Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006530.1 Hibiscus syriacus cultivar Beakdansim tig00015919_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 612433
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 4
Found at i:4457 original size:29 final size:28
Alignment explanation
Indices: 4380--4474 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 28
4370 ATGTTCATAC
* *
4380 TCAGAAATCAGATACAAAAATACAGTAAA
1 TCAGATATCAGATAC-AATATACAGTAAA
* * *
4409 TCAGAGATCATATCAGAATATACAGTAAA
1 TCAGATATCAGAT-ACAATATACAGTAAA
*
4438 TCAGATATCAGATAACAATATTCAG-AAA
1 TCAGATATCAGAT-ACAATATACAGTAAA
4466 TCAGATATC
1 TCAGATATC
4475 GTCTCGTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
28 12 0.21
29 43 0.77
30 1 0.02
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.23
Consensus pattern (28 bp):
TCAGATATCAGATACAATATACAGTAAA
Found at i:5607 original size:29 final size:30
Alignment explanation
Indices: 5574--5634 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
5564 GTTGGATCTA
*
5574 AATTTAATCAAAATTTCACTTT-GGTCTCG
1 AATTTAATCAAAATTTCAATTTAGGTCTCG
* * *
5603 AATTTATTTAAAATTTCAATTTAGTTCTCG
1 AATTTAATCAAAATTTCAATTTAGGTCTCG
5633 AA
1 AA
5635 AAAAATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (30 bp):
AATTTAATCAAAATTTCAATTTAGGTCTCG
Found at i:14105 original size:18 final size:17
Alignment explanation
Indices: 14082--14115 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14072 CAGTCTGTTT
14082 TATTTTAATAATTTTATA
1 TATTTTAAT-ATTTTATA
*
14100 TATTTTGATATTTTAT
1 TATTTTAATATTTTAT
14116 TTAATTGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TATTTTAATATTTTATA
Found at i:15296 original size:21 final size:21
Alignment explanation
Indices: 15270--15322 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
15260 AAAAATCACC
*
15270 CTGGAGTTTGTAGAATGAAGA
1 CTGGAGCTTGTAGAATGAAGA
15291 CTGGAGCTTGTAGAATGAAGA
1 CTGGAGCTTGTAGAATGAAGA
15312 CTGGAGCTTGT
1 CTGGAGCTTGT
15323 TTCCGTTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.28
Consensus pattern (21 bp):
CTGGAGCTTGTAGAATGAAGA
Found at i:21550 original size:18 final size:17
Alignment explanation
Indices: 21527--21560 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21517 CATTCTGTTT
21527 TATTTTAATAATTTTATA
1 TATTTTAAT-ATTTTATA
*
21545 TATTTTGATATTTTAT
1 TATTTTAATATTTTAT
21561 TTAATTGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TATTTTAATATTTTATA
Found at i:23455 original size:20 final size:19
Alignment explanation
Indices: 23408--23446 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23398 ATGACCAACA
**
23408 AAATCGCAATACGATCTCT
1 AAATCGCAACGCGATCTCT
23427 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
23446 A
1 A
23447 GTATCGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:23535 original size:21 final size:21
Alignment explanation
Indices: 23489--23535 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23479 GATTTTGACT
* *
23489 ATCGTGTTGCGATTTTCCAAA
1 ATCGCGTTGCGATTTTACAAA
* *
23510 TTCGCGTTGCGATTTTAGAAA
1 ATCGCGTTGCGATTTTACAAA
23531 ATCGC
1 ATCGC
23536 AATGTGAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (21 bp):
ATCGCGTTGCGATTTTACAAA
Found at i:23574 original size:20 final size:20
Alignment explanation
Indices: 23551--23624 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
23541 GAATATGTAA
23551 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
** *
23571 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATTCTGAC--T
* *
23592 ATCGTAAGGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
23612 ATCGCAACGCGAT
1 ATCGCAACGCGAT
23625 AATACAAAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 2 0.05
20 25 0.61
21 12 0.29
22 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:23594 original size:41 final size:41
Alignment explanation
Indices: 23549--23645 Score: 176
Period size: 41 Copynumber: 2.4 Consensus size: 41
23539 GTGAATATGT
23549 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
* *
23590 AAATCGTAAGGCGATTCTGACTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
23631 AAATCGCAACGCGAT
1 AAATCGCAACGCGAT
23646 AAAATCGCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
Found at i:23603 original size:21 final size:21
Alignment explanation
Indices: 23571--23647 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
23561 GATTCTGACT
23571 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
* * ** *
23592 ATCGTAAGGCGATTCTGAC--T
1 ATCGCAACGCGATAAT-ACAAA
23612 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
23633 ATCGCAACGCGATAA
1 ATCGCAACGCGATAA
23648 AATCGCAATG
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.05
20 12 0.28
21 27 0.63
22 2 0.05
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Found at i:23651 original size:16 final size:16
Alignment explanation
Indices: 23630--23661 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23620 GCGATAATAC
23630 AAAATCGCAACGCGAT
1 AAAATCGCAACGCGAT
*
23646 AAAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
23662 TTTCCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.16
Consensus pattern (16 bp):
AAAATCGCAACGCGAT
Found at i:23808 original size:6 final size:6
Alignment explanation
Indices: 23797--23830 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
23787 AGACACGTAT
23797 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
23831 CGAGACGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.50, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:24194 original size:19 final size:19
Alignment explanation
Indices: 24167--24204 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24157 ATATTTTTCA
*
24167 AACTCTCGCAACACATTTT
1 AACTATCGCAACACATTTT
24186 AACTATCGCAACACATTTT
1 AACTATCGCAACACATTTT
24205 TCAAAATCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (19 bp):
AACTATCGCAACACATTTT
Found at i:25471 original size:2 final size:2
Alignment explanation
Indices: 25464--25507 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
25454 AGCTTAATTA
25464 AT AT AT AT AT AT AT 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
25506 AT
1 AT
25508 TTGAATTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25554 original size:13 final size:13
Alignment explanation
Indices: 25536--25561 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25526 CCAGACTAGG
25536 AACCATAGTTTTT
1 AACCATAGTTTTT
25549 AACCATAGTTTTT
1 AACCATAGTTTTT
25562 TTGCCGTTGT
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:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
AACCATAGTTTTT
Found at i:26414 original size:2 final size:2
Alignment explanation
Indices: 26407--26431 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26397 CTTAAAACCA
26407 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
26432 TGTTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:30596 original size:30 final size:30
Alignment explanation
Indices: 30560--30620 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
30550 GCTCACCGTT
* *
30560 GAATT-AAACCTAACCGATCGGTCGAATTAA
1 GAATTAAAACCGAACCGATCGATCG-ATTAA
*
30590 GAATTAAAACCGAACCGTTCGATCGATTAA
1 GAATTAAAACCGAACCGATCGATCGATTAA
30620 G
1 G
30621 TATTGTTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (30 bp):
GAATTAAAACCGAACCGATCGATCGATTAA
Found at i:30798 original size:19 final size:19
Alignment explanation
Indices: 30774--30814 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
30764 TGATCAAATT
*
30774 GTTGAATCAGGAATTAAGG
1 GTTGAATCAGAAATTAAGG
*
30793 GTTGAATCAGAAATTGAGG
1 GTTGAATCAGAAATTAAGG
30812 GTT
1 GTT
30815 TGATTAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.32, T:0.29
Consensus pattern (19 bp):
GTTGAATCAGAAATTAAGG
Found at i:34620 original size:30 final size:29
Alignment explanation
Indices: 34584--34643 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
34574 ATGGGTTGTC
* * *
34584 CGACCCGTTGACCCGACCTGCTGACCCGAT
1 CGACCCGCTAACCCGACCCGCTGA-CCGAT
*
34614 CGACCCGCTAACTCGACCCGCTGACCGAT
1 CGACCCGCTAACCCGACCCGCTGACCGAT
34643 C
1 C
34644 CGACTTGACC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.18, C:0.45, G:0.22, T:0.15
Consensus pattern (29 bp):
CGACCCGCTAACCCGACCCGCTGACCGAT
Found at i:34704 original size:26 final size:25
Alignment explanation
Indices: 34673--34725 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
34663 CCGTTGACCA
34673 ACCGTTGA-CTGACCATTGACCTGTTG
1 ACCGTTGATC-GACCATTGACC-GTTG
*
34699 ACCGTTGATCGACCGTTGACCGTTG
1 ACCGTTGATCGACCATTGACCGTTG
34724 AC
1 AC
34726 TTTGACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 18 0.72
27 1 0.04
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (25 bp):
ACCGTTGATCGACCATTGACCGTTG
Found at i:39767 original size:15 final size:15
Alignment explanation
Indices: 39743--39777 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
39733 AATATCCATG
*
39743 AATAATAAAAATAAA
1 AATAAGAAAAATAAA
39758 AATAAGAAAAATAAA
1 AATAAGAAAAATAAA
39773 AATAA
1 AATAA
39778 ATTCTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
AATAAGAAAAATAAA
Found at i:44996 original size:788 final size:788
Alignment explanation
Indices: 43471--45051 Score: 3072
Period size: 788 Copynumber: 2.0 Consensus size: 788
43461 TTATATGATA
* *
43471 TGAGAGTTGTAGTTATAATTTGCATGCCAAGAGTCGATGGATTATAAGTGGTCCTTCGGGACAAA
1 TGAGAGCTATAGTTATAATTTGCATGCCAAGAGTCGATGGATTATAAGTGGTCCTTCGGGACAAA
43536 GTGGTCATTCGGGATAATTTTTCAGTGCCCCTAGTGGGAATTTATTCGAGATGTGGTGACAACAT
66 GTGGTCATTCGGGATAATTTTTCAGTGCCCCTAGTGGGAATTTATTCGAGATGTGGTGACAACAT
43601 TTGTGCACAACCTCAGTGTACTCAAGTACCTCCTGTTCTCAATAATGTACATGGGCATTTAAAGA
131 TTGTGCACAACCTCAGTGTACTCAAGTACCTCCTGTTCTCAATAATGTACATGGGCATTTAAAGA
43666 TAAATTGAATGTAAACTCTTATAATAAGTTAAGTTTTATATGTGTATACTATAATAGTATATGTT
196 TAAATTGAATGTAAACTCTTATAATAAGTTAAGTTTTATATGTGTATACTATAATAGTATATGTT
* *
43731 ATAGTTAGTAGATATATGTAAATTGTAATATTATGATTTATTGATAGTAGTACATGTTTCATAAA
261 ATAGTTAGTAGATATATGTAAATTATAATATTATGATTGATTGATAGTAGTACATGTTTCATAAA
*
43796 TTCGTGGTTACATATTATATTATGCCTATGTCTTTGACTTAGTGTGTAAGTGGTTTACACGTAGG
326 TTCATGGTTACATATTATATTATGCCTATGTCTTTGACTTAGTGTGTAAGTGGTTTACACGTAGG
43861 TACCAAAAAGCAGGAGGACCAGAATTAGAAGTTACAGAGACATCATACCTCTACTGGTAGATCAG
391 TACCAAAAAGCAGGAGGACCAGAATTAGAAGTTACAGAGACATCATACCTCTACTGGTAGATCAG
43926 ATCAGAAGTAATTTGTAAAGTATGCATTTTGTGGTATTAAATGTGTTGACATGTAAACAAGTTGT
456 ATCAGAAGTAATTTGTAAAGTATGCATTTTGTGGTATTAAATGTGTTGACATGTAAACAAGTTGT
43991 GAATTATACATAGTTTGATCAGTTTTGTAATATTTTGGTTTAACTTAAATAAATTAATGAATTTT
521 GAATTATACATAGTTTGATCAGTTTTGTAATATTTTGGTTTAACTTAAATAAATTAATGAATTTT
*
44056 ATTTAATGAAAATTTAGATTTTCATGATTTTTATAAGAGTCAAATTTTGAAAAGTAAAATGTGAC
586 ATATAATGAAAATTTAGATTTTCATGATTTTTATAAGAGTCAAATTTTGAAAAGTAAAATGTGAC
*
44121 ACCTCAGATTCGTATCCGGGTCGGGTACGGGTTAGGAGTGTTACATTTAATGGTATCAGAGCCAT
651 ACCTCAGATTCGTATCCGGGTCGGGTACGAGTTAGGAGTGTTACATTTAATGGTATCAGAGCCAT
44186 GGTTTAGCCGGTTCTAGGCGTAAACCTAAGTTTATAATAATTTTTAAATGTATATATGCCAACAA
716 GGTTTAGCCGGTTCTAGGCGTAAACCTAAGTTTATAATAATTTTTAAATGTATATATGCCAACAA
44251 AAAAATAG
781 AAAAATAG
44259 TGAGAGCTATAGTTATAATTTGCATGCCAAGAGTCGATGGATTATAAGTGGTCCTTCGGGACAAA
1 TGAGAGCTATAGTTATAATTTGCATGCCAAGAGTCGATGGATTATAAGTGGTCCTTCGGGACAAA
44324 GTGGTCATTCGGGATAATTTTTCAGTGCCCCTAGTGGGAATTTATTCGAGATGTGGTGACAACAT
66 GTGGTCATTCGGGATAATTTTTCAGTGCCCCTAGTGGGAATTTATTCGAGATGTGGTGACAACAT
44389 TTGTGCACAACCTCAGTGTACTCAAGTACCTCCTGTTCTCAATAATGTACATGGGCATTTAAAGA
131 TTGTGCACAACCTCAGTGTACTCAAGTACCTCCTGTTCTCAATAATGTACATGGGCATTTAAAGA
44454 TAAATTGAATGTAAACTCTTATAATAAGTTAAGTTTTATATGTGTATACTATAATAGTATATGTT
196 TAAATTGAATGTAAACTCTTATAATAAGTTAAGTTTTATATGTGTATACTATAATAGTATATGTT
*
44519 ATAGTTAGTAGATATATGTAAATTATAATATTATGATTGATTGATAGTAGTACATGTTTCATATA
261 ATAGTTAGTAGATATATGTAAATTATAATATTATGATTGATTGATAGTAGTACATGTTTCATAAA
*
44584 TTCATGGTTACATATTATATTATGCCTATGTCTTTGACTTAGTGTGTAAGTGGTTTACACGTTGG
326 TTCATGGTTACATATTATATTATGCCTATGTCTTTGACTTAGTGTGTAAGTGGTTTACACGTAGG
44649 TACCAAAAAGCAGGAGGACCAGAATTAGAAGTTACAGAGACATCATACCTCTACTGGTAGATCAG
391 TACCAAAAAGCAGGAGGACCAGAATTAGAAGTTACAGAGACATCATACCTCTACTGGTAGATCAG
44714 ATCAGAAGTAATTTGTAAAGTATGCATTTTGTGGTATTAAATGTGTTGACATGTAAACAAGTTGT
456 ATCAGAAGTAATTTGTAAAGTATGCATTTTGTGGTATTAAATGTGTTGACATGTAAACAAGTTGT
44779 GAATTATACATAGTTTGATCAGTTTTGTAATATTTTGGTTTAACTTAAATAAATTAATGAATTTT
521 GAATTATACATAGTTTGATCAGTTTTGTAATATTTTGGTTTAACTTAAATAAATTAATGAATTTT
44844 ATATAATGAAAATTTAGATTTTCATGATTTTTATAAGAGTCAAATTTTGAAAAGTAAAATGTGAC
586 ATATAATGAAAATTTAGATTTTCATGATTTTTATAAGAGTCAAATTTTGAAAAGTAAAATGTGAC
44909 ACCTCAGATTCGTATCCGGGTCGGGTACGAGTTAGGAGTGTTACATTTAATGGTATCAGAGCCAT
651 ACCTCAGATTCGTATCCGGGTCGGGTACGAGTTAGGAGTGTTACATTTAATGGTATCAGAGCCAT
*
44974 GGTTTAGCCGGTTCTAGGCGTAAACCTAAGTTTATAATGATTTTTAAATGTATATATGCCAACAA
716 GGTTTAGCCGGTTCTAGGCGTAAACCTAAGTTTATAATAATTTTTAAATGTATATATGCCAACAA
45039 AAAAATAG
781 AAAAATAG
45047 TGAGA
1 TGAGA
45052 ACTTATGATC
Statistics
Matches: 783, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
788 783 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (788 bp):
TGAGAGCTATAGTTATAATTTGCATGCCAAGAGTCGATGGATTATAAGTGGTCCTTCGGGACAAA
GTGGTCATTCGGGATAATTTTTCAGTGCCCCTAGTGGGAATTTATTCGAGATGTGGTGACAACAT
TTGTGCACAACCTCAGTGTACTCAAGTACCTCCTGTTCTCAATAATGTACATGGGCATTTAAAGA
TAAATTGAATGTAAACTCTTATAATAAGTTAAGTTTTATATGTGTATACTATAATAGTATATGTT
ATAGTTAGTAGATATATGTAAATTATAATATTATGATTGATTGATAGTAGTACATGTTTCATAAA
TTCATGGTTACATATTATATTATGCCTATGTCTTTGACTTAGTGTGTAAGTGGTTTACACGTAGG
TACCAAAAAGCAGGAGGACCAGAATTAGAAGTTACAGAGACATCATACCTCTACTGGTAGATCAG
ATCAGAAGTAATTTGTAAAGTATGCATTTTGTGGTATTAAATGTGTTGACATGTAAACAAGTTGT
GAATTATACATAGTTTGATCAGTTTTGTAATATTTTGGTTTAACTTAAATAAATTAATGAATTTT
ATATAATGAAAATTTAGATTTTCATGATTTTTATAAGAGTCAAATTTTGAAAAGTAAAATGTGAC
ACCTCAGATTCGTATCCGGGTCGGGTACGAGTTAGGAGTGTTACATTTAATGGTATCAGAGCCAT
GGTTTAGCCGGTTCTAGGCGTAAACCTAAGTTTATAATAATTTTTAAATGTATATATGCCAACAA
AAAAATAG
Found at i:50124 original size:35 final size:35
Alignment explanation
Indices: 50085--50152 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
50075 GCATTCATGA
50085 GGTATCGATACCTGAAGAACAGTATCGATACCAAG
1 GGTATCGATACCTGAAGAACAGTATCGATACCAAG
* * **
50120 GGTATCGATACCTTAAGGATGGTATCGATACCA
1 GGTATCGATACCTGAAGAACAGTATCGATACCA
50153 TCTTTGAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (35 bp):
GGTATCGATACCTGAAGAACAGTATCGATACCAAG
Found at i:65260 original size:3 final size:3
Alignment explanation
Indices: 65252--65327 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
65242 CTTCAAATGC
*
65252 ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
65300 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
65328 CGTTTCAAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:66376 original size:38 final size:38
Alignment explanation
Indices: 66325--66402 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
66315 CTCACTATTA
* *
66325 TGCCTTACTGTAGTCCGATTATTCTAGAATTTTTTCCT
1 TGCCTTACTGTAGTCCGACTATTCTAGAACTTTTTCCT
* *
66363 TGCCTTACTGTAGTCCGACTATTTTGGAACTTTTTCCT
1 TGCCTTACTGTAGTCCGACTATTCTAGAACTTTTTCCT
66401 TG
1 TG
66403 TCTTTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (38 bp):
TGCCTTACTGTAGTCCGACTATTCTAGAACTTTTTCCT
Found at i:69215 original size:16 final size:16
Alignment explanation
Indices: 69196--69254 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
69186 AATAGTAACC
69196 AAATTAAAGAAAGAGA
1 AAATTAAAGAAAGAGA
*
69212 AAATTAGAATTAATAGAGA
1 AAATTA-AA-GAA-AGAGA
*
69231 CCAAATTAAAGAAAGGGA
1 --AAATTAAAGAAAGAGA
69249 AAATTA
1 AAATTA
69255 GAATTAATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 12 0.34
17 2 0.06
18 6 0.17
19 7 0.20
20 2 0.06
21 6 0.17
ACGTcount: A:0.61, C:0.03, G:0.17, T:0.19
Consensus pattern (16 bp):
AAATTAAAGAAAGAGA
Found at i:69215 original size:31 final size:34
Alignment explanation
Indices: 69166--69289 Score: 114
Period size: 37 Copynumber: 3.6 Consensus size: 34
69156 TACCGAATTA
*
69166 AAATT-AAGAAA-AGCAAAATTAA-TAGT-A-ACC
1 AAATTAAAGAAAGAG-AAAATTAATTAATAAGACC
69196 AAATTAAAGAAAGAGAAAATTAGAATTAATAGAGACC
1 AAATTAAAGAAAGAGAAAATT--AATTAATA-AGACC
* *
69233 AAATTAAAGAAAGGGAAAATTAGAATTAATAGTGACC
1 AAATTAAAGAAAGAGAAAATT--AATTAATA-AGACC
*
69270 AAATTAAAGAAAGGGAAAAT
1 AAATTAAAGAAAGAGAAAAT
69290 CAGAATACAT
Statistics
Matches: 83, Mismatches: 3, Indels: 9
0.87 0.03 0.09
Matches are distributed among these distances:
30 5 0.06
31 12 0.14
32 2 0.02
33 2 0.02
34 3 0.04
36 1 0.01
37 58 0.70
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (34 bp):
AAATTAAAGAAAGAGAAAATTAATTAATAAGACC
Found at i:69223 original size:37 final size:37
Alignment explanation
Indices: 69182--69295 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
69172 AGAAAAGCAA
*
69182 AATTAATAGTAACCAAATTAAAGAAAGAGAAAATTAG
1 AATTAATAGTAACCAAATTAAAGAAAGGGAAAATTAG
69219 AATTAATAG-AGACCAAATTAAAGAAAGGGAAAATTAG
1 AATTAATAGTA-ACCAAATTAAAGAAAGGGAAAATTAG
* *
69256 AATTAATAGTGACCAAATTAAAGAAAGGGAAAATCAG
1 AATTAATAGTAACCAAATTAAAGAAAGGGAAAATTAG
69293 AAT
1 AAT
69296 ACATATTCGA
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
36 1 0.01
37 71 0.99
ACGTcount: A:0.57, C:0.06, G:0.17, T:0.20
Consensus pattern (37 bp):
AATTAATAGTAACCAAATTAAAGAAAGGGAAAATTAG
Found at i:69238 original size:21 final size:21
Alignment explanation
Indices: 69212--69275 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
69202 AAGAAAGAGA
69212 AAATTAGAATTAATAGAGACC
1 AAATTAGAATTAATAGAGACC
* *
69233 AAATTA-AA-GAA-AGGGA--
1 AAATTAGAATTAATAGAGACC
*
69249 AAATTAGAATTAATAGTGACC
1 AAATTAGAATTAATAGAGACC
69270 AAATTA
1 AAATTA
69276 AAGAAAGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
16 6 0.18
17 2 0.06
18 6 0.18
19 6 0.18
20 2 0.06
21 12 0.35
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.23
Consensus pattern (21 bp):
AAATTAGAATTAATAGAGACC
Found at i:69560 original size:6 final size:6
Alignment explanation
Indices: 69543--69614 Score: 108
Period size: 6 Copynumber: 11.8 Consensus size: 6
69533 TAAATTAAAT
* * *
69543 AAAACCC AAAATC AAAATC AAAATC AAAACC AAAACC AAAACC AAAACC
1 AAAA-CC AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC
69592 AAAACC AAAACC AAAACC AAAAC
1 AAAACC AAAACC AAAACC AAAAC
69615 TAAACCCCCA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
6 59 0.94
7 4 0.06
ACGTcount: A:0.67, C:0.29, G:0.00, T:0.04
Consensus pattern (6 bp):
AAAACC
Found at i:71466 original size:16 final size:16
Alignment explanation
Indices: 71445--71534 Score: 58
Period size: 16 Copynumber: 5.6 Consensus size: 16
71435 CCTACGTACT
*
71445 TACGTATGTACATATA
1 TACGTACGTACATATA
71461 TACGTACGTACATATGAA
1 TACGTACGTACATAT--A
* *
71479 TA--TACATACATACA
1 TACGTACGTACATATA
* ** *
71493 TACATATATACATACA
1 TACGTACGTACATATA
** *
71509 TACGTACGTATGTACA
1 TACGTACGTACATATA
71525 TACGTACGTA
1 TACGTACGTA
71535 GGTTCAAGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
14 3 0.05
16 55 0.90
18 3 0.05
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (16 bp):
TACGTACGTACATATA
Found at i:71487 original size:4 final size:4
Alignment explanation
Indices: 71480--71511 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
71470 ACATATGAAT
*
71480 ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
71512 GTACGTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:71532 original size:20 final size:20
Alignment explanation
Indices: 71445--71534 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
71435 CCTACGTACT
* *
71445 TACGTATGTACATATATACG
1 TACGTACGTACATATATACA
* *
71465 TACGTACATATGA-ATATACA
1 TACGTACGTA-CATATATACA
* *
71485 TACATACATACATATATACA
1 TACGTACGTACATATATACA
* * *
71505 TACATACGTACGTATGTACA
1 TACGTACGTACATATATACA
71525 TACGTACGTA
1 TACGTACGTA
71535 GGTTCAAGGA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
19 1 0.02
20 56 0.97
21 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (20 bp):
TACGTACGTACATATATACA
Found at i:94773 original size:25 final size:25
Alignment explanation
Indices: 94746--94795 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
94736 ACAAAAAAAA
94746 TTTATAATTTTATTTTTAAAAATTAT
1 TTTATAATTTTA-TTTTAAAAATTAT
* *
94772 TTTTTACTTTTATTTTAAAAATTA
1 TTTATAATTTTATTTTAAAAATTA
94796 GGGTGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTATAATTTTATTTTAAAAATTAT
Found at i:95911 original size:55 final size:56
Alignment explanation
Indices: 95845--95955 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
95835 AAGGTAAAAT
95845 AATCATTAAATTAC-TTTTAAATAATTTGTTT-AAGTGTTAACTTTTTTAGTTATAA
1 AATCATTAAATTACTTTTTAAATAA-TTGTTTCAAGTGTTAACTTTTTTAGTTATAA
95900 AATCATTAAATTACTTTTTAAATAATTGTTTCAAGTGTTAACTTTTTTAGTTATAA
1 AATCATTAAATTACTTTTTAAATAATTGTTTCAAGTGTTAACTTTTTTAGTTATAA
95956 TAAGTGTAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
55 20 0.37
56 34 0.63
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.50
Consensus pattern (56 bp):
AATCATTAAATTACTTTTTAAATAATTGTTTCAAGTGTTAACTTTTTTAGTTATAA
Found at i:95994 original size:11 final size:10
Alignment explanation
Indices: 95970--96030 Score: 54
Period size: 11 Copynumber: 6.0 Consensus size: 10
95960 TGTAAAATTC
95970 AATAA-ATTT
1 AATAATATTT
95979 AATAATTATTT
1 AATAA-TATTT
*
95990 TATAATAGTTT
1 AATAATA-TTT
*
96001 AATAAAATTT
1 AATAATATTT
96011 AATAATTATTT
1 AATAA-TATTT
*
96022 TATAA-ATTT
1 AATAATATTT
96031 TAAAAGTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 9 0.21
10 10 0.23
11 24 0.56
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
AATAATATTT
Found at i:96015 original size:21 final size:20
Alignment explanation
Indices: 95962--96033 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
95952 ATAATAAGTG
*
95962 TAAAATTCAATAA-ATTTAA
1 TAAAATTTAATAATATTTAA
* *
95981 TAATTATTTTATAATAGTTTAA
1 TAA-AATTTAATAATA-TTTAA
*
96003 TAAAATTTAATAATTATTTTA
1 TAAAATTTAATAA-TATTTAA
*
96024 TAAATTTTAA
1 TAAAATTTAA
96034 AAGTTTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 3 0.07
20 7 0.17
21 22 0.52
22 10 0.24
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (20 bp):
TAAAATTTAATAATATTTAA
Found at i:99649 original size:20 final size:20
Alignment explanation
Indices: 99624--99669 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
99614 CAAACCACAT
*
99624 ATATTTTAATGACATATTTC
1 ATATTTCAATGACATATTTC
*
99644 ATATTTCAGTGACATATTTC
1 ATATTTCAATGACATATTTC
99664 ATATTT
1 ATATTT
99670 AGGATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.50
Consensus pattern (20 bp):
ATATTTCAATGACATATTTC
Found at i:106681 original size:20 final size:20
Alignment explanation
Indices: 106656--106698 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
106646 TCTAAGAGCA
*
106656 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
106676 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
106696 CAT
1 CAT
106699 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:106969 original size:27 final size:27
Alignment explanation
Indices: 106928--106979 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
106918 TATTTTCACG
*
106928 GGATCTCTGACCATGATCGAGAAATCT
1 GGATCTCTGACCATGACCGAGAAATCT
*
106955 GGATCTCTGATCATGACCGAGAAAT
1 GGATCTCTGACCATGACCGAGAAAT
106980 TCGCCTGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (27 bp):
GGATCTCTGACCATGACCGAGAAATCT
Found at i:114388 original size:13 final size:13
Alignment explanation
Indices: 114367--114403 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
114357 CCCACTTACT
114367 TTTCACTTTTCAC
1 TTTCACTTTTCAC
* *
114380 TTTCTCTTTTTAC
1 TTTCACTTTTCAC
114393 TTTCACTTTTC
1 TTTCACTTTTC
114404 TAGTTTCCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.11, C:0.27, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTCACTTTTCAC
Found at i:117063 original size:20 final size:20
Alignment explanation
Indices: 117022--117064 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
117012 TCTAAGAGCA
*
117022 CATTTAGGACTATTTAGATG
1 CATTTAGGACTATATAGATG
*
117042 CATTTAGGAGC-ATATAGTTG
1 CATTTAGGA-CTATATAGATG
117062 CAT
1 CAT
117065 ATGGTGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGACTATATAGATG
Found at i:117335 original size:27 final size:27
Alignment explanation
Indices: 117295--117347 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
117285 ATTTTCACGG
117295 GATCTCTGACCATGACCGAGAAATCCA
1 GATCTCTGACCATGACCGAGAAATCCA
* *
117322 GATCTCTGATCATGGCCGAGAAATCC
1 GATCTCTGACCATGACCGAGAAATCC
117348 GCCTGGATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (27 bp):
GATCTCTGACCATGACCGAGAAATCCA
Found at i:124603 original size:24 final size:23
Alignment explanation
Indices: 124576--124643 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
124566 AATTATGTTC
*
124576 TGATACATTATCTGAATTCTATTA
1 TGATAC-TGATCTGAATTCTATTA
* * *
124600 TGATTTCTGATCTGGATTCTGTTA
1 TGA-TACTGATCTGAATTCTATTA
124624 TGATATCTGATCTGAATTCT
1 TGATA-CTGATCTGAATTCT
124644 GTTTTGATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 1 0.03
24 33 0.92
25 2 0.06
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (23 bp):
TGATACTGATCTGAATTCTATTA
Found at i:124658 original size:24 final size:24
Alignment explanation
Indices: 124585--124658 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
124575 CTGATACATT
*
124585 ATCTGAATTCTATTATGATTTCTG
1 ATCTGAATTCTGTTATGATTTCTG
* *
124609 ATCTGGATTCTGTTATGATATCTG
1 ATCTGAATTCTGTTATGATTTCTG
* *
124633 ATCTGAATTCTGTTTTGATTTTTG
1 ATCTGAATTCTGTTATGATTTCTG
124657 AT
1 AT
124659 ATCTCCGTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (24 bp):
ATCTGAATTCTGTTATGATTTCTG
Found at i:128815 original size:343 final size:345
Alignment explanation
Indices: 128179--128854 Score: 1176
Period size: 343 Copynumber: 2.0 Consensus size: 345
128169 CTACCTTTAA
* *
128179 AAGTTACGTAACACAACTTAAGTCAGTTGATCAATCTTAATGATATGTCAATACCTGAAAAGCAT
1 AAGTTACGGAACACAACTTAAGTCAATTGATCAATCTTAATGATATGTCAATACCTGAAAAGCAT
* *
128244 AGATGTTACTTGAATGCATGTTCATCTTCTCAAGTGTGGCTCGATGATAGTTTTGGAAATATTCA
66 AGATGTTACTTGAATACATGTTCATCTTCTCAAGTGTGACTCGATGATAGTTTTGGAAATATTCA
128309 GCTCAGATCAACTCTATATCGTATTCAGTATTATGAATTGGATAATTGTTCGACAAATCAACCAT
131 GC-C--ATCAACTCTATATCGTATTCAGTATTATGAATTGGATAATTGTTCGACAAATCAACCAT
*
128374 GAAGAGCAAACTGAACTGAAAGGAAGTACAATATGTATCCAAAATTCAGAGACGTCCAAATTAAT
193 GAAGAGCAAACTGAACTGAAAGGAAGTACAATATGTATCCAAAATTCAGAGACATCCAAATTAAT
*
128439 CTAGAAAACTCCTAAGTAACTGGAATAGATTTGACTGCTAAATGAACTAGGTAACCTCAATGACT
258 CTAGAAAACTCCGAAGTAACTGGAATAGATTTGACTGCTAAATGAACTAGGTAACCTCAATGACT
128504 GAGGATTTAGTAAGTGATTTAGT
323 GAGGATTTAGTAAGTGATTTAGT
* * * *
128527 AAGTTACGGAACATAGCTTAAGTGAATTGATCAATCTTAATGATATGTCAATACCTGAAAGGCAT
1 AAGTTACGGAACACAACTTAAGTCAATTGATCAATCTTAATGATATGTCAATACCTGAAAAGCAT
*
128592 AGATGTTACTTGAATACATGTTCATCTTTTCAAGTGTGACTCGATGATAGTTTTGGAAATATTCA
66 AGATGTTACTTGAATACATGTTCATCTTCTCAAGTGTGACTCGATGATAGTTTTGGAAATATTCA
* *
128657 G-C-TCAACTCTATATCTTATTTAGTATTATGAATTGGATAATTGTTCGACAAATCAACCATGAA
131 GCCATCAACTCTATATCGTATTCAGTATTATGAATTGGATAATTGTTCGACAAATCAACCATGAA
*
128720 GAGCAAACTGAACTGAAAGGAAGTACAATATGTATCCAAAATTCAGAGACATCCAAATTAATCTG
196 GAGCAAACTGAACTGAAAGGAAGTACAATATGTATCCAAAATTCAGAGACATCCAAATTAATCTA
*
128785 GAAAACTCCGAAGTAACTGGAATCGATTTGACTGCTAAATGAACTAGGTAACCTCAATGACTGAG
261 GAAAACTCCGAAGTAACTGGAATAGATTTGACTGCTAAATGAACTAGGTAACCTCAATGACTGAG
128850 GATTT
326 GATTT
128855 CAAGATATCG
Statistics
Matches: 313, Mismatches: 15, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
343 190 0.61
346 1 0.00
348 122 0.39
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (345 bp):
AAGTTACGGAACACAACTTAAGTCAATTGATCAATCTTAATGATATGTCAATACCTGAAAAGCAT
AGATGTTACTTGAATACATGTTCATCTTCTCAAGTGTGACTCGATGATAGTTTTGGAAATATTCA
GCCATCAACTCTATATCGTATTCAGTATTATGAATTGGATAATTGTTCGACAAATCAACCATGAA
GAGCAAACTGAACTGAAAGGAAGTACAATATGTATCCAAAATTCAGAGACATCCAAATTAATCTA
GAAAACTCCGAAGTAACTGGAATAGATTTGACTGCTAAATGAACTAGGTAACCTCAATGACTGAG
GATTTAGTAAGTGATTTAGT
Found at i:129269 original size:12 final size:12
Alignment explanation
Indices: 129249--129318 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
129239 GATACATTAC
*
129249 CTGAATTCTGTT
1 CTGATTTCTGTT
*
129261 CTGATTTCTGAT
1 CTGATTTCTGTT
129273 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* * *
129285 ATGATATCTGAT
1 CTGATTTCTGTT
*
129297 CTGAATTCTGTT
1 CTGATTTCTGTT
*
129309 TTGATTTCTG
1 CTGATTTCTG
129319 ATATCTCCAT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:129287 original size:48 final size:48
Alignment explanation
Indices: 129229--129320 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
129219 TCCGAATTGA
*
129229 ATTCTGTTATGATA-CATTACCTGAATTCTGTTCTGATTTCTGATCTGG
1 ATTCTGTTATGATATC-TGACCTGAATTCTGTTCTGATTTCTGATCTGG
* *
129277 ATTCTGTTATGATATCTGATCTGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTATGATATCTGACCTGAATTCTGTTCTGATTTCTGAT
129321 ATCTCCATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.49
Consensus pattern (48 bp):
ATTCTGTTATGATATCTGACCTGAATTCTGTTCTGATTTCTGATCTGG
Found at i:129318 original size:24 final size:24
Alignment explanation
Indices: 129226--129320 Score: 111
Period size: 24 Copynumber: 4.0 Consensus size: 24
129216 ATTTCCGAAT
* * *
129226 TGAATTCTGTTATGA-TACATTACC
1 TGAATTCTGTTATGATTTC-TGATC
*
129250 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTATGATTTCTGATC
* *
129274 TGGATTCTGTTATGATATCTGATC
1 TGAATTCTGTTATGATTTCTGATC
*
129298 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTATGATTTCTGAT
129321 ATCTCCATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 58 0.97
25 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATC
Found at i:130310 original size:24 final size:23
Alignment explanation
Indices: 130272--130320 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
130262 ATACGTTATC
*
130272 GCTCCTTCGGTTTTATTCCCTCG
1 GCTCCTTCGGTTTTAATCCCTCG
*
130295 GCTCCTTTTGGTTTTAATCCCTCG
1 GCTCC-TTCGGTTTTAATCCCTCG
130319 GC
1 GC
130321 CGTTAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.06, C:0.33, G:0.18, T:0.43
Consensus pattern (23 bp):
GCTCCTTCGGTTTTAATCCCTCG
Found at i:131344 original size:8 final size:9
Alignment explanation
Indices: 131330--131377 Score: 55
Period size: 8 Copynumber: 5.2 Consensus size: 9
131320 TTTACCCTTT
131330 TATTTTTAA
1 TATTTTTAA
131339 TATTTTATGAA
1 TATTTT-T-AA
131350 TA-TTTTAA
1 TATTTTTAA
131358 TACTTTTTAA
1 TA-TTTTTAA
131368 TA-TTTTAA
1 TATTTTTAA
131376 TA
1 TA
131378 ATTTCTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 12 0.34
9 7 0.20
10 12 0.34
11 4 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (9 bp):
TATTTTTAA
Found at i:131371 original size:18 final size:19
Alignment explanation
Indices: 131333--131377 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
131323 ACCCTTTTAT
131333 TTTTAATATTTTATGAATA
1 TTTTAATATTTTATGAATA
131352 TTTTAATACTTTT-T-AATA
1 TTTTAATA-TTTTATGAATA
131370 TTTTAATA
1 TTTTAATA
131378 ATTTCTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.48
19 9 0.36
20 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTAATATTTTATGAATA
Found at i:131990 original size:23 final size:23
Alignment explanation
Indices: 131958--132124 Score: 196
Period size: 23 Copynumber: 7.3 Consensus size: 23
131948 AGACGAATGA
*
131958 AAGAAGAAGAAATGGGTTTATGG
1 AAGAAGAAGAAATGAGTTTATGG
* **
131981 AAGAAAAAGAAATGTCTTTATGG
1 AAGAAGAAGAAATGAGTTTATGG
* * *
132004 AAAAAGAAGAAAGGGGTTTATGG
1 AAGAAGAAGAAATGAGTTTATGG
** *
132027 AATCAGAAGAAACGAGTTTATGG
1 AAGAAGAAGAAATGAGTTTATGG
132050 AAGAAGAAGAAATGAGTTTATGG
1 AAGAAGAAGAAATGAGTTTATGG
132073 AAGAAGAAGAAA--ATGTTTATGG
1 AAGAAGAAGAAATGA-GTTTATGG
*
132095 AAGAAGAAGAAA-CATGTTTATGG
1 AAGAAGAAGAAATGA-GTTTATGG
132118 AAGAAGA
1 AAGAAGA
132125 GGAATGGTTC
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
21 1 0.01
22 20 0.16
23 106 0.83
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (23 bp):
AAGAAGAAGAAATGAGTTTATGG
Found at i:135120 original size:15 final size:16
Alignment explanation
Indices: 135100--135144 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
135090 CCGTACTACT
135100 AAAAAGAAAAA-AAAG
1 AAAAAGAAAAAGAAAG
135115 AAAAAGAAAAAGAAA-
1 AAAAAGAAAAAGAAAG
*
135130 AAGAAGAAAAAGAAA
1 AAAAAGAAAAAGAAA
135145 CATGGAAGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 25 0.89
16 3 0.11
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAG
Found at i:135126 original size:21 final size:21
Alignment explanation
Indices: 135100--135144 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
135090 CCGTACTACT
135100 AAAAAGAAAAAAAAGAAAAAG
1 AAAAAGAAAAAAAAGAAAAAG
*
135121 AAAAAGAAAAAGAAGAAAAAG
1 AAAAAGAAAAAAAAGAAAAAG
135142 AAA
1 AAA
135145 CATGGAAGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAAAAGAAAAAG
Found at i:135144 original size:6 final size:6
Alignment explanation
Indices: 135109--135134 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
135099 TAAAAAGAAA
135109 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
135135 GAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:138072 original size:3 final size:3
Alignment explanation
Indices: 138064--138106 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
138054 ATGTTATTAA
138064 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
138107 TGAATATGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:141207 original size:289 final size:289
Alignment explanation
Indices: 140687--141268 Score: 1112
Period size: 289 Copynumber: 2.0 Consensus size: 289
140677 GGTCGTTTCC
140687 ATTATCATAGCCATTCCATTATGCTTAACACTTTAAGCGTATCATCGTCATTTCATTCAAATCTA
1 ATTATCATAGCCATTCCATTATGCTTAACACTTTAAGCGTATCATCGTCATTTCATTCAAATCTA
140752 TCAGTGGCATACTTTCGATAAGTTAGGCTTAAATGCAATTTAGTTCCTTTAACATTCAGGGTATT
66 TCAGTGGCATACTTTCGATAAGTTAGGCTTAAATGCAATTTAGTTCCTTTAACATTCAGGGTATT
140817 TTGTTTCTTTGATCGTTGGAGGTTATTATAGTTATTACGAAGATAAAGGACATTTCAGTAATTTC
131 TTGTTTCTTTGATCGTTGGAGGTTATTATAGTTATTACGAAGATAAAGGACATTTCAGTAATTTC
140882 TTTAAATTTAATCATATGCAATTTCTATGATAATTAGTCAAGTATGTCCTTTTAGAGTTATTTTT
196 TTTAAATTTAATCATATGCAATTTCTATGATAATTAGTCAAGTATGTCCTTTTAGAGTTA-TTTT
140947 CACCATCTGGGAAAGTCTTAGTCCTTTTAT
260 CACCATCTGGGAAAGTCTTAGTCCTTTTAT
*
140977 ATTATCATAGCCATTCCATTATGCTTAACACTTTAAGCGTATCATTGTCATTTCATTCAAATCTA
1 ATTATCATAGCCATTCCATTATGCTTAACACTTTAAGCGTATCATCGTCATTTCATTCAAATCTA
*
141042 TCAGTGGCATACTTTGGATAAGTTAGGCTT-AATGCAATTTAGTTCCTTTAACATTCAGGGTATT
66 TCAGTGGCATACTTTCGATAAGTTAGGCTTAAATGCAATTTAGTTCCTTTAACATTCAGGGTATT
*
141106 TTGTTTCTTTGATCGTTGGAGGTTATTATAGTTATTACGAAGATCAAGGACATTTCAGTAATTTC
131 TTGTTTCTTTGATCGTTGGAGGTTATTATAGTTATTACGAAGATAAAGGACATTTCAGTAATTTC
141171 TTTAAATTTAATCATATGCAATTTCTATGATAATTAGTCAAGTATGTCCTTTTAGAGTTATTTTC
196 TTTAAATTTAATCATATGCAATTTCTATGATAATTAGTCAAGTATGTCCTTTTAGAGTTATTTTC
*
141236 ACCATCTGGGAAAGTCTTAGTCCTTTTCT
261 ACCATCTGGGAAAGTCTTAGTCCTTTTAT
141265 ATTA
1 ATTA
141269 CAAGGGCATT
Statistics
Matches: 288, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
288 37 0.13
289 158 0.55
290 93 0.32
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (289 bp):
ATTATCATAGCCATTCCATTATGCTTAACACTTTAAGCGTATCATCGTCATTTCATTCAAATCTA
TCAGTGGCATACTTTCGATAAGTTAGGCTTAAATGCAATTTAGTTCCTTTAACATTCAGGGTATT
TTGTTTCTTTGATCGTTGGAGGTTATTATAGTTATTACGAAGATAAAGGACATTTCAGTAATTTC
TTTAAATTTAATCATATGCAATTTCTATGATAATTAGTCAAGTATGTCCTTTTAGAGTTATTTTC
ACCATCTGGGAAAGTCTTAGTCCTTTTAT
Found at i:146014 original size:4 final size:5
Alignment explanation
Indices: 146004--146047 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
145994 TTTAAAATGC
*
146004 AAAAT -AAAT -AAAT TAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
146048 GCGAACAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
4 11 0.31
5 25 0.69
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:146016 original size:22 final size:21
Alignment explanation
Indices: 145987--146047 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
145977 AACAACTAAG
145987 TAAA-AAATT-TAAAATGCAAAA
1 TAAATAAATTATAAAAT--AAAA
146008 TAAATAAATTAATAAAATAAAA
1 TAAATAAATT-ATAAAATAAAA
146030 TAAAATAAA--ATAAAATAA
1 T-AAATAAATTATAAAATAA
146048 GCGAACAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 9 0.25
21 4 0.11
22 10 0.28
23 7 0.19
24 6 0.17
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (21 bp):
TAAATAAATTATAAAATAAAA
Found at i:146028 original size:5 final size:5
Alignment explanation
Indices: 146018--146047 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
146008 TAAATAAATT
146018 AATAA AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA
146048 GCGAACAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:146595 original size:6 final size:6
Alignment explanation
Indices: 146584--146617 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
146574 CCTATTTCAA
146584 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
146618 CTCTCCCAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:147490 original size:118 final size:117
Alignment explanation
Indices: 147364--147638 Score: 334
Period size: 117 Copynumber: 2.3 Consensus size: 117
147354 GATTTGAGTA
* ** * * * *
147364 AAAGGTTAAACAAATTCTTCTCATTATGAACCTCTTCTCCCTCTTTGGATAAGTTATTCTCATTA
1 AAAGGTTAAACAAGTTCTTCTCATTATGAAATTCTTCTCCCTCTTCGAACAAGATATTCTCATTA
* * *
147429 TGAACTCTTTTATTGAAAATGATGATCCACCTCTTTTTGTGATGGAATCGAGC
66 TGAACTC-TTCATTGAAAATGATGATCCACCTCCTTCTGTGATGGAATCGAGC
* * * * * * *
147482 CAATGTTAAACAAGTTCTTCTCATTATGAAATTTTTATCACTCTTCGAACGAGATCTTCTCATTA
1 AAAGGTTAAACAAGTTCTTCTCATTATGAAATTCTTCTCCCTCTTCGAACAAGATATTCTCATTA
* * *
147547 TGAACTCTTCATTGGAAATGATGATCCACCTCCTTCTGTGATGGATTTGAGC
66 TGAACTCTTCATTGAAAATGATGATCCACCTCCTTCTGTGATGGAATCGAGC
* * *
147599 AAAGGTTGAACAAGTTCTTCTCATTGTGAATTTCTTCTCC
1 AAAGGTTAAACAAGTTCTTCTCATTATGAAATTCTTCTCC
147639 TTTTTCGTTC
Statistics
Matches: 129, Mismatches: 28, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
117 71 0.55
118 58 0.45
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (117 bp):
AAAGGTTAAACAAGTTCTTCTCATTATGAAATTCTTCTCCCTCTTCGAACAAGATATTCTCATTA
TGAACTCTTCATTGAAAATGATGATCCACCTCCTTCTGTGATGGAATCGAGC
Found at i:147619 original size:117 final size:117
Alignment explanation
Indices: 147254--147628 Score: 367
Period size: 118 Copynumber: 3.2 Consensus size: 117
147244 TTCTAAGCTC
* * * * *
147254 CAAGTTCTTCTCATTATGAACTCTTCACTCTTCTGTTCGGACGAGTTCTTCTCATTATGAACCCT
1 CAAGTTCTTCTCATTATGAACTTTTTA-TC-ACTCTTCGGACGAGTTCTTCTCATTATGAACTCT
** * * * ** *
147319 TCCATT-GAAATGACAACCCATCT-CATCTTGTGACAGATTTGAGTAAAAGGTTAAA
64 T-CATTGGAAATGATGATCCACCTCCTTC-TGTGATGGATTTGAG-CAAAGGTTAAA
* * * * * * ** *
147374 CAAATTCTTCTCATTATGAACCTCTTCTCCCTCTTTGGATAAGTTATTCTCATTATGAACTCTTT
1 CAAGTTCTTCTCATTATGAACTTTTTATCACTCTTCGGACGAGTTCTTCTCATTATGAACTC-TT
* * * * * * * *
147439 TATTGAAAATGATGATCCACCTCTTTTTGTGATGGAATCGAGCCAATGTTAAA
65 CATTGGAAATGATGATCCACCTCCTTCTGTGATGGATTTGAGCAAAGGTTAAA
* * *
147492 CAAGTTCTTCTCATTATGAAATTTTTATCACTCTTCGAACGAGATCTTCTCATTATGAACTCTTC
1 CAAGTTCTTCTCATTATGAACTTTTTATCACTCTTCGGACGAGTTCTTCTCATTATGAACTCTTC
*
147557 ATTGGAAATGATGATCCACCTCCTTCTGTGATGGATTTGAGCAAAGGTTGAA
66 ATTGGAAATGATGATCCACCTCCTTCTGTGATGGATTTGAGCAAAGGTTAAA
*
147609 CAAGTTCTTCTCATTGTGAA
1 CAAGTTCTTCTCATTATGAA
147629 TTTCTTCTCC
Statistics
Matches: 201, Mismatches: 51, Indels: 9
0.77 0.20 0.03
Matches are distributed among these distances:
117 65 0.32
118 87 0.43
119 27 0.13
120 22 0.11
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (117 bp):
CAAGTTCTTCTCATTATGAACTTTTTATCACTCTTCGGACGAGTTCTTCTCATTATGAACTCTTC
ATTGGAAATGATGATCCACCTCCTTCTGTGATGGATTTGAGCAAAGGTTAAA
Found at i:148989 original size:9 final size:9
Alignment explanation
Indices: 148969--149003 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
148959 TTTAACCCTC
148969 ATTTTCTTTT
1 ATTTT-TTTT
148979 ATTTTTTTT
1 ATTTTTTTT
148988 ATTTTTTTT
1 ATTTTTTTT
148997 ATTTTTT
1 ATTTTTT
149004 ATTTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:148996 original size:13 final size:14
Alignment explanation
Indices: 148969--149014 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
148959 TTTAACCCTC
*
148969 ATTTTCTTTTATTTT
1 ATTTTATTTT-TTTT
148984 -TTTTATTTTTTTT
1 ATTTTATTTTTTTT
*
148997 ATTTT-TTATTTTT
1 ATTTTATTTTTTTT
149010 ATTTT
1 ATTTT
149015 CTCTTTCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.85
Consensus pattern (14 bp):
ATTTTATTTTTTTT
Found at i:158852 original size:21 final size:21
Alignment explanation
Indices: 158819--158858 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
158809 TTCTAAGTTT
*
158819 TCCTTCGGGATATATATGTAA
1 TCCTTCGGAATATATATGTAA
*
158840 TCCTTTGGAATATATATGT
1 TCCTTCGGAATATATATGT
158859 GGTTCTTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (21 bp):
TCCTTCGGAATATATATGTAA
Found at i:158898 original size:21 final size:21
Alignment explanation
Indices: 158843--158901 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
158833 TATGTAATCC
*
158843 TTTGGAATATATATGTGGTTC
1 TTTGGAATATATATGTGGTTA
* * * * *
158864 TTCGGGACACATATTTGGTTA
1 TTTGGAATATATATGTGGTTA
158885 TTTGGAATATATATGTG
1 TTTGGAATATATATGTG
158902 ATCCTTAAGG
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (21 bp):
TTTGGAATATATATGTGGTTA
Found at i:158939 original size:21 final size:21
Alignment explanation
Indices: 158913--158991 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
158903 TCCTTAAGGA
158913 GTGGTCATTCGGGACATCA-AT
1 GTGGTCATTCGGGACAT-ATAT
* *
158934 GTGGTCCTTTGGGACATATAT
1 GTGGTCATTCGGGACATATAT
* * *
158955 GTGCTCATTCTGGACAAATAT
1 GTGGTCATTCGGGACATATAT
* *
158976 GTAGTCCTTCGGGACA
1 GTGGTCATTCGGGACA
158992 AATTCTATGT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 1 0.02
21 45 0.98
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (21 bp):
GTGGTCATTCGGGACATATAT
Found at i:163785 original size:108 final size:106
Alignment explanation
Indices: 163596--163840 Score: 298
Period size: 108 Copynumber: 2.3 Consensus size: 106
163586 TAGTCACTAC
* *
163596 ATATGACCAAAGTGTAAAAACACGCTGAACTTATAGGGACTAAACAATAAATAGACCAAAAAAAC
1 ATATGACCAAAATGTAAAAACACGCT-AACTTAGAGGGACTAAACAATAAATAGACCAAAAAAAC
163661 ATAACATGCAAGG-AAAAGGGAAAATAAT-GATTTCAGTCCTCAT
65 ATAACATGCAAGGAAAAAGGGAAAATAATAGATTT-AGTCC-C-T
* * * * *
163704 ATATGACCAAAATGCAAAAACACGCTAACGTTAGAGGGACTAAACAGTGAATATACCAAAAATTA
1 ATATGACCAAAATGTAAAAACACGCTAAC-TTAGAGGGACTAAACAATAAATAGACCAAAAA-AA
* * *
163769 TATAACATGTAA-GAAAAAGGGAAAATAATAGATTTGGTCCCT
64 CATAACATGCAAGGAAAAAGGGAAAATAATAGATTTAGTCCCT
*
163811 ATAGGTGCCCAAAATGTAAAAACACGCTAA
1 ATA--TGACCAAAATGTAAAAACACGCTAA
163841 ACCTAGAAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
107 7 0.06
108 54 0.45
109 53 0.45
110 5 0.04
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (106 bp):
ATATGACCAAAATGTAAAAACACGCTAACTTAGAGGGACTAAACAATAAATAGACCAAAAAAACA
TAACATGCAAGGAAAAAGGGAAAATAATAGATTTAGTCCCT
Found at i:163832 original size:109 final size:107
Alignment explanation
Indices: 163596--163840 Score: 307
Period size: 109 Copynumber: 2.3 Consensus size: 107
163586 TAGTCACTAC
* *
163596 ATATGACCAAAGTGTAAAAACACGCTGAACTTATAGGGACTAAACAATAAATAGACCAAAAAAAC
1 ATATGACCAAAATGTAAAAACACGCT-AACTTAGAGGGACTAAACAATAAATAGACCAAAAAAAC
*
163661 ATAACATGCAAGGAAAAGGGAAAATAATGATTTCAGTCCTCAT
65 ATAACATGCAAGAAAAAGGGAAAATAATGATTTCAGTCCTCAT
* * * * *
163704 ATATGACCAAAATGCAAAAACACGCTAACGTTAGAGGGACTAAACAGTGAATATACCAAAAATTA
1 ATATGACCAAAATGTAAAAACACGCTAAC-TTAGAGGGACTAAACAATAAATAGACCAAAAA-AA
* * *
163769 TATAACATGTAAGAAAAAGGGAAAATAATAGATTT-GGTCC-C-T
64 CATAACATGCAAGAAAAAGGGAAAATAAT-GATTTCAGTCCTCAT
*
163811 ATAGGTGCCCAAAATGTAAAAACACGCTAA
1 ATA--TGACCAAAATGTAAAAACACGCTAA
163841 ACCTAGAAGA
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
107 7 0.06
108 53 0.45
109 54 0.45
110 5 0.04
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (107 bp):
ATATGACCAAAATGTAAAAACACGCTAACTTAGAGGGACTAAACAATAAATAGACCAAAAAAACA
TAACATGCAAGAAAAAGGGAAAATAATGATTTCAGTCCTCAT
Found at i:164809 original size:23 final size:23
Alignment explanation
Indices: 164783--164827 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
164773 GGTTAGGGTA
*
164783 GGCTTCGAGTTGGGTTTGGTTTG
1 GGCTCCGAGTTGGGTTTGGTTTG
*
164806 GGCTCCGAGTTGGGTTTTGTTT
1 GGCTCCGAGTTGGGTTTGGTTT
164828 TGGGTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.04, C:0.11, G:0.40, T:0.44
Consensus pattern (23 bp):
GGCTCCGAGTTGGGTTTGGTTTG
Found at i:166329 original size:27 final size:27
Alignment explanation
Indices: 166271--166330 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
166261 GAAATGACTG
*
166271 AAATACCCCTGAACTCCAAAATGAACA
1 AAATACCCATGAACTCCAAAATGAACA
* * ** *
166298 GAATACCCATGAACTTCAACTTGATCA
1 AAATACCCATGAACTCCAAAATGAACA
166325 AAATAC
1 AAATAC
166331 TCTAAGCTCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.27, G:0.08, T:0.20
Consensus pattern (27 bp):
AAATACCCATGAACTCCAAAATGAACA
Found at i:169657 original size:12 final size:12
Alignment explanation
Indices: 169642--169735 Score: 97
Period size: 12 Copynumber: 8.1 Consensus size: 12
169632 CCTCCGCCTA
*
169642 CTCCTCCACCTC
1 CTCCCCCACCTC
*
169654 CTCCCCCACCAC
1 CTCCCCCACCTC
169666 CAT---C-ACCTC
1 C-TCCCCCACCTC
169675 CTCCCCCACCTC
1 CTCCCCCACCTC
* *
169687 CTCCACCACCCC
1 CTCCCCCACCTC
169699 CTCCCCCACCTC
1 CTCCCCCACCTC
* *
169711 CACCACCACCTC
1 CTCCCCCACCTC
169723 CTCCCCCACCTC
1 CTCCCCCACCTC
169735 C
1 C
169736 ACCACCTCCT
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
8 1 0.02
9 5 0.08
10 1 0.02
11 1 0.02
12 57 0.86
13 1 0.02
ACGTcount: A:0.14, C:0.71, G:0.00, T:0.15
Consensus pattern (12 bp):
CTCCCCCACCTC
Found at i:169696 original size:24 final size:23
Alignment explanation
Indices: 169642--169753 Score: 124
Period size: 24 Copynumber: 5.0 Consensus size: 23
169632 CCTCCGCCTA
*
169642 CTCCTCCACCTCCTCCCCCA--C
1 CTCCACCACCTCCTCCCCCACCC
* *
169663 CACCATCACCTCCTCCCCCACCTC
1 CTCCACCACCTCCTCCCCCACC-C
*
169687 CTCCACCACCCCCTCCCCCACCTC
1 CTCCACCACCTCCTCCCCCACC-C
*
169711 CACCACCACCTCCTCCCCCA--C
1 CTCCACCACCTCCTCCCCCACCC
*
169732 CTCCACCACCTCCTCCACCACC
1 CTCCACCACCTCCTCCCCCACC
169754 GGCAGGTCCC
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
21 36 0.47
24 40 0.53
ACGTcount: A:0.15, C:0.71, G:0.00, T:0.14
Consensus pattern (23 bp):
CTCCACCACCTCCTCCCCCACCC
Found at i:169746 original size:12 final size:12
Alignment explanation
Indices: 169669--169753 Score: 104
Period size: 12 Copynumber: 7.3 Consensus size: 12
169659 CCACCACCAT
*
169669 CACCTCCTCCCC
1 CACCTCCTCCAC
169681 CACCTCCTCCAC
1 CACCTCCTCCAC
* *
169693 CACCCCCTCCCC
1 CACCTCCTCCAC
*
169705 CACCTCCACCAC
1 CACCTCCTCCAC
169717 CACCTCCT-C-C
1 CACCTCCTCCAC
*
169727 C-CCACCTCCAC
1 CACCTCCTCCAC
169738 CACCTCCTCCAC
1 CACCTCCTCCAC
169750 CACC
1 CACC
169754 GGCAGGTCCC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
9 5 0.08
10 3 0.05
11 3 0.05
12 50 0.82
ACGTcount: A:0.15, C:0.72, G:0.00, T:0.13
Consensus pattern (12 bp):
CACCTCCTCCAC
Found at i:174085 original size:25 final size:25
Alignment explanation
Indices: 174050--174099 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
174040 GGTATTGGTC
*
174050 ACCCTGTCCCCGTTTAAAAAATCCAT
1 ACCCTGTCCCCGCTTAAAAAA-CCAT
174076 ACCC-GTCCCCGCTTAAAAAACCAT
1 ACCCTGTCCCCGCTTAAAAAACCAT
174100 GGGGATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 15 0.65
26 4 0.17
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.22
Consensus pattern (25 bp):
ACCCTGTCCCCGCTTAAAAAACCAT
Found at i:174293 original size:2 final size:2
Alignment explanation
Indices: 174282--174313 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
174272 AAATTTATTA
174282 AT AT -T 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
174314 ATTATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:174987 original size:3 final size:3
Alignment explanation
Indices: 174981--175006 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
174971 AATTATTATT
174981 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
175007 TGTAAACTAG
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:175307 original size:82 final size:82
Alignment explanation
Indices: 175138--175726 Score: 802
Period size: 82 Copynumber: 7.2 Consensus size: 82
175128 GGGAAATCTT
* * * * *
175138 CTCCACTCTTCTTTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTTCGGGTAGTCAGATCAA
1 CTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTC-TTTTTCGGGTATTCAGATCAA
* *
175203 TTTTAGAAGACGGGTCTG
65 TTTTGGAAGACGTGTCTG
* * * * *
175221 CTCCACTATTCATTTAGGGGAGATCAAACTTGATATGTTCCTCTTTTTTGGGTAGTCAGATTAAT
1 CTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTTTTTCGGGTATTCAGATCAAT
* * *
175286 TTTAGAAGACTTGTCTA
66 TTTGGAAGACGTGTCTG
* * * * *
175303 CTCCACTATTCATTCAAGAGAGATCATACTTGATTTGTGCCTCTTTTTTGGGTATTCAGATCAAT
1 CTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTTTTTCGGGTATTCAGATCAAT
175368 TTTGGAAGACGTGTCTG
66 TTTGGAAGACGTGTCTG
* * * *
175385 CTCCACTATTCATTCAGAGGAGATCATACTTGATTTGTGCCTCTTTTTCGGGTATTCATATCAAT
1 CTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTTTTTCGGGTATTCAGATCAAT
* *
175450 TTTGGAAAACGTATCTG
66 TTTGGAAGACGTGTCTG
* * * * * *
175467 CTCCTCTATTTATTCAGAGGAGATCAAACTTGATATGTGCCTGTTTTTCAGGTATTCATATCAAT
1 CTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTTTTTCGGGTATTCAGATCAAT
175532 TTTGGAAGACGTGTCTG
66 TTTGGAAGACGTGTCTG
* *
175549 CTTCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTTTTTCGGGTAGTCAGATCAAT
1 CTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTTTTTCGGGTATTCAGATCAAT
175614 TTTGGAAGACGTGTCTG
66 TTTGGAAGACGTGTCTG
* * * *
175631 CTCCACTATTCATTCAAGGGAGACCAGACTTGATCTGTGCCTCTTTTTCGGGTATTCAGATCAAT
1 CTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTTTTTCGGGTATTCAGATCAAT
*
175696 TTTGGATA-ACATGTCTG
66 TTTGGA-AGACGTGTCTG
175713 CTCCACTATTCATT
1 CTCCACTATTCATT
175727 TAGAGGATCA
Statistics
Matches: 453, Mismatches: 52, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
82 415 0.92
83 38 0.08
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (82 bp):
CTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTTTTTCGGGTATTCAGATCAAT
TTTGGAAGACGTGTCTG
Found at i:176050 original size:62 final size:62
Alignment explanation
Indices: 175972--176137 Score: 206
Period size: 62 Copynumber: 2.7 Consensus size: 62
175962 GTTAAGTATG
* * * * *
175972 GACTCTGTTGGAGAGTCATGAATAACAAAGGTTGATTTCTCTTCACAATGAAGTCAAGGATT
1 GACTCTATTGGGGAGTCAGGAATAACAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGATT
* *
176034 GACTCTATTGGGGAGTCAGGGATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATT
1 GACTCTATTGGGGAGTCAGGAATAACAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGATT
* * * * * **
176096 GACTCTAATGGGAAATCAGGGATAATAAAAATTGACTTCTCT
1 GACTCTATTGGGGAGTCAGGAATAACAAAGGTTGACTTCTCT
176138 GAGTAAGTCA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 91 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (62 bp):
GACTCTATTGGGGAGTCAGGAATAACAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGATT
Found at i:183168 original size:15 final size:14
Alignment explanation
Indices: 183147--183188 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
183137 AACTCTATCC
183147 CTTTCATTTCTTAT
1 CTTTCATTTCTTAT
*
183161 CATTTCATTTC-AAT
1 C-TTTCATTTCTTAT
183175 CTTTCATTTCTTAT
1 CTTTCATTTCTTAT
183189 TTTATTAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 9 0.38
14 6 0.25
15 9 0.38
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (14 bp):
CTTTCATTTCTTAT
Found at i:183462 original size:62 final size:63
Alignment explanation
Indices: 183361--183525 Score: 169
Period size: 62 Copynumber: 2.7 Consensus size: 63
183351 TACTGGGATA
* * * * *
183361 CATGAATAATC-AAGGTTGACTTCTCTTCACGAGGGAGTCAAAT-AGTGACTATACTGGAGAGT
1 CATGAATAA-CAAAGATTGACTTCTCTTTACGAAGAAGTCAAATAAGTGACTAGACTGGAGAGT
* * * * *
183423 CA-GTAATAAGAAA-ATTTGACTTCTTTTTACGAAGAAGTC-AATAATTGACTCGACTGGGGAGT
1 CATG-AATAACAAAGA-TTGACTTCTCTTTACGAAGAAGTCAAATAAGTGACTAGACTGGAGAGT
*
183485 CATGAATAACAAAGATTAACTTCTCTTTACGAAGAAGTCAA
1 CATGAATAACAAAGATTGACTTCTCTTTACGAAGAAGTCAA
183526 GAATTAACTC
Statistics
Matches: 83, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
61 4 0.05
62 76 0.92
63 3 0.04
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.28
Consensus pattern (63 bp):
CATGAATAACAAAGATTGACTTCTCTTTACGAAGAAGTCAAATAAGTGACTAGACTGGAGAGT
Found at i:185539 original size:29 final size:28
Alignment explanation
Indices: 185498--185661 Score: 136
Period size: 29 Copynumber: 5.7 Consensus size: 28
185488 AAAGAATGTT
* *
185498 TTTTTGTAAATTACATTAAAGGACAAAAC
1 TTTTTATAAATTACAATAAAGGA-AAAAC
* * *
185527 TTTTTATAAATTACAATAATGGATAGATC
1 TTTTTATAAATTACAATAAAGGA-AAAAC
* *
185556 TTTTTATAAATTACAATAGAGG-ATAAC
1 TTTTTATAAATTACAATAAAGGAAAAAC
*
185583 TTTATTTATAAATTACAATAGAA-GAAAAATA
1 -TT-TTTATAAATTACAATA-AAGGAAAAA-C
** *
185614 TTTTTATAAATTTGAATAGA-GAACAAATC
1 TTTTTATAAATTACAATAAAGGAA-AAA-C
185643 TTTTTATAAATTACAATAA
1 TTTTTATAAATTACAATAA
185662 TGACATGATT
Statistics
Matches: 109, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.03
28 6 0.06
29 94 0.86
30 6 0.06
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (28 bp):
TTTTTATAAATTACAATAAAGGAAAAAC
Found at i:185566 original size:58 final size:58
Alignment explanation
Indices: 185498--185688 Score: 178
Period size: 58 Copynumber: 3.3 Consensus size: 58
185488 AAAGAATGTT
* * * * * *
185498 TTTTTGTAAATTACATTAAAGGACAAAACTTTTTATAAATTACAATAATGGATAGATC
1 TTTTTATAAATTACAATAGAGGACAAAACTTTTTATAAATTACAATAATGGAAAAATA
* *
185556 TTTTTATAAATTACAATAGAGG--ATAACTTTATTTATAAATTACAATAGA-AGAAAAATA
1 TTTTTATAAATTACAATAGAGGACAAAAC-TT-TTTATAAATTACAATA-ATGGAAAAATA
** * * *
185614 TTTTTATAAATTTGAATAGAGAACAAATCTTTTTATAAATTACAATAAT-G--ACATGA
1 TTTTTATAAATTACAATAGAGGACAAAACTTTTTATAAATTACAATAATGGAAAAAT-A
*
185670 TTTTTACAAATTACAATAG
1 TTTTTATAAATTACAATAG
185689 CAACTCATAT
Statistics
Matches: 109, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
55 3 0.03
56 21 0.19
57 4 0.04
58 75 0.69
59 3 0.03
60 3 0.03
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (58 bp):
TTTTTATAAATTACAATAGAGGACAAAACTTTTTATAAATTACAATAATGGAAAAATA
Found at i:185701 original size:28 final size:28
Alignment explanation
Indices: 185643--185734 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 28
185633 AGAACAAATC
* **
185643 TTTTTATAAATTACAATAATGA--CATGA
1 TTTTTACAAATTACAATAACAACTCAT-A
*
185670 TTTTTACAAATTACAATAGCAACTCATA
1 TTTTTACAAATTACAATAACAACTCATA
* *
185698 TTTTTACACATTGCAATAACAACTCATA
1 TTTTTACAAATTACAATAACAACTCATA
185726 TTTTTACAA
1 TTTTTACAA
185735 CCATTACATT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 18 0.33
28 34 0.62
29 3 0.05
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.39
Consensus pattern (28 bp):
TTTTTACAAATTACAATAACAACTCATA
Found at i:187300 original size:116 final size:115
Alignment explanation
Indices: 187170--187404 Score: 292
Period size: 116 Copynumber: 2.0 Consensus size: 115
187160 CATTAAAATG
* * * * * *
187170 AATGATTTAATTTTTTTTAAATTACACTAAGGTGATAAGTCAAACTCGACATAGATA-GAGTTTA
1 AATGATTTAATTTTTTTAAAATTACACTAAGGTGACAAGTCAAACTCGACAAAAATAGGACTGTA
* * ** * *
187234 TGTCAAGTCCTACAGATGACTAGATCAAAGTCATCCATTTTTATTTTTTAAA
66 T-T-AAGACCTACAAACAACTAGATCAAACTCATCCATTTTTATTTTTAAAA
* **
187286 AATGATTTAGTTTTTTTAAAATTACACTAAGGTGACAAGTCAGGCTCGACAAAAATAGGGACTGT
1 AATGATTTAATTTTTTTAAAATTACACTAAGGTGACAAGTCAAACTCGACAAAAATA-GGACTGT
*
187351 ATTAGGACCTACAAACAACTAGATCAAACTCATCCATTTTTATTTTTAAAA
65 ATTAAGACCTACAAACAACTAGATCAAACTCATCCATTTTTATTTTTAAAA
187402 AAT
1 AAT
187405 AAATAAAAAT
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
116 94 0.93
117 1 0.01
118 6 0.06
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (115 bp):
AATGATTTAATTTTTTTAAAATTACACTAAGGTGACAAGTCAAACTCGACAAAAATAGGACTGTA
TTAAGACCTACAAACAACTAGATCAAACTCATCCATTTTTATTTTTAAAA
Found at i:187454 original size:16 final size:16
Alignment explanation
Indices: 187433--187485 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
187423 TAATATTATA
187433 ATATTTTTAAATAAAT
1 ATATTTTTAAATAAAT
*
187449 ATATTTTT--CTAAAT
1 ATATTTTTAAATAAAT
187463 ATAATTCTTTAAA-AAAT
1 AT-ATT-TTTAAATAAAT
187480 -TATTTT
1 ATATTTT
187486 GATTTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 9 0.29
15 6 0.19
16 12 0.39
17 4 0.13
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTTTTAAATAAAT
Found at i:187567 original size:21 final size:21
Alignment explanation
Indices: 187528--187567 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
187518 TCTATTATAA
*
187528 TTATTTTTAAAAACTAAAGAT
1 TTATTTTTAAAAACAAAAGAT
187549 TTATTTTTATAAAA-AAAAG
1 TTATTTTTA-AAAACAAAAG
187568 GTAAAAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
TTATTTTTAAAAACAAAAGAT
Found at i:189442 original size:14 final size:14
Alignment explanation
Indices: 189421--189455 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
189411 TCTTTCTTCT
189421 TCTT-TTTTTCATC
1 TCTTCTTTTTCATC
189434 TCTTCTTTTTCATC
1 TCTTCTTTTTCATC
189448 TC-TCTTTT
1 TCTTCTTTT
189456 CTTTATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.69
Consensus pattern (14 bp):
TCTTCTTTTTCATC
Found at i:189479 original size:13 final size:13
Alignment explanation
Indices: 189461--189486 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
189451 CTTTTCTTTA
189461 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
189474 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
189487 GGTAGATGAG
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:194698 original size:14 final size:14
Alignment explanation
Indices: 194681--194707 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
194671 AATACCTTTT
194681 AAAATAATTTTAAG
1 AAAATAATTTTAAG
194695 AAAATAATTTTAA
1 AAAATAATTTTAA
194708 AAGATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAATAATTTTAAG
Found at i:198780 original size:10 final size:9
Alignment explanation
Indices: 198764--198800 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
198754 TATTTTATCT
198764 AAAAATAAA
1 AAAAATAAA
198773 ATAAAATAATA
1 A-AAAATAA-A
198784 AAAAATAAA
1 AAAAATAAA
198793 AAAAATAA
1 AAAAATAA
198801 TCTAATAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 10 0.38
10 14 0.54
11 2 0.08
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAATAAA
Found at i:198787 original size:19 final size:19
Alignment explanation
Indices: 198764--198801 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
198754 TATTTTATCT
198764 AAAAATAAAATAAAATAATA
1 AAAAATAAAA-AAAATAATA
198784 AAAAATAAAAAAAATAAT
1 AAAAATAAAAAAAATAAT
198802 CTAATAACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAATAAAAAAAATAATA
Found at i:200800 original size:17 final size:16
Alignment explanation
Indices: 200768--200814 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
200758 AGAAAGAGAA
200768 AAAAAAGCGTTAAAAAT
1 AAAAAA-CGTTAAAAAT
*
200785 GAAAAACGTTACAAAAT
1 AAAAAACGTTA-AAAAT
*
200802 AAAAAAAGTTAAA
1 AAAAAACGTTAAA
200815 TTTCAAAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (16 bp):
AAAAAACGTTAAAAAT
Found at i:200910 original size:26 final size:27
Alignment explanation
Indices: 200833--200940 Score: 75
Period size: 26 Copynumber: 4.1 Consensus size: 27
200823 GGAAAAAAGG
* *
200833 AAAAA-TAAAATAAAATAAAAAAATAA-
1 AAAAAGTAAAA-AAAAGAAAATAATAAT
* ** *
200859 AAAAAGT-TAAATGAGAAAA-ACTAAT
1 AAAAAGTAAAAAAAAGAAAATAATAAT
*
200884 AAAAAG-AAAAAAAACGAAAATGA-AAT
1 AAAAAGTAAAAAAAA-GAAAATAATAAT
* *
200910 AAAAGGTTAAAAAAAGAAAATAATAAT
1 AAAAAGTAAAAAAAAGAAAATAATAAT
200937 AAAA
1 AAAA
200941 TAAAGGTTGA
Statistics
Matches: 62, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
24 4 0.06
25 16 0.26
26 27 0.44
27 15 0.24
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (27 bp):
AAAAAGTAAAAAAAAGAAAATAATAAT
Found at i:202414 original size:39 final size:37
Alignment explanation
Indices: 202122--202480 Score: 225
Period size: 38 Copynumber: 9.5 Consensus size: 37
202112 AAACATTTTT
* **
202122 AAAATTATATAATATATATGTTTTTCAAAAATAGTTTTC-
1 AAAACTATATAATATATA-CATTTTC-AAAAT-GTTTTCA
* ** * *
202161 AAAATTATAT-ATATATATTTTTTAAAAATAATTTTC-
1 AAAACTATATAATATATACATTTTCAAAAT-GTTTTCA
* * *
202197 AAAACTATAATATATATATAC-TTTTAAAAATAATTTTTA
1 AAAACTAT-ATA-ATATATACATTTTCAAAAT-GTTTTCA
* * * *
202236 AAAATATATATAATATATA-TTTTTTAAATTTGTTTTC-
1 AAAA-CTATATAATATATACATTTTCAAA-ATGTTTTCA
** *
202273 AAAAC--TATAATATATATTTTTTCAAAAATATTTTCA
1 AAAACTATATAATATATACATTTTC-AAAATGTTTTCA
* * **
202309 AAAACTATATTATATAAATGTTTTCAAAATGTTTT-A
1 AAAACTATATAATATATACATTTTCAAAATGTTTTCA
* **
202345 AAAACCATATATTATATATATGTTTTCAAAATGTTTTTCAA
1 AAAA-C-TATATAATATATACATTTTCAAAATG-TTTTC-A
* *
202386 AAAACTATATAATATATACATTTCCAAAAACCGTTTTCA
1 AAAACTATATAATATATACATTTTC-AAAA-TGTTTTCA
*
202425 AAAACTATATATTATATATACATTTTCAAAATGTTTT-G
1 AAAACTATATA--ATATATACATTTTCAAAATGTTTTCA
*
202463 AAAACTATATATTATATA
1 AAAACTATATAATATATA
202481 TTTTCGAAAA
Statistics
Matches: 270, Mismatches: 29, Indels: 45
0.78 0.08 0.13
Matches are distributed among these distances:
34 11 0.04
35 11 0.04
36 37 0.14
37 21 0.08
38 92 0.34
39 62 0.23
40 17 0.06
41 19 0.07
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (37 bp):
AAAACTATATAATATATACATTTTCAAAATGTTTTCA
Found at i:203584 original size:84 final size:85
Alignment explanation
Indices: 202973--203979 Score: 1355
Period size: 85 Copynumber: 11.9 Consensus size: 85
202963 CACCATGTGG
* * * * *
202973 TTGATATGCCATCGAGCTGAATGGAATCAAACTCGAAGG----TATTGACAGATAACCCTTCTCG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
*
203034 CCTTGAGCTATGCTGTAAAT
66 CCTTGAGTTATGCTGTAAAT
* * * *
203054 TTGATATGCCTTTGAGCTGAATGTAATCGAATTTGAAGGTATTTGCTGACAGATAACCCTTCTCG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
203119 CCTTGAGTTATGCTGTAAAT
66 CCTTGAGTTATGCTGTAAAT
* * * * *
203139 TTGTTATGCCTTTGAGCTGAATGTAATTGAACTCGAAGGTCTTTGCTGACATATAACCCTTTTCG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
*
203204 CCTTGAGTTATGCTATAAAT
66 CCTTGAGTTATGCTGTAAAT
* *
203224 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGCTGACAAATAACCCTTCTCG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
203289 CCTTGAGTTATGCTGTAAAT
66 CCTTGAGTTATGCTGTAAAT
* *
203309 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAAGTCTTTTGTTGACAGATAGCCCTTCTC
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTC
203374 GCCTTGAGTTATGCTGTAAAT
65 GCCTTGAGTTATGCTGTAAAT
* * * * * *
203395 TTGATATGCCTTTAAGTTGAATGTAATCGAACTCGAAGGACTTTTGTTGATAGATAACCCTTTTT
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTC
*
203460 GCCTTGAGTTATGCTATAAAT
65 GCCTTGAGTTATGCTGTAAAT
* * * * * * *
203481 TTGATGTGCCTTTGAGCTGAATGTAATCGAATTCAAAGGTCTTGGTTGACATATAGCCCTTCTAG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
*
203546 CCTTGAGCTATGCTGTAAA-
66 CCTTGAGTTATGCTGTAAAT
* * *
203565 TAGATATGCCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTTCTCG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
*
203630 CCTTGAGTTATACTGTAAAT
66 CCTTGAGTTATGCTGTAAAT
* * * * *
203650 TTGATGTGCCTTTGAGTTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGACT-GCCCTTCTA
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGA-TAACCCTTCTC
* *
203714 TCCTTGAGCTATGCTGTAAA-
65 GCCTTGAGTTATGCTGTAAAT
* * * * *
203734 TAGATATGCCTTTGAGCTGAATGTAATCGAACTTGAAGGTCTTGGTTGACAGATAGCCCTTCTAG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
* *
203799 CCTTGAGCTATGTTGTAAA-
66 CCTTGAGTTATGCTGTAAAT
* * * *
203818 TAGATATGTCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTAGTTGACAGATAACCCTTCTAG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
*
203883 CCTTGAGCTATGCTGTAAAT
66 CCTTGAGTTATGCTGTAAAT
* * * * * *
203903 TTGATATGCCTTTGAGCTGAATGTAATCAAACTTGAAGGTCTTTGTCGATAGATAGCCCTTCTTG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
203968 CCTTGAGTTATG
66 CCTTGAGTTATG
203980 TTGCCAATGG
Statistics
Matches: 830, Mismatches: 87, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
81 33 0.04
83 1 0.00
84 231 0.28
85 411 0.50
86 154 0.19
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (85 bp):
TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
CCTTGAGTTATGCTGTAAAT
Found at i:203659 original size:169 final size:170
Alignment explanation
Indices: 202973--203979 Score: 1373
Period size: 169 Copynumber: 6.0 Consensus size: 170
202963 CACCATGTGG
* * * * * *
202973 TTGATATGCCATCGAGCTGAATGGAATCAAACTCGAAGG---T-ATTGACAGATAACCCTTCTCG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTAG
* * *
203034 CCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAATTTGAAGGTATTTG
66 CCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTG
*
203099 CTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
131 TTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
* * * * * * *
203139 TTGTTATGCCTTTGAGCTGAATGTAATTGAACTCGAAGGTCTTTGCTGACATATAACCCTTTTCG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTAG
* *
203204 CCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTG
66 CCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTG
* *
203269 CTGACAAATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
131 TTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
* * * *
203309 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAAGTCTTTTGTTGACAGATAGCCCTTCTC
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTA
* * * *
203374 GCCTTGAGTTATGCTGTAAATTTGATATGCCTTTAAGTTGAATGTAATCGAACTCGAAGGACTTT
65 GCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TT
* * * *
203439 TGTTGATAGATAACCCTTTTTGCCTTGAGTTATGCTATAAAT
129 TGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
* * * * *
203481 TTGATGTGCCTTTGAGCTGAATGTAATCGAATTCAAAGGTCTTGGTTGACATATAGCCCTTCTAG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTAG
* * *
203546 CCTTGAGCTATGCTGTAAA-TAGATATGCCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTGG
66 CCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTG
*
203610 TTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAAT
131 TTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
* * *
203650 TTGATGTGCCTTTGAGTTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGACT-GCCCTTCTA
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGA-TAACCCTTCTA
* * * *
203714 TCCTTGAGCTATGCTGTAAA-TAGATATGCCTTTGAGCTGAATGTAATCGAACTTGAAGGTCTTG
65 GCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTT
* * * *
203778 GTTGACAGATAGCCCTTCTAGCCTTGAGCTATGTTGTAAA-
130 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
* * *
203818 TAGATATGTCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTAGTTGACAGATAACCCTTCTAG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTAG
* *
203883 CCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTTGAAGGTCTTTG
66 CCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTG
* * * *
203948 TCGATAGATAGCCCTTCTTGCCTTGAGTTATG
131 TTGACAGATAACCCTTCTCGCCTTGAGTTATG
203980 TTGCCAATGG
Statistics
Matches: 754, Mismatches: 78, Indels: 15
0.89 0.09 0.02
Matches are distributed among these distances:
166 33 0.04
167 1 0.00
168 75 0.10
169 263 0.35
170 191 0.25
171 116 0.15
172 75 0.10
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (170 bp):
TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTAG
CCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTG
TTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
Found at i:204189 original size:44 final size:43
Alignment explanation
Indices: 204053--204189 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 43
204043 TTCAAGTGGT
204053 TCCCCTTAACGGGTCTGAACCAAGTGAGATGATCTTTGGATGAC
1 TCCCCTT-ACGGGTCTGAACCAAGTGAGATGATCTTTGGATGAC
* * ** * * * * **
204097 TCTCATTCACGGG--AAAACCATGTG-GTAT-ATTCCTCGGGTGGT
1 TCCCCTT-ACGGGTCTGAACCAAGTGAG-ATGA-TCTTTGGATGAC
204139 TCCCCTTAGCGGGTCTGAACCAAGTGAGATGATCTTTGGATGAC
1 TCCCCTTA-CGGGTCTGAACCAAGTGAGATGATCTTTGGATGAC
204183 TCCCCTT
1 TCCCCTT
204190 CATGGGAAAG
Statistics
Matches: 65, Mismatches: 21, Indels: 14
0.65 0.21 0.14
Matches are distributed among these distances:
41 3 0.05
42 26 0.40
44 34 0.52
45 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (43 bp):
TCCCCTTACGGGTCTGAACCAAGTGAGATGATCTTTGGATGAC
Found at i:205581 original size:99 final size:98
Alignment explanation
Indices: 205409--205617 Score: 348
Period size: 99 Copynumber: 2.1 Consensus size: 98
205399 GGGACAACTC
***
205409 AATATTATAATCACATTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCGTTTAACCAAT
1 AATATTATAATCACATTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAAGGCGTTTAACCAAT
* *
205474 TGCTTTAGAGGGACAGCTCAAGCTTTATTTTAT
66 TGCTTTAGAGGGACAGCTCAAGCTCTATTGTAT
205507 AGATATTATAATCATC-TTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAAGGCGTTTAACCA
1 A-ATATTATAATCA-CATTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAAGGCGTTTAACCA
205571 ATTGCTTTAGAGGGACAGCTCAAGCTCTATTGTAT
64 ATTGCTTTAGAGGGACAGCTCAAGCTCTATTGTAT
205606 AATATTATAATC
1 AATATTATAATC
205618 TGGGTATACA
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
98 12 0.12
99 91 0.88
100 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (98 bp):
AATATTATAATCACATTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAAGGCGTTTAACCAAT
TGCTTTAGAGGGACAGCTCAAGCTCTATTGTAT
Found at i:208544 original size:13 final size:14
Alignment explanation
Indices: 208528--208556 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
208518 AAAATAAAAT
208528 AAAATGAAA-GAAA
1 AAAATGAAAGGAAA
208541 AAAATGAAAGGAAA
1 AAAATGAAAGGAAA
208555 AA
1 AA
208557 GTTAGTGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATGAAAGGAAA
Found at i:209715 original size:16 final size:15
Alignment explanation
Indices: 209687--209734 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
209677 GCAAAGAAAG
*
209687 ATAAAAAACGTTAAA
1 ATAAAAAATGTTAAA
*
209702 ATGGAAAAATGTTACAAA
1 AT-AAAAAATGTT--AAA
209720 ATAAAAAATGTTAAA
1 ATAAAAAATGTTAAA
209735 TTTCAGAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 5 0.19
16 8 0.30
17 9 0.33
18 5 0.19
ACGTcount: A:0.62, C:0.04, G:0.10, T:0.23
Consensus pattern (15 bp):
ATAAAAAATGTTAAA
Found at i:209777 original size:11 final size:11
Alignment explanation
Indices: 209753--209789 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
209743 GGAAAAAAGG
209753 AAAATAAAAT-
1 AAAATAAAATA
209763 AAAATAAAATA
1 AAAATAAAATA
209774 AAAATAAGAA-A
1 AAAATAA-AATA
209785 AAAAT
1 AAAAT
209790 GTTAAATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.40
11 13 0.52
12 2 0.08
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:211098 original size:38 final size:37
Alignment explanation
Indices: 211055--211445 Score: 213
Period size: 40 Copynumber: 10.1 Consensus size: 37
211045 AATAAATGAA
*
211055 ATATGTTTTCAAAAAATATTTTTAAAATTATATAATAT
1 ATATGTTTTC-AAAAATATTTTCAAAATTATATAATAT
*
211093 ATATGTTTTTTCAAACATAATTTTCAAAACTATATATATATAT
1 ATATG--TTTTCAAAAAT-ATTTTCAAAA-T-TATATA-ATAT
* * *
211136 ATATATATT-AAAAATAATTTTCAAAACTATA-ATATAT
1 ATATGTTTTCAAAAAT-ATTTTCAAAATTATATA-ATAT
*
211173 ATATACTTTT-AAAAATAATTTTCAAAACTATATATAATAT
1 ATAT-GTTTTCAAAAAT-ATTTTCAAAA-T-TATATAATAT
* * * ** * * *
211213 ATTTTTTTTGAAATTTGTTTTTAAAA--CTATAATAT
1 ATATGTTTTCAAAAATATTTTCAAAATTATATAATAT
* *
211248 ATATATTTTCAAAAATATTTTCAAAAACTATATATTATAT
1 ATATGTTTTCAAAAATATTTTC-AAAA-T-TATATAATAT
* * * * *
211288 AAATGTTTTC-AAAATGTTTTAAAAACCATATATTATAT
1 ATATGTTTTCAAAAATATTTTCAAAA--TTATATAATAT
*
211326 ATATGTTTTC-AAAATGTTTTTCAAAAAATTATATAATAT
1 ATATGTTTTCAAAAAT-ATTTTC--AAAATTATATAATAT
** * * * *
211365 ATACATTTCCAAAAACCATTTTTAAAAAATATATATTATAT
1 ATATGTTTTCAAAAA-TA-TTTT-CAAAAT-TATATAATAT
* * * *
211406 ATACGTTTTC-AAAATGTTTTCAAAACTATATATTAT
1 ATATGTTTTCAAAAATATTTTCAAAATTATATAATAT
211442 ATAT
1 ATAT
211446 TTTCGAAAAC
Statistics
Matches: 277, Mismatches: 51, Indels: 52
0.73 0.13 0.14
Matches are distributed among these distances:
35 23 0.08
36 15 0.05
37 14 0.05
38 61 0.22
39 47 0.17
40 73 0.26
41 30 0.11
42 6 0.02
43 8 0.03
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (37 bp):
ATATGTTTTCAAAAATATTTTCAAAATTATATAATAT
Found at i:211116 original size:40 final size:39
Alignment explanation
Indices: 211066--211448 Score: 238
Period size: 39 Copynumber: 9.9 Consensus size: 39
211056 TATGTTTTCA
* *
211066 AAAAAT-ATTTTTAAAATTATATA-ATATATATGTTTTTT
1 AAAAATAATTTTCAAAACTATATATATATATAT-TTTTTT
* * *
211104 CAAACATAATTTTCAAAACTATATATATATATATATATATT
1 -AAAAATAATTTTCAAAACTATATATATATATAT-TTTTTT
**
211145 AAAAATAATTTTCAAAACTATA-ATATATATATACTTTT
1 AAAAATAATTTTCAAAACTATATATATATATATTTTTTT
211183 AAAAATAATTTTCAAAACTATATATA-ATATATTTTTTTT
1 AAAAATAATTTTCAAAACTATATATATATATA-TTTTTTT
* * ** * *
211222 GAAATTTGTTTTTAAAACTATA-ATATATATA--TTTTC
1 AAAAATAATTTTCAAAACTATATATATATATATTTTTTT
* *
211258 AAAAAT-ATTTTCAAAAACTATATAT-TATATAAATGTTTT
1 AAAAATAATTTTC-AAAACTATATATATATAT-ATTTTTTT
* * * * *
211297 CAAAAT-GTTTTAAAAACCATATAT-TATATATATGTTTT
1 AAAAATAATTTTCAAAACTATATATATATATAT-TTTTTT
* ** * ** **
211335 CAAAATGTTTTTCAAAA-AATTATATAATATATACATTTCC
1 AAAAATAATTTTCAAAACTA-TATAT-ATATATATTTTTTT
** * * **
211375 AAAAACCATTTTTAAAA-AATATATATTATATATACGTTTT
1 AAAAATAATTTTCAAAACTATATATA-TATATAT-TTTTTT
* *
211415 CAAAAT-GTTTTCAAAACTATATAT-TATATATTTT
1 AAAAATAATTTTCAAAACTATATATATATATATTTT
211449 CGAAAACCGA
Statistics
Matches: 272, Mismatches: 54, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
35 4 0.01
36 22 0.08
37 5 0.02
38 70 0.26
39 89 0.33
40 64 0.24
41 18 0.07
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (39 bp):
AAAAATAATTTTCAAAACTATATATATATATATTTTTTT
Found at i:211171 original size:39 final size:36
Alignment explanation
Indices: 211127--211448 Score: 204
Period size: 38 Copynumber: 8.5 Consensus size: 36
211117 CAAAACTATA
*
211127 TATATATATATATATATTAAAAATAATTTTCAAAAC
1 TATATATATATATATTTTAAAAATAATTTTCAAAAC
211163 TATAATATATATATACTTTTAAAAATAATTTTCAAAAC
1 TAT-ATATATATATA-TTTTAAAAATAATTTTCAAAAC
* * * ** *
211201 TATATATAATATATTTTTTTTGAAATTTGTTTTTAAAAC
1 TATATAT-ATATA--TATTTTAAAAATAATTTTCAAAAC
211240 TATA-ATATATATATTTTCAAAAAT-ATTTTCAAAAAC
1 TATATATATATATATTTT-AAAAATAATTTTC-AAAAC
* * * *
211276 TATATATTATATAAATGTTTTCAAAAT-GTTTTAAAAACC
1 TATATA-TATAT--ATATTTTAAAAATAATTTTCAAAA-C
* * ** *
211315 ATATATTATATATATGTTTTCAAAATGTTTTTCAAAAAAT
1 -TATA-TATATATATATTTTAAAAATAATTTTC--AAAAC
* * * * * *
211355 TATATAATATATACATTTCCAAAAACCATTTTTAAAAAA
1 TATAT-ATATATATATTT-TAAAAA-TAATTTTCAAAAC
* *
211394 TATATATTATATATACGTTTTCAAAAT-GTTTTCAAAAC
1 TATATA-TATATATA--TTTTAAAAATAATTTTCAAAAC
211432 TATATAT-TATATATTTT
1 TATATATATATATATTTT
211449 CGAAAACCGA
Statistics
Matches: 229, Mismatches: 34, Indels: 48
0.74 0.11 0.15
Matches are distributed among these distances:
34 4 0.02
35 9 0.04
36 22 0.10
37 22 0.10
38 69 0.30
39 65 0.28
40 24 0.10
41 14 0.06
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (36 bp):
TATATATATATATATTTTAAAAATAATTTTCAAAAC
Found at i:211267 original size:12 final size:12
Alignment explanation
Indices: 211250--211274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
211240 TATAATATAT
211250 ATATTTTCAAAA
1 ATATTTTCAAAA
211262 ATATTTTCAAAA
1 ATATTTTCAAAA
211274 A
1 A
211275 CTATATATTA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:211474 original size:36 final size:37
Alignment explanation
Indices: 211434--211505 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
211424 TTCAAAACTA
211434 TATATTATAT-ATTTTCGAAAACCGATTTT-TAAAAAG
1 TATATTATATGATTTTCGAAAACCG-TTTTCTAAAAAG
211470 TATATTATATGATTTTCGAAAACCGTTTTCTAAAAA
1 TATATTATATGATTTTCGAAAACCGTTTTCTAAAAA
211506 ATATTTCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 14 0.41
37 20 0.59
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (37 bp):
TATATTATATGATTTTCGAAAACCGTTTTCTAAAAAG
Found at i:211474 original size:38 final size:38
Alignment explanation
Indices: 211229--211509 Score: 167
Period size: 38 Copynumber: 7.4 Consensus size: 38
211219 TTTGAAATTT
* **
211229 GTTTTT-AAAACTATA-ATATATATATTTTC-AAAAAT
1 GTTTTTAAAAAATATATATATATATATTTTCGAAAACC
* * * * *
211264 ATTTTCAAAAACTATATATTATATAAATGTTTTC-AAAA-T
1 GTTTTTAAAAA--ATATA-TATATATATATTTTCGAAAACC
* *
211303 G-TTTTAAAAACCATATATTATATATATGTTTTC-AAAA-T
1 GTTTTTAAAAA--ATATA-TATATATATATTTTCGAAAACC
* * *
211341 GTTTTTCAAAAAATTATATAATATATACATTTCCAAAAACC
1 GTTTTT-AAAAAA-TATAT-ATATATATATTTTCGAAAACC
* *
211382 ATTTTTAAAAAATATATATTATATATACGTTTTC-AAAA-T
1 GTTTTTAAAAAATATATA-TATATATA--TTTTCGAAAACC
* *
211421 G-TTTTCAAAACTATATAT-TATATATTTTCGAAAACC
1 GTTTTTAAAAAATATATATATATATATTTTCGAAAACC
* *
211457 GATTTTTAAAAAGTATAT-TATAT-GATTTTCGAAAACC
1 G-TTTTTAAAAAATATATATATATATATTTTCGAAAACC
211494 GTTTTCTAAAAAATAT
1 GTTTT-TAAAAAATAT
211510 TTCCAAAATC
Statistics
Matches: 201, Mismatches: 25, Indels: 38
0.76 0.09 0.14
Matches are distributed among these distances:
34 5 0.02
35 8 0.04
36 15 0.07
37 25 0.12
38 72 0.36
39 32 0.16
40 35 0.17
41 9 0.04
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.43
Consensus pattern (38 bp):
GTTTTTAAAAAATATATATATATATATTTTCGAAAACC
Found at i:211580 original size:2 final size:2
Alignment explanation
Indices: 211531--211561 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
211521 TACTATATTA
211531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
211562 AATAAGATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:212337 original size:14 final size:15
Alignment explanation
Indices: 212318--212351 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
212308 ATAAAATTCT
212318 AAATAATAT-TTATA
1 AAATAATATATTATA
212332 AAATAATATAATTATA
1 AAATAATAT-ATTATA
212348 AAAT
1 AAAT
212352 TGATATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
16 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATAATATATTATA
Found at i:217438 original size:132 final size:124
Alignment explanation
Indices: 217256--217626 Score: 400
Period size: 120 Copynumber: 3.0 Consensus size: 124
217246 TTTTAAGAAT
* * * * * *
217256 GAAAACGATAATATCTAATTATTTCCAATTGAGAATAAATGATCTATCATGCCTTAAATCAGTCA
1 GAAAACCATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTTAAGCAGTCA
* * * *
217321 TTTATTACTCCGATCGAAATGAAGAGATATCACTATTTCGTCTTAAAAATTCAATATTGATTCGA
66 TTTATTACTCCAATCGAAATGAAAAGATAT-ACTATTT--TATT-----TTCAATATTAATTCGA
217386 GA
123 GA
* * *
217388 GAAAACCATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATGCCTTTAAGCAGTCT
1 GAAAACCATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTTAAGCAGTCA
*
217453 TTTATTACTCCAACCGAAATGAAAAGATAT--TA--TTATTTTCAATATTAATTCGAGA
66 TTTATTACTCCAATCGAAATGAAAAGATATACTATTTTATTTTCAATATTAATTCGAGA
* * * * *
217508 GAAAACCATAATATCTAATTATTTCCAATAGAAAATAAATAACCTCTCATACATTTAAGCATTCA
1 GAAAACCATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTTAAGCAGTCA
* **
217573 TTGATTACTCCAAAT-GAAATG-AAA-ATATA-T-TACTATTTTCAATATTAATTCGAG
66 TTTATTACTCC-AATCGAAATGAAAAGATATACTATTTTATTTTCAATATTAATTCGAG
217627 TGTTATTTAT
Statistics
Matches: 211, Mismatches: 24, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
118 4 0.02
119 4 0.02
120 111 0.53
121 2 0.01
125 3 0.01
127 1 0.00
129 2 0.01
132 84 0.40
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (124 bp):
GAAAACCATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTTAAGCAGTCA
TTTATTACTCCAATCGAAATGAAAAGATATACTATTTTATTTTCAATATTAATTCGAGA
Found at i:219631 original size:3 final size:3
Alignment explanation
Indices: 219625--219668 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
219615 ATAATATTAA
* *
219625 TAC TAC TAC TAT TAC TAC TAC TAC CAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
219669 ATAATAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:219673 original size:3 final size:3
Alignment explanation
Indices: 219667--219712 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
219657 CTACTACTAC
219667 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
219713 GTCGGGACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:220234 original size:134 final size:133
Alignment explanation
Indices: 219898--220252 Score: 453
Period size: 133 Copynumber: 2.7 Consensus size: 133
219888 GGAGTCTGAA
* * * * *
219898 AGGAGATCTGCTCCACTGCTTCTTCAGGGTAGATCAGATTGGGAAACGTTGATTCATTCCACTGT
1 AGGAGATCTGTTCCACTGCTTCTTCAGGGAAAATCAGATTTGGAAGCGTTGATTCATTCCACTGT
* * *
219963 TCTTCAGGGAAGATTGAATCGAGTTAGACTTGTTCCACTACTGCTCAGGGAAGATCAAATAGAAA
66 TCTTCAGGGAAGATTGAATCGAGGTAGAATTGTTCCACTACTACTCAGGGAAGATCAAATAGAAA
220028 AAG
131 AAG
* * * * * *
220031 AGGAGATCTGTTTCATTGCTTCTTCAGGGAAAATTAGATCTAG-AGACATTGATTCATTCCACTG
1 AGGAGATCTGTTCCACTGCTTCTTCAGGGAAAATCAGATTTGGAAG-CGTTGATTCATTCCACTG
* ** *
220095 TTCTTCATGGAAGATTGAATCGAGGTAGAATTGTTCCACTGTTACTCA-GGAATATCAAATATGG
65 TTCTTCAGGGAAGATTGAATCGAGGTAGAATTGTTCCACTACTACTCAGGGAAGATCAAATA--G
*
220159 AAAGAG
128 AAAAAG
* * * *
220165 AGGGGATCTGTTCCGCTGCTTCTTCAGGGAACATCAGATTTGGAAGCGTTGATTCATTCCATTGT
1 AGGAGATCTGTTCCACTGCTTCTTCAGGGAAAATCAGATTTGGAAGCGTTGATTCATTCCACTGT
*
220230 TCTTCAGGGAATATTGAATCGAG
66 TCTTCAGGGAAGATTGAATCGAG
220253 TTTGATTTAC
Statistics
Matches: 187, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
132 13 0.07
133 93 0.50
134 79 0.42
135 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (133 bp):
AGGAGATCTGTTCCACTGCTTCTTCAGGGAAAATCAGATTTGGAAGCGTTGATTCATTCCACTGT
TCTTCAGGGAAGATTGAATCGAGGTAGAATTGTTCCACTACTACTCAGGGAAGATCAAATAGAAA
AAG
Found at i:221520 original size:7 final size:7
Alignment explanation
Indices: 221503--221616 Score: 92
Period size: 7 Copynumber: 15.7 Consensus size: 7
221493 ATTTATTCTT
221503 TTTTTTCC
1 TTTTTT-C
221511 TTTTTTC
1 TTTTTTC
221518 -TTTTTC
1 TTTTTTC
*
221524 TCTTTTC
1 TTTTTTC
221531 TTTTTTC
1 TTTTTTC
*
221538 TCTTTTC
1 TTTTTTC
221545 TTTTTTC
1 TTTTTTC
*
221552 TTTTCTC
1 TTTTTTC
221559 TTTTTT-
1 TTTTTTC
221565 TTATCATTT-
1 TT-T--TTTC
221574 TTCTTTTC
1 TT-TTTTC
221582 ATTTTTTC
1 -TTTTTTC
*
221590 ATTTTTC
1 TTTTTTC
221597 ATTCTTTT-
1 -TT-TTTTC
221605 TTTTTTC
1 TTTTTTC
221612 TTTTT
1 TTTTT
221617 ATTCTTTCTT
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
6 12 0.14
7 52 0.59
8 12 0.14
9 12 0.14
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:221580 original size:14 final size:12
Alignment explanation
Indices: 221512--221627 Score: 80
Period size: 13 Copynumber: 9.2 Consensus size: 12
221502 TTTTTTTCCT
221512 TTTTTCTTTTTC
1 TTTTTCTTTTTC
221524 TCTTTTCTTTTTTC
1 T-TTTTC-TTTTTC
221538 TCTTTTCTTTTTTC
1 T-TTTTC-TTTTTC
221552 TTTTCTCTTTTT-
1 TTTT-TCTTTTTC
*
221564 TTTATCATTTTTC
1 TTTTTC-TTTTTC
221577 -TTTTCATTTTTTC
1 TTTTTC--TTTTTC
*
221590 ATTTTTC--ATTC
1 -TTTTTCTTTTTC
221601 TTTTT-TTTTTC
1 TTTTTCTTTTTC
*
221612 TTTTTATTCTTTC
1 TTTTTCTT-TTTC
221625 TTT
1 TTT
221628 AGGCGAAGCA
Statistics
Matches: 87, Mismatches: 5, Indels: 23
0.76 0.04 0.20
Matches are distributed among these distances:
10 5 0.06
11 13 0.15
12 15 0.17
13 26 0.30
14 23 0.26
15 5 0.06
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:221620 original size:20 final size:19
Alignment explanation
Indices: 221501--221623 Score: 106
Period size: 21 Copynumber: 6.1 Consensus size: 19
221491 TTATTTATTC
*
221501 TTTTTTTTCCTTTTTTCTT
1 TTTTTTTTCTTTTTTTCTT
221520 TTTCTCTTTTCTTTTTTCTCTT
1 TTT-T-TTTTCTTTTTT-TCTT
*
221542 TTCTTTTTTC-TTTTCTCTT
1 TT-TTTTTTCTTTTTTTCTT
* *
221561 TTTTTTATC-ATTTTTCTT
1 TTTTTTTTCTTTTTTTCTT
221579 TTCATTTTTTCATTTTTCATTCTT
1 TT--TTTTTTC-TTTTT--TTCTT
221603 TTTTTTTTCTTTTTATTCTT
1 TTTTTTTTCTTTTT-TTCTT
221623 T
1 T
221624 CTTTAGGCGA
Statistics
Matches: 87, Mismatches: 7, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
18 15 0.17
19 9 0.10
20 18 0.21
21 20 0.23
22 17 0.20
23 1 0.01
24 7 0.08
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTTCTT
Found at i:224522 original size:31 final size:31
Alignment explanation
Indices: 224484--224611 Score: 141
Period size: 31 Copynumber: 4.1 Consensus size: 31
224474 GAACCTCGGC
* *
224484 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* **
224515 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* *
224546 TACTGTCCATATATCCCGAA-AGACATAGGTA
1 AACTGTCCATATGTCCCGAAGA-ACATAGGTA
* * *
224577 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTCCCGAAGAACATAGGTA
224609 AAC
1 AAC
224612 CCTCGACTCT
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
30 1 0.01
31 51 0.65
32 25 0.32
33 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Done.