Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 23 of 189
Found at i:7331121 original size:18 final size:18
Alignment explanation
Indices: 7331088--7331140 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
7331078 ATTCACCTAA
*
7331088 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
7331107 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
7331125 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
7331141 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:7331252 original size:9 final size:9
Alignment explanation
Indices: 7331238--7331313 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
7331228 GTAGTGATTC
7331238 AATTCGGTT
1 AATTCGGTT
*
7331247 AATTCGGGT
1 AATTCGGTT
7331256 AATTCAGG-T
1 AATTC-GGTT
**
7331265 AATTCAATT
1 AATTCGGTT
*
7331274 AATTCGGGT
1 AATTCGGTT
*
7331283 AATTCAGTT
1 AATTCGGTT
*
7331292 AATTCAGTT
1 AATTCGGTT
7331301 AATTCGGTT
1 AATTCGGTT
7331310 AATT
1 AATT
7331314 TTTAACCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
9 54 0.96
10 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:7331275 original size:27 final size:27
Alignment explanation
Indices: 7331245--7331313 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
7331235 TTCAATTCGG
7331245 TTAATTCGGGTAATTCAGGTAATTCAA
1 TTAATTCGGGTAATTCAGGTAATTCAA
* *
7331272 TTAATTCGGGTAATTCAGTTAATTCAG
1 TTAATTCGGGTAATTCAGGTAATTCAA
*
7331299 TTAATTCGGTTAATT
1 TTAATTCGGGTAATT
7331314 TTTAACCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (27 bp):
TTAATTCGGGTAATTCAGGTAATTCAA
Found at i:7338030 original size:31 final size:29
Alignment explanation
Indices: 7337987--7338048 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
7337977 TTTTATAAAT
* * *
7337987 AATTAATATTTATTTCTTAAAAATATTTAC
1 AATTAATATTTATATATT-AAAATATTAAC
*
7338017 AATTTATATTTTATATATTAAAATATTAAC
1 AATTAATA-TTTATATATTAAAATATTAAC
7338047 AA
1 AA
7338049 CAAGTTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (29 bp):
AATTAATATTTATATATTAAAATATTAAC
Found at i:7338189 original size:13 final size:13
Alignment explanation
Indices: 7338173--7338212 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
7338163 TTTAAACCAA
7338173 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
7338186 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
7338199 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
7338212 A
1 A
7338213 ATGAAGAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:7338620 original size:26 final size:25
Alignment explanation
Indices: 7338571--7338642 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
7338561 GCGTTGCATG
** *
7338571 TAATTTTAAGTATTTAATTTTTAAT
1 TAATTTTAAAAATTTAAATTTTAAT
7338596 TAATTTTAAAAATATTAAATTTTAAT
1 TAATTTTAAAAAT-TTAAATTTTAAT
* *
7338622 TAATTTATTAAAATTTTAATT
1 TAATTT-TAAAAATTTAAATT
7338643 CATTATTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 11 0.28
26 23 0.57
27 6 0.15
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (25 bp):
TAATTTTAAAAATTTAAATTTTAAT
Found at i:7338624 original size:20 final size:20
Alignment explanation
Indices: 7338604--7338642 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7338594 ATTAATTTTA
7338604 AAAATATT-AAATTTTAATT
1 AAAATATTAAAATTTTAATT
**
7338623 AATTTATTAAAATTTTAATT
1 AAAATATTAAAATTTTAATT
7338643 CATTATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAATATTAAAATTTTAATT
Found at i:7345523 original size:2 final size:2
Alignment explanation
Indices: 7345516--7345550 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7345506 TAAGGTACCT
7345516 TA TA TA TA 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 TA TA TA TA T
7345551 TTGTTTCTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7346453 original size:8 final size:8
Alignment explanation
Indices: 7346435--7346475 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
7346425 ATTAATTATT
7346435 TTTTAAAAA
1 TTTT-AAAA
7346444 TTTTAAAA
1 TTTTAAAA
*
7346452 TTATAAAA
1 TTTTAAAA
7346460 TTTTAAAA
1 TTTTAAAA
*
7346468 ATTTAAAA
1 TTTTAAAA
7346476 GAATATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
8 25 0.86
9 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
TTTTAAAA
Found at i:7347368 original size:16 final size:16
Alignment explanation
Indices: 7347347--7347377 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7347337 GAATGAAAGA
*
7347347 GGAAAAAAAATAGAAT
1 GGAAAAAAAAAAGAAT
7347363 GGAAAAAAAAAAGAA
1 GGAAAAAAAAAAGAA
7347378 AAAGAAAGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
GGAAAAAAAAAAGAAT
Found at i:7351658 original size:46 final size:46
Alignment explanation
Indices: 7351474--7351651 Score: 205
Period size: 46 Copynumber: 3.9 Consensus size: 46
7351464 CAGGGCTTAA
* *
7351474 TATTCCTGTATTCTCAAGCCCACAACATATGCAGGAGCTCAAAATC
1 TATTCCTGTATTCTCAAGTCCACAACATATGCAGGAGCTCAAAACC
** * ** *
7351520 TAAACTTGTATTCTCAAGTCTGCAACATATGCAGAAGCTCAAAACC
1 TATTCCTGTATTCTCAAGTCCACAACATATGCAGGAGCTCAAAACC
** *
7351566 TATTCCTGTATTCTCGAA-TCCACAACATATATAGGAGCTCGAAACC
1 TATTCCTGTATTCTC-AAGTCCACAACATATGCAGGAGCTCAAAACC
* * * *
7351612 TATTCATGTATTCTCGAGTCCGCAACATATGTAGGAGCTC
1 TATTCCTGTATTCTCAAGTCCACAACATATGCAGGAGCTC
7351652 GGAACCTGGG
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
45 1 0.01
46 106 0.97
47 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (46 bp):
TATTCCTGTATTCTCAAGTCCACAACATATGCAGGAGCTCAAAACC
Found at i:7351658 original size:92 final size:92
Alignment explanation
Indices: 7351474--7351651 Score: 232
Period size: 92 Copynumber: 1.9 Consensus size: 92
7351464 CAGGGCTTAA
* * *
7351474 TATTCCTGTATTCTCAAGCCCACAACATATGCAGGAGCTCAAAATCTAAACTTGTATTCTCAAGT
1 TATTCCTGTATTCTCAAGCCCACAACATATACAGGAGCTCAAAACCTAAACATGTATTCTCAAGT
*
7351539 CTGCAACATATGCAGAAGCTCAAAACC
66 CCGCAACATATGCAGAAGCTCAAAACC
* * * ** *
7351566 TATTCCTGTATTCTCGAA-TCCACAACATATATAGGAGCTCGAAACCTATTCATGTATTCTCGAG
1 TATTCCTGTATTCTC-AAGCCCACAACATATACAGGAGCTCAAAACCTAAACATGTATTCTCAAG
* *
7351630 TCCGCAACATATGTAGGAGCTC
65 TCCGCAACATATGCAGAAGCTC
7351652 GGAACCTGGG
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 71 0.97
93 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (92 bp):
TATTCCTGTATTCTCAAGCCCACAACATATACAGGAGCTCAAAACCTAAACATGTATTCTCAAGT
CCGCAACATATGCAGAAGCTCAAAACC
Found at i:7352067 original size:18 final size:20
Alignment explanation
Indices: 7352027--7352068 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
7352017 TTTTTATTTT
*
7352027 ATTTTATACAATTTTCTTAA
1 ATTTTATACAATTTTATTAA
*
7352047 ATTTT-TAC-ATTTTATTCA
1 ATTTTATACAATTTTATTAA
7352065 ATTT
1 ATTT
7352069 AGCCTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 3 0.15
20 5 0.25
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTATACAATTTTATTAA
Found at i:7356023 original size:18 final size:19
Alignment explanation
Indices: 7355990--7356025 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7355980 CTCGTATCAA
*
7355990 AAAAATCAAGAGAAGTATG
1 AAAAATCAACAGAAGTATG
7356009 AAAAATCAACA-AAGTAT
1 AAAAATCAACAGAAGTAT
7356026 CTAATAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.17
Consensus pattern (19 bp):
AAAAATCAACAGAAGTATG
Found at i:7357400 original size:2 final size:2
Alignment explanation
Indices: 7357393--7357425 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7357383 ATATCGTAGA
7357393 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 A
7357426 AAAGACTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7375087 original size:25 final size:25
Alignment explanation
Indices: 7375059--7375114 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
7375049 CATCGGATTT
7375059 CTTCAGAGTAAAAGAAATGGGAAGA
1 CTTCAGAGTAAAAGAAATGGGAAGA
*
7375084 CTTCAGTGTAAAAGAAATGGGAAGA
1 CTTCAGAGTAAAAGAAATGGGAAGA
7375109 CTTCAG
1 CTTCAG
7375115 CGTTCGGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.20
Consensus pattern (25 bp):
CTTCAGAGTAAAAGAAATGGGAAGA
Found at i:7377105 original size:29 final size:32
Alignment explanation
Indices: 7377073--7377132 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
7377063 TTTTTGCTTC
7377073 TTTCTTCAATCTAG-CCC-AATTGT-TTCCTT
1 TTTCTTCAATCTAGCCCCAAATTGTATTCCTT
* *
7377102 TTTCTTCTATTTAGCCCCAAATTGTATTCCT
1 TTTCTTCAATCTAGCCCCAAATTGTATTCCT
7377133 GCACAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 12 0.46
30 3 0.12
31 6 0.23
32 5 0.19
ACGTcount: A:0.18, C:0.27, G:0.07, T:0.48
Consensus pattern (32 bp):
TTTCTTCAATCTAGCCCCAAATTGTATTCCTT
Found at i:7378198 original size:13 final size:13
Alignment explanation
Indices: 7378180--7378204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7378170 CCTACAAAAA
7378180 TAAAATTAAATAT
1 TAAAATTAAATAT
7378193 TAAAATTAAATA
1 TAAAATTAAATA
7378205 ATAATAATAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAATTAAATAT
Found at i:7393927 original size:20 final size:21
Alignment explanation
Indices: 7393872--7393928 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
7393862 TAAAATAAAT
* *
7393872 AAATAATACATTAAATTAAAAA
1 AAATAACACA-TAATTTAAAAA
* * *
7393894 AAATAACTCTTAATTTAAAGA
1 AAATAACACATAATTTAAAAA
7393915 AAATAA-ACATAATT
1 AAATAACACATAATT
7393929 ATCTAACAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 6 0.21
21 15 0.54
22 7 0.25
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATAACACATAATTTAAAAA
Found at i:7394070 original size:17 final size:17
Alignment explanation
Indices: 7394016--7394071 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
7394006 TTAAGTAATT
* *
7394016 AATATTATGATATATAG
1 AATATTATGATATACAA
* * *
7394033 AATA-TATGAAATTCATT
1 AATATTATGATATACA-A
7394050 AATATTATGATATACAA
1 AATATTATGATATACAA
7394067 AATAT
1 AATAT
7394072 AAAATTTATA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 8 0.27
17 13 0.43
18 9 0.30
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (17 bp):
AATATTATGATATACAA
Found at i:7394077 original size:32 final size:34
Alignment explanation
Indices: 7394013--7394077 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
7394003 CCATTAAGTA
* *
7394013 ATTAATATTATGATATATAGAATATATGAAATTC
1 ATTAATATTATGATATACAGAATATATAAAATTC
7394047 ATTAATATTATGATATACA-AA-ATATAAAATT
1 ATTAATATTATGATATACAGAATATATAAAATT
7394078 TATAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.31
33 2 0.07
34 18 0.62
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (34 bp):
ATTAATATTATGATATACAGAATATATAAAATTC
Found at i:7394368 original size:31 final size:31
Alignment explanation
Indices: 7394332--7394393 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
7394322 GCACTTTTAT
** *
7394332 TTGATCAATTTTAGTCTATATACTTTTCAAA
1 TTGATCAATTTTAACCCATATACTTTTCAAA
*
7394363 TTGATCAATTTTAACCCCTATACTTTTCAAA
1 TTGATCAATTTTAACCCATATACTTTTCAAA
7394394 CAAATTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (31 bp):
TTGATCAATTTTAACCCATATACTTTTCAAA
Found at i:7397430 original size:44 final size:44
Alignment explanation
Indices: 7397365--7397455 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
7397355 TCAGTATAGT
*
7397365 TTCATCAAGATGTTGAGTAAAAGAATAAGATAAAAGATTCAAAC
1 TTCATCAAGATGTTGAGTAAAAGAACAAGATAAAAGATTCAAAC
* * * * * *
7397409 TTCATTAAGATGTTGATTAAAATAACCAGATACAAGATTCAAGC
1 TTCATCAAGATGTTGAGTAAAAGAACAAGATAAAAGATTCAAAC
7397453 TTC
1 TTC
7397456 TAGTTGCAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (44 bp):
TTCATCAAGATGTTGAGTAAAAGAACAAGATAAAAGATTCAAAC
Found at i:7397870 original size:102 final size:102
Alignment explanation
Indices: 7397694--7397890 Score: 367
Period size: 102 Copynumber: 1.9 Consensus size: 102
7397684 TTTCATGAAG
7397694 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
1 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
7397759 ATGCAGTATTTTCAGTAACTATTTCATTCTCCTCAAC
66 ATGCAGTATTTTCAGTAACTATTTCATTCTCCTCAAC
* *
7397796 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTTCCCATGCTCAA
1 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
*
7397861 ATGCAGTATTTTCAGTACCTATTTCATTCT
66 ATGCAGTATTTTCAGTAACTATTTCATTCT
7397891 TATCATCTTC
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (102 bp):
AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
ATGCAGTATTTTCAGTAACTATTTCATTCTCCTCAAC
Found at i:7398520 original size:31 final size:31
Alignment explanation
Indices: 7398473--7398533 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
7398463 TAACAACTTA
7398473 GTAACTTAAATAAAAACTTTTAAATAGTTCG
1 GTAACTTAAATAAAAACTTTTAAATAGTTCG
* * *
7398504 GTAAGTTAAATGAAAACTTTTGAATAGTTC
1 GTAACTTAAATAAAAACTTTTAAATAGTTC
7398534 AATGATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (31 bp):
GTAACTTAAATAAAAACTTTTAAATAGTTCG
Found at i:7401124 original size:21 final size:21
Alignment explanation
Indices: 7401056--7401124 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
7401046 CAAGGCTATT
* *
7401056 AAAATAACATTAATTATATTTTA
1 AAAATAAAATT-ATTATA-TATA
** * *
7401079 AAAATAAAATGTCCTA-AAATT
1 AAAATAAAAT-TATTATATATA
7401100 AAAATAAAATTATTATATATA
1 AAAATAAAATTATTATATATA
7401121 AAAA
1 AAAA
7401125 AACTTAAACT
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.53
22 1 0.03
23 11 0.32
24 1 0.03
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (21 bp):
AAAATAAAATTATTATATATA
Found at i:7407133 original size:314 final size:314
Alignment explanation
Indices: 7406564--7407198 Score: 1252
Period size: 314 Copynumber: 2.0 Consensus size: 314
7406554 TTATTATGTT
7406564 CCCATAAGCCTGGAAAAGTTCCTGATTCTTCACTAAACAAGGCAGCACAAAATAAAAGTTACCAT
1 CCCATAAGCCTGGAAAAGTTCCTGATTCTTCACTAAACAAGGCAGCACAAAATAAAAGTTACCAT
7406629 TGTGCATATATAGAACTGATTTTTTTCGTCTATCTCTACCTTAAGCAAATTGATTTCAATAATAC
66 TGTGCATATATAGAACTGATTTTTTTCGTCTATCTCTACCTTAAGCAAATTGATTTCAATAATAC
7406694 ATTAGAAATTAAAAAAGAAACAAGCTAAAATAGTTGTCTAGTTTGTTCAGAATTTAGATAAAAAA
131 ATTAGAAATTAAAAAAGAAACAAGCTAAAATAGTTGTCTAGTTTGTTCAGAATTTAGATAAAAAA
*
7406759 GGATTTCAAAACTTAGTTATTTACCAGTTTAATTGAATCTCTTTATAAATATTTTTGTTCATCAT
196 GGATTTCAAAACTTAGTTATTTACCAGTTTAATTGAATCTCTTTATAAACATTTTTGTTCATCAT
7406824 ATTGCAGTAATAGTGGAGGTGTAAAATGAAAAACACTTTCCAAACCTAAACAGA
261 ATTGCAGTAATAGTGGAGGTGTAAAATGAAAAACACTTTCCAAACCTAAACAGA
7406878 CCCATAAGCCTGGAAAAGTTCCTGATTCTTCACTAAACAAGGCAGCACAAAATAAAAGTTACCAT
1 CCCATAAGCCTGGAAAAGTTCCTGATTCTTCACTAAACAAGGCAGCACAAAATAAAAGTTACCAT
7406943 TGTGCATATATAGAACTGATTTTTTTCGTCTATCTCTACCTTAAGCAAATTGATTTCAATAATAC
66 TGTGCATATATAGAACTGATTTTTTTCGTCTATCTCTACCTTAAGCAAATTGATTTCAATAATAC
*
7407008 ATTAGAAATTAAAAAAGAAACAAGCTAAAATCGTTGTCTAGTTTGTTCAGAATTTAGATAAAAAA
131 ATTAGAAATTAAAAAAGAAACAAGCTAAAATAGTTGTCTAGTTTGTTCAGAATTTAGATAAAAAA
7407073 GGATTTCAAAACTTAGTTATTTACCAGTTTAATTGAATCTCTTTATAAACATTTTTGTTCATCAT
196 GGATTTCAAAACTTAGTTATTTACCAGTTTAATTGAATCTCTTTATAAACATTTTTGTTCATCAT
7407138 ATTGCAGTAATAGTGGAGGTGTAAAATGAAAAACACTTTCCAAACCTAAACAGA
261 ATTGCAGTAATAGTGGAGGTGTAAAATGAAAAACACTTTCCAAACCTAAACAGA
7407192 CCCATAA
1 CCCATAA
7407199 ACTTATCCTC
Statistics
Matches: 319, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
314 319 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (314 bp):
CCCATAAGCCTGGAAAAGTTCCTGATTCTTCACTAAACAAGGCAGCACAAAATAAAAGTTACCAT
TGTGCATATATAGAACTGATTTTTTTCGTCTATCTCTACCTTAAGCAAATTGATTTCAATAATAC
ATTAGAAATTAAAAAAGAAACAAGCTAAAATAGTTGTCTAGTTTGTTCAGAATTTAGATAAAAAA
GGATTTCAAAACTTAGTTATTTACCAGTTTAATTGAATCTCTTTATAAACATTTTTGTTCATCAT
ATTGCAGTAATAGTGGAGGTGTAAAATGAAAAACACTTTCCAAACCTAAACAGA
Found at i:7411424 original size:14 final size:15
Alignment explanation
Indices: 7411402--7411478 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
7411392 CAATTAAATA
7411402 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
7411416 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
7411431 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
7411451 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
7411465 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
7411479 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:7411443 original size:20 final size:20
Alignment explanation
Indices: 7411418--7411457 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7411408 AATATTTTCC
*
7411418 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
7411438 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
7411458 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:7411463 original size:34 final size:35
Alignment explanation
Indices: 7411406--7411472 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
7411396 TAAATACCAG
*
7411406 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
7411441 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
7411473 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:7414608 original size:9 final size:9
Alignment explanation
Indices: 7414591--7414627 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7414581 TGAGTTTTCG
7414591 AATTCGAAT
1 AATTCGAAT
*
7414600 AACTCGAAT
1 AATTCGAAT
7414609 AATTCGAAT
1 AATTCGAAT
7414618 AATTCGAAT
1 AATTCGAAT
7414627 A
1 A
7414628 TCAAAGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7414876 original size:30 final size:31
Alignment explanation
Indices: 7414842--7414901 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
7414832 AAACCTTTTA
*
7414842 TTTT-CCCTCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCT-AAAACTTTTACTCCCTTCCCAC
*
7414872 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
7414902 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:7417206 original size:10 final size:11
Alignment explanation
Indices: 7417191--7417222 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
7417181 CTCCTCTTCC
7417191 CTTTTTCTTTT
1 CTTTTTCTTTT
7417202 CTTTTTCTTTT
1 CTTTTTCTTTT
7417213 -TTTTTCTTTT
1 CTTTTTCTTTT
7417223 GTTAGCCTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:7417776 original size:77 final size:75
Alignment explanation
Indices: 7417650--7417791 Score: 205
Period size: 77 Copynumber: 1.9 Consensus size: 75
7417640 GAATTGATCG
* * *
7417650 AAAAATCAACAAAAAAATAAAAACTATCAGAATATCAATTGACTACACAAACTCAGAACAAAAAA
1 AAAAATCAACAAAAAAATAAAAAATATCAGAATACCAATTGACCACACAAACTCAGAACAAAAAA
7417715 TAGAAACTCT
66 TAGAAACTCT
* *
7417725 AAAAATCAAC-AAAAAATAGAAACTAATATCAGAATACCAATTGGCCACACAATCTCAGAACAAA
1 AAAAATCAACAAAAAAATA-AAA--AATATCAGAATACCAATTGACCACACAAACTCAGAACAAA
7417789 AAA
63 AAA
7417792 AAAATCTTGC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
74 8 0.14
75 13 0.22
77 38 0.64
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.16
Consensus pattern (75 bp):
AAAAATCAACAAAAAAATAAAAAATATCAGAATACCAATTGACCACACAAACTCAGAACAAAAAA
TAGAAACTCT
Found at i:7418398 original size:12 final size:12
Alignment explanation
Indices: 7418381--7418408 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7418371 AGAATGAGGG
7418381 AAAATAAAAACA
1 AAAATAAAAACA
7418393 AAAATAAAAACA
1 AAAATAAAAACA
7418405 AAAA
1 AAAA
7418409 GAAGGCCAAA
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:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAATAAAAACA
Found at i:7419997 original size:15 final size:16
Alignment explanation
Indices: 7419973--7420008 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
7419963 TATGTTAGCG
7419973 AATA-AAATAAAT-TA
1 AATATAAATAAATATA
7419987 AATATAAATAAATATA
1 AATATAAATAAATATA
7420003 AA-ATAA
1 AATATAA
7420009 TTTATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 12 0.60
16 4 0.20
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATAAATAAATATA
Found at i:7420771 original size:260 final size:260
Alignment explanation
Indices: 7420310--7420829 Score: 1031
Period size: 260 Copynumber: 2.0 Consensus size: 260
7420300 TTTGAAATGA
*
7420310 AAAGAATTTCGATATAAGAAATTATTTGAATGTAGGTTTAATCCTACAGAATACACAACCTTTTA
1 AAAGAATTTCGATATAAGAAATTATTTGAATGTAGGTTTAATCCTACAAAATACACAACCTTTTA
7420375 TAGGCATTTAGGATAGTCGAAAATTTGAAAATAACAATAAAATCTGCCATTAAGGAGCCAAAAAT
66 TAGGCATTTAGGATAGTCGAAAATTTGAAAATAACAATAAAATCTGCCATTAAGGAGCCAAAAAT
7420440 TCAAATTGATTTAAAAATCGAATCAAATCTGATATTGTCCATATATAAGCAGATAAATTCGTGTT
131 TCAAATTGATTTAAAAATCGAATCAAATCTGATATTGTCCATATATAAGCAGATAAATTCGTGTT
7420505 GGACTTAATCCATAGGCCCATTTTTGGCCGGAACCGGTTCGTACATTTCGTGTCGCCTAGATCGT
196 GGACTTAATCCATAGGCCCATTTTTGGCCGGAACCGGTTCGTACATTTCGTGTCGCCTAGATCGT
7420570 AAAGAATTTCGATATAAGAAATTATTTGAATGTAGGTTTAATCCTACAAAATACACAACCTTTTA
1 AAAGAATTTCGATATAAGAAATTATTTGAATGTAGGTTTAATCCTACAAAATACACAACCTTTTA
7420635 TAGGCATTTAGGATAGTCGAAAATTTGAAAATAACAATAAAATCTGCCATTAAGGAGCCAAAAAT
66 TAGGCATTTAGGATAGTCGAAAATTTGAAAATAACAATAAAATCTGCCATTAAGGAGCCAAAAAT
7420700 TCAAATTGATTTAAAAATCGAATCAAATCTGATATTGTCCATATATAAGCAGATAAATTCGTGTT
131 TCAAATTGATTTAAAAATCGAATCAAATCTGATATTGTCCATATATAAGCAGATAAATTCGTGTT
7420765 GGACTTAATCCATAGGCCCATTTTTGGCCGGAACCGGTTCGTACATTTCGTGTCGCCTAGATCGT
196 GGACTTAATCCATAGGCCCATTTTTGGCCGGAACCGGTTCGTACATTTCGTGTCGCCTAGATCGT
7420830 GCGGTGCCCC
Statistics
Matches: 259, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
260 259 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (260 bp):
AAAGAATTTCGATATAAGAAATTATTTGAATGTAGGTTTAATCCTACAAAATACACAACCTTTTA
TAGGCATTTAGGATAGTCGAAAATTTGAAAATAACAATAAAATCTGCCATTAAGGAGCCAAAAAT
TCAAATTGATTTAAAAATCGAATCAAATCTGATATTGTCCATATATAAGCAGATAAATTCGTGTT
GGACTTAATCCATAGGCCCATTTTTGGCCGGAACCGGTTCGTACATTTCGTGTCGCCTAGATCGT
Found at i:7428437 original size:111 final size:111
Alignment explanation
Indices: 7428295--7428527 Score: 439
Period size: 111 Copynumber: 2.1 Consensus size: 111
7428285 AAAGAAGCTT
7428295 CTTGAATATTCATAGATGTAGCTATTTGTTATCGATGGCACTAACATCTAAATAGCTAAATTTCT
1 CTTGAATATTCATAGATGTAGCTATTTGTTATCGATGGCACTAACATCTAAATAGCTAAATTTCT
7428360 ACTGCTTTTACAACCTATAGCATATCTTCTTAATCTTTTCTACTTG
66 ACTGCTTTTACAACCTATAGCATATCTTCTTAATCTTTTCTACTTG
*
7428406 CTTGAATATTCATAGATGTAGCTATTTGTTATCGATGGCACTAACATCTAAATATCTAAATTTCT
1 CTTGAATATTCATAGATGTAGCTATTTGTTATCGATGGCACTAACATCTAAATAGCTAAATTTCT
*
7428471 ACTGCTTTTACAACCTATGGCATATCTTCTTAATCTTTTCTACTTG
66 ACTGCTTTTACAACCTATAGCATATCTTCTTAATCTTTTCTACTTG
7428517 CTTGAAATATT
1 CTTG-AATATT
7428528 TCCCTAGTAT
Statistics
Matches: 119, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
111 113 0.95
112 6 0.05
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (111 bp):
CTTGAATATTCATAGATGTAGCTATTTGTTATCGATGGCACTAACATCTAAATAGCTAAATTTCT
ACTGCTTTTACAACCTATAGCATATCTTCTTAATCTTTTCTACTTG
Found at i:7429062 original size:14 final size:14
Alignment explanation
Indices: 7429043--7429072 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7429033 TTTAGATGTT
7429043 TAGTTTTTATTTTA
1 TAGTTTTTATTTTA
7429057 TAGTTTTTATTTTA
1 TAGTTTTTATTTTA
7429071 TA
1 TA
7429073 TCTTCTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (14 bp):
TAGTTTTTATTTTA
Found at i:7431799 original size:5 final size:5
Alignment explanation
Indices: 7431789--7431817 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7431779 CTTTTCTCGT
7431789 TTGGG TTGGG TTGGG TTGGG TTGGG TTGG
1 TTGGG TTGGG TTGGG TTGGG TTGGG TTGG
7431818 AACCAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.59, T:0.41
Consensus pattern (5 bp):
TTGGG
Found at i:7433576 original size:42 final size:41
Alignment explanation
Indices: 7433499--7433588 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
7433489 TTTAACGAAC
* *
7433499 TTAATATTAAATTTAATTTATCTTGATAATGTTATTTAATA
1 TTAATATTAAATTAAATTTATCTTGATAATATTATTTAATA
*
7433540 TTAA-ATTAAATTAAATGTTTATCTTTATAATATTATTTAAT-
1 TTAATATTAAATTAAA--TTTATCTTGATAATATTATTTAATA
*
7433581 TTGATATT
1 TTAATATT
7433589 TATCTTGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 10 0.24
41 7 0.17
42 25 0.60
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (41 bp):
TTAATATTAAATTAAATTTATCTTGATAATATTATTTAATA
Found at i:7433593 original size:30 final size:31
Alignment explanation
Indices: 7433557--7433619 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
7433547 AAATTAAATG
*
7433557 TTTATCTTTATAATATTAT-TTAATTTGATA
1 TTTATCTTGATAATATTATATTAATTTGATA
*
7433587 TTTATCTTGATAATATTTTATTAATTTGATA
1 TTTATCTTGATAATATTATATTAATTTGATA
7433618 TT
1 TT
7433620 AAGGTGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (31 bp):
TTTATCTTGATAATATTATATTAATTTGATA
Found at i:7433628 original size:30 final size:31
Alignment explanation
Indices: 7433566--7433635 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 31
7433556 GTTTATCTTT
* * *
7433566 ATAATATTAT-TTAATTTGATATTTATCTTG
1 ATAATATTTTATTAATTTGATATTTAACGTG
*
7433596 ATAATATTTTATTAATTTGATA-TTAAGGTG
1 ATAATATTTTATTAATTTGATATTTAACGTG
7433626 ATAA-ATTTTA
1 ATAATATTTTA
7433636 ATCCTTGAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.17
30 18 0.51
31 11 0.31
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.53
Consensus pattern (31 bp):
ATAATATTTTATTAATTTGATATTTAACGTG
Found at i:7434182 original size:18 final size:18
Alignment explanation
Indices: 7434149--7434201 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
7434139 ATTCACCTAA
*
7434149 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
7434168 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
7434186 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
7434202 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:7434319 original size:9 final size:9
Alignment explanation
Indices: 7434305--7434335 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7434295 GGAGTGATTC
7434305 AATTCGGTT
1 AATTCGGTT
*
7434314 AATTCGGGT
1 AATTCGGTT
7434323 AATTCGGTT
1 AATTCGGTT
7434332 AATT
1 AATT
7434336 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:7435968 original size:13 final size:13
Alignment explanation
Indices: 7435952--7435979 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7435942 TTAATTGGAA
7435952 AATTAATTTAGTT
1 AATTAATTTAGTT
7435965 AATTAATTTAGTT
1 AATTAATTTAGTT
7435978 AA
1 AA
7435980 AGTAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
AATTAATTTAGTT
Found at i:7441250 original size:9 final size:9
Alignment explanation
Indices: 7441236--7441279 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
7441226 ATACAAATTC
*
7441236 AAAAATAAA
1 AAAAATCAA
*
7441245 AAAAATCAT
1 AAAAATCAA
7441254 AAAAATCAA
1 AAAAATCAA
* *
7441263 AAAAATTAT
1 AAAAATCAA
7441272 AAAAATCA
1 AAAAATCA
7441280 GTTAAGGGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAAATCAA
Found at i:7441278 original size:18 final size:18
Alignment explanation
Indices: 7441236--7441279 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
7441226 ATACAAATTC
*
7441236 AAAAATAAAAAAAATCAT
1 AAAAATCAAAAAAATCAT
*
7441254 AAAAATCAAAAAAATTAT
1 AAAAATCAAAAAAATCAT
7441272 AAAAATCA
1 AAAAATCA
7441280 GTTAAGGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAATCAAAAAAATCAT
Found at i:7444638 original size:14 final size:14
Alignment explanation
Indices: 7444615--7444648 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7444605 AGACGATTTG
* *
7444615 AATAATTTAATATA
1 AATAAATTAATAAA
7444629 AATAAATTAATAAA
1 AATAAATTAATAAA
7444643 AATAAA
1 AATAAA
7444649 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAATTAATAAA
Found at i:7444669 original size:18 final size:19
Alignment explanation
Indices: 7444623--7444679 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 19
7444613 TGAATAATTT
7444623 AATATAAATAAATTAATAAA
1 AATATAAA-AAATTAATAAA
*
7444643 AATA-AAAAAAATAA-AAA
1 AATATAAAAAATTAATAAA
*
7444660 AAT-TATAAAATT-ATAAA
1 AATATAAAAAATTAATAAA
7444677 AAT
1 AAT
7444680 CAGTTAAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 1 0.03
17 18 0.56
18 6 0.19
19 3 0.09
20 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AATATAAAAAATTAATAAA
Found at i:7452278 original size:9 final size:10
Alignment explanation
Indices: 7452243--7452291 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
7452233 TTTTTAAAAC
*
7452243 TATATATTTT
1 TATAAATTTT
7452253 TAT-AATTTAT
1 TATAAATTT-T
7452263 T-TAAATTTT
1 TATAAATTTT
*
7452272 TGT-AATTTT
1 TATAAATTTT
7452281 TATAAATTTT
1 TATAAATTTT
7452291 T
1 T
7452292 GTTATGTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
9 15 0.45
10 18 0.55
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TATAAATTTT
Found at i:7452292 original size:19 final size:20
Alignment explanation
Indices: 7452243--7452293 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
7452233 TTTTTAAAAC
* *
7452243 TATATATTTTTATAATTTAT
1 TATAAATTTTTGTAATTTAT
7452263 T-TAAATTTTTGTAATTT-T
1 TATAAATTTTTGTAATTTAT
7452281 TATAAATTTTTGT
1 TATAAATTTTTGT
7452294 TATGTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 2 0.07
19 25 0.89
20 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TATAAATTTTTGTAATTTAT
Found at i:7454235 original size:112 final size:111
Alignment explanation
Indices: 7454038--7454366 Score: 518
Period size: 110 Copynumber: 3.0 Consensus size: 111
7454028 GAAATTCGAG
* * * *
7454038 AGGATATTTGGCTATTTGGTTAAACGAGAAATATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
7454103 GAATTTCCCAAATGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
66 GAATTTTCCAAACGCAAAACATTGCCTTATTT-GAAAATTTTTTAAA
* * *
7454150 AGGATATTTAGCCATTTGGTTGAACAAGAAAAATCGACACCCAGCACCTTGGGGCACGTTCTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
7454215 GAATTTTCCAAACGCAAAACATTGCCTTATTTGAAAA-TTTTTAAA
66 GAATTTTCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTTAAA
* *
7454260 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
7454325 -AAATTTCTCAAACGCAAAACATTGCCTTATTTGAAAATTTTT
66 GAATTTTC-CAAACGCAAAACATTGCCTTATTTGAAAATTTTT
7454367 GTTTTTGATG
Statistics
Matches: 200, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
109 6 0.03
110 97 0.49
111 9 0.05
112 88 0.44
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (111 bp):
AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTTCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTTAAA
Found at i:7454885 original size:27 final size:25
Alignment explanation
Indices: 7454851--7454905 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
7454841 AATAAAGTTT
*
7454851 AAAATAAAGATATAAATAAGCAAAAA
1 AAAATAAAGAAATAAATAAG-AAAAA
* *
7454877 AAAACTAAATAAATAAATAAGATAAA
1 AAAA-TAAAGAAATAAATAAGAAAAA
7454903 AAA
1 AAA
7454906 GGGTTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (25 bp):
AAAATAAAGAAATAAATAAGAAAAA
Found at i:7455699 original size:20 final size:21
Alignment explanation
Indices: 7455661--7455699 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7455651 AACCGAATGA
* *
7455661 AAATAAGAAAAAACGAATCTG
1 AAATAACAAAAAACAAATCTG
7455682 AAATAACAAAAAA-AAATC
1 AAATAACAAAAAACAAATC
7455700 ACCTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.69, C:0.10, G:0.08, T:0.13
Consensus pattern (21 bp):
AAATAACAAAAAACAAATCTG
Found at i:7457926 original size:12 final size:12
Alignment explanation
Indices: 7457911--7457935 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7457901 TTTTTCTTTA
7457911 TATTTTTTTGTT
1 TATTTTTTTGTT
7457923 TATTTTTTTGTT
1 TATTTTTTTGTT
7457935 T
1 T
7457936 GTTGATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (12 bp):
TATTTTTTTGTT
Found at i:7461231 original size:36 final size:36
Alignment explanation
Indices: 7461177--7461248 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
7461167 CGAGTAGGTT
*
7461177 CAGTGACATGTTGATTGGCCTTCCCACTAAAACTAG
1 CAGTGACATATTGATTGGCCTTCCCACTAAAACTAG
* * *
7461213 CAGTGGCATATTGGTTGGCCTTTCCACTAAAACTAG
1 CAGTGACATATTGATTGGCCTTCCCACTAAAACTAG
7461249 AGAAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (36 bp):
CAGTGACATATTGATTGGCCTTCCCACTAAAACTAG
Found at i:7462537 original size:15 final size:16
Alignment explanation
Indices: 7462517--7462546 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7462507 TATTATTCCA
7462517 TATTTATATT-TATAT
1 TATTTATATTCTATAT
7462532 TATTTATATTCTATA
1 TATTTATATTCTATA
7462547 ATATATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTATATTCTATAT
Found at i:7466048 original size:43 final size:43
Alignment explanation
Indices: 7465984--7466074 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
7465974 CTTTGAGTTC
* * * *
7465984 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTCATTAAGAAAATGCATTATATCTTTT
* *
7466026 ATTACCAAGATTTACTTCATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTCATTAAGAAAATGCATTATATCTTTT
7466069 ATTACC
1 ATTACC
7466075 TTGCAATGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTCATTAAGAAAATGCATTATATCTTTT
Found at i:7475713 original size:18 final size:18
Alignment explanation
Indices: 7475673--7475719 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
7475663 ACTTAATTGG
*
7475673 AAAATTAATTTATCTAAT
1 AAAATTAATTTATCAAAT
*
7475691 TAAATTAATTTAAT-AAAT
1 AAAATTAATTT-ATCAAAT
*
7475709 AAAATTTATTT
1 AAAATTAATTT
7475720 TAGGAAATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATTAATTTATCAAAT
Found at i:7476010 original size:20 final size:20
Alignment explanation
Indices: 7475985--7476022 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7475975 ATAGTGGAAA
7475985 TTTATTTTCTAAGAATAAAT
1 TTTATTTTCTAAGAATAAAT
*
7476005 TTTATTTTCTAGGAATAA
1 TTTATTTTCTAAGAATAA
7476023 CAATTCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTATTTTCTAAGAATAAAT
Found at i:7478039 original size:17 final size:17
Alignment explanation
Indices: 7478019--7478112 Score: 58
Period size: 17 Copynumber: 5.6 Consensus size: 17
7478009 TAATACTATT
7478019 ATAATATAAATATTAAA
1 ATAATATAAATATTAAA
*
7478036 ATAATATTAAGATTATT-AT
1 ATAATA-TAA-A-TATTAAA
*
7478055 ATAA-AAAAAT-TTAATAA
1 ATAATATAAATATT-A-AA
7478072 ATAA-A-AAATTATT-AA
1 ATAATATAAA-TATTAAA
*
7478087 ATTAT-TAAATATTAAA
1 ATAATATAAATATTAAA
7478103 ATAATATAAA
1 ATAATATAAA
7478113 CCAACCTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
14 2 0.03
15 10 0.17
16 13 0.22
17 19 0.32
18 6 0.10
19 6 0.10
20 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (17 bp):
ATAATATAAATATTAAA
Found at i:7478087 original size:15 final size:16
Alignment explanation
Indices: 7478047--7478088 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
7478037 TAATATTAAG
*
7478047 ATTATTATATAAAAAA
1 ATTATTAAATAAAAAA
*
7478063 ATTTAATAAAT-AAAAA
1 A-TTATTAAATAAAAAA
7478079 ATTATTAAAT
1 ATTATTAAAT
7478089 TATTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 8 0.36
16 7 0.32
17 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTATTAAATAAAAAA
Found at i:7478112 original size:40 final size:43
Alignment explanation
Indices: 7478019--7478112 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 43
7478009 TAATACTATT
*
7478019 ATAATATAAATATTAAAATAATATTAAGATTATTATATAAAAAA
1 ATAATATAAATA-TAAAATAATATTAAGATTATTAAATAAAAAA
* * **
7478063 AT-TTAATAAATA-AAAA-ATTATTAA-ATTATTAAATATTAAA
1 ATAAT-ATAAATATAAAATAATATTAAGATTATTAAATAAAAAA
7478103 ATAATATAAA
1 ATAATATAAA
7478113 CCAACCTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
40 20 0.48
41 8 0.19
42 4 0.10
43 1 0.02
44 9 0.21
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (43 bp):
ATAATATAAATATAAAATAATATTAAGATTATTAAATAAAAAA
Found at i:7480677 original size:4 final size:4
Alignment explanation
Indices: 7480670--7480694 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7480660 AATATGAGTA
7480670 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
7480695 TGTGGGGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:7505528 original size:23 final size:23
Alignment explanation
Indices: 7505470--7505528 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
7505460 AAGAGAACAT
*
7505470 AAGTGCTAAATT-AGGAGCACCG
1 AAGTGCTAAATTCAAGAGCACCG
*
7505492 AAGTGC-AAGTTTCAAGAGCACCGG
1 AAGTGCTAA-ATTCAAGAGCACC-G
7505516 AA-TGCTAAATTCA
1 AAGTGCTAAATTCA
7505529 TGAACGCGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 15 0.50
24 5 0.17
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (23 bp):
AAGTGCTAAATTCAAGAGCACCG
Found at i:7506113 original size:54 final size:54
Alignment explanation
Indices: 7506031--7506139 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
7506021 ATAATCAAAG
7506031 TAAACATGCAACTATCACTAAAGCATGAAGATCTTACCTTAAAGCCTTAGTTAA
1 TAAACATGCAACTATCACTAAAGCATGAAGATCTTACCTTAAAGCCTTAGTTAA
7506085 TAAACATGCAACTATCACTAAAGCATGAAGATCTTACCTTAAAGCCTTAGTTAA
1 TAAACATGCAACTATCACTAAAGCATGAAGATCTTACCTTAAAGCCTTAGTTAA
7506139 T
1 T
7506140 CACATTATCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.28
Consensus pattern (54 bp):
TAAACATGCAACTATCACTAAAGCATGAAGATCTTACCTTAAAGCCTTAGTTAA
Found at i:7506594 original size:17 final size:17
Alignment explanation
Indices: 7506574--7506607 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7506564 AAAAAAAATT
7506574 TATTCGTCATCATTATC
1 TATTCGTCATCATTATC
7506591 TATTCGTCATCATTATC
1 TATTCGTCATCATTATC
7506608 CACTAGATCT
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:0.06, T:0.47
Consensus pattern (17 bp):
TATTCGTCATCATTATC
Found at i:7513179 original size:13 final size:14
Alignment explanation
Indices: 7513161--7513190 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7513151 AAATAGGAGG
7513161 TGAAGAAGACAG-A
1 TGAAGAAGACAGTA
7513174 TGAAGAAGACAGTA
1 TGAAGAAGACAGTA
7513188 TGA
1 TGA
7513191 TGGCCAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.50, C:0.07, G:0.30, T:0.13
Consensus pattern (14 bp):
TGAAGAAGACAGTA
Found at i:7523969 original size:3 final size:3
Alignment explanation
Indices: 7523961--7523999 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
7523951 ATCTACCAGG
*
7523961 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7524000 GTATCTGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7528287 original size:3 final size:3
Alignment explanation
Indices: 7528279--7528304 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7528269 ATTACATCCA
7528279 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
7528305 AAAAACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7532601 original size:73 final size:73
Alignment explanation
Indices: 7532519--7532704 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
7532509 ACAACTTGAC
7532519 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
7532584 CACTAACA
66 CACTAACA
7532592 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
7532657 CACTAACA
66 CACTAACA
*
7532665 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
7532705 AATAATAATA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:7532713 original size:3 final size:3
Alignment explanation
Indices: 7532705--7532736 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7532695 ATTACATCCA
7532705 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7532737 AACATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7533430 original size:18 final size:18
Alignment explanation
Indices: 7533407--7533447 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
7533397 ATTTATTTAA
* * *
7533407 AAAATCGTAAAATATTAT
1 AAAATCATAAAAAATTAC
7533425 AAAATCATAAAAAATTAC
1 AAAATCATAAAAAATTAC
7533443 AAAAT
1 AAAAT
7533448 AAATAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATCATAAAAAATTAC
Found at i:7533497 original size:31 final size:31
Alignment explanation
Indices: 7533462--7533520 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
7533452 AGAAATAAAG
* *
7533462 AAAAAAA-ATTATAATTTTTTATAAAATCGTA
1 AAAAAAATATTATAA-ATATTATAAAATCGTA
7533493 AAAAAAATATTATAAATATTATAAAATC
1 AAAAAAATATTATAAATATTATAAAATC
7533521 AAGTAGAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (31 bp):
AAAAAAATATTATAAATATTATAAAATCGTA
Found at i:7537983 original size:21 final size:21
Alignment explanation
Indices: 7537950--7538030 Score: 94
Period size: 21 Copynumber: 3.7 Consensus size: 21
7537940 GGATATAATA
7537950 ATTTTTATAAATTTTTTTCAGG
1 ATTTTTAT-AATTTTTTTCAGG
*
7537972 ATTTTTATAATTTTCTTTTACA-A
1 ATTTTTATAA-TTT-TTTT-CAGG
7537995 ATTTTTATAATTTTTTT-AGG
1 ATTTTTATAATTTTTTTCAGG
7538015 ATATTTTATAATTTTT
1 AT-TTTTATAATTTTT
7538031 GCAATTTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 19 0.37
22 14 0.27
23 14 0.27
24 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (21 bp):
ATTTTTATAATTTTTTTCAGG
Found at i:7538006 original size:9 final size:9
Alignment explanation
Indices: 7537994--7538125 Score: 50
Period size: 9 Copynumber: 13.8 Consensus size: 9
7537984 TTCTTTTACA
7537994 AATTTTTAT
1 AATTTTTAT
*
7538003 AATTTTTTT
1 AATTTTTAT
7538012 AGGATATTTTAT
1 A--AT-TTTTAT
**
7538024 AATTTTTGC
1 AATTTTTAT
7538033 AATTTTTAT
1 AATTTTTAT
* *
7538042 ATTTCTTTCT
1 AATT-TTTAT
*
7538052 ATTTTTTAAAT
1 AATTTTT--AT
*
7538063 ACTTTTCTAT
1 AATTTT-TAT
****
7538073 AAACAATA-
1 AATTTTTAT
7538081 AATTTTTAAT
1 AATTTTT-AT
*
7538091 ATTTTTTAT
1 AATTTTTAT
*
7538100 AACTTTTAT
1 AATTTTTAT
*
7538109 AACTTTTAT
1 AATTTTTAT
7538118 AACTTTTT
1 AA-TTTTT
7538126 TATTTTTTTA
Statistics
Matches: 90, Mismatches: 23, Indels: 19
0.68 0.17 0.14
Matches are distributed among these distances:
8 3 0.03
9 49 0.54
10 23 0.26
11 8 0.09
12 7 0.08
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:7538128 original size:11 final size:9
Alignment explanation
Indices: 7538094--7538124 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
7538084 TTTTAATATT
7538094 TTTTATAAC
1 TTTTATAAC
7538103 TTTTATAAC
1 TTTTATAAC
7538112 TTTTATAAC
1 TTTTATAAC
7538121 TTTT
1 TTTT
7538125 TTATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTATAAC
Found at i:7538133 original size:18 final size:18
Alignment explanation
Indices: 7538084--7538143 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
7538074 AACAATAAAT
7538084 TTTTAATATTTTTTATAAC
1 TTTT-ATATTTTTTATAAC
**
7538103 TTTTATAACTTTTATAAC
1 TTTTATATTTTTTATAAC
* *
7538121 TTTTTTATTTTTT-TATC
1 TTTTATATTTTTTATAAC
7538138 TTTTAT
1 TTTTAT
7538144 CATATATCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 8 0.24
18 22 0.65
19 4 0.12
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATATTTTTTATAAC
Found at i:7538170 original size:7 final size:7
Alignment explanation
Indices: 7538143--7538173 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7538133 TTATCTTTTA
*
7538143 TCATATA
1 TCATATG
7538150 TCATATG
1 TCATATG
7538157 TCATATG
1 TCATATG
7538164 TCATATG
1 TCATATG
7538171 TCA
1 TCA
7538174 CATCGTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (7 bp):
TCATATG
Found at i:7553811 original size:3 final size:3
Alignment explanation
Indices: 7553803--7553837 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7553793 GGAAATATCC
7553803 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
7553838 AGAAACGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7554870 original size:24 final size:24
Alignment explanation
Indices: 7554843--7554896 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7554833 TCTTTCTAGA
* * *
7554843 ATATTTAGTATTTATGAGTATACT
1 ATATTTAGCATTTATGAGCATAAT
*
7554867 ATATTTAGCATTTATTAGCATAAT
1 ATATTTAGCATTTATGAGCATAAT
7554891 ATATTT
1 ATATTT
7554897 GACTTTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (24 bp):
ATATTTAGCATTTATGAGCATAAT
Found at i:7555944 original size:19 final size:19
Alignment explanation
Indices: 7555920--7555968 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
7555910 ACAAAACAAG
*
7555920 ATCAAAGGGGAGGCTGTGA
1 ATCAAAAGGGAGGCTGTGA
*
7555939 ATCAAAAAGGAGGCTGTGA
1 ATCAAAAGGGAGGCTGTGA
7555958 ATCAAAAGGGA
1 ATCAAAAGGGA
7555969 AAACAACTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.35, T:0.14
Consensus pattern (19 bp):
ATCAAAAGGGAGGCTGTGA
Found at i:7558858 original size:50 final size:49
Alignment explanation
Indices: 7558803--7558947 Score: 168
Period size: 50 Copynumber: 2.9 Consensus size: 49
7558793 CATTGAGATT
7558803 ATGAGAGGTCTCATGAAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCTCATG-AAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * * *
7558853 ATGAGAGGTCCCCCAT-AAGACAATGTCTAGGACATGGCA-TGTGCACCGAT
1 ATGAGAGGT--CTCATGAAGACCATGTCTGGGACATGGCATTG-GCACCGAG
** *
7558903 ATGAGAACTCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCTCATG-AAGACCATGTCTGGGACATGGCATTGGCA
7558948 TGTTATTATC
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
48 4 0.05
49 2 0.03
50 67 0.85
51 2 0.03
52 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (49 bp):
ATGAGAGGTCTCATGAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:7565106 original size:20 final size:21
Alignment explanation
Indices: 7565081--7565119 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7565071 GGCTGAACAG
*
7565081 GTTGCAGCA-TTGAAGCAGAA
1 GTTGCAGAACTTGAAGCAGAA
7565101 GTTGCAGAACTTGAAGCAG
1 GTTGCAGAACTTGAAGCAG
7565120 CCTACACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (21 bp):
GTTGCAGAACTTGAAGCAGAA
Found at i:7566187 original size:18 final size:18
Alignment explanation
Indices: 7566164--7566206 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7566154 ACCCAATCTA
**
7566164 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
7566182 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
7566200 AACCCAA
1 AACCCAA
7566207 CCCAATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:7566336 original size:9 final size:9
Alignment explanation
Indices: 7566319--7566385 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
7566309 GTAGTGATTA
*
7566319 AATTTGGTT
1 AATTCGGTT
7566328 AATTCGGTT
1 AATTCGGTT
*
7566337 AATTCGGGT
1 AATTCGGTT
7566346 AATTCGGTT
1 AATTCGGTT
*
7566355 AATTCGGGT
1 AATTCGGTT
*
7566364 AATTTGGTT
1 AATTCGGTT
7566373 AATTCGGTT
1 AATTCGGTT
7566382 AATT
1 AATT
7566386 AAGTTAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:7566395 original size:27 final size:27
Alignment explanation
Indices: 7566319--7566395 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
7566309 GTAGTGATTA
* *
7566319 AATTTGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTTGGGT
* *
7566346 AATTCGGTTAATTCGGGTAATTTGGTT
1 AATTCGGTTAATTCGGTTAATTTGGGT
**
7566373 AATTCGGTTAATTAAGTTAATTT
1 AATTCGGTTAATTCGGTTAATTT
7566396 TTAACCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.45
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTTGGGT
Found at i:7571901 original size:3 final size:3
Alignment explanation
Indices: 7571855--7571889 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
7571845 AACATAAAAA
7571855 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7571890 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7573658 original size:46 final size:45
Alignment explanation
Indices: 7573539--7573836 Score: 212
Period size: 46 Copynumber: 6.8 Consensus size: 45
7573529 TAGGATAGTG
* * * * *
7573539 TCTTCGATCTGCTCCGCTATAATCTCAGGGAGATGAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
7573582 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
7573629 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
7573672 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-AT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * * *
7573709 CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
*
7573752 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
7573799 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
7573837 CCTGTATTAT
Statistics
Matches: 196, Mismatches: 40, Indels: 34
0.73 0.15 0.13
Matches are distributed among these distances:
36 2 0.01
37 1 0.01
38 1 0.01
39 22 0.11
40 2 0.01
41 24 0.12
42 1 0.01
43 1 0.01
44 68 0.35
45 1 0.01
46 70 0.36
47 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:7573785 original size:44 final size:44
Alignment explanation
Indices: 7573508--7573836 Score: 193
Period size: 44 Copynumber: 7.6 Consensus size: 44
7573498 GTTAATCCAT
* * * *
7573508 TCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTTGATCTGC
* * * ** **
7573551 TCCGCTATAATCTCAGGGAGATGAGATCT-CTGGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTTGATCTGC
* * * *
7573595 TCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTTGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTTGATCTGC
* * *
7573641 TCCACTGTAATCTCAGGGAGATAAGA--CCTGA--TGTGATCTTC
1 TCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTTGATCTGC
* * * * *
7573682 TCTACTGTAA-CTTCAGAGAGATACGA-T-C---CTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTTGATCTGC
* * *
7573721 TCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCTGC
* * * *
7573765 TCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTTGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTTGATCTGC
7573811 TCCACTGTAATCTCAGGGAGATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
7573837 CCTGTATTAT
Statistics
Matches: 219, Mismatches: 47, Indels: 37
0.72 0.16 0.12
Matches are distributed among these distances:
39 25 0.11
40 3 0.01
41 29 0.13
43 20 0.09
44 71 0.32
45 3 0.01
46 68 0.31
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCTGC
Found at i:7586580 original size:3 final size:3
Alignment explanation
Indices: 7586531--7586568 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
7586521 AACATAAACA
7586531 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7586569 ACAAAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7595008 original size:91 final size:91
Alignment explanation
Indices: 7594882--7595089 Score: 303
Period size: 91 Copynumber: 2.3 Consensus size: 91
7594872 TTGATTTTAG
* *
7594882 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCA-CTATTAAATTA
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATC-ATTAAATTA
* *
7594946 TATTTAAT-ATTAATTATTTTAAATTGTA
64 TATGTAATAATT-ATTATTTTAAATTATA
*
7594974 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATCATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATCATTAAATTATA
7595039 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * *
7595065 TAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
7595090 GTTATAATTA
Statistics
Matches: 106, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
91 86 0.81
92 20 0.19
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATCATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:7595116 original size:57 final size:54
Alignment explanation
Indices: 7595055--7595164 Score: 123
Period size: 57 Copynumber: 2.0 Consensus size: 54
7595045 AATTATTATT
* * * *
7595055 TTAAATTATATAAATTCA-TAAAATATAATTTATTAGTTATAATTATTTTAAATTTTA
1 TTAAATCATATAAATTAATTAAAATAT-ATTTAATA--T-TAATTATTTCAAATTTTA
**
7595112 TTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTT
1 TTAAATCATATAAATTAATTAAAATATATTTAATATTAATTATTTCAAATTTT
7595165 CTTTTATAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
54 16 0.35
55 1 0.02
57 21 0.46
58 8 0.17
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.52
Consensus pattern (54 bp):
TTAAATCATATAAATTAATTAAAATATATTTAATATTAATTATTTCAAATTTTA
Found at i:7595162 original size:54 final size:54
Alignment explanation
Indices: 7595094--7595279 Score: 149
Period size: 54 Copynumber: 3.2 Consensus size: 54
7595084 TTATTAGTTA
*
7595094 TAATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTATTTAAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * * * **
7595148 TAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTT-AAAATTT-TATTA-A--ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
7595213 T
54 T
* * *
7595214 TAATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
7595268 TAATTATGTTAA
1 TAATTAT-TTAA
7595280 TTTATATTTT
Statistics
Matches: 101, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
54 19 0.19
55 9 0.09
56 9 0.09
57 3 0.03
59 11 0.11
60 8 0.08
61 10 0.10
63 4 0.04
64 7 0.07
65 10 0.10
66 11 0.11
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (54 bp):
TAATTATTTAAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
Found at i:7595265 original size:15 final size:15
Alignment explanation
Indices: 7595230--7595281 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7595220 TTAAGAATTT
*
7595230 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7595244 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7595258 TATTTAATAATAAT-
1 TATTTAATTATAATA
7595272 TATGTTAATT
1 TAT-TTAATT
7595282 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7595377 original size:16 final size:16
Alignment explanation
Indices: 7595358--7595399 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7595348 TTATTAAATT
*
7595358 ATATATTTTAATTATA
1 ATATATTTTAATAATA
7595374 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
7595389 AT-TATGTTTAA
1 ATATAT-TTTAA
7595400 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:7595384 original size:15 final size:15
Alignment explanation
Indices: 7595349--7595390 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7595339 CTTAAGAATT
*
7595349 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7595363 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7595377 TATTTAATAATAAT
1 TATTTAATTATAAT
7595391 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7595389 original size:119 final size:120
Alignment explanation
Indices: 7595105--7595401 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
7595095 AATTATTTTA
* * * *
7595105 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTATTT
*
7595169 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
7595225 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TATTT
* *
7595289 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGATTATTAATTCTTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
7595345 AA-TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
7595402 ATGATTAAAT
Statistics
Matches: 166, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
119 53 0.32
120 108 0.65
121 5 0.03
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:7595570 original size:39 final size:40
Alignment explanation
Indices: 7595527--7595631 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
7595517 TTCCATTATG
7595527 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
7595566 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
7595611 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
7595632 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:7595625 original size:45 final size:44
Alignment explanation
Indices: 7595525--7595634 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
7595515 TTTTCCATTA
7595525 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
7595564 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
7595609 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
7595635 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:7595634 original size:16 final size:16
Alignment explanation
Indices: 7595613--7595650 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
7595603 TTGATTTGCT
*
7595613 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
7595629 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
7595645 AATACA
1 ATTACA
7595651 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:7612054 original size:1 final size:1
Alignment explanation
Indices: 7612050--7612076 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
7612040 AACAGAATGC
7612050 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
7612077 GAAGGGTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7620368 original size:17 final size:18
Alignment explanation
Indices: 7620329--7620375 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
7620319 AGACTTGACC
7620329 CATTTTTTAAACAAGTCT
1 CATTTTTTAAACAAGTCT
* **
7620347 TATTTTTTATCCAAG-CT
1 CATTTTTTAAACAAGTCT
7620364 CATTTTTTAAAC
1 CATTTTTTAAAC
7620376 TTATATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.49
Consensus pattern (18 bp):
CATTTTTTAAACAAGTCT
Found at i:7624632 original size:49 final size:51
Alignment explanation
Indices: 7624536--7624663 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 51
7624526 TCGAAAGTTT
* *
7624536 TTTTTCGTGAAAGGAAATGAAAAGTTTTTTTGAAGCTTGAAAATTTTAGGG
1 TTTTTCGTGAAAAGAAATGAAAAGTTTTTTTGAAGCCTGAAAATTTTAGGG
* *
7624587 TTTTT-GTGAAAAGAAAT-AAAAGGTTTTTTT-AAGCCTGAAAGTTTTA-AG
1 TTTTTCGTGAAAAGAAATGAAAA-GTTTTTTTGAAGCCTGAAAATTTTAGGG
* * * * *
7624635 ATTATCCTGAAAGGAAATGAAAGGTTTTT
1 TTTTTCGTGAAAAGAAATGAAAAGTTTTT
7624664 CTTCTTAGAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
48 4 0.06
49 34 0.52
50 22 0.34
51 5 0.08
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (51 bp):
TTTTTCGTGAAAAGAAATGAAAAGTTTTTTTGAAGCCTGAAAATTTTAGGG
Found at i:7634377 original size:22 final size:20
Alignment explanation
Indices: 7634352--7634392 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
7634342 ACAATTATTT
*
7634352 TAAATTTTTTATGATGTAAAAA
1 TAAATATTTTAT-AT-TAAAAA
7634374 TAAATATTTTATATTAAAA
1 TAAATATTTTATATTAAAA
7634393 TAGTGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TAAATATTTTATATTAAAAA
Found at i:7638347 original size:15 final size:15
Alignment explanation
Indices: 7638324--7638371 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
7638314 TATTTGTTAA
7638324 AATAAATAAATAAAT
1 AATAAATAAATAAAT
*
7638339 AATATATAAATAAA-
1 AATAAATAAATAAAT
* *
7638353 AACTAATTAAAGAAAT
1 AA-TAAATAAATAAAT
7638369 AAT
1 AAT
7638372 TACATTATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (15 bp):
AATAAATAAATAAAT
Found at i:7645285 original size:25 final size:24
Alignment explanation
Indices: 7645244--7645326 Score: 91
Period size: 25 Copynumber: 3.5 Consensus size: 24
7645234 GGATTAGACA
*
7645244 TAAAAC-TAGAATTAGACTTAAGTT
1 TAAAACTTAGGATTAGACTTAAG-T
7645268 TAAAACTTAGGATTAGACTTAAGT
1 TAAAACTTAGGATTAGACTTAAGT
* *
7645292 TAAGAGCTTAGGATTAGA-TTTAG-
1 TAA-AACTTAGGATTAGACTTAAGT
*
7645315 TCAAACTTAGGA
1 TAAAACTTAGGA
7645327 CTTAAAACTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
22 8 0.15
23 2 0.04
24 14 0.27
25 28 0.54
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (24 bp):
TAAAACTTAGGATTAGACTTAAGT
Found at i:7651022 original size:11 final size:10
Alignment explanation
Indices: 7650999--7651028 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
7650989 TTCACTGGCA
7650999 TCTTTCTTTT
1 TCTTTCTTTT
7651009 TCTTTCTCTTT
1 TCTTTCT-TTT
7651020 TCTTTCTTT
1 TCTTTCTTT
7651029 GTGGATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TCTTTCTTTT
Found at i:7654355 original size:6 final size:6
Alignment explanation
Indices: 7654346--7654375 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7654336 AAAAACAATG
7654346 TCATGT TCATGT TCATGT TCATGT TCATGT
1 TCATGT TCATGT TCATGT TCATGT TCATGT
7654376 AGATTATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
TCATGT
Found at i:7654418 original size:3 final size:3
Alignment explanation
Indices: 7654410--7654440 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7654400 ATATCAGTCA
7654410 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
7654441 GAACTTGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:7668222 original size:14 final size:14
Alignment explanation
Indices: 7668203--7668240 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
7668193 GATTGGCTGT
7668203 AAAATGTTTTCTGG
1 AAAATGTTTTCTGG
*
7668217 AAAATGATTTCTGG
1 AAAATGTTTTCTGG
7668231 AAAATGTTTT
1 AAAATGTTTT
7668241 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (14 bp):
AAAATGTTTTCTGG
Found at i:7668249 original size:20 final size:20
Alignment explanation
Indices: 7668224--7668263 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7668214 TGGAAAATGA
*
7668224 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
7668244 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
7668264 GGAAAATATT
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:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:7668255 original size:34 final size:35
Alignment explanation
Indices: 7668209--7668275 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
7668199 CTGTAAAATG
*
7668209 TTTTCTGGAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGGAAAATGATTTACTGGAAAATATTTTAC
*
7668243 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGGAAAATGATTTACTGGAAAATATTTT
7668276 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.46
Consensus pattern (35 bp):
TTTTCTGGAAAATGATTTACTGGAAAATATTTTAC
Found at i:7668378 original size:20 final size:20
Alignment explanation
Indices: 7668350--7668426 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
7668340 TCCGAAAAAG
7668350 TTATTTTTACATATATTAAA
1 TTATTTTTACATATATTAAA
* *
7668370 TTGTTTTTACATATATATTAA
1 TTATTTTTACATATAT-TAAA
* *
7668391 TAAATTTTT--ATATTTTAAA
1 T-TATTTTTACATATATTAAA
7668410 TTATTTTTACATATATT
1 TTATTTTTACATATATT
7668427 GCAATGATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 6 0.13
19 4 0.09
20 26 0.58
21 4 0.09
22 5 0.11
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (20 bp):
TTATTTTTACATATATTAAA
Found at i:7668465 original size:18 final size:18
Alignment explanation
Indices: 7668442--7668477 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7668432 GATTTATTTA
7668442 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
7668460 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
7668478 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:7668908 original size:25 final size:26
Alignment explanation
Indices: 7668880--7668936 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
7668870 AAGGAATCAT
*
7668880 ACAAAG-ATGGCTCTACCCGCAAATG
1 ACAAAGCATAGCTCTACCCGCAAATG
* *
7668905 ACAAAAGCTTATCTCTACCCGCAAATG
1 AC-AAAGCATAGCTCTACCCGCAAATG
7668932 ACAAA
1 ACAAA
7668937 AGTTACAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 7 0.26
27 18 0.67
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.18
Consensus pattern (26 bp):
ACAAAGCATAGCTCTACCCGCAAATG
Found at i:7670432 original size:21 final size:22
Alignment explanation
Indices: 7670398--7670443 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
7670388 GAGGATGTGG
7670398 AAGAAGATTTGCTTAGAAGAGA
1 AAGAAGATTTGCTTAGAAGAGA
7670420 AAGAAGA-TTGCTTAGAAGAGA
1 AAGAAGATTTGCTTAGAAGAGA
7670441 AAG
1 AAG
7670444 GAGAAAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.48, C:0.04, G:0.28, T:0.20
Consensus pattern (22 bp):
AAGAAGATTTGCTTAGAAGAGA
Found at i:7679829 original size:52 final size:52
Alignment explanation
Indices: 7679751--7679854 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
7679741 GCAAAGTTAG
*
7679751 AACATATTTAGGTTCTGTTGTGCAAGTTCTTTCTTGGGAAAGAGG-TAGAGAC
1 AACATATTTAGGTTCTATTGTGCAAGTTCTTTCTTGGGAAAG-GGATAGAGAC
7679803 AACATATTTAGGTTCTATTGTGCAAGTTCTTTCTTGGGAAAGGGATAGAGAC
1 AACATATTTAGGTTCTATTGTGCAAGTTCTTTCTTGGGAAAGGGATAGAGAC
7679855 TTTTGACCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 2 0.04
52 48 0.96
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (52 bp):
AACATATTTAGGTTCTATTGTGCAAGTTCTTTCTTGGGAAAGGGATAGAGAC
Found at i:7692197 original size:25 final size:24
Alignment explanation
Indices: 7692151--7692207 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
7692141 AACAAATTTG
*
7692151 AAATTAAAATATTGAAATATTCAA
1 AAATTAAAATATTGAAAAATTCAA
*
7692175 AAATTAAAGTGATTGAAAAATTCAA
1 AAATTAAAAT-ATTGAAAAATTCAA
7692200 ATAATTAA
1 A-AATTAA
7692208 TGAGGTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 9 0.31
25 14 0.48
26 6 0.21
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.32
Consensus pattern (24 bp):
AAATTAAAATATTGAAAAATTCAA
Done.