Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 7 of 228
Found at i:2495974 original size:17 final size:17
Alignment explanation
Indices: 2495952--2495991 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2495942 TTCCATTTTC
2495952 TCTTCTTCTTCTCTTAT
1 TCTTCTTCTTCTCTTAT
*
2495969 TCTTCTTTTTCTCTTAT
1 TCTTCTTCTTCTCTTAT
2495986 TCTTCT
1 TCTTCT
2495992 ACTGCCCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.68
Consensus pattern (17 bp):
TCTTCTTCTTCTCTTAT
Found at i:2496989 original size:16 final size:18
Alignment explanation
Indices: 2496955--2496992 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2496945 ATTCCTATTT
*
2496955 AAATAAAATATAATGGTA
1 AAATAAAATATAATAGTA
2496973 AAATAAAATA-AA-AGTA
1 AAATAAAATATAATAGTA
2496989 AAAT
1 AAAT
2496993 TCTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (18 bp):
AAATAAAATATAATAGTA
Found at i:2505272 original size:41 final size:39
Alignment explanation
Indices: 2505215--2505336 Score: 124
Period size: 41 Copynumber: 3.1 Consensus size: 39
2505205 CGACTTTGAG
2505215 TCGATGAGACACTGGGTGTCAATTTATTACTTCAGATTAA
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCAGATT-A
* * * *
2505255 TTCGATGAGGCACTGGGTGCCAA--T-TTACTTCGGTTTA
1 -TCGATGAGACACTGGGTGTCAATTTATTACTTCAGATTA
* ** *
2505292 GCCGATGAGACACTATGTGTCAATTTATTACTTCAAATTA
1 -TCGATGAGACACTGGGTGTCAATTTATTACTTCAGATTA
2505332 TCGAT
1 TCGAT
2505337 AAGGTACTGG
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
37 18 0.28
38 10 0.16
39 6 0.09
40 10 0.16
41 20 0.31
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTTATTACTTCAGATTA
Found at i:2505540 original size:21 final size:21
Alignment explanation
Indices: 2505514--2505558 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2505504 AGCTACTTGT
*
2505514 ATAGCAAGT-ATGAGATTTGAA
1 ATAGCAAGTGATGAGAATT-AA
2505535 ATAGCAAGTGATGAGAATTAA
1 ATAGCAAGTGATGAGAATTAA
2505556 ATA
1 ATA
2505559 TGTTATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (21 bp):
ATAGCAAGTGATGAGAATTAA
Found at i:2506093 original size:20 final size:22
Alignment explanation
Indices: 2506068--2506107 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2506058 GAATTATCGT
2506068 TTTGA-TATGTTTT-AATTGTA
1 TTTGATTATGTTTTGAATTGTA
*
2506088 TTTGATTGTGTTTTGAATTG
1 TTTGATTATGTTTTGAATTG
2506108 GTTGAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (22 bp):
TTTGATTATGTTTTGAATTGTA
Found at i:2514161 original size:3 final size:3
Alignment explanation
Indices: 2514153--2514188 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
2514143 AAACTTTGGG
*
2514153 TCT TCT TCT TCT TCT TCT TCT TC- TCT TCC TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
2514189 GCGTGTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:2514757 original size:31 final size:31
Alignment explanation
Indices: 2514722--2514799 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 31
2514712 TCAAAACTCG
* **
2514722 AAAAGAATAGAGACTAAAATTTATCAAATTT
1 AAAAGAATAAAGACTAAAATCGATCAAATTT
* *
2514753 AAAAGTATAAAGTCTAAAATCGATCAAA-TT
1 AAAAGAATAAAGACTAAAATCGATCAAATTT
* *
2514783 -AAAGAACAAGGACTAAA
1 AAAAGAATAAAGACTAAA
2514800 TCTAAAACTT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 13 0.34
30 2 0.05
31 23 0.61
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (31 bp):
AAAAGAATAAAGACTAAAATCGATCAAATTT
Found at i:2515289 original size:34 final size:34
Alignment explanation
Indices: 2515241--2515305 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
2515231 TTACTATTCA
2515241 ATTTAAAACAAAATAATAAT-ATTAATTTAAAATG
1 ATTTAAAACAAAATAA-AATAATTAATTTAAAATG
** *
2515275 ATTTAAAAGTAAATAAAATAATTAGTTTAAA
1 ATTTAAAACAAAATAAAATAATTAATTTAAA
2515306 TATATAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (34 bp):
ATTTAAAACAAAATAAAATAATTAATTTAAAATG
Found at i:2529508 original size:75 final size:75
Alignment explanation
Indices: 2529385--2529528 Score: 288
Period size: 75 Copynumber: 1.9 Consensus size: 75
2529375 CAATTGGTGC
2529385 GGTCAATATGGGCGAAGCTAAAAATTTATTTTAGAGGGGACCGAAATTGAACTATAAATTTTTTA
1 GGTCAATATGGGCGAAGCTAAAAATTTATTTTAGAGGGGACCGAAATTGAACTATAAATTTTTTA
2529450 AGATATGATA
66 AGATATGATA
2529460 GGTCAATATGGGCGAAGCTAAAAATTTATTTTAGAGGGGACCGAAATTGAACTATAAATTTTTTA
1 GGTCAATATGGGCGAAGCTAAAAATTTATTTTAGAGGGGACCGAAATTGAACTATAAATTTTTTA
2529525 AGAT
66 AGAT
2529529 TTTATCATAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (75 bp):
GGTCAATATGGGCGAAGCTAAAAATTTATTTTAGAGGGGACCGAAATTGAACTATAAATTTTTTA
AGATATGATA
Found at i:2531334 original size:21 final size:22
Alignment explanation
Indices: 2531308--2531353 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
2531298 AATCTATATA
2531308 TATACATGT-ATATTTATTTTT
1 TATACATGTAATATTTATTTTT
2531329 TATACATGTACATATTTATTTTT
1 TATACATGTA-ATATTTATTTTT
2531352 TA
1 TA
2531354 ACTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.39
23 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (22 bp):
TATACATGTAATATTTATTTTT
Found at i:2531719 original size:24 final size:24
Alignment explanation
Indices: 2531659--2531719 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
2531649 TTACGCGCTC
* **
2531659 TTTTTATTTATTTATTTATTTTGT
1 TTTTTATTTATTTATGTATTTCAT
* *
2531683 TTTTTGTTGATTTATGT-TTTCAT
1 TTTTTATTTATTTATGTATTTCAT
2531706 ATTTTTATTTATTT
1 -TTTTTATTTATTT
2531720 GATACTTTGC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (24 bp):
TTTTTATTTATTTATGTATTTCAT
Found at i:2531816 original size:19 final size:20
Alignment explanation
Indices: 2531775--2531816 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
2531765 ATTTCTATGC
* *
2531775 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
2531795 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
2531814 CAT
1 CAT
2531817 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:2537513 original size:34 final size:35
Alignment explanation
Indices: 2537456--2537522 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
2537446 CAAACAGCAG
*
2537456 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCTAGTAAATCATTTTACAGAAAAGT
*
2537491 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCTAGTAAATCATTTTACAGAAAA
2537523 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCTAGTAAATCATTTTACAGAAAAGT
Found at i:2539420 original size:19 final size:18
Alignment explanation
Indices: 2539398--2539463 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
2539388 TAAAATTAAC
2539398 ATTATAAAAATTTAAAAA
1 ATTATAAAAATTTAAAAA
*
2539416 TATTAT-AAAATATAAAAA
1 -ATTATAAAAATTTAAAAA
*
2539434 ATCTA-ATAAATTGTAAAAA
1 AT-TATAAAAATT-TAAAAA
*
2539453 AATATAAAAAT
1 ATTATAAAAAT
2539464 AATAAAACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
17 2 0.05
18 19 0.50
19 17 0.45
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
ATTATAAAAATTTAAAAA
Found at i:2541477 original size:40 final size:38
Alignment explanation
Indices: 2541403--2541487 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
2541393 GCTCGAGTAG
2541403 TTTAAAATAAAAAAAAAATTATTTATAATTTTTAAAAT
1 TTTAAAATAAAAAAAAAATTATTTATAATTTTTAAAAT
* * * *
2541441 TTTAAATTAATAATAAAATTATATTTTAATTTTTTAAAAT
1 TTTAAAATAAAAAAAAAATTAT-TTATAA-TTTTTAAAAT
*
2541481 TATAAAA
1 TTTAAAA
2541488 ATATAAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 19 0.49
39 5 0.13
40 15 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (38 bp):
TTTAAAATAAAAAAAAAATTATTTATAATTTTTAAAAT
Found at i:2541497 original size:15 final size:16
Alignment explanation
Indices: 2541477--2541510 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2541467 TAATTTTTTA
2541477 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
2541492 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
2541508 AAA
1 AAA
2541511 ATCATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:2542742 original size:20 final size:19
Alignment explanation
Indices: 2542704--2542742 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2542694 TGGATATTAA
*
2542704 ATTTATTTAGTAAATAAAT
1 ATTTATTTAGTAAAGAAAT
*
2542723 ATTTATATTAGTTAAGAAAT
1 ATTTAT-TTAGTAAAGAAAT
2542743 TAAAGGGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
ATTTATTTAGTAAAGAAAT
Found at i:2557304 original size:19 final size:19
Alignment explanation
Indices: 2557259--2557305 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
2557249 TTTTATTTTT
2557259 CATAGTTTCTGCTTTGAGTA
1 CATAGTTT-TGCTTTGAGTA
2557279 -A-AGTTTTGACTTTGA-TA
1 CATAGTTTTG-CTTTGAGTA
2557296 CATAGTTTTG
1 CATAGTTTTG
2557306 TAGGCCACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.17
18 12 0.50
19 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (19 bp):
CATAGTTTTGCTTTGAGTA
Found at i:2563730 original size:20 final size:20
Alignment explanation
Indices: 2563705--2563761 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
2563695 TTGTAATTTT
2563705 ATTATGATTTAAATTATTCA
1 ATTATGATTTAAATTATTCA
* * **
2563725 ATTATGA-TAAAAGATATTTT
1 ATTATGATTTAAA-TTATTCA
2563745 ATTATGATTTAAATTAT
1 ATTATGATTTAAATTAT
2563762 CGAATTTTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 4 0.14
20 21 0.72
21 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (20 bp):
ATTATGATTTAAATTATTCA
Found at i:2570250 original size:11 final size:11
Alignment explanation
Indices: 2570216--2570285 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
2570206 CTTTTTTTAC
*
2570216 TATTTTGTTGT
1 TATTTTGTTAT
*
2570227 TGCTTTT-TTAT
1 T-ATTTTGTTAT
2570238 TATTTTGTTAT
1 TATTTTGTTAT
***
2570249 TATTTCACTAT
1 TATTTTGTTAT
* **
2570260 TATGTTACTAT
1 TATTTTGTTAT
2570271 TATTTTGTTAT
1 TATTTTGTTAT
2570282 TATT
1 TATT
2570286 ATTTGGATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
10 4 0.09
11 38 0.83
12 4 0.09
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.67
Consensus pattern (11 bp):
TATTTTGTTAT
Found at i:2570251 original size:14 final size:14
Alignment explanation
Indices: 2570234--2570289 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
2570224 TGTTGCTTTT
2570234 TTATTATTTTGTTA
1 TTATTATTTTGTTA
2570248 TTATTTCACTATTATGTTA
1 TTA-TT-A-T-TT-TGTTA
*
2570267 CTATTATTTTGTTA
1 TTATTATTTTGTTA
2570281 TTATTATTT
1 TTATTATTT
2570290 GGATATTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
15 4 0.11
16 2 0.06
17 2 0.06
18 4 0.11
19 7 0.20
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.66
Consensus pattern (14 bp):
TTATTATTTTGTTA
Found at i:2578552 original size:17 final size:17
Alignment explanation
Indices: 2578527--2578559 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2578517 GGCCATAAAA
2578527 ATATATTTTATAATAAG
1 ATATATTTTATAATAAG
*
2578544 ATATTTTTTATAATAA
1 ATATATTTTATAATAA
2578560 TAAAATACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
ATATATTTTATAATAAG
Found at i:2578920 original size:17 final size:16
Alignment explanation
Indices: 2578870--2578957 Score: 56
Period size: 17 Copynumber: 5.5 Consensus size: 16
2578860 AATATGTATG
*
2578870 TTTAATAATATTACACAT
1 TTTAATAATTTTA-A-AT
*
2578888 TATAAT-ATTTT-AAT
1 TTTAATAATTTTAAAT
2578902 TTTAATAATTTTAATAT
1 TTTAATAATTTTAA-AT
* * *
2578919 TTAAATATTTTTAAAA
1 TTTAATAATTTTAAAT
* *
2578935 ATTAA-AATTATAAAT
1 TTTAATAATTTTAAAT
*
2578950 TTTTATAA
1 TTTAATAA
2578958 ATATAATAAT
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
14 7 0.13
15 16 0.30
16 7 0.13
17 18 0.34
18 5 0.09
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAATAATTTTAAAT
Found at i:2578953 original size:24 final size:25
Alignment explanation
Indices: 2578912--2578958 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
2578902 TTTAATAATT
*
2578912 TTAATATTTAAATATTTT-TAAAAA
1 TTAAAATTTAAATATTTTATAAAAA
2578936 TTAAAATTATAAAT-TTTTATAAA
1 TTAAAATT-TAAATATTTTATAAA
2578959 TATAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAAAATTTAAATATTTTATAAAAA
Found at i:2580160 original size:21 final size:20
Alignment explanation
Indices: 2580131--2580184 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
2580121 AATAATAAAA
*
2580131 TAAATAAATAAATCATGAAGT
1 TAAAAAAATAAATC-TGAAGT
* * *
2580152 TAAAAAAATAACTCTTAATT
1 TAAAAAAATAAATCTGAAGT
2580172 TAAAGAAAATAAA
1 TAAA-AAAATAAA
2580185 GTAATCATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (20 bp):
TAAAAAAATAAATCTGAAGT
Found at i:2601058 original size:16 final size:17
Alignment explanation
Indices: 2601027--2601063 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
2601017 CCTTTTGGCC
2601027 ATAAAATATATTTTATA
1 ATAAAATATATTTTATA
*
2601044 ATAAGATAT-TTTTATA
1 ATAAAATATATTTTATA
2601060 ATAA
1 ATAA
2601064 TAAATACCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATAAAATATATTTTATA
Found at i:2601410 original size:16 final size:16
Alignment explanation
Indices: 2601379--2601421 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
2601369 ATTACACATT
2601379 ATAATATTTAATTTT-A
1 ATAAT-TTTAATTTTAA
2601395 ATAATTTTAATATTTAA
1 ATAATTTTAAT-TTTAA
*
2601412 ATATTTTTAA
1 ATAATTTTAA
2601422 AAATTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATAATTTTAATTTTAA
Found at i:2602638 original size:21 final size:20
Alignment explanation
Indices: 2602609--2602662 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
2602599 AATAATAAAA
*
2602609 TAAATAAATAAATCATGAAGT
1 TAAAAAAATAAATC-TGAAGT
* * *
2602630 TAAAAAAATAACTCTTAATT
1 TAAAAAAATAAATCTGAAGT
2602650 TAAAGAAAATAAA
1 TAAA-AAAATAAA
2602663 GTAATCATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (20 bp):
TAAAAAAATAAATCTGAAGT
Found at i:2610149 original size:14 final size:14
Alignment explanation
Indices: 2610130--2610160 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2610120 AATGATTCAA
2610130 TTTTTCATTCTTTT
1 TTTTTCATTCTTTT
2610144 TTTTTCATTCTTTT
1 TTTTTCATTCTTTT
2610158 TTT
1 TTT
2610161 CAAAAGGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCATTCTTTT
Found at i:2612979 original size:35 final size:38
Alignment explanation
Indices: 2612935--2613020 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
2612925 AATATAAGTC
*
2612935 TAAAAAATAGGTCTAAG-C-AA-AAAATAATGCATGTT
1 TAAAAAATAGGTCCAAGCCTAAGAAAATAATGCATGTT
* *
2612970 TAGAAAATAGG-CCAAGCCTTAAGTAAATAATGCATGTT
1 TAAAAAATAGGTCCAAGCC-TAAGAAAATAATGCATGTT
2613008 TAAAAAATAGGTC
1 TAAAAAATAGGTC
2613021 AAGTCTTAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
34 4 0.10
35 11 0.26
37 2 0.05
38 24 0.57
39 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (38 bp):
TAAAAAATAGGTCCAAGCCTAAGAAAATAATGCATGTT
Found at i:2612998 original size:38 final size:38
Alignment explanation
Indices: 2612956--2613034 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
2612946 TCTAAGCAAA
*
2612956 AAATAATGCATGTTTAGAAAATAGGCCAAGCCTTAAGT
1 AAATAATGCATGTTTAAAAAATAGGCCAAGCCTTAAGT
* *
2612994 AAATAATGCATGTTTAAAAAATAGGTCAAGTCTTAAGT
1 AAATAATGCATGTTTAAAAAATAGGCCAAGCCTTAAGT
2613032 AAA
1 AAA
2613035 GTTTTTTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (38 bp):
AAATAATGCATGTTTAAAAAATAGGCCAAGCCTTAAGT
Found at i:2613859 original size:26 final size:26
Alignment explanation
Indices: 2613809--2613859 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
2613799 ATAAATATAT
***
2613809 TTATTTATTTTTAAAATACTTTTTTA
1 TTATTTATTTTTAAAATAAAATTTTA
*
2613835 TTATTTGTTTTTAAAATAAAATTTT
1 TTATTTATTTTTAAAATAAAATTTT
2613860 GGTGTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
TTATTTATTTTTAAAATAAAATTTTA
Found at i:2615195 original size:16 final size:18
Alignment explanation
Indices: 2615156--2615189 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2615146 TAAGTTTATA
2615156 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
2615173 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
2615190 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:2616795 original size:13 final size:13
Alignment explanation
Indices: 2616777--2616804 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2616767 TATGGCAGCA
2616777 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
2616790 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
2616803 AA
1 AA
2616805 GACCTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:2619750 original size:20 final size:19
Alignment explanation
Indices: 2619714--2619761 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
2619704 AAATTTTATA
**
2619714 TTTTAATTTTTTCTAATTT
1 TTTTAATTTTTAATAATTT
*
2619733 TTTTATATTTTTAATAATAT
1 TTTTA-ATTTTTAATAATTT
*
2619753 ATTTAATTT
1 TTTTAATTT
2619762 GAATTAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTAATTTTTAATAATTT
Found at i:2625622 original size:72 final size:72
Alignment explanation
Indices: 2625505--2625647 Score: 259
Period size: 72 Copynumber: 2.0 Consensus size: 72
2625495 GTTAAAACGT
* * *
2625505 TCTGTTAGTCCCTGTACTTAGACAAACTTTAAAATTTAGTCCCTGTAACATTATTAGTATTTTCT
1 TCTGTTAGTCCCTGTACTTAAAAAAACTTTAAAATTTAATCCCTGTAACATTATTAGTATTTTCT
2625570 GCCAAAA
66 GCCAAAA
2625577 TCTGTTAGTCCCTGTACTTAAAAAAACTTTAAAATTTAATCCCTGTAACATTATTAGTATTTTCT
1 TCTGTTAGTCCCTGTACTTAAAAAAACTTTAAAATTTAATCCCTGTAACATTATTAGTATTTTCT
2625642 GCCAAA
66 GCCAAA
2625648 TTTTTCCATG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (72 bp):
TCTGTTAGTCCCTGTACTTAAAAAAACTTTAAAATTTAATCCCTGTAACATTATTAGTATTTTCT
GCCAAAA
Found at i:2630747 original size:33 final size:32
Alignment explanation
Indices: 2630697--2630763 Score: 116
Period size: 33 Copynumber: 2.1 Consensus size: 32
2630687 ACCATAAAGC
*
2630697 TTATATTTCGTTTAGTTAAAATTTCAGTGCAT
1 TTATATTTAGTTTAGTTAAAATTTCAGTGCAT
2630729 TTATATTTAGTTTTAGTTAAAATTTCAGTGCAT
1 TTATATTTAG-TTTAGTTAAAATTTCAGTGCAT
2630762 TT
1 TT
2630764 CTTATCCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 9 0.27
33 24 0.73
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.52
Consensus pattern (32 bp):
TTATATTTAGTTTAGTTAAAATTTCAGTGCAT
Found at i:2631216 original size:19 final size:20
Alignment explanation
Indices: 2631166--2631216 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2631156 TCGTCAATAA
2631166 AGTTAGAAATAGGCCTTTAT
1 AGTTAGAAATAGGCCTTTAT
2631186 AGTTAGAAATAGGCCTTTAT
1 AGTTAGAAATAGGCCTTTAT
2631206 AGTTA-AAATAG
1 AGTTAGAAATAG
2631217 TCGCATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (20 bp):
AGTTAGAAATAGGCCTTTAT
Found at i:2657146 original size:20 final size:21
Alignment explanation
Indices: 2657097--2657147 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
2657087 TCAATATTTG
*
2657097 GAGAAATAAAACAAAGAAAAT
1 GAGAAATAATACAAAGAAAAT
* * *
2657118 GATAAATAATATAATGAAAA-
1 GAGAAATAATACAAAGAAAAT
2657138 GAGAAATAAT
1 GAGAAATAAT
2657148 TTTTTATGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.18
Consensus pattern (21 bp):
GAGAAATAATACAAAGAAAAT
Found at i:2657371 original size:23 final size:23
Alignment explanation
Indices: 2657341--2657386 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2657331 ACTTTTTATC
2657341 TTCAAGTCTCTTCACTCTTCATA
1 TTCAAGTCTCTTCACTCTTCATA
2657364 TTCAAGTCTCTTCACTCTTCATA
1 TTCAAGTCTCTTCACTCTTCATA
2657387 ACTTTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.04, T:0.43
Consensus pattern (23 bp):
TTCAAGTCTCTTCACTCTTCATA
Found at i:2658955 original size:6 final size:6
Alignment explanation
Indices: 2658944--2658970 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2658934 TGAAGAATCG
2658944 GAGGAA GAGGAA GAGGAA GAGGAA GAG
1 GAGGAA GAGGAA GAGGAA GAGGAA GAG
2658971 CGCTATGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:2659121 original size:69 final size:69
Alignment explanation
Indices: 2659042--2659185 Score: 270
Period size: 69 Copynumber: 2.1 Consensus size: 69
2659032 AGCCTAGGCA
* *
2659042 AAAAGTGAAGGAGTCTGTTGGCAGCAGTAAGCGCAAGGGAATCGAGTCGAATGAGGACTCACCTC
1 AAAAGCGAAGGAGTCTGTTGGCAGCAGTAAGCGCAAGGGAATCAAGTCGAATGAGGACTCACCTC
2659107 CTAG
66 CTAG
2659111 AAAAGCGAAGGAGTCTGTTGGCAGCAGTAAGCGCAAGGGAATCAAGTCGAATGAGGACTCACCTC
1 AAAAGCGAAGGAGTCTGTTGGCAGCAGTAAGCGCAAGGGAATCAAGTCGAATGAGGACTCACCTC
2659176 CTAG
66 CTAG
2659180 AAAAGC
1 AAAAGC
2659186 TCCCACACAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (69 bp):
AAAAGCGAAGGAGTCTGTTGGCAGCAGTAAGCGCAAGGGAATCAAGTCGAATGAGGACTCACCTC
CTAG
Found at i:2659759 original size:23 final size:23
Alignment explanation
Indices: 2659729--2659772 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
2659719 TTTTTATCTA
2659729 CAAGTCTCTTCACTCTTCATATT
1 CAAGTCTCTTCACTCTTCATATT
2659752 CAAGTCTCTTCACTCTTCATA
1 CAAGTCTCTTCACTCTTCATA
2659773 ACTTTTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.32, G:0.05, T:0.41
Consensus pattern (23 bp):
CAAGTCTCTTCACTCTTCATATT
Found at i:2660649 original size:47 final size:48
Alignment explanation
Indices: 2660595--2660721 Score: 204
Period size: 47 Copynumber: 2.6 Consensus size: 48
2660585 GCACAATTTA
2660595 TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAACCCAAAATCCTA-TCCC
1 TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAACCCAAAATCCTAGTCCC
2660642 TTTTCTTTCTCA-TACTTTTCTTTGCTTGAAACCCAAAATCCTATGTCCC
1 TTTTCTTTCTCAGT-CTTTTCTTTGCTTGAAACCCAAAATCCTA-GTCCC
* *
2660691 TTTTCTTTCTCGGTCTTTTCGTTGCTTGAAA
1 TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAA
2660722 AAAATATTCA
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
46 1 0.01
47 41 0.55
49 31 0.42
50 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.09, T:0.47
Consensus pattern (48 bp):
TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAACCCAAAATCCTAGTCCC
Found at i:2664487 original size:21 final size:21
Alignment explanation
Indices: 2664461--2664501 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2664451 AGACGAGCAA
* *
2664461 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2664482 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2664502 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2668124 original size:14 final size:15
Alignment explanation
Indices: 2668104--2668144 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
2668094 TTTGATTGCC
2668104 AGTAAAATGTTTTC-
1 AGTAAAATGTTTTCT
* *
2668118 CGTAAAATGATTTCT
1 AGTAAAATGTTTTCT
2668133 AG-AAAATGTTTT
1 AGTAAAATGTTTT
2668145 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.95
15 1 0.05
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (15 bp):
AGTAAAATGTTTTCT
Found at i:2668157 original size:34 final size:35
Alignment explanation
Indices: 2668113--2668179 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
2668103 CAGTAAAATG
* *
2668113 TTTTCCGTAAAATGATTT-CTAGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
* *
2668147 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
2668180 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:2668362 original size:22 final size:24
Alignment explanation
Indices: 2668337--2668387 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
2668327 TTATTTATAA
2668337 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
2668357 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
2668383 ATAAA
1 ATAAA
2668388 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:2675991 original size:43 final size:43
Alignment explanation
Indices: 2675876--2675991 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
2675866 ATCTGCTAAA
*
2675876 TTAGTGGCG-TTTTCCCACAAACGCCACTAAAGAACATGGACT
1 TTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGGACT
* * * * * *
2675918 TTAGCGGCGCTTTTACTAAAAACACCGCTAAAGAATAT-GACAT
1 TTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGGAC-T
*
2675961 TTAGTGGCGCTTTTCCCACAAACGCTGCTAA
1 TTAGTGGCGCTTTTCCCACAAACGCCGCTAA
2675992 GCCACTAAAT
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 11 0.19
43 48 0.81
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
TTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGGACT
Found at i:2692860 original size:22 final size:19
Alignment explanation
Indices: 2692814--2692860 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 19
2692804 TAATTTTTTG
2692814 AAATT-TAAAAAATTTTAA
1 AAATTATAAAAAATTTTAA
2692832 AATATTATAAAAACTATTTTCAA
1 AA-ATTATAAAAA--ATTTT-AA
2692855 AAATTA
1 AAATTA
2692861 AAATTATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 6 0.25
22 9 0.38
23 4 0.17
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTATAAAAAATTTTAA
Found at i:2697331 original size:33 final size:33
Alignment explanation
Indices: 2697289--2697354 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
2697279 AGCTCCAAGG
2697289 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
1 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
2697322 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
1 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
2697355 TCTTGAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.42
Consensus pattern (33 bp):
CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
Found at i:2698890 original size:18 final size:18
Alignment explanation
Indices: 2698867--2698926 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
2698857 ATGTAATTCT
2698867 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
2698885 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
2698902 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
2698920 AATGTAA
1 AATGTAA
2698927 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:2699472 original size:17 final size:17
Alignment explanation
Indices: 2699452--2699485 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2699442 ATTATTAAGA
2699452 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
2699469 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
2699486 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:2699654 original size:120 final size:120
Alignment explanation
Indices: 2699243--2699724 Score: 868
Period size: 119 Copynumber: 4.0 Consensus size: 120
2699233 TTTTCAAGTT
*
2699243 ATATATTTAATAATAATTATGTTAATTTAT-TTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
2699307 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
2699362 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
2699427 TAATATAAG-ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT-AA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
*
2699480 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
2699545 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
2699600 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
2699665 TAATATAAGAATATTAATTATT---AATTTTATTAAATTATATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAA-T-TATATATTTTAATTAAA
2699719 ATATAT
1 ATATAT
2699725 AATTTAATAA
Statistics
Matches: 352, Mismatches: 6, Indels: 10
0.96 0.02 0.03
Matches are distributed among these distances:
117 11 0.03
118 76 0.22
119 135 0.38
120 130 0.37
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
Found at i:2699724 original size:18 final size:18
Alignment explanation
Indices: 2699688--2699737 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
2699678 TTAATTATTA
2699688 ATTTT-ATTAAATTATATAT
1 ATTTTAATTAAA--ATATAT
2699707 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
*
2699725 AATTTAA-TAAAAT
1 ATTTTAATTAAAAT
2699738 TCTTAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 12 0.41
19 5 0.17
20 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:2699828 original size:238 final size:235
Alignment explanation
Indices: 2699584--2700303 Score: 1025
Period size: 238 Copynumber: 3.0 Consensus size: 235
2699574 TCATTAAATT
*
2699584 ATATATTTTAATTAAAATATATTTAATAATAATTATGT-TAATTTATATT-TTACAGTATCATAT
1 ATATATTTTAATTAAAATATATTTAATAATAATTAT-TATAATTAATATTCTT--A-TATCA-AT
** * * *
2699647 ATTA-TGATTTCAGTAA-ATT-A-A-TATAAGAATATTAATTATTA-AT-TTTATTAAATTATAT
61 -TTACTGAAATCA-TAATATTGATACTATAA-AATATAAATTA--ACATAATTATT--ATTAAAT
2699705 ATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
119 ATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
2699770 TAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAA
184 TAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAA
* *
2699822 ATATATTTTAATTAAATATATAATTTAATAA-AATTCTTAATAATTAATATTCTTATATTAATTT
1 ATATATTTTAATTAAA-ATAT-ATTTAATAATAATTATT-ATAATTAATATTCTTATATCAATTT
* *
2699886 ACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTA
63 ACTGAAATCATAATAT-TGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTTTA
2699951 ATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACTAAATCAT
127 ATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACTAAATCAT
2700016 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTAA
192 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTAA
* *
2700060 ATATATTTTAATTAAAATATA--TAATTTAATAAATTCTTAATAATTAATATTCTTATATTAATT
1 ATATATTTTAATTAAAATATATTTAA--TAAT-AATTATT-ATAATTAATATTCTTATATCAATT
*
2700123 TACT-AAATCATAATATTTGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTT
62 TACTGAAATCATAATA-TTGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTTT
*
2700187 AATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATC
126 AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACT-AAATC
2700252 ATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAA
190 ATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAA
2700298 ATATAT
1 ATATAT
2700304 AACTTGAAAA
Statistics
Matches: 452, Mismatches: 11, Indels: 38
0.90 0.02 0.08
Matches are distributed among these distances:
234 3 0.01
236 10 0.02
237 129 0.29
238 256 0.57
239 13 0.03
240 35 0.08
241 6 0.01
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (235 bp):
ATATATTTTAATTAAAATATATTTAATAATAATTATTATAATTAATATTCTTATATCAATTTACT
GAAATCATAATATTGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTA
AAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACTAAATCATAATA
TATGATACTGTAAAATATAAATTAACATAATTATTATTAA
Found at i:2699853 original size:118 final size:119
Alignment explanation
Indices: 2699698--2700303 Score: 1153
Period size: 119 Copynumber: 5.1 Consensus size: 119
2699688 ATTTTATTAA
*
2699698 ATTATATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
1 ATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
2699763 AATTTACTAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
66 AATTTACTAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
2699817 ATTAAATATATTTTAATT-AAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
1 ATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
2699881 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
66 AATTTACT-AAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
2699936 ATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
1 ATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
2700001 AATTTACTAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
66 AATTTACTAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
2700055 ATTAAATATATTTTAATTAAAATATATAATTTAAT-AAATTCTTAATAATTAATATTCTTATATT
1 ATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
*
2700119 AATTTACTAAATCATAATATTTGATACTGTAAAATATAAATTAACATAATTATT
66 AATTTACTAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
*
2700173 ATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATATT
1 ATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
2700238 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
66 AATTTACT-AAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
2700293 ATTAAATATAT
1 ATTAAATATAT
2700304 AACTTGAAAA
Statistics
Matches: 480, Mismatches: 3, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
118 171 0.36
119 199 0.41
120 110 0.23
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (119 bp):
ATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
AATTTACTAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
Found at i:2699855 original size:17 final size:17
Alignment explanation
Indices: 2699822--2699855 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2699812 TTATTATTAA
* *
2699822 ATATATTTTAATTAAAT
1 ATATAATTTAATAAAAT
2699839 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2699856 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2699962 original size:18 final size:17
Alignment explanation
Indices: 2699941--2699975 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2699931 TTATTATTAA
*
2699941 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
2699959 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2699976 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2700654 original size:18 final size:18
Alignment explanation
Indices: 2700631--2700690 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
2700621 TTAAAACAAG
2700631 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
2700649 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
2700666 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
2700684 TTACATT
1 TTACATT
2700691 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:2702244 original size:33 final size:33
Alignment explanation
Indices: 2702202--2702267 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
2702192 TTCTTCAAGA
2702202 AGCAGAACAAGGCGAAACATGTCAATCTAAGGG
1 AGCAGAACAAGGCGAAACATGTCAATCTAAGGG
2702235 AGCAGAACAAGGCGAAACATGTCAATCTAAGGG
1 AGCAGAACAAGGCGAAACATGTCAATCTAAGGG
2702268 CCTTGGAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.12
Consensus pattern (33 bp):
AGCAGAACAAGGCGAAACATGTCAATCTAAGGG
Found at i:2705044 original size:16 final size:16
Alignment explanation
Indices: 2705023--2705053 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2705013 CGCTGTATTA
2705023 GAATAGAGGCGTAATG
1 GAATAGAGGCGTAATG
2705039 GAATAGAGGCGTAAT
1 GAATAGAGGCGTAAT
2705054 AGCAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.19
Consensus pattern (16 bp):
GAATAGAGGCGTAATG
Found at i:2705305 original size:16 final size:16
Alignment explanation
Indices: 2705268--2705309 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
2705258 TTAATCATAT
*
2705268 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
2705284 TT-AAATATATTATAA
1 TTAAAATATATTATAA
2705299 TTAAAATATAT
1 TTAAAATATAT
2705310 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:2705316 original size:14 final size:15
Alignment explanation
Indices: 2705277--2705318 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2705267 TTTAAACATA
*
2705277 ATTATTATTAAATAT
1 ATTATAATTAAATAT
2705292 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
2705306 A-TATAATTTAATA
1 ATTATAATTAAATA
2705319 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:2705406 original size:120 final size:120
Alignment explanation
Indices: 2705266--2705512 Score: 458
Period size: 120 Copynumber: 2.0 Consensus size: 120
2705256 ATTTAATCAT
2705266 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
2705331 ATCAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATA
2705387 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
2705452 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATA
*
2705507 TTTTAA
1 ATTTAA
2705513 TTAAAATATA
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
120 119 0.97
121 4 0.03
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATA
Found at i:2705427 original size:16 final size:16
Alignment explanation
Indices: 2705383--2705429 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
2705373 TACTATAAAA
*
2705383 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
2705399 TATTATT-AAATATAT
1 TATAATTAAAATATAT
2705414 TATAATTAAAATATAT
1 TATAATTAAAATATAT
2705430 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:2705514 original size:61 final size:61
Alignment explanation
Indices: 2705329--2705516 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
2705319 AAATTCTTAA
* *
2705329 TAATCAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAATT
1 TAATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATATTT
* * * * * * *
2705390 TAACATAATTATTATTAAAT--ATATTA-T-AATTAA-AATATATAAT-TTAATAAAAT-TCTTA
1 TAA-TTAA-TATTCTTATATGAAT-TTACTCAAATAATAATATATGATACT-ATAAAATATATT-
*
2705448 A
61 T
*
2705449 TAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATATTT
1 TAATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATATTT
2705510 TAATTAA
1 TAATTAA
2705517 AATATATGAT
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 9 0.09
58 9 0.09
59 22 0.23
60 9 0.09
61 29 0.30
62 9 0.09
63 9 0.09
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
TAATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATATTT
Found at i:2705519 original size:16 final size:16
Alignment explanation
Indices: 2705497--2705536 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
2705487 ATATGATACT
2705497 ATAAAATATAT-TTTA
1 ATAAAATATATATTTA
2705512 ATTAAAATATATGATTTA
1 A-TAAAATATAT-ATTTA
2705530 ATAAAAT
1 ATAAAAT
2705537 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.05
16 10 0.45
17 6 0.27
18 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATAAAATATATATTTA
Found at i:2705536 original size:17 final size:17
Alignment explanation
Indices: 2705484--2705536 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
2705474 CTCAAATCAT
*
2705484 AATATATGATACT-ATAA
1 AATATATGAT-TTAATAA
2705501 AATATAT--TTTAATTAA
1 AATATATGATTTAA-TAA
2705517 AATATATGATTTAATAA
1 AATATATGATTTAATAA
2705534 AAT
1 AAT
2705537 TTAAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 1 0.03
15 2 0.06
16 10 0.32
17 13 0.42
18 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (17 bp):
AATATATGATTTAATAA
Found at i:2705567 original size:120 final size:119
Alignment explanation
Indices: 2705266--2705559 Score: 380
Period size: 120 Copynumber: 2.4 Consensus size: 119
2705256 ATTTAATCAT
* * * *
2705266 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACAAAATTATGATTAAATAAATTATAA-TAAAATATATAATCTAATAAAATTCTTAATA
2705331 ATCAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATA
64 ATCAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATA
* * * *
2705387 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACAAAATTATGATTAAATAAATTATAA-TAAAATATATAATCTAATAAAATTCTTAATAA
* *
2705452 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 TCAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATA
* * *
2705507 TTTTAATTAAAATATATGATTTAATAAAATT-TAA-AATAAT-TATAA-CTAATAAA
1 ATTTAA-CAAAAT-TATGATTAAAT-AAATTATAATAA-AATATATAATCTAATAAA
2705560 TTTTCTTATA
Statistics
Matches: 160, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
119 7 0.04
120 126 0.79
121 11 0.07
122 12 0.08
123 4 0.03
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (119 bp):
ATTTAACAAAATTATGATTAAATAAATTATAATAAAATATATAATCTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATA
Found at i:2705715 original size:18 final size:17
Alignment explanation
Indices: 2705679--2705719 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
2705669 ATAATTTAAA
*
2705679 ATAA-TTAATATGTTAT
1 ATAATTTAATATGATAT
2705695 ATAATTTAATAGTGATAT
1 ATAATTTAATA-TGATAT
2705713 ATAATTT
1 ATAATTT
2705720 CATAAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 6 0.27
18 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (17 bp):
ATAATTTAATATGATAT
Found at i:2705780 original size:91 final size:91
Alignment explanation
Indices: 2705553--2705849 Score: 483
Period size: 91 Copynumber: 3.3 Consensus size: 91
2705543 TAATTATAAC
* * *
2705553 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATGTAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
2705618 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
* * *
2705644 TAAT-AATTTTTTTATATGAATTTATATAATTTAAAATAATTAATATGT-TATATAATTTAATAG
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATAT-TAAATATAATTTAATAA
*
2705707 TGATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTGA
2705734 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
2705799 AATATATAATTTCATAAAATTCTT-A
66 AATATATAATTTCATAAAATTCTTGA
*
2705824 TAATAAAATATTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
2705850 CTAAAANNNN
Statistics
Matches: 190, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
90 87 0.46
91 103 0.54
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:2705791 original size:16 final size:16
Alignment explanation
Indices: 2705761--2705809 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
2705751 TGAATTTATA
2705761 TAAT-TTAAA-ATAAT
1 TAATATTAAATATAAT
2705775 TAATATTAAATATAATT
1 TAATATTAAATATAA-T
*
2705792 TAATAATAATATATAAT
1 TAATATTAA-ATATAAT
2705809 T
1 T
2705810 TCATAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 4 0.13
15 5 0.17
16 4 0.13
17 11 0.37
18 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATATTAAATATAAT
Found at i:2705807 original size:18 final size:17
Alignment explanation
Indices: 2705766--2705815 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
2705756 TTATATAATT
*
2705766 TAAA-ATAA-TTAATAT
1 TAAATATAATTTAATAA
2705781 TAAATATAATTTAATAA
1 TAAATATAATTTAATAA
*
2705798 TAATATATAATTTCATAA
1 TAA-ATATAATTTAATAA
2705816 AATTCTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 4 0.13
16 4 0.13
17 9 0.30
18 13 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATATAATTTAATAA
Found at i:2716364 original size:33 final size:33
Alignment explanation
Indices: 2716322--2716387 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
2716312 AGCTCCAAGG
2716322 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
1 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
2716355 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
1 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
2716388 TCTTGAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.42
Consensus pattern (33 bp):
CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
Found at i:2717922 original size:18 final size:18
Alignment explanation
Indices: 2717899--2717958 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
2717889 ATGTAATTCT
2717899 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
2717917 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
2717934 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
2717952 AATGTAA
1 AATGTAA
2717959 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:2718053 original size:18 final size:18
Alignment explanation
Indices: 2718030--2718064 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2718020 TTTAATAGAA
2718030 ATTTTCATCTAACTTTTC
1 ATTTTCATCTAACTTTTC
2718048 ATTTTCATCTAACTTTT
1 ATTTTCATCTAACTTTT
2718065 TCTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTCATCTAACTTTTC
Found at i:2718244 original size:120 final size:120
Alignment explanation
Indices: 2718112--2719094 Score: 1876
Period size: 120 Copynumber: 8.2 Consensus size: 120
2718102 TTTTCAAGTT
2718112 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
2718177 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2718232 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
2718297 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
2718352 ATATATTTAATAATAATCATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
2718417 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2718472 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
2718537 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2718592 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
2718657 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2718712 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
2718777 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
* *
2718832 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAATAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
2718897 TAATATAAGAATATTAACTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
2718952 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
2719017 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2719072 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
2719095 TAAATATGAT
Statistics
Matches: 847, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 847 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:2718351 original size:18 final size:17
Alignment explanation
Indices: 2718323--2718357 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2718313 ATTATTAAGA
*
2718323 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2718340 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2718358 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2718951 original size:18 final size:17
Alignment explanation
Indices: 2718923--2718957 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2718913 ACTATTAAGA
*
2718923 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2718940 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2718958 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2719071 original size:18 final size:17
Alignment explanation
Indices: 2719043--2719077 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2719033 ATTATTAAGA
*
2719043 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2719060 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2719078 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2719291 original size:44 final size:45
Alignment explanation
Indices: 2719242--2719327 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
2719232 ACATCTATTC
* *
2719242 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTA
***
2719286 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCA
2719328 ATATACCTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 19 0.53
45 17 0.47
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.28
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTA
Found at i:2719337 original size:16 final size:16
Alignment explanation
Indices: 2719313--2719381 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
2719303 GATTAGCTAT
2719313 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
2719329 TATACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
2719346 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
2719362 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
2719378 TACA
1 TACA
2719382 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 33 0.69
17 15 0.31
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:2719355 original size:33 final size:32
Alignment explanation
Indices: 2719313--2719381 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
2719303 GATTAGCTAT
*
2719313 TACACCTCTAATCCAATATACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
2719346 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
2719378 TACA
1 TACA
2719382 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:2720412 original size:5 final size:5
Alignment explanation
Indices: 2720384--2720443 Score: 61
Period size: 5 Copynumber: 12.2 Consensus size: 5
2720374 TTTTTATGCT
* * * *
2720384 TTATA -TATA TTATT TTAT- TATATA TTATA TTATA TTATA TTGTA TTGTG
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
2720433 TTATA TTATA T
1 TTATA TTATA T
2720444 AAGTAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
4 5 0.11
5 41 0.87
6 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:2721298 original size:18 final size:18
Alignment explanation
Indices: 2721261--2721310 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
2721251 AAATTTTATT
*
2721261 ATTATTATTGTTAATATA
1 ATTATTATTATTAATATA
* *
2721279 ATTATTATTATTATTTTA
1 ATTATTATTATTAATATA
* *
2721297 ATGATTATAATTAA
1 ATTATTATTATTAA
2721311 AAGTGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
ATTATTATTATTAATATA
Found at i:2735135 original size:212 final size:211
Alignment explanation
Indices: 2734840--2735417 Score: 800
Period size: 212 Copynumber: 2.7 Consensus size: 211
2734830 CATCTCATGT
* * * *
2734840 TTTAAAATTGTTTATTGGATGCATGAGTCCACTTCACAGTAATTTTTTTATTTGTTAGCCTGTAC
1 TTTAAAATTGTTTACTGGATGCA--AGTCAACTTCACATTCATTTTTTTATTTGTTAGCCTGTAC
* * *
2734905 ATTGGATTTGTTGCAGGTTGGATGATTTTGATTTTGATTCAGCCCTGAATAAAGGAGAGAAGACT
64 ATTGTATCTGTTGCAGGTTGGATGATTTTGATTTTGATTCAGCCCTAAATAAAGGAGAGAAGACT
* * *
2734970 AGTAAGAAAAACCAGGAAAGCAAAGACGCTGAGTGAGTGGATTATTCTTTTATTTTTCAGTTATC
129 AGTAAGAAAAACCAGGAAAGCAAAGACGCTGAGTGAGTGGATAATTCTTTTATTTTTCAATCATC
* *
2735035 TCATGTTCAATCTTTTGC
194 TCATCTTCAAGCTTTTGC
* *
2735053 TTTGAAATTGTTTACTGGACGTGCAAGTCAACTTCACATTCA-TTTTTTATTTGTTAGCCTGTAT
1 TTTAAAATTGTTTACTGGA--TGCAAGTCAACTTCACATTCATTTTTTTATTTGTTAGCCTGTAC
* *
2735117 ATTGTATCTGTTGCAGGTTGGGTGATTTTGATTTTGATTCAACCCTAAATAAAGGAGAGAAGACT
64 ATTGTATCTGTTGCAGGTTGGATGATTTTGATTTTGATTCAGCCCTAAATAAAGGAGAGAAGACT
** * *
2735182 AGTAAGAAAAATAAGGAATGCAAAGCCGCTGAGTGAGTGGATAATTCTTTTATTTTTCAATCATC
129 AGTAAGAAAAACCAGGAAAGCAAAGACGCTGAGTGAGTGGATAATTCTTTTATTTTTCAATCATC
2735247 TCATCTTCAAGCTTTTGC
194 TCATCTTCAAGCTTTTGC
* * * *
2735265 TTTAAAATTGTTTGCTGGATGCATAACTCAACTTAACATTCATTTTTTTTTTAAATTTATTAGCC
1 TTTAAAATTGTTTACTGGATGC--AAGTCAACTTCACATTCA---TTTTTTT--ATTTGTTAGCC
**
2735330 TGTACATTGTATCTGTTGCAGGTTGGATGATTTTGATTTTGATTC-GACCCTAAATATTGGAGAG
59 TGTACATTGTATCTGTTGCAGGTTGGATGATTTTGATTTTGATTCAG-CCCTAAATAAAGGAGAG
2735394 AAGACTAGTAAGAAAAACCAGGAA
123 AAGACTAGTAAGAAAAACCAGGAA
2735418 GGTAAAGCCG
Statistics
Matches: 322, Mismatches: 32, Indels: 17
0.87 0.09 0.05
Matches are distributed among these distances:
210 3 0.01
212 188 0.58
213 31 0.10
215 4 0.01
216 6 0.02
218 90 0.28
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (211 bp):
TTTAAAATTGTTTACTGGATGCAAGTCAACTTCACATTCATTTTTTTATTTGTTAGCCTGTACAT
TGTATCTGTTGCAGGTTGGATGATTTTGATTTTGATTCAGCCCTAAATAAAGGAGAGAAGACTAG
TAAGAAAAACCAGGAAAGCAAAGACGCTGAGTGAGTGGATAATTCTTTTATTTTTCAATCATCTC
ATCTTCAAGCTTTTGC
Found at i:2740131 original size:15 final size:15
Alignment explanation
Indices: 2740113--2740142 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2740103 CTCTCTGCCC
2740113 TTCTCCTCCACCTCT
1 TTCTCCTCCACCTCT
*
2740128 TTCTCCTCCCCCTCT
1 TTCTCCTCCACCTCT
2740143 CTCAGTCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.57, G:0.00, T:0.40
Consensus pattern (15 bp):
TTCTCCTCCACCTCT
Found at i:2744642 original size:4 final size:4
Alignment explanation
Indices: 2744633--2744689 Score: 114
Period size: 4 Copynumber: 14.2 Consensus size: 4
2744623 CAATGACAAG
2744633 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2744681 ATAC ATAC A
1 ATAC ATAC A
2744690 ACCCTTTTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:2751161 original size:15 final size:15
Alignment explanation
Indices: 2751141--2751170 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2751131 GATGTGTATT
*
2751141 TTATAAATTCGGATA
1 TTATAAATTCAGATA
2751156 TTATAAATTCAGATA
1 TTATAAATTCAGATA
2751171 ACATTTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (15 bp):
TTATAAATTCAGATA
Found at i:2757397 original size:104 final size:104
Alignment explanation
Indices: 2757114--2757574 Score: 477
Period size: 104 Copynumber: 4.4 Consensus size: 104
2757104 ATCAGTATAC
* * *
2757114 TCAGAATCAAATATCAGTATACGAAAAAAGT--AAAAAAAAATTATGGGTGCTGGCCTGTCAATG
1 TCAGAATCAGATATAAATATACGAAAAAA-TAAAAAAAAAAATT-TGGGTGCTGGCCTGTCAATG
2757177 GCCGGCACCCAGTACAAATTTAAAAGAAAATTTCTTTTTTTTTTCGTG
64 GCCGGCACCCAGTACAAATTTAAAA-AAAA------TTTTTTTTCGTG
* *
2757225 TCAAAATCAGATATAAATATACG-AAAAA-AATAAAAAAAATTTGGGTGCTGGCCTGTCAATGGC
1 TCAGAATCAGATATAAATATACGAAAAAATAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGC
***
2757288 CGGCACCCAGTACAAA-TTAAAAAAAAAAATTTTT-GTG
66 CGGCACCCAGTACAAATTTAAAAAAAATTTTTTTTCGTG
*
2757325 TCAGAATCAGATATAAATATACGCAAAAAATAAAAATAAAAAATTTGGGTGCTAGCCTGTCAATG
1 TCAGAATCAGATATAAATATACG-AAAAAATAAAAA-AAAAAATTTGGGTGCTGGCCTGTCAATG
*
2757390 GCCGGCACCCAGTACAAATTTAAAAAAATTCTTTTTTTTTTCGTG
64 GCCGGCACCCAGTACAAATTTAAAAAAA----ATTTTTTTTCGTG
*
2757435 TCAGAATCAGATATAAATATACG----------AAAAAAATTTTGGGTGCTGGCCTGTCAATGGC
1 TCAGAATCAGATATAAATATACGAAAAAATAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGC
* * *
2757490 TGGCACCCAGTACAAATTTTTTAAAAAAATTCTTTTTTTTTGTGTG
66 CGGCACCCAGTACAAA---TTTAAAAAAA---ATTTTTTTT-CGTG
2757536 TCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAA
1 TCAGAATCAGATATAAATATACG-AAAAAATAAAAAAAA
2757575 TTATATATAA
Statistics
Matches: 302, Mismatches: 21, Indels: 53
0.80 0.06 0.14
Matches are distributed among these distances:
98 43 0.14
99 2 0.01
100 35 0.12
101 41 0.14
102 5 0.02
103 4 0.01
104 45 0.15
105 9 0.03
107 4 0.01
108 6 0.02
109 43 0.14
110 41 0.14
111 19 0.06
112 5 0.02
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (104 bp):
TCAGAATCAGATATAAATATACGAAAAAATAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGC
CGGCACCCAGTACAAATTTAAAAAAAATTTTTTTTCGTG
Found at i:2757526 original size:98 final size:97
Alignment explanation
Indices: 2757147--2757566 Score: 427
Period size: 101 Copynumber: 4.1 Consensus size: 97
2757137 AAAAAAGTAA
* *
2757147 AAAAAAATTATGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAGAAAATTTCT
1 AAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTT-AAA-AAAA-TTC-
* *
2757212 TTTTTTTTTCGTGTCAAAATCAGATATAAATATACG
62 TTTTTTTTGCGTGTCAGAATCAGATATAAATATACG
*
2757248 AAAAAAATAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA-TTAAAAAA
1 AAAAAAAT--------TTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAA
****
2757312 A--AAAATTTTT--GTGTCAGAATCAGATATAAATATACG
58 ATTCTTTTTTTTGCGTGTCAGAATCAGATATAAATATACG
2757348 CAAAAAATAAAAATAAAAAATTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTAA
1 -----AA-AAAAAT------TTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTAA
*
2757413 AAAAATTCTTTTTTTTTTCGTGTCAGAATCAGATATAAATATACG
54 AAAAATTC-TTTTTTTTGCGTGTCAGAATCAGATATAAATATACG
* *
2757458 AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACAAATTTTTTAAAAAAATTCT
1 AAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAA---TTTAAAAAAATTC-
*
2757523 TTTTTTTTGTGTGTCAGAATCAGATATAAATATACG
62 TTTTTTTTGCGTGTCAGAATCAGATATAAATATACG
2757559 AAAAAAAT
1 AAAAAAAT
2757567 AAAAAAAATT
Statistics
Matches: 281, Mismatches: 15, Indels: 46
0.82 0.04 0.13
Matches are distributed among these distances:
98 38 0.14
100 25 0.09
101 64 0.23
102 5 0.02
104 51 0.18
105 13 0.05
106 10 0.04
107 3 0.01
108 7 0.02
109 39 0.14
110 26 0.09
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (97 bp):
AAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAATTCTTTT
TTTTGCGTGTCAGAATCAGATATAAATATACG
Found at i:2758287 original size:29 final size:28
Alignment explanation
Indices: 2758254--2758308 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
2758244 TCGTAATATT
*
2758254 TAAAAATATA-AGGACTAAATTCTTAAAAA
1 TAAAAATATACA-AACTAAATT-TTAAAAA
2758283 TAAAAATATACAAACTAAATTTTAAA
1 TAAAAATATACAAACTAAATTTTAAA
2758309 TTTACAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 18 0.75
30 1 0.04
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (28 bp):
TAAAAATATACAAACTAAATTTTAAAAA
Found at i:2758317 original size:29 final size:29
Alignment explanation
Indices: 2758251--2758317 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
2758241 ACTTCGTAAT
*
2758251 ATTTAAAAATATAAGGACTAAATTCTTAA
1 ATTTAAAAATATAAGAACTAAATTCTTAA
**
2758280 AAATAAAAATATACA-AACTAAATT-TTAA
1 ATTTAAAAATATA-AGAACTAAATTCTTAA
2758308 ATTTACAAAA
1 ATTTA-AAAA
2758318 AATATATAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 7 0.23
29 23 0.74
30 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.31
Consensus pattern (29 bp):
ATTTAAAAATATAAGAACTAAATTCTTAA
Found at i:2758965 original size:97 final size:99
Alignment explanation
Indices: 2758819--2759397 Score: 444
Period size: 97 Copynumber: 5.7 Consensus size: 99
2758809 CCGGCACCCA
*
2758819 ATCTGATTCTGACACGAAAAAAAA----AAAA-TT-TACTGGGTGCCGGCCATTGATAGGCCAGC
1 ATCTGATTCTGACAC-AAAAAAAATTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGC
2758878 A-CCAAATTTTTTTTTTATTTTTTCGTATATTTAT
65 ACCCAAATTTTTTTTTTATTTTTTCGTATATTTAT
* *
2758912 ATCTGATTCTGACAC-AAAAAAATTTTAAAATTTGTCCTAGGTGCCGGCCATTGACAGGCCAGCA
1 ATCTGATTCTGACACAAAAAAAATTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCA
*
2758976 CCCAAA------ATTT-TTTTTT-GTATATTTAT
66 CCCAAATTTTTTTTTTATTTTTTCGTATATTTAT
* *** *
2759002 ATCTGATTCTGACAC---GATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGTA
1 ATCTGATTCTGACACAAAAAAAATTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCA
* *
2759064 CCCAAATTTTTTTATTATTTTTTTCTTATATTTAT
66 CCCAAATTTTTTTTTTA-TTTTTTCGTATATTTAT
* **** *
2759099 ATCTGATTCTGATACGAAAATTTTTTTTTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAG
1 ATCTGATTCTGACAC-AAAA------AAAATTTTAAAATTTGTACTGGGTGCCGGCCATTGACAG
2759164 GCCAGCACCCAAAAATTTTTATTTTTATTTTTATTTTTTCGTATATTTAT
59 GCCAGCACCC---AA-----ATTTTT-TTTTTATTTTTTCGTATATTTAT
2759214 ATCTGATTCTGACACGAAAAAAAAAAGAATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGAC
1 ATCTGATTCTGACAC-----AAAAAA-AA---TTTTAAAATTTGTACTGGGTGCCGGCCATTGAC
* * * *
2759279 AGGCCAGCA-CCAATTTTTTTTTTTTTACTTTTTTCATATACTGAT
57 AGGCCAGCACCCAA--ATTTTTTTTTTA-TTTTTTCGTATATTTAT
* * * ** * *
2759324 ATTTGATTCTGACACGAAAAAAA-TTCAATTTTTTTTACTGTTGGGTGTCGGCCATTGACAGGCC
1 ATCTGATTCTGACACAAAAAAAATTTTAA-AATTTGTAC---TGGGTGCCGGCCATTGACAGGCC
*
2759388 ATCACCCAAA
62 AGCACCCAAA
2759398 AAAATTACTT
Statistics
Matches: 396, Mismatches: 41, Indels: 88
0.75 0.08 0.17
Matches are distributed among these distances:
88 46 0.12
90 25 0.06
91 13 0.03
92 3 0.01
93 15 0.04
94 2 0.01
95 4 0.01
96 8 0.02
97 50 0.13
98 5 0.01
100 4 0.01
101 6 0.02
104 27 0.07
105 9 0.02
107 46 0.12
109 6 0.02
110 37 0.09
113 2 0.01
115 36 0.09
116 7 0.02
117 41 0.10
119 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (99 bp):
ATCTGATTCTGACACAAAAAAAATTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCA
CCCAAATTTTTTTTTTATTTTTTCGTATATTTAT
Found at i:2758999 original size:90 final size:87
Alignment explanation
Indices: 2758895--2759076 Score: 265
Period size: 88 Copynumber: 2.1 Consensus size: 87
2758885 TTTTTTTTTA
*
2758895 TTTTTTCGTATATTTATATCTGATTCTGACACAAAAAAATTTTAAAATTTGTCCTAGGTGCCGGC
1 TTTTTTCGTATATTTATATCTGATTCTGACAC--AAAAATTTTAAAATTTGTACTAGGTGCCGGC
2758960 CATTGACAGGCCAGCACCCAAAATT
64 CATTGACAGGCCAGCACCC-AAATT
* * *** *
2758985 TTTTTTTGTATATTTATATCTGATTCTGACACGATTTTTTTAAAATTTGTACTGGGTGCCGGCCA
1 TTTTTTCGTATATTTATATCTGATTCTGACACAAAAATTTTAAAATTTGTACTAGGTGCCGGCCA
*
2759050 TTGACAGGCCAGTACCCAAATT
66 TTGACAGGCCAGCACCCAAATT
2759072 TTTTT
1 TTTTT
2759077 ATTATTTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
87 10 0.12
88 43 0.51
90 31 0.37
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (87 bp):
TTTTTTCGTATATTTATATCTGATTCTGACACAAAAATTTTAAAATTTGTACTAGGTGCCGGCCA
TTGACAGGCCAGCACCCAAATT
Found at i:2759162 original size:107 final size:107
Alignment explanation
Indices: 2759018--2759397 Score: 376
Period size: 117 Copynumber: 3.5 Consensus size: 107
2759008 TTCTGACACG
*
2759018 ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGTACCCAAATTTTTTTATTATT
1 ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTATTATT
* * ******
2759083 TTTTTCTTATATTTATATCTGATTCTGATACGAAAATTTTTT
66 TTTTTCATATATTTATATCTGATTCTGACACGAAAAAAAAGA
* *
2759125 TTTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTATTTTT
1 ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAA---TT-TTTTT
* *
2759190 ATTTTTATTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAAGA
60 A-TTAT-TTTTTTCATATATTTATATCTGATTCTGACACG--AAAAAAAAGA
* *
2759242 ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAATTTTTTTTTTTTTA
1 ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA--ATTTTTTTATTA
* * * * **
2759306 CTTTTTTCATATACTGATATTTGATTCTGACACGAAAAAAATTCA
64 TTTTTTTCATATATTTATATCTGATTCTGACACGAAAAAAA-AGA
* * * *
2759351 ATTTTTTT--TA-CTGT--TGGGTGTCGGCCATTGACAGGCCATCACCCAAA
1 ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
2759398 AAAATTACTT
Statistics
Matches: 230, Mismatches: 29, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
104 25 0.11
105 4 0.02
106 3 0.01
107 47 0.20
108 7 0.03
109 12 0.05
110 29 0.13
111 2 0.01
112 7 0.03
113 8 0.03
114 5 0.02
115 31 0.13
116 2 0.01
117 48 0.21
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (107 bp):
ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTATTATT
TTTTTCATATATTTATATCTGATTCTGACACGAAAAAAAAGA
Found at i:2759172 original size:195 final size:186
Alignment explanation
Indices: 2758849--2759197 Score: 477
Period size: 195 Copynumber: 1.8 Consensus size: 186
2758839 AAAAAAAATT
* *
2758849 TACTGGGTGCCGGCCATTGATAGGCCAGCACCAAATTTTTTTTTTATTTTTTCGTATATTTATAT
1 TACTGGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTATTATTTTTTCGTATATTTATAT
*
2758914 CTGATTCTGACACAAAAAAATTTTAAAATTTGTCCTAGGTGCCGGCCATTGACAGGCCAGCACCC
66 CTGATTCTGACACAAAAAAATTTTAAAATTTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCC
2758979 -AAAATTTTT-TTTTGTATATTTATATCTGATTCTGACACGATTTTTTTAAAATTTG
131 AAAAATTTTTATTTT-TATATTTATATCTGATTCTGACACGATTTTTTTAAAATTTG
* *
2759034 TACTGGGTGCCGGCCATTGACAGGCCAGTACCCAAATTTTTTTATTATTTTTTTCTTATATTTAT
1 TACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAATTTTTTTATTA-TTTTTTCGTATATTTAT
* *** * *
2759099 ATCTGATTCTGATACGAAAATTTTTTTTTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAG
64 ATCTGATTCTGACAC-AAAA-------AAATTTTAAAATTTGTACTAGGTGCCGGCCATTGACAG
*
2759164 GCCAGCACCCAAAAATTTTTATTTTTATTTTTAT
121 GCCAGCACCCAAAAATTTTTATTTTTATATTTAT
2759198 TTTTTCGTAT
Statistics
Matches: 140, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
185 28 0.20
186 15 0.11
187 30 0.21
188 4 0.03
195 42 0.30
196 17 0.12
197 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (186 bp):
TACTGGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTATTATTTTTTCGTATATTTATAT
CTGATTCTGACACAAAAAAATTTTAAAATTTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCC
AAAAATTTTTATTTTTATATTTATATCTGATTCTGACACGATTTTTTTAAAATTTG
Found at i:2759285 original size:117 final size:112
Alignment explanation
Indices: 2759018--2759399 Score: 369
Period size: 107 Copynumber: 3.5 Consensus size: 112
2759008 TTCTGACACG
* *
2759018 ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGTACCC--AAA---TTTTTTTA
1 ATTTTTTT-AAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTT
* * * * * *******
2759078 TTATTTTTTTCTTATATTTATATCTGATTCTGATACGAAAATTTTTTT
65 TTACTTTTTTCATATACTGATATCTGATTCTGACACGAAAAAAAAACA
*
2759126 TTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTATTTTTA
1 ATTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA--TTT-TTTTT-
* * * *
2759191 TTTTTA-TTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAAGA
62 TTTTTACTTTTTTCATATACTGATATCTGATTCTGACACG-AAAAAAAAACA
2759242 ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CC---AATTTTTTTTTTT
1 ATTTTTTT-AAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTT
* **
2759303 TTACTTTTTTCATATACTGATATTTGATTCTGACACGAAAAAAATTCA
65 TTACTTTTTTCATATACTGATATCTGATTCTGACACGAAAAAAAAACA
* * * *
2759351 ATTTTTTT-TA-CTGT--TGGGTGTCGGCCATTGACAGGCCATCACCCAAAAA
1 ATTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
2759400 AATTACTTTT
Statistics
Matches: 234, Mismatches: 24, Indels: 32
0.81 0.08 0.11
Matches are distributed among these distances:
104 25 0.11
105 2 0.01
106 3 0.01
107 40 0.17
108 9 0.04
109 25 0.11
110 34 0.15
111 3 0.01
113 2 0.01
115 36 0.15
116 18 0.08
117 37 0.16
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (112 bp):
ATTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTTT
TACTTTTTTCATATACTGATATCTGATTCTGACACGAAAAAAAAACA
Found at i:2759421 original size:110 final size:112
Alignment explanation
Indices: 2759018--2759423 Score: 313
Period size: 110 Copynumber: 3.7 Consensus size: 112
2759008 TTCTGACACG
* * *
2759018 ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGTACCC--AAA-TTT-TTTTAT
1 ATTTTTTT-AAATCTGTA-TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTATTTTTT
* * * * * *******
2759079 T-ATTTTTTTCTTATATTTATATCTGATTCTGATACG-AAAATTTTTTT
64 TCTTTTTTTTCATATACTGATATCTGATTCTGACACGAAAAAAAAAACA
* *
2759126 TTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTATTTTTA
1 ATTTTTTTAAATCTGTA-TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA-TTTTATTTTT-
* * * * *
2759191 TTTTTATTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAAGA
63 TTCTT-TTTTTTCATATACTGATATCTGATTCTGACACGAAAAAAAAAACA
*
2759242 ATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CC---AATTTT-TTTTTT
1 ATTTTTTT-AAATCTGTA-TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTATTTTTT
* **
2759302 T-TTACTTTTTTCATATACTGATATTTGATTCTGACACG-AAAAAAATTCA
64 TCTT--TTTTTTCATATACTGATATCTGATTCTGACACGAAAAAAAAAACA
* * * **
2759351 ATTTTTTT-TA-CTGT-TGGGTGTCGGCCATTGACAGGCCATCACCCAAAAAAATTACTTTTTTT
1 ATTTTTTTAAATCTGTATGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTA-TTTTTTT
2759413 CCTTTTTTTTC
65 -CTTTTTTTTC
2759424 TTTTTGCTTT
Statistics
Matches: 251, Mismatches: 28, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
104 25 0.10
105 2 0.01
106 3 0.01
107 40 0.16
108 11 0.04
109 21 0.08
110 45 0.18
111 8 0.03
112 10 0.04
113 4 0.02
114 1 0.00
115 31 0.12
116 13 0.05
117 37 0.15
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (112 bp):
ATTTTTTTAAATCTGTATGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTATTTTTTTC
TTTTTTTTCATATACTGATATCTGATTCTGACACGAAAAAAAAAACA
Found at i:2765702 original size:24 final size:24
Alignment explanation
Indices: 2765670--2765725 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
2765660 ATAGTTGTGT
2765670 TTATTTTAAGAAAAACAGTGATGG
1 TTATTTTAAGAAAAACAGTGATGG
2765694 TTATTTTAAGAAAAACAGTGATGG
1 TTATTTTAAGAAAAACAGTGATGG
2765718 TTATTTTA
1 TTATTTTA
2765726 TATATCTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (24 bp):
TTATTTTAAGAAAAACAGTGATGG
Found at i:2767559 original size:22 final size:22
Alignment explanation
Indices: 2767517--2767561 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2767507 TATAACAAGA
**
2767517 TTTTAATTTAACATGTTTAATT
1 TTTTAATTTAACATGAATAATT
2767539 TTTTAATTTAAC-TCGAATAATT
1 TTTTAATTTAACAT-GAATAATT
2767561 T
1 T
2767562 AACTCGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTAATTTAACATGAATAATT
Found at i:2767561 original size:14 final size:14
Alignment explanation
Indices: 2767542--2767568 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2767532 TTTAATTTTT
2767542 TAATTTAACTCGAA
1 TAATTTAACTCGAA
2767556 TAATTTAACTCGA
1 TAATTTAACTCGA
2767569 TTCGATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (14 bp):
TAATTTAACTCGAA
Found at i:2769118 original size:48 final size:48
Alignment explanation
Indices: 2769047--2769142 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
2769037 CGATGACACG
2769047 TTTCTCCGGAACAGCCTGTGCATATCCAAGAGTGGCACCAACTGACCA
1 TTTCTCCGGAACAGCCTGTGCATATCCAAGAGTGGCACCAACTGACCA
*
2769095 TTTCTCTGGAACAGCCTGTGCATATCCAAGAGTGGCACCAACTGACCA
1 TTTCTCCGGAACAGCCTGTGCATATCCAAGAGTGGCACCAACTGACCA
2769143 CCCAATTGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (48 bp):
TTTCTCCGGAACAGCCTGTGCATATCCAAGAGTGGCACCAACTGACCA
Found at i:2771105 original size:16 final size:16
Alignment explanation
Indices: 2771084--2771125 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2771074 TTTTGATAAA
*
2771084 ATTAAAATTAATTGTT
1 ATTAAAATTAATTATT
2771100 ATTAAAATTAATTATT
1 ATTAAAATTAATTATT
*
2771116 AGTAAAATTA
1 ATTAAAATTA
2771126 TCAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTATT
Found at i:2771185 original size:66 final size:71
Alignment explanation
Indices: 2771121--2771263 Score: 179
Period size: 75 Copynumber: 2.0 Consensus size: 71
2771111 TTATTAGTAA
*
2771121 AATTATCAAATTATTAATTG-TTAATTG-T-A-T-TAATTGTTGTAACAAAATTTAACAGTTGAT
1 AATTATCAAATTATTAATTGATTAATTGTTAATTATAATTGTTGTAACAAAATCTAACAGTTGAT
2771181 TAGTAA
66 TAGTAA
* * *
2771187 AATTATTAAATTATTAATTGTATTAATTGTTAATTGTAATAATTGTTGTAACAAAATCTAATATT
1 AATTATCAAATTATTAATTG-ATTAATTGTTAA-T-T-ATAATTGTTGTAACAAAATCTAACAGT
2771252 TGATTAGTAA
62 TGATTAGTAA
2771262 AA
1 AA
2771264 CAAACCTGAT
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
66 19 0.30
68 7 0.11
69 1 0.02
70 1 0.02
73 1 0.02
75 35 0.55
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (71 bp):
AATTATCAAATTATTAATTGATTAATTGTTAATTATAATTGTTGTAACAAAATCTAACAGTTGAT
TAGTAA
Found at i:2771219 original size:16 final size:16
Alignment explanation
Indices: 2771190--2771233 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
2771180 TTAGTAAAAT
*
2771190 TATTAAATTATTAATTG
1 TATT-AATTGTTAATTG
2771207 TATTAATTGTTAATTG
1 TATTAATTGTTAATTG
*
2771223 TAATAATTGTT
1 TATTAATTGTT
2771234 GTAACAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (16 bp):
TATTAATTGTTAATTG
Found at i:2774328 original size:64 final size:64
Alignment explanation
Indices: 2774252--2774582 Score: 352
Period size: 64 Copynumber: 5.2 Consensus size: 64
2774242 GGCTACACCG
*
2774252 AAAGCA-ATACAAACAAAGACCACTGTTGTCTTCAATGAGAAAGCAATGAAACTCTAAACACCCA
1 AAAGCATA-ACAAACAAAGACCACTGTTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCA
* * * * * * *
2774316 AAAGCATAACAAACGAAAG-CCACTGTTGTGTGCAAGTAAAAAAG-AGT-AAACCCCAAACACTC
1 AAAGCATAACAAAC-AAAGACCACTGTTGTCTTCAA-TGAGAAAGCAATGAAACCCTAAACACCC
2774378 A
64 A
* * **
2774379 AAAGCATTACAAACAAAGACCAGTACTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCA
1 AAAGCATAACAAACAAAGACCACTGTTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCA
* * * * * ** *
2774443 AAAGCATAACAAACGAAAG-CCACTGTTGTATGCAAATAAAAAAG-AGT-AAACCCCGAACACTC
1 AAAGCATAACAAAC-AAAGACCACTGTTGTCTTC-AATGAGAAAGCAATGAAACCCTAAACACCC
2774505 A
64 A
* * *
2774506 AAAGCATTACAAACAAAGACCAGTATTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCA
1 AAAGCATAACAAACAAAGACCACTGTTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCA
*
2774570 AAAGCATTACAAA
1 AAAGCATAACAAA
2774583 TGTGATTTCT
Statistics
Matches: 214, Mismatches: 42, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
62 22 0.10
63 77 0.36
64 92 0.43
65 23 0.11
ACGTcount: A:0.48, C:0.23, G:0.13, T:0.16
Consensus pattern (64 bp):
AAAGCATAACAAACAAAGACCACTGTTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCA
Found at i:2774462 original size:127 final size:127
Alignment explanation
Indices: 2774252--2774582 Score: 581
Period size: 127 Copynumber: 2.6 Consensus size: 127
2774242 GGCTACACCG
* * * *
2774252 AAAGCAATACAAACAAAGACCACTGTTGTCTTCAATGAGAAAGCAATGAAACTCTAAACACCCAA
1 AAAGCATTACAAACAAAGACCAGTATTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCAA
* *
2774317 AAGCATAACAAACGAAAGCCACTGTTGTGTGCAAGTAAAAAAGAGTAAACCCCAAACACTCA
66 AAGCATAACAAACGAAAGCCACTGTTGTATGCAAATAAAAAAGAGTAAACCCCAAACACTCA
*
2774379 AAAGCATTACAAACAAAGACCAGTACTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCAA
1 AAAGCATTACAAACAAAGACCAGTATTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCAA
*
2774444 AAGCATAACAAACGAAAGCCACTGTTGTATGCAAATAAAAAAGAGTAAACCCCGAACACTCA
66 AAGCATAACAAACGAAAGCCACTGTTGTATGCAAATAAAAAAGAGTAAACCCCAAACACTCA
2774506 AAAGCATTACAAACAAAGACCAGTATTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCAA
1 AAAGCATTACAAACAAAGACCAGTATTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCAA
*
2774571 AAGCATTACAAA
66 AAGCATAACAAA
2774583 TGTGATTTCT
Statistics
Matches: 194, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 194 1.00
ACGTcount: A:0.48, C:0.23, G:0.13, T:0.16
Consensus pattern (127 bp):
AAAGCATTACAAACAAAGACCAGTATTGTCTTCAATGAGAAAGCAATGAAACCCTAAACACCCAA
AAGCATAACAAACGAAAGCCACTGTTGTATGCAAATAAAAAAGAGTAAACCCCAAACACTCA
Found at i:2774846 original size:19 final size:18
Alignment explanation
Indices: 2774801--2774859 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
2774791 AGACTTAATA
2774801 AAAATTA-TAAAAATATTT
1 AAAATTATTAAAAAT-TTT
* *
2774819 GAACA-TATTAAAGATTTAT
1 -AAAATTATTAAAAATTT-T
2774838 AAAATTATTAAAAATTTT
1 AAAATTATTAAAAATTTT
2774856 AAAA
1 AAAA
2774860 AATTGAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 12 0.36
19 21 0.64
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (18 bp):
AAAATTATTAAAAATTTT
Found at i:2774851 original size:10 final size:10
Alignment explanation
Indices: 2774838--2774950 Score: 55
Period size: 10 Copynumber: 11.8 Consensus size: 10
2774828 AAAGATTTAT
2774838 AAAATTATTA
1 AAAATTATTA
2774848 AAAATT-TTA
1 AAAATTATTA
2774857 AAAA--ATTGA
1 AAAATTATT-A
*
2774866 GAAAATCATTTA
1 -AAAATTA-TTA
2774878 AAAA--ATTA
1 AAAATTATTA
*
2774886 AAAATGATTA
1 AAAATTATTA
* * *
2774896 AAAAATGTAA
1 AAAATTATTA
*
2774906 AAAATTATTT
1 AAAATTATTA
*
2774916 GAAATT-TATA
1 AAAATTAT-TA
*
2774926 AGAATT-TT-
1 AAAATTATTA
2774934 AAAATT-TTA
1 AAAATTATTA
2774943 AAAATTAT
1 AAAATTAT
2774951 AATATATTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
8 16 0.20
9 17 0.22
10 38 0.48
11 4 0.05
12 2 0.03
13 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (10 bp):
AAAATTATTA
Found at i:2774879 original size:21 final size:19
Alignment explanation
Indices: 2774844--2774908 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
2774834 TTATAAAATT
2774844 ATTAAAAAT--TTTAAAAA
1 ATTAAAAATCATTTAAAAA
2774861 ATTGAGAAAATCATTTAAAAA
1 ATT-A-AAAATCATTTAAAAA
*
2774882 ATTAAAAATGA-TTAAAAA
1 ATTAAAAATCATTTAAAAA
2774900 ATGTAAAAA
1 AT-TAAAAA
2774909 ATTATTTGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
17 3 0.07
18 10 0.24
19 17 0.40
20 1 0.02
21 11 0.26
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (19 bp):
ATTAAAAATCATTTAAAAA
Found at i:2777081 original size:9 final size:9
Alignment explanation
Indices: 2777065--2777116 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
2777055 GGTATTTTTC
2777065 GGTAATTCG
1 GGTAATTCG
*
2777074 GTTAATTCG
1 GGTAATTCG
*
2777083 GTTAATTCG
1 GGTAATTCG
2777092 GGTAATTCG
1 GGTAATTCG
2777101 GGTAATTCG
1 GGTAATTCG
2777110 GGTAATT
1 GGTAATT
2777117 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:2777407 original size:43 final size:43
Alignment explanation
Indices: 2777360--2777499 Score: 172
Period size: 43 Copynumber: 3.3 Consensus size: 43
2777350 TCGTGTTTTT
*** * *
2777360 TAGCGGCGTTTATAAAAAAAGCACCGCTAGAAGTCATGATCTA
1 TAGCGGCGTTTATGGGAAAAGCGCCGCTAAAAGTCATGATCTA
**
2777403 TAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTATGGGAAAAGCGCCGCTAAAAGTCATGATCTA
*** * *
2777446 TAGCTATGTTTATGGGAGAAGTGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTATGGGAAAAGCGCCGCTAAAAGTCATGATCTA
2777489 TAGCGGCGTTT
1 TAGCGGCGTTT
2777500 GTTGGAGAAC
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTATGGGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:2780368 original size:14 final size:13
Alignment explanation
Indices: 2780355--2780390 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
2780345 TTATCATTTA
2780355 AAGTTTAGGGTTT
1 AAGTTTAGGGTTT
*
2780368 AAGTTTTAGAGTTT
1 AAG-TTTAGGGTTT
2780382 AAGTTTAGG
1 AAGTTTAGG
2780391 TTTTTAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (13 bp):
AAGTTTAGGGTTT
Found at i:2780375 original size:21 final size:21
Alignment explanation
Indices: 2780351--2780485 Score: 64
Period size: 21 Copynumber: 6.6 Consensus size: 21
2780341 AAATTTATCA
2780351 TTTAAAGTTTAGGGTTTAAGT
1 TTTAAAGTTTAGGGTTTAAGT
* * *
2780372 TTTAGAGTTTA-AGTTTAGGT
1 TTTAAAGTTTAGGGTTTAAGT
* ** * * *
2780392 TTTTAACATTAGAGTTTAGGA
1 TTTAAAGTTTAGGGTTTAAGT
* * *
2780413 TTTATAGTTTAAGATTTAAGT
1 TTTAAAGTTTAGGGTTTAAGT
* * *
2780434 TTTAGAGTTTA-AG-TTGAGAT
1 TTTAAAGTTTAGGGTTTAAG-T
* *
2780454 TTTTAA--TTAAGGTTTAAGT
1 TTTAAAGTTTAGGGTTTAAGT
*
2780473 TTTAATGTTTAGG
1 TTTAAAGTTTAGG
2780486 ATATTATGAT
Statistics
Matches: 80, Mismatches: 28, Indels: 12
0.67 0.23 0.10
Matches are distributed among these distances:
18 3 0.04
19 10 0.12
20 23 0.29
21 44 0.55
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.49
Consensus pattern (21 bp):
TTTAAAGTTTAGGGTTTAAGT
Found at i:2780421 original size:14 final size:13
Alignment explanation
Indices: 2780404--2780448 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
2780394 TTAACATTAG
*
2780404 AGTTTAGGATTTA
1 AGTTTAAGATTTA
2780417 TAGTTTAAGATTTA
1 -AGTTTAAGATTTA
*
2780431 AGTTTTAGAGTTTA
1 AGTTTAAGA-TTTA
2780445 AGTT
1 AGTT
2780449 GAGATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 8 0.29
14 20 0.71
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (13 bp):
AGTTTAAGATTTA
Found at i:2784311 original size:5 final size:6
Alignment explanation
Indices: 2784293--2784318 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2784283 CACCTAGTGC
2784293 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
2784319 CATACAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:2786801 original size:31 final size:31
Alignment explanation
Indices: 2786742--2786801 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
2786732 GTAGACTTTT
* * **
2786742 TTTTGAAAAATTAATAGTTAAATCTAATTCC
1 TTTTAAAAAATTAAAAGAAAAATCTAATTCC
*
2786773 TTTTAAAAAATTAAAAGAAAAATTTAATT
1 TTTTAAAAAATTAAAAGAAAAATCTAATT
2786802 AAAAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (31 bp):
TTTTAAAAAATTAAAAGAAAAATCTAATTCC
Found at i:2790173 original size:16 final size:18
Alignment explanation
Indices: 2790134--2790167 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2790124 TAAGTTTATA
2790134 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
2790151 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
2790168 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Done.