Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 18 of 171
Found at i:8256783 original size:162 final size:162
Alignment explanation
Indices: 8256604--8256937 Score: 560
Period size: 162 Copynumber: 2.1 Consensus size: 162
8256594 GGTACCCAGA
* *
8256604 AGTCAAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGCCACTTTTGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTATGTAATTAAATAAAAGTT
* *
8256669 GATTAAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
66 GATTAAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACAGAAATAAACCAAAAA
* *
8256734 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
131 GTGACACATGGCAACCTCTGGTGCAGTCAAAC
*
8256766 AGTCAAAGGACTAATTTATAAATCTTGAAAAATTGTTGGGCCAATTATGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTATGTAATTAAATAAAAGTT
* * **
8256831 GATTTAAGGATTAAATTAAAATAAATTAAAAATGACAGGGACTAGATACAGAAATAAACTGAAAA
66 GATTAAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACAGAAATAAACCAAAAA
*
8256896 GTGACACATGGTAACCTCTGGTGCAGTCAAAC
131 GTGACACATGGCAACCTCTGGTGCAGTCAAAC
8256928 AGTCAAAGGA
1 AGTCAAAGGA
8256938 TTAAATTGAA
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 160 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (162 bp):
AGTCAAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTATGTAATTAAATAAAAGTT
GATTAAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACAGAAATAAACCAAAAA
GTGACACATGGCAACCTCTGGTGCAGTCAAAC
Found at i:8256991 original size:162 final size:161
Alignment explanation
Indices: 8256604--8257024 Score: 478
Period size: 162 Copynumber: 2.6 Consensus size: 161
8256594 GGTACCCAGA
* ** * * * *
8256604 AGTCAAAGGACTAATTTATAAATCTTGAAAAATT-CTTGGGCCACTTTTGTAATTAAATAAAAGT
1 AGTCAAAGGACTAATTGATAAATAGTGAAAAATTAC-TGGGCCA-ATTAGAAAATAAATAAAAGT
* * *
8256668 TGATTAAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAA
64 TGATTAAAGGATTAAATTAAAATAAATTAAAAATGACAGGGACTAGATACAGAAATAAACCAAAA
* *
8256733 AGTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
129 AGTGACACATGGCAACCTCTGGTGCAGTCAAAC
* ** ** * *
8256766 AGTCAAAGGACTAATTTATAAATCTTGAAAAATTGTTGGGCCAATTATGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTGATAAATAGTGAAAAATTACTGGGCCAATTA-GAAAATAAATAAAAGTT
* **
8256831 GATTTAAGGATTAAATTAAAATAAATTAAAAATGACAGGGACTAGATACAGAAATAAACTGAAAA
65 GATTAAAGGATTAAATTAAAATAAATTAAAAATGACAGGGACTAGATACAGAAATAAACCAAAAA
*
8256896 GTGACACATGGTAACCTCTGGTGCAGTCAAAC
130 GTGACACATGGCAACCTCTGGTGCAGTCAAAC
* *
8256928 AGTCAAAGGATTAAATTGA-AAA-AGTGAACAAAATTACTGGGCCAAATTA-AAAATAATTAAAA
1 AGTCAAAGGACT-AATTGATAAATAGTG-A-AAAATTACTGGGCC-AATTAGAAAATAAATAAAA
* *
8256990 GTATGA--AAAGGACTAAATTAAAAT-AATAAAAAATG
62 GT-TGATTAAAGGATTAAATTAAAATAAATTAAAAATG
8257025 CGGAAGGACC
Statistics
Matches: 228, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
160 10 0.04
161 20 0.09
162 173 0.76
163 20 0.09
164 5 0.02
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.26
Consensus pattern (161 bp):
AGTCAAAGGACTAATTGATAAATAGTGAAAAATTACTGGGCCAATTAGAAAATAAATAAAAGTTG
ATTAAAGGATTAAATTAAAATAAATTAAAAATGACAGGGACTAGATACAGAAATAAACCAAAAAG
TGACACATGGCAACCTCTGGTGCAGTCAAAC
Found at i:8258469 original size:6 final size:6
Alignment explanation
Indices: 8258460--8258561 Score: 76
Period size: 6 Copynumber: 18.0 Consensus size: 6
8258450 TTTGGACCTT
*
8258460 TTTAAA TTTAAA TTTACAA --T-AA TATTAAA TTTAAA -TTAAA TTCAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA
* * * *
8258506 TTCAAA -TTAAA -TTAAA TTTAAA -ATAAA TTTAAA ATTAAA -ATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
8258550 TTTAAA ATTAAA
1 TTTAAA TTTAAA
8258562 ATAAATTTCA
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
3 2 0.03
5 23 0.29
6 49 0.62
7 5 0.06
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:8258499 original size:11 final size:11
Alignment explanation
Indices: 8258461--8258569 Score: 91
Period size: 11 Copynumber: 9.7 Consensus size: 11
8258451 TTGGACCTTT
8258461 TTAAATTTAAA
1 TTAAATTTAAA
8258472 TTTACAA--TAATA
1 -TTA-AATTTAA-A
8258484 TTAAATTTAAA
1 TTAAATTTAAA
*
8258495 TTAAATTCAAA
1 TTAAATTTAAA
8258506 TTCAAA-TTAAA
1 TT-AAATTTAAA
8258517 TTAAATTTAAA
1 TTAAATTTAAA
*
8258528 ATAAATTTAAAA
1 TTAAATTT-AAA
*
8258540 TTAAA-ATAAA
1 TTAAATTTAAA
*
8258550 TTTAAAATTAAA
1 -TTAAATTTAAA
*
8258562 ATAAATTT
1 TTAAATTT
8258570 CATTTCAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
10 8 0.10
11 49 0.61
12 21 0.26
13 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:8258580 original size:17 final size:17
Alignment explanation
Indices: 8258462--8258569 Score: 114
Period size: 17 Copynumber: 6.4 Consensus size: 17
8258452 TGGACCTTTT
* *
8258462 TAAATTTAAATTTACAA
1 TAAATTTAAAATTAAAA
* *
8258479 T-AATATTAAATTTAAAT
1 TAAAT-TTAAAATTAAAA
* *
8258496 TAAA-TTCAAATTCAAAT
1 TAAATTTAAAATT-AAAA
*
8258513 TAAA-TTAAATTTAAAA
1 TAAATTTAAAATTAAAA
8258529 TAAATTTAAAATTAAAA
1 TAAATTTAAAATTAAAA
8258546 TAAATTTAAAATTAAAA
1 TAAATTTAAAATTAAAA
8258563 TAAATTT
1 TAAATTT
8258570 CATTTCAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
16 16 0.20
17 61 0.77
18 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTAAAATTAAAA
Found at i:8262290 original size:31 final size:32
Alignment explanation
Indices: 8262237--8262296 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
8262227 TGTATTTATT
*
8262237 TTTTAATGTATATAATTAAATCAAAATTAAAG
1 TTTTAATGTATACAATTAAATCAAAATTAAAG
* * *
8262269 TTTTAA-GTATACATTTGAATCACAATTA
1 TTTTAATGTATACAATTAAATCAAAATTA
8262297 GAACTTCACG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 18 0.75
32 6 0.25
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (32 bp):
TTTTAATGTATACAATTAAATCAAAATTAAAG
Found at i:8262372 original size:29 final size:27
Alignment explanation
Indices: 8262307--8262372 Score: 62
Period size: 31 Copynumber: 2.3 Consensus size: 27
8262297 GAACTTCACG
*
8262307 TGTATAATTGCACTAAATTAAAACTTA
1 TGTATAATTACACTAAATTAAAACTTA
*
8262334 TGTATTTAATTACACATTAAATTAATA-TTCA
1 TGTA--TAATTACAC--TAAATTAAAACTT-A
8262365 TGTATAAT
1 TGTATAAT
8262373 ATTGAGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
27 4 0.12
29 12 0.38
30 2 0.06
31 14 0.44
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (27 bp):
TGTATAATTACACTAAATTAAAACTTA
Found at i:8262631 original size:21 final size:20
Alignment explanation
Indices: 8262589--8262631 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
8262579 GATTAAGTTT
**
8262589 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATAGAAA
*
8262609 ATTTAAATTTAAAAATAGAAA
1 ATTTAAA-ATAAAAATAGAAA
8262630 AT
1 AT
8262632 AATATTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
ATTTAAAATAAAAATAGAAA
Found at i:8262969 original size:22 final size:23
Alignment explanation
Indices: 8262944--8263000 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
8262934 GTTTAAAATT
* *
8262944 ATATATTTTAT-AATTTATAAAC
1 ATATATTTTATAAAGTTATAAAA
*
8262966 ATAT-TTTTTTAAAGTTATAAAA
1 ATATATTTTATAAAGTTATAAAA
*
8262988 AAATATTTT-TAAA
1 ATATATTTTATAAA
8263001 TATTCTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 20 0.69
23 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATATTTTATAAAGTTATAAAA
Found at i:8262996 original size:23 final size:24
Alignment explanation
Indices: 8262919--8262997 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 24
8262909 TTTGAAATTT
*
8262919 AAATACTTTTTAGAAGTT-TAAAA
1 AAATATTTTTTAGAAGTTATAAAA
** * * * *
8262942 TTATATATTTTATAATTTATAAAC
1 AAATATTTTTTAGAAGTTATAAAA
*
8262966 ATAT-TTTTTTA-AAGTTATAAAA
1 AAATATTTTTTAGAAGTTATAAAA
8262988 AAATATTTTT
1 AAATATTTTT
8262998 AAATATTCTT
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
22 12 0.29
23 23 0.55
24 7 0.17
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (24 bp):
AAATATTTTTTAGAAGTTATAAAA
Found at i:8268987 original size:19 final size:19
Alignment explanation
Indices: 8268953--8268994 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
8268943 AAAAAAATAA
8268953 AAAAAAGTATAAAAATTATT
1 AAAAAAGTATAAAAATTA-T
*
8268973 AAAAAGGTAT-AAAATTAT
1 AAAAAAGTATAAAAATTAT
8268991 AAAA
1 AAAA
8268995 TTATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (19 bp):
AAAAAAGTATAAAAATTAT
Found at i:8271102 original size:41 final size:41
Alignment explanation
Indices: 8271045--8271127 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
8271035 GACTAATCGG
8271045 GTTTCTTGTGGAATTTATTTATTTTATAGTAATATGCAGAT
1 GTTTCTTGTGGAATTTATTTATTTTATAGTAATATGCAGAT
8271086 GTTTCTTGTGGAATTTATTTATTTTATAGTAATATGCAGAT
1 GTTTCTTGTGGAATTTATTTATTTTATAGTAATATGCAGAT
8271127 G
1 G
8271128 CTACGTTATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.51
Consensus pattern (41 bp):
GTTTCTTGTGGAATTTATTTATTTTATAGTAATATGCAGAT
Found at i:8272058 original size:25 final size:26
Alignment explanation
Indices: 8272030--8272084 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 26
8272020 CTTATTTCTC
8272030 ATATT-AAAAAAGTTATCTAAGATTG
1 ATATTAAAAAAAGTTATCTAAGATTG
8272055 ATATTAAAAAAAAAAGTTATCTAAGATTG
1 ATATT---AAAAAAAGTTATCTAAGATTG
8272084 A
1 A
8272085 ACTTAGCTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 5 0.19
29 21 0.81
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.33
Consensus pattern (26 bp):
ATATTAAAAAAAGTTATCTAAGATTG
Found at i:8272842 original size:6 final size:6
Alignment explanation
Indices: 8272831--8272916 Score: 85
Period size: 6 Copynumber: 15.0 Consensus size: 6
8272821 GGCCCAACAG
* *
8272831 AATTTA AATTT- ATTTTA AATTTA AATTT- -ATTAGA AATTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT-TA AATTTA AATTTA
*
8272876 ATTTTA AATTTA AATTT- -ATTATA AATTTA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATT-TA AATTTA AATTTA AATTTA
8272917 TTTAAATAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
4 6 0.09
5 9 0.14
6 45 0.68
7 6 0.09
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:8272853 original size:17 final size:17
Alignment explanation
Indices: 8272831--8272910 Score: 133
Period size: 17 Copynumber: 4.7 Consensus size: 17
8272821 GGCCCAACAG
*
8272831 AATTTAAATTTATTTTA
1 AATTTAAATTTATTATA
*
8272848 AATTTAAATTTATTAGA
1 AATTTAAATTTATTATA
*
8272865 AATTTAAATTTATTTTA
1 AATTTAAATTTATTATA
8272882 AATTTAAATTTATTATA
1 AATTTAAATTTATTATA
8272899 AATTTAAATTTA
1 AATTTAAATTTA
8272911 AATTTATTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 58 1.00
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (17 bp):
AATTTAAATTTATTATA
Found at i:8272870 original size:34 final size:34
Alignment explanation
Indices: 8272831--8272910 Score: 151
Period size: 34 Copynumber: 2.4 Consensus size: 34
8272821 GGCCCAACAG
8272831 AATTTAAATTTATTTTAAATTTAAATTTATTAGA
1 AATTTAAATTTATTTTAAATTTAAATTTATTAGA
*
8272865 AATTTAAATTTATTTTAAATTTAAATTTATTATA
1 AATTTAAATTTATTTTAAATTTAAATTTATTAGA
8272899 AATTTAAATTTA
1 AATTTAAATTTA
8272911 AATTTATTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (34 bp):
AATTTAAATTTATTTTAAATTTAAATTTATTAGA
Found at i:8272917 original size:23 final size:22
Alignment explanation
Indices: 8272844--8272923 Score: 53
Period size: 23 Copynumber: 3.6 Consensus size: 22
8272834 TTAAATTTAT
*
8272844 TTTAAATTTAAATTTATTAGAAA
1 TTTAAATTTAAATTTATT-TAAA
*
8272867 TTTAAATTT-ATTTTAAATTTAAA
1 TTTAAATTTAAATTT--ATTTAAA
8272890 TTT--ATTATAAATTTAAATTTAAA
1 TTTAAATT-TAAATTT--ATTTAAA
8272913 TTT--ATTTAAAT
1 TTTAAATTTAAAT
8272924 AATGTCCAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
21 3 0.06
22 10 0.20
23 34 0.68
24 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (22 bp):
TTTAAATTTAAATTTATTTAAA
Found at i:8272945 original size:13 final size:13
Alignment explanation
Indices: 8272927--8272952 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8272917 TTTAAATAAT
8272927 GTCCAATTACAAA
1 GTCCAATTACAAA
8272940 GTCCAATTACAAA
1 GTCCAATTACAAA
8272953 TTGGGGCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
GTCCAATTACAAA
Found at i:8274572 original size:30 final size:30
Alignment explanation
Indices: 8274536--8274988 Score: 208
Period size: 30 Copynumber: 15.3 Consensus size: 30
8274526 AAAATCATAT
8274536 TTTTAACCCCTAAACTTTCCAAAAATTACA
1 TTTTAACCCCTAAACTTTCCAAAAATTACA
* * *
8274566 TTTTAACCCCTAAACTTTTCAAAAATCAGA
1 TTTTAACCCCTAAACTTTCCAAAAATTACA
* * **** *
8274596 TTTTTAA-CCTTGAA-TTTTTTGAAATTCCA
1 -TTTTAACCCCTAAACTTTCCAAAAATTACA
*
8274625 TTTTTAA-CCCTAAACTTTCC-AAAATTCCA
1 -TTTTAACCCCTAAACTTTCCAAAAATTACA
* * *
8274654 TTTTTTGA-CCCTGAACTTTCCAAAAATTACT
1 --TTTTAACCCCTAAACTTTCCAAAAATTACA
* * * * *
8274685 TTTTTACCCTTAAA-TTTTCTAAAATTTCA
1 TTTTAACCCCTAAACTTTCCAAAAATTACA
*
8274714 TTTTTAA-CCCTAAACTTTCCAAAAATTTCA
1 -TTTTAACCCCTAAACTTTCCAAAAATTACA
* *
8274744 TTTT-ACCCCTAAATTTTCC-AAAATTTCA
1 TTTTAACCCCTAAACTTTCCAAAAATTACA
* *
8274772 TTTTTAA-CCCTAAACCTTCAAAAAATTACCA
1 -TTTTAACCCCTAAACTTTCCAAAAATTA-CA
* ** * * *
8274803 CTTT-A-CCCTCGACTATCTAAAAATTTCA
1 TTTTAACCCCTAAACTTTCCAAAAATTACA
* * *
8274831 TTTTTAACCTCAAAAC-TTCTAAAAATTACCA
1 -TTTTAACCCCTAAACTTTCCAAAAATTA-CA
* * *
8274862 -TTT-ACCCCCAAA-TATCCAAAAATTCCA
1 TTTTAACCCCTAAACTTTCCAAAAATTACA
* * * *
8274889 TTTTTAACCTCGAAA-ATTCTAAAAATTACCA
1 -TTTTAACCCCTAAACTTTCCAAAAATTA-CA
** * *
8274920 TTTT-ACCCCCGAA-TATCCAAAAATTCCA
1 TTTTAACCCCTAAACTTTCCAAAAATTACA
* * * *
8274948 TTTTCGACCTC-AAAATTTCTAAAAATTACCA
1 TTTT-AACCCCTAAACTTTCCAAAAATTA-CA
*
8274979 TTTTACCCCC
1 TTTTAACCCC
8274989 GAATGTCTAA
Statistics
Matches: 322, Mismatches: 76, Indels: 50
0.72 0.17 0.11
Matches are distributed among these distances:
27 2 0.01
28 34 0.11
29 123 0.38
30 134 0.42
31 29 0.09
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (30 bp):
TTTTAACCCCTAAACTTTCCAAAAATTACA
Found at i:8274648 original size:89 final size:88
Alignment explanation
Indices: 8274534--8274785 Score: 294
Period size: 89 Copynumber: 2.8 Consensus size: 88
8274524 TAAAAATCAT
*
8274534 ATTTTTAACCCCTAAACTTTCCAAAAATTACATTTTAACCCCTAAACTTTTCAAAAATCAGATTT
1 ATTTTTAA-CCCTAAACTTTCCAAAAATTACATTTT-ACCCCTAAACTTTTCAAAAATCACATTT
* * *
8274599 TTAACCTTGAATTTTTTGAAATTCC
64 TTAACCTTAAATTTTCTAAAATTCC
* * * * *
8274624 ATTTTTAACCCTAAACTTTCC-AAAATTCCATTTTTTGA-CCCTGAACTTTCCAAAAATTACTTT
1 ATTTTTAACCCTAAACTTTCCAAAAATTACA--TTTT-ACCCCTAAACTTTTCAAAAATCACATT
* *
8274687 TTTACCCTTAAATTTTCTAAAATTTC
63 TTTAACCTTAAATTTTCTAAAATTCC
* * **
8274713 ATTTTTAACCCTAAACTTTCCAAAAATTTCATTTTACCCCTAAA-TTTTCCAAAATTTCATTTTT
1 ATTTTTAACCCTAAACTTTCCAAAAATTACATTTTACCCCTAAACTTTTCAAAAATCACATTTTT
*
8274777 AACCCTAAA
66 AACCTTAAA
8274786 CCTTCAAAAA
Statistics
Matches: 138, Mismatches: 20, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
87 24 0.17
88 18 0.13
89 75 0.54
90 21 0.15
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.42
Consensus pattern (88 bp):
ATTTTTAACCCTAAACTTTCCAAAAATTACATTTTACCCCTAAACTTTTCAAAAATCACATTTTT
AACCTTAAATTTTCTAAAATTCC
Found at i:8274649 original size:29 final size:29
Alignment explanation
Indices: 8274534--8274897 Score: 224
Period size: 29 Copynumber: 12.3 Consensus size: 29
8274524 TAAAAATCAT
*
8274534 ATTTTTAACCCCTAAACTTTCCAAAAATTAC
1 ATTTTTAA-CCCTAAACTTTCC-AAAATTCC
* * *
8274565 A-TTTTAACCCCTAAACTTTTCAAAAATCAG
1 ATTTTTAA-CCCTAAACTTTCCAAAATTC-C
* * * ***
8274595 ATTTTTAACCTTGAATTTTTTGAAATTCC
1 ATTTTTAACCCTAAACTTTCCAAAATTCC
8274624 ATTTTTAACCCTAAACTTTCCAAAATTCC
1 ATTTTTAACCCTAAACTTTCCAAAATTCC
* * *
8274653 ATTTTTTGACCCTGAACTTTCCAAAAATTAC
1 A-TTTTTAACCCTAAACTTTCC-AAAATTCC
* * * *
8274684 -TTTTTTACCCTTAAATTTTCTAAAATTTC
1 ATTTTTAACCC-TAAACTTTCCAAAATTCC
*
8274713 ATTTTTAACCCTAAACTTTCCAAAAATTTC
1 ATTTTTAACCCTAAACTTTCC-AAAATTCC
* * *
8274743 A-TTTTACCCCTAAATTTTCCAAAATTTC
1 ATTTTTAACCCTAAACTTTCCAAAATTCC
* *
8274771 ATTTTTAACCCTAAACCTTCAAAAAATTACC
1 ATTTTTAACCCTAAACTTTC-CAAAATT-CC
* ** * * *
8274802 A-CTTT-ACCCTCGACTATCTAAAAATTTC
1 ATTTTTAACCCTAAACTTTC-CAAAATTCC
* *
8274830 ATTTTTAACCTCAAAAC-TTCTAAAAATTACC
1 ATTTTTAACC-CTAAACTTTC-CAAAATT-CC
* * *
8274861 A--TTTACCCCCAAA-TATCCAAAAATTCC
1 ATTTTTAACCCTAAACTTTCC-AAAATTCC
8274888 ATTTTTAACC
1 ATTTTTAACC
8274898 TCGAAAATTC
Statistics
Matches: 262, Mismatches: 53, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
27 3 0.01
28 23 0.09
29 116 0.44
30 99 0.38
31 21 0.08
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (29 bp):
ATTTTTAACCCTAAACTTTCCAAAATTCC
Found at i:8274688 original size:59 final size:58
Alignment explanation
Indices: 8274534--8274924 Score: 292
Period size: 59 Copynumber: 6.6 Consensus size: 58
8274524 TAAAAATCAT
* *
8274534 ATTTTTAACCCCTAAACTTTCCAAAAATTACATTTTAACCCCTAAACTTTTCAAAA-ATC
1 ATTTTTAA-CCCTAAACTTTCCAAAAATTACATTTTAA-CCCTAAACTTTCCAAAATTTC
* * **** * *
8274593 AGATTTTTAACCTTGAA-TTTTTTGAAATTCCATTTTTAACCCTAAACTTTCCAAAATTCC
1 --ATTTTTAACCCTAAACTTTCCAAAAATTACA-TTTTAACCCTAAACTTTCCAAAATTTC
* * * * * *
8274653 ATTTTTTGACCCTGAACTTTCCAAAAATTACTTTTTTACCCTTAAATTTTCTAAAATTTC
1 A-TTTTTAACCCTAAACTTTCCAAAAATTACATTTTAACCC-TAAACTTTCCAAAATTTC
* * *
8274713 ATTTTTAACCCTAAACTTTCCAAAAATTTCATTTTACCCCTAAATTTTCCAAAATTTC
1 ATTTTTAACCCTAAACTTTCCAAAAATTACATTTTAACCCTAAACTTTCCAAAATTTC
* * * ** * *
8274771 ATTTTTAACCCTAAACCTTCAAAAAATTACCACTTT-ACCCTCGACTATCTAAAAATTTC
1 ATTTTTAACCCTAAACTTTCCAAAAATTA-CATTTTAACCCTAAACTTTC-CAAAATTTC
* * * * * *
8274830 ATTTTTAACCTCAAAAC-TTCTAAAAATTACCA-TTTACCCCCAAA-TATCCAAAAATTCC
1 ATTTTTAACC-CTAAACTTTCCAAAAATTA-CATTTTAACCCTAAACTTTCC-AAAATTTC
* * *
8274888 ATTTTTAACCTCGAAA-ATTCTAAAAATTACCATTTTA
1 ATTTTTAACC-CTAAACTTTCCAAAAATTA-CATTTTA
8274925 CCCCCGAATA
Statistics
Matches: 270, Mismatches: 48, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
58 96 0.36
59 124 0.46
60 42 0.16
61 8 0.03
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (58 bp):
ATTTTTAACCCTAAACTTTCCAAAAATTACATTTTAACCCTAAACTTTCCAAAATTTC
Found at i:8274834 original size:117 final size:117
Alignment explanation
Indices: 8274617--8275071 Score: 386
Period size: 117 Copynumber: 3.9 Consensus size: 117
8274607 GAATTTTTTG
* * * * *
8274617 AAATT-CCATTTTTAACCCTAAACTTTCCAAAATTCCATTTTTTGACCCTGAACTTTCCAAAAAT
1 AAATTACCA-TTTTACCCCTAAA-TTTCCAAAATTCCA-TTTTTAACCCTAAACATTCAAAAAAT
** ** * *
8274681 TACTTTTTTACCCTTAAATTTTCT-AAAATTTCATTTTTAACCCTAAACTTTCCAA
63 TACCATTTTACCCTCGAA-TATCTAAAAATTTCATTTTTAACCCTAAACTTTCTAA
* * *
8274736 AAATT-TCATTTTACCCCTAAATTTTCCAAAATTTCATTTTTAACCCTAAACCTTCAAAAAATTA
1 AAATTACCATTTTACCCCTAAA-TTTCCAAAATTCCATTTTTAACCCTAAACATTCAAAAAATTA
* * *
8274800 CCACTTTACCCTCGACTATCTAAAAATTTCATTTTTAACCTCAAAAC-TTCTAA
65 CCATTTTACCCTCGAATATCTAAAAATTTCATTTTTAACC-CTAAACTTTCTAA
* * * *
8274853 AAATTACCA-TTTACCCCCAAATATCCAAAAATTCCATTTTTAACCTCGAAA-ATTCTAAAAATT
1 AAATTACCATTTTACCCCTAAATTTCC-AAAATTCCATTTTTAACC-CTAAACATTCAAAAAATT
* * * ** *
8274916 ACCATTTTACCCCCGAATATCCAAAAATTCCATTTTCGA-CCTCAAAATTTCTAA
64 ACCATTTTACCCTCGAATATCTAAAAATTTCATTTTTAACCCT-AAACTTTCTAA
** * * * * * * *
8274970 AAATTACCATTTTACCCCCGAATGTCTAAAAATTTCATTTTTGACCCTGAA-ATTCCTAAAAATC
1 AAATTACCATTTTACCCCTAAATTTC-CAAAATTCCATTTTTAACCCTAAACATT-CAAAAAATT
* * * *
8275034 ACCATTTCACCCTCGAATGTCCACAAAATTACATTTTT
64 ACCATTTTACCCTCGAATATCTA-AAAATTTCATTTTT
8275072 TCCCTCGAGT
Statistics
Matches: 279, Mismatches: 46, Indels: 22
0.80 0.13 0.06
Matches are distributed among these distances:
115 1 0.00
116 12 0.04
117 153 0.55
118 94 0.34
119 19 0.07
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (117 bp):
AAATTACCATTTTACCCCTAAATTTCCAAAATTCCATTTTTAACCCTAAACATTCAAAAAATTAC
CATTTTACCCTCGAATATCTAAAAATTTCATTTTTAACCCTAAACTTTCTAA
Found at i:8274958 original size:59 final size:59
Alignment explanation
Indices: 8274705--8275071 Score: 354
Period size: 59 Copynumber: 6.2 Consensus size: 59
8274695 TAAATTTTCT
* * * * ** *
8274705 AAAATTTCATTTTTAACC-CTAAACTTTCCAAAAATT-TCATTTTACCCCTAAATTTTCC-
1 AAAATTCCATTTTTAACCTCAAAAC-TTCTAAAAATTACCATTTTACCCCCGAA-TATCCA
* * * * * * *
8274763 AAAATTTCATTTTTAACC-CTAAACCTTCAAAAAATTACCACTTTACCCTCGACTATCTA
1 AAAATTCCATTTTTAACCTC-AAAACTTCTAAAAATTACCATTTTACCCCCGAATATCCA
* *
8274822 AAAATTTCATTTTTAACCTCAAAACTTCTAAAAATTACCA-TTTACCCCCAAATATCCA
1 AAAATTCCATTTTTAACCTCAAAACTTCTAAAAATTACCATTTTACCCCCGAATATCCA
8274880 AAAATTCCATTTTTAACCTCGAAAA-TTCTAAAAATTACCATTTTACCCCCGAATATCCA
1 AAAATTCCATTTTTAACCTC-AAAACTTCTAAAAATTACCATTTTACCCCCGAATATCCA
** * * *
8274939 AAAATTCCATTTTCGACCTCAAAATTTCTAAAAATTACCATTTTACCCCCGAATGTCTA
1 AAAATTCCATTTTTAACCTCAAAACTTCTAAAAATTACCATTTTACCCCCGAATATCCA
* * * * * * *
8274998 AAAATTTCATTTTTGACC-CTGAAA-TTCCTAAAAATCACCATTTCACCCTCGAATGTCCA
1 AAAATTCCATTTTTAACCTC-AAAACTT-CTAAAAATTACCATTTTACCCCCGAATATCCA
*
8275057 CAAAATTACATTTTT
1 -AAAATTCCATTTTT
8275072 TCCCTCGAGT
Statistics
Matches: 268, Mismatches: 31, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
58 87 0.32
59 167 0.62
60 14 0.05
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCTCAAAACTTCTAAAAATTACCATTTTACCCCCGAATATCCA
Found at i:8275062 original size:30 final size:29
Alignment explanation
Indices: 8274792--8275129 Score: 196
Period size: 29 Copynumber: 11.5 Consensus size: 29
8274782 TAAACCTTCA
* * * *
8274792 AAAAATTACCACTTTACCCTCGACTATCT
1 AAAAATTACCATTTTACCCTCGAATGTCC
* * * *
8274821 AAAAATT-TCATTTTTAACCTCAAAACT-TCT
1 AAAAATTACCA-TTTTACCCTC-GAA-TGTCC
* * *
8274851 AAAAATTACCA-TTTACCCCCAAATATCC
1 AAAAATTACCATTTTACCCTCGAATGTCC
* *
8274879 AAAAATT-CCATTTTTAACCTCGAAAAT-TCT
1 AAAAATTACCA-TTTTACCCTCG--AATGTCC
* *
8274909 AAAAATTACCATTTTACCCCCGAATATCC
1 AAAAATTACCATTTTACCCTCGAATGTCC
* * *
8274938 AAAAATT-CCATTTT-CGACCTCAAAATTTCT
1 AAAAATTACCATTTTAC--CCTC-GAATGTCC
* *
8274968 AAAAATTACCATTTTACCCCCGAATGTCT
1 AAAAATTACCATTTTACCCTCGAATGTCC
*
8274997 AAAAATT-TCATTTTTGACCCT-GAAAT-TCC
1 AAAAATTACCA-TTTT-ACCCTCG-AATGTCC
* *
8275026 TAAAAATCACCATTTCACCCTCGAATGTCC
1 -AAAAATTACCATTTTACCCTCGAATGTCC
* *
8275056 ACAAAATTA-CATTTTTTCCCTCGAGTGTCC
1 A-AAAATTACCA-TTTTACCCTCGAATGTCC
* *
8275086 AAAAATTACCATTTTGCCCTCGAAGTGTTC
1 AAAAATTACCATTTTACCCTCGAA-TGTCC
*
8275116 -AAAATTACCGTTTT
1 AAAAATTACCATTTT
8275130 GCCCCCGGGC
Statistics
Matches: 245, Mismatches: 37, Indels: 54
0.73 0.11 0.16
Matches are distributed among these distances:
27 5 0.02
28 26 0.11
29 103 0.42
30 92 0.38
31 18 0.07
32 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTCGAATGTCC
Found at i:8275090 original size:59 final size:59
Alignment explanation
Indices: 8274645--8275123 Score: 283
Period size: 59 Copynumber: 8.1 Consensus size: 59
8274635 TAAACTTTCC
* * ** ** * * *
8274645 AAAATTCCATTTTTTGACCCTGAACTTTCC-AAAAATTACTTTTTTACCCTTAAATTTTCT
1 AAAATTACA-TTTTTGACCCTGAA-ATTCCTAAAAATTACCATTTTACCCTCGAATGTCCA
* * * * *
8274705 AAAATTTCATTTTTAACCCT-AAACTTTCC-AAAAATT-TCATTTTACCC-CTAAATTTTCC-
1 AAAATTACATTTTTGACCCTGAAA--TTCCTAAAAATTACCATTTTACCCTC-GAA-TGTCCA
* * * * * * *
8274763 AAAATTTCATTTTTAACCCT-AAACCTT-CAAAAAATTACCACTTTACCCTCGACTATCTA
1 AAAATTACATTTTTGACCCTGAAA--TTCCTAAAAATTACCATTTTACCCTCGAATGTCCA
* * * * * *
8274822 AAAATTTCATTTTT-AACCTCAAAACTT-CTAAAAATTACCA-TTTACCCCCAAATATCCA
1 AAAATTACATTTTTGACCCT-GAAA-TTCCTAAAAATTACCATTTTACCCTCGAATGTCCA
* * * *
8274880 AAAATTCCATTTTT-AACCTCGAAAATT-CTAAAAATTACCATTTTACCCCCGAATATCCA
1 AAAATTACATTTTTGACCCT-G-AAATTCCTAAAAATTACCATTTTACCCTCGAATGTCCA
* * * * * *
8274939 AAAATTCCATTTTCGA-CCTCAAAATTTCTAAAAATTACCATTTTACCCCCGAATGTCTA
1 AAAATTACATTTTTGACCCT-GAAATTCCTAAAAATTACCATTTTACCCTCGAATGTCCA
* * *
8274998 AAAATTTCATTTTTGACCCTGAAATTCCTAAAAATCACCATTTCACCCTCGAATGTCCA
1 AAAATTACATTTTTGACCCTGAAATTCCTAAAAATTACCATTTTACCCTCGAATGTCCA
* * * *
8275057 CAAAATTACATTTTT-TCCCTCG-AGTGTCC-AAAAATTACCATTTTGCCCTCGAAGTGTTC-
1 -AAAATTACATTTTTGACCCT-GAAAT-TCCTAAAAATTACCATTTTACCCTCGAA-TGTCCA
8275116 AAAATTAC
1 AAAATTAC
8275124 CGTTTTGCCC
Statistics
Matches: 357, Mismatches: 43, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
57 1 0.00
58 114 0.32
59 205 0.57
60 37 0.10
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAATTACATTTTTGACCCTGAAATTCCTAAAAATTACCATTTTACCCTCGAATGTCCA
Found at i:8275090 original size:118 final size:118
Alignment explanation
Indices: 8274731--8275109 Score: 317
Period size: 117 Copynumber: 3.2 Consensus size: 118
8274721 CCCTAAACTT
* ** * * * * *
8274731 TCCAAAAATT-TCATTTTACCCCTAAATTTTCC-AAAATTTCATTTTTAACC-CTAAACCTTCAA
1 TCCAAAAATTACCATTTTACCCCCGAA-TATCCAAAAATTCCATTTTTAACCTCGAAA-ATTCTA
* * * * * **
8274793 AAAATTACCACTTT-ACCCTCGACTATCTAAAAATTTCATTTTTAACCTCAAAACT-
64 AAAATCACCA-TTTCACCCCCGAATATCCAAAAATTACATTTTCGACCTCAAAA-TG
* *
8274848 TCTAAAAATTACCA-TTTACCCCCAAATATCCAAAAATTCCATTTTTAACCTCGAAAATTCTAAA
1 TCCAAAAATTACCATTTTACCCCCGAATATCCAAAAATTCCATTTTTAACCTCGAAAATTCTAAA
* * * *
8274912 AATTACCATTTTACCCCCGAATATCCAAAAATTCCATTTTCGACCTCAAAATT
66 AATCACCATTTCACCCCCGAATATCCAAAAATTACATTTTCGACCTCAAAATG
* * * * *
8274965 TCTAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTTCATTTTTGACC-CTG-AAATTCCTA
1 TCCAAAAATTACCATTTTACCCCCGAATATCCAAAAATTCCATTTTTAACCTC-GAAAATT-CTA
* * *** * *
8275028 AAAATCACCATTTCACCCTCGAATGTCCACAAAATTACATTTTTTCCCTC-GAGTG
64 AAAATCACCATTTCACCCCCGAATATCCA-AAAATTACATTTTCGACCTCAAAATG
* *
8275083 TCCAAAAATTACCATTTTGCCCTCGAA
1 TCCAAAAATTACCATTTTACCCCCGAA
8275110 GTGTTCAAAA
Statistics
Matches: 220, Mismatches: 33, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
116 8 0.04
117 104 0.47
118 92 0.42
119 16 0.07
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (118 bp):
TCCAAAAATTACCATTTTACCCCCGAATATCCAAAAATTCCATTTTTAACCTCGAAAATTCTAAA
AATCACCATTTCACCCCCGAATATCCAAAAATTACATTTTCGACCTCAAAATG
Found at i:8285172 original size:3 final size:3
Alignment explanation
Indices: 8285164--8285193 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8285154 GTTAGTTCAC
8285164 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8285194 GCAGTAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8286215 original size:34 final size:34
Alignment explanation
Indices: 8286174--8286245 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
8286164 GATTATACTT
*
8286174 AATATTAAAATTTTCATAAATAATTCTTTAAAAG
1 AATATTAAAATTTTCATAAATAATTATTTAAAAG
8286208 AATATTAAAATTTTCATAAATAATTATTTAAAAG
1 AATATTAAAATTTTCATAAATAATTATTTAAAAG
8286242 AATA
1 AATA
8286246 CAGTATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (34 bp):
AATATTAAAATTTTCATAAATAATTATTTAAAAG
Found at i:8310079 original size:2 final size:2
Alignment explanation
Indices: 8310072--8310106 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8310062 TGAAGTCTTA
8310072 AC AC AC AC 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 A
8310107 TATGGAGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8327486 original size:44 final size:44
Alignment explanation
Indices: 8327421--8327509 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
8327411 GCCCAACATG
*
8327421 GATAGTTGTAAATGGACATAGATGAATGCAAATCCGTATGATCC
1 GATAGTTGTAAATGGACATAGATGAATGCAAATCCATATGATCC
*
8327465 GATAGTTGTAAATGGATATAGATGAATGCAAATCCATATGATCC
1 GATAGTTGTAAATGGACATAGATGAATGCAAATCCATATGATCC
8327509 G
1 G
8327510 TAAGATGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (44 bp):
GATAGTTGTAAATGGACATAGATGAATGCAAATCCATATGATCC
Found at i:8337221 original size:2 final size:2
Alignment explanation
Indices: 8337214--8337242 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8337204 CTTAAAGAGA
8337214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8337243 ATCGCAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8343407 original size:21 final size:21
Alignment explanation
Indices: 8343361--8343407 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
8343351 AATTACATGA
* *
8343361 AAAAAAATTTTAAAATATCAT
1 AAAATAATTTAAAAATATCAT
*
8343382 TAAATAATTTAAAAATAAT-AT
1 AAAATAATTTAAAAAT-ATCAT
8343403 AAAAT
1 AAAAT
8343408 GGCCCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATAATTTAAAAATATCAT
Found at i:8348158 original size:2 final size:2
Alignment explanation
Indices: 8348151--8348177 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8348141 ATATTTCTTT
8348151 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 T
8348178 TTAAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8348678 original size:5 final size:5
Alignment explanation
Indices: 8348668--8348701 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
8348658 AAGAATACAT
8348668 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
8348702 TTCAATTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:8356604 original size:24 final size:26
Alignment explanation
Indices: 8356572--8356622 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
8356562 TTGCGTAAAA
8356572 TTAAAA-TTTAG-TTAATTTTTTATT
1 TTAAAATTTTAGATTAATTTTTTATT
8356596 TTAAAATTTTAGTCATTAATTTTTTAT
1 TTAAAATTTTAG--ATTAATTTTTTAT
8356623 ATTTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.26
25 5 0.22
28 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (26 bp):
TTAAAATTTTAGATTAATTTTTTATT
Found at i:8367714 original size:58 final size:58
Alignment explanation
Indices: 8367652--8367776 Score: 164
Period size: 58 Copynumber: 2.2 Consensus size: 58
8367642 TTTTAATAAG
* * * *
8367652 ATTATTATTAAATAAAATTTAATAAAAATAATA-AAAATTTTAATTATA-TTTTAACATA
1 ATTATTATTAAATAAAATTTAAT-AAAATAATATAAAA-TTCAATAACATTTTTAAAATA
* *
8367710 ATTATTATTAAATATAATTTAATAAAATAATATATAATTCAATAACATTTTTAAAATA
1 ATTATTATTAAATAAAATTTAATAAAATAATATAAAATTCAATAACATTTTTAAAATA
8367768 ATTATTATT
1 ATTATTATT
8367777 GTTATTAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
57 16 0.27
58 43 0.73
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (58 bp):
ATTATTATTAAATAAAATTTAATAAAATAATATAAAATTCAATAACATTTTTAAAATA
Found at i:8367842 original size:26 final size:26
Alignment explanation
Indices: 8367786--8367842 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
8367776 TGTTATTAAA
* * *
8367786 TTTTAATAAAATTATTTTTAAATATG
1 TTTTAATAAAATTATATTAAAAGATG
*
8367812 ATTTAATAATAATTATATTAAAAGAT-
1 TTTTAATAA-AATTATATTAAAAGATG
8367838 TTTTA
1 TTTTA
8367843 TTTTTATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTTAATAAAATTATATTAAAAGATG
Found at i:8377317 original size:16 final size:16
Alignment explanation
Indices: 8377296--8377331 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8377286 ATTTTATTTT
8377296 AATAATAAATTTAAAA
1 AATAATAAATTTAAAA
* *
8377312 AATAATAATTTTAAAT
1 AATAATAAATTTAAAA
8377328 AATA
1 AATA
8377332 TTCTTCACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATAAATTTAAAA
Found at i:8377384 original size:15 final size:15
Alignment explanation
Indices: 8377350--8377420 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
8377340 ACATTATTAA
8377350 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
8377363 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
8377378 AAATATTTGTTACAATTAT
1 AAATA-TT-TT--AATAAT
*
8377397 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
8377412 AAATGTTTT
1 AAATATTTT
8377421 TTAGTATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 18 0.40
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:8377958 original size:23 final size:21
Alignment explanation
Indices: 8377931--8377976 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
8377921 TCCTAAGTAT
8377931 TAAATATTAAATTAAACGTAAAA
1 TAAATATTAAA-TAAAC-TAAAA
* *
8377954 TAAATCTTTAATAAACTAAAA
1 TAAATATTAAATAAACTAAAA
8377975 TA
1 TA
8377977 TGGGTGGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 5 0.24
23 9 0.43
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAATATTAAATAAACTAAAA
Found at i:8380405 original size:18 final size:18
Alignment explanation
Indices: 8380382--8380417 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8380372 TCACGTGTTA
8380382 ACATATAATTTTTCTTAT
1 ACATATAATTTTTCTTAT
8380400 ACATATAATTTTTCTTAT
1 ACATATAATTTTTCTTAT
8380418 CCACTCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (18 bp):
ACATATAATTTTTCTTAT
Found at i:8380798 original size:23 final size:23
Alignment explanation
Indices: 8380753--8380803 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
8380743 TACAATTTTA
*
8380753 ATAATTATATATAAAAATAAAAT
1 ATAATTATATATAAAAAGAAAAT
* * * *
8380776 GTAATTTTATATTAAAAGGAAAT
1 ATAATTATATATAAAAAGAAAAT
8380799 ATAAT
1 ATAAT
8380804 AAAAAATAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (23 bp):
ATAATTATATATAAAAAGAAAAT
Found at i:8400395 original size:25 final size:24
Alignment explanation
Indices: 8400367--8400416 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8400357 ATATTTCATT
*
8400367 TAATCACACATAATTATTGTATTTA
1 TAATCAAACAT-ATTATTGTATTTA
* *
8400392 TAATTAAACATATTATTTTATTTA
1 TAATCAAACATATTATTGTATTTA
8400416 T
1 T
8400417 TTTTATCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATCAAACATATTATTGTATTTA
Found at i:8404075 original size:27 final size:25
Alignment explanation
Indices: 8404031--8404087 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
8404021 CTTTAATTTT
8404031 AAAATAAATTAGATTTATGATAATAA
1 AAAATAAATTAGATTTATGATAA-AA
* *
8404057 ATAAATAAA-TAGTTATTATTATAAAA
1 A-AAATAAATTAGAT-TTATGATAAAA
8404083 AAAAT
1 AAAAT
8404088 TAAAAGGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 4 0.15
26 8 0.30
27 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (25 bp):
AAAATAAATTAGATTTATGATAAAA
Found at i:8414487 original size:18 final size:19
Alignment explanation
Indices: 8414447--8414490 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
8414437 ATGCTATTTA
8414447 TTTTT-AAAAAAAATATAG
1 TTTTTAAAAAAAAATATAG
* *
8414465 ATTTTAAAAAAAAAT-TAT
1 TTTTTAAAAAAAAATATAG
8414483 TTTTTAAA
1 TTTTTAAA
8414491 TATTTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TTTTTAAAAAAAAATATAG
Found at i:8414933 original size:2 final size:2
Alignment explanation
Indices: 8414926--8414955 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8414916 CCCAGTGAGA
8414926 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
8414956 TAAAAAGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8415821 original size:30 final size:31
Alignment explanation
Indices: 8415785--8415842 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
8415775 GGTGATTTAA
8415785 AAAAATTAAT-ATCTTTTTTAATAAAAATAG
1 AAAAATTAATAATCTTTTTTAATAAAAATAG
* *
8415815 AAAAATTAATAATTTTTTTTTATAAAAA
1 AAAAATTAATAATCTTTTTTAATAAAAA
8415843 ACTCATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (31 bp):
AAAAATTAATAATCTTTTTTAATAAAAATAG
Found at i:8416103 original size:21 final size:23
Alignment explanation
Indices: 8416079--8416125 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
8416069 TAAAAATTTC
*
8416079 AATAAATAAAA-AATATATTA-A
1 AATAAATAAAATAATATAATATA
*
8416100 AAT-ATTAAAATAATATAATATA
1 AATAAATAAAATAATATAATATA
8416122 AATA
1 AATA
8416126 TTTTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAAATAAAATAATATAATATA
Found at i:8416127 original size:22 final size:20
Alignment explanation
Indices: 8416085--8416127 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
8416075 TTTCAATAAA
*
8416085 TAAAAAATATATTAAAATAT
1 TAAAAAATATAATAAAATAT
8416105 TAAAATAATATAATATAAATAT
1 TAAAA-AATATAATA-AAATAT
8416127 T
1 T
8416128 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 8 0.40
22 7 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAAATATAATAAAATAT
Found at i:8426216 original size:30 final size:28
Alignment explanation
Indices: 8426153--8426216 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 28
8426143 ATATTTTATA
* *
8426153 TTTAAAATTCATTTAATATTTTTTAAAT
1 TTTAAAATTCATTAAATATTTTTAAAAT
*
8426181 ATTAAAATATCTATTAAATATTTTTAAAAT
1 TTTAAAAT-TC-ATTAAATATTTTTAAAAT
8426211 TTTAAA
1 TTTAAA
8426217 TCCAAAATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 7 0.23
29 2 0.07
30 21 0.70
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTAAAATTCATTAAATATTTTTAAAAT
Found at i:8426513 original size:16 final size:16
Alignment explanation
Indices: 8426492--8426522 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8426482 GAGTGTTTTT
*
8426492 ATTTTTTATTTTTATA
1 ATTTTTTATCTTTATA
8426508 ATTTTTTATCTTTAT
1 ATTTTTTATCTTTAT
8426523 CACTAACATG
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:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTTATCTTTATA
Found at i:8454087 original size:39 final size:39
Alignment explanation
Indices: 8454031--8454108 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
8454021 CAAGAAGAGA
8454031 TTAAGAGTTATCATTTGCAGCTTCTTTTGCATCATATTC
1 TTAAGAGTTATCATTTGCAGCTTCTTTTGCATCATATTC
*
8454070 TTAAGAGTTATCCTTTGCAGCTTCTTTTGCATCATATTC
1 TTAAGAGTTATCATTTGCAGCTTCTTTTGCATCATATTC
8454109 ATTCTGTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (39 bp):
TTAAGAGTTATCATTTGCAGCTTCTTTTGCATCATATTC
Found at i:8464215 original size:3 final size:3
Alignment explanation
Indices: 8464209--8464237 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8464199 TAATAATAAT
8464209 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
8464238 AAGGGGTGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8470426 original size:2 final size:2
Alignment explanation
Indices: 8470414--8470447 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8470404 ATGAATTACT
*
8470414 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8470448 AAATATTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8471711 original size:18 final size:17
Alignment explanation
Indices: 8471683--8471719 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
8471673 TTTTTACGAT
*
8471683 ATAATTTTATTTTTTTA
1 ATAATTTTATTTTTATA
8471700 ATAATTTATATTTTTATA
1 ATAATTT-TATTTTTATA
8471718 AT
1 AT
8471720 TTTTAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATAATTTTATTTTTATA
Found at i:8478436 original size:28 final size:28
Alignment explanation
Indices: 8478369--8478436 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
8478359 TAAATTTTGA
*
8478369 TTCAATTAATATATTTAAAAAAATTCAATT
1 TTCAAATAATA-A-TTAAAAAAATTCAATT
* * *
8478399 TTCAATTAATAATTAAAAAATTTTATATT
1 TTCAAATAATAATTAAAAAAATTCA-ATT
8478428 TT-AAATAAT
1 TTCAAATAAT
8478437 TTAATTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 17 0.50
29 6 0.18
30 11 0.32
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (28 bp):
TTCAAATAATAATTAAAAAAATTCAATT
Found at i:8489073 original size:2 final size:2
Alignment explanation
Indices: 8489068--8489095 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8489058 ATATATATAT
8489068 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8489096 GTGGGTATTC
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8494197 original size:21 final size:21
Alignment explanation
Indices: 8494173--8494234 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
8494163 CTCGCTATTA
8494173 TTATTATTATCATTTAATTTT
1 TTATTATTATCATTTAATTTT
*
8494194 TTATGATTTAT-ATTT-ATTTAT
1 TTATTA-TTATCATTTAATTT-T
* *
8494215 TTTTTATT-TC-TATAATTTT
1 TTATTATTATCATTTAATTTT
8494234 T
1 T
8494235 ATCTATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
19 5 0.15
20 10 0.30
21 14 0.42
22 4 0.12
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (21 bp):
TTATTATTATCATTTAATTTT
Found at i:8499980 original size:25 final size:25
Alignment explanation
Indices: 8499952--8500005 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
8499942 GTAAATTTCA
* * * *
8499952 AAAAAAAATTTCATTGTGAATCTAT
1 AAAAAAAACTCCACTGTGAATCTAC
8499977 AAAAAAAACTCCACTGTGAATCTAC
1 AAAAAAAACTCCACTGTGAATCTAC
8500002 AAAA
1 AAAA
8500006 TCAACATTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (25 bp):
AAAAAAAACTCCACTGTGAATCTAC
Found at i:8503849 original size:26 final size:26
Alignment explanation
Indices: 8503820--8503874 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
8503810 TTTAAATAAA
*
8503820 CAATTAATAAAATCAATTGATCAAAT
1 CAATTAACAAAATCAATTGATCAAAT
* *
8503846 CAATTAACAAAATCAGTTGATTAAAT
1 CAATTAACAAAATCAATTGATCAAAT
8503872 CAA
1 CAA
8503875 CTACTGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (26 bp):
CAATTAACAAAATCAATTGATCAAAT
Found at i:8515538 original size:2 final size:2
Alignment explanation
Indices: 8515531--8515577 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
8515521 TTCAATTTTA
8515531 AT AT AT 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 AT AT AT
8515573 AT AT A
1 AT AT A
8515578 GAAAGATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8516846 original size:24 final size:23
Alignment explanation
Indices: 8516819--8516866 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
8516809 CTATAGAATT
*
8516819 TTATATTAAAATTTAAAACTTCAA
1 TTATATTAAAAATTAAAA-TTCAA
* *
8516843 TTATTTTAAAAATTATAATTCAA
1 TTATATTAAAAATTAAAATTCAA
8516866 T
1 T
8516867 CAATATTGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (23 bp):
TTATATTAAAAATTAAAATTCAA
Found at i:8519233 original size:18 final size:18
Alignment explanation
Indices: 8519206--8519270 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
8519196 TGATGATTTT
*
8519206 AATAACTTTATATTAAAA
1 AATAATTTTATATTAAAA
**
8519224 AATAATTTTA-A-TAATTTT
1 AATAATTTTATATTAA--AA
8519242 AATAATTTTATATTTTAAAA
1 AATAATTTTATA--TTAAAA
8519262 AATAATTTT
1 AATAATTTT
8519271 TATAATTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
16 3 0.08
17 1 0.03
18 19 0.53
19 1 0.03
20 9 0.25
22 3 0.08
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAATTTTATATTAAAA
Found at i:8519241 original size:36 final size:37
Alignment explanation
Indices: 8519201--8519281 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 37
8519191 TATGATGATG
8519201 ATTTTAATAACTTTATA-TTAAAAAATAATTTTAATA
1 ATTTTAATAACTTTATATTTAAAAAATAATTTTAATA
* *
8519237 ATTTTAATAATTTTATATTTTAAAAAATAATTTTTATA
1 ATTTTAATAACTTTATA-TTTAAAAAATAATTTTAATA
8519275 ATTTTAA
1 ATTTTAA
8519282 AATCATTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 16 0.39
38 25 0.61
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (37 bp):
ATTTTAATAACTTTATATTTAAAAAATAATTTTAATA
Found at i:8519273 original size:21 final size:21
Alignment explanation
Indices: 8519218--8519283 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 21
8519208 TAACTTTATA
8519218 TTAAAAAATAATTTTAATAATT
1 TTAAAAAATAATTTT-ATAATT
8519240 TT----AATAATTTTAT-ATT
1 TTAAAAAATAATTTTATAATT
8519256 TTAAAAAATAATTTTTATAATT
1 TTAAAAAATAA-TTTTATAATT
8519278 TTAAAA
1 TTAAAA
8519284 TCATTTGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.13
17 2 0.05
18 9 0.24
20 5 0.13
21 6 0.16
22 11 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAAAAATAATTTTATAATT
Found at i:8519277 original size:9 final size:9
Alignment explanation
Indices: 8519224--8519259 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
8519214 TATATTAAAA
8519224 AATAATTTT
1 AATAATTTT
8519233 AATAATTTT
1 AATAATTTT
8519242 AATAATTTT
1 AATAATTTT
8519251 -AT-ATTTT
1 AATAATTTT
8519258 AA
1 AA
8519260 AAAATAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 5 0.19
8 3 0.12
9 18 0.69
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATAATTTT
Found at i:8519284 original size:20 final size:20
Alignment explanation
Indices: 8519222--8519289 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
8519212 TTTATATTAA
*
8519222 AAAATAATTTTAATAATTTT
1 AAAATAATTTTTATAATTTT
8519242 --AATAA-TTTTAT-ATTTT
1 AAAATAATTTTTATAATTTT
8519258 AAAAAATAATTTTTATAATTTT
1 --AAAATAATTTTTATAATTTT
*
8519280 AAAATCATTT
1 AAAATAATTT
8519290 GCTAACGTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
16 5 0.12
17 5 0.12
18 5 0.12
20 14 0.35
21 6 0.15
22 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAATAATTTTTATAATTTT
Found at i:8522521 original size:27 final size:28
Alignment explanation
Indices: 8522482--8522534 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
8522472 TTGTCACAGG
8522482 TATATATTACTAC--ATATTTTCTTTTTC
1 TATATATTACTACTGATA-TTTCTTTTTC
* *
8522509 TATATTTTGCTACTGATATTTCTTTT
1 TATATATTACTACTGATATTTCTTTT
8522535 CATTTTAGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 11 0.50
28 8 0.36
29 3 0.14
ACGTcount: A:0.23, C:0.13, G:0.04, T:0.60
Consensus pattern (28 bp):
TATATATTACTACTGATATTTCTTTTTC
Found at i:8527207 original size:29 final size:28
Alignment explanation
Indices: 8527151--8527203 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
8527141 AAGTAAGGAA
8527151 ACTAAATTATGTAAAATTAAAATATAAAT
1 ACTAAATTA-GTAAAATTAAAATATAAAT
*
8527180 ACTAAATTA-T-AAATTTAAATATAA
1 ACTAAATTAGTAAAATTAAAATATAA
8527204 TAAAAACCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 13 0.57
27 1 0.04
29 9 0.39
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (28 bp):
ACTAAATTAGTAAAATTAAAATATAAAT
Found at i:8532534 original size:2 final size:2
Alignment explanation
Indices: 8532527--8532568 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
8532517 ATAAGAAAGA
8532527 AT AT AT 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 AT AT AT
8532569 CAAAGTGAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8535961 original size:13 final size:13
Alignment explanation
Indices: 8535943--8535968 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8535933 TTAATTTTTT
8535943 AAAAAATTATATA
1 AAAAAATTATATA
8535956 AAAAAATTATATA
1 AAAAAATTATATA
8535969 TTTTGTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAAATTATATA
Found at i:8539745 original size:14 final size:15
Alignment explanation
Indices: 8539719--8539758 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
8539709 ATGGAATGAG
8539719 AATAAATTTTAATTA
1 AATAAATTTTAATTA
8539734 AATAAA-TTTAATTA
1 AATAAATTTTAATTA
*
8539748 ATTAAAATTTT
1 AAT-AAATTTT
8539759 TAAATCCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 10 0.45
15 9 0.41
16 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTTTAATTA
Found at i:8540999 original size:27 final size:27
Alignment explanation
Indices: 8540968--8541027 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
8540958 TCTTGTTATA
8540968 TTTTATCGTGCTAATGTACAATAGGTT
1 TTTTATCGTGCTAATGTACAATAGGTT
8540995 TTTTATCGTGCTAATGTACAATAGGTT
1 TTTTATCGTGCTAATGTACAATAGGTT
*
8541022 TGTTAT
1 TTTTAT
8541028 ATGTTGCTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.47
Consensus pattern (27 bp):
TTTTATCGTGCTAATGTACAATAGGTT
Found at i:8541071 original size:104 final size:104
Alignment explanation
Indices: 8540891--8541104 Score: 383
Period size: 104 Copynumber: 2.1 Consensus size: 104
8540881 TCTTGTTATA
*
8540891 TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTTACATATTTATAAATCATTACAC
1 TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTCACATATTTATAAATCATTACAC
*
8540956 ACTCTTGTTATATTTTATCGTGCTAATGTACAATAGGTT
66 ACTCTTGTTATATTTTATCGTGCTAATGTACAAAAGGTT
8540995 TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTCACATATTTATAAATCATTACAC
1 TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTCACATATTTATAAATCATTACAC
* *
8541060 ACTTTTGTTATATTTTATCGTGCTAGTGTACAAAAGGTT
66 ACTCTTGTTATATTTTATCGTGCTAATGTACAAAAGGTT
*
8541099 TGTTAT
1 TTTTAT
8541105 ATGTTGCTTT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (104 bp):
TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTCACATATTTATAAATCATTACAC
ACTCTTGTTATATTTTATCGTGCTAATGTACAAAAGGTT
Found at i:8541090 original size:77 final size:76
Alignment explanation
Indices: 8540995--8541223 Score: 336
Period size: 77 Copynumber: 3.1 Consensus size: 76
8540985 ACAATAGGTT
*
8540995 TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTCACATATTTATAAATCATTACAC
1 TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTTACATATTTATAAATCATTACAC
8541060 ACTTTTGTTATA
66 AC-TTTGTTATA
* *
8541072 TTTTATCGTGCTAGTGTACAAAAGGTTTGTTATATGTTGCTTTACATATTTAT--A-C--T----
1 TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTTACATATTTATAAATCATTACAC
8541128 -C-TTGTTATA
66 ACTTTGTTATA
8541137 TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTTACATATTTATAAATCATTACAC
1 TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTTACATATTTATAAATCATTACAC
8541202 ACTCTTGTTATA
66 ACT-TTGTTATA
8541214 TTTTATCGTG
1 TTTTATCGTG
8541224 TTAGTGGACA
Statistics
Matches: 135, Mismatches: 5, Indels: 24
0.82 0.03 0.15
Matches are distributed among these distances:
65 59 0.44
67 2 0.01
68 1 0.01
70 1 0.01
72 1 0.01
74 1 0.01
75 2 0.01
77 68 0.50
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (76 bp):
TTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTTACATATTTATAAATCATTACAC
ACTTTGTTATA
Found at i:8541168 original size:65 final size:65
Alignment explanation
Indices: 8541064--8541190 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 65
8541054 TTACACACTT
*
8541064 TTGTTATATTTTATCGTGCTAGTGTACAAAAGGTTTGTTATATGTTGCTTTACATATTTATACTC
1 TTGTTATATTTTATCGTGCTAATGTACAAAAGGTTTGTTATATGTTGCTTTACATATTTATACTC
*
8541129 TTGTTATATTTTATCGTGCTAATGTACAATAGGTTTGTTATATGTTGCTTTACATATTTATA
1 TTGTTATATTTTATCGTGCTAATGTACAAAAGGTTTGTTATATGTTGCTTTACATATTTATA
8541191 AATCATTACA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.25, C:0.09, G:0.15, T:0.50
Consensus pattern (65 bp):
TTGTTATATTTTATCGTGCTAATGTACAAAAGGTTTGTTATATGTTGCTTTACATATTTATACTC
Found at i:8543504 original size:13 final size:14
Alignment explanation
Indices: 8543455--8543506 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
8543445 CAGCCACGTG
*
8543455 GCTGACGTGGCAAG
1 GCTGACGTGGCAAT
* *
8543469 GAGTGATGTGGCAAT
1 G-CTGACGTGGCAAT
8543484 GCTGACGTGGC-AT
1 GCTGACGTGGCAAT
*
8543497 GTTGACGTGG
1 GCTGACGTGG
8543507 ACGTGATGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 11 0.35
14 9 0.29
15 11 0.35
ACGTcount: A:0.19, C:0.15, G:0.42, T:0.23
Consensus pattern (14 bp):
GCTGACGTGGCAAT
Found at i:8543695 original size:18 final size:17
Alignment explanation
Indices: 8543672--8543719 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
8543662 ATTTTATTTT
8543672 AATAAATTCAAATTTAAA
1 AATAAATTCAAATTT-AA
*
8543690 AATAAATTTAAATTTAA
1 AATAAATTCAAATTTAA
8543707 AATAAATCTCAAA
1 AATAAAT-TCAAA
8543720 ATGAGTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAAATTCAAATTTAA
Found at i:8548056 original size:20 final size:21
Alignment explanation
Indices: 8548033--8548075 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
8548023 AAAACGCATA
* *
8548033 AAAAATAACATCC-AAACAAC
1 AAAAACAACAACCAAAACAAC
8548053 AAAAACAACAACCAAAACAAC
1 AAAAACAACAACCAAAACAAC
8548074 AA
1 AA
8548076 TAAAAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.70, C:0.26, G:0.00, T:0.05
Consensus pattern (21 bp):
AAAAACAACAACCAAAACAAC
Found at i:8548064 original size:12 final size:12
Alignment explanation
Indices: 8548047--8548093 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
8548037 ATAACATCCA
8548047 AACAACAAAAAC
1 AACAACAAAAAC
*
8548059 AACAACCAAAAC
1 AACAACAAAAAC
* *
8548071 AACAATAAAAAT
1 AACAACAAAAAC
*
8548083 AACAATAAAAA
1 AACAACAAAAA
8548094 ACAGCACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.74, C:0.19, G:0.00, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAC
Found at i:8548093 original size:24 final size:24
Alignment explanation
Indices: 8548047--8548117 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
8548037 ATAACATCCA
*
8548047 AACAACAAAAACAACAACCAAAAC
1 AACAACAAAAACAACAACAAAAAC
* * *
8548071 AACAATAAAAATAACAATAAAAAAC
1 AACAACAAAAACAACAA-CAAAAAC
* *
8548096 AGC-ACCAAAA-AACAA-AAAAAC
1 AACAACAAAAACAACAACAAAAAC
8548117 A
1 A
8548118 CTAAAAACAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
21 7 0.18
23 5 0.13
24 20 0.51
25 7 0.18
ACGTcount: A:0.73, C:0.21, G:0.01, T:0.04
Consensus pattern (24 bp):
AACAACAAAAACAACAACAAAAAC
Found at i:8548132 original size:20 final size:20
Alignment explanation
Indices: 8548083--8548135 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
8548073 CAATAAAAAT
*
8548083 AACAATAAAAAACAGCACCAA
1 AACAATAAAAAA-AGCACAAA
*
8548104 AA-AACAAAAAAA-CACTAAA
1 AACAATAAAAAAAGCAC-AAA
8548123 AACAATAAAAAAA
1 AACAATAAAAAAA
8548136 TAATAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 3 0.11
19 5 0.19
20 17 0.63
21 2 0.07
ACGTcount: A:0.75, C:0.17, G:0.02, T:0.06
Consensus pattern (20 bp):
AACAATAAAAAAAGCACAAA
Found at i:8560253 original size:13 final size:13
Alignment explanation
Indices: 8560215--8560303 Score: 57
Period size: 11 Copynumber: 7.2 Consensus size: 13
8560205 AAAGATTTTT
8560215 TATTATTTAATT--
1 TATTA-TTAATTAA
8560227 TATTATTAATTAA
1 TATTATTAATTAA
8560240 TATT-TTAATATAA
1 TATTATTAAT-TAA
* * *
8560253 TAATATAAATTAT
1 TATTATTAATTAA
*
8560266 TA-T-TTAATTAG
1 TATTATTAATTAA
*
8560277 TATTATT--TTAT
1 TATTATTAATTAA
*
8560288 TATTATTAACTAA
1 TATTATTAATTAA
8560301 TAT
1 TAT
8560304 ATAAAGAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
11 24 0.39
12 12 0.20
13 21 0.34
14 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (13 bp):
TATTATTAATTAA
Found at i:8560302 original size:48 final size:46
Alignment explanation
Indices: 8560214--8560308 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 46
8560204 TAAAGATTTT
8560214 TTATTATTTAATTTATTATTAATTAATATTTTAATATAATAATATAAA
1 TTATTATTTAATTTATTATT-ATTAATATTTTAATATAAT-ATATAAA
* *
8560262 TTATTATTTAATTAGTATTATT-TTATTATTATTAA-CTAATATATAAA
1 TTATTATTTAATT--TATTATTATTAATATT-TTAATATAATATATAAA
8560309 GAAAGAAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
47 7 0.17
48 24 0.57
49 4 0.10
50 7 0.17
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (46 bp):
TTATTATTTAATTTATTATTATTAATATTTTAATATAATATATAAA
Found at i:8571587 original size:28 final size:28
Alignment explanation
Indices: 8571532--8571588 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
8571522 GATCCCAAAT
* **
8571532 TTATTTTTAACTTTTAAGAGTTCAAAAA
1 TTATTTTTAACTTTTAAAAAATCAAAAA
*
8571560 TTATTTTTAACTTTTAAAAAATCTAAAA
1 TTATTTTTAACTTTTAAAAAATCAAAAA
8571588 T
1 T
8571589 CTTATTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (28 bp):
TTATTTTTAACTTTTAAAAAATCAAAAA
Found at i:8575601 original size:2 final size:2
Alignment explanation
Indices: 8575596--8575625 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8575586 TTTTCTTTTT
8575596 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8575626 AAAAGTCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8584577 original size:17 final size:17
Alignment explanation
Indices: 8584544--8584578 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8584534 TAAATGACAC
*
8584544 ATTTATTTATATATTTT
1 ATTTATTTAAATATTTT
*
8584561 ATTTATTTAAATTTTTT
1 ATTTATTTAAATATTTT
8584578 A
1 A
8584579 CTACATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTATTTAAATATTTT
Found at i:8585563 original size:23 final size:23
Alignment explanation
Indices: 8585537--8585617 Score: 117
Period size: 23 Copynumber: 3.5 Consensus size: 23
8585527 TACTGAAATA
* *
8585537 GCACCGAAAATAGTACCAAAGCT
1 GCACCAAAAACAGTACCAAAGCT
8585560 GCACCAAAAACAGTACCAAAGCT
1 GCACCAAAAACAGTACCAAAGCT
* *
8585583 ACACCAAAAACAGTACCAAATCT
1 GCACCAAAAACAGTACCAAAGCT
*
8585606 GCACAAAAAACA
1 GCACCAAAAACA
8585618 ACTTGCAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.51, C:0.28, G:0.11, T:0.10
Consensus pattern (23 bp):
GCACCAAAAACAGTACCAAAGCT
Found at i:8585970 original size:24 final size:25
Alignment explanation
Indices: 8585923--8585970 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8585913 TTATAACAAT
* *
8585923 AAAATTAAAATAATAATTAGTATTG
1 AAAATAAAAATAATAATCAGTATTG
*
8585948 AAAATAAAAATAA-AATCATTATT
1 AAAATAAAAATAATAATCAGTATT
8585971 ATAAATTCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAATAAAAATAATAATCAGTATTG
Found at i:8587375 original size:3 final size:3
Alignment explanation
Indices: 8587369--8587395 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8587359 ATCAACTTTC
8587369 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
8587396 TATATATGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:8598506 original size:2 final size:2
Alignment explanation
Indices: 8598499--8598526 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8598489 CACTAGAACT
8598499 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
8598527 TTCTATATAA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8599391 original size:18 final size:16
Alignment explanation
Indices: 8599346--8599394 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 16
8599336 AAGTGAATTT
8599346 TTAATTTAAAATATAATA
1 TTAATTT-AAAT-TAATA
8599364 TTAATGTTAAATTAATAA
1 TTAAT-TTAAATTAAT-A
8599382 TTAAATTTAAATT
1 TT-AATTTAAATT
8599395 TTAAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.14
18 19 0.68
19 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TTAATTTAAATTAATA
Found at i:8601388 original size:57 final size:57
Alignment explanation
Indices: 8601325--8601444 Score: 213
Period size: 57 Copynumber: 2.1 Consensus size: 57
8601315 CTTTAATAAA
*
8601325 TCGTTTGAGGTATTCACTTTTTAATTCGTATTAAATACTTCATATGGTTCACATTAT
1 TCGTTTGAGGCATTCACTTTTTAATTCGTATTAAATACTTCATATGGTTCACATTAT
* *
8601382 TCGTTTGAGGCATTCACTTTTTAATTCGTATTAAATACTTTATATGGTTCACATTGT
1 TCGTTTGAGGCATTCACTTTTTAATTCGTATTAAATACTTCATATGGTTCACATTAT
8601439 TCGTTT
1 TCGTTT
8601445 TAATTTTAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.48
Consensus pattern (57 bp):
TCGTTTGAGGCATTCACTTTTTAATTCGTATTAAATACTTCATATGGTTCACATTAT
Found at i:8606897 original size:14 final size:14
Alignment explanation
Indices: 8606878--8606904 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8606868 TAAAAGAAAG
8606878 GAATATTATTATAA
1 GAATATTATTATAA
8606892 GAATATTATTATA
1 GAATATTATTATA
8606905 TTTTATACTT
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:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
GAATATTATTATAA
Found at i:8609109 original size:23 final size:23
Alignment explanation
Indices: 8609082--8609139 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
8609072 CTATTTGAGT
* *
8609082 TAAAATTAAAATTTTAAAAATCA
1 TAAAATTAAAATATTAAAAATAA
8609105 TAAAATATAAAA-ATTAAAAATAA
1 TAAAAT-TAAAATATTAAAAATAA
*
8609128 TTAAATTAAAAT
1 TAAAATTAAAAT
8609140 GGAAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 20 0.67
24 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAAATTAAAATATTAAAAATAA
Found at i:8609733 original size:20 final size:21
Alignment explanation
Indices: 8609699--8609748 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
8609689 TATTTTTGAA
* *
8609699 TTTTTTTAAATAATTACATTTAT
1 TTTTTTTAAAT--TAACAATTAT
*
8609722 TTTTTTTAAATTAAGAATTAT
1 TTTTTTTAAATTAACAATTAT
8609743 TTTTTT
1 TTTTTT
8609749 AATTTCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.54
23 11 0.46
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTTTAAATTAACAATTAT
Found at i:8630113 original size:24 final size:24
Alignment explanation
Indices: 8630074--8630136 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
8630064 TAGAGTAGTA
* *
8630074 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
8630098 AGAGTTTAATTGAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
8630122 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
8630137 AATTATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:8632172 original size:5 final size:5
Alignment explanation
Indices: 8632162--8632196 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
8632152 TCTATTGAAA
8632162 GCCCT GCCCT GCCCT GCCCT GCCCT GCCCT GCCCT
1 GCCCT GCCCT GCCCT GCCCT GCCCT GCCCT GCCCT
8632197 TCTCCCTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.60, G:0.20, T:0.20
Consensus pattern (5 bp):
GCCCT
Found at i:8633044 original size:15 final size:14
Alignment explanation
Indices: 8632992--8633075 Score: 66
Period size: 15 Copynumber: 5.9 Consensus size: 14
8632982 CCATTACTCC
8632992 CATCCCCACCACCTT
1 CATCCCCACCACC-T
*
8633007 CATCACCACC-CC-
1 CATCCCCACCACCT
*
8633019 C-TCCCCTCCACCT
1 CATCCCCACCACCT
*
8633032 CAATCCCCACCACCA
1 C-ATCCCCACCACCT
* *
8633047 CCTCCACCTCCACCT
1 CATCC-CCACCACCT
8633062 CAATCCCCACCACC
1 C-ATCCCCACCACC
8633076 ACCTCCACCT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
11 6 0.11
12 3 0.06
13 1 0.02
14 5 0.09
15 35 0.66
16 3 0.06
ACGTcount: A:0.21, C:0.64, G:0.00, T:0.14
Consensus pattern (14 bp):
CATCCCCACCACCT
Found at i:8633055 original size:24 final size:24
Alignment explanation
Indices: 8633044--8633108 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
8633034 ATCCCCACCA
*
8633044 CCACCTCCACCTCCACCTCAATCC
1 CCACCACCACCTCCACCTCAATCC
8633068 CCACCACCACCTCCACCTCAATCC
1 CCACCACCACCTCCACCTCAATCC
8633092 CCACCACCACCTCCACC
1 CCACCACCACCTCCACC
8633109 GTTAGTGCCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.23, C:0.65, G:0.00, T:0.12
Consensus pattern (24 bp):
CCACCACCACCTCCACCTCAATCC
Found at i:8633059 original size:30 final size:30
Alignment explanation
Indices: 8633010--8633108 Score: 140
Period size: 30 Copynumber: 3.5 Consensus size: 30
8633000 CCACCTTCAT
*
8633010 CACCACCCCCTCC-CCTCCACCTCAATCCC
1 CACCACCACCTCCACCTCCACCTCAATCCC
8633039 CACCACCACCTCCACCTCCACCTCAAT--C
1 CACCACCACCTCCACCTCCACCTCAATCCC
8633067 C-CCACCA---CCACCTCCACCTCAATCCC
1 CACCACCACCTCCACCTCCACCTCAATCCC
8633093 CACCACCACCTCCACC
1 CACCACCACCTCCACC
8633109 GTTAGTGCCT
Statistics
Matches: 62, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
24 16 0.26
26 2 0.03
27 12 0.19
28 2 0.03
29 12 0.19
30 18 0.29
ACGTcount: A:0.22, C:0.66, G:0.00, T:0.12
Consensus pattern (30 bp):
CACCACCACCTCCACCTCCACCTCAATCCC
Found at i:8633147 original size:24 final size:25
Alignment explanation
Indices: 8633026--8633148 Score: 83
Period size: 24 Copynumber: 4.9 Consensus size: 25
8633016 CCCCTCCCCT
8633026 CCACC-TCAATCCCCACCACCACCTCCA
1 CCACCATCAATCCCCACCACCA---CCA
* *
8633053 CCTCCACCTCAATCCCCACCACCACCT
1 CCACCA--TCAATCCCCACCACCACCA
*
8633080 CCACC-TCAATCCCCACCACCACCT
1 CCACCATCAATCCCCACCACCACCA
* * * * **
8633104 CCACCGTTAGT-GCCTTCACCACCA
1 CCACCATCAATCCCCACCACCACCA
*
8633128 CCGCCATCAAT-CCCACCACCA
1 CCACCATCAATCCCCACCACCA
8633149 AGCACGCCAT
Statistics
Matches: 76, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
24 47 0.62
25 3 0.04
27 10 0.13
30 16 0.21
ACGTcount: A:0.24, C:0.59, G:0.03, T:0.14
Consensus pattern (25 bp):
CCACCATCAATCCCCACCACCACCA
Found at i:8645793 original size:7 final size:7
Alignment explanation
Indices: 8645781--8645807 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8645771 AAGGGACTTG
8645781 AATATCA
1 AATATCA
8645788 AATATCA
1 AATATCA
8645795 AATATCA
1 AATATCA
8645802 AATATC
1 AATATC
8645808 CAAAAACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (7 bp):
AATATCA
Found at i:8650700 original size:26 final size:23
Alignment explanation
Indices: 8650655--8650704 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 23
8650645 ACTTCACATG
8650655 AATAAAAAATACTACTAATATCA
1 AATAAAAAATACTACTAATATCA
*
8650678 AATAATAAAAGTACTATTAAATATCA
1 AATAA-AAAA-TACTACT-AATATCA
8650704 A
1 A
8650705 CAAAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 4 0.17
25 6 0.26
26 8 0.35
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.28
Consensus pattern (23 bp):
AATAAAAAATACTACTAATATCA
Found at i:8651909 original size:11 final size:11
Alignment explanation
Indices: 8651892--8651922 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8651882 ATTAAAATAG
8651892 CAACAAAAAAA
1 CAACAAAAAAA
*
8651903 CAGCAAAAAAA
1 CAACAAAAAAA
8651914 CAACAAAAA
1 CAACAAAAA
8651923 TAGCAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.77, C:0.19, G:0.03, T:0.00
Consensus pattern (11 bp):
CAACAAAAAAA
Found at i:8651916 original size:34 final size:34
Alignment explanation
Indices: 8651870--8651959 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 34
8651860 CATCCAAATA
* *
8651870 ACCAAAATAACAATTAAAATAGCAACAAAAAAAC
1 ACCAAAAAAACAATAAAAATAGCAACAAAAAAAC
* * * * *
8651904 AGCAAAAAAACAACAAAAATAGCAATAAAACAGC
1 ACCAAAAAAACAATAAAAATAGCAACAAAAAAAC
* *
8651938 ACCAAAACAACAATCAAAATAG
1 ACCAAAAAAACAATAAAAATAG
8651960 TAAAAAAGGA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.67, C:0.19, G:0.06, T:0.09
Consensus pattern (34 bp):
ACCAAAAAAACAATAAAAATAGCAACAAAAAAAC
Found at i:8651933 original size:22 final size:19
Alignment explanation
Indices: 8651893--8651935 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
8651883 TTAAAATAGC
8651893 AACAAAAAAACAGCAAAAA
1 AACAAAAAAACAGCAAAAA
* *
8651912 AACAACAAAAATAGCAATAA
1 AACAA-AAAAACAGCAAAAA
8651932 AACA
1 AACA
8651936 GCACCAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.74, C:0.16, G:0.05, T:0.05
Consensus pattern (19 bp):
AACAAAAAAACAGCAAAAA
Found at i:8651985 original size:21 final size:19
Alignment explanation
Indices: 8651969--8652009 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 19
8651959 GTAAAAAAGG
8651969 ACCAAAACAATAAAAAACAAC
1 ACCAAAACAA-AAAAAA-AAC
8651990 ACCAAAACAAAAAAAAAAC
1 ACCAAAACAAAAAAAAAAC
8652009 A
1 A
8652010 GTAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 6 0.30
21 10 0.50
ACGTcount: A:0.76, C:0.22, G:0.00, T:0.02
Consensus pattern (19 bp):
ACCAAAACAAAAAAAAAAC
Found at i:8675318 original size:19 final size:19
Alignment explanation
Indices: 8675283--8675322 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8675273 AAATTAATTG
*
8675283 AATTAAAATTATAATAATA
1 AATTAAAATAATAATAATA
8675302 AATTCAAAATAAT-ATAATA
1 AATT-AAAATAATAATAATA
8675321 AA
1 AA
8675323 ATAATCCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTAAAATAATAATAATA
Found at i:8676959 original size:37 final size:37
Alignment explanation
Indices: 8676909--8676985 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
8676899 TGCTACTCAA
8676909 TATCAAGCATGATTAATTTAAATATTTGAGAATCTTG
1 TATCAAGCATGATTAATTTAAATATTTGAGAATCTTG
8676946 TATCAAGCATGATTAATTTAAATATTTGAGAATCTTG
1 TATCAAGCATGATTAATTTAAATATTTGAGAATCTTG
8676983 TAT
1 TAT
8676986 TAGAATGGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.42
Consensus pattern (37 bp):
TATCAAGCATGATTAATTTAAATATTTGAGAATCTTG
Found at i:8679856 original size:23 final size:23
Alignment explanation
Indices: 8679821--8679865 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8679811 TATAAATTAT
8679821 AATAAAAAGTGT-ATTTCAATATA
1 AATAAAAAGTGTAATTT-AATATA
8679844 AATATAAAA-TGTAATTTAATAT
1 AATA-AAAAGTGTAATTTAATAT
8679866 TTATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
AATAAAAAGTGTAATTTAATATA
Found at i:8689639 original size:17 final size:17
Alignment explanation
Indices: 8689619--8689653 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8689609 GTTTAATCAA
* *
8689619 TTTATTTTTTTGTAATT
1 TTTATGTTTTTGGAATT
8689636 TTTATGTTTTTGGAATT
1 TTTATGTTTTTGGAATT
8689653 T
1 T
8689654 CGAAATCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTATGTTTTTGGAATT
Found at i:8691070 original size:17 final size:17
Alignment explanation
Indices: 8691048--8691082 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8691038 AGATAATAAT
8691048 TGAATAAATTCCTTAAA
1 TGAATAAATTCCTTAAA
8691065 TGAATAAATTCCTTAAA
1 TGAATAAATTCCTTAAA
8691082 T
1 T
8691083 AAATTTACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (17 bp):
TGAATAAATTCCTTAAA
Found at i:8697349 original size:30 final size:30
Alignment explanation
Indices: 8697313--8697373 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
8697303 TTAAGAAAGA
*
8697313 TAGAATGCGCTTCAACGTGGTCTTGAATAT
1 TAGAATGCGCTCCAACGTGGTCTTGAATAT
8697343 TAGAATGCGCTCCAACGTGGTCTTGAATAT
1 TAGAATGCGCTCCAACGTGGTCTTGAATAT
8697373 T
1 T
8697374 TTCAACTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGAATGCGCTCCAACGTGGTCTTGAATAT
Found at i:8701705 original size:37 final size:37
Alignment explanation
Indices: 8701655--8701731 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
8701645 TGCTACTCAA
8701655 TATCAAGCATGATTAATTTAAATATTTGAGAATCTTG
1 TATCAAGCATGATTAATTTAAATATTTGAGAATCTTG
8701692 TATCAAGCATGATTAATTTAAATATTTGAGAATCTTG
1 TATCAAGCATGATTAATTTAAATATTTGAGAATCTTG
8701729 TAT
1 TAT
8701732 TAGAATGGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.42
Consensus pattern (37 bp):
TATCAAGCATGATTAATTTAAATATTTGAGAATCTTG
Found at i:8702776 original size:18 final size:18
Alignment explanation
Indices: 8702755--8702790 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8702745 AGCAATCCGG
*
8702755 TATGCAGACATCATCCAT
1 TATGCAGACATCAGCCAT
*
8702773 TATGCAGCCATCAGCCAT
1 TATGCAGACATCAGCCAT
8702791 GCAATCAACT
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:0.31, C:0.31, G:0.14, T:0.25
Consensus pattern (18 bp):
TATGCAGACATCAGCCAT
Found at i:8707189 original size:21 final size:21
Alignment explanation
Indices: 8707154--8707199 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8707144 CGGCAGATGC
* *
8707154 AGCATCAAATTATGCAGCAGA
1 AGCATCAAATAATGCAACAGA
* *
8707175 AGCATCAACTAATGCAACAGC
1 AGCATCAAATAATGCAACAGA
8707196 AGCA
1 AGCA
8707200 GCAGCAGCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.15
Consensus pattern (21 bp):
AGCATCAAATAATGCAACAGA
Found at i:8707197 original size:27 final size:27
Alignment explanation
Indices: 8707167--8707222 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
8707157 ATCAAATTAT
* *
8707167 GCAGCAGAAGCATCAA-CTAATGCAACA
1 GCAGCAGAAGCAGCAAGC-AAAGCAACA
*
8707194 GCAGCAGCAGCAGCAAGCAAAGCAACA
1 GCAGCAGAAGCAGCAAGCAAAGCAACA
8707221 GC
1 GC
8707223 TGCCCACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.43, C:0.29, G:0.23, T:0.05
Consensus pattern (27 bp):
GCAGCAGAAGCAGCAAGCAAAGCAACA
Found at i:8719453 original size:5 final size:5
Alignment explanation
Indices: 8719419--8719456 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
8719409 AGAGAAAAGA
* *
8719419 GAAGA GAAGT GAAGG GAAGG GAAGG GAAGG GAAGG GAA
1 GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAA
8719457 AATAATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.03
Consensus pattern (5 bp):
GAAGG
Done.