 CCAATGTGCTGACTCGAAGCTAGCAACATTGGTCTTAAAGATGACAAAGGTG
1 CCAATGTGCTGACTCCAAGCTAGCAACATTGGACTGAAAGATGACAAAGGTG
*
167917 CCAATGTGCTGA-TCCAAGGTCAGCAACATTGGAAC-GAAAGATGACAAA
1 CCAATGTGCTGACTCCAAGCT-AGCAACATTGG-ACTGAAAGATGACAAA
167965 TTTTGGCAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 6 0.14
52 35 0.83
53 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (52 bp):
CCAATGTGCTGACTCCAAGCTAGCAACATTGGACTGAAAGATGACAAAGGTG
Found at i:168284 original size:28 final size:27
Alignment explanation
Indices: 168209--168288 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
168199 GACCTTAGCC
* * *
168209 ATTGCAAGTTTCTTGATTCTATTAGGG
1 ATTGCAATTTTCTTGATTCCATTGGGG
*
168236 ATTGCAATTTGTCCTGATTCCATTGGGG
1 ATTGCAATTT-TCTTGATTCCATTGGGG
* *
168264 ATTGGCACTTTTCTTGGTTCCATTG
1 ATT-GCAATTTTCTTGATTCCATTG
168289 AAGATTGTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 9 0.20
28 29 0.66
29 6 0.14
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.44
Consensus pattern (27 bp):
ATTGCAATTTTCTTGATTCCATTGGGG
Found at i:169217 original size:14 final size:14
Alignment explanation
Indices: 169195--169271 Score: 57
Period size: 14 Copynumber: 5.5 Consensus size: 14
169185 ATCTGGACCC
169195 TTTTT-TTTTTTTT
1 TTTTTATTTTTTTT
* *
169208 TTTTTGTTTTTGTT
1 TTTTTATTTTTTTT
* * *
169222 TTCTTGTTTGTTTCT
1 TTTTTATTT-TTTTT
* *
169237 TGTTTATTTATTTT
1 TTTTTATTTTTTTT
* *
169251 TGTTTATTTTTATT
1 TTTTTATTTTTTTT
169265 TTTTTAT
1 TTTTTAT
169272 ATATACGAAG
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
13 5 0.10
14 36 0.72
15 9 0.18
ACGTcount: A:0.06, C:0.03, G:0.08, T:0.83
Consensus pattern (14 bp):
TTTTTATTTTTTTT
Found at i:170731 original size:28 final size:24
Alignment explanation
Indices: 170678--170725 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
170668 GGTAAGTGTC
170678 GAAAGCTGATATCATCAAATTCTT
1 GAAAGCTGATATCATCAAATTCTT
170702 GAAAGCTGATATCATCAAATTCTT
1 GAAAGCTGATATCATCAAATTCTT
170726 TCTTGAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (24 bp):
GAAAGCTGATATCATCAAATTCTT
Found at i:175468 original size:34 final size:35
Alignment explanation
Indices: 175430--175496 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
175420 CCTTACAACA
175430 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
*
175464 CTATCTTTTTCAAAGGCTGAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
175497 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.41
37 12 0.41
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:175972 original size:13 final size:13
Alignment explanation
Indices: 175954--175979 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
175944 CAATTTTTTG
175954 TGTATCGATACAT
1 TGTATCGATACAT
175967 TGTATCGATACAT
1 TGTATCGATACAT
175980 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:175994 original size:32 final size:33
Alignment explanation
Indices: 175934--175997 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
175924 TACAAGCCAA
** *
175934 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
175967 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
175998 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:177881 original size:13 final size:13
Alignment explanation
Indices: 177863--177887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
177853 ACTGAAGCAA
177863 TGTATCGATACAT
1 TGTATCGATACAT
177876 TGTATCGATACA
1 TGTATCGATACA
177888 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:181107 original size:34 final size:35
Alignment explanation
Indices: 181069--181135 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
181059 CCTTACAACA
181069 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
*
181103 CTATCTTTTTCAAAGGCTGAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
181136 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.41
37 12 0.41
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:181611 original size:13 final size:13
Alignment explanation
Indices: 181593--181618 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
181583 CAATTTTTTG
181593 TGTATCGATACAT
1 TGTATCGATACAT
181606 TGTATCGATACAT
1 TGTATCGATACAT
181619 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.