Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 111 of 132
Found at i:33730831 original size:17 final size:18
Alignment explanation
Indices: 33730806--33730850 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
33730796 TATTAACTAT
*
33730806 TTATAAAATTTTAT-TTA
1 TTATAAAATATTATCTTA
*
33730823 TTATGAAATATTATCTTA
1 TTATAAAATATTATCTTA
*
33730841 TTATATAATA
1 TTATAAAATA
33730851 AATTTTGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATAAAATATTATCTTA
Found at i:33736564 original size:21 final size:21
Alignment explanation
Indices: 33736532--33736571 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
33736522 TGTATAATCT
33736532 ATTAACAATAATGAACTTAGA
1 ATTAACAATAATGAACTTAGA
33736553 ATTAA-AATTAATGAACTTA
1 ATTAACAA-TAATGAACTTA
33736572 CATGATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (21 bp):
ATTAACAATAATGAACTTAGA
Found at i:33737316 original size:2 final size:2
Alignment explanation
Indices: 33737309--33737336 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33737299 AATCTTAAAT
33737309 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33737337 ATTTTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33737693 original size:10 final size:11
Alignment explanation
Indices: 33737678--33737746 Score: 76
Period size: 10 Copynumber: 6.7 Consensus size: 11
33737668 TTGTTTAAGC
33737678 TTAAAAT-TTA
1 TTAAAATATTA
33737688 TTAAAATATTA
1 TTAAAATATTA
*
33737699 TAAAAAT-TTA
1 TTAAAATATTA
*
33737709 -TGAAATATTA
1 TTAAAATATTA
33737719 -TAAAATATTA
1 TTAAAATATTA
*
33737729 TGAAAATATTA
1 TTAAAATATTA
33737740 -TAAAATA
1 TTAAAATA
33737747 ATAAAAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
9 4 0.08
10 28 0.56
11 18 0.36
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
TTAAAATATTA
Found at i:33737704 original size:21 final size:21
Alignment explanation
Indices: 33737680--33737744 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
33737670 GTTTAAGCTT
33737680 AAAATTTATTAAAATATTATA
1 AAAATTTATTAAAATATTATA
*
33737701 AAAATTTA-TGAAATATTAT-
1 AAAATTTATTAAAATATTATA
*
33737720 AAAATATTATGAAAATATTATA
1 AAAAT-TTATTAAAATATTATA
33737742 AAA
1 AAA
33737745 TAATAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 5 0.13
20 13 0.34
21 17 0.45
22 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAATTTATTAAAATATTATA
Found at i:33737745 original size:21 final size:21
Alignment explanation
Indices: 33737679--33737746 Score: 97
Period size: 20 Copynumber: 3.3 Consensus size: 21
33737669 TGTTTAAGCT
*
33737679 TAAAAT-TTATTAAAATATTA
1 TAAAATATTATGAAAATATTA
33737699 TAAAA-ATTTATG-AAATATTA
1 TAAAATA-TTATGAAAATATTA
33737719 TAAAATATTATGAAAATATTA
1 TAAAATATTATGAAAATATTA
33737740 TAAAATA
1 TAAAATA
33737747 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
20 23 0.53
21 20 0.47
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAATATTATGAAAATATTA
Found at i:33738428 original size:16 final size:16
Alignment explanation
Indices: 33738409--33738449 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
33738399 TGTCAAAAGG
33738409 ATTAAAATTAAAAAAT
1 ATTAAAATTAAAAAAT
* **
33738425 ATTAAAATTATAAGTT
1 ATTAAAATTAAAAAAT
33738441 ATTAAAATT
1 ATTAAAATT
33738450 TATTCTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
ATTAAAATTAAAAAAT
Found at i:33741498 original size:37 final size:35
Alignment explanation
Indices: 33741409--33741499 Score: 91
Period size: 35 Copynumber: 2.6 Consensus size: 35
33741399 TTAAATCTAA
*
33741409 ATATTTTTTAATTTATTTTCAATTTATTGATAAAC
1 ATATTTTTTAATTTATTTTTAATTTATTGATAAAC
**
33741444 AT-TTATTTTAA--TATTTTTAATGTGT-TTGATATATT
1 ATATT-TTTTAATTTATTTTTAAT-T-TATTGATA-AAC
33741479 ATATTTTTTAATTTATTTTTA
1 ATATTTTTTAATTTATTTTTA
33741500 TATAAAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
33 9 0.20
34 9 0.20
35 18 0.39
36 2 0.04
37 8 0.17
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (35 bp):
ATATTTTTTAATTTATTTTTAATTTATTGATAAAC
Found at i:33742138 original size:21 final size:21
Alignment explanation
Indices: 33742087--33742142 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
33742077 TAAAATAAAA
*
33742087 TAAATTCAAATCATATATATT
1 TAAATTCAAATAATATATATT
*
33742108 TCAATT--AATAATATATA-T
1 TAAATTCAAATAATATATATT
33742126 TAATATTCAAATAATAT
1 TAA-ATTCAAATAATAT
33742143 TTATCACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 3 0.10
19 13 0.45
21 13 0.45
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTCAAATAATATATATT
Found at i:33742164 original size:22 final size:21
Alignment explanation
Indices: 33742134--33742187 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
33742124 ATTAATATTC
* *
33742134 AAATAATATTTATCACAAAGAT
1 AAATGATATTTATCACAAA-AG
*
33742156 AAATGATA-TTATCATAAAAG
1 AAATGATATTTATCACAAAAG
*
33742176 AAATGTTATTTA
1 AAATGATATTTA
33742188 ATTTTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.30
21 12 0.44
22 7 0.26
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (21 bp):
AAATGATATTTATCACAAAAG
Found at i:33742341 original size:25 final size:25
Alignment explanation
Indices: 33742313--33742362 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
33742303 ATACATTATC
*
33742313 TATAACTATTTATTATTTAAATATT
1 TATAACTATTTATTAATTAAATATT
*
33742338 TATAACTATTTATTAATTAATTATT
1 TATAACTATTTATTAATTAAATATT
33742363 CTAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
TATAACTATTTATTAATTAAATATT
Found at i:33743200 original size:16 final size:16
Alignment explanation
Indices: 33743176--33743206 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33743166 ACTTATTATA
*
33743176 AATAGATTTCATAAAT
1 AATAAATTTCATAAAT
33743192 AATAAATTTCATAAA
1 AATAAATTTCATAAA
33743207 CATTTTTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (16 bp):
AATAAATTTCATAAAT
Found at i:33746506 original size:16 final size:16
Alignment explanation
Indices: 33746485--33746519 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33746475 TCTCGTTGAT
33746485 AAACATAGAAAA-AAAC
1 AAACATA-AAAACAAAC
33746501 AAACATAAAAACAAAC
1 AAACATAAAAACAAAC
33746517 AAA
1 AAA
33746520 TTATGTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.77, C:0.14, G:0.03, T:0.06
Consensus pattern (16 bp):
AAACATAAAAACAAAC
Found at i:33754376 original size:25 final size:25
Alignment explanation
Indices: 33754338--33754424 Score: 106
Period size: 25 Copynumber: 3.5 Consensus size: 25
33754328 CGAAGTACTT
*
33754338 AACAAAAGCGCATAAGTGCTGAGGA
1 AACAAAAGCACATAAGTGCTGAGGA
33754363 AACAAAAGCACATAAGTGCTG-GAGA
1 AACAAAAGCACATAAGTGCTGAG-GA
* *
33754388 AACAGAAGCACATAAGTG-TTAGGA
1 AACAAAAGCACATAAGTGCTGAGGA
*
33754412 AACAGTAAGCACA
1 AACA-AAAGCACA
33754425 CGCTGTGCTG
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
24 8 0.15
25 47 0.85
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.13
Consensus pattern (25 bp):
AACAAAAGCACATAAGTGCTGAGGA
Found at i:33756482 original size:25 final size:25
Alignment explanation
Indices: 33756435--33756482 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
33756425 CTTCATCTTC
*
33756435 TCTAATAAAAACTTTTCTACAAATT
1 TCTAATAAAAACTTTACTACAAATT
*
33756460 TCTAA-AATAAACTTTACTTCAAA
1 TCTAATAA-AAACTTTACTACAAA
33756483 AAATTTTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (25 bp):
TCTAATAAAAACTTTACTACAAATT
Found at i:33772853 original size:19 final size:19
Alignment explanation
Indices: 33772831--33772868 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33772821 GTTGTCTTAT
33772831 GTATATAATGACTTGTACA
1 GTATATAATGACTTGTACA
33772850 GTATATAATGACTTGTACA
1 GTATATAATGACTTGTACA
33772869 ATACCAGATA
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:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GTATATAATGACTTGTACA
Found at i:33774155 original size:14 final size:14
Alignment explanation
Indices: 33774136--33774165 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33774126 TTGATTTTTG
33774136 ATAAAATTATAACT
1 ATAAAATTATAACT
33774150 ATAAAATTATAACT
1 ATAAAATTATAACT
33774164 AT
1 AT
33774166 TCAAACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAAAATTATAACT
Found at i:33775076 original size:56 final size:57
Alignment explanation
Indices: 33775015--33775152 Score: 190
Period size: 56 Copynumber: 2.4 Consensus size: 57
33775005 ATTATTATTA
* *
33775015 TAATTAAATTTTAATAAAATTATTATTAAATATAATTTAATAAAA-AATAAATAATT
1 TAATTAAATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATT
* * *
33775071 TAATTATATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAATT
1 TAATTAAATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATT
*
33775128 TGA-TAATATTTTTAATATAATTATT
1 TAATTAA-A-TTTTAATATAATTATT
33775153 GTTTTTGTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
56 43 0.61
57 13 0.18
58 15 0.21
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (57 bp):
TAATTAAATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATT
Found at i:33775321 original size:22 final size:19
Alignment explanation
Indices: 33775278--33775329 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 19
33775268 CCTAACCGAA
*
33775278 AATAAAAAAAATAAAGACT
1 AATAAAAAAAATAAAGAAT
33775297 AATAAAGAAAAATAAATGCAAT
1 AATAAA-AAAAATAAA-G-AAT
33775319 AATAAATAAAA
1 AATAAA-AAAA
33775330 CCATTTGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 9 0.32
21 1 0.04
22 12 0.43
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.17
Consensus pattern (19 bp):
AATAAAAAAAATAAAGAAT
Found at i:33776899 original size:13 final size:12
Alignment explanation
Indices: 33776879--33776925 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 12
33776869 TAATAAAAAA
33776879 TTATAATTTTTT
1 TTATAATTTTTT
*
33776891 TTATAAATTTTGT
1 TTAT-AATTTTTT
33776904 TTAT-A-TTTTT
1 TTATAATTTTTT
33776914 TTATAATTTTTT
1 TTATAATTTTTT
33776926 ATGATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 8 0.27
11 2 0.07
12 9 0.30
13 11 0.37
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (12 bp):
TTATAATTTTTT
Found at i:33776911 original size:11 final size:10
Alignment explanation
Indices: 33776886--33776933 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
33776876 AAATTATAAT
33776886 TTTTTTTATAAA
1 TTTTTTTAT--A
33776898 TTTTGTTTATA
1 TTTT-TTTATA
33776909 TTTTTTTATA
1 TTTTTTTATA
*
33776919 ATTTTTTATGA
1 TTTTTTTAT-A
33776930 TTTT
1 TTTT
33776934 AAATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 14 0.44
11 9 0.28
12 4 0.12
13 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:33782701 original size:18 final size:18
Alignment explanation
Indices: 33782642--33782703 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
33782632 AATAAATAAA
*
33782642 TAAAATTATTAAAAATTA
1 TAAAATTATTAAAAATTT
* *
33782660 TATAATTTTTAAAATATGTT
1 TAAAATTATTAAAA-AT-TT
*
33782680 TAAAATTATTAGAAATTT
1 TAAAATTATTAAAAATTT
33782698 TAAAAT
1 TAAAAT
33782704 ATTGTGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 20 0.56
19 4 0.11
20 12 0.33
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
TAAAATTATTAAAAATTT
Found at i:33783818 original size:2 final size:2
Alignment explanation
Indices: 33783811--33783841 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33783801 ATTTCTTTTC
33783811 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33783842 TAATCTAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33788275 original size:18 final size:17
Alignment explanation
Indices: 33788247--33788328 Score: 64
Period size: 18 Copynumber: 4.8 Consensus size: 17
33788237 TCATGACAAC
33788247 AAATAATTTAAAAATTATA
1 AAAT-ATTTAAAAATTA-A
33788266 AAATATTTAAAAA-TAA
1 AAATATTTAAAAATTAA
*
33788282 AAATAAATTT-AAATTTAA
1 AAAT--ATTTAAAAATTAA
*
33788300 AAA-ATATAAAAAATTAA
1 AAATAT-TTAAAAATTAA
*
33788317 AAA-AATTAAAAA
1 AAATATTTAAAAA
33788329 AAAGCATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
15 2 0.04
16 12 0.23
17 16 0.30
18 19 0.36
19 4 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATATTTAAAAATTAA
Found at i:33788316 original size:17 final size:18
Alignment explanation
Indices: 33788256--33788329 Score: 66
Period size: 17 Copynumber: 4.3 Consensus size: 18
33788246 CAAATAATTT
* *
33788256 AAAAATTATAAAATATTT
1 AAAAATTAAAAAATATTA
*
33788274 AAAAA-TAAAAATAAATT-
1 AAAAATTAAAAA-ATATTA
* *
33788291 TAAATTTAAAAAATA-TA
1 AAAAATTAAAAAATATTA
33788308 AAAAATTAAAAAA-ATTA
1 AAAAATTAAAAAATATTA
33788325 AAAAA
1 AAAAA
33788330 AAGCATAAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
16 2 0.04
17 28 0.62
18 15 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATTAAAAAATATTA
Found at i:33788330 original size:9 final size:9
Alignment explanation
Indices: 33788292--33788330 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
33788282 AAATAAATTT
*
33788292 AAATTTAAA
1 AAATTAAAA
33788301 AAA-TATAAA
1 AAATTA-AAA
33788310 AAATTAAAA
1 AAATTAAAA
33788319 AAATTAAAA
1 AAATTAAAA
33788328 AAA
1 AAA
33788331 AGCATAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
8 1 0.04
9 24 0.89
10 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATTAAAA
Found at i:33788640 original size:20 final size:19
Alignment explanation
Indices: 33788615--33788656 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
33788605 TTATGTAATT
33788615 TATATTATATAAAGATTAAA
1 TATATTATATAAAGA-TAAA
*
33788635 TATATTATATTAAGATAAA
1 TATATTATATAAAGATAAA
33788654 TAT
1 TAT
33788657 TAAAAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
TATATTATATAAAGATAAA
Found at i:33796508 original size:18 final size:18
Alignment explanation
Indices: 33796481--33796521 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
33796471 TATTCTTAAA
*
33796481 TTTC-TTATTTTTGTTAT
1 TTTCTTTATTTTTATTAT
*
33796498 TTTCTTTATTTTTATTGT
1 TTTCTTTATTTTTATTAT
33796516 TTTCTT
1 TTTCTT
33796522 AAATCTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTCTTTATTTTTATTAT
Found at i:33803580 original size:101 final size:101
Alignment explanation
Indices: 33803393--33803593 Score: 350
Period size: 101 Copynumber: 2.0 Consensus size: 101
33803383 ATGTCTATCG
*
33803393 AGAAGTCGCAAAAGAGAATATAGGGGTTGGGATTATAGAAGTCATTATAATGCTTGAACATGATT
1 AGAAGTCGCAAAAGAGAATATAGAGGTTGGGATTATAGAAGTCATTATAATGCTTGAACATGATT
* *
33803458 GATCTCATTGTTTTTATTGGTTGTAGTA-ACTCTCCA
66 GATCTCATTGTTTTCACTGGTTGTAG-ACACTCTCCA
33803494 AGAAGTCGCAAAAGAGAATATAGAGGTTGGGATTATAGAAGTCATTATAATGCTTGAACATGATT
1 AGAAGTCGCAAAAGAGAATATAGAGGTTGGGATTATAGAAGTCATTATAATGCTTGAACATGATT
*
33803559 GATCTCATTGTTTTCGCTGGTTGTAGACACTCTCC
66 GATCTCATTGTTTTCACTGGTTGTAGACACTCTCC
33803594 GGGTTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
100 1 0.01
101 94 0.99
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.33
Consensus pattern (101 bp):
AGAAGTCGCAAAAGAGAATATAGAGGTTGGGATTATAGAAGTCATTATAATGCTTGAACATGATT
GATCTCATTGTTTTCACTGGTTGTAGACACTCTCCA
Found at i:33804823 original size:18 final size:18
Alignment explanation
Indices: 33804791--33804837 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
33804781 GATTTTTAGT
33804791 TTTTTTAATAA-TTTTGTGG
1 TTTTTTAA-AATTTTTG-GG
*
33804810 TTTTTTAAATTTTTTGGG
1 TTTTTTAAAATTTTTGGG
*
33804828 TCTTTTAAAA
1 TTTTTTAAAA
33804838 AAATTATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.23, C:0.02, G:0.13, T:0.62
Consensus pattern (18 bp):
TTTTTTAAAATTTTTGGG
Found at i:33805322 original size:23 final size:22
Alignment explanation
Indices: 33805290--33805333 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
33805280 TTTTGATTTA
* *
33805290 ATTATTTAAAAGTTATATTTTT
1 ATTATTTAAAAATTACATTTTT
33805312 ATTATTGTAAAAATTACATTTT
1 ATTATT-TAAAAATTACATTTT
33805334 AACTTTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTATTTAAAAATTACATTTTT
Found at i:33805333 original size:22 final size:21
Alignment explanation
Indices: 33805285--33805334 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
33805275 TAAAATTTTG
* * *
33805285 ATTTAATTATTTAAAAGTTAT
1 ATTTTATTATTTAAAAATTAC
33805306 ATTTTTATTATTGTAAAAATTAC
1 A-TTTTATTATT-TAAAAATTAC
33805329 ATTTTA
1 ATTTTA
33805335 ACTTTCACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 14 0.58
23 9 0.38
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
ATTTTATTATTTAAAAATTAC
Found at i:33811210 original size:43 final size:43
Alignment explanation
Indices: 33811163--33811245 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
33811153 ATTTTCACCG
*
33811163 TTTGAGCAGTTTATCTACAATGTTGAGTGGTTTATCCACATCA
1 TTTGAGCAGTTTATCTACAACGTTGAGTGGTTTATCCACATCA
* * *
33811206 TTTGAGTAGTTTATCTGCACCGTTGAGTGGTTTATCCACA
1 TTTGAGCAGTTTATCTACAACGTTGAGTGGTTTATCCACA
33811246 CCGTATTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (43 bp):
TTTGAGCAGTTTATCTACAACGTTGAGTGGTTTATCCACATCA
Found at i:33811210 original size:65 final size:65
Alignment explanation
Indices: 33811100--33811229 Score: 181
Period size: 65 Copynumber: 2.0 Consensus size: 65
33811090 AGAGGAAGTA
* * * *
33811100 TGAGCAATTTATCTGCACTGTTGAGTGGTTTATCCACACTCTTTGAGCAATTTATTTTCACCGTT
1 TGAGCAATTTATCTACAATGTTGAGTGGTTTATCCACACTCTTTGAGCAATTTATCTGCACCGTT
* * *
33811165 TGAGCAGTTTATCTACAATGTTGAGTGGTTTATCCACA-TCATTTGAGTAGTTTATCTGCACCGT
1 TGAGCAATTTATCTACAATGTTGAGTGGTTTATCCACACTC-TTTGAGCAATTTATCTGCACCGT
33811229 T
65 T
33811230 GAGTGGTTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
64 2 0.04
65 55 0.96
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (65 bp):
TGAGCAATTTATCTACAATGTTGAGTGGTTTATCCACACTCTTTGAGCAATTTATCTGCACCGTT
Found at i:33811217 original size:22 final size:20
Alignment explanation
Indices: 33811163--33811220 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
33811153 ATTTTCACCG
* *
33811163 TTTGAGCAGTTTATCTACAA
1 TTTGAGTAGTTTATCCACAA
*
33811183 TGTTGAGTGGTTTATCCACATCA
1 T-TTGAGTAGTTTATCCACA--A
33811206 TTTGAGTAGTTTATC
1 TTTGAGTAGTTTATC
33811221 TGCACCGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 15 0.48
22 13 0.42
23 2 0.06
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (20 bp):
TTTGAGTAGTTTATCCACAA
Found at i:33813044 original size:52 final size:52
Alignment explanation
Indices: 33812966--33813091 Score: 225
Period size: 52 Copynumber: 2.4 Consensus size: 52
33812956 TTGTCCACCT
*
33812966 AGTGTTCTAGGCACGAGAGAAGTGGACCTGTGCTTCCCTTACAAGGTCCCCA
1 AGTGTTCTAGGCATGAGAGAAGTGGACCTGTGCTTCCCTTACAAGGTCCCCA
*
33813018 AGTGTCCTAGGCATGAGAGAAGTGGACCTGTGCTTCCCTTACAAGGTCCCCA
1 AGTGTTCTAGGCATGAGAGAAGTGGACCTGTGCTTCCCTTACAAGGTCCCCA
*
33813070 AGTGTTCTAGGCATGAAAGAAG
1 AGTGTTCTAGGCATGAGAGAAG
33813092 CTGGGTTCAG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (52 bp):
AGTGTTCTAGGCATGAGAGAAGTGGACCTGTGCTTCCCTTACAAGGTCCCCA
Found at i:33813189 original size:20 final size:22
Alignment explanation
Indices: 33813166--33813206 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
33813156 GAGGATTGGG
*
33813166 ATATTT-GTTATTTT-TATTTA
1 ATATTTAGTAATTTTATATTTA
33813186 ATATTTAGTAATTTTATATTT
1 ATATTTAGTAATTTTATATTT
33813207 TATTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
ATATTTAGTAATTTTATATTTA
Found at i:33813399 original size:16 final size:16
Alignment explanation
Indices: 33813370--33813408 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
33813360 TATTTAATGT
*
33813370 AAATA-ATAATTATTA
1 AAATATATAAATATTA
33813385 AAATATATAAATATTA
1 AAATATATAAATATTA
*
33813401 AAAAATAT
1 AAATATAT
33813409 TTAGTTGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATATATAAATATTA
Found at i:33813764 original size:11 final size:11
Alignment explanation
Indices: 33813748--33813778 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
33813738 GGTGCTTATG
33813748 GTTGGGTTTGA
1 GTTGGGTTTGA
33813759 GTTGGGTTTGA
1 GTTGGGTTTGA
*
33813770 GTCGGGTTT
1 GTTGGGTTT
33813779 AAGTATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.06, C:0.03, G:0.45, T:0.45
Consensus pattern (11 bp):
GTTGGGTTTGA
Found at i:33813924 original size:11 final size:11
Alignment explanation
Indices: 33813908--33813949 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
33813898 TGCCATATTA
33813908 TTTTTTTAATT
1 TTTTTTTAATT
*
33813919 TTTTTTAAATT
1 TTTTTTTAATT
33813930 TTTTTTT-ATT
1 TTTTTTTAATT
*
33813940 TTATTTTAAT
1 TTTTTTTAAT
33813950 ATTTAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTAATT
Found at i:33813936 original size:22 final size:23
Alignment explanation
Indices: 33813902--33813953 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
33813892 TTTACTTGCC
33813902 ATATTATTTTTTTAATTTT-TTTTA
1 ATATT-TTTTTTT-ATTTTATTTTA
33813926 A-ATTTTTTTTTATTTTATTTTA
1 ATATTTTTTTTTATTTTATTTTA
33813948 ATATTT
1 ATATTT
33813954 AATAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.19
22 13 0.50
23 7 0.27
24 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (23 bp):
ATATTTTTTTTTATTTTATTTTA
Found at i:33814101 original size:15 final size:16
Alignment explanation
Indices: 33814081--33814110 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33814071 TCTAAATTAT
33814081 ATAACAT-ATATAAAA
1 ATAACATAATATAAAA
33814096 ATAACATAATATAAA
1 ATAACATAATATAAA
33814111 TTATTATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAACATAATATAAAA
Found at i:33814119 original size:20 final size:18
Alignment explanation
Indices: 33814073--33814119 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
33814063 TAATGTGTTC
33814073 TAAATTATATAACATATA
1 TAAATTATATAACATATA
33814091 TAAA--A-ATAACATAATA
1 TAAATTATATAACAT-ATA
33814107 TAAATTATTATAA
1 TAAATTA-TATAA
33814120 ATTTAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
18 5 0.21
20 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAATTATATAACATATA
Found at i:33821454 original size:13 final size:13
Alignment explanation
Indices: 33821436--33821460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33821426 GAAAACGAAG
33821436 ATTTTTTTTCTTT
1 ATTTTTTTTCTTT
33821449 ATTTTTTTTCTT
1 ATTTTTTTTCTT
33821461 CTTCTTCTTC
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:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTTTTCTTT
Found at i:33824086 original size:16 final size:17
Alignment explanation
Indices: 33824051--33824088 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
33824041 ATTTACTAAT
33824051 AAATTTTATATATATTC
1 AAATTTTATATATATTC
33824068 AAATTTTA-ATA-AGTTC
1 AAATTTTATATATA-TTC
33824084 AAATT
1 AAATT
33824089 GAAAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (17 bp):
AAATTTTATATATATTC
Found at i:33827370 original size:21 final size:21
Alignment explanation
Indices: 33827344--33827384 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
33827334 AATCTTTTTG
33827344 GGTCTAGTCCAATGTACTGTC
1 GGTCTAGTCCAATGTACTGTC
*
33827365 GGTCTAGTCCGATGTACTGT
1 GGTCTAGTCCAATGTACTGT
33827385 TAGCCTAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.34
Consensus pattern (21 bp):
GGTCTAGTCCAATGTACTGTC
Found at i:33827392 original size:21 final size:21
Alignment explanation
Indices: 33827347--33827394 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
33827337 CTTTTTGGGT
* *
33827347 CTAGTCCAATGTACTGTCGGT
1 CTAGTCCAATGTACTGTCAGC
* *
33827368 CTAGTCCGATGTACTGTTAGC
1 CTAGTCCAATGTACTGTCAGC
33827389 CTAGTC
1 CTAGTC
33827395 AGCCACATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (21 bp):
CTAGTCCAATGTACTGTCAGC
Found at i:33832079 original size:25 final size:24
Alignment explanation
Indices: 33832037--33832084 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
33832027 TATATGTATA
*
33832037 TAAAAATATTTAAAAAATATCAAG
1 TAAAAATATTGAAAAAATATCAAG
* *
33832061 TAAATAATATTGAATAAATTTCAA
1 TAAA-AATATTGAAAAAATATCAA
33832085 ATATAAAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
TAAAAATATTGAAAAAATATCAAG
Found at i:33837290 original size:58 final size:58
Alignment explanation
Indices: 33837221--33837469 Score: 209
Period size: 59 Copynumber: 4.2 Consensus size: 58
33837211 ACTTGGGAAC
* * * *
33837221 AAAATGATAATTTTGGGAAAGTTTGAGGTTTAAAATGAAA-TTTTAGACATTCGAAGGT
1 AAAATGGTAATTTTAGGAAA-ATTGAGGTTTAAAATGAAATTTTTAGACATTCGAGGGT
* * ** **
33837279 AAAATGGTAATTTTTAGGAAAATCGAGATCAAAAACAAAATTTTTAGACATTCGAGGGT
1 AAAATGGTAA-TTTTAGGAAAATTGAGGTTTAAAATGAAATTTTTAGACATTCGAGGGT
* * * *
33837338 AAAATGGTAATTTTTA-GAAAAATCAGGATTAAGAATGAAATTTTTGGACATTCGAGGGT
1 AAAATGGTAA-TTTTAGGAAAATTGAGGTTTAA-AATGAAATTTTTAGACATTCGAGGGT
* *** * * * *
33837397 AAAATGGTAATTTTTGGATGTTTTG-GGATCAAAATCGGAATTTTTGGACATTC-AGGGGT
1 AAAATGGTAATTTTAGGA-AAATTGAGGTTTAAAAT-GAAATTTTTAGACATTCGA-GGGT
33837456 AAAATGGTAATTTT
1 AAAATGGTAATTTT
33837470 TGGATGTTTT
Statistics
Matches: 156, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
58 38 0.24
59 117 0.75
60 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.34
Consensus pattern (58 bp):
AAAATGGTAATTTTAGGAAAATTGAGGTTTAAAATGAAATTTTTAGACATTCGAGGGT
Found at i:33837293 original size:29 final size:29
Alignment explanation
Indices: 33837261--33837411 Score: 103
Period size: 29 Copynumber: 5.1 Consensus size: 29
33837251 TAAAATGAAA
33837261 TTTTAGACATTCGAAGGTAAAATGGTAAT
1 TTTTAGACATTCGAAGGTAAAATGGTAAT
* * * ****
33837290 TTTTAGGAAAATCG-AGATCAAAAACAAAAT
1 TTTTA-GACATTCGAAGGT-AAAATGGTAAT
*
33837320 TTTTAGACATTCGAGGGTAAAATGGTAAT
1 TTTTAGACATTCGAAGGTAAAATGGTAAT
* * *
33837349 TTTTAGAAAAATC--AGGATTAAGAAT-GAAAT
1 TTTTAG-ACATTCGAAGG--TAA-AATGGTAAT
* *
33837379 TTTTGGACATTCGAGGGTAAAATGGTAAT
1 TTTTAGACATTCGAAGGTAAAATGGTAAT
33837408 TTTT
1 TTTT
33837412 GGATGTTTTG
Statistics
Matches: 88, Mismatches: 24, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
28 5 0.06
29 42 0.48
30 36 0.41
31 5 0.06
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (29 bp):
TTTTAGACATTCGAAGGTAAAATGGTAAT
Found at i:33837333 original size:59 final size:59
Alignment explanation
Indices: 33837261--33837470 Score: 226
Period size: 59 Copynumber: 3.6 Consensus size: 59
33837251 TAAAATGAAA
* *
33837261 TTTTAGACATTCGAAGGTAAAATGGTAATTTTTAGGAAAATC-GAGATCAAAAACAAAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCAG-GATCAAAAACAAAAT
* * **
33837320 TTTTAGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATTAAGAATGAAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAACAAAAT
* * **** ** * **
33837379 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGATGTTTTGGGATCAAAATCGGAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAACAAAAT
*
33837438 TTTTGGACATTC-AGGGGTAAAATGGTAATTTTT
1 TTTTAGACATTCGA-GGGTAAAATGGTAATTTTT
33837471 GGATGTTTTA
Statistics
Matches: 130, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
58 1 0.01
59 128 0.98
60 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (59 bp):
TTTTAGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAACAAAAT
Found at i:33837471 original size:59 final size:58
Alignment explanation
Indices: 33837317--33837548 Score: 232
Period size: 59 Copynumber: 3.9 Consensus size: 58
33837307 TCAAAAACAA
* * **** ** * *
33837317 AATTTTTAGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATTAAGAATGA
1 AATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGATGTTTTGGGATCAA-AATGG
33837376 AATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGATGTTTTGGGATCAAAATCGG
1 AATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGATGTTTTGGGATCAAAAT-GG
* *
33837435 AATTTTTGGACATTC-AGGGGTAAAATGGTAATTTTTGGATGTTTTAGGGTTAAAAATGG
1 AATTTTTGGACATTCGA-GGGTAAAATGGTAATTTTTGGATGTTTT-GGGATCAAAATGG
* * * *** * * *
33837494 GATTTTTGGAAATTTGAGGGTAAAAACATAATTTTTAGATATTTTGGGGTCAAAA
1 AATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGATGTTTTGGGATCAAAA
33837549 ATGGTTTTGG
Statistics
Matches: 147, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
58 12 0.08
59 125 0.85
60 10 0.07
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (58 bp):
AATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGATGTTTTGGGATCAAAATGG
Found at i:33837499 original size:118 final size:118
Alignment explanation
Indices: 33837252--33837549 Score: 305
Period size: 118 Copynumber: 2.5 Consensus size: 118
33837242 TTTGAGGTTT
* * ** * *
33837252 AAAATGAAA-TTTTAGACATTCGAAGGTAAAATGGTAATTTTTAGGA-AAATCGAGATCAAAAAC
1 AAAATGAAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTT-GGATATTTTGGGATCAAAAAC
33837315 AAAATTTTTAGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATTA
65 AAAATTTTTAGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATTA
* * * *
33837369 AGAATGAAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGATGTTTTGGGATCAAAATCG
1 AAAATGAAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGATATTTTGGGATCAAAAACA
* * * **** * *
33837434 GAATTTTTGGACATTC-AGGGGTAAAATGGTAATTTTTGGATGTTTTAGGGTTA
66 AAATTTTTAGACATTCGA-GGGTAAAATGGTAATTTTTAGAAAAATCAGGATTA
** * * *** * *
33837487 AAAATGGGATTTTTGGAAATTTGAGGGTAAAAACATAATTTTTAGATATTTTGGGGTCAAAAA
1 AAAATGAAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGATATTTTGGGATCAAAAA
33837550 TGGTTTTGGT
Statistics
Matches: 147, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
117 12 0.08
118 135 0.92
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.34
Consensus pattern (118 bp):
AAAATGAAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGATATTTTGGGATCAAAAACA
AAATTTTTAGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATTA
Found at i:33837514 original size:30 final size:30
Alignment explanation
Indices: 33837317--33837553 Score: 107
Period size: 30 Copynumber: 8.0 Consensus size: 30
33837307 TCAAAAACAA
* * *
33837317 AATTTTTAGACATTCGAGGGT-AAAATGGT
1 AATTTTTGGAAATTTGAGGGTAAAAATGGT
* ** * * * *
33837346 AATTTTTAGAAAAATCAGGATTAAGAAT-GA
1 AATTTTTGGAAATTTGAGG-GTAAAAATGGT
* *
33837376 AATTTTTGGACATTCGAGGGT-AAAATGGT
1 AATTTTTGGAAATTTGAGGGTAAAAATGGT
** * *
33837405 AATTTTTGGATGTTTTG-GGATCAAAATCGG-
1 AATTTTTGGA-AATTTGAGGGTAAAAAT-GGT
* *
33837435 AATTTTTGGACA-TTCAGGGGT-AAAATGGT
1 AATTTTTGGAAATTTGA-GGGTAAAAATGGT
** *
33837464 AATTTTTGGATGTTTTAGGGTTAAAAATGG-
1 AATTTTTGGAAATTTGAGGG-TAAAAATGGT
* **
33837494 GATTTTTGGAAATTTGAGGGTAAAAA-CAT
1 AATTTTTGGAAATTTGAGGGTAAAAATGGT
* *
33837523 AATTTTTAGATATTTTG-GGGTCAAAAATGGT
1 AATTTTTGGA-AATTTGAGGGT-AAAAATGGT
33837554 TTTGGTGTCA
Statistics
Matches: 153, Mismatches: 39, Indels: 30
0.69 0.18 0.14
Matches are distributed among these distances:
28 8 0.05
29 65 0.42
30 66 0.43
31 14 0.09
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (30 bp):
AATTTTTGGAAATTTGAGGGTAAAAATGGT
Found at i:33837519 original size:29 final size:29
Alignment explanation
Indices: 33837317--33837518 Score: 126
Period size: 30 Copynumber: 6.9 Consensus size: 29
33837307 TCAAAAACAA
* *
33837317 AATTTTTAGACATTCGAGGGTAAAATGGT
1 AATTTTTGGACATTTGAGGGTAAAATGGT
* * ** * * *
33837346 AATTTTTAGAAAAATCAGGATTAAGAAT-GA
1 AATTTTTGGACATTTGAGG-GTAA-AATGGT
*
33837376 AATTTTTGGACATTCGAGGGTAAAATGGT
1 AATTTTTGGACATTTGAGGGTAAAATGGT
** *
33837405 AATTTTTGGATGTTTTG-GGATCAAAATCGG-
1 AATTTTTGGA-CATTTGAGGGT-AAAAT-GGT
*
33837435 AATTTTTGGACA-TTCAGGGGTAAAATGGT
1 AATTTTTGGACATTTGA-GGGTAAAATGGT
** *
33837464 AATTTTTGGATGTTTTAGGGTTAAAAATGG-
1 AATTTTTGGACATTTGAGGG-T-AAAATGGT
* *
33837494 GATTTTTGGAAATTTGAGGGTAAAA
1 AATTTTTGGACATTTGAGGGTAAAA
33837519 ACATAATTTT
Statistics
Matches: 131, Mismatches: 30, Indels: 25
0.70 0.16 0.13
Matches are distributed among these distances:
28 11 0.08
29 50 0.38
30 58 0.44
31 12 0.09
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.36
Consensus pattern (29 bp):
AATTTTTGGACATTTGAGGGTAAAATGGT
Found at i:33837578 original size:20 final size:19
Alignment explanation
Indices: 33837534--33837578 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
33837524 ATTTTTAGAT
33837534 ATTTTGGGGTCAAAAATGG
1 ATTTTGGGGTCAAAAATGG
*
33837553 -TTTTGGTGTCAAAAATGG
1 ATTTTGGGGTCAAAAATGG
33837571 AATTTTGG
1 -ATTTTGG
33837579 AGAAGTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 17 0.74
20 6 0.26
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (19 bp):
ATTTTGGGGTCAAAAATGG
Found at i:33837598 original size:30 final size:30
Alignment explanation
Indices: 33837564--33837670 Score: 133
Period size: 30 Copynumber: 3.5 Consensus size: 30
33837554 TTTGGTGTCA
*
33837564 AAAATGGAATTTTGGAGAAGTTTGGGGGTC
1 AAAATGTAATTTTGGAGAAGTTTGGGGGTC
* *
33837594 AAAATGTAACTTTGGAGAAGTTTAGGGGTC
1 AAAATGTAATTTTGGAGAAGTTTGGGGGTC
* * * *
33837624 AAAATATAATTTTAGAGAAGTTTGAGAGTC
1 AAAATGTAATTTTGGAGAAGTTTGGGGGTC
*
33837654 AAAATATAAGTTTTGGA
1 AAAATGTAA-TTTTGGA
33837671 TAGTTTAGGG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
30 60 0.91
31 6 0.09
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (30 bp):
AAAATGTAATTTTGGAGAAGTTTGGGGGTC
Found at i:33838682 original size:12 final size:12
Alignment explanation
Indices: 33838667--33838729 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
33838657 TTATTAATGC
33838667 TATTATTATTAA
1 TATTATTATTAA
*
33838679 TATTTATTATTAT
1 TA-TTATTATTAA
* **
33838692 TATAATTAACAA
1 TATTATTATTAA
* *
33838704 TATGAATATTAA
1 TATTATTATTAA
*
33838716 TATTAATATTAA
1 TATTATTATTAA
33838728 TA
1 TA
33838730 ACATTTATTA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
12 29 0.73
13 11 0.28
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:33839471 original size:17 final size:18
Alignment explanation
Indices: 33839451--33839497 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
33839441 TTTAAATTTA
33839451 AAATAAATTTAAAC-TCC
1 AAATAAATTTAAACTTCC
** *
33839468 AAATAAGCTTAAACTTTC
1 AAATAAATTTAAACTTCC
33839486 -AATAAATTTAAA
1 AAATAAATTTAAA
33839498 ATTAGAATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 22 0.92
18 2 0.08
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (18 bp):
AAATAAATTTAAACTTCC
Found at i:33842192 original size:29 final size:29
Alignment explanation
Indices: 33842159--33842220 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
33842149 ACTACTTTAA
33842159 TATAAACATTAAAAAAATATTAATATTAT
1 TATAAACATTAAAAAAATATTAATATTAT
33842188 TATAAACATTAAAAAAATATTAATATTAT
1 TATAAACATTAAAAAAATATTAATATTAT
33842217 TATA
1 TATA
33842221 TAAAAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (29 bp):
TATAAACATTAAAAAAATATTAATATTAT
Found at i:33844606 original size:325 final size:327
Alignment explanation
Indices: 33844011--33844666 Score: 1043
Period size: 325 Copynumber: 2.0 Consensus size: 327
33844001 CTAGAGAATC
* *
33844011 AGAATACCATCTTAGAAGCAAAAAATTGGAGTTGGAAGTGAAGAAAGTTGAGGAGAAAGTGAAAA
1 AGAATACCATCTTAGAAGCAAAAAATTAGAGTTGGAAGTGAAGAAAGTTGAGAAGAAAGTGAAAA
*
33844076 GATTAAAGAGACAAGGAATGTACTTCAAGAACTTTACCTTTTTTTTTTTAATTTTAATCTAAGTG
66 GATTAAAGAGACAAGGAATGTACTTCAAGAACTTTACC---TTTTATTTAATTTTAATCTAAGTG
* *
33844141 TAGAGAATGTTAAATTGTTCAATTGATTATACATGTGCAAATATTATGTATGAAATTGAATTAAT
128 TAGAGAATGTTAAATAGTTCAATTAATTATACATGTGCAAATATTATGTATGAAATTGAATTAAT
** * *
33844206 GCATTGAAGTATTAGAAAAAGGACTAAATTATAAAGTAAACAAAATAAGTTATGTGAAATTGAAT
193 GCATTGAAAAAGTAGAAAAAGGACTAAATTATAAAGTAAACAAAATAAGTTATATGAAATTGAAT
*
33844271 ATTAAAAAGAGAACATAAATAAAGTGTGATGAAATAACGATTACATCAGAAGTGATGGTGTGATG
258 ATTAAAAAGAGAACATAAATAAAGTGTGATGAAATAACGATTACATCAAAAGTGATGGTGTGATG
33844336 AAATT
323 AAATT
* * *
33844341 AGAATACCATCTTGGAAGCAAGAAATTAGAGTTGGAAGTGAAGAAAGTTGAGAAGAAAGTGAAGA
1 AGAATACCATCTTAGAAGCAAAAAATTAGAGTTGGAAGTGAAGAAAGTTGAGAAGAAAGTGAAAA
* *
33844406 TATTAAAGAGACAA-GATATGTACTTTAAGAACTTTA-C-TTTATTTAATTTTAATCTAAGTGTA
66 GATTAAAGAGACAAGGA-ATGTACTTCAAGAACTTTACCTTTTATTTAATTTTAATCTAAGTGTA
* *
33844468 GAGAATGTTAAATAGTTGAATTAATTATGA-ATGTGCAAATATTATGTATGAAATTGAATTAGTG
130 GAGAATGTTAAATAGTTCAATTAATTAT-ACATGTGCAAATATTATGTATGAAATTGAATTAATG
* *
33844532 CATTGAAAAAGTAGAAAAAGGACTAAATTGTAAAGTAAACAAAATAAGTTATAT-AGAATTTAAT
194 CATTGAAAAAGTAGAAAAAGGACTAAATTATAAAGTAAACAAAATAAGTTATATGA-AATTGAAT
*
33844596 ATTAAAAAGAGAACATAAATAAAGTGTGATGAAATAATGATTACATCAAAAGTGATGGTGTGATG
258 ATTAAAAAGAGAACATAAATAAAGTGTGATGAAATAACGATTACATCAAAAGTGATGGTGTGATG
33844661 AAATT
323 AAATT
33844666 A
1 A
33844667 CCAAGTTACC
Statistics
Matches: 303, Mismatches: 20, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
324 1 0.00
325 207 0.68
326 1 0.00
329 3 0.01
330 91 0.30
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (327 bp):
AGAATACCATCTTAGAAGCAAAAAATTAGAGTTGGAAGTGAAGAAAGTTGAGAAGAAAGTGAAAA
GATTAAAGAGACAAGGAATGTACTTCAAGAACTTTACCTTTTATTTAATTTTAATCTAAGTGTAG
AGAATGTTAAATAGTTCAATTAATTATACATGTGCAAATATTATGTATGAAATTGAATTAATGCA
TTGAAAAAGTAGAAAAAGGACTAAATTATAAAGTAAACAAAATAAGTTATATGAAATTGAATATT
AAAAAGAGAACATAAATAAAGTGTGATGAAATAACGATTACATCAAAAGTGATGGTGTGATGAAA
TT
Found at i:33848871 original size:15 final size:15
Alignment explanation
Indices: 33848843--33848881 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
33848833 TTTAAAATTA
33848843 TTAAAAT-T-ATTTT
1 TTAAAATATAATTTT
33848856 TTAAAATATAATTTT
1 TTAAAATATAATTTT
*
33848871 TTTAAATATAA
1 TTAAAATATAA
33848882 AATTATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.30
14 1 0.04
15 15 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAAAATATAATTTT
Found at i:33848885 original size:17 final size:16
Alignment explanation
Indices: 33848852--33848885 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33848842 ATTAAAATTA
*
33848852 TTTTTTAAAATATAAT
1 TTTTTTAAAATAAAAT
33848868 TTTTTTAAATATAAAAT
1 TTTTTTAAA-ATAAAAT
33848885 T
1 T
33848886 ATTAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTTTAAAATAAAAT
Found at i:33849909 original size:6 final size:6
Alignment explanation
Indices: 33849898--33849939 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
33849888 AAAATAAGAA
33849898 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG
33849940 AAACAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:33850034 original size:40 final size:39
Alignment explanation
Indices: 33849981--33850068 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 39
33849971 TGACGATTTT
*
33849981 AATAATTTTATATTTTAAAAATTAATTTTAAATTAA-TTTAA
1 AATAA-TTTATATTTTAAAAAATAATTTT-AA-TAATTTTAA
33850022 AATAATTTATATTTTAAAAAATAATTTTAATAATTTTAA
1 AATAATTTATATTTTAAAAAATAATTTTAATAATTTTAA
*
33850061 AATCATTT
1 AATAATTT
33850069 GCTGACATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
38 3 0.07
39 14 0.32
40 22 0.50
41 5 0.11
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (39 bp):
AATAATTTATATTTTAAAAAATAATTTTAATAATTTTAA
Found at i:33850057 original size:22 final size:20
Alignment explanation
Indices: 33849981--33850062 Score: 87
Period size: 20 Copynumber: 4.0 Consensus size: 20
33849971 TGACGATTTT
33849981 AATAATTTTATATTTTAAAA
1 AATAATTTTATATTTTAAAA
* * *
33850001 ATTAATTTTAAATTAATT-TAA
1 AATAATTTTATATT--TTAAAA
33850022 AATAA-TTTATATTTTAAAA
1 AATAATTTTATATTTTAAAA
33850041 AATAATTTTAATAATTTTAAAA
1 AATAATTTT-AT-ATTTTAAAA
33850063 TCATTTGCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.04
19 7 0.14
20 22 0.44
21 8 0.16
22 11 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAATTTTATATTTTAAAA
Found at i:33851776 original size:59 final size:56
Alignment explanation
Indices: 33851634--33851796 Score: 161
Period size: 57 Copynumber: 2.8 Consensus size: 56
33851624 ACCTGGGGGT
* * * *
33851634 AAAATGGTAATTTTGAATC-TCGGGGGGTAAAATTGGTAATTTTGGAAAATTAGGGCTA
1 AAAATGAT-ATTTTGAA-CATCCGGGGGTAAAA-TGGTAATTTTAGAAAATTAGGGATA
* *
33851692 AAAATGATATTTTGAACATTCGGGGGTAAAATGGTAATCTTTAGAAGAA-TCGGGATCA
1 AAAATGATATTTTGAACATCCGGGGGTAAAATGGTAAT-TTTAGAA-AATTAGGGAT-A
* *
33851750 AAAATGGAGT-TTTTGGACATCCGGGGGTAAAATGGTAATTTTTGAAA
1 AAAAT-GA-TATTTTGAACATCCGGGGGTAAAATGGTAATTTTAGAAA
33851797 GTTTCGAGGT
Statistics
Matches: 90, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
56 8 0.09
57 31 0.34
58 21 0.23
59 29 0.32
60 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (56 bp):
AAAATGATATTTTGAACATCCGGGGGTAAAATGGTAATTTTAGAAAATTAGGGATA
Found at i:33851791 original size:28 final size:26
Alignment explanation
Indices: 33851628--33851791 Score: 75
Period size: 28 Copynumber: 5.8 Consensus size: 26
33851618 TTGGATACCT
33851628 GGGGGTAAAATGGTAATTTT-GAATCTC
1 GGGGGTAAAATGGTAATTTTGGAA--TC
*
33851655 GGGGGGTAAAATTGGTAATTTTGGAAAATT
1 -GGGGGTAAAA-TGGTAATTTTGG--AATC
* * * *
33851685 AGGGCTAAAAATGAT-ATTTTGAACATTC
1 GGGGGT-AAAATGGTAATTTTGGA-A-TC
33851713 GGGGGTAAAATGGTAATCTTTAGAAGAATC
1 GGGGGTAAAATGGTAAT-TTT-G--GAATC
* *
33851743 -GGGATCAAAAATGG-AGTTTTTGGACATCC
1 GGGGGT--AAAATGGTA-ATTTTGGA-AT-C
33851772 GGGGGTAAAATGGTAATTTT
1 GGGGGTAAAATGGTAATTTT
33851792 TGAAAGTTTC
Statistics
Matches: 103, Mismatches: 14, Indels: 38
0.66 0.09 0.25
Matches are distributed among these distances:
26 1 0.01
27 10 0.10
28 36 0.35
29 27 0.26
30 17 0.17
31 9 0.09
32 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.31
Consensus pattern (26 bp):
GGGGGTAAAATGGTAATTTTGGAATC
Found at i:33851810 original size:59 final size:58
Alignment explanation
Indices: 33851634--33851813 Score: 158
Period size: 59 Copynumber: 3.1 Consensus size: 58
33851624 ACCTGGGGGT
* * * *
33851634 AAAATGGTAATTTTGAATC-TCGGGGGGTAAAATTGGTAATTTTGGAAA-ATT--AGGGCTA
1 AAAATGAT-ATTTTGAA-CATCCGGGGGTAAAA-TGGTAATTTTTGAAAGATTCGAGGTC-A
* * *
33851692 AAAATGATATTTTGAACATTCGGGGGTAAAATGGTAATCTTT-AGAAGAATCG-GGATCA
1 AAAATGATATTTTGAACATCCGGGGGTAAAATGGTAATTTTTGA-AAGATTCGAGG-TCA
* *
33851750 AAAATGGAGT-TTTTGGACATCCGGGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTCA
1 AAAAT-GA-TATTTTGAACATCCGGGGGTAAAATGGTAATTTTTGAAAGATTCGAGGTCA
33851809 AAAAT
1 AAAAT
33851814 AGAATCTTTG
Statistics
Matches: 100, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
55 1 0.01
56 12 0.12
57 21 0.21
58 15 0.15
59 47 0.47
60 4 0.04
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (58 bp):
AAAATGATATTTTGAACATCCGGGGGTAAAATGGTAATTTTTGAAAGATTCGAGGTCA
Found at i:33851929 original size:30 final size:30
Alignment explanation
Indices: 33851840--33851936 Score: 115
Period size: 30 Copynumber: 3.3 Consensus size: 30
33851830 CGAGGTAAAA
* * * *
33851840 TGGAAGTTTCGGGGTCAAAAGTGTACTTTT
1 TGGAAGTTTCGAGGTCAAAAATGGAATTTT
* **
33851870 GGGAAGTTT-GAAATCAAAAATGGAATTTT
1 TGGAAGTTTCGAGGTCAAAAATGGAATTTT
33851899 TGGAAGTTTCGAGGTCAAAAATGGAATTTT
1 TGGAAGTTTCGAGGTCAAAAATGGAATTTT
*
33851929 TGAAAGTT
1 TGGAAGTT
33851937 CAGGGGTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 22 0.40
30 33 0.60
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (30 bp):
TGGAAGTTTCGAGGTCAAAAATGGAATTTT
Found at i:33857482 original size:42 final size:42
Alignment explanation
Indices: 33857423--33857505 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
33857413 ACAAATAAGA
*
33857423 CTTCAACATTCAAATTTGATCCAACTTCCTTGATTTAAGGGT
1 CTTCAACATTCAAATTTGACCCAACTTCCTTGATTTAAGGGT
33857465 CTTCAACATTCAAATTTGACCCAACTTCCTTGATTTAAGGG
1 CTTCAACATTCAAATTTGACCCAACTTCCTTGATTTAAGGG
33857506 ATTAAATAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (42 bp):
CTTCAACATTCAAATTTGACCCAACTTCCTTGATTTAAGGGT
Found at i:33863239 original size:3 final size:3
Alignment explanation
Indices: 33863233--33863264 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
33863223 ATAACATGTA
33863233 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
33863265 ATATGTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:33864694 original size:5 final size:5
Alignment explanation
Indices: 33864684--33864715 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
33864674 ACACCTGGGT
33864684 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
33864716 GGGTTTGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:33865723 original size:11 final size:10
Alignment explanation
Indices: 33865676--33865724 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
33865666 ATAATAATTT
*
33865676 TTTAATAAAA
1 TTTAAAAAAA
33865686 TTTAAAAAATA
1 TTTAAAAAA-A
*
33865697 TATAAAAAAA
1 TTTAAAAAAA
*
33865707 GTTAAAAAAA
1 TTTAAAAAAA
33865717 TTCTAAAA
1 TT-TAAAA
33865725 TAATAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
10 18 0.56
11 14 0.44
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:33868014 original size:30 final size:29
Alignment explanation
Indices: 33867965--33868022 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
33867955 TTTCATAAAA
*
33867965 TTTATTTTAATACTTTTTTATAATTTTTT
1 TTTATTTTAATACTTTTTTAAAATTTTTT
33867994 TTTATTTTTCAATA-TTTTTTAAAATTTTT
1 TTTA-TTTT-AATACTTTTTTAAAATTTTT
33868023 ATAAGAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 18 0.69
31 4 0.15
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (29 bp):
TTTATTTTAATACTTTTTTAAAATTTTTT
Found at i:33872174 original size:16 final size:17
Alignment explanation
Indices: 33872149--33872186 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
33872139 CGATTTCAAA
* *
33872149 TTCTTGAGCC-AATTAT
1 TTCTTAAGCCAAATCAT
33872165 TTCTTAAGCCAAATCAT
1 TTCTTAAGCCAAATCAT
33872182 TTCTT
1 TTCTT
33872187 CCCTGCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.45
Consensus pattern (17 bp):
TTCTTAAGCCAAATCAT
Found at i:33872725 original size:797 final size:800
Alignment explanation
Indices: 33871145--33872747 Score: 3104
Period size: 797 Copynumber: 2.0 Consensus size: 800
33871135 CTGATATCTC
33871145 CCTTTATCCACCATTTTACCAATCTCTACTTGTAACTTGTGATTACTACTCTCAATAGGTGATTC
1 CCTTTATCCACCATTTTACCAATCTCTACTTGTAACTTGTGATTA-TACTCTCAATAGGTGATTC
33871210 TGTTGGTTTGCAACCTAACATATCAGTCTCTGTCAGAAGATCTAAGACATACTTTCTTTGGGAAA
65 TGTTGGTTTGCAACCTAACATATCAGTCTCTGTCAGAAGATCTAAGACATACTTTCTTTGGGAAA
*
33871275 TAAATATTCCCTCTTTCGATCTGGTCACTTCTATTTCGAGGAAATATTGTAACTTTCCCAAGTGT
130 TAAATATTCCCTCTTTCGATCTGGTCACTTCTATTTAGAGGAAATATTGTAACTTTCCCAAGTGT
33871340 TCGATTTCAAATTCCTGAGCCAATTATTTCTTAAGCCAAATCATTTCTTCCCTGTCATAATTACA
195 TCGATTTCAAATTCCTGAGCCAATTATTTCTTAAGCCAAATCATTTCTTCCCTGTCATAATTACA
33871405 TCATCAACATAAACTACGAGAGTTATCTTCCACTTCTGATGTTTTATAAAGAGGGTATGATCAAC
260 TCATCAACATAAACTACGAGAGTTATCTTCCACTTCTGATGTTTTATAAAGAGGGTATGATCAAC
33871470 TTACTTTGTCGATAGCCAAACGACACCATTGCCATACTAAATTTGTCAAACTAGGTTCTGAGAGA
325 TTACTTTGTCGATAGCCAAACGACACCATTGCCATACTAAATTTGTCAAACTAGGTTCTGAGAGA
33871535 TTGCTTTAGGCCATATAGGGCCTTTTTTAGTTTACATACCTTCCTTTGAGTATCTTTATCCTCGA
390 TTGCTTTAGGCCATATAGGGCCTTTTTTAGTTTACATACCTTCCTTTGAGTATCTTTATCCTCGA
33871600 ATCCTAGAGAAACTTTCATATACACTTCTTCTTCCAGGTCCCCATGTAATAAGGCATTCTTTACA
455 ATCCTAGAGAAACTTTCATATACACTTCTTCTTCCAGGTCCCCATGTAATAAGGCATTCTTTACA
*
33871665 TCAAATTGTTGTAAGTCTCAGTCGAGATTTACTGCACATGATAAAAGGATCCTAATCGTGTTCAA
520 TCAAATTGTTATAAGTCTCAGTCGAGATTTACTGCACATGATAAAAGGATCCTAATCGTGTTCAA
33871730 TTTAGCAACTGGAGCAAATGCTTCTTGATAATCCACTCCATATGTTTGAGTGAATCCTTGCGCTA
585 TTTAGCAACTGGAGCAAATGCTTCTTGATAATCCACTCCATATGTTTGAGTGAATCCTTGCGCTA
33871795 CTAATCTGGCTTTGTGTCTTTCAATTGAACCATCAACCTTATACTTGATAGTAAACACCGATTTG
650 CTAATCTGGCTTTGTGTCTTTCAATTGAACCATCAACCTTATACTTGATAGTAAACACCGATTTG
* *
33871860 CAACCAACCATTTTCTGCCCCTTAGGAGGATTAATCAGTTTGCACGTCTCATTTTTTTGCAAAAA
715 CAACCAACCATTTTCTGCCCCTTAGGAGGATTAATCAGTTTACACGTCGCATTTTTTTGCAAAAA
33871925 CCCTCATTTCTTCAATCATAG
780 CCCTCATTTCTTCAATCATAG
33871946 CCTTTATCCACCATTTTACCAATCTCTACTTGTAACTTGTGA-T-TACTCTCAATAGGTGATTCT
1 CCTTTATCCACCATTTTACCAATCTCTACTTGTAACTTGTGATTATACTCTCAATAGGTGATTCT
33872009 GTTGGTTTGCAACCTAACATATCAGTCTCTGTCAGAAGATCTAAGACATACTTTCTTTGGGAAAT
66 GTTGGTTTGCAACCTAACATATCAGTCTCTGTCAGAAGATCTAAGACATACTTTCTTTGGGAAAT
33872074 AAATATTCCCTCTTTCGATCTGGTCACTTCTATTTAGAGGAAATATTGTAACTTTCCCAAGTGTT
131 AAATATTCCCTCTTTCGATCTGGTCACTTCTATTTAGAGGAAATATTGTAACTTTCCCAAGTGTT
*
33872139 CGATTTCAAATTCTTGAGCCAATTATTTCTTAAGCCAAATCATTTCTTCCCTG-CATAATTACAT
196 CGATTTCAAATTCCTGAGCCAATTATTTCTTAAGCCAAATCATTTCTTCCCTGTCATAATTACAT
*
33872203 CATCAACATAAACTACGAGAGTTATCTTCCGCTTCTGATGTTTTATAAAGAGGGTATGATCAACT
261 CATCAACATAAACTACGAGAGTTATCTTCCACTTCTGATGTTTTATAAAGAGGGTATGATCAACT
33872268 TACTTTGTCGATAGCCAAACGACACCATTGCCATACTAAATTTGTCAAACTAGGTTCTGAGAGAT
326 TACTTTGTCGATAGCCAAACGACACCATTGCCATACTAAATTTGTCAAACTAGGTTCTGAGAGAT
*
33872333 TGCTTTAGTCCATATAGGGCCTTTTTTAGTTTACATACCTTCCTTTGAGTATCTTTATCCTCGAA
391 TGCTTTAGGCCATATAGGGCCTTTTTTAGTTTACATACCTTCCTTTGAGTATCTTTATCCTCGAA
*
33872398 TCCTAGAGAAACTTTCATATGCACTTCTTCTTCCAGGTCCCCATGTAATAAGGCATTCTTTACAT
456 TCCTAGAGAAACTTTCATATACACTTCTTCTTCCAGGTCCCCATGTAATAAGGCATTCTTTACAT
33872463 CAAATTGTTATAAGTCTCAGTCGAGATTTACTGCACATGATAAAAGGATCCTAATCGTGTTCAAT
521 CAAATTGTTATAAGTCTCAGTCGAGATTTACTGCACATGATAAAAGGATCCTAATCGTGTTCAAT
33872528 TTAGCAACTGGAGCAAATGCTTCTTGATAATCCACTCCATATGTTTGAGTGAATCCTTGCGCTAC
586 TTAGCAACTGGAGCAAATGCTTCTTGATAATCCACTCCATATGTTTGAGTGAATCCTTGCGCTAC
33872593 TAATCTGGCTTTGTGTCTTTCAATTGAACCATCAACCTTATACTTGATAGTAAACACCGATTTGC
651 TAATCTGGCTTTGTGTCTTTCAATTGAACCATCAACCTTATACTTGATAGTAAACACCGATTTGC
33872658 AACCAACCATTTTCTGCCCCTTAGGAGGATTAATCAGTTTACACGTCGCATTTTTTTGCAAAAAC
716 AACCAACCATTTTCTGCCCCTTAGGAGGATTAATCAGTTTACACGTCGCATTTTTTTGCAAAAAC
33872723 CCTCATTTCTTCAATCATAG
781 CCTCATTTCTTCAATCATAG
33872743 CCTTT
1 CCTTT
33872748 TTCCTTCTTA
Statistics
Matches: 794, Mismatches: 8, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
797 550 0.69
798 201 0.25
800 1 0.00
801 42 0.05
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (800 bp):
CCTTTATCCACCATTTTACCAATCTCTACTTGTAACTTGTGATTATACTCTCAATAGGTGATTCT
GTTGGTTTGCAACCTAACATATCAGTCTCTGTCAGAAGATCTAAGACATACTTTCTTTGGGAAAT
AAATATTCCCTCTTTCGATCTGGTCACTTCTATTTAGAGGAAATATTGTAACTTTCCCAAGTGTT
CGATTTCAAATTCCTGAGCCAATTATTTCTTAAGCCAAATCATTTCTTCCCTGTCATAATTACAT
CATCAACATAAACTACGAGAGTTATCTTCCACTTCTGATGTTTTATAAAGAGGGTATGATCAACT
TACTTTGTCGATAGCCAAACGACACCATTGCCATACTAAATTTGTCAAACTAGGTTCTGAGAGAT
TGCTTTAGGCCATATAGGGCCTTTTTTAGTTTACATACCTTCCTTTGAGTATCTTTATCCTCGAA
TCCTAGAGAAACTTTCATATACACTTCTTCTTCCAGGTCCCCATGTAATAAGGCATTCTTTACAT
CAAATTGTTATAAGTCTCAGTCGAGATTTACTGCACATGATAAAAGGATCCTAATCGTGTTCAAT
TTAGCAACTGGAGCAAATGCTTCTTGATAATCCACTCCATATGTTTGAGTGAATCCTTGCGCTAC
TAATCTGGCTTTGTGTCTTTCAATTGAACCATCAACCTTATACTTGATAGTAAACACCGATTTGC
AACCAACCATTTTCTGCCCCTTAGGAGGATTAATCAGTTTACACGTCGCATTTTTTTGCAAAAAC
CCTCATTTCTTCAATCATAG
Found at i:33885005 original size:80 final size:79
Alignment explanation
Indices: 33884779--33885166 Score: 447
Period size: 80 Copynumber: 4.8 Consensus size: 79
33884769 TTTGATGAAT
** * * * *
33884779 ATATGTTGTCAGTTTAACTTACTAGAGTTGGGCTCACAATTGTGGTTTATCCGCTAGGCATTGGG
1 ATAT-TTGTC-GTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGG
33884844 TGTCAAGATTTGACGG
64 TGTCAAGATTTGACGG
* * * * *
33884860 ATATTTGTCGATTAATCGACTAGAGCTGGGCTCACAATTGCGGTTTATCCGCTAGGTATTGGGTG
1 ATATTTGTCGTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGTG
*
33884925 TCAAGATTTGAAGG
66 TCAAGATTTGACGG
* * *
33884939 ATATTTGTCAGTTTAACCGATTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTAGGT
1 ATATTTGTC-GTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGT
* * *
33885004 GTTAGGATTTGACGA
65 GTCAAGATTTGACGG
* * *
33885019 ATATTTGTCGATTTAACCGACTAGAGCTGGGCTCACATTTGCAGTTTATCCGCTAAGCAATGGGT
1 ATATTTGTCG-TTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGT
*
33885084 G-CTAGGATTTGACGG
65 GTC-AAGATTTGACGG
* ** * * *
33885099 ATATTTGTTGGCTAATCCAACTAGAGCTGGGCTCAC-TTTCGCGGTTTAACCGCTAGGCACCGGG
1 ATATTTGTCGTTTAA-CCGACTAGAGCTGGGCTCACATTT-GCGGTTTATCCGCTAGGCACTGGG
33885163 TGTC
64 TGTC
33885167 GTGAATTAAC
Statistics
Matches: 266, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
79 78 0.29
80 183 0.69
81 5 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (79 bp):
ATATTTGTCGTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGTG
TCAAGATTTGACGG
Found at i:33886259 original size:15 final size:15
Alignment explanation
Indices: 33886230--33886308 Score: 59
Period size: 15 Copynumber: 5.0 Consensus size: 15
33886220 ATTTATTTTC
*
33886230 AATATTATTTTTTATA
1 AATA-TATTTGTTATA
33886246 AATATATTTGTTATA
1 AATATATTTGTTATA
* * * * *
33886261 TAATTTTTTTTATTTTC
1 -AA-TATATTTGTTATA
*
33886278 AATATTATTTTTTATA
1 AATA-TATTTGTTATA
33886294 AATATATTTGTTATA
1 AATATATTTGTTATA
33886309 TAATTTTTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
15 21 0.44
16 19 0.40
17 8 0.17
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (15 bp):
AATATATTTGTTATA
Found at i:33886273 original size:48 final size:48
Alignment explanation
Indices: 33886221--33886319 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
33886211 TAAAATCTCA
33886221 TTTATTTTCAATATTATTTTTTATAAATATATTTGTTATATAATTTTT
1 TTTATTTTCAATATTATTTTTTATAAATATATTTGTTATATAATTTTT
33886269 TTTATTTTCAATATTATTTTTTATAAATATATTTGTTATATAATTTTT
1 TTTATTTTCAATATTATTTTTTATAAATATATTTGTTATATAATTTTT
33886317 TTT
1 TTT
33886320 TACCCATATC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (48 bp):
TTTATTTTCAATATTATTTTTTATAAATATATTTGTTATATAATTTTT
Found at i:33892958 original size:20 final size:20
Alignment explanation
Indices: 33892933--33893015 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 20
33892923 TCCACTAAGT
33892933 TTTAATTAATTAAGATTAAA
1 TTTAATTAATTAAGATTAAA
* *
33892953 TTTAATTAAATAAG-GTAAA
1 TTTAATTAATTAAGATTAAA
*
33892972 GTTTAATAAAATTAAGATT-AA
1 -TTTAAT-TAATTAAGATTAAA
*
33892993 TTTACTTTTAATTAAGATATAAA
1 TTTA--ATTAATTAAGAT-TAAA
33893016 GGTTAAAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
19 4 0.08
20 23 0.47
21 17 0.35
22 3 0.06
23 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.42
Consensus pattern (20 bp):
TTTAATTAATTAAGATTAAA
Found at i:33895979 original size:23 final size:23
Alignment explanation
Indices: 33895943--33896029 Score: 79
Period size: 23 Copynumber: 3.7 Consensus size: 23
33895933 CTTACTATTC
33895943 AGCACTGT-GTGTGCTCTCTGTTT
1 AGCAC-GTCGTGTGCTCTCTGTTT
*
33895966 AGCACGTC-TCGTGCTCTCTATTATT
1 AGCACGTCGT-GTGCTCTCT-GT-TT
* *
33895991 AGCACTTCGTGTGCTCTCTGATT
1 AGCACGTCGTGTGCTCTCTGTTT
* *
33896014 AGCACTTTGTGTGCTC
1 AGCACGTCGTGTGCTC
33896030 AGTACTTTGT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
22 3 0.06
23 31 0.57
24 1 0.02
25 18 0.33
26 1 0.02
ACGTcount: A:0.13, C:0.25, G:0.22, T:0.40
Consensus pattern (23 bp):
AGCACGTCGTGTGCTCTCTGTTT
Found at i:33895992 original size:25 final size:26
Alignment explanation
Indices: 33895938--33896014 Score: 76
Period size: 25 Copynumber: 3.1 Consensus size: 26
33895928 GCGCGCTTAC
33895938 TATTCAGCACTGT-GTGTGCTCTCTG--
1 TATT-AGCAC-GTCGTGTGCTCTCTGAT
33895963 T-TTAGCACGTC-TCGTGCTCTCT-AT
1 TATTAGCACGTCGT-GTGCTCTCTGAT
*
33895987 TATTAGCACTTCGTGTGCTCTCTGAT
1 TATTAGCACGTCGTGTGCTCTCTGAT
33896013 TA
1 TA
33896015 GCACTTTGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
22 3 0.07
23 14 0.32
24 3 0.07
25 19 0.43
26 5 0.11
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (26 bp):
TATTAGCACGTCGTGTGCTCTCTGAT
Found at i:33896058 original size:39 final size:39
Alignment explanation
Indices: 33895994--33896068 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
33895984 TATTATTAGC
*
33895994 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
33896033 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
33896069 TCTGTTACCC
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:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:33896107 original size:22 final size:22
Alignment explanation
Indices: 33896043--33896122 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
33896033 ACTTTGTGTA
* * *
33896043 CTCTCTGTTTAGCACTTTGTGTG
1 CTCTCTGTTTAGTAC-TTATATG
*
33896066 CTCTCTGTTACCCAGTACTTATATG
1 CTCTCTGTT---TAGTACTTATATG
** *
33896091 CTCTCTGTTTAGTACTTCGATA
1 CTCTCTGTTTAGTACTTATATG
33896113 CTCTCTGTTT
1 CTCTCTGTTT
33896123 GTTACGTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
22 19 0.41
23 9 0.20
25 14 0.30
26 4 0.09
ACGTcount: A:0.14, C:0.25, G:0.15, T:0.46
Consensus pattern (22 bp):
CTCTCTGTTTAGTACTTATATG
Found at i:33904032 original size:32 final size:31
Alignment explanation
Indices: 33903948--33904039 Score: 123
Period size: 31 Copynumber: 2.9 Consensus size: 31
33903938 AAAAAAATTA
*
33903948 ATAATTGAAGAAACTA-TTTATAATTTTTCAT
1 ATAATT-AAAAAACTATTTTATAATTTTTCAT
33903979 ATAATTAAAAAACTATTTTATAATTTTTCAT
1 ATAATTAAAAAACTATTTTATAATTTTTCAT
**
33904010 ATAATTAAAATGGCTATTTTATATATTTTT
1 ATAATTAAAA-AACTATTTTATA-ATTTTT
33904040 TAAGATCAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
30 8 0.15
31 31 0.56
32 10 0.18
33 6 0.11
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.49
Consensus pattern (31 bp):
ATAATTAAAAAACTATTTTATAATTTTTCAT
Found at i:33904081 original size:30 final size:30
Alignment explanation
Indices: 33904028--33904103 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
33904018 AATGGCTATT
* *
33904028 TTATATATTTTT-TAA-GATCAAAAT-TAAA
1 TTATATATTTTTATAATAATAAAAATAT-AA
33904056 TTATATATTTTTATAATAATAAAAATATAA
1 TTATATATTTTTATAATAATAAAAATATAA
* *
33904086 TTTTATTATTTTAATAAT
1 TTATA-TATTTTTATAAT
33904104 TTAATTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.30
29 3 0.08
30 13 0.32
31 12 0.30
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TTATATATTTTTATAATAATAAAAATATAA
Found at i:33919349 original size:38 final size:39
Alignment explanation
Indices: 33919307--33919388 Score: 130
Period size: 38 Copynumber: 2.1 Consensus size: 39
33919297 GTTATATTCA
* *
33919307 ATAATAAAATATTTATTATATTTAT-TTGTGTTTTTAAT
1 ATAATAAAACATTTATTATATTTATATAGTGTTTTTAAT
33919345 ATAATAAAACATTTATTATATTTATGATAGTGTTTTTAAT
1 ATAATAAAACATTTATTATATTTAT-ATAGTGTTTTTAAT
33919385 ATAA
1 ATAA
33919389 ATATTTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
38 24 0.60
40 16 0.40
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.52
Consensus pattern (39 bp):
ATAATAAAACATTTATTATATTTATATAGTGTTTTTAAT
Found at i:33920679 original size:38 final size:38
Alignment explanation
Indices: 33920637--33920715 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
33920627 CTTAAATGAA
33920637 TTAATCCGTATAGACATTGAAATAATTAATCTATTATT
1 TTAATCCGTATAGACATTGAAATAATTAATCTATTATT
*
33920675 TTAATCTGTATAGACATTGAAATAATTAATCTATTATT
1 TTAATCCGTATAGACATTGAAATAATTAATCTATTATT
33920713 TTA
1 TTA
33920716 TTAAGACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (38 bp):
TTAATCCGTATAGACATTGAAATAATTAATCTATTATT
Found at i:33921735 original size:19 final size:20
Alignment explanation
Indices: 33921694--33921736 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
33921684 CCTCAATTAC
33921694 TATTTTAATCATAAAAATGA
1 TATTTTAATCATAAAAATGA
*
33921714 TATTTTAATTATAAAAAT-A
1 TATTTTAATCATAAAAATGA
33921733 TATT
1 TATT
33921737 AAGATAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
TATTTTAATCATAAAAATGA
Found at i:33929807 original size:19 final size:19
Alignment explanation
Indices: 33929781--33929873 Score: 141
Period size: 19 Copynumber: 4.9 Consensus size: 19
33929771 ATTACTTCAG
33929781 TAGCTCGTAAGAGCGATAC
1 TAGCTCGTAAGAGCGATAC
* *
33929800 TGGCTCGTAAGAGCGATAA
1 TAGCTCGTAAGAGCGATAC
* *
33929819 TGGCTCATAAGAGCGATAC
1 TAGCTCGTAAGAGCGATAC
33929838 TAGCTCGTAAGAGCGATAC
1 TAGCTCGTAAGAGCGATAC
*
33929857 TAGCTTGTAAGAGCGAT
1 TAGCTCGTAAGAGCGAT
33929874 TTACTGGAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (19 bp):
TAGCTCGTAAGAGCGATAC
Found at i:33929927 original size:26 final size:26
Alignment explanation
Indices: 33929898--33929974 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
33929888 AAGATACTAT
*
33929898 ACTGGCTCGTAAGAGAAATATACTGA
1 ACTGGCTCGTAAGAGCAATATACTGA
* *
33929924 ACTGACTCATAAGAGCAATATACTGA
1 ACTGGCTCGTAAGAGCAATATACTGA
* *
33929950 ACTGGCTTGTAAGAGCAATACACTG
1 ACTGGCTCGTAAGAGCAATATACTG
33929975 TATTGGGCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (26 bp):
ACTGGCTCGTAAGAGCAATATACTGA
Found at i:33929992 original size:27 final size:26
Alignment explanation
Indices: 33929898--33929992 Score: 91
Period size: 26 Copynumber: 3.6 Consensus size: 26
33929888 AAGATACTAT
* * *
33929898 ACTGGCTCGTAAGAGAAATATACTGA
1 ACTGGCTTGTAAGAGCAATACACTGA
* ** *
33929924 ACTGACTCATAAGAGCAATATACTGA
1 ACTGGCTTGTAAGAGCAATACACTGA
*
33929950 ACTGGCTTGTAAGAGCAATACACTGT
1 ACTGGCTTGTAAGAGCAATACACTGA
* *
33929976 ATTGGGCTTGTATGAGC
1 ACT-GGCTTGTAAGAGC
33929993 TAAATTACTG
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
26 46 0.79
27 12 0.21
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (26 bp):
ACTGGCTTGTAAGAGCAATACACTGA
Found at i:33932132 original size:19 final size:19
Alignment explanation
Indices: 33932108--33932145 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33932098 CAGTCAGTAA
33932108 ATCGCTATTACGAGCCAGT
1 ATCGCTATTACGAGCCAGT
*
33932127 ATCGCTCTTACGAGCCAGT
1 ATCGCTATTACGAGCCAGT
33932146 TCAATATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (19 bp):
ATCGCTATTACGAGCCAGT
Found at i:33932179 original size:45 final size:45
Alignment explanation
Indices: 33932130--33932290 Score: 189
Period size: 45 Copynumber: 3.6 Consensus size: 45
33932120 AGCCAGTATC
*
33932130 GCTCTTACGAGCCAGTTCAATATATCGTTCCCAGTATAATATATT
1 GCTCTTACGAGCCAGTTCAATATATCGTTCCCAGTACAATATATT
* * * * * * *
33932175 GCTCTTACGATCCAATTTAGTATATTGCTT-CCAGTACAGTGTATT
1 GCTCTTACGAGCCAGTTCAATATATCG-TTCCCAGTACAATATATT
* * *
33932220 GCTCTCACGAGCCAGTTCAATATATCGCTCCTAGTACAATATATT
1 GCTCTTACGAGCCAGTTCAATATATCGTTCCCAGTACAATATATT
* *
33932265 GCTTTTCCGAGCCAGTTCAATATATC
1 GCTCTTACGAGCCAGTTCAATATATC
33932291 CTTTAGAGTC
Statistics
Matches: 93, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
44 1 0.01
45 90 0.97
46 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (45 bp):
GCTCTTACGAGCCAGTTCAATATATCGTTCCCAGTACAATATATT
Found at i:33932289 original size:90 final size:90
Alignment explanation
Indices: 33932125--33932289 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
33932115 TTACGAGCCA
* * * *
33932125 GTATCGCTCTTACGAGCCAGTTCAATATATCGTTCCCAGTATAATATATTGCTCTTACGATCCAA
1 GTATCGCTCTCACGAGCCAGTTCAATATATCGCTCCCAGTACAATATATTGCTCTTACGAGCCAA
* *
33932190 TTTAGTATATTGCTTCCAGTACAGT
66 TTCAATATATTGCTTCCAGTACAGT
* * * * *
33932215 GTATTGCTCTCACGAGCCAGTTCAATATATCGCTCCTAGTACAATATATTGCTTTTCCGAGCCAG
1 GTATCGCTCTCACGAGCCAGTTCAATATATCGCTCCCAGTACAATATATTGCTCTTACGAGCCAA
33932280 TTCAATATAT
66 TTCAATATAT
33932290 CCTTTAGAGT
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (90 bp):
GTATCGCTCTCACGAGCCAGTTCAATATATCGCTCCCAGTACAATATATTGCTCTTACGAGCCAA
TTCAATATATTGCTTCCAGTACAGT
Found at i:33934676 original size:31 final size:31
Alignment explanation
Indices: 33934633--33934695 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 31
33934623 GCTCATTTGT
33934633 AATTTTATAATTTATT-TTAAATAA-TTTTAA
1 AATTTTATAATTT-TTATTAAATAAGTTTTAA
*
33934663 AATTTTAATAATTTTTATTATATAAGTTTTAA
1 AATTTT-ATAATTTTTATTAAATAAGTTTTAA
33934695 A
1 A
33934696 TTGTTCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 8 0.28
31 14 0.48
32 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
AATTTTATAATTTTTATTAAATAAGTTTTAA
Found at i:33936216 original size:3 final size:3
Alignment explanation
Indices: 33936208--33936245 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
33936198 TTGAGGATTA
* *
33936208 TTG TTG TTG TTA TTG TTG TTG TTG TTG TTG TTA TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
33936246 CATCAACTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:33943451 original size:952 final size:945
Alignment explanation
Indices: 33941733--33943608 Score: 2818
Period size: 952 Copynumber: 2.0 Consensus size: 945
33941723 AAAAGGAACT
* * * * * * * *
33941733 TGATATAGGTGCTTTAGTTCAATGGAAAAATTGTGATCTATGAGCAAAGTTTAAAAATGCGACCC
1 TGATATAAGTGCTTTAGTTCAAGGGAAAAACTGTGATCTATGAGAAAAGTTCAAAAACGCAACAC
*
33941798 CATCATAACATAAGCAGATAAAATACCTTTGGATCAAAGGCCATAATAGAAGTAAACATATAACT
66 CATCATAACATAAACAGATAAAATACCTTTGGATCAAAGGCCATAATAGAAGTAAACATATAACT
* *
33941863 CAAATGATCTCTCATTTCTCCCAAGGGAAAAAAGTATTGGTTTAATGGCCATTGTTGGGGTTGAT
131 CAAATGATCTCCCATTTCACCCAAGGGAAAAAAGTATTGGTTTAATGGCCATTGTTGGGGTTGAT
* * * ** *
33941928 GTTGTCATCAAATTGGAACACCATCTCATCGTCGTCCACTTGAGTTTGAGGATTTTTGTTGCAGT
196 GTTGTCACCAAACTGGAACACCATCTCATCGTCCTCCACACGAGTTTGAGAATTTTTGTTGCAGT
* *
33941993 TGTTCATCAACTCCATGATCCATTGTTACCTCTATATTGGATCCATGTTATTCACATCCGATTGC
261 TGTTCATCAACTCCATGATCCATTGTTACCTCTATATTGGATCCATGTTAATCACATCCAATTGC
* * * * *
33942058 ACGTAGTCCTCCATGTTGTCGTCAACATCGCTTTGGGCATTACCATCATCATTGGTAGTAGTACA
326 ACGTAGTCCTCCATCTTGTCCTCAACATCGCTTTGGGCATTACCATCATCATCGGTAGCAGTAAA
* * * * * * *
33942123 CCATGGACGAGGATGATGATGATGATGCCCTTTTAGCATAAAGGGGTTTCATAAGAAATGCATCC
391 CCATGGAAGAGGACGATGATGACGATACCCTTTGAGCATAAAGGGGTTTCATAACAAATGAATCC
* * *
33942188 ATCCTCTTGTTGATATAACTCATTTTTCATCGAGCAACAAGTTGAGATCGTTTAAGTCCCAAAAG
456 ATCCTCTTGTTGATATAACTCATTTTTCATCAAGCAAAAAGTTGAGATCGTTTAAGTACCAAAAG
* * * * * *
33942253 TTCAAACCATGGATGAGCCTTTTACCATAAATGTTATTTAACATGACTTGAGTCATCTTTTTTCT
521 TTCAAACCACGGACGACCCTTTTACCATAAATGTTATTGAACATGACTTGAGTCATCCTTTTTCA
*
33942318 CGATTGTCCTTGCAATACTTCTTGAGCTGTTCTGCTACTTTGATGGTCCTTTGGGAGAGGAAACT
586 CGATAGTCCTTGCAATACTTCTTGAGCTGTTCTGCTACTTTGATGGTCCTTTGGGAGAGGAAACT
* *
33942383 CCCTTGGTTCACCATATTCTTTCTTTTTTTCATCTCAGGGATCATATTGAACTTGGAGAGCACTT
651 CCCTTGGTTCACCATATTCTTTCTTTTTTCCATCCCAGGGATCATATTGAACTTGGAGAGCACTT
** *
33942448 GTTGGACTCCCATGGGAGATGGCCAAACCTCGGGTTGGGATTTATAAGGACTATTAATGATTGGA
716 GTTGGACTCCCATGGGAGATGGCCAAACCTCGACTTGGGATTTAGAAGGACTATTAATGATTGGA
* * *
33942513 CAAGCGTCAATCCCACAAAGGGTACTTAACTCACTCATCTTTTTCATCAAACCCTTCTTTCTTTT
781 CAAGCATCAATCCCACAAAGGGTACTCAACTCACTCATCTTTTTCATCAAACCCTTCTTACTTTT
* * *
33942578 CTTTTAGGTGGCTTTCCTTGCTGAATCATTGGTGATATAAGCAAGCTTAACCTTCTTCCTTTTCA
846 CTTATAGGTGGCTTTCCTTGCTAAACCATTGGTGATATAAGCAAGCTTAACCTTCTTCCTTTTCA
33942643 TGGCTTGCAAATCATTGGTGATAAAAAGAGAAATA
911 TGGCTTGCAAATCATTGGTGATAAAAAGAGAAATA
* * *
33942678 TGATATAAGTGCTTTAGTTCAAGGGAAAAGACTGTGATTTGTGAGAAAAGTTCAGAAACGCAACA
1 TGATATAAGTGCTTTAGTTCAAGGGAAAA-ACTGTGATCTATGAGAAAAGTTCAAAAACGCAACA
* * * *
33942743 TCATCATAACATAAACTGATGAAATACCTTTGGATCAAAGGGCATAATAGAAGTAAACATATAAC
65 CCATCATAACATAAACAGATAAAATACCTTTGGATCAAAGGCCATAATAGAAGTAAACATATAAC
33942808 TCAAATGATCTCCCATTTCACCCAA-GGAAAAAAGTATTGGTTTAATGGCCATTGTTGGGGTTGA
130 TCAAATGATCTCCCATTTCACCCAAGGGAAAAAAGTATTGGTTTAATGGCCATTGTTGGGGTTGA
* *
33942872 TGTTGTCACCAAACTGGAACATCATCTCATTG-CCTCCCACACGAGTTTGAGAATTGTTGTTGTT
195 TGTTGTCACCAAACTGGAACACCATCTCATCGTCCT-CCACACGAGTTTGAGAA-T-TT-TTGTT
* * * * *
33942936 GTTA-TTTTTCATCAACTCCATGATCCGTTGTTTCCTCT-TCATTGGATTCATGTTAATCACATC
256 G-CAGTTGTTCATCAACTCCATGATCCATTGTTACCTCTAT-ATTGGATCCATGTTAATCACATC
* ** *
33942999 CAATTGCACG-ATGTCCTTCATACTTGTCCTCGTCATCGCTTTGGGCATTACCATCATCGTCGGT
319 CAATTGCACGTA-GTCCTCCAT-CTTGTCCTCAACATCGCTTTGGGCATTACCATCATCATCGGT
*
33943063 TGCAGTGAAACCATGGAAGAGGACGATGATGACGATACCCTTTGAGCATAAAGGGGTTTCATAAC
382 AGCAGT-AAACCATGGAAGAGGACGATGATGACGATACCCTTTGAGCATAAAGGGGTTTCATAAC
* *
33943128 AAATGAATCCATCCTCTTGTCT-ATATTACTCATTTTTTCATCAAGCAAAAAGTTGAGATCTTTT
446 AAATGAATCCATCCTCTTGT-TGATATAACTCA-TTTTTCATCAAGCAAAAAGTTGAGATCGTTT
*
33943192 AAGTACCAAAAGTTCAAACCACGGACGACCCTTTTACCATAAATGTTATTGAGCATGACTTGAGT
509 AAGTACCAAAAGTTCAAACCACGGACGACCCTTTTACCATAAATGTTATTGAACATGACTTGAGT
*
33943257 CATCCCTTTTTCAC-AGTAGTCCTTGCAATTCTTCTTGATG-TGTT-TCGCTACTTTGATGGTCC
574 CAT-CCTTTTTCACGA-TAGTCCTTGCAATACTTCTTGA-GCTGTTCT-GCTACTTTGATGGTCC
* * *
33943319 TTTGGGAGAGGAAACTCTCTTGGTTCACCATATTCTTT-TTTTGTTCCATCCCAGGGATTATCTT
635 TTTGGGAGAGGAAACTCCCTTGGTTCACCATATTCTTTCTTTT-TTCCATCCCAGGGATCATATT
*
33943383 GAACTTGGAGAGCACTTGTTGGACTCCCATGGGGGATGGCCAAACCTCGACTTGGGATTTAGAAG
699 GAACTTGGAGAGCACTTGTTGGACTCCCATGGGAGATGGCCAAACCTCGACTTGGGATTTAGAAG
33943448 GACTATTAATGATTGGACAAGCATCAATCCCACAAAGGGTACTCAACTCACTCATCTTTTTCATC
764 GACTATTAATGATTGGACAAGCATCAATCCCACAAAGGGTACTCAACTCACTCATCTTTTTCATC
33943513 AAACCCTTCTTACTTTTCTTATAGGTGGCTTTCCTTGCTAAACCATTGGTGATATAAGCAAGCTT
829 AAACCCTTCTTACTTTTCTTATAGGTGGCTTTCCTTGCTAAACCATTGGTGATATAAGCAAGCTT
33943578 AACCTTCTTCCTTTTCATGGCTTGCAAATCA
894 AACCTTCTTCCTTTTCATGGCTTGCAAATCA
33943609 AAAAGGGATA
Statistics
Matches: 835, Mismatches: 79, Indels: 27
0.89 0.08 0.03
Matches are distributed among these distances:
944 2 0.00
945 108 0.13
946 110 0.13
947 4 0.00
948 75 0.09
949 41 0.05
950 79 0.09
951 97 0.12
952 318 0.38
953 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (945 bp):
TGATATAAGTGCTTTAGTTCAAGGGAAAAACTGTGATCTATGAGAAAAGTTCAAAAACGCAACAC
CATCATAACATAAACAGATAAAATACCTTTGGATCAAAGGCCATAATAGAAGTAAACATATAACT
CAAATGATCTCCCATTTCACCCAAGGGAAAAAAGTATTGGTTTAATGGCCATTGTTGGGGTTGAT
GTTGTCACCAAACTGGAACACCATCTCATCGTCCTCCACACGAGTTTGAGAATTTTTGTTGCAGT
TGTTCATCAACTCCATGATCCATTGTTACCTCTATATTGGATCCATGTTAATCACATCCAATTGC
ACGTAGTCCTCCATCTTGTCCTCAACATCGCTTTGGGCATTACCATCATCATCGGTAGCAGTAAA
CCATGGAAGAGGACGATGATGACGATACCCTTTGAGCATAAAGGGGTTTCATAACAAATGAATCC
ATCCTCTTGTTGATATAACTCATTTTTCATCAAGCAAAAAGTTGAGATCGTTTAAGTACCAAAAG
TTCAAACCACGGACGACCCTTTTACCATAAATGTTATTGAACATGACTTGAGTCATCCTTTTTCA
CGATAGTCCTTGCAATACTTCTTGAGCTGTTCTGCTACTTTGATGGTCCTTTGGGAGAGGAAACT
CCCTTGGTTCACCATATTCTTTCTTTTTTCCATCCCAGGGATCATATTGAACTTGGAGAGCACTT
GTTGGACTCCCATGGGAGATGGCCAAACCTCGACTTGGGATTTAGAAGGACTATTAATGATTGGA
CAAGCATCAATCCCACAAAGGGTACTCAACTCACTCATCTTTTTCATCAAACCCTTCTTACTTTT
CTTATAGGTGGCTTTCCTTGCTAAACCATTGGTGATATAAGCAAGCTTAACCTTCTTCCTTTTCA
TGGCTTGCAAATCATTGGTGATAAAAAGAGAAATA
Found at i:33952029 original size:29 final size:29
Alignment explanation
Indices: 33951989--33952248 Score: 210
Period size: 30 Copynumber: 8.8 Consensus size: 29
33951979 GTTCGAGGTT
*
33951989 AAAATGTAATTTTGGAAAGTTTAGGGGCA
1 AAAATGTAATTTTGGAAAGTTTAGGGGTA
*
33952018 AAAATGTCATTTTGGGAAAGTTT-GGGG-A
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTA
*
33952046 AAAATGTGACTTTT-GAGAAGTTT-GAGGGTA
1 AAAATGT-AATTTTGGA-AAGTTTAG-GGGTA
**
33952076 AAAATGTAATTTTTTAGAAGTTTAGGGGTA
1 AAAATGTAATTTTGGA-AAGTTTAGGGGTA
* * **
33952106 AAAATGTAATCTTGGAGAAG-TTCGGGGGC
1 AAAATGTAATTTTGGA-AAGTTTAGGGGTA
*
33952135 AAAATGTAATCTTT-GAGAAGTTTAGTGGTA
1 AAAATGTAAT-TTTGGA-AAGTTTAGGGGTA
** * *
33952165 AAAATGTAATTTTAAAAAAGTTCAGGGGTT
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTA
* *
33952195 AAAATGTAATTTGGGAAAAGTTTGGGGGTTA
1 AAAATGTAATTTTGG-AAAGTTTAGGGG-TA
*
33952226 AAATATG-ATTTTTGGAAAGTTTA
1 AAA-ATGTAATTTTGGAAAGTTTA
33952249 AGGACCTTCT
Statistics
Matches: 188, Mismatches: 29, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
27 2 0.01
28 15 0.08
29 53 0.28
30 103 0.55
31 12 0.06
32 3 0.02
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAGTTTAGGGGTA
Found at i:33952155 original size:59 final size:58
Alignment explanation
Indices: 33951989--33952174 Score: 191
Period size: 59 Copynumber: 3.2 Consensus size: 58
33951979 GTTCGAGGTT
* * * *
33951989 AAAATGTAATTTTGGA-AAGTTTAGGGGCAAAAATGTCATTTTGGGAAAGTTT-GGGG-A
1 AAAATGTAATCTTGGAGAAGTTTGGGGGC-AAAATGTAATTTTGAG-AAGTTTAGGGGTA
* * ** *
33952046 AAAATGTGA-CTTTTGAGAAGTTTGAGGGTAAAAATGTAATTTTTTAGAAGTTTAGGGGTA
1 AAAATGTAATC-TTGGAGAAGTTTG-GGGGCAAAATGTAA-TTTTGAGAAGTTTAGGGGTA
* *
33952106 AAAATGTAATCTTGGAGAAGTTCGGGGGCAAAATGTAATCTTTGAGAAGTTTAGTGGTA
1 AAAATGTAATCTTGGAGAAGTTTGGGGGCAAAATGTAAT-TTTGAGAAGTTTAGGGGTA
33952165 AAAATGTAAT
1 AAAATGTAAT
33952175 TTTAAAAAAG
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
57 12 0.11
58 21 0.20
59 51 0.49
60 20 0.19
61 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (58 bp):
AAAATGTAATCTTGGAGAAGTTTGGGGGCAAAATGTAATTTTGAGAAGTTTAGGGGTA
Found at i:33952165 original size:89 final size:86
Alignment explanation
Indices: 33951989--33952222 Score: 249
Period size: 89 Copynumber: 2.6 Consensus size: 86
33951979 GTTCGAGGTT
** * * *
33951989 AAAATGTAATTTTGGAAAGTTTAGGGGCAAAAATGTCATTTTGG-GAAAGTTTGGGGAAAAATGT
1 AAAATGTAATTTTAAAAAGTTTAGGGGTAAAAATGT-AATTTGGAG-AAGTTGGGGGAAAAATGT
*
33952053 GACTTTTGAGAAGTTTGAGGGTA
64 AACTTTTGAGAAGTTTGAGGGTA
* * *
33952076 AAAATGTAATTTTTTAGAAGTTTAGGGGTAAAAATGTAATCTTGGAGAAGTTCGGGGGCAAAATG
1 AAAATGTAA-TTTTAAAAAGTTTAGGGGTAAAAATGTAAT-TTGGAGAAGTT-GGGGGAAAAATG
33952141 TAA-TCTTTGAGAAGTTT-AGTGGTA
63 TAACT-TTTGAGAAGTTTGAG-GGTA
* * *
33952165 AAAATGTAATTTTAAAAAAGTTCAGGGGTTAAAATGTAATTTGGGAAAAGTTTGGGGG
1 AAAATGTAATTTT-AAAAAGTTTAGGGGTAAAAATGTAATTT-GGAGAAG-TTGGGGG
33952223 TTAAAATATG
Statistics
Matches: 125, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
87 11 0.09
88 41 0.33
89 71 0.57
90 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.32
Consensus pattern (86 bp):
AAAATGTAATTTTAAAAAGTTTAGGGGTAAAAATGTAATTTGGAGAAGTTGGGGGAAAAATGTAA
CTTTTGAGAAGTTTGAGGGTA
Found at i:33952186 original size:59 final size:60
Alignment explanation
Indices: 33952076--33952204 Score: 170
Period size: 59 Copynumber: 2.2 Consensus size: 60
33952066 TTTGAGGGTA
* * ** *
33952076 AAAATGTAATTTTTTAGAAGTTTAGGGGTAAAAATGTAATCTTGGAGAAGTTC-GGGGGC
1 AAAATGTAATCTTTGAGAAGTTTAGGGGTAAAAATGTAATCTTAAAAAAGTTCAGGGGGC
* * **
33952135 AAAATGTAATCTTTGAGAAGTTTAGTGGTAAAAATGTAATTTTAAAAAAGTTCAGGGGTT
1 AAAATGTAATCTTTGAGAAGTTTAGGGGTAAAAATGTAATCTTAAAAAAGTTCAGGGGGC
33952195 AAAATGTAAT
1 AAAATGTAAT
33952205 TTGGGAAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 46 0.77
60 14 0.23
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (60 bp):
AAAATGTAATCTTTGAGAAGTTTAGGGGTAAAAATGTAATCTTAAAAAAGTTCAGGGGGC
Found at i:33953907 original size:23 final size:23
Alignment explanation
Indices: 33953861--33953908 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
33953851 AAAATTTGGA
**
33953861 TTTTGGATTTGGACTTTCGGAAT
1 TTTTGGATTTGGACTTTCAAAAT
* *
33953884 TTTTGTATTTGGACTTTTAAAAT
1 TTTTGGATTTGGACTTTCAAAAT
33953907 TT
1 TT
33953909 AAATTTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.19, T:0.54
Consensus pattern (23 bp):
TTTTGGATTTGGACTTTCAAAAT
Found at i:33953944 original size:34 final size:32
Alignment explanation
Indices: 33953904--33953986 Score: 121
Period size: 34 Copynumber: 2.5 Consensus size: 32
33953894 GGACTTTTAA
33953904 AATTTAAATTTAAAATAAATTCAAACTCAAAAT
1 AATTTAAATTTAAAATAAATTCAAACT-AAAAT
* *
33953937 AAGTTTAAATTTAAAATAAATTTAAACTTAAAT
1 AA-TTTAAATTTAAAATAAATTCAAACTAAAAT
33953970 AATTTAAATTTTAAAAT
1 AATTTAAA-TTTAAAAT
33953987 TTAAAATTGG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 6 0.13
33 16 0.35
34 24 0.52
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (32 bp):
AATTTAAATTTAAAATAAATTCAAACTAAAAT
Found at i:33953986 original size:17 final size:17
Alignment explanation
Indices: 33953903--33953986 Score: 100
Period size: 17 Copynumber: 5.0 Consensus size: 17
33953893 TGGACTTTTA
33953903 AAATTTAAATTTAAAAT
1 AAATTTAAATTTAAAAT
* * *
33953920 AAATTCAAACTCAAAAT
1 AAATTTAAATTTAAAAT
*
33953937 AAGTTTAAATTTAAAAT
1 AAATTTAAATTTAAAAT
*
33953954 AAATTTAAACTT-AAAT
1 AAATTTAAATTTAAAAT
33953970 -AATTTAAATTTTAAAAT
1 AAATTTAAA-TTTAAAAT
33953987 TTAAAATTGG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
15 8 0.15
16 6 0.11
17 41 0.75
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (17 bp):
AAATTTAAATTTAAAAT
Found at i:33956579 original size:6 final size:6
Alignment explanation
Indices: 33956563--33956657 Score: 73
Period size: 6 Copynumber: 17.0 Consensus size: 6
33956553 TTTTGTTTAT
* * * *
33956563 TTTAAA ATTAAT TTTAAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAG
1 TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
33956609 TTTAAA TTT--A TTTAAA TTT--A TTCTAAA TTTAAA TTT-AA -TTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA
33956652 TTTAAA
1 TTTAAA
33956658 ATGATATTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
4 13 0.18
5 9 0.13
6 41 0.58
7 8 0.11
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:33956590 original size:17 final size:16
Alignment explanation
Indices: 33956579--33956657 Score: 87
Period size: 16 Copynumber: 5.2 Consensus size: 16
33956569 ATTAATTTTA
33956579 AAATTTATTTAAATTT
1 AAATTTATTTAAATTT
*
33956595 AAATTTATTTTAAGTTT
1 AAATTTA-TTTAAATTT
33956612 AAATTTATTTAAATTT
1 AAATTTATTTAAATTT
*
33956628 --A--T-TCTAAATTT
1 AAATTTATTTAAATTT
*
33956639 AAATTTAATTAAATTT
1 AAATTTATTTAAATTT
33956655 AAA
1 AAA
33956658 ATGATATTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
11 8 0.15
12 1 0.02
13 1 0.02
14 1 0.02
15 1 0.02
16 25 0.48
17 15 0.29
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (16 bp):
AAATTTATTTAAATTT
Found at i:33956591 original size:11 final size:12
Alignment explanation
Indices: 33956558--33956588 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33956548 TTGGATTTTG
33956558 TTTATTTTAAAA
1 TTTATTTTAAAA
*
33956570 TTAATTTTAAAA
1 TTTATTTTAAAA
33956582 TTTATTT
1 TTTATTT
33956589 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTATTTTAAAA
Found at i:33956594 original size:10 final size:10
Alignment explanation
Indices: 33956579--33956639 Score: 61
Period size: 10 Copynumber: 5.7 Consensus size: 10
33956569 ATTAATTTTA
33956579 AAATTTATTT
1 AAATTTATTT
33956589 AAATTTAAATTT
1 AAATTT--ATTT
*
33956601 -ATTTTAAGTTT
1 AAATTT-A-TTT
33956612 AAATTTATTT
1 AAATTTATTT
33956622 AAATTTATTCT
1 AAATTTATT-T
33956633 AAATTTA
1 AAATTTA
33956640 AATTTAATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
10 20 0.45
11 16 0.36
12 8 0.18
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (10 bp):
AAATTTATTT
Found at i:33956606 original size:11 final size:11
Alignment explanation
Indices: 33956558--33956639 Score: 62
Period size: 11 Copynumber: 7.4 Consensus size: 11
33956548 TTGGATTTTG
33956558 TTTATTTTAAAA
1 TTTATTTT-AAA
*
33956570 TTAATTTTAAAA
1 TTTATTTT-AAA
33956582 TTTA-TTTAAA
1 TTTATTTTAAA
* *
33956592 TTTAAATTT-AT
1 TTT-ATTTTAAA
*
33956603 TTTAAGTTTAAA
1 TTT-ATTTTAAA
33956615 TTTA-TTTAAA
1 TTTATTTTAAA
*
33956625 TTTATTCTAAA
1 TTTATTTTAAA
33956636 TTTA
1 TTTA
33956640 AATTTAATTA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
10 16 0.27
11 23 0.38
12 21 0.35
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (11 bp):
TTTATTTTAAA
Found at i:33956621 original size:27 final size:27
Alignment explanation
Indices: 33956591--33956655 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
33956581 ATTTATTTAA
* *
33956591 ATTTAAATTTATTTTAAGTTTAAATTT
1 ATTTAAATTTATTCTAAATTTAAATTT
33956618 ATTTAAATTTATTCTAAATTTAAATTT
1 ATTTAAATTTATTCTAAATTTAAATTT
*
33956645 AATTAAATTTA
1 ATTTAAATTTA
33956656 AAATGATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTTAAATTTATTCTAAATTTAAATTT
Found at i:33956655 original size:33 final size:32
Alignment explanation
Indices: 33956579--33956657 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 32
33956569 ATTAATTTTA
* *
33956579 AAATTTATTTAAATTTAAATTTATTTTAAGTTT
1 AAATTTA-TTAAATTTAAATTTATTCTAAATTT
33956612 AAA--T-TT--ATTTAAATTTATTCTAAATTT
1 AAATTTATTAAATTTAAATTTATTCTAAATTT
33956639 AAATTTAATTAAATTTAAA
1 AAATTT-ATTAAATTTAAA
33956658 ATGATATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
27 22 0.58
29 3 0.08
31 3 0.08
33 10 0.26
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (32 bp):
AAATTTATTAAATTTAAATTTATTCTAAATTT
Found at i:33956659 original size:17 final size:17
Alignment explanation
Indices: 33956568--33956659 Score: 60
Period size: 17 Copynumber: 4.9 Consensus size: 17
33956558 TTTATTTTAA
*
33956568 AATTAATTTTAAAATTT
1 AATTAAATTTAAAATTT
*
33956585 ATTTAAATTTAAATTTATTTT
1 AATTAAATTTAAA---A-TTT
33956606 AAGTTTAAATTTATTTAAATTT
1 AA--TTAAATTTA---AAATTT
*
33956628 ATTCTAAATTT-AAATTT
1 AAT-TAAATTTAAAATTT
33956645 AATTAAATTTAAAAT
1 AATTAAATTTAAAAT
33956660 GATATTAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 22
0.69 0.06 0.26
Matches are distributed among these distances:
16 7 0.12
17 23 0.39
20 2 0.03
21 11 0.19
22 4 0.07
23 10 0.17
26 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
AATTAAATTTAAAATTT
Found at i:33956666 original size:17 final size:16
Alignment explanation
Indices: 33956632--33956682 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
33956622 AAATTTATTC
* *
33956632 TAAATTTAAATTTAAT
1 TAAATTTAAAATGAAT
33956648 TAAATTTAAAATGATAT
1 TAAATTTAAAATGA-AT
*
33956665 TAAAATT--AATGAAT
1 TAAATTTAAAATGAAT
33956679 TAAA
1 TAAA
33956683 GGTCCAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 6 0.19
15 5 0.16
16 12 0.39
17 8 0.26
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (16 bp):
TAAATTTAAAATGAAT
Found at i:33957529 original size:19 final size:22
Alignment explanation
Indices: 33957479--33957537 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
33957469 TAATAAATGC
*
33957479 AATACTAAT-AATAAATATTAAT
1 AATAATAATAAATAAATATT-AT
33957501 AATAATAATAAATAAATATT-T
1 AATAATAATAAATAAATATTAT
33957522 AATAAATAAT-AATAAA
1 AAT-AATAATAAATAAA
33957538 AAAGGGAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 10 0.29
22 14 0.41
23 10 0.29
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AATAATAATAAATAAATATTAT
Found at i:33958459 original size:162 final size:162
Alignment explanation
Indices: 33958258--33958591 Score: 517
Period size: 162 Copynumber: 2.1 Consensus size: 162
33958248 ATTAGTTTTC
*
33958258 AAATTAATCCTTTAACTGTTTGACTGCTCCAGAGGCTGCCACGTGTCA-TTTTTGGGCTTATTTA
1 AAATTAATCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTT-GGCTTATTTA
* *
33958322 TTCATTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAGTT
65 TGCATTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATT
* * * *
33958387 AAAAAATTGGTCGAAGAATTTTTCAAGGTTTAT
130 AAAAAATTGGCCCAAGAATTTTCCAAGATTTAT
* * *
33958420 AAATTAGTCCTTTGACTGTTTGACTGCACCAGGGGCTGCCACGTGTCACTTTTTGGCTTATTTAT
1 AAATTAATCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTAT
*
33958485 GCATTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTA
66 GCATTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTA
** *
33958550 CGAAATTGGCCCAAGAATTTTCCAAGATTTAC
131 AAAAATTGGCCCAAGAATTTTCCAAGATTTAT
*
33958582 AATTTAATCC
1 AAATTAATCC
33958592 CTTGACAGCT
Statistics
Matches: 155, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
162 150 0.97
163 5 0.03
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (162 bp):
AAATTAATCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTAT
GCATTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTA
AAAAATTGGCCCAAGAATTTTCCAAGATTTAT
Found at i:33958771 original size:59 final size:58
Alignment explanation
Indices: 33958701--33959182 Score: 528
Period size: 59 Copynumber: 8.2 Consensus size: 58
33958691 AAAATTTCAA
** * * * *
33958701 AAAATTACCATTTTACCTTTGGACCTTCTAAAATTCCATTTTTAACCTCGATTTTATCG
1 AAAATTACCATTTTACCCCTGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCA-CC
* * * *
33958760 AAAATTACCATTTTACCCCTGAACTTTCTAAAATACCATTTTTAACCCCGGTTTCACTG
1 AAAATTACCATTTTACCCCTGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCAC-C
* *
33958819 AAAATTACCATTTTA-CCCTCGAACCTTCTAAAATTTCATTTTTAACCCCGGTTTCACCC
1 AAAATTACCATTTTACCCCT-GAACCTTCTAAAATTCCATTTTTAACCCCGATTTCA-CC
* * *
33958878 AAAATTACCATTTTACCCCT-AAACTTCTAAAATTCCATTTTTTACCCCAATTTCACC
1 AAAATTACCATTTTACCCCTGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* * * *
33958935 AAAATTTATCATTTTA-CCCTCGAACTTTC-AAAATTCCATTTTTAACCCTGATTTTACC
1 AAAA-TTACCATTTTACCCCT-GAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* * * * *
33958993 AAAAATTATCGTTTTA-CCCTCGAA-CTTCCAAACTTCCATTTTTAACCCCAATTTCACC
1 -AAAATTACCATTTTACCCCT-GAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* * * * *
33959051 GAAGATTACCATTTTACCCCCGAACTTTCTAAAATACCATTTTTAACCCCGATTTCACTA
1 -AAAATTACCATTTTACCCCTGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCAC-C
* * *
33959111 AAAATTACCATTTTACCCCTGAA-CTCTCAAAAATTCTATTTTTAACCCCGACTTCACC
1 AAAATTACCATTTTACCCCTGAACCT-TCTAAAATTCCATTTTTAACCCCGATTTCACC
33959169 AAAATTACCATTTT
1 AAAATTACCATTTT
33959183 GCCCTCGGGT
Statistics
Matches: 361, Mismatches: 49, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
57 13 0.04
58 143 0.40
59 200 0.55
60 5 0.01
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:33958852 original size:29 final size:29
Alignment explanation
Indices: 33958701--33959189 Score: 137
Period size: 29 Copynumber: 16.7 Consensus size: 29
33958691 AAAATTTCAA
* * * *
33958701 AAAATTACCATTTTACCTTTGGACCTTCT
1 AAAATTACCATTTTACCCTCGAACTTTCT
* ** *
33958730 AAAATT-CCATTTTTAACCTCGATTTTATCG
1 AAAATTACCA-TTTTACCCTCGAACTT-TCT
33958760 AAAATTACCATTTTACCC-CTGAACTTTCT
1 AAAATTACCATTTTACCCTC-GAACTTTCT
*
33958789 AAAA-TACCATTTTTAACCC-CG--GTTTCACT
1 AAAATTACCA-TTTT-ACCCTCGAACTTT--CT
*
33958818 GAAAATTACCATTTTACCCTCGAACCTTCT
1 -AAAATTACCATTTTACCCTCGAACTTTCT
* * *
33958848 AAAATT-TCATTTTTAACCC-CG--GTTTCACCC
1 AAAATTACCA-TTTT-ACCCTCGAACTTT---CT
*
33958878 AAAATTACCATTTTACCC-CTAAAC-TTCT
1 AAAATTACCATTTTACCCTC-GAACTTTCT
*
33958906 AAAATT-CCATTTTTTACCC-C-AA-TTTCACC
1 AAAATTACCA--TTTTACCCTCGAACTTT--CT
*
33958935 AAAATTTATCATTTTACCCTCGAACTTTC-
1 AAAA-TTACCATTTTACCCTCGAACTTTCT
* *
33958964 AAAATT-CCATTTTTAACCCT-G-ATTTTACCA
1 AAAATTACCA-TTTT-ACCCTCGAACTTT--CT
* * *
33958994 AAAATTATCGTTTTACCCTCGAAC-TTCC
1 AAAATTACCATTTTACCCTCGAACTTTCT
*
33959022 AAACTT-CCATTTTTAACCC-C-AA-TTTC-
1 AAAATTACCA-TTTT-ACCCTCGAACTTTCT
*
33959048 ACCGAAGATTACCATTTTACCCCCGAACTTTCT
1 A---AA-ATTACCATTTTACCCTCGAACTTTCT
33959081 AAAA-TACCATTTTTAACCC-CG-A-TTTCACT
1 AAAATTACCA-TTTT-ACCCTCGAACTTT--CT
* *
33959110 AAAAATTACCATTTTACCC-CTGAACTCTCA
1 -AAAATTACCATTTTACCCTC-GAACTTTCT
* * *
33959140 AAAATT-CTATTTTTAACCC-CG-ACTTCACC
1 AAAATTACCA-TTTT-ACCCTCGAACTT-TCT
*
33959169 AAAATTACCATTTTGCCCTCG
1 AAAATTACCATTTTACCCTCG
33959190 GGTGTCCAAA
Statistics
Matches: 351, Mismatches: 43, Indels: 132
0.67 0.08 0.25
Matches are distributed among these distances:
26 1 0.00
27 27 0.08
28 49 0.14
29 135 0.38
30 98 0.28
31 29 0.08
32 11 0.03
33 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGAACTTTCT
Found at i:33959176 original size:117 final size:116
Alignment explanation
Indices: 33958693--33959189 Score: 604
Period size: 117 Copynumber: 4.3 Consensus size: 116
33958683 TTGACCCCAA
* * * * * *
33958693 AATTTCA-AAAAATTACCATTTTACCTTTGGACCTTCTAAAATTCCATTTTTAACCTCGATTTTA
1 AATTTCACCAAAATTACCATTTTACCCTCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCA
* * *
33958757 TCGAAAATTACCATTTTACCCCTGAACTTTCTAAAATACCATTTTTAACCCC
66 CCAAAAATTACCATTTTACCCCTGAAC-TTCTAAAATTCCATTTTTAACCCC
** * * *
33958809 GGTTTCACTGAAAATTACCATTTTACCCTCGAACCTTCTAAAATTTCATTTTTAACCCCGGTTTC
1 AATTTCAC-CAAAATTACCATTTTACCCTCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTC
* * *
33958874 ACCCAAAATTACCATTTTACCCCTAAACTTCTAAAATTCCATTTTTTACCCC
65 ACCAAAAATTACCATTTTACCCCTGAACTTCTAAAATTCCATTTTTAACCCC
* * * *
33958926 AATTTCACCAAAATTTATCATTTTACCCTCGAACTTTC-AAAATTCCATTTTTAACCCTGATTTT
1 AATTTCACCAAAA-TTACCATTTTACCCTCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTC
* * * *
33958990 ACCAAAAATTATCGTTTTA-CCCTCGAACTTCCAAACTTCCATTTTTAACCCC
65 ACCAAAAATTACCATTTTACCCCT-GAACTTCTAAAATTCCATTTTTAACCCC
* * * *
33959042 AATTTCACCGAAGATTACCATTTTACCCCCGAACTTTCTAAAATACCATTTTTAACCCCGATTTC
1 AATTTCACC-AAAATTACCATTTTACCCTCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTC
* * *
33959107 ACTAAAAATTACCATTTTACCCCTGAACTCTCAAAAATTCTATTTTTAACCCC
65 ACCAAAAATTACCATTTTACCCCTGAACT-TCTAAAATTCCATTTTTAACCCC
* * *
33959160 GACTTCACCAAAATTACCATTTTGCCCTCG
1 AATTTCACCAAAATTACCATTTTACCCTCG
33959190 GGTGTCCAAA
Statistics
Matches: 325, Mismatches: 48, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
115 4 0.01
116 102 0.31
117 115 0.35
118 104 0.32
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (116 bp):
AATTTCACCAAAATTACCATTTTACCCTCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCA
CCAAAAATTACCATTTTACCCCTGAACTTCTAAAATTCCATTTTTAACCCC
Done.