Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 57 of 100
Found at i:13364067 original size:23 final size:19
Alignment explanation
Indices: 13364045--13364084 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 19
13364035 ATCATAAATT
13364045 TTTAGAGAGATAAAGAAAGAA
1 TTTAGAG-GA-AAAGAAAGAA
13364066 TTTAGAGGAAAAGAAAGAA
1 TTTAGAGGAAAAGAAAGAA
13364085 AAATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 2 0.11
21 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.17
Consensus pattern (19 bp):
TTTAGAGGAAAAGAAAGAA
Found at i:13374879 original size:22 final size:19
Alignment explanation
Indices: 13374840--13374876 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
13374830 CATATGTCAC
13374840 TAAAAATTATTATTTTATG
1 TAAAAATTATTATTTTATG
13374859 TAAAAATTATTATTTTAT
1 TAAAAATTATTATTTTAT
13374877 TATAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TAAAAATTATTATTTTATG
Found at i:13375613 original size:20 final size:20
Alignment explanation
Indices: 13375590--13375639 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13375580 TTTTAATAAG
*
13375590 TTTTAAAATATTTT-ATTATA
1 TTTTAAAAT-TTTTAAATATA
*
13375610 TTTTAATATTTTTAAATATA
1 TTTTAAAATTTTTAAATATA
*
13375630 TTTTTAAATT
1 TTTTAAAATT
13375640 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTAAAATTTTTAAATATA
Found at i:13375865 original size:20 final size:21
Alignment explanation
Indices: 13375830--13375869 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13375820 AATTAATGTG
13375830 AATTTTATATAAAATTTTAAT
1 AATTTTATATAAAATTTTAAT
*
13375851 AATTTT-TATATAATTTTAA
1 AATTTTATATAAAATTTTAA
13375870 ATTGTGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTTATATAAAATTTTAAT
Found at i:13380295 original size:18 final size:18
Alignment explanation
Indices: 13380273--13380308 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
13380263 GTATTATTAG
*
13380273 ATTTTTATAT-TATATTT
1 ATTTTTTTATCTATATTT
13380290 ATTTTTTTATCTATATTT
1 ATTTTTTTATCTATATTT
13380308 A
1 A
13380309 ATACTTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTATCTATATTT
Found at i:13380449 original size:20 final size:20
Alignment explanation
Indices: 13380392--13380455 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
13380382 AAAATATATA
*
13380392 AAAAATTTTAATTAATTTAA-
1 AAAAATTTT-ATTTATTTAAT
*
13380412 AATAATAATTTATATTATTTAAT
1 AA-AA-ATTTTAT-TTATTTAAT
*
13380435 AAAAATTTTATTTATTAAAT
1 AAAAATTTTATTTATTTAAT
13380455 A
1 A
13380456 TATATAAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 11 0.31
21 10 0.28
22 13 0.36
23 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAAATTTTATTTATTTAAT
Found at i:13383052 original size:21 final size:22
Alignment explanation
Indices: 13383011--13383056 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
13383001 TTTATGCATG
*
13383011 ATAAATTTTTAAATTTGTTAAA
1 ATAAATGTTTAAATTTGTTAAA
*
13383033 ATAAATGTTT-AA-TTGTTTAA
1 ATAAATGTTTAAATTTGTTAAA
13383053 ATAA
1 ATAA
13383057 TAATAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 2 0.09
22 9 0.41
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
ATAAATGTTTAAATTTGTTAAA
Found at i:13383398 original size:18 final size:18
Alignment explanation
Indices: 13383373--13383413 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13383363 CTAAGTTTCT
13383373 AAAA-CCCCCTAAAACCC
1 AAAATCCCCCTAAAACCC
* *
13383390 AAAATCCCCTTAAAATCC
1 AAAATCCCCCTAAAACCC
13383408 AAAATC
1 AAAATC
13383414 TTAAAATCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAATCCCCCTAAAACCC
Found at i:13383418 original size:15 final size:15
Alignment explanation
Indices: 13383397--13383477 Score: 81
Period size: 15 Copynumber: 5.3 Consensus size: 15
13383387 CCCAAAATCC
13383397 CCTTAAAATCCAAAA
1 CCTTAAAATCCAAAA
* *
13383412 TCTTAAAATCCGAAA
1 CCTTAAAATCCAAAA
* *
13383427 CCTTTAAATCCAAAC
1 CCTTAAAATCCAAAA
*
13383442 CCCTAAAATCCAAAA
1 CCTTAAAATCCAAAA
**
13383457 TCTCCGAAAATCCAAAA
1 -C-CTTAAAATCCAAAA
13383474 CCTT
1 CCTT
13383478 CTAAACCTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
15 37 0.71
16 2 0.04
17 13 0.25
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (15 bp):
CCTTAAAATCCAAAA
Found at i:13383448 original size:14 final size:15
Alignment explanation
Indices: 13383378--13383455 Score: 59
Period size: 15 Copynumber: 5.0 Consensus size: 15
13383368 TTTCTAAAAC
*
13383378 CCCCTAAAACCCAAAA
1 CCCCTAAAATCC-AAA
13383394 TCCCCTTAAAATCCAAA
1 -CCCC-TAAAATCCAAA
** *
13383411 ATCTTAAAATCCGAAA
1 CCCCTAAAATCC-AAA
* *
13383427 -CCTTTAAATCCAAA
1 CCCCTAAAATCCAAA
13383441 CCCCTAAAATCCAAA
1 CCCCTAAAATCCAAA
13383456 ATCTCCGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
14 3 0.06
15 29 0.58
16 4 0.08
17 7 0.14
18 7 0.14
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (15 bp):
CCCCTAAAATCCAAA
Found at i:13391469 original size:33 final size:33
Alignment explanation
Indices: 13391426--13391875 Score: 582
Period size: 33 Copynumber: 13.7 Consensus size: 33
13391416 AGAGAAAAAA
* *
13391426 CTTTAAGCCCAGTTTATCTAGCCATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
13391459 TTTTAAGCCCAGTTTATCTAGCCATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
13391492 TTTTAAGCCCAGTTTATTTGGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
13391525 CTTTAAGCCCAGTTTATCTAGCCATCAATGAAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
13391558 CTTTAAGCTCAGTTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
13391591 CTTTAAGCCTAGTTTATCTGGCCAACAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
13391624 CTTTAAGCCCAGTTTATCTGGCCATCAATGATG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * *
13391657 CTTTAAGCCTATTTTATCTGACCATCAATGAAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
13391690 CTTTAAGCCCAGTTTATCTGGCTATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
13391723 TTTTAAGCCCAGTTTATCTGGCCATCAATGAAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
13391756 CTTTAAGCCCAATTTGTCTGGCCATCAATGAAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
13391789 TTTTAAGCCCAGTTTATCTGGCCATCAATGATA-
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGA-AG
* * * * *
13391822 -TTTAAGCCCAATTTAGCTGGCCTTTAAT-AAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
13391853 ATTTAAGCCCAGTTTATTTGGCC
1 CTTTAAGCCCAGTTTATCTGGCC
13391876 CCAAAAAAAG
Statistics
Matches: 369, Mismatches: 45, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
30 1 0.00
31 1 0.00
32 43 0.12
33 323 0.88
34 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (33 bp):
CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
Found at i:13392579 original size:22 final size:22
Alignment explanation
Indices: 13392554--13392632 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
13392544 ATCAATTCTG
13392554 TAAGACCTCCGGACATGATTTC
1 TAAGACCTCCGGACATGATTTC
* *
13392576 TAAGACCTCCGGGCATGATTCTG
1 TAAGACCTCCGGACATGATT-TC
**
13392599 TAAGACCTTTGAGA-ATGATTTC
1 TAAGACCTCCG-GACATGATTTC
*
13392621 TAAGATCTCCGG
1 TAAGACCTCCGG
13392633 GTATAAATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 1 0.02
22 28 0.61
23 16 0.35
24 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (22 bp):
TAAGACCTCCGGACATGATTTC
Found at i:13392598 original size:45 final size:45
Alignment explanation
Indices: 13392548--13392633 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
13392538 ATCACAATCA
13392548 ATTCTGTAAGACCTCCG-GACATGATTTCTAAGACCTCCGGGCATG
1 ATTCTGTAAGACCTCCGAGA-ATGATTTCTAAGACCTCCGGGCATG
** *
13392593 ATTCTGTAAGACCTTTGAGAATGATTTCTAAGATCTCCGGG
1 ATTCTGTAAGACCTCCGAGAATGATTTCTAAGACCTCCGGG
13392634 TATAAATTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 35 0.95
46 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (45 bp):
ATTCTGTAAGACCTCCGAGAATGATTTCTAAGACCTCCGGGCATG
Found at i:13392606 original size:23 final size:23
Alignment explanation
Indices: 13392548--13392606 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 23
13392538 ATCACAATCA
13392548 ATTCTGTAAGACCTCCGGACATG
1 ATTCTGTAAGACCTCCGGACATG
* *
13392571 ATT-TCTAAGACCTCCGGGCATG
1 ATTCTGTAAGACCTCCGGACATG
13392593 ATTCTGTAAGACCT
1 ATTCTGTAAGACCT
13392607 TTGAGAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (23 bp):
ATTCTGTAAGACCTCCGGACATG
Found at i:13392981 original size:15 final size:15
Alignment explanation
Indices: 13392957--13393018 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
13392947 TATTTTAATT
*
13392957 TTAATGATAATATTA
1 TTAATAATAATATTA
*
13392972 TTAATAATAATAATA
1 TTAATAATAATATTA
*
13392987 TTTAAAAATAATTATTAA
1 -TTAATAATAA-TATT-A
*
13393005 TTATATAAAAATAT
1 TTA-ATAATAATAT
13393019 AAAAAACAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.35
16 9 0.24
17 9 0.24
18 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
TTAATAATAATATTA
Found at i:13393021 original size:29 final size:29
Alignment explanation
Indices: 13392968--13393024 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
13392958 TAATGATAAT
*
13392968 ATTATTAATAATAATAATATTTAAAAATA
1 ATTATTAATAATAATAATATATAAAAATA
*
13392997 ATTATTAATTATATAAAAATATA-AAAAA
1 ATTATTAA-TA-ATAATAATATATAAAAA
13393025 CAAAAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.33
30 7 0.29
31 9 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
ATTATTAATAATAATAATATATAAAAATA
Found at i:13393036 original size:6 final size:7
Alignment explanation
Indices: 13393019--13393060 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
13393009 ATAAAAATAT
13393019 AAAAAAC
1 AAAAAAC
13393026 AAAAAAC
1 AAAAAAC
13393033 AAAAAAC
1 AAAAAAC
*
13393040 AAAAAGAGA
1 AAAAA-A-C
13393049 AAAAAAC
1 AAAAAAC
13393056 AAAAA
1 AAAAA
13393061 GTAGGGTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 24 0.77
8 2 0.06
9 5 0.16
ACGTcount: A:0.86, C:0.10, G:0.05, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:13393600 original size:11 final size:11
Alignment explanation
Indices: 13393584--13393608 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13393574 CAATTTCTCA
13393584 AAAAAAAAAAG
1 AAAAAAAAAAG
13393595 AAAAAAAAAAG
1 AAAAAAAAAAG
13393606 AAA
1 AAA
13393609 CCGAAAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:13394291 original size:15 final size:15
Alignment explanation
Indices: 13394270--13394348 Score: 86
Period size: 15 Copynumber: 5.1 Consensus size: 15
13394260 CCCAAAATCC
13394270 CCTTAAAATCCAAAA
1 CCTTAAAATCCAAAA
* *
13394285 TCTTAAAATCCGAAA
1 CCTTAAAATCCAAAA
* *
13394300 CCTTTAAATCCAAAC
1 CCTTAAAATCCAAAA
*
13394315 CCCTAAAATCCAAAA
1 CCTTAAAATCCAAAA
*
13394330 TCTCCTAAAATCCAAAA
1 -C-CTTAAAATCCAAAA
13394347 CC
1 CC
13394349 CTCTAAACCT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
15 37 0.70
16 2 0.04
17 14 0.26
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (15 bp):
CCTTAAAATCCAAAA
Found at i:13394354 original size:17 final size:17
Alignment explanation
Indices: 13394246--13394355 Score: 74
Period size: 15 Copynumber: 6.8 Consensus size: 17
13394236 CTAAGTTTCT
* * *
13394246 AAAACCCCCTATAACCC
1 AAAACCCTCTAAAATCC
13394263 AAAATCCC-CTTAAAATCC
1 AAAA-CCCTC-TAAAATCC
*
13394281 AAAA-TCT-TAAAATCC
1 AAAACCCTCTAAAATCC
* *
13394296 GAAA-CCT-TTAAATCC
1 AAAACCCTCTAAAATCC
13394311 -AAACCC-CTAAAATCC
1 AAAACCCTCTAAAATCC
*
13394326 AAAA-TCTCCTAAAATCC
1 AAAACCCT-CTAAAATCC
13394343 AAAACCCTCTAAA
1 AAAACCCTCTAAA
13394356 CCTTAAAACC
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
14 3 0.04
15 30 0.40
16 4 0.05
17 23 0.31
18 15 0.20
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (17 bp):
AAAACCCTCTAAAATCC
Found at i:13405081 original size:13 final size:13
Alignment explanation
Indices: 13405051--13405084 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13405041 ATTATAATTG
*
13405051 AAAAGTATTGTAA
1 AAAATTATTGTAA
*
13405064 AAAATTATTGTGA
1 AAAATTATTGTAA
13405077 AAAATTAT
1 AAAATTAT
13405085 GACTTAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (13 bp):
AAAATTATTGTAA
Found at i:13406185 original size:62 final size:63
Alignment explanation
Indices: 13406110--13406419 Score: 219
Period size: 62 Copynumber: 5.0 Consensus size: 63
13406100 GTTTAGTTTG
* * *
13406110 TTTTTATCTAAAAA-ACTTTTAATAATTCATACAAAAAAATTTGAAAGAGATTATTGAATGAT
1 TTTTTATCCAAAAACACTTTTAATAATTCATACAAAAAATTTTGAAAGAGATTATTGAAAGAT
* * * * * * *
13406172 TTTTTAACCAAAAAC-GTCTTAATAATCTCTTTC---AAATTTTTACGAATAGATTATTGAAAGA
1 TTTTTATCCAAAAACACTTTTAATAAT-TCATACAAAAAATTTTGA--AAGAGATTATTGAAAGA
*
13406233 G
63 T
* ** * *
13406234 TTTTTATCCAAAAACACTTTTAATGAGCCATATAAAAAATTTTAGAAA-AGATTATTAAAAGTAT
1 TTTTTATCCAAAAACACTTTTAATAATTCATACAAAAAATTTT-GAAAGAGATTATTGAAAG-AT
* * * * * * * * *
13406298 TTTTGAT-CAAAAATACGTTCAATAATCTCCTTC--AAATTTTTACAAAGAGATTATTGAAAGTT
1 TTTTTATCCAAAAACACTTTTAATAAT-TCATACAAAAAATTTT-GAAAGAGATTATTGAAAGAT
* * *
13406360 TTTTTATCCAAAAACACTTTCAATAA-TCTATACAAAATATTTTGAAAGGGATTATT-AAAG
1 TTTTTATCCAAAAACACTTTTAATAATTC-ATACAAAAAATTTTGAAAGAGATTATTGAAAG
13406420 GCCTTTTTTT
Statistics
Matches: 186, Mismatches: 46, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
60 7 0.04
61 2 0.01
62 76 0.41
63 76 0.41
64 17 0.09
65 7 0.04
66 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (63 bp):
TTTTTATCCAAAAACACTTTTAATAATTCATACAAAAAATTTTGAAAGAGATTATTGAAAGAT
Found at i:13406413 original size:63 final size:65
Alignment explanation
Indices: 13406110--13406419 Score: 256
Period size: 63 Copynumber: 5.0 Consensus size: 65
13406100 GTTTAGTTTG
* * * * *
13406110 TTTTTATCTAAAAA-ACTTTTAATAAT-TCATACAAAAAAATTT-GAAAGAGATTATTGAATGAT
1 TTTTTATCCAAAAACACTTTCAATAATCTCATACAAAATATTTTAGAAAGAGATTATTGAAAGAT
* * * * *
13406172 TTTTTAACCAAAAAC-GTCTT-AATAATCTCTTTC-AAAT-TTTTACG-AATAGATTATTGAAAG
1 TTTTTATCCAAAAACACT-TTCAATAATCTCATACAAAATATTTTA-GAAAGAGATTATTGAAAG
*
13406232 AG
64 AT
* * * * * *
13406234 TTTTTATCCAAAAACACTTTTAATGAGC-CATATAAAAAATTTTAGAAA-AGATTATTAAAAGTA
1 TTTTTATCCAAAAACACTTTCAATAATCTCATACAAAATATTTTAGAAAGAGATTATTGAAAG-A
13406297 T
65 T
* * * * * * *
13406298 TTTTGAT-CAAAAATACGTTCAATAATCTCCTTC-AAAT-TTTTACAAAGAGATTATTGAAAGTT
1 TTTTTATCCAAAAACACTTTCAATAATCTCATACAAAATATTTTAGAAAGAGATTATTGAAAGAT
*
13406360 TTTTTATCCAAAAACACTTTCAATAATCT-ATACAAAATATTTT-GAAAGGGATTATT-AAAG
1 TTTTTATCCAAAAACACTTTCAATAATCTCATACAAAATATTTTAGAAAGAGATTATTGAAAG
13406420 GCCTTTTTTT
Statistics
Matches: 192, Mismatches: 40, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
61 3 0.02
62 76 0.40
63 93 0.48
64 20 0.10
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (65 bp):
TTTTTATCCAAAAACACTTTCAATAATCTCATACAAAATATTTTAGAAAGAGATTATTGAAAGAT
Found at i:13406427 original size:126 final size:125
Alignment explanation
Indices: 13406109--13406418 Score: 376
Period size: 126 Copynumber: 2.5 Consensus size: 125
13406099 TGTTTAGTTT
* * * *
13406109 GTTTTTATCTAAAAA-ACTTTTAATAAT-TCATACAAAAAAATTTGAAAGAGATTATTGAATGAT
1 GTTTTTATCCAAAAACACTTTTAATAATCT-ATACAAAAAATTTTGAAAGAGATTATTAAAAGAT
* * * * * *
13406172 TTTTTAACCAAAAACGTCTTAATAATCTCTTTCAAATTTTTACGAATAGATTATTGAAAGA
65 TTTTGAACAAAAAACGTCTCAATAATCTCCTTCAAATTTTTACAAAGAGATTATTGAAAGA
* * * *
13406233 GTTTTTATCCAAAAACACTTTTAATGAGCCATATAAAAAATTTTAGAAA-AGATTATTAAAAGTA
1 GTTTTTATCCAAAAACACTTTTAATAATCTATACAAAAAATTTT-GAAAGAGATTATTAAAAG-A
* *
13406297 TTTTTGATCAAAAATACGT-TCAATAATCTCCTTCAAATTTTTACAAAGAGATTATTGAAAGT
64 TTTTTGAACAAAAA-ACGTCTCAATAATCTCCTTCAAATTTTTACAAAGAGATTATTGAAAGA
* * * *
13406359 TTTTTTATCCAAAAACACTTTCAATAATCTATACAAAATATTTTGAAAGGGATTATTAAA
1 GTTTTTATCCAAAAACACTTTTAATAATCTATACAAAAAATTTTGAAAGAGATTATTAAA
13406419 GGCCTTTTTT
Statistics
Matches: 156, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
124 14 0.09
125 37 0.24
126 101 0.65
127 4 0.03
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (125 bp):
GTTTTTATCCAAAAACACTTTTAATAATCTATACAAAAAATTTTGAAAGAGATTATTAAAAGATT
TTTGAACAAAAAACGTCTCAATAATCTCCTTCAAATTTTTACAAAGAGATTATTGAAAGA
Found at i:13408802 original size:21 final size:21
Alignment explanation
Indices: 13408754--13408809 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
13408744 ATCCTTTAAT
*
13408754 TTTATTTAAGCTTTGTTCATA
1 TTTATTTAAGGTTTGTTCATA
* * * *
13408775 TTCATTTAGGGTTTGTTTATG
1 TTTATTTAAGGTTTGTTCATA
*
13408796 TTTATTTATGGTTT
1 TTTATTTAAGGTTT
13408810 ATTTGGTTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.05, G:0.16, T:0.61
Consensus pattern (21 bp):
TTTATTTAAGGTTTGTTCATA
Found at i:13408860 original size:26 final size:25
Alignment explanation
Indices: 13408831--13408900 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 25
13408821 GCTTGCTTAT
13408831 TATTCATGAATATGTTCGTTTATATA
1 TATTCATGAATATGTTCGTTTATA-A
* * *
13408857 TATTCATGAACATATTCG--TCTAA
1 TATTCATGAATATGTTCGTTTATAA
*
13408880 TATTCAT-AATAAGTTCGTTTA
1 TATTCATGAATATGTTCGTTTA
13408901 ACTTAATTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
22 7 0.20
23 8 0.23
24 4 0.11
26 16 0.46
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (25 bp):
TATTCATGAATATGTTCGTTTATAA
Found at i:13414017 original size:3 final size:3
Alignment explanation
Indices: 13414009--13414048 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
13413999 TGATTGTTTG
* *
13414009 AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT AGT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13414049 TGTATACTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:13415581 original size:7 final size:7
Alignment explanation
Indices: 13415571--13415624 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
13415561 AAATAAAAAA
13415571 TATATTT
1 TATATTT
13415578 TATATTT
1 TATATTT
13415585 TATATATT
1 TATAT-TT
*
13415593 TATA-TA
1 TATATTT
* *
13415599 AATATAT
1 TATATTT
*
13415606 TATTTTT
1 TATATTT
13415613 TATATTT
1 TATATTT
13415620 TATAT
1 TATAT
13415625 AAAATAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 4 0.11
7 27 0.73
8 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
TATATTT
Found at i:13417804 original size:29 final size:30
Alignment explanation
Indices: 13417772--13417844 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
13417762 TATTTTTCTT
* * *
13417772 AAATAAATTGTTATATTTTTA-TTATATCC
1 AAATAAATTCTTATACTTTGATTTATATCC
* * *
13417801 AAATAATTTTTTATACTTTGATTTATATTC
1 AAATAAATTCTTATACTTTGATTTATATCC
13417831 AAATAAATTCTTAT
1 AAATAAATTCTTAT
13417845 TTCAAATGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 17 0.47
30 19 0.53
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (30 bp):
AAATAAATTCTTATACTTTGATTTATATCC
Found at i:13417864 original size:119 final size:120
Alignment explanation
Indices: 13417738--13417978 Score: 421
Period size: 119 Copynumber: 2.0 Consensus size: 120
13417728 AGGCTAAAAT
* *
13417738 ATTCAAAAAGCTTCTAAACTATTTTATTTTTCTTAAATAAATTGTTATATTTTTATTATATCCAA
1 ATTCAAAAAGCTTCTAAACTATTTTATTTTTCTTAAATAAATTGTTATACTTTTATTATACCCAA
*
13417803 ATAATTTTTTATACTTTGATTTATATTCAAATAAATTCTTATTTCAAATG-AAGA
66 ATAATCTTTTATACTTTGATTTATATTCAAATAAATTCTTATTTCAAATGAAAGA
* * *
13417857 ATTCAAAAAGCTTCTAAATTATTTTATTTTTCTTAAATAAGTTTTTATACTTTTATTATACCCAA
1 ATTCAAAAAGCTTCTAAACTATTTTATTTTTCTTAAATAAATTGTTATACTTTTATTATACCCAA
13417922 ATAATCTTTTATACTTTGATTTATATTCAAATAAATTCTTATTTCAAATGAAAGA
66 ATAATCTTTTATACTTTGATTTATATTCAAATAAATTCTTATTTCAAATGAAAGA
13417977 AT
1 AT
13417979 GATTTATTTT
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 109 0.95
120 6 0.05
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (120 bp):
ATTCAAAAAGCTTCTAAACTATTTTATTTTTCTTAAATAAATTGTTATACTTTTATTATACCCAA
ATAATCTTTTATACTTTGATTTATATTCAAATAAATTCTTATTTCAAATGAAAGA
Found at i:13418030 original size:31 final size:30
Alignment explanation
Indices: 13417995--13418106 Score: 90
Period size: 30 Copynumber: 3.8 Consensus size: 30
13417985 TTTTAAAAGC
*
13417995 TTATTTAAGTACAAATTAAAATTTTAAAGAT
1 TTATTTAAGTACAAATTAAAA-GTTAAAGAT
* *
13418026 TTATTT-AGATATAAATTCAAAGTTAAAGAT
1 TTATTTAAG-TACAAATTAAAAGTTAAAGAT
* * * *
13418056 TTATTTGAA-TGCAAATTAAAAATTAAAAAC
1 TTATTT-AAGTACAAATTAAAAGTTAAAGAT
13418086 TTATTTGAA-TAC-AA-TAAAAGT
1 TTATTT-AAGTACAAATTAAAAGT
13418107 ATATGAGTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
28 6 0.09
29 2 0.03
30 42 0.63
31 16 0.24
32 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.38
Consensus pattern (30 bp):
TTATTTAAGTACAAATTAAAAGTTAAAGAT
Found at i:13421072 original size:2 final size:2
Alignment explanation
Indices: 13421061--13421098 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
13421051 TTATTAATTC
13421061 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13421099 TTTGAAGGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13425062 original size:5 final size:4
Alignment explanation
Indices: 13425034--13425084 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
13425024 TTTTATCATG
* * *
13425034 TTAT CTAT TTAT TTAT TTCAT TTAT TT-T ACTAT TTAT ATAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TT-AT TTAT TTAT -TTAT TTAT TTAT TTAT TTAT
13425083 TT
1 TT
13425085 GTAAATATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 1 0.03
4 32 0.84
5 5 0.13
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:13430669 original size:24 final size:24
Alignment explanation
Indices: 13430634--13430680 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13430624 AATGATAATC
13430634 TTTAAAGAGTTTTAAATAAGAATT
1 TTTAAAGAGTTTTAAATAAGAATT
*
13430658 TTTAAA-ACGTTTTAAATGAGAAT
1 TTTAAAGA-GTTTTAAATAAGAAT
13430681 GTTTGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (24 bp):
TTTAAAGAGTTTTAAATAAGAATT
Found at i:13430860 original size:44 final size:44
Alignment explanation
Indices: 13430812--13430989 Score: 145
Period size: 44 Copynumber: 4.1 Consensus size: 44
13430802 GTAAACCCCT
13430812 AAATTTTTTGAATGAGAACCTTTGAATTTAGATGTGAAACTCTA
1 AAATTTTTTGAATGAGAACCTTTGAATTTAGATGTGAAACTCTA
* ** * * * * *
13430856 AAATTTATTGAATGTCAATCTTTGAAATT-GAATG-AAAAGCTTTG
1 AAATTTTTTGAATGAGAACCTTTGAATTTAG-ATGTGAAA-CTCTA
* * * * *
13430900 AAA----TTGAATGAAAAGCTTTAAAATTTTAGATGTGAACCCCT-
1 AAATTTTTTGAATGAGAACCTTT-GAA-TTTAGATGTGAAACTCTA
*
13430941 AAATTTTTTGAATGAGAACCTTTGAATTTAGATGTGAAACTTTA
1 AAATTTTTTGAATGAGAACCTTTGAATTTAGATGTGAAACTCTA
13430985 AAATT
1 AAATT
13430990 GATCAAATGT
Statistics
Matches: 100, Mismatches: 23, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
40 13 0.13
41 5 0.05
42 7 0.07
43 21 0.21
44 40 0.40
45 14 0.14
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (44 bp):
AAATTTTTTGAATGAGAACCTTTGAATTTAGATGTGAAACTCTA
Found at i:13430887 original size:20 final size:20
Alignment explanation
Indices: 13430875--13430924 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
13430865 GAATGTCAAT
13430875 CTTTGAAATTGAATGAAAAG
1 CTTTGAAATTGAATGAAAAG
13430895 CTTTGAAATTGAATGAAAAG
1 CTTTGAAATTGAATGAAAAG
*
13430915 CTTTAAAATT
1 CTTTGAAATT
13430925 TTAGATGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (20 bp):
CTTTGAAATTGAATGAAAAG
Found at i:13430904 original size:109 final size:109
Alignment explanation
Indices: 13430708--13430904 Score: 297
Period size: 109 Copynumber: 1.8 Consensus size: 109
13430698 TATCTTTGAG
* *
13430708 TTTTAAATGAGAACATTTGAATTTAGATGTGAAACTCTAAAATTTGTCGAATGTGAATATTTGAA
1 TTTTAAATGAGAACATTTGAATTTAGATGTGAAACTCTAAAATTTATCGAATGTCAATATTTGAA
*
13430773 CTCAAATAAGAAGCTTTGAAATTTTGGATGTAAACCCCTAAATT
66 ATCAAATAAGAAGCTTTGAAATTTTGGATGTAAACCCCTAAATT
* * * *
13430817 TTTTGAATGAGAACCTTTGAATTTAGATGTGAAACTCTAAAATTTATTGAATGTCAATCTTTGAA
1 TTTTAAATGAGAACATTTGAATTTAGATGTGAAACTCTAAAATTTATCGAATGTCAATATTTGAA
**
13430882 ATTGAATGAA-AAGCTTTGAAATT
66 ATCAAAT-AAGAAGCTTTGAAATT
13430905 GAATGAAAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
109 76 0.97
110 2 0.03
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (109 bp):
TTTTAAATGAGAACATTTGAATTTAGATGTGAAACTCTAAAATTTATCGAATGTCAATATTTGAA
ATCAAATAAGAAGCTTTGAAATTTTGGATGTAAACCCCTAAATT
Found at i:13430924 original size:129 final size:129
Alignment explanation
Indices: 13430783--13431085 Score: 394
Period size: 129 Copynumber: 2.4 Consensus size: 129
13430773 CTCAAATAAG
13430783 AAGCTTTGAAATTTTGGATGTAAACCCCTAAATTTTTTGAATGAGAACCTTTGAATTTAGATGTG
1 AAGCTTTGAAATTTTGGATGTAAACCCCTAAATTTTTTGAATGAGAACCTTTGAATTTAGATGTG
* ** ** *
13430848 AAACTCTAAAATTTATTGAATGTCAATCTTTGAAATTGAATGAAAAGCTTTGAAATTGAATGAA
66 AAACTCTAAAATTGATCAAATGTCAATCTTTGAAATCAAATGAAAAGCTTTGAAATCGAATGAA
* * *
13430912 AAGCTTTAAAATTTTAGATGTGAACCCCTAAATTTTTTGAATGAGAACCTTTGAATTTAGATGTG
1 AAGCTTTGAAATTTTGGATGTAAACCCCTAAATTTTTTGAATGAGAACCTTTGAATTTAGATGTG
* * * * ** * * *
13430977 AAACTTTAAAATTGATCAAATGTGAATTTTTGAACTCAAATGTGAATCTTTGAACTCGAATGAG
66 AAACTCTAAAATTGATCAAATGTCAATCTTTGAAATCAAATGAAAAGCTTTGAAATCGAATGAA
* * * *
13431041 AAGCTTTGAAATTTTGGATG-AAA-TCCTGAAGTTTTTAAATGAGAA
1 AAGCTTTGAAATTTTGGATGTAAACCCCTAAATTTTTTGAATGAGAA
13431086 ATATCGGATG
Statistics
Matches: 149, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
127 18 0.12
128 2 0.01
129 129 0.87
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (129 bp):
AAGCTTTGAAATTTTGGATGTAAACCCCTAAATTTTTTGAATGAGAACCTTTGAATTTAGATGTG
AAACTCTAAAATTGATCAAATGTCAATCTTTGAAATCAAATGAAAAGCTTTGAAATCGAATGAA
Found at i:13431017 original size:20 final size:20
Alignment explanation
Indices: 13430992--13431050 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
13430982 TTAAAATTGA
*
13430992 TCAAATGTGAATTTTTGAAC
1 TCAAATGTGAATCTTTGAAC
13431012 TCAAATGTGAATCTTTGAAC
1 TCAAATGTGAATCTTTGAAC
* * *
13431032 TCGAATGAGAAGCTTTGAA
1 TCAAATGTGAATCTTTGAA
13431051 ATTTTGGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
TCAAATGTGAATCTTTGAAC
Found at i:13431383 original size:17 final size:16
Alignment explanation
Indices: 13431351--13431384 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13431341 AACTAAAATA
*
13431351 TTACGAATTTAAATTC
1 TTACAAATTTAAATTC
13431367 TTACAAATTTAAAATTC
1 TTACAAATTT-AAATTC
13431384 T
1 T
13431385 AGTGAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (16 bp):
TTACAAATTTAAATTC
Found at i:13432446 original size:23 final size:24
Alignment explanation
Indices: 13432406--13432455 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
13432396 TTCTTAGTAT
13432406 TTTATCATATTATCTATTTATTTA
1 TTTATCATATTATCTATTTATTTA
*
13432430 TTTAT-ATATTATGTATTTATTTA
1 TTTATCATATTATCTATTTATTTA
13432453 TTT
1 TTT
13432456 GTAAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTATCATATTATCTATTTATTTA
Found at i:13434672 original size:6 final size:6
Alignment explanation
Indices: 13434648--13434700 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
13434638 AATAAGAAGA
* * *
13434648 AAAAAT GAAAAGAA AAAAAT GAAAAT AGAAAT AAAAAT AAAAAT AAATAAT
1 AAAAAT -AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT
13434699 AA
1 AA
13434701 TAACAATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
6 24 0.63
7 13 0.34
8 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:13434695 original size:16 final size:16
Alignment explanation
Indices: 13434662--13434709 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
13434652 ATGAAAAGAA
*
13434662 AAAAATGAAAATAGAAAT
1 AAAAAT-AAAA-ATAAAT
13434680 AAAAATAAAAATAAAT
1 AAAAATAAAAATAAAT
* *
13434696 AATAATAACAATAA
1 AAAAATAAAAATAA
13434710 TAATAATATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 17 0.63
17 4 0.15
18 6 0.22
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:13434701 original size:3 final size:3
Alignment explanation
Indices: 13434677--13434752 Score: 50
Period size: 3 Copynumber: 26.0 Consensus size: 3
13434667 TGAAAATAGA
* * * **
13434677 AAT AAA AAT AAA AAT AAAT AAT AAT AAC AAT AAT AAT AAT -AT GGT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
13434722 -AT AAT AAT AAT ATT ATT AAT ACT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13434753 TTACAATAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
2 4 0.07
3 50 0.88
4 3 0.05
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13435438 original size:121 final size:120
Alignment explanation
Indices: 13435264--13435813 Score: 446
Period size: 121 Copynumber: 4.5 Consensus size: 120
13435254 ACCACGAGCC
* *
13435264 AAGAAATGATATAGACTGAGCCAAGATCAGGTGATC-ATGATGAAATCACGAGTCAAAAAATGAA
1 AAGAAATGATCTAGACTGAGCCAAGATC-GGTGATCGA-GATAAAATCACGAGTCAAAAAATGAA
* * * * *
13435328 GCGA-CAAGGATCGAGTCGAGGTCAAAAATTAATGACCGAGATAAAATCATGAGTCATA
64 GCGACCAA-GATCAAATCGAGGTCAAAAATAAATGACCAAGATAAAACCATGAGTCA-A
* * * *
13435386 AA-AAATGATCTAGACTGAGCCAAGATCGTGTGACCGAGATGAAA-CGATGAGTCAAAAAATAAA
1 AAGAAATGATCTAGACTGAGCCAAGATCG-GTGATCGAGATAAAATC-ACGAGTCAAAAAATGAA
** * * * * * * * *
13435449 ATGACTAAGATCGAATCAAGATAAAAAAAATAAATGACTAAGATGAAACCATGAGTCAT
64 GCGACCAAGATCAAATCGAGGT--CAAAAATAAATGACCAAGATAAAACCATGAGTCAA
* * * * * *
13435508 AAGAAATGATCTATG-TTGAGCTAAAATCGATTGATCGAGATAAAATCACAAGTTAAAAAATGAA
1 AAGAAATGATCTA-GACTGAGCCAAGATCG-GTGATCGAGATAAAATCACGAGTCAAAAAATGAA
* * * * * * * *
13435572 GCAACCAAGATCAAGTTGAAGTCAAAAGTAAATGACCGAGATGAAACCATAAGTCAA
64 GCGACCAAGATCAAATCGAGGTCAAAAATAAATGACCAAGATAAAACCATGAGTCAA
* * * * * * *
13435629 AAGAAATTATCTAGATTGAGCCAAGATCAGGTGATTGGGATAAAATTATGATTCAAAAAATGAAG
1 AAGAAATGATCTAGACTGAGCCAAGATC-GGTGATCGAGATAAAATCACGAGTCAAAAAATGAAG
* * * *
13435694 CGACCAATATCAAATCG-GGATCAAAAATAAATAACCAAGATAAAATCACGAGTCAA
65 CGACCAAGATCAAATCGAGG-TCAAAAATAAATGACCAAGATAAAACCATGAGTCAA
** * * ** * * *
13435750 AAGAAACAATCTAGACTGAACCAAGATCGGGTAATTAAGATGAAACCACGATTCAAAAAATGAA
1 AAGAAATGATCTAGACTGAGCCAAGATC-GGTGATCGAGATAAAATCACGAGTCAAAAAATGAA
13435814 ATGATCAGGA
Statistics
Matches: 337, Mismatches: 79, Indels: 25
0.76 0.18 0.06
Matches are distributed among these distances:
120 4 0.01
121 237 0.70
122 8 0.02
123 86 0.26
124 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (120 bp):
AAGAAATGATCTAGACTGAGCCAAGATCGGTGATCGAGATAAAATCACGAGTCAAAAAATGAAGC
GACCAAGATCAAATCGAGGTCAAAAATAAATGACCAAGATAAAACCATGAGTCAA
Found at i:13439928 original size:21 final size:21
Alignment explanation
Indices: 13439886--13439928 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13439876 TATGTTATAC
* *
13439886 ATATGCAAATGAATGACAAAT
1 ATATACAAATGAATAACAAAT
* *
13439907 ATATACAAGTGAATAACTAAT
1 ATATACAAATGAATAACAAAT
13439928 A
1 A
13439929 GAATATATAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (21 bp):
ATATACAAATGAATAACAAAT
Found at i:13439935 original size:26 final size:26
Alignment explanation
Indices: 13439904--13439970 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
13439894 ATGAATGACA
13439904 AATATATACAAGTGAATAACTAATAG
1 AATATATACAAGTGAATAACTAATAG
*
13439930 AATATATACAGGTGAATAACTAATAG
1 AATATATACAAGTGAATAACTAATAG
*
13439956 AATATAAACAA-TGAA
1 AATATATACAAGTGAA
13439971 AAGAAAGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
25 4 0.11
26 34 0.89
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (26 bp):
AATATATACAAGTGAATAACTAATAG
Found at i:13440703 original size:17 final size:16
Alignment explanation
Indices: 13440683--13440721 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 16
13440673 TTGTAGGGGA
13440683 TTTTATTTGAAAAAGATT
1 TTTTA-TTG-AAAAGATT
13440701 TTTTGATTGAAAAGATT
1 TTTT-ATTGAAAAGATT
13440718 TTTT
1 TTTT
13440722 TTTTGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 7 0.35
19 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (16 bp):
TTTTATTGAAAAGATT
Found at i:13440983 original size:19 final size:19
Alignment explanation
Indices: 13440940--13440983 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13440930 AACCATAATA
* *
13440940 AAAAAATAAAAATAAAATT
1 AAAAAACAAAAATAAAATG
*
13440959 AGAAAACAAAAATAAAATG
1 AAAAAACAAAAATAAAATG
13440978 AAAAAA
1 AAAAAA
13440984 GGAAACATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAAACAAAAATAAAATG
Found at i:13443261 original size:26 final size:26
Alignment explanation
Indices: 13443232--13443287 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
13443222 TATTATTTTG
* * *
13443232 TTTTATTTTTTATTTTTAGTTTT-AAT
1 TTTTATTATTTAATATTA-TTTTCAAT
*
13443258 TTTTGTTATTTAATATTATTTTCAAT
1 TTTTATTATTTAATATTATTTTCAAT
13443284 TTTT
1 TTTT
13443288 GCCAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (26 bp):
TTTTATTATTTAATATTATTTTCAAT
Found at i:13443287 original size:45 final size:44
Alignment explanation
Indices: 13443198--13443287 Score: 101
Period size: 45 Copynumber: 2.0 Consensus size: 44
13443188 CCCAAAATTA
* * * *
13443198 TATTTTTGTTTTAATTTTTACTATTATTATTTTGTTTTATTTTT
1 TATTTTTGTTTTAATTTTTACTATTAATATTATGTTTCAATTTT
**
13443242 TATTTTTAGTTTTAATTTTTGTTATTTAATATTAT-TTTCAATTTT
1 TATTTTT-GTTTTAATTTTTACTA-TTAATATTATGTTTCAATTTT
13443287 T
1 T
13443288 GCCAAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 7 0.18
45 23 0.61
46 8 0.21
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (44 bp):
TATTTTTGTTTTAATTTTTACTATTAATATTATGTTTCAATTTT
Found at i:13443928 original size:31 final size:30
Alignment explanation
Indices: 13443882--13443942 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
13443872 TAAGCAAATG
* * *
13443882 AGGGACTAAAATAAAATTCTCTCAAAATTT
1 AGGGACCAAAATAAAACTATCTCAAAATTT
*
13443912 AGGGACCAAAGATAAAACTATTTCAAAATTT
1 AGGGACCAAA-ATAAAACTATCTCAAAATTT
13443943 TATATATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (30 bp):
AGGGACCAAAATAAAACTATCTCAAAATTT
Found at i:13444531 original size:55 final size:54
Alignment explanation
Indices: 13444442--13444568 Score: 184
Period size: 55 Copynumber: 2.4 Consensus size: 54
13444432 ATCGATATGA
* * *
13444442 AAATTTTTACTTT-ATTTTTTAAAATGATACGTAATTTTAACAAAATTATTTTG
1 AAATTTTCAATTTAATTTTTTAAAATGATACGTAATTTTAACAAAATCATTTTG
*
13444495 AAATTTTCAATTTAATTTTTTAAAAATGATATGTAATTTTAACAAAATCATTTTG
1 AAATTTTCAATTTAATTTTTT-AAAATGATACGTAATTTTAACAAAATCATTTTG
* *
13444550 AAAATTTCAACTTAATTTT
1 AAATTTTCAATTTAATTTT
13444569 AATTTTTTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 11 0.17
54 7 0.11
55 48 0.73
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (54 bp):
AAATTTTCAATTTAATTTTTTAAAATGATACGTAATTTTAACAAAATCATTTTG
Found at i:13444617 original size:18 final size:17
Alignment explanation
Indices: 13444574--13444617 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
13444564 ATTTTAATTT
13444574 TTTAAAAATTTATTTTA
1 TTTAAAAATTTATTTTA
*
13444591 TATAAAAATATTATTTTA
1 TTTAAAAAT-TTATTTTA
*
13444609 TTTATAAAT
1 TTTAAAAAT
13444618 CATATCATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAAAATTTATTTTA
Found at i:13444906 original size:21 final size:20
Alignment explanation
Indices: 13444865--13444907 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
13444855 TAACTTTTTG
*
13444865 TTTTTAAAATGATATTGAAT
1 TTTTTAAAATGATATTAAAT
13444885 TTTTTAAAAATGA-ATTTAAAT
1 TTTTT-AAAATGATA-TTAAAT
13444906 TT
1 TT
13444908 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTTTAAAATGATATTAAAT
Found at i:13444988 original size:19 final size:19
Alignment explanation
Indices: 13444942--13444989 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
13444932 ATTAAAAACA
13444942 AAAAATATAACAAATAAAT
1 AAAAATATAACAAATAAAT
* * *
13444961 TATATTATAACAAA-AATAT
1 AAAAATATAACAAATAA-AT
13444980 AAAAATATAA
1 AAAAATATAA
13444990 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATATAACAAATAAAT
Found at i:13445371 original size:10 final size:9
Alignment explanation
Indices: 13445338--13445370 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
13445328 TTTTAAATTA
13445338 TATATTTTT
1 TATATTTTT
13445347 TATA-TTTT
1 TATATTTTT
13445355 TATATTATTT
1 TATATT-TTT
13445365 TATATT
1 TATATT
13445371 AATATGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 5 0.23
10 9 0.41
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TATATTTTT
Found at i:13448003 original size:12 final size:12
Alignment explanation
Indices: 13447988--13448012 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13447978 AAATCTCAGG
13447988 TTTTTGTTTATC
1 TTTTTGTTTATC
13448000 TTTTTGTTTATC
1 TTTTTGTTTATC
13448012 T
1 T
13448013 AGTTCATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTTGTTTATC
Found at i:13450718 original size:5 final size:6
Alignment explanation
Indices: 13450702--13450726 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13450692 ATAGCACGAA
13450702 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
13450727 CATTGTGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:13451294 original size:2 final size:2
Alignment explanation
Indices: 13451289--13451316 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13451279 ATATACAGGA
13451289 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13451317 GAAAAGCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13453038 original size:2 final size:2
Alignment explanation
Indices: 13453031--13453066 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13453021 AATAAAAATC
13453031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13453067 TGAATCTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13456888 original size:23 final size:23
Alignment explanation
Indices: 13456862--13456908 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
13456852 AATAAATGAA
13456862 TAATTAACCTACATGATCAATTG
1 TAATTAACCTACATGATCAATTG
13456885 TAATTAACCTACATGATCAATTG
1 TAATTAACCTACATGATCAATTG
13456908 T
1 T
13456909 CAACAAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (23 bp):
TAATTAACCTACATGATCAATTG
Found at i:13459550 original size:19 final size:20
Alignment explanation
Indices: 13459505--13459551 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
13459495 AGAAAATCAC
*
13459505 ATACT-ATATATATATATAT
1 ATACTAATATATATATATAA
*
13459524 ATA-AAATATATATAT-TAA
1 ATACTAATATATATATATAA
13459542 ATACTAATAT
1 ATACTAATAT
13459552 GACTCTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
ATACTAATATATATATATAA
Found at i:13463780 original size:19 final size:20
Alignment explanation
Indices: 13463741--13463786 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
13463731 ATTAAACAAA
* *
13463741 TTATATATTTTTATTAATTT
1 TTATATATATTTATAAATTT
13463761 TTATATATATTTA-AAATTT
1 TTATATATATTTATAAATTT
13463780 TTATATA
1 TTATATA
13463787 AAATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATATATATTTATAAATTT
Found at i:13463839 original size:18 final size:18
Alignment explanation
Indices: 13463756--13463840 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 18
13463746 TATTTTTATT
13463756 AATTTTTATATATATTTAA
1 AATTTTTATATATA-TTAA
* *
13463775 AATTTTTATATAAAATAAAA
1 AATTTTTATAT-ATAT-TAA
*
13463795 AACTTATTATATATA-T-A
1 AA-TTTTTATATATATTAA
*
13463812 AATCTATTTAAATATATTAA
1 AAT-T-TTTATATATATTAA
13463832 AATTTTTAT
1 AATTTTTAT
13463841 TAAAATAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
16 1 0.02
17 4 0.08
18 12 0.24
19 14 0.27
20 12 0.24
21 8 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTTTATATATATTAA
Found at i:13471934 original size:12 final size:12
Alignment explanation
Indices: 13471913--13471945 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13471903 AATAGTTTTT
13471913 AAAT-TTTAATA
1 AAATATTTAATA
13471924 AAATATTTAATA
1 AAATATTTAATA
*
13471936 TAATATTTAA
1 AAATATTTAA
13471946 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATATTTAATA
Found at i:13472126 original size:15 final size:16
Alignment explanation
Indices: 13472095--13472127 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13472085 AATTTAAATA
*
13472095 TAAAATTAGATATTTT
1 TAAAATTAGAAATTTT
13472111 TAAAATTA-AAATTTT
1 TAAAATTAGAAATTTT
13472126 TA
1 TA
13472128 CTATATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TAAAATTAGAAATTTT
Found at i:13472658 original size:15 final size:16
Alignment explanation
Indices: 13472633--13472662 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13472623 GCATAGATGA
13472633 ATTTAAAAATTATTTT
1 ATTTAAAAATTATTTT
13472649 ATTT-AAAATTATTT
1 ATTTAAAAATTATTT
13472663 AATTCAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTAAAAATTATTTT
Found at i:13473145 original size:17 final size:18
Alignment explanation
Indices: 13473120--13473165 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
13473110 TTAAATCGAA
*
13473120 TTAAATTATATATAT-TT
1 TTAATTTATATATATATT
13473137 TTAATTTATATATATATT
1 TTAATTTATATATATATT
*
13473155 TTTATTT-TATA
1 TTAATTTATATA
13473166 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAATTTATATATATATT
Found at i:13473150 original size:19 final size:19
Alignment explanation
Indices: 13473126--13473165 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
13473116 CGAATTAAAT
13473126 TATATATATTTTTAATTTA
1 TATATATATTTTTAATTTA
*
13473145 TATATATATTTTTATTTTA
1 TATATATATTTTTAATTTA
13473164 TA
1 TA
13473166 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATATATATTTTTAATTTA
Found at i:13473677 original size:16 final size:16
Alignment explanation
Indices: 13473658--13473688 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13473648 GATAATTTTT
13473658 AAAAAAATTATTTATA
1 AAAAAAATTATTTATA
*
13473674 AAAATAATTATTTAT
1 AAAAAAATTATTTAT
13473689 CAAGTTCGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAAAATTATTTATA
Found at i:13473796 original size:21 final size:21
Alignment explanation
Indices: 13473767--13473806 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13473757 TCATTGGACT
13473767 TAAAGTATTATTATATTAATAA
1 TAAAGTATTATTAT-TTAATAA
*
13473789 TAAA-TATTTTTATTTAAT
1 TAAAGTATTATTATTTAAT
13473807 TTTACATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TAAAGTATTATTATTTAATAA
Found at i:13473963 original size:20 final size:21
Alignment explanation
Indices: 13473921--13473965 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
13473911 AGATTTGATC
13473921 TAATAAAAAATATTATTATAT
1 TAATAAAAAATATTATTATAT
*
13473942 TAATAAAAAATATTTTTA-AT
1 TAATAAAAAATATTATTATAT
13473962 TAAT
1 TAAT
13473966 TTTAATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATAAAAAATATTATTATAT
Found at i:13474128 original size:34 final size:35
Alignment explanation
Indices: 13474051--13474128 Score: 81
Period size: 34 Copynumber: 2.3 Consensus size: 35
13474041 ATGAAACATA
* *
13474051 AATATTTTTAATATTTGAATAATAAATAGTATTAT
1 AATATTTTTAATATTTAAATAATAAATAGTATAAT
* * *
13474086 ATTA-TTTTAGTA-TTAAATATTAATATAGTA-AAT
1 AATATTTTTAATATTTAAATAATAA-ATAGTATAAT
13474119 AATATTTTTA
1 AATATTTTTA
13474129 TTATATTGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
33 14 0.40
34 18 0.51
35 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
AATATTTTTAATATTTAAATAATAAATAGTATAAT
Found at i:13474167 original size:19 final size:21
Alignment explanation
Indices: 13474138--13474179 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
13474128 ATTATATTGG
13474138 TAATAAATATTAATTTAA-AA
1 TAATAAATATTAATTTAATAA
*
13474158 TAAT-AATATTATTTTAATAA
1 TAATAAATATTAATTTAATAA
13474178 TA
1 TA
13474180 CAAACATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATAAATATTAATTTAATAA
Found at i:13474344 original size:17 final size:18
Alignment explanation
Indices: 13474318--13474351 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13474308 CAACATAAAA
13474318 TATAACTA-TTTTAATAG
1 TATAACTATTTTTAATAG
*
13474335 TATAAGTATTTTTAATA
1 TATAACTATTTTTAATA
13474352 TTTAAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (18 bp):
TATAACTATTTTTAATAG
Found at i:13474458 original size:29 final size:29
Alignment explanation
Indices: 13474395--13474464 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
13474385 TACATTAATA
* *
13474395 AAAAATATTTTAAAAATAATAATATCATT
1 AAAAATATTTTAAAAATAATAATATAAAT
* *
13474424 TAAAATATTTT-AAAATATTAATATAAAT
1 AAAAATATTTTAAAAATAATAATATAAAT
13474452 AATAAATAGTTTT
1 AA-AAATA-TTTT
13474465 GTTATAATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 15 0.44
29 15 0.44
30 4 0.12
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (29 bp):
AAAAATATTTTAAAAATAATAATATAAAT
Found at i:13474620 original size:12 final size:12
Alignment explanation
Indices: 13474603--13474627 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13474593 ACTTTTCCTC
13474603 AAAATATTTTTT
1 AAAATATTTTTT
13474615 AAAATATTTTTT
1 AAAATATTTTTT
13474627 A
1 A
13474628 TTTAAGGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAAATATTTTTT
Found at i:13474653 original size:57 final size:55
Alignment explanation
Indices: 13474565--13474718 Score: 220
Period size: 57 Copynumber: 2.8 Consensus size: 55
13474555 TTTCCTTTGA
* *
13474565 ATTTTTTTTAAGAAAAATTTATACTTCAACTTTTCCTCAAAATATTTTTTAAAAT
1 ATTTTTTTTAAGAAAAATTTATACTTTAACTTTTCCTCAAAACATTTTTTAAAAT
* * *
13474620 ATTTTTTATTTAAGGAAAATTTATATTTTAACTTTTTCTCAAAACATTTTTTAAAAT
1 A-TTTTT-TTTAAGAAAAATTTATACTTTAACTTTTCCTCAAAACATTTTTTAAAAT
*
13474677 A-TTTTTTTAAGAAAAATTGATACTTTAACTTTTTCCTCAAAA
1 ATTTTTTTTAAGAAAAATTTATACTTTAAC-TTTTCCTCAAAA
13474719 AAATATTTTT
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
54 21 0.24
55 16 0.18
56 5 0.06
57 45 0.52
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (55 bp):
ATTTTTTTTAAGAAAAATTTATACTTTAACTTTTCCTCAAAACATTTTTTAAAAT
Found at i:13481881 original size:14 final size:13
Alignment explanation
Indices: 13481852--13481890 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
13481842 ACATAAATGA
13481852 GAAAAGAAATGAAT
1 GAAAAGAAA-GAAT
13481866 GACAAAGAAAGAAT
1 GA-AAAGAAAGAAT
*
13481880 GAAAAAAAAGA
1 GAAAAGAAAGA
13481891 GCAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 8 0.35
14 8 0.35
15 7 0.30
ACGTcount: A:0.69, C:0.03, G:0.21, T:0.08
Consensus pattern (13 bp):
GAAAAGAAAGAAT
Found at i:13482521 original size:46 final size:46
Alignment explanation
Indices: 13482372--13482733 Score: 305
Period size: 46 Copynumber: 7.8 Consensus size: 46
13482362 TGTTGACGCC
* ** * * * **
13482372 TTTCAAGATTAGATTTTTAAAGTTGTTAAATCTTGACGTAGAAAACT
1 TTTCAAGATTAGATTTTTAAAGTTGTTGAGCCTTTATGT-CAAAGTT
* * *
13482419 TTTCAAAATTAGATTTTTAAAGCTATTGAGCCTTTTATGTCAAAGTT
1 TTTCAAGATTAGATTTTTAAAGTTGTTGAGCC-TTTATGTCAAAGTT
* * * *
13482466 TTTCTAGATTAGATTTTTAAAGTTGTTGAACCTTTATGTCGAAGCT
1 TTTCAAGATTAGATTTTTAAAGTTGTTGAGCCTTTATGTCAAAGTT
* * ** * * *
13482512 TTTCAAGATTAAATTTTTTAAGTTGTCAAGCCTTTGTGCTGAAGGTT
1 TTTCAAGATTAGATTTTTAAAGTTGTTGAGCCTTTATG-TCAAAGTT
* * *
13482559 TTTCAA-ATTAGATATTTAAAGTTGTTGAGCTTTTATGCCAAAGTT
1 TTTCAAGATTAGATTTTTAAAGTTGTTGAGCCTTTATGTCAAAGTT
* * * ** *
13482604 TTTCAAAATTAAATTTTTAAAGTTGTTGAGCCTTTGTACCAAAATT
1 TTTCAAGATTAGATTTTTAAAGTTGTTGAGCCTTTATGTCAAAGTT
* * * * *
13482650 TTTCAAGATTAAATTTTTAAAGTGGTTGAGCTTTTACT-TAAAAGAGCT
1 TTTCAAGATTAGATTTTTAAAGTTGTTGAGCCTTTA-TGT-CAA-AGTT
* * *
13482698 TTTCAGGATGAGATTTTTAAAATTGTTGAGCCTTTA
1 TTTCAAGATTAGATTTTTAAAGTTGTTGAGCCTTTA
13482734 CTTAAAGTAG
Statistics
Matches: 250, Mismatches: 59, Indels: 11
0.78 0.18 0.03
Matches are distributed among these distances:
45 11 0.04
46 132 0.53
47 70 0.28
48 37 0.15
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.44
Consensus pattern (46 bp):
TTTCAAGATTAGATTTTTAAAGTTGTTGAGCCTTTATGTCAAAGTT
Found at i:13482629 original size:138 final size:140
Alignment explanation
Indices: 13482418--13482672 Score: 361
Period size: 138 Copynumber: 1.8 Consensus size: 140
13482408 CGTAGAAAAC
* * * * *
13482418 TTTTCAAAATTAGATTTTTAAAGCTATTGAGCCTTTTATGTCAAAGTTTTTCTAGATTAGATTTT
1 TTTTCAAAATTAGATATTTAAAGCTATTGAGCCTTTTATGCCAAAGTTTTTCAAAATTAAATTTT
** * * *
13482483 TAAAGTTGTTGAACCTTTATGTCGAAGCTTTTCAAGATTAAATTTTTTAAGTTGTCAAGCCTTTG
66 TAAAGTTGTTGAACCTTTATACCAAAACTTTTCAAGATTAAATTTTTAAAGTTGTCAAGCCTTTG
13482548 TGCTGAAGGT
131 TGCTGAAGGT
* *
13482558 TTTTC-AAATTAGATATTTAAAGTTGTTGAG-CTTTTATGCCAAAGTTTTTCAAAATTAAATTTT
1 TTTTCAAAATTAGATATTTAAAGCTATTGAGCCTTTTATGCCAAAGTTTTTCAAAATTAAATTTT
* * *
13482621 TAAAGTTGTTGAGCCTTTGTACCAAAATTTTTCAAGATTAAATTTTTAAAGT
66 TAAAGTTGTTGAACCTTTATACCAAAACTTTTCAAGATTAAATTTTTAAAGT
13482673 GGTTGAGCTT
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
138 73 0.73
139 22 0.22
140 5 0.05
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.45
Consensus pattern (140 bp):
TTTTCAAAATTAGATATTTAAAGCTATTGAGCCTTTTATGCCAAAGTTTTTCAAAATTAAATTTT
TAAAGTTGTTGAACCTTTATACCAAAACTTTTCAAGATTAAATTTTTAAAGTTGTCAAGCCTTTG
TGCTGAAGGT
Found at i:13482718 original size:48 final size:48
Alignment explanation
Indices: 13482568--13482891 Score: 186
Period size: 48 Copynumber: 6.9 Consensus size: 48
13482558 TTTTCAAATT
* * *** ** *
13482568 AGATATTTAAAGTTGTTGAGCTTTTA-TGCCAA-AGTTTTTCAAAATT
1 AGATTTTTAAAGTTGTTGAGCCTTTACTTAAAAGAGTTTTTCAGGATG
* * * *
13482614 AAATTTTTAAAGTTGTTGAGCCTTTGTAC--CAAA-A-TTTTTCAAGATT
1 AGATTTTTAAAGTTGTTGAGCC-TT-TACTTAAAAGAGTTTTTCAGGATG
* * * *
13482660 AAATTTTTAAAGTGGTTGAGCTTTTACTTAAAAGAGCTTTTCAGGATG
1 AGATTTTTAAAGTTGTTGAGCCTTTACTTAAAAGAGTTTTTCAGGATG
* **
13482708 AGATTTTTAAAATTGTTGAGCCTTTACTT-AAAGTAGTTTTTTTGGATG
1 AGATTTTTAAAGTTGTTGAGCCTTTACTTAAAAG-AGTTTTTCAGGATG
* * * * *
13482756 AGATTTTTTAAAGTTGTTGAACCTTTGCTTAAAGGAG-TTTTCA-AATTT
1 AGA-TTTTTAAAGTTGTTGAGCCTTTACTTAAAAGAGTTTTTCAGGA-TG
** * * *
13482804 A-ATTTCAAAAGTTGTTGAGCTTTTGCTTAAAAGAGTTTTTTTA--ATG
1 AGATTTTTAAAGTTGTTGAGCCTTTACTTAAAAGAG-TTTTTCAGGATG
* * * ** *
13482850 ACATTTTTTAAAGTTGTTAAGCATTTGGTTAAATGAGTTTTT
1 AGA-TTTTTAAAGTTGTTGAGCCTTTACTTAAAAGAGTTTTT
13482892 TAAAAATTTA
Statistics
Matches: 224, Mismatches: 39, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
44 3 0.01
45 2 0.01
46 83 0.37
47 20 0.09
48 88 0.39
49 25 0.11
50 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (48 bp):
AGATTTTTAAAGTTGTTGAGCCTTTACTTAAAAGAGTTTTTCAGGATG
Found at i:13482787 original size:49 final size:47
Alignment explanation
Indices: 13482429--13482891 Score: 188
Period size: 46 Copynumber: 9.9 Consensus size: 47
13482419 TTTCAAAATT
* * * *
13482429 AGATTTTTAAAGCTATTGAGCCTTTTA-TGTCAA-AGTTTTTCTA-GATT
1 AGATTTTTAAAGTTGTTGAGCC-TTTACT-TAAAGAGTTTTTC-AGGATG
* ** * * *
13482476 AGATTTTTAAAGTTGTTGAACCTTTA-TGTCGA-AGCTTTTCAAGATT
1 AGATTTTTAAAGTTGTTGAGCCTTTACT-TAAAGAGTTTTTCAGGATG
* * ** * * * *
13482522 AAATTTTTTAAGTTGTCAAGCCTTT-GTGCTGAAG-GTTTTTCA-AATT
1 AGATTTTTAAAGTTGTTGAGCCTTTACT--TAAAGAGTTTTTCAGGATG
* * ** ** *
13482568 AGATATTTAAAGTTGTTGAGCTTTTA-TGCCAA-AGTTTTTCAAAATT
1 AGATTTTTAAAGTTGTTGAGCCTTTACT-TAAAGAGTTTTTCAGGATG
* * * *
13482614 AAATTTTTAAAGTTGTTGAGCCTTTGTAC-CAAA-A-TTTTTCAAGATT
1 AGATTTTTAAAGTTGTTGAGCC-TT-TACTTAAAGAGTTTTTCAGGATG
* * * *
13482660 AAATTTTTAAAGTGGTTGAGCTTTTACTTAAAAGAGCTTTTCAGGATG
1 AGATTTTTAAAGTTGTTGAGCCTTTACTT-AAAGAGTTTTTCAGGATG
* **
13482708 AGATTTTTAAAATTGTTGAGCCTTTACTTAAAGTAGTTTTTTTGGATG
1 AGATTTTTAAAGTTGTTGAGCCTTTACTTAAAG-AGTTTTTCAGGATG
* * * *
13482756 AGATTTTTTAAAGTTGTTGAACCTTTGCTTAAAGGAG-TTTTCA-AATTT
1 AGA-TTTTTAAAGTTGTTGAGCCTTTACTTAAA-GAGTTTTTCAGGA-TG
** * * *
13482804 A-ATTTCAAAAGTTGTTGAGCTTTTGCTTAAAAGAGTTTTTTTA--ATG
1 AGATTTTTAAAGTTGTTGAGCCTTTACTT-AAAGAG-TTTTTCAGGATG
* * * **
13482850 ACATTTTTTAAAGTTGTTAAGCATTTGGTTAAATGAGTTTTT
1 AGA-TTTTTAAAGTTGTTGAGCCTTTACTTAAA-GAGTTTTT
13482892 TAAAAATTTA
Statistics
Matches: 332, Mismatches: 60, Indels: 48
0.75 0.14 0.11
Matches are distributed among these distances:
44 3 0.01
45 13 0.04
46 148 0.45
47 54 0.16
48 85 0.26
49 28 0.08
50 1 0.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (47 bp):
AGATTTTTAAAGTTGTTGAGCCTTTACTTAAAGAGTTTTTCAGGATG
Found at i:13482888 original size:94 final size:96
Alignment explanation
Indices: 13482716--13482944 Score: 254
Period size: 97 Copynumber: 2.4 Consensus size: 96
13482706 TGAGATTTTT
* * * * *
13482716 AAAA-TTGTTGAGCCTTTACTT-AAAGTAGTTTTTTTGGATGAGATTTTTTAAAGTTGTTGAACC
1 AAAAGTTGTTGAGCATTTGCTTAAAAG-AGTTTTTTT-AATGACATTTTTTAAAGTTGTTGAACA
*
13482779 TTTGCTTAAAGGAG-TTTT-CAAATTTAATTTC
64 TTTGCTTAAAGGAGTTTTTAAAAATTTAATTTC
*
13482810 AAAAGTTGTTGAGCTTTTGCTTAAAAGAGTTTTTTTAATGACATTTTTTAAAGTTGTT-AAGCAT
1 AAAAGTTGTTGAGCATTTGCTTAAAAGAGTTTTTTTAATGACATTTTTTAAAGTTGTTGAA-CAT
* * *
13482874 TTGGTTAAATGAGTTTTTTAAAAATTTATTTTC
65 TTGCTTAAAGGAG-TTTTTAAAAATTTAATTTC
* *
13482907 AAAAGCTG-TGAAACATTTGCTTAAAAGAGTTTTATTTA
1 AAAAGTTGTTG-AGCATTTGCTTAAAAGAGTTTT-TTTA
13482945 GATTTATTTT
Statistics
Matches: 115, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
93 2 0.02
94 37 0.32
95 24 0.21
96 10 0.09
97 38 0.33
98 4 0.03
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (96 bp):
AAAAGTTGTTGAGCATTTGCTTAAAAGAGTTTTTTTAATGACATTTTTTAAAGTTGTTGAACATT
TGCTTAAAGGAGTTTTTAAAAATTTAATTTC
Found at i:13482950 original size:49 final size:48
Alignment explanation
Indices: 13482778--13483034 Score: 158
Period size: 49 Copynumber: 5.4 Consensus size: 48
13482768 GTTGTTGAAC
* * * * *
13482778 CTTTGCTTAAAGGAG--TTTTCAAATTTAATTTCAAAAGTTGTTG--AG
1 CTTTGCTTAAAAGAGTTTTTTTAGATTTATTTTCAAAAGTT-ATGAAAG
** ** * *
13482823 CTTTTGCTTAAAAGAGTTTTTTTA-ATGACATTTTTTAAAGTTGT-TAAG
1 C-TTTGCTTAAAAGAGTTTTTTTAGAT-TTATTTTCAAAAGTTATGAAAG
* * * * * *
13482871 CATTTGGTTAAATGAGTTTTTTAAAAATTTATTTTCAAAAGCTGTGAAA-
1 C-TTTGCTTAAAAGAGTTTTTT-TAGATTTATTTTCAAAAGTTATGAAAG
*
13482920 CATTTGCTTAAAAGAGTTTTATTTAGATTTATTTTTAAAAAGTTAT-AAAG
1 C-TTTGCTTAAAAGAGTTTT-TTTAGATTTA-TTTTCAAAAGTTATGAAAG
* * * *
13482970 CTTTGTTTAAAAGTAG---TTTTAGATTTAGTTTCAAAAGTCATGAAAT
1 CTTTGCTTAAAAG-AGTTTTTTTAGATTTATTTTCAAAAGTTATGAAAG
13483016 CTTTGCTTAAAAGAGTTTT
1 CTTTGCTTAAAAGAGTTTT
13483035 GAAGTTTATG
Statistics
Matches: 164, Mismatches: 31, Indels: 31
0.73 0.14 0.14
Matches are distributed among these distances:
45 14 0.09
46 38 0.23
47 4 0.02
48 37 0.23
49 51 0.31
50 20 0.12
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (48 bp):
CTTTGCTTAAAAGAGTTTTTTTAGATTTATTTTCAAAAGTTATGAAAG
Found at i:13482990 original size:97 final size:92
Alignment explanation
Indices: 13482779--13483034 Score: 216
Period size: 97 Copynumber: 2.7 Consensus size: 92
13482769 TTGTTGAACC
* * *
13482779 TTTGCTTAAAGGAGT-TTTCAAATTTAATTTCAAAAGTTGTTG-AGCTTTTGCTTAAAAGAGTTT
1 TTTGGTTAAA-GAGTGTTTTAAATTTAATTTCAAAAG-TG-TGAAAC-TTTGCTTAAAAGAGTTT
* * *
13482842 TTTTAATGACATTTTTTAAAGTTGTTAAGCA
62 TTTTAATGACATTTTTAAAAGTTATAAAGCA
* *
13482873 TTTGGTTAAATGAGTTTTTTAAAAATTTATTTTCAAAAGCTGTGAAACATTTGCTTAAAAGAGTT
1 TTTGGTTAAA-GAGTGTTTT--AAATTTAATTTCAAAAG-TGTGAAAC-TTTGCTTAAAAGAGTT
**
13482938 TTATTTAGAT-TTATTTTTAAAAAGTTATAAAGC-
61 TT-TTTA-ATGACATTTTT-AAAAGTTATAAAGCA
* * * *
13482971 TTTGTTTAAA-AGTAGTTTTAGATTTAGTTTCAAAAGTCATGAAATCTTTGCTTAAAAGAGTTTT
1 TTTGGTTAAAGAGT-GTTTTAAATTTAATTTCAAAAGT-GTGAAA-CTTTGCTTAAAAGAGTTTT
13483035 GAAGTTTATG
Statistics
Matches: 135, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
94 14 0.10
95 41 0.30
96 6 0.04
97 42 0.31
98 19 0.14
99 13 0.10
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (92 bp):
TTTGGTTAAAGAGTGTTTTAAATTTAATTTCAAAAGTGTGAAACTTTGCTTAAAAGAGTTTTTTT
AATGACATTTTTAAAAGTTATAAAGCA
Found at i:13483020 original size:46 final size:45
Alignment explanation
Indices: 13482922--13483034 Score: 120
Period size: 46 Copynumber: 2.4 Consensus size: 45
13482912 CTGTGAAACA
* *
13482922 TTTGCTTAAAAGAGTTTTATTTAGATTTATTTTTAAAAAGTTATAAAGC
1 TTTGCTTAAAAGAG---T-TTTAGATTTATGTTTAAAAAGTCATAAAGC
* * *
13482971 TTTGTTTAAAAGTAGTTTTAGATTTA-GTTTCAAAAGTCATGAAATC
1 TTTGCTTAAAAG-AGTTTTAGATTTATGTTTAAAAAGTCAT-AAAGC
13483017 TTTGCTTAAAAGAGTTTT
1 TTTGCTTAAAAGAGTTTT
13483035 GAAGTTTATG
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
45 17 0.30
46 25 0.45
47 1 0.02
49 11 0.20
50 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (45 bp):
TTTGCTTAAAAGAGTTTTAGATTTATGTTTAAAAAGTCATAAAGC
Found at i:13483049 original size:45 final size:45
Alignment explanation
Indices: 13482957--13483050 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 45
13482947 TTTATTTTTA
* * *
13482957 AAAAGTTATAAAGCTTTGTTTAAAAGTAGTTTTAGATTTAGTTTC
1 AAAAGTCATAAAGCTTTGCTTAAAAGTAGTTTTAGATTTAGTGTC
*
13483002 AAAAGTCATGAAATCTTTGCTTAAAAG-AGTTTT-GAAGTTTA-TGTC
1 AAAAGTCAT-AAAGCTTTGCTTAAAAGTAGTTTTAG-A-TTTAGTGTC
13483047 AAAA
1 AAAA
13483051 AAAAAAAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
44 1 0.02
45 22 0.52
46 19 0.45
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.39
Consensus pattern (45 bp):
AAAAGTCATAAAGCTTTGCTTAAAAGTAGTTTTAGATTTAGTGTC
Found at i:13483105 original size:5 final size:5
Alignment explanation
Indices: 13483074--13483128 Score: 56
Period size: 5 Copynumber: 10.8 Consensus size: 5
13483064 AAAAGGGAAA
* * * * *
13483074 AAAATC AAACC AAACC AAAAT AGAAC AAAAC AAAAT AAAAC AAAAC AAAAC
1 AAAA-C AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
13483125 AAAA
1 AAAA
13483129 AGAGGAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
5 38 0.93
6 3 0.07
ACGTcount: A:0.75, C:0.18, G:0.02, T:0.05
Consensus pattern (5 bp):
AAAAC
Found at i:13483107 original size:15 final size:15
Alignment explanation
Indices: 13483074--13483128 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
13483064 AAAAGGGAAA
* *
13483074 AAAATCAAACCAAACC
1 AAAAT-AAAACAAAAC
*
13483090 AAAATAGAACAAAAC
1 AAAATAAAACAAAAC
13483105 AAAATAAAACAAAAC
1 AAAATAAAACAAAAC
*
13483120 AAAACAAAA
1 AAAATAAAA
13483129 AGAGGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 29 0.85
16 5 0.15
ACGTcount: A:0.75, C:0.18, G:0.02, T:0.05
Consensus pattern (15 bp):
AAAATAAAACAAAAC
Found at i:13484152 original size:38 final size:39
Alignment explanation
Indices: 13484069--13484153 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
13484059 CAAAAGCTTT
* *
13484069 GAGAAAAACCAAAAAAAAAAAAAGAAAGGCTTTCGAGAA
1 GAGAAAAACCAAAAAAAAAAAAAGAAAGCCTTTCGAAAA
*
13484108 GAGAAAAACTAAAAAAAAAAATGAA-AAA-CCTTTCGAAAA
1 GAGAAAAACCAAAAAAAAAAA--AAGAAAGCCTTTCGAAAA
13484147 G-GAAAAA
1 GAGAAAAA
13484154 GGAAGAACTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 6 0.15
39 30 0.73
40 3 0.07
41 2 0.05
ACGTcount: A:0.66, C:0.09, G:0.15, T:0.09
Consensus pattern (39 bp):
GAGAAAAACCAAAAAAAAAAAAAGAAAGCCTTTCGAAAA
Found at i:13486153 original size:17 final size:17
Alignment explanation
Indices: 13486123--13486156 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13486113 GAGAGTCATC
*
13486123 AAAAACTATCATTTATA
1 AAAAAATATCATTTATA
*
13486140 AAAAAATATTATTTATA
1 AAAAAATATCATTTATA
13486157 TTTTAAAAGG
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:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAAAATATCATTTATA
Found at i:13487763 original size:3 final size:3
Alignment explanation
Indices: 13487757--13487784 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13487747 GAAAAGCCTA
13487757 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13487785 CACTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13494806 original size:17 final size:18
Alignment explanation
Indices: 13494767--13494830 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 18
13494757 ATTTTGTGTC
* *
13494767 ATATAAAATAATTTAATA
1 ATATAAAATAACTAAATA
*
13494785 TTATAAAA-AACTAAATA
1 ATATAAAATAACTAAATA
* *
13494802 ATATAAAATTATTGAATATA
1 ATATAAAATAACT-AA-ATA
13494822 ATATAAAAT
1 ATATAAAAT
13494831 TATATTAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
17 14 0.38
18 9 0.24
19 2 0.05
20 12 0.32
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATATAAAATAACTAAATA
Found at i:13497816 original size:20 final size:20
Alignment explanation
Indices: 13497780--13497823 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13497770 TGTGGTAAGT
* *
13497780 TGTGCAGGCATTCTACTGTG
1 TGTGCAGACATTCTACTATG
13497800 TGTGCAGACA-TCTTACTATG
1 TGTGCAGACATTC-TACTATG
13497820 TGTG
1 TGTG
13497824 TGAACATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.36
Consensus pattern (20 bp):
TGTGCAGACATTCTACTATG
Found at i:13501234 original size:17 final size:17
Alignment explanation
Indices: 13501182--13501226 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
13501172 AAGTGTGCCG
***
13501182 AGAACCATCATATATTT
1 AGAACCATCATATACCA
*
13501199 AGAACCATTATATACCA
1 AGAACCATCATATACCA
13501216 AGAACCATCAT
1 AGAACCATCAT
13501227 GTGCCAAGGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (17 bp):
AGAACCATCATATACCA
Found at i:13503790 original size:13 final size:13
Alignment explanation
Indices: 13503768--13503806 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
13503758 TAATTGTTGT
*
13503768 TATAATAATATGA
1 TATAAAAATATGA
13503781 TATAAAAATAAT-A
1 TATAAAAAT-ATGA
13503794 TATAAAAATATGA
1 TATAAAAATATGA
13503807 AAGCAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (13 bp):
TATAAAAATATGA
Found at i:13504555 original size:118 final size:118
Alignment explanation
Indices: 13504347--13504571 Score: 378
Period size: 118 Copynumber: 1.9 Consensus size: 118
13504337 AAATATATAT
* * * * * *
13504347 ATATCTAGCTCATTTCTTTATAATATATTGAAGTAAATTTTGTGGTTGATATATAACATCTTGTT
1 ATATCTAGCTCATTTCTTTATAATATACTGAACTAAATATAGTGATTGATATATAACATCTTATT
* *
13504412 AATATATAGCAATAAAATGATATCATAAAAAGAAATTAATTATTAGAAAAAAA
66 AATATATAGCAACAAAATCATATCATAAAAAGAAATTAATTATTAGAAAAAAA
13504465 ATATCTAGCTCATTTCTTTATAATATACTGAACTAAATATAGTGATTGATATATAACATCTTATT
1 ATATCTAGCTCATTTCTTTATAATATACTGAACTAAATATAGTGATTGATATATAACATCTTATT
13504530 AATATATAGCAACAAAATCATATCATAAAAAGAAATTAATTA
66 AATATATAGCAACAAAATCATATCATAAAAAGAAATTAATTA
13504572 ACTAACATAA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 99 1.00
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.37
Consensus pattern (118 bp):
ATATCTAGCTCATTTCTTTATAATATACTGAACTAAATATAGTGATTGATATATAACATCTTATT
AATATATAGCAACAAAATCATATCATAAAAAGAAATTAATTATTAGAAAAAAA
Found at i:13504762 original size:1 final size:1
Alignment explanation
Indices: 13504756--13504780 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
13504746 CATCTGCTTT
13504756 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
13504781 TTCAAGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13505127 original size:6 final size:7
Alignment explanation
Indices: 13505106--13505130 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13505096 GCACTTAATG
13505106 TTTATTT
1 TTTATTT
13505113 TTTATTT
1 TTTATTT
13505120 TTTATTT
1 TTTATTT
13505127 TTTA
1 TTTA
13505131 CATAATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:13506341 original size:16 final size:15
Alignment explanation
Indices: 13506288--13506348 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 15
13506278 CCATTGATTT
13506288 TATTTT-TTATTT-A
1 TATTTTATTATTTAA
13506301 TATTTTATTATATTAA
1 TATTTTATTAT-TTAA
**
13506317 TAAAGTTATTATTTAA
1 T-ATTTTATTATTTAA
13506333 TA-TTT-TTATTTAA
1 TATTTTATTATTTAA
13506346 TAT
1 TAT
13506349 AAATACTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
13 16 0.40
14 6 0.15
15 3 0.08
16 7 0.17
17 8 0.20
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTTATTATTTAA
Found at i:13506866 original size:30 final size:30
Alignment explanation
Indices: 13506810--13506869 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
13506800 TTTGTTTTTA
* *
13506810 AATTAAGTAAATTTTACAATAAAAAAAATC
1 AATTAAGTAAATATAACAATAAAAAAAATC
* *
13506840 AATTAAGTAGATATAACAAAATAAAAAAAT
1 AATTAAGTAAATATAACAATA-AAAAAAAT
13506870 TTTGACTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (30 bp):
AATTAAGTAAATATAACAATAAAAAAAATC
Found at i:13514108 original size:14 final size:15
Alignment explanation
Indices: 13514081--13514114 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13514071 TTATCGTTTA
13514081 TTTGAAAAGATTTTT
1 TTTGAAAAGATTTTT
* *
13514096 TTTGAAAGGTTTTTT
1 TTTGAAAAGATTTTT
13514111 TTTG
1 TTTG
13514115 GTTATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.59
Consensus pattern (15 bp):
TTTGAAAAGATTTTT
Found at i:13514168 original size:16 final size:17
Alignment explanation
Indices: 13514149--13514180 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13514139 GAATATTTTT
13514149 TTCTT-TTTTTTTTCTC
1 TTCTTCTTTTTTTTCTC
13514165 TTCTTCTTTTTTTTCT
1 TTCTTCTTTTTTTTCT
13514181 TACTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTCTTCTTTTTTTTCTC
Found at i:13514720 original size:20 final size:20
Alignment explanation
Indices: 13514695--13514739 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13514685 CCAAATCCAG
13514695 AAAAAACCTAGAAAAATCCC
1 AAAAAACCTAGAAAAATCCC
* **
13514715 AAAAAATCTTTAAAAATCCC
1 AAAAAACCTAGAAAAATCCC
13514735 AAAAA
1 AAAAA
13514740 GCTCCAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.62, C:0.20, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAAAACCTAGAAAAATCCC
Found at i:13515308 original size:26 final size:26
Alignment explanation
Indices: 13515270--13515334 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 26
13515260 TGGGCCTAGA
* *
13515270 TGGGTCCAAACACCAATAGACCTA-T
1 TGGGTCTAGACACCAATAGACCTACT
* * *
13515295 GTGGGTCTAGACACTAATGGCCCTACT
1 -TGGGTCTAGACACCAATAGACCTACT
*
13515322 TGGGCCTAGACAC
1 TGGGTCTAGACAC
13515335 TAATGGCCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (26 bp):
TGGGTCTAGACACCAATAGACCTACT
Found at i:13515335 original size:26 final size:26
Alignment explanation
Indices: 13515296--13515366 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
13515286 TAGACCTATG
*
13515296 TGGGTCTAGACACTAATGGCCCTACT
1 TGGGCCTAGACACTAATGGCCCTACT
*
13515322 TGGGCCTAGACACTAATGGCCCTATT
1 TGGGCCTAGACACTAATGGCCCTACT
* * *
13515348 TGGGCTTAGATACCAATGG
1 TGGGCCTAGACACTAATGG
13515367 ACTCAATTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (26 bp):
TGGGCCTAGACACTAATGGCCCTACT
Found at i:13515713 original size:119 final size:119
Alignment explanation
Indices: 13515513--13516450 Score: 701
Period size: 119 Copynumber: 7.9 Consensus size: 119
13515503 GACCCAGACT
* * * * * **
13515513 AAACCATGAGTCAAGATGAAATGACCAAGA-CCAGGTCAAGGTTAAAAATAAATGATCGGGATGA
1 AAACCATGAGTCAAAATAAAATGACCAGGATCGA-GTCGAGGTTAAAAATAAATGATCAAGATGA
* * *
13515577 AACCACGAATCATAAGAAATGATCTGGATTGAGCCAAAATCAAGTGACCGAGACG
65 AACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGACCGAGATG
* * * * * *
13515632 AAATCACGAGTCAAAATAAAATGACCAGAACCGAGTTGAGGTAAAAAATAAATGATCAAGATGAA
1 AAACCATGAGTCAAAATAAAATGACCAGGATCGAGTCGAGGTTAAAAATAAATGATCAAGATGAA
* * * * * * * *
13515697 ACCATGAATCATAAGAAAAGATCTAGATTAAGCCAAGATTATA-TGACTGGGATG
66 ACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCA-AGTGACCGAGATG
* * ** *
13515751 AAATCATGAGTTAGAAATAAGCAAT---CAGGATCGAGTCGAGGTTAAAAATAAATGATTTAGAC
1 AAACCATGAGTCA-AAATAA--AATGACCAGGATCGAGTCGAGGTTAAAAATAAATGATCAAGAT
** * ** * * *
13515813 GAAAAAATGAATCATAAGAAATGATCTGGACTGAGTGAAGATAAAGTGATCGAGATA
63 GAAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGACCGAGATG
* * * * *
13515870 AAACCATGAGTCAAAATAAAGTAACCAGAATCAAGTCGAGGTAAAAAATAAATGATCAAGAT-AG
1 AAACCATGAGTCAAAATAAAATGACCAGGATCGAGTCGAGGTTAAAAATAAATGATCAAGATGA-
* * * * * * *
13515934 AACCACGAATCATAAGAAATAATTTGAATTGAGCCAAGAT-TAGATGACTGGGATG
65 AACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAG-TGACCGAGATG
* ** * * * * *** **
13515989 AAATCATGAGTCAGAAAT-AAGCGATCAGGATCAAGTTGAGGTTAAAAATAAATAATTGGGACAA
1 AAACCATGAGTCA-AAATAAAATGACCAGGATCGAGTCGAGGTTAAAAATAAATGATCAAGATGA
* * * * * * *
13516053 AACCATGAATCATACGAAATGATTTGGACTGGGCCAAGATCAAATGACCAAGACG
65 AACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGACCGAGATG
** * * * * *
13516108 AAACCACAAGTCAAAATATAACGACCAGGA-CTGAGTCGAGATCAAAAATAAATAATCAAGATGA
1 AAACCATGAGTCAAAATAAAATGACCAGGATC-GAGTCGAGGTTAAAAATAAATGATCAAGATG-
* * * * * * ** *
13516172 AAACCACGAATTATAAGAAATGATTTGGACTAAGCTAAGTTCAATTGAAAG-GAAAG
64 AAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGACCGAG-ATG
* * ** * * *
13516228 AAACCACGAGTCAAAATAAAATGACTAGGA-CTGAGTCGAGGTCGAAAATAAATAACCTAGATGA
1 AAACCATGAGTCAAAATAAAATGACCAGGATC-GAGTCGAGGTTAAAAATAAATGATCAAGATGA
* * * ** * *
13516292 AACCACGAGTCATAAGAAGTGATCTGGACTGAACCAAGATCAAGTGATAGGGGTG
65 AACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGACCGAGATG
* * ** * * *
13516347 AAACCATGAGTCAAAATGAAGTGACCAAAATTGAGTCGAGGTTAAAAGTAAATGATCAGGATGAA
1 AAACCATGAGTCAAAATAAAATGACCAGGATCGAGTCGAGGTTAAAAATAAATGATCAAGATGAA
* * * * *
13516412 ACCACTAATCATAAAAAATGATCTGAATTGAGCTAAGAT
66 ACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGAT
13516451 TAGATTAGTG
Statistics
Matches: 640, Mismatches: 159, Indels: 40
0.76 0.19 0.05
Matches are distributed among these distances:
116 2 0.00
118 15 0.02
119 507 0.79
120 113 0.18
122 3 0.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (119 bp):
AAACCATGAGTCAAAATAAAATGACCAGGATCGAGTCGAGGTTAAAAATAAATGATCAAGATGAA
ACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGACCGAGATG
Found at i:13516424 original size:477 final size:475
Alignment explanation
Indices: 13515551--13516455 Score: 1075
Period size: 477 Copynumber: 1.9 Consensus size: 475
13515541 GACCAGGTCA
* ** *
13515551 AGGTTAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAATGATCTGGATTGAGCCAAAA
1 AGGTTAAAAATAAATAATCGGGACAAAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAAA
* * * * * * *
13515616 TCAAGTGACCGAGACGAAATCACGAGTCAAAATAAAATGACCAGAACCGAGTTGAGGTAAAAAAT
66 TCAAATGACCAAGACGAAACCACAAGTCAAAATAAAACGACCAGAACCGAGTCGAGATAAAAAAT
* * * **
13515681 AAATGATCAAGATGAAACCATGAATCATAAGAAAAGATCTAGATTAAGCCAAGATTATATGACTG
131 AAATAATCAAGATGAAACCACGAATCATAAGAAAAGATCTAGACTAAGCCAAGATTATATGAAAG
* * * * * * * **
13515746 GGATGAAATCATGAGTTAGAAATAAGCAATCAGGATCGAGTCGAGGTTAAAAATAAATGATTTAG
196 GAAAGAAACCACGAGTCAGAAATAA-CAATCAGGATCGAGTCGAGGTCAAAAATAAATAACCTAG
* *** *
13515811 ACGAAAAAATGAATCATAAGAAATGATCTGGACTGAGTGAAGATAAAGTGATCGAGATAAAACCA
260 ACGAAAAAACGAATCATAAGAAATGATCTGGACTGAACCAAGATAAAGTGATAGAGATAAAACCA
*
13515876 TGAGTCAAAATAAAGTAACCAGAATCAAGTCGAGGTAAAAAATAAATGATCAAGATAGAACCACG
325 TGAGTCAAAATAAAGTAACCAAAATCAAGTCGAGGTAAAAAATAAATGATCAAGATAGAACCACG
* *
13515941 AATCATAAGAAATAATTTGAATTGAGCCAAGATTAGATGACTGGGATGAAATCATGAGTCAGAAA
390 AATCATAAAAAATAATCTGAATTGAGCCAAGATTAGATGACTGGGATGAAATCATGAGTCAGAAA
13516006 TAAGCGATCAGGATCAAGTTG
455 TAAGCGATCAGGATCAAGTTG
* * * * * *
13516027 AGGTTAAAAATAAATAATTGGGACAAAACCATGAATCATACGAAATGATTTGGACTGGGCCAAGA
1 AGGTTAAAAATAAATAATCGGGACAAAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAAA
* * * *
13516092 TCAAATGACCAAGACGAAACCACAAGTCAAAATATAACGACCAGGACTGAGTCGAGATCAAAAAT
66 TCAAATGACCAAGACGAAACCACAAGTCAAAATAAAACGACCAGAACCGAGTCGAGATAAAAAAT
* * * * *
13516157 AAATAATCAAGATGAAAACCACGAATTATAAGAAATGATTTGGACTAAGCTAAG-TTCA-ATTGA
131 AAATAATCAAGATG-AAACCACGAATCATAAGAAAAGATCTAGACTAAGCCAAGATT-ATA-TGA
*
13516220 AAGGAAAGAAACCACGAGTCA-AAATAA-AATGACTAGGA-CTGAGTCGAGGTCGAAAATAAATA
193 AAGGAAAGAAACCACGAGTCAGAAATAACAAT--C-AGGATC-GAGTCGAGGTCAAAAATAAATA
* ** * * * * * *
13516282 ACCTAGATGAAACCACGAGTCATAAGAAGTGATCTGGACTGAACCAAGATCAAGTGATAGGGGTG
254 ACCTAGACGAAAAAACGAATCATAAGAAATGATCTGGACTGAACCAAGATAAAGTGATAGAGATA
* * ** * * *
13516347 AAACCATGAGTCAAAATGAAGTGACCAAAATTGAGTCGAGGTTAAAAGTAAATGATCAGGAT-GA
319 AAACCATGAGTCAAAATAAAGTAACCAAAATCAAGTCGAGGTAAAAAATAAATGATCAAGATAG-
* * *
13516411 AACCACTAATCATAAAAAATGATCTGAATTGAGCTAAGATTAGAT
383 AACCACGAATCATAAAAAATAATCTGAATTGAGCCAAGATTAGAT
13516456 TAGTGGATAA
Statistics
Matches: 353, Mismatches: 68, Indels: 15
0.81 0.16 0.03
Matches are distributed among these distances:
474 3 0.01
476 134 0.38
477 216 0.61
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (475 bp):
AGGTTAAAAATAAATAATCGGGACAAAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAAA
TCAAATGACCAAGACGAAACCACAAGTCAAAATAAAACGACCAGAACCGAGTCGAGATAAAAAAT
AAATAATCAAGATGAAACCACGAATCATAAGAAAAGATCTAGACTAAGCCAAGATTATATGAAAG
GAAAGAAACCACGAGTCAGAAATAACAATCAGGATCGAGTCGAGGTCAAAAATAAATAACCTAGA
CGAAAAAACGAATCATAAGAAATGATCTGGACTGAACCAAGATAAAGTGATAGAGATAAAACCAT
GAGTCAAAATAAAGTAACCAAAATCAAGTCGAGGTAAAAAATAAATGATCAAGATAGAACCACGA
ATCATAAAAAATAATCTGAATTGAGCCAAGATTAGATGACTGGGATGAAATCATGAGTCAGAAAT
AAGCGATCAGGATCAAGTTG
Found at i:13516539 original size:14 final size:15
Alignment explanation
Indices: 13516520--13516548 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13516510 TGGTATTAAG
13516520 GCTTCTGCAC-TCTT
1 GCTTCTGCACATCTT
13516534 GCTTCTGCACATCTT
1 GCTTCTGCACATCTT
13516549 TGGCAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.10, C:0.34, G:0.14, T:0.41
Consensus pattern (15 bp):
GCTTCTGCACATCTT
Found at i:13527757 original size:5 final size:5
Alignment explanation
Indices: 13527747--13527797 Score: 61
Period size: 5 Copynumber: 10.4 Consensus size: 5
13527737 GTGGGTTAAC
* *
13527747 AATAA AATAA AATCA AATAA AAT-C AA-AA AATAAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA
13527796 AA
1 AA
13527798 AAACTTGCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 4 0.10
5 30 0.77
6 5 0.13
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:13527788 original size:24 final size:23
Alignment explanation
Indices: 13527750--13527800 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
13527740 GGTTAACAAT
* *
13527750 AAAATAAAATCAAATAAAATCAA
1 AAAATAAAATAAAATAAAATAAA
13527773 AAAATAAAAATAAAATAAAATAAA
1 AAAAT-AAAATAAAATAAAATAAA
13527797 AAAA
1 AAAA
13527801 CTTGCGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAATAAAATAAAATAAAATAAA
Found at i:13528646 original size:3 final size:3
Alignment explanation
Indices: 13528612--13528755 Score: 92
Period size: 3 Copynumber: 49.7 Consensus size: 3
13528602 AAAAAACAAA
13528612 AAT AA- AAT AA- AAT AA- AAT AA- AAT -AT GAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* *
13528653 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAG AAT -AT AAAT ATAT ACAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT A-AT
* ** * * * *
13528699 AAA AAT ACC AA- AGA- AAG AA- AAA AAA AAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13528742 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
13528756 CATTAAAAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 26
0.77 0.06 0.17
Matches are distributed among these distances:
2 18 0.15
3 91 0.77
4 9 0.08
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:13528832 original size:26 final size:26
Alignment explanation
Indices: 13528787--13528851 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
13528777 TTAAGCCCAG
* * *
13528787 ACACAAATAGGCCTAGTTGGGTCC-AA
1 ACACTAATAGGCCGACTTGGG-CCTAA
13528813 ACA-TGAATAGGCCGACTTGGGCCTAA
1 ACACT-AATAGGCCGACTTGGGCCTAA
13528839 ACACTAATAGGCC
1 ACACTAATAGGCC
13528852 CAATTAAGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 2 0.06
26 30 0.91
27 1 0.03
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (26 bp):
ACACTAATAGGCCGACTTGGGCCTAA
Found at i:13530388 original size:18 final size:18
Alignment explanation
Indices: 13530353--13530399 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
13530343 GAAATGATGC
13530353 AAAAAGAAAA-AAAGAAG
1 AAAAAGAAAAGAAAGAAG
*
13530370 ACAAAAGAAAAGAGA-AAG
1 A-AAAAGAAAAGAAAGAAG
*
13530388 AAAAAAAAAAGA
1 AAAAAGAAAAGA
13530400 TGATGGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 11 0.42
18 13 0.50
19 2 0.08
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAGAAG
Found at i:13531619 original size:24 final size:24
Alignment explanation
Indices: 13531572--13531619 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13531562 AAGTGATTGA
13531572 AAGAAAAAAATTTTTAGAAAATTT
1 AAGAAAAAAATTTTTAGAAAATTT
* *
13531596 AAGAAAAGAATATTTT-GAACATTT
1 AAGAAAAAAAT-TTTTAGAAAATTT
13531620 GCATCTTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.33
Consensus pattern (24 bp):
AAGAAAAAAATTTTTAGAAAATTT
Found at i:13532802 original size:10 final size:10
Alignment explanation
Indices: 13532787--13532814 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
13532777 GAAAAGAGTT
13532787 TTTATTTTAA
1 TTTATTTTAA
13532797 TTTATTTTAA
1 TTTATTTTAA
13532807 TTTATTTT
1 TTTATTTT
13532815 CACAAGTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:13534833 original size:11 final size:11
Alignment explanation
Indices: 13534817--13534850 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13534807 TAAGAAGGTT
13534817 TATAATATAAA
1 TATAATATAAA
*
13534828 TATAATATATA
1 TATAATATAAA
13534839 TATATATATAAA
1 TATA-ATATAAA
13534851 CCTTGTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TATAATATAAA
Found at i:13537242 original size:5 final size:5
Alignment explanation
Indices: 13537232--13537258 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
13537222 AATAAATAAT
13537232 GATGA GATGA GATGA GATGA GATGA GA
1 GATGA GATGA GATGA GATGA GATGA GA
13537259 GGTGATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (5 bp):
GATGA
Done.