Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold487
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: 574485
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 3 of 4
Found at i:276556 original size:20 final size:20
Alignment explanation
Indices: 276529--276583 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
276519 CTACCAGTTT
*
276529 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAA
** * *
276549 TGTGTATCAATACCA-TGAA
1 CATGTATCGATACAATTGAA
276568 CATGTATCGATACAAT
1 CATGTATCGATACAAT
276584 GTATCGATAC
Statistics
Matches: 25, Mismatches: 9, Indels: 2
0.69 0.25 0.06
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:276587 original size:13 final size:13
Alignment explanation
Indices: 276569--276595 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
276559 TACCATGAAC
276569 ATGTATCGATACA
1 ATGTATCGATACA
276582 ATGTATCGATACA
1 ATGTATCGATACA
276595 A
1 A
276596 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:279115 original size:13 final size:13
Alignment explanation
Indices: 279106--279131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
279096 ATTGATATAG
279106 TGTATCGATACAA
1 TGTATCGATACAA
279119 TGTATCGATACAA
1 TGTATCGATACAA
279132 AGATCCTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:283359 original size:21 final size:21
Alignment explanation
Indices: 283335--283393 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
283325 ATTCTAATGC
283335 TAATTCTTCAAAAGTATCTTG
1 TAATTCTTCAAAAGTATCTTG
283356 TAATTCTTCAAAAGTATCTTG
1 TAATTCTTCAAAAGTATCTTG
*
283377 TAATTCTTCAAAGGTAT
1 TAATTCTTCAAAAGTAT
283394 AAGAATTTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (21 bp):
TAATTCTTCAAAAGTATCTTG
Found at i:285360 original size:13 final size:13
Alignment explanation
Indices: 285342--285372 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
285332 ACTTTTCACT
*
285342 ATGTATCGATATA
1 ATGTATCGATACA
285355 ATGTATCGATACA
1 ATGTATCGATACA
285368 ATGTA
1 ATGTA
285373 CCATGTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:286010 original size:20 final size:21
Alignment explanation
Indices: 285987--286025 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
285977 GATGCATTCA
285987 CTTA-TGTATCGATACTGAGG
1 CTTATTGTATCGATACTGAGG
*
286007 CTTATTGTATTGATACTGA
1 CTTATTGTATCGATACTGA
286026 ACTATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (21 bp):
CTTATTGTATCGATACTGAGG
Found at i:290720 original size:34 final size:34
Alignment explanation
Indices: 290674--290891 Score: 282
Period size: 34 Copynumber: 6.5 Consensus size: 34
290664 GTAAAAACCA
*
290674 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
290708 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
290742 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
290776 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
290809 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
290843 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
290876 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
290892 TCTCCCACTT
Statistics
Matches: 162, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
33 45 0.28
34 115 0.71
35 2 0.01
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:290788 original size:68 final size:67
Alignment explanation
Indices: 290672--290891 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
290662 TGGTAAAAAC
* * *
290672 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
290737 AT
66 AT
* * *
290739 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
290804 AAT
65 AAT
* * * * * *
290807 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
290872 AT
66 AT
290874 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
290892 TCTCCCACTT
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:294984 original size:19 final size:19
Alignment explanation
Indices: 294957--295019 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
294947 TCACGTGTAC
* *
294957 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACGTGAAT
294976 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
**
294995 AGTACCTATATACGTGAAT
1 AGTACCCGTATACGTGAAT
295014 AGTACC
1 AGTACC
295020 TCGACAACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:295370 original size:34 final size:34
Alignment explanation
Indices: 295324--295539 Score: 278
Period size: 34 Copynumber: 6.4 Consensus size: 34
295314 GTAAAAACCA
*
295324 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
295358 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
295392 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
295426 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
295459 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
295493 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
295526 CCATTTAATCAACA
1 CCATTTAATCAACA
295540 GAAACATGGT
Statistics
Matches: 160, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
33 43 0.27
34 115 0.72
35 2 0.01
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:295438 original size:68 final size:67
Alignment explanation
Indices: 295322--295539 Score: 319
Period size: 67 Copynumber: 3.2 Consensus size: 67
295312 TGGTAAAAAC
* * *
295322 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
295387 AT
66 AT
* * *
295389 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
295454 AAT
65 AAT
* * * * * *
295457 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
295522 AT
66 AT
295524 CACCATTTAATCAACA
1 CACCATTTAATCAACA
295540 GAAACATGGT
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 73 0.54
68 61 0.46
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:296655 original size:17 final size:15
Alignment explanation
Indices: 296627--296665 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
296617 ATGAGGTGAC
*
296627 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAG
296642 AAAACAAAATTAAAAAG
1 AAAA-AAAA-TAAAAAG
296659 AAAAAAA
1 AAAAAAA
296666 TTAATTGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 7 0.33
17 10 0.48
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.10
Consensus pattern (15 bp):
AAAAAAAATAAAAAG
Found at i:296667 original size:15 final size:16
Alignment explanation
Indices: 296627--296669 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
296617 ATGAGGTGAC
296627 AAAAAAAA-TAAAAAT
1 AAAAAAAATTAAAAAT
296642 AAAACAAAATTAAAAA-
1 AAAA-AAAATTAAAAAT
*
296658 GAAAAAAATTAA
1 AAAAAAAATTAA
296670 TTGGTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 7 0.28
17 6 0.24
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAAAAAATTAAAAAT
Found at i:297675 original size:32 final size:33
Alignment explanation
Indices: 297627--297760 Score: 116
Period size: 32 Copynumber: 4.1 Consensus size: 33
297617 AAAAGAAATC
* *
297627 TTTCGACCTTTTCAGAAGGAAACAAATTTGACT
1 TTTCAACCTTTTCAGAAGAAAACAAATTTGACT
*
297660 TTT-AA-CTTTTGCAGAAAAAAAACAAATTTGA-T
1 TTTCAACCTTTT-CAG-AAGAAAACAAATTTGACT
*
297692 TTTCAACCTATTCA-AATGAAAACAAATTTGAC-
1 TTTCAACCTTTTCAGAA-GAAAACAAATTTGACT
** * *
297724 TTTCAACCTGTTAAAAGAAGAAAACAAGTTTAACT
1 TTTCAACCT-TT-TCAGAAGAAAACAAATTTGACT
297759 TT
1 TT
297761 CAATCTGAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
31 7 0.09
32 30 0.37
33 22 0.27
34 18 0.22
35 4 0.05
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (33 bp):
TTTCAACCTTTTCAGAAGAAAACAAATTTGACT
Found at i:298703 original size:18 final size:19
Alignment explanation
Indices: 298680--298719 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
298670 TTTGATACAA
*
298680 TTTATATATTAA-ATAAAT
1 TTTATATATTAATACAAAT
*
298698 TTTATATGTTAATACAAAT
1 TTTATATATTAATACAAAT
298717 TTT
1 TTT
298720 GTTAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTATATATTAATACAAAT
Found at i:298852 original size:5 final size:5
Alignment explanation
Indices: 298831--298885 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
298821 AGAGAGATAT
* *
298831 AAAGA GAAAGAA AAAGA AAAGA GAGGA AAAGAA AAAGA AAA-A AAAGA
1 AAAGA -AAAG-A AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA AAAGA
298878 AAAGA AAA
1 AAAGA AAA
298886 ATTTTTTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
4 4 0.10
5 24 0.57
6 13 0.31
7 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:298861 original size:21 final size:20
Alignment explanation
Indices: 298831--298886 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
298821 AGAGAGATAT
298831 AAAGAGAAAGAAAAAGAAAAGA
1 AAAGA-AAAGAAAAAGAAAA-A
* *
298853 GAGGAAAAGAAAAAGAAAAA
1 AAAGAAAAGAAAAAGAAAAA
298873 AAAGAAAAGAAAAA
1 AAAGAAAAGAAAAA
298887 TTTTTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 13 0.43
21 14 0.47
22 3 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAGAAAAAGAAAAA
Found at i:299717 original size:19 final size:19
Alignment explanation
Indices: 299693--299732 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
299683 ATTTAAAACA
299693 AAATAATAAAAT-ATTATTT
1 AAATAA-AAAATAATTATTT
*
299712 AAATAAATAATAATTATTT
1 AAATAAAAAATAATTATTT
299731 AA
1 AA
299733 TTTAAGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATAAAAAATAATTATTT
Found at i:300631 original size:20 final size:19
Alignment explanation
Indices: 300606--300658 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
300596 AGCATAATTG
*
300606 GTTTTTTAAAGATAATGGTA
1 GTTTTTTAAAGA-AACGGTA
*
300626 GTTTTTTTAAGAAACGGTA
1 GTTTTTTAAAGAAACGGTA
* *
300645 ATTTTTGAAAGAAA
1 GTTTTTTAAAGAAA
300659 ATTGATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.42
Consensus pattern (19 bp):
GTTTTTTAAAGAAACGGTA
Found at i:300753 original size:20 final size:21
Alignment explanation
Indices: 300722--300761 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
300712 TGTTTTTATG
300722 ATATTATTATTTTATTAATAA
1 ATATTATTATTTTATTAATAA
*
300743 ATATT-TTATTTTTTTAATA
1 ATATTATTATTTTATTAATA
300762 TTAATTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATTATTATTTTATTAATAA
Found at i:300933 original size:18 final size:19
Alignment explanation
Indices: 300898--300949 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
300888 TTTTTTTTTT
* *
300898 TTAAGATAATGATA-AATTT
1 TTAAAATAAT-ATAGAATTG
300917 TTAAAATAAT-TAGAATTG
1 TTAAAATAATATAGAATTG
*
300935 TTACAATAATATAGA
1 TTAAAATAATATAGA
300950 TGATGCAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.07
18 13 0.46
19 13 0.46
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (19 bp):
TTAAAATAATATAGAATTG
Found at i:303294 original size:13 final size:12
Alignment explanation
Indices: 303258--303286 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
303248 TATAATTTTA
303258 TTTAAAATAT-T
1 TTTAAAATATAT
303269 TTTAAAATATAT
1 TTTAAAATATAT
303281 TTTAAA
1 TTTAAA
303287 CTAGTATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAAAATATAT
Found at i:304925 original size:13 final size:13
Alignment explanation
Indices: 304903--304932 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
304893 TTAAATATTT
*
304903 TAATATATTTAAA
1 TAATAAATTTAAA
304916 TAATAAATTTAAA
1 TAATAAATTTAAA
304929 TAAT
1 TAAT
304933 TAATCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAATAAATTTAAA
Found at i:305025 original size:8 final size:9
Alignment explanation
Indices: 305012--305044 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
305002 AATTAAAATT
305012 ATTATTT-A
1 ATTATTTAA
305020 ATTATTTAA
1 ATTATTTAA
*
305029 ATAATTTAA
1 ATTATTTAA
305038 ATTATTT
1 ATTATTT
305045 TATTTCTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTATTTAA
Found at i:306477 original size:15 final size:16
Alignment explanation
Indices: 306451--306498 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
306441 AATTTTTTAT
306451 TATAATATTATTTATAA
1 TATAATA-TATTTATAA
306468 -ATAATATATTTA-AA
1 TATAATATATTTATAA
*
306482 TATTATATATTATATAA
1 TATAATATATT-TATAA
306499 CATTATTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 2 0.07
15 15 0.56
16 8 0.30
17 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATAATATATTTATAA
Found at i:307250 original size:22 final size:22
Alignment explanation
Indices: 307196--307250 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
307186 ACTTTAAGTT
* *
307196 ACTAGTTATTTTAATTTATGAA
1 ACTAGTTTTTTTAATTAATGAA
* * *
307218 ACAAATATTTTTAATTAATGAA
1 ACTAGTTTTTTTAATTAATGAA
307240 ACTAGTTTTTT
1 ACTAGTTTTTT
307251 GTATTACCTA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.49
Consensus pattern (22 bp):
ACTAGTTTTTTTAATTAATGAA
Found at i:308504 original size:22 final size:21
Alignment explanation
Indices: 308454--308522 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 21
308444 ATTATTGTTA
308454 TTTTT-TATTATAATTTATAT
1 TTTTTATATTATAATTTATAT
*** *
308474 TTAAAATATTATCTATTTATAT
1 TTTTTATATTAT-AATTTATAT
308496 TTTTTATATATAAATAATTTAT-T
1 TTTTTATAT-T--ATAATTTATAT
308519 TTTT
1 TTTT
308523 ATAAATTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 14 0.39
23 6 0.17
24 6 0.17
25 2 0.06
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTATATTATAATTTATAT
Found at i:308515 original size:24 final size:26
Alignment explanation
Indices: 308487--308546 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
308477 AAATATTATC
*
308487 TATTTATATTTTT-TATATATAAATA
1 TATTTATATTTTTATAAATATAAATA
* *
308512 -ATTTAT-TTTTTATAAATTTTAATA
1 TATTTATATTTTTATAAATATAAATA
308536 TATTTATATTT
1 TATTTATATTT
308547 GAAAGCTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.17
24 15 0.52
25 6 0.21
26 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TATTTATATTTTTATAAATATAAATA
Found at i:309479 original size:20 final size:20
Alignment explanation
Indices: 309451--309525 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
309441 TCATACCCTG
309451 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
309471 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
309491 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
309511 ATGTATCGATACATT
1 ATGTATCGATACATT
309526 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:309518 original size:40 final size:39
Alignment explanation
Indices: 309451--309528 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
309441 TCATACCCTG
* *
309451 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
309491 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
309529 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:313100 original size:13 final size:13
Alignment explanation
Indices: 313082--313106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
313072 CAAAGATCAG
313082 TGTATCGATACAA
1 TGTATCGATACAA
313095 TGTATCGATACA
1 TGTATCGATACA
313107 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:313189 original size:13 final size:13
Alignment explanation
Indices: 313171--313195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
313161 CAAAAAAATA
313171 TGTATCGATACAT
1 TGTATCGATACAT
313184 TGTATCGATACA
1 TGTATCGATACA
313196 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:313191 original size:33 final size:33
Alignment explanation
Indices: 313149--313215 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
313139 AGTAGCTTAA
313149 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
313182 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
313215 A
1 A
313216 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:314119 original size:67 final size:68
Alignment explanation
Indices: 313997--314123 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
313987 ATTGGGTTTT
* * *
313997 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
314062 AGA
66 AGA
* * * *
314065 AAAG-TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
314124 TGAAAAAGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:314254 original size:49 final size:49
Alignment explanation
Indices: 314078--316121 Score: 2637
Period size: 49 Copynumber: 41.8 Consensus size: 49
314068 GTGATAAAGA
* * * * *
314078 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGATGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-GATG---AAGG
* * * *
314133 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
*
314186 TGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
314235 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
314283 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
314332 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
314381 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
314424 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG---AAGG
*
314476 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
314519 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTTTTTAA-ATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC---TTAAAGATGAAGG
* * * *
314570 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
314619 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
314668 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
314717 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
314766 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
314815 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
314864 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
314913 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGG
* * * * *
314961 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
315010 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
315059 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGG
* * * * *
315107 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
315156 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
315205 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGG
* * * * *
315253 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
315302 TGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
315351 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
315400 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
315449 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
315498 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
315547 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
315596 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGG
* * * * *
315644 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
315693 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
315742 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGG
* * * * *
315790 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
315839 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
315888 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGG
* * * * *
315936 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
315985 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
316034 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
316083 TGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
316122 GAAGGGTTGC
Statistics
Matches: 1747, Mismatches: 203, Indels: 83
0.86 0.10 0.04
Matches are distributed among these distances:
43 72 0.04
44 2 0.00
45 1 0.00
46 4 0.00
47 1 0.00
48 298 0.17
49 1210 0.69
51 42 0.02
52 75 0.04
53 9 0.01
54 2 0.00
55 2 0.00
56 29 0.02
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:314404 original size:146 final size:147
Alignment explanation
Indices: 314128--316121 Score: 2654
Period size: 146 Copynumber: 13.6 Consensus size: 147
314118 AGATGATGAA
* * * *
314128 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
*
314193 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCC
62 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
314258 AGCTACATTGGACTTAAAGAT
127 AGCTACATTGGACTTAAAGAT
* * *
314279 -GAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
314343 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCG
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
*
314408 ATATTGGACTT----A-
131 ACATTGGACTTAAAGAT
*
314420 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATA
*
314484 TGCTGAGTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCA
63 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
*
314543 GCTACATTGGACTTTTTTAA-AT
128 GCTACATTGGAC---TTAAAGAT
* *
314565 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
314630 TGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
314695 ACATTGGACTTAAAGAT
131 ACATTGGACTTAAAGAT
* * * * *
314712 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * * *
314777 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
* * *
314842 ATATTGGACTTAATGGT
131 ACATTGGACTTAAAGAT
* * * *
314859 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
314924 TGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAATGTGCTGAGTCAAGGCCAGC
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGCCAATGTGCTGATTCAAGGCCAGC
314987 TACATTGGACTTAAAGAT
130 TACATTGGACTTAAAGAT
* *
315005 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
315070 TGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAATGTGCTGAGTCAAGGCCAGC
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGCCAATGTGCTGATTCAAGGCCAGC
315133 TACATTGGACTTAAAGAT
130 TACATTGGACTTAAAGAT
* * *
315151 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
315216 TGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAATGTGCTGAGTCAAGGCCAGC
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGCCAATGTGCTGATTCAAGGCCAGC
315279 TACATTGGACTTAAAGAT
130 TACATTGGACTTAAAGAT
* * * * *
315297 AAAAGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * * *
315362 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
* * *
315427 ATATTGGACTTAATGGT
131 ACATTGGACTTAAAGAT
* * *
315444 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
315509 TGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
315574 ACATTGGACTTAAAGAT
131 ACATTGGACTTAAAGAT
* * * * * *
315591 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAATATG
* * * * *
315654 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGC
65 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGC
*
315719 TATATTGGACTTAAAGAT
130 TACATTGGACTTAAAGAT
* * * * *
315737 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAATATG
* * * * *
315800 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGC
65 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGC
* *
315865 TATATTGGGCTTAAAGAT
130 TACATTGGACTTAAAGAT
* * * * *
315883 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAATATG
* * * * *
315946 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGC
65 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGC
* * * *
316011 TATATTGGGCTTAATGGT
130 TACATTGGACTTAAAGAT
* * * *
316029 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* *
316094 TGATTCAGGGCCAGCTATATTGGGCTTA
66 TGATTCAAGGCCAGCTATATTGGACTTA
316122 GAAGGGTTGC
Statistics
Matches: 1691, Mismatches: 127, Indels: 54
0.90 0.07 0.03
Matches are distributed among these distances:
138 36 0.02
140 1 0.00
141 46 0.03
142 2 0.00
143 42 0.02
144 43 0.03
145 3 0.00
146 966 0.57
147 469 0.28
149 80 0.05
150 3 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (147 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
ACATTGGACTTAAAGAT
Found at i:315482 original size:683 final size:683
Alignment explanation
Indices: 314128--316121 Score: 3431
Period size: 683 Copynumber: 2.9 Consensus size: 683
314118 AGATGATGAA
* * * * ** *
314128 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-ATGGTGAAGGTGCCAAT
* * * * *
314193 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCC
62 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
* * * *
314258 AGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
127 AGCTATA-TGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
* * *
314322 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAA
191 AAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAA
* *
314387 TATGCTGATTCAAGGCCAGCGATATTGGACTTAA------AAGTGCCAATGTGCTGATTCAAGGC
256 TATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGC
* *
314446 CAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAGTCAAGGCCAGCTATATTGGA
320 CAGCTACATTGGACTTAAAGAT--AAAA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
* * ** ** *
314511 C-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTTTTTAAAT-AAAG
382 CTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TGGAC-TTAAT-GGTGCAA-
*
314569 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
443 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGAT
314634 TCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACAT
508 TCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACAT
314699 TGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAA
573 TGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAA
314764 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
638 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
314810 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
314875 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
314940 ATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
131 ATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
315005 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGC
196 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGC
315070 TGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTA
261 TGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTA
315135 CATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGAT
326 CATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGAT
315200 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCT
391 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCT
*
315265 GAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCGATATGCTGATTCAAGGCCAGCTA
456 GAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTA
* *
315330 TATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
521 TATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
315395 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
586 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
315460 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
651 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
315493 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
315558 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
315623 ATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
131 ATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
315688 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGC
196 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGC
315753 TGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTA
261 TGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTA
315818 CATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGAT
326 CATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGAT
315883 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCT
391 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCT
315948 GAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTA
456 GAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTA
*
316013 TATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
521 TATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
* * *
316078 GAAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
586 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
316122 GAAGGGTTGC
Statistics
Matches: 1257, Mismatches: 41, Indels: 27
0.95 0.03 0.02
Matches are distributed among these distances:
677 21 0.02
678 206 0.16
679 1 0.00
680 35 0.03
681 39 0.03
682 5 0.00
683 906 0.72
684 5 0.00
685 5 0.00
686 34 0.03
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (683 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
ATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTA
CATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGAT
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTA
TATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
Found at i:316165 original size:33 final size:35
Alignment explanation
Indices: 316121--316190 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
316111 TATTGGGCTT
316121 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
316155 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
316189 AG
1 AG
316191 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:316233 original size:34 final size:33
Alignment explanation
Indices: 316195--317169 Score: 793
Period size: 34 Copynumber: 29.6 Consensus size: 33
316185 AGGAAGGGAG
* *
316195 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAA-GGAA
*
316229 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
1 AAAG-GTGCCACGGAGTTGTGGGC-TTAAAAG--GAA
* * *
316266 AAAGGTGCCACGGAGTTATGGACTTAAAGATGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAA-AGGAA
* *
316300 AAAAGTGCCACGGAGTTATGGGCTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
316330 ---GGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* **
316360 AAAGAGTGCCACAGAGTTGTGGGCTTAGGAGGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
316394 AAAGAGTGCCACGGAGTTGTGGGCTT-TAA--AA
1 AAAG-GTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
316425 AGA-GTGCCACGGAGTCGTGGGCTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
316458 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
316492 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
316526 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
316560 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
316594 GAAA-GTGCCACGGAGTTGTGGGCTTTAAAA-GAA
1 -AAAGGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
316627 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
316661 AAAGGTGCCACGGAGTTGTGGGCTTTAAACA-GAA
1 AAAGGTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
*
316695 AAAGGTGCCACGGAGTTGTGGGCTT----TG-A
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
316723 AGA-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAG-GAA
316758 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAA
1 AAAG-GTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
316793 AAAGGTGCCACGGAGTTGTGGGCTTTAAACA-GAA
1 AAAGGTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
316827 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
* *
316863 GAAGAGTGCCACAGAGTTGTGGGCTTTAAAA-GAA
1 AAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
316897 GAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAG-GAA
*
316933 AAAGAGTGCCACGGAGTTGTGGGCTT-AAACG--
1 AAAG-GTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
316964 ---GGTGCCACGGAGTTGTGGACTTAAAGATGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAA-AGGAA
* * * *
316995 AAAAGTGCCACAGAATTGTGGGCTTTATAA-G--
1 AAAGGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
317026 ---GGTGCCACGGAGTTGTGGACTTAAAGATGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAA-AGGAA
* *
317057 AAAAGTGCCACGGAATTGTGGGCTTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
317088 ---GGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
317118 CAAGGTGCCACGGAGTTGTGGGCTTTAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
317150 AAA-ATGCCACTGAGTCGTGG
1 AAAGGTGCCACGGAGTTGTGG
317170 ACTTTGAAAA
Statistics
Matches: 816, Mismatches: 62, Indels: 129
0.81 0.06 0.13
Matches are distributed among these distances:
27 71 0.09
28 44 0.05
29 22 0.03
30 2 0.00
31 18 0.02
32 11 0.01
33 88 0.11
34 400 0.49
35 48 0.06
36 44 0.05
37 68 0.08
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:316336 original size:27 final size:27
Alignment explanation
Indices: 316304--316357 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
316294 GATGAAAAAA
316304 GTGCCACGGAGTTATGGGCTTAAAAGG
1 GTGCCACGGAGTTATGGGCTTAAAAGG
* *
316331 GTGCCACGGAGTTGTGGGCTTAGAAGG
1 GTGCCACGGAGTTATGGGCTTAAAAGG
316358 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (27 bp):
GTGCCACGGAGTTATGGGCTTAAAAGG
Found at i:316338 original size:61 final size:61
Alignment explanation
Indices: 316264--316386 Score: 169
Period size: 61 Copynumber: 2.0 Consensus size: 61
316254 TTAAAAGAAA
*
316264 AAAAAGGTGCCACGGAGTTATGGACTTA-AAGATGAAAAA-AGTGCCACGGAGTTATGGGCTT
1 AAAAAGGTGCCACGGAGTTATGGACTTAGAAG--GAAAAAGAGTGCCACAGAGTTATGGGCTT
* * * *
316325 AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAAGGTGCCACGGAGTTATGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTT
316386 A
1 A
316387 GGAGGAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
60 6 0.11
61 46 0.84
62 3 0.05
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (61 bp):
AAAAAGGTGCCACGGAGTTATGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTT
Found at i:316603 original size:233 final size:229
Alignment explanation
Indices: 316325--317177 Score: 868
Period size: 233 Copynumber: 3.7 Consensus size: 229
316315 TTATGGGCTT
* * * *
316325 AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAA-AAAGAGTGCCACAGAGTTGTGGGC-TTAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAA--AAGAAAAAGTGCCACGGAGTTGTGGGCTTTA-
* *
316388 GAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG-A-GTGCCACGGAGTCGTGGGCTTTG
63 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGGTGCCACGGAGTTGTGGGCTTT-
* * *
316451 AAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCT
127 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-----GAAG-A-GTGCCACAGAGTCGTGGGCT
*
316516 TTG-AAA-AGAAGAAG-GTGCCACAGAGTTGTGGGCTTTGAAA-AG
185 TTGAAAAGAGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAACAG
* *
316558 AAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA-AAAGTGCCACGGAGTTGTGGGCTTTAAA
*
316623 AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
65 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG---AAGGTGCCACGGAGTTGTGGGCTTT
*
316687 AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAGTGCCACGGAGTCGTGGGCTTTGAAA
127 AAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAGTGCCACAGAGTCGTGGGCTTTGAAA
*
316752 AGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG
191 AGAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAACAG
316791 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA-AGAAAAA-GTGCCACGGAGTTGTGGGCTTT--
* *
316855 AAAGGGAAGAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGC
62 AAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAA-AAGAAGGTGCCACGGAGTTGTGGGC
* * * * *
316920 TTTAAAAAGAAAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAACGGGTGCCACGGAGTTGTGGAC
124 TTT-AAAAG--AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA-GAGTGCCACAGAGTCGTGGGC
* *
316984 -TT--AAAGATGAAAAA-AGTGCCACAGAATTGTGGGCTTTATA-AG
184 TTTGAAAAGA-GAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAACAG
* *
317026 -----GGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT-
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA-A-G-AAAAAGTGCCACGGAGTTGTGGGCTTTA
* * * *
317083 -----AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTT
63 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA--AAGAAGGTGCCACGGAGTTGTGGGCTT
* * * *
317143 T-AAAGAAAAA-ATGCCACTGAGTCGTGGACTTTGAA
126 TAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
317178 AAGGTATTTG
Statistics
Matches: 548, Mismatches: 41, Indels: 79
0.82 0.06 0.12
Matches are distributed among these distances:
215 15 0.03
216 4 0.01
217 5 0.01
219 4 0.01
220 3 0.01
221 51 0.09
229 6 0.01
230 62 0.11
231 11 0.02
232 50 0.09
233 130 0.24
234 3 0.01
235 5 0.01
236 65 0.12
237 79 0.14
238 15 0.03
239 40 0.07
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (229 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGTGCCACGGAGTTGTGGGCTTTAAAG
GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA
GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAGTGCCACAGAGTCGTGGGCTTTGAAAAGAGA
AAAAGAGTGCCACAGAGTTGTGGGCTTTAAACAG
Found at i:316737 original size:27 final size:27
Alignment explanation
Indices: 316699--316750 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
316689 ACAGAAAAAG
*
316699 GTGCCACGGAGTTGTGGGCTTTGAAGA
1 GTGCCACGGAGTCGTGGGCTTTGAAGA
316726 GTGCCACGGAGTCGTGGGCTTTGAA
1 GTGCCACGGAGTCGTGGGCTTTGAA
316751 AAGAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.40, T:0.25
Consensus pattern (27 bp):
GTGCCACGGAGTCGTGGGCTTTGAAGA
Found at i:316806 original size:132 final size:128
Alignment explanation
Indices: 316196--317180 Score: 841
Period size: 131 Copynumber: 7.5 Consensus size: 128
316186 GGAAGGGAGA
*
316196 AAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
* * * * *
316259 AGAAAAAAAAGGTGCCACGGAGTTATGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTATGGGC
63 AG---AAAAAGGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGTTGTGGGC
*
316323 -TTAA
124 TTTAG
* * * *
316327 AAGGGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAGGA
1 AAGAGTGCCACGGAGTTGTGGGCTTTA-AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTA-AA
* * *
316390 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--A-A-AAAGA-GTGCCACGGAGTCGTGGGCTTT
63 AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
316450 GAAAAG
127 ----AG
* * *
316456 AAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAA
1 AAG-A-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AA
* * * *
316521 AAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAA-AGAAGAAGGTGCCACAGAGTTGTGGGCTT
62 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTT
316585 TGAAAAG
126 T----AG
316592 AAGAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
1 AAG--AGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAA
316657 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-
63 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
316721 G
128 G
*
316722 AAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGAGTGCCACGGAGTTGTGGGCTTT--AAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAA
316787 ACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTT
62 A-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTT
316852 TGAAAAGGGAAG
126 T---------AG
* *
316864 AAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
*
316929 AAAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAC-G-----GGTGCCACGGAGTTGTGGACTTA
65 --AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTT-
*
316987 AAGATGAA
126 ----T-AG
* * * * *
316995 AAAAGTGCCACAGAATTGTGGGCTTTATAAG-----GGTGCCACGGAGTTGTGGAC-TTAAAGAT
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-A-
* * * *
317054 GAAAAAAGTGCCACGGAATTGTGGGCTTTAAA-AG-----GGTGCCACGGAGTTGTGGACTTAAA
64 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTT--T
317113 AGG
127 A-G
* * * * *
317116 AACAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAAAAA-ATGCCACTGAGTCGTGGACTTTGAAA
1 AA-GA-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAA
317179 AG
63 AG
317181 GTATTTGAAG
Statistics
Matches: 739, Mismatches: 54, Indels: 127
0.80 0.06 0.14
Matches are distributed among these distances:
120 1 0.00
121 3 0.00
122 5 0.01
123 38 0.05
124 53 0.07
125 9 0.01
126 37 0.05
127 4 0.01
128 32 0.04
129 21 0.03
130 12 0.02
131 129 0.17
132 125 0.17
133 4 0.01
134 26 0.04
135 93 0.13
136 50 0.07
137 2 0.00
138 24 0.03
139 12 0.02
140 15 0.02
141 19 0.03
142 25 0.03
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (128 bp):
AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGA
AAAAGGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAG
Found at i:316941 original size:70 final size:68
Alignment explanation
Indices: 316722--317180 Score: 437
Period size: 62 Copynumber: 6.9 Consensus size: 68
316712 GTGGGCTTTG
* * *
316722 AAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-A
1 AAGAGTGCCACGGAGTTGTGGGCTTT---AA-AGAAGAAG-GTGCCACGGAGTTGTGGACTTTAA
*
316786 AACAGAAA
61 AAGAGAAA
* *
316794 AAG-GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAGAGTGCCACGGAGTTGTGGGCTTT-AA-AGAAGAAGGTGCCACGGAGTTGTGGACTTT-AAAA
* *
316858 GGGAAG
63 GAGAAA
* *
316864 AAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAGAGTGCCACGGAGTTGTGGGCTTT-AAAGAAGAAGGTGCCACGGAGTTGTGGACTTT-AAAAG
*
316929 AAAAA
64 AGAAA
*
316934 AAGAGTGCCACGGAGTTGTGGGC-TT-AA-ACG--GGTGCCACGGAGTTGTGGAC-TT-AAAGAT
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGA-
316992 GAAA
65 GAAA
* * *
316996 AA-AGTGCCACAGAATTGTGGGCTTT--ATAAG--GGTGCCACGGAGTTGTGGAC-TT-AAAGAT
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGA-
317054 GAAA
65 GAAA
*
317058 AA-AGTGCCACGGAATTGTGGGCTTT-AA-AAG--GGTGCCACGGAGTTGTGGAC-TTAAAAG-G
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGAG
*
317116 AAC
66 AAA
** * *
317119 AAG-GTGCCACGGAGTTGTGGGCTTTAAAGAA-AAAATGCCACTGAGTCGTGGACTTTGAAAAG
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAGGTGCCACGGAGTTGTGGACTTT-AAAAG
317181 GTATTTGAAG
Statistics
Matches: 347, Mismatches: 25, Indels: 36
0.85 0.06 0.09
Matches are distributed among these distances:
61 50 0.14
62 92 0.27
63 9 0.03
64 35 0.10
65 2 0.01
66 7 0.02
67 2 0.01
68 22 0.06
69 13 0.04
70 67 0.19
71 45 0.13
72 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (68 bp):
AAGAGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGAG
AAA
Found at i:318127 original size:1 final size:1
Alignment explanation
Indices: 318117--318149 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
318107 TGAAAAGGGG
*
318117 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
318150 GTGAAGATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:322169 original size:21 final size:21
Alignment explanation
Indices: 322145--322187 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
322135 ATCAAAATGA
322145 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
322166 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
322187 C
1 C
322188 TCCTGACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
CATTCATTGCATGACGAGATG
Found at i:325504 original size:13 final size:13
Alignment explanation
Indices: 325486--325510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
325476 CAAAGATCAG
325486 TGTATCGATACAA
1 TGTATCGATACAA
325499 TGTATCGATACA
1 TGTATCGATACA
325511 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:325593 original size:13 final size:13
Alignment explanation
Indices: 325575--325599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
325565 CAAAAAAATA
325575 TGTATCGATACAT
1 TGTATCGATACAT
325588 TGTATCGATACA
1 TGTATCGATACA
325600 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:325595 original size:33 final size:33
Alignment explanation
Indices: 325553--325619 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
325543 AGTAGCTTAA
325553 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
325586 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
325619 A
1 A
325620 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:332214 original size:21 final size:21
Alignment explanation
Indices: 332190--332236 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
332180 AAATGAAAAG
332190 AAAAAGTGAAAAA-ACAAAATAA
1 AAAAAG-GAAAAACA-AAAATAA
*
332212 AAAAAGGAACAACAAAAATAA
1 AAAAAGGAAAAACAAAAATAA
332233 AAAA
1 AAAA
332237 TGAGGACATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (21 bp):
AAAAAGGAAAAACAAAAATAA
Found at i:333587 original size:29 final size:29
Alignment explanation
Indices: 333514--334944 Score: 1892
Period size: 28 Copynumber: 50.0 Consensus size: 29
333504 TAGTAGTACA
* *
333514 ACTCTTTTCAAAGCCCACAAGTTAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
333543 AC-CCTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
333571 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
333600 ATTCTTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
333629 AC-CCTTTCAAAGCCCACAAGTCAATGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
333657 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
** * *
333686 ACTATTTTCAAAGCCCATAAATCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
333715 ACTCTTTTCAAAGCCCACAAGTTAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
333744 AC-CCTTTTAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
333772 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* * *
333801 ATTCTTTTCAAAGCCCACAAATCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
333830 ACTCTTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
333859 AC-CCTTTCAAAGCCCACAAGTTAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
333887 AC-CCTTTCAGAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
333915 AC-CCTTTCGAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* * * *
333943 AC-CATTGCGAAGCCCACAATTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
333971 ACT-CTTTTAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
333999 AC-CCTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
334027 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
334056 ACTCTTTTCAAAGCCCACAAATCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
334085 ACTCTTTTCAAAGCCCACAAGTTAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334114 AC-CCTTTTAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
334142 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* * * *
334171 ATTCTTTTCAAAGCTCACAAATCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334200 ACTCTTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334229 AC-CCTTTCAAAGCCCACAAGTTAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334257 AC-CCTTTCAGAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334285 AC-CCTTTCGAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* * * **
334313 AC-CATTGCGAAGCCCACATTTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* * *
334341 AAT-CTTTTAAAGTCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
334369 AC-CCTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
334397 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
334426 ACTCTTTTCAAAGCCCACAAATCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
334455 ACTCTTTTCAAAGCCCACAAGTTAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334484 AC-CCTTTTAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
334512 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* * * *
334541 ATTCTTTTCAAAGCCCATAAATCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
334570 ATTCTTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334599 AC-CCTTTCAAAGCCCACAAGTTAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334627 AC-CCTTTCAGAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
334655 AC-CCTTTCGAAGCCCACAAGTTAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* * * *
334683 AC-CATTGCGAAGCCCACAATTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
334711 ACT-ATTTTAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334739 AC-CCTTTTAAAGCCCACACAAGTCAGTGGC
1 ACTCCTTTCAAAG-CC-CACAAGTCAGTGGC
* * * *
334769 ACTCCTTTTAAAGCTCACGCAAGTCCGTGGT
1 ACTCCTTTCAAAGC-C-CACAAGTCAGTGGC
*
334800 AC-CTTTTCAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334828 ACT-CTTTTAAAGCCCACAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
334856 A-TCCTTTCAAAGCCCACGAGTTAGTGGC
1 ACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
334884 A-TTCTTTCAAAGCCCACGCAAGTCAGTGGC
1 ACTCCTTTCAAAGCCCA--CAAGTCAGTGGC
* *
334914 AC-CCTTTTAAAGCCCATGCAAGTCAATGGC
1 ACTCCTTTCAAAGCCCA--CAAGTCAGTGGC
334944 A
1 A
334945 ACCATTTTCA
Statistics
Matches: 1253, Mismatches: 127, Indels: 43
0.88 0.09 0.03
Matches are distributed among these distances:
27 1 0.00
28 629 0.50
29 536 0.43
30 62 0.05
31 25 0.02
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (29 bp):
ACTCCTTTCAAAGCCCACAAGTCAGTGGC
Found at i:334208 original size:370 final size:370
Alignment explanation
Indices: 333519--334929 Score: 2425
Period size: 370 Copynumber: 3.8 Consensus size: 370
333509 GTACAACTCT
* * * * * *
333519 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
1 TTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCAC-CATTGCGAAG
* *
333584 CCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG
65 CCCACAATTCAGTGGCACTCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG
* * *
333649 TCAATGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTATTTTCAAAGCCCATAAATCAGTGG
129 TCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGG
333714 CACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACTCCTT
194 CACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACTCCTT
333779 TCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGC
259 TCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGC
333844 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
324 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
333891 TTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCGAAGC
1 TTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCGAAGC
333956 CCACAATTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
66 CCACAATTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
334021 AGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
131 AGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
334086 CTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACTCCTTTC
196 CTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACTCCTTTC
*
334151 AAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCTCACAAATCAGTGGCACTCTTTTCAAAGCCC
261 AAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCC
334216 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
326 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
334261 TTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCGAAGC
1 TTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCGAAGC
* * *
334326 CCACATTTCAGTGGCAATCTTTTAAAGTCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
66 CCACAATTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
334391 AGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
131 AGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
334456 CTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACTCCTTTC
196 CTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACTCCTTTC
* *
334521 AAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCATAAATCAGTGGCATTCTTTTCAAAGCCC
261 AAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCC
334586 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
326 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
*
334631 TTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTTAGTGGCACCATTGCGAAGC
1 TTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCGAAGC
* *
334696 CCACAATTCAGTGGCACTATTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAG
66 CCACAATTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAG
* * * * *
334761 TCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCCGTGGTAC-CTTTTCAAAGCCCACAAGTCAGT
129 TCAGTGGCACTCCTTTCAAAGC-C-CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGT
* * * * * *
334825 GGCACTCTTTT-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTAGTGGCA-TTC
192 GGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACTCC
**
334888 TTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTT-AAAGCCCA
257 TTTCAAAGCCCA--CAAGTCAGTGGCATTCTTTTCAAAGCCCA
334930 TGCAAGTCAA
Statistics
Matches: 996, Mismatches: 37, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
370 756 0.76
371 45 0.05
372 130 0.13
373 52 0.05
374 13 0.01
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (370 bp):
TTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCGAAGC
CCACAATTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
AGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
CTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACTCCTTTC
AAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCC
ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
Found at i:335499 original size:20 final size:20
Alignment explanation
Indices: 335471--335545 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
335461 TCATACCCTG
335471 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
335491 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
335511 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
335531 ATGTATCGATACATT
1 ATGTATCGATACATT
335546 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:335538 original size:40 final size:39
Alignment explanation
Indices: 335471--335548 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
335461 TCATACCCTG
* *
335471 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
335511 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
335549 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:338952 original size:20 final size:20
Alignment explanation
Indices: 338927--338984 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
338917 CTGCCAATTT
*
338927 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
* *
338947 CATGTATCGATATAA-TGAA
1 CATGTATCGATACAATTGTA
338966 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
338985 TCGATACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 14 0.44
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:338986 original size:13 final size:13
Alignment explanation
Indices: 338968--338992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
338958 ATAATGAACA
338968 TGTATCGATACAT
1 TGTATCGATACAT
338981 TGTATCGATACA
1 TGTATCGATACA
338993 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:339662 original size:27 final size:28
Alignment explanation
Indices: 339610--339664 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
339600 TAAAAAGATT
339610 AAAGATTTTCTCCCCCTCAATAAAAATA
1 AAAGATTTTCTCCCCCTCAATAAAAATA
**
339638 AAAGATTTTCTCCCCCTTGATAAAAAT
1 AAAGATTTTCTCCCCCTCAATAAAAAT
339665 TTATTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (28 bp):
AAAGATTTTCTCCCCCTCAATAAAAATA
Found at i:341393 original size:20 final size:22
Alignment explanation
Indices: 341368--341407 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
341358 TTTGTTGAAG
341368 ATTTTG-A-TGAAAAATGAGGT
1 ATTTTGAAGTGAAAAATGAGGT
341388 ATTTTGAAGTGAAAAATGAG
1 ATTTTGAAGTGAAAAATGAG
341408 AAATTTGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (22 bp):
ATTTTGAAGTGAAAAATGAGGT
Found at i:341413 original size:22 final size:22
Alignment explanation
Indices: 341368--341417 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
341358 TTTGTTGAAG
**
341368 ATTTTG-A-TGAAAAATGAGGT
1 ATTTTGAAGTGAAAAATGAGAA
341388 ATTTTGAAGTGAAAAATGAGAA
1 ATTTTGAAGTGAAAAATGAGAA
341410 A-TTTGAAG
1 ATTTTGAAG
341418 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 8 0.31
22 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (22 bp):
ATTTTGAAGTGAAAAATGAGAA
Found at i:343372 original size:33 final size:33
Alignment explanation
Indices: 343335--343401 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
343325 TTCAACGATT
343335 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
343368 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
343401 T
1 T
343402 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:343373 original size:13 final size:13
Alignment explanation
Indices: 343355--343379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
343345 CATAAAATGT
343355 TGTATCGATACAA
1 TGTATCGATACAA
343368 TGTATCGATACA
1 TGTATCGATACA
343380 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:343461 original size:13 final size:13
Alignment explanation
Indices: 343443--343467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
343433 ATTACTCAAA
343443 TGTATCGATACAT
1 TGTATCGATACAT
343456 TGTATCGATACA
1 TGTATCGATACA
343468 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:343532 original size:52 final size:52
Alignment explanation
Indices: 343476--343593 Score: 209
Period size: 52 Copynumber: 2.3 Consensus size: 52
343466 CACCGATCTT
* *
343476 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
343528 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
343580 TGTATCGATACATG
1 TGTATCGATACATG
343594 TAGATAAATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:351778 original size:17 final size:16
Alignment explanation
Indices: 351750--351781 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
351740 CCTAACAATA
351750 TTATATTCATATTATT
1 TTATATTCATATTATT
351766 TTATATGTCATATTAT
1 TTATAT-TCATATTAT
351782 AACTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (16 bp):
TTATATTCATATTATT
Found at i:351832 original size:19 final size:17
Alignment explanation
Indices: 351746--351840 Score: 58
Period size: 19 Copynumber: 5.5 Consensus size: 17
351736 AGATCCTAAC
*
351746 AATATTATATTCATATT
1 AATATTATATTCATTTT
*
351763 -ATTTTATATGTCATATTAT
1 AATATTATAT-TCAT-TT-T
*
351782 AA-CTT-TATT--TTTT
1 AATATTATATTCATTTT
351795 AATACTTATATTCATTTT
1 AATA-TTATATTCATTTT
351813 ATATAATTATATT-ATATTT
1 A-AT-ATTATATTCAT-TTT
351832 AATATTATA
1 AATATTATA
351841 AAAATTTATA
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
13 3 0.05
14 2 0.03
15 3 0.05
16 12 0.19
17 11 0.18
18 13 0.21
19 16 0.26
20 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (17 bp):
AATATTATATTCATTTT
Found at i:356738 original size:19 final size:21
Alignment explanation
Indices: 356695--356746 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
356685 TTCAATAATT
*
356695 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
356716 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
356735 TGTATCGATACA
1 TGTATCGATACA
356747 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:356817 original size:13 final size:13
Alignment explanation
Indices: 356799--356824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
356789 ATTTGTAGAA
356799 TGTATCGATACAT
1 TGTATCGATACAT
356812 TGTATCGATACAT
1 TGTATCGATACAT
356825 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:359253 original size:50 final size:51
Alignment explanation
Indices: 359179--359410 Score: 292
Period size: 50 Copynumber: 4.6 Consensus size: 51
359169 TTAAGTTTCT
*
359179 TAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACAC
1 TAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * * *
359230 TAATTTTCCACAATC-GGGATACTCCAACTCCGATTTTATTTTCGAAACAC
1 TAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * * *
359280 CAATTTTTCACATTCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 TAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* *
359331 TAA-TTTTCTATAATC-GGGATACTCCAACTCCGATTTTATTTCCAAAACAC
1 TAATTTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* **
359381 CAATTTTTTTTAATCGGGGATACTCCAACC
1 TAATTTTTCATAATCGGGGATACTCCAACC
359411 TCGTTAATCA
Statistics
Matches: 155, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
50 83 0.54
51 72 0.46
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (51 bp):
TAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:359355 original size:101 final size:101
Alignment explanation
Indices: 359180--359410 Score: 374
Period size: 101 Copynumber: 2.3 Consensus size: 101
359170 TAAGTTTCTT
359180 AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
* *
359245 GGGATACTCCAACTCCGATTTTATTTTCGAAACACC
66 GGGATACTCCAACTCCGATTTTATTTCCAAAACACC
* * * *
359281 AATTTTTCACATTCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACTAATTTTCTATAAT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACTAATTTTCCACAAT
359345 CGGGATACTCCAACTCCGATTTTATTTCCAAAACACC
65 CGGGATACTCCAACTCCGATTTTATTTCCAAAACACC
**
359382 AATTTTTTTTAATCGGGGATACTCCAACC
1 AATTTTTCATAATCGGGGATACTCCAACC
359411 TCGTTAATCA
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
100 1 0.01
101 118 0.99
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (101 bp):
AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
GGGATACTCCAACTCCGATTTTATTTCCAAAACACC
Found at i:359572 original size:79 final size:79
Alignment explanation
Indices: 359428--359574 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
359418 TCATCGGGGA
* * *
359428 TACTCCAACCCCGTCACTTCCGAGAGGATACTCCAACCTCGGTTTTATTTCTAAAATATTGATTT
1 TACTCCAACCCCGTCACTTCCGAGAGGATACTCCAACCTCCGTTTTATCTCTAAAATATTAATTT
359493 CTCACAATCAGAGC
66 CTCACAATCAGAGC
* * * * * *
359507 TACTCCGACCCCGTTATTTTCGAGGGGATACTCCAACC-CCGTTATTATCTC-CAAATATTAAAT
1 TACTCCAACCCCGTCACTTCCGAGAGGATACTCCAACCTCCGTT-TTATCTCTAAAATATT-AAT
359570 TTCTC
64 TTCTC
359575 GTCGGGAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
78 11 0.19
79 46 0.81
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (79 bp):
TACTCCAACCCCGTCACTTCCGAGAGGATACTCCAACCTCCGTTTTATCTCTAAAATATTAATTT
CTCACAATCAGAGC
Found at i:361337 original size:32 final size:33
Alignment explanation
Indices: 361296--361357 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
361286 TAGCCAAACT
**
361296 TGTATCGATACACAAAGTA-TGTATCGATATAA
1 TGTATCGATACACAAAAAATTGTATCGATATAA
361328 TGTATCGATACACAAAAAATTGTATCGATA
1 TGTATCGATACACAAAAAATTGTATCGATA
361358 CATTGGCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATATAA
Found at i:367536 original size:13 final size:13
Alignment explanation
Indices: 367518--367555 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
367508 CATTTTTCTT
367518 TGTATCGATACAA
1 TGTATCGATACAA
*
367531 TGTATCGATACAC
1 TGTATCGATACAA
367544 TGTATCGATACA
1 TGTATCGATACA
367556 GGAGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:367710 original size:20 final size:20
Alignment explanation
Indices: 367667--367712 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
367657 AAATCTTTTG
367667 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
367688 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
367708 CAAAA
1 CAAAA
367713 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:370140 original size:13 final size:13
Alignment explanation
Indices: 370122--370147 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
370112 TACACAAAGT
370122 ATGTATCGATACA
1 ATGTATCGATACA
370135 ATGTATCGATACA
1 ATGTATCGATACA
370148 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:378993 original size:20 final size:19
Alignment explanation
Indices: 378939--378994 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
378929 AAAACCCTTA
*
378939 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
378959 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
378979 AATGTATCGATACATG
1 AAAGTATCGATACATG
378995 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:379082 original size:13 final size:13
Alignment explanation
Indices: 379064--379089 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
379054 TACACAAAGT
379064 ATGTATCGATACA
1 ATGTATCGATACA
379077 ATGTATCGATACA
1 ATGTATCGATACA
379090 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:379087 original size:32 final size:33
Alignment explanation
Indices: 379046--379109 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
379036 TAGCCAAACT
**
379046 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
379078 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
379110 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:386751 original size:23 final size:21
Alignment explanation
Indices: 386709--386751 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
386699 GTTTAATGTT
**
386709 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
386730 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
386752 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:387585 original size:20 final size:19
Alignment explanation
Indices: 387531--387586 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
387521 AAAACCCTTA
*
387531 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
387551 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
387571 AATGTATCGATACATG
1 AAAGTATCGATACATG
387587 AAAAGGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:387674 original size:13 final size:13
Alignment explanation
Indices: 387656--387681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
387646 TACACAAAGT
387656 ATGTATCGATACA
1 ATGTATCGATACA
387669 ATGTATCGATACA
1 ATGTATCGATACA
387682 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:387679 original size:32 final size:33
Alignment explanation
Indices: 387638--387701 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
387628 TAGCCAAACT
**
387638 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
387670 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
387702 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:395249 original size:20 final size:19
Alignment explanation
Indices: 395195--395250 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
395185 AAAACCCTTA
*
395195 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
395215 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
395235 AATGTATCGATACATG
1 AAAGTATCGATACATG
395251 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:395338 original size:13 final size:13
Alignment explanation
Indices: 395320--395345 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
395310 TACACAAAGT
395320 ATGTATCGATACA
1 ATGTATCGATACA
395333 ATGTATCGATACA
1 ATGTATCGATACA
395346 CAAAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:395343 original size:32 final size:32
Alignment explanation
Indices: 395302--395364 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
395292 TAGCCAAACT
*
395302 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAT-TGTATCGATACAA
395334 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
395365 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:396489 original size:20 final size:20
Alignment explanation
Indices: 396464--396680 Score: 121
Period size: 20 Copynumber: 10.7 Consensus size: 20
396454 TTTTAACTAG
396464 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
396484 ATGTATCGATACATCTGGAAA
1 ATGTATCGATACAT-TGAAAA
396505 A---A---A-A-A--GACAAA
1 ATGTATCGATACATTGA-AAA
*
396516 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * * *
396536 ATGTATCGATATAGTCATAC
1 ATGTATCGATACATTGAAAA
396556 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
396576 ATGTATTGATACATCTGGGCAAAAAGATAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
* *
396607 ATGTATCGATGCATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
396627 ATGTATCGATACATTCATAT
1 ATGTATCGATACATTGAAAA
*
396647 ATGTATCAATACATTGAAAA
1 ATGTATCGATACATTGAAAA
396667 ATGTATCGATACAT
1 ATGTATCGATACAT
396681 CTGGGTAAAA
Statistics
Matches: 146, Mismatches: 28, Indels: 46
0.66 0.13 0.21
Matches are distributed among these distances:
10 1 0.01
11 4 0.03
13 1 0.01
14 2 0.01
15 1 0.01
17 1 0.01
18 2 0.01
19 1 0.01
20 103 0.71
21 9 0.06
22 1 0.01
23 2 0.01
28 2 0.01
29 1 0.01
30 2 0.01
31 13 0.09
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:396645 original size:91 final size:91
Alignment explanation
Indices: 396464--396691 Score: 348
Period size: 91 Copynumber: 2.5 Consensus size: 91
396454 TTTTAACTAG
*
396464 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGAAAAAAAAGACAAAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGG-GAAAAAAGACAAAATGTATCGATACA
*
396529 TTGAAGAATGTATCGATATAGTCATAC
65 TTGAAGAATGTATCGATACAGTCATAC
* * * * *
396556 ATGTATCGATACATTGAAAAATGTATTGATACATCTGGGCAAAAAGATAGAATGTATCGATGCAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGACAAAATGTATCGATACAT
* *
396621 TGAAGAATGTATCGATACATTCATAT
66 TGAAGAATGTATCGATACAGTCATAC
* *
396647 ATGTATCAATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAA
396692 TGTGACTTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
91 87 0.70
92 37 0.30
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGACAAAATGTATCGATACAT
TGAAGAATGTATCGATACAGTCATAC
Found at i:397450 original size:49 final size:45
Alignment explanation
Indices: 397387--397505 Score: 130
Period size: 49 Copynumber: 2.6 Consensus size: 45
397377 AGAGGATTGT
** *
397387 CAATGTGCCAATTCAAGGCCAGCGACATTGGGCTAAGGGAGAAGTGGAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAA--GAAAAGT-G-C
* * *
397436 CAATGTGCTGATTCAGGGCCAACGACATTGGGCTAATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGAAAAGTGC
* *
397481 CAATATGCTGATTCAATGCCAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
397506 TATCGGACTT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 22 0.37
46 1 0.02
47 5 0.08
49 32 0.53
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (45 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGAAAAGTGC
Found at i:397597 original size:28 final size:28
Alignment explanation
Indices: 397536--397941 Score: 542
Period size: 28 Copynumber: 14.2 Consensus size: 28
397526 AAAATGGTGA
*
397536 TTTGAAAAGGGTTGCCACCGACTTGCGTGGGC
1 TTTG-AAAGGG-TGCCACTGACTT--GTGGGC
* * * *
397568 TTTTAAAGGGTGCCATTGAATTATGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
397596 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
*
397624 TTTGAAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
397652 TTTGAAAGGATGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
397680 TTTGAAAAGAGAGCCATTGACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGC
397709 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
397737 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
397765 TTTGAAAGGATGCCACTGACTTATGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
397793 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
397821 TTTGAAAGGATGCTATTGACTTGTGGGA
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
** * * *
397849 TTTGAAAAGATTTACCATTGGCTTGTGGGC
1 TTTG-AAAG-GGTGCCACTGACTTGTGGGC
397879 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
397907 TTTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTTGAAAGGGTGCCACTGACTTGTGGGC
397936 TTTGAA
1 TTTGAA
397942 GAGATGAACG
Statistics
Matches: 332, Mismatches: 38, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
28 237 0.71
29 59 0.18
30 27 0.08
31 6 0.02
32 3 0.01
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.30
Consensus pattern (28 bp):
TTTGAAAGGGTGCCACTGACTTGTGGGC
Found at i:397816 original size:141 final size:140
Alignment explanation
Indices: 397562--397941 Score: 582
Period size: 141 Copynumber: 2.7 Consensus size: 140
397552 ACCGACTTGC
* * *
397562 GTGGGCTTTTAAAGGGTGCCATTGAATTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
1 GTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
397627 GAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGA
66 GAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG-AAAG-GA
397692 -GCCATTGACTT
129 TGCCATTGACTT
*
397703 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
1 GTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
* * *
397768 GAAAGGATGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATG
66 GAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
*
397833 CTATTGACTT
131 CCATTGACTT
* ** * *
397843 GTGGGATTTGAAAAGATTTACCATTGGCTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTG-AAAG-GGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC-
*
397908 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAA
63 TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
397942 GAGATGAACG
Statistics
Matches: 219, Mismatches: 16, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
139 2 0.01
140 23 0.11
141 119 0.54
142 43 0.20
143 32 0.15
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.31
Consensus pattern (140 bp):
GTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
GAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
CCATTGACTT
Found at i:412409 original size:9 final size:8
Alignment explanation
Indices: 412397--412435 Score: 51
Period size: 9 Copynumber: 4.5 Consensus size: 8
412387 CCTTTTTCCA
412397 TTTCTCTTT
1 TTTCT-TTT
412406 TTTCTTCTT
1 TTTCTT-TT
412415 TTTCTTTT
1 TTTCTTTT
412423 TTTCTTTT
1 TTTCTTTT
412431 CTTTC
1 -TTTC
412436 ACAACATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 11 0.39
9 17 0.61
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTCTTTT
Found at i:416418 original size:155 final size:156
Alignment explanation
Indices: 416165--417452 Score: 1190
Period size: 156 Copynumber: 8.3 Consensus size: 156
416155 TAAGTTCAAT
* *
416165 AAAATTACGAAAAT-GCCTTTAGGGAATACCATT-GACTGTAAAAGTA-CTCGA-T-ACGCCTAA
1 AAAATTACGAAAATACCCTATAGGG-ATACC-TTCGAC-GTAAAAGTACCT-GAGTAAC-CCTAA
* * *
416225 AGGACCTAAAAAGGA-TAGAAATGG-GATGAACCTATCCTAAATGCCCATCTTCGACATAAAAGC
61 AGGACTTAAAAA-GACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGC
* ** * *
416288 AGACCTAGTGATGACCTAGGAGTTGGTTCTAG
125 AGACCCAGTGACAACCTAGGACTCGGTTCTAG
* * ** * *
416320 AAAATTACGAAAATACACCTA-GGGGATACTTTTAATGTAAAAGTACCTGA-TATCCCTAAAGGA
1 AAAATTACGAAAATAC-CCTATAGGGATACCTTCGACGTAAAAGTACCTGAGTAACCCTAAAGGA
*
416383 CTTAAAAAGACTAGAAATGGTGATAAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACC
65 CTTAAAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACC
416448 CAGTGACAACCTAGGACTCGGTTCTA-
130 CAGTGACAACCTAGGACTCGGTTCTAG
* * *
416474 AGAAATTACGAAAATGCCCCTATAGGTACACCTTCGACGTAAAAGTACCTCG-GTAACCCTAAAG
1 A-AAATTACGAAAAT-ACCCTATAGGGATACCTTCGACGTAAAAGTACCT-GAGTAACCCTAAAG
* * ** *
416538 GAC-CAAAAGAGACTA-AAGAAGG-GATGAACCTATCCTAAATGCCCATATTCGGCATAAAAGTA
63 GACTTAAAA-AGACTAGAA-ATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCA
* ** * * * * *
416600 GACCCGGTGATGACGTAGGAGTTGGTTTTGG
126 GACCCAGTGACAACCTAGGACTCGGTTCTAG
* * *
416631 AAAAATTACGAAAATACCCT-TAAGGGATACCTTCGATGTAAAAGTATCTCAGT-ACCCTAAAGG
1 -AAAATTACGAAAATACCCTAT-AGGGATACCTTCGACGTAAAAGTACCTGAGTAACCCTAAAGG
* *
416694 ACTTAAAAAGACTAGAAATGGTGATGAACCTCTCCTAAATGCCTACCTTCGGCATAAAAGCAGAC
64 ACTTAAAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGAC
* * * * * *
416759 CCGGTGATAACCTAAGACTCAGTTTTAA
129 CCAGTGACAACCTAGGACTCGGTTCTAG
* * ** * *
416787 AAAATTACGAAAATACCCCTAT-GGGTATACCTTCGACATGAAAGTACCCCAGCAACCCTAAAAG
1 AAAATTACGAAAATA-CCCTATAGGG-ATACCTTCGACGTAAAAGTACCTGAGTAACCCTAAAGG
* * * ** **
416851 ACATAAAAAGAATAAAAAAAG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGAC
64 ACTTAAAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGAC
* * * **
416915 CTAGTGACGACCTAGGAGTTAGTTCTAG
129 CCAGTGACAACCTAGGACTCGGTTCTAG
* * * * * * *
416943 AAAAATTATGAAAATGCCCT-TAGGGGATACCTTCGGCGTGAAAGTATCTCAGT-ACCTTAAAGG
1 -AAAATTACGAAAATACCCTATA-GGGATACCTTCGACGTAAAAGTACCTGAGTAACCCTAAAGG
* * * *
417006 AATTAAAAAGATTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCAAAC
64 ACTTAAAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGAC
417071 CCAGTGACAACCTAGGA-TCGGTTCTAG
129 CCAGTGACAACCTAGGACTCGGTTCTAG
* * * * * *
417098 GAAATTACGAAAATGCCTCTATAAGTATACCTTCGACGTAAAAGTACCCCG-GCAACCCTAAAGG
1 AAAATTACGAAAATACC-CTATAGGGATACCTTCGACGTAAAAGTA-CCTGAGTAACCCTAAAGG
* * ** **
417162 ACATAAAAAGACTAGAAA-AGCAATGAACCTATCCTAAATGCCCACCTTCAACATAAAAGCAGAC
64 ACTTAAAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGAC
** * ***
417226 CTGGTGACAACCTAAGACTTTATTCTAG
129 CCAGTGACAACCTAGGACTCGGTTCTAG
* * * * * * *
417254 AAAATTACGAAAATACCTCTAT-GGGTATACTTTGGACGTAAAAGTACCTTAGCAAGCTTAGAGG
1 AAAATTACGAAAATACC-CTATAGGG-ATACCTTCGACGTAAAAGTACCTGAGTAACCCTAAAGG
* * * *
417318 ACTTAAAAAGACTAGAAA--ATGCTGAACCTATCCTAAATACCCATCTTCGGCATAAAAGCAGAC
64 ACTTAAAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGAC
* * * * *
417381 CCGGTGATAACCTAGGACTCGATTTTAA
129 CCAGTGACAACCTAGGACTCGGTTCTAG
* * *
417409 AAAATTATGAAAATACCCT-TAAGGGATACTTTCGACGTGAAAGT
1 AAAATTACGAAAATACCCTAT-AGGGATACCTTCGACGTAAAAGT
417453 GCTCGGAGAC
Statistics
Matches: 932, Mismatches: 163, Indels: 77
0.80 0.14 0.07
Matches are distributed among these distances:
153 3 0.00
154 74 0.08
155 330 0.35
156 443 0.48
157 81 0.09
158 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (156 bp):
AAAATTACGAAAATACCCTATAGGGATACCTTCGACGTAAAAGTACCTGAGTAACCCTAAAGGAC
TTAAAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCC
AGTGACAACCTAGGACTCGGTTCTAG
Found at i:416732 original size:312 final size:311
Alignment explanation
Indices: 416220--417452 Score: 1469
Period size: 312 Copynumber: 4.0 Consensus size: 311
416210 ACTCGATACG
* * *
416220 CCTAAAGGACCTAAAAAGGA-TAGAAATGGGATGAACCTATCCTAAATGCCCATCTTCGACATAA
1 CCTAAAGGACATAAAAA-GACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGACATAA
*
416284 AAGCAGACCTAGTGATGACCTAGGAGTTGGTTCTAGAAAATTACGAAAATACACC-TAGGGGATA
65 AAGCAGACCTAGTGACGACCTAGGAGTTGGTTCTAGAAAATTACGAAAATAC-CCTTAGGGGATA
* ** * * *
416348 CTTTTAATGTAAAAGTACCTGA-TATCCCTAAAGGACTTAAAAAGACTAGAAATGGTGATAAACC
129 CCTTCGACGTAAAAGTACCTCAGTA-CCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACC
*
416412 TATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGGTTCTAAGA
193 TATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGGTTCTAAAA
* * *
416477 AATTACGAAAATGCCCCTATAGGTACACCTTCGACGTAAAAGTACCTCGGTAAC
258 AATTACGAAAATGCCCCTATAGGTATACCTTCGACGTAAAAGTACCCCGGCAAC
* ** *
416531 CCTAAAGGACCA-AAAGAGACTA-AAGAAGGGATGAACCTATCCTAAATGCCCATATTCGGCATA
1 CCTAAAGGA-CATAAAAAGACTAGAA-AAGGGATGAACCTATCCTAAATGCCCACCTTCGACATA
* ** * * * * *
416594 AAAGTAGACCCGGTGATGACGTAGGAGTTGGTTTTGGAAAAATTACGAAAATACCCTTAAGGGAT
64 AAAGCAGACCTAGTGACGACCTAGGAGTTGGTTCTAG-AAAATTACGAAAATACCCTTAGGGGAT
* *
416659 ACCTTCGATGTAAAAGTATCTCAGTACCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACC
128 ACCTTCGACGTAAAAGTACCTCAGTACCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACC
* * * * * * *
416724 TCTCCTAAATGCCTACCTTCGGCATAAAAGCAGACCCGGTGATAACCTAAGACTCAGTTTTAAAA
193 TATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGGTTCTAAAA
* * * * *
416789 AATTACGAAAATACCCCTATGGGTATACCTTCGACATGAAAGTACCCCAGCAAC
258 AATTACGAAAATGCCCCTATAGGTATACCTTCGACGTAAAAGTACCCCGGCAAC
* * * * *
416843 CCTAAAAGACATAAAAAGAATAAAAAAAGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
1 CCTAAAGGACATAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGACATAAA
** * * *
416908 AGTGGACCTAGTGACGACCTAGGAGTTAGTTCTAGAAAAATTATGAAAATGCCCTTAGGGGATAC
66 AGCAGACCTAGTGACGACCTAGGAGTTGGTTCTAG-AAAATTACGAAAATACCCTTAGGGGATAC
* * * * * *
416973 CTTCGGCGTGAAAGTATCTCAGTACCTTAAAGGAATTAAAAAGATTAGAAATGGTGATGAACCTA
130 CTTCGACGTAAAAGTACCTCAGTACCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACCTA
* * **
417038 TCCTAAATGCCCACCTTCGACATAAAAGCAAACCCAGTGACAACCTAGGA-TCGGTTCTAGGAAA
195 TCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGGTTCTAAAAAA
* *
417102 TTACGAAAATGCCTCTATAAGTATACCTTCGACGTAAAAGTACCCCGGCAAC
260 TTACGAAAATGCCCCTATAGGTATACCTTCGACGTAAAAGTACCCCGGCAAC
** *
417154 CCTAAAGGACATAAAAAGACTAGAAAAGCAATGAACCTATCCTAAATGCCCACCTTCAACATAAA
1 CCTAAAGGACATAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGACATAAA
* * * * ** *
417219 AGCAGACCTGGTGACAACCTAAGACTTTATTCTAGAAAATTACGAAAATA-CCTCTATGGGTATA
66 AGCAGACCTAGTGACGACCTAGGAGTTGGTTCTAGAAAATTACGAAAATACCCT-TA-GGGGATA
* * * * * * * * *
417283 CTTTGGACGTAAAAGTACCTTAGCAAGCTTAGAGGACTTAAAAAGACTAGAAA--ATGCTGAACC
129 CCTTCGACGTAAAAGTACCTCAG-TACCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACC
* * * * * *
417346 TATCCTAAATACCCATCTTCGGCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTTTAAAA
193 TATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGGTTCTAAAA
* * * * * *
417411 AATTATGAAAATACCCTTA-AGGGATACTTTCGACGTGAAAGT
258 AATTACGAAAATGCCCCTATAGGTATACCTTCGACGTAAAAGT
417453 GCTCGGAGAC
Statistics
Matches: 785, Mismatches: 125, Indels: 25
0.84 0.13 0.03
Matches are distributed among these distances:
309 3 0.00
310 92 0.12
311 270 0.34
312 416 0.53
313 4 0.01
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (311 bp):
CCTAAAGGACATAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGACATAAA
AGCAGACCTAGTGACGACCTAGGAGTTGGTTCTAGAAAATTACGAAAATACCCTTAGGGGATACC
TTCGACGTAAAAGTACCTCAGTACCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACCTAT
CCTAAATGCCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGGTTCTAAAAAAT
TACGAAAATGCCCCTATAGGTATACCTTCGACGTAAAAGTACCCCGGCAAC
Found at i:418272 original size:128 final size:127
Alignment explanation
Indices: 417959--418279 Score: 384
Period size: 128 Copynumber: 2.5 Consensus size: 127
417949 TACTGAAAAA
* * *
417959 TTTGAAATCTTTTAATACCCCTACAAATA-TCTATAGAATATAAAAGATTAAAAACAATTAATAT
1 TTTGAAATCTTTT-ATACCCCTACAGATACCCTA-AGAATATAAAAGATTAAAAATAATTAATAT
418023 TTATTTATTTTTAGAAAAAAAAATCATTTCTTACCTTAATGGATACCCGAAAAGATACGAAAAGT
64 TTATTTATTTTTAG--AAAAAAATCATTTCTTACCTTAATGGATACCCGAAAAGATACGAAAAGT
418088 T
127 T
* *
418089 TTTAAAATCTTTTATACCCCTAC-GAATACCCATAAGAATATAAAAGACTTGAAAATAATTGAA-
1 TTTGAAATCTTTTATACCCCTACAG-ATACCC-TAAGAATATAAAAGA-TTAAAAATAATT-AAT
* * *
418152 ATTTATTTGTGTTTT-G-AAAAAATCGTTT-TGTACCTTAATGGATACCCGAAAAGATATGAAAA
62 ATTTATTTAT-TTTTAGAAAAAAATCATTTCT-TACCTTAATGGATACCCGAAAAGATACGAAAA
418214 GTT
125 GTT
* * * *
418217 TTTGAAATCTTTTATACTCTTACAGATACCCGTAAGAATATAAATGATTAAAAAATGATTAAT
1 TTTGAAATCTTTTATACCCCTACAGATACCC-TAAGAATATAAAAGATT-AAAAATAATTAAT
418280 GTTTGTTTTA
Statistics
Matches: 166, Mismatches: 15, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
127 5 0.03
128 93 0.56
129 14 0.08
130 26 0.16
131 22 0.13
132 6 0.04
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (127 bp):
TTTGAAATCTTTTATACCCCTACAGATACCCTAAGAATATAAAAGATTAAAAATAATTAATATTT
ATTTATTTTTAGAAAAAAATCATTTCTTACCTTAATGGATACCCGAAAAGATACGAAAAGTT
Found at i:419922 original size:18 final size:19
Alignment explanation
Indices: 419901--419936 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
419891 CAAAAACGCA
419901 TGAAAA-TGAATGAATATT
1 TGAAAACTGAATGAATATT
*
419919 TGAAAACTGAATTAATAT
1 TGAAAACTGAATGAATAT
419937 GAATCAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.03, G:0.14, T:0.33
Consensus pattern (19 bp):
TGAAAACTGAATGAATATT
Found at i:420272 original size:162 final size:163
Alignment explanation
Indices: 419875--420363 Score: 585
Period size: 168 Copynumber: 3.0 Consensus size: 163
419865 AAAATAGGGA
* * * * * *
419875 TTTCAAAGAAAAAATTCAAAAACGCATGAAAATGAATGAATATTTGAAAACTGAATTAATATG-A
1 TTTCAAGGAAAAAATTAAAAAATGCATGAAAATGAATGAATTTTTTAAAACTAAATTAATATGAA
* * * * *
419939 ATCAAATGATGATGTTTGATGACTTATAAAAATTGAAAACCGAGAAAACTCCCCTCGAAGAAATT
66 AT-AAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAA-TCCCCTCGAAAAAATT
* *
420004 TACAGAGTAGAAAACACCGTATTTAGGAAAAATGAAAG
129 TACGGAGTAGAAAACATCGTATTTA--AAAAA-GAAAG
* *
420042 TTTCAGGGAAAAAATTAAAAAAACT-CATGAAAATGAATGAA-TTTTTAAAAGCTCAATTAATAT
1 TTTCAAGGAAAAAATT-AAAAAA-TGCATGAAAATGAATGAATTTTTTAAAA-CTAAATTAATAT
* *
420105 GAAATAAATAATGATGTTTGATGAATTTTAAAAAATGAAAACCAAGAAAATCCCCTTGAAAAAAT
63 GAAATAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAATCCCCTCGAAAAAAT
420170 TTACGGAGTAGAAAACATCGTATTTTAAAAAA-AAAG
128 TTACGGAGTAGAAAACATCGTA-TTTAAAAAAGAAAG
* *
420206 TTTCAAGGAAAAAATT-AAAAATGAATGAAAATGATTGAATTTTTTAAAACTAAATTAATATGAA
1 TTTCAAGGAAAAAATTAAAAAATGCATGAAAATGAATGAATTTTTTAAAACTAAATTAATATGAA
* * ** *
420270 ATAAATAATGATATTTGATGAATTTTAAAAATTTAAAATTAATAAAAATCCTCC-CGAAAAAATT
66 ATAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCAA-GAAAATCC-CCTCGAAAAAATT
* * *
420334 CACGGAGTAGAAAATATCGTAATTTGAAAA
129 TACGGAGTAGAAAACATCGT-ATTTAAAAA
420364 TATGAGGAAT
Statistics
Matches: 282, Mismatches: 30, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
161 1 0.00
162 70 0.25
163 50 0.18
164 22 0.08
166 5 0.02
167 54 0.19
168 77 0.27
169 3 0.01
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.28
Consensus pattern (163 bp):
TTTCAAGGAAAAAATTAAAAAATGCATGAAAATGAATGAATTTTTTAAAACTAAATTAATATGAA
ATAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAATCCCCTCGAAAAAATTTA
CGGAGTAGAAAACATCGTATTTAAAAAAGAAAG
Found at i:422873 original size:4 final size:4
Alignment explanation
Indices: 422866--422936 Score: 51
Period size: 4 Copynumber: 18.2 Consensus size: 4
422856 TTTAACATTT
* * * *
422866 ATAA ATAA ATAA ATAA AGTAT ATAT ATAT ATAT A-AA AT-A AT-A AT-A
1 ATAA ATAA ATAA ATAA A-TAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
*
422911 ATAA TAAAA ATAA ATAA ATAA ATAA A
1 ATAA -ATAA ATAA ATAA ATAA ATAA A
422937 GAAAAAAACT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
3 11 0.19
4 42 0.71
5 6 0.10
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (4 bp):
ATAA
Found at i:423009 original size:14 final size:14
Alignment explanation
Indices: 422990--423193 Score: 119
Period size: 14 Copynumber: 14.0 Consensus size: 14
422980 CATATTTTCA
422990 TACATTTCATGCAT
1 TACATTTCATGCAT
423004 TACATTTCATGCA-
1 TACATTTCATGCAT
* * *
423017 TGCATTTCACGTAAT
1 TACATTTCATG-CAT
*
423032 GTTCATTTCATGCATT
1 -TACATTTCATGCA-T
*
423048 TTCATTTCATGCAT
1 TACATTTCATGCAT
*
423062 TGCATTTCATGCA-
1 TACATTTCATGCAT
* *
423075 TGCATTTCACAT-AATT
1 TACATTT--CATGCA-T
*
423091 TTCATTTCATGCAT
1 TACATTTCATGCAT
*
423105 GTCATGCATTTCATACAT
1 -T-A--CATTTCATGCAT
423123 TACATTTCATGCA-
1 TACATTTCATGCAT
* * *
423136 TGCATTTCACGTAAT
1 TACATTTCATG-CAT
*
423151 GTTCATTTCATGCAT
1 -TACATTTCATGCAT
* * *
423166 TTCTTTTCGTGCAT
1 TACATTTCATGCAT
423180 TACATTTCATGCAT
1 TACATTTCATGCAT
423194 GTTTTCTTTC
Statistics
Matches: 150, Mismatches: 24, Indels: 32
0.73 0.12 0.16
Matches are distributed among these distances:
13 25 0.17
14 66 0.44
15 21 0.14
16 26 0.17
17 1 0.01
18 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (14 bp):
TACATTTCATGCAT
Found at i:423041 original size:29 final size:28
Alignment explanation
Indices: 423006--423165 Score: 146
Period size: 29 Copynumber: 5.4 Consensus size: 28
422996 TCATGCATTA
423006 CATTTCATGCATGCATTTCACGTAATGTT
1 CATTTCATGCATGCATTTCACGTAAT-TT
* * * *
423035 CATTTCATGCATTTTCATTTCATG-CATTG
1 CATTTCATGCA--TGCATTTCACGTAATTT
*
423064 CATTTCATGCATGCATTTCACATAATTTT
1 CATTTCATGCATGCATTTCACGTAA-TTT
*
423093 CATTTCATGCATGTCATGCATTTCA--TACATTA
1 CA-TT--T-CATG-CATGCATTTCACGTA-ATTT
423125 CATTTCATGCATGCATTTCACGTAATGTT
1 CATTTCATGCATGCATTTCACGTAAT-TT
423154 CATTTCATGCAT
1 CATTTCATGCAT
423166 TTCTTTTCGT
Statistics
Matches: 107, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
27 19 0.18
28 7 0.07
29 43 0.40
30 4 0.04
31 11 0.10
32 7 0.07
33 5 0.05
34 11 0.10
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (28 bp):
CATTTCATGCATGCATTTCACGTAATTT
Found at i:423196 original size:43 final size:43
Alignment explanation
Indices: 422992--423196 Score: 152
Period size: 43 Copynumber: 4.7 Consensus size: 43
422982 TATTTTCATA
* *
422992 CATTTCATGCATTACATTTCATGCATG--CATTTCACGTAATGTT
1 CATTTCATGCATTACATTTCATGCATGTTCATTTCATG-CAT-TT
* * *
423035 CATTTCATGCATTTTCATTTCATGCAT-TGCATTTCATGCA-TG
1 CATTTCATGCA-TTACATTTCATGCATGTTCATTTCATGCATTT
* * * *
423077 CATTTCACAT-AATTTTCATTTCATGCATGTCATGCATTTCATACATTA
1 CATTT--CATGCA-TTACATTTCATGCATGT--T-CATTTCATGCATTT
* * *
423125 CATTTCATGCA-TGCATTTCACGTAATGTTCATTTCATGCATTT
1 CATTTCATGCATTACATTTCATG-CATGTTCATTTCATGCATTT
* *
423168 CTTTTCGTGCATTACATTTCATGCATGTT
1 CATTTCATGCATTACATTTCATGCATGTT
423197 TTCTTTCATG
Statistics
Matches: 130, Mismatches: 19, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
42 6 0.05
43 54 0.42
44 29 0.22
45 17 0.13
46 7 0.05
47 11 0.08
48 6 0.05
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (43 bp):
CATTTCATGCATTACATTTCATGCATGTTCATTTCATGCATTT
Found at i:423796 original size:60 final size:61
Alignment explanation
Indices: 423723--423882 Score: 191
Period size: 63 Copynumber: 2.6 Consensus size: 61
423713 AAGGAGAGAA
* * * *
423723 CAGAACTGAAACAAGCCGAAAAAAGACAAAACAGCAAAAGAA-AGAGAAAGCAAGAAAAA-
1 CAGAACCGAAACAAGCAGAAAAAAGACAAAACAGCAAAAAAAGAGAGAAAACAAGAAAAAT
* *
423782 CTAGAACCGAAACAAGCAGAAAAAAGACGAAACAGAAAAAAAAAAGAGAGAAAACAAGAAAAAT
1 C-AGAACCGAAACAAGCAGAAAAAAGACAAAACAG--CAAAAAAAGAGAGAAAACAAGAAAAAT
* *
423846 CAGAACCGAAACAAGAAGAAAACAA-AGAAAACAGCAA
1 CAGAACCGAAACAAGCAGAAAA-AAGACAAAACAGCAA
423883 CCGAAACAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
59 1 0.01
60 30 0.35
61 2 0.02
62 6 0.07
63 43 0.51
64 3 0.04
ACGTcount: A:0.66, C:0.15, G:0.17, T:0.02
Consensus pattern (61 bp):
CAGAACCGAAACAAGCAGAAAAAAGACAAAACAGCAAAAAAAGAGAGAAAACAAGAAAAAT
Found at i:423866 original size:32 final size:32
Alignment explanation
Indices: 423721--423896 Score: 122
Period size: 32 Copynumber: 5.7 Consensus size: 32
423711 AAAAGGAGAG
* **
423721 AACAGAACTGAAACAAGCCGAAAA-AAGACAA
1 AACAGAACCGAAACAAGAAGAAAACAAGACAA
*
423752 AACAGCAA---AAGA-AAG-AGAAAGCAAGA-AA
1 AACAG-AACCGAA-ACAAGAAGAAAACAAGACAA
* *
423780 AACTAGAACCGAAACAAGCAGAAAA-AAGACGA
1 AAC-AGAACCGAAACAAGAAGAAAACAAGACAA
** *
423812 AACAGAA-AAAAAAAAGAGAGAAAACAAGA-AA
1 AACAGAACCGAAACAAGA-AGAAAACAAGACAA
*
423843 AATCAGAACCGAAACAAGAAGAAAACAA-AGAA
1 AA-CAGAACCGAAACAAGAAGAAAACAAGACAA
*
423875 AACAGCAACCGAAACAAAAAGA
1 AACAG-AACCGAAACAAGAAGA
423897 GAAAAGCAGA
Statistics
Matches: 116, Mismatches: 13, Indels: 31
0.73 0.08 0.19
Matches are distributed among these distances:
28 11 0.09
29 11 0.09
30 8 0.07
31 31 0.27
32 48 0.41
33 7 0.06
ACGTcount: A:0.66, C:0.15, G:0.17, T:0.02
Consensus pattern (32 bp):
AACAGAACCGAAACAAGAAGAAAACAAGACAA
Found at i:425070 original size:50 final size:51
Alignment explanation
Indices: 424995--425113 Score: 186
Period size: 50 Copynumber: 2.4 Consensus size: 51
424985 ATTTTTAACG
*
424995 AGATGTATCGATACATTTTTTAATGTATCGATACATTCTGAC-TGTTACCT
1 AGATGTATCGATACATTTTTCAATGTATCGATACATTCTGACTTGTTACCT
* * * *
425045 AGATGTATTGATACATTTTTCAATGTATCGATATATTCTGTCTTTTTACCT
1 AGATGTATCGATACATTTTTCAATGTATCGATACATTCTGACTTGTTACCT
425096 AGATGTATCGATACATTT
1 AGATGTATCGATACATTT
425114 AGTTAAAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 38 0.61
51 24 0.39
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (51 bp):
AGATGTATCGATACATTTTTCAATGTATCGATACATTCTGACTTGTTACCT
Found at i:428333 original size:42 final size:42
Alignment explanation
Indices: 428287--428516 Score: 184
Period size: 42 Copynumber: 5.5 Consensus size: 42
428277 GTTCTCATCG
* * *
428287 GCTTTGACCCGAGACACTTCTTCACCCTTTGTCTGCCTTTAA
1 GCTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGCCTTTCA
* * ** * *
428329 GCTTTGACTTGAGAGACTCCTTCACCCTTTGTCTATCTGTCG
1 GCTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGCCTTTCA
** * * *
428371 GCTTTGATTTGGGAGACTCCTTCACCCTTTGTCTGCAC-GTCA
1 GCTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGC-CTTTCA
* * * * *
428413 GCTTTAACCTGGGAGACTTCTTTACCCTTTGTCTGCCCATTGA
1 GCTTTGACCTGAGAGACTTCTTCACCCTTTGTCTG-CCTTTCA
* *
428456 -CTTTGACCT--GAGACTTTTTCACCCTTTGTTTG-CTTGTCA
1 GCTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGCCTT-TCA
*
428495 GCTTT-AACTCGAGAGACTTCTT
1 GCTTTGACCT-GAGAGACTTCTT
428517 TTCTTTTGTT
Statistics
Matches: 151, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
38 2 0.01
39 5 0.03
40 24 0.16
42 116 0.77
43 4 0.03
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.38
Consensus pattern (42 bp):
GCTTTGACCTGAGAGACTTCTTCACCCTTTGTCTGCCTTTCA
Found at i:428649 original size:42 final size:42
Alignment explanation
Indices: 428507--428650 Score: 119
Period size: 42 Copynumber: 3.4 Consensus size: 42
428497 TTTAACTCGA
* * *
428507 GAGACTTCTTT-TCTTTTGTTTGCCCATCGGCTCAGGCTTGG
1 GAGACTTCTTTATCTTTTATTTGCCCATCAGCTCAGACTTGG
* ** * * * ** * *
428548 GAGACTTCTTTACCCCTTATTTACTCATCAACTTTGACTCGA
1 GAGACTTCTTTATCTTTTATTTGCCCATCAGCTCAGACTTGG
* * *
428590 GAGATTTTTTTTATCTTTTATTTGCCCGTCAGCTCAGACTTGG
1 GAGA-CTTCTTTATCTTTTATTTGCCCATCAGCTCAGACTTGG
*
428633 GAGACTTTTTTATCTTTT
1 GAGACTTCTTTATCTTTT
428651 GTCTACCTGT
Statistics
Matches: 74, Mismatches: 27, Indels: 3
0.71 0.26 0.03
Matches are distributed among these distances:
41 11 0.15
42 34 0.46
43 29 0.39
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (42 bp):
GAGACTTCTTTATCTTTTATTTGCCCATCAGCTCAGACTTGG
Found at i:428676 original size:42 final size:43
Alignment explanation
Indices: 428630--428737 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 43
428620 AGCTCAGACT
428630 TGGGAGACTTTTTTATCTTTTGTCT-ACCTGTCGACTTTGA-CC
1 TGGGAGACTTTTTTATCTTTTGTCTGACCT-TCGACTTTGATCC
* * * * *
428672 TGGGAGACTTTTTCACCCTTTGTCTGCCCTTCGGCTTTGATCC
1 TGGGAGACTTTTTTATCTTTTGTCTGACCTTCGACTTTGATCC
*
428715 -GGGAGAATTTCTTTATCTTTTGT
1 TGGGAGACTTT-TTTATCTTTTGT
428738 TTGTCGGTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
42 40 0.74
43 14 0.26
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.44
Consensus pattern (43 bp):
TGGGAGACTTTTTTATCTTTTGTCTGACCTTCGACTTTGATCC
Found at i:428837 original size:43 final size:43
Alignment explanation
Indices: 428767--428926 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
428757 CGGGAGATTT
* *
428767 CTTTATCTTTCATCTGCCAGTCAGCTTAGACCT-GGAAGACCTC
1 CTTTATCTTTCGTCTGCCAGTCAGCTTAGACCTAAG-AGACCTC
* * *
428810 CTTTATCTTTCGTCTGTTC-GTCGGCTTAGACCTAAGAGACTTC
1 CTTTATCTTTCGTCTG-CCAGTCAGCTTAGACCTAAGAGACCTC
* * * * *
428853 CTTTATCTTTCGACTGCCTGTTAGCTTAGATCC-GAGA-AACTC
1 CTTTATCTTTCGTCTGCCAGTCAGCTTAGA-CCTAAGAGACCTC
* * * **
428895 TTTTATCTTGCGTTTGCTTGTCAGCTTAGACC
1 CTTTATCTTTCGTCTGCCAGTCAGCTTAGACC
428927 CGGGAGATTT
Statistics
Matches: 95, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
42 28 0.29
43 61 0.64
44 4 0.04
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (43 bp):
CTTTATCTTTCGTCTGCCAGTCAGCTTAGACCTAAGAGACCTC
Found at i:429734 original size:23 final size:23
Alignment explanation
Indices: 429708--429757 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
429698 TGTATAAATT
*
429708 TATTTTTTTATTTTAAAAATCAA
1 TATTCTTTTATTTTAAAAATCAA
429731 TATTCTTTTATTTTAAAAATCAA
1 TATTCTTTTATTTTAAAAATCAA
429754 TATT
1 TATT
429758 GAGTTCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTCTTTTATTTTAAAAATCAA
Found at i:430249 original size:22 final size:24
Alignment explanation
Indices: 430224--430268 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
430214 TCATTTTAAT
*
430224 TTTTTTTTAAA-T-TCATAAAATA
1 TTTTTATTAAACTCTCATAAAATA
430246 TTTTTATTAAACTCTCATAAAAT
1 TTTTTATTAAACTCTCATAAAAT
430269 CAGTTTTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 1 0.05
24 9 0.45
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTTATTAAACTCTCATAAAATA
Found at i:431097 original size:2 final size:2
Alignment explanation
Indices: 431090--431134 Score: 56
Period size: 2 Copynumber: 22.5 Consensus size: 2
431080 TTTCTTGTTA
* *
431090 AT AT AT AT AT CT GA- AT AT AT AT AT CT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
431132 AT A
1 AT A
431135 ATGTTTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:431132 original size:14 final size:14
Alignment explanation
Indices: 431090--431134 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
431080 TTTCTTGTTA
431090 ATATATATATCTGA-
1 ATATATATATCT-AT
431104 ATATATATATCTAT
1 ATATATATATCTAT
*
431118 ATATATATATATAT
1 ATATATATATCTAT
431132 ATA
1 ATA
431135 ATGTTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 1 0.03
14 28 0.97
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (14 bp):
ATATATATATCTAT
Found at i:437885 original size:17 final size:17
Alignment explanation
Indices: 437863--437898 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
437853 AACAAAACCA
*
437863 TATAAAAACTTTGATAT
1 TATAAAAACTTCGATAT
*
437880 TATAAAAGCTTCGATAT
1 TATAAAAACTTCGATAT
437897 TA
1 TA
437899 GACATGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (17 bp):
TATAAAAACTTCGATAT
Found at i:440326 original size:148 final size:150
Alignment explanation
Indices: 440106--440414 Score: 381
Period size: 150 Copynumber: 2.1 Consensus size: 150
440096 ATAACTTAGA
* * ** * * *
440106 GGACTTGGAAAGGATAAAAACAAACCCACTGTTAATTCATACCTTCGGCGTAGAAGTGGACTTGA
1 GGACTTGAAAAAGATAAAAACAAACCCACTCCTAATTCATACCTTCGACATAGAAGTGGACTCGA
* * * *
440171 TAG-TTT-TAGGACTAGG-TTTCAAGAAAAAGGCTAACATATCCCTCAGGTTTACCAACGACTTA
66 TAGTTTTATACGACTAGGCTTT-AAGAAAAAGGCTAAAATATCCCTAAGGTCTACCAACGACTTA
* *
440233 GAAGAGCCCGGTGATCATAAT
130 GAAGAGCCCAGTGATCATAAG
440254 GGACTTGAAAAAGATAAAAACAAACCCACTCCTAATTCATACCTTCGACATAGAAGTGGACTCGA
1 GGACTTGAAAAAGATAAAAACAAACCCACTCCTAATTCATACCTTCGACATAGAAGTGGACTCGA
* ** * * * *
440319 TTGTTTTATACGACTAGGCTTTGGGGAAAATGCTAAAATATCTCTAAGGTCTACCATCGACTTAG
66 TAGTTTTATACGACTAGGCTTTAAGAAAAAGGCTAAAATATCCCTAAGGTCTACCAACGACTTAG
* *
440384 AAGTGCCCAGTGATCCTAAG
131 AAGAGCCCAGTGATCATAAG
*
440404 GGACTTCAAAA
1 GGACTTGAAAA
440415 GGGTTATAGA
Statistics
Matches: 135, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
148 60 0.44
149 3 0.02
150 69 0.51
151 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (150 bp):
GGACTTGAAAAAGATAAAAACAAACCCACTCCTAATTCATACCTTCGACATAGAAGTGGACTCGA
TAGTTTTATACGACTAGGCTTTAAGAAAAAGGCTAAAATATCCCTAAGGTCTACCAACGACTTAG
AAGAGCCCAGTGATCATAAG
Found at i:440713 original size:155 final size:155
Alignment explanation
Indices: 440424--440743 Score: 351
Period size: 155 Copynumber: 2.1 Consensus size: 155
440414 AGGGTTATAG
* * * * *
440424 ATGGGATGAACCTATCTTAAATACTCACTTTTGGCATGAAAGCATCCGACTAATAACCTAGGACT
1 ATGGGATGAACCTATCCTAAATACTCACCTTTAGCATAAAAGCATCCGACTAATAACCTAAGACT
* * * * * *
440489 TAATTCTAGAAAATTATGCAAATGCCTCTAAGGTATACCTTCGATGTGAAAGTATTCTGACAGCA
66 TAATTCTAAAAAATTATGAAAATCCCTCTAAGGTATACCTTCGACGTGAAAGTATCCAGACAGCA
440554 CTAATGAACACTAAAATGATCGTAA
131 CTAATGAACACTAAAATGATCGTAA
* * * **
440579 ATGGGATGAACCTATCCTAAATGCTCACCTTTAGCGTAAAAGCATCC-AGTGGTAACCTAAGACT
1 ATGGGATGAACCTATCCTAAATACTCACCTTTAGCATAAAAGCATCCGACTAATAACCTAAGACT
** * *
440643 TGGTTCTAAAAAATTCATGAAAATACCCT-TAGGGTATACCTTCGACGTGAAAGTGTCCCAGTA-
66 TAATTCTAAAAAATT-ATGAAAAT-CCCTCTAAGGTATACCTTCGACGTGAAAGTAT-CCAG-AC
* * * *
440706 A-CCCTAATGTACCCTAAAATGATTGTAA
127 AGCACTAATGAACACTAAAATGATCGTAA
*
440734 AAGGGATGAA
1 ATGGGATGAA
440744 TTTTGCCCTA
Statistics
Matches: 136, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
154 25 0.18
155 104 0.76
156 6 0.04
157 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (155 bp):
ATGGGATGAACCTATCCTAAATACTCACCTTTAGCATAAAAGCATCCGACTAATAACCTAAGACT
TAATTCTAAAAAATTATGAAAATCCCTCTAAGGTATACCTTCGACGTGAAAGTATCCAGACAGCA
CTAATGAACACTAAAATGATCGTAA
Found at i:442410 original size:35 final size:36
Alignment explanation
Indices: 442371--442510 Score: 149
Period size: 35 Copynumber: 3.7 Consensus size: 36
442361 ACTTCAAATA
442371 GGAATGAAAAGA-GTTTGACCAAGTATAGTCAAACG
1 GGAATGAAAAGATGTTTGACCAAGTATAGTCAAACG
* *
442406 GGAATGAAAAGATGTTTGACCAAGGCGAGAACCATTACGTCAAATG
1 GGAATGAAAAGATGTTTGACC-A----AG---TA-TA-GTCAAACG
*
442452 GTAATGAAAAGA-GTTTGACCAAGTATAGTCAAACG
1 GGAATGAAAAGATGTTTGACCAAGTATAGTCAAACG
442487 GGAATGAAAAGATGTTTGACCAAG
1 GGAATGAAAAGATGTTTGACCAAG
442511 GCGAGAACCA
Statistics
Matches: 87, Mismatches: 6, Indels: 23
0.75 0.05 0.20
Matches are distributed among these distances:
35 30 0.34
36 21 0.24
37 2 0.02
40 2 0.02
41 2 0.02
44 2 0.02
45 10 0.11
46 18 0.21
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (36 bp):
GGAATGAAAAGATGTTTGACCAAGTATAGTCAAACG
Found at i:442410 original size:126 final size:125
Alignment explanation
Indices: 442183--442474 Score: 410
Period size: 126 Copynumber: 2.3 Consensus size: 125
442173 AACCAGGGCT
* * * * * *
442183 GAACCATCACGTCAAAT-GAAGATGATAAGAGTTTGACTAAGGCTAAACCATCATGTTAAATGGT
1 GAACCATTACGTCAAATGGTA-ATGAAAAGAGTTTGACCAAGGCAAAACCATCATGTCAAATGGT
* **
442247 AATGAAAAGAGTTTGACCAAGTATAGTCAAATAGGAATGAAAAGATGTTTGACCGGGGCAA
65 AATGAAAAGAGTTTGACCAAGTATAGTCAAACAGGAATGAAAAGATGTTTGACCAAGGCAA
* *
442308 GAACCATTACGTCAAATGGTAATGAAAAAAGTTTGACCATGGCAAGAACCATCACT-TCAAATAG
1 GAACCATTACGTCAAATGGTAATGAAAAGAGTTTGACCAAGGCAA-AACCATCA-TGTCAAAT-G
* *
442372 G-AATGAAAAGAGTTTGACCAAGTATAGTCAAACGGGAATGAAAAGATGTTTGACCAAGGCGA
63 GTAATGAAAAGAGTTTGACCAAGTATAGTCAAACAGGAATGAAAAGATGTTTGACCAAGGCAA
442434 GAACCATTACGTCAAATGGTAATGAAAAGAGTTTGACCAAG
1 GAACCATTACGTCAAATGGTAATGAAAAGAGTTTGACCAAG
442475 TATAGTCAAA
Statistics
Matches: 148, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
125 35 0.24
126 110 0.74
127 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (125 bp):
GAACCATTACGTCAAATGGTAATGAAAAGAGTTTGACCAAGGCAAAACCATCATGTCAAATGGTA
ATGAAAAGAGTTTGACCAAGTATAGTCAAACAGGAATGAAAAGATGTTTGACCAAGGCAA
Found at i:442423 original size:81 final size:81
Alignment explanation
Indices: 442328--442898 Score: 454
Period size: 81 Copynumber: 6.7 Consensus size: 81
442318 GTCAAATGGT
* * * *
442328 AATGAAAA-AAGTTTGACCATGGCAAGAACCATCACTTCAAATAGGAATGAAAAGAGTTTGACCA
1 AATGAAAAGATGTTTGACCAAGGCGAGAACCATCACATCAAATAGGAATGAAAAGAGTTTGACCA
* *
442392 AGTATAGTCAAACGGG
66 AGCATAGTCAAACAGG
* *
442408 AATGAAAAGATGTTTGACCAAGGCGAGAACCATTACGTCAAAT-GGTAATGAAAAGAGTTTGACC
1 AATGAAAAGATGTTTGACCAAGGCGAGAACCATCACATCAAATAGG-AATGAAAAGAGTTTGACC
* *
442472 AAGTATAGTCAAACGGG
65 AAGCATAGTCAAACAGG
* *
442489 AATGAAAAGATGTTTGACCAAGGCGAGAACCATTACGTCAAAT-GGTAATGAAAAGAGTTTGACC
1 AATGAAAAGATGTTTGACCAAGGCGAGAACCATCACATCAAATAGG-AATGAAAAGAGTTTGA-C
* *
442553 AGGACAAGAACCATCACTCAAACAAG
64 ----CAAG---CAT-AGTCAAACAGG
* * * *
442579 AATGAAAAGATGTTTGACCAGGGTGAGAACCATCACATCAAATAAGAAATGAAAAAAGTTTGACC
1 AATGAAAAGATGTTTGACCAAGGCGAGAACCATCACATCAAAT-AGGAATGAAAAGAGTTTGACC
*
442644 AGGATGAGAACCATCACATCAAATC-GG
65 ---A--AG---CAT-A-GTCAAA-CAGG
* * * *
442671 ATATGAAAAGA-GTTTGACGAAAGTGAGAACCATCACATCAAATAGGAATGAAAAGACATTTGAC
1 A-ATGAAAAGATGTTTGACCAAGGCGAGAACCATCACATCAAATAGGAATGAAAAGA-GTTTGAC
* *
442735 TAGGGCGAGAACCATTATGTCAAATAGG
64 -----C---AAGCA-TA-GTCAAACAGG
* **
442763 AATGAAAAGATGTTTGA-CAAGGGCGAGAACCATTATGTCAAATAGGAATGAAAAGAGTTTGACC
1 AATGAAAAGATGTTTGACCAA-GGCGAGAACCATCACATCAAATAGGAATGAAAAGAGTTTGACC
* *
442827 AGGTATAGTCAAACAGG
65 AAGCATAGTCAAACAGG
* * * *
442844 AATGAAAAAATGTTTGA-CTAGAACGAGAACCATCACATCAAACAGGAATGAAAAG
1 AATGAAAAGATGTTTGACCAAG-GCGAGAACCATCACATCAAATAGGAATGAAAAG
442899 GTATTTGACA
Statistics
Matches: 412, Mismatches: 47, Indels: 63
0.79 0.09 0.12
Matches are distributed among these distances:
80 11 0.03
81 181 0.44
82 3 0.01
83 2 0.00
86 6 0.01
89 3 0.01
90 48 0.12
91 53 0.13
92 90 0.22
93 11 0.03
95 1 0.00
97 3 0.01
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (81 bp):
AATGAAAAGATGTTTGACCAAGGCGAGAACCATCACATCAAATAGGAATGAAAAGAGTTTGACCA
AGCATAGTCAAACAGG
Found at i:442596 original size:207 final size:205
Alignment explanation
Indices: 442204--442598 Score: 614
Period size: 207 Copynumber: 1.9 Consensus size: 205
442194 TCAAATGAAG
* * * * *
442204 ATGATAAGAGTTTGACTAAGGCTAAACCATCATGTTAAATGGTAATGAAAAGAGTTTGACCAAGT
1 ATGAAAAGAGTTTGACCAAGGCGAAACCATCACGTCAAATGGTAATGAAAAGAGTTTGACCAAGT
* **
442269 ATAGTCAAATAGGAATGAAAAGATGTTTGACCGGGGCAAGAACCATTACGTCAAATGGTAATGAA
66 ATAGTCAAACAGGAATGAAAAGATGTTTGACCAAGGCAAGAACCATTACGTCAAATGGTAATGAA
* *
442334 AAAAGTTTGACCATGGCAAGAACCATCACTTCAAATAGGAATGAAAAGAGTTTGACCAAGTATAG
131 AAAAGTTTGACCATGGCAAGAACCATCACTTCAAACAAGAATGAAAAGAGTTTGACCAAGTATAG
442399 TCAAACGGGA
196 TCAAACGGGA
*
442409 ATGAAAAGATGTTTGACCAAGGCGAGAACCATTACGTCAAATGGTAATGAAAAGAGTTTGACCAA
1 ATGAAAAGA-GTTTGACCAAGGCGA-AACCATCACGTCAAATGGTAATGAAAAGAGTTTGACCAA
* *
442474 GTATAGTCAAACGGGAATGAAAAGATGTTTGACCAAGGCGAGAACCATTACGTCAAATGGTAATG
64 GTATAGTCAAACAGGAATGAAAAGATGTTTGACCAAGGCAAGAACCATTACGTCAAATGGTAATG
*
442539 AAAAGAGTTTGACCA-GGACAAGAACCATCAC-TCAAACAAGAATGAAAAGATGTTTGACCA
129 AAAAAAGTTTGACCATGG-CAAGAACCATCACTTCAAACAAGAATGAAAAGA-GTTTGACCA
442599 GGGTGAGAAC
Statistics
Matches: 172, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
205 8 0.05
206 32 0.19
207 132 0.77
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (205 bp):
ATGAAAAGAGTTTGACCAAGGCGAAACCATCACGTCAAATGGTAATGAAAAGAGTTTGACCAAGT
ATAGTCAAACAGGAATGAAAAGATGTTTGACCAAGGCAAGAACCATTACGTCAAATGGTAATGAA
AAAAGTTTGACCATGGCAAGAACCATCACTTCAAACAAGAATGAAAAGAGTTTGACCAAGTATAG
TCAAACGGGA
Found at i:442626 original size:46 final size:45
Alignment explanation
Indices: 442487--443090 Score: 541
Period size: 46 Copynumber: 13.4 Consensus size: 45
442477 TAGTCAAACG
* *
442487 GGAATGAAAAGATGTTTGACCAAGGCGAGAACCATTACGTCAAAT-
1 GGAATGAAAAGA-GTTTGACCAGGGCGAGAACCATCACGTCAAATA
* * *
442532 GGTAATGAAAAGAGTTTGACCAGGACAAGAACCATCAC-TCAAACA
1 GG-AATGAAAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAATA
* * *
442577 AGAATGAAAAGATGTTTGACCAGGGTGAGAACCATCACATCAAATAA
1 GGAATGAAAAGA-GTTTGACCAGGGCGAGAACCATCACGTCAAAT-A
* * ** * *
442624 GAAATGAAAAAAGTTTGACCAGGATGAGAACCATCACATCAAATC
1 GGAATGAAAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAATA
* ** * *
442669 GGATATGAAAAGAGTTTGACGAAAGTGAGAACCATCACATCAAATA
1 GGA-ATGAAAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAATA
* * * *
442715 GGAATGAAAAGACATTTGACTAGGGCGAGAACCATTATGTCAAATA
1 GGAATGAAAAGA-GTTTGACCAGGGCGAGAACCATCACGTCAAATA
* * *
442761 GGAATGAAAAGATGTTTGACAAGGGCGAGAACCATTATGTCAAATA
1 GGAATGAAAAGA-GTTTGACCAGGGCGAGAACCATCACGTCAAATA
* *
442807 GGAATGAAAAGAGTTTGACCA----G-G---TAT-A-GTCAAACA
1 GGAATGAAAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAATA
* * ** * *
442842 GGAATGAAAAAATGTTTGACTAGAACGAGAACCATCACATCAAACA
1 GGAATGAAAAGA-GTTTGACCAGGGCGAGAACCATCACGTCAAATA
* * *
442888 GGAATGAAAAG-GTATTTGACAAGGGTGAGAACCATCATGTCAAATA
1 GGAATGAAAAGAG--TTTGACCAGGGCGAGAACCATCACGTCAAATA
* * * *
442934 GGAAATGAAAAAAGTTTGACCAGGGCAAGAACTATCACGTCAAATT
1 GG-AATGAAAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAATA
* * * *
442980 GGATATGAAAAGAGTTTGACTAGGGTGAGAGCCATCACGTCAAATC
1 GGA-ATGAAAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAATA
* * * * *
443026 GAATATGAAAAGAGTTTGACCAAGGAGAGAACCATCATGTCAAACA
1 GGA-ATGAAAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAATA
*
443072 GTAATGAAAAGAGTTTGAC
1 GGAATGAAAAGAGTTTGAC
443091 TAGGTACAAT
Statistics
Matches: 465, Mismatches: 71, Indels: 46
0.80 0.12 0.08
Matches are distributed among these distances:
35 18 0.04
36 9 0.02
37 2 0.00
40 2 0.00
41 2 0.00
44 18 0.04
45 83 0.18
46 312 0.67
47 18 0.04
48 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (45 bp):
GGAATGAAAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAATA
Found at i:442933 original size:219 final size:219
Alignment explanation
Indices: 442626--443047 Score: 545
Period size: 219 Copynumber: 1.9 Consensus size: 219
442616 TCAAATAAGA
* *
442626 AATGAAAAAAGTTTGACCAGGATGAGAACCATCACATCAAATCGGATATGAAAAGAGTTTGACGA
1 AATGAAAAAAGTTTGACCAGAACGAGAACCATCACATCAAATCGGATATGAAAAGAGTTTGACGA
* * * *
442691 AAGTGAGAACCATCACATCAAATAGG-AATGAAAAGACA-TTTGACTAGGGCGAGAACCATTATG
66 AAGTGAGAACCATCACATCAAATAGGAAATGAAAA-A-AGTTTGACCAGGGCAAGAACCATCACG
* * *
442754 TCAAATAGGA-ATGAAAAGATGTTTGACAAGGGCGAGAACCATTATGTCAAATAGGA-ATGAAAA
129 TCAAATAGGATATGAAAAGA-GTTTGACAAGGGCGAGAACCATCACGTCAAATAGAATATGAAAA
442817 GAGTTTGACCAGGTATAGTCAAACAGG
193 GAGTTTGACCAGGTATAGTCAAACAGG
*
442844 AATGAAAAAATGTTTGACTAGAACGAGAACCATCACATCAAA-CAGGA-ATGAAAAG-GTATTTG
1 AATGAAAAAA-GTTTGACCAGAACGAGAACCATCACATCAAATC-GGATATGAAAAGAG--TTTG
* ** *
442906 AC-AAGGGTGAGAACCATCATGTCAAATAGGAAATGAAAAAAGTTTGACCAGGGCAAGAACTATC
62 ACGAA-AGTGAGAACCATCACATCAAATAGGAAATGAAAAAAGTTTGACCAGGGCAAGAACCATC
* * * * *
442970 ACGTCAAATTGGATATGAAAAGAGTTTGACTAGGGTGAGAGCCATCACGTCAAATCGAATATGAA
126 ACGTCAAATAGGATATGAAAAGAGTTTGACAAGGGCGAGAACCATCACGTCAAATAGAATATGAA
443035 AAGAGTTTGACCA
191 AAGAGTTTGACCA
443048 AGGAGAGAAC
Statistics
Matches: 176, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
217 1 0.01
218 22 0.12
219 118 0.67
220 35 0.20
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (219 bp):
AATGAAAAAAGTTTGACCAGAACGAGAACCATCACATCAAATCGGATATGAAAAGAGTTTGACGA
AAGTGAGAACCATCACATCAAATAGGAAATGAAAAAAGTTTGACCAGGGCAAGAACCATCACGTC
AAATAGGATATGAAAAGAGTTTGACAAGGGCGAGAACCATCACGTCAAATAGAATATGAAAAGAG
TTTGACCAGGTATAGTCAAACAGG
Done.