Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2340112
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:474 original size:22 final size:21
Alignment explanation
Indices: 415--475 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
405 TCATGTAATA
*
415 TTTTTACATTTTATGCATTTTCT
1 TTTTTACATTATAT--ATTTTCT
* *
438 TTTTTACTTTATATATTTTTT
1 TTTTTACATTATATATTTTCT
*
459 TTTTTAGATTACTATAT
1 TTTTTACATTA-TATAT
476 ATATATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 15 0.47
22 5 0.16
23 12 0.38
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTTTACATTATATATTTTCT
Found at i:517 original size:36 final size:35
Alignment explanation
Indices: 447--536 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 35
437 TTTTTTACTT
*
447 TATATATTT-TTTTTTTTAGATTACTATATATATA
1 TATATATTTATTTTTTTTATATTACTATATATATA
* *
481 TATATAATTTATTTTTTTTATATTTATTA-ATTTATA
1 TATAT-ATTTATTTTTTTTATA-TTACTATATATATA
* *
517 TATATATTTACTATTTTTAT
1 TATATATTTATTTTTTTTAT
537 GTTTTTATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
34 5 0.10
35 17 0.35
36 21 0.44
37 5 0.10
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (35 bp):
TATATATTTATTTTTTTTATATTACTATATATATA
Found at i:518 original size:16 final size:15
Alignment explanation
Indices: 481--571 Score: 55
Period size: 15 Copynumber: 6.1 Consensus size: 15
471 TATATATATA
*
481 TATATAATTTATTTTT
1 TATAT-ATTTATTATT
*
497 TTTATATTTATTAATT
1 TATATATTTATT-ATT
513 TATATA--TA-TATT
1 TATATATTTATTATT
* *
525 TACTATTTTTATGTTTT
1 TA-TATATTTAT-TATT
*
542 TAT-TATTTATTATA
1 TATATATTTATTATT
* *
556 CATATATATATTATT
1 TATATATTTATTATT
571 T
1 T
572 TACTTTTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 15
0.67 0.14 0.18
Matches are distributed among these distances:
12 5 0.09
13 4 0.07
14 6 0.11
15 24 0.43
16 12 0.21
17 5 0.09
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (15 bp):
TATATATTTATTATT
Found at i:550 original size:36 final size:36
Alignment explanation
Indices: 477--555 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
467 TTACTATATA
*
477 TATATATATAATTTATTTTTTTTATATTTATTAATT
1 TATATATATAATTTATTTTTTATATATTTATTAATT
* *
513 TATATATAT-ATTTACTATTTTTATGTTTTTATT-ATT
1 TATATATATAATTTA-T-TTTTTATATATTTATTAATT
549 TAT-TATA
1 TATATATA
556 CATATATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
35 9 0.24
36 16 0.42
37 13 0.34
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (36 bp):
TATATATATAATTTATTTTTTATATATTTATTAATT
Found at i:587 original size:47 final size:44
Alignment explanation
Indices: 471--588 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 44
461 TTTAGATTAC
* * * **
471 TATATATATATATA-TA-ATTTATTTTTTTTATATTTATTAATT
1 TATATATATATTTACTATTTTTATTGTTTTTATATTTATTAACA
513 TATATATATATTTACTATTTTTA-TGTTTTTATTATTTATTATACA
1 TATATATATATTTACTATTTTTATTGTTTTTA-TATTTATTA-ACA
558 TATATATATTATTTTACT-TTTTTATTGTTTT
1 TATATATA-TA-TTTACTATTTTTATTGTTTT
589 ATTTATATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
42 13 0.20
43 9 0.14
44 13 0.20
45 9 0.14
46 8 0.12
47 12 0.19
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (44 bp):
TATATATATATTTACTATTTTTATTGTTTTTATATTTATTAACA
Found at i:705 original size:21 final size:21
Alignment explanation
Indices: 662--710 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
652 TTACTTACTA
**
662 TTTATC-TTTGTTTTCTTTAT
1 TTTATCTTTTGTTTAATTTAT
*
682 TTTATCTTTTGTTTAATTTGT
1 TTTATCTTTTGTTTAATTTAT
*
703 TTTTTCTT
1 TTTATCTT
711 CATTTTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.10, C:0.08, G:0.06, T:0.76
Consensus pattern (21 bp):
TTTATCTTTTGTTTAATTTAT
Found at i:11183 original size:30 final size:30
Alignment explanation
Indices: 11142--11206 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
11132 TTGCTACAGT
* * *
11142 GACCACCATAGGTCTCCATGAGCACATGGC
1 GACCTCCATAGGTCTCCAGGAGCACACGGC
11172 GACCTCCATAGGTCTCCAGGAGCACACGGC
1 GACCTCCATAGGTCTCCAGGAGCACACGGC
11202 GACCT
1 GACCT
11207 ATGGAGCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.35, G:0.25, T:0.15
Consensus pattern (30 bp):
GACCTCCATAGGTCTCCAGGAGCACACGGC
Found at i:11214 original size:19 final size:19
Alignment explanation
Indices: 11190--11232 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
11180 TAGGTCTCCA
11190 GGAGCACACGGCGACCTAT
1 GGAGCACACGGCGACCTAT
**
11209 GGAGCACTTGGCGACCTAT
1 GGAGCACACGGCGACCTAT
11228 GGAGC
1 GGAGC
11233 TGCAACAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.35, T:0.14
Consensus pattern (19 bp):
GGAGCACACGGCGACCTAT
Found at i:12612 original size:16 final size:16
Alignment explanation
Indices: 12587--12620 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12577 ATGCACGAGC
*
12587 AACGATGAACATCATT
1 AACGACGAACATCATT
*
12603 AACGACGAACATTATT
1 AACGACGAACATCATT
12619 AA
1 AA
12621 TTTAATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (16 bp):
AACGACGAACATCATT
Found at i:16631 original size:18 final size:18
Alignment explanation
Indices: 16608--16652 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
16598 AACATTCCTA
**
16608 GTAATCTTATTCCCGCTG
1 GTAATCTTATTCCAACTG
*
16626 GTAATCATATTCCAACTG
1 GTAATCTTATTCCAACTG
16644 GTAATCTTA
1 GTAATCTTA
16653 CATTCCATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (18 bp):
GTAATCTTATTCCAACTG
Found at i:21540 original size:18 final size:19
Alignment explanation
Indices: 21517--21554 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
21507 AATATATTTA
21517 AAAACA-ATAAAATAAATG
1 AAAACATATAAAATAAATG
21535 AAAACATATAAAATAAATG
1 AAAACATATAAAATAAATG
21554 A
1 A
21555 CTAAATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAACATATAAAATAAATG
Found at i:22928 original size:20 final size:19
Alignment explanation
Indices: 22905--22949 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
22895 ATTTTTTTAT
* *
22905 TATTTATTTATTTTTAATAA
1 TATTTATATATATTTAAT-A
*
22925 TATTTATATGTATTTAATA
1 TATTTATATATATTTAATA
22944 TATTTA
1 TATTTA
22950 ATAATAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTATATATATTTAATA
Found at i:22939 original size:26 final size:30
Alignment explanation
Indices: 22900--22955 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
22890 ATTATATTTT
*
22900 TTTATTATTTATTT-AT-T-TTTAATAATA
1 TTTATTATGTATTTAATATATTTAATAATA
22927 TTTA-TATGTATTTAATATATTTAATAATA
1 TTTATTATGTATTTAATATATTTAATAATA
22956 ATAGTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 8 0.32
27 6 0.24
28 1 0.04
29 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTATTATGTATTTAATATATTTAATAATA
Found at i:22956 original size:3 final size:3
Alignment explanation
Indices: 22948--23045 Score: 148
Period size: 3 Copynumber: 33.7 Consensus size: 3
22938 TTAATATATT
*
22948 TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
22995 TAA TAA TGA TAA TAG TAA TAA TAA TAA TAA TAA TAA T-A TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23041 TAA TA
1 TAA TA
23046 TGGATAAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
2 6 0.07
3 80 0.93
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23511 original size:112 final size:113
Alignment explanation
Indices: 23365--23600 Score: 377
Period size: 112 Copynumber: 2.1 Consensus size: 113
23355 GAATTATGCC
* * *
23365 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
23429 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTCTCCGGAAAAAATAATCCATCAAGTGATGAATTCAGGT
23476 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
23541 TATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCCGGAAAAAATAATCCATCAAGTGATGAATTCAGGT
23589 AAAAGGTTGAAC
1 AAAAGGTTGAAC
23601 TCTACCTGGC
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
111 4 0.04
112 64 0.56
113 46 0.40
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCCGGAAAAAATAATCCATCAAGTGATGAATTCAGGT
Found at i:23726 original size:166 final size:166
Alignment explanation
Indices: 23452--23766 Score: 612
Period size: 166 Copynumber: 1.9 Consensus size: 166
23442 GGAAAAGATA
* *
23452 ATCCATCAATTGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
1 ATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
23517 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAA
66 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAA
23582 TTCAGGTAAAAGGTTGAACTCTACCTGGCAATGTTG
131 TTCAGGTAAAAGGTTGAACTCTACCTGGCAATGTTG
23618 ATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
1 ATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
23683 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAA
66 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAA
23748 TTCAGGTAAAAGGTTGAAC
131 TTCAGGTAAAAGGTTGAAC
23767 AAATTCTTCT
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 147 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (166 bp):
ATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAA
TTCAGGTAAAAGGTTGAACTCTACCTGGCAATGTTG
Found at i:23868 original size:279 final size:277
Alignment explanation
Indices: 23365--23879 Score: 931
Period size: 279 Copynumber: 1.9 Consensus size: 277
23355 GAATTATGCC
* * *
23365 AAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
23430 ATGAACTTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGTAAAAGGTTGAACAAATTCT
66 ATGAACTTCTCCGGAAAAAATAATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCT
23495 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
131 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
23560 AAATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACTCTACCTGGCAATGTTGATCCATC
196 AAATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACTCTACCTGGCAATGTTGATCCATC
23625 AAATGATGAATTCAGGT
261 AAATGATGAATTCAGGT
23642 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
23707 TATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATT
65 TATGAAC-TTCTCCGGAAAAAATAATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATT
23772 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGA
129 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGA
23837 AAAAATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAAC
194 AAAAATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAAC
23880 AAATTCTTCT
Statistics
Matches: 227, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
277 4 0.02
278 64 0.28
279 159 0.70
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (277 bp):
AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTCTCCGGAAAAAATAATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCT
TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
AAATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACTCTACCTGGCAATGTTGATCCATC
AAATGATGAATTCAGGT
Found at i:24088 original size:113 final size:113
Alignment explanation
Indices: 23616--24084 Score: 830
Period size: 113 Copynumber: 4.2 Consensus size: 113
23606 CTGGCAATGT
23616 TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
* *
23681 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAA
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
*
23729 TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
* *
23794 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAA
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
*
23842 TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
23907 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
* * *
23955 TGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCT
1 TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
* * *
24020 TCCTTCTTCAAATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAGA
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
24068 TGATCCATCAAATGATG
1 TGATCCATCAAATGATG
24085 GATTTGAATC
Statistics
Matches: 345, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 345 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
Found at i:25009 original size:83 final size:83
Alignment explanation
Indices: 24639--25287 Score: 1047
Period size: 82 Copynumber: 7.9 Consensus size: 83
24629 TGCACTTCTT
*
24639 CAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
**
24704 TGATT-GTTCTGTCCAAC
66 TGATTGGTTCTGTTAAAC
* *
24721 CAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
* * *
24786 TGCTTGGTTCT-ATATAAT
66 TGATTGGTTCTGTTA-AAC
24804 CAGATCA-ATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
* * * *
24868 TGATTGATTCT-ATATAT
66 TGATTGGTTCTGTTAAAC
* *
24885 CAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
24950 TGATTGGTTCTGTTAAAC
66 TGATTGGTTCTGTTAAAC
*
24968 CAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
*
25033 TGATTGGTTCTGTTAAAT
66 TGATTGGTTCTGTTAAAC
*
25051 CAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
* * *
25116 TGCTTGG-ACTGCTAAAC
66 TGATTGGTTCTGTTAAAC
*
25133 CAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
25198 TGATTGGTTCTGTTAAAC
66 TGATTGGTTCTGTTAAAC
*
25216 CAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
*
25281 TGCTTGG
66 TGATTGG
25288 ACTGGGATAT
Statistics
Matches: 528, Mismatches: 34, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
81 9 0.02
82 276 0.52
83 243 0.46
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAA
TGATTGGTTCTGTTAAAC
Found at i:25134 original size:165 final size:166
Alignment explanation
Indices: 24647--25291 Score: 1059
Period size: 165 Copynumber: 3.9 Consensus size: 166
24637 TTCAGATCAA
24647 ATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGATT-GT
1 ATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGATTGGT
** * *
24711 TCTGTCCAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
66 TCTGTTAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
* * *
24776 CCAAATTCAATGCTTGGTTCT-ATATAATCAGATCA-
131 CCAAATTCAATGCTTGGTACTGATA-AACCAGGTCAG
*
24811 ATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGATTGAT
1 ATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGATTGGT
* * *
24876 TCT-ATATATCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
66 TCTGTTAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
* * *
24940 CCAAATTCAATGATTGGTTCTGTTAAACCAGGTCAG
131 CCAAATTCAATGCTTGGTACTGATAAACCAGGTCAG
24976 ATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGATTGGT
1 ATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGATTGGT
* *
25041 TCTGTTAAATCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTT
66 TCTGTTAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
*
25106 CCAAATTCAATGCTTGG-ACTGCTAAACCAGGTCAG
131 CCAAATTCAATGCTTGGTACTGATAAACCAGGTCAG
25141 ATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGATTGGT
1 ATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGATTGGT
* * *
25206 TCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTT
66 TCTGTTAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
25271 CCAAATTCAATGCTTGG-ACTG
131 CCAAATTCAATGCTTGGTACTG
25292 GGATATCACA
Statistics
Matches: 455, Mismatches: 22, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
164 144 0.32
165 237 0.52
166 74 0.16
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (166 bp):
ATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGATTGGT
TCTGTTAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
CCAAATTCAATGCTTGGTACTGATAAACCAGGTCAG
Found at i:26387 original size:8 final size:7
Alignment explanation
Indices: 26371--26448 Score: 70
Period size: 7 Copynumber: 10.7 Consensus size: 7
26361 CTTGACCCCC
26371 TTTTTCT
1 TTTTTCT
26378 TTTTTCCT
1 TTTTT-CT
26386 TTTTT-T
1 TTTTTCT
*
26392 TTCTTCT
1 TTTTTCT
*
26399 CTTTT-T
1 TTTTTCT
26405 TTTTTCT
1 TTTTTCT
26412 TTTTTCAT
1 TTTTTC-T
*
26420 TTTCTATTT
1 TTT-T-TCT
26429 TTTTTCT
1 TTTTTCT
26436 TTTTTCT
1 TTTTTCT
26443 TCTTTT
1 T-TTTT
26449 TTCTCTTCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
6 10 0.17
7 26 0.45
8 16 0.28
9 5 0.09
10 1 0.02
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:26404 original size:24 final size:22
Alignment explanation
Indices: 26375--26450 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 22
26365 ACCCCCTTTT
*
26375 TCTTTTTTCCTTTTTTTTTCTTC
1 TCTTTTTT-TTTTTTTTTTCTTC
*
26398 TCTTTTTTTTTTCTTTTTTCATTT
1 TCTTTTTTTTTT-TTTTTTC-TTC
*
26422 TCTATTTTTTTTCTTTTTTCTTC
1 TCT-TTTTTTTTTTTTTTTCTTC
26445 T-TTTTT
1 TCTTTTT
26451 CTCTTCAAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 4 0.09
22 4 0.09
23 18 0.39
24 12 0.26
25 8 0.17
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (22 bp):
TCTTTTTTTTTTTTTTTTCTTC
Found at i:26409 original size:34 final size:34
Alignment explanation
Indices: 26371--26451 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
26361 CTTGACCCCC
*
26371 TTTTTCTTTTTTCCTTTT-T-TTTTCTTCTCTTTTT
1 TTTTTCTTTTTTCATTTTCTATTTT-TTCTC-TTTT
*
26405 TTTTTCTTTTTTCATTTTCTATTTTTTTTCTTTT
1 TTTTTCTTTTTTCATTTTCTATTTTTTCTCTTTT
*
26439 TTCTTCTTTTTTC
1 TTTTTCTTTTTTC
26452 TCTTCAAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 33 0.79
35 5 0.12
36 4 0.10
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (34 bp):
TTTTTCTTTTTTCATTTTCTATTTTTTCTCTTTT
Found at i:26448 original size:26 final size:26
Alignment explanation
Indices: 26377--26448 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
26367 CCCCTTTTTC
* * * *
26377 TTTTTTCCTTTTTTTTTCTTCTCTTT
1 TTTTTTTCTTTTTTCTTCTTTTCTAT
*
26403 TTTTTTTCTTTTTTC--ATTTTCTAT
1 TTTTTTTCTTTTTTCTTCTTTTCTAT
26427 TTTTTTTCTTTTTTCTTCTTTT
1 TTTTTTTCTTTTTTCTTCTTTT
26449 TTCTCTTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
24 21 0.55
26 17 0.45
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTTTCTTTTTTCTTCTTTTCTAT
Found at i:37045 original size:13 final size:13
Alignment explanation
Indices: 37027--37052 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37017 CTTTGACATA
37027 AAAATAAAATACT
1 AAAATAAAATACT
37040 AAAATAAAATACT
1 AAAATAAAATACT
37053 TGCAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATAAAATACT
Found at i:39312 original size:3 final size:3
Alignment explanation
Indices: 39304--39449 Score: 265
Period size: 3 Copynumber: 48.7 Consensus size: 3
39294 TTTAATATAT
*
39304 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
39352 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
39400 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
39448 TA
1 TA
39450 TGGATAAAAA
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 137 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:39998 original size:112 final size:113
Alignment explanation
Indices: 39800--40027 Score: 431
Period size: 112 Copynumber: 2.0 Consensus size: 113
39790 GGTTCGATTC
*
39800 ATTGTGGGTTAAGATCATTTCGAGTTTTGATCACTTCAAACTCGTATCATTTCATACTTCGATTG
1 ATTGTGGGTTAAGATCATTTCGAGATTTGATCACTTCAAACTCGTATCATTTCATACTTCGATTG
*
39865 TTGTAAATCTGGGTCATTTCTGGTTCGGATTGGTTTGAATCCAAGTCA
66 TTGTAAATCTGGGTCATTTCTGGTTCGAATTGGTTTGAATCCAAGTCA
39913 ATTGTGGGTTAAGATCATTTCGA-ATTTGATCACTTCAAACTCGTATCATTTCATACTTCGATTG
1 ATTGTGGGTTAAGATCATTTCGAGATTTGATCACTTCAAACTCGTATCATTTCATACTTCGATTG
39977 TTGTAAATCTGGGTCATTTCTGGTTCGAATTGGTTTGAATCCAAGTCA
66 TTGTAAATCTGGGTCATTTCTGGTTCGAATTGGTTTGAATCCAAGTCA
40025 ATT
1 ATT
40028 TATGTCCGAA
Statistics
Matches: 113, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
112 90 0.80
113 23 0.20
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (113 bp):
ATTGTGGGTTAAGATCATTTCGAGATTTGATCACTTCAAACTCGTATCATTTCATACTTCGATTG
TTGTAAATCTGGGTCATTTCTGGTTCGAATTGGTTTGAATCCAAGTCA
Found at i:42421 original size:91 final size:91
Alignment explanation
Indices: 42266--42443 Score: 356
Period size: 91 Copynumber: 2.0 Consensus size: 91
42256 CTGGTTGTAA
42266 TACCATGGTAGAGGATGAATCAACTAAGTGCAATGGAGTAACTTGGTGGTCCGACACACCTACAC
1 TACCATGGTAGAGGATGAATCAACTAAGTGCAATGGAGTAACTTGGTGGTCCGACACACCTACAC
42331 ATTTGATCAATTGAGAAACATGTTTT
66 ATTTGATCAATTGAGAAACATGTTTT
42357 TACCATGGTAGAGGATGAATCAACTAAGTGCAATGGAGTAACTTGGTGGTCCGACACACCTACAC
1 TACCATGGTAGAGGATGAATCAACTAAGTGCAATGGAGTAACTTGGTGGTCCGACACACCTACAC
42422 ATTTGATCAATTGAGAAACATG
66 ATTTGATCAATTGAGAAACATG
42444 AAAAACATGA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (91 bp):
TACCATGGTAGAGGATGAATCAACTAAGTGCAATGGAGTAACTTGGTGGTCCGACACACCTACAC
ATTTGATCAATTGAGAAACATGTTTT
Found at i:42706 original size:19 final size:18
Alignment explanation
Indices: 42684--42719 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
42674 TTAAAGGCTA
*
42684 TTTGTACTATTTCTCTCTT
1 TTTGTAATATTTC-CTCTT
42703 TTTGTAATATTTCCTCT
1 TTTGTAATATTTCCTCT
42720 ATTAGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.14, C:0.19, G:0.06, T:0.61
Consensus pattern (18 bp):
TTTGTAATATTTCCTCTT
Found at i:48711 original size:2 final size:2
Alignment explanation
Indices: 48704--48730 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48694 AGTTAGATTT
48704 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
48731 TTCAATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49867 original size:5 final size:5
Alignment explanation
Indices: 49857--49882 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49847 TCACGATTAC
49857 AAACA AAACA AAACA AAACA AAACA A
1 AAACA AAACA AAACA AAACA AAACA A
49883 TAGTAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:50185 original size:2 final size:2
Alignment explanation
Indices: 50173--50203 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
50163 TCTCCGTTAG
*
50173 CT CT AT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
50204 GAACTTCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:62305 original size:30 final size:30
Alignment explanation
Indices: 62234--62372 Score: 100
Period size: 30 Copynumber: 4.6 Consensus size: 30
62224 AACGAGGATA
*
62234 TAATCTCATGCAGATGTCAGAATGTATAAT
1 TAATCTCATGCAGATGTCAGAATGTAAAAT
* * *
62264 CAATCCCATGCAGATGTTAGAATG-AGAAAT
1 TAATCTCATGCAGATGTCAGAATGTA-AAAT
* * * * **
62294 TAATCTAATGCAAATGTCAAAACGGGAAAT
1 TAATCTCATGCAGATGTCAGAATGTAAAAT
* * * * * **
62324 TTATTTCGTACAGAAGTCAGAATGGGAAAT
1 TAATCTCATGCAGATGTCAGAATGTAAAAT
*
62354 TAATCCCATGCAGATGTCA
1 TAATCTCATGCAGATGTCA
62373 AAACGGGGAA
Statistics
Matches: 80, Mismatches: 27, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
29 1 0.01
30 79 0.99
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (30 bp):
TAATCTCATGCAGATGTCAGAATGTAAAAT
Found at i:63115 original size:13 final size:14
Alignment explanation
Indices: 63096--63131 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
63086 AAATAAATTT
63096 TATTTTTAAAAAAA
1 TATTTTTAAAAAAA
*
63110 TATTTTTAAGAAAA
1 TATTTTTAAAAAAA
63124 TATTTTTA
1 TATTTTTA
63132 GTGTTAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TATTTTTAAAAAAA
Found at i:64209 original size:28 final size:28
Alignment explanation
Indices: 64169--64234 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
64159 TCCAAACCCG
64169 ACCCGACCCGAATATCACACTTAAAAAA
1 ACCCGACCCGAATATCACACTTAAAAAA
64197 ACCCGACCCGAATATCACACTTAAAAAA
1 ACCCGACCCGAATATCACACTTAAAAAA
*
64225 ACCCAACCCG
1 ACCCGACCCG
64235 CTCGACCCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.44, C:0.36, G:0.08, T:0.12
Consensus pattern (28 bp):
ACCCGACCCGAATATCACACTTAAAAAA
Found at i:66610 original size:32 final size:32
Alignment explanation
Indices: 66574--66634 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
66564 GACTTGAATA
*
66574 CCTAAAA-GGATAACGTTTGTAGCGTTAGGGTG
1 CCTAAAAGGGA-AACGTTTGTAACGTTAGGGTG
66606 CCTAAAAGGGAAACGTTTGTAACGTTAGG
1 CCTAAAAGGGAAACGTTTGTAACGTTAGG
66635 CACCCTGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (32 bp):
CCTAAAAGGGAAACGTTTGTAACGTTAGGGTG
Found at i:67048 original size:21 final size:21
Alignment explanation
Indices: 67024--67096 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
67014 ACGTTGCATT
*
67024 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
67045 TCGCGTTGCG-T-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
67064 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
67085 TCGCGTTGCGAT
1 TCGCGTTGCGAT
67097 TTTCCATTTC
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 24 0.62
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:67064 original size:40 final size:41
Alignment explanation
Indices: 67020--67121 Score: 188
Period size: 40 Copynumber: 2.5 Consensus size: 41
67010 ATTCACGTTG
*
67020 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCG-TTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
67060 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
67101 CATTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGATAGTTG
67122 GTCATTTTCG
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
40 34 0.57
41 26 0.43
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:67292 original size:17 final size:17
Alignment explanation
Indices: 67270--67303 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
67260 AATTTTCTAG
67270 GAATCCGACACTTTGGT
1 GAATCCGACACTTTGGT
67287 GAATCCGACACTTTGGT
1 GAATCCGACACTTTGGT
67304 TCAATGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (17 bp):
GAATCCGACACTTTGGT
Found at i:69372 original size:15 final size:17
Alignment explanation
Indices: 69342--69373 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
69332 CAAATAATTA
69342 ATCACATACATTATTTT
1 ATCACATACATTATTTT
69359 ATCA-ATAC-TTATTTT
1 ATCACATACATTATTTT
69374 GTAAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (17 bp):
ATCACATACATTATTTT
Found at i:69768 original size:37 final size:37
Alignment explanation
Indices: 69717--69792 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
69707 TGTCAATCAA
* *
69717 ACCCGACTCGAAAA-TATACACCATCCACCCGAACTCG
1 ACCCGACCCAAAAATTATACACCATCCACCCG-ACTCG
* * *
69754 ACCCGACCCAAAAATTTTATACCCTCCACCCGACTCG
1 ACCCGACCCAAAAATTATACACCATCCACCCGACTCG
69791 AC
1 AC
69793 ACGAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
37 19 0.58
38 14 0.42
ACGTcount: A:0.33, C:0.42, G:0.09, T:0.16
Consensus pattern (37 bp):
ACCCGACCCAAAAATTATACACCATCCACCCGACTCG
Found at i:72068 original size:78 final size:78
Alignment explanation
Indices: 71939--72096 Score: 316
Period size: 78 Copynumber: 2.0 Consensus size: 78
71929 TCACGTTATA
71939 CACCAGAAATGAGAATGATATAGCAAGCAACATCTGTAGCTCTAGCAGCAGTAAAATTCACAATG
1 CACCAGAAATGAGAATGATATAGCAAGCAACATCTGTAGCTCTAGCAGCAGTAAAATTCACAATG
72004 AAAGACACATAAT
66 AAAGACACATAAT
72017 CACCAGAAATGAGAATGATATAGCAAGCAACATCTGTAGCTCTAGCAGCAGTAAAATTCACAATG
1 CACCAGAAATGAGAATGATATAGCAAGCAACATCTGTAGCTCTAGCAGCAGTAAAATTCACAATG
72082 AAAGACACATAAT
66 AAAGACACATAAT
72095 CA
1 CA
72097 GCAAAATTAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (78 bp):
CACCAGAAATGAGAATGATATAGCAAGCAACATCTGTAGCTCTAGCAGCAGTAAAATTCACAATG
AAAGACACATAAT
Found at i:76958 original size:124 final size:125
Alignment explanation
Indices: 76726--77067 Score: 371
Period size: 124 Copynumber: 2.8 Consensus size: 125
76716 ATGCCGGAAA
* * * *
76726 TTGTGATCCGGCAACAATAATCAGTCTAAATAGCAGCCATGAA-AACTTGAAACGAGATC-AAAG
1 TTGTGATCCGACAACAACAATCAGTC-AAATTGCAGCCAT-AAGAACTTGAAACAAGATCAAAAG
* * *
76789 AGTTTCCATATCTATT-AAACATGGTCCAGAAAACTATACTAAACTAAACTAATGCTCAAAG
64 AGTTTCCATATCTATTCAAACATGGTCAAGAAAACAAGACTAAACTAAACTAATGCTCAAAG
*
76850 TTGTGATCCAACAACAACAATCAGTCAAAATTGCAGCCATAAGAACTTGAAAACAAGATCAAAAG
1 TTGTGATCCGACAACAACAATCAGTC-AAATTGCAGCCATAAGAACTTG-AAACAAGATCAAAAG
* **
76915 AGTTTCCATATCTATTCAACCATGGTCAAG-ACTCAAGA-T-AACTAAACTAATGCTCAAAG
64 AGTTTCCATATCTATTCAAACATGGTCAAGAAAACAAGACTAAACTAAACTAATGCTCAAAG
* *** *
76974 TTATGATCCGACATTGACGATCAG-C-AATTAAG-AGCCATAAGAACTTGAAACAAGATCAAAA-
1 TTGTGATCCGACAACAACAATCAGTCAAATT--GCAGCCATAAGAACTTGAAACAAGATCAAAAG
* * * * *
77035 AGCTTCCATTTCCATTCAAACCTGGTTAAGAAA
64 AGTTTCCATATCTATTCAAACATGGTCAAGAAA
77068 CAGTAACTAA
Statistics
Matches: 186, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
120 24 0.13
121 19 0.10
122 15 0.08
123 4 0.02
124 79 0.42
125 10 0.05
126 24 0.13
127 11 0.06
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (125 bp):
TTGTGATCCGACAACAACAATCAGTCAAATTGCAGCCATAAGAACTTGAAACAAGATCAAAAGAG
TTTCCATATCTATTCAAACATGGTCAAGAAAACAAGACTAAACTAAACTAATGCTCAAAG
Found at i:78230 original size:20 final size:21
Alignment explanation
Indices: 78188--78231 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
78178 TAAAAATAAA
*
78188 TTATTTAAAAAATTATTATTT
1 TTATTTAAAAAATTAATATTT
**
78209 TTATTTAAAATTTTAATATTT
1 TTATTTAAAAAATTAATATTT
78230 TT
1 TT
78232 TAATATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTTAAAAAATTAATATTT
Found at i:78829 original size:21 final size:21
Alignment explanation
Indices: 78803--78842 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
78793 TCTAATTTTG
78803 CCAATAAACAAGTCACCTTTA
1 CCAATAAACAAGTCACCTTTA
* *
78824 CCAATAATCAATTCACCTT
1 CCAATAAACAAGTCACCTT
78843 GACCGACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.30, G:0.03, T:0.28
Consensus pattern (21 bp):
CCAATAAACAAGTCACCTTTA
Found at i:79067 original size:22 final size:22
Alignment explanation
Indices: 79036--79078 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
79026 AATTTGTATG
* *
79036 TTTATTCATTTAGTTCTTAATA
1 TTTATACATTTAGTCCTTAATA
79058 TTTATACATTTAGTCCTTAAT
1 TTTATACATTTAGTCCTTAAT
79079 TTAAATTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTATACATTTAGTCCTTAATA
Found at i:79524 original size:3 final size:3
Alignment explanation
Indices: 79511--79590 Score: 128
Period size: 3 Copynumber: 26.7 Consensus size: 3
79501 GATGTGGCAG
79511 CTT CTTT CTT CTT CTT CTT -TT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
79556 CTT CTT CTT CTT CTT CTT CTT C-T CTTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CT
79591 CTCACACTAT
Statistics
Matches: 73, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.05
3 64 0.88
4 5 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:80482 original size:3 final size:3
Alignment explanation
Indices: 80474--80570 Score: 61
Period size: 3 Copynumber: 29.7 Consensus size: 3
80464 AGAGTGTGTG
*
80474 AGA AGA AGA AGA AGA GGA AGGA AGGA AGA AGGA AGGA AGA AGAA AGAA
1 AGA AGA AGA AGA AGA AGA A-GA A-GA AGA A-GA A-GA AGA AG-A AG-A
* * * *
80522 AGAA AGA AGA AGA A-A GGA AGAA AGAA AGA AGA GGA GGA GGA AGA AGA
1 AG-A AGA AGA AGA AGA AGA AG-A AG-A AGA AGA AGA AGA AGA AGA AGA
80569 AG
1 AG
80571 CTGTCACGTC
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
2 1 0.01
3 50 0.60
4 32 0.39
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:80524 original size:22 final size:22
Alignment explanation
Indices: 80494--80566 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
80484 GAAGAGGAAG
* *
80494 GAAGGAAGAAGGAAGGAA-GAA
1 GAAGAAAGAAAGAAGGAAGGAA
*
80515 GAAAGAAAGAAAGAA-GAAGAAA
1 G-AAGAAAGAAAGAAGGAAGGAA
* *
80537 GGAAGAAAGAAAGAAGAGGAGGAG
1 -GAAGAAAGAAAGAAG-GAAGGAA
80561 GAAGAA
1 GAAGAA
80567 GAAGCTGTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
21 4 0.10
22 26 0.63
23 7 0.17
24 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (22 bp):
GAAGAAAGAAAGAAGGAAGGAA
Found at i:80546 original size:4 final size:4
Alignment explanation
Indices: 80513--80551 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
80503 AGGAAGGAAG
*
80513 AAGA AAGA AAGA AAG- AAG- AAGA AAGG AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
80552 GAGGAGGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 6 0.19
4 26 0.81
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:86158 original size:155 final size:157
Alignment explanation
Indices: 85909--86239 Score: 436
Period size: 155 Copynumber: 2.1 Consensus size: 157
85899 GATGTCAAAA
* * * * * *
85909 GTATTTTATTATGGTATATGAGTATGTGTTTAAATTTAGTAAAAAAATGAATTTAAAATAAATGA
1 GTATTTTATTATGGTTTAAGAATATGTGCTTAAATTTAGT-AAAAAATGAACTTAAAATAAACGA
* * * *
85974 CAAATTGAAAGAATATGGAGGTTATGAAAAATTGAAGGATTAAATTTAAAAATAAAAAA-TTGTT
65 CAAATTGAAAGAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTGTT
*
86038 ATCAAAAAGAAGAATTGAAAGTACACAT
130 ATCAAAAAGAAGAATTGAAAATACACAT
*
86066 GTATTTTATTATGGTTTAAGAATATGTGGCTTAAATTTGGT-AAAAATG-ACTTAAAATAAACGA
1 GTATTTTATTATGGTTTAAGAATATGT-GCTTAAATTTAGTAAAAAATGAACTTAAAATAAACGA
*
86129 CTAATTGAATA-AATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTGT
65 CAAATTGAA-AGAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTGT
* * *
86193 TATTAAAAAGAAGGATTGAAAATATACAT
129 TATCAAAAAGAAGAATTGAAAATACACAT
* * *
86222 GAATTATACTATGGTTTA
1 GTATTTTATTATGGTTTA
86240 GGATATGCCT
Statistics
Matches: 152, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
155 65 0.43
156 52 0.34
157 24 0.16
158 11 0.07
ACGTcount: A:0.48, C:0.03, G:0.16, T:0.33
Consensus pattern (157 bp):
GTATTTTATTATGGTTTAAGAATATGTGCTTAAATTTAGTAAAAAATGAACTTAAAATAAACGAC
AAATTGAAAGAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTGTTA
TCAAAAAGAAGAATTGAAAATACACAT
Found at i:87488 original size:31 final size:31
Alignment explanation
Indices: 87453--87529 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
87443 ACACCGATGC
* *
87453 ACCTAGAGTGGTAACGTTTGTAATGTCAGAT
1 ACCTAAAGTGGTAACGTTTGTAACGTCAGAT
**
87484 ACCTAAAGTGGTAACGTTTGTAACGTCAGGC
1 ACCTAAAGTGGTAACGTTTGTAACGTCAGAT
*
87515 GCCTAAAGTGGTAAC
1 ACCTAAAGTGGTAAC
87530 ATTTATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (31 bp):
ACCTAAAGTGGTAACGTTTGTAACGTCAGAT
Found at i:93835 original size:12 final size:12
Alignment explanation
Indices: 93818--93845 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
93808 AGAGAAGAGT
93818 TTTTCATTTTTA
1 TTTTCATTTTTA
93830 TTTTCATTTTTA
1 TTTTCATTTTTA
93842 TTTT
1 TTTT
93846 TATTGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCATTTTTA
Found at i:98308 original size:16 final size:17
Alignment explanation
Indices: 98287--98321 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
98277 CATCACATAA
*
98287 ATTAAAATAG-AATTTT
1 ATTAAAAAAGTAATTTT
98303 ATTAAAAAAGTAATTTT
1 ATTAAAAAAGTAATTTT
98320 AT
1 AT
98322 AATAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
ATTAAAAAAGTAATTTT
Found at i:99045 original size:37 final size:36
Alignment explanation
Indices: 98970--99045 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
98960 TTTTTATATT
*
98970 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
99006 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
99043 TTT
1 TTT
99046 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:99227 original size:20 final size:20
Alignment explanation
Indices: 99191--99228 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99181 ATCCTATTCC
**
99191 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
99211 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
99229 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:103651 original size:21 final size:19
Alignment explanation
Indices: 103601--103651 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
103591 TCATTTTTAG
103601 AATAATTT-ATATTTAAAA
1 AATAATTTAATATTTAAAA
*
103619 ATAAAATATTAATATTATAAATA
1 A-ATAAT-TTAATATT-TAAA-A
103642 AATAATTTAA
1 AATAATTTAA
103652 AATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 1 0.04
19 4 0.15
20 2 0.08
21 9 0.35
22 8 0.31
23 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATAATTTAATATTTAAAA
Found at i:104451 original size:14 final size:14
Alignment explanation
Indices: 104432--104497 Score: 62
Period size: 14 Copynumber: 4.4 Consensus size: 14
104422 TTCACAATAG
104432 GAAAATCGCAACAC
1 GAAAATCGCAACAC
104446 GAAAATCGCAACGA-
1 GAAAATCGCAAC-AC
104460 GAAATGAAATTCGCAACAC
1 G--A--AAA-TCGCAACAC
*
104479 GAAAATCGCAACGC
1 GAAAATCGCAACAC
104493 GAAAA
1 GAAAA
104498 CTAAAATTGC
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
14 26 0.59
15 4 0.09
16 1 0.02
17 1 0.02
18 4 0.09
19 8 0.18
ACGTcount: A:0.50, C:0.23, G:0.18, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:104474 original size:33 final size:33
Alignment explanation
Indices: 104432--104496 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
104422 TTCACAATAG
104432 GAAAATCGCAACACGAAAATCGCAACGAGAAAT
1 GAAAATCGCAACACGAAAATCGCAACGAGAAAT
* *
104465 GAAATTCGCAACACGAAAATCGCAACGCGAAA
1 GAAAATCGCAACACGAAAATCGCAACGAGAAA
104497 ACTAAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.49, C:0.23, G:0.18, T:0.09
Consensus pattern (33 bp):
GAAAATCGCAACACGAAAATCGCAACGAGAAAT
Found at i:104544 original size:14 final size:14
Alignment explanation
Indices: 104521--104561 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
104511 GCGAATTTCA
*
104521 TTTCGCGTTGCGAT
1 TTTCGTGTTGCGAT
*
104535 TTTCGTGTTGTGAT
1 TTTCGTGTTGCGAT
*
104549 TTTCCTGTTGCGA
1 TTTCGTGTTGCGA
104562 ATTTAAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.07, C:0.17, G:0.27, T:0.49
Consensus pattern (14 bp):
TTTCGTGTTGCGAT
Found at i:104952 original size:22 final size:22
Alignment explanation
Indices: 104907--104954 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
104897 GATGGAGGGG
* *
104907 GTCGTCGGATATGGGAACGGAT
1 GTCGTCGGAGATGGGAACGAAT
* *
104929 GTCGTCGGAGATGGGGATGAAT
1 GTCGTCGGAGATGGGAACGAAT
104951 GTCG
1 GTCG
104955 CCGTAGAGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.12, G:0.44, T:0.23
Consensus pattern (22 bp):
GTCGTCGGAGATGGGAACGAAT
Found at i:105092 original size:19 final size:20
Alignment explanation
Indices: 105070--105107 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
105060 ATATTCGTGT
105070 TTTGAATT-CGAAAATAAAA
1 TTTGAATTGCGAAAATAAAA
**
105089 TTTGCGTTGCGAAAATAAA
1 TTTGAATTGCGAAAATAAA
105108 CGCGCTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (20 bp):
TTTGAATTGCGAAAATAAAA
Found at i:105180 original size:20 final size:20
Alignment explanation
Indices: 105157--105204 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
105147 ATTCATGTTA
105157 CGAATTTGAAAATCACAATG
1 CGAATTTGAAAATCACAATG
* * * **
105177 CGAATCTAAAAATCGCGTTG
1 CGAATTTGAAAATCACAATG
105197 CGAATTTG
1 CGAATTTG
105205 GGAAATCGCG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (20 bp):
CGAATTTGAAAATCACAATG
Found at i:105212 original size:21 final size:21
Alignment explanation
Indices: 105186--105246 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
105176 GCGAATCTAA
105186 AAATCGCGTTGCGAATTTGGG
1 AAATCGCGTTGCGAATTTGGG
**
105207 AAATCGCGTTGCG-ATTTCAG
1 AAATCGCGTTGCGAATTTGGG
*
105227 AAA-CTGAGTTGCGAATTTGG
1 AAATC-GCGTTGCGAATTTGG
105247 AAACTGTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 15 0.45
21 17 0.52
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (21 bp):
AAATCGCGTTGCGAATTTGGG
Found at i:105249 original size:20 final size:21
Alignment explanation
Indices: 105193--105261 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 21
105183 TAAAAATCGC
* *
105193 GTTGCGAATTTGGGAAA-TCGC
1 GTTGCGAATTTCGGAAACT-GA
*
105214 GTTGCG-ATTTCAGAAACTGA
1 GTTGCGAATTTCGGAAACTGA
*
105234 GTTGCGAATTT-GGAAACTGT
1 GTTGCGAATTTCGGAAACTGA
105254 GTTGCGAA
1 GTTGCGAA
105262 ATTGGAGTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 30 0.73
21 11 0.27
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (21 bp):
GTTGCGAATTTCGGAAACTGA
Found at i:105266 original size:20 final size:20
Alignment explanation
Indices: 105226--105267 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
105216 TGCGATTTCA
*
105226 GAAACTGAGTTGCGAATTTG
1 GAAACTGAGTTGCGAAATTG
*
105246 GAAACTGTGTTGCGAAATTG
1 GAAACTGAGTTGCGAAATTG
105266 GA
1 GA
105268 GTTCTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (20 bp):
GAAACTGAGTTGCGAAATTG
Found at i:109084 original size:21 final size:22
Alignment explanation
Indices: 109050--109090 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
109040 GGAAGGATAT
*
109050 GAGAGCAAATTGGTG-GAATTC
1 GAGAGCAAAGTGGTGAGAATTC
*
109071 GAGAGCATAGTGGTGAGAAT
1 GAGAGCAAAGTGGTGAGAAT
109091 ATATTTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.07, G:0.37, T:0.22
Consensus pattern (22 bp):
GAGAGCAAAGTGGTGAGAATTC
Found at i:109741 original size:122 final size:121
Alignment explanation
Indices: 109520--109890 Score: 460
Period size: 122 Copynumber: 3.0 Consensus size: 121
109510 AATCGAAGAT
* * *
109520 TAAATTAATTTTAATTTATTAAAATTAGGACTAAATTGATAGAATCTATAAGTGAAAGTGA-AGA
1 TAAATTAATTTTAATTTATTAAAATTACGACTAAATTGATAGAATATATAAGTCAAAGTGACA-A
*
109584 AATGTGTAATTATATCAATTTTATTAAATTTTAAAACTTAAGATGAGATAAAATATA
65 AATGTGTAATTATATCAATTTCATTAAATTTTAAAACTTAAGATGAGATAAAATATA
* * *
109641 TAAATTTAATTTTAATTTTTTAAAATTACGACTAAATTAATAGAATATAAAAGT-ATAAGTGACA
1 TAAA-TTAATTTTAATTTATTAAAATTACGACTAAATTGATAGAATATATAAGTCA-AAGTGACA
* * * *
109705 AAATAT-AACATTATATCAATTTCATTAAATTTTAAAATTTAAGATGGGGTGAGATAAAAAATA
64 AAATGTGTA-ATTATATCAATTTCATTAAATTTTAAAACTTAAGA-----TGAGATAAAATATA
* * * *** *
109768 TAAAGTAATTTTAATTTATTAAAATTATGATTAAATTGATAGAATATATAAGTCAAACCAACCAA
1 TAAATTAATTTTAATTTATTAAAATTACGACTAAATTGATAGAATATATAAGTCAAAGTGACAAA
* *
109833 ATGTGTAATTATATCAATTTGATTAAATTTTAAAAGTTAAGATGAGATAAAATATA
66 ATGTGTAATTATATCAATTTCATTAAATTTTAAAACTTAAGATGAGATAAAATATA
109889 TA
1 TA
109891 TTATTTTTTT
Statistics
Matches: 214, Mismatches: 25, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
121 21 0.10
122 88 0.41
123 1 0.00
126 85 0.40
127 19 0.09
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.37
Consensus pattern (121 bp):
TAAATTAATTTTAATTTATTAAAATTACGACTAAATTGATAGAATATATAAGTCAAAGTGACAAA
ATGTGTAATTATATCAATTTCATTAAATTTTAAAACTTAAGATGAGATAAAATATA
Found at i:109917 original size:126 final size:122
Alignment explanation
Indices: 109524--109896 Score: 414
Period size: 126 Copynumber: 3.0 Consensus size: 122
109514 GAAGATTAAA
* * ** *
109524 TTAATTTTAATTTATTAAAATTAGGACTAAATTGATAGAATCTATAAGTGAAAGTGAA-GAAATG
1 TTAATTTTAATTTATTAAAATTACGACTAAATTGATAGAATATATAAGT-AAA-CCAACAAAATG
*
109588 TGTAATTATATCAATTTTATTAAATTTTAAAACTTAAGATGAGATAAAATATATA-AAT
64 TGTAATTATATCAATTTCATTAAATTTTAAAACTTAAGATGAGATAAAATATATATAAT
* * * *** *
109646 TTAATTTTAATTTTTTAAAATTACGACTAAATTAATAGAATATAAAAGTATAAGTGACAAAATAT
1 TTAATTTTAATTTATTAAAATTACGACTAAATTGATAGAATATATAAGTA-AACCAACAAAATGT
* * *
109711 -AACATTATATCAATTTCATTAAATTTTAAAATTTAAGATGGGGTGAGATAAAA-A-ATATAAA
65 GTA-ATTATATCAATTTCATTAAATTTTAAAACTTAAGA-----TGAGATAAAATATATATAAT
* * * *
109772 GTAATTTTAATTTATTAAAATTATGATTAAATTGATAGAATATATAAGTCAAACCAACCAAATGT
1 TTAATTTTAATTTATTAAAATTACGACTAAATTGATAGAATATATAAGT-AAACCAACAAAATGT
* * *
109837 GTAATTATATCAATTTGATTAAATTTTAAAAGTTAAGATGAGATAAAATATATATTAT
65 GTAATTATATCAATTTCATTAAATTTTAAAACTTAAGATGAGATAAAATATATATAAT
109895 TT
1 TT
109897 TTTTGTTAGA
Statistics
Matches: 207, Mismatches: 31, Indels: 25
0.79 0.12 0.10
Matches are distributed among these distances:
121 13 0.06
122 85 0.41
123 6 0.03
125 3 0.01
126 88 0.43
127 12 0.06
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.38
Consensus pattern (122 bp):
TTAATTTTAATTTATTAAAATTACGACTAAATTGATAGAATATATAAGTAAACCAACAAAATGTG
TAATTATATCAATTTCATTAAATTTTAAAACTTAAGATGAGATAAAATATATATAAT
Found at i:111853 original size:23 final size:23
Alignment explanation
Indices: 111806--111934 Score: 111
Period size: 23 Copynumber: 5.6 Consensus size: 23
111796 TGAAGTGTCG
111806 CGTAGAATATG-CACCGAAGTG-CCA
1 CGTAGAA-ATGTC-CCGAAG-GACCA
*
111830 CGTAGAAATATCCCGAAGGACCA
1 CGTAGAAATGTCCCGAAGGACCA
* * * * * *
111853 CATAGTATTGTTCTGAATGA-CA
1 CGTAGAAATGTCCCGAAGGACCA
*
111875 CGTAGAAATGTCCCAAAGGACCA
1 CGTAGAAATGTCCCGAAGGACCA
* *
111898 TGTAGAATTGTCCCGAAGGACCA
1 CGTAGAAATGTCCCGAAGGACCA
*
111921 CGTAGAATTGTCCC
1 CGTAGAAATGTCCC
111935 AAACCGCGTA
Statistics
Matches: 83, Mismatches: 19, Indels: 7
0.76 0.17 0.06
Matches are distributed among these distances:
22 16 0.19
23 59 0.71
24 8 0.10
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.21
Consensus pattern (23 bp):
CGTAGAAATGTCCCGAAGGACCA
Found at i:111894 original size:45 final size:46
Alignment explanation
Indices: 111819--111937 Score: 134
Period size: 45 Copynumber: 2.6 Consensus size: 46
111809 AGAATATGCA
* * * *
111819 CCGAAGTG-CCACGTAGAAATATCCCGAAGGACCACATAGTATTGTT
1 CCGAAG-GACCACGTAGAAATGTCCCAAAGGACCACATAGAATTGTC
* * **
111865 CTGAATGA-CACGTAGAAATGTCCCAAAGGACCATGTAGAATTGTC
1 CCGAAGGACCACGTAGAAATGTCCCAAAGGACCACATAGAATTGTC
*
111910 CCGAAGGACCACGTAGAATTGTCCCAAA
1 CCGAAGGACCACGTAGAAATGTCCCAAA
111938 CCGCGTAGAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 38 0.63
46 22 0.37
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (46 bp):
CCGAAGGACCACGTAGAAATGTCCCAAAGGACCACATAGAATTGTC
Found at i:111946 original size:20 final size:22
Alignment explanation
Indices: 111827--111947 Score: 95
Period size: 23 Copynumber: 5.5 Consensus size: 22
111817 CACCGAAGTG
* *
111827 CCACGTAGAAATATCCCGAAGGA
1 CCACGTAGAATTGTCCCGAA-GA
* * * *
111850 CCACATAGTATTGTTCTGAATGA
1 CCACGTAGAATTGTCCCGAA-GA
* *
111873 -CACGTAGAAATGTCCCAAAGGA
1 CCACGTAGAATTGTCCCGAA-GA
*
111895 CCATGTAGAATTGTCCCGAAGGA
1 CCACGTAGAATTGTCCCGAA-GA
111918 CCACGTAGAATTGTCCC-AA-A
1 CCACGTAGAATTGTCCCGAAGA
*
111938 CCGCGTAGAA
1 CCACGTAGAA
111948 CTCTCGACTC
Statistics
Matches: 78, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
20 10 0.13
22 17 0.22
23 51 0.65
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (22 bp):
CCACGTAGAATTGTCCCGAAGA
Found at i:115267 original size:2 final size:2
Alignment explanation
Indices: 115260--115290 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
115250 TCATTTTTAC
115260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115291 GAATTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:119906 original size:49 final size:50
Alignment explanation
Indices: 119834--119932 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 50
119824 ATGTCACATA
* *
119834 GATTTATAGTTAAAAAATAAAATAAAAAATTACATTT-TTTAGGTCTTAG
1 GATTTATAATTAAAAAATAAAATAAAAAATTACATTTACTTAGGTCTTAG
119883 GATTTATAATTAAAAAATAAAATAAAAAATTACATTTACTTAGGTCTTAG
1 GATTTATAATTAAAAAATAAAATAAAAAATTACATTTACTTAGGTCTTAG
119933 TATAGTCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 36 0.77
50 11 0.23
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.37
Consensus pattern (50 bp):
GATTTATAATTAAAAAATAAAATAAAAAATTACATTTACTTAGGTCTTAG
Found at i:124485 original size:93 final size:91
Alignment explanation
Indices: 124371--124599 Score: 332
Period size: 93 Copynumber: 2.5 Consensus size: 91
124361 ATCCCTTTTC
** * * *
124371 AAAAAGATCGATTTCTTGACCAAAATGATCGATCCCAAACTTTTTATTGTGCAAATGATCAATCC
1 AAAAAGATCGATCACTCGACCAAAAGGATCGATCCCAAACTTTCTATTGTGCAAATGATCAAT-C
*
124436 CTTTTCAAAAGGAACGATCCCTCAGGAA
65 CTTTTCAAAAGGAAAGATCCCTC-GGAA
* * *
124464 AAAAAGATCGATCCCTCGACCAAAAGGATCGATCCCAAACTTTCTGTTGTGCAAATGATCGATCC
1 AAAAAGATCGATCACTCGACCAAAAGGATCGATCCCAAACTTTCTATTGTGCAAATGATCAATCC
*
124529 TTTTCAAAAGGAAAGATCCCTCGGGA
66 TTTTCAAAAGGAAAGATCCCTCGGAA
* *
124555 AAAAAGATTGATCACTCGACAAAAAGGATCGATCCCAAACTTTCT
1 AAAAAGATCGATCACTCGACCAAAAGGATCGATCCCAAACTTTCT
124600 GTTATGAAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
91 45 0.36
92 23 0.19
93 56 0.45
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.25
Consensus pattern (91 bp):
AAAAAGATCGATCACTCGACCAAAAGGATCGATCCCAAACTTTCTATTGTGCAAATGATCAATCC
TTTTCAAAAGGAAAGATCCCTCGGAA
Found at i:124493 original size:21 final size:21
Alignment explanation
Indices: 124441--124499 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
124431 AATCCCTTTT
*
124441 CAAAAGGAACGATCCCTCAGGA
1 CAAAAGGATCGATCCCTCA-GA
* *
124463 AAAAAAGATCGATCCCTC-GA
1 CAAAAGGATCGATCCCTCAGA
124483 CCAAAAGGATCGATCCC
1 -CAAAAGGATCGATCCC
124500 AAACTTTCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 2 0.06
21 14 0.45
22 15 0.48
ACGTcount: A:0.41, C:0.29, G:0.19, T:0.12
Consensus pattern (21 bp):
CAAAAGGATCGATCCCTCAGA
Found at i:124567 original size:21 final size:21
Alignment explanation
Indices: 124543--124590 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
124533 CAAAAGGAAA
** *
124543 GATCCCTCGGGAAAAAAGATT
1 GATCCCTCGACAAAAAAGATC
* *
124564 GATCACTCGACAAAAAGGATC
1 GATCCCTCGACAAAAAAGATC
124585 GATCCC
1 GATCCC
124591 AAACTTTCTG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (21 bp):
GATCCCTCGACAAAAAAGATC
Found at i:124596 original size:91 final size:92
Alignment explanation
Indices: 124371--124619 Score: 338
Period size: 91 Copynumber: 2.7 Consensus size: 92
124361 ATCCCTTTTC
** * * * * * *
124371 AAAAAGATCGATTTCTTGACCAAAATGATCGATCCCAAACTTTTTATTGTGCAAATGATCAATCC
1 AAAAAGATCGATCACTCGACAAAAAGGATCGATCCCAAACTTTCTGTTGTGCAAATGATCGAT-C
*
124436 CTTTTCAAAAGGAACGATCCCTCAGGAA
65 CTTTTCAAAAGGAAAGATCCCTCAGGAA
* *
124464 AAAAAGATCGATCCCTCGACCAAAAGGATCGATCCCAAACTTTCTGTTGTGCAAATGATCGATCC
1 AAAAAGATCGATCACTCGACAAAAAGGATCGATCCCAAACTTTCTGTTGTGCAAATGATCGATCC
*
124529 TTTTCAAAAGGAAAGATCCCTC-GGGA
66 TTTTCAAAAGGAAAGATCCCTCAGGAA
* * * *
124555 AAAAAGATTGATCACTCGACAAAAAGGATCGATCCCAAACTTTCTGTTATGAAAAGGATCGATCC
1 AAAAAGATCGATCACTCGACAAAAAGGATCGATCCCAAACTTTCTGTTGTGCAAATGATCGATCC
124620 ATCGGGGAAA
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
91 62 0.44
92 23 0.16
93 56 0.40
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (92 bp):
AAAAAGATCGATCACTCGACAAAAAGGATCGATCCCAAACTTTCTGTTGTGCAAATGATCGATCC
TTTTCAAAAGGAAAGATCCCTCAGGAA
Found at i:130407 original size:22 final size:22
Alignment explanation
Indices: 130382--130428 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
130372 TTTATTTCTC
*
130382 ATTTTTATATTTTTAAAATTAA
1 ATTTCTATATTTTTAAAATTAA
130404 ATTTCTATATTTTTAAAATTAA
1 ATTTCTATATTTTTAAAATTAA
130426 ATT
1 ATT
130429 ATTTTCCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTCTATATTTTTAAAATTAA
Found at i:130916 original size:2 final size:2
Alignment explanation
Indices: 130909--130940 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
130899 CTAAAAGAGT
*
130909 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
130941 ATGTTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:141547 original size:37 final size:38
Alignment explanation
Indices: 141490--141582 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 38
141480 ATAAACTATC
* * *
141490 TCCTGAAGTACCTATTATCCCGAAGGATGTCATCTGTG
1 TCCTGAAGTACCTATCATCCCGAAGGATGTAATATGTG
141528 T-CTGAAGTACCTATCATCCCGAAGGATGTAATATGTG
1 TCCTGAAGTACCTATCATCCCGAAGGATGTAATATGTG
* *
141565 TCCTTAAGAACCTATCAT
1 TCCTGAAGTACCTATCAT
141583 ATGTCTCGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
37 34 0.69
38 15 0.31
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (38 bp):
TCCTGAAGTACCTATCATCCCGAAGGATGTAATATGTG
Found at i:142524 original size:31 final size:30
Alignment explanation
Indices: 142485--142556 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
142475 ATACAACCAT
* * *
142485 TCCC-AACTTTTTCCAAAATTACGAATTGG
1 TCCCTAACTTTTTACAAAATTACAAAATGG
*
142514 TCCCTTAAC-TTTTAGAAAATTACAAAATGG
1 TCCC-TAACTTTTTACAAAATTACAAAATGG
*
142544 TCCCTAATTTTTT
1 TCCCTAACTTTTT
142557 TAAAGCTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 7 0.20
30 25 0.71
31 3 0.09
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (30 bp):
TCCCTAACTTTTTACAAAATTACAAAATGG
Found at i:151767 original size:2 final size:2
Alignment explanation
Indices: 151760--151785 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
151750 ATTTTAATGA
151760 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
151786 TGTATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:153000 original size:35 final size:35
Alignment explanation
Indices: 152954--153050 Score: 124
Period size: 35 Copynumber: 2.8 Consensus size: 35
152944 AACACAGTCA
* *
152954 TCAATTACATTCTATACCCCAAAATTCAAAATGCT
1 TCAATTACATTCTAAACCCCAAAATTCAAAATACT
* *
152989 TCAATTACATTCTAAACCTCAAATTTCAAAATACT
1 TCAATTACATTCTAAACCCCAAAATTCAAAATACT
* **
153024 TCAATTACATGCCCAACCCC-AAATTCA
1 TCAATTACATTCTAAACCCCAAAATTCA
153051 TAATCCATTC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 6 0.11
35 47 0.89
ACGTcount: A:0.40, C:0.28, G:0.02, T:0.30
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAAATTCAAAATACT
Found at i:153582 original size:80 final size:80
Alignment explanation
Indices: 153422--153571 Score: 291
Period size: 80 Copynumber: 1.9 Consensus size: 80
153412 TGCTGACACA
153422 TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGCCA
1 TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGCCA
153487 CATAAACACTTCCGT
66 CATAAACACTTCCGT
*
153502 TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGTCA
1 TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGCCA
153567 CATAA
66 CATAA
153572 GTATTTCCGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (80 bp):
TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGCCA
CATAAACACTTCCGT
Found at i:156821 original size:35 final size:35
Alignment explanation
Indices: 156775--156854 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
156765 AACACAGTCA
*
156775 TCAATTACATTCTAAACCCCAAAATCCAAAATGCT
1 TCAATTACATTCTAAACCCCAAAATCCAAAATACT
* * **
156810 TCAATTACATTCTAAACCTCAAATTTTAAAATACT
1 TCAATTACATTCTAAACCCCAAAATCCAAAATACT
156845 TCAATTACAT
1 TCAATTACAT
156855 GACCAACCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.42, C:0.24, G:0.01, T:0.33
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAAATCCAAAATACT
Found at i:156863 original size:35 final size:35
Alignment explanation
Indices: 156775--156869 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 35
156765 AACACAGTCA
* * * ** *
156775 TCAATTACATTCTAAACCCCAAAATCCAAAATGCT
1 TCAATTACATACTAAACCTCAAATTTTAAAATACT
*
156810 TCAATTACATTCTAAACCTCAAATTTTAAAATACT
1 TCAATTACATACTAAACCTCAAATTTTAAAATACT
*
156845 TCAATTACATGAC-CAACCTCAAATT
1 TCAATTACAT-ACTAAACCTCAAATT
156870 CATAATCCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
35 51 0.98
36 1 0.02
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (35 bp):
TCAATTACATACTAAACCTCAAATTTTAAAATACT
Found at i:157311 original size:147 final size:148
Alignment explanation
Indices: 157037--157323 Score: 459
Period size: 147 Copynumber: 1.9 Consensus size: 148
157027 CTCAATTCAT
157037 TTTATAAAATAGTTGACTCAAAATTTTTTCGATTTGAGTTTATAAAATTAAAATAAAGTCGAATT
1 TTTATAAAATAGTTGACTCAAAATTTTTTCGATTTGAGTTTATAAAATTAAAATAAAGTCGAATT
* ** * * *
157102 GAATTGAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATCATATTATTT
66 AAATTGAATTTTCAAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATTT
*
157167 TATTCTAATTCAGTTTAG
131 GATTCTAATTCAGTTTAG
* * * *
157185 TTTATAAAATAGTTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAATTCAAGTCG-ATT
1 TTTATAAAATAGTTGACTCAAAATTTTTTCGATTTGAGTTTATAAAATTAAAATAAAGTCGAATT
*
157249 AAATTGAATTTTCAAGTTTCTGTTTAAATTTAATTATAAATTTTTATAATACTATAATATTATTT
66 AAATTGAATTTTCAAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATTT
157314 GATTCTAATT
131 GATTCTAATT
157324 TAAATAGTTT
Statistics
Matches: 127, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
147 70 0.55
148 57 0.45
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (148 bp):
TTTATAAAATAGTTGACTCAAAATTTTTTCGATTTGAGTTTATAAAATTAAAATAAAGTCGAATT
AAATTGAATTTTCAAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATTT
GATTCTAATTCAGTTTAG
Found at i:159223 original size:35 final size:36
Alignment explanation
Indices: 159162--159242 Score: 130
Period size: 35 Copynumber: 2.3 Consensus size: 36
159152 GGGGTTGGGC
*
159162 ATGTAATTGTAGTATTTTTGGAATTT-GAGGTTTAGA
1 ATGTAATTGAAGTATTTTTGGAATTTGGA-GTTTAGA
159198 ATGTAATTGAAGTA-TTTTGGAATTTGGAGTTTAGA
1 ATGTAATTGAAGTATTTTTGGAATTTGGAGTTTAGA
159233 ATGTAATTGA
1 ATGTAATTGA
159243 TGACTGTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
35 28 0.65
36 15 0.35
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (36 bp):
ATGTAATTGAAGTATTTTTGGAATTTGGAGTTTAGA
Found at i:160649 original size:80 final size:80
Alignment explanation
Indices: 160421--160653 Score: 432
Period size: 79 Copynumber: 2.9 Consensus size: 80
160411 TACTGACACA
*
160421 TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATACCAATTTTGTTAACTGTCA
1 TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGTCA
*
160486 CATAAGTACTTCCGT
66 CATAAGCACTTCCGT
*
160501 TGTCATCTCTTGATTAGATGA-TAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGTCA
1 TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGTCA
160565 CATAAGCACTTCCGT
66 CATAAGCACTTCCGT
160580 TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGTCA
1 TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGTCA
160645 CATAAGCAC
66 CATAAGCAC
160654 AATGATAGTT
Statistics
Matches: 148, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
79 76 0.51
80 72 0.49
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (80 bp):
TGTCATCTCTTGATTGGATGATTAATTTATTAAATATGTAATCATATCAATTTTGTTAACTGTCA
CATAAGCACTTCCGT
Found at i:161905 original size:29 final size:31
Alignment explanation
Indices: 161856--161937 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
161846 TAATATTTTG
*
161856 TATATCTTTTATTTTTATTTTAACT-TAT-TAA
1 TATATATTTTA-TTTTATTTTAA-TGTATATAA
161887 -ATATATTTTATTTTATTTTAATGTATATAA
1 TATATATTTTATTTTATTTTAATGTATATAA
*
161917 TATATATATTATATTT-TTTTA
1 TATATATTTTAT-TTTATTTTA
161938 TTAATCTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
28 1 0.02
29 14 0.31
30 12 0.27
31 15 0.33
32 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (31 bp):
TATATATTTTATTTTATTTTAATGTATATAA
Found at i:162365 original size:20 final size:23
Alignment explanation
Indices: 162322--162370 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
162312 ATTAAAAAAA
162322 AATAAAATATATATTTAAGATTT
1 AATAAAATATATATTTAAGATTT
**
162345 -ATAAAATAT-TA-TTAATTTTT
1 AATAAAATATATATTTAAGATTT
162365 AATAAA
1 AATAAA
162371 TCATTTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATAAAATATATATTTAAGATTT
Found at i:163424 original size:32 final size:32
Alignment explanation
Indices: 163379--163483 Score: 128
Period size: 32 Copynumber: 3.3 Consensus size: 32
163369 CTGCATGGCA
*
163379 CATGCACGTCCCCAACACCCCAACACATGTCGC
1 CATGCAC-TCCCCAACACCCCAACACAGGTCGC
* *
163412 CATGCATTCCCCAACACCCCAACAGAGGTCGC
1 CATGCACTCCCCAACACCCCAACACAGGTCGC
*
163444 CATGCACT-CCCAACGA--CCTACA-AGGTCGC
1 CATGCACTCCCCAAC-ACCCCAACACAGGTCGC
163473 CATGCACTCCC
1 CATGCACTCCC
163484 AGCGACCTTG
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
29 15 0.23
30 7 0.11
31 6 0.09
32 31 0.48
33 6 0.09
ACGTcount: A:0.27, C:0.46, G:0.14, T:0.13
Consensus pattern (32 bp):
CATGCACTCCCCAACACCCCAACACAGGTCGC
Found at i:163802 original size:26 final size:26
Alignment explanation
Indices: 163769--163826 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
163759 ACATAAAAGA
*
163769 AAGAAAGGGAGAAGAGATTGCAGCAG
1 AAGAAAGGGAGAAGAAATTGCAGCAG
* *
163795 AAGAAAGGGATAAGAAATTGCAGCCG
1 AAGAAAGGGAGAAGAAATTGCAGCAG
163821 -AGAAAG
1 AAGAAAG
163827 AAAGAAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.48, C:0.09, G:0.34, T:0.09
Consensus pattern (26 bp):
AAGAAAGGGAGAAGAAATTGCAGCAG
Found at i:164465 original size:28 final size:28
Alignment explanation
Indices: 164434--164489 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
164424 ATTTAATGAA
164434 TTATAATTAATAAA-TATTTGAATATATT
1 TTATAATTAATAAATTATTTGAA-ATATT
* * *
164462 TTATGATTGATAAATTTTTTGAAATATT
1 TTATAATTAATAAATTATTTGAAATATT
164490 AATTGCAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (28 bp):
TTATAATTAATAAATTATTTGAAATATT
Found at i:166420 original size:14 final size:14
Alignment explanation
Indices: 166401--166448 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
166391 TTCAAGTCGT
166401 AAATCATTACTATC
1 AAATCATTACTATC
166415 AAATCATTAC--T-
1 AAATCATTACTATC
*
166426 AAATCATTAATATC
1 AAATCATTACTATC
166440 AAATCATTA
1 AAATCATTA
166449 AAGATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:166434 original size:25 final size:25
Alignment explanation
Indices: 166400--166495 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 25
166390 GTTCAAGTCG
*
166400 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
166425 TAAATCATTAATATCAAATCA-T--
1 TAAATCATTAATATCAAATCATTAC
* *
166447 TAAA-GATTAATAAT-AATTTCATTAC
1 TAAATCATTAAT-ATCAA-ATCATTAC
*
166472 TAAATCATTACTATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
166496 AAAATTAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
21 8 0.14
22 9 0.16
23 1 0.02
24 1 0.02
25 32 0.55
26 7 0.12
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.38
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:166487 original size:47 final size:46
Alignment explanation
Indices: 166418--166532 Score: 176
Period size: 47 Copynumber: 2.4 Consensus size: 46
166408 TACTATCAAA
* *
166418 TCATTACTAAATCATTAATATCAAATCATTAAAGATTAATAATAATT
1 TCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAAT-ATT
166465 TCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATATT
1 TCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATATT
*
166511 TCATTATTACTAATCATTACTA
1 TCATTACTA--AATCATTACTA
166533 AATCATTAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
46 11 0.17
47 41 0.65
48 11 0.17
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (46 bp):
TCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATATT
Found at i:166535 original size:59 final size:58
Alignment explanation
Indices: 166465--166604 Score: 219
Period size: 59 Copynumber: 2.4 Consensus size: 58
166455 AATAATAATT
*
166465 TCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAAT-ATTTCATTATTACTAA
1 TCATTACTAAATCATTAATATCAAATCATTAAAAATT-ATAATAATTTCATTA-TACTAA
*
166524 TCATTACTAAATCATTAATATCAAATCATTAAATATTATAATAATTTCATTATACTAA
1 TCATTACTAAATCATTAATATCAAATCATTAAAAATTATAATAATTTCATTATACTAA
166582 TCATTACTATCAATCATTAATAT
1 TCATTACTA--AATCATTAATAT
166605 TAATAACATT
Statistics
Matches: 76, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
58 20 0.26
59 44 0.58
60 12 0.16
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (58 bp):
TCATTACTAAATCATTAATATCAAATCATTAAAAATTATAATAATTTCATTATACTAA
Found at i:166599 original size:46 final size:47
Alignment explanation
Indices: 166526--166645 Score: 160
Period size: 46 Copynumber: 2.6 Consensus size: 47
166516 ATTACTAATC
*
166526 ATTACTAAATCATTAATATCAAATCATTAAATATT-ATAATAATTTCATT
1 ATTACT-AATCATTACTATC-AATCATTAAATATTAATAA-AATTTCATT
*
166575 A-TACTAATCATTACTATCAATCATT-AATATTAATAACATTTCATT
1 ATTACTAATCATTACTATCAATCATTAAATATTAATAAAATTTCATT
166620 ATTACTAATCATTACTA--AATCATTAA
1 ATTACTAATCATTACTATCAATCATTAA
166646 TATCAAATCA
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
44 7 0.11
45 16 0.24
46 26 0.39
47 12 0.18
48 4 0.06
49 1 0.02
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (47 bp):
ATTACTAATCATTACTATCAATCATTAAATATTAATAAAATTTCATT
Found at i:166653 original size:104 final size:106
Alignment explanation
Indices: 166416--166692 Score: 465
Period size: 104 Copynumber: 2.6 Consensus size: 106
166406 ATTACTATCA
166416 AATCATTACTAAATCATTAATATCAAATCATTAAAGATTAATAATAATTTCA-T-TACTAAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAA-ATTAATAATAATTTCATTATACT-AATCA
*
166479 TTACTATCAAATCATTAAAAATTAATAATATTTCATTATTACT
64 TTACTATCAAATCATTAAAAATTAATAACATTTCATTATTACT
166522 AATCATTACTAAATCATTAATATCAAATCATTAAATATT-ATAATAATTTCATTATACTAATCAT
1 AATCATTACTAAATCATTAATATCAAATCATTAAA-ATTAATAATAATTTCATTATACTAATCAT
*
166586 TACTATC-AATCATT-AATATTAATAACATTTCATTATTACT
65 TACTATCAAATCATTAAAAATTAATAACATTTCATTATTACT
166626 AATCATTACTAAATCATTAATATCAAATCATTAAAATTAATAATAATTTCATTATTACTAATCAT
1 AATCATTACTAAATCATTAATATCAAATCATTAAAATTAATAATAATTTCATTA-TACTAATCAT
166691 TA
65 TA
166693 TTAAATCATA
Statistics
Matches: 164, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
103 3 0.02
104 74 0.45
105 31 0.19
106 52 0.32
107 4 0.02
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (106 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAAATTAATAATAATTTCATTATACTAATCATT
ACTATCAAATCATTAAAAATTAATAACATTTCATTATTACT
Found at i:166794 original size:13 final size:13
Alignment explanation
Indices: 166776--166820 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
166766 TCAAGTCGTA
166776 AATCATTACTATC
1 AATCATTACTATC
166789 AATCATTACTA--
1 AATCATTACTATC
*
166800 AATCATTAATATC
1 AATCATTACTATC
166813 AATCATTA
1 AATCATTA
166821 AATATTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 10 0.34
13 19 0.66
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (13 bp):
AATCATTACTATC
Found at i:166801 original size:24 final size:24
Alignment explanation
Indices: 166774--166820 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
166764 GTTCAAGTCG
*
166774 TAAATCATTACTATCAATCATTAC
1 TAAATCATTAATATCAATCATTAC
166798 TAAATCATTAATATCAATCATTA
1 TAAATCATTAATATCAATCATTA
166821 AATATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAATCATTAATATCAATCATTAC
Found at i:166827 original size:20 final size:23
Alignment explanation
Indices: 166774--166877 Score: 78
Period size: 24 Copynumber: 4.6 Consensus size: 23
166764 GTTCAAGTCG
*
166774 TAAATCATTACTATCAATCATTA
1 TAAATCATTAATATCAATCATTA
166797 CTAAATCATTAATATCAATCA-T-
1 -TAAATCATTAATATCAATCATTA
* *
166819 TAAAT-ATTAATAATAAATTATTA
1 TAAATCATTAAT-ATCAATCATTA
*
166842 TTACTAATCA-TACTATCAATCATTA
1 -TA--AATCATTAATATCAATCATTA
166867 -AAA--ATTAATAT
1 TAAATCATTAATAT
166878 ATTTCATTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
19 1 0.02
20 11 0.17
21 13 0.20
22 1 0.02
23 2 0.03
24 21 0.32
25 9 0.14
26 6 0.09
27 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATCATTAATATCAATCATTA
Found at i:166841 original size:21 final size:21
Alignment explanation
Indices: 166774--166841 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
166764 GTTCAAGTCG
* *
166774 TAAATCATTACTATCAATCATTAC
1 TAAATCATTAATAT-AA--ATTAT
* *
166798 TAAATCATTAATATCAATCAT
1 TAAATCATTAATATAAATTAT
166819 TAAAT-ATTAATAATAAATTAT
1 TAAATCATTAAT-ATAAATTAT
166840 TA
1 TA
166842 TTACTAATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
20 6 0.16
21 17 0.46
23 1 0.03
24 13 0.35
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATCATTAATATAAATTAT
Found at i:166909 original size:99 final size:99
Alignment explanation
Indices: 166798--167052 Score: 300
Period size: 99 Copynumber: 2.6 Consensus size: 99
166788 CAATCATTAC
166798 TAAATCATTAATATC-AATCATTAAATATTAATAATAAATTATTATTACTAATCA-TACTATC-A
1 TAAATCATTAATATCAAATCATTAAATATTAATAAT-AATTATTATTACTAATCATTACTATCAA
* *
166860 ATCATTAAAAATTAAT-A-TATTTCATTATTACTATCAT
65 ATCATT-AAAATTAATAACAATTTCATTA-T-C-ATAAT
*
166897 TAAATCATTAATATCAAATCA-T-AA-ATTAAT-ATAATTTAATCATTACTAATCATTACTATCA
1 TAAATCATTAATATCAAATCATTAAATATTAATAATAA-TT-ATTATTACTAATCATTACTATCA
*
166958 AATCATTAATATTAATAACAATTTCATTATCATAAT
64 AATCATTAAAATTAATAACAATTTCATTATCATAAT
*
166994 TACTAATCATTAATATCAAATCATTAAATA-TAATAAT--TCATTATTACTAATCATTACTA
1 TA--AATCATTAATATCAAATCATTAAATATTAATAATAATTATTATTACTAATCATTACTA
167053 AATAATTTAT
Statistics
Matches: 137, Mismatches: 6, Indels: 27
0.81 0.04 0.16
Matches are distributed among these distances:
95 2 0.01
96 4 0.03
97 25 0.18
98 37 0.27
99 45 0.33
100 15 0.11
101 6 0.04
102 3 0.02
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (99 bp):
TAAATCATTAATATCAAATCATTAAATATTAATAATAATTATTATTACTAATCATTACTATCAAA
TCATTAAAATTAATAACAATTTCATTATCATAAT
Found at i:166917 original size:14 final size:14
Alignment explanation
Indices: 166898--167020 Score: 51
Period size: 14 Copynumber: 8.7 Consensus size: 14
166888 TACTATCATT
166898 AAATCATTAATATC
1 AAATCATTAATATC
*
166912 AAATCA-TAA-ATT
1 AAATCATTAATATC
*
166924 AATATAATTTAATCATTAC
1 AA-ATCA-TTAAT-A-T-C
* *
166943 TAATCATTACTATC
1 AAATCATTAATATC
166957 AAATCATTAATAT-
1 AAATCATTAATATC
* ** *
166970 TAAT-AACAATTTC
1 AAATCATTAATATC
*
166983 ATTATCA-TAAT-TAC
1 A-AATCATTAATAT-C
*
166997 TAATCATTAATATC
1 AAATCATTAATATC
167011 AAATCATTAA
1 AAATCATTAA
167021 ATATAATAAT
Statistics
Matches: 78, Mismatches: 18, Indels: 26
0.64 0.15 0.21
Matches are distributed among these distances:
12 9 0.12
13 14 0.18
14 38 0.49
15 6 0.08
16 1 0.01
17 5 0.06
18 4 0.05
19 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATCATTAATATC
Found at i:166957 original size:45 final size:47
Alignment explanation
Indices: 166892--167049 Score: 168
Period size: 54 Copynumber: 3.4 Consensus size: 47
166882 CATTATTACT
166892 ATCATTA--AATCATTAATATCAAATCA-TAAATTAAT-ATAATTTA
1 ATCATTACTAATCATTAATATCAAATCATTAAATTAATAATAATTTA
* *
166935 ATCATTACTAATCATTACTATCAAATCATTAATATTAATAACAATTTCA
1 ATCATTACTAATCATTAATATCAAATCATTAA-ATTAATAATAATTT-A
*
166984 TTATCATAATTACTAATCATTAATATCAAATCATTAAA-T-ATAATAA-TTC
1 --ATC---ATTACTAATCATTAATATCAAATCATTAAATTAATAATAATTTA
*
167033 ATTATTACTAATCATTA
1 ATCATTACTAATCATTA
167050 CTAAATAATT
Statistics
Matches: 98, Mismatches: 6, Indels: 21
0.78 0.05 0.17
Matches are distributed among these distances:
43 7 0.07
44 14 0.14
45 18 0.18
46 3 0.03
47 8 0.08
48 6 0.06
49 1 0.01
50 2 0.02
51 9 0.09
52 1 0.01
53 1 0.01
54 28 0.29
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.41
Consensus pattern (47 bp):
ATCATTACTAATCATTAATATCAAATCATTAAATTAATAATAATTTA
Found at i:167154 original size:25 final size:25
Alignment explanation
Indices: 167126--167370 Score: 105
Period size: 24 Copynumber: 10.0 Consensus size: 25
167116 TGTCAAGTCG
*
167126 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
167151 TAAATCATTAATATCAAATCA-T--
1 TAAATCATTAATATCAAATCATTAC
*
167173 T-AAT-ATTAATAAT-AAATTTATTA-
1 TAAATCATTAAT-ATCAAA-TCATTAC
* *
167196 TTAATCA-T--TA-CTAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
* * *
167217 TATCAAATCATAAAATTAATAAAATTTCATTAT
1 --T-AAATCAT-TAA-T-ATCAAA--TCATTAC
*
167250 TACTAATCATTAA-ATTAAATCATTAC
1 TA--AATCATTAATATCAAATCATTAC
167276 TAAATCATTAATATCAAATCATTA-
1 TAAATCATTAATATCAAATCATTAC
*** *
167300 -AATATCA--AATCAT-TGTTCAAGTA-
1 TAA-ATCATTAAT-ATCAAATC-ATTAC
*
167323 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
167348 TAAAT-ATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
167371 AATATTAATA
Statistics
Matches: 166, Mismatches: 23, Indels: 63
0.66 0.09 0.25
Matches are distributed among these distances:
20 14 0.08
21 10 0.06
22 8 0.05
23 13 0.08
24 47 0.28
25 41 0.25
26 8 0.05
28 5 0.03
29 1 0.01
30 2 0.01
31 5 0.03
32 6 0.04
33 6 0.04
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:167261 original size:56 final size:56
Alignment explanation
Indices: 167142--167251 Score: 165
Period size: 55 Copynumber: 2.0 Consensus size: 56
167132 ATTACTATCA
*
167142 AATCATTACTAAATCATTAATATCAAATCATTAATATTAATAATAAATTTATTATT
1 AATCATTACTAAATCATTAATATCAAATCATTAAAATTAATAATAAATTTATTATT
*
167198 AATCATTACT-AATCATTACTATCAAATCA-TAAAATTAAT-A-AAATTTCATTATT
1 AATCATTACTAAATCATTAATATCAAATCATTAAAATTAATAATAAATTT-ATTATT
167251 A
1 A
167252 CTAATCATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
52 6 0.12
53 8 0.16
54 9 0.18
55 18 0.35
56 10 0.20
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (56 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAAATTAATAATAAATTTATTATT
Found at i:167264 original size:23 final size:24
Alignment explanation
Indices: 167248--167299 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
167238 AAATTTCATT
167248 ATTACT-AATCATTAAATTAAATC
1 ATTACTAAATCATTAAATTAAATC
*
167271 ATTACTAAATCATTAATATCAAATC
1 ATTACTAAATCATTAA-ATTAAATC
167296 ATTA
1 ATTA
167300 AATATCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.23
24 9 0.35
25 11 0.42
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTACTAAATCATTAAATTAAATC
Found at i:167382 original size:24 final size:23
Alignment explanation
Indices: 167334--167383 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
167324 AAATCATTAC
*
167334 TATCAAATCATTACTAAATATTAA
1 TATCAAATCATTAC-AAATAATAA
167358 TATCAAATCATTA-AATATTAATAA
1 TATCAAATCATTACAA-A-TAATAA
167382 TA
1 TA
167384 ATTTTATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 2 0.09
23 1 0.04
24 20 0.87
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (23 bp):
TATCAAATCATTACAAATAATAA
Found at i:167455 original size:56 final size:55
Alignment explanation
Indices: 167339--167464 Score: 177
Period size: 56 Copynumber: 2.3 Consensus size: 55
167329 ATTACTATCA
*
167339 AATCATTACTAAAT-ATTAATATCAAATCATTAAATATTAATAATAATTTTATACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAAT-ATTTCATACT
*
167394 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAAT-TTCATCATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATATT--TCA-TACT
167451 -ATCATTACTAAATC
1 AATCATTACTAAATC
167465 TTATAAATAC
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
54 2 0.03
55 14 0.22
56 45 0.69
57 4 0.06
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.40
Consensus pattern (55 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATATTTCATACT
Found at i:169534 original size:20 final size:18
Alignment explanation
Indices: 169504--169549 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
169494 TGTTCTTTTT
*
169504 TTTTCTTTCGAACATTCTCTC
1 TTTT-TTTCGAACA-ACT-TC
169525 TTTTTTTCGAACAACTTC
1 TTTTTTTCGAACAACTTC
169543 TTTTTTT
1 TTTTTTT
169550 TTTATTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 2 0.08
20 9 0.38
21 4 0.17
ACGTcount: A:0.15, C:0.22, G:0.04, T:0.59
Consensus pattern (18 bp):
TTTTTTTCGAACAACTTC
Found at i:169550 original size:20 final size:18
Alignment explanation
Indices: 169502--169551 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 18
169492 TGTGTTCTTT
169502 TTTTTTCTTTCGAACATTC
1 TTTTTT-TTTCGAACATTC
169521 TCTCTTTTTTTCGAACAACTTC
1 T-T-TTTTTTTCGAAC-A-TTC
169543 TTTTTTTTT
1 TTTTTTTTT
169552 TATTCAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 1 0.04
20 16 0.59
21 6 0.22
22 4 0.15
ACGTcount: A:0.14, C:0.20, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTTTTTTCGAACATTC
Found at i:174630 original size:33 final size:33
Alignment explanation
Indices: 174588--174662 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
174578 CTTGTAGGTA
174588 GTGCATGGCGACCTGTGTTGGGGTGCTGGGGAC
1 GTGCATGGCGACCTGTGTTGGGGTGCTGGGGAC
*
174621 GTGCATGGCGACCTGTGTTGGGGTGTTGGGGAC
1 GTGCATGGCGACCTGTGTTGGGGTGCTGGGGAC
174654 GTGCATGGC
1 GTGCATGGC
174663 ACATGCAGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.09, C:0.17, G:0.48, T:0.25
Consensus pattern (33 bp):
GTGCATGGCGACCTGTGTTGGGGTGCTGGGGAC
Found at i:175087 original size:16 final size:15
Alignment explanation
Indices: 175060--175099 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
175050 TTAAATGGAT
175060 AATAAGAAAACAAGAAC
1 AATAA-AAAACAAG-AC
175077 AATAAAAAACAAGAC
1 AATAAAAAACAAGAC
*
175092 AACAAAAA
1 AATAAAAA
175100 TGCTGTTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 8 0.36
17 5 0.23
ACGTcount: A:0.75, C:0.12, G:0.07, T:0.05
Consensus pattern (15 bp):
AATAAAAAACAAGAC
Found at i:176172 original size:21 final size:21
Alignment explanation
Indices: 176146--176188 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
176136 CAATGTAGTT
176146 AATTACTTCTTGCTGCCATTG
1 AATTACTTCTTGCTGCCATTG
176167 AATTACTTCTTGCTGCCATTG
1 AATTACTTCTTGCTGCCATTG
176188 A
1 A
176189 TTCTAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (21 bp):
AATTACTTCTTGCTGCCATTG
Found at i:179710 original size:27 final size:28
Alignment explanation
Indices: 179680--179735 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
179670 AATCACTCTT
*
179680 GATATATCTGAATCC-TAAAT-ATCCTAA
1 GATATAACTGAA-CCTTAAATGATCCTAA
179707 GATATAACTGAACCTTAAATGATCCTAA
1 GATATAACTGAACCTTAAATGATCCTAA
179735 G
1 G
179736 GTATTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 2 0.08
27 16 0.62
28 8 0.31
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (28 bp):
GATATAACTGAACCTTAAATGATCCTAA
Found at i:180356 original size:61 final size:60
Alignment explanation
Indices: 180144--180407 Score: 271
Period size: 60 Copynumber: 4.4 Consensus size: 60
180134 GGACGATCCC
* * * * * ** * * * * *
180144 TTTGCTTTGTACATTAGGTAATTCTTTATAGACCAAGGGACACTCTCATCAGGGGGCTCA
1 TTTGCTTTGTGCATTGGGTAAGTCCTTATGGACCTGGGGGCACTCCCCTCAGGTGTCTCA
*
180204 TTTGCGTTGTGCATTGGGTAAGTCCTTATGGACCTGGGGGCACTCCCCTCAGGTGTCTCA
1 TTTGCTTTGTGCATTGGGTAAGTCCTTATGGACCTGGGGGCACTCCCCTCAGGTGTCTCA
* * * * * *
180264 TTTCCTTTGTGCATTGGGTAAGTCCTTATGGACTTGGGGGAACTACCCTCAGGCATTTCT-T
1 TTTGCTTTGTGCATTGGGTAAGTCCTTATGGACCTGGGGGCACTCCCCTCAGG--TGTCTCA
* * *
180325 TTTGCTTTGTGCATTGGGAAAGTTCTTATGGACCTGGGGGCACTCCCCTCAGGTGACTTC-
1 TTTGCTTTGTGCATTGGGTAAGTCCTTATGGACCTGGGGGCACTCCCCTCAGGTGTC-TCA
* *
180385 TTCGCTTTGTGCATTAGGTAAGT
1 TTTGCTTTGTGCATTGGGTAAGT
180408 TTGTATGGAT
Statistics
Matches: 169, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
59 2 0.01
60 116 0.69
61 47 0.28
62 4 0.02
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (60 bp):
TTTGCTTTGTGCATTGGGTAAGTCCTTATGGACCTGGGGGCACTCCCCTCAGGTGTCTCA
Done.