Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009067.1 Hibiscus syriacus cultivar Beakdansim tig00112491_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: 2329927
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 10
Found at i:294784 original size:16 final size:17
Alignment explanation
Indices: 294758--294790 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
294748 ATCGCCGACC
294758 AAATTTCACTATTCACA
1 AAATTTCACTATTCACA
294775 AAATTT-ACTATTCACA
1 AAATTTCACTATTCACA
294791 TGAATAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTTCACTATTCACA
Found at i:295058 original size:12 final size:12
Alignment explanation
Indices: 295041--295065 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
295031 AGAGAGCTAG
295041 GATGATTTTGAA
1 GATGATTTTGAA
295053 GATGATTTTGAA
1 GATGATTTTGAA
295065 G
1 G
295066 CTAAATGAGT
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:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (12 bp):
GATGATTTTGAA
Found at i:295915 original size:39 final size:39
Alignment explanation
Indices: 295872--295949 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
295862 TATTTATCTC
295872 CACCTTAGGATTAATAAGCTGCAACATATGCAAAACAGG
1 CACCTTAGGATTAATAAGCTGCAACATATGCAAAACAGG
295911 CACCTTAGGATTAATAAGCTGCAACATATGCAAAACAGG
1 CACCTTAGGATTAATAAGCTGCAACATATGCAAAACAGG
295950 ATTTAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (39 bp):
CACCTTAGGATTAATAAGCTGCAACATATGCAAAACAGG
Found at i:299127 original size:99 final size:99
Alignment explanation
Indices: 298946--299172 Score: 348
Period size: 99 Copynumber: 2.3 Consensus size: 99
298936 GAACTCCAGT
* * * * *
298946 TTCGCAACACAGTTTTTAAATTCGCAACGCGATTCTCTAAAATCGCAATGCGAATTTCGTTTTCG
1 TTCGCAACTCAGTTTTCAAATTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCGTTTCCG
* *
299011 TAACGCTAATTATCGATATAGGTAAACACAACTAA
66 CAACGCTAATTACCGATATAGGTAAACACAACT-A
*
299046 TT-GTAACTCAGTTTTCAAATTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCGTTTCCG
1 TTCGCAACTCAGTTTTCAAATTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCGTTTCCG
299110 CAACGCTAATTACCGATATAGGTAAACACAACTA
66 CAACGCTAATTACCGATATAGGTAAACACAACTA
* *
299144 TTCGCAACTCAGTTTTCAATTTCACAACG
1 TTCGCAACTCAGTTTTCAAATTCGCAACG
299173 TTAATTACTG
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
98 3 0.03
99 110 0.96
100 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.30
Consensus pattern (99 bp):
TTCGCAACTCAGTTTTCAAATTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCGTTTCCG
CAACGCTAATTACCGATATAGGTAAACACAACTA
Found at i:302443 original size:7 final size:7
Alignment explanation
Indices: 302431--302460 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
302421 AACACATTGG
302431 AAAAAGA
1 AAAAAGA
302438 AAAAAGA
1 AAAAAGA
302445 AAAAAGA
1 AAAAAGA
302452 AAAAA-A
1 AAAAAGA
302458 AAA
1 AAA
302461 TTAAGATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:306420 original size:13 final size:13
Alignment explanation
Indices: 306402--306448 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
306392 TTAAATGATA
306402 AATAAAAAAATAC
1 AATAAAAAAATAC
* *
306415 AATAAAAAAGTCC
1 AATAAAAAAATAC
* *
306428 AATAAATAACTAC
1 AATAAAAAAATAC
306441 AATAAAAA
1 AATAAAAA
306449 GTACTAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.70, C:0.11, G:0.02, T:0.17
Consensus pattern (13 bp):
AATAAAAAAATAC
Found at i:307526 original size:22 final size:19
Alignment explanation
Indices: 307490--307542 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
307480 AAACTAAAAC
*
307490 AAATAT-ATATAATTTTTAT
1 AAATATAATCTAA-TTTTAT
307509 CAAATAATAATCTAATTTTAT
1 -AAAT-ATAATCTAATTTTAT
*
307530 AACTATAATCTAA
1 AAATATAATCTAA
307543 AATCGATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 9 0.31
20 7 0.24
21 8 0.28
22 5 0.17
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATATAATCTAATTTTAT
Found at i:308657 original size:9 final size:9
Alignment explanation
Indices: 308643--308676 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
308633 TAAGTAAAAT
308643 ATTAAATAA
1 ATTAAATAA
308652 ATTAAAT-A
1 ATTAAATAA
*
308660 CTTAAATAA
1 ATTAAATAA
308669 ATTAAATA
1 ATTAAATA
308677 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:308675 original size:17 final size:17
Alignment explanation
Indices: 308639--308677 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
308629 TATATAAGTA
308639 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
308655 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
308672 AAATAC
1 AAATAC
308678 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:312771 original size:29 final size:29
Alignment explanation
Indices: 312736--312817 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
312726 AAACTAAATT
* *
312736 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
312765 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
312794 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
312818 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:317535 original size:29 final size:29
Alignment explanation
Indices: 317500--317581 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
317490 AAACTAAATT
* *
317500 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
317529 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
317558 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
317582 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:322202 original size:38 final size:37
Alignment explanation
Indices: 322127--322202 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
322117 TACTATAATT
* **
322127 AATTTATATATTTTCTTTAAAAAATTTAAATTCATAA
1 AATTTATATATTTTCTTTAAAAAATTGAAAAACATAA
* * *
322164 AATTTATATAATTTTTTTTACAAAATTGAAAAAGATAA
1 AATTTATAT-ATTTTCTTTAAAAAATTGAAAAACATAA
322202 A
1 A
322203 TAAGTTTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
37 9 0.28
38 23 0.72
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (37 bp):
AATTTATATATTTTCTTTAAAAAATTGAAAAACATAA
Found at i:324654 original size:32 final size:31
Alignment explanation
Indices: 324591--324682 Score: 123
Period size: 31 Copynumber: 3.0 Consensus size: 31
324581 TTTATAGGTT
* *
324591 AAATTGATATTTAATCTAAAG-TTAAGTGTC
1 AAATTGATATTTTATCTAAAGTTTAAGGGTC
324621 AAATTTGATATTTTATCTAAAGTTTAAGGGTC
1 AAA-TTGATATTTTATCTAAAGTTTAAGGGTC
* * *
324653 AAATTAATATTTTATCTAAAATCTAAGGGT
1 AAATTGATATTTTATCTAAAGTTTAAGGGT
324683 TAGATTAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
30 3 0.05
31 41 0.75
32 11 0.20
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (31 bp):
AAATTGATATTTTATCTAAAGTTTAAGGGTC
Found at i:324842 original size:2 final size:2
Alignment explanation
Indices: 324835--324864 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
324825 TTTACCCTGG
324835 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
324865 ATTAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:346562 original size:11 final size:11
Alignment explanation
Indices: 346546--346586 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
346536 TCTTTCTTTT
346546 TATTATTCTTG
1 TATTATTCTTG
346557 TATTATTACTTG
1 TATTATT-CTTG
* *
346569 TATTATTTTTA
1 TATTATTCTTG
346580 TATTATT
1 TATTATT
346587 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:346803 original size:2 final size:2
Alignment explanation
Indices: 346798--346828 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
346788 ATTTTACTAT
346798 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
346829 TCTACACAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:346991 original size:2 final size:2
Alignment explanation
Indices: 346984--347020 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
346974 GTATTGTTAC
346984 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
347021 TGTAATTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:347174 original size:13 final size:13
Alignment explanation
Indices: 347156--347180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
347146 GTTATTATTA
347156 TTTTATTTATTTG
1 TTTTATTTATTTG
347169 TTTTATTTATTT
1 TTTTATTTATTT
347181 TCTTTTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTTATTTATTTG
Found at i:352496 original size:64 final size:64
Alignment explanation
Indices: 352411--352571 Score: 188
Period size: 64 Copynumber: 2.5 Consensus size: 64
352401 TTGTTTAAGG
* * *
352411 TGCATCGATGCACA-T-TCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGATT
1 TGCATCGATGCATAGTGT-AGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAAGATT
352473 TA
63 TA
* *
352475 TGCATCGATGCATAAG-G-AGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAAGATTT
1 TGCATCGATGCAT-AGTGTAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAAGATTT
352538 A
64 A
*
352539 TGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAGTGTAGTGCATCGATGCAT
352572 ACCTTCATTA
Statistics
Matches: 84, Mismatches: 6, Indels: 13
0.82 0.06 0.13
Matches are distributed among these distances:
63 1 0.01
64 59 0.70
65 23 0.27
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAGTGTAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAAGATTTA
Found at i:352571 original size:65 final size:65
Alignment explanation
Indices: 352447--352571 Score: 191
Period size: 64 Copynumber: 1.9 Consensus size: 65
352437 ATGCATGAAT
*
352447 TTAAATAGAAAACATCGAATAGGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
1 TTAAATAGAAAACATCGAATAAGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
* *
352512 TTAAATA-CAAACATCGAATAAGATTTATGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TTAAATAGAAAACATCGAATAAGATTTATGCATCGATGCATAAG-G-AGTGCATCGATGCAT
352572 ACCTTCATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
63 1 0.02
64 32 0.58
65 22 0.40
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (65 bp):
TTAAATAGAAAACATCGAATAAGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
Found at i:353082 original size:18 final size:18
Alignment explanation
Indices: 353059--353093 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
353049 CTAAGAGATT
353059 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
353077 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
353094 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:354454 original size:23 final size:23
Alignment explanation
Indices: 354421--354465 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
354411 ATTATTATAT
*
354421 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
354444 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
354466 AGCTGTGGTG
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:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:354473 original size:149 final size:149
Alignment explanation
Indices: 353990--354453 Score: 833
Period size: 149 Copynumber: 3.1 Consensus size: 149
353980 GAGTCGAGGG
* * * **
353990 TCTACGCGGTCTTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
354055 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
354119 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
354139 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
354204 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTAGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
354269 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
354288 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
354353 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
354418 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
354437 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
354454 TGCAATTATA
Statistics
Matches: 305, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.00
149 303 0.99
150 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:357678 original size:64 final size:64
Alignment explanation
Indices: 357593--357753 Score: 197
Period size: 64 Copynumber: 2.5 Consensus size: 64
357583 TTGTTTAAGG
* *
357593 TGCATCGATGCACA-T-TCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGATT
1 TGCATCGATGCATAGTGT-AGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATT
357655 TA
63 TA
* *
357657 TGCATCGATGCATAAG-G-AGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTT
1 TGCATCGATGCAT-AGTGTAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTT
357720 A
64 A
*
357721 TGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAGTGTAGTGCATCGATGCAT
357754 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 5, Indels: 13
0.83 0.05 0.13
Matches are distributed among these distances:
63 1 0.01
64 60 0.71
65 23 0.27
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAGTGTAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:357753 original size:65 final size:65
Alignment explanation
Indices: 357629--357753 Score: 200
Period size: 64 Copynumber: 1.9 Consensus size: 65
357619 ATGCATGAAT
357629 TTAAATAGAAAACATCGAATAGGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
1 TTAAATAGAAAACATCGAATAGGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
* *
357694 TTAAATA-CAAACATCGAATAGGATTTATGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TTAAATAGAAAACATCGAATAGGATTTATGCATCGATGCATAAG-G-AGTGCATCGATGCAT
357754 ACCTTCATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
63 1 0.02
64 33 0.59
65 22 0.39
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (65 bp):
TTAAATAGAAAACATCGAATAGGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
Found at i:358268 original size:18 final size:18
Alignment explanation
Indices: 358245--358279 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
358235 CTAGGAGATT
358245 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
358263 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
358280 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:359538 original size:149 final size:149
Alignment explanation
Indices: 359165--359623 Score: 788
Period size: 149 Copynumber: 3.1 Consensus size: 149
359155 GAGTCGAGGG
* * * **
359165 TCTACGCAGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
359230 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATC---
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
359291 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
359311 TCTACGCGGTCCTTCGGG--ATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
359374 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
359439 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
359458 TCTACGCGGTCCTTCGGGATATATATATATTATGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
359523 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
359588 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
359607 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
359624 TGCAATTATA
Statistics
Matches: 299, Mismatches: 7, Indels: 11
0.94 0.02 0.03
Matches are distributed among these distances:
144 100 0.33
145 1 0.00
146 17 0.06
147 38 0.13
148 1 0.00
149 142 0.47
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:359624 original size:23 final size:23
Alignment explanation
Indices: 359591--359635 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
359581 ATTATTATAT
*
359591 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
359614 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
359636 AGCTGTGGTG
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:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:367111 original size:106 final size:106
Alignment explanation
Indices: 366920--368312 Score: 2093
Period size: 106 Copynumber: 13.2 Consensus size: 106
366910 AAGTTTTAAC
* * *
366920 CAGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAATTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
366985 ACGAAGGGACCGGTGGTTGTCAATAAACAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* *
367026 CAGATCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
367091 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
367132 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
367197 ATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* * *
367238 CAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACTCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
367303 ACGAAGGGACCGCTGGTTGTTAATAAACAACTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* *
367344 CAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
367409 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* * *
367450 CAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTCCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
367515 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
*
367556 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
367621 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* *
367662 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
367727 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* *
367768 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTTAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
367833 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* *
367874 TAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
** * *
367939 ACGAAGGGATTGCTGGTTGTCAATAAACAATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* * * * *
367980 CATATCTAATTTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
368045 ACGAAGGGACCGCTGGTTGTTAATAAACAACTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* * * * ** * *
368086 CAGAGCCAATTTCAATTTCTCAGCGAAGGATCTTGAAC-CCAAGGTAACACAAGCTCAACTTCAC
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCAC
* * *
368150 GACGAAGAGG-CGGCTGATTGTCAAT-AA-AA-TT-TC-A-TT
65 GACGAAG-GGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* * * * *
368186 CAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACTCAATTTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * * *
368251 ACGAAGGGA-CGTCTGGTTGTCAACAAATAATTTCCCAGTTC
66 ACGAAGGGACCG-CTGGTTGTCAATAAACAACTTCCCAATTT
*
368292 CAGAGCCAATTTCAATTTCAC
1 CAGAGCCAATTTCAACTTCAC
368313 GACAGAGTAT
Statistics
Matches: 1172, Mismatches: 104, Indels: 22
0.90 0.08 0.02
Matches are distributed among these distances:
99 3 0.00
100 69 0.06
101 4 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 3 0.00
106 1081 0.92
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
Found at i:369131 original size:37 final size:37
Alignment explanation
Indices: 369062--369158 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
369052 CCTTTTCGTC
* * * *
369062 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTATGATTTAAACTCCTAAAAACAGGATAGAATT
* * * *
369099 TTGCTATGATTTAAACTCTTAAAAACAGGATAGAGTT
1 CTACTATGATTTAAACTCCTAAAAACAGGATAGAATT
369136 CTACTATGATTTAAACTCCTAAA
1 CTACTATGATTTAAACTCCTAAA
369159 GATATGATCC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (37 bp):
CTACTATGATTTAAACTCCTAAAAACAGGATAGAATT
Found at i:369753 original size:23 final size:23
Alignment explanation
Indices: 369716--369783 Score: 84
Period size: 23 Copynumber: 2.8 Consensus size: 23
369706 TTTCTTTGCA
369716 TTTATTATTACTATTATATTTAT-T
1 TTTATT-TTACTATTATATTT-TCT
369740 TTTATTTTACTATTATATTTTCT
1 TTTATTTTACTATTATATTTTCT
*
369763 TTTATTCTACTTATTTATATT
1 TTTATTTTAC-TA-TTATATT
369784 ATATATGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
22 1 0.03
23 24 0.60
24 8 0.20
25 7 0.17
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTATTTTACTATTATATTTTCT
Found at i:369859 original size:12 final size:11
Alignment explanation
Indices: 369829--369864 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
369819 TACTTTCTCT
*
369829 TTCTTTTATTA
1 TTCTTGTATTA
369840 TTCTTGTATTA
1 TTCTTGTATTA
369851 TTACTTGTATTA
1 TT-CTTGTATTA
369863 TT
1 TT
369865 TATTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (11 bp):
TTCTTGTATTA
Found at i:370419 original size:13 final size:12
Alignment explanation
Indices: 370392--370462 Score: 65
Period size: 13 Copynumber: 5.9 Consensus size: 12
370382 TACTTTGTTA
* *
370392 TTATTATTTTGT
1 TTATTTTTTTAT
370404 TTATTTGTTTTAT
1 TTATTT-TTTTAT
*
370417 TTATTTTCTT-T
1 TTATTTTTTTAT
*
370428 TT-CTTTTTTAT
1 TTATTTTTTTAT
*
370439 ATATATTTTTTAT
1 TTAT-TTTTTTAT
370452 TTATTTTTTTA
1 TTATTTTTTTA
370463 CTTACTATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
10 5 0.11
11 5 0.11
12 15 0.32
13 22 0.47
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (12 bp):
TTATTTTTTTAT
Found at i:370420 original size:22 final size:21
Alignment explanation
Indices: 370385--370462 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 21
370375 TTATTCGTAC
370385 TTTGTTATTA-TTATTTTGTTTA
1 TTTGTT-TTATTTATTTT-TTTA
370407 TTTGTTTTATTTATTTTCTTT-
1 TTTGTTTTATTTATTTT-TTTA
* *
370428 TTCTTTTTTATATATATTTTTTA
1 TT-TGTTTTATTTAT-TTTTTTA
*
370451 TTTATTTT-TTTA
1 TTTGTTTTATTTA
370463 CTTACTATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
21 8 0.17
22 34 0.72
23 5 0.11
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.77
Consensus pattern (21 bp):
TTTGTTTTATTTATTTTTTTA
Found at i:371785 original size:32 final size:33
Alignment explanation
Indices: 371749--371846 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 33
371739 TGATCGAGTT
*
371749 GGGTCAGGTCG-GGTTTTTTAAGTGTGATATTC
1 GGGTCAGGTCGAAGTTTTTTAAGTGTGATATTC
* *
371781 GGGTCGGGTCGAATTTTTTTAAGTGTGATATTC
1 GGGTCAGGTCGAAGTTTTTTAAGTGTGATATTC
* *
371814 --G--A-GTTGAATTTTTTTAAGTGTGATATTC
1 GGGTCAGGTCGAAGTTTTTTAAGTGTGATATTC
*
371842 TGGTC
1 GGGTC
371847 GGGTTTAGGG
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
28 25 0.45
30 1 0.02
31 1 0.02
32 10 0.18
33 19 0.34
ACGTcount: A:0.18, C:0.08, G:0.30, T:0.44
Consensus pattern (33 bp):
GGGTCAGGTCGAAGTTTTTTAAGTGTGATATTC
Found at i:371804 original size:33 final size:32
Alignment explanation
Indices: 371762--371850 Score: 123
Period size: 28 Copynumber: 2.9 Consensus size: 32
371752 TCAGGTCGGG
371762 TTTTTTAAGTGTGATATTCGGGTCGGGTCGAAT
1 TTTTTTAAGTGTGATATTCGGGTCGGGT-GAAT
*
371795 TTTTTTAAGTGTGATATTCGAGT----TGAAT
1 TTTTTTAAGTGTGATATTCGGGTCGGGTGAAT
*
371823 TTTTTTAAGTGTGATATTCTGGTCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCGGGT
371851 TTAGGGTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
28 25 0.51
29 1 0.02
32 1 0.02
33 22 0.45
ACGTcount: A:0.19, C:0.07, G:0.27, T:0.47
Consensus pattern (32 bp):
TTTTTTAAGTGTGATATTCGGGTCGGGTGAAT
Found at i:372740 original size:34 final size:34
Alignment explanation
Indices: 372673--372741 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
372663 AATTTAAATA
*
372673 AAATAATTAATAAATTAATTTTACAAATGTATAT
1 AAATAATTAATAAATTAATTTTACAAATATATAT
** * * *
372707 AAATAATTGTTAAATTCATTTTATAGATATATAT
1 AAATAATTAATAAATTAATTTTACAAATATATAT
372741 A
1 A
372742 TATATAAATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (34 bp):
AAATAATTAATAAATTAATTTTACAAATATATAT
Found at i:374287 original size:11 final size:11
Alignment explanation
Indices: 374271--374295 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
374261 TTATAATATC
374271 ATTTTAAATTA
1 ATTTTAAATTA
374282 ATTTTAAATTA
1 ATTTTAAATTA
374293 ATT
1 ATT
374296 CTCAAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:376069 original size:42 final size:42
Alignment explanation
Indices: 376016--376187 Score: 194
Period size: 42 Copynumber: 4.1 Consensus size: 42
376006 ACTATCGCAA
*
376016 TGCGA-TT-TTCCAAATTCGTTGTGATAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
376056 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTT--CGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
* * * *
376096 TGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATT--CGTTGCGA--TAGTCCAAGTTCGCGT
* * *
376140 TGCGATTTGTTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
376182 TGCGAT
1 TGCGAT
376188 AGTCCAAAAT
Statistics
Matches: 112, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
38 8 0.07
40 21 0.19
41 2 0.02
42 57 0.51
44 16 0.14
46 8 0.07
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (42 bp):
TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
Found at i:376095 original size:61 final size:64
Alignment explanation
Indices: 376016--376187 Score: 255
Period size: 61 Copynumber: 2.8 Consensus size: 64
376006 ACTATCGCAA
* * *
376016 TGCGATT--TTCCAAATTCGTTGTGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT-CGT
1 TGCGATTAGTTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCCGT
*
376077 TGCGA-TAG-TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGCGT
1 TGCGATTAGTTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC-CGT
*
376140 TGCGATTTGTTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGAT
1 TGCGATTAGTTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGAT
376188 AGTCCAAAAT
Statistics
Matches: 100, Mismatches: 5, Indels: 8
0.88 0.04 0.07
Matches are distributed among these distances:
60 1 0.01
61 51 0.51
63 8 0.08
64 2 0.02
65 38 0.38
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (64 bp):
TGCGATTAGTTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCCGT
Found at i:376200 original size:21 final size:21
Alignment explanation
Indices: 376024--376200 Score: 127
Period size: 21 Copynumber: 8.5 Consensus size: 21
376014 AATGCGATTT
*
376024 TCCAAATT--CGTTGTGATAG
1 TCCAAATTCGCGTTGCGATAG
* *
376043 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAATTCGCGTTGCGA--TAG
376066 TCCAAATT--CGTTGCGATAG
1 TCCAAATTCGCGTTGCGATAG
*
376085 TCCAAGTT--CGTTGCGATAG
1 TCCAAATTCGCGTTGCGATAG
* * *
376104 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAATTCGCGTTGCGA--TAG
* *
376127 TCCAAGTTCGCGTTGCGATTTG
1 TCCAAATTCGCGTTGCGA-TAG
*
376149 TTCCAAGTT--CGTTGCGATAG
1 -TCCAAATTCGCGTTGCGATAG
* *
376169 TCGAAGTTCGCGTTGCGATAG
1 TCCAAATTCGCGTTGCGATAG
*
376190 TCCAAAATCGC
1 TCCAAATTCGC
376201 AACAACTGGT
Statistics
Matches: 131, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
19 41 0.31
20 2 0.02
21 50 0.38
22 2 0.02
23 36 0.27
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (21 bp):
TCCAAATTCGCGTTGCGATAG
Found at i:381005 original size:30 final size:31
Alignment explanation
Indices: 380969--381035 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
380959 AGTGAACCGA
*
380969 CGGTTCAAAC-CGGTTTTACCGATTTTCAGC
1 CGGTTCAAACTCGATTTTACCGATTTTCAGC
* *
380999 CGGTTC-ACCTCGATTTTATCGATTTTCAGC
1 CGGTTCAAACTCGATTTTACCGATTTTCAGC
381029 CGGTTCA
1 CGGTTCA
381036 TTGCCAGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 30 0.94
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (31 bp):
CGGTTCAAACTCGATTTTACCGATTTTCAGC
Found at i:385203 original size:9 final size:9
Alignment explanation
Indices: 385189--385214 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
385179 AACAGGAAAC
385189 GAGAAAAGA
1 GAGAAAAGA
385198 GAGAAAAGA
1 GAGAAAAGA
385207 GAGAAAAG
1 GAGAAAAG
385215 GCTCTCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (9 bp):
GAGAAAAGA
Found at i:387471 original size:54 final size:54
Alignment explanation
Indices: 387390--387502 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
387380 AGTACTCTTG
* *
387390 TATTATTTGATAGAGTAACAACTTGCTGACTGTGACCAGTATCGAGG-GCAGAGT
1 TATTATTTGATAGAGCAACAACTTGCTGACTGTGACCAGTATCG-GGTGCAAAGT
* **
387444 TATTATTTGATGGAGCAACTGCTTGCTGACTGTGACCAGTATCGGGTGCAAAGT
1 TATTATTTGATAGAGCAACAACTTGCTGACTGTGACCAGTATCGGGTGCAAAGT
387498 TATTA
1 TATTA
387503 GCAATACTGG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
53 2 0.04
54 51 0.96
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (54 bp):
TATTATTTGATAGAGCAACAACTTGCTGACTGTGACCAGTATCGGGTGCAAAGT
Found at i:390369 original size:20 final size:21
Alignment explanation
Indices: 390344--390389 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
390334 ACTGAAAAAT
* *
390344 AGAAGCATAAC-AGTTTAAAC
1 AGAAGCATAACAACTTGAAAC
390364 AGAAGCATAACAACTTGAAAC
1 AGAAGCATAACAACTTGAAAC
390385 AGAAG
1 AGAAG
390390 ATCTACTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.52, C:0.15, G:0.17, T:0.15
Consensus pattern (21 bp):
AGAAGCATAACAACTTGAAAC
Found at i:392951 original size:11 final size:11
Alignment explanation
Indices: 392935--392960 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
392925 TTAAAATGTA
392935 ATAAAATAATT
1 ATAAAATAATT
392946 ATAAAATAATT
1 ATAAAATAATT
392957 ATAA
1 ATAA
392961 TTTTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAAAATAATT
Found at i:397841 original size:27 final size:27
Alignment explanation
Indices: 397811--397873 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
397801 CATTATCGAG
397811 AGGACCCGACATGAACCCTCTCTC-AA
1 AGGACCCGACATGAACCCTCTCTCTAA
* *
397837 TAGGACCCGACATGAATCCTCTTTCTAA
1 -AGGACCCGACATGAACCCTCTCTCTAA
397865 AGGACCCGA
1 AGGACCCGA
397874 ACCCGGAGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.19
Consensus pattern (27 bp):
AGGACCCGACATGAACCCTCTCTCTAA
Found at i:399247 original size:21 final size:22
Alignment explanation
Indices: 399212--399253 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
399202 CTTTTAAATC
*
399212 ATATATTTTATTTTTATAATTG
1 ATATATTTTAATTTTATAATTG
*
399234 ATATA-TTTAATTTTTTAATT
1 ATATATTTTAATTTTATAATT
399254 TAATTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
ATATATTTTAATTTTATAATTG
Found at i:399269 original size:14 final size:13
Alignment explanation
Indices: 399238--399262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
399228 TAATTGATAT
399238 ATTTAATTTTTTA
1 ATTTAATTTTTTA
399251 ATTTAATTTTTT
1 ATTTAATTTTTT
399263 CTCTTTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTAATTTTTTA
Found at i:399318 original size:43 final size:42
Alignment explanation
Indices: 399241--399809 Score: 266
Period size: 43 Copynumber: 13.3 Consensus size: 42
399231 TTGATATATT
* * * * *
399241 TAATTTTTTAAT-TTAATTTTTTCTCTTTATAATTGAGGTTTC
1 TAATTTTTTAATCTCACTTTTTAC-CTTTATAATTGAGGATCC
* * *
399283 TAATTTCTGTAATCTCACTTTTTACCTTTATAATTGATGCTCC
1 TAATTT-TTTAATCTCACTTTTTACCTTTATAATTGAGGATCC
* * ** *
399326 TAGTTTTTTTAATCTTACTTTTTATATTTATAATTGA-GACCC
1 TA-ATTTTTTAATCTCACTTTTTACCTTTATAATTGAGGATCC
* * * *
399368 CAACTTTTTTAATATCACTTTTTACCTTTATAGTTGAGG-CCC
1 TAA-TTTTTTAATCTCACTTTTTACCTTTATAATTGAGGATCC
* * * * * * **
399410 TTTATTTTTTCAATCTCGCCTTCTACATTTATAATTGAAGCCCC
1 -TAATTTTTT-AATCTCACTTTTTACCTTTATAATTGAGGATCC
* **
399454 TAATTTTTTTAATCTCA-TTGTTTACCTTTATAATTGATG-TGT
1 TAA-TTTTTTAATCTCACTT-TTTACCTTTATAATTGAGGATCC
* * * *
399496 TGAATTTTTTCAATCCTAACTTTTTACCTTTATATTTGA-TACCCC
1 T-AATTTTTT-AAT-CTCACTTTTTACCTTTATAATTGAGGA-TCC
* * * * *
399541 TAGTTTTTTTCAATCTCACTTTCTAACTTTATAATTGAAG-CCC
1 TA-ATTTTTT-AATCTCACTTTTTACCTTTATAATTGAGGATCC
* * *
399584 TAATTTTTTTAGTTTCACTTTTTTACCTTTATAATTGA-GACCTC
1 TAA-TTTTTTAATCTCAC-TTTTTACCTTTATAATTGAGGATC-C
* * ***
399628 TAATTTTCTCAATC-CTAC-TTTTACTTTTATAATTGAATCTCC
1 TAATTTT-TTAATCTC-ACTTTTTACCTTTATAATTGAGGATCC
* * ** * *
399670 TAGTTTTTTTAATATCACTTTTTAAATTTATAATTTATGA-CC
1 TA-ATTTTTTAATCTCACTTTTTACCTTTATAATTGAGGATCC
** * * * *
399712 TTAATTTTTT--TCAAACTTTTTTCCTTTATAATCGAAGCTCC
1 -TAATTTTTTAATCTCACTTTTTACCTTTATAATTGAGGATCC
** * **
399753 TGGTTTTTTTAATTATCA-TTTTTACCTTTATAATTGAGGCCCC
1 T-AATTTTTTAA-TCTCACTTTTTACCTTTATAATTGAGGATCC
399796 TAATTTTTTCAATC
1 TAATTTTTT-AATC
399810 AATTTTTTGC
Statistics
Matches: 397, Mismatches: 95, Indels: 70
0.71 0.17 0.12
Matches are distributed among these distances:
40 19 0.05
41 8 0.02
42 103 0.26
43 183 0.46
44 71 0.18
45 13 0.03
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.52
Consensus pattern (42 bp):
TAATTTTTTAATCTCACTTTTTACCTTTATAATTGAGGATCC
Found at i:399361 original size:86 final size:86
Alignment explanation
Indices: 399244--399809 Score: 342
Period size: 86 Copynumber: 6.6 Consensus size: 86
399234 ATATATTTAA
* * * *** *
399244 TTTTTTAAT-TTAATTTTTTCTCTTTATAATTGAGGTTTCTAATTTCTGTAATCTCACTTTTTAC
1 TTTTTTAATCTT-ACTTTTTATATTTATAATTGAGGCCCCTAATTTCTTTAATCTCACTTTTTAC
*
399308 CTTTATAATTGATGCTCCTAGT
65 CTTTATAATTGATGCTCCTAAT
* *
399330 TTTTTTAATCTTACTTTTTATATTTATAATTGAGACCCC-AACTTT-TTTAATATCACTTTTTAC
1 TTTTTTAATCTTACTTTTTATATTTATAATTGAGGCCCCTAA-TTTCTTTAATCTCACTTTTTAC
* * *
399393 CTTTATAGTTGAGGC-CCTTTAT
65 CTTTATAATTGATGCTCC-TAAT
* ** * * * * *
399415 TTTTTCAATCTCGCCTTCTACATTTATAATTGAAGCCCCTAATTTTTTTAATCTCA-TTGTTTAC
1 TTTTTTAATCTTACTTTTTATATTTATAATTGAGGCCCCTAATTTCTTTAATCTCACTT-TTTAC
**
399479 CTTTATAATTGATG-TGTTGAAT
65 CTTTATAATTGATGCTCCT-AAT
* * ** * ** * * *
399501 TTTTTCAATCCTAACTTTTTACCTTTATATTTGATACCCCTAGTTTTTTTCAATCTCACTTTCTA
1 TTTTTTAAT-CTTACTTTTTATATTTATAATTGAGGCCCCTAATTTCTTT-AATCTCACTTTTTA
* *
399566 ACTTTATAATTGAAGC-CCTAAT
64 CCTTTATAATTGATGCTCCTAAT
* * * *
399588 TTTTTTAGT-TTCACTTTTT-TACCTTTATAATTGAGACCTCTAATTT-TCTCAATC-CTAC-TT
1 TTTTTTAATCTT-ACTTTTTATA--TTTATAATTGAGGCCCCTAATTTCT-TTAATCTC-ACTTT
* *
399648 TTACTTTTATAATTGAAT-CTCCTAGT
61 TTACCTTTATAATTG-ATGCTCCTAAT
* * * * * * * ** *
399674 TTTTTTAATATCACTTTTTAAATTTATAATTTATGACCTTAATTT-TTT--TCAAACTTTTTTCC
1 TTTTTTAATCTTACTTTTTATATTTATAATTGAGGCCCCTAATTTCTTTAATCTCACTTTTTACC
* * **
399736 TTTATAATCGAAGCTCCTGGT
66 TTTATAATTGATGCTCCTAAT
**
399757 TTTTTTAA--TTATCATTTTTACCTTTATAATTGAGGCCCCTAATTT-TTTCAATC
1 TTTTTTAATCTTA-C-TTTTTATATTTATAATTGAGGCCCCTAATTTCTTT-AATC
399810 AATTTTTTGC
Statistics
Matches: 372, Mismatches: 79, Indels: 58
0.73 0.16 0.11
Matches are distributed among these distances:
81 2 0.01
82 6 0.02
83 57 0.15
84 3 0.01
85 105 0.28
86 108 0.29
87 65 0.17
88 24 0.06
89 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (86 bp):
TTTTTTAATCTTACTTTTTATATTTATAATTGAGGCCCCTAATTTCTTTAATCTCACTTTTTACC
TTTATAATTGATGCTCCTAAT
Found at i:399386 original size:85 final size:86
Alignment explanation
Indices: 399282--399804 Score: 387
Period size: 85 Copynumber: 6.1 Consensus size: 86
399272 ATTGAGGTTT
* * *
399282 CTAATTTCTGTAATCTCACTTTTTACCTTTATAATTGATGCTCCTAGTTTTTTTAATCTTACTTT
1 CTAATTTTTTTAATATCACTTTTTACCTTTATAATTGATGCTCCTAGTTTTTTTAATCTTACTTT
*
399347 TTATATTTATAATTGAGACCC
66 TTACATTTATAATTGAGACCC
* * * * ** *
399368 C-AACTTTTTTAATATCACTTTTTACCTTTATAGTTGAGGC-CCTTTA-TTTTTTCAATCTCGCC
1 CTAATTTTTTTAATATCACTTTTTACCTTTATAATTGATGCTCC--TAGTTTTTTTAATCTTACT
*
399430 TTCTACATTTATAATTGA-AGCCC
64 TTTTACATTTATAATTGAGA-CCC
* ** * * *
399453 CTAATTTTTTTAATCTCA-TTGTTTACCTTTATAATTGATG-TGTTGAATTTTTTCAATCCTAAC
1 CTAATTTTTTTAATATCACTT-TTTACCTTTATAATTGATGCTCCT-AGTTTTTTTAAT-CTTAC
* * *
399516 TTTTTACCTTTATATTTGATACCC
63 TTTTTACATTTATAATTGAGACCC
* * * * * * *
399540 CTAGTTTTTTTCAATCTCACTTTCTAACTTTATAATTGAAGC-CCTAATTTTTTTAGT-TTCACT
1 CTAATTTTTTT-AATATCACTTTTTACCTTTATAATTGATGCTCCTAGTTTTTTTAATCTT-AC-
* *
399603 TTTTTACCTTTATAATTGAGACCT
63 TTTTTACATTTATAATTGAGACCC
* * * * * *
399627 CTAATTTTCTCAAT-CCTAC-TTTTACTTTTATAATTGAAT-CTCCTAGTTTTTTTAATATCACT
1 CTAATTTTTTTAATATC-ACTTTTTACCTTTATAATTG-ATGCTCCTAGTTTTTTTAATCTTACT
* *
399689 TTTTAAATTTATAATTTATGA-CC
64 TTTTACATTTATAATTGA-GACCC
* * * * * *
399712 TTAATTTTTTTCA-A--ACTTTTTTCCTTTATAATCGAAGCTCCTGGTTTTTTTAA--TTATCAT
1 CTAATTTTTTTAATATCACTTTTTACCTTTATAATTGATGCTCCTAGTTTTTTTAATCTTA-C-T
* *
399772 TTTTACCTTTATAATTGAGGCCC
64 TTTTACATTTATAATTGAGACCC
399795 CTAATTTTTT
1 CTAATTTTTT
399805 CAATCAATTT
Statistics
Matches: 345, Mismatches: 66, Indels: 55
0.74 0.14 0.12
Matches are distributed among these distances:
81 2 0.01
82 5 0.01
83 56 0.16
84 4 0.01
85 111 0.32
86 69 0.20
87 71 0.21
88 25 0.07
89 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (86 bp):
CTAATTTTTTTAATATCACTTTTTACCTTTATAATTGATGCTCCTAGTTTTTTTAATCTTACTTT
TTACATTTATAATTGAGACCC
Found at i:401945 original size:60 final size:60
Alignment explanation
Indices: 401817--401962 Score: 152
Period size: 60 Copynumber: 2.4 Consensus size: 60
401807 AAAGTTTGGA
* * *
401817 ACCAATTTAGAATGAGAGTCATAGTTTGAGAATGAAATCAAAATGTTCAAAAGTATAATG
1 ACCAATTTAGAATGAGAGTCATAGTTTGAGAATAAAATCAAAATATTCAAAAGTATAAGG
** * * * * *
401877 AGTAATTTAGAATGAGTA-TTATAGTTTGAGGATAAAATTATAATATTCAAAAGTTTAAGG
1 ACCAATTTAGAATGAG-AGTCATAGTTTGAGAATAAAATCAAAATATTCAAAAGTATAAGG
* *
401937 ACCGATTTAAAATGA-AGGTCATAGTT
1 ACCAATTTAGAATGAGA-GTCATAGTT
401963 AAGGGACATA
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
58 1 0.01
60 66 0.97
61 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.32
Consensus pattern (60 bp):
ACCAATTTAGAATGAGAGTCATAGTTTGAGAATAAAATCAAAATATTCAAAAGTATAAGG
Found at i:403982 original size:24 final size:23
Alignment explanation
Indices: 403904--403991 Score: 108
Period size: 23 Copynumber: 3.8 Consensus size: 23
403894 AAATCTTAAA
* *
403904 TGGCACTACGGTGCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
403927 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
403950 CGGTC-CTTCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-C-AATTCTACG
403974 TGGCACTTCGGTGCAATT
1 TGGCACTTCGGTGCAATT
403992 TATATGAGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.02
23 35 0.62
24 19 0.34
25 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:440220 original size:32 final size:32
Alignment explanation
Indices: 440172--440232 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
440162 TAGAGAATAA
*
440172 GAGCTGATGTAGCTGAA-GTTGGTATGTTGTAT
1 GAGCTGATGTAACTGAAGGTT-GTATGTTGTAT
*
440204 GAGCTGGTGTAACTGAAGGTTGTATGTTG
1 GAGCTGATGTAACTGAAGGTTGTATGTTG
440233 CCTGTAGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (32 bp):
GAGCTGATGTAACTGAAGGTTGTATGTTGTAT
Found at i:450795 original size:32 final size:32
Alignment explanation
Indices: 450759--450840 Score: 155
Period size: 32 Copynumber: 2.6 Consensus size: 32
450749 GTAAAAGAAA
450759 AAATGTTAGGCTTAATTTTATTTTTGAAACAT
1 AAATGTTAGGCTTAATTTTATTTTTGAAACAT
*
450791 AAATGTTAGGCTTAATTTTATTTTTGAAACGT
1 AAATGTTAGGCTTAATTTTATTTTTGAAACAT
450823 AAATGTTAGGCTTAATTT
1 AAATGTTAGGCTTAATTT
450841 CAATTGATCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (32 bp):
AAATGTTAGGCTTAATTTTATTTTTGAAACAT
Found at i:452422 original size:119 final size:118
Alignment explanation
Indices: 452208--452447 Score: 435
Period size: 119 Copynumber: 2.0 Consensus size: 118
452198 CATTTATGAT
452208 AATGTTCAAATAACAATATGAACAGATTCCACAATCTAAAATATGTAAAGGAAAAACTATTATGT
1 AATGTTCAAATAACAATATGAACAGATTCCACAATCTAAAATATGTAAAGGAAAAACTATTATGT
452273 AATTTCTCTGGTTATAATGATGTCGCACGGTTGCTTCACCTGACTAACATGGAA
66 AATTTCTCTGGTTATAATGATGTCGCACGGTTGCTTCACCTG-CTAACATGGAA
* * *
452327 AATGTTCAAATAACAATATGAATAGATTTCACAATCTAAAATATGTAAATGAAAAACTATTATGT
1 AATGTTCAAATAACAATATGAACAGATTCCACAATCTAAAATATGTAAAGGAAAAACTATTATGT
*
452392 AATTTCTCTGGTTATAATGATGTCGTACGGTTGCTTCACCTGCTAACATGGAA
66 AATTTCTCTGGTTATAATGATGTCGCACGGTTGCTTCACCTGCTAACATGGAA
452445 AAT
1 AAT
452448 AATATAATGC
Statistics
Matches: 117, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
118 14 0.12
119 103 0.88
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (118 bp):
AATGTTCAAATAACAATATGAACAGATTCCACAATCTAAAATATGTAAAGGAAAAACTATTATGT
AATTTCTCTGGTTATAATGATGTCGCACGGTTGCTTCACCTGCTAACATGGAA
Found at i:462796 original size:18 final size:18
Alignment explanation
Indices: 462775--462814 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
462765 TTAATACACG
462775 AATTTAATTCTAAAATTT
1 AATTTAATTCTAAAATTT
462793 AATTTAATTCTAAAATTT
1 AATTTAATTCTAAAATTT
462811 AATT
1 AATT
462815 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTTAATTCTAAAATTT
Found at i:462810 original size:31 final size:30
Alignment explanation
Indices: 462775--462858 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
462765 TTAATACACG
462775 AATTTAATTCTAAAATTTAATTTAATTCTAA
1 AATTTAATT-TAAAATTTAATTTAATTCTAA
* *
462806 AATTTAA-TTAAAATTTTAAATTTAGTTTTAA
1 AATTTAATTTAAAA-TTT-AATTTAATTCTAA
* * *
462837 ATTTTAATTTGATATTTAATTT
1 AATTTAATTTAAAATTTAATTT
462859 TTGATTTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 5 0.11
30 9 0.20
31 27 0.60
32 4 0.09
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTTAATTTAAAATTTAATTTAATTCTAA
Found at i:462826 original size:18 final size:17
Alignment explanation
Indices: 462787--462884 Score: 72
Period size: 18 Copynumber: 5.4 Consensus size: 17
462777 TTTAATTCTA
* *
462787 AAATTTAATTTAATTCTA
1 AAATTTAATTAAATT-TT
462805 AAATTTAATTAAAATTTT
1 AAATTTAATT-AAATTTT
*
462823 AAATTTAGTTTTAAATTTT
1 AAATTTA--ATTAAATTTT
*
462842 -AATTTGATATTTAATTTT
1 AAATTT-A-ATTAAATTTT
**
462860 TGATTTAATTAAATATTT
1 AAATTTAATTAAAT-TTT
462878 AAATTTA
1 AAATTTA
462885 TATTTTTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
17 6 0.09
18 41 0.63
19 16 0.25
20 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (17 bp):
AAATTTAATTAAATTTT
Found at i:462854 original size:19 final size:18
Alignment explanation
Indices: 462806--462889 Score: 68
Period size: 19 Copynumber: 4.6 Consensus size: 18
462796 TTAATTCTAA
*
462806 AATTTA-ATTAAAATTTT
1 AATTTATATTTAAATTTT
462823 AAATTTAGT-TTTAAATTTT
1 -AATTTA-TATTTAAATTTT
*
462842 AATTTGATATTTAATTTTT
1 AATTT-ATATTTAAATTTT
*
462861 GATTTA-A-TTAAATATTT
1 AATTTATATTTAAAT-TTT
462878 AAATTTATATTT
1 -AATTTATATTT
462890 TTAAAAATTG
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
16 5 0.09
17 4 0.08
18 18 0.34
19 24 0.45
20 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
AATTTATATTTAAATTTT
Found at i:462889 original size:24 final size:24
Alignment explanation
Indices: 462839--462889 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
462829 AGTTTTAAAT
** *
462839 TTTAATTTGATATTTAATTTTTGA
1 TTTAATTAAATATTTAATTTATGA
462863 TTTAATTAAATATTTAAATTTAT-A
1 TTTAATTAAATATTT-AATTTATGA
462887 TTT
1 TTT
462890 TTAAAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTAATTAAATATTTAATTTATGA
Found at i:469015 original size:106 final size:106
Alignment explanation
Indices: 468803--469857 Score: 1776
Period size: 106 Copynumber: 10.0 Consensus size: 106
468793 GGGTCGCTCA
* *
468803 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
468867 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
468908 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
*
468973 CTGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
469014 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
*
469079 CTGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
469120 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTTTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
469185 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
469226 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTTTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
* *
469291 CAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
469332 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCGATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
**
469397 CAGAGTTAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
469438 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCGATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
* *
469502 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
469543 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCGATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
* *
469607 CAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
469648 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
469713 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
469754 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAA-TTTTCCAGTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT-CAATT
* * *** *
469818 CCATAGCCAATTTCAACTTCATGGCGGAGGATATTGGACT
65 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
469858 TGGAACAATA
Statistics
Matches: 910, Mismatches: 37, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
105 258 0.28
106 652 0.72
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:470162 original size:83 final size:84
Alignment explanation
Indices: 470048--470217 Score: 218
Period size: 83 Copynumber: 2.0 Consensus size: 84
470038 AGAAGGAGTG
* * * *
470048 TCTGCCAACAAAAGACCTTTGAATTCGACTACGCTCAGTTCA-ATGGCACATCATTTGCAGCATA
1 TCTGCCAACAAAAGACCTTCGAATTCGACTACGCTCAGCTCATA-GGCACATCATCTACAGCATA
* * *
470112 ACTCAAGTCGAGAAGGGTTA
65 ACCCAAGGCAAGAAGGGTTA
* * * *
470132 TCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTTAGCTCTTAGGCACATCATCTACAGCATAG
1 TCTGCCAACAAAAGACCTTCGAATTCGACTACGCTCAGCTCATAGGCACATCATCTACAGCATAA
470196 CCCAAGGCAAGAAGGGTTA
66 CCCAAGGCAAGAAGGGTTA
470215 TCT
1 TCT
470218 ATCAATAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
83 64 0.86
84 10 0.14
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (84 bp):
TCTGCCAACAAAAGACCTTCGAATTCGACTACGCTCAGCTCATAGGCACATCATCTACAGCATAA
CCCAAGGCAAGAAGGGTTA
Found at i:477902 original size:78 final size:78
Alignment explanation
Indices: 477788--478112 Score: 451
Period size: 78 Copynumber: 4.1 Consensus size: 78
477778 GCAAAGGGAG
* *
477788 GACAATGCTGAGGATCAAGGGAAAAGAAACGAGGCAAAACAAAAAGACACTGCAAATGTTTCGGA
1 GACAATGCTGAGGATCAAGGGAAAAGAAAAGAGGCAAAACAAAAAGAGACTGCAAATGTTTCGGA
477853 ACAACGAAAAGAA
66 ACAACGAAAAGAA
477866 GACAATGCTGAGGATCAAGGGAAAAGAAATAG-GGCAAAACAAAAA-AGGACTGCAATAGTGTTT
1 GACAATGCTGAGGATCAAGGGAAAAGAAA-AGAGGCAAAACAAAAAGA-GACTGCAA-A-TGTTT
* *
477929 CGGAACGACAAAAAGAA
62 CGGAACAACGAAAAGAA
* * * *
477946 GACAATGCTGAGGATCAAGGGAAAAGAAACGAGGCAAAACAAAAAGGGACTGCAAGTGTCTCGGA
1 GACAATGCTGAGGATCAAGGGAAAAGAAAAGAGGCAAAACAAAAAGAGACTGCAAATGTTTCGGA
478011 ACAACGAAAAGAA
66 ACAACGAAAAGAA
* *
478024 GACAATGCTGAGGATCAAGGGAAAAGAAACA-AGGCAAAACAAAAAAAGACTGCAAATGTTTCAG
1 GACAATGCTGAGGATCAAGGGAAAAGAAA-AGAGGCAAAACAAAAAGAGACTGCAAATGTTTCGG
*
478088 AACGAC-AAAAGGAA
65 AACAACGAAAA-GAA
* *
478102 GATAATCCTGA
1 GACAATGCTGA
478113 AGAACAACCT
Statistics
Matches: 220, Mismatches: 19, Indels: 16
0.86 0.07 0.06
Matches are distributed among these distances:
77 5 0.02
78 142 0.65
79 3 0.01
80 70 0.32
ACGTcount: A:0.49, C:0.14, G:0.25, T:0.11
Consensus pattern (78 bp):
GACAATGCTGAGGATCAAGGGAAAAGAAAAGAGGCAAAACAAAAAGAGACTGCAAATGTTTCGGA
ACAACGAAAAGAA
Found at i:478060 original size:158 final size:156
Alignment explanation
Indices: 477788--478112 Score: 533
Period size: 158 Copynumber: 2.1 Consensus size: 156
477778 GCAAAGGGAG
*
477788 GACAATGCTGAGGATCAAGGGAAAAGAAACGAGGCAAAACAAAAAGACACTGCAAATGTTTCGGA
1 GACAATGCTGAGGATCAAGGGAAAAGAAACGAGGCAAAACAAAAAGACACTGCAAATGTCTCGGA
* * *
477853 ACAACGAAAAGAAGACAATGCTGAGGATCAAGGGAAAAGAAATAGGGCAAAACAAAAAAGGACTG
66 ACAACGAAAAGAAGACAATGCTGAGGATCAAGGGAAAAGAAACAAGGCAAAACAAAAAAAGACTG
*
477918 CAATAGTGTTTCGGAACGACAAAAAGAA
131 CAA-A-TGTTTCAGAACGACAAAAAGAA
** *
477946 GACAATGCTGAGGATCAAGGGAAAAGAAACGAGGCAAAACAAAAAGGGACTGCAAGTGTCTCGGA
1 GACAATGCTGAGGATCAAGGGAAAAGAAACGAGGCAAAACAAAAAGACACTGCAAATGTCTCGGA
478011 ACAACGAAAAGAAGACAATGCTGAGGATCAAGGGAAAAGAAACAAGGCAAAACAAAAAAAGACTG
66 ACAACGAAAAGAAGACAATGCTGAGGATCAAGGGAAAAGAAACAAGGCAAAACAAAAAAAGACTG
*
478076 CAAATGTTTCAGAACGACAAAAGGAA
131 CAAATGTTTCAGAACGACAAAAAGAA
* *
478102 GATAATCCTGA
1 GACAATGCTGA
478113 AGAACAACCT
Statistics
Matches: 156, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
156 29 0.19
157 1 0.01
158 126 0.81
ACGTcount: A:0.49, C:0.14, G:0.25, T:0.11
Consensus pattern (156 bp):
GACAATGCTGAGGATCAAGGGAAAAGAAACGAGGCAAAACAAAAAGACACTGCAAATGTCTCGGA
ACAACGAAAAGAAGACAATGCTGAGGATCAAGGGAAAAGAAACAAGGCAAAACAAAAAAAGACTG
CAAATGTTTCAGAACGACAAAAAGAA
Found at i:486559 original size:17 final size:17
Alignment explanation
Indices: 486537--486597 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
486527 TACAGCCAAT
486537 AACTCTAGCTTTAGTTC
1 AACTCTAGCTTTAGTTC
* *
486554 AACTCTAAGGATATTTATGAT-
1 AACTCT-A-G--CTTTA-GTTC
486575 AACTCTAGCTTTAGTTC
1 AACTCTAGCTTTAGTTC
486592 AACTCT
1 AACTCT
486598 TAAGGATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 2 0.06
17 16 0.47
18 1 0.03
19 2 0.06
20 1 0.03
21 10 0.29
22 2 0.06
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (17 bp):
AACTCTAGCTTTAGTTC
Found at i:486586 original size:38 final size:39
Alignment explanation
Indices: 486535--486613 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 39
486525 GTTACAGCCA
486535 ATAACTCTAGCTTTAGTTCAACTC-TAAGGATATTTATG
1 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
486573 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
1 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
486612 AT
1 AT
486614 GTGATACATG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 24 0.60
39 16 0.40
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (39 bp):
ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
Found at i:490659 original size:106 final size:106
Alignment explanation
Indices: 490471--491039 Score: 949
Period size: 106 Copynumber: 5.4 Consensus size: 106
490461 TACAGCCTTT
*
490471 AGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
490536 CGAAGGGACCACGGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
490577 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
490642 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
490683 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
490748 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
* * *
490789 AGAGCTAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
490854 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTT
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
* *
490895 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTGCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* ** * *
490960 TGAAGGGACCGCTGGTTGTCAATAAACAGTTTCCCAATCTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
* * * *
491001 AGGGCCGATTTCAACTTCACGACGGAGGATATTGGACTC
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
491040 GGAACAATGC
Statistics
Matches: 436, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 436 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
Found at i:491386 original size:85 final size:85
Alignment explanation
Indices: 491238--491541 Score: 405
Period size: 85 Copynumber: 3.6 Consensus size: 85
491228 CGGCCGAAAA
* * * *
491238 CCTTCGAGTTCGATTTCATTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAG
1 CCTTCGAGTTCGATTTCATTCAGC-TCCAAGGCGCATCATTTGCAGCATAAATTAAGTCGAGAAG
491303 GGTTATCTGCCAACCAAAGAG
65 GGTTATCTGCCAACCAAAGAG
* *
491324 CCTTCGAGTTCGATTTCATTCAGCTCCAAGGCGCATTATTTGCAGCATAATTTAAGTCGAGAAGG
1 CCTTCGAGTTCGATTTCATTCAGCTCCAAGGCGCATCATTTGCAGCATAAATTAAGTCGAGAAGG
491389 GTTATCTGCCAACCAAAGAG
66 GTTATCTGCCAACCAAAGAG
* * * * * * *
491409 CATTCGAGTTCAATTTCATTCAGCTCCAAGGCGTATCATTTGCAGCATAAATCAAGGCTAGAAGA
1 CCTTCGAGTTCGATTTCATTCAGCTCCAAGGCGCATCATTTGCAGCATAAATTAAGTCGAGAAGG
* *
491474 GTTATCTGTCAA-CAAATA-
66 GTTATCTGCCAACCAAAGAG
* * * *
491492 CCTTCGAGTTTGATTCCACTCAGCTCCAAGGCACCATCATTTGCAGCATA
1 CCTTCGAGTTCGATTTCATTCAGCTCCAAGGC-GCATCATTTGCAGCATA
491542 GCTCAAGGAA
Statistics
Matches: 194, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
83 27 0.14
84 20 0.10
85 123 0.63
86 24 0.12
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (85 bp):
CCTTCGAGTTCGATTTCATTCAGCTCCAAGGCGCATCATTTGCAGCATAAATTAAGTCGAGAAGG
GTTATCTGCCAACCAAAGAG
Found at i:492163 original size:17 final size:16
Alignment explanation
Indices: 492143--492193 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
492133 ATTTTTATAT
492143 ATAATAGATTATTATTA
1 ATAATA-ATTATTATTA
492160 ATAATAATATATTATT-
1 ATAATAAT-TATTATTA
*
492176 ATTAT-ATTATTATTA
1 ATAATAATTATTATTA
492191 ATA
1 ATA
492194 CTATTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
16 6 0.20
17 13 0.43
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATAATAATTATTATTA
Found at i:492183 original size:11 final size:11
Alignment explanation
Indices: 492150--492190 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
492140 TATATAATAG
492150 ATTATTATTA-
1 ATTATTATTAT
* *
492160 A-TAATAATAT
1 ATTATTATTAT
492170 ATTATTATTAT
1 ATTATTATTAT
492181 ATTATTATTA
1 ATTATTATTA
492191 ATACTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
9 6 0.24
10 2 0.08
11 17 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTATTAT
Found at i:493844 original size:17 final size:17
Alignment explanation
Indices: 493822--493882 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
493812 TACAGCCAAT
493822 AACTCTAGCTTTAGTTC
1 AACTCTAGCTTTAGTTC
* *
493839 AACTCTAAGGATATTTATGAT-
1 AACTCT-A-G--CTTTA-GTTC
493860 AACTCTAGCTTTAGTTC
1 AACTCTAGCTTTAGTTC
493877 AACTCT
1 AACTCT
493883 TAAGGATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 2 0.06
17 16 0.47
18 1 0.03
19 2 0.06
20 1 0.03
21 10 0.29
22 2 0.06
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (17 bp):
AACTCTAGCTTTAGTTC
Found at i:493871 original size:38 final size:39
Alignment explanation
Indices: 493820--493898 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 39
493810 GTTACAGCCA
493820 ATAACTCTAGCTTTAGTTCAACTC-TAAGGATATTTATG
1 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
493858 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
1 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
493897 AT
1 AT
493899 GTGATACATG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 24 0.60
39 16 0.40
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (39 bp):
ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
Found at i:494750 original size:63 final size:63
Alignment explanation
Indices: 494639--494763 Score: 205
Period size: 63 Copynumber: 2.0 Consensus size: 63
494629 TTATGTCATA
* *
494639 AAAAGTATTAATAAAATAAATTAAAATGAATAAAATAGTGGCATTTTAAAAGTTGAGTAGTTC
1 AAAAGTATTAATAAAATAAATTAAAATGAATAAAATAGTGACAATTTAAAAGTTGAGTAGTTC
* * *
494702 AAAATTATTAATAAAATAAATTAAAATGATTAACATAGTGACAATTTAAAAGTTGAGTAGTT
1 AAAAGTATTAATAAAATAAATTAAAATGAATAAAATAGTGACAATTTAAAAGTTGAGTAGTT
494764 GAATTGAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.51, C:0.03, G:0.13, T:0.33
Consensus pattern (63 bp):
AAAAGTATTAATAAAATAAATTAAAATGAATAAAATAGTGACAATTTAAAAGTTGAGTAGTTC
Found at i:502488 original size:32 final size:32
Alignment explanation
Indices: 502443--502584 Score: 83
Period size: 32 Copynumber: 4.4 Consensus size: 32
502433 AAATTTCGGG
**
502443 TTCGGGTTAGGTCGGGTTTTTTAAGTTTGATA
1 TTCGGGTCGGGTCGGGTTTTTTAAGTTTGATA
** *** *
502475 TTCGGGTCGGGTCGGGTTGGGTCGGGTTTTATAAA
1 TTCGGGTCGGGTCGGGTT-TTTTAAGTTTGAT--A
502510 TTC--GTCGGGTC-GGTTTTTTAAAGTTTGATA
1 TTCGGGTCGGGTCGGGTTTTTT-AAGTTTGATA
** ** * **
502540 TTTAGGTCGGGTTAAGTTTTTTTAAGCGTGATA
1 TTCGGGTCGGG-TCGGGTTTTTTAAGTTTGATA
502573 TTCGGGTCGGGT
1 TTCGGGTCGGGT
502585 TTAAGGTTTA
Statistics
Matches: 81, Mismatches: 21, Indels: 16
0.69 0.18 0.14
Matches are distributed among these distances:
30 3 0.04
31 1 0.01
32 33 0.41
33 33 0.41
34 7 0.09
35 4 0.05
ACGTcount: A:0.15, C:0.09, G:0.34, T:0.42
Consensus pattern (32 bp):
TTCGGGTCGGGTCGGGTTTTTTAAGTTTGATA
Found at i:503112 original size:17 final size:18
Alignment explanation
Indices: 503090--503136 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
503080 GTTTCATATT
503090 TAGATTCTAATT-TTTAA
1 TAGATTCTAATTCTTTAA
*
503107 TAGATTCTAATTCTTTCA
1 TAGATTCTAATTCTTTAA
*
503125 CAGATTCTAATT
1 TAGATTCTAATT
503137 ATCTCATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (18 bp):
TAGATTCTAATTCTTTAA
Found at i:504022 original size:21 final size:20
Alignment explanation
Indices: 503985--504024 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
503975 CAAAAATATT
* *
503985 TAAAAATATGATGTTTTATG
1 TAAAAATATAATATTTTATG
504005 TAAAAATAATAATATTTTAT
1 TAAAAAT-ATAATATTTTAT
504025 ATAATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
TAAAAATATAATATTTTATG
Found at i:504458 original size:23 final size:24
Alignment explanation
Indices: 504414--504468 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
504404 TATATTATAT
**
504414 TATATTTATGTTTAAAGTTTAATA
1 TATATTTATGTTTAAAAATTAATA
504438 TATATTTATG-TTAAAAATTAATA
1 TATATTTATGTTTAAAAATTAATA
504461 TAT-TTTAT
1 TATATTTAT
504469 TTCGTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 5 0.17
23 14 0.48
24 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (24 bp):
TATATTTATGTTTAAAAATTAATA
Found at i:505116 original size:29 final size:29
Alignment explanation
Indices: 505075--505136 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
505065 TAATTTAATT
*
505075 TTAAATATTATAATTCT-ATATTTTAAATC
1 TTAAATATGATAATT-TAATATTTTAAATC
* * *
505104 TTAAATCTGATAATTTAATTTTTTTAATC
1 TTAAATATGATAATTTAATATTTTAAATC
505133 TTAA
1 TTAA
505137 TTGTCTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (29 bp):
TTAAATATGATAATTTAATATTTTAAATC
Found at i:505119 original size:22 final size:23
Alignment explanation
Indices: 505070--505119 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
505060 ATAATTAATT
505070 TAATTTTAAATATTATAATTCTA
1 TAATTTTAAATATTATAATTCTA
*
505093 T-ATTTTAAATCTTA-AA-TCTGA
1 TAATTTTAAATATTATAATTCT-A
505114 TAATTT
1 TAATTT
505120 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.12
21 4 0.17
22 16 0.67
23 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (23 bp):
TAATTTTAAATATTATAATTCTA
Found at i:506048 original size:2 final size:2
Alignment explanation
Indices: 506041--506075 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
506031 TTTGGCAATC
506041 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
506076 AAAATAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:516720 original size:3 final size:3
Alignment explanation
Indices: 516712--516769 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
516702 CAAAAATTTG
* * **
516712 TAA TAA TAAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
516756 TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA
516770 CGAAAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 5 0.11
3 39 0.83
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:516772 original size:29 final size:29
Alignment explanation
Indices: 516714--516772 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
516704 AAAATTTGTA
* *
516714 ATAATAAATAATAAAATAATAAGATGACG
1 ATAATAAATAATAAAATAATAAAATAACG
516743 ATAAT-AATAATAATAATAATAAAATAACG
1 ATAATAAATAATAA-AATAATAAAATAACG
516772 A
1 A
516773 AAAAAAACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.25
Consensus pattern (29 bp):
ATAATAAATAATAAAATAATAAAATAACG
Found at i:517048 original size:46 final size:45
Alignment explanation
Indices: 516963--517252 Score: 211
Period size: 46 Copynumber: 6.7 Consensus size: 45
516953 TGGTCGGGGA
* * * * **
516963 ATGACACGGCTCATACGTGATGAAGA-GTTCTGGCCATCTAAAGGTG
1 ATGACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCT-AAGGTG
*
517009 ATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-AGG-G
1 ATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGTG
* * * * *
517052 -TGACACGGCTCATACGTGATGAAGA-GATCTGG---TCT--GGGG
1 ATGACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAAGGTG
* **
517091 ATGACACGGTTCCTACATGATGAGGACGGCTGGCCATCTAAAGGTG
1 ATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-AAGGTG
* *
517137 ATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT-
1 ATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGTG
* * * *
517181 -TGACACGGCTCCTACGTGATGAAGA-GTTCTGG---TCT--GGGG
1 ATGACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAAGGTG
*
517220 ATGACACGGTTCCTACATGATGAGGACGGCTGG
1 ATGACACGGTTCCTACGTGATGAGGACGGCTGG
517253 CCATCTTTAG
Statistics
Matches: 197, Mismatches: 32, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
38 4 0.02
39 4 0.02
40 54 0.27
41 3 0.02
42 26 0.13
43 30 0.15
44 3 0.02
45 4 0.02
46 68 0.35
47 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (45 bp):
ATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGTG
Found at i:517130 original size:82 final size:84
Alignment explanation
Indices: 516964--517130 Score: 230
Period size: 82 Copynumber: 2.0 Consensus size: 84
516954 GGTCGGGGAA
* * *
516964 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGG-C-TCT--AGGGGATAACACGGTTCCTACATGA
**
517029 TGAGGACGGCTGGTTATCTAGGG
62 TGAGGACGGCTGGCCATCTAGGG
*
517052 TGACACGGCTCATACGTGATGAAGAGATCTGG-TCT-GGGGATGACACGGTTCCTACATGATGAG
1 TGACACGGCTCATACGTGATGAAGAGATCTGGCTCTAGGGGATAACACGGTTCCTACATGATGAG
517115 GACGGCTGGCCATCTA
66 GACGGCTGGCCATCTA
517131 AAGGTGATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
82 39 0.53
85 3 0.04
88 31 0.42
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (84 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGCTCTAGGGGATAACACGGTTCCTACATGATGAG
GACGGCTGGCCATCTAGGG
Found at i:517241 original size:129 final size:128
Alignment explanation
Indices: 516925--517258 Score: 519
Period size: 128 Copynumber: 2.6 Consensus size: 128
516915 TGGTGGGGAC
* ** * * * * *
516925 GACACTGCTCCTACGCAATGAAGAGATATGGTC-GGGGAATGACACGGCTCATACGTGATGAAGA
1 GACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGG-ATGACACGGTTCCTACATGATGAGGA
*
516989 -GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGT
65 CG-GCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGT
*
517053 GACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGAC
1 GACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGAC
*
517118 GGCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTT
66 GGCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTA-GGGT
*
517182 GACACGGCTCCTACGTGATGAAGAGTTCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGAC
1 GACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGAC
517247 GGCTGGCCATCT
66 GGCTGGCCATCT
517259 TTAGGAGTTA
Statistics
Matches: 190, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
128 107 0.56
129 83 0.44
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (128 bp):
GACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGAC
GGCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGT
Found at i:517416 original size:36 final size:36
Alignment explanation
Indices: 517376--517450 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
517366 GTTTCAAAAG
*
517376 AAATGACTCAAAGATT-GTTTAAAGGAAAACTG-TCTC
1 AAATGACACAAA-ATTCGTTTAAAGGAAAA-TGATCTC
* *
517412 AAATGAGACAAAATTCGTTTAAAGGGAAATGATCTC
1 AAATGACACAAAATTCGTTTAAAGGAAAATGATCTC
517448 AAA
1 AAA
517451 GATGTTTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (36 bp):
AAATGACACAAAATTCGTTTAAAGGAAAATGATCTC
Found at i:517420 original size:63 final size:62
Alignment explanation
Indices: 517340--517457 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 62
517330 TTTCAAAAGC
*
517340 AACTGTCTCAAAAGAGACAAAATTTTGTTTCAAA-AGAAATGA-CTCAAAGATTGTTTAAAGGAA
1 AACTGTCTCAAAAGAGACAAAA-TTCGTTT-AAAGAGAAATGATCTCAAAGA-TGTTTAAAGGAA
* *
517403 AACTGTCTCAAATGAGACAAAATTCGTTTAAAGGGAAATGATCTCAAAGATGTTT
1 AACTGTCTCAAAAGAGACAAAATTCGTTTAAAGAGAAATGATCTCAAAGATGTTT
517458 GTTTTGTTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
61 3 0.06
62 18 0.36
63 29 0.58
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (62 bp):
AACTGTCTCAAAAGAGACAAAATTCGTTTAAAGAGAAATGATCTCAAAGATGTTTAAAGGAA
Found at i:517484 original size:35 final size:35
Alignment explanation
Indices: 517445--517524 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 35
517435 GGGAAATGAT
* * *
517445 CTCAAAGATGTTTG-TTTTGTT-TCAAAGGAAACATA
1 CTCAAAGATG-GTGATTTTGTTCCCAAA-GAAACAAA
517480 CTCAAAGATGGTGAATTTTGTTCCCAAAGAAACAAA
1 CTCAAAGATGGTG-ATTTTGTTCCCAAAGAAACAAA
517516 CTCAAAGAT
1 CTCAAAGAT
517525 TTTTCTCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 2 0.05
35 10 0.26
36 23 0.59
37 4 0.10
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (35 bp):
CTCAAAGATGGTGATTTTGTTCCCAAAGAAACAAA
Found at i:517927 original size:120 final size:120
Alignment explanation
Indices: 517781--517998 Score: 296
Period size: 121 Copynumber: 1.8 Consensus size: 120
517771 TGTCTCGAGA
* * ** *
517781 AATTTTTTTCAAAGGAAACAAACTCAAAGATT-TTTTTCTCAAAAGAAATTGTCTTTA-AGAGAT
1 AATTTTTTTCAAAGGAAACAAACTCAAAGATTGGTTTT-TCAAAAGAAACTGTCTCAAGAGAGAC
* *
517844 AAATTTTTGTTTCAAAAGAAACAGACTCAAAGATGGATTACATCTTAAGTGAGACG
65 AAAATTTTGTTTCAAAAGAAACAAACTCAAAGATGGATTACATCTTAAGTGAGACG
* * **
517900 AATTTTTTTCCAAAGGAAACAATCTCAAAGGTTGGTTTTTCATTAGAAACTGTCTCAAGAGAGAC
1 AATTTTTTT-CAAAGGAAACAAACTCAAAGATTGGTTTTTCAAAAGAAACTGTCTCAAGAGAGAC
*
517965 AAAATTTTGTTTCCAAAGAAACAAACTCAAAGAT
65 AAAATTTTGTTTCAAAAGAAACAAACTCAAAGAT
517999 TTTTTTAAGA
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
119 9 0.11
120 35 0.42
121 40 0.48
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (120 bp):
AATTTTTTTCAAAGGAAACAAACTCAAAGATTGGTTTTTCAAAAGAAACTGTCTCAAGAGAGACA
AAATTTTGTTTCAAAAGAAACAAACTCAAAGATGGATTACATCTTAAGTGAGACG
Found at i:518015 original size:27 final size:27
Alignment explanation
Indices: 517974--518063 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
517964 CAAAATTTTG
* *
517974 TTTCCAAAGAAACAAACTCAAAGATTT
1 TTTCAAAAGGAACAAACTCAAAGATTT
* * *
518001 TTTTAAGAGGAACAAACTCCAAGATTT
1 TTTCAAAAGGAACAAACTCAAAGATTT
518028 TTTCAAAAGGAACAAACTCAAAGATTT
1 TTTCAAAAGGAACAAACTCAAAGATTT
518055 TTTCAAAAG
1 TTTCAAAAG
518064 AAATTGTCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.28
Consensus pattern (27 bp):
TTTCAAAAGGAACAAACTCAAAGATTT
Found at i:518450 original size:36 final size:36
Alignment explanation
Indices: 518410--518546 Score: 152
Period size: 36 Copynumber: 3.8 Consensus size: 36
518400 AAAGGAAAAA
* * * *
518410 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAACGAGACAAAATTTGTTTTAAGAGAAAT
* **
518446 TGTCTCAAACGAGACAAAATTTGTTTTTAGA-AAGC
1 TGTCTCAAACGAGACAAAATTTGTTTTAAGAGAAAT
* * *
518481 TGTTTCAAGCGAGACAAAATTTGCTTTGAA-AGAAAT
1 TGTCTCAAACGAGACAAAATTTG-TTTTAAGAGAAAT
518517 TGTCTCAAACGAGACAAAAATTTGTTTTAA
1 TGTCTCAAACGAGAC-AAAATTTGTTTTAA
518547 AATTCTCAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
35 24 0.29
36 51 0.61
37 8 0.10
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (36 bp):
TGTCTCAAACGAGACAAAATTTGTTTTAAGAGAAAT
Found at i:518911 original size:4 final size:4
Alignment explanation
Indices: 518902--518939 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
518892 TTCATGTATC
518902 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
518940 GTTGATGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
4 30 0.94
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:518947 original size:12 final size:13
Alignment explanation
Indices: 518903--518947 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
518893 TCATGTATCA
518903 TGTATGTATGTGT
1 TGTATGTATGTGT
*
518916 ATGTATGTATGT-A
1 -TGTATGTATGTGT
518929 TGTATGTATGTGT
1 TGTATGTATGTGT
518942 TG-ATGT
1 TGTATGT
518948 TTTCTTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 15 0.54
13 2 0.07
14 11 0.39
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (13 bp):
TGTATGTATGTGT
Found at i:526073 original size:11 final size:11
Alignment explanation
Indices: 526050--526109 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
526040 CAAAAATTTG
526050 TAATAAT-AAA
1 TAATAATAAAA
526060 TAATAATAAAA
1 TAATAATAAAA
**
526071 TAATAAGATGACGA
1 TAAT-A-AT-AAAA
*
526085 TAATAATAATA
1 TAATAATAAAA
526096 TAATAATAAAA
1 TAATAATAAAA
526107 TAA
1 TAA
526110 CGAAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
10 7 0.17
11 22 0.54
12 3 0.07
13 3 0.07
14 6 0.15
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:526112 original size:28 final size:28
Alignment explanation
Indices: 526058--526112 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
526048 TGTAATAATA
* *
526058 AATAATAATAAAATAATAAGATGACGAT
1 AATAATAATAAAATAATAAAATAACGAT
*
526086 AATAATAATATAATAATAAAATAACGA
1 AATAATAATAAAATAATAAAATAACGA
526113 AAAAAAACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (28 bp):
AATAATAATAAAATAATAAAATAACGAT
Found at i:526416 original size:23 final size:23
Alignment explanation
Indices: 526350--526447 Score: 119
Period size: 23 Copynumber: 4.2 Consensus size: 23
526340 CGTATAAATT
* *
526350 TGCACCGAAGTGCCACGTAGAATT
1 TGCACCGAAGTGCCGCGTAGAA-A
526374 TGTC-CCGAAG-GACCGCGTAGAAA
1 TG-CACCGAAGTG-CCGCGTAGAAA
* *
526397 TGCATCGAAGTGCCGTGTAGAAA
1 TGCACCGAAGTGCCGCGTAGAAA
526420 TGCACCGAAGTGCCGCGTAGAAA
1 TGCACCGAAGTGCCGCGTAGAAA
526443 TGCAC
1 TGCAC
526448 TGTAGTGCTA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
22 1 0.02
23 44 0.69
24 18 0.28
25 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.17
Consensus pattern (23 bp):
TGCACCGAAGTGCCGCGTAGAAA
Found at i:526454 original size:23 final size:23
Alignment explanation
Indices: 526386--526455 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
526376 TCCCGAAGGA
526386 CCGCGTAGAAATGCA-TCGAAGTG
1 CCGCGTAGAAATGCACT-GAAGTG
* *
526409 CCGTGTAGAAATGCACCGAAGTG
1 CCGCGTAGAAATGCACTGAAGTG
*
526432 CCGCGTAGAAATGCACTGTAGTG
1 CCGCGTAGAAATGCACTGAAGTG
526455 C
1 C
526456 TATATAAGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.29, C:0.23, G:0.30, T:0.19
Consensus pattern (23 bp):
CCGCGTAGAAATGCACTGAAGTG
Found at i:526842 original size:2 final size:2
Alignment explanation
Indices: 526835--526946 Score: 224
Period size: 2 Copynumber: 56.0 Consensus size: 2
526825 TGCATGATTT
526835 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
526877 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
526919 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
526947 TATATATATA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 110 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:526951 original size:2 final size:2
Alignment explanation
Indices: 526946--526981 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
526936 ACACACACAC
526946 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
526982 CATTTCTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:529588 original size:18 final size:18
Alignment explanation
Indices: 529543--529588 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
529533 TTCACGGAAT
*
529543 ATAAGATTAACGGCGAGA
1 ATAAGATTACCGGCGAGA
529561 ATAAGATTACCGGCGAGA
1 ATAAGATTACCGGCGAGA
529579 ATAAGATTAC
1 ATAAGATTAC
529589 TGAGAATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (18 bp):
ATAAGATTACCGGCGAGA
Found at i:533648 original size:279 final size:277
Alignment explanation
Indices: 533143--533687 Score: 957
Period size: 279 Copynumber: 2.0 Consensus size: 277
533133 TTTTGCAACT
*
533143 GACTTATTAGAAACAACTATATGGTCAACTAAACCTGGTTCAAGAAACTTGTTCTTGAACTCTTG
1 GACTAATTAGAAACAACTATATGGTCAACTAAACCTGGTTCAAGAAACTTGTTCTTGAACTCTTG
* *
533208 GAAACTAATCTGCAAGAAAGATTTCCATTGAATACCAATCAAATCTTAGAAAAGAGATGGCCTTT
66 GAAACTAATCTGCAAGAAAGATTTCCATTGAATACCAATCAAAGCTTAGAAAAGAGATGACCTTT
* *
533273 GATTATATTTAGAAAGCAAACAAATGTAGAAGAAAGAATACAATTTGCAAACTAACAGTGATCAG
131 GATTATATTTAGAAACCAAACAAATGTAGAAGAAAGAATACAATTAGCAAACTAACAGTGATCAG
*
533338 TGTTGATTCTTATTATATTCTGGTTCATTTAAATTTTTTATCCACCTAATACTCAGTTCTAGACC
196 TGTTGATTCTTATTATATTCTGGTTCATTTAAA--TTTTATCCACCTAATACTCAATTCTAGACC
533403 CAGATTTCCATTGGAAACC
259 CAGATTTCCATTGGAAACC
533422 GACTAATTAGAAACAACTATATGGTCAACTAAACCTGGTTCAAGAAACTTGTTCTTGAACTCTTG
1 GACTAATTAGAAACAACTATATGGTCAACTAAACCTGGTTCAAGAAACTTGTTCTTGAACTCTTG
* * * *
533487 GAAACTAATCTGCAAGAAAGATTTCCATTGCATACTAATCAAAGCTTCGAAAATAGATGACCTTT
66 GAAACTAATCTGCAAGAAAGATTTCCATTGAATACCAATCAAAGCTTAGAAAAGAGATGACCTTT
*
533552 GCTTATATTTAGAAACCAAACAAATGTAGAAGAAAGAATACAATTAGCAAACTAACAGTGATCAG
131 GATTATATTTAGAAACCAAACAAATGTAGAAGAAAGAATACAATTAGCAAACTAACAGTGATCAG
533617 TGTTGATTC-TATATATATTCTGGTTCATTTAAATTTTATCCACCTAATACTCAATTCTAGACCC
196 TGTTGATTCTTAT-TATATTCTGGTTCATTTAAATTTTATCCACCTAATACTCAATTCTAGACCC
533681 AGATTTC
260 AGATTTC
533688 AAAACCAAAT
Statistics
Matches: 254, Mismatches: 11, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
277 37 0.15
278 3 0.01
279 214 0.84
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (277 bp):
GACTAATTAGAAACAACTATATGGTCAACTAAACCTGGTTCAAGAAACTTGTTCTTGAACTCTTG
GAAACTAATCTGCAAGAAAGATTTCCATTGAATACCAATCAAAGCTTAGAAAAGAGATGACCTTT
GATTATATTTAGAAACCAAACAAATGTAGAAGAAAGAATACAATTAGCAAACTAACAGTGATCAG
TGTTGATTCTTATTATATTCTGGTTCATTTAAATTTTATCCACCTAATACTCAATTCTAGACCCA
GATTTCCATTGGAAACC
Found at i:538699 original size:22 final size:23
Alignment explanation
Indices: 538668--538714 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
538658 TAATCACGAG
538668 TTTAGAAGATACGA-TTCTGGGC
1 TTTAGAAGATACGATTTCTGGGC
* *
538690 TTTAGCAGATACGATTTTTGGGC
1 TTTAGAAGATACGATTTCTGGGC
538713 TT
1 TT
538715 ATTTAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (23 bp):
TTTAGAAGATACGATTTCTGGGC
Found at i:544929 original size:14 final size:15
Alignment explanation
Indices: 544910--544941 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
544900 TAGTAGAATA
544910 ATTTAT-TCAATATT
1 ATTTATGTCAATATT
544924 ATTTATGTCAATATT
1 ATTTATGTCAATATT
544939 ATT
1 ATT
544942 ATTTTAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTATGTCAATATT
Found at i:545042 original size:21 final size:21
Alignment explanation
Indices: 545018--545151 Score: 73
Period size: 20 Copynumber: 6.4 Consensus size: 21
545008 ATATATTAAT
*
545018 TATATTA-ATTATTAAAATAA
1 TATATTATAATATTAAAATAA
545038 GTATATTATAATATTAAAATAA
1 -TATATTATAATATTAAAATAA
* * *
545060 TATA-TATGATTAATTATATTAA
1 TATATTAT-AAT-ATTAAAATAA
* *
545082 T-TACTTATTAAAATAAAAAT-A
1 TATA-TTA-TAATATTAAAATAA
* * *
545103 T-TATTACTATTATTATATTAA
1 TATATTA-TAATATTAAAATAA
*
545124 AAT-TTATAATATTAAAATAA
1 TATATTATAATATTAAAATAA
*
545144 AATATTAT
1 TATATTAT
545152 CTTTTAAAAA
Statistics
Matches: 85, Mismatches: 19, Indels: 18
0.70 0.16 0.15
Matches are distributed among these distances:
20 27 0.32
21 27 0.32
22 27 0.32
23 3 0.04
24 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (21 bp):
TATATTATAATATTAAAATAA
Found at i:545065 original size:23 final size:21
Alignment explanation
Indices: 545014--545066 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
545004 TAAAATATAT
*
545014 TAATTATATTAATTATTAAAA
1 TAATTATATTAAATATTAAAA
*
545035 TAAGTATATTATAATATTAAAA
1 TAATTATATTA-AATATTAAAA
545057 TAATATATAT
1 TAAT-TATAT
545067 GATTAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 12 0.44
23 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATTATATTAAATATTAAAA
Found at i:545075 original size:22 final size:22
Alignment explanation
Indices: 545018--545064 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
545008 ATATATTAAT
*
545018 TATATTA-ATTATTAAAATAAG
1 TATATTATAATATTAAAATAAG
545039 TATATTATAATATTAAAATAA-
1 TATATTATAATATTAAAATAAG
545060 TATAT
1 TATAT
545065 ATGATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TATATTATAATATTAAAATAAG
Found at i:545135 original size:15 final size:15
Alignment explanation
Indices: 545112--545141 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
545102 ATTATTACTA
*
545112 TTATTATATTAAAAT
1 TTATAATATTAAAAT
545127 TTATAATATTAAAAT
1 TTATAATATTAAAAT
545142 AAAATATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATAATATTAAAAT
Found at i:545184 original size:11 final size:12
Alignment explanation
Indices: 545159--545224 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 12
545149 TATCTTTTAA
* *
545159 AAATTTATTAAT
1 AAATATATTATT
545171 AAATATATT-TT
1 AAATATATTATT
*
545182 AAAT-TTTTATT
1 AAATATATTATT
545193 AAA-ATATTATT
1 AAATATATTATT
* *
545204 ATAT-TAATATT
1 AAATATATTATT
545215 AAATATATTA
1 AAATATATTA
545225 AATATTATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
10 3 0.07
11 27 0.64
12 12 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
AAATATATTATT
Found at i:545210 original size:16 final size:15
Alignment explanation
Indices: 545189--545235 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
545179 TTTAAATTTT
545189 TATTAAAATATTATTA
1 TATT-AAATATTATTA
*
545205 TATT-AATATTAAATA
1 TATTAAATATT-ATTA
545220 TATTAAATATTATTA
1 TATTAAATATTATTA
545235 T
1 T
545236 TTATTATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.22
15 11 0.41
16 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTAAATATTATTA
Found at i:545229 original size:22 final size:22
Alignment explanation
Indices: 545189--545236 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
545179 TTTAAATTTT
*
545189 TATTAAAATATTATTATATTAA
1 TATTAAAATATTATAATATTAA
*
545211 TATTAAATATATTA-AATATTAT
1 TATTAAA-ATATTATAATATTAA
545233 TATT
1 TATT
545237 TATTATTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTAAAATATTATAATATTAA
Found at i:549185 original size:2 final size:2
Alignment explanation
Indices: 549131--549169 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
549121 TACAGTCTTT
*
549131 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
549170 GAAATCGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:550348 original size:16 final size:15
Alignment explanation
Indices: 550323--550369 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 15
550313 GCTTCTAATT
*
550323 TTTTTTGAGTTCAAG
1 TTTTTCGAGTTCAAG
550338 CTTTTTCGAGTTCAA-
1 -TTTTTCGAGTTCAAG
550353 -TTTTCGAGTTCAAG
1 TTTTTCGAGTTCAAG
550367 TTT
1 TTT
550370 GAATATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 13 0.46
15 2 0.07
16 13 0.46
ACGTcount: A:0.19, C:0.13, G:0.17, T:0.51
Consensus pattern (15 bp):
TTTTTCGAGTTCAAG
Found at i:550582 original size:9 final size:10
Alignment explanation
Indices: 550558--550582 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
550548 AAAATTGGTT
550558 GTTTTTTCCG
1 GTTTTTTCCG
550568 GTTTTTTCCG
1 GTTTTTTCCG
550578 GTTTT
1 GTTTT
550583 CAGCCGGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.20, T:0.64
Consensus pattern (10 bp):
GTTTTTTCCG
Found at i:550680 original size:28 final size:28
Alignment explanation
Indices: 550648--550713 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
550638 AACCGGTCTA
*
550648 GATTGAACCGGACTAGACAACGATTCCT
1 GATTGAACCGGACTAGACAACGATTCCC
550676 GATTGAACCGGACTAGACAACGATTCCC
1 GATTGAACCGGACTAGACAACGATTCCC
*
550704 GATTAAACCG
1 GATTGAACCG
550714 ATCGGTTCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (28 bp):
GATTGAACCGGACTAGACAACGATTCCC
Found at i:559749 original size:21 final size:21
Alignment explanation
Indices: 559725--559768 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
559715 GAGGAGGAGG
*
559725 AGGAGGAGCACGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
* *
559746 AGGAGCAGCTCGTGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
559767 AG
1 AG
559769 CTCCCGGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.36, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:566946 original size:56 final size:57
Alignment explanation
Indices: 566880--566988 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 57
566870 TGTGCATCGA
* * *
566880 TGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGCGTGCATCGATGCATGGCTTG
1 TGCATCAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGCTTG
**
566936 TGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 TGCATCAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGG
566989 AGAATGCATC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 19 0.40
57 28 0.60
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (57 bp):
TGCATCAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGCTTG
Found at i:567004 original size:65 final size:65
Alignment explanation
Indices: 566935--567072 Score: 165
Period size: 65 Copynumber: 2.1 Consensus size: 65
566925 TGCATGGCTT
*
566935 GTGCATCAAATGCATTCGATGTTTTGAAAAT-ATTCA-GAGTGCATCGATGCATGG-AGAATGCA
1 GTGCATCAAATGCATTCGATG-TTT-AAAATAATTCACGAATGCATCGATGCATGGTAG-ATGCA
566997 TCG
63 TCG
** * * * *
567000 GTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATGGTTGATGCATCG
1 GTGCATCAAATGCATTCGATGTTTAAAATAATTCACGAATGCATCGATGCATGGTAGATGCATCG
567065 GTGCATCA
1 GTGCATCA
567073 CCTCAAATAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
63 3 0.05
64 8 0.13
65 49 0.80
66 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCAAATGCATTCGATGTTTAAAATAATTCACGAATGCATCGATGCATGGTAGATGCATCG
Found at i:567012 original size:17 final size:19
Alignment explanation
Indices: 566974--567020 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
566964 ATATTCAGAG
566974 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
566993 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
567010 TGCATTCGATG
1 TGCA-TCGATG
567021 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Done.