Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 28 of 255
Found at i:7546649 original size:84 final size:84
Alignment explanation
Indices: 7546504--7546657 Score: 245
Period size: 84 Copynumber: 1.8 Consensus size: 84
7546494 TGTCCACATC
* *
7546504 GACTATCTTTCAAGTAGGAGTCCACATGAACTATCTTTCAAATAGGAGTCCATATGAACTATCTT
1 GACTATCTTTCAAGTAGGAGTCCACATGAACTATCTTTCAAACAAGAGTCCATATGAACTATCTT
7546569 TCAAGTAGGAGTTCGCTTG
66 TCAAGTAGGAGTTCGCTTG
* * ** *
7546588 GACTATCTTTCAAGTATGAGTCCACATGAACTATCTTTCAAGCAAGAGTCTGTATGGACTATCTT
1 GACTATCTTTCAAGTAGGAGTCCACATGAACTATCTTTCAAACAAGAGTCCATATGAACTATCTT
7546653 TCAAG
66 TCAAG
7546658 CAAAAGTCTG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (84 bp):
GACTATCTTTCAAGTAGGAGTCCACATGAACTATCTTTCAAACAAGAGTCCATATGAACTATCTT
TCAAGTAGGAGTTCGCTTG
Found at i:7546790 original size:14 final size:14
Alignment explanation
Indices: 7546773--7546821 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
7546763 AATTCGCATA
7546773 TATGAATCCACATG
1 TATGAATCCACATG
* ** *
7546787 TATGAATTCGTATC
1 TATGAATCCACATG
*
7546801 TATGATTCCACATG
1 TATGAATCCACATG
7546815 TATGAAT
1 TATGAAT
7546822 TTGTATCTAT
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (14 bp):
TATGAATCCACATG
Found at i:7546815 original size:28 final size:28
Alignment explanation
Indices: 7546753--7546848 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
7546743 AGAATGAGTT
* * * *
7546753 CACATGCACGAATTCGCATATATGAATC
1 CACATGTATGAATTCGTATCTATGAATC
*
7546781 CACATGTATGAATTCGTATCTATGATTC
1 CACATGTATGAATTCGTATCTATGAATC
*
7546809 CACATGTATGAATTTGTATCTATGAATC
1 CACATGTATGAATTCGTATCTATGAATC
**
7546837 TGCATGTATGAA
1 CACATGTATGAA
7546849 ATCAATGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (28 bp):
CACATGTATGAATTCGTATCTATGAATC
Found at i:7547738 original size:18 final size:18
Alignment explanation
Indices: 7547715--7547751 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7547705 ACATGTCATA
7547715 TGCATGTCACCTAGTTAT
1 TGCATGTCACCTAGTTAT
7547733 TGCATGTCACCTAGTTAT
1 TGCATGTCACCTAGTTAT
7547751 T
1 T
7547752 CCCTAATGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (18 bp):
TGCATGTCACCTAGTTAT
Found at i:7549071 original size:29 final size:29
Alignment explanation
Indices: 7549025--7549081 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
7549015 TAATAATTCA
* * *
7549025 ACTCTTTTTGAAATATTGATGGTCAAATG
1 ACTCTTTTTAAAAAATTGAGGGTCAAATG
7549054 ACTCTTTTTAAAAAATTGAGGGTCAAAT
1 ACTCTTTTTAAAAAATTGAGGGTCAAAT
7549082 TTAGCTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (29 bp):
ACTCTTTTTAAAAAATTGAGGGTCAAATG
Found at i:7549451 original size:26 final size:24
Alignment explanation
Indices: 7549417--7549465 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
7549407 TAAATAAAAA
*
7549417 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAATATAA-AAA-CAAATAC
7549443 ATTTAAAAATATAAAAACAAATA
1 ATTTAAAAATATAAAAACAAATA
7549466 TTAAAACAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
ATTTAAAAATATAAAAACAAATAC
Found at i:7549599 original size:23 final size:23
Alignment explanation
Indices: 7549555--7549599 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
7549545 TTATATTAAA
* *
7549555 ATTAAAAGTAAAATGTAAATATG
1 ATTAAAAATAAAATATAAATATG
* *
7549578 ATTAAAAATAATATATATATAT
1 ATTAAAAATAAAATATAAATAT
7549600 ATTTAATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTAAAAATAAAATATAAATATG
Found at i:7550976 original size:5 final size:6
Alignment explanation
Indices: 7550961--7550993 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
7550951 AAAGCTTTGA
*
7550961 AAAAAT AAAAAT AAAAAC AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
7550994 TCCATTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:7558592 original size:46 final size:46
Alignment explanation
Indices: 7558525--7558616 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
7558515 CCCAAGTTTG
* *
7558525 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTTCGATAGTGTAC
1 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
7558571 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
1 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
7558617 CTTTTATCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (46 bp):
TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
Found at i:7560388 original size:16 final size:16
Alignment explanation
Indices: 7560367--7560413 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
7560357 GAGAGGAAAG
7560367 AAAATTAGAAAGATGA
1 AAAATTAGAAAGATGA
*
7560383 AAAATTA-AAGAGGTAGA
1 AAAATTAGAA-AGAT-GA
7560400 AAAA-TAGAAAGATG
1 AAAATTAGAAAGATG
7560414 GAAATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 3 0.12
16 15 0.58
17 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (16 bp):
AAAATTAGAAAGATGA
Found at i:7574034 original size:85 final size:85
Alignment explanation
Indices: 7573891--7574061 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
7573881 GCAAAGTTTA
* *
7573891 TTGCCAAGTGTTATTTCTGTGGCAAGAAAGGACATGTAGAGAATGATTGCAATAAGGGCATGACT
1 TTGCCAAATGTTATTTCTGTGGCAAGAAAGGACACGTAGAGAATGATTGCAATAAGGGCATGACT
7573956 TGGTTTGAAAAGAAAAGTAC
66 TGGTTTGAAAAGAAAAGTAC
7573976 TTGCCAAATGTTATTTCTGTGGCAAGAAAGGACACGTAGAGAATGATTGCAATAAGGGCATGACT
1 TTGCCAAATGTTATTTCTGTGGCAAGAAAGGACACGTAGAGAATGATTGCAATAAGGGCATGACT
7574041 TGGTTTGAAAAGAAAAGTAC
66 TGGTTTGAAAAGAAAAGTAC
7574061 T
1 T
7574062 AACCTTTCTT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (85 bp):
TTGCCAAATGTTATTTCTGTGGCAAGAAAGGACACGTAGAGAATGATTGCAATAAGGGCATGACT
TGGTTTGAAAAGAAAAGTAC
Found at i:7575064 original size:18 final size:18
Alignment explanation
Indices: 7575041--7575077 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7575031 TATAATTTGG
* *
7575041 TATTCGATTTATTTGAAT
1 TATTCGAGTTATTCGAAT
7575059 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
7575077 T
1 T
7575078 CAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:7580636 original size:16 final size:16
Alignment explanation
Indices: 7580607--7580647 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
7580597 AGGTTCAATT
* *
7580607 ATATTAATATTATTTA
1 ATATTAAAAATATTTA
*
7580623 ATTTTAAAAATATTTA
1 ATATTAAAAATATTTA
7580639 ATATTAAAA
1 ATATTAAAA
7580648 TAACACAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTAAAAATATTTA
Found at i:7584493 original size:35 final size:35
Alignment explanation
Indices: 7584427--7584493 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
7584417 TCCTAATTTC
* *
7584427 AAAAGTTTTAATTTTATCTTAAAAAATAAATATAA
1 AAAAGTTTAAATTTAATCTTAAAAAATAAATATAA
7584462 AAAAGTATTAAATTTAAT-TTAATAAAA-AAATA
1 AAAAGT-TTAAATTTAATCTTAA-AAAATAAATA
7584494 CATTTCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
35 15 0.54
36 13 0.46
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.37
Consensus pattern (35 bp):
AAAAGTTTAAATTTAATCTTAAAAAATAAATATAA
Found at i:7590000 original size:22 final size:23
Alignment explanation
Indices: 7589970--7590013 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
7589960 ATATTAAATA
7589970 ATAATTAAAATTATATATTTATG
1 ATAATTAAAATTATATATTTATG
*
7589993 ATAA-TAAATTTATATATTTAT
1 ATAATTAAAATTATATATTTAT
7590014 TAAATTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATAATTAAAATTATATATTTATG
Found at i:7592115 original size:20 final size:20
Alignment explanation
Indices: 7592082--7592119 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7592072 GATGCCTTGA
7592082 GAAATAAAATAAAAAAACTC
1 GAAATAAAATAAAAAAACTC
7592102 GAAA-AAAATGAAAAAAAC
1 GAAATAAAAT-AAAAAAAC
7592120 ACACATGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.74, C:0.08, G:0.08, T:0.11
Consensus pattern (20 bp):
GAAATAAAATAAAAAAACTC
Found at i:7593585 original size:276 final size:277
Alignment explanation
Indices: 7593092--7593645 Score: 1002
Period size: 276 Copynumber: 2.0 Consensus size: 277
7593082 CCATTAGACA
*
7593092 CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAATGCTTAGCCCGCTGGTTCTT
1 CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAAGGCTTAGCCCGCTGGTTCTT
* *
7593157 GCAACCACCTTTATGAGGTGGTATCTAGCAGATTTGGGGTTTGATCTCAGCATATGCAGCTTTCG
66 GCAACCACCTTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCG
* * *
7593222 TTATAACAAAAGGAAGATTTAATCAGAACTTGCCTGCGTTGCTTACTCGGGCGACTTTATTGCAC
131 TTATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGTTGCTTACTCGGGCGACTTTATTGCAC
* *
7593287 TGTGCATTATACCTTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGGAACAGAAGTGCAGAAAA
196 TGTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAA
7593352 GGC-AAAAATCAGAAAT
261 GGCAAAAAATCAGAAAT
* * *
7593368 CTTCATGGAACATTATGAATATTGAAGCATCTAATCCGAACCCACGGCTTAGCCCGCTGGTTCTT
1 CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAAGGCTTAGCCCGCTGGTTCTT
7593433 GCAACCACCTTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCG
66 GCAACCACCTTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCG
7593498 TTATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGTTGCTTACTCGGGCGACTTTATTGCAC
131 TTATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGTTGCTTACTCGGGCGACTTTATTGCAC
7593563 TGTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAA
196 TGTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAA
7593628 GGCAAAAAATCAGAAAT
261 GGCAAAAAATCAGAAAT
7593645 C
1 C
7593646 GAGTCTTTTC
Statistics
Matches: 266, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
276 252 0.95
277 14 0.05
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (277 bp):
CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAAGGCTTAGCCCGCTGGTTCTT
GCAACCACCTTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCG
TTATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGTTGCTTACTCGGGCGACTTTATTGCAC
TGTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAA
GGCAAAAAATCAGAAAT
Found at i:7595840 original size:45 final size:45
Alignment explanation
Indices: 7595776--7595867 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
7595766 TCCAAGTAAC
* *
7595776 AATTCAACGATTGGTACGATGAATCATTA-CTAATTGACGAATAAA
1 AATTCAACGATTGCTACGATGAACCATTACCT-ATTGACGAATAAA
* *
7595821 AATTCAACGATTGCTACGATGGACCATTACCTATTGACGAGTAAA
1 AATTCAACGATTGCTACGATGAACCATTACCTATTGACGAATAAA
7595866 AA
1 AA
7595868 ACATACCTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 40 0.95
46 2 0.05
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (45 bp):
AATTCAACGATTGCTACGATGAACCATTACCTATTGACGAATAAA
Found at i:7596842 original size:20 final size:20
Alignment explanation
Indices: 7596805--7596842 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7596795 TTAATCAAAT
* *
7596805 TTAAACTTCATATCAAAAGA
1 TTAAAATTCATATAAAAAGA
7596825 TTAAAATTCATATAAAAA
1 TTAAAATTCATATAAAAA
7596843 CCCTTCCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (20 bp):
TTAAAATTCATATAAAAAGA
Found at i:7598146 original size:29 final size:29
Alignment explanation
Indices: 7598108--7598195 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
7598098 TGGAAAAGAA
7598108 AGGAGGTGATGTATTACGATGTTGAAAGC
1 AGGAGGTGATGTATTACGATGTTGAAAGC
*
7598137 AGGAGCTGATGTATTACGATGTTGAAAGC
1 AGGAGGTGATGTATTACGATGTTGAAAGC
*
7598166 AGGAGGTGATGTATTACAATGTTGAAAGC
1 AGGAGGTGATGTATTACGATGTTGAAAGC
7598195 A
1 A
7598196 ATACCTATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.27
Consensus pattern (29 bp):
AGGAGGTGATGTATTACGATGTTGAAAGC
Found at i:7609128 original size:23 final size:23
Alignment explanation
Indices: 7609076--7609153 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
7609066 TGTGCGGATG
*
7609076 TCACTTTGCACCAAAGTGCCACTCA
1 TCAC-TTGCACCATAGTGCCACT-A
* * *
7609101 -AACTTGCACCATAGTGCCGCTT
1 TCACTTGCACCATAGTGCCACTA
* *
7609123 TCACTTGCATCGTAGTGCCACTA
1 TCACTTGCACCATAGTGCCACTA
7609146 TCACTTGC
1 TCACTTGC
7609154 GTGCATAGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 41 0.95
24 2 0.05
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.28
Consensus pattern (23 bp):
TCACTTGCACCATAGTGCCACTA
Found at i:7615790 original size:105 final size:105
Alignment explanation
Indices: 7615593--7615794 Score: 271
Period size: 105 Copynumber: 1.9 Consensus size: 105
7615583 TCACTTGATA
* * *
7615593 TTGTCACGTATACTATATTGATTGATGCACTTTGCACAGAAGGAATGATTTCTAAAGCTGTAGAG
1 TTGTCACGTATACTACATTGATTGATGCACGTTGCAAAGAAGGAATGATTTCTAAAGCTGTAGAG
* *
7615658 ATCGTTGACACGATGAGAAAGCAAGGCATTGAACCCAATG
66 ATCGTTGACACAATGAGAAAACAAGGCATTGAACCCAATG
* * * *
7615698 TTGTCACGTATACTACGTTGGTTGATGCACGTTGCAAAGAAGGGATGGTTTCTAAAGCTG-AGGA
1 TTGTCACGTATACTACATTGATTGATGCACGTTGCAAAGAAGGAATGATTTCTAAAGCTGTA-GA
* * * *
7615762 TATTGTTGACACAATGATAAAACGAGGCATTGA
65 GATCGTTGACACAATGAGAAAACAAGGCATTGA
7615795 GCCTGATGTT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 1 0.01
105 82 0.99
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (105 bp):
TTGTCACGTATACTACATTGATTGATGCACGTTGCAAAGAAGGAATGATTTCTAAAGCTGTAGAG
ATCGTTGACACAATGAGAAAACAAGGCATTGAACCCAATG
Found at i:7618423 original size:32 final size:32
Alignment explanation
Indices: 7618382--7618446 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
7618372 CCATAATGTT
7618382 TATTCTATGAGCATCTTGACTAATTGCTTTTG
1 TATTCTATGAGCATCTTGACTAATTGCTTTTG
*
7618414 TATTCTATGAGCATCTTGATTAATTGCTTTTG
1 TATTCTATGAGCATCTTGACTAATTGCTTTTG
7618446 T
1 T
7618447 CAACTAGCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.14, G:0.15, T:0.49
Consensus pattern (32 bp):
TATTCTATGAGCATCTTGACTAATTGCTTTTG
Found at i:7621345 original size:7 final size:7
Alignment explanation
Indices: 7621333--7621373 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
7621323 CTAGCGAGGG
7621333 GGCTATT
1 GGCTATT
7621340 GGCTATT
1 GGCTATT
7621347 GGCTATT
1 GGCTATT
7621354 GGCTATT
1 GGCTATT
7621361 GGCTATT
1 GGCTATT
7621368 GGCTAT
1 GGCTAT
7621374 AGCACCCGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.15, C:0.15, G:0.29, T:0.41
Consensus pattern (7 bp):
GGCTATT
Found at i:7623673 original size:21 final size:21
Alignment explanation
Indices: 7623633--7623673 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7623623 ATTATTTATA
**
7623633 TTTTAATTAATCATGTTTTAG
1 TTTTAATTAATCATAATTTAG
*
7623654 TTTTAATTAATCTTAATTTA
1 TTTTAATTAATCATAATTTA
7623674 CTTAATTGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTAATTAATCATAATTTAG
Found at i:7636286 original size:19 final size:18
Alignment explanation
Indices: 7636258--7636318 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
7636248 TTTTTTATTA
*
7636258 CTTTTTTTTAACTTTTGT
1 CTTTTTTTTAACTTTTAT
* *
7636276 CTTTTTCTTTAATTTTTTT
1 CTTTTT-TTTAACTTTTAT
*
7636295 C-TTTTTTTAAGTTTTAT
1 CTTTTTTTTAACTTTTAT
7636312 ACTTTTT
1 -CTTTTT
7636319 CTTATTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 10 0.28
18 11 0.31
19 15 0.42
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (18 bp):
CTTTTTTTTAACTTTTAT
Found at i:7636389 original size:23 final size:24
Alignment explanation
Indices: 7636363--7636417 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
7636353 TTTGTTATTA
*
7636363 ATTTTAAAAAATTTGA-AATGTAT
1 ATTTTAAAAAATTTGATAATATAT
* * *
7636386 A-TTTGAAATATTTTATAATATAT
1 ATTTTAAAAAATTTGATAATATAT
7636409 ATTTTAAAA
1 ATTTTAAAA
7636418 TATTAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (24 bp):
ATTTTAAAAAATTTGATAATATAT
Found at i:7636426 original size:21 final size:21
Alignment explanation
Indices: 7636363--7636478 Score: 85
Period size: 20 Copynumber: 5.4 Consensus size: 21
7636353 TTTGTTATTA
* *
7636363 ATTTTAAAAAATTTGAAATGTAT
1 ATTTTAAAATA-TT-AAATATAT
* *
7636386 ATTTGAAATATTTTATAATATAT
1 ATTTTAAA-ATATTA-AATATAT
7636409 ATTTTAAAATATTAAATAT-T
1 ATTTTAAAATATTAAATATAT
* *** *
7636429 ATTTTTAAATTATTTTTTA-AA
1 A-TTTTAAAATATTAAATATAT
7636450 ATTTTAAAATATTAAATATAT
1 ATTTTAAAATATTAAATATAT
7636471 -TTTTAAAA
1 ATTTTAAAA
7636479 AATATTTAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
20 23 0.32
21 20 0.28
22 6 0.08
23 22 0.31
24 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
ATTTTAAAATATTAAATATAT
Found at i:7636447 original size:33 final size:36
Alignment explanation
Indices: 7636396--7636463 Score: 97
Period size: 33 Copynumber: 2.0 Consensus size: 36
7636386 ATTTGAAATA
7636396 TTTTATAATATATATTTTAAAATATT-AAATATTAT
1 TTTTATAATATATATTTTAAAATATTAAAATATTAT
* *
7636431 TTTTA-AAT-TATTTTTTAAAATTTTAAAATATTA
1 TTTTATAATATATATTTTAAAATATTAAAATATTA
7636464 AATATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 14 0.47
34 11 0.37
35 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (36 bp):
TTTTATAATATATATTTTAAAATATTAAAATATTAT
Found at i:7636505 original size:40 final size:39
Alignment explanation
Indices: 7636409--7636531 Score: 122
Period size: 41 Copynumber: 3.0 Consensus size: 39
7636399 TATAATATAT
* * *
7636409 ATTTTAAAATATTAAATATTATTTTTAAATTATTTTTTAAA
1 ATTTTAAAATATTAAATA-TATTTTTAAA-AAATATTTAAA
7636450 ATTTTAAAATATTAAATATATTTTTAAAAAATATTTAAA
1 ATTTTAAAATATTAAATATATTTTTAAAAAATATTTAAA
* * * *
7636489 CA-TTTAAAATTTTTAAATAAAATTTTTATAAAATTTTTTAAA
1 -ATTTTAAAA-TATTAAAT-ATATTTTTA-AAAAATATTTAAA
7636531 A
1 A
7636532 AGGTTTAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
39 15 0.21
40 18 0.25
41 27 0.38
42 11 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (39 bp):
ATTTTAAAATATTAAATATATTTTTAAAAAATATTTAAA
Found at i:7636521 original size:11 final size:11
Alignment explanation
Indices: 7636493--7636531 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
7636483 TTTAAACATT
7636493 TAAAATTTTTAAA
1 TAAAATTTTT--A
7636506 TAAAATTTTTA
1 TAAAATTTTTA
7636517 TAAAATTTTT-
1 TAAAATTTTTA
7636527 TAAAA
1 TAAAA
7636532 AGGTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 5 0.19
11 11 0.42
13 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAAATTTTTA
Found at i:7636704 original size:21 final size:21
Alignment explanation
Indices: 7636678--7636743 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
7636668 TTGCTTCTGA
7636678 TTTTTTTTTAAATTTTTTTAC
1 TTTTTTTTTAAATTTTTTTAC
*
7636699 TTTTTTTTTAAAATTTTTT-C
1 TTTTTTTTTAAATTTTTTTAC
* *
7636719 TTGTTCTTT-AATTTTTTTA-
1 TTTTTTTTTAAATTTTTTTAC
7636738 TTTTTT
1 TTTTTT
7636744 AAGTTTTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
19 12 0.32
20 8 0.21
21 18 0.47
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTAAATTTTTTTAC
Found at i:7636742 original size:8 final size:8
Alignment explanation
Indices: 7636729--7636797 Score: 59
Period size: 8 Copynumber: 8.5 Consensus size: 8
7636719 TTGTTCTTTA
7636729 ATTTTTTT
1 ATTTTTTT
*
7636737 ATTTTTTA
1 ATTTTTTT
* *
7636745 AGTTTTAT
1 ATTTTTTT
7636753 A-TTTTTT
1 ATTTTTTT
* *
7636760 CTTATTTT
1 ATTTTTTT
7636768 ATTTTATTT
1 ATTTT-TTT
*
7636777 ATTTATTT
1 ATTTTTTT
7636785 ATTTATTTT
1 ATTT-TTTT
7636794 ATTT
1 ATTT
7636798 ATTATTAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
7 5 0.11
8 28 0.60
9 14 0.30
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (8 bp):
ATTTTTTT
Found at i:7636779 original size:4 final size:4
Alignment explanation
Indices: 7636765--7636800 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
7636755 TTTTTCTTAT
7636765 TTTA TTTTA TTTA TTTA TTTA TTTA TTTTA TTTA TT
1 TTTA -TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TT
7636801 ATTAATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 22 0.73
5 8 0.27
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:7636802 original size:16 final size:17
Alignment explanation
Indices: 7636765--7636810 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
7636755 TTTTTCTTAT
7636765 TTTATTT-TATTTATTTA
1 TTTATTTAT-TTTATTTA
7636782 TTTATTTATTTTATTTA
1 TTTATTTATTTTATTTA
*
7636799 -TTATTAATTTTA
1 TTTATTTATTTTA
7636811 ATAAATTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 11 0.41
17 15 0.56
18 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTATTTTATTTA
Found at i:7636810 original size:21 final size:22
Alignment explanation
Indices: 7636763--7636810 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
7636753 ATTTTTTCTT
*
7636763 ATTTTATTTTATTTATTTATTT
1 ATTTTATTTTATTTATTTATTA
7636785 A-TTTATTTTATTTA-TTATTA
1 ATTTTATTTTATTTATTTATTA
7636805 ATTTTA
1 ATTTTA
7636811 ATAAATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
ATTTTATTTTATTTATTTATTA
Found at i:7636830 original size:13 final size:13
Alignment explanation
Indices: 7636812--7636838 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7636802 TTAATTTTAA
7636812 TAAATTTGAAATG
1 TAAATTTGAAATG
7636825 TAAATTTGAAATG
1 TAAATTTGAAATG
7636838 T
1 T
7636839 TTTATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (13 bp):
TAAATTTGAAATG
Found at i:7636891 original size:14 final size:14
Alignment explanation
Indices: 7636861--7636897 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7636851 ATTTTTTAAA
7636861 ATTTT-AAA-TATT
1 ATTTTAAAATTATT
7636873 ATTTTAAAATTATT
1 ATTTTAAAATTATT
*
7636887 TTTTTAAAATT
1 ATTTTAAAATT
7636898 TTAAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 5 0.23
13 3 0.14
14 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTAAAATTATT
Found at i:7636925 original size:35 final size:33
Alignment explanation
Indices: 7636850--7636946 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 33
7636840 TTATAATATA
7636850 TATTTTTTAAAATTTTAAATATTATTTTAAAAT
1 TATTTTTTAAAATTTTAAATATTATTTTAAAAT
7636883 TATTTTTTTAAAATTTTAAATATATATATTTAAAAT
1 TA-TTTTTTAAAATTTTAAATAT-TAT-TTTAAAAT
7636919 TATTTTTTAAAATTTTAAATATTATTTT
1 TATTTTTTAAAATTTTAAATATTATTTT
7636947 TTAAAAATAA
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 5 0.08
34 23 0.38
35 23 0.38
36 10 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
TATTTTTTAAAATTTTAAATATTATTTTAAAAT
Found at i:7636937 original size:21 final size:22
Alignment explanation
Indices: 7636911--7636952 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7636901 AATATATATA
7636911 TTTAAA-ATTATTTTTTAAAAT
1 TTTAAATATTATTTTTTAAAAT
7636932 TTTAAATATTATTTTTTAAAA
1 TTTAAATATTATTTTTTAAAA
7636953 ATAAAATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAAATATTATTTTTTAAAAT
Found at i:7636950 original size:35 final size:35
Alignment explanation
Indices: 7636850--7636952 Score: 158
Period size: 35 Copynumber: 3.0 Consensus size: 35
7636840 TTATAATATA
7636850 TATTTTTTAAAATTTTAAATATTA--TTTTAAAAT
1 TATTTTTTAAAATTTTAAATATTATTTTTTAAAAT
*
7636883 TATTTTTTTAAAATTTTAAATA-TATATATTTAAAAT
1 TA-TTTTTTAAAATTTTAAATATTAT-TTTTTAAAAT
7636919 TATTTTTTAAAATTTTAAATATTATTTTTTAAAA
1 TATTTTTTAAAATTTTAAATATTATTTTTTAAAA
7636953 ATAAAATACA
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
33 4 0.06
34 19 0.30
35 27 0.43
36 13 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTTTTTAAAATTTTAAATATTATTTTTTAAAAT
Found at i:7636957 original size:20 final size:19
Alignment explanation
Indices: 7636913--7636975 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
7636903 TATATATATT
*
7636913 TAAAATTATTTTTTAAAATTT
1 TAAAATTATTTTTTAAAA--A
7636934 TAAATATTATTTTTTAAAAA
1 TAAA-ATTATTTTTTAAAAA
* *
7636954 TAAAATACATTTTTTAATAA
1 TAAAAT-TATTTTTTAAAAA
7636974 TA
1 TA
7636976 TGAAACATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.05
20 17 0.46
21 4 0.11
22 14 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAAATTATTTTTTAAAAA
Found at i:7637091 original size:13 final size:13
Alignment explanation
Indices: 7637061--7637090 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7637051 TTTAAACATT
7637061 TAAAATTTTTAAA
1 TAAAATTTTTAAA
7637074 TAAAATTTTT-AA
1 TAAAATTTTTAAA
7637086 TAAAA
1 TAAAA
7637091 AATTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAAATTTTTAAA
Found at i:7637259 original size:22 final size:22
Alignment explanation
Indices: 7637233--7637293 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
7637223 TTAATGTTTA
*
7637233 AATATTATTAAAAA-ATATATTT
1 AATATT-TAAAAAATATATATTT
7637255 AATATTTAAAAAATATATATTT
1 AATATTTAAAAAATATATATTT
*
7637277 AAAATTTATAAGAAATA
1 AATATTTA-AA-AAATA
7637294 ATTTCAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 6 0.18
22 21 0.62
23 2 0.06
24 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AATATTTAAAAAATATATATTT
Found at i:7637351 original size:23 final size:21
Alignment explanation
Indices: 7637309--7637348 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7637299 AAATATATAT
*
7637309 ATATTTAAAATTTTAAAAATA
1 ATATTTAAAATTTAAAAAATA
7637330 ATATTTAAAATTTAAAAAA
1 ATATTTAAAATTTAAAAAA
7637349 AATTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATTTAAAATTTAAAAAATA
Found at i:7637356 original size:23 final size:21
Alignment explanation
Indices: 7637308--7637364 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
7637298 CAAATATATA
*
7637308 TATATTTAAAATTTTAAAAAT
1 TATATTTAAAATTTAAAAAAT
*
7637329 AATATTTAAAATTTAAAAAAAAT
1 TATATTTAAAATTT--AAAAAAT
7637352 TATATTATAAAAT
1 TATATT-TAAAAT
7637365 ATTTCAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.43
23 11 0.37
24 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TATATTTAAAATTTAAAAAAT
Found at i:7637420 original size:9 final size:9
Alignment explanation
Indices: 7637408--7637432 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7637398 AATAAAAAAT
7637408 AAATAAACA
1 AAATAAACA
7637417 AAATAAACA
1 AAATAAACA
7637426 AAATAAA
1 AAATAAA
7637433 ATAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (9 bp):
AAATAAACA
Found at i:7638449 original size:9 final size:10
Alignment explanation
Indices: 7638437--7638499 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
7638427 TTTTCTTTTC
7638437 TTTTTTACTT
1 TTTTTTACTT
7638447 TTTTTTACTT
1 TTTTTTACTT
*
7638457 TTTTGACTATCTT
1 TTTT--TTA-CTT
7638470 TTCTTTT-CTT
1 TT-TTTTACTT
*
7638480 TTTTTTA-TA
1 TTTTTTACTT
7638489 TTTTTT-CTT
1 TTTTTTACTT
7638498 TT
1 TT
7638500 ATGTTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
9 14 0.33
10 19 0.44
12 3 0.07
13 5 0.12
14 2 0.05
ACGTcount: A:0.10, C:0.11, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTTTACTT
Found at i:7638457 original size:18 final size:18
Alignment explanation
Indices: 7638426--7638476 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
7638416 CTGTTACTTT
7638426 CTTTTCTTTTCTTTTTTA
1 CTTTTCTTTTCTTTTTTA
7638444 CTTTT-TTTTACTTTTTTGA
1 CTTTTCTTTT-CTTTTTT-A
*
7638463 C-TATCTTTTCTTTT
1 CTTTTCTTTTCTTTT
7638477 CTTTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 4 0.14
18 19 0.66
19 6 0.21
ACGTcount: A:0.08, C:0.16, G:0.02, T:0.75
Consensus pattern (18 bp):
CTTTTCTTTTCTTTTTTA
Found at i:7638494 original size:23 final size:23
Alignment explanation
Indices: 7638423--7638499 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
7638413 TTGCTGTTAC
* *
7638423 TTTCTTTTCTTTTCTTTTTTACTT
1 TTTCTTTTCTTTT-TTTTATATTT
* * *
7638447 TTT-TTTAC-TTTTTTGACTATCT
1 TTTCTTTTCTTTTTTTTA-TATTT
7638469 TTTCTTTTCTTTTTTTTATATTT
1 TTTCTTTTCTTTTTTTTATATTT
7638492 TTTCTTTT
1 TTTCTTTT
7638500 ATGTTTATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
21 3 0.07
22 9 0.21
23 20 0.48
24 10 0.24
ACGTcount: A:0.08, C:0.13, G:0.01, T:0.78
Consensus pattern (23 bp):
TTTCTTTTCTTTTTTTTATATTT
Found at i:7638508 original size:18 final size:17
Alignment explanation
Indices: 7638473--7638527 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
7638463 CTATCTTTTC
*
7638473 TTTTCTTTTTTTTATATT
1 TTTTCTTTTATTT-TATT
7638491 TTTTCTTTTATGTTTATT
1 TTTTCTTTTAT-TTTATT
*
7638509 TATTTATTTTATTTTATT
1 T-TTTCTTTTATTTTATT
7638527 T
1 T
7638528 ATCTTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 22 0.67
19 11 0.33
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTATTTTATT
Found at i:7638514 original size:14 final size:13
Alignment explanation
Indices: 7638497--7638538 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
7638487 TATTTTTTCT
7638497 TTTATGTTTATTTA
1 TTTAT-TTTATTTA
7638511 TTTATTTTATTTTA
1 TTTATTTTA-TTTA
*
7638525 TTTATCTTATTTA
1 TTTATTTTATTTA
7638538 T
1 T
7638539 GATTAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:7638521 original size:9 final size:9
Alignment explanation
Indices: 7638497--7638538 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
7638487 TATTTTTTCT
7638497 TTTATGTTTA
1 TTTAT-TTTA
7638507 TTTA-TTTA
1 TTTATTTTA
7638515 TTTTATTTTA
1 -TTTATTTTA
*
7638525 TTTATCTTA
1 TTTATTTTA
7638534 TTTAT
1 TTTAT
7638539 GATTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 4 0.14
9 17 0.59
10 8 0.28
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:7638528 original size:18 final size:18
Alignment explanation
Indices: 7638478--7638536 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
7638468 TTTTCTTTTC
* *
7638478 TTTT-TTTTATATTTTTTC
1 TTTTATTTTAT-TTATTTA
7638496 TTTTATGTTTATTTATTTA
1 TTTTAT-TTTATTTATTTA
7638515 TTTTATTTTATTTATCTTA
1 TTTTATTTTATTTAT-TTA
7638534 TTT
1 TTT
7638537 ATGATTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 13 0.36
19 18 0.50
20 5 0.14
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTATTTTATTTATTTA
Found at i:7638577 original size:9 final size:9
Alignment explanation
Indices: 7638565--7638607 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
7638555 CATAAAATGT
*
7638565 ATATTTGAA
1 ATATTTTAA
7638574 ATATTTTATAA
1 ATA-TTT-TAA
7638585 TATATTTTAA
1 -ATATTTTAA
7638595 ATATTTTAA
1 ATATTTTAA
7638604 ATAT
1 ATAT
7638608 ATATATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 16 0.53
10 6 0.20
11 5 0.17
12 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
ATATTTTAA
Found at i:7638588 original size:21 final size:20
Alignment explanation
Indices: 7638564--7638609 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
7638554 ACATAAAATG
7638564 TATATTTGAAATATTTTATAA
1 TATATTTGAAATATTTTA-AA
*
7638585 TATATTTTAAATATTTTAAA
1 TATATTTGAAATATTTTAAA
7638605 TATAT
1 TATAT
7638610 ATATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TATATTTGAAATATTTTAAA
Found at i:7638652 original size:20 final size:20
Alignment explanation
Indices: 7638612--7638667 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
7638602 AAATATATAT
7638612 ATTTTAAAGTATT-TTTCTAA
1 ATTTTAAA-TATTATTTCTAA
*
7638632 ATTTTAAATATTATTTTTAA
1 ATTTTAAATATTATTTCTAA
**
7638652 AAATTAAATATTATTT
1 ATTTTAAATATTATTT
7638668 AAAAACAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTTAAATATTATTTCTAA
Found at i:7638670 original size:18 final size:19
Alignment explanation
Indices: 7638635--7638672 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
7638625 TTTCTAAATT
7638635 TTAAATATTATTTTTAAAAA
1 TTAAATATTA-TTTTAAAAA
7638655 TTAAATATTA-TTTAAAAA
1 TTAAATATTATTTTAAAAA
7638673 CAATATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAATATTATTTTAAAAA
Found at i:7638681 original size:13 final size:12
Alignment explanation
Indices: 7638663--7638705 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
7638653 AATTAAATAT
7638663 TATTTAAAAACAA
1 TATTTAAAAA-AA
*
7638676 TATTT-AAAATA
1 TATTTAAAAAAA
7638687 TATTTAAAAATAA
1 TATTTAAAAA-AA
7638700 TATTTA
1 TATTTA
7638706 TTATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 6 0.23
12 8 0.31
13 12 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTTAAAAAAA
Found at i:7638682 original size:44 final size:44
Alignment explanation
Indices: 7638630--7638729 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 44
7638620 GTATTTTTCT
*
7638630 AAAT-TTTAAATATTATTTTTAAAAATTAA-A-TATTATTTAAAA
1 AAATATTTAAATATTATATTTAAAAA-TAATATTATTATTTAAAA
7638672 ACAATATTTAAA-A-TATATTTAAAAATAATATTTATTATTTAAAA
1 A-AATATTTAAATATTATATTTAAAAATAATA-TTATTATTTAAAA
*
7638716 ATATATTT-AATATT
1 AAATATTTAAATATT
7638730 TAAAAAGTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
41 3 0.06
42 15 0.31
43 11 0.22
44 20 0.41
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (44 bp):
AAATATTTAAATATTATATTTAAAAATAATATTATTATTTAAAA
Found at i:7638683 original size:24 final size:24
Alignment explanation
Indices: 7638657--7638705 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
7638647 TTTAAAAATT
7638657 AAATATTATTTAAAAACAATATTTA
1 AAATA-TATTTAAAAACAATATTTA
*
7638682 AAATATATTTAAAAATAATATTTA
1 AAATATATTTAAAAACAATATTTA
7638706 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATATATTTAAAAACAATATTTA
Found at i:7638696 original size:12 final size:12
Alignment explanation
Indices: 7638657--7638725 Score: 60
Period size: 12 Copynumber: 6.0 Consensus size: 12
7638647 TTTAAAAATT
7638657 AAATATTATTTAA
1 AAATA-TATTTAA
*
7638670 AAACAATATTT-A
1 AAA-TATATTTAA
7638682 AAATATATTTAA
1 AAATATATTTAA
7638694 AAATAATATTT--
1 AAAT-ATATTTAA
7638705 --AT-TATTTAA
1 AAATATATTTAA
7638714 AAATATATTTAA
1 AAATATATTTAA
7638726 TATTTAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
7 5 0.11
9 2 0.04
11 8 0.17
12 16 0.35
13 14 0.30
14 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (12 bp):
AAATATATTTAA
Found at i:7638712 original size:20 final size:20
Alignment explanation
Indices: 7638660--7638744 Score: 100
Period size: 19 Copynumber: 4.0 Consensus size: 20
7638650 AAAAATTAAA
*
7638660 TATTATTTAAAAACAATATT
1 TATTATTTAAAAATAATATT
7638680 TAAAATATATTTAAAAATAATATT
1 T---AT-TATTTAAAAATAATATT
7638704 TATTATTTAAAAAT-ATATT
1 TATTATTTAAAAATAATATT
*
7638723 TAATATTTAAAAAGTAATATT
1 TATTATTTAAAAA-TAATATT
7638744 T
1 T
7638745 GAAATTTAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
19 17 0.30
20 13 0.23
21 8 0.14
23 2 0.04
24 17 0.30
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (20 bp):
TATTATTTAAAAATAATATT
Found at i:7638721 original size:19 final size:19
Alignment explanation
Indices: 7638642--7638735 Score: 84
Period size: 19 Copynumber: 4.7 Consensus size: 19
7638632 ATTTTAAATA
*
7638642 TTATT-TTTAAAAAT-TAA
1 TTATTATTTAAAAATATAT
* *
7638659 ATATTATTTAAAAACAATAT
1 TTATTATTTAAAAA-TATAT
7638679 TTAAAATATATTTAAAAATAATAT
1 TT---AT-TATTTAAAAAT-ATAT
7638703 TTATTATTTAAAAATATAT
1 TTATTATTTAAAAATATAT
*
7638722 TTAATATTTAAAAA
1 TTATTATTTAAAAA
7638736 GTAATATTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
17 4 0.06
18 8 0.13
19 17 0.27
20 14 0.22
21 2 0.03
23 2 0.03
24 16 0.25
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (19 bp):
TTATTATTTAAAAATATAT
Found at i:7638765 original size:34 final size:33
Alignment explanation
Indices: 7638727--7638809 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 33
7638717 TATATTTAAT
*
7638727 ATTTAAAAAGTA-ATATTTGAAATTTAGAAAAATA
1 ATTTAAAAA-TATATATTTAAAATTTA-AAAAATA
7638761 ATTTAAAAATATATATTTAAAATTTAAAAATATA
1 ATTTAAAAATATATATTTAAAATTTAAAAA-ATA
7638795 TATATTATAAAATAT
1 -AT-TTA-AAAATAT
7638810 TTCAAATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
33 6 0.14
34 25 0.58
35 2 0.05
36 3 0.07
37 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (33 bp):
ATTTAAAAATATATATTTAAAATTTAAAAAATA
Found at i:7638795 original size:19 final size:19
Alignment explanation
Indices: 7638688--7638795 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 19
7638678 TTTAAAATAT
**
7638688 ATTTAAAAATAATATTTATT
1 ATTTAAAAAT-ATATTTAAA
*
7638708 ATTTAAAAATATATTTAAT
1 ATTTAAAAATATATTTAAA
*
7638727 ATTTAAAAAGTAATATTTGAA
1 ATTTAAAAA-T-ATATTTAAA
7638748 ATTTAGAAAA-ATAATTT--A
1 ATTTA-AAAATAT-ATTTAAA
*
7638766 A---AAATATATATTTAAA
1 ATTTAAAAATATATTTAAA
7638782 ATTTAAAAATATAT
1 ATTTAAAAATATAT
7638796 ATATTATAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
14 7 0.10
15 3 0.04
16 2 0.03
18 2 0.03
19 28 0.38
20 15 0.21
21 12 0.16
22 4 0.05
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
ATTTAAAAATATATTTAAA
Found at i:7638819 original size:23 final size:22
Alignment explanation
Indices: 7638760--7638807 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
7638750 TTAGAAAAAT
7638760 AATTT-AAAAATATATATTTAA
1 AATTTAAAAAATATATATTTAA
7638781 AATTTAAAAATATATATATTATAA
1 AATTTAAAAA-ATATATATT-TAA
7638805 AAT
1 AAT
7638808 ATTTCAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 9 0.38
24 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAAAAAATATATATTTAA
Found at i:7639640 original size:13 final size:12
Alignment explanation
Indices: 7639611--7639664 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
7639601 CTATAAACAC
7639611 ATAAATAA-ATAA
1 ATAAATAATAT-A
7639623 ATAAATAATACTA
1 ATAAATAATA-TA
*
7639636 ATAAAAACATATA
1 ATAAATA-ATATA
7639649 A-AAATAATATA
1 ATAAATAATATA
7639660 ATAAA
1 ATAAA
7639665 AAAGAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 6 0.17
12 15 0.42
13 11 0.31
14 4 0.11
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAAATAATATA
Found at i:7639676 original size:25 final size:25
Alignment explanation
Indices: 7639625--7639677 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
7639615 ATAAATAAAT
* *
7639625 AAATAATACTAATAAAAACATATAA
1 AAATAATACTAATAAAAACAAAAAA
*
7639650 AAATAATA-TAATAAAAAAGAAAAAA
1 AAATAATACTAAT-AAAAACAAAAAA
7639675 AAA
1 AAA
7639678 AGAGAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (25 bp):
AAATAATACTAATAAAAACAAAAAA
Found at i:7641193 original size:27 final size:27
Alignment explanation
Indices: 7641148--7641221 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 27
7641138 GCACATTATG
* * * *
7641148 TATGTATTTCTCATATTATTAATTGTA
1 TATGTATTTTTTATGTTATTAATGGTA
*
7641175 TATGTATTTTTTATGTTATATTAGTGGTA
1 TATGTATTTTTTATG-T-TATTAATGGTA
*
7641204 TATATA-TTTTTATGTTAT
1 TATGTATTTTTTATGTTAT
7641222 CTTATGTACA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.08
27 13 0.33
28 9 0.23
29 14 0.36
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (27 bp):
TATGTATTTTTTATGTTATTAATGGTA
Found at i:7641241 original size:26 final size:28
Alignment explanation
Indices: 7641179--7641252 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 28
7641169 ATTGTATATG
*
7641179 TATT-TTTTATGTTATATTAGTGGTATA
1 TATTATTTTATGTTATATTAGTGGTACA
*
7641206 TA-TATTTTTATGTTATCTTA-T-GTACA
1 TATTA-TTTTATGTTATATTAGTGGTACA
*
7641232 TATTATTTTATATTATTATTA
1 TATTATTTTATGTTA-TATTA
7641253 CTAAGTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 16 0.41
27 9 0.23
28 14 0.36
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (28 bp):
TATTATTTTATGTTATATTAGTGGTACA
Found at i:7642273 original size:22 final size:22
Alignment explanation
Indices: 7642225--7642267 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
7642215 TATTTAATTT
*
7642225 AAAAAATTTAATAATTATATTG
1 AAAAAATTTAATAATTATAGTG
7642247 AAAAAA-TTAATAATTA-AGTG
1 AAAAAATTTAATAATTATAGTG
7642267 A
1 A
7642268 CTAAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (22 bp):
AAAAAATTTAATAATTATAGTG
Found at i:7645137 original size:20 final size:21
Alignment explanation
Indices: 7645098--7645137 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7645088 CGTGTTTGCT
* *
7645098 TTCCGTTTAGCTCTTATGAGC
1 TTCCGTTTAACTCATATGAGC
7645119 TTCCG-TTAACTCATATGAG
1 TTCCGTTTAACTCATATGAG
7645138 TTTTAGTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TTCCGTTTAACTCATATGAGC
Found at i:7645233 original size:39 final size:39
Alignment explanation
Indices: 7645179--7645279 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
7645169 GCTTTAATGA
*
7645179 GCTTCAGTTAGCCTTCGGGCTTCCGTTTATCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
7645218 GCTTCAGTTAGCCTTCGGTCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* ** *
7645257 GATTCAACTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
7645280 AGATCACGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:7645926 original size:5 final size:5
Alignment explanation
Indices: 7645916--7645951 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
7645906 AACAAAATCG
* *
7645916 AACAA AACAA AACAA AACAG AACAA AACAA ATCAA A
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA A
7645952 CAGAGCAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.75, C:0.19, G:0.03, T:0.03
Consensus pattern (5 bp):
AACAA
Found at i:7645931 original size:20 final size:20
Alignment explanation
Indices: 7645906--7645955 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
7645896 ATGGTAGTGC
7645906 AACAAAATC-GAACAAAACAA
1 AACAAAA-CAGAACAAAACAA
7645926 AACAAAACAGAACAAAACAA
1 AACAAAACAGAACAAAACAA
*
7645946 ATC-AAACAGA
1 AACAAAACAGA
7645956 GCAGAACAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.70, C:0.20, G:0.06, T:0.04
Consensus pattern (20 bp):
AACAAAACAGAACAAAACAA
Found at i:7645948 original size:34 final size:34
Alignment explanation
Indices: 7645910--7645976 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
7645900 TAGTGCAACA
*
7645910 AAATCGAACAAAACAAAACAAAACAGAACAAAAC
1 AAATCAAACAAAACAAAACAAAACAGAACAAAAC
* * * * *
7645944 AAATCAAACAGAGCAGAACAGAACAGAAGAAAA
1 AAATCAAACAAAACAAAACAAAACAGAACAAAA
7645977 TAGAAAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.67, C:0.18, G:0.12, T:0.03
Consensus pattern (34 bp):
AAATCAAACAAAACAAAACAAAACAGAACAAAAC
Found at i:7647392 original size:260 final size:260
Alignment explanation
Indices: 7646909--7647393 Score: 715
Period size: 260 Copynumber: 1.9 Consensus size: 260
7646899 AATGGATAAT
* *
7646909 AAGATTCTCTTGTCTCGAAGAAATACAATATCACATCCAACACGTAGGACACGATATTTCAACCT
1 AAGATTCTCTTGTCTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTCAACCT
* **
7646974 TCGATACCAAAATCGTCTCATAATTTCCAAAATTTATGTATTGAAATTTTAAGAAGGATATCCGA
66 TCGATACCAAAATCGTCTCATAATTTCCAAAATTTATGCATTGAAACCTTAAGAAGGATATCCGA
**
7647039 TCGTTCGGTCAAACGATAAATCAAAACCCAGTACGTAGGGCACAATTTCTCAAAAATTCCAAACA
131 TCGTTCGGTCAAACGATAAATCAAAACCCAACACGTAGGGCACAATTTCTCAAAAATTCCAAACA
* *
7647104 ACGGAACATTGCCTCTTTTTTAAAAAAAAGGGCCTTGAGCAAACATGCAATAATATGAAACGATC
196 ACGGAACATTGCCTCTTATGTAAAAAAAAGGGCCTTGAGCAAACATGCAATAATATGAAACGATC
* * *
7647169 AAGATTCTCTTGTTTTGAAGAAATAAAATATCACTTCCAACACGTAGGACACAATATTTCAAACC
1 AAGATTCTCTTGTCTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTC-AACC
* * **
7647234 TTCGATATCAAAATCGTCTCATAATTTCC-AAATTTATGCATTGAAGCCTTAAGAAGGATATTTG
65 TTCGATACCAAAATCGTCTCATAATTTCCAAAATTTATGCATTGAAACCTTAAGAAGGATATCCG
* * * *
7647298 GTCGTTCGGTCAATCGATAAATCGAAAA-CCAACACGTAGGGCACAATTTCCTCGAAATTTCCAA
130 ATCGTTCGGTCAAACGATAAATC-AAAACCCAACACGTAGGGCACAATTT-CTCAAAAATTCCAA
* *
7647362 ACAACGGAATATTTCCT-TTATGTCAAAAAAAA
193 ACAACGGAACATTGCCTCTTATGT-AAAAAAAA
7647394 TCCCTTTTTT
Statistics
Matches: 199, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
260 128 0.64
261 71 0.36
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (260 bp):
AAGATTCTCTTGTCTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTCAACCT
TCGATACCAAAATCGTCTCATAATTTCCAAAATTTATGCATTGAAACCTTAAGAAGGATATCCGA
TCGTTCGGTCAAACGATAAATCAAAACCCAACACGTAGGGCACAATTTCTCAAAAATTCCAAACA
ACGGAACATTGCCTCTTATGTAAAAAAAAGGGCCTTGAGCAAACATGCAATAATATGAAACGATC
Found at i:7647716 original size:23 final size:23
Alignment explanation
Indices: 7647671--7647722 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
7647661 AAATGGTGAG
* * *
7647671 AATAATAATGATAATAACCATAT
1 AATAAGAATGACAATAACAATAT
*
7647694 AATAAGAATGACAATAATAATAT
1 AATAAGAATGACAATAACAATAT
*
7647717 TATAAG
1 AATAAG
7647723 TGAAAACCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (23 bp):
AATAAGAATGACAATAACAATAT
Found at i:7647802 original size:3 final size:3
Alignment explanation
Indices: 7647794--7647855 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
7647784 GACTTCATAG
* * *
7647794 TAA TAA TAA TAA TAA TGA TAA CAA TAA TAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
7647842 TAA TAA TAG TAA TA
1 TAA TAA TAA TAA TA
7647856 TTTAAAGTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:7650558 original size:8 final size:8
Alignment explanation
Indices: 7650545--7650569 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7650535 AAATAAATGC
7650545 AAAAGAAT
1 AAAAGAAT
7650553 AAAAGAAT
1 AAAAGAAT
7650561 AAAAGAAT
1 AAAAGAAT
7650569 A
1 A
7650570 TATATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAAGAAT
Found at i:7652230 original size:30 final size:30
Alignment explanation
Indices: 7652194--7652256 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
7652184 ACTTATTTTA
7652194 TTGTTAACTTTGTTATTATTTTAAAGACAT
1 TTGTTAACTTTGTTATTATTTTAAAGACAT
* * *
7652224 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAACTTTGTTATTATTTTAAAGACAT
7652254 TTG
1 TTG
7652257 CTTGTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAACTTTGTTATTATTTTAAAGACAT
Found at i:7654747 original size:52 final size:52
Alignment explanation
Indices: 7654690--7654793 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
7654680 TATAGTTTAA
7654690 CCTATTTTTAAATAGTAAAACAAGTCCTGCGAAGTCAATCCAAATTTAAACT
1 CCTATTTTTAAATAGTAAAACAAGTCCTGCGAAGTCAATCCAAATTTAAACT
*
7654742 CCTATTTTTAAATAGTAAAACAAGTCCTGTGAAGTCAATCCAAATTTAAACT
1 CCTATTTTTAAATAGTAAAACAAGTCCTGCGAAGTCAATCCAAATTTAAACT
7654794 ATCTAAACCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (52 bp):
CCTATTTTTAAATAGTAAAACAAGTCCTGCGAAGTCAATCCAAATTTAAACT
Found at i:7657329 original size:14 final size:14
Alignment explanation
Indices: 7657312--7657347 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7657302 TGTTTTGTCT
7657312 TTTATCTTTA-TTTA
1 TTTAT-TTTATTTTA
7657326 TTTATTTTATTTTA
1 TTTATTTTATTTTA
7657340 TTTATTTT
1 TTTATTTT
7657348 TTATGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:7657341 original size:18 final size:19
Alignment explanation
Indices: 7657311--7657346 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
7657301 ATGTTTTGTC
7657311 TTTTATCTTTATTTATTTA
1 TTTTATCTTTATTTATTTA
7657330 TTTTAT-TTTATTTATTT
1 TTTTATCTTTATTTATTT
7657347 TTTATGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATCTTTATTTATTTA
Found at i:7657427 original size:34 final size:34
Alignment explanation
Indices: 7657388--7657476 Score: 91
Period size: 34 Copynumber: 2.7 Consensus size: 34
7657378 TATATTTGAA
* *
7657388 ATATTTTATAATATATTTTGTAGATTTTAAATAT
1 ATATTTTATAATATATTTTATAAATTTTAAATAT
7657422 ATATTTT-TAA-ATTATTTTTATAAATTTTAAATAT
1 ATATTTTATAATA-TA-TTTTATAAATTTTAAATAT
*
7657456 -T-TTTT-TAA-ATATTTTTTAAAT
1 ATATTTTATAATATATTTTATAAAT
7657477 ATTTTTTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
30 9 0.18
31 2 0.04
32 9 0.18
33 6 0.12
34 24 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (34 bp):
ATATTTTATAATATATTTTATAAATTTTAAATAT
Found at i:7657431 original size:14 final size:12
Alignment explanation
Indices: 7657412--7657510 Score: 58
Period size: 12 Copynumber: 8.7 Consensus size: 12
7657402 ATTTTGTAGA
7657412 TTTTAAATATATAT
1 TTTTAAAT-TAT-T
7657426 TTTTAAATTA-T
1 TTTTAAATTATT
7657437 TTTTATAA--A--
1 TTTTA-AATTATT
7657446 TTTTAAA-TATTT
1 TTTTAAATTA-TT
7657458 TTTTAAA-TATT
1 TTTTAAATTATT
7657469 TTTTAAA-TATTT
1 TTTTAAATTA-TT
7657481 TTTTAAA--A-T
1 TTTTAAATTATT
*
7657490 TTTAAACATTATT
1 TTTTAA-ATTATT
7657503 TTTTAAAT
1 TTTTAAAT
7657511 ATTAAATATT
Statistics
Matches: 73, Mismatches: 2, Indels: 22
0.75 0.02 0.23
Matches are distributed among these distances:
8 2 0.03
9 12 0.16
10 2 0.03
11 18 0.25
12 23 0.32
13 8 0.11
14 8 0.11
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTAAATTATT
Found at i:7657448 original size:21 final size:21
Alignment explanation
Indices: 7657419--7657524 Score: 76
Period size: 21 Copynumber: 5.0 Consensus size: 21
7657409 AGATTTTAAA
*
7657419 TATATATTTTTAAATTATTTT
1 TATAAATTTTTAAATTATTTT
7657440 TATAAA-TTTTAAA-TATTTT
1 TATAAATTTTTAAATTATTTT
*
7657459 TTTAAATATTTTTTAAA-TATTTT
1 TAT-AA-A-TTTTTAAATTATTTT
* *
7657482 TTTAAAATTTTAAACATTATTTT
1 TAT-AAATTTTTAA-ATTATTTT
* *
7657505 T-TAAATATTAAATATTATTT
1 TATAAATTTTTAA-ATTATTT
7657525 AGCATTTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 12
0.81 0.05 0.13
Matches are distributed among these distances:
19 8 0.11
20 9 0.12
21 28 0.38
22 3 0.04
23 26 0.35
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (21 bp):
TATAAATTTTTAAATTATTTT
Found at i:7657458 original size:43 final size:42
Alignment explanation
Indices: 7657412--7657513 Score: 107
Period size: 45 Copynumber: 2.3 Consensus size: 42
7657402 ATTTTGTAGA
7657412 TTTTAAATATATATTTTTAAATTATTTTTAT-AAATTTTAAATATT
1 TTTTAAA-ATAT-TTTTTAAA-TATTTTTATAAAATTTTAAATA-T
* *
7657457 TTTTTAAATATTTTTTAAATATTTTTTTAAAATTTTAAACATTAT
1 TTTTAAAATATTTTTTAAATATTTTTATAAAATTTT-AA-A-TAT
*
7657502 TTTTTAAATATT
1 TTTTAAAATATT
7657514 AAATATTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
42 8 0.16
43 15 0.29
44 6 0.12
45 20 0.39
46 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (42 bp):
TTTTAAAATATTTTTTAAATATTTTTATAAAATTTTAAATAT
Found at i:7657476 original size:23 final size:23
Alignment explanation
Indices: 7657446--7657513 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
7657436 TTTTTATAAA
7657446 TTTTAAATATTTTTTTAAATATT
1 TTTTAAATATTTTTTTAAATATT
7657469 TTTTAAATATTTTTTTAAA-A--
1 TTTTAAATATTTTTTTAAATATT
*
7657489 TTTTAAACATTATTTTTTAAATATT
1 TTTTAAATA-T-TTTTTTAAATATT
7657514 AAATATTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
20 8 0.21
21 1 0.03
22 10 0.26
23 20 0.51
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTAAATATTTTTTTAAATATT
Found at i:7657482 original size:12 final size:12
Alignment explanation
Indices: 7657446--7657492 Score: 80
Period size: 12 Copynumber: 4.1 Consensus size: 12
7657436 TTTTTATAAA
7657446 TTTTAAATATTT
1 TTTTAAATATTT
7657458 TTTTAAATA-TT
1 TTTTAAATATTT
7657469 TTTTAAATATTT
1 TTTTAAATATTT
7657481 TTTTAAA-ATTT
1 TTTTAAATATTT
7657492 T
1 T
7657493 AAACATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 16 0.47
12 18 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTAAATATTT
Found at i:7657504 original size:12 final size:12
Alignment explanation
Indices: 7657411--7657487 Score: 72
Period size: 11 Copynumber: 6.7 Consensus size: 12
7657401 TATTTTGTAG
7657411 ATTTTAAATATAT
1 ATTTTAAATAT-T
*
7657424 ATTTTTAA-ATT
1 ATTTTAAATATT
* *
7657435 ATTTT-TATA-A
1 ATTTTAAATATT
7657445 ATTTTAAATATT
1 ATTTTAAATATT
*
7657457 TTTTTAAATATT
1 ATTTTAAATATT
7657469 -TTTTAAATATT
1 ATTTTAAATATT
*
7657480 TTTTTAAA
1 ATTTTAAA
7657488 ATTTTAAACA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
10 6 0.11
11 21 0.39
12 20 0.37
13 7 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTTAAATATT
Found at i:7657539 original size:20 final size:19
Alignment explanation
Indices: 7657482--7657554 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
7657472 TAAATATTTT
* *
7657482 TTTAAAATTTTAAACATTATT
1 TTTAAAA-TTTAAA-AATATA
* *
7657503 TTTTAAATATTAAATAT-TA
1 TTTAAAAT-TTAAAAATATA
**
7657522 TTTAGCATTTAAAAATATA
1 TTTAAAATTTAAAAATATA
7657541 TTTAAAATTTAAAA
1 TTTAAAATTTAAAA
7657555 TTTAAAATAA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
18 7 0.17
19 20 0.50
20 2 0.05
21 11 0.28
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (19 bp):
TTTAAAATTTAAAAATATA
Found at i:7657550 original size:7 final size:7
Alignment explanation
Indices: 7657540--7657577 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
7657530 TTAAAAATAT
7657540 ATTTAAA
1 ATTTAAA
7657547 ATTTAAA
1 ATTTAAA
7657554 ATTTAAA
1 ATTTAAA
*
7657561 A--TAAT
1 ATTTAAA
7657566 ATTTAAA
1 ATTTAAA
7657573 ATTTA
1 ATTTA
7657578 GAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.15
7 23 0.85
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTTAAA
Found at i:7657557 original size:26 final size:26
Alignment explanation
Indices: 7657528--7657577 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
7657518 ATTATTTAGC
7657528 ATTTAAAA-ATATATTTAAAATTTAAA
1 ATTTAAAATA-ATATTTAAAATTTAAA
7657554 ATTTAAAATAATATTTAAAATTTA
1 ATTTAAAATAATATTTAAAATTTA
7657578 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATTTAAAATAATATTTAAAATTTAAA
Found at i:7657569 original size:19 final size:20
Alignment explanation
Indices: 7657546--7657593 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
7657536 ATATATTTAA
7657546 AATTTAAAATTTA-AAATAAT
1 AATTTAAAATTTAGAAA-AAT
7657566 -ATTTAAAATTTAGAAAAAT
1 AATTTAAAATTTAGAAAAAT
7657585 AATTTAAAA
1 AATTTAAAA
7657594 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AATTTAAAATTTAGAAAAAT
Found at i:7657667 original size:9 final size:9
Alignment explanation
Indices: 7657653--7657696 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
7657643 TTAATCATAA
7657653 AAAATAAAT
1 AAAATAAAT
7657662 AAAATAAAAT
1 AAAAT-AAAT
*
7657672 AAAATAAAC
1 AAAATAAAT
7657681 AAAATAAAT
1 AAAATAAAT
7657690 -AAATAAA
1 AAAATAAA
7657697 GATAAAAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 7 0.22
9 16 0.50
10 9 0.28
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:7657668 original size:5 final size:5
Alignment explanation
Indices: 7657653--7657745 Score: 58
Period size: 5 Copynumber: 19.8 Consensus size: 5
7657643 TTAATCATAA
*
7657653 AAAAT -AAAT AAAAT AAAAT AAAAT -AAAC AAAAT -AAAT -AAAT AAAGAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT
* * * * *
7657700 AAAAG ACAA- AACAT -AAA- AAAAT AAAAAT AAACT AAAGT AAAA- AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
7657746 AAAGAAAAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
4 26 0.37
5 34 0.49
6 10 0.14
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:7657669 original size:28 final size:27
Alignment explanation
Indices: 7657655--7657735 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
7657645 AATCATAAAA
7657655 AATAAATAAAATAAAATAAAATAAACAA
1 AATAAAT-AAATAAAATAAAATAAACAA
*
7657683 AATAAATAAATAAAGATAAAAGACAA-AA
1 AATAAATAAATAAA-ATAAAATA-AACAA
* * *
7657711 CATAAAAAAATAAAAATAAACTAAA
1 AATAAATAAAT-AAAATAAAATAAA
7657736 GTAAAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 9 0.20
28 31 0.69
29 5 0.11
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (27 bp):
AATAAATAAATAAAATAAAATAAACAA
Found at i:7657670 original size:14 final size:14
Alignment explanation
Indices: 7657653--7657745 Score: 70
Period size: 14 Copynumber: 6.6 Consensus size: 14
7657643 TTAATCATAA
7657653 AAAAT-AAATAAAAT
1 AAAATAAAAT-AAAT
*
7657667 AAAATAAAATAAAC
1 AAAATAAAATAAAT
7657681 AAAAT-AAATAAAT
1 AAAATAAAATAAAT
*
7657694 AAAGATAAAAGACAA-
1 AAA-ATAAAATA-AAT
*
7657709 AACATAAAA-AAAT
1 AAAATAAAATAAAT
*
7657722 AAAAATAAACTAAAGT
1 -AAAATAAAATAAA-T
7657738 AAAA-AAAA
1 AAAATAAAA
7657746 AAAGAAAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
12 2 0.03
13 11 0.17
14 31 0.48
15 17 0.27
16 3 0.05
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:7658226 original size:21 final size:21
Alignment explanation
Indices: 7658201--7658240 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7658191 ATATTTAATT
*
7658201 TTGAAAAATTTAATAATTATA
1 TTGAAAAAATTAATAATTATA
7658222 TTGAAAAAATTAATAATTA
1 TTGAAAAAATTAATAATTA
7658241 AGTGACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TTGAAAAAATTAATAATTATA
Found at i:7658251 original size:22 final size:22
Alignment explanation
Indices: 7658204--7658245 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7658194 TTTAATTTTG
*
7658204 AAAAATTTAATAATTATATTGA
1 AAAAATTTAATAATTATAGTGA
7658226 AAAAA-TTAATAATTA-AGTGA
1 AAAAATTTAATAATTATAGTGA
7658246 CTAAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
AAAAATTTAATAATTATAGTGA
Found at i:7659088 original size:20 final size:20
Alignment explanation
Indices: 7659048--7659088 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
7659038 AACAAAATCG
7659048 AACAAAACAAAACAAAGCAA
1 AACAAAACAAAACAAAGCAA
*
7659068 AACAAAACAAAACAAATCAA
1 AACAAAACAAAACAAAGCAA
7659088 A
1 A
7659089 TAGAGCAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.76, C:0.20, G:0.02, T:0.02
Consensus pattern (20 bp):
AACAAAACAAAACAAAGCAA
Found at i:7659089 original size:5 final size:5
Alignment explanation
Indices: 7659048--7659088 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
7659038 AACAAAATCG
* *
7659048 AACAA AACAA AACAA AGCAA AACAA AACAA AACAA ATCAA A
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACAA A
7659089 TAGAGCAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.76, C:0.20, G:0.02, T:0.02
Consensus pattern (5 bp):
AACAA
Found at i:7659519 original size:20 final size:20
Alignment explanation
Indices: 7659496--7659555 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
7659486 AAATTTTAGG
*
7659496 ATTTATTTC-CATCTATCTTT
1 ATTTATTTCTAAT-TATCTTT
*
7659516 ATTTATCTCTAATTATCTTT
1 ATTTATTTCTAATTATCTTT
* *
7659536 ATTTATTTGTATTTATCTTT
1 ATTTATTTCTAATTATCTTT
7659556 TAGAATTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.22, C:0.13, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTATTTCTAATTATCTTT
Found at i:7659541 original size:10 final size:10
Alignment explanation
Indices: 7659509--7659555 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
7659499 TATTTCCATC
7659509 TATCTTTATT
1 TATCTTTATT
* *
7659519 TATCTCTAAT
1 TATCTTTATT
7659529 TATCTTTATT
1 TATCTTTATT
7659539 TAT-TTGTATT
1 TATCTT-TATT
7659549 TATCTTT
1 TATCTTT
7659556 TAGAATTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.87
11 2 0.06
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (10 bp):
TATCTTTATT
Found at i:7660297 original size:17 final size:18
Alignment explanation
Indices: 7660265--7660298 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7660255 TTTTCCTCAT
7660265 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
7660283 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
7660299 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:7662049 original size:17 final size:17
Alignment explanation
Indices: 7662027--7662075 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
7662017 AGTATTGAGG
7662027 ACCAAATGTATTATTAT
1 ACCAAATGTATTATTAT
*
7662044 ACCAAATATATTATTAT
1 ACCAAATGTATTATTAT
7662061 ACCAAATGTATTATT
1 ACCAAATGTATTATT
7662076 GTATTCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (17 bp):
ACCAAATGTATTATTAT
Found at i:7663626 original size:55 final size:55
Alignment explanation
Indices: 7663435--7663601 Score: 298
Period size: 57 Copynumber: 3.0 Consensus size: 55
7663425 AGAAAATAAG
7663435 AAGAAATAATGAAAATAAAGGAAAAAAGAAAAAAAATTATTGTTACAAATTTAAC
1 AAGAAATAATGAAAATAAAGGAAAAAAGAAAAAAAATTATTGTTACAAATTTAAC
7663490 AAGAAATAATGAAAATAAAGGAAAAAAGAAAAAACAAATTATTGTTACAAATTTAAC
1 AAGAAATAATGAAAATAAAGGAAAAAAG-AAAAA-AAATTATTGTTACAAATTTAAC
* *
7663547 AAGAAATAATGAAAATAAAGGAAAAAAGGAAAAAAATTATTGTTAAAAATTTAAC
1 AAGAAATAATGAAAATAAAGGAAAAAAGAAAAAAAATTATTGTTACAAATTTAAC
7663602 CACAATTAAT
Statistics
Matches: 108, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
55 49 0.45
56 9 0.08
57 50 0.46
ACGTcount: A:0.63, C:0.04, G:0.11, T:0.22
Consensus pattern (55 bp):
AAGAAATAATGAAAATAAAGGAAAAAAGAAAAAAAATTATTGTTACAAATTTAAC
Found at i:7667230 original size:19 final size:19
Alignment explanation
Indices: 7667208--7667269 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
7667198 AATTTAAAAG
7667208 AAAATATATAAAA-ATATA
1 AAAATATATAAAATATATA
* * *
7667226 TAAAATTTTTAAAATATAAA
1 -AAAATATATAAAATATATA
7667246 AGAAAT-TAT-AAAT-TATA
1 A-AAATATATAAAATATATA
7667263 AAAATAT
1 AAAATAT
7667270 GTGTATCTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.11
17 5 0.14
18 4 0.11
19 14 0.40
20 8 0.23
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATATATAAAATATATA
Found at i:7669703 original size:70 final size:70
Alignment explanation
Indices: 7669620--7669762 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
7669610 TAATAACTAT
7669620 AATTAATTTGCTCCTAATTTCAATATACATATTAGATACATTTTTAAAATAATGTTTTTCTTTCT
1 AATTAATTTGCTCCTAATTTCAATATACATATTAGATACATTTTTAAAATAATGTTTTTCTTTCT
7669685 TATAC
66 TATAC
7669690 AATTAATTTGCTCCTAATTTCAATATACATATTAGATACATTTTTAAAATAATGTTTTTCTTTCT
1 AATTAATTTGCTCCTAATTTCAATATACATATTAGATACATTTTTAAAATAATGTTTTTCTTTCT
7669755 TATAC
66 TATAC
7669760 AAT
1 AAT
7669763 ATTGAGGTAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (70 bp):
AATTAATTTGCTCCTAATTTCAATATACATATTAGATACATTTTTAAAATAATGTTTTTCTTTCT
TATAC
Found at i:7678781 original size:24 final size:24
Alignment explanation
Indices: 7678749--7678801 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
7678739 TAATTTGTAC
* *
7678749 ATATTAAAATAAAAACATATG-GAA
1 ATATCAAAAT-AAAACATATGAAAA
*
7678773 ATATCAAAATGAAACATATGAAAA
1 ATATCAAAATAAAACATATGAAAA
7678797 ATATC
1 ATATC
7678802 CAATTGGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (24 bp):
ATATCAAAATAAAACATATGAAAA
Found at i:7679214 original size:19 final size:21
Alignment explanation
Indices: 7679190--7679236 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
7679180 GTTACATAGT
7679190 AAATAACTT-C-GTCAACGGA
1 AAATAACTTACAGTCAACGGA
*
7679209 AAATAACTTACAGGTCAACGTA
1 AAATAACTTACA-GTCAACGGA
7679231 AAATAA
1 AAATAA
7679237 GTCCATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 1 0.04
22 14 0.58
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (21 bp):
AAATAACTTACAGTCAACGGA
Found at i:7679404 original size:10 final size:10
Alignment explanation
Indices: 7679389--7679414 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7679379 TATTTTTATT
7679389 TTTAAAAATA
1 TTTAAAAATA
7679399 TTTAAAAATA
1 TTTAAAAATA
7679409 TTTAAA
1 TTTAAA
7679415 TATTAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:7679459 original size:25 final size:28
Alignment explanation
Indices: 7679409--7679462 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 28
7679399 TTTAAAAATA
7679409 TTTAAATATTAGTATAAAATATTATATT
1 TTTAAATATTAGTATAAAATATTATATT
7679437 TTTAAA-ATTA-T-TAAACATA-TATATT
1 TTTAAATATTAGTATAAA-ATATTATATT
7679462 T
1 T
7679463 AATTATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 11 0.44
26 4 0.16
27 4 0.16
28 6 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
TTTAAATATTAGTATAAAATATTATATT
Found at i:7679483 original size:16 final size:18
Alignment explanation
Indices: 7679453--7679485 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
7679443 ATTATTAAAC
7679453 ATATATATTTAATTATTA
1 ATATATATTTAATTATTA
7679471 ATATA-ATTT-ATTATT
1 ATATATATTTAATTATT
7679486 TTAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATATATTTAATTATTA
Found at i:7681303 original size:90 final size:91
Alignment explanation
Indices: 7681200--7681429 Score: 281
Period size: 90 Copynumber: 2.5 Consensus size: 91
7681190 TTAAGTCCCA
* * *
7681200 TTTTTTTTTGCACTCAATTGGATACCTGAACTTTCAAGGTGTATCAAAAAGG-CTCTCAAACTTT
1 TTTTTTTTTGCACTCAATTGGATACTTGAACTTTCAAAGTGCATCAAAAAGGTC-CTCAAACTTT
* * * *
7681264 TT-AAAAAAA-GTAATTAAGCCTCTGC
65 TTCAAAAAAATGCAATTAACCCCCTAC
* * * *
7681289 TTTTTTTTTTGCACTCAATTGGGTACTTGAA-TATTCAAAATGCATTAAAAAGGTCCTCAAATTT
1 -TTTTTTTTTGCACTCAATTGGATACTTGAACT-TTCAAAGTGCATCAAAAAGGTCCTCAAACTT
7681353 TTTCAAAAAAATGCAATTAACCCCCTAC
64 TTTCAAAAAAATGCAATTAACCCCCTAC
* *
7681381 TTTTTTTTTGCACT-AACTGGATACTTGAACTGTCAAAGTGCATCAAAAA
1 TTTTTTTTTGCACTCAATTGGATACTTGAACTTTCAAAGTGCATCAAAAA
7681430 AGCCCCGTGA
Statistics
Matches: 119, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
89 1 0.01
90 83 0.70
91 23 0.19
92 12 0.10
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (91 bp):
TTTTTTTTTGCACTCAATTGGATACTTGAACTTTCAAAGTGCATCAAAAAGGTCCTCAAACTTTT
TCAAAAAAATGCAATTAACCCCCTAC
Found at i:7681600 original size:30 final size:29
Alignment explanation
Indices: 7681538--7681599 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
7681528 TAAAATCAAT
* **
7681538 AAAATATATAAAAATTATAAAATTTTATA
1 AAAATATAAAAAAATTATAAAATTGCATA
7681567 AAAATCATAAAAAAATTAT-AAATTGCATA
1 AAAAT-ATAAAAAAATTATAAAATTGCATA
7681596 AAAA
1 AAAA
7681600 AGGCCCTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAATATAAAAAAATTATAAAATTGCATA
Found at i:7681812 original size:19 final size:18
Alignment explanation
Indices: 7681773--7681836 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
7681763 ATAATTTTTA
*
7681773 TATATTTT-TTACGAATCT
1 TATATTTTATTAC-AATTT
*
7681791 TATATTTCT-TTACATTTTT
1 TATATTT-TATTACA-ATTT
7681810 TATAATTTTATTACAATTT
1 TAT-ATTTTATTACAATTT
7681829 TATATTTT
1 TATATTTT
7681837 TTCTATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 13 0.33
19 17 0.44
20 9 0.23
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (18 bp):
TATATTTTATTACAATTT
Found at i:7681830 original size:28 final size:28
Alignment explanation
Indices: 7681799--7681856 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
7681789 CTTATATTTC
*
7681799 TTTACATTTTTTATAATTTTATTACAAT
1 TTTACATTTTTTATAATTTTATTAAAAT
* * *
7681827 TTTATATTTTTTCTATTTTTATTAAAAT
1 TTTACATTTTTTATAATTTTATTAAAAT
7681855 TT
1 TT
7681857 AATAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTACATTTTTTATAATTTTATTAAAAT
Done.