Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 23 of 82
Found at i:7853321 original size:40 final size:40
Alignment explanation
Indices: 7853236--7853322 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
7853226 GCTTTAACCT
* * * * *
7853236 TGAAAAGGCAGTGACATTGTGAGGTTATGCTTGCTTTTCC
1 TGAAAAGGCAGTGACATTATGAGATTATGCCTGATCTTCC
**
7853276 TGAAAAGGCAGTGATGTTATGAGATTATGCCTGATCTT-C
1 TGAAAAGGCAGTGACATTATGAGATTATGCCTGATCTTCC
7853315 TCGAAAAG
1 T-GAAAAG
7853323 ATAGTGTTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.05
40 37 0.95
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (40 bp):
TGAAAAGGCAGTGACATTATGAGATTATGCCTGATCTTCC
Found at i:7854677 original size:32 final size:33
Alignment explanation
Indices: 7854636--7854702 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 33
7854626 TTTATCCATT
* *
7854636 AAATATTTAATTTATTAC-TAGATTTGTGGCAC
1 AAATATTTAATTTACTACTTAGATTTATGGCAC
7854668 AAATATTTAATTTACTACTTAGATTTATGGCAC
1 AAATATTTAATTTACTACTTAGATTTATGGCAC
7854701 AA
1 AA
7854703 CTATGTGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.42
Consensus pattern (33 bp):
AAATATTTAATTTACTACTTAGATTTATGGCAC
Found at i:7855771 original size:2 final size:2
Alignment explanation
Indices: 7855752--7855795 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
7855742 ACTCAATCTC
* *
7855752 AT AT AA AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7855794 AT
1 AT
7855796 GTTTGAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7857428 original size:43 final size:43
Alignment explanation
Indices: 7857358--7857476 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
7857348 GTAATTATAT
* *
7857358 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
7857401 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
7857444 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
7857477 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:7857486 original size:43 final size:43
Alignment explanation
Indices: 7857368--7857489 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
7857358 TGACTCGGCT
* **
7857368 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
7857411 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
7857454 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
7857490 TGATGATGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:7859504 original size:31 final size:31
Alignment explanation
Indices: 7859469--7859547 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
7859459 AGCATTTTTA
* * * *
7859469 AATTTGGTTCAAATTAGTCCCTCTATTCTAT
1 AATTTTGTTCAAATTAATCCATATATTCTAT
* *
7859500 AATTTTGTTTAATTTAATCCATATATTCTAT
1 AATTTTGTTCAAATTAATCCATATATTCTAT
* *
7859531 ATTTTTGTTCAATTTAA
1 AATTTTGTTCAAATTAA
7859548 ACCCTACGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (31 bp):
AATTTTGTTCAAATTAATCCATATATTCTAT
Found at i:7860610 original size:21 final size:21
Alignment explanation
Indices: 7860580--7860626 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
7860570 TATATTTATG
* * *
7860580 ATCCTCTCCTCATCCTTCAAT
1 ATCCTATCCTCATCCCTAAAT
7860601 ATCCTATCCTCATCCCTAAAT
1 ATCCTATCCTCATCCCTAAAT
7860622 ATCCT
1 ATCCT
7860627 CCTTATAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.36
Consensus pattern (21 bp):
ATCCTATCCTCATCCCTAAAT
Found at i:7860778 original size:22 final size:22
Alignment explanation
Indices: 7860750--7860793 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7860740 AGGTAATAAA
* *
7860750 CTTTCCTCATCCTTCAAGTATC
1 CTTTCCTCATCCTCCAAATATC
7860772 CTTTCCTCATCCTCCAAATATC
1 CTTTCCTCATCCTCCAAATATC
7860794 TTCTCTTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.39, G:0.02, T:0.39
Consensus pattern (22 bp):
CTTTCCTCATCCTCCAAATATC
Found at i:7860959 original size:22 final size:22
Alignment explanation
Indices: 7860931--7860977 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
7860921 TATATATACA
7860931 ATCCTCTCCTCATCCTT-CAAAT
1 ATCCTCTCCTCAT-CTTCCAAAT
*
7860953 ATCCTCTCTTCATCTTCCAAAT
1 ATCCTCTCCTCATCTTCCAAAT
7860975 ATC
1 ATC
7860978 TTTTCTCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (22 bp):
ATCCTCTCCTCATCTTCCAAAT
Found at i:7860986 original size:21 final size:21
Alignment explanation
Indices: 7860931--7860986 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
7860921 TATATATACA
7860931 ATCCTCTCCTCATCCTTCAAAT
1 ATCCTCT-CTCATCCTTCAAAT
7860953 ATCCTCTCTTCAT-CTTCCAAAT
1 ATCCTCTC-TCATCCTT-CAAAT
* *
7860975 ATCTTTTCTCAT
1 ATCCTCTCTCAT
7860987 AATTAATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 8 0.27
22 22 0.73
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (21 bp):
ATCCTCTCTCATCCTTCAAAT
Found at i:7861133 original size:55 final size:56
Alignment explanation
Indices: 7861074--7861181 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
7861064 AAACACTATT
* *
7861074 AACAAATTTTAGGCAATGACT-AAATGCCCTTAAATAAAAAATACTAAACATTGTA
1 AACAAATTTTAGGCAATGACTAAAATACCCTTAAATAAAAAACACTAAACATTGTA
*
7861129 AACAAATTTTAGGCAATGACTAAAATACCCTTAAATAAAAAACACTAACCATT
1 AACAAATTTTAGGCAATGACTAAAATACCCTTAAATAAAAAACACTAAACATT
7861182 TGTCATCTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 21 0.43
56 28 0.57
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (56 bp):
AACAAATTTTAGGCAATGACTAAAATACCCTTAAATAAAAAACACTAAACATTGTA
Found at i:7861339 original size:60 final size:62
Alignment explanation
Indices: 7861225--7861344 Score: 172
Period size: 65 Copynumber: 1.9 Consensus size: 62
7861215 TTCTTCTTTC
7861225 TCTTTTCTATCCTCATAAATTAAAAGTAACTAAACACAACACAAAAAGAAAGAGATCAAGGTTTT
1 TCTTTTCTATCCTCATAAATTAAAAGTAACT--A-ACAACACAAAAAGAAAGAGATCAAGGTTTT
* * *
7861290 TCTTTTCTATCCTCATAAATTAAAAGTAGCT-A-AACACAAAAGGACAGAGATCAAG
1 TCTTTTCTATCCTCATAAATTAAAAGTAACTAACAACACAAAAAGAAAGAGATCAAG
7861345 AGAAAAGTCC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
60 21 0.40
61 1 0.02
65 30 0.58
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (62 bp):
TCTTTTCTATCCTCATAAATTAAAAGTAACTAACAACACAAAAAGAAAGAGATCAAGGTTTT
Found at i:7861639 original size:48 final size:48
Alignment explanation
Indices: 7861587--7861683 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
7861577 ATTCTGCCAG
* * *
7861587 CATCTCATGGAAAAAAGGATTAAAAGGATTGCTTAATGTTGGAATCAA
1 CATCTCATGGAAAAAAGGACTAAAACGATTGCCTAATGTTGGAATCAA
* *
7861635 CATCTCATGGAAGAAAGGACTAGAACGATTGCCTAATGTTGGAATCAA
1 CATCTCATGGAAAAAAGGACTAAAACGATTGCCTAATGTTGGAATCAA
7861683 C
1 C
7861684 TTGATTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (48 bp):
CATCTCATGGAAAAAAGGACTAAAACGATTGCCTAATGTTGGAATCAA
Found at i:7869640 original size:19 final size:20
Alignment explanation
Indices: 7869613--7869658 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7869603 AGGAGACAAG
*
7869613 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
7869632 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
7869651 ATAATATT
1 ATAATATT
7869659 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:7875157 original size:19 final size:19
Alignment explanation
Indices: 7875120--7875157 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7875110 TTACTATCTA
*
7875120 TGGTATTTTAACTATTGCT
1 TGGTATTTTAACTACTGCT
*
7875139 TGGTATTTTAACTGCTGCT
1 TGGTATTTTAACTACTGCT
7875158 AATAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.50
Consensus pattern (19 bp):
TGGTATTTTAACTACTGCT
Found at i:7878913 original size:11 final size:11
Alignment explanation
Indices: 7878897--7878935 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
7878887 AGCTTTTGGG
7878897 TTTAAAGTTGT
1 TTTAAAGTTGT
7878908 TTTAAAGTTGT
1 TTTAAAGTTGT
*
7878919 TTTAAATTTGT
1 TTTAAAGTTGT
7878930 TTTAAA
1 TTTAAA
7878936 ATTTACAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (11 bp):
TTTAAAGTTGT
Found at i:7887390 original size:68 final size:68
Alignment explanation
Indices: 7887314--7887450 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
7887304 ACTTATGTGT
* *
7887314 AGTTTCAACATTTGAAGTTAAATGGAAATTAATTAACTCAGGAAAATTAGATTGTGTGAGAGGAT
1 AGTTTCAACATTTGAAGTTAAATGGAAATTAATTAACTAAGGAAAATTAGATTGTGTGAGAGGAC
7887379 GGA
66 GGA
7887382 AGTTTCAACATTTGAAGTTAAATGGAAATTAATTAACTAAGGAAAATTAGATTGTGTGAGAGGAC
1 AGTTTCAACATTTGAAGTTAAATGGAAATTAATTAACTAAGGAAAATTAGATTGTGTGAGAGGAC
7887447 GGA
66 GGA
7887450 A
1 A
7887451 TATGCATGTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (68 bp):
AGTTTCAACATTTGAAGTTAAATGGAAATTAATTAACTAAGGAAAATTAGATTGTGTGAGAGGAC
GGA
Found at i:7890129 original size:39 final size:39
Alignment explanation
Indices: 7890072--7890182 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 39
7890062 TAGGAGACCA
*
7890072 AAACAGAAAGTTTTTCGCTGCAGCGAGATTGTAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTGTAACCCAG
* * *
7890111 AAACATAATGTTTCTCGCTGCAGCGAAATTGTAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTGTAACCCAG
* * * *
7890150 AAACAGAAAGCTTCTCGCTACAGCAAGAATGTA
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTGTA
7890183 TTTCGCTGCA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (39 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAGATTGTAACCCAG
Found at i:7890613 original size:43 final size:43
Alignment explanation
Indices: 7890559--7890674 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
7890549 TCATCATCAC
* **
7890559 CAGCTCATGCGCACTCCCTACTCGCACAT-GGCTGGGTCATCAC-
1 CAGCTTATGCGCACTCCCTACTCGCACATAATC-GGGTCATC-CT
* * *
7890602 CGGGTTATGCGCACTCCTTACTCGCACATAATCGGGTCATCCT
1 CAGCTTATGCGCACTCCCTACTCGCACATAATCGGGTCATCCT
7890645 CAGCTTATGCGCACTCCCTACTCGCACATA
1 CAGCTTATGCGCACTCCCTACTCGCACATA
7890675 GCCGAGTCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.02
43 60 0.97
44 1 0.02
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (43 bp):
CAGCTTATGCGCACTCCCTACTCGCACATAATCGGGTCATCCT
Found at i:7894316 original size:19 final size:21
Alignment explanation
Indices: 7894276--7894319 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
7894266 AGGGAAGAAG
*
7894276 AAGACAGCTGCTGGAAATTTC
1 AAGACAGCTGCTGGAAAATTC
7894297 AAGA-AGCTGCT-GAAAATTC
1 AAGACAGCTGCTGGAAAATTC
7894316 AAGA
1 AAGA
7894320 TATTTATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (21 bp):
AAGACAGCTGCTGGAAAATTC
Found at i:7895383 original size:25 final size:25
Alignment explanation
Indices: 7895349--7895408 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
7895339 TGGTATGTGA
*
7895349 TTATATGTGGCAAGGCCACTG-GTTG
1 TTATACGTGGCAAGGCCAC-GAGTTG
7895374 TTATACGTGGCAAGGCCACGAGTTG
1 TTATACGTGGCAAGGCCACGAGTTG
*
7895399 ATATACGTGG
1 TTATACGTGG
7895409 TTGCGACCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (25 bp):
TTATACGTGGCAAGGCCACGAGTTG
Found at i:7900704 original size:42 final size:42
Alignment explanation
Indices: 7900653--7900770 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 42
7900643 ATTGACCCGG
* *
7900653 CTATGTGCGAGTAAGAGTGTGCATAAGTCGATGCTGACCCAA
1 CTATGTGCGAGTAAGAGTGCGCATAAGCCGATGCTGACCCAA
** **
7900695 CTATGTGCGAGTGGGAGTGCGCATAAGCCGATGCTGACCCGG
1 CTATGTGCGAGTAAGAGTGCGCATAAGCCGATGCTGACCCAA
** * *
7900737 CTATGTGCGAGTGGGAGTGCACATAAGCCAATGC
1 CTATGTGCGAGTAAGAGTGCGCATAAGCCGATGC
7900771 ATATGAGCTG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (42 bp):
CTATGTGCGAGTAAGAGTGCGCATAAGCCGATGCTGACCCAA
Found at i:7900817 original size:2 final size:2
Alignment explanation
Indices: 7900810--7900854 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
7900800 CATGATGATT
*
7900810 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7900852 TA T
1 TA T
7900855 GGTACATGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7902526 original size:136 final size:136
Alignment explanation
Indices: 7902282--7902527 Score: 413
Period size: 136 Copynumber: 1.8 Consensus size: 136
7902272 ATAACCAATA
*
7902282 TTTGACAAAAAGCGTGGGAGTAATATTTCAAATGCTTTAAGCATGACTATGAGGAGTGTCACTAG
1 TTTGACAAAAAGCGTGGGAGTAATATTTCAAATGCTTTAAGCATGACTAAGAGGAGTGTCACTAG
*
7902347 AGGTTGAGGCAGAGTTCGAGGTGCCAACTCAGGCGACGTTTAAGGTGACTATCAAAGTGACAATT
66 AGGTTGAGGCAGAGTTCGAGGTGCCAACTCAGGCGACATTTAAGGTGACTATCAAAGTGACAATT
7902412 GCGATG
131 GCGATG
*
7902418 TTTGACAAAAAGCGTGGGAGTAATATTTCAGATGCTTTAAGCATGACTAAGAGGAGTGTCACTAG
1 TTTGACAAAAAGCGTGGGAGTAATATTTCAAATGCTTTAAGCATGACTAAGAGGAGTGTCACTAG
* * **
7902483 AGGTTGAGGCAGAGTTGGATGTGCCAA-TTTGGACGACATTTAAGG
66 AGGTTGAGGCAGAGTTCGAGGTGCCAACTCAGG-CGACATTTAAGG
7902528 CAACGGTGAA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
135 3 0.03
136 99 0.97
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.26
Consensus pattern (136 bp):
TTTGACAAAAAGCGTGGGAGTAATATTTCAAATGCTTTAAGCATGACTAAGAGGAGTGTCACTAG
AGGTTGAGGCAGAGTTCGAGGTGCCAACTCAGGCGACATTTAAGGTGACTATCAAAGTGACAATT
GCGATG
Found at i:7902540 original size:136 final size:136
Alignment explanation
Indices: 7902282--7902558 Score: 403
Period size: 136 Copynumber: 2.0 Consensus size: 136
7902272 ATAACCAATA
*
7902282 TTTGACAAAAAGCGTGGGAGTAATATTTCAAATGCTTTAAGCATGACTATGAGGAGTGTCACTAG
1 TTTGACAAAAAGCGTGGGAGTAATATTTCAAATGCTTTAAGCATGACTAAGAGGAGTGTCACTAG
* ** *
7902347 AGGTTGAGGCAGAGTTCGAGGTGCCAACTCAGGCGACGTTTAAGGTGACTATCAAAGTGACAATT
66 AGGTTGAGGCAGAGTTCGAGGTGCCAACTCAGGCGACATTTAAGGCAACGATCAAAGTGACAATT
7902412 GCGATG
131 GCGATG
*
7902418 TTTGACAAAAAGCGTGGGAGTAATATTTCAGATGCTTTAAGCATGACTAAGAGGAGTGTCACTAG
1 TTTGACAAAAAGCGTGGGAGTAATATTTCAAATGCTTTAAGCATGACTAAGAGGAGTGTCACTAG
* * ** * * *
7902483 AGGTTGAGGCAGAGTTGGATGTGCCAA-TTTGGACGACATTTAAGGCAACGGTGAAAGTGACGAT
66 AGGTTGAGGCAGAGTTCGAGGTGCCAACTCAGG-CGACATTTAAGGCAACGATCAAAGTGACAAT
*
7902547 TGTGATG
130 TGCGATG
*
7902554 GTTGA
1 TTTGA
7902559 GGCATTGGTC
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
135 3 0.02
136 122 0.98
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (136 bp):
TTTGACAAAAAGCGTGGGAGTAATATTTCAAATGCTTTAAGCATGACTAAGAGGAGTGTCACTAG
AGGTTGAGGCAGAGTTCGAGGTGCCAACTCAGGCGACATTTAAGGCAACGATCAAAGTGACAATT
GCGATG
Found at i:7903335 original size:19 final size:21
Alignment explanation
Indices: 7903311--7903365 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
7903301 CTATTGCCTG
7903311 ATATTTCTTAAA-TGTTG-GA
1 ATATTTCTTAAACTGTTGCGA
* *
7903330 ATATTTCCTAAGACTGTTGCCTA
1 ATATTTCTTAA-ACTGTTG-CGA
7903353 ATATTTCTTAAAC
1 ATATTTCTTAAAC
7903366 GCTATCTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.34
20 1 0.03
21 5 0.17
22 2 0.07
23 11 0.38
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (21 bp):
ATATTTCTTAAACTGTTGCGA
Found at i:7909210 original size:300 final size:300
Alignment explanation
Indices: 7908668--7909261 Score: 949
Period size: 300 Copynumber: 2.0 Consensus size: 300
7908658 ACTTAATTAC
*
7908668 TTTTTTTTCTTCTCAGCCTGTAGTAGTTGAAATACTCTTAATGACTGAGTCTTTTAATTTCCTGA
1 TTTTTTTTCTTCTCAGCCTGTAGTAGTTGAAAAACTCTTAATGACTGAGTCTTTTAATTTCCTGA
* *
7908733 ATCTGTTGCCTGATATAGTCTTAATGATTGAGTCTTTTAACCTTATCTGACTCAGTCTTATTTCT
66 ATCTGTTGCCTGATATAGTCTTAATGACTGAGTCTTTTAACCTTATCTAACTCAGTCTTATTTCT
* * *
7908798 TGAGTCTATTGCCTACTCTTTCTTAAACGCTGGAATATTTCCTGAGTCTATTGCTTGATATTTCT
131 TGAGTCTATTGCCTACTATTTCTTAAAAGCTGGAATATTTCCTAAGTCTATTGCTTGATATTTCT
*
7908863 TAAACGTTATCTCACTCAGATATTTGTTAAACGTTATTTGACTTAGCATCTTGATTTCTTCTAAT
196 TAAACGTTATCTCACTCAGATATTTGTTAAACGTTATTTGACTTAGCATCTTGATTTCCTCTAAT
** *
7908928 TTTCTGCTAAATGTTATTTGACTCAGCATCTTGAGTTCCT
261 TTTCTGCTAAACATTATTTGACTCAACATCTTGAGTTCCT
* * * *
7908968 TTTTTTTTCTTCTCAGCTTGTAGTAGTTGAAAAAGTCTTAATGACTGAGTCTTTTACTTTTCT-A
1 TTTTTTTTCTTCTCAGCCTGTAGTAGTTGAAAAACTCTTAATGACTGAGTCTTTTAATTTCCTGA
* * * *
7909032 ATTTTGTTGCCTGATTTAGTCTTAATGACTGAGTTTTTTAACCTTATCTAACTTAGTCTTATTTC
66 A-TCTGTTGCCTGATATAGTCTTAATGACTGAGTCTTTTAACCTTATCTAACTCAGTCTTATTTC
* *
7909097 TTGAGTCTATTGCCTGA-TATTTCTTAAAAGTTGGAATATTTCCTAAGTCTGTTGCTTGATATTT
130 TTGAGTCTATTGCCT-ACTATTTCTTAAAAGCTGGAATATTTCCTAAGTCTATTGCTTGATATTT
* * *
7909161 CTTAAACGTTATCTTACTCAGATATTTGTTAAATGTTATTTGACTTAGCATCTTGATTTCCTCTG
194 CTTAAACGTTATCTCACTCAGATATTTGTTAAACGTTATTTGACTTAGCATCTTGATTTCCTCTA
7909226 ATTTTCTGCTAAACATTATTTGACTCAACATCTTGA
259 ATTTTCTGCTAAACATTATTTGACTCAACATCTTGA
7909262 TTTTCTCTGA
Statistics
Matches: 269, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
299 2 0.01
300 266 0.99
301 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (300 bp):
TTTTTTTTCTTCTCAGCCTGTAGTAGTTGAAAAACTCTTAATGACTGAGTCTTTTAATTTCCTGA
ATCTGTTGCCTGATATAGTCTTAATGACTGAGTCTTTTAACCTTATCTAACTCAGTCTTATTTCT
TGAGTCTATTGCCTACTATTTCTTAAAAGCTGGAATATTTCCTAAGTCTATTGCTTGATATTTCT
TAAACGTTATCTCACTCAGATATTTGTTAAACGTTATTTGACTTAGCATCTTGATTTCCTCTAAT
TTTCTGCTAAACATTATTTGACTCAACATCTTGAGTTCCT
Found at i:7923247 original size:69 final size:69
Alignment explanation
Indices: 7923095--7923254 Score: 189
Period size: 69 Copynumber: 2.3 Consensus size: 69
7923085 TTTAATCCCG
* * *
7923095 GTGTGGGGGTAAGAATACCACAGGGTGAAGTTAGGCATCACACCAATTTTTCCCTCTATATGAGT
1 GTGTGAGGGTAAGAATACCACAGGGTGAAGTTAGACATCACACCAATTTTTCCCTCTATATGAAT
*
7923160 CCTA
66 CCGA
* * * ** *
7923164 GTGTAAGGGTAAGAATACTACAGGGTTAAGTTAGACATCGTACC-ATTTTTCCTCTCTTTATGAA
1 GTGTGAGGGTAAGAATACCACAGGGTGAAGTTAGACATCACACCAATTTTTCC-CTCTATATGAA
7923228 TCACGA
65 TC-CGA
*
7923234 -TGTGAGGGCAAGAATACCACA
1 GTGTGAGGGTAAGAATACCACA
7923255 AGGATGACTC
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
68 8 0.11
69 66 0.87
70 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (69 bp):
GTGTGAGGGTAAGAATACCACAGGGTGAAGTTAGACATCACACCAATTTTTCCCTCTATATGAAT
CCGA
Found at i:7926874 original size:25 final size:25
Alignment explanation
Indices: 7926817--7926876 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
7926807 CCTATTTATT
* *
7926817 TTTATTTCCTATTGGGCCATGCCCA
1 TTTATTTTCTAGTGGGCCATGCCCA
* *
7926842 CTTATTTTCTAGTGGGTCATGCCCA
1 TTTATTTTCTAGTGGGCCATGCCCA
7926867 TTTATTTTCT
1 TTTATTTTCT
7926877 TTTCTTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (25 bp):
TTTATTTTCTAGTGGGCCATGCCCA
Found at i:7927082 original size:24 final size:23
Alignment explanation
Indices: 7927059--7927121 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
7927049 TTTCAACTCA
7927059 AATTTT-CAGCAACAAAACTTCTC
1 AATTTTGCAGC-ACAAAACTTCTC
7927082 AATTTTGGCAGCACAAAACTGTC-C
1 AATTTT-GCAGCACAAAACT-TCTC
* *
7927106 AATTTTCCTGCACAAA
1 AATTTTGCAGCACAAA
7927122 TTACCAGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 14 0.40
24 15 0.43
25 6 0.17
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.29
Consensus pattern (23 bp):
AATTTTGCAGCACAAAACTTCTC
Found at i:7927141 original size:34 final size:34
Alignment explanation
Indices: 7927103--7927174 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
7927093 CACAAAACTG
7927103 TCCAATTTTCCTGCACAAATTACCAGCAAACAGC
1 TCCAATTTTCCTGCACAAATTACCAGCAAACAGC
* **
7927137 TCCAATTTTTCTGCACAAATTGGCAGCAAACAGC
1 TCCAATTTTCCTGCACAAATTACCAGCAAACAGC
7927171 -CCAA
1 TCCAA
7927175 ATATTCAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 4 0.11
34 31 0.89
ACGTcount: A:0.35, C:0.31, G:0.11, T:0.24
Consensus pattern (34 bp):
TCCAATTTTCCTGCACAAATTACCAGCAAACAGC
Found at i:7927232 original size:23 final size:21
Alignment explanation
Indices: 7927206--7927264 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 21
7927196 CCCTCAATGG
7927206 CAGCAAAAACCTCCAAAAATTTC-
1 CAGCAAAAACCT-C-AAAA-TTCA
7927229 CAGCAACATAACCTCAAAATTCA
1 CAGCAA-A-AACCTCAAAATTCA
7927252 GCAGCAAAAACCT
1 -CAGCAAAAACCT
7927265 TGAATTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
22 8 0.25
23 11 0.34
24 8 0.25
25 5 0.16
ACGTcount: A:0.47, C:0.31, G:0.07, T:0.15
Consensus pattern (21 bp):
CAGCAAAAACCTCAAAATTCA
Found at i:7927420 original size:33 final size:33
Alignment explanation
Indices: 7927355--7927441 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
7927345 ACAAATTTTC
** *
7927355 AGCTTTCTTTTTCC-TCCAAAAATTGCAGCAAA
1 AGCTTTCTTTTTCCTTCCTCAAAGTGCAGCAAA
7927387 AGCTTTCTTTTTCCTTCCTCAAAGTGCAGCAAA
1 AGCTTTCTTTTTCCTTCCTCAAAGTGCAGCAAA
* *
7927420 ATCGTTCTTTTTTCTCTTCCTC
1 AGCTTTC-TTTTTC-CTTCCTC
7927442 TCCCACGGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
32 14 0.30
33 20 0.43
34 6 0.13
35 7 0.15
ACGTcount: A:0.22, C:0.28, G:0.09, T:0.41
Consensus pattern (33 bp):
AGCTTTCTTTTTCCTTCCTCAAAGTGCAGCAAA
Found at i:7934275 original size:69 final size:69
Alignment explanation
Indices: 7934162--7934321 Score: 223
Period size: 69 Copynumber: 2.3 Consensus size: 69
7934152 TTTAGTCTTG
* *
7934162 GTGTGGAGATAAGAATACTACAGGGTTAAGTTGGGCATCATACCAATTTTC-CCTTCCTTATGAG
1 GTGTGGAGATAAGAATACCACAGGGTTAAGTTGGGCATCATACCAATTTTCTCC-TCCTTATGAA
7934226 TCCAA
65 TCCAA
* * * * *
7934231 GTGTGGAGGTAAGAATACCACAGGGTTAAGTTGGGTATCGTACCACTTTTCTCCTCTTTATGAAT
1 GTGTGGAGATAAGAATACCACAGGGTTAAGTTGGGCATCATACCAATTTTCTCCTCCTTATGAAT
*
7934296 CCTA
66 CCAA
*
7934300 GTGTAGAGATAAGAATACCACA
1 GTGTGGAGATAAGAATACCACA
7934322 AGGATGAATC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
69 78 0.98
70 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (69 bp):
GTGTGGAGATAAGAATACCACAGGGTTAAGTTGGGCATCATACCAATTTTCTCCTCCTTATGAAT
CCAA
Found at i:7945253 original size:20 final size:20
Alignment explanation
Indices: 7945228--7945273 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7945218 TTTTGGCACC
7945228 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
7945248 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
7945268 ATTTGA
1 ATTTGA
7945274 GGTTTAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:7953291 original size:20 final size:20
Alignment explanation
Indices: 7953266--7953311 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
7953256 TTTTGACCCC
7953266 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
7953286 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
7953306 ATTTGA
1 ATTTGA
7953312 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:7953387 original size:28 final size:27
Alignment explanation
Indices: 7953356--7953408 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
7953346 TTTGGAGTAT
*
7953356 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
7953384 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
7953409 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:7953414 original size:28 final size:28
Alignment explanation
Indices: 7953356--7953414 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
7953346 TTTGGAGTAT
* *
7953356 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
7953384 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
7953412 AGG
1 AGG
7953415 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:7958077 original size:20 final size:19
Alignment explanation
Indices: 7958020--7958082 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
7958010 TATATACCCA
*
7958020 TCATCATCATCTCACCAAC
1 TCATCATCATCTCACCAGC
*
7958039 CCATCATCATCGTCACCAGC
1 TCATCATCATC-TCACCAGC
7958059 TCATCATCATCATCACCAGC
1 TCATCATCATC-TCACCAGC
7958079 TCAT
1 TCAT
7958083 GCGCACTCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 10 0.26
20 29 0.74
ACGTcount: A:0.29, C:0.41, G:0.05, T:0.25
Consensus pattern (19 bp):
TCATCATCATCTCACCAGC
Found at i:7958129 original size:43 final size:43
Alignment explanation
Indices: 7958081--7958233 Score: 245
Period size: 43 Copynumber: 3.6 Consensus size: 43
7958071 TCACCAGCTC
** *
7958081 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
7958124 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
* *
7958167 ATGCGCACTCCCTACTCGCACATAACCGGGTAATC-CTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCAC-CGGGTT
7958210 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
7958234 GTCGAGTCAA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
42 1 0.01
43 103 0.99
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
Found at i:7961451 original size:502 final size:501
Alignment explanation
Indices: 7960497--7961778 Score: 1549
Period size: 502 Copynumber: 2.6 Consensus size: 501
7960487 ACAAATAAGA
* * ** * *
7960497 ATAAAAATAATTATAGTAAAAATTAGTAGTTGAAAAACCTTGATCTAAAGCAGTAAGAATTAACA
1 ATAAAAATAATTATAGTAAAATTTAATAACTGAAAAA-CTTGATATAAAGCAGTAAGAATTAATA
* * * * * * * * *
7960562 TAAAAAATTATAAAGGTGAAATAAACATTGTCAAAATATTGACGTAAATGCGTGAGATTTGATAT
65 TAAAAAATAAAAAAGGTGAAACAAGCATTGTCAAAATATTGATGTAAACGTGTGAGATTTAATGT
** * *
7960627 AACAAGTCAATTATATTTAATAAACATAATTTTTTGAAAAATTAAATATTTATATTTATATTCTC
130 AACAAGTCAATTATATCAAATAAACATAATTTTTTGAAAAATTAAATATTTAAATTTATATTCTT
* * *
7960692 GAGTTTAAAATATTTAATGGTTTATAAATTTAAATTTATAAATGAATAATAGTAAGGATAAAAAT
195 GAGTTTAAAGTATTTAATGGTTTAAAAATTTTAATTTATAAATGAATAATAGTAAGGATAAAAAT
* * *
7960757 AATTATAGTTAAAATTAGTAATTGAAAAATCTTGAAGTAAACCTGTAAGAATTAATGTAAAAAAT
260 AATTATAGTTAAAATTAGTAATTGAAAAACCTTGAAGTAAACATATAAGAATTAATGTAAAAAAT
* * * * **
7960822 TATAAAGGTCGAATAAACAAAGTCAAAATATTAATATTAACGTGTGAGATTTAATGTAACAAGTC
325 TATAAAAGTCGAAAAAACAAAGTCAAAATATTAATATAAACATGTGAGATTTAACATAACAAGTC
* * * * * *
7960887 AATTATGTAAAAAAAAACTTAATTTTTTCAAACAAATATTTAAATTTACATTCTCTAGTTTAAAG
390 AATGATGTAAAAAAAAACATAATTTTTTAAAACAAACATTTAAATCTACATTCTCGAGTTTAAAG
* *
7960952 TATTTAACGATTTACAAATTTTAATTTATAAATGAATAATAATAATG
455 TATTTAACGATTTACAAATTTTAATTTATAAAGGAATAATAATAAAG
* *
7960999 ATAAAAATAATTATAGTAAAATTTAATAACTAAAAAATCTTGATATAAACCTA-TAAGAATTAAT
1 ATAAAAATAATTATAGTAAAATTTAATAACTGAAAAA-CTTGATATAAAGC-AGTAAGAATTAAT
* *
7961063 ATAAAAAATAAAAAAGGTCGAAA-AAGCATTGTCAAAATATTGATGTAAACGTGTGAAATTTAAC
64 ATAAAAAATAAAAAAGGT-GAAACAAGCATTGTCAAAATATTGATGTAAACGTGTGAGATTTAAT
* * * * *
7961127 GTAACAAGTCAATTATGTCAAATAAATATAATTTTTGGAATTAA-TAAATGTTTAAATTTATATT
128 GTAACAAGTCAATTATATCAAATAAACATAATTTTTTGAA-AAATTAAATATTTAAATTTATATT
* * * * ** * *
7961191 CTTGAGTTTAATGTATTTGATAGTTTACAAATTTTAATTTATAAACAAATAATAATAATGATAAA
192 CTTGAGTTTAAAGTATTTAATGGTTTAAAAATTTTAATTTATAAATGAATAATAGTAAGGATAAA
* * **
7961256 AATAATTATAGTTAAAA-TAGTAATTGAAAAACCTTGATGTAAATATATTTGAATTAATGTAAAA
257 AATAATTATAGTTAAAATTAGTAATTGAAAAACCTTGAAGTAAACATATAAGAATTAATGTAAAA
* * * * *
7961320 AATTATAAAAGT-GAAAAAAGTATTA-TCAAAATATTGATGTAAACATGTTAGATTTAACATAAC
322 AATTATAAAAGTCGAAAAAA-CA-AAGTCAAAATATTAATATAAACATGTGAGATTTAACATAAC
* * ** * * * *
7961383 ATGTCTATGATG-CCAAATAAGCATAATTTTTTGAAAAATAAACATTTAAATCTATATTCTCGAG
385 AAGTCAATGATGTAAAAAAAAACATAATTTTTT--AAAACAAACATTTAAATCTACATTCTCGAG
* * *
7961447 TTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAAGGAATAATAGTAAAG
448 TTTAAAGTATTTAACGATTTACAAATTTTAATTTATAAAGGAATAATAATAAAG
* * *
7961501 ATAAAAATAATTATAGTGACAATTT-ACAACTGAAAAACTTTGATGTAAAGCAGTAAGAAATTAC
1 ATAAAAATAATTATAGT-AAAATTTAATAACTGAAAAAC-TTGATATAAAGCAGTAAG-AATTA-
* * * * * * *
7961565 GTA-AGAAATTATAAAA-GTGAAACGAGTATTGTCAAAATATTGATGTGAACGTGTGAGATTTAA
62 ATATAAAAAATAAAAAAGGTGAAACAAGCATTGTCAAAATATTGATGTAAACGTGTGAGATTTAA
* *
7961628 TGTAACAAGTCAATTATATCAAATAAACATAATTTTTTTGAAAAATTAAACATTTAAATTTTTAT
127 TGTAACAAGTCAATTATATCAAATAAACATAA-TTTTTTGAAAAATTAAATATTTAAATTTATAT
7961693 TCTTGAGTTTAAAGTATTTAATGGTTTAAAAATTTTAATTTATAAATGAATAATAGTAAGGATAA
191 TCTTGAGTTTAAAGTATTTAATGGTTTAAAAATTTTAATTTATAAATGAATAATAGTAAGGATAA
* **
7961758 AAGTAATTATAGCGAAAATTA
256 AAATAATTATAGTTAAAATTA
7961779 TAGTCTCAAA
Statistics
Matches: 657, Mismatches: 107, Indels: 30
0.83 0.13 0.04
Matches are distributed among these distances:
500 21 0.03
501 98 0.15
502 410 0.62
503 124 0.19
504 4 0.01
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (501 bp):
ATAAAAATAATTATAGTAAAATTTAATAACTGAAAAACTTGATATAAAGCAGTAAGAATTAATAT
AAAAAATAAAAAAGGTGAAACAAGCATTGTCAAAATATTGATGTAAACGTGTGAGATTTAATGTA
ACAAGTCAATTATATCAAATAAACATAATTTTTTGAAAAATTAAATATTTAAATTTATATTCTTG
AGTTTAAAGTATTTAATGGTTTAAAAATTTTAATTTATAAATGAATAATAGTAAGGATAAAAATA
ATTATAGTTAAAATTAGTAATTGAAAAACCTTGAAGTAAACATATAAGAATTAATGTAAAAAATT
ATAAAAGTCGAAAAAACAAAGTCAAAATATTAATATAAACATGTGAGATTTAACATAACAAGTCA
ATGATGTAAAAAAAAACATAATTTTTTAAAACAAACATTTAAATCTACATTCTCGAGTTTAAAGT
ATTTAACGATTTACAAATTTTAATTTATAAAGGAATAATAATAAAG
Found at i:7961537 original size:251 final size:252
Alignment explanation
Indices: 7960492--7961769 Score: 1389
Period size: 250 Copynumber: 5.1 Consensus size: 252
7960482 ATATGACAAA
* * * ** * *
7960492 TAAGAATAAAAATAATTATAGTAAAAATTAGTAGTTGAAAAACCTTGATCTAAAGCA-GTAAGAA
1 TAAGGATAAAAATAATTATAGTTAAATTTAGTAACTGAAAAACCTTGATGTAAA-CATATAAGAA
** * * * * *
7960556 TTAACATAAAAAATTATAAAGGT-GAAATAAA-CATTGTCAAAATATTGACGTAAATGCGTGAGA
65 TTAATGTAAAAAATTATAAAAGTCGAAA-AAAGCATTATCAAAATATTGATGTAAACGTGTGAGA
* ** * ** *
7960619 TTTGATATAACAAGTCAATTATATTTAATAAACATAATTTTTTGAAAAATTAAATATTTATATTT
129 TTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTTGAAAAA-TAAATATTTAAATTT
* * *
7960684 ATATTCTCGAGTTTAAAATATTTAATGGTTTATAAATTTAAATTTATAAATGAATAATAG
193 ATATTCTCGAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAATAATAG
* * * * * *
7960744 TAAGGATAAAAATAATTATAGTTAAAATTAGTAATTGAAAAATCTTGAAGTAAACCTGTAAGAAT
1 TAAGGATAAAAATAATTATAGTTAAATTTAGTAACTGAAAAACCTTGATGTAAACATATAAGAAT
* * * * * *
7960809 TAATGTAAAAAATTATAAAGGTCGAATAAA-CA-AAGTCAAAATATTAATATTAACGTGTGAGAT
66 TAATGTAAAAAATTATAAAAGTCGAAAAAAGCATTA-TCAAAATATTGATGTAAACGTGTGAGAT
* * * * * *
7960872 TTAATGTAACAAGTCAATTATGTAAAAAAAAACTTAATTTTTT--CAAACAAATATTTAAATTTA
130 TTAACGTAACAAGTCAATTATGT-CAAATAAACATAATTTTTTGAAAAATAAATATTTAAATTTA
* * * * *
7960935 CATTCTCTAGTTTAAAGTATTTAACGATTTACAAATTTTAATTTATAAATGAATAATAA
194 TATTCTCGAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAATAATAG
* * * * * * *
7960994 TAATGATAAAAATAATTATAGTAAAATTTAATAACTAAAAAATCTTGATATAAACCTATAAGAAT
1 TAAGGATAAAAATAATTATAGTTAAATTTAGTAACTGAAAAACCTTGATGTAAACATATAAGAAT
* * * *
7961059 TAATATAAAAAA-TAAAAAAGGTCG-AAAAAGCATTGTCAAAATATTGATGTAAACGTGTGAAAT
66 TAATGTAAAAAATTATAAAA-GTCGAAAAAAGCATTATCAAAATATTGATGTAAACGTGTGAGAT
* * * *
7961122 TTAACGTAACAAGTCAATTATGTCAAATAAATATAATTTTTGGAATTAATAAATGTTTAAATTTA
130 TTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTTGAA-AAATAAATATTTAAATTTA
* * * * ** *
7961187 TATTCTTGAGTTTAATGTATTTGATAGTTTACAAATTTTAATTTATAAACAAATAATAA
194 TATTCTCGAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAATAATAG
* * * * **
7961246 TAATGATAAAAATAATTATAGTTAAA-ATAGTAATTGAAAAACCTTGATGTAAATATATTTGAAT
1 TAAGGATAAAAATAATTATAGTTAAATTTAGTAACTGAAAAACCTTGATGTAAACATATAAGAAT
* * *
7961310 TAATGTAAAAAATTATAAAAGT-GAAAAAAGTATTATCAAAATATTGATGTAAACATGTTAGATT
66 TAATGTAAAAAATTATAAAAGTCGAAAAAAGCATTATCAAAATATTGATGTAAACGTGTGAGATT
* * * * * * * *
7961374 TAACATAACATGTCTATGATGCCAAATAAGCATAATTTTTTGAAAAATAAACATTTAAATCTATA
131 TAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTTGAAAAATAAATATTTAAATTTATA
*
7961439 TTCTCGAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAAGGAATAATAG
196 TTCTCGAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAATAATAG
* * * * *
7961496 TAAAGATAAAAATAATTATAGTGACAATTTA-CAACTGAAAAACTTTGATGTAAAGCA-GTAAGA
1 TAAGGATAAAAATAATTATAGTTA-AATTTAGTAACTGAAAAACCTTGATGTAAA-CATATAAG-
* * ** * * *
7961559 AATT-ACGTAAGAAATTATAAAAGT-GAAACGAGTATTGTCAAAATATTGATGTGAACGTGTGAG
63 AATTAATGTAAAAAATTATAAAAGTCGAAAAAAGCATTATCAAAATATTGATGTAAACGTGTGAG
* * *
7961622 ATTTAATGTAACAAGTCAATTATATCAAATAAACATAATTTTTTTGAAAAATTAAACATTTAAAT
128 ATTTAACGTAACAAGTCAATTATGTCAAATAAACATAA-TTTTTTGAAAAA-TAAATATTTAAAT
* * *
7961687 TTTTATTCTTGAGTTTAAAGTATTTAATGGTTTAAAAATTTTAATTTATAAATGAATAATAG
191 TTATATTCTCGAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAATAATAG
*
7961749 TAAGGATAAAAGTAATTATAG
1 TAAGGATAAAAATAATTATAG
7961770 CGAAAATTAT
Statistics
Matches: 863, Mismatches: 145, Indels: 35
0.83 0.14 0.03
Matches are distributed among these distances:
249 23 0.03
250 274 0.32
251 221 0.26
252 238 0.28
253 107 0.12
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (252 bp):
TAAGGATAAAAATAATTATAGTTAAATTTAGTAACTGAAAAACCTTGATGTAAACATATAAGAAT
TAATGTAAAAAATTATAAAAGTCGAAAAAAGCATTATCAAAATATTGATGTAAACGTGTGAGATT
TAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTTGAAAAATAAATATTTAAATTTATA
TTCTCGAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAATAATAG
Found at i:7963361 original size:46 final size:46
Alignment explanation
Indices: 7963289--7963380 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
7963279 CTCCCTACTC
* * *
7963289 GCACATTTCTATATCATCGTGGGCACTCCTTACTCACACACTTCAA
1 GCACACTTCAATATCATCGTGGGCACTCCCTACTCACACACTTCAA
* *
7963335 GCACACTTCAATATCATCGTGTGCACTCCCTACTCGCACACTTCAA
1 GCACACTTCAATATCATCGTGGGCACTCCCTACTCACACACTTCAA
7963381 TATCATCACA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.35, G:0.11, T:0.28
Consensus pattern (46 bp):
GCACACTTCAATATCATCGTGGGCACTCCCTACTCACACACTTCAA
Found at i:7969946 original size:34 final size:34
Alignment explanation
Indices: 7969903--7969980 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
7969893 GAAACGTTTG
* * ** *
7969903 TGTATGGGTTGTGCTTGCTTTTGGTAAAGGGCAT
1 TGTATGGGTTGTGCTAGCTCTTCATAAAAGGCAT
*
7969937 TGTATGGGTTGTTCTAGCTCTTCATAAAAGGCAT
1 TGTATGGGTTGTGCTAGCTCTTCATAAAAGGCAT
7969971 TGTATGGGTT
1 TGTATGGGTT
7969981 ATTGCTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.18, C:0.10, G:0.31, T:0.41
Consensus pattern (34 bp):
TGTATGGGTTGTGCTAGCTCTTCATAAAAGGCAT
Found at i:7970000 original size:35 final size:34
Alignment explanation
Indices: 7969961--7970072 Score: 89
Period size: 36 Copynumber: 3.1 Consensus size: 34
7969951 TAGCTCTTCA
7969961 TAAAAGGCATTGTATGGGTTATTGCTTAATCCTAT
1 TAAAAGGC-TTGTATGGGTTATTGCTTAATCCTAT
* * * ** * *
7969996 TAAAAAGCTAGTATAAAGGCAATTGCTTGATCCTGT
1 TAAAAGGCTTGTAT--GGGTTATTGCTTAATCCTAT
* * *
7970032 GAAAAAGTCGTTGTAAGGGTTATTGCTTAATCCTAT
1 -TAAAAGGC-TTGTATGGGTTATTGCTTAATCCTAT
7970068 TAAAA
1 TAAAA
7970073 AGCAAGAATC
Statistics
Matches: 55, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
34 5 0.09
35 11 0.20
36 30 0.55
37 5 0.09
38 4 0.07
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.35
Consensus pattern (34 bp):
TAAAAGGCTTGTATGGGTTATTGCTTAATCCTAT
Found at i:7970021 original size:36 final size:37
Alignment explanation
Indices: 7969981--7970075 Score: 104
Period size: 36 Copynumber: 2.6 Consensus size: 37
7969971 TGTATGGGTT
7969981 ATTGCTTAATCCTATTAAAAAGCTAG-TATAAAGGCA
1 ATTGCTTAATCCTATTAAAAAGCTAGTTATAAAGGCA
* * * * * * **
7970017 ATTGCTTGATCCTGTGAAAAAG-TCGTTGTAAGGGTT
1 ATTGCTTAATCCTATTAAAAAGCTAGTTATAAAGGCA
7970053 ATTGCTTAATCCTATTAAAAAGC
1 ATTGCTTAATCCTATTAAAAAGC
7970076 AAGAATCATT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
35 2 0.04
36 44 0.96
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (37 bp):
ATTGCTTAATCCTATTAAAAAGCTAGTTATAAAGGCA
Found at i:7970527 original size:17 final size:17
Alignment explanation
Indices: 7970505--7970540 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
7970495 TTCAAAGTGA
7970505 TTATTTGCCTATGTTTG
1 TTATTTGCCTATGTTTG
7970522 TTATTTGCCTATGTTTG
1 TTATTTGCCTATGTTTG
7970539 TT
1 TT
7970541 TGAGTAGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.17, T:0.61
Consensus pattern (17 bp):
TTATTTGCCTATGTTTG
Found at i:7970663 original size:2 final size:2
Alignment explanation
Indices: 7970656--7970685 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7970646 CATACTCTAC
7970656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7970686 AACAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7975277 original size:45 final size:42
Alignment explanation
Indices: 7975170--7975294 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
7975160 GTCTTCAAAA
* * *
7975170 ATCATGAATTAAATTTAATATCTTCACTTTAAGAGTCTTAGC
1 ATCATGAATTAAATTTGATATCTTCACTTCAAGAGTCTAAGC
* * * * *
7975212 ATCATGAACTAAACTTGATATTTTCACTTCAAGGGTCTAATC
1 ATCATGAATTAAATTTGATATCTTCACTTCAAGAGTCTAAGC
* *
7975254 TTGATCACGAATTAAATTTGATATCTTCGCTTCAAGAGTCT
1 ---ATCATGAATTAAATTTGATATCTTCACTTCAAGAGTCT
7975295 TGGCGACTTG
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
42 34 0.52
45 32 0.48
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (42 bp):
ATCATGAATTAAATTTGATATCTTCACTTCAAGAGTCTAAGC
Found at i:7982928 original size:16 final size:16
Alignment explanation
Indices: 7982901--7982946 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
7982891 TTTCCGTACC
7982901 AATAATAATAAAAAT-
1 AATAATAATAAAAATA
7982916 AATAATCAAT-AAAATA
1 AATAAT-AATAAAAATA
7982932 AATAAGTAATAAAAA
1 AATAA-TAATAAAAA
7982947 ATCAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.41
16 11 0.41
17 5 0.19
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (16 bp):
AATAATAATAAAAATA
Found at i:7982932 original size:27 final size:28
Alignment explanation
Indices: 7982904--7982957 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
7982894 CCGTACCAAT
7982904 AATAA-TAAAAATAATAATCAA-TAAAATA
1 AATAAGTAAAAA-AA-AATCAATTAAAATA
*
7982932 AATAAGTAATAAAAAATCAATTAAAA
1 AATAAGTAAAAAAAAATCAATTAAAA
7982958 AGGAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 6 0.26
28 12 0.52
29 5 0.22
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (28 bp):
AATAAGTAAAAAAAAATCAATTAAAATA
Found at i:7983868 original size:67 final size:67
Alignment explanation
Indices: 7983775--7983962 Score: 265
Period size: 67 Copynumber: 2.8 Consensus size: 67
7983765 GGCTTTTACC
* *
7983775 AGGCTTAGCCAAAACCTTTCACAATGGTTTTT-ATCGGGATCAACCAAAACCCAAAGTAGTTTTT
1 AGGCTTAACCACAA-CTTTCACAATGGTTTTTCATCGGGATCAACCAAAACCCAAAGTAGTTTTT
7983839 CAA
65 CAA
* *
7983842 AGGCTTAACCACAACATTTCACAATGGTTTTTCA-CGGGCTCAACCAAAACCCAAAGTGGTTTTT
1 AGGCTTAACCACAAC-TTTCACAATGGTTTTTCATCGGGATCAACCAAAACCCAAAGTAGTTTTT
7983906 CAA
65 CAA
* * *
7983909 AGGCTCAACCACAACCTACAACAATGGTTTTTCAT-GGGATCAACCAAAACCCAA
1 AGGCTTAACCACAACTTTC-ACAATGGTTTTTCATCGGGATCAACCAAAACCCAA
7983963 CAACTAACTT
Statistics
Matches: 109, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
66 3 0.03
67 105 0.96
68 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (67 bp):
AGGCTTAACCACAACTTTCACAATGGTTTTTCATCGGGATCAACCAAAACCCAAAGTAGTTTTTC
AA
Found at i:7983952 original size:35 final size:33
Alignment explanation
Indices: 7983795--7983965 Score: 134
Period size: 35 Copynumber: 5.1 Consensus size: 33
7983785 AAAACCTTTC
* *
7983795 ACAATGGTTTTT-ATCGGGATCAACCAAAACCCA
1 ACAATGGTTTTTCA-AGGGCTCAACCAAAACCCA
* * * * **
7983828 A-AGTAGTTTTTCAAAGGCTTAACCACAACATTTC-
1 ACAATGGTTTTTCAAGGGCTCAACCA-AA-A-CCCA
*
7983862 ACAATGGTTTTTCACGGGCTCAACCAAAACCCA
1 ACAATGGTTTTTCAAGGGCTCAACCAAAACCCA
* * *
7983895 A-AGTGGTTTTTCAAAGGCTCAACCACAACCTACA
1 ACAATGGTTTTTCAAGGGCTCAACCAAAACC--CA
* *
7983929 ACAATGGTTTTTCATGGGATCAACCAAAACCCA
1 ACAATGGTTTTTCAAGGGCTCAACCAAAACCCA
7983962 ACAA
1 ACAA
7983966 CTAACTTTTT
Statistics
Matches: 105, Mismatches: 24, Indels: 18
0.71 0.16 0.12
Matches are distributed among these distances:
32 42 0.40
33 12 0.11
34 7 0.07
35 44 0.42
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (33 bp):
ACAATGGTTTTTCAAGGGCTCAACCAAAACCCA
Found at i:8014129 original size:2 final size:2
Alignment explanation
Indices: 8014122--8014157 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8014112 GCAGCCCATT
8014122 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8014158 AAGGAGGGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8017535 original size:49 final size:50
Alignment explanation
Indices: 8017461--8017563 Score: 174
Period size: 49 Copynumber: 2.1 Consensus size: 50
8017451 TAGTTCCTAC
8017461 AAAAAATATAAAAACTAATAAATAATAACCAAATT-AAAAAGAATAACATA
1 AAAAAATAT-AAAACTAATAAATAATAACCAAATTAAAAAAGAATAACATA
8017511 NAAAAAATAT-AAACTAATAAATAATAACCAAATTAAAAAAGAATAACATA
1 -AAAAAATATAAAACTAATAAATAATAACCAAATTAAAAAAGAATAACATA
8017561 AAA
1 AAA
8017564 TTAAAATAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
49 27 0.53
50 15 0.29
51 9 0.18
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.19
Consensus pattern (50 bp):
AAAAAATATAAAACTAATAAATAATAACCAAATTAAAAAAGAATAACATA
Found at i:8017547 original size:24 final size:24
Alignment explanation
Indices: 8017472--8017547 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 24
8017462 AAAAATATAA
8017472 AAACTAATAAATAATAACCAAATT
1 AAACTAATAAATAATAACCAAATT
**
8017496 AAAAAGAATAACATANA-AA--AAATAT
1 -AAACTAATAA-ATA-ATAACCAAAT-T
8017521 AAACTAATAAATAATAACCAAATT
1 AAACTAATAAATAATAACCAAATT
8017545 AAA
1 AAA
8017548 AAAGAATAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
22 1 0.02
23 5 0.12
24 16 0.39
25 13 0.32
26 5 0.12
27 1 0.02
ACGTcount: A:0.67, C:0.09, G:0.01, T:0.21
Consensus pattern (24 bp):
AAACTAATAAATAATAACCAAATT
Found at i:8018911 original size:20 final size:19
Alignment explanation
Indices: 8018886--8018924 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8018876 TTTGAAACAC
8018886 AATAAAGCATGCAAAACATA
1 AATAAA-CATGCAAAACATA
* *
8018906 AATAAATATGCAAGACATA
1 AATAAACATGCAAAACATA
8018925 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.59, C:0.13, G:0.10, T:0.18
Consensus pattern (19 bp):
AATAAACATGCAAAACATA
Found at i:8021380 original size:15 final size:15
Alignment explanation
Indices: 8021340--8021385 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
8021330 AAAAGGACAC
8021340 AAAAA-AATTAAATT
1 AAAAAGAATTAAATT
*
8021354 -AAAAGAAATAAATT
1 AAAAAGAATTAAATT
*
8021368 AAAAAGCATTAAA-T
1 AAAAAGAATTAAATT
8021382 AAAA
1 AAAA
8021386 TAAGGATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 4 0.15
14 13 0.48
15 10 0.37
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (15 bp):
AAAAAGAATTAAATT
Found at i:8028304 original size:15 final size:14
Alignment explanation
Indices: 8028266--8028321 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 14
8028256 CACTTAAAAT
8028266 TAAATTAATTAT-AA
1 TAAA-TAATTATAAA
8028280 -AAATAATTATAAA
1 TAAATAATTATAAA
*
8028293 TAAATAAATTATAAT
1 TAAAT-AATTATAAA
*
8028308 TAAA-AATTAAAAA
1 TAAATAATTATAAA
8028321 T
1 T
8028322 TTAGTTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
12 7 0.19
13 13 0.36
14 4 0.11
15 12 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAATAATTATAAA
Found at i:8028306 original size:21 final size:20
Alignment explanation
Indices: 8028282--8028322 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8028272 AATTATAAAA
*
8028282 ATAATTATAAATAAATAAATT
1 ATAATTAAAAATAAA-AAATT
*
8028303 ATAATTAAAAATTAAAAATT
1 ATAATTAAAAATAAAAAATT
8028323 TAGTTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAATTAAAAATAAAAAATT
Found at i:8039034 original size:43 final size:42
Alignment explanation
Indices: 8038996--8039077 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
8038986 TATAATGCTT
* * * *
8038996 AATATGCTTGATTTGTAGTGCTATGATTCCAAACATAATACCC
1 AATATCCTTGATTTGGAGTCCTATGATACC-AACATAATACCC
*
8039039 AATATCCTTGATTTGGGGTCCTATGATACCAACATAATA
1 AATATCCTTGATTTGGAGTCCTATGATACCAACATAATA
8039078 GATGATATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 9 0.26
43 25 0.74
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (42 bp):
AATATCCTTGATTTGGAGTCCTATGATACCAACATAATACCC
Found at i:8040108 original size:43 final size:43
Alignment explanation
Indices: 8040033--8040115 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
8040023 TAACTATATT
* *
8040033 CTTGATTTGTAGTGTTATATTTCTAAGCATAATGCTTGATGTC
1 CTTGATTTGTAGTGTTATAGTTCCAAGCATAATGCTTGATGTC
** *
8040076 CTTGATTTG-AGGTGTTATAGTTCCAATTATAATGTTTGAT
1 CTTGATTTGTA-GTGTTATAGTTCCAAGCATAATGCTTGAT
8040116 ATGTCGTGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.47
Consensus pattern (43 bp):
CTTGATTTGTAGTGTTATAGTTCCAAGCATAATGCTTGATGTC
Found at i:8042037 original size:20 final size:20
Alignment explanation
Indices: 8042012--8042051 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8042002 CTATAAATAT
*
8042012 CTCATTTCTCTAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
*
8042032 CTCATTTTTCCAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
8042052 TTGTTTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.35, G:0.10, T:0.40
Consensus pattern (20 bp):
CTCATTTCTCCAGCAGCTTC
Found at i:8042266 original size:2 final size:2
Alignment explanation
Indices: 8042251--8042303 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
8042241 TGGACATTTT
* *
8042251 AG AG AG AC AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8042293 AG AG AG AG AG A
1 AG AG AG AG AG A
8042304 CTTTCCATGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.53, C:0.02, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8045889 original size:34 final size:35
Alignment explanation
Indices: 8045851--8045928 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
8045841 CAACTCTTAT
*
8045851 AATGCCTTTTTA-TGA-GAGTAAGCACAACCTACAC
1 AATGCCTTTTTACT-ATGAGCAAGCACAACCTACAC
* *
8045885 AATGCC-TTTTACTATGAGCAAGCATAACCTATAC
1 AATGCCTTTTTACTATGAGCAAGCACAACCTACAC
8045919 AATGCCTTTT
1 AATGCCTTTT
8045929 ACCAAGAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 6 0.16
34 29 0.76
35 3 0.08
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (35 bp):
AATGCCTTTTTACTATGAGCAAGCACAACCTACAC
Found at i:8045929 original size:34 final size:34
Alignment explanation
Indices: 8045865--8045957 Score: 123
Period size: 34 Copynumber: 2.7 Consensus size: 34
8045855 CCTTTTTATG
* * * *
8045865 AGAGTAAGCACAACCTACACAATGCCTTTTACTA
1 AGAGCAAGCATAACCTATACAATGCCTTTTACCA
*
8045899 TGAGCAAGCATAACCTATACAATGCCTTTTACCA
1 AGAGCAAGCATAACCTATACAATGCCTTTTACCA
* *
8045933 AGAGCAAACATAACCCATACAATGC
1 AGAGCAAGCATAACCTATACAATGC
8045958 TACTTTTTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.22
Consensus pattern (34 bp):
AGAGCAAGCATAACCTATACAATGCCTTTTACCA
Found at i:8050934 original size:21 final size:21
Alignment explanation
Indices: 8050910--8050979 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
8050900 AATCCATTAT
8050910 ATTTAAATTTAATTTGTTTAA
1 ATTTAAATTTAATTTGTTTAA
* ** *
8050931 ATTTAAA--TAAGGATTAATTAC
1 ATTTAAATTTAA--TTTGTTTAA
*
8050952 ATTTAAATTTAGTTTGTTTAA
1 ATTTAAATTTAATTTGTTTAA
8050973 ATTTAAA
1 ATTTAAA
8050980 AGTAATATCC
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
19 3 0.08
21 31 0.86
23 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTAAATTTAATTTGTTTAA
Found at i:8052119 original size:47 final size:48
Alignment explanation
Indices: 8052065--8052171 Score: 162
Period size: 47 Copynumber: 2.2 Consensus size: 48
8052055 TTTGTATGAT
**
8052065 TTAGGTAAAATTTATAAAACACATGATGTAATTATTTT-ACTTATTTG
1 TTAGGTAAAATTTATAAAACACATGATGTAATTATTTTAACTTATTCA
**
8052112 TTAGGTAAAATTTATAAAATGCATGATGTAATTATTTTAACTTATTCA
1 TTAGGTAAAATTTATAAAACACATGATGTAATTATTTTAACTTATTCA
*
8052160 TTAAGTAAAATT
1 TTAGGTAAAATT
8052172 GTATTTAACA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 36 0.67
48 18 0.33
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (48 bp):
TTAGGTAAAATTTATAAAACACATGATGTAATTATTTTAACTTATTCA
Found at i:8058338 original size:35 final size:35
Alignment explanation
Indices: 8058274--8058462 Score: 204
Period size: 35 Copynumber: 5.4 Consensus size: 35
8058264 CACTTGATTA
* *
8058274 AAATTGTTTTATTAAG---TTGTGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
8058306 AAATTATTTAATTAAATCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
8058341 AAATTGTTTAATTAAGTCATTAGGCCTAATTAGTT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
**** * *
8058376 AAATTAAACAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * *
8058411 AAATTTGTTTAATTAAGTCATTAGGCTTAATTGATT
1 AAA-TTGTTTAATTAAGTCATTGGGCCTAATTAATT
8058447 AAAATTGTTTAATTAA
1 -AAATTGTTTAATTAA
8058463 ATTGTTGGGC
Statistics
Matches: 129, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
32 13 0.10
35 76 0.59
36 37 0.29
37 3 0.02
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:8058380 original size:70 final size:71
Alignment explanation
Indices: 8058294--8058479 Score: 241
Period size: 70 Copynumber: 2.6 Consensus size: 71
8058284 ATTAAGTTGT
* *
8058294 GCCTAATTAATTAAATTATTTAATTAAATCATTGGGCCTAATTAATTAAA-TTGTTTAATTAAGT
1 GCCTAATTAGTTAAATTATTTAATTAAATTATTGGGCCTAATTAATTAAATTTGTTTAATTAAGT
8058358 CATTAG
66 CATTAG
*** * *
8058364 GCCTAATTAGTTAAATTAAACAATTAAGTTATTGGGCCTAATTGATTAAATTTGTTTAATTAAGT
1 GCCTAATTAGTTAAATTATTTAATTAAATTATTGGGCCTAATTAATTAAATTTGTTTAATTAAGT
8058429 CATTAG
66 CATTAG
* * * *
8058435 GCTTAATT-GATTAAAATTGTTTAATTAAATTGTTGGGCTTAATTA
1 GCCTAATTAG-TT-AAATTATTTAATTAAATTATTGGGCCTAATTA
8058480 TTGGGCCTAA
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
70 44 0.45
71 29 0.30
72 24 0.25
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.43
Consensus pattern (71 bp):
GCCTAATTAGTTAAATTATTTAATTAAATTATTGGGCCTAATTAATTAAATTTGTTTAATTAAGT
CATTAG
Found at i:8059966 original size:2 final size:2
Alignment explanation
Indices: 8059961--8060001 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8059951 CTATATGGTA
8059961 AT AT AT AT AT 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 AT AT AT AT AT A
8060002 CACATATGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8060104 original size:36 final size:36
Alignment explanation
Indices: 8060064--8060211 Score: 172
Period size: 36 Copynumber: 4.1 Consensus size: 36
8060054 TAGCCGGAGT
** *
8060064 CATCGTGTGCACCCTTATATCGCGCACAGCTAATAC
1 CATCGTGTGCACCCCCACATCGCGCACAGCTAATAC
* *
8060100 CATCGTGTGCTA-CCCCACATCGCGTACAACTAATAC
1 CATCGTGTGC-ACCCCCACATCGCGCACAGCTAATAC
* * * * *
8060136 AATCATGTGCTCCCCCACATCACGCACAGCTAATGC
1 CATCGTGTGCACCCCCACATCGCGCACAGCTAATAC
* *
8060172 CATCGTGTGCACCCCCACATCGCGCACAGCCAATAT
1 CATCGTGTGCACCCCCACATCGCGCACAGCTAATAC
8060208 CATC
1 CATC
8060212 ATCAGTGTGT
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
36 90 0.99
37 1 0.01
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (36 bp):
CATCGTGTGCACCCCCACATCGCGCACAGCTAATAC
Found at i:8071807 original size:13 final size:13
Alignment explanation
Indices: 8071789--8071813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8071779 GGAGAAATTG
8071789 TGATTTTATAAAA
1 TGATTTTATAAAA
8071802 TGATTTTATAAA
1 TGATTTTATAAA
8071814 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:8074220 original size:21 final size:21
Alignment explanation
Indices: 8074196--8074265 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
8074186 AATCCATTAT
*
8074196 ATTTAAATTTAATTTTTTTAA
1 ATTTAAATTTAATTTATTTAA
* * *
8074217 ATTTAAA--TAAGGATTAATTAC
1 ATTTAAATTTAA--TTTATTTAA
*
8074238 ATTTAAATTTAATTTGTTTAA
1 ATTTAAATTTAATTTATTTAA
8074259 ATTTAAA
1 ATTTAAA
8074266 AGCAATATCC
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
19 3 0.08
21 31 0.84
23 3 0.08
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTAAATTTAATTTATTTAA
Found at i:8077098 original size:13 final size:13
Alignment explanation
Indices: 8077080--8077105 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8077070 GGAAGATGAT
8077080 CTATTAGTTTATG
1 CTATTAGTTTATG
8077093 CTATTAGTTTATG
1 CTATTAGTTTATG
8077106 ATACTGTAAC
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:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
CTATTAGTTTATG
Found at i:8077803 original size:17 final size:17
Alignment explanation
Indices: 8077781--8077817 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
8077771 GGAGTATAGG
8077781 AAAGTCTGTCATCTTCA
1 AAAGTCTGTCATCTTCA
8077798 AAAGTCTGTCATCTTCA
1 AAAGTCTGTCATCTTCA
8077815 AAA
1 AAA
8077818 ATCTTTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (17 bp):
AAAGTCTGTCATCTTCA
Found at i:8079544 original size:2 final size:2
Alignment explanation
Indices: 8079539--8079568 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8079529 ACACATATCC
*
8079539 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8079569 CCGTCATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8079679 original size:42 final size:43
Alignment explanation
Indices: 8079632--8079755 Score: 162
Period size: 42 Copynumber: 2.9 Consensus size: 43
8079622 CATATGGCCG
* *
8079632 GGTCAGCATCTGCTTATGCGCACTCCTACTCGCACATAGCTGA
1 GGTCAGCATCAGCTTATGCGCACTCCTACTCGCACATAGCTCA
*
8079675 -GTCAGCATCAGCTTATGCGCACTCCCACTCGCACATAG-TCA
1 GGTCAGCATCAGCTTATGCGCACTCCTACTCGCACATAGCTCA
* * * * *
8079716 GGTTAGCATCGGCTTATGCACACTCATACTTGCACATAGC
1 GGTCAGCATCAGCTTATGCGCACTCCTACTCGCACATAGC
8079756 CTGGTCAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.03
42 68 0.97
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (43 bp):
GGTCAGCATCAGCTTATGCGCACTCCTACTCGCACATAGCTCA
Found at i:8079685 original size:84 final size:84
Alignment explanation
Indices: 8079596--8079755 Score: 203
Period size: 84 Copynumber: 1.9 Consensus size: 84
8079586 CTCCCATCAT
* * * * * * *
8079596 CATCAGCTCATATGCACTCCCACTAGCATATGGCCGGGTCAGCATCTGCTTATGCGCACTCCTAC
1 CATCAGCTCATACGCACTCCCACTAGCACATAGCCAGGTCAGCATCGGCTTATGCACACTCATAC
8079661 TCGCACATAGCTGAGTCAG
66 TCGCACATAGCTGAGTCAG
* * * * *
8079680 CATCAGCTTATGCGCACTCCCACTCGCACATAGTCAGGTTAGCATCGGCTTATGCACACTCATAC
1 CATCAGCTCATACGCACTCCCACTAGCACATAGCCAGGTCAGCATCGGCTTATGCACACTCATAC
*
8079745 TTGCACATAGC
66 TCGCACATAGC
8079756 CTGGTCAATA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (84 bp):
CATCAGCTCATACGCACTCCCACTAGCACATAGCCAGGTCAGCATCGGCTTATGCACACTCATAC
TCGCACATAGCTGAGTCAG
Found at i:8080274 original size:42 final size:42
Alignment explanation
Indices: 8080121--8080267 Score: 213
Period size: 42 Copynumber: 3.5 Consensus size: 42
8080111 CAGCTCATAT
* * * * *
8080121 GCACTCCCACTAGCATATGGCCGGGTCAACATTGGCTTATAC
1 GCACTCCCACTCGCACATAGCCGGGTCAGCATTGGCTTATGC
*
8080163 GCACTCCCACTCGCACATAGCCGGGTTAGCATTGGCTTATGC
1 GCACTCCCACTCGCACATAGCCGGGTCAGCATTGGCTTATGC
*
8080205 GCACTCCCACTCGCACATAGCCGGGTCAGCATCGGCTTATGC
1 GCACTCCCACTCGCACATAGCCGGGTCAGCATTGGCTTATGC
* *
8080247 GCACTCCTACTCACACATAGC
1 GCACTCCCACTCGCACATAGC
8080268 TAGGTCAATA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 95 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (42 bp):
GCACTCCCACTCGCACATAGCCGGGTCAGCATTGGCTTATGC
Found at i:8080512 original size:512 final size:512
Alignment explanation
Indices: 8079538--8080547 Score: 1720
Period size: 512 Copynumber: 2.0 Consensus size: 512
8079528 CACACATATC
*
8079538 CATATATGTATATATATATATATATATATATCCGTCATCATGCACACCCTCCCATCATCATCAGC
1 CATATATG-ATATATATATATATATATATATCCATCATCATGCACACCCTCCCATCATCATCAGC
* * *
8079603 TCATATGCACTCCCACTAGCATATGGCCGGGTCAGCATCTGCTTATGCGCACTCCTACTCGCACA
65 TCATATGCACTCCCACTAGCATATGGCCGGGTCAACATCTGCTTATACGCACTCCCACTCGCACA
* * *
8079668 TAGCTGAGTCAGCATCAGCTTATGCGCACTCCCACTCGCACATAGTCAGGTTAGCATCGGCTTAT
130 TAGCCGAGTCAGCATCAGCTTATGCGCACTCCCACTCGCACATAGCCAGGTCAGCATCGGCTTAT
**
8079733 GCACACTCATACTTGCACATAGCCTGGTCAATATCATTACACAACATTATTCGTATATATATATA
195 GCACACTCATACTCACACATAGCCTGGTCAATATCATTACACAACATTATTCGTATATATATATA
***
8079798 TATATCAACACAGTATAGGAGCACATAGGTTTGTCCTTTTACACATTTCACATTTTCACAACATC
260 TATATCAACACAGTATAGGAGCACATAGGTCCATCCTTTTACACATTTCACATTTTCACAACATC
*
8079863 AAAATATTTTATCAAGGGCTTGTTCCCAAGGCACACCTTTTTAAGAAAAGTTGGATAAAATCAAT
325 AAAATATTTTATCAAGGGCTTGTTCCCAAGGCACACATTTTTAAGAAAAGTTGGATAAAATCAAT
*
8079928 CAATGTTTTGTGCAAATAGATTCACATTCCTAAAACAGTTTTGAAATGCAAGTTCACTCACCAAT
390 CAATGTTTTGTGCAAATAGATTCACATTCCCAAAACAGTTTTGAAATGCAAGTTCACTCACCAAT
*
8079993 CTTGTTGATTCTTTAATCGATTCTAACTTCGATTATTGCTTCATATGGGCAGGGGAGG
455 CTTGTTGATTCTTTAATCAATTCTAACTTCGATTATTGCTTCATATGGGCAGGGGAGG
8080051 NCATATATG-TATATATATATATATATATATCCATCATCATGCACACCCTCCCATCATCATCAGC
1 -CATATATGATATATATATATATATATATATCCATCATCATGCACACCCTCCCATCATCATCAGC
8080115 TCATATGCACTCCCACTAGCATATGGCCGGGTCAACAT-TGGCTTATACGCACTCCCACTCGCAC
65 TCATATGCACTCCCACTAGCATATGGCCGGGTCAACATCT-GCTTATACGCACTCCCACTCGCAC
* * ** *
8080179 ATAGCCGGGTTAGCATTGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCAGCATCGGCTTA
129 ATAGCCGAGTCAGCATCAGCTTATGCGCACTCCCACTCGCACATAGCCAGGTCAGCATCGGCTTA
* * * *
8080244 TGCGCACTCCTACTCACACATAG-CTAGGTCAATATCATTACACATCATTATTTGTATATATATA
194 TGCACACTCATACTCACACATAGCCT-GGTCAATATCATTACACAACATTATTCGTATATATATA
*
8080308 TATATATCAACACAGTATAGGAGCACATAGGTCCATCTTTTTACACATTTCACATTTTCACAACA
258 TATATATCAACACAGTATAGGAGCACATAGGTCCATCCTTTTACACATTTCACATTTTCACAACA
8080373 TCAAAATATTTTATCAAGGGCTTGTTCCCAAGGCACACATTTTTAAGAAAAGTTGGATAAAATCA
323 TCAAAATATTTTATCAAGGGCTTGTTCCCAAGGCACACATTTTTAAGAAAAGTTGGATAAAATCA
*
8080438 ATCAATGTTTTGTGCAAATAGATTCACATTCCCAAAACAGTTTTGAAATGCAAGTTCACTCACCG
388 ATCAATGTTTTGTGCAAATAGATTCACATTCCCAAAACAGTTTTGAAATGCAAGTTCACTCACCA
*
8080503 GTCTTGTTGATTCTTTAATCAATTCTAACTTCGATTATTGCTTCA
453 ATCTTGTTGATTCTTTAATCAATTCTAACTTCGATTATTGCTTCA
8080548 AACGGACATG
Statistics
Matches: 467, Mismatches: 27, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
511 3 0.01
512 456 0.98
514 8 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (512 bp):
CATATATGATATATATATATATATATATATCCATCATCATGCACACCCTCCCATCATCATCAGCT
CATATGCACTCCCACTAGCATATGGCCGGGTCAACATCTGCTTATACGCACTCCCACTCGCACAT
AGCCGAGTCAGCATCAGCTTATGCGCACTCCCACTCGCACATAGCCAGGTCAGCATCGGCTTATG
CACACTCATACTCACACATAGCCTGGTCAATATCATTACACAACATTATTCGTATATATATATAT
ATATCAACACAGTATAGGAGCACATAGGTCCATCCTTTTACACATTTCACATTTTCACAACATCA
AAATATTTTATCAAGGGCTTGTTCCCAAGGCACACATTTTTAAGAAAAGTTGGATAAAATCAATC
AATGTTTTGTGCAAATAGATTCACATTCCCAAAACAGTTTTGAAATGCAAGTTCACTCACCAATC
TTGTTGATTCTTTAATCAATTCTAACTTCGATTATTGCTTCATATGGGCAGGGGAGG
Found at i:8086396 original size:25 final size:25
Alignment explanation
Indices: 8086357--8086420 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
8086347 TTAATTAACG
* *
8086357 TAATTAT-AGGAATTAGGAATCATCG
1 TAATTATAAGG-ATTAGGAATCACCA
* *
8086382 TTATTATAAGGATTATGAATCACCA
1 TAATTATAAGGATTAGGAATCACCA
8086407 TAATTATAAGGATT
1 TAATTATAAGGATT
8086421 TTTTTCTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 30 0.91
26 3 0.09
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.36
Consensus pattern (25 bp):
TAATTATAAGGATTAGGAATCACCA
Found at i:8090401 original size:221 final size:221
Alignment explanation
Indices: 8090018--8090460 Score: 850
Period size: 221 Copynumber: 2.0 Consensus size: 221
8090008 ATATTGCCTA
8090018 GATCATACAAGCTTTGCACCAAAGATCTTTTCTCTATTGTCTTCCAACTCCCCATTGACTTCCAA
1 GATCATACAAGCTTTGCACCAAAGATCTTTTCTCTATTGTCTTCCAACTCCCCATTGACTTCCAA
* *
8090083 CTCAGGGCATCTGCCACCACATTTGCTTTATCAAGATGGTAAAGGATGGTGCGGTCATAGTCTTT
66 CTCAGGGCATCTGCCACCACATTTGCTTTATCAAGATGGTAAAAGATGGTGCAGTCATAGTCTTT
8090148 CAATAACTTTAATCACCTATGCTGTCTCAAATTCAAATCTCTTTGGTGAAATATATACTTTTGAC
131 CAATAACTTTAATCACCTATGCTGTCTCAAATTCAAATCTCTTTGGTGAAATATATACTTTTGAC
8090213 TCTTGTGATTGGTATATATTTTGTAG
196 TCTTGTGATTGGTATATATTTTGTAG
8090239 GATCATACAAGCTTTGCACCAAAGATCTTTTCTCTATTGTCTTCCAACTCCCCATTGACTTCCAA
1 GATCATACAAGCTTTGCACCAAAGATCTTTTCTCTATTGTCTTCCAACTCCCCATTGACTTCCAA
*
8090304 CTCAGGGCATCTGCCACCACATTTGCTTTATCAAGATGGTAAAAGATGGTGTAGTCATAGTCTTT
66 CTCAGGGCATCTGCCACCACATTTGCTTTATCAAGATGGTAAAAGATGGTGCAGTCATAGTCTTT
*
8090369 CAATAACTTTAATCACCTATGCTGTCTCAAATTCAAATCTTTTTGGTGAAATATATACTTTTGAC
131 CAATAACTTTAATCACCTATGCTGTCTCAAATTCAAATCTCTTTGGTGAAATATATACTTTTGAC
8090434 TCTTGTGATTGGTATATATTTTGTAG
196 TCTTGTGATTGGTATATATTTTGTAG
8090460 G
1 G
8090461 TTTCACCATA
Statistics
Matches: 218, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
221 218 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (221 bp):
GATCATACAAGCTTTGCACCAAAGATCTTTTCTCTATTGTCTTCCAACTCCCCATTGACTTCCAA
CTCAGGGCATCTGCCACCACATTTGCTTTATCAAGATGGTAAAAGATGGTGCAGTCATAGTCTTT
CAATAACTTTAATCACCTATGCTGTCTCAAATTCAAATCTCTTTGGTGAAATATATACTTTTGAC
TCTTGTGATTGGTATATATTTTGTAG
Found at i:8096791 original size:43 final size:43
Alignment explanation
Indices: 8096730--8096852 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 43
8096720 TTGACTCGGC
* * *
8096730 TATGTGCGAGTAGAGAGTGCGCATAAGCC-GAG-GATGACCTGGT
1 TATGTGCGAGTAGGGAGTGCGCATAA-CCTG-GTGATGACCCGAT
* *
8096773 TATGTGCGAATAGGGAGTGTGCATAACCTGGTGATGACCCGAT
1 TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCGAT
* * *
8096816 TATGTGCTAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGA
8096853 TGATGATGGG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.04
43 65 0.96
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCGAT
Found at i:8104723 original size:43 final size:43
Alignment explanation
Indices: 8104552--8104726 Score: 217
Period size: 43 Copynumber: 4.1 Consensus size: 43
8104542 GTAATTATGT
* * *
8104552 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCACG-GA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAAGCC-GGTGA
** *
8104595 TGACCCGGTTATGTGCGAGTAAAGAGTGCGCATAAGCCAGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
* *
8104638 TGACCTGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
* ** * *
8104681 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
8104724 TGA
1 TGA
8104727 TGATGATGAG
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 113 0.99
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (43 bp):
TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
Found at i:8104737 original size:20 final size:20
Alignment explanation
Indices: 8104712--8104774 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
8104702 GGGAGTGCGC
8104712 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
8104732 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
8104752 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
8104771 ATGA
1 ATGA
8104775 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:8108108 original size:16 final size:16
Alignment explanation
Indices: 8108074--8108107 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
8108064 GAAAGCAAAA
8108074 TTTAGATTTTGATTAT
1 TTTAGATTTTGATTAT
8108090 TTTAGATTTTGATT-T
1 TTTAGATTTTGATTAT
8108105 TTT
1 TTT
8108108 TTATAGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (16 bp):
TTTAGATTTTGATTAT
Found at i:8108214 original size:44 final size:44
Alignment explanation
Indices: 8108151--8108240 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
8108141 TTCCATTAAA
* *
8108151 TATCTTAAGTAAATGGAAAGTAAAAAGTAAATAAGACACTTACT
1 TATCTTAAGTAAATGGAAAGAAAAAAGTAAAGAAGACACTTACT
*
8108195 TATCTTAAGTAAATGGAAAGAAAAAAGTAAAGAGGACACTTACT
1 TATCTTAAGTAAATGGAAAGAAAAAAGTAAAGAAGACACTTACT
8108239 TA
1 TA
8108241 AATGGTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.26
Consensus pattern (44 bp):
TATCTTAAGTAAATGGAAAGAAAAAAGTAAAGAAGACACTTACT
Found at i:8109705 original size:65 final size:67
Alignment explanation
Indices: 8109383--8109714 Score: 359
Period size: 68 Copynumber: 4.9 Consensus size: 67
8109373 GCATGTTGGT
* * * * * *
8109383 ATGATGAATGCCATAAGATTTTGTATATGATGTGAATTCCATATACCATATGAGATGATCAAGTA
1 ATGAT-AATGCCATGAGAATATGTATATGATGTAAATTCCATATACTATATGAGATGATTAAGTA
8109448 TGC
65 TGC
* * * * * * *
8109451 ATGATGTATACTAT-AGGATGGTGTATATGATGTAAATTCCATATACCATATGAGGTGATTAAGT
1 ATGAT-AATGCCATGAGAAT-ATGTATATGATGTAAATTCCATATACTATATGAGATGATTAAGT
8109515 ATGC
64 ATGC
* * * *
8109519 ATGATTAATGTCATGAGAATATGTCTATGATGTATATTCCATATACTCTATGAGATGATTAAGTA
1 ATGA-TAATGCCATGAGAATATGTATATGATGTAAATTCCATATACTATATGAGATGATTAAGTA
8109584 TGC
65 TGC
* * *
8109587 ATGATTAATGCCATGAGAATATGTATATGATGTATATTCCATATACTACATGAGATGATTGAGCT
1 ATGA-TAATGCCATGAGAATATGTATATGATGTAAATTCCATATACTATATGAGATGATTAAG-T
8109652 A-GC
64 ATGC
* * *
8109655 AT-A-AATGCCATGAGATTATGTATATGATGTAAATTCCATACACCT-TATGAGATGAGTAAG
1 ATGATAATGCCATGAGAATATGTATATGATGTAAATTCCATATA-CTATATGAGATGATTAAG
8109715 CATGTATGTG
Statistics
Matches: 228, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
65 48 0.21
66 2 0.01
67 4 0.02
68 167 0.73
69 7 0.03
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (67 bp):
ATGATAATGCCATGAGAATATGTATATGATGTAAATTCCATATACTATATGAGATGATTAAGTAT
GC
Found at i:8109871 original size:31 final size:31
Alignment explanation
Indices: 8109836--8109934 Score: 144
Period size: 31 Copynumber: 3.2 Consensus size: 31
8109826 ATCATAAAAT
*
8109836 GCCCAAGGTGCAATGGGGATATACATTGCCA
1 GCCCAAAGTGCAATGGGGATATACATTGCCA
*
8109867 GCCCAAAGTGCAATGGGGATATACGTTGCCA
1 GCCCAAAGTGCAATGGGGATATACATTGCCA
* * * *
8109898 GCTCAAAGTGTAATAGGGATGTACATTGCCA
1 GCCCAAAGTGCAATGGGGATATACATTGCCA
8109929 GCCCAA
1 GCCCAA
8109935 GGTTGATGGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.20
Consensus pattern (31 bp):
GCCCAAAGTGCAATGGGGATATACATTGCCA
Found at i:8111787 original size:31 final size:31
Alignment explanation
Indices: 8111746--8111815 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
8111736 ATTCCCAATC
* *
8111746 GTGTTAGAATCTCTACGGCTCCGTTGGCCTT
1 GTGTTCGAATCTCTACGACTCCGTTGGCCTT
*
8111777 GTGTTCGAATCTCTACGACTCTGTTGGCCTT
1 GTGTTCGAATCTCTACGACTCCGTTGGCCTT
8111808 GTGTTCGA
1 GTGTTCGA
8111816 GCTCTTTGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (31 bp):
GTGTTCGAATCTCTACGACTCCGTTGGCCTT
Found at i:8123851 original size:21 final size:19
Alignment explanation
Indices: 8123825--8123863 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
8123815 GGGGGAACGT
8123825 GGGAGCACCGGCCACCCAAAG
1 GGGAGCA-CGGCC-CCCAAAG
8123846 GGGAGCACGGCCCCCAAA
1 GGGAGCACGGCCCCCAAA
8123864 TCGTGCTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.28, C:0.38, G:0.33, T:0.00
Consensus pattern (19 bp):
GGGAGCACGGCCCCCAAAG
Found at i:8134397 original size:31 final size:31
Alignment explanation
Indices: 8134362--8134424 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
8134352 ATAGATGGAG
8134362 AAGAAGGTCATAGAGAAAATAGCATATTGAC
1 AAGAAGGTCATAGAGAAAATAGCATATTGAC
*
8134393 AAGAAGGTCATAGAGGAAATAGCATATTGAC
1 AAGAAGGTCATAGAGAAAATAGCATATTGAC
8134424 A
1 A
8134425 TAACAATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.19
Consensus pattern (31 bp):
AAGAAGGTCATAGAGAAAATAGCATATTGAC
Found at i:8140195 original size:75 final size:75
Alignment explanation
Indices: 8140116--8140284 Score: 284
Period size: 75 Copynumber: 2.3 Consensus size: 75
8140106 GTTGGCGTGG
* * * *
8140116 GCTACATGCCCGAATCATTGTCCAGGTTGGCATTTAAGTGATGTTTTGAGCTCGACTTTAAGGTC
1 GCTACATGCCCGAATCATTATCCAGGTGGGCATCTAAGTGATGTTTGGAGCTCGACTTTAAGGTC
8140181 TTTGGTGCAA
66 TTTGGTGCAA
* *
8140191 GCTACATGCCCGAATCATTATCCAGGTGGGCATCTGAGTGATGTTTGGAGCTCGACTTTACGGTC
1 GCTACATGCCCGAATCATTATCCAGGTGGGCATCTAAGTGATGTTTGGAGCTCGACTTTAAGGTC
8140256 TTTGGTGCAA
66 TTTGGTGCAA
8140266 GCTACATGCCCGAATCATT
1 GCTACATGCCCGAATCATT
8140285 TTAATAGATA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 88 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (75 bp):
GCTACATGCCCGAATCATTATCCAGGTGGGCATCTAAGTGATGTTTGGAGCTCGACTTTAAGGTC
TTTGGTGCAA
Found at i:8147685 original size:2 final size:2
Alignment explanation
Indices: 8147678--8147716 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
8147668 GTCTTAGACA
*
8147678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8147717 CTCTGAATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8148008 original size:15 final size:15
Alignment explanation
Indices: 8147988--8148023 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8147978 TACAATATGG
*
8147988 TTGCAAGTAATGGGA
1 TTGCAAGCAATGGGA
*
8148003 TTGCAAGCAATGTGA
1 TTGCAAGCAATGGGA
8148018 TTGCAA
1 TTGCAA
8148024 AGAAAATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGCAAGCAATGGGA
Found at i:8148925 original size:26 final size:26
Alignment explanation
Indices: 8148896--8148956 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
8148886 ACCATATACC
*
8148896 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATACACACCATCCCAT
8148922 CATCATCATCATACACACCATCCCAT
1 CATCATCATCATACACACCATCCCAT
8148948 CATCATCAT
1 CATCATCAT
8148957 TCCTAGCTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.33, C:0.41, G:0.02, T:0.25
Consensus pattern (26 bp):
CATCATCATCATACACACCATCCCAT
Found at i:8149036 original size:43 final size:43
Alignment explanation
Indices: 8148975--8149080 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
8148965 CATGCACACT
**
8148975 GCACTCCCTACTCGCACAT-GGCTAGGTCATCATCGAG-TTATAC
1 GCACTCCCTACTCGCACATAATC-AGGTCATCATCG-GCTTATAC
* *
8149018 GCACTCCCTACTCGCACATAATCGGGTCATCATCGGCTTATGC
1 GCACTCCCTACTCGCACATAATCAGGTCATCATCGGCTTATAC
8149061 GCACTCCCTACTCGCACATA
1 GCACTCCCTACTCGCACATA
8149081 GCCAAGTCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 55 0.96
44 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.25
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAATCAGGTCATCATCGGCTTATAC
Found at i:8156280 original size:59 final size:58
Alignment explanation
Indices: 8156182--8156345 Score: 217
Period size: 59 Copynumber: 2.8 Consensus size: 58
8156172 TATTATCTTT
* *
8156182 AATTAAGA-CAAAAATATTTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTGTCT-A
1 AATTAAGATCAAAAATATTTT-TCTTGTCTAAATTAAGACAAACATGTTTTCTTGT-TAA
* * *
8156240 GATTAAGATAAAAAATATTTTTCTTGTCTTAAATTAAGACAAACATATTTTCTTGTTAA
1 AATTAAGATCAAAAATATTTTTCTTGTC-TAAATTAAGACAAACATGTTTTCTTGTTAA
* *
8156299 AATTAAGATCAAACAT-GTTTTCTTGTCTAAATTAAGACAAACATGTT
1 AATTAAGATCAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGTT
8156346 AAAGCTGTCA
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
57 19 0.20
58 25 0.27
59 49 0.53
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (58 bp):
AATTAAGATCAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTGTTAA
Found at i:8156293 original size:29 final size:28
Alignment explanation
Indices: 8156182--8156342 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 28
8156172 TATTATCTTT
*
8156182 AATTAAGACAAAAATATTTTATCTTGTCTA
1 AATTAAGACAAACATA-TTT-TCTTGTCTA
* * *
8156212 AATTGAGACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAACATATTTTCTTGTCTA
* * *
8156240 GATTAAGATAAAAAATATTTTTCTTGTCTTA
1 AATTAAGA-CAAACATA-TTTTCTTGTC-TA
8156271 AATTAAGACAAACATATTTTCTTGT-TAA
1 AATTAAGACAAACATATTTTCTTGTCT-A
*
8156299 AATTAAGATCAAACATGTTTTCTTGTCTA
1 AATTAAGA-CAAACATATTTTCTTGTCTA
8156328 AATTAAGACAAACAT
1 AATTAAGACAAACAT
8156343 GTTAAAGCTG
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
27 1 0.01
28 31 0.27
29 42 0.37
30 30 0.27
31 9 0.08
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (28 bp):
AATTAAGACAAACATATTTTCTTGTCTA
Found at i:8157053 original size:22 final size:23
Alignment explanation
Indices: 8157025--8157067 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
8157015 AACTTAAATT
8157025 AGGATTTCGGTTCTA-TATAATC
1 AGGATTTCGGTTCTACTATAATC
8157047 AGGATTTCGGTTCTACTATAA
1 AGGATTTCGGTTCTACTATAA
8157068 GCAAATACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (23 bp):
AGGATTTCGGTTCTACTATAATC
Found at i:8159103 original size:29 final size:29
Alignment explanation
Indices: 8159062--8159118 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
8159052 AAATATTTAT
* *
8159062 AATATTCACAGTAGTTAAACAAGATATAC
1 AATATCCACAGTAGCTAAACAAGATATAC
* *
8159091 AATATCCATAGTAGCTAAGCAAGATATA
1 AATATCCACAGTAGCTAAACAAGATATA
8159119 TTGAATATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (29 bp):
AATATCCACAGTAGCTAAACAAGATATAC
Found at i:8161481 original size:21 final size:21
Alignment explanation
Indices: 8161455--8161501 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
8161445 TTATTCATCA
*
8161455 TAACTCCCTCCCTTTTGTACT
1 TAACTCCCTCCCCTTTGTACT
8161476 TAACTCCCTCCCCTTTGTACT
1 TAACTCCCTCCCCTTTGTACT
8161497 TAACT
1 TAACT
8161502 TTTCGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.38, G:0.04, T:0.40
Consensus pattern (21 bp):
TAACTCCCTCCCCTTTGTACT
Found at i:8164705 original size:67 final size:69
Alignment explanation
Indices: 8164580--8164747 Score: 182
Period size: 67 Copynumber: 2.4 Consensus size: 69
8164570 ACCAAGCTTT
* * * *
8164580 ACAATGGCTTTTACCAA-GCTTAGCCAAAACCTTTCACAATAGTTTTTACCGGGATCAACTAAAA
1 ACAATGG-TTTTTCAAAGGCTTAACCAAAACCTTTCACAATAGTTTTTACCGGGATCAACCAAAA
8164644 CC-CA
65 CCACA
* * * *
8164648 A-AGTGGTTTTTCAAAGGCTTAACCACAACCTTTCACAATGGTTTTT-CACGGGCTCAACCAAAA
1 ACAATGGTTTTTCAAAGGCTTAACCAAAACCTTTCACAATAGTTTTTAC-CGGGATCAACCAAAA
8164711 CCTACA
65 CC-ACA
* * *
8164717 ACAATGGTTTTTCAAGGGATCAACCAAAACC
1 ACAATGGTTTTTCAAAGGCTTAACCAAAACC
8164748 CAACAATTAT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
66 8 0.10
67 46 0.56
68 1 0.01
69 3 0.04
70 24 0.29
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (69 bp):
ACAATGGTTTTTCAAAGGCTTAACCAAAACCTTTCACAATAGTTTTTACCGGGATCAACCAAAAC
CACA
Found at i:8164707 original size:35 final size:35
Alignment explanation
Indices: 8164651--8164754 Score: 124
Period size: 35 Copynumber: 3.0 Consensus size: 35
8164641 AAACCCAAAG
* * * *
8164651 TGGTTTTTCAAAGGCTTAACCACAACCTTTC-ACAA
1 TGGTTTTTCAAGGGCTCAACCAAAACC-TACAACAA
*
8164686 TGGTTTTTCACGGGCTCAACCAAAACCTACAACAA
1 TGGTTTTTCAAGGGCTCAACCAAAACCTACAACAA
*
8164721 TGGTTTTTCAAGGGATCAACCAAAACC--CAACAA
1 TGGTTTTTCAAGGGCTCAACCAAAACCTACAACAA
8164754 T
1 T
8164755 TATGTAACAC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
33 7 0.11
34 2 0.03
35 52 0.85
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (35 bp):
TGGTTTTTCAAGGGCTCAACCAAAACCTACAACAA
Found at i:8164887 original size:18 final size:19
Alignment explanation
Indices: 8164862--8164904 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
8164852 AGGTGAGAAG
8164862 AATATTTTA-GAATAAAAT
1 AATATTTTATGAATAAAAT
*
8164880 ATTATTTTATGAATAAAAT
1 AATATTTTATGAATAAAAT
8164899 AATATT
1 AATATT
8164905 AAAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
AATATTTTATGAATAAAAT
Found at i:8165285 original size:16 final size:15
Alignment explanation
Indices: 8165264--8165296 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
8165254 TTTGAGGAAG
8165264 TAAAATAAATAATTAA
1 TAAAATAAATAA-TAA
8165280 TAAAATAAATAATAA
1 TAAAATAAATAATAA
8165295 TA
1 TA
8165297 TTAGTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAATAAATAATAA
Found at i:8165480 original size:15 final size:15
Alignment explanation
Indices: 8165460--8165539 Score: 74
Period size: 15 Copynumber: 5.2 Consensus size: 15
8165450 AGTGTTGGCC
8165460 AAAGAAAGAAGAAGA
1 AAAGAAAGAAGAAGA
8165475 AAAGAAAGAAGAAGA
1 AAAGAAAGAAGAAGA
* *
8165490 AGAGAGAAGAA-AAAA
1 AAAGA-AAGAAGAAGA
8165505 AAAG-AAGAAAGAAAGA
1 AAAGAAAG-AAG-AAGA
* *
8165521 AAAAAAAAAGAGAAGA
1 AAAGAAAGA-AGAAGA
8165537 AAA
1 AAA
8165540 AGAGGGTGAC
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
13 3 0.06
14 2 0.04
15 25 0.47
16 19 0.36
17 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAGAAGA
Found at i:8165533 original size:37 final size:38
Alignment explanation
Indices: 8165468--8165540 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
8165458 CCAAAGAAAG
* * *
8165468 AAGAAGAAAAGAAAGAAGAAGAAGAGAGAAGAAAAAAA
1 AAGAAGAAAAGAAAGAAAAAAAAAAGAGAAGAAAAAAA
8165506 AAGAAG-AAAGAAAGAAAAAAAAAAGAGAAGAAAAA
1 AAGAAGAAAAGAAAGAAAAAAAAAAGAGAAGAAAAA
8165541 GAGGGTGACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 26 0.81
38 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (38 bp):
AAGAAGAAAAGAAAGAAAAAAAAAAGAGAAGAAAAAAA
Found at i:8165537 original size:3 final size:3
Alignment explanation
Indices: 8165465--8165513 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
8165455 TGGCCAAAGA
*
8165465 AAG AAG AAG AA- AAG AAAG AAG AAG AAG AGAG AAG AA- AA- AAA AAG
1 AAG AAG AAG AAG AAG -AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG
8165509 AAG AA
1 AAG AA
8165514 AGAAAGAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
2 6 0.15
3 29 0.71
4 6 0.15
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8165713 original size:15 final size:14
Alignment explanation
Indices: 8165682--8165727 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
8165672 GCGGGAGGAG
*
8165682 AAGG-GAAATAAGA
1 AAGGAGAAAGAAGA
8165695 AAGGA-AAAGGAAGGA
1 AAGGAGAAA-GAA-GA
8165710 AAGGAGAAAGAAGA
1 AAGGAGAAAGAAGA
8165724 AAGG
1 AAGG
8165728 CTGGTGAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 7 0.25
14 8 0.29
15 10 0.36
16 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (14 bp):
AAGGAGAAAGAAGA
Found at i:8165747 original size:27 final size:27
Alignment explanation
Indices: 8165713--8165781 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
8165703 GGAAGGAAAG
8165713 GAGAAAGAAGAAAGGCTGGTGAGAGGA
1 GAGAAAGAAGAAAGGCTGGTGAGAGGA
8165740 GAGAAAGAAGAAAGGCTGGTGAGAGGA
1 GAGAAAGAAGAAAGGCTGGTGAGAGGA
8165767 GAGAAAGAAGAAAGG
1 GAGAAAGAAGAAAGG
8165782 AAAGGAAAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.48, C:0.03, G:0.43, T:0.06
Consensus pattern (27 bp):
GAGAAAGAAGAAAGGCTGGTGAGAGGA
Found at i:8165908 original size:25 final size:25
Alignment explanation
Indices: 8165848--8165895 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
8165838 AAAAAAAAAA
* *
8165848 AAAAGAGTGAGCATGGCCTAATAAG
1 AAAAGAATGGGCATGGCCTAATAAG
8165873 AAAAGAATGGGCATGGCCTAATA
1 AAAAGAATGGGCATGGCCTAATA
8165896 GGAAGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.27, T:0.17
Consensus pattern (25 bp):
AAAAGAATGGGCATGGCCTAATAAG
Found at i:8171359 original size:12 final size:12
Alignment explanation
Indices: 8171342--8171368 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8171332 GTTAACATTT
8171342 AAATACATATTC
1 AAATACATATTC
8171354 AAATACATATTC
1 AAATACATATTC
8171366 AAA
1 AAA
8171369 ATAAATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATACATATTC
Found at i:8175815 original size:35 final size:33
Alignment explanation
Indices: 8175754--8175899 Score: 124
Period size: 35 Copynumber: 4.4 Consensus size: 33
8175744 TTTACCGGGA
*
8175754 TCAACTAAAACC-CA-AAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCACAA-TGGTTTTTCAAAGGC
* *
8175786 TCAACCACAACCTTTCACAATAGG-TTTTC-ACGAGC
1 TCAACCAAAACC--TCACAAT-GGTTTTTCAAAG-GC
8175821 TCAACCAAAACC-CA-AAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCACAA-TGGTTTTTCAAAGGC
* * *
8175853 TCAACCACAACCTACAACAATGGTTTTTCAAAAGA
1 TCAACCAAAACCT-C-ACAATGGTTTTTCAAAGGC
8175888 TCAACCAAAACC
1 TCAACCAAAACC
8175900 CAACACCTAA
Statistics
Matches: 92, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
31 4 0.04
32 31 0.34
33 2 0.02
34 3 0.03
35 46 0.50
36 6 0.07
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (33 bp):
TCAACCAAAACCTCACAATGGTTTTTCAAAGGC
Found at i:8175825 original size:67 final size:67
Alignment explanation
Indices: 8175727--8175902 Score: 223
Period size: 67 Copynumber: 2.6 Consensus size: 67
8175717 GCTTAGCCAA
* * * *
8175727 AACCTTTCATAATAGTTTTTACCGGGATCAACTAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATAGTTTTCACCGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
8175792 AC
66 AC
*
8175794 AACCTTTCACAATAGGTTTTCA-CGAGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATA-GTTTTCACCGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
8175858 CAC
65 CAC
* * **
8175861 AACC-TACAACAATGGTTTTTCA-AAAGATCAACCAAAACCCAA
1 AACCTTTC-ACAATAG-TTTTCACCGAGATCAACCAAAACCCAA
8175903 CACCTAAATT
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
66 3 0.03
67 87 0.91
68 6 0.06
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (67 bp):
AACCTTTCACAATAGTTTTCACCGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
AC
Found at i:8179982 original size:19 final size:19
Alignment explanation
Indices: 8179874--8179963 Score: 180
Period size: 19 Copynumber: 4.7 Consensus size: 19
8179864 AAAATTTTGA
8179874 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
8179893 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
8179912 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
8179931 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
8179950 AATAAAATAATATT
1 AATAAAATAATATT
8179964 AAAATATTAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 71 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAAAATAATATTTTATT
Found at i:8180405 original size:19 final size:19
Alignment explanation
Indices: 8180378--8180420 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8180368 TCTTCTTCTC
* *
8180378 TTTCGTGCTCTCACGCCAT
1 TTTCATGCTCCCACGCCAT
*
8180397 TTTCATGCTCCCATGCCAT
1 TTTCATGCTCCCACGCCAT
8180416 TTTCA
1 TTTCA
8180421 CCTTACCACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.35, G:0.12, T:0.40
Consensus pattern (19 bp):
TTTCATGCTCCCACGCCAT
Found at i:8182307 original size:2 final size:2
Alignment explanation
Indices: 8182300--8182337 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8182290 TTGGAAACAT
8182300 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8182338 CTTGGTTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8186322 original size:60 final size:60
Alignment explanation
Indices: 8186227--8186363 Score: 148
Period size: 60 Copynumber: 2.3 Consensus size: 60
8186217 GATAGGAGAC
* * * * * * *
8186227 AAAACAGAAAGTTTTTCGCTACAGCTAGAGTCAATCTTACTGCAGCGAAATTGTAACCTA
1 AAAACAGAAAGTTTCTCACTACAGCGAGAGTCAATCTCACTGCAGCAAAATTGCAACCCA
* * * * * * *
8186287 GAAACAGAAAGTTTCTCATTATAGCGAGATTCAATCTCGCTGTAGTAAAATTGCAACCCA
1 AAAACAGAAAGTTTCTCACTACAGCGAGAGTCAATCTCACTGCAGCAAAATTGCAACCCA
8186347 AAAACAGAAAGTTTCTC
1 AAAACAGAAAGTTTCTC
8186364 GTTGCAGTGA
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (60 bp):
AAAACAGAAAGTTTCTCACTACAGCGAGAGTCAATCTCACTGCAGCAAAATTGCAACCCA
Done.