Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold664
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: 152413
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Found at i:5124 original size:32 final size:32
Alignment explanation
Indices: 5057--5383 Score: 178
Period size: 32 Copynumber: 10.8 Consensus size: 32
5047 GAAAACGATG
* *
5057 CCACCAACTTGTGCGGGCTTTAAAAG-GGTTC
1 CCACCGACTTGTGCGGGCTTTGAAAGAGGTTC
*
5088 CCACCGACTTGTGCGGGCTTTGAGAGAGGTTC
1 CCACCGACTTGTGCGGGCTTTGAAAGAGGTTC
* *
5120 CCACCGACTTGTGTGGGCTTTGAAA-AGGGTTG
1 CCACCGACTTGTGCGGGCTTTGAAAGA-GGTTC
* * * *
5152 CCACCAACTTGT--GGGCTTTCAAATAGGTTG
1 CCACCGACTTGTGCGGGCTTTGAAAGAGGTTC
* * * * *
5182 CCACCGACTTATGTGGGCTTTCAATTG-GGTTG
1 CCACCGACTTGTGCGGGCTTTGAA-AGAGGTTC
* * ** * * *
5214 CCACCAACTTCTGTAGGCTTTGAAATAAGTTG
1 CCACCGACTTGTGCGGGCTTTGAAAGAGGTTC
*
5246 CCACCGACTTGTGTC-GGCTTTGAAATGA-GTTA
1 CCACCGACTTGTG-CGGGCTTTGAAA-GAGGTTC
** *
5278 CCACTAACTTGT--GGGCTTTG-AA-AGG-TG
1 CCACCGACTTGTGCGGGCTTTGAAAGAGGTTC
* *
5305 CCACTGACTTGT--GGGCTTTG-AA-AGG-TG
1 CCACCGACTTGTGCGGGCTTTGAAAGAGGTTC
* *
5332 CCACTGACTTGT--GGGCTTTGAAAG-GG-TG
1 CCACCGACTTGTGCGGGCTTTGAAAGAGGTTC
**
5360 CCATTGACTTGT--GGGCTTTGAAAG
1 CCACCGACTTGTGCGGGCTTTGAAAG
5384 GTGCCACTAA
Statistics
Matches: 254, Mismatches: 29, Indels: 29
0.81 0.09 0.09
Matches are distributed among these distances:
27 48 0.19
28 30 0.12
29 2 0.01
30 32 0.13
31 25 0.10
32 116 0.46
33 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (32 bp):
CCACCGACTTGTGCGGGCTTTGAAAGAGGTTC
Found at i:5218 original size:94 final size:93
Alignment explanation
Indices: 5055--5258 Score: 227
Period size: 94 Copynumber: 2.2 Consensus size: 93
5045 TGGAAAACGA
* *
5055 TGCCACCAACTTGTGCGGGCTTTAAAAGGGTTCCCACCGACTTGTGCGGGCTTTGAGAGAGGTTC
1 TGCCACCAACTTGT--GGGCTTTAAAAGGGTTCCCACCGACTTATGCGGGCTTTCAGAGAGGTTC
* * * *
5120 CCACCGACTTGTGTGGGCTTTGAAA-AGGGT
64 CCACCAACTTCTGTAGGCTTTGAAATA-AGT
* *
5150 TGCCACCAACTTGTGGGCTTTCAAATA-GGTTGCCACCGACTTATGTGGGCTTTCA-ATTG-GGT
1 TGCCACCAACTTGTGGGCTTT-AAA-AGGGTTCCCACCGACTTATGCGGGCTTTCAGA--GAGGT
*
5212 TGCCACCAACTTCTGTAGGCTTTGAAATAAGT
62 TCCCACCAACTTCTGTAGGCTTTGAAATAAGT
*
5244 TGCCACCGACTTGTG
1 TGCCACCAACTTGTG
5259 TCGGCTTTGA
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
93 8 0.09
94 69 0.73
95 17 0.18
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (93 bp):
TGCCACCAACTTGTGGGCTTTAAAAGGGTTCCCACCGACTTATGCGGGCTTTCAGAGAGGTTCCC
ACCAACTTCTGTAGGCTTTGAAATAAGT
Found at i:5253 original size:126 final size:121
Alignment explanation
Indices: 4979--5329 Score: 326
Period size: 126 Copynumber: 2.8 Consensus size: 121
4969 AAAGTAGTGA
* ** * ** *
4979 TTTGAAAAAAGTTCCCACTGACTTACGTGGGCTTTAAAAAGGGTTGCCACCAAAAGTGTGGACTT
1 TTTGAAAAAAGTTCCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACC-AACTTGTGGGC-T
* * * * * *
5044 TTGGAAAACGATGCCACCAACTTGTGCGGGCTTTAAAAGGGTTCCCACCGACTTGTGCGGGC
64 TT--AAAA-GGTGCCACCGACTT-TGTGGGCTTTAAAAGGGTTCCCACCAACTTCTGCAGGC
* * *
5106 TTTGAGAGAGGTTCCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCAACTTGTGGGCTTT
1 TTTGAAAAAAGTTCCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCAACTTGTGGGCTTT
** * *
5171 CAAATAGGTTGCCACCGACTTATGTGGGCTTTCAATTGGGTTGCCACCAACTTCTGTAGGC
66 -AAA-AGG-TGCCACCGACTT-TGTGGGCTTT-AAAAGGGTTCCCACCAACTTCTGCAGGC
* * * * * * *
5232 TTTGAAATAAGTTGCCACCGACTTGTGTCGGCTTTGAAATGAGTTACCACTAACTTGTGGGCTTT
1 TTTGAAAAAAGTTCCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCAACTTGTGGGCTTT
* * *
5297 GAAAGGTGCCACTGAC-TTGTGGGCTTTGAAAGG
66 AAAAGGTGCCACCGACTTTGTGGGCTTTAAAAGG
5330 TGCCACTGAC
Statistics
Matches: 185, Mismatches: 36, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
120 3 0.02
121 10 0.05
122 1 0.01
123 9 0.05
124 7 0.04
125 26 0.14
126 85 0.46
127 44 0.24
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (121 bp):
TTTGAAAAAAGTTCCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCAACTTGTGGGCTTT
AAAAGGTGCCACCGACTTTGTGGGCTTTAAAAGGGTTCCCACCAACTTCTGCAGGC
Found at i:5368 original size:28 final size:28
Alignment explanation
Indices: 5071--5772 Score: 526
Period size: 29 Copynumber: 24.2 Consensus size: 28
5061 CAACTTGTGC
* * *
5071 GGGCTTTAAAAGGGTTCCCACCGACTTGT
1 GGGCTTTGAAAGGG-TGCCACTGACTTGT
* * *
5100 GCGGGCTTTGAGAGAGGTTCCCACCGACTTGTGT
1 --GGGCTTTGA-A-AGGGTGCCACTGAC-T-TGT
**
5134 GGGCTTTGAAAAGGGTTGCCACCAACTTGT
1 GGGCTTTG-AAAGGG-TGCCACTGACTTGT
* * *
5164 GGGCTTTCAAATAGGTTGCCACCGACTTATGT
1 GGGCTTT-GAA-AGGGTGCCACTGAC-T-TGT
* * **
5196 GGGCTTTCAATTGGGTTGCCACCAACTTCTGT
1 GGGCTTTGAA-AGGG-TGCCACTGAC-T-TGT
* * * *
5228 AGGCTTTGAAATAAGTTGCCACCGACTTGT
1 GGGCTTTG-AA-AGGGTGCCACTGACTTGT
* * *
5258 GTCGGCTTTGAAATGAGTTACCACTAACTTGT
1 G--GGCTTTGAAA-G-GGTGCCACTGACTTGT
5290 GGGCTTTGAAA-GGTGCCACTGACTTGT
1 GGGCTTTGAAAGGGTGCCACTGACTTGT
5317 GGGCTTTGAAA-GGTGCCACTGACTTGT
1 GGGCTTTGAAAGGGTGCCACTGACTTGT
*
5344 GGGCTTTGAAAGGGTGCCATTGACTTGT
1 GGGCTTTGAAAGGGTGCCACTGACTTGT
* *
5372 GGGCTTTGAAA-GGTGCCACTAATTTGT
1 GGGCTTTGAAAGGGTGCCACTGACTTGT
***
5399 GGGCTTTGAAAAAATGCCACTGACTTGT
1 GGGCTTTGAAAGGGTGCCACTGACTTGT
* * **
5427 GGGCTTTCAAAAAGGTGCCACTGGTTTTGT
1 GGGCTTT-GAAAGGGTGCCACT-GACTTGT
* * *
5457 AGACTTTG--A---TGCCACTAACTTGT
1 GGGCTTTGAAAGGGTGCCACTGACTTGT
*
5480 AGGCTTTGAAAGTGGTGCCACTGACTTGT
1 GGGCTTTGAAAG-GGTGCCACTGACTTGT
5509 GGGCTTTGAAA-GGTGCCACTAACTGACTTGT
1 GGGCTTTGAAAGGGTG-C-C--ACTGACTTGT
* *
5540 GGGCTTTGAAA-GGTGCCACTAACTTGC
1 GGGCTTTGAAAGGGTGCCACTGACTTGT
* *
5567 GGGCTTTGAAAAGGGTGCCACTAACTTCT
1 GGGCTTTG-AAAGGGTGCCACTGACTTGT
* **
5596 GGGCTTTCGAAAAGGTGCCACTGGTTTGT
1 GGGCTTT-GAAAGGGTGCCACTGACTTGT
* *
5625 GGACTTTGAAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAGGGTGCCACTGACTTGT
* * *
5653 AGGCTTTGAAAGGGGTGCCACTGATTTAT
1 GGGCTTTGAAA-GGGTGCCACTGACTTGT
*
5682 GGGCTTT-AGAAGGGTGCCACTAACTTGT
1 GGGCTTTGA-AAGGGTGCCACTGACTTGT
** * *
5710 GGGCTTAAAAAGAGGTACCAATGACTTGT
1 GGGCTTTGAAAG-GGTGCCACTGACTTGT
*
5739 GGGCTTTGGAAGGGTGCCACTGACTTGT
1 GGGCTTTGAAAGGGTGCCACTGACTTGT
5767 GGGCTT
1 GGGCTT
5773 AACAATGATG
Statistics
Matches: 553, Mismatches: 81, Indels: 77
0.78 0.11 0.11
Matches are distributed among these distances:
23 11 0.02
24 7 0.01
25 1 0.00
27 96 0.17
28 119 0.22
29 123 0.22
30 47 0.08
31 49 0.09
32 88 0.16
33 9 0.02
34 3 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (28 bp):
GGGCTTTGAAAGGGTGCCACTGACTTGT
Found at i:5537 original size:31 final size:31
Alignment explanation
Indices: 5499--5592 Score: 133
Period size: 31 Copynumber: 3.1 Consensus size: 31
5489 AAGTGGTGCC
5499 ACTGACTTGTGGGCTTTGAAAGGTGCCACTA
1 ACTGACTTGTGGGCTTTGAAAGGTGCCACTA
5530 ACTGACTTGTGGGCTTTGAAAGGTGCCACT-
1 ACTGACTTGTGGGCTTTGAAAGGTGCCACTA
*
5560 A---ACTTGCGGGCTTTGAAAAGGGTGCCACTA
1 ACTGACTTGTGGGCTTTG-AAA-GGTGCCACTA
5590 ACT
1 ACT
5593 TCTGGGCTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
27 13 0.23
28 3 0.05
29 9 0.16
30 2 0.04
31 30 0.53
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (31 bp):
ACTGACTTGTGGGCTTTGAAAGGTGCCACTA
Found at i:5670 original size:57 final size:55
Alignment explanation
Indices: 5244--5772 Score: 507
Period size: 57 Copynumber: 9.4 Consensus size: 55
5234 TGAAATAAGT
* * *
5244 TGCCACCGACTTGTGTCGGCTTTGAAATGAGTTACCACTAACTTGTGGGCTTTGAAA-GG
1 TGCCACTGACTTGTG--GGCTTTGAAA-G-G-TGCCACTGACTTGTGGGCTTTGAAAGGG
5303 TGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * ***
5358 TGCCATTGACTTGTGGGCTTTGAAAGGTGCCACTAATTTGTGGGCTTTGAAAAAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* ** * *
5413 TGCCACTGACTTGTGGGCTTTCAAAAAGGTGCCACTGGTTTTGTAGACTTTG--A---
1 TGCCACTGACTTGTGGGCTTT--GAAAGGTGCCACT-GACTTGTGGGCTTTGAAAGGG
* *
5466 TGCCACTAACTTGTAGGCTTTGAAAGTGGTGCCACTGACTTGTGGGCTTTGAAA-GG
1 TGCCACTGACTTGTGGGCTTTGAAA--GGTGCCACTGACTTGTGGGCTTTGAAAGGG
* *
5522 TGCCACTAACTGACTTGTGGGCTTTGAAAGGTGCCACTAACTTGCGGGCTTTGAAAAGGG
1 TG-C-C--ACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTG-AAAGGG
* * ** * *
5582 TGCCACTAACTTCTGGGCTTTCGAAAAGGTGCCACTGGTTTGTGGACTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTT-G-AAAGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
5639 TGCCACTGACTTGTAGGCTTTGAAAGGGGTGCCACTGATTTATGGGCTTT-AGAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAA--GGTGCCACTGACTTGTGGGCTTTGA-AAGGG
* ** * * *
5696 TGCCACTAACTTGTGGGCTTAAAAAGAGGTACCAATGACTTGTGGGCTTTGGAAGGG
1 TGCCACTGACTTGTGGGCTT-TGAA-AGGTGCCACTGACTTGTGGGCTTTGAAAGGG
5753 TGCCACTGACTTGTGGGCTT
1 TGCCACTGACTTGTGGGCTT
5773 AACAATGATG
Statistics
Matches: 395, Mismatches: 51, Indels: 50
0.80 0.10 0.10
Matches are distributed among these distances:
51 3 0.01
52 11 0.03
53 28 0.07
54 24 0.06
55 75 0.19
56 21 0.05
57 132 0.33
58 59 0.15
59 19 0.05
60 23 0.06
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (55 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGG
Found at i:5784 original size:28 final size:27
Alignment explanation
Indices: 5278--7088 Score: 665
Period size: 27 Copynumber: 65.9 Consensus size: 27
5268 AAATGAGTTA
* *
5278 CCACTAACTTGTGGGCTTTGAAAGG-TG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
*
5305 CCACTGACTTGTGGGCTTTGAAAGG-TG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* *
5332 CCACTGACTTGTGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* *
5360 CCATTGACTTGTGGGCTTTGAAAGG-TG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* * *
5387 CCACTAATTTGTGGGCTTTGAAAA-AATG
1 CCACTGACTTGTGGGC-TT-AAAAGGATG
5415 CCACTGACTTGTGGGCTTTCAAAAAGG-TG
1 CCACTGACTTGTGGGC-TT--AAAAGGATG
** * * *
5444 CCACTGGTTTTGTAGACTT----TGATG
1 CCACT-GACTTGTGGGCTTAAAAGGATG
* * * *
5468 CCACTAACTTGTAGGCTTTGAAAGTGGTG
1 CCACTGACTTGTGGGC-TTAAAAG-GATG
*
5497 CCACTGACTTGTGGGCTTTGAAAGG-TG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
*
5524 CCACTAACTGACTTGTGGGCTTTGAAAGG-TG
1 -C-C--ACTGACTTGTGGGC-TTAAAAGGATG
* * *
5555 CCACTAACTTGCGGGCTTTGAAAAGGGTG
1 CCACTGACTTGTGGGC-TT-AAAAGGATG
* *
5584 CCACTAACTTCTGGGCTTTCGAAAAGG-TG
1 CCACTGACTTGTGGGC-TT--AAAAGGATG
** * *
5613 CCACTGGTTTGTGGACTTTGAAAGGATG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* * *
5641 CCACTGACTTGTAGGCTTTGAAAGGGGTG
1 CCACTGACTTGTGGGC-TT-AAAAGGATG
* * * *
5670 CCACTGATTTATGGGCTTTAGAAGGGTG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* * *
5698 CCACTAACTTGTGGGCTTAAAAAGAGGTA
1 CCACTGACTTGTGGGCTT-AAAAG-GATG
* ** *
5727 CCAATGACTTGTGGGCTTTGGAAGGGTG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
*
5755 CCACTGACTTGTGGGCTTAACAATGATG
1 CCACTGACTTGTGGGCTTAA-AAGGATG
* * *
5783 CCACTAACTTGTGGACTTAAAAGAATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * **
5810 CCA-TGGAGTTGTGGACTTAAAAGGACA
1 CCACT-GACTTGTGGGCTTAAAAGGATG
* * *
5837 CCACTGAGTTGTGGACTTAAAATGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * * * *
5864 CCACGGAGTTGTGGACTTTAAAGGATA
1 CCACTGACTTGTGGGCTTAAAAGGATG
* *
5891 CCA-TGGAGTTGTGGACTTTAAAAGGATG
1 CCACT-GACTTGTGGGC-TTAAAAGGATG
* * * *
5919 CCACGGAGTTATGGACTTAAAAGGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * *
5946 CCACAGAGTTGTGGACTTTAAAAGGATG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* * ** * *
5974 CCA-TGGAGTTATGGATTTTAAACGAGTG
1 CCACT-GACTTGTGGGCTTAAAAGGA-TG
* *
6002 CCA-TGGAGTTGTGGACTTAAAAGGATG
1 CCACT-GACTTGTGGGCTTAAAAGGATG
* * *
6029 CCA-TGAAGTTGTGGACTTTAAAAGGACG
1 CCACTG-ACTTGTGGGC-TTAAAAGGATG
* * *
6057 CCACGGAGTTGTGGACTTTAAAAGGATG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* * * *
6085 CCACAGAGTTGTGGACTTAAAGGGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * * *
6112 CCACGGAGTTATGGACTTAAAAGGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* *
6139 CCA-TGGAGTTGTAGGCTTTAAAAGGATG
1 CCACT-GACTTGTGGGC-TTAAAAGGATG
* * *
6167 CCACAGAGTTGTGGACTTTAAAAAGG-TG
1 CCACTGACTTGTGGGC-TT-AAAAGGATG
* * *
6195 CCACAGAGTTGTGGACTTAAAAGGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * *
6222 CCACGGAGTTGTGGACTTAAAAGGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * * * *
6249 CCACGGAGTTATAGACTTTAAAAGGATG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* * *
6277 CCACGGAGTTGT-GG----ACA--ATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * *
6297 CCA-TGAAGTTATGGACTTAAAAGGATG
1 CCACTG-ACTTGTGGGCTTAAAAGGATG
* * * *
6324 CCACGGAGTTGTGGACTTAAAAAGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * * *
6351 CCACGGAATTATGGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* * *** *
6379 CCACAGAGTTGTTAACTTAAAAGGGGTG
1 CCACTGACTTGTGGGCTTAAAA-GGATG
* * *
6407 CCAC-GAAGTTATGGACTTAAAAGGATG
1 CCACTG-ACTTGTGGGCTTAAAAGGATG
* * *
6434 CCA-TGGAGTTGTGGACTTTAAAAGGGTG
1 CCACT-GACTTGTGGGC-TTAAAAGGATG
* * ** *
6462 CCACGGAGTTGTGAACTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * *
6489 CCACGGAGTTGTGGACTTAAAAGGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * * *
6516 CTA-TGGAGTTGTGGACTTTAAAAGGGTG
1 CCACT-GACTTGTGGGC-TTAAAAGGATG
* * * * * *
6544 CCACAGAGTTGTGGACTTTATAGGGTG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * *
6571 CCACGGAGTTGTGGACTTAAAAAGGATG
1 CCACTGACTTGTGGGCTT-AAAAGGATG
* * * * *
6599 CCACAGAATTATGGACTTTAAAGGGATG
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* * *
6627 CCACGGAGTTGTGGACTTAAAAGGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * * *
6654 CCACAGAGTTGTAGGCTTTAAAA-AAGTG
1 CCACTGACTTGTGGGC-TTAAAAGGA-TG
* * *
6682 CCA-TGGAGTTGTGGACTTAAAAAGGGTG
1 CCACT-GACTTGTGGGCTT-AAAAGGATG
* * * *
6710 CCACGGAGTTGTGGACTCAAAAGGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * *
6737 CCACGGAGTTGTGGACTTTAAAA-GAGTG
1 CCACTGACTTGTGGGC-TTAAAAGGA-TG
* * ** * * * *
6765 CCACAGAGTCATAGACTTTAAAGGGTG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * * *
6792 CCA-TGGAGTTGTGGACTTAAAAGGGTA
1 CCACT-GACTTGTGGGCTTAAAAGGATG
* **
6819 CCA-TGAGATTGTGAACTTTAAAAGGATG
1 CCACTGA-CTTGTGGGC-TTAAAAGGATG
* * * *
6847 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * * *
6874 CCACAGAGTTGTGGACTTAAAGGGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * * * *
6901 CCACGGAGTTGTGGACTTTAAAAGGGTA
1 CCACTGACTTGTGGGC-TTAAAAGGATG
* * * * *
6929 CCACGGAGTTGTGGACTTTAAAGGGTG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* ** * *
6956 CCAC-AAAGTGTTGGACTTAAAAGGGTG
1 CCACTGACTTG-TGGGCTTAAAAGGATG
* * * *
6983 CCACGGA-GTGTTGGACTTAAAAGGGTG
1 CCACTGACTTG-TGGGCTTAAAAGGATG
* * *
7010 CCACGGAGTTGTGGACTTAAAAGGATG
1 CCACTGACTTGTGGGCTTAAAAGGATG
* * * *
7037 CCA-TGGAGTTATGGACTTTAAAAGGGTG
1 CCACT-GACTTGTGGGC-TTAAAAGGATG
* * *
7065 CCACGGAGTTGTGGACTTTAAAAG
1 CCACTGACTTGTGGGC-TTAAAAG
7089 AAAAGGTTGC
Statistics
Matches: 1484, Mismatches: 216, Indels: 167
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.00
20 11 0.01
21 1 0.00
22 2 0.00
23 8 0.01
24 9 0.01
25 2 0.00
26 13 0.01
27 679 0.46
28 588 0.40
29 128 0.09
30 17 0.01
31 25 0.02
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (27 bp):
CCACTGACTTGTGGGCTTAAAAGGATG
Found at i:5785 original size:85 final size:86
Alignment explanation
Indices: 5474--5804 Score: 255
Period size: 85 Copynumber: 3.8 Consensus size: 86
5464 GATGCCACTA
* * *
5474 ACTTGTAGGCTTTGAAAGTGGTGCCACTGACTTGTGGGCTTTGA-AAGG-TGCCACTAACTGACT
1 ACTTGTAGGCTTTGAAAGGGGTGCCACTGACTTATGGGC-TTAACAAGGATGCCACT-A---ACT
* ** * * *
5537 TGTGGGCTT-TGAA-AGGTGCCACTA
61 TGTGGACTTAAAAAGAGGTACCAATG
** * * * ***
5561 ACTTGCGGGCTTTGAAAAGGGTGCCACTAACTTCTGGGCTTTCGAA-AAGG-TGCCACTGGTTTG
1 ACTTGTAGGCTTTGAAAGGGGTGCCACTGACTTATGGGC-TT--AACAAGGATGCCACTAACTTG
** * * *
5624 TGGACTTTGAAAG-GATGCCACTG
63 TGGACTTAAAAAGAGGTACCAATG
* * * *
5647 ACTTGTAGGCTTTGAAAGGGGTGCCACTGATTTATGGGCTTTAGAAGGGTGCCACTAACTTGTGG
1 ACTTGTAGGCTTTGAAAGGGGTGCCACTGACTTATGGGCTTAACAAGGATGCCACTAACTTGTGG
*
5712 GCTTAAAAAGAGGTACCAATG
66 ACTTAAAAAGAGGTACCAATG
* * * *
5733 ACTTGTGGGCTTTGGAA-GGGTGCCACTGACTTGTGGGCTTAACAATGATGCCACTAACTTGTGG
1 ACTTGTAGGCTTTGAAAGGGGTGCCACTGACTTATGGGCTTAACAAGGATGCCACTAACTTGTGG
5797 ACTTAAAA
66 ACTTAAAA
5805 GAATGCCATG
Statistics
Matches: 197, Mismatches: 40, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
83 1 0.01
84 4 0.02
85 79 0.40
86 65 0.33
87 36 0.18
89 12 0.06
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (86 bp):
ACTTGTAGGCTTTGAAAGGGGTGCCACTGACTTATGGGCTTAACAAGGATGCCACTAACTTGTGG
ACTTAAAAAGAGGTACCAATG
Found at i:5821 original size:27 final size:27
Alignment explanation
Indices: 5748--7088 Score: 1452
Period size: 27 Copynumber: 49.1 Consensus size: 27
5738 TGGGCTTTGG
* * * *
5748 AAGGGTGCCACTGACTTGTGGGCTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* ** *
5775 CAATGATGCCACTAACTTGTGGACTTAA
1 -AAGGATGCCACGGAGTTGTGGACTTAA
* *
5803 AAGAATGCCATGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
** *
5830 AAGGACACCACTGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
5857 AATGATGCCACGGAGTTGTGGACTTTA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
5884 AAGGATACCATGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
*
5912 AAGGATGCCACGGAGTTATGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
*
5939 AAGGATGCCACAGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
* * * *
5967 AAGGATGCCATGGAGTTATGGATTTTA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
5994 AACGAGTGCCATGGAGTTGTGGACTTAA
1 AAGGA-TGCCACGGAGTTGTGGACTTAA
* *
6022 AAGGATGCCATGAAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
*
6050 AAGGACGCCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
*
6078 AAGGATGCCACAGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
6105 AGGGATGCCACGGAGTTATGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
*
6132 AAGGATGCCATGGAGTTGTAGG-CTTTAA
1 AAGGATGCCACGGAGTTGT-GGAC-TTAA
*
6160 AAGGATGCCACAGAGTTGTGGACTTTAAA
1 AAGGATGCCACGGAGTTGTGGAC-TT-AA
*
6189 AAGG-TGCCACAGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
6215 AAGGATGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
6242 AAGGATGCCACGGAGTTATAGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
6270 AAGGATGCCACGGAGTTGTGGAC----
1 AAGGATGCCACGGAGTTGTGGACTTAA
* * *
6293 -A--ATGCCATGAAGTTATGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
6317 AAGGATGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* * * *
6344 AAAGATGCCACGGAATTATGGGCTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
* * **
6372 AAGGGTGCCACAGAGTTGTTAACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* * *
6399 AAGGGGTGCCACGAAGTTATGGACTTAA
1 AA-GGATGCCACGGAGTTGTGGACTTAA
*
6427 AAGGATGCCATGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
* *
6455 AAGGGTGCCACGGAGTTGTGAACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
*
6482 AAGGGTGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
6509 AAGGATGCTATGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
* * *
6537 AAGGGTGCCACAGAGTTGTGGACTTTA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
6564 TAGGGTGCCACGGAGTTGTGGACTTAAA
1 AAGGATGCCACGGAGTTGTGGACTT-AA
* * *
6592 AAGGATGCCACAGAATTATGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
*
6620 AGGGATGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
*
6647 AAGGATGCCACAGAGTTGTAGG-CTTTAA
1 AAGGATGCCACGGAGTTGT-GGAC-TTAA
* *
6675 AA-AAGTGCCATGGAGTTGTGGACTTAAA
1 AAGGA-TGCCACGGAGTTGTGGACTT-AA
* *
6703 AAGGGTGCCACGGAGTTGTGGACTCAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
6730 AAGGATGCCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
* ** * *
6758 AA-GAGTGCCACAGAGTCATAGACTTTA
1 AAGGA-TGCCACGGAGTTGTGGACTTAA
* *
6785 AAGGGTGCCATGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* * * *
6812 AAGGGTACCA-TGAGATTGTGAACTTTAA
1 AAGGATGCCACGGAG-TTGTGGAC-TTAA
6840 AAGGATGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
6867 AAGGGTGCCACAGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
*
6894 AGGGATGCCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
* * *
6922 AAGGGTACCACGGAGTTGTGGACTTTA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* **
6949 AAGGGTGCCACAAAG-TGTTGGACTTAA
1 AAGGATGCCACGGAGTTG-TGGACTTAA
*
6976 AAGGGTGCCACGGAG-TGTTGGACTTAA
1 AAGGATGCCACGGAGTTG-TGGACTTAA
*
7003 AAGGGTGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
7030 AAGGATGCCATGGAGTTATGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
*
7058 AAGGGTGCCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
7086 AAG
1 AAG
7089 AAAAGGTTGC
Statistics
Matches: 1114, Mismatches: 160, Indels: 78
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.01
22 1 0.00
25 1 0.00
26 11 0.01
27 594 0.53
28 480 0.43
29 11 0.01
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (27 bp):
AAGGATGCCACGGAGTTGTGGACTTAA
Found at i:5829 original size:55 final size:53
Alignment explanation
Indices: 5748--7088 Score: 1342
Period size: 55 Copynumber: 24.6 Consensus size: 53
5738 TGGGCTTTGG
* * * * * * *
5748 AAGGGTGCCACTGACTTGTGGGCTTAACAATGATGCCACTAACTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA-AAGGATGCCAC-GAGTTGTGGACTTAA
* * **
5803 AAGAATGCCATGGAGTTGTGGACTTAAAAGGACACCACTGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCAC-GAGTTGTGGACTTAA
* * * *
5857 AATGATGCCACGGAGTTGTGGACTTTAAAGGATACCATGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCA-CGAGTTGTGGAC-TTAA
*
5912 AAGGATGCCACGGAGTTATGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCAC-GAGTTGTGGAC-TTAA
* * * * * *
5967 AAGGATGCCATGGAGTTATGGATTTTAAACGAGTGCCATGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGA-TGCCA-CGAGTTGTGGACTTAA
* * *
6022 AAGGATGCCATGAAGTTGTGGACTTTAAAAGGACGCCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCAC-GAGTTGTGGAC-TTAA
* * *
6078 AAGGATGCCACAGAGTTGTGGACTTAAAGGGATGCCACGGAGTTATGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCAC-GAGTTGTGGACTTAA
*
6132 AAGGATGCCATGGAGTTGTAGG-CTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAA
1 AAGGATGCCACGGAGTTGT-GGAC-TTAAAAGGATGCCAC-GAGTTGTGGAC-TT-AA
*
6189 AAGG-TGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCAC-GAGTTGTGGACTTAA
* *
6242 AAGGATGCCACGGAGTTATAGACTTTAAAAGGATGCCACGGAGTTGTGGAC----
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCAC-GAGTTGTGGACTTAA
* * *
6293 -A--ATGCCATGAAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCAC-GAGTTGTGGACTTAA
* * * * * **
6344 AAAGATGCCACGGAATTATGGGCTTTAAAAGGGTGCCACAGAGTTGTTAACTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCAC-GAGTTGTGGACTTAA
* * * *
6399 AAGGGGTGCCACGAAGTTATGGACTTAAAAGGATGCCATGGAGTTGTGGACTTTAA
1 AA-GGATGCCACGGAGTTGTGGACTTAAAAGGATGCCA-CGAGTTGTGGAC-TTAA
* * *
6455 AAGGGTGCCACGGAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCAC-GAGTTGTGGACTTAA
* * * *
6509 AAGGATGCTATGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTA
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCAC-GAGTTGTGGACTTAA
* * * *
6564 TAGGGTGCCACGGAGTTGTGGACTTAAAAAGGATGCCACAGAATTATGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGACTT-AAAAGGATGCCAC-GAGTTGTGGAC-TTAA
*
6620 AGGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTAGG-CTTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCAC-GAGTTGT-GGAC-TTAA
* * * *
6675 AA-AAGTGCCATGGAGTTGTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTCAA
1 AAGGA-TGCCACGGAGTTGTGGACTT-AAAAGGATGCCAC-GAGTTGTGGACTTAA
** * *
6730 AAGGATGCCACGGAGTTGTGGACTTTAAAA-GAGTGCCACAGAGTCATAGACTTTA
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAGGA-TGCCAC-GAGTTGTGGACTTAA
* * * * * *
6785 AAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTACCATGAGATTGTGAACTTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAG-TTGTGGAC-TTAA
*
6840 AAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCAC-GAGTTGTGGACTTAA
* * * *
6894 AGGGATGCCACGGAGTTGTGGACTTTAAAAGGGTACCACGGAGTTGTGGACTTTA
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCAC-GAGTTGTGGACTTAA
* ** *
6949 AAGGGTGCCACAAAG-TGTTGGACTTAAAAGGGTGCCACGGAG-TGTTGGACTTAA
1 AAGGATGCCACGGAGTTG-TGGACTTAAAAGGATGCCAC-GAGTTG-TGGACTTAA
* * *
7003 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTATGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCA-CGAGTTGTGGAC-TTAA
*
7058 AAGGGTGCCACGGAGTTGTGGACTTTAAAAG
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAG
7089 AAAAGGTTGC
Statistics
Matches: 1097, Mismatches: 140, Indels: 97
0.82 0.10 0.07
Matches are distributed among these distances:
47 27 0.02
48 16 0.01
50 1 0.00
52 1 0.00
53 11 0.01
54 253 0.23
55 638 0.58
56 144 0.13
57 6 0.01
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (53 bp):
AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAGTTGTGGACTTAA
Found at i:5914 original size:82 final size:81
Alignment explanation
Indices: 5748--7088 Score: 1434
Period size: 82 Copynumber: 16.4 Consensus size: 81
5738 TGGGCTTTGG
* * * * * ** * * *
5748 AAGGGTGCCACTGACTTGTGGGCTTAACAATGATGCCACTAACTTGTGGACTTAAAAGAATGCCA
1 AAGGATGCCACGGAGTTGTGGACTTAA-AAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCCA
*
5813 TGGAGTTGTGGACTTAA
65 CGGAGTTGTGGACTTAA
** * * * *
5830 AAGGACACCACTGAGTTGTGGACTTAAAATGATGCCACGGAGTTGTGGACTTTAAAGGATACCAT
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCCAC
5895 GGAGTTGTGGACTTTAA
66 GGAGTTGTGGAC-TTAA
* *
5912 AAGGATGCCACGGAGTTATGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT-AAAGGATGCCA
* * * *
5977 TGGAGTTATGGATTTTA
65 CGGAGTTGTGGACTTAA
* * * * *
5994 AACGAGTGCCATGGAGTTGTGGACTTAAAAGGATGCCATGAAGTTGTGGACTTTAAAAGGACGCC
1 AAGGA-TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT-AAAGGATGCC
6059 ACGGAGTTGTGGACTTTAA
64 ACGGAGTTGTGGAC-TTAA
* * * * *
6078 AAGGATGCCACAGAGTTGTGGACTTAAAGGGATGCCACGGAGTTATGGACTTAAAAGGATGCCAT
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCCAC
6143 GGAGTTGTAGG-CTTTAA
66 GGAGTTGT-GGAC-TTAA
* * *
6160 AAGGATGCCACAGAGTTGTGGACTTTAAAAAGG-TGCCACAGAGTTGTGGACTTAAAAGGATGCC
1 AAGGATGCCACGGAGTTGTGGAC-TT-AAAAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCC
6224 ACGGAGTTGTGGACTTAA
64 ACGGAGTTGTGGACTTAA
* *
6242 AAGGATGCCACGGAGTTATAGACTTTAAAAGGATGCCACGGAGTTGTGGAC-----A--ATGCCA
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCCA
* * *
6300 TGAAGTTATGGACTTAA
65 CGGAGTTGTGGACTTAA
* * * * *
6317 AAGGATGCCACGGAGTTGTGGACTTAAAAAGATGCCACGGAATTATGGGCTTTAAAAGGGTGCCA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT-AAAGGATGCCA
* **
6382 CAGAGTTGTTAACTTAA
65 CGGAGTTGTGGACTTAA
* * * * *
6399 AAGGGGTGCCACGAAGTTATGGACTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGGTGCC
1 AA-GGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT-AAAGGATGCC
*
6464 ACGGAGTTGTGAACTTAA
64 ACGGAGTTGTGGACTTAA
* * * *
6482 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCTATGGAGTTGTGGACTTTAAAAGGGTGCCA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT-AAAGGATGCCA
* *
6547 CAGAGTTGTGGACTTTA
65 CGGAGTTGTGGACTTAA
* * * * *
6564 TAGGGTGCCACGGAGTTGTGGACTTAAAAAGGATGCCACAGAATTATGGACTTTAAAGGGATGCC
1 AAGGATGCCACGGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACTTTAAA-GGATGCC
6629 ACGGAGTTGTGGACTTAA
64 ACGGAGTTGTGGACTTAA
* * * * *
6647 AAGGATGCCACAGAGTTGTAGG-CTTTAAAA-AAGTGCCATGGAGTTGTGGACTTAAAAAGGGTG
1 AAGGATGCCACGGAGTTGT-GGAC-TTAAAAGGA-TGCCACGGAGTTGTGGACTT-TAAAGGATG
*
6710 CCACGGAGTTGTGGACTCAA
62 CCACGGAGTTGTGGACTTAA
* ** * *
6730 AAGGATGCCACGGAGTTGTGGACTTTAAAA-GAGTGCCACAGAGTCATAGACTTTAAAGGGTGCC
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAGGA-TGCCACGGAGTTGTGGACTTTAAAGGATGCC
*
6794 ATGGAGTTGTGGACTTAA
64 ACGGAGTTGTGGACTTAA
* * * * * *
6812 AAGGGTACCA-TGAGATTGTGAACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAGGATGCCACGGAG-TTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCC
*
6876 ACAGAGTTGTGGACTTAA
64 ACGGAGTTGTGGACTTAA
* * * *
6894 AGGGATGCCACGGAGTTGTGGACTTTAAAAGGGTACCACGGAGTTGTGGACTTTAAAGGGTGCCA
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCCA
**
6959 CAAAG-TGTTGGACTTAA
65 CGGAGTTG-TGGACTTAA
* * *
6976 AAGGGTGCCACGGAG-TGTTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCA
1 AAGGATGCCACGGAGTTG-TGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCCA
* *
7040 TGGAGTTATGGACTTTAA
65 CGGAGTTGTGGAC-TTAA
*
7058 AAGGGTGCCACGGAGTTGTGGACTTTAAAAG
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAG
7089 AAAAGGTTGC
Statistics
Matches: 1084, Mismatches: 141, Indels: 67
0.84 0.11 0.05
Matches are distributed among these distances:
74 23 0.02
75 41 0.04
77 1 0.00
80 1 0.00
81 102 0.09
82 494 0.46
83 403 0.37
84 19 0.02
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (81 bp):
AAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCCAC
GGAGTTGTGGACTTAA
Found at i:6329 original size:47 final size:48
Alignment explanation
Indices: 6246--6339 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 48
6236 ACTTAAAAGG
*
6246 ATGCCACGGAGTTATAGACTTTAAAAGGATGCCACGGAGTTGTGGACA
1 ATGCCACGAAGTTATAGACTTTAAAAGGATGCCACGGAGTTGTGGACA
* *
6294 ATGCCATGAAGTTATGGAC-TTAAAAGGATGCCACGGAGTTGTGGAC
1 ATGCCACGAAGTTATAGACTTTAAAAGGATGCCACGGAGTTGTGGAC
6340 TTAAAAAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
47 27 0.63
48 16 0.37
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (48 bp):
ATGCCACGAAGTTATAGACTTTAAAAGGATGCCACGGAGTTGTGGACA
Found at i:7100 original size:33 final size:33
Alignment explanation
Indices: 7001--7159 Score: 151
Period size: 34 Copynumber: 5.1 Consensus size: 33
6991 TGTTGGACTT
*
7001 AAAAGGGTGCCACGGAGTTGTGGAC-TT-----
1 AAAAGGTTGCCACGGAGTTGTGGACTTTAAAAG
* * *
7028 AAAAGGATGCCATGGAGTTATGGACTTTAAAAG
1 AAAAGGTTGCCACGGAGTTGTGGACTTTAAAAG
7061 ----GG-TGCCACGGAGTTGTGGACTTTAAAAG
1 AAAAGGTTGCCACGGAGTTGTGGACTTTAAAAG
* *
7089 AAAAGGTTGCCACAGAGTTATGGACTTTAAAAG
1 AAAAGGTTGCCACGGAGTTGTGGACTTTAAAAG
* *
7122 AAAAAGGTTGCCATGGAGTTGTGGATTTTGAAAAG
1 -AAAAGGTTGCCACGGAGTTGTGGACTTT-AAAAG
7157 AAA
1 AAA
7160 TGCCACTAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
27 22 0.20
28 26 0.24
29 2 0.02
32 2 0.02
33 24 0.22
34 27 0.25
35 5 0.05
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.25
Consensus pattern (33 bp):
AAAAGGTTGCCACGGAGTTGTGGACTTTAAAAG
Found at i:7132 original size:34 final size:34
Alignment explanation
Indices: 7056--7159 Score: 147
Period size: 33 Copynumber: 3.1 Consensus size: 34
7046 TATGGACTTT
*
7056 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAG-
1 AAAAGGTTGCCACGGAGTTGTGGACTTTAAAAGA
* *
7089 AAAAGGTTGCCACAGAGTTATGGACTTTAAAAGA
1 AAAAGGTTGCCACGGAGTTGTGGACTTTAAAAGA
* *
7123 AAAAGGTTGCCATGGAGTTGTGGATTTTGAAAAGA
1 AAAAGGTTGCCACGGAGTTGTGGACTTT-AAAAGA
7158 AA
1 AA
7160 TGCCACTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.48
34 24 0.39
35 8 0.13
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.24
Consensus pattern (34 bp):
AAAAGGTTGCCACGGAGTTGTGGACTTTAAAAGA
Found at i:14982 original size:16 final size:17
Alignment explanation
Indices: 14949--14991 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
14939 TCATATGTTT
*
14949 TTTTTTCTTTTTCTTCC
1 TTTTTTCTTTATCTTCC
14966 TTTTTTCTTTATC-TCC
1 TTTTTTCTTTATCTTCC
14982 TTTCTTTCTT
1 TTT-TTTCTT
14992 ACTTATAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTCTTTATCTTCC
Found at i:17806 original size:16 final size:16
Alignment explanation
Indices: 17794--17827 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17784 TTCGGGCTTA
17794 TTTGGGTTTGGGCCTT
1 TTTGGGTTTGGGCCTT
* *
17810 TTTGGGTTCGAGCCTT
1 TTTGGGTTTGGGCCTT
17826 TT
1 TT
17828 CGAGTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.15, G:0.32, T:0.50
Consensus pattern (16 bp):
TTTGGGTTTGGGCCTT
Found at i:18042 original size:20 final size:20
Alignment explanation
Indices: 18006--18056 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
17996 TCATTTTTAA
*
18006 TATATTTATTTATTAAAACC
1 TATATTTATATATTAAAACC
*
18026 TATATTTATA-ATATAAAA-T
1 TATATTTATATAT-TAAAACC
18045 TA-ATTTATATAT
1 TATATTTATATAT
18057 AATAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 7 0.26
19 6 0.22
20 14 0.52
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATTTATATATTAAAACC
Found at i:18084 original size:19 final size:19
Alignment explanation
Indices: 18029--18078 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
18019 TAAAACCTAT
18029 ATTTAT-AAT-ATAAAATTA
1 ATTTATAAATAAT-AAATTA
*
18047 ATTTATATATAATAAATTA
1 ATTTATAAATAATAAATTA
*
18066 ATTTTTAAATAAT
1 ATTTATAAATAAT
18079 TTATTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.22
19 19 0.70
20 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTATAAATAATAAATTA
Found at i:19300 original size:14 final size:14
Alignment explanation
Indices: 19281--19311 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19271 AAAACTTCTT
*
19281 TATGTGTATGTATA
1 TATGTGTATATATA
19295 TATGTGTATATATA
1 TATGTGTATATATA
19309 TAT
1 TAT
19312 AATATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (14 bp):
TATGTGTATATATA
Found at i:26152 original size:18 final size:19
Alignment explanation
Indices: 26103--26154 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
26093 AATCTTGTCT
*
26103 AATGACCTTGTTTGCCCAAA
1 AATGACATT-TTTGCCCAAA
26123 AATGACATTTTTGCCCAAA
1 AATGACATTTTTGCCCAAA
*
26142 ATTGACATTTTTG
1 AATGACATTTTTG
26155 GTCATTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (19 bp):
AATGACATTTTTGCCCAAA
Found at i:28966 original size:13 final size:13
Alignment explanation
Indices: 28948--28973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28938 ATTATGCTTT
28948 GTATCGATACATG
1 GTATCGATACATG
28961 GTATCGATACATG
1 GTATCGATACATG
28974 TTCATTGTAT
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:0.23, T:0.31
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:28989 original size:32 final size:33
Alignment explanation
Indices: 28928--28993 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
28918 ACACCCAGAT
* *
28928 GTATCGATACATTATGCTTTGTATCGATACATG
1 GTATCGATACATTATGCATTGTATAGATACATG
28961 GTATCGATACATGT-T-CATTGTATAGATACATG
1 GTATCGATACAT-TATGCATTGTATAGATACATG
28993 G
1 G
28994 ACAATTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 16 0.53
33 13 0.43
34 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (33 bp):
GTATCGATACATTATGCATTGTATAGATACATG
Found at i:29075 original size:13 final size:13
Alignment explanation
Indices: 29057--29109 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
29047 GGATACATGG
29057 TACATTGTATCGA
1 TACATTGTATCGA
29070 TACATTGTATCGA
1 TACATTGTATCGA
29083 TACA-TG-AT-G-
1 TACATTGTATCGA
29092 -A-ATTGTATCGA
1 TACATTGTATCGA
29103 TACATTG
1 TACATTG
29110 CTTGTAAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:29085 original size:33 final size:33
Alignment explanation
Indices: 29041--29109 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
29031 CTATCACTGT
* *
29041 TTGTATGGATACATGGT-ACATTGTATCGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
29074 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
29107 TTG
1 TTG
29110 CTTGTAAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:34057 original size:13 final size:13
Alignment explanation
Indices: 34039--34065 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34029 ACCTTATGCT
34039 TTGTATCGATACA
1 TTGTATCGATACA
34052 TTGTATCGATACA
1 TTGTATCGATACA
34065 T
1 T
34066 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:34074 original size:19 final size:20
Alignment explanation
Indices: 34050--34105 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
34040 TGTATCGATA
34050 CATTGTATCGATACATGT-T
1 CATTGTATCGATACATGTAT
34069 CATTGTATCGATACAT-TCAT
1 CATTGTATCGATACATGT-AT
*
34089 AATTGTATCGATACATG
1 CATTGTATCGATACATG
34106 AAACTGGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
CATTGTATCGATACATGTAT
Found at i:34095 original size:20 final size:19
Alignment explanation
Indices: 34051--34105 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
34041 GTATCGATAC
*
34051 ATTGTATCGATACATGTTC
1 ATTGTATCGATACATGTTA
34070 ATTGTATCGATACAT-TCATA
1 ATTGTATCGATACATGT--TA
34090 ATTGTATCGATACATG
1 ATTGTATCGATACATG
34106 AAACTGGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 16 0.50
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (19 bp):
ATTGTATCGATACATGTTA
Found at i:34222 original size:10 final size:10
Alignment explanation
Indices: 34207--34238 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
34197 ACATTGCTTC
34207 AAACGGCTAT
1 AAACGGCTAT
34217 AAACGGCTAT
1 AAACGGCTAT
34227 AAACGGCTAT
1 AAACGGCTAT
34237 AA
1 AA
34239 TTTCAAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (10 bp):
AAACGGCTAT
Found at i:35360 original size:13 final size:13
Alignment explanation
Indices: 35342--35366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35332 ACCTTATGCT
35342 TTGTATCGATACA
1 TTGTATCGATACA
35355 TTGTATCGATAC
1 TTGTATCGATAC
35367 GTGTTAATTG
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:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:35397 original size:20 final size:20
Alignment explanation
Indices: 35354--35408 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
35344 GTATCGATAC
* **
35354 ATTGTATCGATACGT-GTTA
1 ATTGTATCGATACATGGACA
35373 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
35393 ATTGTATCGATACATG
1 ATTGTATCGATACATG
35409 AGATTGGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:41535 original size:29 final size:32
Alignment explanation
Indices: 41484--41553 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 32
41474 ATGTGATATT
*
41484 ATGAATTTTTGATGATTCATGTTTTGTTGT-TGA
1 ATGAA-TTTTGATGATT-ATGTTATGTTGTATGA
41517 ATGAATTTTGATG-TT-TGTTATGTTGTATGA
1 ATGAATTTTGATGATTATGTTATGTTGTATGA
*
41547 CTGAATT
1 ATGAATT
41554 ATGTTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 10 0.29
30 9 0.26
31 2 0.06
32 8 0.24
33 5 0.15
ACGTcount: A:0.23, C:0.03, G:0.21, T:0.53
Consensus pattern (32 bp):
ATGAATTTTGATGATTATGTTATGTTGTATGA
Found at i:50408 original size:13 final size:13
Alignment explanation
Indices: 50390--50415 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50380 AAAAAGCCAG
50390 ATGTATCGATACA
1 ATGTATCGATACA
50403 ATGTATCGATACA
1 ATGTATCGATACA
50416 TGATTACTAG
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:52863 original size:19 final size:20
Alignment explanation
Indices: 52839--52892 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
52829 ACATTATGCT
**
52839 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGCACAA
52858 TTGTATCGATACATGCACAA
1 TTGTATCGATACATGCACAA
52878 TTGTATCGATACATG
1 TTGTATCGATACATG
52893 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:52946 original size:20 final size:19
Alignment explanation
Indices: 52921--52974 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
52911 CTACCACTAT
52921 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
52941 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
52961 TTGTATCGATACAT
1 TTGTATCGATACAT
52975 TGCTTCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:54259 original size:22 final size:21
Alignment explanation
Indices: 54212--54259 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
54202 CTTTTTAAAA
* *
54212 TAATGAAAATAATTTATATAT
1 TAATAAAAATAATTAATATAT
*
54233 AAATAAAAATAATATAATATAT
1 TAATAAAAATAAT-TAATATAT
54255 TAATA
1 TAATA
54260 TCAACGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TAATAAAAATAATTAATATAT
Found at i:54290 original size:20 final size:20
Alignment explanation
Indices: 54211--54291 Score: 51
Period size: 20 Copynumber: 3.9 Consensus size: 20
54201 ACTTTTTAAA
*
54211 ATAATGAAAATAAT-TTATAT
1 ATAAT-AAAATAATAATATAT
54231 ATAA-ATAAA-AATAATATAAT
1 ATAATA-AAATAATAATAT-AT
* *
54251 ATATTAATATCAACGTTAATATAT
1 ATAATAAAAT-AA---TAATATAT
54275 ATAATAAAATAATAATA
1 ATAATAAAATAATAATA
54292 AATTTAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 18
0.67 0.07 0.26
Matches are distributed among these distances:
18 4 0.09
19 6 0.13
20 16 0.34
21 1 0.02
22 2 0.04
23 2 0.04
24 10 0.21
25 6 0.13
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
ATAATAAAATAATAATATAT
Found at i:55232 original size:13 final size:13
Alignment explanation
Indices: 55214--55239 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55204 CAATTTTTTG
55214 TGTATCGATACAT
1 TGTATCGATACAT
55227 TGTATCGATACAT
1 TGTATCGATACAT
55240 ACTTGCTGTA
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:55304 original size:21 final size:21
Alignment explanation
Indices: 55278--55353 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
55268 CTGCCAAGAA
55278 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
55299 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
55319 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
55340 ATGTATCGATACAT
1 ATGTATCGATACAT
55354 TGCAACAGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:55323 original size:20 final size:20
Alignment explanation
Indices: 55298--55371 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
55288 ACATCTTTTT
55298 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
55318 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
55339 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
*
55359 CAGGTATCGATAC
1 CATGTATCGATAC
55372 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:55335 original size:41 final size:41
Alignment explanation
Indices: 55278--55371 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
55268 CTGCCAAGAA
55278 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
55319 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
55360 AGGTATCGATAC
1 ATGTATCGATAC
55372 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:57835 original size:13 final size:13
Alignment explanation
Indices: 57817--57855 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
57807 ATAATCACCC
*
57817 TGTATCGATACAG
1 TGTATCGATACAA
57830 TGTATCGATACAA
1 TGTATCGATACAA
57843 TGTATCGATACAA
1 TGTATCGATACAA
57856 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:57866 original size:20 final size:20
Alignment explanation
Indices: 57841--57919 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
57831 GTATCGATAC
57841 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
57861 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
57886 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
57906 CATGTATCGATACA
1 AATGTATCGATACA
57920 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:64033 original size:13 final size:13
Alignment explanation
Indices: 64015--64040 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64005 CAATTTTTTG
64015 TGTATCGATACAT
1 TGTATCGATACAT
64028 TGTATCGATACAT
1 TGTATCGATACAT
64041 ACTTGCTGTA
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:64105 original size:21 final size:21
Alignment explanation
Indices: 64079--64154 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
64069 CTGCCAAGAA
64079 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
64100 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
64120 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
64141 ATGTATCGATACAT
1 ATGTATCGATACAT
64155 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:64124 original size:20 final size:20
Alignment explanation
Indices: 64099--64172 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
64089 ACATCTTTTT
64099 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
64119 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
64140 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
64160 CATGTATCGATAC
1 CATGTATCGATAC
64173 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:64136 original size:41 final size:41
Alignment explanation
Indices: 64079--64172 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
64069 CTGCCAAGAA
64079 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
64120 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
64161 ATGTATCGATAC
1 ATGTATCGATAC
64173 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:64531 original size:17 final size:17
Alignment explanation
Indices: 64511--64550 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
64501 ATTTTGAGTA
64511 AAAAATAAAAAATAAAT
1 AAAAATAAAAAATAAAT
* **
64528 AAAAATAAATAATTGAT
1 AAAAATAAAAAATAAAT
64545 AAAAAT
1 AAAAAT
64551 TTATATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AAAAATAAAAAATAAAT
Found at i:65079 original size:23 final size:23
Alignment explanation
Indices: 65053--65097 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
65043 TTAGATACAA
65053 ATTAAAAATTAAAATTTTATTTG
1 ATTAAAAATTAAAATTTTATTTG
*
65076 ATTAAAATTTAAAATTTTATTT
1 ATTAAAAATTAAAATTTTATTT
65098 AAATGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTAAAAATTAAAATTTTATTTG
Found at i:65111 original size:23 final size:22
Alignment explanation
Indices: 65052--65108 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 22
65042 TTTAGATACA
65052 AATTAAAAATTAAAATTTTATTT
1 AATT-AAAATTAAAATTTTATTT
*
65075 GATTAAAATTTAAAATTTTATTT
1 AATTAAAA-TTAAAATTTTATTT
65098 AAATGTAAAAT
1 -AAT-TAAAAT
65109 AAAGAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 4 0.14
23 17 0.59
24 3 0.10
25 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
AATTAAAATTAAAATTTTATTT
Found at i:65125 original size:30 final size:28
Alignment explanation
Indices: 65085--65160 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 28
65075 GATTAAAATT
*
65085 TAAAATTTTATTTAAATGTAAAATAAAGAA
1 TAAAAATTTATTTAAAT-TAAAATAAA-AA
*
65115 TAAAAATTTATTTAAA-TATAATAAAAA
1 TAAAAATTTATTTAAATTAAAATAAAAA
*
65142 TATAATAATTTACTTAAAT
1 TA-AA-AATTTATTTAAAT
65161 AAATTATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.10
28 10 0.25
29 11 0.28
30 15 0.38
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (28 bp):
TAAAAATTTATTTAAATTAAAATAAAAA
Found at i:65158 original size:29 final size:28
Alignment explanation
Indices: 65106--65161 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
65096 TTAAATGTAA
*
65106 AATAAAGAATAAAAATTTATTTAAATAT
1 AATAAAGAATAAAAATTTACTTAAATAT
65134 AATAAA-AATATAATAATTTACTTAAATA
1 AATAAAGAATA-AA-AATTTACTTAAATA
65162 AATTATAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 4 0.16
28 8 0.32
29 13 0.52
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
AATAAAGAATAAAAATTTACTTAAATAT
Found at i:69582 original size:153 final size:153
Alignment explanation
Indices: 69338--69814 Score: 575
Period size: 153 Copynumber: 3.1 Consensus size: 153
69328 TTGGCTCTGG
* ** * * * *
69338 GAAAATTACCAAAATGCCTTTGGGTATATCTTTAACGTGAAAGTATCTTGATAACCCTAGAGAAC
1 GAAAATTACCAAAATGCCTTT-GGTATACCTTCGACGTGAAAGTATCTCGATAACCCTAAAGGAT
* * *
69403 ATGAAAAGATCATGAAAGGTCGAACCTATCCTAAATGTAGACCTTTGGCATAAAAGCGACCTGA-
65 ACGAAAGGATCATAAAAGGTCGAACCTATCCTAAATGTAGACCTTTGGCATAAAAGCGACCTGAG
* *
69467 TAACTACCTAAGAATCGATTCTAG
130 TAACTACCTAAGACTCGATTCTAA
* *
69491 GAAAATTACCAAAATGCCTTTAGGTATACCTTCGACGTGAGAGTATCTCGATAACCTTAAAGGAT
1 GAAAATTACCAAAATGCCTTT-GGTATACCTTCGACGTGAAAGTATCTCGATAACCCTAAAGGAT
** * * * *
69556 ACGAAAGGATTGTAAAAGGTCAAACCTGTCCTAAATGTAGACCTTTAGCCTAAAAGCGA-CTGAG
65 ACGAAAGGATCATAAAAGGTCGAACCTATCCTAAATGTAGACCTTTGGCATAAAAGCGACCTGAG
*
69620 TAACTACTTAAGACTCGATTCTAA
130 TAACTACCTAAGACTCGATTCTAA
* * * * * *
69644 GAAACATAACCAAAATG-CTCTTGGATATACTTTCGACGTAAAAGTATCACGGTAACCCAAAAGG
1 GAAA-ATTACCAAAATGCCT-TTGG-TATACCTTCGACGTGAAAGTATCTCGATAACCCTAAAGG
* * * *
69708 ATACAAAAGGATCATAAAATGTTGAACCTATCCTAAATGTAGACCTTTGGCATAAAAACGACCT-
63 ATACGAAAGGATCATAAAAGGTCGAACCTATCCTAAATGTAGACCTTTGGCATAAAAGCGACCTG
*
69772 AGTGACTACCTAAGACTCGATTCTAA
128 AGTAACTACCTAAGACTCGATTCTAA
* *
69798 AAAAATTACTAAAATGC
1 GAAAATTACCAAAATGC
69815 TTCTAGGGTA
Statistics
Matches: 273, Mismatches: 45, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
152 4 0.01
153 144 0.53
154 123 0.45
155 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (153 bp):
GAAAATTACCAAAATGCCTTTGGTATACCTTCGACGTGAAAGTATCTCGATAACCCTAAAGGATA
CGAAAGGATCATAAAAGGTCGAACCTATCCTAAATGTAGACCTTTGGCATAAAAGCGACCTGAGT
AACTACCTAAGACTCGATTCTAA
Found at i:69853 original size:154 final size:152
Alignment explanation
Indices: 69339--69869 Score: 524
Period size: 154 Copynumber: 3.5 Consensus size: 152
69329 TGGCTCTGGG
* * * * *
69339 AAAATTACCAAAATGCCTT-T-GGGTATATCTTTAACGTGAAAGTATCTTGATAACCCTAGA-GA
1 AAAATTACCAAAATG-CTTCTAGGGTATA-CTTTGACGTAAAAGTATCTCG-TAACCCAAAAGGA
* *
69401 -ACATGAAAAGATCATGAAAGGTCGAACCTATCCTAAATGTAGACCTTTGGCATAAAAGCGACCT
63 TACA--AAAGGATCATAAAAGGTCGAACCTATCCTAAATGTAGACCTTTGGCATAAAAGCGACCT
* **
69465 -GATAACTACCTAAGAATCGATTCTAGG
126 AG-TAACTACCTAAGACTCGATTCTAAA
* * * **
69492 AAAATTACCAAAATGCCTT-TA-GGTATACCTTCGACGTGAGAGTATCTCGATAACCTTAAAGGA
1 AAAATTACCAAAATG-CTTCTAGGGTATA-CTTTGACGTAAAAGTATCTCG-TAACCCAAAAGGA
* ** * * * *
69555 TACGAAAGGATTGTAAAAGGTCAAACCTGTCCTAAATGTAGACCTTTAGCCTAAAAGCGA-CTGA
63 TACAAAAGGATCATAAAAGGTCGAACCTATCCTAAATGTAGACCTTTGGCATAAAAGCGACCT-A
*
69619 GTAACTACTTAAGACTCGATTCTAAGA
127 GTAACTACCTAAGACTCGATTCTAA-A
* * * * *
69646 AACATAACCAAAATGC-TCTTGGATATACTTTCGACGTAAAAGTATCACGGTAACCCAAAAGGAT
1 AAAATTACCAAAATGCTTCTAGGGTATACTTT-GACGTAAAAGTATCTC-GTAACCCAAAAGGAT
* * *
69710 ACAAAAGGATCATAAAATGTTGAACCTATCCTAAATGTAGACCTTTGGCATAAAAACGACCTAGT
64 ACAAAAGGATCATAAAAGGTCGAACCTATCCTAAATGTAGACCTTTGGCATAAAAGCGACCTAGT
*
69775 GACTACCTAAGACTCGATTCTAAA
129 AACTACCTAAGACTCGATTCTAAA
* * *
69799 AAAATTACTAAAATGCTTCTAGGGTATATCTTTGATGAAAAAGTATCTTCGTAACCCTAAAA-GA
1 AAAATTACCAAAATGCTTCTAGGGTATA-CTTTGACGTAAAAGTATC-TCGTAACCC-AAAAGGA
*
69863 CACAAAA
63 TACAAAA
69870 ATATTATGTA
Statistics
Matches: 312, Mismatches: 51, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
152 3 0.01
153 140 0.45
154 155 0.50
155 14 0.04
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (152 bp):
AAAATTACCAAAATGCTTCTAGGGTATACTTTGACGTAAAAGTATCTCGTAACCCAAAAGGATAC
AAAAGGATCATAAAAGGTCGAACCTATCCTAAATGTAGACCTTTGGCATAAAAGCGACCTAGTAA
CTACCTAAGACTCGATTCTAAA
Found at i:70870 original size:19 final size:19
Alignment explanation
Indices: 70846--70883 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
70836 ACATGAAAAT
70846 GCCAAGGAAAATTGTATAA
1 GCCAAGGAAAATTGTATAA
70865 GCCAAGGAAAATTGTATAA
1 GCCAAGGAAAATTGTATAA
70884 ACATAGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (19 bp):
GCCAAGGAAAATTGTATAA
Found at i:71952 original size:28 final size:27
Alignment explanation
Indices: 71917--71973 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
71907 AAAGGGGGTT
*
71917 AATTAAAATTTTACAT-ATGACAAAATTC
1 AATTAAAAATTTA-ATCATG-CAAAATTC
*
71945 AATTAAAAATTTAATCATGTAAAATTC
1 AATTAAAAATTTAATCATGCAAAATTC
71972 AA
1 AA
71974 AAAATGGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (27 bp):
AATTAAAAATTTAATCATGCAAAATTC
Found at i:73628 original size:65 final size:63
Alignment explanation
Indices: 73510--73788 Score: 172
Period size: 65 Copynumber: 4.3 Consensus size: 63
73500 AAAAAGGATA
* * * * * *
73510 ACTAGAATAAGACTTAAGTCA-AAAAGAGTTGACCAAGACAAAGCCA-AATTAGTCAACTAATGG
1 ACTAGGATAAAACCTAAGTCAGAAAAG-GTTGA-CAAGGCAAAACTAGAA-TAGTCAACTAA-GG
73573 TG
62 TG
*
73575 ATTAGGATAAAACCTAAGTCAGAAAAGGTTGACCAAGGCAAAACTAGAATAGTCAACTGAAGGTG
1 ACTAGGATAAAACCTAAGTCAGAAAAGGTTGA-CAAGGCAAAACTAGAATAGTCAACT-AAGGTG
** ** * * * * * * * *
73640 ACCGGGGGCAGAACATAAGT-TGAAAAGGGGTTGACTAGG-ATGAAAC-CGATAAAATCAATTAA
1 A-CTAGGATAAAACCTAAGTCAGAAAA--GGTTGACAAGGCA--AAACTAGA-ATAGTCAACTAA
73702 GGGTG
60 -GGTG
* * * *
73707 ACTAGGATGAAACCTAAGTCAAAAAAGGTTGACTAGGACAAAACTAGAATAGTCAACTAAAGGTA
1 ACTAGGATAAAACCTAAGTCAGAAAAGGTTGACAAGG-CAAAACTAGAATAGTCAACT-AAGGTG
*
73772 ACTAGGATGAAACCTAA
1 ACTAGGATAAAACCTAA
73789 ATTGTAAATA
Statistics
Matches: 165, Mismatches: 34, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
65 95 0.58
66 43 0.26
67 27 0.16
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (63 bp):
ACTAGGATAAAACCTAAGTCAGAAAAGGTTGACAAGGCAAAACTAGAATAGTCAACTAAGGTG
Found at i:73743 original size:31 final size:33
Alignment explanation
Indices: 73668--73744 Score: 95
Period size: 31 Copynumber: 2.4 Consensus size: 33
73658 GTTGAAAAGG
**
73668 GGTTGACTAGGATGAAACCGATAAAATCAATTAA
1 GGTTGACTAGGATGAAACC-ATAAAATCAAAAAA
* *
73702 GGGTGACTAGGATGAAACC-T-AAGTCAAAAAA
1 GGTTGACTAGGATGAAACCATAAAATCAAAAAA
73733 GGTTGACTAGGA
1 GGTTGACTAGGA
73745 CAAAACTAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 19 0.50
32 1 0.03
34 18 0.47
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.21
Consensus pattern (33 bp):
GGTTGACTAGGATGAAACCATAAAATCAAAAAA
Found at i:75361 original size:16 final size:15
Alignment explanation
Indices: 75342--75391 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
75332 TTCTCTTTGG
75342 TTTTTTAATTTTTAAT
1 TTTTTTAA-TTTTAAT
* *
75358 TTTTTTGATTTTGAT
1 TTTTTTAATTTTAAT
*
75373 TTTTTT-ATCTT-AT
1 TTTTTTAATTTTAAT
75386 TTTTTT
1 TTTTTT
75392 TTCTCTCGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 8 0.26
14 4 0.13
15 12 0.39
16 7 0.23
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTTTTAATTTTAAT
Found at i:76237 original size:362 final size:361
Alignment explanation
Indices: 75563--76285 Score: 1189
Period size: 362 Copynumber: 2.0 Consensus size: 361
75553 GATCTTTTTG
* *
75563 TCTAGGTAATATTCTTTTCAATAACTATTCTCCCTCATGGAATTCCTTAGGATGAATTTTCTTAT
1 TCTAGGCAATATTCTTTTCAATAACTATTCTCCCTCATGGAATTCCTTAGCATGAATTTTCTTAT
75628 CACGTGCTCTCATCATCTTTTTTTTTGGTACATCTGCCCATGCTGAATAGCTTTTGGCTTTTTTT
66 CACGTGCTCTCATCATC-TTTTTTTTGGTACATCTGCCCATGCTGAATAGCTTTTGGCTTTTTTT
* * *
75693 TTCAATGAAATTTAGCTATTCATAATGATCTTAGGCCCATTTGGCTTATTCTAACTTGGTTTCCA
130 TTCAATGAAATTTAGCTATTCATAATGATCTTAGACCCATTCGGCTTATTCCAACTTGGTTTCCA
*
75758 TTAGAACCTAGAGCGAAGGAATTTTAGCTTCAATCAATAAGTGCCATAAGCTAACAAATAAGGTG
195 TTAGAACCTAGAGCGAAGGAATTTCAGCTTCAATCAATAAGTGCCATAAGCTAACAAATAAGGTG
* * *
75823 TTGCCCTAGTTGATGTTCGGACTAAAGTTCTCTATGCTAAGAATACCATGGGGAGCTTTTCATGC
260 TTGCCCTAGGTGATGTTCAGACCAAAGTTCTCTATGCTAAGAATACCATGGGGAGCTTTTCATGC
75888 CAATCCTTATAGGTCTCTACCATCTTTTCTACAATTA
325 CAATCCTTATAGGTCTCTACCATCTTTTCTACAATTA
* * * * * *
75925 TCTAGGCAGTATTCTTTTTAGTACCTATTTTCCCTTATGGAATTCC-TAGCATGAATTTTCTTAT
1 TCTAGGCAATATTCTTTTCAATAACTATTCTCCCTCATGGAATTCCTTAGCATGAATTTTCTTAT
75989 CACGTGCTCTCATCATC-TTTTTTTGGTACATCTGCCCATGCTGAATAGCTTTTGGCTTTTTTTT
66 CACGTGCTCTCATCATCTTTTTTTTGGTACATCTGCCCATGCTGAATAGCTTTTGGC--TTTTTT
*
76053 TCTTCAATGAAATTTAGCTATTCATAATGATCTTAGACCCATTCGGCTTCTTCCAACTTGGTTTC
129 T-TTCAATGAAATTTAGCTATTCATAATGATCTTAGACCCATTCGGCTTATTCCAACTTGGTTTC
* *
76118 CATTAGAACCTAGAGCGAAGGAATTTCAGCTTCAATTAATAAGTGCCATAAGCTAACAAATAGGG
193 CATTAGAACCTAGAGCGAAGGAATTTCAGCTTCAATCAATAAGTGCCATAAGCTAACAAATAAGG
* * * *
76183 TGTTGCCTTAGGTGATGTTTAGACCAAAGTTCTTTATGCTAAGAATGCCATGGGGAGCTTTTCAT
258 TGTTGCCCTAGGTGATGTTCAGACCAAAGTTCTCTATGCTAAGAATACCATGGGGAGCTTTTCAT
*
76248 GCCAATCCTTGTAGGTCTCTACCATCTTTTCTACAATT
323 GCCAATCCTTATAGGTCTCTACCATCTTTTCTACAATT
76286 CTCTTAATGA
Statistics
Matches: 335, Mismatches: 23, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
359 39 0.12
361 41 0.12
362 255 0.76
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (361 bp):
TCTAGGCAATATTCTTTTCAATAACTATTCTCCCTCATGGAATTCCTTAGCATGAATTTTCTTAT
CACGTGCTCTCATCATCTTTTTTTTGGTACATCTGCCCATGCTGAATAGCTTTTGGCTTTTTTTT
TCAATGAAATTTAGCTATTCATAATGATCTTAGACCCATTCGGCTTATTCCAACTTGGTTTCCAT
TAGAACCTAGAGCGAAGGAATTTCAGCTTCAATCAATAAGTGCCATAAGCTAACAAATAAGGTGT
TGCCCTAGGTGATGTTCAGACCAAAGTTCTCTATGCTAAGAATACCATGGGGAGCTTTTCATGCC
AATCCTTATAGGTCTCTACCATCTTTTCTACAATTA
Found at i:86953 original size:151 final size:153
Alignment explanation
Indices: 86809--87092 Score: 362
Period size: 151 Copynumber: 1.9 Consensus size: 153
86799 AAAAGACATG
* * * * * *
86809 AAAGGATCATGAAAGGTCGAACCTATCCTAAATGT-AGACCTTTGGCATATAAGTGACTTGATGA
1 AAAGGATCATAAAAGATCAAACCTATCCTAAATGTAAG-CCTTTGGCATAAAAGCGACCTGATGA
*
86873 CTTA-TA-GACTTGGTTTTAGGAAAAATTATCAAAATGCCTTT-GGTATACCTTCGAT-ATGAAA
65 -TTACTAGGACTCGGTTTTAGGAAAAATTATCAAAATGCCTTTAGGTATACCTTCGATGA-GAAA
86934 GTATTCCGGTTATCCTAAAAAACACA
128 GTATTCCGGTTATCCTAAAAAACACA
** * * *
86960 AAAGGATTGTAAAAGATTAAACCTATCCTAAATGTAAGCCTTTGGCATAAAAGCGTCCTGGTGAT
1 AAAGGATCATAAAAGATCAAACCTATCCTAAATGTAAGCCTTTGGCATAAAAGCGACCTGATGAT
* *
87025 TACCTAGGACTCGGTTTTAGGAAAAATTATCAAAATGCTTTTAGGGTATACCTTTGATGAGAAAG
66 TA-CTAGGACTCGGTTTTAGGAAAAATTATCAAAATGCCTTTA-GGTATACCTTCGATGAGAAAG
87090 TAT
129 TAT
87093 CCTAGTAACC
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
150 3 0.03
151 50 0.45
152 4 0.04
153 33 0.29
155 21 0.19
156 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (153 bp):
AAAGGATCATAAAAGATCAAACCTATCCTAAATGTAAGCCTTTGGCATAAAAGCGACCTGATGAT
TACTAGGACTCGGTTTTAGGAAAAATTATCAAAATGCCTTTAGGTATACCTTCGATGAGAAAGTA
TTCCGGTTATCCTAAAAAACACA
Found at i:89171 original size:28 final size:27
Alignment explanation
Indices: 89140--89194 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
89130 AAGCGGTTAG
*
89140 TTAAAATTTTACAT-ATGGCAAAATTCAA
1 TTAAAAATTTA-ATCAT-GCAAAATTCAA
*
89168 TTAAAAATTTAATCATGTAAAATTCAA
1 TTAAAAATTTAATCATGCAAAATTCAA
89195 AAAATGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.36
Consensus pattern (27 bp):
TTAAAAATTTAATCATGCAAAATTCAA
Found at i:93128 original size:15 final size:15
Alignment explanation
Indices: 93108--93140 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
93098 ACTTTGTATG
*
93108 TTTCTCTTTTTCCTT
1 TTTCTCTTTTTCATT
93123 TTTCTCTTTTTCATT
1 TTTCTCTTTTTCATT
93138 TTT
1 TTT
93141 TTAATATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTCTTTTTCATT
Found at i:93810 original size:13 final size:14
Alignment explanation
Indices: 93794--93824 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
93784 ATTAACGCAA
93794 AAAATAAAGAC-TT
1 AAAATAAAGACTTT
93807 AAAATAAAGACTTT
1 AAAATAAAGACTTT
93821 AAAA
1 AAAA
93825 ATTACGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (14 bp):
AAAATAAAGACTTT
Found at i:94374 original size:14 final size:14
Alignment explanation
Indices: 94355--94381 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94345 CTACAAAGAA
94355 AAATAAAAATTAAT
1 AAATAAAAATTAAT
94369 AAATAAAAATTAA
1 AAATAAAAATTAA
94382 GGATAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAAAAATTAAT
Found at i:97328 original size:31 final size:31
Alignment explanation
Indices: 97290--97349 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
97280 AATATAAGAA
97290 AAATAAAA-CTAAATTAAAAACTACTAAAAAT
1 AAATAAAATCTAAA-TAAAAACTACTAAAAAT
*
97321 AAATAAAATCTAAATAAAAATTACTAAAA
1 AAATAAAATCTAAATAAAAACTACTAAAA
97350 CTTAGCTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.23
Consensus pattern (31 bp):
AAATAAAATCTAAATAAAAACTACTAAAAAT
Found at i:97338 original size:21 final size:22
Alignment explanation
Indices: 97290--97341 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
97280 AATATAAGAA
*
97290 AAATAAAACTAAATTAAAAACT
1 AAATAAAAATAAATTAAAAACT
* *
97312 -ACTAAAAATAAA-TAAAATCT
1 AAATAAAAATAAATTAAAAACT
97332 AAATAAAAAT
1 AAATAAAAAT
97342 TACTAAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (22 bp):
AAATAAAAATAAATTAAAAACT
Found at i:97537 original size:11 final size:11
Alignment explanation
Indices: 97521--97545 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
97511 TAAATCTTAA
97521 CTTCATCAAGG
1 CTTCATCAAGG
97532 CTTCATCAAGG
1 CTTCATCAAGG
97543 CTT
1 CTT
97546 TCTATTCGAC
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:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (11 bp):
CTTCATCAAGG
Found at i:103260 original size:19 final size:20
Alignment explanation
Indices: 103236--103282 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
103226 ATAGATACAA
*
103236 TGTATCGATACATGCTC-AT
1 TGTATCGATACATACTCAAT
103255 TGTATCGATACATACTCAAT
1 TGTATCGATACATACTCAAT
103275 TGTATCGA
1 TGTATCGA
103283 GATATGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATACTCAAT
Found at i:103361 original size:20 final size:20
Alignment explanation
Indices: 103318--103366 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
103308 TAAGTGAAAT
* **
103318 GTATCGATACATGGGACATT
1 GTATCGATACATGGGAAAAA
*
103338 GTATCGATACATGGTAAAAA
1 GTATCGATACATGGGAAAAA
103358 GTATCGATA
1 GTATCGATA
103367 TATTGTGCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGGGAAAAA
Found at i:105159 original size:21 final size:21
Alignment explanation
Indices: 105133--105181 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
105123 GACATTGAAG
105133 AAGAAGAGTTTAAATAAGCCA
1 AAGAAGAGTTTAAATAAGCCA
*
105154 AAGAAGAGTTTGAATAAGCCA
1 AAGAAGAGTTTAAATAAGCCA
105175 AAGAAGA
1 AAGAAGA
105182 AGGCAATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.53, C:0.08, G:0.22, T:0.16
Consensus pattern (21 bp):
AAGAAGAGTTTAAATAAGCCA
Found at i:111463 original size:21 final size:21
Alignment explanation
Indices: 111437--111485 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
111427 AAGAAGATTT
*
111437 AATTATTTTATTAAGAGGGAG
1 AATTATTTGATTAAGAGGGAG
*
111458 AATTATTTGATTAAGGGGGAG
1 AATTATTTGATTAAGAGGGAG
*
111479 AACTATT
1 AATTATT
111486 GAAAATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (21 bp):
AATTATTTGATTAAGAGGGAG
Found at i:112155 original size:19 final size:20
Alignment explanation
Indices: 112128--112178 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
112118 CGATACATTA
*
112128 TATCAATACATGCTC-ATTG
1 TATCGATACATGCTCAATTG
* *
112147 TATTGATACATACTCAATTG
1 TATCGATACATGCTCAATTG
112167 TATCGATACATG
1 TATCGATACATG
112179 AAACTGACAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
TATCGATACATGCTCAATTG
Found at i:112168 original size:20 final size:19
Alignment explanation
Indices: 112123--112177 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
112113 TGTACCGATA
* * *
112123 CATTATATCAATACATGCT
1 CATTGTATCGATACATACT
*
112142 CATTGTATTGATACATACT
1 CATTGTATCGATACATACT
112161 CAATTGTATCGATACAT
1 C-ATTGTATCGATACAT
112178 GAAACTGACA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:112251 original size:20 final size:21
Alignment explanation
Indices: 112200--112259 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
112190 AGCTACCCTA
112200 AGTAAAATGTATCGATACATG
1 AGTAAAATGTATCGATACATG
* *
112221 AG-ATATTGTATCGATACATG
1 AGTAAAATGTATCGATACATG
*
112241 -GTAAAAAGTATCGATACAT
1 AGTAAAATGTATCGATACAT
112260 TGTGCCCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 1 0.03
20 30 0.91
21 2 0.06
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (21 bp):
AGTAAAATGTATCGATACATG
Found at i:114630 original size:16 final size:16
Alignment explanation
Indices: 114583--114632 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 16
114573 TGATTCTATA
114583 AAAAAATTGAAAAAAAT
1 AAAAAA-TGAAAAAAAT
114600 AAAAAAT-AAAGAAAAT
1 AAAAAATGAAA-AAAAT
114616 AAAAAATGACAAAAAAT
1 AAAAAATGA-AAAAAAT
114633 TGTTAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.10
16 13 0.43
17 12 0.40
18 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (16 bp):
AAAAAATGAAAAAAAT
Found at i:114650 original size:9 final size:9
Alignment explanation
Indices: 114582--114669 Score: 55
Period size: 9 Copynumber: 9.8 Consensus size: 9
114572 TTGATTCTAT
114582 AAAAAAATTG
1 AAAAAAA-TG
114592 AAAAAAAT-
1 AAAAAAATG
114600 -AAAAAAT-
1 AAAAAAATG
114607 AAAGAAAAT-
1 AAA-AAAATG
114616 -AAAAAATG
1 AAAAAAATG
114624 ACAAAAAATTG
1 A-AAAAAA-TG
114635 TTAAAAAAAATG
1 ---AAAAAAATG
*
114647 --AAAAGTG
1 AAAAAAATG
114654 AAAAAAATG
1 AAAAAAATG
114663 AAAAAAA
1 AAAAAAA
114670 AATTATATGG
Statistics
Matches: 65, Mismatches: 2, Indels: 23
0.72 0.02 0.26
Matches are distributed among these distances:
7 18 0.28
8 4 0.06
9 19 0.29
10 13 0.20
11 2 0.03
12 2 0.03
13 6 0.09
14 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.09, T:0.15
Consensus pattern (9 bp):
AAAAAAATG
Found at i:127510 original size:5 final size:5
Alignment explanation
Indices: 127500--127581 Score: 62
Period size: 5 Copynumber: 16.2 Consensus size: 5
127490 GTATTATTTT
* * *
127500 TTATA TTATA TTATA TTATA TTTTA TT-T- TTA-A TTATTT TTATA TAATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA TTATA TTATA
* *
127548 TTATAA TTATTT TTATA TTATA TTTAAA TTATA T
1 TTAT-A TTA-TA TTATA TTATA -TTATA TTATA T
127582 AGTTATCTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
3 2 0.03
4 4 0.07
5 40 0.66
6 14 0.23
7 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:127519 original size:38 final size:38
Alignment explanation
Indices: 127465--127557 Score: 93
Period size: 38 Copynumber: 2.4 Consensus size: 38
127455 AAAATTTGAC
*
127465 ATATT-TATTGAT-TTATATCATGTTTGT-ATTATTTTTT
1 ATATTATATT-ATATTATATCATATTTGTAATTA-TTTTT
** *
127502 ATATTATATTATATTATATTTTATTTTTAATTATTTTT
1 ATATTATATTATATTATATCATATTTGTAATTATTTTT
*
127540 ATATAATATTATAATTAT
1 ATATTATATTAT-ATTAT
127558 TTTTATATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
37 7 0.15
38 31 0.66
39 9 0.19
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (38 bp):
ATATTATATTATATTATATCATATTTGTAATTATTTTT
Found at i:127523 original size:22 final size:21
Alignment explanation
Indices: 127491--127571 Score: 98
Period size: 22 Copynumber: 4.0 Consensus size: 21
127481 ATCATGTTTG
127491 TATTATTTTTTATATTATATTA
1 TATTA-TTTTTATATTATATTA
*
127513 TATTATATTT-TATT-T-TTA
1 TATTATTTTTATATTATATTA
*
127531 -ATTATTTTTATATAATATTA
1 TATTATTTTTATATTATATTA
127551 TAATTATTTTTATATTATATT
1 T-ATTATTTTTATATTATATT
127572 TAAATTATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
17 8 0.16
18 6 0.12
19 2 0.04
20 7 0.14
21 4 0.08
22 23 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTATTTTTATATTATATTA
Found at i:127542 original size:33 final size:33
Alignment explanation
Indices: 127500--127581 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
127490 GTATTATTTT
*
127500 TTATA-TTATATTATATTATATTTTATTTTTA-A
1 TTATATTTATATTATATTATA-ATTATTTTTATA
* *
127532 TTATTTTTATATAATATTATAATTATTTTTATA
1 TTATATTTATATTATATTATAATTATTTTTATA
*
127565 TTATATTTAAATTATAT
1 TTATATTTATATTATAT
127582 AGTTATCTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 13 0.31
33 29 0.69
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (33 bp):
TTATATTTATATTATATTATAATTATTTTTATA
Found at i:130707 original size:2 final size:2
Alignment explanation
Indices: 130700--130725 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
130690 CTTAAGTAAA
130700 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
130726 TCTCAAGCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:131519 original size:2 final size:2
Alignment explanation
Indices: 131512--131537 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
131502 CATATGCTGC
131512 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
131538 GAAGATACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134158 original size:18 final size:18
Alignment explanation
Indices: 134137--134193 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
134127 TTTCGATCAA
*
134137 ATATATAATTATTTTAAT
1 ATATATAAATATTTTAAT
*
134155 ATATTAATAAATATTATAAT
1 ATA-T-ATAAATATTTTAAT
* * *
134175 ATTTAAAAATATTTAAAT
1 ATATATAAATATTTTAAT
134193 A
1 A
134194 AATAATTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 15 0.48
19 2 0.06
20 14 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATATAAATATTTTAAT
Found at i:134809 original size:14 final size:16
Alignment explanation
Indices: 134790--134828 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
134780 TTTTGGGTTT
134790 TAAAAAAATAT-AT-A
1 TAAAAAAATATGATGA
134804 TAAAAAAATATGATGA
1 TAAAAAAATATGATGA
*
134820 AAAAAAAAT
1 TAAAAAAAT
134829 GTAGATTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 9 0.41
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (16 bp):
TAAAAAAATATGATGA
Found at i:135198 original size:14 final size:14
Alignment explanation
Indices: 135181--135209 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
135171 CGTACCTAAT
135181 TAATTAATTAATGA
1 TAATTAATTAATGA
135195 TAATTAATTAATGA
1 TAATTAATTAATGA
135209 T
1 T
135210 GGCATAATTC
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TAATTAATTAATGA
Found at i:136258 original size:20 final size:19
Alignment explanation
Indices: 136211--136258 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
136201 TTTAAAATAA
**
136211 AATTAATTTTATATATTGT
1 AATTAATTTTATATATCCT
136230 AGATTAATTTTATATATCCT
1 A-ATTAATTTTATATATCCT
136250 AATTCAATT
1 AATT-AATT
136259 CATTTTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (19 bp):
AATTAATTTTATATATCCT
Found at i:138217 original size:2 final size:2
Alignment explanation
Indices: 138212--138256 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
138202 TATTATATAT
*
138212 GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
138254 GA G
1 GA G
138257 GGACATGGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:138459 original size:31 final size:31
Alignment explanation
Indices: 138416--138500 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 31
138406 ATGTTGAGTT
*
138416 TATTATATATTATATATATATTGATATATTAA
1 TATT-TATATTATATATATATTAATATATTAA
* *
138448 TATTTATATTATATA-AAATTTAATATATTTA
1 TATTTATATTATATATATA-TTAATATATTAA
*
138479 TATCTTA-ATTATATTTATATTA
1 TAT-TTATATTATATATATATTA
138501 CTTTTCATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
30 2 0.04
31 34 0.76
32 9 0.20
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTTATATTATATATATATTAATATATTAA
Found at i:138460 original size:17 final size:16
Alignment explanation
Indices: 138440--138499 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 16
138430 TATATATTGA
138440 TATATTAATATTTATAT
1 TATATTAATATTTA-AT
*
138457 TATA-TAAAATTTAA-
1 TATATTAATATTTAAT
*
138471 TATATTTATATCTTAAT
1 TATATTAATAT-TTAAT
*
138488 TATATTTATATT
1 TATATTAATATT
138500 ACTTTTCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 4 0.11
15 5 0.14
16 13 0.35
17 15 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTAATATTTAAT
Found at i:138573 original size:17 final size:16
Alignment explanation
Indices: 138523--138578 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
138513 TGACATGTTT
138523 TTATATTATATTT-TACA
1 TTATATTAT-TTTATA-A
*
138540 TTGTATTTATTTATATAA
1 TTATA-TTATTT-TATAA
138558 TTATATTATGTTTATAA
1 TTATATTAT-TTTATAA
138575 TTAT
1 TTAT
138579 CAATTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 19 0.58
18 12 0.36
19 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (16 bp):
TTATATTATTTTATAA
Found at i:140516 original size:17 final size:17
Alignment explanation
Indices: 140494--140532 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
140484 TGTATTTAGG
140494 ATTTTTATGCATACTTA
1 ATTTTTATGCATACTTA
*
140511 ATTTTTATGCATACTTT
1 ATTTTTATGCATACTTA
140528 ATTTT
1 ATTTT
140533 CCTAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTTTTATGCATACTTA
Found at i:142587 original size:13 final size:14
Alignment explanation
Indices: 142571--142605 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
142561 TTTATTAGAA
142571 TTTTTTTC-TTTTC
1 TTTTTTTCTTTTTC
142584 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
142598 TCTTTTTT
1 T-TTTTTT
142606 TTGTCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.40
14 6 0.30
15 6 0.30
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:146777 original size:20 final size:20
Alignment explanation
Indices: 146729--146787 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
146719 TAAAATGAAA
146729 AATGTATCGATACAATTGTAAG
1 AATGTATCGATAC-ATT-TAAG
* **
146751 CATGTATCGATACATTTACT
1 AATGTATCGATACATTTAAG
*
146771 AATGTATCAATACATTT
1 AATGTATCGATACATTT
146788 CCTTGGCAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.53
21 3 0.09
22 12 0.38
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTTAAG
Found at i:146857 original size:20 final size:21
Alignment explanation
Indices: 146832--146885 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
146822 CATTTTAGAC
146832 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTGT
* *
146852 ATGTATCGATATATTTACTGT
1 ATGTATCGATACATTCACTGT
*
146873 TTGTATCGATACA
1 ATGTATCGATACA
146886 AATTGTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTCACTGT
Found at i:147644 original size:27 final size:27
Alignment explanation
Indices: 147614--147701 Score: 77
Period size: 29 Copynumber: 3.1 Consensus size: 27
147604 AAATTAAAAA
*
147614 TTCAGATGTGAAAATTTAATTGAAATT
1 TTCATATGTGAAAATTTAATTGAAATT
* ** *
147641 TTCATATATGGGAAAACCTAATTAAAATT
1 TTC--ATATGTGAAAATTTAATTGAAATT
** *
147670 TTCATATGTGAAGGTTTATATTGAAAAT
1 TTCATATGTGAAAATTTA-ATTGAAATT
147698 TTCA
1 TTCA
147702 AGGTTTAATT
Statistics
Matches: 46, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
27 13 0.28
28 11 0.24
29 22 0.48
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (27 bp):
TTCATATGTGAAAATTTAATTGAAATT
Found at i:147718 original size:20 final size:21
Alignment explanation
Indices: 147680--147718 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
147670 TTCATATGTG
*
147680 AAGGTTTATATTGAAAATTTC
1 AAGGTTTATATTAAAAATTTC
147701 AAGGTTTA-ATTAAAAATT
1 AAGGTTTATATTAAAAATT
147719 CTATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (21 bp):
AAGGTTTATATTAAAAATTTC
Found at i:147982 original size:14 final size:14
Alignment explanation
Indices: 147933--147988 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
147923 TAAATGTTTC
* *
147933 AAATTTATATGTAA
1 AAATTTATCTATAA
147947 AAATTTAT-TA-AA
1 AAATTTATCTATAA
147959 AAATTATATCTATAA
1 AAATT-TATCTATAA
*
147974 AAGTTTATCT-TAA
1 AAATTTATCTATAA
147987 AA
1 AA
147989 TCTATAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
12 7 0.19
13 9 0.24
14 15 0.41
15 6 0.16
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (14 bp):
AAATTTATCTATAA
Found at i:151452 original size:196 final size:196
Alignment explanation
Indices: 151102--151473 Score: 620
Period size: 196 Copynumber: 1.9 Consensus size: 196
151092 AATATCTCAG
* * * *
151102 CATTAATCTTAAGGCTAAACCCTTCTTAAGGGAATGAGTTAACCTTAAAAAAAGGCTTTATGGGA
1 CATTAATCTTAAGGCTAAACCCTTCTTAAGGGAACGAGTTAACCTTAAAAAAAAGCCTTATAGGA
** *
151167 AGCTTTGAAGGTATTTTTGAAAGAAGTTTTAAAACTATCCTAATTGAAATATCCTTAAGATAGGC
66 AGCTTTGAAGGTATCCTTGAAAGAAGATTTAAAACTATCCTAATTGAAATATCCTTAAGATAGGC
*
151232 TTTTAAAACATACATAACGAAATATCCTTGTAGACATTTAATTTTTTCAGGCCTTTTTTGAGTAA
131 TTTTAAAACATACATAACGAAATATCCTTGTAGACACTTAATTTTTTCAGGCCTTTTTTGAGTAA
151297 A
196 A
* *
151298 CATTAATCTTAAGGCTTAACCCTTTTTAAGGGAACGAGTTAACCTTAAAAAAAAGCCTTATAGGA
1 CATTAATCTTAAGGCTAAACCCTTCTTAAGGGAACGAGTTAACCTTAAAAAAAAGCCTTATAGGA
151363 AGCTTTGAAGGTATCCTTGAAAGAAGATTTAAAACTATCCTAATTGAAATATCCTTAAGATAGGC
66 AGCTTTGAAGGTATCCTTGAAAGAAGATTTAAAACTATCCTAATTGAAATATCCTTAAGATAGGC
* *
151428 TTTTAGAACATATC-TAATGAAATATCCTTGTAGACACTTAATTTTT
131 TTTTAAAACATA-CATAACGAAATATCCTTGTAGACACTTAATTTTT
151474 CTAGGCCCTT
Statistics
Matches: 163, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
196 162 0.99
197 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (196 bp):
CATTAATCTTAAGGCTAAACCCTTCTTAAGGGAACGAGTTAACCTTAAAAAAAAGCCTTATAGGA
AGCTTTGAAGGTATCCTTGAAAGAAGATTTAAAACTATCCTAATTGAAATATCCTTAAGATAGGC
TTTTAAAACATACATAACGAAATATCCTTGTAGACACTTAATTTTTTCAGGCCTTTTTTGAGTAA
A
Done.