Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 89 of 136
Found at i:29603912 original size:76 final size:76
Alignment explanation
Indices: 29603786--29603936 Score: 257
Period size: 76 Copynumber: 2.0 Consensus size: 76
29603776 AATAGTGACA
*
29603786 TGCGTGAAGATGGTTCTCGGATGCATACAAAACTGTGGCAGAACAAGATGGATGCCTTATGTAGG
1 TGCGTGAAGATGGTTCTCGGATGCATACAAAACCGTGGCAGAACAAGATGGATGCCTTATGTAGG
29603851 GATGTTCAGGT
66 GATGTTCAGGT
* ** *
29603862 TGCGTGAAGATGGTTCTCGGATGCATGCAAAACCGTGGCAGAATGAGATGGATGCCTTGTGTAGG
1 TGCGTGAAGATGGTTCTCGGATGCATACAAAACCGTGGCAGAACAAGATGGATGCCTTATGTAGG
29603927 GATGTTCAGG
66 GATGTTCAGG
29603937 CTTTGCATCG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.26
Consensus pattern (76 bp):
TGCGTGAAGATGGTTCTCGGATGCATACAAAACCGTGGCAGAACAAGATGGATGCCTTATGTAGG
GATGTTCAGGT
Found at i:29605585 original size:31 final size:31
Alignment explanation
Indices: 29605507--29605692 Score: 238
Period size: 31 Copynumber: 6.1 Consensus size: 31
29605497 TGAATTTAAA
*
29605507 TGTATATGTTATATACATT-TCCGAATTTGATT
1 TGTATATG-GATATACATTGT-CGAATTTGATT
29605539 TGTATA--GATATACATTGTCGAATTTGATT
1 TGTATATGGATATACATTGTCGAATTTGATT
* *
29605568 TGTATATGGTTATACATTGTCGAATTTTATT
1 TGTATATGGATATACATTGTCGAATTTGATT
*
29605599 TGTATATGGATACT-CATTGCCGAATTTGATT
1 TGTATATGGATA-TACATTGTCGAATTTGATT
* *
29605630 TGTATATAGATATACATTGTCGAATTTGATA
1 TGTATATGGATATACATTGTCGAATTTGATT
* *
29605661 CGTATATGGATATATATTGTCGAA-TTGATT
1 TGTATATGGATATACATTGTCGAATTTGATT
29605691 TG
1 TG
29605693 AGCATTGGAT
Statistics
Matches: 135, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
29 26 0.19
30 8 0.06
31 94 0.70
32 7 0.05
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (31 bp):
TGTATATGGATATACATTGTCGAATTTGATT
Found at i:29612953 original size:31 final size:31
Alignment explanation
Indices: 29612918--29613063 Score: 181
Period size: 31 Copynumber: 4.7 Consensus size: 31
29612908 GTATATGTTT
*
29612918 TATACATTGCTGAATTTGATTTGTATATAGA
1 TATACATTGCTGAATTTGATTTGTATATGGA
*
29612949 TATACATTG-TCGAATTTGATTTGTATATGGT
1 TATACATTGCT-GAATTTGATTTGTATATGGA
*
29612980 TATACATTG-TCGAATTTGATTTGTATATTGA
1 TATACATTGCT-GAATTTGATTTGTATATGGA
* * *
29613011 TATTCATTGCCGAATTTGATTTATATATGGA
1 TATACATTGCTGAATTTGATTTGTATATGGA
* *
29613042 TATATATTGCCGAA-TTGATTTG
1 TATACATTGCTGAATTTGATTTG
29613064 AGCATTGGAT
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
30 8 0.08
31 94 0.92
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.47
Consensus pattern (31 bp):
TATACATTGCTGAATTTGATTTGTATATGGA
Found at i:29612995 original size:62 final size:61
Alignment explanation
Indices: 29612907--29613063 Score: 208
Period size: 62 Copynumber: 2.5 Consensus size: 61
29612897 TGAATTTAAA
* *
29612907 TGTATATGTTTTATACATTGCTGAATTTGATTTGTATATAGATATACATTGTCGAATTTGATT
1 TGTATATG-GTTATACATTGC-GAATTTGATTTGTATATAGATATACATTGCCGAATTTGATT
* *
29612970 TGTATATGGTTATACATTGTCGAATTTGATTTGTATATTGATATTCATTGCCGAATTTGATT
1 TGTATATGGTTATACATTG-CGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATT
* * *
29613032 TATATATGGATATATATTGCCGAA-TTGATTTG
1 TGTATATGGTTATACATTG-CGAATTTGATTTG
29613064 AGCATTGGAT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
61 8 0.09
62 68 0.80
63 9 0.11
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (61 bp):
TGTATATGGTTATACATTGCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATT
Found at i:29615861 original size:3 final size:3
Alignment explanation
Indices: 29615855--29615944 Score: 108
Period size: 3 Copynumber: 30.0 Consensus size: 3
29615845 AACAACAACA
* ** ** *
29615855 ATT ATT ATT ATT ATT ATA ACA ACA ATT GTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
29615903 ATT ATT ATT TTT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
29615945 CGGCAAAGTC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:29615875 original size:27 final size:27
Alignment explanation
Indices: 29615845--29615898 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
29615835 ATACCTCAAC
29615845 AACAACAACAATTATTATTATTATTAT
1 AACAACAACAATTATTATTATTATTAT
***
29615872 AACAACAATTGTTATTATTATTATTAT
1 AACAACAACAATTATTATTATTATTAT
29615899 TATTATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (27 bp):
AACAACAACAATTATTATTATTATTAT
Found at i:29615880 original size:24 final size:24
Alignment explanation
Indices: 29615848--29615895 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
29615838 CCTCAACAAC
29615848 AACAACAATTATTATTATTATTAT
1 AACAACAATTATTATTATTATTAT
*
29615872 AACAACAATTGTTATTATTATTAT
1 AACAACAATTATTATTATTATTAT
29615896 TATTATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (24 bp):
AACAACAATTATTATTATTATTAT
Found at i:29616355 original size:25 final size:26
Alignment explanation
Indices: 29616321--29616374 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
29616311 TGGAAACTTC
* *
29616321 TTTACTTTTTTTAA-TTATTTTTAAT
1 TTTACATTTTCTAATTTATTTTTAAT
*
29616346 TTTACATTTTCTAATTTCTTTTTAAT
1 TTTACATTTTCTAATTTATTTTTAAT
29616372 TTT
1 TTT
29616375 CAACAGCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTACATTTTCTAATTTATTTTTAAT
Found at i:29623130 original size:17 final size:18
Alignment explanation
Indices: 29623094--29623130 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
29623084 TTCCTGGACT
*
29623094 TTTATCCAACACTTATAA
1 TTTATCCAACACTAATAA
29623112 TTTATCCAAC-CTAATAA
1 TTTATCCAACACTAATAA
29623129 TT
1 TT
29623131 ATTTTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTATCCAACACTAATAA
Found at i:29628647 original size:34 final size:34
Alignment explanation
Indices: 29628577--29628648 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
29628567 AAATAAAAAC
* ***
29628577 AAATTAAACCCAATATCCAAATATAATTTTGGAA
1 AAATTAAACCCAATATCAAAATATAATTTAACAA
*
29628611 AAATTAAAACCCAAT-TCAAAATTTAATTTAACAA
1 AAATT-AAACCCAATATCAAAATATAATTTAACAA
29628645 AAAT
1 AAAT
29628649 AATATTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 23 0.72
35 9 0.28
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (34 bp):
AAATTAAACCCAATATCAAAATATAATTTAACAA
Found at i:29635870 original size:49 final size:49
Alignment explanation
Indices: 29635813--29635912 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
29635803 TGTATCGAAC
29635813 AAAGTCTAAAAACTTTACTACTTACACTATCTTGACAAATTTAGGACAT
1 AAAGTCTAAAAACTTTACTACTTACACTATCTTGACAAATTTAGGACAT
29635862 AAAGTCTAAAAACTTTACTACTTACACTATCTTGACAAATTTAGGACAT
1 AAAGTCTAAAAACTTTACTACTTACACTATCTTGACAAATTTAGGACAT
29635911 AA
1 AA
29635913 CAAAAAAGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (49 bp):
AAAGTCTAAAAACTTTACTACTTACACTATCTTGACAAATTTAGGACAT
Found at i:29640453 original size:9 final size:9
Alignment explanation
Indices: 29640439--29640485 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
29640429 CATTTCTTCA
29640439 CTTCTTGTT
1 CTTCTTGTT
29640448 CTTCTTGTT
1 CTTCTTGTT
*
29640457 C-TCGTTTTT
1 CTTC-TTGTT
*
29640466 GTTCTTGTT
1 CTTCTTGTT
*
29640475 CTTCTTTTT
1 CTTCTTGTT
29640484 CT
1 CT
29640486 CTTCTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
8 2 0.06
9 27 0.87
10 2 0.06
ACGTcount: A:0.00, C:0.21, G:0.11, T:0.68
Consensus pattern (9 bp):
CTTCTTGTT
Found at i:29640482 original size:18 final size:18
Alignment explanation
Indices: 29640439--29640485 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
29640429 CATTTCTTCA
*
29640439 CTTCTTGTTCTTCTTGTT
1 CTTCTTTTTCTTCTTGTT
*
29640457 C-TCGTTTTTGTTCTTGTT
1 CTTC-TTTTTCTTCTTGTT
29640475 CTTCTTTTTCT
1 CTTCTTTTTCT
29640486 CTTCTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.00, C:0.21, G:0.11, T:0.68
Consensus pattern (18 bp):
CTTCTTTTTCTTCTTGTT
Found at i:29642708 original size:53 final size:53
Alignment explanation
Indices: 29642650--29642754 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
29642640 TACCTTTGTA
29642650 CCATAAAATTTTCAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTCATTT
1 CCATAAAATTTTCAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTCATTT
29642703 CCATAAAATTTTCAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTCATT
1 CCATAAAATTTTCAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTCATT
29642755 GAATCTTCCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (53 bp):
CCATAAAATTTTCAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTCATTT
Found at i:29644720 original size:57 final size:58
Alignment explanation
Indices: 29644632--29644747 Score: 216
Period size: 57 Copynumber: 2.0 Consensus size: 58
29644622 TGTGGTCCCG
29644632 AAACTACTATTCCGACTAGGCCCAGAATCGGGCTGTTACAAGACTAA-TGAATTATGC
1 AAACTACTATTCCGACTAGGCCCAGAATCGGGCTGTTACAAGACTAATTGAATTATGC
29644689 AAACTACTATTCCGACTAGGCCCAGAATCGGGCTGTTACAAGACTAATTTGAATTATGC
1 AAACTACTATTCCGACTAGGCCCAGAATCGGGCTGTTACAAGACTAA-TTGAATTATGC
29644748 TAAAGGTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
57 47 0.82
59 10 0.18
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (58 bp):
AAACTACTATTCCGACTAGGCCCAGAATCGGGCTGTTACAAGACTAATTGAATTATGC
Found at i:29645496 original size:12 final size:12
Alignment explanation
Indices: 29645479--29645503 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29645469 ACCATCCATT
29645479 TCAATATATTAC
1 TCAATATATTAC
29645491 TCAATATATTAC
1 TCAATATATTAC
29645503 T
1 T
29645504 AAATTCCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TCAATATATTAC
Found at i:29650787 original size:42 final size:42
Alignment explanation
Indices: 29650695--29650789 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
29650685 TATACGAATG
* * * *
29650695 GCACTAAGCGTGTGAAACTAAAATGACAATGGCGAATAACGG
1 GCACTAAGTGTGCGAAACTAAAACGACAATGGCGAATAACGA
* **
29650737 GTACTAAGTGTGCGAAACTAAAACGACAATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAAACGACAATGGCGAATAACGA
29650779 GCACTAAGTGT
1 GCACTAAGTGT
29650790 ATGATACCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (42 bp):
GCACTAAGTGTGCGAAACTAAAACGACAATGGCGAATAACGA
Found at i:29659000 original size:21 final size:21
Alignment explanation
Indices: 29658974--29659013 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
29658964 AAAAAAAATT
29658974 AAACTTTACCAA-TTTTCTCCA
1 AAACTTT-CCAACTTTTCTCCA
29658995 AAACTTTCCAACTTTTCTC
1 AAACTTTCCAACTTTTCTC
29659014 ATATTTTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (21 bp):
AAACTTTCCAACTTTTCTCCA
Found at i:29660226 original size:36 final size:36
Alignment explanation
Indices: 29660155--29660227 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
29660145 TCGGAAAAAC
*
29660155 TGTTTTTACATATATTAATAGATTTATATTTTAAAT
1 TGTTTTTACATATATTAATAGATTTATATTATAAAT
*
29660191 TGTTTTTACATATATTGCAGT-GATTTAT-TTATAAAT
1 TGTTTTTACATATATT--AATAGATTTATATTATAAAT
29660227 T
1 T
29660228 AAATTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 24 0.73
37 7 0.21
38 2 0.06
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (36 bp):
TGTTTTTACATATATTAATAGATTTATATTATAAAT
Found at i:29662740 original size:5 final size:5
Alignment explanation
Indices: 29662732--29662760 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
29662722 GTTAAGTTTA
29662732 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
29662761 AAAGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:29663553 original size:30 final size:30
Alignment explanation
Indices: 29663513--29663576 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
29663503 ATGGATTGTC
29663513 TTGATATGTGATGAAATTATATTAGTTGAA
1 TTGATATGTGATGAAATTATATTAGTTGAA
* *
29663543 TTGATTTGTGATGAAATTATATTGGTTGAA
1 TTGATATGTGATGAAATTATATTAGTTGAA
29663573 TTGA
1 TTGA
29663577 ATTGGAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (30 bp):
TTGATATGTGATGAAATTATATTAGTTGAA
Found at i:29663601 original size:15 final size:16
Alignment explanation
Indices: 29663581--29663612 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
29663571 AATTGAATTG
29663581 GAATATATATAT-TAT
1 GAATATATATATATAT
29663596 GAATATATATATATAT
1 GAATATATATATATAT
29663612 G
1 G
29663613 TGTGTGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
GAATATATATATATAT
Found at i:29663806 original size:22 final size:22
Alignment explanation
Indices: 29663781--29663830 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
29663771 GTTAGTGCTT
*
29663781 TCTGTTTAGCACATCTGCGCTC
1 TCTGTTTAGCACATCAGCGCTC
* * *
29663803 TCTGTCTAGCACTTCAGTGCTC
1 TCTGTTTAGCACATCAGCGCTC
29663825 TCTGTT
1 TCTGTT
29663831 CATTAGTGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.12, C:0.30, G:0.18, T:0.40
Consensus pattern (22 bp):
TCTGTTTAGCACATCAGCGCTC
Found at i:29665455 original size:25 final size:25
Alignment explanation
Indices: 29665427--29665498 Score: 135
Period size: 25 Copynumber: 2.9 Consensus size: 25
29665417 GCGAGCACTT
29665427 TGATTATTAGCACGTTGGTGCTCTC
1 TGATTATTAGCACGTTGGTGCTCTC
*
29665452 TGATTATTAGCATGTTGGTGCTCTC
1 TGATTATTAGCACGTTGGTGCTCTC
29665477 TGATTATTAGCACGTTGGTGCT
1 TGATTATTAGCACGTTGGTGCT
29665499 ATTTAGCACT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.42
Consensus pattern (25 bp):
TGATTATTAGCACGTTGGTGCTCTC
Found at i:29665525 original size:22 final size:22
Alignment explanation
Indices: 29665497--29665564 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
29665487 CACGTTGGTG
*
29665497 CTATTTAGCACTTCAGTGCTTT
1 CTATTTAGCACTTCAGTGCTCT
29665519 CTATTTAGCACTTCAGTGCTCT
1 CTATTTAGCACTTCAGTGCTCT
* *
29665541 CTGTATAGCACTTCAGTGCTCT
1 CTATTTAGCACTTCAGTGCTCT
29665563 CT
1 CT
29665565 GTTCATTAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (22 bp):
CTATTTAGCACTTCAGTGCTCT
Found at i:29669431 original size:5 final size:5
Alignment explanation
Indices: 29669414--29669452 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
29669404 GTTAAGTTTA
29669414 TATAT TATA- TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
29669453 ACTAANNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:29670273 original size:25 final size:25
Alignment explanation
Indices: 29670243--29670305 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
29670233 TAGCGCGCTA
29670243 TCTGATTATTAGCACGTTGGTGCTC
1 TCTGATTATTAGCACGTTGGTGCTC
* *
29670268 TTTGATTATTATCACGTTGGTGCTC
1 TCTGATTATTAGCACGTTGGTGCTC
29670293 TCTGATTATTAGC
1 TCTGATTATTAGC
29670306 GTGCTTTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.44
Consensus pattern (25 bp):
TCTGATTATTAGCACGTTGGTGCTC
Found at i:29670343 original size:22 final size:22
Alignment explanation
Indices: 29670318--29670360 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
29670308 GCTTTCTATT
29670318 TAGCACTTCAGTGCTCTCTGTA
1 TAGCACTTCAGTGCTCTCTGTA
29670340 TAGCACTTCAGTGCTCTCTGT
1 TAGCACTTCAGTGCTCTCTGT
29670361 TCATTAGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (22 bp):
TAGCACTTCAGTGCTCTCTGTA
Found at i:29670477 original size:18 final size:18
Alignment explanation
Indices: 29670454--29670508 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
29670444 AATATGAGAT
29670454 TGTGAATTGAAAATAGAA
1 TGTGAATTGAAAATAGAA
*
29670472 --TG---TGAAAA-ACAA
1 TGTGAATTGAAAATAGAA
29670484 TAGTGAATTGAAAATAGAA
1 T-GTGAATTGAAAATAGAA
29670503 TGTGAA
1 TGTGAA
29670509 ATATGTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
12 3 0.11
13 6 0.21
15 2 0.07
16 2 0.07
18 11 0.39
19 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.22, T:0.25
Consensus pattern (18 bp):
TGTGAATTGAAAATAGAA
Found at i:29676892 original size:46 final size:45
Alignment explanation
Indices: 29676801--29676892 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 45
29676791 GTTAAGTAAT
** *
29676801 AGAAGCAATTTCAATTCACATACAGAACATATCAGCTACATATGC
1 AGAAGCAATTTCAATTCACATACAGAACATATCAAATACAAATGC
* * * *
29676846 AGAAGCAATTTTAGTTTCATATACAGAACATATCAAATTCAAATGC
1 AGAAGCAATTTCA-ATTCACATACAGAACATATCAAATACAAATGC
29676892 A
1 A
29676893 ATTATTCCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 12 0.31
46 27 0.69
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.27
Consensus pattern (45 bp):
AGAAGCAATTTCAATTCACATACAGAACATATCAAATACAAATGC
Found at i:29677449 original size:42 final size:42
Alignment explanation
Indices: 29677402--29677506 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
29677392 GGACCCACGT
* *
29677402 CCATGTCCTTGCCTGTGTGGCTCACACGGCTTGG-GCACATAC
1 CCATGTCCTTGCCTGTGTGGCTCAAACGGCTTGGAG-ACACAC
* * ** *
29677444 CCATGTTCTTACCCT-TGTGTTTCAAACGGCTTGGAGACACGC
1 CCATGTCCTT-GCCTGTGTGGCTCAAACGGCTTGGAGACACAC
29677486 CCATGTCCTCTGCCTGTGTGG
1 CCATGTCCT-TGCCTGTGTGG
29677507 TTCTAAAACG
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
42 40 0.82
43 9 0.18
ACGTcount: A:0.14, C:0.31, G:0.25, T:0.30
Consensus pattern (42 bp):
CCATGTCCTTGCCTGTGTGGCTCAAACGGCTTGGAGACACAC
Found at i:29678263 original size:20 final size:21
Alignment explanation
Indices: 29678218--29678270 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
29678208 AGAATGAAGC
29678218 AAAAATAAAAGAATTGGAAAA
1 AAAAATAAAAGAATTGGAAAA
29678239 GAAAAA-AAAAGAA-T-GATAAA
1 -AAAAATAAAAGAATTGGA-AAA
29678259 AAAAATAAAAGA
1 AAAAATAAAAGA
29678271 GGAAGAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.24
20 10 0.34
21 7 0.24
22 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.11
Consensus pattern (21 bp):
AAAAATAAAAGAATTGGAAAA
Found at i:29678925 original size:15 final size:15
Alignment explanation
Indices: 29678905--29678953 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
29678895 TCGTCTGGGC
29678905 ACAAACAAAAAAAAA
1 ACAAACAAAAAAAAA
*
29678920 ACAAAC-AAAACAAA
1 ACAAACAAAAAAAAA
* *
29678934 ATAAATAAAACAAAAA
1 ACAAACAAAA-AAAAA
29678950 ACAA
1 ACAA
29678954 TTAAAGTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 11 0.41
15 9 0.33
16 7 0.26
ACGTcount: A:0.82, C:0.14, G:0.00, T:0.04
Consensus pattern (15 bp):
ACAAACAAAAAAAAA
Found at i:29680385 original size:63 final size:63
Alignment explanation
Indices: 29680239--29680388 Score: 178
Period size: 63 Copynumber: 2.4 Consensus size: 63
29680229 ATATTACTTT
* * * * * *
29680239 ATTTATTTATTCATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTGTTTTTCCTATTT
1 ATTTATTTATT-ATTCTTTTATTTTTTAAATACTTAAATTTAATATTACTTATCTTCCCTATTC
* *
29680303 ATTTATTTATTATTCTTTTATTTTTTAAATATTTAAATTTGATATTACTTATACTTCCCT-TTC
1 ATTTATTTATTATTCTTTTATTTTTTAAATACTTAAATTTAATATTACTTAT-CTTCCCTATTC
*
29680366 ATTTCATTTTTTATT-TTTTATTT
1 ATTT-ATTTATTATTCTTTTATTT
29680389 GAAAGTTACT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 50 0.67
64 25 0.33
ACGTcount: A:0.25, C:0.09, G:0.01, T:0.64
Consensus pattern (63 bp):
ATTTATTTATTATTCTTTTATTTTTTAAATACTTAAATTTAATATTACTTATCTTCCCTATTC
Found at i:29690244 original size:18 final size:18
Alignment explanation
Indices: 29690209--29690242 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29690199 GTCATTCACT
*
29690209 CTTTCTTTTTCAGTTTTA
1 CTTTATTTTTCAGTTTTA
29690227 CTTTATTTTT-AGTTTT
1 CTTTATTTTTCAGTTTT
29690243 TAATTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (18 bp):
CTTTATTTTTCAGTTTTA
Found at i:29704185 original size:18 final size:18
Alignment explanation
Indices: 29704162--29704197 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29704152 AAATTATAAT
*
29704162 AATAAAATTAAACCCAAA
1 AATAAAACTAAACCCAAA
*
29704180 AATAAAACTAAATCCAAA
1 AATAAAACTAAACCCAAA
29704198 TTAATTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (18 bp):
AATAAAACTAAACCCAAA
Found at i:29705828 original size:43 final size:43
Alignment explanation
Indices: 29705772--29706536 Score: 765
Period size: 43 Copynumber: 17.8 Consensus size: 43
29705762 ACATGTTATT
* * * *
29705772 ACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGAAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * *
29705815 ATATAACGGTGCCAATTTCCCAAACATGGTCTTATACGTAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * *
29705858 ACAGT-ACAATGCCAATGTCTCAGACATGGTCTTACTTA--TTATC
1 ACA-TAACGATGCCAATGTCCCAGACATGGTCTTA--TACGTAATC
* * * *
29705901 ACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGAAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * *
29705944 ATATAACGGTGCCAATTTCCCAAACATGGTCTTATACGTAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * * *
29705987 ACAGT-ACAATGTCAATGTCCCAGACATGGTCTTACATGTTATC
1 ACA-TAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * * *
29706030 ACATATCGATGCCACTATCCCAGACAGGGTCTTATACGAAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * *
29706073 ATATAACGATGTCAATGTCCTAGACATGGTCTTATACGTAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * *
29706116 ACAGT-ACAATGCCAATGTCCCAGACATGGTCTTACATGTTATC
1 ACA-TAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * **
29706159 ACATATCGATGCCACTGTCCCAGACAGGGTCTTATACAAAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* *
29706202 ATATAACGATGCCAATTTCCCAGACATGGTCTTATACGTAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * *
29706245 ACAGT-ACAATGCCAATGTCCCAGACATGGTCTTACATGTTATC
1 ACA-TAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * *
29706288 ACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGAAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * * *
29706331 ATATAACAATGCCAATGCCCCATACATGGTCTTATATGTAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * *
29706374 ACAGT-ACAATGCCAATGTCCCAGACATGGTCTTACATGTTATC
1 ACA-TAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* * * * * *
29706417 ACATATCGATGTCACTATCCCAGACAAGGTCTTA-ACGAAATCC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAAT-C
*
29706460 ATATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
1 ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
* *
29706503 ACAGT-ACAATGCCAATGTCCCAAACATGGTCTTA
1 ACA-TAACGATGCCAATGTCCCAGACATGGTCTTA
29706537 CATGTTATCA
Statistics
Matches: 578, Mismatches: 127, Indels: 34
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.00
42 9 0.02
43 553 0.96
44 12 0.02
45 2 0.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ACATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATC
Found at i:29705988 original size:129 final size:129
Alignment explanation
Indices: 29705746--29706546 Score: 1352
Period size: 129 Copynumber: 6.2 Consensus size: 129
29705736 TAATGTCATA
* * *
29705746 TCCCAGATATGTTCTTACATGTTATTACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
1 TCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
* * *
29705811 AATCATATAACGGTGCCAATTTCCCAAACATGGTCTTATACGTAATCACAGTACAATGCCAATG
66 AATCATATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAGTACAATGCCAATG
* * *
29705875 TCTCAGACATGGTCTTACTTATTATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
1 TCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
* * * *
29705940 AATCATATAACGGTGCCAATTTCCCAAACATGGTCTTATACGTAATCACAGTACAATGTCAATG
66 AATCATATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAGTACAATGCCAATG
*
29706004 TCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTATCCCAGACAGGGTCTTATACGA
1 TCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
* *
29706069 AATCATATAACGATGTCAATGTCCTAGACATGGTCTTATACGTAATCACAGTACAATGCCAATG
66 AATCATATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAGTACAATGCCAATG
*
29706133 TCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATACAA
1 TCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
*
29706198 AATCATATAACGATGCCAATTTCCCAGACATGGTCTTATACGTAATCACAGTACAATGCCAATG
66 AATCATATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAGTACAATGCCAATG
29706262 TCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
1 TCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
* * * *
29706327 AATCATATAACAATGCCAATGCCCCATACATGGTCTTATATGTAATCACAGTACAATGCCAATG
66 AATCATATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAGTACAATGCCAATG
* * *
29706391 TCCCAGACATGGTCTTACATGTTATCACATATCGATGTCACTATCCCAGACAAGGTCTTA-ACGA
1 TCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
29706455 AATCCATATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAGTACAATGCCAATG
66 AAT-CATATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAGTACAATGCCAATG
*
29706520 TCCCAAACATGGTCTTACATGTTATCA
1 TCCCAGACATGGTCTTACATGTTATCA
29706547 AATCTTGGTA
Statistics
Matches: 635, Mismatches: 36, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
128 7 0.01
129 628 0.99
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (129 bp):
TCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
AATCATATAACGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAGTACAATGCCAATG
Found at i:29710711 original size:25 final size:24
Alignment explanation
Indices: 29710683--29710754 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
29710673 GTTCTGTGGA
29710683 AAAGGATGAATTGACGGTAAAATGC
1 AAAGGATGAATTGACGGT-AAATGC
**
29710708 AAAGGATGAATTGACGGTATGTGC
1 AAAGGATGAATTGACGGTAAATGC
*
29710732 AAAGGATGAATTGACGGCAAATG
1 AAAGGATGAATTGACGGTAAATG
29710755 TACCCAAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 24 0.57
25 18 0.43
ACGTcount: A:0.40, C:0.08, G:0.31, T:0.21
Consensus pattern (24 bp):
AAAGGATGAATTGACGGTAAATGC
Found at i:29710933 original size:21 final size:21
Alignment explanation
Indices: 29710875--29710936 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
29710865 GCTTCAATTT
29710875 AACCCTTATGGGTTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
* * *** *
29710896 AGCTCTTACAAGCTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
29710917 AACCCTTATGGGTTTCCGTT
1 AACCCTTATGGGTTTCCGTT
29710937 TAGCTCTCAT
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.37
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:29710959 original size:42 final size:42
Alignment explanation
Indices: 29710804--29710959 Score: 134
Period size: 42 Copynumber: 3.7 Consensus size: 42
29710794 TCGTGTTTAC
* * * * * *
29710804 TTTCCGTTTAGCTCACACGAGCTTCTGCT-AACTCATATGAG
1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCTTATGGG
* *** ** *
29710845 TTTCCATTCAGCTCTTTTGAGCTTCAATTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCTTATGGG
* * *
29710887 TTTCCGTTCAGCTCTTACAAGCTTCCGTTCAACCCTTATGGG
1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCTTATGGG
* * *
29710929 TTTCCGTTTAGCTCTCATGAGTTTCTGTTCA
1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCA
29710960 GCCTTCGGGC
Statistics
Matches: 89, Mismatches: 25, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
41 20 0.22
42 69 0.78
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCTTATGGG
Found at i:29719297 original size:4 final size:4
Alignment explanation
Indices: 29719288--29719312 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
29719278 ATAATTTAAC
29719288 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
29719313 TGGTATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:29720634 original size:18 final size:19
Alignment explanation
Indices: 29720611--29720647 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
29720601 AACAAATTAT
*
29720611 GAATTTTATTAT-TTTTTA
1 GAATTTTATCATATTTTTA
29720629 GAATTTTATCATATTTTTA
1 GAATTTTATCATATTTTTA
29720648 TATTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
GAATTTTATCATATTTTTA
Found at i:29733420 original size:19 final size:17
Alignment explanation
Indices: 29733396--29733439 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
29733386 TAACAACCTA
29733396 AATAATAAAATGAAATGAC
1 AATAATAAAATG-AAT-AC
**
29733415 AATAATATGATGAATAC
1 AATAATAAAATGAATAC
29733432 AATAATAA
1 AATAATAA
29733440 GAAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 9 0.41
18 3 0.14
19 10 0.45
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.25
Consensus pattern (17 bp):
AATAATAAAATGAATAC
Found at i:29737212 original size:21 final size:21
Alignment explanation
Indices: 29737188--29737330 Score: 103
Period size: 21 Copynumber: 6.9 Consensus size: 21
29737178 TGTGTTTGCT
*
29737188 TTCAGTTTAGCTCTTATGAGC
1 TTCAGTTTAACTCTTATGAGC
* *
29737209 TTCAG-TTAACTCATATGAGT
1 TTCAGTTTAACTCTTATGAGC
* * *
29737229 TTCAGTTTAAC-CATTTTGGGT
1 TTCAGTTTAACTC-TTATGAGC
* * *
29737250 TTCAGTTTAGCTTTTTTGAGC
1 TTCAGTTTAACTCTTATGAGC
* * *
29737271 TTCAGTTTAACCCTTATGGGTT
1 TTCAGTTTAACTCTTATGAG-C
* *
29737293 TTC-GTTCAACTCTTATGAGT
1 TTCAGTTTAACTCTTATGAGC
* *
29737313 TTCTGTTTAAATCTTATG
1 TTCAGTTTAACTCTTATG
29737331 GGTTTTTGTT
Statistics
Matches: 96, Mismatches: 21, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
20 22 0.23
21 71 0.74
22 3 0.03
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCAGTTTAACTCTTATGAGC
Found at i:29737227 original size:20 final size:20
Alignment explanation
Indices: 29737188--29737235 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
29737178 TGTGTTTGCT
* *
29737188 TTCAGTTTAGCTCTTATGAGC
1 TTCAG-TTAACTCATATGAGC
*
29737209 TTCAGTTAACTCATATGAGT
1 TTCAGTTAACTCATATGAGC
29737229 TTCAGTT
1 TTCAGTT
29737236 TAACCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
TTCAGTTAACTCATATGAGC
Found at i:29737321 original size:42 final size:43
Alignment explanation
Indices: 29737187--29737336 Score: 137
Period size: 42 Copynumber: 3.6 Consensus size: 43
29737177 TTGTGTTTGC
* * * * *
29737187 TTTCAGTTTAGCTCTTATGAG-CTTCAGTT-AACTCATATGAG
1 TTTCAGTTTAACCCTTATGGGTTTTCAGTTCAACTCTTATGAG
* * * * * *
29737228 TTTCAGTTTAACCATTTTGGG-TTTCAGTTTAGCTTTTTTGAG
1 TTTCAGTTTAACCCTTATGGGTTTTCAGTTCAACTCTTATGAG
*
29737270 CTTCAGTTTAACCCTTATGGGTTTTC-GTTCAACTCTTATGAG
1 TTTCAGTTTAACCCTTATGGGTTTTCAGTTCAACTCTTATGAG
* **
29737312 TTTCTGTTTAAATCTTATGGGTTTT
1 TTTCAGTTTAACCCTTATGGGTTTT
29737337 TGTTTAGCAC
Statistics
Matches: 86, Mismatches: 21, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
41 23 0.27
42 59 0.69
43 4 0.05
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.48
Consensus pattern (43 bp):
TTTCAGTTTAACCCTTATGGGTTTTCAGTTCAACTCTTATGAG
Found at i:29737335 original size:21 final size:20
Alignment explanation
Indices: 29737283--29737342 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
29737273 CAGTTTAACC
* *
29737283 CTTATGGGTTTTCGTTCAACT
1 CTTATGGGTTTT-GTTTAAAT
*
29737304 CTTATGAGTTTCTGTTTAAAT
1 CTTATGGGTTT-TGTTTAAAT
29737325 CTTATGGGTTTTTGTTTA
1 CTTATGGG-TTTTGTTTA
29737343 GCACTTATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.17, C:0.12, G:0.18, T:0.53
Consensus pattern (20 bp):
CTTATGGGTTTTGTTTAAAT
Found at i:29737349 original size:21 final size:20
Alignment explanation
Indices: 29737283--29737351 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
29737273 CAGTTTAACC
* * *
29737283 CTTATGGGTTTTCGTTCAACT
1 CTTATGGGTTTTTGTT-TACA
* * *
29737304 CTTATGAGTTTCTGTTTAAA
1 CTTATGGGTTTTTGTTTACA
29737324 TCTTATGGGTTTTTGTTTAGCA
1 -CTTATGGGTTTTTGTTTA-CA
29737346 CTTATG
1 CTTATG
29737352 TACTTTTGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
20 1 0.03
21 35 0.95
22 1 0.03
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (20 bp):
CTTATGGGTTTTTGTTTACA
Found at i:29742412 original size:27 final size:27
Alignment explanation
Indices: 29742382--29742435 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
29742372 CTTTGTCAAA
*
29742382 AATCAAATGATATAACTCTTGATTAAT
1 AATCAAAAGATATAACTCTTGATTAAT
*
29742409 AATCAAAAGATATAACTTTTGATTAAT
1 AATCAAAAGATATAACTCTTGATTAAT
29742436 TACACTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.37
Consensus pattern (27 bp):
AATCAAAAGATATAACTCTTGATTAAT
Found at i:29743192 original size:9 final size:9
Alignment explanation
Indices: 29743180--29743256 Score: 93
Period size: 9 Copynumber: 8.4 Consensus size: 9
29743170 TTATTAAAAA
29743180 AATTCGGGT
1 AATTCGGGT
29743189 AATTCGGGT
1 AATTCGGGT
*
29743198 ATTTTTC-GGT
1 A--ATTCGGGT
*
29743208 AATTCGGTT
1 AATTCGGGT
*
29743217 AATTCGGTT
1 AATTCGGGT
29743226 AATTCGGGT
1 AATTCGGGT
*
29743235 AATTCGGTT
1 AATTCGGGT
29743244 AATTCGGGT
1 AATTCGGGT
29743253 AATT
1 AATT
29743257 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
8 3 0.05
9 49 0.83
10 4 0.07
11 3 0.05
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:29743434 original size:12 final size:12
Alignment explanation
Indices: 29743417--29743441 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29743407 AGTAATTTCG
29743417 GGTCGGTTAACC
1 GGTCGGTTAACC
29743429 GGTCGGTTAACC
1 GGTCGGTTAACC
29743441 G
1 G
29743442 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:29751044 original size:18 final size:18
Alignment explanation
Indices: 29751003--29751037 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
29750993 CACAATTAGG
29751003 ATTAGATTAGTGAGCATA
1 ATTAGATTAGTGAGCATA
29751021 ACTTAGATTA-TGAGCAT
1 A-TTAGATTAGTGAGCAT
29751038 TTATTAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (18 bp):
ATTAGATTAGTGAGCATA
Found at i:29754068 original size:18 final size:17
Alignment explanation
Indices: 29754035--29754067 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
29754025 AGATACTAAA
29754035 TTAAACAAAAAAAAAAC
1 TTAAACAAAAAAAAAAC
29754052 TTAAACAAAAAAAAAA
1 TTAAACAAAAAAAAAA
29754068 ATATAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (17 bp):
TTAAACAAAAAAAAAAC
Found at i:29760139 original size:11 final size:11
Alignment explanation
Indices: 29760123--29760156 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
29760113 TCAAATATTT
29760123 TCTCAATTTCC
1 TCTCAATTTCC
*
29760134 TCTCAATTTGC
1 TCTCAATTTCC
29760145 TCTCAATTTCC
1 TCTCAATTTCC
29760156 T
1 T
29760157 TCCGAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:29760151 original size:22 final size:22
Alignment explanation
Indices: 29760119--29760172 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
29760109 TCTCTCAAAT
29760119 ATTT-TCTCAATTTCC-TCTC-A
1 ATTTCTCTCAATTTCCTTC-CGA
29760139 ATTTGCTCTCAATTTCCTTCCGA
1 ATTT-CTCTCAATTTCCTTCCGA
29760162 ATTTCTCTCAA
1 ATTTCTCTCAA
29760173 ATCCATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.20, C:0.30, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTTCCGA
Found at i:29760205 original size:49 final size:50
Alignment explanation
Indices: 29760136--29760231 Score: 133
Period size: 49 Copynumber: 1.9 Consensus size: 50
29760126 CAATTTCCTC
*
29760136 TCAATTTGCTCTCAATTTCCT-TCCGAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTGC-CTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAATT
* *
29760187 TCAATTTG-CTCAATTTCCTCTTAAATTTCTCTTAAATCCATATTT
1 TCAATTTGCCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
29760232 TTAATTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
49 32 0.78
50 1 0.02
51 8 0.20
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (50 bp):
TCAATTTGCCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAATT
Found at i:29760296 original size:13 final size:14
Alignment explanation
Indices: 29760260--29760296 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
29760250 ATTAATTTAA
*
29760260 AAACCCTAAACCCT
1 AAACCCTTAACCCT
29760274 AAACCC-TAACCCT
1 AAACCCTTAACCCT
29760287 -AACCCTTAAC
1 AAACCCTTAAC
29760297 TTAAAAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 5 0.24
13 10 0.48
14 6 0.29
ACGTcount: A:0.41, C:0.43, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCCTTAACCCT
Found at i:29760312 original size:7 final size:7
Alignment explanation
Indices: 29760260--29760292 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
29760250 ATTAATTTAA
29760260 AAACCCT
1 AAACCCT
29760267 AAACCCT
1 AAACCCT
29760274 AAACCCT
1 AAACCCT
29760281 -AACCCT
1 AAACCCT
29760287 -AACCCT
1 AAACCCT
29760293 TAACTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:29760388 original size:22 final size:22
Alignment explanation
Indices: 29760281--29760379 Score: 150
Period size: 22 Copynumber: 4.6 Consensus size: 22
29760271 CCTAAACCCT
*
29760281 AACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCATTAACTTAAA
29760302 AACCCTAAACCATTAACTTAAA
1 AACCCTAAACCATTAACTTAAA
*
29760324 AACCCTAACCCATTAACTTAAA
1 AACCCTAAACCATTAACTTAAA
29760346 AACCCTAAACTC-TTAACTTAAA
1 AACCCTAAAC-CATTAACTTAAA
29760368 AACCCT-AACCAT
1 AACCCTAAACCAT
29760380 AACCCTTAAC
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.01
21 10 0.14
22 60 0.83
23 1 0.01
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.23
Consensus pattern (22 bp):
AACCCTAAACCATTAACTTAAA
Found at i:29760388 original size:44 final size:44
Alignment explanation
Indices: 29760281--29760377 Score: 171
Period size: 44 Copynumber: 2.2 Consensus size: 44
29760271 CCTAAACCCT
29760281 AACCCTAACCC-TTAACTTAAAAACCCTAAACCATTAACTTAAA
1 AACCCTAACCCATTAACTTAAAAACCCTAAACCATTAACTTAAA
29760324 AACCCTAACCCATTAACTTAAAAACCCTAAACTC-TTAACTTAAA
1 AACCCTAACCCATTAACTTAAAAACCCTAAAC-CATTAACTTAAA
29760368 AACCCTAACC
1 AACCCTAACC
29760378 ATAACCCTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
43 11 0.21
44 40 0.77
45 1 0.02
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (44 bp):
AACCCTAACCCATTAACTTAAAAACCCTAAACCATTAACTTAAA
Found at i:29760405 original size:22 final size:22
Alignment explanation
Indices: 29760287--29760397 Score: 116
Period size: 22 Copynumber: 4.8 Consensus size: 22
29760277 CCCTAACCCT
*
29760287 AACCCTTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCCAA
* *
29760309 AACCATTAACTTAAAAACCC-T
1 AACCCTTAACTTAAAAACCCAA
*
29760330 AACCCATTAACTTAAAAACCCTA
1 AACCC-TTAACTTAAAAACCCAA
*
29760353 AACTCTTAACTTAAAAACCCTAACCA
1 AACCCTTAACTTAAAAACCC--A--A
29760379 TAACCCTTAACTTAAAAAC
1 -AACCCTTAACTTAAAAAC
29760398 TAAAAACCTT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.05
22 49 0.65
23 4 0.05
26 1 0.01
27 17 0.23
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (22 bp):
AACCCTTAACTTAAAAACCCAA
Found at i:29760436 original size:21 final size:22
Alignment explanation
Indices: 29760397--29760438 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
29760387 AACTTAAAAA
* *
29760397 CTAAAAACCTTAAACCCTAACC
1 CTAAAAACCTCAAAACCTAACC
29760419 CTAAAAACC-CAAAACCTAAC
1 CTAAAAACCTCAAAACCTAAC
29760439 GTGGGAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (22 bp):
CTAAAAACCTCAAAACCTAACC
Found at i:29760522 original size:40 final size:40
Alignment explanation
Indices: 29760477--29760554 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
29760467 AGGGGCGCGC
* * *
29760477 TACGTGGCAGCAAAACACGTCCACGTCAGCGCGCTTTGCA
1 TACGTGGCAACAAAACACGTCCACGTAAGCACGCTTTGCA
* *
29760517 TACGTGGCAACAAAGCGCGTCCACGTAAGCACGCTTTG
1 TACGTGGCAACAAAACACGTCCACGTAAGCACGCTTTG
29760555 TTGCCACGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.18
Consensus pattern (40 bp):
TACGTGGCAACAAAACACGTCCACGTAAGCACGCTTTGCA
Found at i:29763130 original size:40 final size:40
Alignment explanation
Indices: 29763076--29763210 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 40
29763066 CGTTTGGACA
* * * *
29763076 AAAAACGCCACTAAAAATGAAGCAGTAGGGGCGCTTTTGG
1 AAAAACGCCGCTAAAAATGAAGCATTAGCGGCGATTTTGG
** * **
29763116 AAAAACGCCGCTAAAGGTCG-ATCATTAGCGGCGATTTTTA
1 AAAAACGCCGCTAAAAAT-GAAGCATTAGCGGCGATTTTGG
*
29763156 AAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTTTGG
1 AAAAACGCCGCTAAAAATGAAGCATTAGCGGCG-ATTTTGG
*
29763196 -AAAGCGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
29763211 GCCTAAGCCA
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 5 0.07
39 21 0.28
40 49 0.64
41 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATGAAGCATTAGCGGCGATTTTGG
Found at i:29763460 original size:13 final size:14
Alignment explanation
Indices: 29763442--29763570 Score: 54
Period size: 14 Copynumber: 9.1 Consensus size: 14
29763432 TAAAGGGTAT
29763442 GGATTAGGGTTT-G
1 GGATTAGGGTTTAG
**
29763455 GGATTAATGTTTAG
1 GGATTAGGGTTTAG
*
29763469 GGGTTAGGG-TTAG
1 GGATTAGGGTTTAG
** *
29763482 TAATTTAGGGGTTAG
1 GGA-TTAGGGTTTAG
* *
29763497 GGGTTAGTGATTTA-
1 GGATTAG-GGTTTAG
29763511 --ATTAAGGG-TTAG
1 GGATT-AGGGTTTAG
*
29763523 GGTTTAAGGGGATTTAG
1 GGATT-A-GGG-TTTAG
*
29763540 GGATTAGGGGTTAG
1 GGATTAGGGTTTAG
*
29763554 GGATTTAGGGGTTAG
1 GGA-TTAGGGTTTAG
29763569 GG
1 GG
29763571 TGTCAAGGGT
Statistics
Matches: 86, Mismatches: 18, Indels: 22
0.68 0.14 0.17
Matches are distributed among these distances:
11 3 0.03
12 3 0.03
13 16 0.19
14 28 0.33
15 27 0.31
16 1 0.01
17 8 0.09
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (14 bp):
GGATTAGGGTTTAG
Found at i:29763488 original size:21 final size:22
Alignment explanation
Indices: 29763464--29763510 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
29763454 GGGATTAATG
29763464 TTTAGGGGTTA-GGGTTAGTAA
1 TTTAGGGGTTAGGGGTTAGTAA
*
29763485 TTTAGGGGTTAGGGGTTAGTGA
1 TTTAGGGGTTAGGGGTTAGTAA
29763507 TTTA
1 TTTA
29763511 ATTAAGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.40
Consensus pattern (22 bp):
TTTAGGGGTTAGGGGTTAGTAA
Found at i:29763563 original size:15 final size:15
Alignment explanation
Indices: 29763516--29763570 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 15
29763506 ATTTAATTAA
29763516 GGGTTAGGG-TTTAAG
1 GGGTTAGGGATTT-AG
29763531 GGGATTTAGGGA-TTAG
1 GGG--TTAGGGATTTAG
29763547 GGGTTAGGGATTTAG
1 GGGTTAGGGATTTAG
29763562 GGGTTAGGG
1 GGGTTAGGG
29763571 TGTCAAGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.19
15 16 0.44
16 5 0.14
17 8 0.22
ACGTcount: A:0.20, C:0.00, G:0.49, T:0.31
Consensus pattern (15 bp):
GGGTTAGGGATTTAG
Found at i:29764291 original size:21 final size:21
Alignment explanation
Indices: 29764267--29764333 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
29764257 AAAACTAAAA
29764267 TTTATAATTTTA-TCAAAAACT
1 TTTATAATTTTACT-AAAAACT
* *
29764288 TTTA-AATATTACTTAAAACT
1 TTTATAATTTTACTAAAAACT
*
29764308 TTAATAATTATTTACTAAAAA-T
1 TTTATAA-T-TTTACTAAAAACT
29764330 TTTA
1 TTTA
29764334 ATGAAAATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
20 15 0.42
21 7 0.19
22 5 0.14
23 9 0.25
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTATAATTTTACTAAAAACT
Found at i:29764328 original size:23 final size:22
Alignment explanation
Indices: 29764281--29764335 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
29764271 TAATTTTATC
29764281 AAAAACTTT--TAAATATTACT
1 AAAAACTTTAATAAATATTACT
* *
29764301 TAAAACTTTAATAATTATTTACT
1 AAAAACTTTAATAAATA-TTACT
*
29764324 AAAAATTTTAAT
1 AAAAACTTTAAT
29764336 GAAAATACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 8 0.29
22 5 0.18
23 15 0.54
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAACTTTAATAAATATTACT
Found at i:29769404 original size:43 final size:42
Alignment explanation
Indices: 29769250--29769406 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 42
29769240 AGGTGTTGGC
*
29769250 CTTTAGTGGCGTTTCTGGTAAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGATAA-GGT
* * * * * *
29769293 CTTTCGCGGCGTTT-TCGGAAAAAGCACCCCTAAAGATCATGGT
1 CTTTAGTGGCGTTTGT-GGTAAAAGCGCCGCTAAAGAT-AAGGT
** *
29769336 CTTTAGTGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGATAAGG-T
* **
29769379 CTCTAGTGGCGTTTGTGGTCGAAGCGCC
1 CTTTAGTGGCGTTTGTGGTAAAAGCGCC
29769407 ACTATAGACC
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 3 0.03
43 87 0.95
44 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (42 bp):
CTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGATAAGGT
Found at i:29770187 original size:30 final size:30
Alignment explanation
Indices: 29770151--29770225 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
29770141 TAATGTGTCA
*
29770151 GTGATCAACTTGTAACTTTCGAATAGTTCG
1 GTGATCAACTTGTAACTTTCAAATAGTTCG
* *
29770181 GTGATCAACTTATAACTTTCAAATAGTTTG
1 GTGATCAACTTGTAACTTTCAAATAGTTCG
* *
29770211 GTGAACAAATTGTAA
1 GTGATCAACTTGTAA
29770226 TTTTTTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (30 bp):
GTGATCAACTTGTAACTTTCAAATAGTTCG
Found at i:29775151 original size:24 final size:24
Alignment explanation
Indices: 29775117--29775168 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
29775107 TTTCTAAAAG
* *
29775117 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
29775141 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
29775165 ATTT
1 ATTT
29775169 TACTCTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:29779593 original size:24 final size:24
Alignment explanation
Indices: 29779530--29779581 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
29779520 TTTCTAAAAG
* *
29779530 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
29779554 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
29779578 ATTT
1 ATTT
29779582 GACTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:29779951 original size:67 final size:67
Alignment explanation
Indices: 29779843--29779976 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
29779833 GTGCACTTGT
29779843 CTTAGTCAGATTTTTAGTTAATTTATGACTGCATCATTGACAAATTTATTCTAATTCAATAAGTG
1 CTTAGTCAGATTTTTAGTTAATTTATGACTGCATCATTGACAAATTTATTCTAATTCAATAAGTG
29779908 TG
66 TG
29779910 CTTAGTCAGATTTTTAGTTAATTTATGACTGCATCATTGACAAATTTATTCTAATTCAATAAGTG
1 CTTAGTCAGATTTTTAGTTAATTTATGACTGCATCATTGACAAATTTATTCTAATTCAATAAGTG
29779975 TG
66 TG
29779977 TTTTTGTTTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (67 bp):
CTTAGTCAGATTTTTAGTTAATTTATGACTGCATCATTGACAAATTTATTCTAATTCAATAAGTG
TG
Found at i:29779965 original size:33 final size:33
Alignment explanation
Indices: 29779861--29779965 Score: 83
Period size: 33 Copynumber: 3.2 Consensus size: 33
29779851 GATTTTTAGT
29779861 TAATTTATGACTGCATCATTGACAAATTTATTC
1 TAATTTATGACTGCATCATTGACAAATTTATTC
* * * * * *
29779894 TAATTCAATAAGTG--TGC-TTAGTCAGATTT-TTAGT
1 TAATT-TATGACTGCAT-CATT-GACAAATTTATT--C
29779928 TAATTTATGACTGCATCATTGACAAATTTATTC
1 TAATTTATGACTGCATCATTGACAAATTTATTC
29779961 TAATT
1 TAATT
29779966 CAATAAGTGT
Statistics
Matches: 51, Mismatches: 12, Indels: 18
0.63 0.15 0.22
Matches are distributed among these distances:
32 5 0.10
33 23 0.45
34 18 0.35
35 5 0.10
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (33 bp):
TAATTTATGACTGCATCATTGACAAATTTATTC
Found at i:29788395 original size:2 final size:2
Alignment explanation
Indices: 29788388--29788452 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
29788378 CACCCACAAG
29788388 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
29788430 CT CT CT CT CT CT CT CT CT AT CT C
1 CT CT CT CT CT CT CT CT CT CT CT C
29788453 ACACAAATAC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:29793166 original size:14 final size:14
Alignment explanation
Indices: 29793147--29793174 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29793137 TATGCAATTT
29793147 TGTGCAAATTTGAC
1 TGTGCAAATTTGAC
29793161 TGTGCAAATTTGAC
1 TGTGCAAATTTGAC
29793175 AGTACAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
TGTGCAAATTTGAC
Found at i:29795197 original size:21 final size:23
Alignment explanation
Indices: 29795151--29795196 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
29795141 AATTTAAAAA
29795151 TTTAGAAAAATTATAAAATTACT
1 TTTAGAAAAATTATAAAATTACT
*
29795174 TTTA-AAAAA-TA-AAAATTAAT
1 TTTAGAAAAATTATAAAATTACT
29795194 TTT
1 TTT
29795197 TTTTAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 2 0.09
22 5 0.23
23 4 0.18
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TTTAGAAAAATTATAAAATTACT
Found at i:29795663 original size:20 final size:19
Alignment explanation
Indices: 29795635--29795674 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29795625 AAACTATTAG
*
29795635 TTAATTATTAAATTTTTTAT
1 TTAACTATT-AATTTTTTAT
*
29795655 TTAACTATTTATTTTTTAT
1 TTAACTATTAATTTTTTAT
29795674 T
1 T
29795675 AGGCTGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTAACTATTAATTTTTTAT
Found at i:29800773 original size:20 final size:21
Alignment explanation
Indices: 29800749--29800793 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
29800739 AAAATTACAA
29800749 AAAAATTGAAAAATAATTTTT
1 AAAAATTGAAAAATAATTTTT
*
29800770 AAAAATT-CAAAATAATTTTT
1 AAAAATTGAAAAATAATTTTT
29800790 AAAA
1 AAAA
29800794 TTGGAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAATTGAAAAATAATTTTT
Found at i:29800812 original size:19 final size:19
Alignment explanation
Indices: 29800749--29800812 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
29800739 AAAATTACAA
29800749 AAAAATTGAAAAATAATTTTT
1 AAAAATTG-AAAATAA-TTTT
*
29800770 AAAAATTCAAAATAATTTT
1 AAAAATTGAAAATAATTTT
* *
29800789 TAAAATTGGAAAT-ATTTAT
1 AAAAATTGAAAATAATTT-T
29800808 AAAAA
1 AAAAA
29800813 AATCTAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 19 0.51
20 7 0.19
21 7 0.19
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAAATTGAAAATAATTTT
Found at i:29800866 original size:29 final size:29
Alignment explanation
Indices: 29800832--29800888 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
29800822 TTTATATTTT
*
29800832 TAAAAAAT-TATAAAAATTCAAAAAAAATC
1 TAAAAAATATATAAAAAGT-AAAAAAAATC
29800861 TAAAAAATATATAAAAAGTAAAAAAAAT
1 TAAAAAATATATAAAAAGTAAAAAAAAT
29800889 TAGAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (29 bp):
TAAAAAATATATAAAAAGTAAAAAAAATC
Found at i:29811178 original size:35 final size:35
Alignment explanation
Indices: 29811139--29811209 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
29811129 CATTTGTGTG
29811139 TTTGATTTTCATGTCAAAATTATTATAACTACCAT
1 TTTGATTTTCATGTCAAAATTATTATAACTACCAT
*
29811174 TTTGATTTTCATGTTAAAATTATTATAACTACCAT
1 TTTGATTTTCATGTCAAAATTATTATAACTACCAT
29811209 T
1 T
29811210 GCTGCATAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.48
Consensus pattern (35 bp):
TTTGATTTTCATGTCAAAATTATTATAACTACCAT
Found at i:29814337 original size:2 final size:2
Alignment explanation
Indices: 29814330--29814366 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
29814320 CCAAATACCT
*
29814330 AC AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
29814367 TATACATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:29814344 original size:10 final size:10
Alignment explanation
Indices: 29814329--29814372 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
29814319 CCCAAATACC
29814329 TACACACACA
1 TACACACACA
29814339 TACACACACA
1 TACACACACA
*
29814349 CACACACACA
1 TACACACACA
* *
29814359 CACACACATA
1 TACACACACA
29814369 TACA
1 TACA
29814373 TATATATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.50, C:0.41, G:0.00, T:0.09
Consensus pattern (10 bp):
TACACACACA
Found at i:29814383 original size:16 final size:16
Alignment explanation
Indices: 29814364--29814396 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29814354 ACACACACAC
*
29814364 ACATATACATATATAT
1 ACATACACATATATAT
29814380 ACATACACATATATAT
1 ACATACACATATATAT
29814396 A
1 A
29814397 TTCAATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (16 bp):
ACATACACATATATAT
Found at i:29822531 original size:42 final size:42
Alignment explanation
Indices: 29822474--29822572 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
29822464 GTTTACAAAC
* *
29822474 AAAAACGCCGCTAAAGACCATGATCTTTAGCGGTGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGATCTTTAGAGGCGCTTAGAA
* * * *
29822516 AAAAATGCCGCTAAAGATCATGTTCTTTAGAGGCGCTTAGAG
1 AAAAACGCCGCTAAAGACCATGATCTTTAGAGGCGCTTAGAA
29822558 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
29822573 AGCGCCGCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGATCTTTAGAGGCGCTTAGAA
Found at i:29822708 original size:42 final size:42
Alignment explanation
Indices: 29822576--29822829 Score: 373
Period size: 43 Copynumber: 6.0 Consensus size: 42
29822566 CGCTAAAAGC
* **
29822576 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCACAAGC
1 GCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTT-ACAAAT
* * **
29822619 GCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTTACAAGC
1 GCCGCTAAAGAACATGTTATTTAGCGGC-GTTTTTTTACAAAT
29822662 GCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTACAAAT
1 GCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTACAAAT
29822704 GCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTACAAAT
1 GCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTACAAAT
29822746 GCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTTACAAAT
1 GCCGCTAAAGAACATGTTATTTAGCGGCG-TTTTTTTACAAAT
* * * * *
29822789 GCCGCTAAAGAACATATTCTTTAGTGGCGCTTTTATACAAA
1 GCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTACAAA
29822830 AACGCAACTA
Statistics
Matches: 199, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
42 92 0.46
43 100 0.50
44 7 0.04
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (42 bp):
GCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTACAAAT
Found at i:29822738 original size:85 final size:84
Alignment explanation
Indices: 29822572--29822828 Score: 388
Period size: 85 Copynumber: 3.0 Consensus size: 84
29822562 ACGCCGCTAA
* **
29822572 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCACAAGCGCCGCTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTT-ACAAATGCCGCTAAAGAACATGTT
*
29822637 CTTTAGCGGCATTTTTTTTAC
65 CTTTAGCGGC-GTTTTTTTAC
*
29822658 AAGCGCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTACAAATGCCGCTAAAGAACATGTTA
1 AAGCGCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTACAAATGCCGCTAAAGAACATGTTC
29822723 TTTAGCGGCGTTTTTTTAC
66 TTTAGCGGCGTTTTTTTAC
** *
29822742 AAATGCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTTACAAATGCCGCTAAAGAACATATT
1 AAGCGCCGCTAAAGAACATGTTATTTAGCGGCG-TTTTTTTACAAATGCCGCTAAAGAACATGTT
* * *
29822807 CTTTAGTGGCGCTTTTATAC
65 CTTTAGCGGCGTTTTTTTAC
29822827 AA
1 AA
29822829 AAACGCAACT
Statistics
Matches: 158, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
84 40 0.25
85 79 0.50
86 39 0.25
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTACAAATGCCGCTAAAGAACATGTTC
TTTAGCGGCGTTTTTTTAC
Found at i:29850819 original size:42 final size:42
Alignment explanation
Indices: 29850736--29850822 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
29850726 TCATAAGAGT
* **
29850736 TTCAGTTTAACCCTATTGGGTTTCCGTTCGGCTCTTTTGAGC
1 TTCAGATTAACCCTATTGGGTTTCCGTTCAACTCTTTTGAGC
29850778 TTCAGATTAACCCT-TATGGGTTTCCGTTCAACT-TTTATGAGC
1 TTCAGATTAACCCTAT-TGGGTTTCCGTTCAACTCTTT-TGAGC
29850820 TTC
1 TTC
29850823 TGCTCAGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
41 4 0.10
42 36 0.90
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (42 bp):
TTCAGATTAACCCTATTGGGTTTCCGTTCAACTCTTTTGAGC
Found at i:29853035 original size:27 final size:27
Alignment explanation
Indices: 29852961--29853055 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
29852951 AGTAAATAGA
**
29852961 ATAAAACAATTT-AAAGCAAATAATAT
1 ATAAAACAATTTAAAAATAAATAATAT
* * *
29852987 GTAAGACAAATTT--AAATGAATAATAT
1 ATAAAAC-AATTTAAAAATAAATAATAT
*
29853013 -TCAAAGCAATTTAAAAATAAATAATAT
1 AT-AAAACAATTTAAAAATAAATAATAT
29853040 ATAAAACAATTTAAAA
1 ATAAAACAATTTAAAA
29853056 TAATATGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
25 6 0.11
26 18 0.33
27 30 0.55
28 1 0.02
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.28
Consensus pattern (27 bp):
ATAAAACAATTTAAAAATAAATAATAT
Found at i:29853039 original size:53 final size:51
Alignment explanation
Indices: 29852973--29853125 Score: 138
Period size: 53 Copynumber: 3.0 Consensus size: 51
29852963 AAAACAATTT
*
29852973 AAAGCAAATAATATGTAAGACAAATTTAAATGAATAATATTCAAAGCAA-TTTAA
1 AAAG-AAATAATATGTAAAACAAATTTAAATGAATAATATTCAAA--AAGTTT-A
* *
29853027 AAATAAATAATATATAAAAC-AATTT-AA--AATAATATGT-AAAAAGTTTA
1 AAAGAAATAATATGTAAAACAAATTTAAATGAATAATAT-TCAAAAAGTTTA
* * * *
29853074 AAAGAAATAATATGTCAAAAGAAATCTGAAATGAATAATATGCAAATAGTTT
1 AAAGAAATAATATGT-AAAACAAAT-TTAAATGAATAATATTCAAAAAGTTT
29853126 TATTATTATT
Statistics
Matches: 81, Mismatches: 9, Indels: 19
0.74 0.08 0.17
Matches are distributed among these distances:
47 16 0.20
48 7 0.09
49 14 0.17
50 2 0.02
51 4 0.05
52 5 0.06
53 30 0.37
54 3 0.04
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.29
Consensus pattern (51 bp):
AAAGAAATAATATGTAAAACAAATTTAAATGAATAATATTCAAAAAGTTTA
Found at i:29853073 original size:21 final size:22
Alignment explanation
Indices: 29853031--29853076 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
29853021 ATTTAAAAAT
29853031 AAATAATATATAAAACAATTTA
1 AAATAATATATAAAACAATTTA
* *
29853053 AAATAATATGTAAAA-AGTTTA
1 AAATAATATATAAAACAATTTA
29853074 AAA
1 AAA
29853077 GAAATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
AAATAATATATAAAACAATTTA
Found at i:29853082 original size:22 final size:22
Alignment explanation
Indices: 29853035--29853082 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
29853025 AAAAATAAAT
*
29853035 AATATATAAAACAATTTAAAAT
1 AATATATAAAACAATTTAAAAA
* *
29853057 AATATGTAAAA-AGTTTAAAAGA
1 AATATATAAAACAATTTAAAA-A
29853079 AATA
1 AATA
29853083 ATATGTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (22 bp):
AATATATAAAACAATTTAAAAA
Found at i:29864398 original size:21 final size:21
Alignment explanation
Indices: 29864368--29864429 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
29864358 GCTTCAGCTT
29864368 AACCCTTATGGGTTTCTGTTC
1 AACCCTTATGGGTTTCTGTTC
* * * * *
29864389 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTCTGTTC
29864410 AACCCTTATGGGTTTCTGTT
1 AACCCTTATGGGTTTCTGTT
29864430 AGAGGTGATC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (21 bp):
AACCCTTATGGGTTTCTGTTC
Found at i:29864426 original size:42 final size:42
Alignment explanation
Indices: 29864324--29864429 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 42
29864314 GAGTTTTAGT
** *
29864324 TTAACCC-TATTGGGTTTCCATTCAGCTCTTTTGAGCTTCAGC
1 TTAACCCTTA-TGGGTTTCTGTTCAGCTCTTATGAGCTTCAGC
*
29864366 TTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCCG-
1 TTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCAGC
29864407 TTCAACCCTTATGGGTTTCTGTT
1 TT-AACCCTTATGGGTTTCTGTT
29864430 AGAGGTGATC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 2 0.03
42 54 0.93
43 2 0.03
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (42 bp):
TTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCAGC
Found at i:29864657 original size:27 final size:25
Alignment explanation
Indices: 29864595--29864654 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
29864585 ATTATATATT
*
29864595 AAATATATTTTTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
29864620 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
29864645 AAATATATAT
1 AAATATATAT
29864655 ATTATATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
AAATATATATTTTTTATTTTTAATC
Found at i:29870875 original size:29 final size:29
Alignment explanation
Indices: 29870835--29870892 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
29870825 AGTTTACACC
29870835 GGTCACTTAACT-TCAAAAAGTTACTAATT
1 GGTCACTTAACTATCAAAAAGTTA-TAATT
**
29870864 GGTCA-TTCAACTATTTAAAAGTTATAATT
1 GGTCACTT-AACTATCAAAAAGTTATAATT
29870893 TAAGTCATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.08
29 14 0.56
30 9 0.36
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (29 bp):
GGTCACTTAACTATCAAAAAGTTATAATT
Found at i:29880866 original size:10 final size:11
Alignment explanation
Indices: 29880835--29880867 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
29880825 CGGCCCGCCC
29880835 ATATTAATTTT
1 ATATTAATTTT
*
29880846 ATATTATTTTT
1 ATATTAATTTT
29880857 ATA-TAATTTT
1 ATATTAATTTT
29880867 A
1 A
29880868 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:29883423 original size:10 final size:11
Alignment explanation
Indices: 29883392--29883424 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
29883382 CGGCCCGCCC
29883392 ATATTAATTTT
1 ATATTAATTTT
*
29883403 ATATTATTTTT
1 ATATTAATTTT
29883414 ATA-TAATTTT
1 ATATTAATTTT
29883424 A
1 A
29883425 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:29883590 original size:30 final size:30
Alignment explanation
Indices: 29883546--29883608 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
29883536 ACTTAACAAG
29883546 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
29883576 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
29883606 CAA
1 CAA
29883609 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:29883661 original size:14 final size:14
Alignment explanation
Indices: 29883642--29883668 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29883632 CAAACAATAA
29883642 CAACATAATAGTAG
1 CAACATAATAGTAG
29883656 CAACATAATAGTA
1 CAACATAATAGTA
29883669 AAATGGTAGC
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:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (14 bp):
CAACATAATAGTAG
Found at i:29888360 original size:3 final size:3
Alignment explanation
Indices: 29888354--29888386 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
29888344 AAACTACTAT
*
29888354 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
29888387 AATTGCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:29889891 original size:44 final size:44
Alignment explanation
Indices: 29889836--29889948 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 44
29889826 GATGCGATCT
* * * *
29889836 GCTCTACTGCAACTTCAGAGAGATAAGATCAA-TCATTTTAACCC
1 GCTCCACTGCAACTTCAGGGAGATAAAATCAACT-ACTTTAACCC
* *
29889880 GCTCCACTGCAACTTCAGGGAGATAAAATCTACTACTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAAATCAACTACTTTAACCC
* *
29889924 GCTCCTCTGTAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
29889949 GGATTATCGG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 59 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAAATCAACTACTTTAACCC
Found at i:29890333 original size:125 final size:125
Alignment explanation
Indices: 29890123--29890350 Score: 393
Period size: 125 Copynumber: 1.8 Consensus size: 125
29890113 GATTCGTCAT
* *
29890123 TGTGGCTTTAATCTTTTTAACTGCAATATCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATATAGGAGAAACAAGATTCACCAATGTGGCTTTAATCTG
29890188 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGGTTTAATCAAGATTTACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGGTTTAATCAAGATTTACCGA
* * * * *
29890248 TGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATATAGGAGAAACAAGATTCACCAATGTGGCTTTAATCTG
29890313 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTATTGT
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTATTGT
29890351 GGCTTCAATC
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 96 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (125 bp):
TGTGGCTTTAATCTTTTTAACTGCAATATAGGAGAAACAAGATTCACCAATGTGGCTTTAATCTG
TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGGTTTAATCAAGATTTACCGA
Found at i:29890487 original size:50 final size:50
Alignment explanation
Indices: 29890428--29890601 Score: 207
Period size: 50 Copynumber: 3.6 Consensus size: 50
29890418 TGCATCGCCT
* * * *
29890428 GGGAAGTAAGATCCGCTATTGTAGCTTCAATCTTTTTAATTGCAATG-TCA
1 GGGAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAACTGCAACGCT-A
* **
29890478 GGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTA
1 GGGAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAACTGCAACGCTA
*
29890528 GGAAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAACTGC--CG---
1 GGGAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAACTGCAACGCTA
* *
29890573 GGGAAGCAAGATCCGCTGTTGTAGCTTCA
1 GGGAAGTAAGATCCACTGTTGTAGCTTCA
29890602 NNNNNNNNNN
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
45 26 0.24
48 2 0.02
50 80 0.73
51 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (50 bp):
GGGAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAACTGCAACGCTA
Found at i:29890558 original size:100 final size:98
Alignment explanation
Indices: 29890252--29890566 Score: 335
Period size: 100 Copynumber: 3.2 Consensus size: 98
29890242 TACCGATGTG
* * * * * *
29890252 GCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTA-GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCC
** * *
29890317 ACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTG
65 ACTGCATCGC-TGGGAAGTAAGATCCGCTATTGTA
* * * * * ** *
29890352 GCTTCAATCTTTTGAGTTGCGATGTTGGGGAAGCGAGATTCACCGTCATAGCTTCAAT-TGGTCC
1 GCTTCAATCTTTTTAATTGCAATG-TAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCC
*
29890416 GCTGCATCGCCTGGGAAGTAAGATCCGCTATTGTA
65 ACTGCATCG-CTGGGAAGTAAGATCCGCTATTGTA
* * *
29890451 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGT-AGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCC
* * * *
29890516 ACTGCAACGCTAGGAAAGTAAGATCCACTGTTGTA
65 ACTGCATCGCT-GGGAAGTAAGATCCGCTATTGTA
29890551 GCTTCAATCTTTTTAA
1 GCTTCAATCTTTTTAA
29890567 CTGCCGGGGA
Statistics
Matches: 175, Mismatches: 35, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
98 1 0.01
99 81 0.46
100 92 0.53
101 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (98 bp):
GCTTCAATCTTTTTAATTGCAATGTAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
CTGCATCGCTGGGAAGTAAGATCCGCTATTGTA
Found at i:29892157 original size:43 final size:44
Alignment explanation
Indices: 29892088--29892190 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 44
29892078 TGCACCGATC
* *
29892088 TGAT-CAAAATTTGAGCTGCTCATGATCGCCTTATGCCCCAATT-
1 TGATCCAAAATTTGAGCTGCTCATGATCACCTAATGCCCC-ATTA
*
29892131 TGATCCAAAATTTGAG-TCGCTC-TGATCACCTAATGTCCCATTA
1 TGATCCAAAATTTGAGCT-GCTCATGATCACCTAATGCCCCATTA
*
29892174 TGATCAAAAATTTGAGC
1 TGATCCAAAATTTGAGC
29892191 CGCCCTTTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
42 3 0.06
43 34 0.65
44 15 0.29
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (44 bp):
TGATCCAAAATTTGAGCTGCTCATGATCACCTAATGCCCCATTA
Found at i:29892287 original size:15 final size:15
Alignment explanation
Indices: 29892267--29892305 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
29892257 TGGCCTCTCC
*
29892267 TTTTTCTTTTTTTCT
1 TTTTTCTTTTCTTCT
29892282 TTTTTCTTTTCTTCT
1 TTTTTCTTTTCTTCT
29892297 TTTTT-TTTT
1 TTTTTCTTTT
29892306 GTTTTTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTCTTTTCTTCT
Found at i:29892291 original size:20 final size:19
Alignment explanation
Indices: 29892268--29892310 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
29892258 GGCCTCTCCT
*
29892268 TTTTCTTTTTTTCTTTTTTC
1 TTTTCTTCTTTT-TTTTTTC
*
29892288 TTTTCTTCTTTTTTTTTTG
1 TTTTCTTCTTTTTTTTTTC
29892307 TTTT
1 TTTT
29892311 TTGATCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (19 bp):
TTTTCTTCTTTTTTTTTTC
Found at i:29892312 original size:8 final size:8
Alignment explanation
Indices: 29892267--29892302 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
29892257 TGGCCTCTCC
29892267 TTTTTCTT
1 TTTTTCTT
29892275 TTTTTC-T
1 TTTTTCTT
29892282 TTTTTCTT
1 TTTTTCTT
*
29892290 TTCTTCTT
1 TTTTTCTT
29892298 TTTTT
1 TTTTT
29892303 TTTGTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:29893478 original size:6 final size:6
Alignment explanation
Indices: 29893467--29893515 Score: 73
Period size: 6 Copynumber: 8.0 Consensus size: 6
29893457 TTGACCTCTC
29893467 CTTTTT CTTTTT CTTTTT CTTTTT CTTCTCTT -TTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTT-T-TT CTTTTT CTTTTT CTTTTT
29893516 TCTATTTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.05
6 33 0.82
7 3 0.08
8 2 0.05
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:29893546 original size:8 final size:9
Alignment explanation
Indices: 29893527--29893582 Score: 87
Period size: 9 Copynumber: 6.3 Consensus size: 9
29893517 CTATTTTGAC
29893527 TTTGATTTT
1 TTTGATTTT
29893536 TTTGA-TTT
1 TTTGATTTT
29893544 TTTGATTTT
1 TTTGATTTT
*
29893553 TTGGATTTT
1 TTTGATTTT
*
29893562 TTTTATTTT
1 TTTGATTTT
29893571 TTTGATTTT
1 TTTGATTTT
29893580 TTT
1 TTT
29893583 CTAGTCTGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
8 8 0.19
9 34 0.81
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (9 bp):
TTTGATTTT
Found at i:29893549 original size:17 final size:17
Alignment explanation
Indices: 29893527--29893581 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
29893517 CTATTTTGAC
29893527 TTTGATTTTTTTGATTT
1 TTTGATTTTTTTGATTT
*
29893544 TTTGATTTTTTGGATTTT
1 TTTGATTTTTTTGA-TTT
*
29893562 TTTTATTTTTTTGATTT
1 TTTGATTTTTTTGATTT
29893579 TTT
1 TTT
29893582 TCTAGTCTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 19 0.56
18 15 0.44
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (17 bp):
TTTGATTTTTTTGATTT
Found at i:29893552 original size:7 final size:8
Alignment explanation
Indices: 29893527--29893581 Score: 65
Period size: 8 Copynumber: 6.4 Consensus size: 8
29893517 CTATTTTGAC
29893527 TTTGATTTT
1 TTTGA-TTT
29893536 TTTGATTT
1 TTTGATTT
29893544 TTTGATTT
1 TTTGATTT
29893552 TTTGGATTTT
1 TTT-GA-TTT
*
29893562 TTTTATTTT
1 TTTGA-TTT
29893571 TTTGATTT
1 TTTGATTT
29893579 TTT
1 TTT
29893582 TCTAGTCTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
8 20 0.48
9 16 0.38
10 6 0.14
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTGATTT
Found at i:29897673 original size:3 final size:3
Alignment explanation
Indices: 29897667--29897702 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
29897657 CTACTACTAC
29897667 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
29897703 AATTGCTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:29898239 original size:100 final size:101
Alignment explanation
Indices: 29898050--29898248 Score: 346
Period size: 100 Copynumber: 2.0 Consensus size: 101
29898040 TCCTGGTAAT
* *
29898050 GGGTCGGGTCACGCGTGGGTCAGGGCCAAAACGGCGTCGTTTTGGTACCTGACCCCTAAGGGCAA
1 GGGTCGGGTCACGCGCGGGTCAGGGCCAAAACGGCGTCGTTTTGGCACCTGACCCCTAAGGGCAA
29898115 AACAGCGTCGTTTTCTTCAGGGTATTTAAACCCACG
66 AACAGCGTCGTTTTCTTCAGGGTATTTAAACCCACG
*
29898151 GGGTCGGGTCAC-CGCGGGTCAGGGCCAAAACGGCGTCGTTTTGGCACCTGACCCCTAGGGGCAA
1 GGGTCGGGTCACGCGCGGGTCAGGGCCAAAACGGCGTCGTTTTGGCACCTGACCCCTAAGGGCAA
* *
29898215 AACGGCGTCGTTTTCTTTAGGGTATTTAAACCCA
66 AACAGCGTCGTTTTCTTCAGGGTATTTAAACCCA
29898249 AATTTTCCCA
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 81 0.87
101 12 0.13
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (101 bp):
GGGTCGGGTCACGCGCGGGTCAGGGCCAAAACGGCGTCGTTTTGGCACCTGACCCCTAAGGGCAA
AACAGCGTCGTTTTCTTCAGGGTATTTAAACCCACG
Found at i:29901010 original size:25 final size:24
Alignment explanation
Indices: 29900981--29901035 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
29900971 AATATGTACC
29900981 AAAAATGTAAATGTAAATGTAAAT
1 AAAAATGTAAATGTAAATGTAAAT
* * * *
29901005 ATAAAATTTATATTTAAATTTAAAT
1 A-AAAATGTAAATGTAAATGTAAAT
29901030 AAAAAT
1 AAAAAT
29901036 AATATATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (24 bp):
AAAAATGTAAATGTAAATGTAAAT
Found at i:29901041 original size:25 final size:25
Alignment explanation
Indices: 29900994--29901042 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
29900984 AATGTAAATG
*
29900994 TAAATGTAAATATAAAATTTATATT
1 TAAATGTAAATATAAAATATATATT
*
29901019 TAAATTTAAATA-AAAATAATATAT
1 TAAATGTAAATATAAAAT-ATATAT
29901043 AGAAATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
TAAATGTAAATATAAAATATATATT
Done.