Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 22 of 126
Found at i:7194798 original size:13 final size:13
Alignment explanation
Indices: 7194737--7194801 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
7194727 CTTTAACCAA
7194737 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
7194750 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
7194763 ATTTTTCCACAA-C
1 ACTTTT-CAAAAGC
*
7194776 TCTTTT-AAAAGC
1 ACTTTTCAAAAGC
7194788 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
7194801 A
1 A
7194802 ATACTAAACT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
11 3 0.08
12 6 0.15
13 26 0.67
14 4 0.10
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:7196690 original size:4 final size:4
Alignment explanation
Indices: 7196681--7196713 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
7196671 GTTAATGAAT
7196681 AACA AACA AACA AACA AACA AACA AACA AACA A
1 AACA AACA AACA AACA AACA AACA AACA AACA A
7196714 TAAATACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:7206696 original size:14 final size:14
Alignment explanation
Indices: 7206668--7206747 Score: 70
Period size: 14 Copynumber: 5.7 Consensus size: 14
7206658 TGAACTCAGA
* *
7206668 TGTATGCAAAGCCT
1 TGTATGCGAACCCT
*
7206682 TGTATGTGAACCCT
1 TGTATGCGAACCCT
* *
7206696 TGTGTGCGAACTCT
1 TGTATGCGAACCCT
* * *
7206710 TGAATGCGAGCCCA
1 TGTATGCGAACCCT
*
7206724 TGTATGTGAACCCT
1 TGTATGCGAACCCT
*
7206738 TGAATGCGAA
1 TGTATGCGAA
7206748 TCTACATGCA
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 49 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (14 bp):
TGTATGCGAACCCT
Found at i:7209466 original size:16 final size:16
Alignment explanation
Indices: 7209436--7209469 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
7209426 TGATTTAATC
7209436 ATTTAAAAATATAAAT
1 ATTTAAAAATATAAAT
7209452 ATTTATAAAAT-TAAAT
1 ATTTA-AAAATATAAAT
7209468 AT
1 AT
7209470 AATAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTAAAAATATAAAT
Found at i:7210001 original size:56 final size:56
Alignment explanation
Indices: 7209941--7210052 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
7209931 GAGCCCTGAT
7209941 TTTTTAATTGTTGGCATCTAAGTATTTGAATTTTTTTTTTTTAAATCTTATGGGTA
1 TTTTTAATTGTTGGCATCTAAGTATTTGAATTTTTTTTTTTTAAATCTTATGGGTA
7209997 TTTTTAATTGTTGGCATCTAAGTATTTGAATTTTTTTTTTTTAAATCTTATGGGTA
1 TTTTTAATTGTTGGCATCTAAGTATTTGAATTTTTTTTTTTTAAATCTTATGGGTA
7210053 AAAGCGTATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.57
Consensus pattern (56 bp):
TTTTTAATTGTTGGCATCTAAGTATTTGAATTTTTTTTTTTTAAATCTTATGGGTA
Found at i:7210615 original size:17 final size:17
Alignment explanation
Indices: 7210585--7210628 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
7210575 TAATCATTTT
7210585 AATATTTAAA-TTAATAG
1 AATA-TTAAATTTAATAG
**
7210602 AATATTAAATTTAATTT
1 AATATTAAATTTAATAG
7210619 AATATTAAAT
1 AATATTAAAT
7210629 ATTATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AATATTAAATTTAATAG
Found at i:7210687 original size:17 final size:17
Alignment explanation
Indices: 7210662--7210738 Score: 65
Period size: 17 Copynumber: 4.7 Consensus size: 17
7210652 ATATACAAGA
*
7210662 TAAACATTAAATTAAAT
1 TAAATATTAAATTAAAT
7210679 TAAATATTAAATT--AT
1 TAAATATTAAATTAAAT
7210694 TAAA-A-TAATATTAAGA-
1 TAAATATTAA-ATTAA-AT
*
7210710 TAAGTATTAAATTAAAT
1 TAAATATTAAATTAAAT
* *
7210727 TTAATAATAAAT
1 TAAATATTAAAT
7210739 CTATTAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
13 3 0.06
14 4 0.08
15 6 0.12
16 4 0.08
17 28 0.58
18 3 0.06
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (17 bp):
TAAATATTAAATTAAAT
Found at i:7210707 original size:11 final size:11
Alignment explanation
Indices: 7210691--7210755 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 11
7210681 AATATTAAAT
7210691 TATTAAAATAA
1 TATTAAAATAA
*
7210702 TATTAAGATAA
1 TATTAAAATAA
*
7210713 GTATTAAATTAA
1 -TATTAAAATAA
7210725 -ATTTAATAATAAA
1 TA-TTAA-AAT-AA
7210738 TCTATTAAAATAA
1 --TATTAAAATAA
7210751 TATTA
1 TATTA
7210756 TTTTTGGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
10 1 0.02
11 19 0.44
12 11 0.26
13 4 0.09
14 3 0.07
15 4 0.09
16 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (11 bp):
TATTAAAATAA
Found at i:7210719 original size:48 final size:49
Alignment explanation
Indices: 7210658--7210755 Score: 153
Period size: 48 Copynumber: 2.0 Consensus size: 49
7210648 ATTTATATAC
*
7210658 AAGATAAACATTAAATTAAATTAAATATTAAAT-TATTAAAATAATATT
1 AAGATAAACATTAAATTAAATTAAATAATAAATCTATTAAAATAATATT
** *
7210706 AAGATAAGTATTAAATTAAATTTAATAATAAATCTATTAAAATAATATT
1 AAGATAAACATTAAATTAAATTAAATAATAAATCTATTAAAATAATATT
7210755 A
1 A
7210756 TTTTTGGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 29 0.64
49 16 0.36
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (49 bp):
AAGATAAACATTAAATTAAATTAAATAATAAATCTATTAAAATAATATT
Found at i:7214253 original size:56 final size:55
Alignment explanation
Indices: 7214193--7214303 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 55
7214183 GAGCCCTGAT
7214193 TTTTTAATTGTTGGCATCTAAGTATTTGAATTTTTTTTTTTTAAATCTTATGGGTA
1 TTTTTAATTGTTGGCATCTAAGTATTTGAA-TTTTTTTTTTTAAATCTTATGGGTA
7214249 TTTTTAATTGTTGGCATCTAAGTATTTGAATTTTTTTTTTTAAATCTTATGGGTA
1 TTTTTAATTGTTGGCATCTAAGTATTTGAATTTTTTTTTTTAAATCTTATGGGTA
7214304 AAAGTGTATC
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 25 0.45
56 30 0.55
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.57
Consensus pattern (55 bp):
TTTTTAATTGTTGGCATCTAAGTATTTGAATTTTTTTTTTTAAATCTTATGGGTA
Found at i:7214521 original size:23 final size:21
Alignment explanation
Indices: 7214495--7214538 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
7214485 AAAACTTGTA
7214495 AAAATCATAAAAATTATAAAATT
1 AAAATCAT-AAAATT-TAAAATT
*
7214518 AAAATTATAAAATTTAAAATT
1 AAAATCATAAAATTTAAAATT
7214539 TTTAATTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 6 0.30
23 7 0.35
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATCATAAAATTTAAAATT
Found at i:7214523 original size:14 final size:15
Alignment explanation
Indices: 7214504--7214538 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
7214494 AAAAATCATA
7214504 AAAATTATAAAA-TT
1 AAAATTATAAAATTT
7214518 AAAATTATAAAATTT
1 AAAATTATAAAATTT
7214533 AAAATT
1 AAAATT
7214539 TTTAATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATTATAAAATTT
Found at i:7226555 original size:24 final size:23
Alignment explanation
Indices: 7226525--7226573 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
7226515 TAACTAATTT
7226525 TAAAT-TTTT-TATTATATAAA-AA
1 TAAATATTTTATATT-TA-AAATAA
7226547 TAAATATTTTATATTTAAAATAA
1 TAAATATTTTATATTTAAAATAA
7226570 TAAA
1 TAAA
7226574 AAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 8 0.33
23 12 0.50
24 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAATATTTTATATTTAAAATAA
Found at i:7226573 original size:23 final size:22
Alignment explanation
Indices: 7226525--7226566 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7226515 TAACTAATTT
7226525 TAAATTTTTTATTATATAAAAA
1 TAAATTTTTTATTATATAAAAA
* *
7226547 TAAATATTTTA-TATTTAAAA
1 TAAATTTTTTATTATATAAAA
7226567 TAATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAATTTTTTATTATATAAAAA
Found at i:7227787 original size:26 final size:26
Alignment explanation
Indices: 7227738--7227788 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7227728 AAGTCCTATC
*
7227738 AATTTGAAAAATATCTTACGAAAAAA
1 AATTTGAAAAATATATTACGAAAAAA
*
7227764 AATTTGATAAGATATATTAC-AAAAA
1 AATTTGA-AAAATATATTACGAAAAA
7227789 GAAGAGGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (26 bp):
AATTTGAAAAATATATTACGAAAAAA
Found at i:7229271 original size:18 final size:18
Alignment explanation
Indices: 7229250--7229296 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
7229240 TCATCCGGAT
7229250 TGGCGAGCTCACATA-AAG
1 TGGCGAGCTCACA-ACAAG
*
7229268 TGGCAAGCTCACAACAAG
1 TGGCGAGCTCACAACAAG
*
7229286 TGGTGAGCTCA
1 TGGCGAGCTCA
7229297 TTTAATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (18 bp):
TGGCGAGCTCACAACAAG
Found at i:7229486 original size:11 final size:11
Alignment explanation
Indices: 7229470--7229494 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7229460 TTTTCAGAAG
7229470 ATTTAGATTTT
1 ATTTAGATTTT
7229481 ATTTAGATTTT
1 ATTTAGATTTT
7229492 ATT
1 ATT
7229495 AGTATAATAT
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
ATTTAGATTTT
Found at i:7231475 original size:17 final size:17
Alignment explanation
Indices: 7231453--7231498 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
7231443 TGTTTCATTC
7231453 TTATTTTTATCACTCTA
1 TTATTTTTATCACTCTA
7231470 TTATTTTTATCACTCTA
1 TTATTTTTATCACTCTA
7231487 TTATTTTTATCA
1 TTATTTTTATCA
7231499 ATTTAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTTTTATCACTCTA
Found at i:7233828 original size:17 final size:17
Alignment explanation
Indices: 7233793--7233834 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
7233783 AGGAAAAGTA
*
7233793 GTTACAAGAATATGAAAG
1 GTTA-AAGAAGATGAAAG
*
7233811 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGAAAG
7233828 GTTAAAG
1 GTTAAAG
7233835 GTCAAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAG
Found at i:7235357 original size:30 final size:29
Alignment explanation
Indices: 7235264--7235493 Score: 92
Period size: 29 Copynumber: 7.9 Consensus size: 29
7235254 TAAATTGGTA
*
7235264 ATTTTT-GAAAGTTTCGAGG-CAAAAATGGA
1 ATTTTTAG-AAGTTTCGAGGTC-AAAATGGG
* * * **
7235293 ATTTTTAGAAGTTTGGGGGTAAAAATATG
1 ATTTTTAGAAGTTTCGAGGTCAAAATGGG
*
7235322 ATTTTTAGTAGTTTCGAGGTCAAAATCGGG
1 ATTTTTAGAAGTTTCGAGGTCAAAAT-GGG
* * * * **
7235352 ATTTTTGGAA-ATTCGGGAGTAAAAATGTA
1 ATTTTTAGAAGTTTCGAG-GTCAAAATGGG
** ** *
7235381 ATTTTGGGAAGTTTTAAGGTCAAAAATGGA
1 ATTTTTAGAAGTTTCGAGGTC-AAAATGGG
* * * ****
7235411 ATTTTTGGAAG-TTCGGGGGTAAAAAAATA
1 ATTTTTAGAAGTTTC-GAGGTCAAAATGGG
* * **
7235440 ATTTTTAGAAGTTTTGGGGT-AAAATGTA
1 ATTTTTAGAAGTTTCGAGGTCAAAATGGG
* *
7235468 ATTTTTGGATGTTTCGAGGTCAAAAT
1 ATTTTTAGAAGTTTCGAGGTCAAAAT
7235494 ATAATTTTTG
Statistics
Matches: 150, Mismatches: 42, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
28 22 0.15
29 86 0.57
30 42 0.28
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (29 bp):
ATTTTTAGAAGTTTCGAGGTCAAAATGGG
Found at i:7235377 original size:59 final size:59
Alignment explanation
Indices: 7235262--7235511 Score: 242
Period size: 59 Copynumber: 4.3 Consensus size: 59
7235252 GGTAAATTGG
* *
7235262 TAATTTTT-GAAAGTTTCGAGG-CAAAAATGGAATTTTTAGAAGTTTGGGGGTAAAAATA
1 TAATTTTTAG-AAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATA
* * * * * *
7235320 TGATTTTTAGTAGTTTCGAGGTC-AAAATCGGGATTTTTGGAAATTCGGGAGTAAAAATG
1 TAATTTTTAGAAGTTTCGAGGTCAAAAAT-GGAATTTTTGGAAGTTCGGGGGTAAAAATA
** ** *
7235379 TAATTTTGGGAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAAAA
1 TAATTTTTAGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATA
* * * * * *
7235438 TAATTTTTAGAAGTTTTGGGGT--AAAATGTAATTTTTGGATGTTTC-GAGGTCAAAATA
1 TAATTTTTAGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAG-TTCGGGGGTAAAAATA
*
7235495 TAATTTTTGGACAGTTT
1 TAATTTTTAGA-AGTTT
7235512 AGGGACCTCC
Statistics
Matches: 157, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
57 36 0.23
58 30 0.19
59 86 0.55
60 5 0.03
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (59 bp):
TAATTTTTAGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATA
Found at i:7235444 original size:29 final size:28
Alignment explanation
Indices: 7235352--7235510 Score: 97
Period size: 29 Copynumber: 5.5 Consensus size: 28
7235342 CAAAATCGGG
* * *
7235352 ATTTTTGGAAATTCGGGAGTAAAAATGTA
1 ATTTTTGGAAGTTCGGGGGT-AAAATATA
* ****
7235381 ATTTTGGGAAGTTTTAAGGTCAAAA-ATGGA
1 ATTTTTGGAAGTTCGGGGGT-AAAATAT--A
*
7235411 ATTTTTGGAAGTTCGGGGGTAAAAAAATA
1 ATTTTTGGAAGTTCGGGGGT-AAAATATA
* ** *
7235440 ATTTTTAGAAGTTTTGGGGTAAAATGTA
1 ATTTTTGGAAGTTCGGGGGTAAAATATA
* *
7235468 ATTTTTGGATGTTTC-GAGGTCAAAATATA
1 ATTTTTGGAAG-TTCGGGGGT-AAAATATA
7235497 ATTTTTGGACAGTT
1 ATTTTTGGA-AGTT
7235511 TAGGGACCTC
Statistics
Matches: 98, Mismatches: 26, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
28 20 0.20
29 55 0.56
30 21 0.21
31 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (28 bp):
ATTTTTGGAAGTTCGGGGGTAAAATATA
Found at i:7236574 original size:12 final size:12
Alignment explanation
Indices: 7236557--7236587 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7236547 TTTTTATTAA
7236557 AATATTATTATT
1 AATATTATTATT
7236569 AATATTATTATT
1 AATATTATTATT
*
7236581 ATTATTA
1 AATATTA
7236588 ATGCTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
AATATTATTATT
Found at i:7240498 original size:23 final size:23
Alignment explanation
Indices: 7240424--7240633 Score: 145
Period size: 23 Copynumber: 9.3 Consensus size: 23
7240414 TAAACGGAAC
* * *
7240424 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
7240446 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
7240468 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
7240494 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
7240514 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7240533 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7240556 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7240579 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
7240604 AAACAGAGAGCACACACAA-TGCT
1 AAACAGAGAGCACACA-AAGTGCT
*
7240627 AATCAGA
1 AAACAGA
7240634 CAGCGCGCTA
Statistics
Matches: 149, Mismatches: 22, Indels: 33
0.73 0.11 0.16
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 74 0.50
24 3 0.02
25 29 0.19
26 8 0.05
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:7240532 original size:39 final size:39
Alignment explanation
Indices: 7240478--7240552 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
7240468 GGGCAACAGA
*
7240478 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
7240517 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
7240553 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:7240591 original size:48 final size:46
Alignment explanation
Indices: 7240517--7240633 Score: 164
Period size: 48 Copynumber: 2.5 Consensus size: 46
7240507 ACAAAGTACT
* *
7240517 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTGCTAAACAGA
*
7240563 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTGCTAAACAGA
*
7240611 GAGCACACACAATGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGA
7240634 CAGCGCGCTA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
46 22 0.34
48 41 0.64
49 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGAAGTGCTAAACAGA
Found at i:7246935 original size:23 final size:23
Alignment explanation
Indices: 7246861--7247070 Score: 145
Period size: 23 Copynumber: 9.3 Consensus size: 23
7246851 TAAACGGAAC
* * *
7246861 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
7246883 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
7246905 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
7246931 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
7246951 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7246970 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7246993 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7247016 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
7247041 AAACAGAGAGCACACACAA-TGCT
1 AAACAGAGAGCACACA-AAGTGCT
*
7247064 AATCAGA
1 AAACAGA
7247071 CAGCGCGCTA
Statistics
Matches: 149, Mismatches: 22, Indels: 33
0.73 0.11 0.16
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 74 0.50
24 3 0.02
25 29 0.19
26 8 0.05
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:7246969 original size:39 final size:39
Alignment explanation
Indices: 7246915--7246989 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
7246905 GGGCAACAGA
*
7246915 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
7246954 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
7246990 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:7247028 original size:48 final size:46
Alignment explanation
Indices: 7246954--7247070 Score: 164
Period size: 48 Copynumber: 2.5 Consensus size: 46
7246944 ACAAAGTACT
* *
7246954 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTGCTAAACAGA
*
7247000 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTGCTAAACAGA
*
7247048 GAGCACACACAATGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGA
7247071 CAGCGCGCTA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
46 22 0.34
48 41 0.64
49 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGAAGTGCTAAACAGA
Found at i:7254839 original size:23 final size:23
Alignment explanation
Indices: 7254796--7254839 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7254786 ATATTGTTTG
*
7254796 TGAACATGTTCGATTAAATTAGA
1 TGAACATGTTCGATGAAATTAGA
7254819 TGAACATGTTCG-TGAACATTA
1 TGAACATGTTCGATGAA-ATTA
7254840 AACAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAGA
Found at i:7255144 original size:15 final size:16
Alignment explanation
Indices: 7255114--7255152 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
7255104 TAATAAAAAT
7255114 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
7255131 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
7255146 ATAATTT
1 ATAATTT
7255153 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:7256693 original size:3 final size:3
Alignment explanation
Indices: 7256685--7256712 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7256675 ATATACATAC
7256685 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7256713 CAACATATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7264409 original size:33 final size:32
Alignment explanation
Indices: 7264337--7264412 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
7264327 TTATTCAAAG
*
7264337 TTGTTATTTTATTAATTTTGTCTTGACTAAAT
1 TTGTTATTTTATTAATTTTATCTTGACTAAAT
* * *
7264369 TTGTTATTTTCTTAATTTTATTTTTACTAAAAT
1 TTGTTATTTTATTAATTTTATCTTGACT-AAAT
7264402 TAT-TTATTTTA
1 T-TGTTATTTTA
7264413 AGTAAATAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 24 0.65
33 12 0.32
34 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (32 bp):
TTGTTATTTTATTAATTTTATCTTGACTAAAT
Found at i:7266397 original size:16 final size:16
Alignment explanation
Indices: 7266376--7266415 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
7266366 CTTGTTCCCC
7266376 TTTCTTTATTC-TTTTT
1 TTTCTTT-TTCATTTTT
7266392 TTTCTTTTTCATTTTTT
1 TTTCTTTTTCA-TTTTT
7266409 TTTCTTT
1 TTTCTTT
7266416 CCATTCTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 7 0.32
17 12 0.55
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTTTCATTTTT
Found at i:7266408 original size:15 final size:16
Alignment explanation
Indices: 7266376--7266409 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7266366 CTTGTTCCCC
*
7266376 TTTCTTTATTCTTTTT
1 TTTCTTTATTCATTTT
7266392 TTTCTTT-TTCATTTT
1 TTTCTTTATTCATTTT
7266407 TTT
1 TTT
7266410 TTCTTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTATTCATTTT
Found at i:7266420 original size:16 final size:17
Alignment explanation
Indices: 7266387--7266420 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7266377 TTCTTTATTC
*
7266387 TTTTTTTTCTTTTTCAT
1 TTTTTTTTCTTTTCCAT
7266404 TTTTTTTTC-TTTCCAT
1 TTTTTTTTCTTTTCCAT
7266420 T
1 T
7266421 CTCCTTTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTCTTTTCCAT
Found at i:7269052 original size:23 final size:23
Alignment explanation
Indices: 7268978--7269214 Score: 163
Period size: 23 Copynumber: 10.5 Consensus size: 23
7268968 TAAACGGAAC
* * *
7268978 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
7269000 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
7269022 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
7269048 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
7269068 --ACTGA-A-CACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7269087 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
7269110 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7269133 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
* *
7269158 AAACAGAGAGCACGA-GACGTGCT
1 AAACAGAGAGCAC-ACAAAGTGCT
*
7269181 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
7269204 AATCAGAGAGC
1 AAACAGAGAGC
7269215 GCACTAGTGT
Statistics
Matches: 174, Mismatches: 25, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
16 7 0.04
17 1 0.01
18 5 0.03
19 1 0.01
20 1 0.01
21 4 0.02
22 19 0.11
23 98 0.56
24 2 0.01
25 28 0.16
26 8 0.05
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:7269198 original size:71 final size:69
Alignment explanation
Indices: 7269082--7269214 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 69
7269072 AACACACAAA
* * *
7269082 GTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAATAACAGAGAGCA
1 GTGCTAAACAGAGAGCACACGAAGTGCTAAACAGAGAGCACACACAGTGCTAAT--CAGAGAGCA
7269147 CGAGAC
64 CGAGAC
*
7269153 GTGCTAAACAGAGAGCACGA-GACGTGCTAAACAGAGAGCACACACAGTGCTAATCAGAGAGC
1 GTGCTAAACAGAGAGCAC-ACGAAGTGCTAAACAGAGAGCACACACAGTGCTAATCAGAGAGC
7269215 GCACTAGTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
69 8 0.14
71 48 0.84
72 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (69 bp):
GTGCTAAACAGAGAGCACACGAAGTGCTAAACAGAGAGCACACACAGTGCTAATCAGAGAGCACG
AGAC
Found at i:7271325 original size:17 final size:16
Alignment explanation
Indices: 7271295--7271360 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
7271285 TAATCATTTT
7271295 AATATTTAAATTAATAG
1 AATA-TTAAATTAATAG
7271312 AATATTAAATT--T--
1 AATATTAAATTAATAG
*
7271324 AAT-TTAATATTAA-AC
1 AATATTAA-ATTAATAG
*
7271339 ATTATTAAATTAATAG
1 AATATTAAATTAATAG
7271355 AATATT
1 AATATT
7271361 TATATACAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
11 4 0.10
12 6 0.15
14 1 0.03
15 7 0.18
16 17 0.44
17 4 0.10
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (16 bp):
AATATTAAATTAATAG
Found at i:7271429 original size:48 final size:49
Alignment explanation
Indices: 7271368--7271465 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 49
7271358 ATTTATATAC
*
7271368 AAGATAAACATTAAATTAAATTAAATATTAAAT-TACTAAAATAATATT
1 AAGATAAACATTAAATTAAATTAAATAATAAATCTACTAAAATAATATT
** * *
7271416 AAGATAAGTATTAAATTAAATTTAATAATAAATCTATTAAAATAATATT
1 AAGATAAACATTAAATTAAATTAAATAATAAATCTACTAAAATAATATT
7271465 A
1 A
7271466 TTTTTGGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 29 0.66
49 15 0.34
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (49 bp):
AAGATAAACATTAAATTAAATTAAATAATAAATCTACTAAAATAATATT
Found at i:7278147 original size:16 final size:16
Alignment explanation
Indices: 7278117--7278150 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
7278107 TGATTTAATC
7278117 ATTTAAAAATATAAAT
1 ATTTAAAAATATAAAT
7278133 ATTTATAAAAT-TAAAT
1 ATTTA-AAAATATAAAT
7278149 AT
1 AT
7278151 AATCCTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTAAAAATATAAAT
Found at i:7286743 original size:22 final size:22
Alignment explanation
Indices: 7286703--7286744 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7286693 GAGTGAATTT
*
7286703 ATTTTTTTATTTTATATTTTTA
1 ATTTTTTTATTTTACATTTTTA
7286725 ATTTTTTTACTTTT-CATTTT
1 ATTTTTTTA-TTTTACATTTT
7286745 CTTTTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (22 bp):
ATTTTTTTATTTTACATTTTTA
Found at i:7295342 original size:53 final size:54
Alignment explanation
Indices: 7295205--7295416 Score: 207
Period size: 53 Copynumber: 3.9 Consensus size: 54
7295195 CGAGAATTTG
* *
7295205 AAAAAAAAA--TGGTGTTGGCCATTGCATGGCCGACACCCCCTTTTTCATATGAC
1 AAAAAAAAATTTGGTGTTGGTCATTGCATGGCCGACA-CCCCTTTTTAATATGAC
* * * * * *
7295258 AAAAAAAATATTTGATGTTGATAACTACATGGCCGACACCCCTTTTT-ATTTGAC
1 AAAAAAAA-ATTTGGTGTTGGTCATTGCATGGCCGACACCCCTTTTTAATATGAC
* * * * *
7295312 AGAAAAAAATTTGGTGTTGGTCATTGCATGGGCGACACTCCTTTTTAATCTGAT
1 AAAAAAAAATTTGGTGTTGGTCATTGCATGGCCGACACCCCTTTTTAATATGAC
7295366 AAAAAATTAAATTTTTTGGTGTTGGTCA-TGCAATGGCCGACACCCCTTTTT
1 AAAAAA--AAA---TTTGGTGTTGGTCATTGC-ATGGCCGACACCCCTTTTT
7295417 GTCAGATAAA
Statistics
Matches: 129, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
53 39 0.30
54 24 0.19
55 9 0.07
56 23 0.18
58 3 0.02
59 31 0.24
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (54 bp):
AAAAAAAAATTTGGTGTTGGTCATTGCATGGCCGACACCCCTTTTTAATATGAC
Found at i:7295407 original size:59 final size:56
Alignment explanation
Indices: 7295285--7295498 Score: 208
Period size: 59 Copynumber: 3.8 Consensus size: 56
7295275 TTGATAACTA
* * *
7295285 CATGGCCGACACCCCTTTTTATTTGACAGAAAA--AAA---TTTGGTGTTGGTCATTG
1 CATGGCCGACA-CCCTTTTTATCTGATAAAAAATTAAATTTTTTGGTGTTGGTCA-TG
*
7295338 CATGGGCGACACTCCTTTTTAATCTGATAAAAAATTAAATTTTTTGGTGTTGGTCATG
1 CATGGCCGACAC-CCTTTTT-ATCTGATAAAAAATTAAATTTTTTGGTGTTGGTCATG
* * *
7295396 CAATGGCCGACACCCCTTTTTGTCAGATAAAAAATTTAAATTTTTTGATGTTGG-CTATG
1 C-ATGGCCGACA-CCCTTTTTATCTGATAAAAAA-TTAAATTTTTTGGTGTTGGTC-ATG
*
7295455 CCATGGCCGATACCCTTATTTATCTGATAAAAAAATT-AATTTTT
1 -CATGGCCGACACCCTT-TTTATCTGAT-AAAAAATTAAATTTTT
7295499 ACTGTTTATT
Statistics
Matches: 136, Mismatches: 11, Indels: 23
0.80 0.06 0.14
Matches are distributed among these distances:
52 1 0.01
53 17 0.12
54 10 0.07
56 3 0.02
58 27 0.20
59 70 0.51
60 8 0.06
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (56 bp):
CATGGCCGACACCCTTTTTATCTGATAAAAAATTAAATTTTTTGGTGTTGGTCATG
Found at i:7307499 original size:26 final size:26
Alignment explanation
Indices: 7307469--7307533 Score: 130
Period size: 26 Copynumber: 2.5 Consensus size: 26
7307459 ACTTACAACA
7307469 AAGCGGCCAATACTATAACATATTAC
1 AAGCGGCCAATACTATAACATATTAC
7307495 AAGCGGCCAATACTATAACATATTAC
1 AAGCGGCCAATACTATAACATATTAC
7307521 AAGCGGCCAATAC
1 AAGCGGCCAATAC
7307534 AAAAAGAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.20
Consensus pattern (26 bp):
AAGCGGCCAATACTATAACATATTAC
Found at i:7308925 original size:16 final size:17
Alignment explanation
Indices: 7308899--7308930 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7308889 GAGAAAAATA
7308899 TATACTATAAAATATTT
1 TATACTATAAAATATTT
7308916 TATA-TATAAAATATT
1 TATACTATAAAATATT
7308931 CGTGTGGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TATACTATAAAATATTT
Found at i:7311145 original size:12 final size:12
Alignment explanation
Indices: 7311117--7311146 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7311107 GAACAAAATT
*
7311117 AAAAAAAAAAAG
1 AAAAGAAAAAAG
7311129 AAAAGAAAAAAG
1 AAAAGAAAAAAG
7311141 AAAAGA
1 AAAAGA
7311147 GAAATTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:7314211 original size:21 final size:21
Alignment explanation
Indices: 7314178--7314220 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7314168 AATATTTTAA
* *
7314178 TCACCCATAGTTTTGGATTTT
1 TCACCCACAGTTTGGGATTTT
* *
7314199 TCACCCACCGTTTGGGTTTTT
1 TCACCCACAGTTTGGGATTTT
7314220 T
1 T
7314221 GAGCTCTACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (21 bp):
TCACCCACAGTTTGGGATTTT
Found at i:7331610 original size:31 final size:30
Alignment explanation
Indices: 7331573--7331637 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
7331563 ATCTTAAAAT
*
7331573 TATACATGAATTATGGTTTAATGTGCAATTA
1 TATACATGAATTATGATTT-ATGTGCAATTA
* * * *
7331604 TATACATGGATTTTGATTTTTGTGCAATTT
1 TATACATGAATTATGATTTATGTGCAATTA
7331634 TATA
1 TATA
7331638 TATAAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (30 bp):
TATACATGAATTATGATTTATGTGCAATTA
Found at i:7346462 original size:16 final size:17
Alignment explanation
Indices: 7346441--7346479 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
7346431 TTTTTCTTCC
7346441 ATAAATTGT-TTATTTT-
1 ATAAATT-TATTATTTTA
7346457 ATAAATTTATTATTTTA
1 ATAAATTTATTATTTTA
7346474 ATAAAT
1 ATAAAT
7346480 AAATGTCAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATAAATTTATTATTTTA
Found at i:7350729 original size:25 final size:25
Alignment explanation
Indices: 7350695--7350746 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
7350685 ATCGAAATGT
7350695 AAGCAACTTTTTTAACTTAACTACC
1 AAGCAACTTTTTTAACTTAACTACC
7350720 AAGCAACTTTTTTAACTTAACTACC
1 AAGCAACTTTTTTAACTTAACTACC
7350745 AA
1 AA
7350747 TTCTATGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (25 bp):
AAGCAACTTTTTTAACTTAACTACC
Found at i:7351685 original size:25 final size:23
Alignment explanation
Indices: 7351656--7351706 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 23
7351646 AATTAATTTT
7351656 TATA-TAAAAATATTTTAAAATATAA
1 TATATTAAAAATA--TTAAAATA-AA
7351681 TATATTAAAAATATTAAAATAAA
1 TATATTAAAAATATTAAAATAAA
7351704 TAT
1 TAT
7351707 TTTTCATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 4 0.16
26 8 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TATATTAAAAATATTAAAATAAA
Found at i:7360901 original size:12 final size:12
Alignment explanation
Indices: 7360884--7360908 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7360874 TGATGAGGGC
7360884 TGAAAGAGTGAG
1 TGAAAGAGTGAG
7360896 TGAAAGAGTGAG
1 TGAAAGAGTGAG
7360908 T
1 T
7360909 AGTATGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (12 bp):
TGAAAGAGTGAG
Found at i:7362234 original size:9 final size:8
Alignment explanation
Indices: 7362218--7362270 Score: 52
Period size: 8 Copynumber: 6.2 Consensus size: 8
7362208 TTATGGAATT
7362218 ATAAAAAA
1 ATAAAAAA
7362226 ATAAAAAA
1 ATAAAAAA
*
7362234 ATAAAAAT
1 ATAAAAAA
*
7362242 ATTAAAAA
1 ATAAAAAA
*
7362250 TTAATTAAAA
1 ATAA--AAAA
7362260 ATCAAAAAA
1 AT-AAAAAA
7362269 AT
1 AT
7362271 TATTTTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
8 23 0.64
9 6 0.17
10 5 0.14
11 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (8 bp):
ATAAAAAA
Found at i:7362566 original size:34 final size:34
Alignment explanation
Indices: 7362494--7362580 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 34
7362484 TTGATAACAA
* *
7362494 TTTTTATAAAAT-ATTTTTCTAAAATTTTTATGG
1 TTTTTATAAATTAATTTTTATAAAATTTTTATGG
*
7362527 CTTTTACTAAATTAATTTTTATAAAA-TTTTATGG
1 TTTTTA-TAAATTAATTTTTATAAAATTTTTATGG
*
7362561 TTTTTAATAATTTTAATTTT
1 TTTTT-ATAA-ATTAATTTT
7362581 AATTATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 5 0.11
34 20 0.44
35 20 0.44
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (34 bp):
TTTTTATAAATTAATTTTTATAAAATTTTTATGG
Found at i:7362581 original size:34 final size:35
Alignment explanation
Indices: 7362506--7362580 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
7362496 TTTATAAAAT
* *
7362506 ATTTTTCTAAAATTTTTATGGCTTTTACTAAATTA
1 ATTTTTATAAAATTTTTATGGCTTTTAATAAATTA
* *
7362541 ATTTTTATAAAA-TTTTATGGTTTTTAATAATTTTA
1 ATTTTTATAAAATTTTTATGGCTTTTAATAA-ATTA
7362576 ATTTT
1 ATTTT
7362581 AATTATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 16 0.46
35 19 0.54
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (35 bp):
ATTTTTATAAAATTTTTATGGCTTTTAATAAATTA
Found at i:7362608 original size:28 final size:27
Alignment explanation
Indices: 7362571--7362623 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
7362561 TTTTTAATAA
7362571 TTTTAATTTTAATTATTTTATTATATT
1 TTTTAATTTTAATTATTTTATTATATT
** *
7362598 TTTTATATTTTTTTTATTTTTTTATA
1 TTTTA-ATTTTAATTATTTTATTATA
7362624 ATTCGATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTAATTTTAATTATTTTATTATATT
Found at i:7362620 original size:19 final size:22
Alignment explanation
Indices: 7362577--7362623 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
7362567 ATAATTTTAA
7362577 TTTTA-ATTATTTTATTATATT
1 TTTTATATTATTTTATTATATT
7362598 TTTTATATT-TTTT-TTAT-TT
1 TTTTATATTATTTTATTATATT
7362617 TTTTATA
1 TTTTATA
7362624 ATTCGATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.36
20 4 0.16
21 9 0.36
22 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTATATTATTTTATTATATT
Found at i:7369884 original size:25 final size:24
Alignment explanation
Indices: 7369836--7369884 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
7369826 TTTAAAACGG
***
7369836 TGGGATTTTTGTTTTTTTTTTGTT
1 TGGGATTTTTGTTTTTTCAATGTT
7369860 TGGGATTTTTGTTTATTTCAATGTT
1 TGGGATTTTTGTTT-TTTCAATGTT
7369885 ATAAACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.10, C:0.02, G:0.20, T:0.67
Consensus pattern (24 bp):
TGGGATTTTTGTTTTTTCAATGTT
Found at i:7370698 original size:29 final size:30
Alignment explanation
Indices: 7370657--7370733 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 30
7370647 TAAATTTTAA
*
7370657 AAAATTATAAAAAAATATTTTTTAAAA-TT
1 AAAATTATTAAAAAATATTTTTTAAAACTT
*
7370686 AAAATTATT-AAAAATAATTTTTAAAACTT
1 AAAATTATTAAAAAATATTTTTTAAAACTT
* *
7370715 TAAATT-TTAATTAAATATT
1 AAAATTATTAA-AAAATATT
7370734 GACATATCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 18 0.45
29 16 0.40
30 6 0.15
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATTATTAAAAAATATTTTTTAAAACTT
Found at i:7372138 original size:16 final size:16
Alignment explanation
Indices: 7372099--7372138 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
7372089 CCAATTTTTA
7372099 TAAATATATTTATATC
1 TAAATATATTTATATC
*
7372115 TAATTATATTTATA-C
1 TAAATATATTTATATC
7372130 TACAATATA
1 TA-AATATA
7372139 AAAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATATATTTATATC
Found at i:7374114 original size:23 final size:24
Alignment explanation
Indices: 7374075--7374131 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
7374065 ATATTTAAAA
7374075 ATATATATATTTATTAA-ATTTTT
1 ATATATATATTTATTAATATTTTT
*
7374098 ATATATA-ATTATTTTAATATTTTT
1 ATATATATATT-TATTAATATTTTT
*
7374122 -TATTTATATT
1 ATATATATATT
7374132 ATAAATTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
24 9 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATATATATATTTATTAATATTTTT
Found at i:7376989 original size:446 final size:448
Alignment explanation
Indices: 7376101--7376997 Score: 1780
Period size: 446 Copynumber: 2.0 Consensus size: 448
7376091 CACATTATTA
7376101 TTTCATTTGCATGTATTATTTGATATAAATAAAATTATTGTAGGGATTATCAATTTTTTGGCTTT
1 TTTCATTTGCATGTATTATTTGATATAAATAAAATTATTGTAGGGATTATCAATTTTTTGGCTTT
7376166 ATCATTTTTTTTTATTCGGAGCAGAAAAAACAAAATTGTCCTTAACGATATTTTTTAATATATAT
66 ATCATTTTTTTTTATTCGGAGCAGAAAAAACAAAATTGTCCTTAACGATATTTTTTAATATATAT
7376231 TTAATGGTTAAAAAAAATTATATGAAATAAAGAATTAAAAATTTCACATTTTAAATTTGACAAAA
131 TTAATGGTTAAAAAAAATTATATGAAATAAAGAATTAAAAATTTCACATTTTAAATTTGACAAAA
7376296 ATATCTACATAAATAAATAATAAAATATAATAAATATAATCGTTAAAATATTAATTATATAAATA
196 ATATCTACATAAATAAATAATAAAATATAATAAATATAATCGTTAAAATATTAATTATATAAATA
7376361 ACTAAATTTTTGTTGTTCACTTTTTCTCAGTAATAAAAAAAAACTTAAATAAACCAATTCTTTTC
261 ACTAAATTTTTGTTGTTCACTTTTTCTCAGTAATAAAAAAAAACTTAAATAAACCAATTCTTTTC
7376426 ATAGTTAACAATCACAACTAAATAAAAAAATATCACTCATAACTAAAAAAATAAATTACAATTTT
326 ATAGTTAACAATCACAACTAAATAAAAAAATATCACTCATAACTAAAAAAATAAATTACAATTTT
7376491 TTATCTGATTTTGAATATAAATATTTTTTCGCATTTTGATAGAAAAAATAAATATTTT
391 TTATCTGATTTTGAATATAAATATTTTTTCGCATTTTGATAGAAAAAATAAATATTTT
7376549 TTTCATTTGCATGTATTATTTGATATAAATAAAATTATTGTAGGGATTATCAATTTTTTGGCTTT
1 TTTCATTTGCATGTATTATTTGATATAAATAAAATTATTGTAGGGATTATCAATTTTTTGGCTTT
7376614 ATCATTTTTTTTTATTCGGAGCAGAAAAAACAAAATTGTCCTTAACGATATTTTTTAATATATAT
66 ATCATTTTTTTTTATTCGGAGCAGAAAAAACAAAATTGTCCTTAACGATATTTTTTAATATATAT
7376679 TTAATGGTTAAAAAAAATTATATGAAATAAAGAATTAAAAATTTCACATTTTAAATTTGACAAAA
131 TTAATGGTTAAAAAAAATTATATGAAATAAAGAATTAAAAATTTCACATTTTAAATTTGACAAAA
7376744 ATATCTACATAAATAAATAAT-AAA-ATAATAAATATAATCGTTAAAATATTAATTATATAAATA
196 ATATCTACATAAATAAATAATAAAATATAATAAATATAATCGTTAAAATATTAATTATATAAATA
7376807 ACTAAATTTTTGTTGTTCACTTTTTCTCAGTAATAAAAAAAAACTTAAATAAACCAATTCTTTTC
261 ACTAAATTTTTGTTGTTCACTTTTTCTCAGTAATAAAAAAAAACTTAAATAAACCAATTCTTTTC
7376872 ATAGTTAACAATCACAACTAAATAAAAAAATATCACTCATAACTAAAAAAATAAATTACAATTTT
326 ATAGTTAACAATCACAACTAAATAAAAAAATATCACTCATAACTAAAAAAATAAATTACAATTTT
7376937 TTATCTGATTTTGAATATAAATATTTTTTCGCATTTTGATAGAAAAAATAAATATTTT
391 TTATCTGATTTTGAATATAAATATTTTTTCGCATTTTGATAGAAAAAATAAATATTTT
7376995 TTT
1 TTT
7376998 GCCCTCCAAT
Statistics
Matches: 449, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
446 230 0.51
447 3 0.01
448 216 0.48
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (448 bp):
TTTCATTTGCATGTATTATTTGATATAAATAAAATTATTGTAGGGATTATCAATTTTTTGGCTTT
ATCATTTTTTTTTATTCGGAGCAGAAAAAACAAAATTGTCCTTAACGATATTTTTTAATATATAT
TTAATGGTTAAAAAAAATTATATGAAATAAAGAATTAAAAATTTCACATTTTAAATTTGACAAAA
ATATCTACATAAATAAATAATAAAATATAATAAATATAATCGTTAAAATATTAATTATATAAATA
ACTAAATTTTTGTTGTTCACTTTTTCTCAGTAATAAAAAAAAACTTAAATAAACCAATTCTTTTC
ATAGTTAACAATCACAACTAAATAAAAAAATATCACTCATAACTAAAAAAATAAATTACAATTTT
TTATCTGATTTTGAATATAAATATTTTTTCGCATTTTGATAGAAAAAATAAATATTTT
Found at i:7385097 original size:2 final size:2
Alignment explanation
Indices: 7385090--7385115 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7385080 CTAACTTATC
7385090 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
7385116 TACAAGGCCT
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:7386188 original size:20 final size:18
Alignment explanation
Indices: 7386140--7386188 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
7386130 TATTGTTTCT
*
7386140 AAAAAAA-TATTTTTGAA
1 AAAAAAATTACTTTTGAA
*
7386157 ACAAAAATTACTTTTGAA
1 AAAAAAATTACTTTTGAA
7386175 ATAAAAACATTACT
1 A-AAAAA-ATTACT
7386189 AAATAAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.23
18 10 0.38
19 4 0.15
20 6 0.23
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAAAAATTACTTTTGAA
Found at i:7387992 original size:2 final size:2
Alignment explanation
Indices: 7387985--7388016 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7387975 CCATCCAAGC
7387985 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
7388017 ACCCAGAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7398867 original size:20 final size:20
Alignment explanation
Indices: 7398821--7398863 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
7398811 AAGTTAAACA
7398821 AAATAAATTTGATTTGAGTC
1 AAATAAATTTGATTTGAGTC
* *
7398841 GAATAAATTT-ATTTGAGTT
1 AAATAAATTTGATTTGAGTC
7398860 AAAT
1 AAAT
7398864 TAAAAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (20 bp):
AAATAAATTTGATTTGAGTC
Found at i:7399103 original size:22 final size:22
Alignment explanation
Indices: 7399063--7399104 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7399053 TTAGCATTTT
* **
7399063 TATATATTTTTAATTTTTTGAA
1 TATATATTTATAAAATTTTGAA
7399085 TATATATTTATAAAATTTTG
1 TATATATTTATAAAATTTTG
7399105 GAAATTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
TATATATTTATAAAATTTTGAA
Found at i:7402495 original size:15 final size:15
Alignment explanation
Indices: 7402477--7402509 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7402467 AAACCTCGAA
7402477 AACCCGAAAACAAAG
1 AACCCGAAAACAAAG
*
7402492 AACCCGAAAATAAAG
1 AACCCGAAAACAAAG
7402507 AAC
1 AAC
7402510 TCTCAACGTA
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:0.61, C:0.24, G:0.12, T:0.03
Consensus pattern (15 bp):
AACCCGAAAACAAAG
Found at i:7402707 original size:24 final size:24
Alignment explanation
Indices: 7402676--7402776 Score: 123
Period size: 24 Copynumber: 4.2 Consensus size: 24
7402666 AATTTGACTC
*
7402676 AAATAAATAAATAGAATTTAATTG
1 AAATAAATAAACAGAATTTAATTG
* * *
7402700 AAACAAATAAGCAGAGTTTAATTG
1 AAATAAATAAACAGAATTTAATTG
*
7402724 AAATAAATAAACAGAGTTTAATTG
1 AAATAAATAAACAGAATTTAATTG
* *
7402748 AAATAATTAAACTGAATTTAACTT-
1 AAATAAATAAACAGAATTTAA-TTG
7402772 AAATA
1 AAATA
7402777 TTATTTCTCA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
24 65 0.97
25 2 0.03
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (24 bp):
AAATAAATAAACAGAATTTAATTG
Found at i:7402768 original size:48 final size:48
Alignment explanation
Indices: 7402664--7402776 Score: 129
Period size: 48 Copynumber: 2.4 Consensus size: 48
7402654 TAGACTAATA
* * * *
7402664 AGAATTTGACTCAAATAAATAAATAGAATTTAATTGAAACAAATAAGC
1 AGAATTTAACTTAAATAAATAAACAGAATTTAATTGAAACAAATAAAC
* * * *
7402712 AGAGTTTAA-TTGAAATAAATAAACAGAGTTTAATTGAAATAATTAAAC
1 AGAATTTAACTT-AAATAAATAAACAGAATTTAATTGAAACAAATAAAC
*
7402760 TGAATTTAACTTAAATA
1 AGAATTTAACTTAAATA
7402777 TTATTTCTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
47 1 0.02
48 50 0.94
49 2 0.04
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (48 bp):
AGAATTTAACTTAAATAAATAAACAGAATTTAATTGAAACAAATAAAC
Found at i:7409928 original size:25 final size:26
Alignment explanation
Indices: 7409900--7409974 Score: 62
Period size: 29 Copynumber: 2.7 Consensus size: 26
7409890 TTTTGTGATA
7409900 AATTTTAGAATTATATATA-AATTTT
1 AATTTTAGAATTATATATATAATTTT
*
7409925 AATTTAATATATAATTATATATATTAATTTT
1 AA-TT--T-TAGAATTATATATA-TAATTTT
*
7409956 AATTTGATGTAATTATATA
1 AATTTTA-G-AATTATATA
7409975 CATGAAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 1 0.03
28 2 0.05
29 22 0.56
30 2 0.05
31 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (26 bp):
AATTTTAGAATTATATATATAATTTT
Found at i:7409934 original size:17 final size:19
Alignment explanation
Indices: 7409897--7409938 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7409887 TACTTTTGTG
7409897 ATAAATTTTAGAATTATAT
1 ATAAATTTTAGAATTATAT
*
7409916 ATAAATTTTA-ATTTAATAT
1 ATAAATTTTAGAATT-ATAT
7409935 ATAA
1 ATAA
7409939 TTATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATAAATTTTAGAATTATAT
Found at i:7409968 original size:29 final size:28
Alignment explanation
Indices: 7409908--7409974 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
7409898 TAAATTTTAG
*
7409908 AATTATATATAAATTTTAATTTAATATAT
1 AATTATATATAAATTTTAATTT-AGATAT
*
7409937 AATTATATATATTAATTTTAATTT-GATGT
1 AATTATATATA--AATTTTAATTTAGATAT
7409966 AATTATATA
1 AATTATATA
7409975 CATGAAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 23 0.68
31 11 0.32
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
AATTATATATAAATTTTAATTTAGATAT
Found at i:7410019 original size:31 final size:32
Alignment explanation
Indices: 7409918--7410045 Score: 81
Period size: 31 Copynumber: 4.1 Consensus size: 32
7409908 AATTATATAT
7409918 AAATTTTAATT-TAATATATAAT-TATATATATT-
1 AAATTTTAATTATAAT-T-TAATATATATAT-TTA
* * ** *
7409950 -AATTTTAATT-TGATGTAAT-TATATACATG
1 AAATTTTAATTATAATTTAATATATATATTTA
** *
7409979 AAACATTAATTATGATTTAA-ATATATATTTA
1 AAATTTTAATTATAATTTAATATATATATTTA
* *
7410010 AAATTTTAATTTTAATTTAATTATATGTATTTA
1 AAATTTTAATTATAATTTAA-TATATATATTTA
7410043 AAA
1 AAA
7410046 AAATAAATAC
Statistics
Matches: 75, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
28 1 0.01
29 10 0.13
30 8 0.11
31 43 0.57
33 13 0.17
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (32 bp):
AAATTTTAATTATAATTTAATATATATATTTA
Found at i:7413760 original size:174 final size:171
Alignment explanation
Indices: 7413469--7413799 Score: 407
Period size: 174 Copynumber: 1.9 Consensus size: 171
7413459 TTGTGACTCA
* * * * *
7413469 TGAGGTGGAAAAGGTAGAGAGAGGGCAATGCAGGAGCAAGGAAAGGAGTGAAAATGTTTATTCTG
1 TGAGGTGAAAAAGGTAGAAAGAGGGCAATGCAGGAGCAAGGAAAGGACTGAAAAGGTTTACTCTG
* * * * *
7413534 GTAGAGTCACTAGATCACGAAGTTCAATCCATCCTTCCATGTCTGAGAGTGGGCCTTCAAGTACA
66 GTAGAGTCACAAGATCAAGAAGTTCAATCCAACCTTCAAAGTCTGAGAGTGGGCCTTCAAGTACA
* *
7413599 GGCAACGACTCCTTTGTTGCGAAGCAGGATAATGTTGTCAGTAG
131 GGAAAC-ACT--TCTGTTGCGAAGCAGGATAATGTTGTCAGTAG
7413643 TGAGGTGAAAAAAGG-AGAAAGAGTGG-AATGCAGGAGCAAGGAAAGGACTGAAAAGGTTTACTC
1 TGAGGTG-AAAAAGGTAGAAAGAG-GGCAATGCAGGAGCAAGGAAAGGACTGAAAAGGTTTACTC
* * * * * *
7413706 TGGTCGAGTCACAAGATCAAGAGGTTCAGTTCAACCTTCAAAGTCT-ATGAGTGGGCTTTCAGGT
64 TGGTAGAGTCACAAGATCAAGAAGTTCAATCCAACCTTCAAAGTCTGA-GAGTGGGCCTTCAAGT
* *
7413770 GCAGGAAACACTTCTGTTGCTAAGCAGGAT
128 ACAGGAAACACTTCTGTTGCGAAGCAGGAT
7413800 GGTGTGGTAC
Statistics
Matches: 134, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
171 16 0.12
173 4 0.03
174 106 0.79
175 8 0.06
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (171 bp):
TGAGGTGAAAAAGGTAGAAAGAGGGCAATGCAGGAGCAAGGAAAGGACTGAAAAGGTTTACTCTG
GTAGAGTCACAAGATCAAGAAGTTCAATCCAACCTTCAAAGTCTGAGAGTGGGCCTTCAAGTACA
GGAAACACTTCTGTTGCGAAGCAGGATAATGTTGTCAGTAG
Found at i:7425436 original size:19 final size:19
Alignment explanation
Indices: 7425412--7425450 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7425402 ATTCAACTTG
*
7425412 ATTTGACTCAAAAAATTTT
1 ATTTGACTCAAAAAAATTT
* *
7425431 ATTTGATTTAAAAAAATTT
1 ATTTGACTCAAAAAAATTT
7425450 A
1 A
7425451 AATTAAAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (19 bp):
ATTTGACTCAAAAAAATTT
Found at i:7442121 original size:38 final size:38
Alignment explanation
Indices: 7442077--7442153 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
7442067 AATATAGTAA
7442077 TTTGGACATTGAAAAATTAAAATTTGTTTGCTAATTAT
1 TTTGGACATTGAAAAATTAAAATTTGTTTGCTAATTAT
7442115 TTTGGACATTGAAAAATTAAAATTTGTTTGCTAATTAT
1 TTTGGACATTGAAAAATTAAAATTTGTTTGCTAATTAT
7442153 T
1 T
7442154 GTATGATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.45
Consensus pattern (38 bp):
TTTGGACATTGAAAAATTAAAATTTGTTTGCTAATTAT
Found at i:7445457 original size:23 final size:23
Alignment explanation
Indices: 7445411--7445457 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7445401 AAAATTATTA
*
7445411 AAATATCTTTTTATATACAAAAT
1 AAATATCTTTTTATATAAAAAAT
*
7445434 AAATATTTTTTTA-ATAAAATAAT
1 AAATATCTTTTTATATAAAA-AAT
7445457 A
1 A
7445458 TTATATTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATATCTTTTTATATAAAAAAT
Found at i:7456029 original size:12 final size:12
Alignment explanation
Indices: 7456014--7456061 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
7456004 ATGACATGGC
*
7456014 GGATGATGGGGA
1 GGATGATGAGGA
7456026 GGATGATGAGGA
1 GGATGATGAGGA
* * *
7456038 TGATGACGAGGG
1 GGATGATGAGGA
*
7456050 GGAGGATGAGGA
1 GGATGATGAGGA
7456062 TGAGGATATA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.54, T:0.15
Consensus pattern (12 bp):
GGATGATGAGGA
Found at i:7469492 original size:2 final size:2
Alignment explanation
Indices: 7469487--7469536 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
7469477 TAATATATAT
* *
7469487 AG AG AG AG AA AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7469529 AG AG AG AG
1 AG AG AG AG
7469537 TCTAACTCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7470184 original size:143 final size:143
Alignment explanation
Indices: 7469952--7470280 Score: 552
Period size: 143 Copynumber: 2.3 Consensus size: 143
7469942 GTTAATATTG
* * *
7469952 AAATTTAAAATTTTGAAAAGTATAGAAACTTAAAATGATCCAATGGGAGAAAATGGACTAAATCA
1 AAATTTCAAATTTTGAAAAGTATAGAGACTTAAAATGGTCCAATGGGAGAAAATGGACTAAATCA
*
7470017 ATATCTGTACGCTTAGTACATGACTAGTAATTAAATTTAACCAAACAAATTTAATTGTTACAGTT
66 ATATCTGTACGCTTAGTACATGACTAGTAATTAAATTTAACCAAACAAATTTAATTATTACAGTT
7470082 TGGGTTAGGACTA
131 TGGGTTAGGACTA
7470095 AAATTTCAAATTTTGAAAAGTATAGAGACTTAAAATGGTCCAATGGGAGAAAATGGACTAAATCA
1 AAATTTCAAATTTTGAAAAGTATAGAGACTTAAAATGGTCCAATGGGAGAAAATGGACTAAATCA
* ** *
7470160 ATATCTGTACGTTTAGTATGTGACTAGTAATTGAATTTAACCAAACAAATTTAATTATTACAGTT
66 ATATCTGTACGCTTAGTACATGACTAGTAATTAAATTTAACCAAACAAATTTAATTATTACAGTT
7470225 TGGGTTAGGACTA
131 TGGGTTAGGACTA
* * *
7470238 AAATTTCAAATTTTGAAAAGTATA-AGAATTAAGATTGTCCAAT
1 AAATTTCAAATTTTGAAAAGTATAGAGACTTAAAATGGTCCAAT
7470281 TCAAAAAATA
Statistics
Matches: 175, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
142 16 0.09
143 159 0.91
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.33
Consensus pattern (143 bp):
AAATTTCAAATTTTGAAAAGTATAGAGACTTAAAATGGTCCAATGGGAGAAAATGGACTAAATCA
ATATCTGTACGCTTAGTACATGACTAGTAATTAAATTTAACCAAACAAATTTAATTATTACAGTT
TGGGTTAGGACTA
Found at i:7485355 original size:18 final size:19
Alignment explanation
Indices: 7485332--7485373 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
7485322 TTTTAAAAAA
7485332 TATAAAATATTGA-ATTTT
1 TATAAAATATTGACATTTT
*
7485350 TAT-AAATATTTACATTTT
1 TATAAAATATTGACATTTT
7485368 T-TAAAA
1 TATAAAA
7485374 ATTACTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TATAAAATATTGACATTTT
Found at i:7498617 original size:10 final size:10
Alignment explanation
Indices: 7498599--7498649 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
7498589 GCATAAATAA
*
7498599 TTAATAAATT
1 TTAAAAAATT
7498609 TTAAAAAATT
1 TTAAAAAATT
7498619 TTAAAAAATT
1 TTAAAAAATT
* *
7498629 ATAAAATTATT
1 TTAAAA-AATT
7498640 TTAAAAAATT
1 TTAAAAAATT
7498650 AAAAATATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
10 27 0.77
11 8 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TTAAAAAATT
Found at i:7498642 original size:21 final size:21
Alignment explanation
Indices: 7498599--7498656 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
7498589 GCATAAATAA
* *
7498599 TTAATAAATTTTAAAA-AATT
1 TTAAAAAATTATAAAATAATT
*
7498619 TTAAAAAATTATAAAATTATT
1 TTAAAAAATTATAAAATAATT
7498640 TTAAAAAATTA-AAAATA
1 TTAAAAAATTATAAAATA
7498657 TTAATTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAAAATTATAAAATAATT
Found at i:7499023 original size:28 final size:27
Alignment explanation
Indices: 7498991--7499049 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
7498981 TAAAAGGCTA
*
7498991 TAATT-AAAGTATTTTTTTAATTTATAAT
1 TAATTAAAAGTATTTGTTT--TTTATAAT
*
7499019 TAATTACAAATTATTTGTTTTTTATAAT
1 TAATTA-AAAGTATTTGTTTTTTATAAT
7499047 TAA
1 TAA
7499050 AGTATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 16 0.59
30 11 0.41
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (27 bp):
TAATTAAAAGTATTTGTTTTTTATAAT
Found at i:7499108 original size:20 final size:21
Alignment explanation
Indices: 7499080--7499124 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
7499070 ATTTAGAATG
* *
7499080 TCAATTCCATAAATAGT-AAA
1 TCAAGTCCATAAATAATAAAA
7499100 TCAAGTCCATAAATAATAAAA
1 TCAAGTCCATAAATAATAAAA
7499121 TCAA
1 TCAA
7499125 ATTATAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (21 bp):
TCAAGTCCATAAATAATAAAA
Found at i:7499773 original size:31 final size:32
Alignment explanation
Indices: 7499738--7499806 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
7499728 TATCTAATTT
7499738 TTTTTATC-CAATTTGATACTCAAACTTGACA-
1 TTTTT-TCACAATTTGATACTCAAACTTGACAC
* * *
7499769 TTTTTTCATAATTTGGTACTTAAACTTGACAC
1 TTTTTTCACAATTTGATACTCAAACTTGACAC
7499801 TTTTTT
1 TTTTTT
7499807 TTAAGTTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 2 0.06
31 25 0.76
32 6 0.18
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (32 bp):
TTTTTTCACAATTTGATACTCAAACTTGACAC
Found at i:7500123 original size:57 final size:58
Alignment explanation
Indices: 7500049--7500157 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
7500039 TTGAATCTTA
* * *
7500049 AAAAAAGTTTAGGTACCAAATT-AGGAAAAGTGTCAAGTTC-AGATACCAAATTGGGTC
1 AAAAAAGTTTAGATACCAAATTAAGAAAAAGTATCAAGTTCAAG-TACCAAATTGGGTC
7500106 AAAAAAGTTTAGATACCAAATTAAGAAAAAGTATCAAGTTCAAGTACCAAAT
1 AAAAAAGTTTAGATACCAAATTAAGAAAAAGTATCAAGTTCAAGTACCAAAT
7500158 GTTATATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
57 21 0.45
58 24 0.51
59 2 0.04
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (58 bp):
AAAAAAGTTTAGATACCAAATTAAGAAAAAGTATCAAGTTCAAGTACCAAATTGGGTC
Found at i:7501021 original size:29 final size:28
Alignment explanation
Indices: 7500981--7501037 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
7500971 TACTATTCAA
*
7500981 ATTTTTGAAATTT-ATTCTTTGTATTTTT
1 ATTTTTGAAATTTGATTCATT-TATTTTT
7501009 ATTTTTAGAAATTTGATTCATTTATTTTT
1 ATTTTT-GAAATTTGATTCATTTATTTTT
7501038 TAAGATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 6 0.23
29 14 0.54
30 6 0.23
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.65
Consensus pattern (28 bp):
ATTTTTGAAATTTGATTCATTTATTTTT
Found at i:7504076 original size:15 final size:15
Alignment explanation
Indices: 7504056--7504085 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7504046 TGGACTAGAT
7504056 TATTTTATATTTTTA
1 TATTTTATATTTTTA
*
7504071 TATTTTTTATTTTTA
1 TATTTTATATTTTTA
7504086 GAATGTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTTATATTTTTA
Found at i:7504398 original size:10 final size:10
Alignment explanation
Indices: 7504358--7504413 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
7504348 ATATAAGATT
7504358 TATAATTAAA
1 TATAATTAAA
*
7504368 TATTAA-TAAT
1 TA-TAATTAAA
* *
7504378 TTTATTTAAA
1 TATAATTAAA
7504388 TATAATTAAA
1 TATAATTAAA
*
7504398 TTATAATTAAT
1 -TATAATTAAA
7504409 TATAA
1 TATAA
7504414 AAAATTTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
9 2 0.06
10 22 0.61
11 12 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TATAATTAAA
Found at i:7504424 original size:20 final size:20
Alignment explanation
Indices: 7504355--7504424 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
7504345 AAAATATAAG
* *
7504355 ATTTATAATTAAATATTAATA
1 ATTT-TAATTAAATATAAAAA
* *
7504376 ATTTTATTTAAATATAATTAA
1 ATTTTAATTAAATATAA-AAA
* *
7504397 ATTATAATTAATTATAAAAA
1 ATTTTAATTAAATATAAAAA
7504417 ATTTTAAT
1 ATTTTAAT
7504425 AACTCTCAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
20 20 0.51
21 19 0.49
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTTAATTAAATATAAAAA
Found at i:7504633 original size:25 final size:25
Alignment explanation
Indices: 7504599--7504682 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 25
7504589 AAGATCTTAG
*
7504599 ATTTAAAATTAAAATT-TTAACATTT
1 ATTTATAATTAAAATTATTAA-ATTT
* *
7504624 ATTTATAATTAATTATTATTTAA-TT
1 ATTTATAATTAA-AATTATTAAATTT
*
7504649 ATATTA-AAATAAAATTATTAATATTT
1 AT-TTATAATTAAAATTATTAA-ATTT
7504675 ATTTATAA
1 ATTTATAA
7504683 ATTCTTCACT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
24 7 0.15
25 24 0.51
26 13 0.28
27 3 0.06
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTATAATTAAAATTATTAAATTT
Found at i:7506003 original size:21 final size:22
Alignment explanation
Indices: 7505979--7506023 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7505969 TTATTTAATT
7505979 TTAAA-AATTATAAA-ATTTTCA
1 TTAAATAATT-TAAAGATTTTCA
*
7506000 TTAAATTATTTAAAGATTTTCA
1 TTAAATAATTTAAAGATTTTCA
7506022 TT
1 TT
7506024 TAAGTCAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAAATAATTTAAAGATTTTCA
Found at i:7509490 original size:53 final size:53
Alignment explanation
Indices: 7509433--7509595 Score: 175
Period size: 53 Copynumber: 3.0 Consensus size: 53
7509423 GAGAAAAAAA
*
7509433 GGTGTCGGCCATGCAATGACCAACACCCAAAAATGTAATTTTTTTTAAATAGG
1 GGTGTCGGCCATGCAATGGCCAACACCCAAAAATGTAATTTTTTTTAAATAGG
*** * * * *
7509486 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAAT-TGATTTTTTTCGAGAAAAGG
1 GGTGTCGGCCATGCAATGGCCAACACC-CAAAAATGTAATTTTTTT-TA-AATAGG
* * ** *
7509541 GGTGTCGACTATGCAATGGCCAACATTCAAAAATGCAATTTTTTTTAAATAGG
1 GGTGTCGGCCATGCAATGGCCAACACCCAAAAATGTAATTTTTTTTAAATAGG
7509594 GG
1 GG
7509596 GCGTCGACCA
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
53 39 0.45
54 14 0.16
55 33 0.38
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (53 bp):
GGTGTCGGCCATGCAATGGCCAACACCCAAAAATGTAATTTTTTTTAAATAGG
Found at i:7509614 original size:54 final size:51
Alignment explanation
Indices: 7509452--7509743 Score: 178
Period size: 54 Copynumber: 5.3 Consensus size: 51
7509442 CATGCAATGA
*
7509452 CCAACACCCAAAAATGTAATTTTTTTTAAATAGGGGTGTCGGCCATTTGATGG
1 CCAACA-CCAAAAATG-AATTTTTTTTAAATAGGGGTGTCGACCATTTGATGG
* * * ***
7509505 CCAACACCAAAAAAATTG-ATTTTTTTCGAGAAAAGGGGTGTCGACTATGCAATGG
1 CCAACACC--AAAAA-TGAATTTTTTT-TA-AATAGGGGTGTCGACCATTTGATGG
* *
7509560 CCAACATTCAAAAATGCAATTTTTTTTAAATAGGGGGCGTCGACCATTTGATGG
1 CCAACA-CCAAAAATG-AATTTTTTTTAAATA-GGGGTGTCGACCATTTGATGG
* * *
7509614 CCAAAACCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAAGGAGGTGT---CCATTTGATGG
1 CCAACACC--AAAAA--T-GAATTTTTTT-T----AAATAGG-GGTGTCGACCATTTGATGG
* *
7509673 CCAACACCCAAAAATGTAAATTTTTTTCAAGAAAAGGGGGTGTCGACCATTTGATGG
1 CCAACA-CCAAAAATG--AATTTTTTT-TA-AATA-GGGGTGTCGACCATTTGATGG
*
7509730 CCAACACAAAAAAT
1 CCAACACCAAAAAT
7509744 TTTGAAATTT
Statistics
Matches: 187, Mismatches: 24, Indels: 53
0.71 0.09 0.20
Matches are distributed among these distances:
52 2 0.01
53 21 0.11
54 42 0.22
55 42 0.22
56 9 0.05
57 37 0.20
58 6 0.03
59 16 0.09
60 2 0.01
61 2 0.01
62 8 0.04
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (51 bp):
CCAACACCAAAAATGAATTTTTTTTAAATAGGGGTGTCGACCATTTGATGG
Found at i:7509671 original size:59 final size:58
Alignment explanation
Indices: 7509602--7509767 Score: 189
Period size: 57 Copynumber: 2.9 Consensus size: 58
7509592 GGGGGCGTCG
* *
7509602 ACCATTTGATGGCCAAAACCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAAGGAGGTGT
1 ACCATTTGATGGCCAACACCAAAAAAATTT-AAATTTTTTTCTCAAG-AAAAGGAGGTGT
* * *
7509662 -CCATTTGATGGCCAACACC-CAAAAATGTAAA-TTTTTT-TCAAGAAAAGGGGGTGT
1 ACCATTTGATGGCCAACACCAAAAAAATTTAAATTTTTTTCTCAAGAAAAGGAGGTGT
* *
7509716 CGACCATTTGATGGCCAACA-CAAAAAATTTTGAAATTTTTTTCTCAAAAAAA
1 --ACCATTTGATGGCCAACACCAAAAAAATTT-AAATTTTTTTCTCAAGAAAA
7509768 TCCAATTTCT
Statistics
Matches: 90, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
54 11 0.12
55 4 0.04
56 7 0.08
57 26 0.29
58 10 0.11
59 24 0.27
60 8 0.09
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (58 bp):
ACCATTTGATGGCCAACACCAAAAAAATTTAAATTTTTTTCTCAAGAAAAGGAGGTGT
Found at i:7509698 original size:57 final size:58
Alignment explanation
Indices: 7509602--7509767 Score: 189
Period size: 59 Copynumber: 2.9 Consensus size: 58
7509592 GGGGGCGTCG
* *
7509602 ACCATTTGATGGCCAAAACCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAAGGAGGTGT
1 ACCATTTGATGGCCAACACC-AAAAAATTTAAAATTTTTTTCTCAAG-AAAAGGAGGTGT
* * *
7509662 -CCATTTGATGGCCAACACCCAAAAATGT-AAA-TTTTTT-TCAAGAAAAGGGGGTGT
1 ACCATTTGATGGCCAACACCAAAAAATTTAAAATTTTTTTCTCAAGAAAAGGAGGTGT
* *
7509716 CGACCATTTGATGGCCAACA-CAAAAAATTTTGAAATTTTTTTCTCAAAAAAA
1 --ACCATTTGATGGCCAACACCAAAAAA-TTTAAAATTTTTTTCTCAAGAAAA
7509768 TCCAATTTCT
Statistics
Matches: 91, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
54 11 0.12
55 4 0.04
56 12 0.13
57 22 0.24
58 10 0.11
59 24 0.26
60 8 0.09
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (58 bp):
ACCATTTGATGGCCAACACCAAAAAATTTAAAATTTTTTTCTCAAGAAAAGGAGGTGT
Found at i:7509741 original size:55 final size:56
Alignment explanation
Indices: 7509452--7509758 Score: 240
Period size: 55 Copynumber: 5.5 Consensus size: 56
7509442 CATGCAATGA
* * *
7509452 CCAACACCCAAAAATGT-AATTTTTTT-TA-AATA-GGGGTGTCGGCCATTTGATGG
1 CCAACA-CCAAAAATGTAAATTTTTTTCGAGAAAAGGGGGTGTCGACCATTTGATGG
** ** * ***
7509505 CCAACACCAAAAAAATTGATTTTTTTCGAGAAAA-GGGGTGTCGACTATGCAATGG
1 CCAACACCAAAAATGTAAATTTTTTTCGAGAAAAGGGGGTGTCGACCATTTGATGG
* * * * *
7509560 CCAACATTCAAAAATG-CAATTTTTTT-TA-AATAGGGGGCGTCGACCATTTGATGG
1 CCAACA-CCAAAAATGTAAATTTTTTTCGAGAAAAGGGGGTGTCGACCATTTGATGG
* * *
7509614 CCAAAACCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAAGGAGGTGT---CCATTTGATGG
1 CCAACACC--AAAAATGT-AAA-TTTTTT-TCGAG-AAAAGGGGGTGTCGACCATTTGATGG
*
7509673 CCAACACCCAAAAATGTAAATTTTTTTCAAGAAAAGGGGGTGTCGACCATTTGATGG
1 CCAACA-CCAAAAATGTAAATTTTTTTCGAGAAAAGGGGGTGTCGACCATTTGATGG
* *
7509730 CCAACACAAAAAATTTTGAAATTTTTTTC
1 CCAACACCAAAAA-TGT-AAATTTTTTTC
7509759 TCAAAAAAAT
Statistics
Matches: 198, Mismatches: 36, Indels: 35
0.74 0.13 0.13
Matches are distributed among these distances:
52 8 0.04
53 18 0.09
54 34 0.17
55 43 0.22
56 18 0.09
57 24 0.12
58 24 0.12
59 17 0.09
60 3 0.02
62 9 0.05
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (56 bp):
CCAACACCAAAAATGTAAATTTTTTTCGAGAAAAGGGGGTGTCGACCATTTGATGG
Found at i:7511835 original size:2 final size:2
Alignment explanation
Indices: 7511763--7511817 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
7511753 AAAATATTAC
7511763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7511805 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
7511818 CATACGTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7513086 original size:30 final size:30
Alignment explanation
Indices: 7513025--7513098 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
7513015 AGTTTATATC
* * * *
7513025 TTTATAATTTATAAAAGATTAAATTAAAAT
1 TTTATTATTTTTAAAAGATCAAAATAAAAT
* *
7513055 TTTATTATTTTTAAAGGATCAAAATATAAT
1 TTTATTATTTTTAAAAGATCAAAATAAAAT
* *
7513085 TTTACTATTATTAA
1 TTTATTATTTTTAA
7513099 TTTAAATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (30 bp):
TTTATTATTTTTAAAAGATCAAAATAAAAT
Found at i:7513547 original size:58 final size:59
Alignment explanation
Indices: 7513485--7513635 Score: 209
Period size: 58 Copynumber: 2.6 Consensus size: 59
7513475 TTTTAATAAG
* *
7513485 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTAACATA
* * *
7513543 ATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAACATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTAACATA
*
7513601 ATTATTATTAAAATATGAA-TTAATAAAAATTATAA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAATAA
7513636 TATATAATAT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
57 21 0.26
58 40 0.49
59 10 0.12
60 10 0.12
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.44
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTAACATA
Found at i:7513632 original size:25 final size:24
Alignment explanation
Indices: 7513604--7513654 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
7513594 TAATATAATT
*
7513604 ATTATTAAAATATGA-ATTAATAAAA
1 ATTA-TAAAATATAATATTAA-AAAA
*
7513629 ATTATAATATATAATATTAAAAAA
1 ATTATAAAATATAATATTAAAAAA
7513653 AT
1 AT
7513655 AATACATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
ATTATAAAATATAATATTAAAAAA
Found at i:7513644 original size:58 final size:55
Alignment explanation
Indices: 7513474--7513644 Score: 177
Period size: 58 Copynumber: 3.0 Consensus size: 55
7513464 TTGTTATTAA
* * *
7513474 ATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAATTAT-AAT-A-TTAATAAC
* *
7513532 ATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAAT-TTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAAT-AAA-AAT-TATAATATTAATAAC
7513589 ATTTTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATTATAATATATAATA
1 A-TTTTAATATAATTATTATT-AAATAT-AATTTAATAAAAATTATAATAT-TAATA
7513645 TTAAAAAAAT
Statistics
Matches: 97, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
56 6 0.06
57 11 0.11
58 56 0.58
59 14 0.14
60 8 0.08
61 2 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (55 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATTATAATATTAATAAC
Found at i:7519607 original size:58 final size:60
Alignment explanation
Indices: 7519457--7519626 Score: 247
Period size: 58 Copynumber: 2.9 Consensus size: 60
7519447 ATTGAATCTA
* *
7519457 AAAAAAAGCTTGGGTACCAAATTAGAAAAAA-TGTCAAGTTCAAGTACCAAATTGGGTCC
1 AAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTGTCAAGTTCAAGTACCAAATTGGGTCC
* * * *
7519516 AAAAAAAGTTTAGGTGCCAATTTAGGAAAAAGTGTCAAGTTCAAGTACTAAATTGGGT-C
1 AAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTGTCAAGTTCAAGTACCAAATTGGGTCC
* *
7519575 -AAAAAAGTTTAGGTACCAAATTAAAAAAAAGTGTCAAGTTCAAGTATCAAAT
1 AAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTGTCAAGTTCAAGTACCAAAT
7519627 GTTATATTAA
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
58 46 0.47
59 27 0.28
60 25 0.26
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (60 bp):
AAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTGTCAAGTTCAAGTACCAAATTGGGTCC
Found at i:7520735 original size:20 final size:20
Alignment explanation
Indices: 7520698--7520740 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
7520688 AAAAAAGTGC
*
7520698 ATATCGAAAATTTCAACGTT
1 ATATCGAAAATTTCAACGCT
*
7520718 ATATC-AAAATTATTAACGCT
1 ATATCGAAAATT-TCAACGCT
7520738 ATA
1 ATA
7520741 CCAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (20 bp):
ATATCGAAAATTTCAACGCT
Found at i:7522551 original size:30 final size:30
Alignment explanation
Indices: 7522507--7522876 Score: 305
Period size: 30 Copynumber: 12.5 Consensus size: 30
7522497 ATCTAGGGAT
*
7522507 AAAATGGTAA-TTTTGAAAGTTTTTGGGTCA
1 AAAAT-GTAATTTTTGAAAGTTTTGGGGTCA
* *
7522537 AAAATGAAATTTTTGGAAGTTTTGGGGTCA
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
* *
7522567 AAAATGAAATTTTTGGAAGTTTTGGGGTCA
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
** ** *
7522597 AAAATGTAA-TTTTGGGAGTTTCAGAGTCA
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
* * *
7522626 AAAATGAAATTTTTGGAA-TTTTGGGGGGT-G
1 AAAATGTAATTTTTGAAAGTTTT--GGGGTCA
* *
7522656 AAAATGGAATTTTTGAAAGTTTCGGGGTCA
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
** *
7522686 AAAATGTAATTTTCAAAAGTTTTTGGGT-A
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
* *
7522715 AAAATGTAATTTTTGGAAA-TTTTAGGGT-T
1 AAAATGTAATTTTT-GAAAGTTTTGGGGTCA
* * *
7522744 AAAATGTAATTTTTGGAAGTTTTAGGGTTA
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
* * *
7522774 AAAATAG-GATTTTTGGAAG-TTCGAGGGT-A
1 AAAAT-GTAATTTTTGAAAGTTTTG-GGGTCA
* * *
7522803 AAAATTTAATTTTTGAAAGTTTCGAGGTCA
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
* *
7522833 AAAATGGAATTTTAGAGAAG-TTTGGGGTC-
1 AAAATGTAATTTTTGA-AAGTTTTGGGGTCA
*
7522862 AAAATATAATTTTTG
1 AAAATGTAATTTTTG
7522877 GACAGTTTAG
Statistics
Matches: 281, Mismatches: 44, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
28 3 0.01
29 113 0.40
30 155 0.55
31 10 0.04
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAGTTTTGGGGTCA
Found at i:7522570 original size:89 final size:88
Alignment explanation
Indices: 7522477--7522874 Score: 301
Period size: 89 Copynumber: 4.5 Consensus size: 88
7522467 AAATCGGGAT
* * * *
7522477 AAAAAACGGAGTTTTTGGACA-TCTAGGGAT-AAAATGGTAATTTTGAAAGTTTTTGGGTCAAAA
1 AAAAAATGGAATTTTTGGA-AGTTTAGGGGTAAAAAT-GTAATTTTGAAAGTTTTTGGGTCAAAA
7522540 ATGAAATTTTTGGAAGTTTTGGGGTC
64 ATGAAATTTTTGGAA-TTTTGGGGTC
* * ** ** *
7522566 -AAAAATGAAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTGGGAGTTTCAGAGTCAAAAA
1 AAAAAATGGAATTTTTGGAAGTTTAGGGGT-AAAAATGTAATTTTGAAAGTTTTTGGGTCAAAAA
**
7522630 TGAAATTTTTGGAATTTTGGGGGG
65 TGAAATTTTTGGAATTTTGGGGTC
** * * *
7522654 TGAAAATGGAATTTTTGAAAGTTTCGGGGTCAAAAATGTAATTTTCAAAAGTTTTTGGGT-AAAA
1 AAAAAATGGAATTTTTGGAAGTTTAGGGGT-AAAAATGTAATTTT-GAAAGTTTTTGGGTCAAAA
* *
7522718 ATGTAATTTTTGGAAATTTTAGGGT-
64 ATGAAATTTTTGG-AATTTTGGGGTC
* * * * * * ***
7522743 -TAAAATGTAATTTTTGGAAGTTTTAGGGTTAAAAATAGGATTTTTGGAAGTTCGAGGGT-AAAA
1 AAAAAATGGAATTTTTGGAAG-TTTAGGGGTAAAAAT-GTAATTTTGAAAGTTTTTGGGTCAAAA
** * * *
7522806 ATTTAATTTTTGAAAGTTTCGAGGTC
64 ATGAAATTTTTGGAA-TTTTGGGGTC
* * *
7522832 -AAAAATGGAATTTTAGAGAAGTTT-GGGGTCAAAATATAATTTT
1 AAAAAATGGAATTTTTG-GAAGTTTAGGGGTAAAAATGTAATTTT
7522875 TGGACAGTTT
Statistics
Matches: 247, Mismatches: 51, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
87 8 0.03
88 91 0.37
89 122 0.49
90 26 0.11
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (88 bp):
AAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTGAAAGTTTTTGGGTCAAAAAT
GAAATTTTTGGAATTTTGGGGTC
Found at i:7522592 original size:59 final size:60
Alignment explanation
Indices: 7522517--7522884 Score: 317
Period size: 59 Copynumber: 6.2 Consensus size: 60
7522507 AAAATGGTAA
* * *
7522517 TTTTGAAAGTTTTTGGGTCAAAAATGAAATTTTTGGAAGTTTTGGGGTCAAAAATGAAAT
1 TTTTGGAAGTTTTGGGGTCAAAAATGAAATTTTTGGAAGTTTCGGGGTCAAAAATGAAAT
* * * *
7522577 TTTTGGAAGTTTTGGGGTCAAAAATGTAA-TTTTGGGAGTTTCAGAGTCAAAAATGAAAT
1 TTTTGGAAGTTTTGGGGTCAAAAATGAAATTTTTGGAAGTTTCGGGGTCAAAAATGAAAT
* * * *
7522636 TTTTGGAA-TTTTGGGGGGT-GAAAATGGAATTTTTGAAAGTTTCGGGGTCAAAAATGTAAT
1 TTTTGGAAGTTTT--GGGGTCAAAAATGAAATTTTTGGAAGTTTCGGGGTCAAAAATGAAAT
*** * * * ** * *
7522696 TTTCAAAAGTTTTTGGGT-AAAAATGTAATTTTTGGAAATTTTAGGGT-TAAAATGTAAT
1 TTTTGGAAGTTTTGGGGTCAAAAATGAAATTTTTGGAAGTTTCGGGGTCAAAAATGAAAT
* * * **
7522754 TTTTGGAAGTTTTAGGGTTAAAAAT-AGGATTTTTGGAAG-TTCGAGGGT-AAAAATTTAAT
1 TTTTGGAAGTTTTGGGGTCAAAAATGA-AATTTTTGGAAGTTTCG-GGGTCAAAAATGAAAT
* * * * *
7522813 TTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTAGAGAAGTTT-GGGGTC-AAAAT-ATAAT
1 TTTTGGAAGTTTTGGGGTCAAAAATGAAATTTTTG-GAAGTTTCGGGGTCAAAAATGA-AAT
7522872 TTTTGGACAGTTT
1 TTTTGGA-AGTTT
7522885 AGGGACCTCT
Statistics
Matches: 249, Mismatches: 46, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
58 30 0.12
59 142 0.57
60 71 0.29
61 6 0.02
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (60 bp):
TTTTGGAAGTTTTGGGGTCAAAAATGAAATTTTTGGAAGTTTCGGGGTCAAAAATGAAAT
Found at i:7524662 original size:6 final size:6
Alignment explanation
Indices: 7524651--7524718 Score: 56
Period size: 6 Copynumber: 12.0 Consensus size: 6
7524641 TTAATTAATT
* *
7524651 TTTAAA TTTAAA TTTATAA --TAAA TTTAAA TTT-TA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
7524697 TTCAAA -ATAAA TTT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
7524719 AATAAAATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
4 2 0.04
5 13 0.27
6 31 0.65
7 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:7524673 original size:17 final size:17
Alignment explanation
Indices: 7524653--7524716 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
7524643 AATTAATTTT
7524653 TAAATTTAAATTTATAA
1 TAAATTTAAATTTATAA
*
7524670 TAAATTTAAATTT-TATC
1 TAAATTTAAATTTATA-A
* *
7524687 TAAATTTAAATTCAAAA
1 TAAATTTAAATTTATAA
7524704 TAAATTT-AATTTA
1 TAAATTTAAATTTA
7524717 AAAATAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 7 0.17
17 32 0.80
18 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:7524720 original size:17 final size:17
Alignment explanation
Indices: 7524653--7524729 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
7524643 AATTAATTTT
* *
7524653 TAAATTTAAATTTATAA
1 TAAATTTAAATTAAAAA
** **
7524670 TAAATTTAAATTTTATC
1 TAAATTTAAATTAAAAA
*
7524687 TAAATTTAAATTCAAAA
1 TAAATTTAAATTAAAAA
*
7524704 TAAATTTAATTTAAAAA
1 TAAATTTAAATTAAAAA
7524721 TAAAATTTA
1 T-AAATTTA
7524730 TATTCCATTA
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
17 42 0.86
18 7 0.14
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTAAAAA
Found at i:7540015 original size:2 final size:2
Alignment explanation
Indices: 7540008--7540048 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7539998 TTCCATTTCA
7540008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7540049 ATTATGTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7548187 original size:17 final size:17
Alignment explanation
Indices: 7548165--7548206 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
7548155 TCATTAACCA
*
7548165 TTTTTGTGACGATAAAT
1 TTTTTGTCACGATAAAT
*
7548182 TTTTTGTCACTATAAAT
1 TTTTTGTCACGATAAAT
7548199 TTTATTGT
1 TTT-TTGT
7548207 TTATTGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (17 bp):
TTTTTGTCACGATAAAT
Found at i:7555578 original size:28 final size:26
Alignment explanation
Indices: 7555547--7555599 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
7555537 TTTGAAATTA
7555547 AATTAGAATTT-ATTTTTCATTAATATAT
1 AATT-GAATTTAATTTTT-ATT-ATATAT
*
7555575 AATTTAATTTAATTTTTATTATATA
1 AATTGAATTTAATTTTTATTATATA
7555600 AAAACGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 8 0.35
28 10 0.43
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
AATTGAATTTAATTTTTATTATATAT
Found at i:7556568 original size:21 final size:20
Alignment explanation
Indices: 7556534--7556572 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
7556524 TAAAACGACG
*
7556534 TAGTTTTGCTTTTAACTTAA
1 TAGTTTTACTTTTAACTTAA
7556554 TAGTTTTAACTTTTAACTT
1 TAGTTTT-ACTTTTAACTT
7556573 TAGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (20 bp):
TAGTTTTACTTTTAACTTAA
Found at i:7559112 original size:58 final size:58
Alignment explanation
Indices: 7559043--7559162 Score: 174
Period size: 58 Copynumber: 2.1 Consensus size: 58
7559033 AAAATGAGTT
7559043 GTTTATGAGTGTTATTT-AAGAATAAAATTATATTT-AGGTTTAAAAATATTT-AGGTTTA
1 GTTTATGAGTGTT-TTTGAAGAATAAAATTATATTTGA-GTTTAAAAATATTTGA-GTTTA
* *
7559101 GTTTATGAGTGTTTTTGAAGAATGAAATTATATTTGAGTTTAAAAATGTTTGAGTTTA
1 GTTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGAGTTTA
7559159 GTTT
1 GTTT
7559163 GTTGATGAGT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
57 3 0.05
58 52 0.91
59 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (58 bp):
GTTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGAGTTTA
Found at i:7559426 original size:23 final size:23
Alignment explanation
Indices: 7559382--7559427 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7559372 AAAAAAAAAT
***
7559382 TAACTCGATTCTTTTAACTCGAA
1 TAACTCGATTCGAATAACTCGAA
*
7559405 TAACTCGATTCGAATAATTCGAA
1 TAACTCGATTCGAATAACTCGAA
7559428 ATTCGAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (23 bp):
TAACTCGATTCGAATAACTCGAA
Found at i:7563920 original size:6 final size:6
Alignment explanation
Indices: 7563910--7563943 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
7563900 TATAAATTTG
* *
7563910 ATTGAG ATTGAT ATTAAT ATTGAT ATTGAT ATTG
1 ATTGAT ATTGAT ATTGAT ATTGAT ATTGAT ATTG
7563944 GTGTGACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (6 bp):
ATTGAT
Done.