Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 94 of 362
Found at i:30251261 original size:143 final size:142
Alignment explanation
Indices: 30251018--30251321 Score: 522
Period size: 143 Copynumber: 2.1 Consensus size: 142
30251008 ATCACAGTTT
* * *
30251018 TACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCAT
1 TACACTTTCACATT-CATCACATTGACCATTCGGCCTTATCATATACATACACTTTCACATTCAT
30251082 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
65 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
30251147 TTATCAC-ATACA
130 TTATCACAATACA
*
30251159 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCA
1 TACACTTTCACATTCATCACATTGACCATTCGGCCTTAT--CATATACATACACTTTCACATTCA
30251224 TCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
64 TCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
30251289 CTTATCACATATACA
129 CTTATCACA-ATACA
30251304 TACACTTTCACATTCATC
1 TACACTTTCACATTCATC
30251322 GTAACAAAAT
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
141 34 0.22
142 2 0.01
143 95 0.62
145 23 0.15
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (142 bp):
TACACTTTCACATTCATCACATTGACCATTCGGCCTTATCATATACATACACTTTCACATTCATC
ACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCT
TATCACAATACA
Found at i:30255559 original size:40 final size:40
Alignment explanation
Indices: 30255367--30255560 Score: 309
Period size: 40 Copynumber: 4.9 Consensus size: 40
30255357 ATTTTGTCCA
* * *
30255367 AGCATGAATGC-CTTCGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
* * *
30255406 AGCACGAATACTCTTCGGGACTTAGCCCAGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
*
30255446 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCATC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
30255486 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
*
30255526 AGCACGAATGCTCTTCGGGACTTACCCCGGATATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
30255561 ACATACTGAA
Statistics
Matches: 144, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 9 0.06
40 135 0.94
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
Found at i:30257429 original size:47 final size:47
Alignment explanation
Indices: 30257378--30257667 Score: 474
Period size: 47 Copynumber: 6.1 Consensus size: 47
30257368 TTTCCACTTC
* * *
30257378 CATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCATATACATACACTTTCACATT
*
30257425 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCATATACATACACTTTCACATT
30257472 CATCACATTGGCCATTCGGCCTTATCACT-TACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCA-TATACATACACTTTCACATT
30257519 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTAT--CATATACATACACTTTCACATT
*
30257568 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCATATACATACACTTTCACATT
*
30257615 CATCACATTGGCCATTCGGCCTTATCACATTTACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTAT--CATATACATACACTTTCACATT
30257664 CATC
1 CATC
30257668 GTAACAAAAT
Statistics
Matches: 229, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
47 159 0.69
48 1 0.00
49 69 0.30
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (47 bp):
CATCACATTGGCCATTCGGCCTTATCATATACATACACTTTCACATT
Found at i:30257592 original size:96 final size:96
Alignment explanation
Indices: 30257378--30257667 Score: 505
Period size: 96 Copynumber: 3.0 Consensus size: 96
30257368 TTTCCACTTC
* * *
30257378 CATCACATTGACCATTCGGCCTTATCA-TATATATATACTTTCACATTCATCACATTGGCCATTC
1 CATCACATTGGCCATTCGGCCTTATCACT-TACATACACTTTCACATTCATCACATTGGCCATTC
30257442 GGCCTTATCAC--ATACATACACTTTCACATT
65 GGCCTTATCACATATACATACACTTTCACATT
30257472 CATCACATTGGCCATTCGGCCTTATCACTTACATACACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCACTTACATACACTTTCACATTCATCACATTGGCCATTCG
30257537 GCCTTATCACATATACATACACTTTCACATT
66 GCCTTATCACATATACATACACTTTCACATT
*
30257568 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCACTTACATACACTTTCACATTCATCACATTGGCCATTCG
*
30257633 GCCTTATCACATTTACATACACTTTCACATT
66 GCCTTATCACATATACATACACTTTCACATT
30257664 CATC
1 CATC
30257668 GTAACAAAAT
Statistics
Matches: 188, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
94 70 0.37
95 1 0.01
96 117 0.62
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (96 bp):
CATCACATTGGCCATTCGGCCTTATCACTTACATACACTTTCACATTCATCACATTGGCCATTCG
GCCTTATCACATATACATACACTTTCACATT
Found at i:30257607 original size:143 final size:142
Alignment explanation
Indices: 30257378--30257667 Score: 519
Period size: 143 Copynumber: 2.0 Consensus size: 142
30257368 TTTCCACTTC
* *
30257378 CATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGACCATTCGGCCTTATCATATACATACACTTTCACATTCATCACATTGGCCATTCG
30257443 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-TTACATA
66 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATTACATA
30257507 CACTTTCACATT
131 CACTTTCACATT
*
30257519 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATT
1 CATCACATTGACCATTCGGCCTTAT--CATATACATACACTTTCACATTCATCACATTGGCCATT
30257584 CGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATTTAC
64 CGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-TTAC
30257649 ATACACTTTCACATT
128 ATACACTTTCACATT
30257664 CATC
1 CATC
30257668 GTAACAAAAT
Statistics
Matches: 142, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
141 24 0.17
143 95 0.67
145 23 0.16
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (142 bp):
CATCACATTGACCATTCGGCCTTATCATATACATACACTTTCACATTCATCACATTGGCCATTCG
GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATTACATA
CACTTTCACATT
Found at i:30263669 original size:13 final size:13
Alignment explanation
Indices: 30263653--30263677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30263643 TGAACGAAAT
30263653 TTTCATGAAATCA
1 TTTCATGAAATCA
30263666 TTTCATGAAATC
1 TTTCATGAAATC
30263678 GTAGACCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TTTCATGAAATCA
Found at i:30268167 original size:42 final size:42
Alignment explanation
Indices: 30268101--30268181 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 42
30268091 GCCAAAACTA
30268101 TGTGTAAGACCATATCTAGGATATGACATC-ATTATGAGACTT
1 TGTGTAAGACCATATCTAGGATATGACATCGA-TATGAGACTT
* *
30268143 TGTGTAAGACCATAT-TTGGTATATGGCATCGATATGAGA
1 TGTGTAAGACCATATCTAGG-ATATGACATCGATATGAGA
30268182 TTTCGTTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 3 0.09
42 31 0.89
43 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (42 bp):
TGTGTAAGACCATATCTAGGATATGACATCGATATGAGACTT
Found at i:30269368 original size:50 final size:50
Alignment explanation
Indices: 30269304--30269401 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
30269294 TGGCCTTAGC
* *
30269304 ACACGGGCGTGTGCCTTGGCCGTGTGACTTCAATTTGTTCATGGATGAGT
1 ACACGGGCATGTGCCTTGGCCGTGTGACTTCAATTTCTTCATGGATGAGT
**
30269354 ACACGGGCATGTGCCTTTTCCGTGTGACTTCAATTTCTTCATGGATGA
1 ACACGGGCATGTGCCTTGGCCGTGTGACTTCAATTTCTTCATGGATGA
30269402 CAAACAGAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (50 bp):
ACACGGGCATGTGCCTTGGCCGTGTGACTTCAATTTCTTCATGGATGAGT
Found at i:30278772 original size:24 final size:24
Alignment explanation
Indices: 30278727--30278772 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
30278717 TTGAGCTTAA
* *
30278727 CAGGTAACTCTGAAGAGTTATTAT
1 CAGGGAACTCTGAAGAGCTATTAT
* *
30278751 CAGGGAACTCTGGATAGCTATT
1 CAGGGAACTCTGAAGAGCTATT
30278773 TAACACGAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (24 bp):
CAGGGAACTCTGAAGAGCTATTAT
Found at i:30278952 original size:25 final size:24
Alignment explanation
Indices: 30278924--30278985 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
30278914 CACTACTGAT
*
30278924 CAAGATGCTCGTAGGAA-CTATGTAA
1 CAAGATGCTCGTA-GAAGCT-TATAA
30278949 CAAGAATGCTCG-AGAAGGCTTATAA
1 CAAG-ATGCTCGTAGAA-GCTTATAA
30278974 CAAGATGCTCGT
1 CAAGATGCTCGT
30278986 CCCAACTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
24 10 0.31
25 13 0.41
26 9 0.28
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (24 bp):
CAAGATGCTCGTAGAAGCTTATAA
Found at i:30299541 original size:25 final size:24
Alignment explanation
Indices: 30299499--30299550 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
30299489 CACAAACACA
*
30299499 GCTCTTTATGGGCGTCCTAATATAG
1 GCTCTTTATGAGCGTCCTAATAT-G
* * *
30299524 GCTCTTTGTGAGCTTCCTGATATG
1 GCTCTTTATGAGCGTCCTAATATG
30299548 GCT
1 GCT
30299551 TGCTTGAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTAATATG
Found at i:30310647 original size:27 final size:27
Alignment explanation
Indices: 30310585--30310696 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
30310575 AGCATGGCTG
* * * *
30310585 CCAGAACAGATA-ATGTGACATAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
30310611 CCAGATACAGATATTTGTGGTAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
30310639 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
* * *
30310666 CTAGAACAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
30310693 CCAG
1 CCAG
30310697 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.74
28 14 0.19
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:30313816 original size:30 final size:30
Alignment explanation
Indices: 30313777--30313839 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
30313767 TATGATATGC
* * *
30313777 TATCTTGGATTTCTGTACCTTGGA-TATCTT
1 TATCATGGATTCCTCTACCTTGGACT-TCTT
*
30313807 TATCATGGATTCCTCTATCTTGGACTTCTT
1 TATCATGGATTCCTCTACCTTGGACTTCTT
30313837 TAT
1 TAT
30313840 TCTGGTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.49
Consensus pattern (30 bp):
TATCATGGATTCCTCTACCTTGGACTTCTT
Found at i:30319227 original size:30 final size:30
Alignment explanation
Indices: 30319192--30319257 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
30319182 ACCCCAGGGG
30319192 ACACACGGCCGTGCAACATGATCATGTGTC
1 ACACACGGCCGTGCAACATGATCATGTGTC
30319222 ACACACGGCCGTGCAACATGATCATGTGTC
1 ACACACGGCCGTGCAACATGATCATGTGTC
30319252 ACACAC
1 ACACAC
30319258 AGCTAAGACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (30 bp):
ACACACGGCCGTGCAACATGATCATGTGTC
Found at i:30320210 original size:23 final size:23
Alignment explanation
Indices: 30320176--30320264 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
30320166 CTGATGAATA
*
30320176 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCCATTGAGCTGAAACG
** *
30320199 GTAAGCTTTATTGAGCTG-AACA
1 GTAAGCTCCATTGAGCTGAAACG
* *
30320221 GTAAGCT-CATATGAGCTAAAATG
1 GTAAGCTCCAT-TGAGCTGAAACG
*
30320244 GTAAGCTCCAATGAGCTGAAA
1 GTAAGCTCCATTGAGCTGAAA
30320265 ACAGCAAGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
21 2 0.04
22 16 0.29
23 35 0.64
24 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (23 bp):
GTAAGCTCCATTGAGCTGAAACG
Found at i:30320259 original size:45 final size:45
Alignment explanation
Indices: 30320170--30320263 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
30320160 CCTGAGCTGA
* * ** *
30320170 TGAATAGTAAGCTCTATTGAGCTGAAACGGTAAGCTTTATTGAGC
1 TGAACAGTAAGCTCTATTGAGCTAAAACGGTAAGCTCCAATGAGC
*
30320215 TGAACAGTAAGCTC-ATATGAGCTAAAATGGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCTAT-TGAGCTAAAACGGTAAGCTCCAATGAGC
30320260 TGAA
1 TGAA
30320264 AACAGCAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 2 0.05
45 40 0.95
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (45 bp):
TGAACAGTAAGCTCTATTGAGCTAAAACGGTAAGCTCCAATGAGC
Found at i:30323842 original size:178 final size:178
Alignment explanation
Indices: 30323543--30323898 Score: 694
Period size: 178 Copynumber: 2.0 Consensus size: 178
30323533 AGTAGAGGTC
30323543 AACCGAGGGAGGAGAAAATAATGGAAGCTTTCTGCAAAGTTTTAAAAGAATGTCAATTAATGGAC
1 AACCGAGGGAGGAGAAAATAATGGAAGCTTTCTGCAAAGTTTTAAAAGAATGTCAATTAATGGAC
30323608 GTGGGGTATTCGGGGGTTTGGTTTACATGGGAGAAAGGGAATCTGACTGGATAGGGGCGTGGCAA
66 GTGGGGTATTCGGGGGTTTGGTTTACATGGGAGAAAGGGAATCTGACTGGATAGGGGCGTGGCAA
*
30323673 ATGAAAAGTGGATGCATCTTTTCCAAAAAGGAATTATTCATCATTTAA
131 ATGAAAAGTGGATGCAGCTTTTCCAAAAAGGAATTATTCATCATTTAA
30323721 AACCGAGGGAGGAGAAAATAATGGAAGCTTTCTGCAAAGTTTTAAAAGAATGTCAATTAATGGAC
1 AACCGAGGGAGGAGAAAATAATGGAAGCTTTCTGCAAAGTTTTAAAAGAATGTCAATTAATGGAC
*
30323786 GTGGGGTATTCGGGGGTTTGGTTTACATGGGAGAGAGGGAATCTGACTGGATAGGGGCGTGGCAA
66 GTGGGGTATTCGGGGGTTTGGTTTACATGGGAGAAAGGGAATCTGACTGGATAGGGGCGTGGCAA
30323851 ATGAAAAGTGGATGCAGCTTTTCCAAAAAGGAATTATTCATCATTTAA
131 ATGAAAAGTGGATGCAGCTTTTCCAAAAAGGAATTATTCATCATTTAA
30323899 CACACTCGAT
Statistics
Matches: 176, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 176 1.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (178 bp):
AACCGAGGGAGGAGAAAATAATGGAAGCTTTCTGCAAAGTTTTAAAAGAATGTCAATTAATGGAC
GTGGGGTATTCGGGGGTTTGGTTTACATGGGAGAAAGGGAATCTGACTGGATAGGGGCGTGGCAA
ATGAAAAGTGGATGCAGCTTTTCCAAAAAGGAATTATTCATCATTTAA
Found at i:30326473 original size:38 final size:39
Alignment explanation
Indices: 30326362--30326542 Score: 215
Period size: 40 Copynumber: 4.6 Consensus size: 39
30326352 GCTACTCGTT
* *
30326362 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
*
30326402 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
* *
30326441 CCAATGCCTTCGGG-CTTAGCCCGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
* * * * *
30326479 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCA
30326520 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
30326543 GACATCATTC
Statistics
Matches: 122, Mismatches: 14, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
37 2 0.02
38 32 0.26
39 33 0.27
40 44 0.36
41 11 0.09
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:30332680 original size:15 final size:16
Alignment explanation
Indices: 30332662--30332702 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30332652 ATAAATAAAA
30332662 ATTAAATAAAA-TTAC
1 ATTAAATAAAATTTAC
30332677 ATTATAA-AAAATTTAC
1 ATTA-AATAAAATTTAC
30332693 ATT-AATAAAA
1 ATTAAATAAAA
30332703 AAATCACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTAAATAAAATTTAC
Found at i:30332692 original size:16 final size:16
Alignment explanation
Indices: 30332669--30332704 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
30332659 AAAATTAAAT
30332669 AAAATTACATT-ATAA
1 AAAATTACATTAATAA
30332684 AAAATTTACATTAATAA
1 AAAA-TTACATTAATAA
30332701 AAAA
1 AAAA
30332705 ATCACAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 7 0.37
17 8 0.42
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTACATTAATAA
Found at i:30332807 original size:99 final size:93
Alignment explanation
Indices: 30332688--30332959 Score: 289
Period size: 99 Copynumber: 2.9 Consensus size: 93
30332678 TTATAAAAAA
*
30332688 TTTACATTAATAAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAA
1 TTTAAATTAAT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAA
* ** **
30332753 ATTACTAACAAAATAACT-ATAATTTTTT
65 ATTACTAACAAAATAACTAAGAAAATAAT
* *
30332781 TTTAAAAATTACATTGCTAAAAAATCACAAAACACTAAACTAAACACTAACAAATTATAACCTAC
1 TTT--AAATTA-A----TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
* *
30332846 CCATAAATTACTAA-AAGAATAATTAAGAAAATAAT
59 TCATAAATTACTAACAA-AATAACTAAGAAAATAAT
* ** * ** *
30332881 TTTACATTAATAAAATTTCAAAAAACACTAAACTAAACAC-AACAATTTATAATGTAATCCTAAA
1 TTTAAATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAA
30332945 TTACTAACAAAATAA
66 TTACTAACAAAATAA
30332960 TTTTAAAATA
Statistics
Matches: 149, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
92 30 0.20
93 32 0.21
95 5 0.03
96 1 0.01
97 1 0.01
98 7 0.05
99 64 0.43
100 9 0.06
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.28
Consensus pattern (93 bp):
TTTAAATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAA
TTACTAACAAAATAACTAAGAAAATAAT
Found at i:30333129 original size:4 final size:4
Alignment explanation
Indices: 30333122--30333171 Score: 75
Period size: 4 Copynumber: 12.5 Consensus size: 4
30333112 AATATATATA
*
30333122 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC- TTCT TTTT TTCT TCTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T-TCT
30333170 TT
1 TT
30333172 TCTCTCCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 3 0.07
4 35 0.83
5 4 0.10
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:30333801 original size:16 final size:16
Alignment explanation
Indices: 30333775--30333814 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
30333765 TCAAAAAGCA
*
30333775 TTTATAAAAAAATATT
1 TTTATATAAAAATATT
*
30333791 TTTTTATAAAAATATT
1 TTTATATAAAAATATT
30333807 TTTATATA
1 TTTATATA
30333815 CTTTTTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTATATAAAAATATT
Found at i:30333992 original size:18 final size:18
Alignment explanation
Indices: 30333949--30333993 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
30333939 TGGCACCACC
*
30333949 TATTTTTTTAATAAATTT
1 TATTTTTTTAATAAATAT
*
30333967 TAATTTTTTAA-AAATAT
1 TATTTTTTTAATAAATAT
*
30333984 TATTATTTTA
1 TATTTTTTTA
30333994 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTTTAATAAATAT
Found at i:30334341 original size:14 final size:14
Alignment explanation
Indices: 30334319--30334352 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30334309 GAAAGGAGAG
*
30334319 AAAGGAGAAGAAAA
1 AAAGAAGAAGAAAA
*
30334333 AAAGAAGAAGAAAG
1 AAAGAAGAAGAAAA
30334347 AAAGAA
1 AAAGAA
30334353 AAAAAAGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAGAAAA
Found at i:30334527 original size:11 final size:12
Alignment explanation
Indices: 30334501--30334532 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
30334491 TTTATGAATG
30334501 TAATT-TTTTAA
1 TAATTATTTTAA
30334512 TAATTATTTTAA
1 TAATTATTTTAA
30334524 -AATTATTTT
1 TAATTATTTT
30334533 GTTAGTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TAATTATTTTAA
Found at i:30334625 original size:12 final size:12
Alignment explanation
Indices: 30334604--30334635 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30334594 ATTAATGTAA
30334604 AATAATTTTGTT
1 AATAATTTTGTT
*
30334616 AATTATTTTGTT
1 AATAATTTTGTT
30334628 AATAATTT
1 AATAATTT
30334636 ATGATTAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (12 bp):
AATAATTTTGTT
Found at i:30334780 original size:104 final size:103
Alignment explanation
Indices: 30334602--30335018 Score: 563
Period size: 107 Copynumber: 4.0 Consensus size: 103
30334592 TTATTAATGT
* * * *
30334602 AAAATAATTTTGTTAATTATTTTGTTAATAATTTATGATTAGGTTATAAATTGTTAGTATTTAGT
1 AAAATAATTTT-ATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGT
* * *
30334667 TTTGAATTTTGTAATTTTTTAGTAATGTAATTTTTTTTA
65 TTAGTATTTTGTAATTTTTTAGTAATGTAAATTTTTTTA
*
30334706 AAAATAATTTTATAGTTATTTTATTAGTAATTTATGATTAGGTTATAAAATTGTTAGTGTTTAGT
1 AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTAT-AAATTGTTAGTGTTTAGT
* *
30334771 TTAGTATTTTGTGATTTTTTTAGTAATGTAAATATTTTTA
65 TTAGTATTTTGT-AATTTTTTAGTAATGTAAATTTTTTTA
* *
30334811 AAAATAATTTTATAGTAATTTTGTTAGTAATTTATGATTAGGTGATAAATTGTTAGTGTTTAGTT
1 AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTT
*
30334876 TAGTGTTTTGTAATTTTTTAGTAATGTAAACTTTTATTTGTTTTA
66 TAGTATTTTGTAATTTTTTAGTAATGT-AA-----ATTT-TTTTA
*
30334921 AAAA-AA--TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTA-AAATTTGTTATTGTTTAGT
1 AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAA-TTGTTAGTGTTTAGT
* *
30334982 TTAGTATTTTGTGATTTTTTTGTAATGTAAATTTTTT
65 TTAGTATTTTGTAATTTTTTAGTAATGTAAATTTTTT
30335019 ATAATGTAAT
Statistics
Matches: 281, Mismatches: 22, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
100 3 0.01
101 4 0.01
103 46 0.16
104 69 0.25
105 67 0.24
106 5 0.02
107 73 0.26
109 5 0.02
110 9 0.03
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (103 bp):
AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTT
TAGTATTTTGTAATTTTTTAGTAATGTAAATTTTTTTA
Found at i:30334851 original size:208 final size:207
Alignment explanation
Indices: 30334601--30335033 Score: 615
Period size: 208 Copynumber: 2.1 Consensus size: 207
30334591 TTTATTAATG
* * *
30334601 TAAAATAATTTTGTTAATTATTTTGTTAATAATTTATGATTAGGTTATAAATTGTTAGTATTTAG
1 TAAAATAATTTT-ATAATAATTTTGTTAATAATTTATGATTAGGTGATAAATTGTTAGTATTTAG
*
30334666 TTTTGAATTTTGTAATTTTTTAGTAATGT-AA-T-TTT-TTTTAAAAATAATTTTATAGTTATTT
65 TTTAGAATTTTGTAATTTTTTAGTAATGTAAATTATTTGTTTTAAAAA-AA--TTATAGTTATTT
30334727 TATTAGTAATTTATGATTAGGTTATAAAATTGTTAGTGTTTAGTTTAGTATTTTGTGATTTTTTT
127 TATTAGTAATTTATGATTAGGTTA-AAAATTGTTAGTGTTTAGTTTAGTATTTTGTGATTTTTTT
30334792 AGTAATGTAAATATTTTTA
191 -GTAATGTAAAT-TTTTTA
* * *
30334811 -AAAATAATTTTATAGTAATTTTGTTAGTAATTTATGATTAGGTGATAAATTGTTAGTGTTTAGT
1 TAAAATAATTTTATAATAATTTTGTTAATAATTTATGATTAGGTGATAAATTGTTAGTATTTAGT
**
30334875 TTAGTGTTTTGTAATTTTTTAGTAATGTAAACTTTTATTTGTTTTAAAAAAATTATAGTTATTTT
66 TTAGAATTTTGTAATTTTTTAGTAATGTAAA---TTATTTGTTTTAAAAAAATTATAGTTATTTT
* * *
30334940 GTTAGTAATTTATGATTAGGTTAAAATTTGTTATTGTTTAGTTTAGTATTTTGTGATTTTTTTGT
128 ATTAGTAATTTATGATTAGGTTAAAAATTGTTAGTGTTTAGTTTAGTATTTTGTGATTTTTTTGT
30335005 AATGTAAATTTTTTA
193 AATGTAAATTTTTTA
**
30335020 TAATGTAATTTTAT
1 TAAAATAATTTTAT
30335034 TTGATTTTTA
Statistics
Matches: 201, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
208 72 0.36
209 19 0.09
210 22 0.11
211 38 0.19
212 35 0.17
213 1 0.00
214 5 0.02
215 9 0.04
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.55
Consensus pattern (207 bp):
TAAAATAATTTTATAATAATTTTGTTAATAATTTATGATTAGGTGATAAATTGTTAGTATTTAGT
TTAGAATTTTGTAATTTTTTAGTAATGTAAATTATTTGTTTTAAAAAAATTATAGTTATTTTATT
AGTAATTTATGATTAGGTTAAAAATTGTTAGTGTTTAGTTTAGTATTTTGTGATTTTTTTGTAAT
GTAAATTTTTTA
Found at i:30335029 original size:15 final size:16
Alignment explanation
Indices: 30334997--30335031 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30334987 ATTTTGTGAT
*
30334997 TTTTTTGTAATGTAAA
1 TTTTTTATAATGTAAA
30335013 TTTTTTATAATGT-AA
1 TTTTTTATAATGTAAA
30335028 TTTT
1 TTTT
30335032 ATTTGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (16 bp):
TTTTTTATAATGTAAA
Found at i:30336903 original size:33 final size:33
Alignment explanation
Indices: 30336860--30336980 Score: 100
Period size: 33 Copynumber: 3.7 Consensus size: 33
30336850 CAGCCGAATA
*
30336860 CCACCTCAGTACTCCACTCCTCTCGACCCGTAT
1 CCACCGCAGTACTCCACTCCTCTCGACCCGTAT
* * * * *
30336893 CCACCACAGTACTCTACTTCTC-CCAGCTCGTAT
1 CCACCGCAGTACTCCACTCCTCTCGA-CCCGTAT
* ** * * * * *
30336926 CCACTGCAGTACTATACTCTTTTTGGCCCATAT
1 CCACCGCAGTACTCCACTCCTCTCGACCCGTAT
30336959 CCACCGCAGTACTCCACTCCTC
1 CCACCGCAGTACTCCACTCCTC
30336981 AAAACTCAAG
Statistics
Matches: 65, Mismatches: 21, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
32 2 0.03
33 63 0.97
ACGTcount: A:0.20, C:0.43, G:0.10, T:0.27
Consensus pattern (33 bp):
CCACCGCAGTACTCCACTCCTCTCGACCCGTAT
Found at i:30340494 original size:27 final size:27
Alignment explanation
Indices: 30340455--30340515 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
30340445 TCAGACAGGG
*
30340455 GTCACCAGTGGCACCTACAAAATAGGA
1 GTCACCAGCGGCACCTACAAAATAGGA
* ** *
30340482 GTCACCAGCGGCACTTATTAGATAGGA
1 GTCACCAGCGGCACCTACAAAATAGGA
30340509 GTCACCA
1 GTCACCA
30340516 ATGGGGCCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.18
Consensus pattern (27 bp):
GTCACCAGCGGCACCTACAAAATAGGA
Found at i:30354789 original size:20 final size:20
Alignment explanation
Indices: 30354750--30354789 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30354740 TGTATTCATA
* * *
30354750 AAATTTCATAATTTTTCATT
1 AAATTTCACAACTTTACATT
30354770 AAATTTCACAACTTTACATT
1 AAATTTCACAACTTTACATT
30354790 TTAGTCCCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTTCACAACTTTACATT
Found at i:30363056 original size:40 final size:40
Alignment explanation
Indices: 30362997--30363262 Score: 340
Period size: 40 Copynumber: 6.5 Consensus size: 40
30362987 GGATTGATAA
30362997 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
30363036 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30363076 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
30363116 CCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-A------T
* *
30363163 AACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
30363205 CCGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
30363245 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
30363263 TACTTGGTTT
Statistics
Matches: 203, Mismatches: 13, Indels: 22
0.85 0.05 0.09
Matches are distributed among these distances:
39 25 0.12
40 139 0.68
41 1 0.00
48 1 0.00
49 37 0.18
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:30363129 original size:80 final size:80
Alignment explanation
Indices: 30362997--30363262 Score: 349
Period size: 89 Copynumber: 3.2 Consensus size: 80
30362987 GGATTGATAA
*
30362997 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
30363061 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* *
30363076 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
30363141 TGCGAGTTACTATAACCGGGCT
66 TGCGAGTTACTAT-A------T
* *
30363163 AACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
*
30363228 TGAGCGAG-TAGCTATAT
64 TGTGCGAGTTA-CTATAT
**
30363245 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
30363263 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 22
0.84 0.05 0.11
Matches are distributed among these distances:
79 24 0.14
80 66 0.40
81 1 0.01
82 1 0.01
87 1 0.01
88 3 0.02
89 70 0.42
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:30363185 original size:49 final size:49
Alignment explanation
Indices: 30363113--30363213 Score: 193
Period size: 49 Copynumber: 2.1 Consensus size: 49
30363103 CGAGTTACTA
30363113 TAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGC
1 TAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGC
*
30363162 TAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGC
1 TAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGC
30363211 TAA
1 TAA
30363214 GTCCCAAAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (49 bp):
TAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGC
Found at i:30371197 original size:40 final size:40
Alignment explanation
Indices: 30371134--30371384 Score: 364
Period size: 40 Copynumber: 6.3 Consensus size: 40
30371124 ATTCGGATTG
30371134 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
30371173 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
30371213 ATATCCGGGCTAAGTCCCAAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
30371253 ATAACCGGACCAAGTCCCGAAGGTAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
30371293 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
30371333 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
*
30371373 ATATCC-GGCTAA
1 ATAACCGGGCTAA
30371385 ACCCCGACGG
Statistics
Matches: 192, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 21 0.11
40 171 0.89
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:30381263 original size:171 final size:171
Alignment explanation
Indices: 30380938--30381476 Score: 620
Period size: 171 Copynumber: 3.2 Consensus size: 171
30380928 TGACAGATAT
* ** *
30380938 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGAACCATTTCAATACTTAATTTGTAATG
1 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGACCCATTTCGGTACTTAATTTGTAAGG
* * * * * *
30381003 TCGTCCA---TT-TA-AT-ATT-TTTTTATATTATTTAAGTAAAATTGTTGTACCATATACTGTG
66 TTGCCCATTTTTGTATTTAATTATTTTTATATTATTTAGGTAAAATTGTTGTACCATACACTGTT
*
30381061 TCTTGACCTATTTACCCCAATAATTCAAAAAACATAATAAA
131 TCTTGACCTATTTACCCCAATAATCCAAAAAACATAATAAA
* *
30381102 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGACCCATTTCGGCACTTAGTTTGTAAGG
1 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGACCCATTTCGGTACTTAATTTGTAAGG
*
30381167 TTGCCCATTTTTGTATTTAATTATTTTTATATTATTTAGGTAAAATTATTGTACCATACA-TCGT
66 TTGCCCATTTTTGTATTTAATTATTTTTATATTATTTAGGTAAAATTGTTGTACCATACACT-GT
* *
30381231 TTCTTAACCTATTTACCCCAATAATCCAAAAAACTTAATAAA
130 TTCTTGACCTATTTACCCCAATAATCCAAAAAACATAATAAA
* * ***
30381273 ATACCAAAA------ATCGTACCAATTTGTAACAACCAACCCATTTCGGTACTTAATTTGTAAGG
1 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGACCCATTTCGGTACTTAATTTGTAAGG
* ** ** * *
30381332 TTACCCATTTCCGTATTTAATTATTTTTTTAATATTACCTAGGTAAAAATGTTGTACTATACACT
66 TTGCCCATTTTTGTATTTAATTA--TTTTT-ATATTATTTAGGTAAAATTGTTGTACCATACACT
* * *
30381397 ATTTCTTGACCTTTTTACCCTAATAATCCAAAAAACATAATAAA
128 GTTTCTTGACCTATTTACCCCAATAATCCAAAAAACATAATAAA
* * ** *
30381441 TTACAAAAATGGAACACCCTACCAATTTGTAGCAAA
1 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAA
30381477 CGGCCTCTTC
Statistics
Matches: 315, Mismatches: 42, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
164 64 0.20
165 63 0.20
167 7 0.02
168 75 0.24
169 2 0.01
170 4 0.01
171 83 0.26
174 17 0.05
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (171 bp):
ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGACCCATTTCGGTACTTAATTTGTAAGG
TTGCCCATTTTTGTATTTAATTATTTTTATATTATTTAGGTAAAATTGTTGTACCATACACTGTT
TCTTGACCTATTTACCCCAATAATCCAAAAAACATAATAAA
Found at i:30390089 original size:6 final size:6
Alignment explanation
Indices: 30390078--30390109 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
30390068 TTCGAGGAAA
30390078 GAAGGG GAAGGG GAAGGG GAAGGG GAATGGG G
1 GAAGGG GAAGGG GAAGGG GAAGGG GAA-GGG G
30390110 GGAGGAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.66, T:0.03
Consensus pattern (6 bp):
GAAGGG
Found at i:30394262 original size:20 final size:21
Alignment explanation
Indices: 30394239--30394278 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30394229 CTCATGAAAC
*
30394239 AGGGC-ACATGCCCATGTGGA
1 AGGGCAACACGCCCATGTGGA
*
30394259 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCATGTGG
30394279 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:30397957 original size:30 final size:30
Alignment explanation
Indices: 30397916--30397984 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
30397906 CACATGAGTA
*
30397916 GACACACGGGCGTGTGTCTCAACCGTGTAT
1 GACACATGGGCGTGTGTCTCAACCGTGTAT
* *
30397946 GACACATGGGCGTGTGTCTCAACTGTGTGT
1 GACACATGGGCGTGTGTCTCAACCGTGTAT
30397976 GACACATGG
1 GACACATGG
30397985 CTATACGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.25
Consensus pattern (30 bp):
GACACATGGGCGTGTGTCTCAACCGTGTAT
Found at i:30400846 original size:40 final size:39
Alignment explanation
Indices: 30400777--30400869 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 39
30400767 TCTCGGTATC
* *
30400777 GCACACTTAGTGCCTCATATAGGCGAAGCTA-TTTCAATTT
1 GCACACTTAGTG-CTCATATAGGCAAAGCTATTTTCAA-AT
* *
30400817 GCACACTTAGTGCT-ATTTAGAGCCAAAGCTATTTTGAAAT
1 GCACACTTAGTGCTCATATAG-G-CAAAGCTATTTTCAAAT
30400857 GCACACTTAGTGC
1 GCACACTTAGTGC
30400870 CAAACATAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 5 0.11
39 3 0.07
40 33 0.72
41 5 0.11
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (39 bp):
GCACACTTAGTGCTCATATAGGCAAAGCTATTTTCAAAT
Found at i:30408694 original size:21 final size:21
Alignment explanation
Indices: 30408668--30408709 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30408658 AGAGCAATGT
30408668 GAAAGACCTCCTGAAGTAGTC
1 GAAAGACCTCCTGAAGTAGTC
30408689 GAAAGACCTCCTGAAGTAGTC
1 GAAAGACCTCCTGAAGTAGTC
30408710 CAACCTAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (21 bp):
GAAAGACCTCCTGAAGTAGTC
Found at i:30413495 original size:25 final size:25
Alignment explanation
Indices: 30413420--30413498 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
30413410 CTAATGGCCG
30413420 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
*** ****
30413445 ATGTGAT-AATGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
30413467 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
30413492 ATGTGAT
1 ATGTGAT
30413499 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:30413559 original size:49 final size:47
Alignment explanation
Indices: 30413360--30413631 Score: 472
Period size: 47 Copynumber: 5.7 Consensus size: 47
30413350 ATGGTAGTAT
30413360 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
30413407 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
30413454 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
30413501 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
30413550 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
30413599 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
30413632 CCCGAAGGGC
Statistics
Matches: 219, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
47 125 0.57
49 90 0.41
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:30413805 original size:37 final size:37
Alignment explanation
Indices: 30413749--30413827 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30413739 CCGAGCTCTA
* * *
30413749 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30413786 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30413823 AAGAC
1 AAGAC
30413828 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30423933 original size:63 final size:63
Alignment explanation
Indices: 30423834--30423957 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 63
30423824 TATTTTCCTC
** * * *
30423834 TGTTTTATAGTGCTTGGAAGCTCGTGAAGTTTGGAATTAGTCATAGCACCATCACACTATCCA
1 TGTTTTATAGTGCTCAGAAGCTCATGAAGGTTGGAATTAGTCAGAGCACCATCACACTATCCA
* *
30423897 TGTTTTATAGTGCTCAGAAGTTCATGAAGGTTGGAATTAGTCGGAGCACCATCACACTATC
1 TGTTTTATAGTGCTCAGAAGCTCATGAAGGTTGGAATTAGTCAGAGCACCATCACACTATC
30423958 GTTCAGCTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (63 bp):
TGTTTTATAGTGCTCAGAAGCTCATGAAGGTTGGAATTAGTCAGAGCACCATCACACTATCCA
Found at i:30430922 original size:15 final size:15
Alignment explanation
Indices: 30430877--30430949 Score: 85
Period size: 15 Copynumber: 4.9 Consensus size: 15
30430867 GAGATGACAT
*
30430877 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
30430892 GAAGTCC-AGAACAAA
1 GAAATCCAAG-ATAAA
*
30430907 GAAATCTAAGATAAA
1 GAAATCCAAGATAAA
*
30430922 GAAATCCAAGATACA
1 GAAATCCAAGATAAA
30430937 GAAATCCAAGATA
1 GAAATCCAAGATA
30430950 CAATATCATA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 2 0.04
15 44 0.92
16 2 0.04
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:30434316 original size:27 final size:28
Alignment explanation
Indices: 30434282--30434338 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
30434272 ACTTATCATA
30434282 TGTTC-ATATATATACATATACATAAAC
1 TGTTCAATATATATACATATACATAAAC
*
30434309 TGTTCATATATATATACATGTACATAAAC
1 TGTTCA-ATATATATACATATACATAAAC
30434338 T
1 T
30434339 TTCTCACCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 5 0.19
29 22 0.81
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (28 bp):
TGTTCAATATATATACATATACATAAAC
Found at i:30440230 original size:42 final size:42
Alignment explanation
Indices: 30440145--30440230 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
30440135 TATGGGCTAC
* **
30440145 GACACGACTGTGTGACTCAAGTTAGTGAGTTACACGGGCAGA
1 GACACGACCGTGTGACTCAAGTTAGTGAGTTACACAAGCAGA
* * * *
30440187 GACACGGCCGTGTGTCTCAAGTTAGTGAGTTATACAAGTAGA
1 GACACGACCGTGTGACTCAAGTTAGTGAGTTACACAAGCAGA
30440229 GA
1 GA
30440231 TAGGGGCTGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (42 bp):
GACACGACCGTGTGACTCAAGTTAGTGAGTTACACAAGCAGA
Found at i:30444051 original size:42 final size:41
Alignment explanation
Indices: 30443932--30444051 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 41
30443922 TACCATACCA
* * *
30443932 ATGCCATATCCCATATATGGTCTTACATAAGATCTCGTATAG
1 ATGCCATATCCCAGATATGGTCTTACACAAG-TCTCATATAG
* * *
30443974 ATGCCAATAGCCCAGCTATGGTATTACACGAAGTCTCATATAG
1 ATGCC-ATATCCCAGATATGGTCTTACAC-AAGTCTCATATAG
30444017 ATGCCATATCCCAGATATGGTCTTACACATAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACA-AGTCT
30444052 TAGTAACCCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 30 0.45
43 32 0.48
44 3 0.05
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACAAGTCTCATATAG
Found at i:30450006 original size:27 final size:27
Alignment explanation
Indices: 30449985--30450060 Score: 152
Period size: 27 Copynumber: 2.8 Consensus size: 27
30449975 TTTGTATTTT
30449985 TATGAAATAGTGACTAAATTGTATAAA
1 TATGAAATAGTGACTAAATTGTATAAA
30450012 TATGAAATAGTGACTAAATTGTATAAA
1 TATGAAATAGTGACTAAATTGTATAAA
30450039 TATGAAATAGTGACTAAATTGT
1 TATGAAATAGTGACTAAATTGT
30450061 GATGATTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.46, C:0.04, G:0.16, T:0.34
Consensus pattern (27 bp):
TATGAAATAGTGACTAAATTGTATAAA
Found at i:30459461 original size:26 final size:26
Alignment explanation
Indices: 30459432--30459487 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
30459422 GGCTTGCTAA
* *
30459432 ATAATCACTGGCTCAAGGCCTACTCG
1 ATAATCACTGACTCAAGGCCTACTAG
*
30459458 ATAATCACTGACTCAAGGCCTGCTAG
1 ATAATCACTGACTCAAGGCCTACTAG
30459484 ATAA
1 ATAA
30459488 AGTACATCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (26 bp):
ATAATCACTGACTCAAGGCCTACTAG
Found at i:30461016 original size:16 final size:16
Alignment explanation
Indices: 30460997--30461027 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30460987 CTTCTTCACT
30460997 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
30461013 TACTTACTTACTTAA
1 TACTCACTTACTTAA
30461028 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:30461033 original size:20 final size:20
Alignment explanation
Indices: 30460994--30461033 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30460984 AAACTTCTTC
* *
30460994 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
30461014 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
30461034 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:30461409 original size:55 final size:54
Alignment explanation
Indices: 30461220--30461474 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
30461210 ACACAGGTAC
* * * *
30461220 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * *
30461269 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * *
30461322 CTCACCAATGCCATGCCTTGGCATGGTTTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AA
* * * *
30461377 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* *
30461430 CCTTACCAATTACCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
30461475 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 24, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 40 0.23
52 4 0.02
53 44 0.26
54 8 0.05
55 73 0.43
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:30461411 original size:108 final size:110
Alignment explanation
Indices: 30461267--30461467 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
30461257 ATCCTTTTGA
* *
30461267 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
* *
30461330 -TGCCATGCCTTGGCATGGTTTTACATGGGACCTTTGCCTTATAGT
65 TTACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
30461375 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
30461440 TACCATGCCTTGGCATGGTCTTACATGG
66 TACCATGCCTTGGCATGGTCTTACATGG
30461468 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 7 0.08
110 26 0.31
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:30464596 original size:46 final size:45
Alignment explanation
Indices: 30464538--30464712 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 45
30464528 ATTCGTGTGT
*
30464538 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTA-GA
* *
30464584 GAGCCAGTGTAAGATCATGTTTGGGAGATGGCATC-G--ACATTGAGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-AGA
* * * *
30464629 CGAGGGCTAGTGTAAGACATGTCTGGGACATGCAACGGCCTC--GAGA
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAGA
*
30464675 CGTAAGCCAGTGTAAGACATGTCTGGGACATACATCGG
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGCATCGG
30464713 ATATGAGATG
Statistics
Matches: 106, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
45 7 0.07
46 55 0.52
47 26 0.25
48 17 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAGA
Found at i:30467241 original size:59 final size:59
Alignment explanation
Indices: 30467169--30467285 Score: 207
Period size: 59 Copynumber: 2.0 Consensus size: 59
30467159 ATGCCAATAC
*
30467169 TTAGTTTATTAAAATGATAAAAGAAATAAGCTAGAGAGCAACTAAATTTAACTCAAACA
1 TTAGTTTATTAAAATGATAAAAGAAATAAGCTAGAGAGCAACTAAATCTAACTCAAACA
* *
30467228 TTAGTTTATTAAAATGATAAAAGAAATAAGTTGGAGAGCAACTAAATCTAACTCAAAC
1 TTAGTTTATTAAAATGATAAAAGAAATAAGCTAGAGAGCAACTAAATCTAACTCAAAC
30467286 GAGTTGAATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (59 bp):
TTAGTTTATTAAAATGATAAAAGAAATAAGCTAGAGAGCAACTAAATCTAACTCAAACA
Found at i:30469385 original size:40 final size:40
Alignment explanation
Indices: 30469325--30469508 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
30469315 TATTCGAATG
*
30469325 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
30469365 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
30469405 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
30469445 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
30469485 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
30469509 CTTGTGTGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:30469458 original size:80 final size:80
Alignment explanation
Indices: 30469325--30469508 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
30469315 TATTCGAATG
* * *
30469325 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
30469389 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
30469405 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
30469470 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
30469485 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
30469509 CTTGTGTGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:30472699 original size:18 final size:17
Alignment explanation
Indices: 30472645--30472706 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
30472635 ATATGCACTC
*
30472645 TCTTTTTCAATTTTCTTA
1 TCTTTTTCAA-TTTCTTT
** *
30472663 TCTTGATCAAATTCTTTT
1 TCTTTTTCAATTTC-TTT
30472681 TCTTTTTCAATTTCGTTTT
1 TCTTTTTCAATTTC--TTT
30472700 TCTTTTT
1 TCTTTTT
30472707 TTCATTCTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
17 3 0.09
18 21 0.60
19 11 0.31
ACGTcount: A:0.15, C:0.16, G:0.03, T:0.66
Consensus pattern (17 bp):
TCTTTTTCAATTTCTTT
Found at i:30472751 original size:21 final size:20
Alignment explanation
Indices: 30472696--30472751 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
30472686 TTCAATTTCG
* **
30472696 TTTTTCTTTTTTTCATTCTC
1 TTTTTCTTTCTTTCACACTC
*
30472716 TTTTTGCTCTCTTTCACACTC
1 TTTTT-CTTTCTTTCACACTC
30472737 TTTTTCTTTCATTTC
1 TTTTTCTTTC-TTTC
30472752 TTTTTTTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.07, C:0.25, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTCTTTCTTTCACACTC
Found at i:30472770 original size:18 final size:17
Alignment explanation
Indices: 30472737--30472772 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30472727 TTTCACACTC
*
30472737 TTTTTCTTTCATTTCTT
1 TTTTTCTTTCAATTCTT
30472754 TTTTTCTTTCAAATTCTT
1 TTTTTCTTTC-AATTCTT
30472772 T
1 T
30472773 CTCACATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTCTTTCAATTCTT
Found at i:30472772 original size:33 final size:35
Alignment explanation
Indices: 30472702--30472772 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 35
30472692 TTCGTTTTTC
*
30472702 TTTTTTTCATTCTCTTTTTGCTCTCTTTCACACTCT
1 TTTTTTTCATTCTCTTTTT-CTCTCTTTCAAACTCT
*
30472738 TTTTCTTTCATT-TCTTTTT-T-TCTTTCAAATTCT
1 TTTT-TTTCATTCTCTTTTTCTCTCTTTCAAACTCT
30472771 TT
1 TT
30472773 CTCACATGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
33 13 0.41
34 1 0.03
36 11 0.34
37 7 0.22
ACGTcount: A:0.10, C:0.23, G:0.01, T:0.66
Consensus pattern (35 bp):
TTTTTTTCATTCTCTTTTTCTCTCTTTCAAACTCT
Found at i:30475221 original size:27 final size:27
Alignment explanation
Indices: 30475191--30475248 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
30475181 ATTTTCCTTT
30475191 AAAAT-GAATAATTT-TCTTTTATTTTTA
1 AAAATCGAA-AATTTCTCTTTT-TTTTTA
* *
30475218 AAAATCTAAACTTTCTCTTTTTTTTTA
1 AAAATCGAAAATTTCTCTTTTTTTTTA
30475245 AAAA
1 AAAA
30475249 AAAAATCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (27 bp):
AAAATCGAAAATTTCTCTTTTTTTTTA
Found at i:30475387 original size:152 final size:150
Alignment explanation
Indices: 30475096--30475391 Score: 341
Period size: 152 Copynumber: 2.0 Consensus size: 150
30475086 AATTTTCTTT
* * *
30475096 AAAAAACTCACTAAATTTCTTAAAAAATCAAAGCTTTATTTCAAAATAGTTGAAAAAGATCAAAA
1 AAAAAAATCACTAAATTTCTTAAAAAATCAAAGCTTTATTTCAAAATAGTTAAAAAAAATCAAAA
* * * * * *
30475161 TTTTGTTTTAAAAATTTAAAATTTTCCTTTAAAATGAATAATTTTCTTTTATTTTTAAAAATCTA
66 CTTTATTTTAAAAATTTAAAACTTTCCTTTAAAATGAAAAATTATCTTTTATTTTTAAAAAGCTA
30475226 AACTTTCTCTTTTTTTTTAAA
131 AAC-TTCTCTTTTTTTTTAAA
** * * *
30475247 AAAAAAATCACTACTTTTCTT-AAAGATCAAAGCTTTTGTTTCAAAATATTTATAAAAAAAATCA
1 AAAAAAATCACTAAATTTCTTAAAAAATCAAAGC-TTTATTTCAAAATA-GT-TAAAAAAAATCA
* *
30475311 AAACTTTATTTT-AAAATTTTAAACTTTCCTTTAATATGACTAAAAATATAT-TTTTATTTTT-A
63 AAACTTTATTTTAAAAATTTAAAACTTTCCTTTAAAATG---AAAAAT-TATCTTTTATTTTTAA
30475373 AAAGCTAAAC-TCTCTTTTT
124 AAAGCTAAACTTCTCTTTTT
30475392 AAAAATAAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
150 11 0.09
151 31 0.25
152 33 0.27
153 20 0.16
154 10 0.08
155 15 0.12
156 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (150 bp):
AAAAAAATCACTAAATTTCTTAAAAAATCAAAGCTTTATTTCAAAATAGTTAAAAAAAATCAAAA
CTTTATTTTAAAAATTTAAAACTTTCCTTTAAAATGAAAAATTATCTTTTATTTTTAAAAAGCTA
AACTTCTCTTTTTTTTTAAA
Found at i:30475402 original size:152 final size:150
Alignment explanation
Indices: 30475096--30475402 Score: 320
Period size: 151 Copynumber: 2.0 Consensus size: 150
30475086 AATTTTCTTT
* * *
30475096 AAAAAACTCACTAAATTTCTTAAAAAATCAAAGCTTTATTTCAAAATAGTTGAAAAAGATCAAAA
1 AAAAAAATCACTAAATTTCTTAAAAAATCAAAGCTTTATTTCAAAATAGTTAAAAAAAATCAAAA
* * * * * *
30475161 TTTTGTTTTAAAAATTTAAAATTTTCCTTTAAAATGAATAATTTTCTTTTATTTTTAAAAATCTA
66 CTTTATTTTAAAAATTTAAAACTTTCCTTTAAAATGAAAAATTATCTTTTATTTTTAAAAAGCTA
***
30475226 AACTTTCTCTTTTTTTTTAAA
131 AAC-TTCTCTTTTTTAAAAAA
** * * *
30475247 AAAAAAATCACTACTTTTCTT-AAAGATCAAAGCTTTTGTTTCAAAATATTTATAAAAAAAATCA
1 AAAAAAATCACTAAATTTCTTAAAAAATCAAAGC-TTTATTTCAAAATA-GT-TAAAAAAAATCA
* *
30475311 AAACTTTATTTT-AAAATTTTAAACTTTCCTTTAATATGACTAAAAATATAT-TTTTATTTTT-A
63 AAACTTTATTTTAAAAATTTAAAACTTTCCTTTAAAATG---AAAAAT-TATCTTTTATTTTTAA
*
30475373 AAAGCTAAAC-TCTC-TTTTTAAAAAT
124 AAAGCTAAACTTCTCTTTTTTAAAAAA
30475398 AAAAA
1 AAAAA
30475403 TTTTAAAAAT
Statistics
Matches: 129, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
150 11 0.09
151 43 0.33
152 28 0.22
153 20 0.16
154 10 0.08
155 15 0.12
156 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (150 bp):
AAAAAAATCACTAAATTTCTTAAAAAATCAAAGCTTTATTTCAAAATAGTTAAAAAAAATCAAAA
CTTTATTTTAAAAATTTAAAACTTTCCTTTAAAATGAAAAATTATCTTTTATTTTTAAAAAGCTA
AACTTCTCTTTTTTAAAAAA
Found at i:30475408 original size:15 final size:15
Alignment explanation
Indices: 30475388--30475418 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30475378 TAAACTCTCT
30475388 TTTTAAAAATAAAAA
1 TTTTAAAAATAAAAA
30475403 TTTTAAAAATAAAAA
1 TTTTAAAAATAAAAA
30475418 T
1 T
30475419 AATAACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TTTTAAAAATAAAAA
Found at i:30475762 original size:3 final size:3
Alignment explanation
Indices: 30475754--30475817 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
30475744 TATTTGTAAG
* * * * * *
30475754 AAT AAT AAT AAT ATTT AAT AAT AGT AGT AGT AGT AAT GAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30475800 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
30475818 CATTTGGGCC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 52 0.96
4 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:30485803 original size:11 final size:11
Alignment explanation
Indices: 30485787--30485815 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
30485777 TAAGAAAAAT
30485787 AAATAAAATAA
1 AAATAAAATAA
30485798 AAATAAAATAA
1 AAATAAAATAA
30485809 AAATAAA
1 AAATAAA
30485816 TGGACTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:30496220 original size:24 final size:24
Alignment explanation
Indices: 30496193--30496246 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
30496183 AATGCACTGA
30496193 GTGTGCG-GTGTGCTATG-GCACTAT
1 GTGTGCGAGTGTG--ATGAGCACTAT
30496217 GTGTGCGAGTGTGATGAGCACTAT
1 GTGTGCGAGTGTGATGAGCACTAT
30496241 GTGTGC
1 GTGTGC
30496247 AAATTCGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.11
24 20 0.71
25 5 0.18
ACGTcount: A:0.15, C:0.15, G:0.39, T:0.31
Consensus pattern (24 bp):
GTGTGCGAGTGTGATGAGCACTAT
Found at i:30498345 original size:6 final size:6
Alignment explanation
Indices: 30498336--30498392 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
30498326 CAAATGATTG
* * *
30498336 ATAAAA ATAAATA ATAAATAA ATAAAA TTAAAA TTAAAA ATGAAAA TTAAAA
1 ATAAAA ATAAA-A AT-AA-AA ATAAAA ATAAAA ATAAAA AT-AAAA ATAAAA
30498388 ATAAA
1 ATAAA
30498393 TAAGATAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 27 0.63
7 10 0.23
8 5 0.12
9 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (6 bp):
ATAAAA
Found at i:30498352 original size:13 final size:12
Alignment explanation
Indices: 30498336--30498392 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
30498326 CAAATGATTG
30498336 ATAAAAATAAATA
1 ATAAAAATAAA-A
30498349 ATAAATAAATAAAA
1 AT-AA-AAATAAAA
* *
30498363 TTAAAATTAAAA
1 ATAAAAATAAAA
*
30498375 ATGAAAATTAAAA
1 AT-AAAAATAAAA
30498388 ATAAA
1 ATAAA
30498393 TAAGATAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.29
13 16 0.42
14 4 0.11
15 7 0.18
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:30498356 original size:11 final size:10
Alignment explanation
Indices: 30498336--30498395 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 10
30498326 CAAATGATTG
30498336 ATAAAAATAA
1 ATAAAAATAA
30498346 ATAATAAATAA
1 ATAA-AAATAA
*
30498357 ATAAAATTAAA
1 ATAAAAAT-AA
30498368 ATTAAAAATGAAA
1 A-TAAAAAT--AA
30498381 ATTAAAAATAA
1 A-TAAAAATAA
30498392 ATAA
1 ATAA
30498396 GATAAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 10 0.23
11 16 0.36
12 6 0.14
13 12 0.27
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:30498383 original size:19 final size:18
Alignment explanation
Indices: 30498336--30498392 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
30498326 CAAATGATTG
*
30498336 ATAAAAATAAATAATAAATAA
1 ATAAAATTAAA-AAT-AA-AA
*
30498357 ATAAAATTAAAATTAAAA
1 ATAAAATTAAAAATAAAA
30498375 ATGAAAATTAAAAATAAA
1 AT-AAAATTAAAAATAAA
30498393 TAAGATAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 4 0.12
19 16 0.50
20 2 0.06
21 10 0.31
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
ATAAAATTAAAAATAAAA
Found at i:30515815 original size:55 final size:55
Alignment explanation
Indices: 30515756--30515881 Score: 137
Period size: 55 Copynumber: 2.3 Consensus size: 55
30515746 CTGCCAAAAC
* **
30515756 AACACAGGCCTGGGACACGCCCGTGCCTTGAAACCGTGGCCAAACCTGTCAAG-TT
1 AACACAGGCATGGGACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGT-AAGATT
* * * * * ** *
30515811 AACACGGGCGTGTGACACGCCCGTGCCAAGCAACCGTGGTCGGACCTGTTAGATT
1 AACACAGGCATGGGACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTAAGATT
30515866 AACACAGGCATGGGAC
1 AACACAGGCATGGGAC
30515882 TACAAACACG
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 2 0.04
55 55 0.96
ACGTcount: A:0.25, C:0.30, G:0.29, T:0.16
Consensus pattern (55 bp):
AACACAGGCATGGGACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTAAGATT
Found at i:30517890 original size:40 final size:40
Alignment explanation
Indices: 30517830--30518040 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
30517820 CATTGAATGA
* *
30517830 TATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
30517870 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
30517910 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
30517950 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
30517990 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
30518030 TATCC-GGCTAA
1 TATCCGGGCTAA
30518041 ATTCTGAAGA
Statistics
Matches: 155, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.05
40 145 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:30519643 original size:20 final size:19
Alignment explanation
Indices: 30519597--30519634 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
30519587 CAAAATAATC
30519597 TTCATTTTTCTCATACTATT
1 TTCATTTTTCTCATA-TATT
30519617 TTCATTTTTCTCAT-TATT
1 TTCATTTTTCTCATATATT
30519635 CTATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (19 bp):
TTCATTTTTCTCATATATT
Found at i:30531943 original size:34 final size:34
Alignment explanation
Indices: 30531895--30531991 Score: 153
Period size: 34 Copynumber: 2.9 Consensus size: 34
30531885 TTGAACTCAT
30531895 CTTA-GTTA-TTAATTGAGTTGCTAGAATAAATG
1 CTTATGTTAGTTAATTGAGTTGCTAGAATAAATG
30531927 CTTATGTTAGTTAATTGAGTTGCTAGAATAAATG
1 CTTATGTTAGTTAATTGAGTTGCTAGAATAAATG
* * *
30531961 CTTATCTTAGTTAATTTAGTTGCTGGAATAA
1 CTTATGTTAGTTAATTGAGTTGCTAGAATAA
30531992 TTTATTGCCA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 4 0.07
33 4 0.07
34 52 0.87
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (34 bp):
CTTATGTTAGTTAATTGAGTTGCTAGAATAAATG
Found at i:30532053 original size:11 final size:9
Alignment explanation
Indices: 30532003--30532077 Score: 87
Period size: 9 Copynumber: 7.9 Consensus size: 9
30531993 TTATTGCCAC
30532003 ATGTGTTTA
1 ATGTGTTTA
*
30532012 ATGTATTTA
1 ATGTGTTTA
*
30532021 ATGATTTTTA
1 ATG-TGTTTA
*
30532031 ATGAGTTTA
1 ATGTGTTTA
30532040 ATGTGTGATTA
1 ATGTGT--TTA
30532051 ATGTGTTTA
1 ATGTGTTTA
30532060 ATGTGTTTTA
1 ATGTG-TTTA
30532070 ATGTGTTT
1 ATGTGTTT
30532078 GTTAAATGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
9 31 0.54
10 17 0.30
11 9 0.16
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:30532053 original size:20 final size:20
Alignment explanation
Indices: 30532028--30532065 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30532018 TTAATGATTT
30532028 TTAATGAGTTTAATGTGTGA
1 TTAATGAGTTTAATGTGTGA
*
30532048 TTAATGTGTTTAATGTGT
1 TTAATGAGTTTAATGTGT
30532066 TTTAATGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (20 bp):
TTAATGAGTTTAATGTGTGA
Found at i:30532074 original size:19 final size:19
Alignment explanation
Indices: 30532003--30532077 Score: 91
Period size: 19 Copynumber: 3.9 Consensus size: 19
30531993 TTATTGCCAC
*
30532003 ATGTG-TTTAATGTATTTA
1 ATGTGTTTTAATGTGTTTA
*
30532021 ATGAT-TTTTAATGAGTTTA
1 ATG-TGTTTTAATGTGTTTA
*
30532040 ATGTGTGATTAATGTGTTTA
1 ATGTGT-TTTAATGTGTTTA
30532060 ATGTGTTTTAATGTGTTT
1 ATGTGTTTTAATGTGTTT
30532078 GTTAAATGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
18 4 0.08
19 27 0.56
20 17 0.35
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (19 bp):
ATGTGTTTTAATGTGTTTA
Found at i:30533415 original size:27 final size:26
Alignment explanation
Indices: 30533368--30533418 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
30533358 CGAGGCTGCC
*
30533368 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
30533394 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
30533419 TTGCAGTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:30534044 original size:26 final size:27
Alignment explanation
Indices: 30534015--30534068 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
30534005 TCACACAAGT
*
30534015 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
30534041 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
30534068 T
1 T
30534069 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:30534101 original size:27 final size:27
Alignment explanation
Indices: 30534071--30534268 Score: 229
Period size: 27 Copynumber: 7.3 Consensus size: 27
30534061 GGCAAAATGG
* * *
30534071 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
30534098 TAATTCTACCCTAC-AGTAGTATTTC-A
1 TAATTCTACCCTACAAG-GGTATTTCGA
* *
30534124 GTATTTCTACCCTACAAGGGTATTTCGG
1 -TAATTCTACCCTACAAGGGTATTTCGA
* *
30534152 TAATTCTATCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
30534179 TAATTCTATCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
30534206 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
30534233 TAATTCTACCTTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
30534260 TAATTCTAC
1 TAATTCTAC
30534269 AACTTATCCA
Statistics
Matches: 150, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
26 3 0.02
27 145 0.97
28 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:30534141 original size:54 final size:53
Alignment explanation
Indices: 30534069--30534268 Score: 256
Period size: 54 Copynumber: 3.7 Consensus size: 53
30534059 GGGGCAAAAT
* * * *
30534069 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGTAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAG-GGTATTTC
* * * *
30534123 AGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAC-AGGGTATTTC
* * *
30534177 GGTAATTCTATCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACA-GGGTATTTC
* *
30534231 GGTAATTCTACCTTACAGGGGTATTTCGATAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTAC
30534269 AACTTATCCA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 123 0.98
55 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGTATTTC
Found at i:30534204 original size:81 final size:80
Alignment explanation
Indices: 30534069--30534268 Score: 274
Period size: 81 Copynumber: 2.5 Consensus size: 80
30534059 GGGGCAAAAT
* * * * * *
30534069 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGTAGTATTTCAGTATTTCTAC
1 GGTAATTCTA-CCTACAAGGGTATTTCGATAATTCTACCCTACAGGAGTATTTCAATAATTCTAC
30534134 CCTACAAGGGTATTTC
65 CCTACAAGGGTATTTC
* * *
30534150 GGTAATTCTATCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAATAATTCTAC
1 GGTAATTCTA-CCTACAAGGGTATTTCGATAATTCTACCCTACAGGAGTATTTCAATAATTCTAC
*
30534215 CCTACAGGGGTATTTC
65 CCTACAAGGGTATTTC
*
30534231 GGTAATTCTACCTTACAGGGGTATTTCGATAATTCTAC
1 GGTAATTCTACC-TACAAGGGTATTTCGATAATTCTAC
30534269 AACTTATCCA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
80 2 0.02
81 102 0.98
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (80 bp):
GGTAATTCTACCTACAAGGGTATTTCGATAATTCTACCCTACAGGAGTATTTCAATAATTCTACC
CTACAAGGGTATTTC
Found at i:30541276 original size:27 final size:27
Alignment explanation
Indices: 30541219--30541277 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
30541209 TGTACGCACG
* *
30541219 AAGGGCAAAATAGTCATTTAACACCCT
1 AAGGGCAAAATAGTAATTTAACACCCC
* *
30541246 AAGGGCAAAATGGTAATTTTAC-CCCAC
1 AAGGGCAAAATAGTAATTTAACACCC-C
30541273 AAGGG
1 AAGGG
30541278 TATCTCGGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (27 bp):
AAGGGCAAAATAGTAATTTAACACCCC
Found at i:30541287 original size:27 final size:27
Alignment explanation
Indices: 30541257--30541456 Score: 202
Period size: 27 Copynumber: 7.4 Consensus size: 27
30541247 AGGGCAAAAT
* * *
30541257 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
30541284 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
30541311 GGTATTTCTACCCTACAAGTGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
30541338 AGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
30541365 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * * *
30541392 AATAATTCTACCCTGCAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
30541419 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
30541446 GGTAATTCTAC
1 GGTAATTCTAC
30541457 AACTTATCCT
Statistics
Matches: 143, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:30541323 original size:54 final size:54
Alignment explanation
Indices: 30541256--30541456 Score: 231
Period size: 54 Copynumber: 3.7 Consensus size: 54
30541246 AAGGGCAAAA
* * * *
30541256 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
* * * * *
30541310 CGGTATTTCTACCCTACAAGTGTATTTCAGTAATTCTATCCTATAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
* * * **
30541364 TGGTAATTCTATCCTACAGGGGTATTTCAATAATTCTACCCTGCAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
* * * * *
30541418 TAGTAATTCTACCTTATAGGGGTATTTCGGTAATTCTAC
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
30541457 AACTTATCCT
Statistics
Matches: 122, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 122 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
Found at i:30541401 original size:81 final size:81
Alignment explanation
Indices: 30541273--30541456 Score: 244
Period size: 81 Copynumber: 2.3 Consensus size: 81
30541263 TTTACCCCAC
* * ** * *
30541273 AAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGTGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTC
30541338 AGTAATTCTATCC-TAT
66 AGTAATTCTA-CCTTAT
* * * * *
30541354 AAGGGTATTTTGGTAATTCTATCCTACAGGGGTATTTCAATAATTCTACCCTGCAGGGGTATTTT
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTC
30541419 AGTAATTCTACCTTAT
66 AGTAATTCTACCTTAT
*
30541435 AGGGGTATTTCGGTAATTCTAC
1 AAGGGTATTTCGGTAATTCTAC
30541457 AACTTATCCT
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.02
81 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (81 bp):
AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTC
AGTAATTCTACCTTAT
Found at i:30548888 original size:34 final size:34
Alignment explanation
Indices: 30548845--30548967 Score: 228
Period size: 34 Copynumber: 3.6 Consensus size: 34
30548835 ATCTTAGTTA
30548845 TTAATTGAGTTGCTAGAATAAATGCTTATCTTAG
1 TTAATTGAGTTGCTAGAATAAATGCTTATCTTAG
30548879 TTAATTGAGTTGCTAGAATAAATGCTTATCTTAG
1 TTAATTGAGTTGCTAGAATAAATGCTTATCTTAG
30548913 TTAATTGAGTTGCTAGAATAAATGCTTATCTTAG
1 TTAATTGAGTTGCTAGAATAAATGCTTATCTTAG
* *
30548947 TTAATTTAGTTGCTGGAATAA
1 TTAATTGAGTTGCTAGAATAA
30548968 TTTATTGTTA
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 87 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (34 bp):
TTAATTGAGTTGCTAGAATAAATGCTTATCTTAG
Found at i:30548991 original size:9 final size:9
Alignment explanation
Indices: 30548979--30549040 Score: 70
Period size: 9 Copynumber: 6.4 Consensus size: 9
30548969 TTATTGTTAC
30548979 ATGTGTTTA
1 ATGTGTTTA
30548988 ATGTGTTTA
1 ATGTGTTTA
*
30548997 ATGTTTTTTA
1 ATG-TGTTTA
30549007 ATGTGTGATTA
1 ATGTGT--TTA
30549018 ATGTGTTTA
1 ATGTGTTTA
*
30549027 ATTTGTTTTA
1 ATGTG-TTTA
30549037 ATGT
1 ATGT
30549041 CTTTGTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
9 21 0.47
10 15 0.33
11 9 0.20
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:30549008 original size:19 final size:19
Alignment explanation
Indices: 30548982--30549040 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
30548972 TTGTTACATG
30548982 TGTTTAATGTGTTTAATGT
1 TGTTTAATGTGTTTAATGT
*
30549001 TTTTTAATGTGTGATTAATG-
1 TGTTTAATGTGT--TTAATGT
*
30549021 TGTTTAATTTGTTTTAATGT
1 TGTTTAATGTG-TTTAATGT
30549041 CTTTGTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 17 0.52
20 9 0.27
21 7 0.21
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (19 bp):
TGTTTAATGTGTTTAATGT
Found at i:30549020 original size:30 final size:30
Alignment explanation
Indices: 30548980--30549040 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
30548970 TATTGTTACA
*
30548980 TGTGTTTAATGTGTTTAATGTT-TTTTAATG
1 TGTGATTAATGTGTTTAAT-TTGTTTTAATG
30549010 TGTGATTAATGTGTTTAATTTGTTTTAATG
1 TGTGATTAATGTGTTTAATTTGTTTTAATG
30549040 T
1 T
30549041 CTTTGTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.21, C:0.00, G:0.20, T:0.59
Consensus pattern (30 bp):
TGTGATTAATGTGTTTAATTTGTTTTAATG
Found at i:30552766 original size:40 final size:40
Alignment explanation
Indices: 30552722--30552803 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
30552712 ATGGCATGTA
* *
30552722 TAACTAGATTCACATTCTCTTCCTTAGTCCTAGAATCGAC
1 TAACTAGATTCACATACACTTCCTTAGTCCTAGAATCGAC
30552762 TAACTAGATTCACATACACTTCCTTAGTCCTAGAATCGAC
1 TAACTAGATTCACATACACTTCCTTAGTCCTAGAATCGAC
30552802 TA
1 TA
30552804 GATTGTAGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (40 bp):
TAACTAGATTCACATACACTTCCTTAGTCCTAGAATCGAC
Found at i:30566416 original size:35 final size:36
Alignment explanation
Indices: 30566375--30566518 Score: 152
Period size: 35 Copynumber: 4.1 Consensus size: 36
30566365 AGGTATGTAT
* *
30566375 ATATGTGATGTTATATAT-AACTTGTATATTTGGCC
1 ATATGTGATGATATATATGAACTTGTATATTCGGCC
* * *
30566410 ATATGTGATGATATAT-TGAATTTGTAAATTCGGCT
1 ATATGTGATGATATATATGAACTTGTATATTCGGCC
* * * * *
30566445 ACATGTGATGTTCTATCT-AACCTGTATATTCGGCC
1 ATATGTGATGATATATATGAACTTGTATATTCGGCC
*
30566480 ATATGTGATGATATA-ATGAACCTTGTGTATTCGGCC
1 ATATGTGATGATATATATGAA-CTTGTATATTCGGCC
30566516 ATA
1 ATA
30566519 CATGTAAGTA
Statistics
Matches: 87, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
34 2 0.02
35 68 0.78
36 17 0.20
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (36 bp):
ATATGTGATGATATATATGAACTTGTATATTCGGCC
Found at i:30566576 original size:50 final size:50
Alignment explanation
Indices: 30566481--30566582 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
30566471 TATTCGGCCA
* * * *
30566481 TATGTGATGATATAATGAACCTTGTGTATTCGGCCATACATGTAAGTATT
1 TATGAGATGATATAATGAACCTTGTATATTCAGCCATACAGGTAAGTATT
* * ** *
30566531 TATGAGATGATATATTGGACCTTGTATATTCAGTTATATAGGTAAGTATT
1 TATGAGATGATATAATGAACCTTGTATATTCAGCCATACAGGTAAGTATT
30566581 TA
1 TA
30566583 CGTGGTGTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (50 bp):
TATGAGATGATATAATGAACCTTGTATATTCAGCCATACAGGTAAGTATT
Found at i:30571158 original size:6 final size:6
Alignment explanation
Indices: 30571147--30571260 Score: 99
Period size: 6 Copynumber: 18.5 Consensus size: 6
30571137 TATTATAACT
* *
30571147 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
30571196 AAGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C AGAATC AAAATC
1 -AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
*
30571246 AGAATC AGTATC AGA
1 AGAATC AGAATC AGA
30571261 TAACAGAATA
Statistics
Matches: 87, Mismatches: 12, Indels: 18
0.74 0.10 0.15
Matches are distributed among these distances:
5 5 0.06
6 70 0.80
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:30571183 original size:31 final size:31
Alignment explanation
Indices: 30571180--30571282 Score: 170
Period size: 31 Copynumber: 3.3 Consensus size: 31
30571170 CAGGTGACAG
*
30571180 AATCAGAATCAGTATCAAGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
30571211 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
* *
30571242 AATCAGAATCAGTATCAGATAACAGAATAAAA
1 AATCAGAATCAGTATCAGGTAACAGAAT-CAA
30571274 AATCAGAAT
1 AATCAGAAT
30571283 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
31 57 0.84
32 11 0.16
ACGTcount: A:0.52, C:0.15, G:0.14, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAA
Found at i:30571186 original size:25 final size:25
Alignment explanation
Indices: 30571152--30571247 Score: 106
Period size: 25 Copynumber: 3.8 Consensus size: 25
30571142 TAACTAGAAT
*
30571152 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
30571177 CAGAATCAGAATCAGTATCAAGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
30571202 CAGAATCAAAATCAGAATCA-GTAT
1 CAGAATCAGAATCAGAATCAGGTAA
*
30571226 CAGGTAA-CAGAATCAAAATCAG
1 CA-G-AATCAGAATCAGAATCAG
30571248 AATCAGTATC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.08
25 53 0.88
26 2 0.03
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:30571205 original size:19 final size:19
Alignment explanation
Indices: 30571183--30571240 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
30571173 GTGACAGAAT
30571183 CAGAATCAGTATCAAGTAA
1 CAGAATCAGTATCAAGTAA
30571202 CAGAATCA--A--AA-T--
1 CAGAATCAGTATCAAGTAA
*
30571214 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAAGTAA
30571233 CAGAATCA
1 CAGAATCA
30571241 AAATCAGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
12 8 0.26
14 2 0.06
15 2 0.06
16 1 0.03
17 2 0.06
19 16 0.52
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAAGTAA
Found at i:30571461 original size:27 final size:26
Alignment explanation
Indices: 30571422--30571492 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
30571412 CAGTTATCAA
* *
30571422 ATATTGTGACAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGCCACCAGA-ACAG
30571449 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAG
* *
30571475 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
30571493 TTAACAGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 20 0.50
27 20 0.50
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAG
Found at i:30571679 original size:22 final size:22
Alignment explanation
Indices: 30571651--30571715 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
30571641 GCAAATACGT
*
30571651 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
30571673 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
30571695 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
30571716 AACGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:30572199 original size:27 final size:26
Alignment explanation
Indices: 30572169--30572740 Score: 616
Period size: 27 Copynumber: 21.2 Consensus size: 26
30572159 GGTATCTCGA
* * *
30572169 TAATTCCACCCTATAGGGGTATTATAG
1 TAATTCTACCCTACAGGGGTATT-TGG
30572196 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTA-TTTGG
*
30572223 TAATTCTACCCTATAGGGGTA-TTGCG
1 TAATTCTACCCTACAGGGGTATTTG-G
*
30572249 ATAATTCTACCCTACAGGGGTATTGCGG
1 -TAATTCTACCCTACAGGGGTATT-TGG
*
30572277 TAATTCTACCCTACAGGGGTATTGCGG
1 TAATTCTACCCTACAGGGGTATT-TGG
30572304 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTT-GG
* *
30572331 TAATTCTACCCTATAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTT-GG
* *
30572358 TAATTCTACCCTACAAGGGTATTCCGG
1 TAATTCTACCCTACAGGGGTATT-TGG
*
30572385 TAATTTTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTT-GG
*
30572412 TAATTCTACCCTACATGGGTA-TTGCG
1 TAATTCTACCCTACAGGGGTATTTG-G
30572438 ATAATTCTACCCTACAGGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTT-GG
30572466 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTT-GG
*
30572493 TAATTCTACCCTACAGGGGTATTCTAG
1 TAATTCTACCCTACAGGGGTATT-TGG
30572520 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTT-GG
* *
30572547 TAATTCTACCGTACAGGGTTA-TTGCG
1 TAATTCTACCCTACAGGGGTATTTG-G
30572573 ATAATTCTACCCTACAGGGGTA-TTGCG
1 -TAATTCTACCCTACAGGGGTATTTG-G
* * *
30572600 ATAATTCTACCCTATAAGGGTATTCCGG
1 -TAATTCTACCCTACAGGGGTATT-TGG
* *
30572628 TAATTCTACCCTACAGGAGTATTGCGG
1 TAATTCTACCCTACAGGGGTATT-TGG
*
30572655 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTT-GG
* **
30572682 TAATTTTA-CAAACCAGGGGTATTTTGG
1 TAATTCTACCCTA-CAGGGGTA-TTTGG
* **
30572709 TAATTTTA-CAAACTAGGGGTATTTTGG
1 TAATTCTACCCTAC-AGGGGTA-TTTGG
30572736 TAATT
1 TAATT
30572741 TGGTAAACTA
Statistics
Matches: 484, Mismatches: 39, Indels: 44
0.85 0.07 0.08
Matches are distributed among these distances:
25 5 0.01
26 11 0.02
27 452 0.93
28 13 0.03
29 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (26 bp):
TAATTCTACCCTACAGGGGTATTTGG
Found at i:30572235 original size:54 final size:53
Alignment explanation
Indices: 30572142--30572713 Score: 716
Period size: 54 Copynumber: 10.6 Consensus size: 53
30572132 GGGCAAAATG
* * * * * * * *
30572142 GTAATTTTACCCCACA-AGGTATCTCGATAATTCCACCCTATAGGGGTATTATA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT-TC
* * *
30572195 GTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTATAGGGGTATTGC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
30572248 GATAATTCTACCCTACAGGGGTATTGCGGTAATTCTACCCTACAGGGGTATTGC
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
30572302 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
1 -GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
30572356 GATAATTCTACCCTACAAGGGTATTCCGGTAATTTTACCCTACAGGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
30572410 GGTAATTCTACCCTACATGGGTATTGCGATAATTCTACCCTACAGGGGTATTTC
1 -GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
30572464 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCTA
1 -GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT-TC
* * *
30572519 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCGTACAGGGTTATTGC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * *
30572572 GATAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTATAAGGGTATTCC
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
30572626 GGTAATTCTACCCTACAGGAGTATTGCGGTAATTCTACCCTACAGGGGTATTTC
1 -GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* ** *
30572680 GATAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 G-TAATTCTACCCTA-CAGGGGTATTTCGGTAATT
30572714 TTACAAACTA
Statistics
Matches: 460, Mismatches: 49, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
53 20 0.04
54 436 0.95
55 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (53 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:30572731 original size:81 final size:81
Alignment explanation
Indices: 30572141--30572740 Score: 769
Period size: 81 Copynumber: 7.4 Consensus size: 81
30572131 GGGGCAAAAT
* * * * * * * **
30572141 GGTAATTTTACCCCACA-AGGTATCTCGATAATTCCACCCTATAGGGGTATT-ATAGTAATTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGA-TAATTCTA
*
30572204 CCCTACAGGGGTATTTT
65 CCCTACAGGGGTATTTC
* * * *
30572221 GGTAATTCTACCCTATAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTGCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTAC
*
30572286 CCTACAGGGGTATTGC
66 CCTACAGGGGTATTTC
* *
30572302 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTAC
* *
30572367 CCTACAAGGGTATTCC
66 CCTACAGGGGTATTTC
* *
30572383 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACATGGGTATTGCGATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTAC
30572448 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
*
30572464 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT-CTAGTAATTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGA-TAATTCTA
30572528 CCCTACAGGGGTATTTC
65 CCCTACAGGGGTATTTC
* * * *
30572545 GGTAATTCTACCGTACAGGGTTATTGCGATAATTCTACCCTACAGGGGTATTGCGATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTAC
* * *
30572610 CCTATAAGGGTATTCC
66 CCTACAGGGGTATTTC
* * * *
30572626 GGTAATTCTACCCTACAGGAGTATTGCGGTAATTCTACCCTACAGGGGTATTTCGATAATTTTA-
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTAC
** *
30572690 CAAACCAGGGGTATTTT
66 CCTA-CAGGGGTATTTC
* ** *
30572707 GGTAATTTTA-CAAACTAGGGGTATTTTGGTAATT
1 GGTAATTCTACCCTAC-AGGGGTATTTCGGTAATT
30572741 TGGTAAACTA
Statistics
Matches: 458, Mismatches: 56, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
80 21 0.05
81 435 0.95
82 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTAC
CCTACAGGGGTATTTC
Found at i:30574718 original size:6 final size:6
Alignment explanation
Indices: 30574693--30574783 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
30574683 AAGAAACATT
* * *
30574693 ATCAGA A-CTAGA ACCAGA ATCAGA ATCAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
30574742 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
30574784 GTAACAGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.06
6 54 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:30574736 original size:31 final size:31
Alignment explanation
Indices: 30574695--30574793 Score: 144
Period size: 31 Copynumber: 3.2 Consensus size: 31
30574685 GAAACATTAT
* * * *
30574695 CAGAACTAGAACCAGAATCAGAATCAGGTGA
1 CAGAATTAGAATCAGAATCAGTATCAGGTAA
30574726 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATTAGAATCAGAATCAGTATCAGGTAA
* *
30574757 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATTAGAATCAGAATCAGTATCAGGTAA
30574788 CAGAAT
1 CAGAAT
30574794 AAAAAATCAG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.18
Consensus pattern (31 bp):
CAGAATTAGAATCAGAATCAGTATCAGGTAA
Found at i:30575006 original size:26 final size:27
Alignment explanation
Indices: 30574956--30575009 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
30574946 AAATTGTGAT
* *
30574956 AGAGTCACCAGATACAGATATTGTGGC
1 AGAGCCACCAGATACAGATAATGTGGC
30574983 AGAGCCACCAGA-ACAGATAATGTGGC
1 AGAGCCACCAGATACAGATAATGTGGC
30575009 A
1 A
30575010 AAGCTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (27 bp):
AGAGCCACCAGATACAGATAATGTGGC
Found at i:30575211 original size:22 final size:22
Alignment explanation
Indices: 30575186--30575239 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
30575176 TAGCACACAA
* *
30575186 CCATAATCAGGTTGGCACAGAG
1 CCATAATCAGGTTGACACAAAG
*
30575208 CCAT-ATGTAGGTTGACACAAAG
1 CCATAAT-CAGGTTGACACAAAG
30575230 CCATAATCAG
1 CCATAATCAG
30575240 AAGGCTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
CCATAATCAGGTTGACACAAAG
Found at i:30575722 original size:27 final size:27
Alignment explanation
Indices: 30575666--30576265 Score: 819
Period size: 27 Copynumber: 22.3 Consensus size: 27
30575656 GGGGCAAAAG
* * * *
30575666 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
30575692 AGTAATTCTGCCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30575719 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
30575746 GATAATTCTACCCTACAAGGTTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30575773 GATAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30575800 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
30575827 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
30575854 GATAATTCTACCCTACAGGGGTAATAC
1 GGTAATTCTACCCTACAGGGGTATTTC
30575881 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
30575908 GGTAATTCTATCCTACAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30575935 GGTAATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30575962 GGGAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30575989 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30576016 GATAATTCTACCCTACAGGGGTCTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
30576043 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
30576069 TGGTAATTCTACCCTACAGGGGTA-TTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
30576096 TGGTAATTCTACCCTATAGGGGTATTGC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* * *
30576124 GGTAATTCTACCCTATAGAGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30576151 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30576178 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30576205 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
30576232 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30576259 GATAATT
1 GGTAATT
30576266 TTTCAAACCA
Statistics
Matches: 517, Mismatches: 54, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
26 16 0.03
27 499 0.97
28 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:30576277 original size:27 final size:27
Alignment explanation
Indices: 30576247--30576320 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
30576237 TTCTACCCTA
* * *
30576247 CAGGGGTATTTCGATAATTTTTCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
30576274 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
30576301 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
30576321 GGTAAACTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:30577653 original size:41 final size:41
Alignment explanation
Indices: 30577577--30577654 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
30577567 ATTGTGATAT
*
30577577 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTAGTGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCAGTGAATTTGA
** * *
30577618 TCGGGCTTTTTGCCTAGC-AGGCTTAGTGCCGGTGAAT
1 TCGGGCTTTGAGCCTAGCAAGCCTT-GTGCCAGTGAAT
30577655 AAATATCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 5 0.16
41 26 0.84
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCAGTGAATTTGA
Found at i:30577879 original size:35 final size:35
Alignment explanation
Indices: 30577840--30577960 Score: 145
Period size: 35 Copynumber: 3.5 Consensus size: 35
30577830 CAAGTATGTA
* * *
30577840 CATATGTGATGTTATATCTAACTTGTATATTCGAC
1 CATATGTGATGATATATCTAACTTGTATATTTGGC
* *
30577875 CATATGTGATGATATAT-TGAATTTGTAAATTTGGC
1 CATATGTGATGATATATCT-AACTTGTATATTTGGC
* * * *
30577910 TACATGTGATGTTCTATCTAACTTGTATATTTGGC
1 CATATGTGATGATATATCTAACTTGTATATTTGGC
30577945 CATATGTGATGATATA
1 CATATGTGATGATATA
30577961 ATGAACCTTG
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.01
35 67 0.97
36 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (35 bp):
CATATGTGATGATATATCTAACTTGTATATTTGGC
Found at i:30578491 original size:24 final size:24
Alignment explanation
Indices: 30578457--30578511 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
30578447 TTGGAAATAG
*
30578457 TTTGATCCATACGAATATGTATAA
1 TTTGATTCATACGAATATGTATAA
30578481 TTTGATTCATACGAATATGTATAA
1 TTTGATTCATACGAATATGTATAA
30578505 TTTGATT
1 TTTGATT
30578512 GGTGCTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.44
Consensus pattern (24 bp):
TTTGATTCATACGAATATGTATAA
Found at i:30580475 original size:51 final size:51
Alignment explanation
Indices: 30580399--30580502 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
30580389 AAGAAATCAA
* *
30580399 TAAGGCAACTAATTTTCCCAAATGACTTGAAAAATGGTTTTTCCGCTGCAT
1 TAAGGCAACTAATTTTCCAAAATGACTTGAAAAATGGTTTTTCAGCTGCAT
30580450 TAAGGCAACTAATTTTCCAAAATGACTTGAAAAATGGTTTTTCAGCTGCAT
1 TAAGGCAACTAATTTTCCAAAATGACTTGAAAAATGGTTTTTCAGCTGCAT
30580501 TA
1 TA
30580503 GTTTAACTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (51 bp):
TAAGGCAACTAATTTTCCAAAATGACTTGAAAAATGGTTTTTCAGCTGCAT
Found at i:30582462 original size:24 final size:23
Alignment explanation
Indices: 30582430--30582474 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
30582420 GTGATGAAAT
*
30582430 AAATATGAATATGTGATTATTGTG
1 AAATATGAATATATG-TTATTGTG
*
30582454 AAATTTGAATATATGTTATTG
1 AAATATGAATATATGTTATTG
30582475 AAAATGTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (23 bp):
AAATATGAATATATGTTATTGTG
Found at i:30582960 original size:48 final size:48
Alignment explanation
Indices: 30582907--30583008 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
30582897 CTCTAATGGC
* * *
30582907 TGACTGTTACTTAATAATAAAGATCAATTGATCGCTACTGAAAAATAT
1 TGACTGTTACTGAATAATAAAGATAAATTGATCGATACTGAAAAATAT
* *** * *
30582955 TGACTGTTACTGAATGATTTTGATAAATTGATTGATATTGAAAAATAT
1 TGACTGTTACTGAATAATAAAGATAAATTGATCGATACTGAAAAATAT
30583003 TGACTG
1 TGACTG
30583009 GTATTGAGCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (48 bp):
TGACTGTTACTGAATAATAAAGATAAATTGATCGATACTGAAAAATAT
Done.