Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 46 of 147
Found at i:9271138 original size:6 final size:6
Alignment explanation
Indices: 9271127--9271213 Score: 52
Period size: 6 Copynumber: 14.3 Consensus size: 6
9271117 ATATGTTAAG
* * ** **
9271127 AAATTT AAATTT AAGTTT -GATTT AAAATTT ATTGTTT AAATTT TTATTT
1 AAATTT AAATTT AAATTT AAATTT -AAATTT A-AATTT AAATTT AAATTT
* * *
9271176 GAATTT -AATTT AATTTT AATTTTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AA-ATTT AAATTT AAATTT AA
9271214 CTCGAAATAA
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
5 8 0.13
6 40 0.65
7 14 0.23
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (6 bp):
AAATTT
Found at i:9271168 original size:37 final size:35
Alignment explanation
Indices: 9271127--9271213 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 35
9271117 ATATGTTAAG
*
9271127 AAATTTAAATTTAAGTTTGATTTAAAATTT-ATTGTTT
1 AAATTTAAATTTAA-TTTAATTT-AAATTTAATT-TTT
** *
9271164 AAATTTTTATTTGAATTTAATTTAATTTTAATTTTT
1 AAATTTAAATTT-AATTTAATTTAAATTTAATTTTT
9271200 AAATTTAAATTTAA
1 AAATTTAAATTTAA
9271214 CTCGAAATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
35 2 0.05
36 18 0.43
37 20 0.48
38 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (35 bp):
AAATTTAAATTTAATTTAATTTAAATTTAATTTTT
Found at i:9274345 original size:6 final size:6
Alignment explanation
Indices: 9274335--9274371 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
9274325 ATCTTTTATC
* *
9274335 AGTATT GGTATT GGTATT AGTATT AGTATT AGTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
9274372 CTGTTGGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (6 bp):
AGTATT
Found at i:9276254 original size:49 final size:49
Alignment explanation
Indices: 9276199--9276298 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
9276189 TCAATCAGTT
*
9276199 GAAAGATTAGGAGAGAATAATTTCTAATAAATATATTAAACTTGATGTA
1 GAAAGATTAGGAGAAAATAATTTCTAATAAATATATTAAACTTGATGTA
* * *
9276248 GAAAGATTATGAGAAAATAATTTCTTATAAATTTATTAAACTTGATGTA
1 GAAAGATTAGGAGAAAATAATTTCTAATAAATATATTAAACTTGATGTA
9276297 GA
1 GA
9276299 TAAACCTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (49 bp):
GAAAGATTAGGAGAAAATAATTTCTAATAAATATATTAAACTTGATGTA
Found at i:9279356 original size:592 final size:584
Alignment explanation
Indices: 9277914--9279550 Score: 1891
Period size: 592 Copynumber: 2.8 Consensus size: 584
9277904 CACTCAGCCA
* ** * * * *
9277914 AACCCTAAACCATAAAACCCTCAACCAAACCTTC-TAGGCACTTTGTCTCCATCGTCACCTCCT-
1 AACCCTAAACCACAAAACCCTCAACCAAACCCCCTTA-GCGCTTTGTCTCCATCATCGCC-GCTG
* *
9277977 TCACCACCATCGATCCCTTGTCGTCAATTGAGGTAAAAATGTGTTTATTTTTCATATATATAT-T
64 TCA-CACCATTGATCCCTTATCGTCAATTGAGGTAAAAATGTGTTTATTTTTCATATATATATAT
* *
9278041 A--AA-AAACATCTACTT-TATACTTTTTTTGCATAAATATCCCATAAATATGTCAACTATTGAT
128 ATTAAGAAACATTTA-TTGTTTACTTTTTTTGCATAAATATCCCATAAATATGTCAACTATTGAT
* *
9278102 TGCATAGTTTTCAAACAATAAACATTAAAACTCATTTTTTAAACTTATAATCAAAGTTATGTCAT
192 TGAATAGTTTTCAAACAATAAACATT-AAACTCA-TTTTT--A-TTATAATCAAAGATATGTCAT
* *
9278167 TTTTGTTCATTAGTTTGTTGTAAACAATGTCTTACATCTATGTCATACTAATTAACTATATTTTA
252 TTTTGTTCA-TAGTTTGTTGTAAACAATG-CTTACATATATGTCATACTGATTAACTATATTTTA
* *
9278232 ATATTTTGATTGTC---AA-C----G--AAACATTTAAAAAAATGAAAGTAAAAAATGTGTTAAA
315 ATATTTTGATTGTCAAAAATCTTAGGACAAACATTTAAAAGAATGAAAATAAAAAATGTGTTAAA
** *
9278287 CCTTAGTCATCTTTACTATGTAACTGTTGAAATTTTTTTTCTCCTATAGTGTGGGTGAAATTCTA
380 CCTTAGTCATCTTTACTATGTAGGTGTTGAAATTTTTTTTCTCCTATAGTGTGCGTGAAATTCTA
* *
9278352 GTGTTGTTCTAATTTTTTTTTGTTAAAAGAAACACAGTAGTTGAGTTTTAATTAAAAAATAACAA
445 GTGTTGTTCCAA--TTTTTTTGTTAAAAAAAACACAGTAGTTGAGTTTTAATTAAAAAATAACAA
* *
9278417 ATAAAAGCCTTAACCCCAAAATCAAATCGATTTTATCTTTACAGAAGATAAATCCTAAACCCCAA
508 ATAAAAGCCCTAACCCCAAAATCAAATCAATTTTATCTTTACAGAAGATAAATCCTAAACCCCAA
*
9278482 AATCCTCGATCG
573 AATCCTCGAGCG
** * * * * **
9278494 AACCCTAAACTGCAAAACTCTAAACCAAACCCCCTTGGTGCTTTGTCTCCATCATCGTTG-TAGT
1 AACCCTAAACCACAAAACCCTCAACCAAACCCCCTTAGCGCTTTGTCTCCATCATCGCCGCT-GT
* *
9278558 CACACCATTGATCCATTATCGTCAATTGCGGTAAAAATGTAG-TTATTTTTC------ATATATA
65 CACACCATTGATCCCTTATCGTCAATTGAGGTAAAAATGT-GTTTATTTTTCATATATATATATA
* * *
9278616 TTAAGAAGCATTTACTGTTTAC-TTTTTTGCATAAATATCCTATAAATAT-TCCAACTATTGATT
129 TTAAGAAACATTTATTGTTTACTTTTTTTGCATAAATATCCCATAAATATGT-CAACTATTGATT
9278679 GAATAGTTTGT-AAACAATAAACATTGAAACTCATTTTTTAAACTTATAATCAAAGATATGTCAT
193 GAATAGTTT-TCAAACAATAAACATT-AAACTCA-TTTTT--A-TTATAATCAAAGATATGTCAT
* *
9278743 TTTTGTTTATTAGTTTGTTGTAAACAATAGCTTACATATTTGTCATACTGATTAACTATATTTTA
252 TTTTGTTCA-TAGTTTGTTGTAAACAAT-GCTTACATATATGTCATACTGATTAACTATATTTTA
*
9278808 ATATTTTAATTGTCAATGAAATCTTAGGACATGAACATTTAAAAGAATGAAAATAAAAAATGTGT
315 ATATTTTGATTGTCAA--AAATCTTAGGACA--AACATTTAAAAGAATGAAAATAAAAAATGTGT
* * * * * *
9278873 TAAACCTTAGTCATCTTTATTATGTAGGGGTTGAAATTTTTTTCCTTCTTTAATGTGCGTGAAAT
376 TAAACCTTAGTCATCTTTACTATGTAGGTGTTGAAATTTTTTTTCTCCTATAGTGTGCGTGAAAT
9278938 TCTAGTGTTGTTCCAATTTTTTTGTTAAAAAAAACACAGT-GATTGAGTTTTAATTAAAAAATAC
441 TCTAGTGTTGTTCCAATTTTTTTGTTAAAAAAAACACAGTAG-TTGAGTTTTAATTAAAAAAT--
* *
9279002 AACAAA-AACCCTAA-CCCTAACCCTAAAATCAAATCAATTTTATTTTTACAG-AGAATAAA-CC
503 AACAAATAA----AAGCCCTAACCCCAAAATCAAATCAATTTTATCTTTACAGAAG-ATAAATCC
* **
9279063 ATAAACCTCAAAA-CCTTTAGCTG
563 -TAAACCCCAAAATCCTCGAGC-G
* * *
9279086 AACCCTGAACCACAAAACCCTCAACCAAACCCCCTTAGCGCTTTGTCTCTATCATCGCCGCTGTT
1 AACCCTAAACCACAAAACCCTCAACCAAACCCCCTTAGCGCTTTGTCTCCATCATCGCCGCTGTC
* *
9279151 ACTACCATTGATCCCTTATCGTTAATTGAGG-AAAACTGTGTTTATTTTTCATATATATATATAT
66 AC-ACCATTGATCCCTTATCGTCAATTGAGGTAAAAATGTGTTTATTTTTC--ATATATATATAT
*
9279215 ATTAAGAAACATTTATTGTTTACTTTTTTTTTTACATAAATATCCCATAAATATGTCAACTATTG
128 ATTAAGAAACATTTATTGTTTAC---TTTTTTTGCATAAATATCCCATAAATATGTCAACTATTG
*
9279280 ATTGAATAGTTTTCAAACAATAAACATTACAACT-A-ATTT-TT-T-A-CAAAGATATGTCATTT
190 ATTGAATAGTTTTCAAACAATAAACATTA-AACTCATTTTTATTATAATCAAAGATATGTCATTT
** * * *
9279339 TCATTCA-AGTTTGTTGTAAACAATGGTTTACATATCTATCATACTGATTAACTATATTTTAATA
254 TTGTTCATAGTTTGTTGTAAACAAT-GCTTACATATATGTCATACTGATTAACTATATTTTAATA
* * *
9279403 TTTTGATTGTCAACAAAATCTTAGGACAAAAACATTTAAAAGAATGAAAATTATAAATGTATTAA
318 TTTTGATTGTC-A-AAAATCTTAGGAC--AAACATTTAAAAGAATGAAAATAAAAAATGTGTTAA
* * * *
9279468 ACCTTAGTTATTTTTACTATGTAGGTGTTGGAATTTTTTTTCTCCTCTAGTGTGCGTGAAATTCT
379 ACCTTAGTCATCTTTACTATGTAGGTGTTGAAATTTTTTTTCTCCTATAGTGTGCGTGAAATTCT
9279533 AGTGTTGTTCCAATTTTT
444 AGTGTTGTTCCAATTTTT
9279551 CTAGTGAAAT
Statistics
Matches: 906, Mismatches: 93, Indels: 104
0.82 0.08 0.09
Matches are distributed among these distances:
573 4 0.00
574 2 0.00
575 1 0.00
576 172 0.19
577 13 0.01
578 1 0.00
579 43 0.05
580 47 0.05
581 3 0.00
582 1 0.00
586 1 0.00
587 1 0.00
588 44 0.05
589 2 0.00
590 107 0.12
591 10 0.01
592 301 0.33
593 29 0.03
594 22 0.02
595 1 0.00
596 1 0.00
597 2 0.00
600 27 0.03
601 3 0.00
603 3 0.00
604 64 0.07
605 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (584 bp):
AACCCTAAACCACAAAACCCTCAACCAAACCCCCTTAGCGCTTTGTCTCCATCATCGCCGCTGTC
ACACCATTGATCCCTTATCGTCAATTGAGGTAAAAATGTGTTTATTTTTCATATATATATATATT
AAGAAACATTTATTGTTTACTTTTTTTGCATAAATATCCCATAAATATGTCAACTATTGATTGAA
TAGTTTTCAAACAATAAACATTAAACTCATTTTTATTATAATCAAAGATATGTCATTTTTGTTCA
TAGTTTGTTGTAAACAATGCTTACATATATGTCATACTGATTAACTATATTTTAATATTTTGATT
GTCAAAAATCTTAGGACAAACATTTAAAAGAATGAAAATAAAAAATGTGTTAAACCTTAGTCATC
TTTACTATGTAGGTGTTGAAATTTTTTTTCTCCTATAGTGTGCGTGAAATTCTAGTGTTGTTCCA
ATTTTTTTGTTAAAAAAAACACAGTAGTTGAGTTTTAATTAAAAAATAACAAATAAAAGCCCTAA
CCCCAAAATCAAATCAATTTTATCTTTACAGAAGATAAATCCTAAACCCCAAAATCCTCGAGCG
Found at i:9279997 original size:20 final size:20
Alignment explanation
Indices: 9279972--9280009 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9279962 CATGTATAAA
*
9279972 TCAATATATGTATTTTATAT
1 TCAATATATGTAATTTATAT
9279992 TCAATATATGTAATTTAT
1 TCAATATATGTAATTTAT
9280010 GCTAATGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
TCAATATATGTAATTTATAT
Found at i:9285148 original size:17 final size:17
Alignment explanation
Indices: 9285119--9285154 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
9285109 TATTATATTT
9285119 ATTTATAATTAAAATATA
1 ATTTATAATTAAAA-ATA
9285137 ATTTAT-ATTAAAAATA
1 ATTTATAATTAAAAATA
9285153 AT
1 AT
9285155 ATTTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTATAATTAAAAATA
Found at i:9286084 original size:33 final size:31
Alignment explanation
Indices: 9286038--9286109 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 31
9286028 TATAAATTTA
* *
9286038 ATTAAATAAAATATTTTTTATTTTTATATAAAT
1 ATTAAATAAAATA--TATAATTTTTATATAAAT
* *
9286071 ATTAATTATAATATATAATTTTTATATAAAT
1 ATTAAATAAAATATATAATTTTTATATAAAT
9286102 ATATAAAT
1 AT-TAAAT
9286110 TTTGATATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 18 0.55
32 4 0.12
33 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
ATTAAATAAAATATATAATTTTTATATAAAT
Found at i:9286093 original size:37 final size:36
Alignment explanation
Indices: 9286026--9286095 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
9286016 ATAATAATTA
*
9286026 TATATAAATTTAATTAAATAAAATATTTTTTATTTT
1 TATATAAATTTAATTAAATAAAATAATTTTTATTTT
*
9286062 TATATAAATATTAATTATAAT-ATATAATTTTTAT
1 TATATAAAT-TTAATTA-AATAAAATAATTTTTAT
9286096 ATAAATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 9 0.30
37 18 0.60
38 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (36 bp):
TATATAAATTTAATTAAATAAAATAATTTTTATTTT
Found at i:9286104 original size:19 final size:20
Alignment explanation
Indices: 9286062--9286117 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
9286052 TTTTTATTTT
* *
9286062 TATATAAATATTAAT-TATAA
1 TATATAAATTTTGATATA-AA
*
9286082 TATAT-AATTTTTATATAAA
1 TATATAAATTTTGATATAAA
9286101 TATATAAATTTTGATAT
1 TATATAAATTTTGATAT
9286118 TTTATTTCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TATATAAATTTTGATATAAA
Found at i:9286104 original size:37 final size:36
Alignment explanation
Indices: 9286027--9286104 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 36
9286017 TAATAATTAT
* * **
9286027 ATATAAATTTAATTAAATAAAATATTTTTTATTTTT
1 ATATAAATTTAATTAAATAAAATAATTTTTATATAA
*
9286063 ATATAAATATTAATTATAAT-ATATAATTTTTATATAA
1 ATATAAAT-TTAATTA-AATAAAATAATTTTTATATAA
9286100 ATATA
1 ATATA
9286105 TAAATTTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 8 0.23
37 24 0.69
38 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
ATATAAATTTAATTAAATAAAATAATTTTTATATAA
Found at i:9293871 original size:12 final size:12
Alignment explanation
Indices: 9293854--9293884 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9293844 AGTGAGATTG
9293854 AATTTTTTATTT
1 AATTTTTTATTT
*
9293866 AATTTTATATTT
1 AATTTTTTATTT
9293878 AATTTTT
1 AATTTTT
9293885 GAAATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
AATTTTTTATTT
Found at i:9294350 original size:26 final size:25
Alignment explanation
Indices: 9294322--9294369 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9294312 TAAAAAATAA
*
9294322 AAAATATAGGTTTGAAAATTTTATT
1 AAAATATAAGTTTGAAAATTTTATT
9294347 AAAATATAAGTTTGAAAATTTTA
1 AAAATATAAGTTTGAAAATTTTA
9294370 ATTTTTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (25 bp):
AAAATATAAGTTTGAAAATTTTATT
Found at i:9297796 original size:6 final size:6
Alignment explanation
Indices: 9297787--9297858 Score: 108
Period size: 6 Copynumber: 12.0 Consensus size: 6
9297777 GATGATGATA
* *
9297787 ATGGTG ATGGTG ATGGTG ATGGAG ATGGAG ATGGTG ATGGTG ATGGTG
1 ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG
* *
9297835 ATGGAG ATGGAG ATGGTG ATGGTG
1 ATGGTG ATGGTG ATGGTG ATGGTG
9297859 TGAATTTTGG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.22, C:0.00, G:0.50, T:0.28
Consensus pattern (6 bp):
ATGGTG
Found at i:9297821 original size:30 final size:30
Alignment explanation
Indices: 9297787--9297858 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
9297777 GATGATGATA
9297787 ATGGTGATGGTGATGGTGATGGAGATGGAG
1 ATGGTGATGGTGATGGTGATGGAGATGGAG
9297817 ATGGTGATGGTGATGGTGATGGAGATGGAG
1 ATGGTGATGGTGATGGTGATGGAGATGGAG
9297847 ATGGTGATGGTG
1 ATGGTGATGGTG
9297859 TGAATTTTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.22, C:0.00, G:0.50, T:0.28
Consensus pattern (30 bp):
ATGGTGATGGTGATGGTGATGGAGATGGAG
Found at i:9298225 original size:18 final size:18
Alignment explanation
Indices: 9298201--9298288 Score: 83
Period size: 18 Copynumber: 5.1 Consensus size: 18
9298191 TACGATTATT
9298201 ATCCACCTCAAATGTATC
1 ATCCACCTCAAATGTATC
*
9298219 CTCCACCTCAAATGTATC
1 ATCCACCTCAAATGTATC
** *
9298237 ATTTACCACAAATGTATC
1 ATCCACCTCAAATGTATC
*
9298255 AT---CCTCAAATATATC
1 ATCCACCTCAAATGTATC
* * *
9298270 CTCTATCTCAAATGTATC
1 ATCCACCTCAAATGTATC
9298288 A
1 A
9298289 AGAACAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
15 12 0.21
18 44 0.79
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.32
Consensus pattern (18 bp):
ATCCACCTCAAATGTATC
Found at i:9300825 original size:15 final size:14
Alignment explanation
Indices: 9300789--9300833 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
9300779 TATTAGATTT
9300789 TATA-TAAAAATTA
1 TATATTAAAAATTA
*
9300802 TATATTAAAATTTA
1 TATATTAAAAATTA
9300816 TATGATTAAAAA-TA
1 TAT-ATTAAAAATTA
9300830 TATA
1 TATA
9300834 ATATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 5 0.18
14 16 0.57
15 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
TATATTAAAAATTA
Found at i:9301364 original size:24 final size:22
Alignment explanation
Indices: 9301332--9301395 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 22
9301322 TAATTATTAT
9301332 ATATAAATTTAATAAAATTAAAAAA
1 ATAT-AATTT-ATAAAATT-AAAAA
* * *
9301357 ATATAATTCGATATGAATTATAAA
1 ATATAATT-TATA-AAATTAAAAA
9301381 ATATAATTTATAAAA
1 ATATAATTTATAAAA
9301396 ATATAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
22 2 0.06
23 3 0.09
24 19 0.59
25 8 0.25
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (22 bp):
ATATAATTTATAAAATTAAAAA
Found at i:9301391 original size:14 final size:15
Alignment explanation
Indices: 9301374--9301404 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9301364 TCGATATGAA
9301374 TTAT-AAAATATAAT
1 TTATAAAAATATAAT
9301388 TTATAAAAATATAAT
1 TTATAAAAATATAAT
9301403 TT
1 TT
9301405 TTTATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATAAAAATATAAT
Found at i:9304606 original size:28 final size:28
Alignment explanation
Indices: 9304566--9304622 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
9304556 AATAAAGAAA
9304566 AAAAAAATTGCCATGAATCAGATAAAGG
1 AAAAAAATTGCCATGAATCAGATAAAGG
* *
9304594 AAAAAATTTGCCATGAATTAGATAAAGG
1 AAAAAAATTGCCATGAATCAGATAAAGG
9304622 A
1 A
9304623 GGACAACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.21
Consensus pattern (28 bp):
AAAAAAATTGCCATGAATCAGATAAAGG
Found at i:9314796 original size:22 final size:21
Alignment explanation
Indices: 9314768--9314841 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 21
9314758 TATTTTTTAT
9314768 TTTTTATCAAATTTATATATTA
1 TTTTTAT-AAATTTATATATTA
9314790 TTTTTATTAAAATTTTAAATCATATTA
1 TTTTTA-T-AAA-TTT--AT-ATATTA
9314817 TTTTTAT--ATTTATATATATA
1 TTTTTATAAATTTATATAT-TA
9314837 TTTTT
1 TTTTT
9314842 GTGTTTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
19 4 0.09
20 9 0.20
22 9 0.20
23 5 0.11
24 3 0.07
26 3 0.07
27 12 0.27
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTATAAATTTATATATTA
Found at i:9315371 original size:26 final size:27
Alignment explanation
Indices: 9315324--9315382 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
9315314 CTCGTAAACA
* * *
9315324 ATAAACGAATATATTCACGAAC-ATAT
1 ATAAATGAATACATTCACGAACAATAG
* *
9315350 ATAAATGAATACATTTATGAACAATAG
1 ATAAATGAATACATTCACGAACAATAG
9315377 ATAAAT
1 ATAAAT
9315383 TATAACTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (27 bp):
ATAAATGAATACATTCACGAACAATAG
Found at i:9318003 original size:39 final size:38
Alignment explanation
Indices: 9317959--9318040 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 38
9317949 AATTCATTCT
* *
9317959 AATTAAATTTTATTATTTTTATATT-TATATCATATAAA
1 AATTAAAATTTA-TATATTTATATTATATATCATATAAA
* *
9317997 ATATTAAAATTTATATATTTATATTATATTTTATATAAA
1 A-ATTAAAATTTATATATTTATATTATATATCATATAAA
9318036 AATTA
1 AATTA
9318041 CGTATTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 16 0.42
39 22 0.58
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (38 bp):
AATTAAAATTTATATATTTATATTATATATCATATAAA
Found at i:9318038 original size:32 final size:32
Alignment explanation
Indices: 9317973--9318075 Score: 80
Period size: 32 Copynumber: 3.0 Consensus size: 32
9317963 AAATTTTATT
* *
9317973 ATTTTTATATTTATATCATATAAAATATTAAA
1 ATTTATATATTTATATCATATAAAATATAAAA
* ***
9318005 ATTTATATATTTATATTATATTTTATATAAAA
1 ATTTATATATTTATATCATATAAAATATAAAA
*
9318037 ATTACGTATTATAATTTATGTCAATATAAAAATATAAAA
1 ATT---TA-TAT-ATTTATATC-ATAT-AAAATATAAAA
9318076 TATATTTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
32 29 0.55
35 2 0.04
36 3 0.06
37 7 0.13
38 4 0.08
39 8 0.15
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (32 bp):
ATTTATATATTTATATCATATAAAATATAAAA
Found at i:9318153 original size:24 final size:23
Alignment explanation
Indices: 9318126--9318186 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
9318116 TAAAATTTAA
* *
9318126 ATATCATCATTTTATTATATTTTT
1 ATATCAT-ATTTTATCATATTATT
* *
9318150 ATATCGTATTTATATCGTATTATT
1 ATATCATATTT-TATCATATTATT
9318174 ATATCATATTTTA
1 ATATCATATTTTA
9318187 AATTATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.57
Consensus pattern (23 bp):
ATATCATATTTTATCATATTATT
Found at i:9318175 original size:13 final size:12
Alignment explanation
Indices: 9318146--9318186 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
9318136 TTTATTATAT
9318146 TTTTATATCGTA
1 TTTTATATCGTA
9318158 -TTTATATCGTA
1 TTTTATATCGTA
*
9318169 TTATTATATCATA
1 TT-TTATATCGTA
9318182 TTTTA
1 TTTTA
9318187 AATTATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 11 0.42
12 4 0.15
13 11 0.42
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (12 bp):
TTTTATATCGTA
Found at i:9324166 original size:21 final size:20
Alignment explanation
Indices: 9324141--9324179 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9324131 CATAATCTAT
9324141 TCGTTGAAATGTTATTTGTAA
1 TCGTTGAAATGTT-TTTGTAA
*
9324162 TCGTTGTAATGTTTTTGT
1 TCGTTGAAATGTTTTTGT
9324180 GTGTGTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.54
Consensus pattern (20 bp):
TCGTTGAAATGTTTTTGTAA
Found at i:9324555 original size:2 final size:2
Alignment explanation
Indices: 9324548--9324579 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9324538 ATTGCTGTCC
9324548 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
9324580 TGTGATGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9336353 original size:12 final size:12
Alignment explanation
Indices: 9336327--9336366 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
9336317 AAATCCATTA
* *
9336327 AAAAAAAAAAAC
1 AAAAAAGAAATC
9336339 AAAAAAGAAATC
1 AAAAAAGAAATC
*
9336351 AAATAAGAAATC
1 AAAAAAGAAATC
9336363 AAAA
1 AAAA
9336367 TTAAACCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.80, C:0.07, G:0.05, T:0.07
Consensus pattern (12 bp):
AAAAAAGAAATC
Found at i:9336950 original size:11 final size:11
Alignment explanation
Indices: 9336936--9336961 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9336926 TATGTAACTT
9336936 TTATTTTTATA
1 TTATTTTTATA
9336947 TTATTTTTATA
1 TTATTTTTATA
9336958 TTAT
1 TTAT
9336962 ATCAACGTGT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:9344457 original size:19 final size:18
Alignment explanation
Indices: 9344430--9344468 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
9344420 TAATTTGATC
*
9344430 TAAAATTAATTTAATAATT
1 TAAAATTAATATAAT-ATT
*
9344449 TAAATTTAATATAATATT
1 TAAAATTAATATAATATT
9344467 TA
1 TA
9344469 TAGAATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTAATATAATATT
Found at i:9345449 original size:7 final size:7
Alignment explanation
Indices: 9345437--9345484 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
9345427 CTCATGTATA
9345437 TAAAAAT
1 TAAAAAT
9345444 TAAAAA-
1 TAAAAAT
9345450 TAAAAA-
1 TAAAAAT
*
9345456 T-AATAT
1 TAAAAAT
9345462 GTAAAAAT
1 -TAAAAAT
9345470 TAAAAA-
1 TAAAAAT
9345476 TAAAAAT
1 TAAAAAT
9345483 TA
1 TA
9345485 TATAAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 3 0.09
6 13 0.37
7 15 0.43
8 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (7 bp):
TAAAAAT
Found at i:9345454 original size:13 final size:13
Alignment explanation
Indices: 9345436--9345484 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
9345426 TCTCATGTAT
9345436 ATAAAAATTAAAA
1 ATAAAAATTAAAA
*
9345449 ATAAAAA-TAATAT
1 ATAAAAATTAA-AA
*
9345462 GTAAAAATTAAAA
1 ATAAAAATTAAAA
9345475 ATAAAAATTA
1 ATAAAAATTA
9345485 TATAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 3 0.10
13 24 0.80
14 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAAAATTAAAA
Found at i:9345461 original size:24 final size:24
Alignment explanation
Indices: 9345434--9345493 Score: 93
Period size: 26 Copynumber: 2.4 Consensus size: 24
9345424 ATTCTCATGT
9345434 ATATAAAAATTAAAAATAAAAATA
1 ATATAAAAATTAAAAATAAAAATA
*
9345458 ATATGTAAAAATTAAAAATAAAAATT
1 ATA--TAAAAATTAAAAATAAAAATA
9345484 ATATAAAAAT
1 ATATAAAAAT
9345494 ACAAATTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
24 10 0.30
26 23 0.70
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (24 bp):
ATATAAAAATTAAAAATAAAAATA
Found at i:9350967 original size:20 final size:20
Alignment explanation
Indices: 9350942--9350983 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9350932 AAACTTATGA
*
9350942 TTCTTTTTATTTTG-TTTTAT
1 TTCTTTTT-TTTAGTTTTTAT
9350962 TTCTTTTTTTTAGTTTTTAT
1 TTCTTTTTTTTAGTTTTTAT
9350982 TT
1 TT
9350984 TTAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.81
Consensus pattern (20 bp):
TTCTTTTTTTTAGTTTTTAT
Found at i:9351555 original size:13 final size:12
Alignment explanation
Indices: 9351535--9351567 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
9351525 TATATTATAT
9351535 TTTATATCAAAA
1 TTTATATCAAAA
9351547 TTATATATCAAAA
1 TT-TATATCAAAA
9351560 TTTATATC
1 TTTATATC
9351568 GACATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTATATCAAAA
Found at i:9351725 original size:163 final size:163
Alignment explanation
Indices: 9351455--9351764 Score: 496
Period size: 163 Copynumber: 1.9 Consensus size: 163
9351445 ACCCCTGATC
* * *
9351455 AATTTTATTAGGCCTTATAATTCGTACATTTATATTATATAAAATATTAAAATTTATATATTTAT
1 AATTTTATTAGGACTTATAATTCATACATTTATATCATATAAAATATTAAAATTTATATATTTAT
* * *
9351520 GTATTTATATTATATTTTATATCAAAATTATATATCAAAATTTATATCGACATAAAAATATTAAA
66 GTATTTATATCATATTTTATATAAAAATTATATATCAAAATTTATATCGACACAAAAATATTAAA
9351585 TTTATTTTTTGATTTCATTAAACTCATATTATA
131 TTTATTTTTTGATTTCATTAAACTCATATTATA
* *
9351618 AATTTTATTA-GACTTAATAATTTATATATTTATATCATATAAAATATTAAAATTTATATATTTA
1 AATTTTATTAGGACTT-ATAATTCATACATTTATATCATATAAAATATTAAAATTTATATATTTA
* * * *
9351682 TGTATTTATGTCATGTTTTATATAAAAATTATATGTCAAAATTTATGTCGACACAAAAATATTAA
65 TGTATTTATATCATATTTTATATAAAAATTATATATCAAAATTTATATCGACACAAAAATATTAA
9351747 ATTTATTTTTTGATTTCA
130 ATTTATTTTTTGATTTCA
9351765 AAAACACATA
Statistics
Matches: 134, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
162 4 0.03
163 130 0.97
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (163 bp):
AATTTTATTAGGACTTATAATTCATACATTTATATCATATAAAATATTAAAATTTATATATTTAT
GTATTTATATCATATTTTATATAAAAATTATATATCAAAATTTATATCGACACAAAAATATTAAA
TTTATTTTTTGATTTCATTAAACTCATATTATA
Found at i:9352024 original size:2 final size:2
Alignment explanation
Indices: 9352017--9352060 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
9352007 TAAAATAGTA
* *
9352017 AT AT AT AT AT AT AT AT AT AT AC AA AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9352059 AT
1 AT
9352061 GCTTTATTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9353378 original size:22 final size:22
Alignment explanation
Indices: 9353338--9353401 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
9353328 ATATTATTCG
*
9353338 TAAATTAAAT-AATAATAATTTAT
1 TAAA-TAAATAAATATTAATTT-T
9353361 T-AATAAATAAATATTAATTTT
1 TAAATAAATAAATATTAATTTT
*
9353382 TAAATAAATAAATATAAATT
1 TAAATAAATAAATATTAATT
9353402 AAAATAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.19
22 29 0.78
23 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAATAAATAAATATTAATTTT
Found at i:9353408 original size:53 final size:53
Alignment explanation
Indices: 9353338--9353438 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 53
9353328 ATATTATTCG
9353338 TAAATTAAATAATAATAATTTATTAATAAAT-AAATATTAATT-TTTAAATAAA
1 TAAATTAAATAATAATAATTTATTAATAAATGAAATATT-ATTATTTAAATAAA
* *
9353390 TAAATATAAATTAA-AATAATTTATTTATTAATGAAATATTATTATTTAA
1 TAAAT-TAAA-TAATAATAATTTATTAATAAATGAAATATTATTATTTAA
9353439 TTTATTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
52 5 0.12
53 23 0.53
54 15 0.35
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (53 bp):
TAAATTAAATAATAATAATTTATTAATAAATGAAATATTATTATTTAAATAAA
Found at i:9353444 original size:15 final size:15
Alignment explanation
Indices: 9353426--9353460 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9353416 ATTAATGAAA
9353426 TATTATTATTTAATT
1 TATTATTATTTAATT
* *
9353441 TATTTTTATTTGATT
1 TATTATTATTTAATT
9353456 TATTA
1 TATTA
9353461 ATAATATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TATTATTATTTAATT
Found at i:9353509 original size:24 final size:24
Alignment explanation
Indices: 9353456--9353503 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9353446 TTATTTGATT
* *
9353456 TATTAATAATATATAAAATTTATA
1 TATTAATAATATATAAAATATAAA
*
9353480 TATTAATAATATATTAAATATAAA
1 TATTAATAATATATAAAATATAAA
9353504 CTTTAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TATTAATAATATATAAAATATAAA
Found at i:9353832 original size:27 final size:27
Alignment explanation
Indices: 9353780--9353840 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
9353770 ATAAAAAAAA
* * **
9353780 AAATTATAAGTATTGAGATTTGAATTC
1 AAATTATAAGTATTAAAATTAAAATTC
*
9353807 AAATTATAAGTATTAAAATTAAAATTT
1 AAATTATAAGTATTAAAATTAAAATTC
9353834 AAATTAT
1 AAATTAT
9353841 TACTAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (27 bp):
AAATTATAAGTATTAAAATTAAAATTC
Found at i:9354421 original size:23 final size:23
Alignment explanation
Indices: 9354395--9354440 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9354385 AAGAATAATA
*
9354395 ATTTATTCTATTATGTAATTGTT
1 ATTTATTCGATTATGTAATTGTT
9354418 ATTTATTCGATTATGTAATTGTT
1 ATTTATTCGATTATGTAATTGTT
9354441 CTAATTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (23 bp):
ATTTATTCGATTATGTAATTGTT
Found at i:9359074 original size:12 final size:13
Alignment explanation
Indices: 9359038--9359097 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
9359028 ATTTGTATAT
9359038 ATTTAA-AATTATA
1 ATTTAATAATT-TA
* *
9359051 ATTAAATTAATTTG
1 ATTTAA-TAATTTA
9359065 ATTTAA-AA-TTA
1 ATTTAATAATTTA
9359076 ATTTAATAATTTTA
1 ATTTAATAA-TTTA
9359090 ATTTAATA
1 ATTTAATA
9359098 TAATATTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
11 8 0.21
12 4 0.11
13 5 0.13
14 17 0.45
15 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
ATTTAATAATTTA
Found at i:9359093 original size:25 final size:27
Alignment explanation
Indices: 9359038--9359095 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 27
9359028 ATTTGTATAT
*
9359038 ATTTAAAATTATAATTAAATTAATTTG
1 ATTTAAAATTATAATTAAATTAATTTA
*
9359065 ATTTAAAA-T-TAATTTAA-TAATTTTA
1 ATTTAAAATTATAATTAAATTAA-TTTA
9359090 ATTTAA
1 ATTTAA
9359096 TATAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 3 0.11
25 16 0.57
26 1 0.04
27 8 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTTAAAATTATAATTAAATTAATTTA
Found at i:9359142 original size:11 final size:11
Alignment explanation
Indices: 9359123--9359152 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9359113 ATTATTTTTA
9359123 ATATAAATTAT
1 ATATAAATTAT
*
9359134 ATATTAATTAT
1 ATATAAATTAT
9359145 ATATAAAT
1 ATATAAAT
9359153 ATGATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATAAATTAT
Found at i:9359151 original size:22 final size:21
Alignment explanation
Indices: 9359123--9359181 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
9359113 ATTATTTTTA
9359123 ATATAAATTATATATTAATTAT
1 ATATAAATTATATATTAATT-T
9359145 ATATAAA-TATGATATT--TTT
1 ATATAAATTAT-ATATTAATTT
9359164 AT-TAAATTAATATATTAA
1 ATATAAATT-ATATATTAA
9359182 ATAATAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
18 4 0.12
19 9 0.28
20 4 0.12
21 3 0.09
22 12 0.38
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATAAATTATATATTAATTT
Found at i:9359192 original size:29 final size:32
Alignment explanation
Indices: 9359136--9359213 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 32
9359126 TAAATTATAT
*
9359136 ATTAATTATATATAAATATGATATTTTTATTAA-
1 ATTAA-TATATATAAATA-GATAATTTTATTAAC
9359169 ATTAATATAT-TAAATA-ATAATTTTATTAAC
1 ATTAATATATATAAATAGATAATTTTATTAAC
9359199 A-TAATATATATAAAT
1 ATTAATATATATAAAT
9359214 TAAATAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
29 20 0.48
30 6 0.14
31 6 0.14
32 5 0.12
33 5 0.12
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
ATTAATATATATAAATAGATAATTTTATTAAC
Found at i:9360042 original size:13 final size:13
Alignment explanation
Indices: 9360024--9360072 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
9360014 TCTCATATAT
9360024 ATAAAAATTAAAA
1 ATAAAAATTAAAA
* *
9360037 ATAAAAATTATAT
1 ATAAAAATTAAAA
* *
9360050 GTAAAAACTAAAA
1 ATAAAAATTAAAA
*
9360063 ATACAAATTA
1 ATAAAAATTA
9360073 TATAAAAATA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAAAATTAAAA
Found at i:9360055 original size:26 final size:26
Alignment explanation
Indices: 9360019--9360080 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
9360009 TTAATTCTCA
*
9360019 TATATATAAAAATTAAAAATAAAAAT
1 TATATATAAAAACTAAAAATAAAAAT
* *
9360045 TATATGTAAAAACTAAAAATACAAAT
1 TATATATAAAAACTAAAAATAAAAAT
9360071 TATATA-AAAA
1 TATATATAAAA
9360081 TACAAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (26 bp):
TATATATAAAAACTAAAAATAAAAAT
Found at i:9360386 original size:28 final size:28
Alignment explanation
Indices: 9360347--9360405 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
9360337 GCCTTCAGAC
*
9360347 TTAAGTTTTATATATGCATTTGTATATT
1 TTAAGTTTTATATATGCATTTATATATT
*
9360375 TTAA-TTTATATATATGCGTTTATATATT
1 TTAAGTTT-TATATATGCATTTATATATT
9360403 TTA
1 TTA
9360406 TACATTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (28 bp):
TTAAGTTTTATATATGCATTTATATATT
Found at i:9365607 original size:22 final size:22
Alignment explanation
Indices: 9365565--9365608 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9365555 TTTCTTTTTA
* *
9365565 TTTTAGTTTTTATTTTTGATTT
1 TTTTAATTTTTATTTTAGATTT
9365587 TTTTAATTTTGTA-TTTAGATTT
1 TTTTAATTTT-TATTTTAGATTT
9365609 GCACTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (22 bp):
TTTTAATTTTTATTTTAGATTT
Found at i:9371620 original size:26 final size:27
Alignment explanation
Indices: 9371585--9371654 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
9371575 AGTAATTACA
9371585 CCAAGAATTCATTGAATCATT-ACTACT
1 CCAA-AATTCATTGAATCATTAACTACT
* *
9371612 CCAAAATTCATTGAAACTTTAACTACT
1 CCAAAATTCATTGAATCATTAACTACT
*
9371639 CCAAAATTCATCGAAT
1 CCAAAATTCATTGAAT
9371655 TATTTACTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.37
27 24 0.63
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (27 bp):
CCAAAATTCATTGAATCATTAACTACT
Found at i:9377777 original size:22 final size:22
Alignment explanation
Indices: 9377736--9377777 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9377726 TATTTTGAAT
**
9377736 TTAATTGATATTACGTATTTAG
1 TTAATTGATATTACAAATTTAG
*
9377758 TTAATTGATATTCCAAATTT
1 TTAATTGATATTACAAATTT
9377778 CGATCCAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (22 bp):
TTAATTGATATTACAAATTTAG
Found at i:9380056 original size:52 final size:52
Alignment explanation
Indices: 9379968--9380124 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 52
9379958 TGAACAATAA
* * *
9379968 GACTTGCAAAAGAAGAATTCTAA-AAGAAAGATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGTAAGTTT
* *
9380020 GACTTGCAAGAGAAGAATTCTAAGGGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
* * * *
9380072 GACTTAC-AGAAGAAGAATTATAAGAGGAAATGGATTCTTAATGGGTAAGTTT
1 GACTTGCAAG-AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
9380124 G
1 G
9380125 TATGATTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.92
53 5 0.05
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
Found at i:9381701 original size:29 final size:29
Alignment explanation
Indices: 9381668--9381725 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
9381658 CCAACTCTAT
9381668 TCTATTTGTATATACATAAACTCGTAATC
1 TCTATTTGTATATACATAAACTCGTAATC
9381697 TCTATTTGTATATACATAAACTCGTAATC
1 TCTATTTGTATATACATAAACTCGTAATC
9381726 AATATAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (29 bp):
TCTATTTGTATATACATAAACTCGTAATC
Found at i:9381840 original size:28 final size:28
Alignment explanation
Indices: 9381794--9381848 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
9381784 TATTATTTTT
9381794 AATATAAATTATATCTT-AATTACATATA
1 AATATAAATTATATCTTAAATTA-ATATA
*
9381822 AATATAATATT-TATGTTAAATTAATAT
1 AATATAA-ATTATATCTTAAATTAATAT
9381849 CTTAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (28 bp):
AATATAAATTATATCTTAAATTAATATA
Found at i:9382727 original size:7 final size:7
Alignment explanation
Indices: 9382715--9382762 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
9382705 CCCATGCATA
9382715 TAAAAAT
1 TAAAAAT
9382722 TAAAAA-
1 TAAAAAT
9382728 TAAAAAT
1 TAAAAAT
*
9382735 T--ATAT
1 TAAAAAT
9382740 GTAAAAAT
1 -TAAAAAT
9382748 TAAAAA-
1 TAAAAAT
9382754 TAAAAAT
1 TAAAAAT
9382761 TA
1 TA
9382763 TATAAAAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
5 3 0.09
6 13 0.38
7 15 0.44
8 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
TAAAAAT
Found at i:9382732 original size:13 final size:13
Alignment explanation
Indices: 9382714--9382762 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
9382704 TCCCATGCAT
9382714 ATAAAAATTAAAA
1 ATAAAAATTAAAA
* *
9382727 ATAAAAATTATAT
1 ATAAAAATTAAAA
*
9382740 GTAAAAATTAAAA
1 ATAAAAATTAAAA
9382753 ATAAAAATTA
1 ATAAAAATTA
9382763 TATAAAAGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
ATAAAAATTAAAA
Found at i:9382745 original size:26 final size:26
Alignment explanation
Indices: 9382715--9382765 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
9382705 CCCATGCATA
9382715 TAAAAATTAAAAATAAAAATTATATG
1 TAAAAATTAAAAATAAAAATTATATG
9382741 TAAAAATTAAAAATAAAAATTATAT
1 TAAAAATTAAAAATAAAAATTATAT
9382766 AAAAGTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
TAAAAATTAAAAATAAAAATTATATG
Found at i:9383081 original size:14 final size:14
Alignment explanation
Indices: 9383041--9383087 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
9383031 ACTTAGGTTT
*
9383041 TATATATGCATTTG
1 TATATATGCATTTA
* **
9383055 TATATTTTAATTTA
1 TATATATGCATTTA
9383069 TATATATGCATTTA
1 TATATATGCATTTA
9383083 TATAT
1 TATAT
9383088 TTTATACATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (14 bp):
TATATATGCATTTA
Found at i:9385120 original size:20 final size:19
Alignment explanation
Indices: 9385090--9385142 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 19
9385080 ATTGTTATAG
9385090 TATAGTATTATATT-TATGCT
1 TATA-TATTATATTATATG-T
*
9385110 TTTATTATTATTATTATATGT
1 TATA-TATTA-TATTATATGT
9385131 TATATATTATAT
1 TATATATTATAT
9385143 GATTATTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.11
20 13 0.46
21 8 0.29
22 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (19 bp):
TATATATTATATTATATGT
Found at i:9385138 original size:14 final size:14
Alignment explanation
Indices: 9385116--9385150 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9385106 TGCTTTTATT
9385116 ATTATTATTATATG
1 ATTATTATTATATG
9385130 -TTATATATTATATG
1 ATTAT-TATTATATG
9385144 ATTATTA
1 ATTATTA
9385151 CATTTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.21
14 11 0.58
15 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTATTATTATATG
Found at i:9385598 original size:21 final size:20
Alignment explanation
Indices: 9385574--9385629 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
9385564 GATTTTGATT
*
9385574 TTGGGTTAGGTTTGAAGCTTC
1 TTGGGTTAGATTT-AAGCTTC
* *
9385595 TTGGTTTAGATTTAAGTTTC
1 TTGGGTTAGATTTAAGCTTC
9385615 -TGGGTTTAGATTTAA
1 TTGGG-TTAGATTTAA
9385630 ATTTTTAGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 16 0.53
21 11 0.37
ACGTcount: A:0.20, C:0.05, G:0.27, T:0.48
Consensus pattern (20 bp):
TTGGGTTAGATTTAAGCTTC
Found at i:9385615 original size:20 final size:20
Alignment explanation
Indices: 9385592--9385629 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9385582 GGTTTGAAGC
*
9385592 TTCTTGGTTTAGATTTAAGT
1 TTCTGGGTTTAGATTTAAGT
9385612 TTCTGGGTTTAGATTTAA
1 TTCTGGGTTTAGATTTAA
9385630 ATTTTTAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (20 bp):
TTCTGGGTTTAGATTTAAGT
Found at i:9385643 original size:20 final size:20
Alignment explanation
Indices: 9385600--9385643 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
9385590 GCTTCTTGGT
* * *
9385600 TTAGATTTAAGTTTCTGGGT
1 TTAGATTTAAATTTCTAGGA
*
9385620 TTAGATTTAAATTTTTAGGA
1 TTAGATTTAAATTTCTAGGA
9385640 TTAG
1 TTAG
9385644 GACTAAGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.50
Consensus pattern (20 bp):
TTAGATTTAAATTTCTAGGA
Found at i:9386157 original size:25 final size:25
Alignment explanation
Indices: 9386129--9386177 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9386119 CCTTAAGTAA
*
9386129 TTTATTATTTGCGAAAATAA-AAAAT
1 TTTATTATTTG-AAAAATAACAAAAT
*
9386154 TTTATTTTTTGAAAAATAACAAAA
1 TTTATTATTTGAAAAATAACAAAA
9386178 AAAAGAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (25 bp):
TTTATTATTTGAAAAATAACAAAAT
Found at i:9390504 original size:15 final size:15
Alignment explanation
Indices: 9390493--9390521 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9390483 GATAAAAATA
9390493 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
9390508 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
9390522 TTTATTAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:9391883 original size:3 final size:3
Alignment explanation
Indices: 9391875--9392005 Score: 62
Period size: 3 Copynumber: 44.3 Consensus size: 3
9391865 GTTAATTTTC
* * **
9391875 ATT ATT ATT ATT ATT ATT ATT -TT CAAT ATT ATT AGT ATT ATT ACC
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
* * * *
9391920 ATA ATAT AGT ATGCT ATT -TT ATT A-T AGT A-T AGT ATT A-T ATT A-T
1 ATT AT-T ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
9391963 ATT -CT ATT ATT ATT ATT ATAT GTT ATAT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT AT-T ATT AT-T ATT ATT ATT ATT ATT A
9392006 CATTTCTATT
Statistics
Matches: 98, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
2 15 0.15
3 73 0.74
4 7 0.07
5 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:9391896 original size:24 final size:24
Alignment explanation
Indices: 9391869--9391917 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9391859 TCCAGGGTTA
* *
9391869 ATTTTCATTATTATTATTATTATT
1 ATTTTCAATATTATTAGTATTATT
9391893 ATTTTCAATATTATTAGTATTATT
1 ATTTTCAATATTATTAGTATTATT
9391917 A
1 A
9391918 CCATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTTCAATATTATTAGTATTATT
Found at i:9391960 original size:5 final size:5
Alignment explanation
Indices: 9391952--9392045 Score: 65
Period size: 5 Copynumber: 19.2 Consensus size: 5
9391942 TATAGTATAG
*
9391952 TATTA TATTA TATTC TA-T- TATTA TTATTA TATGT- TA-TA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA -TATTA TAT-TA TATTA TATTA TATTA
* * * *
9392000 TTATTA CATTTC TATTA TATTA TGTT- T-TTA TAGTA TATTA TATTA T
1 -TATTA TA-TTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
9392046 TACTACTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
3 5 0.07
4 6 0.08
5 46 0.65
6 14 0.20
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:9391990 original size:7 final size:7
Alignment explanation
Indices: 9391955--9392003 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
9391945 AGTATAGTAT
9391955 TATATTA
1 TATATTA
9391962 TAT-TCTA
1 TATAT-TA
9391969 T-TATTA
1 TATATTA
9391975 T-TATTA
1 TATATTA
*
9391981 TATGTTA
1 TATATTA
9391988 TATATTA
1 TATATTA
9391995 TATTATTA
1 TA-TATTA
9392003 T
1 T
9392004 TACATTTCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 11 0.31
7 19 0.53
8 6 0.17
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:9392088 original size:3 final size:3
Alignment explanation
Indices: 9392080--9392120 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
9392070 TACTATGATT
* * *
9392080 ATC ATC ATC ATC ATC ATC ATC GTC ATC ATA ATC ATT ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
9392121 TATTATTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:9392909 original size:5 final size:5
Alignment explanation
Indices: 9392901--9392990 Score: 72
Period size: 6 Copynumber: 15.8 Consensus size: 5
9392891 AATCGTAGGT
*
9392901 TTTTA TTTTTA TTTTTA TTTTA TTTTA TTTTA TTTCA TTTTA TTTTCA
1 TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A
9392949 TAAATTTA TCTTATA TTTTGA TTTTGA TTTTGA TTTTA TTTT
1 T---TTTA T-TT-TA TTTT-A TTTT-A TTTT-A TTTTA TTTT
9392991 TAATTTTTAA
Statistics
Matches: 75, Mismatches: 3, Indels: 13
0.82 0.03 0.14
Matches are distributed among these distances:
5 33 0.44
6 34 0.45
7 3 0.04
8 2 0.03
9 3 0.04
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:9392921 original size:11 final size:11
Alignment explanation
Indices: 9392900--9392997 Score: 67
Period size: 10 Copynumber: 8.9 Consensus size: 11
9392890 GAATCGTAGG
9392900 TTTTTATTTTTA
1 TTTTTA-TTTTA
9392912 TTTTTATTTTA
1 TTTTTATTTTA
9392923 -TTTTATTTTA
1 TTTTTATTTTA
*
9392933 -TTTCATTTTA
1 TTTTTATTTTA
* **
9392943 TTTTCA-TAAA
1 TTTTTATTTTA
* * *
9392953 TTTATCTTATA
1 TTTTTATTTTA
*
9392964 TTTTGATTTTGA
1 TTTTTATTTT-A
*
9392976 TTTTGATTTTA
1 TTTTTATTTTA
9392987 TTTTTAATTTT
1 TTTTT-ATTTT
9392998 TAATATTACT
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
10 24 0.34
11 24 0.34
12 22 0.31
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:9393105 original size:13 final size:13
Alignment explanation
Indices: 9393087--9393111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9393077 AAAATGACAA
9393087 AAAAATAAAAAAT
1 AAAAATAAAAAAT
9393100 AAAAATAAAAAA
1 AAAAATAAAAAA
9393112 ATCTTTTTAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:9397855 original size:163 final size:163
Alignment explanation
Indices: 9397582--9397896 Score: 468
Period size: 163 Copynumber: 1.9 Consensus size: 163
9397572 GTAACCCTTG
* * *
9397582 ATAAATTTTATTAAATCTGATAATTCATATATTTATATTATATAAAATATTAAAATTTGTATATC
1 ATAAATTTTATTAAACCTGATAATTCATATATTTATATCATATAAAATACTAAAATTTGTATATC
* * * ** *
9397647 CGTGTATTTGTGTCACGTTTTATATGAAAATTATGTATCAAAATTCATGTTAACACAAAAATATT
66 CATGTATTTGTGTCACGTTTTACATAAAAATTACATATCAAAATTCATGTCAACACAAAAATATT
*
9397712 AAATTCATTATTTGATTTCATTAAACTTATATT
131 AAATTCATTATTTAATTTCATTAAACTTATATT
* ** * *
9397745 ATAAATTTTATTAGACCTGATAATTTTTATATTTATATCATATAAAATACTGAAATTTGTATATT
1 ATAAATTTTATTAAACCTGATAATTCATATATTTATATCATATAAAATACTAAAATTTGTATATC
* * *
9397810 CATGTATTTGTGTCATGTTTTACATAAAAATTACATATTAAAATTCATGTCGACACAAAAATATT
66 CATGTATTTGTGTCACGTTTTACATAAAAATTACATATCAAAATTCATGTCAACACAAAAATATT
9397875 AAATTCATTATTTAATTTCATT
131 AAATTCATTATTTAATTTCATT
9397897 GAATCTATAT
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
163 134 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (163 bp):
ATAAATTTTATTAAACCTGATAATTCATATATTTATATCATATAAAATACTAAAATTTGTATATC
CATGTATTTGTGTCACGTTTTACATAAAAATTACATATCAAAATTCATGTCAACACAAAAATATT
AAATTCATTATTTAATTTCATTAAACTTATATT
Found at i:9399221 original size:26 final size:24
Alignment explanation
Indices: 9399186--9399268 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 24
9399176 AGTTAAGTTT
9399186 AAATA-ATTTAATATTTAATTTAA
1 AAATATATTTAATATTTAATTTAA
*
9399209 AAGATTTAGTTTAA-ATTT--TTTAA
1 AA-ATATA-TTTAATATTTAATTTAA
*
9399232 AAATATATTTAATA-TTAAATT-A
1 AAATATATTTAATATTTAATTTAA
*
9399254 TAA-ATATTTAATATT
1 AAATATATTTAATATT
9399269 ACTATTTATA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
21 17 0.35
22 9 0.18
23 11 0.22
24 2 0.04
25 5 0.10
26 5 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AAATATATTTAATATTTAATTTAA
Found at i:9405499 original size:16 final size:16
Alignment explanation
Indices: 9405475--9405510 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9405465 TTCTAACTCG
9405475 ATTTCATAAAATATAT
1 ATTTCATAAAATATAT
*
9405491 ATTTTATAAAATATAT
1 ATTTCATAAAATATAT
9405507 ATTT
1 ATTT
9405511 GATTTTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTCATAAAATATAT
Found at i:9405647 original size:14 final size:14
Alignment explanation
Indices: 9405630--9405656 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9405620 AATTTTAATT
9405630 TAAAATATTATTTA
1 TAAAATATTATTTA
9405644 TAAAATATTATTT
1 TAAAATATTATTT
9405657 TTAATATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAAATATTATTTA
Found at i:9405698 original size:42 final size:42
Alignment explanation
Indices: 9405636--9405755 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 42
9405626 AATTTAAAAT
*
9405636 ATTATTTATAAA-ATATTATTTTTAATATAAATT-ATATCTT-A
1 ATTATATATAAATATA-TATTTTTAAT-TAAATTAATATCTTAA
9405677 ATTATATATAAATATGATATTTTT-ATTAAATTAATATCTTAA
1 ATTATATATAAATAT-ATATTTTTAATTAAATTAATATCTTAA
9405719 ATTAATATATTAAATA-ATATTTTT-ATT-AATATAATAT
1 ATT-ATATA-TAAATATATATTTTTAATTAAAT-TAATAT
9405756 ATAAATATAA
Statistics
Matches: 71, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
40 6 0.08
41 23 0.32
42 30 0.42
43 6 0.08
44 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.52
Consensus pattern (42 bp):
ATTATATATAAATATATATTTTTAATTAAATTAATATCTTAA
Found at i:9405704 original size:24 final size:21
Alignment explanation
Indices: 9405648--9405752 Score: 56
Period size: 22 Copynumber: 4.9 Consensus size: 21
9405638 TATTTATAAA
9405648 ATATTATTT-TTAATATAAATT
1 ATATT-TTTATTAATATAAATT
* *
9405669 ATATCTTAATTATATATAAATAT
1 ATATTTTTATTA-ATATAAAT-T
*
9405692 GATATTTTTATTAA-ATTAA-T
1 -ATATTTTTATTAATATAAATT
* ** *
9405712 AT-CTTAAATTAATATATTAAATA
1 ATATTTTTATT-A-ATA-TAAATT
9405735 ATATTTTTATTAATATAA
1 ATATTTTTATTAATATAA
9405753 TATATAAATA
Statistics
Matches: 61, Mismatches: 13, Indels: 20
0.65 0.14 0.21
Matches are distributed among these distances:
18 5 0.08
19 3 0.05
20 4 0.07
21 11 0.18
22 18 0.30
23 5 0.08
24 15 0.25
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (21 bp):
ATATTTTTATTAATATAAATT
Found at i:9405720 original size:13 final size:13
Alignment explanation
Indices: 9405700--9405751 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
9405690 ATGATATTTT
9405700 TATTAAATTAATA
1 TATTAAATTAATA
*
9405713 TCTTAAATTAATA
1 TATTAAATTAATA
9405726 TATTAAA-TAATA
1 TATTAAATTAATA
**
9405738 T-TTTTATTAATA
1 TATTAAATTAATA
9405750 TA
1 TA
9405752 ATATATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 3 0.09
12 12 0.36
13 18 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTAAATTAATA
Found at i:9405733 original size:26 final size:24
Alignment explanation
Indices: 9405700--9405751 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
9405690 ATGATATTTT
9405700 TATTAAATTAATATCTTAAATTAATA
1 TATTAAA-TAATAT-TTAAATTAATA
**
9405726 TATTAAATAATATTTTTATTAATA
1 TATTAAATAATATTTAAATTAATA
9405750 TA
1 TA
9405752 ATATATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.46
25 6 0.25
26 7 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTAAATAATATTTAAATTAATA
Found at i:9405748 original size:12 final size:12
Alignment explanation
Indices: 9405700--9405751 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
9405690 ATGATATTTT
9405700 TATTAAATTAATA
1 TATT-AATTAATA
*
9405713 TCTTAAATTAATA
1 TATT-AATTAATA
*
9405726 TATTAAATAATA
1 TATTAATTAATA
* *
9405738 TTTTTATTAATA
1 TATTAATTAATA
9405750 TA
1 TA
9405752 ATATATAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 17 0.53
13 15 0.47
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTAATTAATA
Found at i:9406654 original size:26 final size:25
Alignment explanation
Indices: 9406625--9406684 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
9406615 TTTAATTCCC
*
9406625 ATATATATAAATTAAAAATACAAATT
1 ATATATAAAAATT-AAAATACAAATT
*
9406651 ATATGTAAAAATTAAAATACAAATT
1 ATATATAAAAATTAAAATACAAATT
9406676 ATATA-AAAA
1 ATATATAAAA
9406685 TACAAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 4 0.13
25 16 0.52
26 11 0.35
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (25 bp):
ATATATAAAAATTAAAATACAAATT
Found at i:9411715 original size:9 final size:9
Alignment explanation
Indices: 9411701--9411726 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9411691 AATTAATTGA
9411701 TCATGTGAG
1 TCATGTGAG
9411710 TCATGTGAG
1 TCATGTGAG
9411719 TCATGTGA
1 TCATGTGA
9411727 TTAACGCGAG
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:0.23, C:0.12, G:0.31, T:0.35
Consensus pattern (9 bp):
TCATGTGAG
Found at i:9412016 original size:3 final size:3
Alignment explanation
Indices: 9412008--9412048 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
9411998 TCCTTTACTT
* *
9412008 TTA TTA TTA TTG TTA TTA TTA ATA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9412049 TTGCCTATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9412127 original size:13 final size:12
Alignment explanation
Indices: 9412109--9412149 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
9412099 GATTTTTTAA
9412109 TTTTTTTATTTCT
1 TTTTTTTATTT-T
9412122 TTTTTTTAGTTTT
1 TTTTTTTA-TTTT
9412135 TATTTTTTATTTT
1 T-TTTTTTATTTT
9412148 TT
1 TT
9412150 AATTTTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 1 0.04
13 15 0.58
14 10 0.38
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.85
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:9412136 original size:7 final size:7
Alignment explanation
Indices: 9412100--9412161 Score: 63
Period size: 7 Copynumber: 8.6 Consensus size: 7
9412090 TAAACTTATG
9412100 ATTTTTT
1 ATTTTTT
9412107 AATTTTTTT
1 -A-TTTTTT
*
9412116 ATTTCTT
1 ATTTTTT
9412123 -TTTTTT
1 ATTTTTT
*
9412129 AGTTTTT
1 ATTTTTT
9412136 ATTTTTT
1 ATTTTTT
9412143 ATTTTTT
1 ATTTTTT
*
9412150 AATTTTGT
1 -ATTTTTT
9412158 ATTT
1 ATTT
9412162 AGATTTGCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
6 5 0.11
7 27 0.59
8 8 0.17
9 6 0.13
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (7 bp):
ATTTTTT
Found at i:9412160 original size:22 final size:21
Alignment explanation
Indices: 9412100--9412161 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
9412090 TAAACTTATG
9412100 ATTTTTTAATTTTTTTATTTCTT
1 ATTTTTTAA--TTTTTATTTCTT
* *
9412123 -TTTTTTAGTTTTTATTTTTT
1 ATTTTTTAATTTTTATTTCTT
9412143 ATTTTTTAATTTTGTATTT
1 ATTTTTTAATTTT-TATTT
9412162 AGATTTGCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 11 0.32
21 11 0.32
22 12 0.35
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (21 bp):
ATTTTTTAATTTTTATTTCTT
Found at i:9412894 original size:162 final size:162
Alignment explanation
Indices: 9412605--9412941 Score: 489
Period size: 162 Copynumber: 2.1 Consensus size: 162
9412595 GTAACACTTG
* *
9412605 ATAAATTTTATTAGACCTGATAATTCATATATTTATATTATATAAAATATTAAAATTTGTATATT
1 ATAAATTTTATTAGACCTGATAATTCATATATTTACATAATATAAAATATTAAAATTTGTATATT
* * * * *
9412670 CATGTATTTATGTTATGTTTTATATGAAAATTATATGTTAAAATTCGTATTGATATGAAAATATT
66 CATGTATTTATGTCATATTTTATATGAAAATTACATGTCAAAATTCGTATTGATACGAAAATATT
*
9412735 AAATTCATTTTTTGATTTCGTTAAA-CCATATT
131 AAATTCATTTTTTGATTTCATTAAACCCATA-T
* *
9412767 ATAAATTTTATTAGACCTGATAATTTATGTATTTACATAATATAAAATATTAAAATTTGTATATT
1 ATAAATTTTATTAGACCTGATAATTCATATATTTACATAATATAAAATATTAAAATTTGTATATT
** * * * *
9412832 TGTGTATTTGTGTCATATTTTATATGAAAATTACGTGTCAAAATTTGTGTTGATACGAAAATATT
66 CATGTATTTATGTCATATTTTATATGAAAATTACATGTCAAAATTCGTATTGATACGAAAATATT
*
9412897 AAATTTATTTTTTGATTTCATTAAACCCATAT
131 AAATTCATTTTTTGATTTCATTAAACCCATAT
9412929 AT-AATTATTATTA
1 ATAAATT-TTATTA
9412942 AAATTTTAAA
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
161 4 0.03
162 147 0.94
163 5 0.03
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (162 bp):
ATAAATTTTATTAGACCTGATAATTCATATATTTACATAATATAAAATATTAAAATTTGTATATT
CATGTATTTATGTCATATTTTATATGAAAATTACATGTCAAAATTCGTATTGATACGAAAATATT
AAATTCATTTTTTGATTTCATTAAACCCATAT
Found at i:9424949 original size:24 final size:24
Alignment explanation
Indices: 9424922--9424975 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
9424912 CTTCTGCTAT
*
9424922 ATCATCATCCTCATCCTCC-CCCTC
1 ATCATCATCCTCATCATCCTCCC-C
9424946 ATCATCATCCTCATCATCCTCCCC
1 ATCATCATCCTCATCATCCTCCCC
9424970 ATCATC
1 ATCATC
9424976 TGCCATGTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (24 bp):
ATCATCATCCTCATCATCCTCCCC
Found at i:9424957 original size:12 final size:12
Alignment explanation
Indices: 9424922--9424975 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
9424912 CTTCTGCTAT
9424922 ATCATCATCCTC
1 ATCATCATCCTC
* **
9424934 ATCCTCCCCCTC
1 ATCATCATCCTC
9424946 ATCATCATCCTC
1 ATCATCATCCTC
* *
9424958 ATCATCCTCCCC
1 ATCATCATCCTC
9424970 ATCATC
1 ATCATC
9424976 TGCCATGTCG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (12 bp):
ATCATCATCCTC
Found at i:9433218 original size:21 final size:21
Alignment explanation
Indices: 9433173--9433224 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
9433163 GGAAAATATT
*
9433173 TTTTTTTAATTTCTTTTATTTA
1 TTTTTTTAATTTCTTTTA-TCA
9433195 TTTTTTTAATTTCTTTGTA-CA
1 TTTTTTTAATTTCTTT-TATCA
9433216 TTTTTTTAA
1 TTTTTTTAA
9433225 ATAAGTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 10 0.36
22 16 0.57
23 2 0.07
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTTTAATTTCTTTTATCA
Found at i:9433857 original size:21 final size:20
Alignment explanation
Indices: 9433818--9433859 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9433808 AATTTAAAAT
* *
9433818 TTTGATAAAAATTATATATA
1 TTTGATAAAAATAAAATATA
9433838 TTTGATAAAAATAAAAATATA
1 TTTGATAAAAAT-AAAATATA
9433859 T
1 T
9433860 ATTTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
TTTGATAAAAATAAAATATA
Found at i:9434372 original size:17 final size:17
Alignment explanation
Indices: 9434337--9434391 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 17
9434327 TTTATTTTTT
9434337 TATTATTTTAATATCCAAAA
1 TATTATTTT-ATA--CAAAA
9434357 TATTATTTTATAC-AAA
1 TATTATTTTATACAAAA
*
9434373 TATGTA-TATATACAAAA
1 TAT-TATTTTATACAAAA
9434390 TA
1 TA
9434392 ATTTAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 12 0.38
17 8 0.25
19 3 0.09
20 9 0.28
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (17 bp):
TATTATTTTATACAAAA
Found at i:9434445 original size:17 final size:17
Alignment explanation
Indices: 9434413--9434446 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9434403 AAATGATATG
* *
9434413 ATTTATAATAATTTTAT
1 ATTTATAAAAAATTTAT
9434430 ATTTATAAAAAATTTAT
1 ATTTATAAAAAATTTAT
9434447 GATTAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATAAAAAATTTAT
Found at i:9434739 original size:2 final size:2
Alignment explanation
Indices: 9434732--9434756 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9434722 TTTTGTTATC
9434732 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9434757 AAGATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9451421 original size:2 final size:2
Alignment explanation
Indices: 9451414--9451457 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
9451404 CATAGGTTCT
9451414 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9451456 TA
1 TA
9451458 CACTTTAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9451789 original size:20 final size:22
Alignment explanation
Indices: 9451766--9451807 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
9451756 TAATAATTTT
9451766 ATATCAAAA-TTTAT-TTAAAA
1 ATATCAAAATTTTATATTAAAA
*
9451786 ATATTAAAATTTTATATTAAAA
1 ATATCAAAATTTTATATTAAAA
9451808 TAATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATCAAAATTTTATATTAAAA
Found at i:9451802 original size:33 final size:34
Alignment explanation
Indices: 9451751--9451827 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
9451741 TTTATAAAAT
*
9451751 AAAAA-TAATAATTTTATATCAAAAT-TTAT-TTA
1 AAAAATTAA-AATTTTATATCAAAATAATATATTA
*
9451783 AAAATATTAAAATTTTATATTAAAATAATATATTA
1 AAAA-ATTAAAATTTTATATCAAAATAATATATTA
9451818 AAAAATTAAA
1 AAAAATTAAA
9451828 TTTGAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
32 4 0.10
33 16 0.41
34 12 0.31
35 7 0.18
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAAATTAAAATTTTATATCAAAATAATATATTA
Found at i:9451804 original size:13 final size:13
Alignment explanation
Indices: 9451760--9451820 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
9451750 TAAAAATAAT
*
9451760 AATTTTATATCAA
1 AATTTTATATTAA
9451773 AA-TTTAT-TTAA
1 AATTTTATATTAA
9451784 AA----ATATTAA
1 AATTTTATATTAA
9451793 AATTTTATATTAA
1 AATTTTATATTAA
**
9451806 AATAATATATTAA
1 AATTTTATATTAA
9451819 AA
1 AA
9451821 AATTAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
8 2 0.05
9 6 0.15
11 5 0.12
12 5 0.12
13 22 0.55
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTTTATATTAA
Found at i:9452992 original size:32 final size:31
Alignment explanation
Indices: 9452934--9453064 Score: 104
Period size: 32 Copynumber: 4.1 Consensus size: 31
9452924 ATTATTTGTG
* *
9452934 TATTTATATTATATAAAATATTAAAATTTATA
1 TATTTATATTATATTAAATA-TAAAAATTATA
**
9452966 TATTTATATTATATTTTATATAAAAATTATA
1 TATTTATATTATATTAAATATAAAAATTATA
* *
9452997 TGTTATATTTTATATT-AAT-TAAAAATATAAAATA
1 TATT-TATATTATATTAAATATAAAAAT-T---ATA
* * * *
9453031 TATTTTTATTTTATTAAATTTAAAAATAATA
1 TATTTATATTATATTAAATATAAAAATTATA
9453062 TAT
1 TAT
9453065 AAAACTATTG
Statistics
Matches: 80, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
30 7 0.09
31 22 0.28
32 27 0.34
33 8 0.10
34 9 0.11
35 7 0.09
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (31 bp):
TATTTATATTATATTAAATATAAAAATTATA
Found at i:9453005 original size:30 final size:29
Alignment explanation
Indices: 9452934--9453022 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 29
9452924 ATTATTTGTG
** *
9452934 TATTTATATTATATAAAATATTAAAATTTATA
1 TATTTATATTATATATTA-ATTAAAA-AT-TA
*
9452966 TATTTATATTATAT-TTTATATAAAAATTA
1 TATTTATATTATATATTAAT-TAAAAATTA
*
9452995 TATGTTATATTTTATATTAATTAAAAAT
1 TAT-TTATATTATATATTAATTAAAAAT
9453023 ATAAAATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
29 5 0.10
30 20 0.42
31 9 0.19
32 14 0.29
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (29 bp):
TATTTATATTATATATTAATTAAAAATTA
Found at i:9453046 original size:29 final size:29
Alignment explanation
Indices: 9452952--9453048 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 29
9452942 TTATATAAAA
* ** *
9452952 TATTAAAATTTATATATTTATATTATATTT
1 TATTAAAAATTATA-AAATATATTTTATTT
***
9452982 TATATAAAAATTATATGTTATATTTTATATT
1 TAT-TAAAAATTATAAAATATATTTTAT-TT
*
9453013 AATTAAAAA-TATAAAATATATTTTTATTT
1 TATTAAAAATTATAAAATATA-TTTTATTT
9453042 TATTAAA
1 TATTAAA
9453049 TTTAAAAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
29 16 0.29
30 25 0.45
31 14 0.25
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (29 bp):
TATTAAAAATTATAAAATATATTTTATTT
Found at i:9453054 original size:35 final size:38
Alignment explanation
Indices: 9452983--9453058 Score: 97
Period size: 35 Copynumber: 2.1 Consensus size: 38
9452973 ATTATATTTT
*
9452983 ATATAAAAATTATATGTTATATTTTATATTAATTAAAA
1 ATATAAAAATTATATGTTATATTTTATATAAATTAAAA
*
9453021 ATAT-AAAA-TATAT-TTTTATTTTAT-TAAATTTAAAA
1 ATATAAAAATTATATGTTATATTTTATATAAA-TTAAAA
9453056 ATA
1 ATA
9453059 ATATATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 3 0.09
35 19 0.54
36 5 0.14
37 4 0.11
38 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (38 bp):
ATATAAAAATTATATGTTATATTTTATATAAATTAAAA
Found at i:9453561 original size:27 final size:27
Alignment explanation
Indices: 9453531--9453590 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
9453521 TATTAGTTAA
*
9453531 ATTTAAATATCAATTT-TAATAAAATTT
1 ATTTAAA-ATAAATTTCTAATAAAATTT
* *
9453558 ATTTAAAATAAATTTCTTATTAAATTT
1 ATTTAAAATAAATTTCTAATAAAATTT
*
9453585 TTTTAA
1 ATTTAA
9453591 TAACTTCAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTTAAAATAAATTTCTAATAAAATTT
Found at i:9454361 original size:17 final size:17
Alignment explanation
Indices: 9454321--9454367 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
9454311 TTTATTTGAA
9454321 ATTAATAAAAT-ATTTT
1 ATTAATAAAATAATTTT
9454337 ATTAAATAAAATAATATTT
1 ATT-AATAAAATAAT-TTT
9454356 -TTAATATAAATA
1 ATTAATA-AAATA
9454368 TAAAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.11
17 12 0.44
18 9 0.33
19 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAATAAAATAATTTT
Found at i:9454370 original size:20 final size:21
Alignment explanation
Indices: 9454309--9454370 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
9454299 AATTGACCTA
* *
9454309 ATTTTATTTGAAATTAATAAAAT
1 ATTTTA-TT-AAATAAATATAAT
9454332 ATTTTATTAAATAAA-ATAAT
1 ATTTTATTAAATAAATATAAT
9454352 A-TTT-TTAATATAAATATAA
1 ATTTTATTAA-ATAAATATAA
9454371 AATTAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 4 0.11
19 8 0.23
20 9 0.26
21 6 0.17
22 2 0.06
23 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTTTATTAAATAAATATAAT
Found at i:9454376 original size:17 final size:17
Alignment explanation
Indices: 9454356--9454404 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
9454346 AATAATATTT
9454356 TTAATATAAATATAAAA
1 TTAATATAAATATAAAA
9454373 TTAA-ATAAATTATAAAA
1 TTAATATAAA-TATAAAA
* * *
9454390 ATATTATATATATAA
1 TTAATATAAATATAA
9454405 GGTCGAAGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 18 0.67
18 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAATATAAATATAAAA
Found at i:9454478 original size:18 final size:19
Alignment explanation
Indices: 9454449--9454487 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9454439 TCCAACTTAT
*
9454449 TTAAAAATAAAAATTTTAA
1 TTAAAAATAAAAAATTTAA
9454468 TTAAAAA-AAAAAATTTAA
1 TTAAAAATAAAAAATTTAA
9454486 TT
1 TT
9454488 CTATAAGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAAAATAAAAAATTTAA
Found at i:9463627 original size:28 final size:29
Alignment explanation
Indices: 9463586--9463647 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
9463576 TTGATAAATA
*
9463586 TAAATATAAATAAAAT-TATAATTTTTAAT
1 TAAATATAAATAAAATATATAA-ATTTAAT
*
9463615 TAAA-ATAATTAAAATATATAAATTTAAT
1 TAAATATAAATAAAATATATAAATTTAAT
9463643 TAAAT
1 TAAAT
9463648 TTATGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
TAAATATAAATAAAATATATAAATTTAAT
Found at i:9464301 original size:11 final size:11
Alignment explanation
Indices: 9464281--9464338 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
9464271 GTTTGGTAAG
9464281 TTTTTATTTTA
1 TTTTTATTTTA
*
9464292 TTTTTCTTTT-
1 TTTTTATTTTA
*
9464302 TTTATTAGTTTA
1 TTT-TTATTTTA
9464314 TTTTTTATTTT-
1 -TTTTTATTTTA
9464325 TCTTTT-TTTTA
1 T-TTTTATTTTA
9464336 TTT
1 TTT
9464339 ATTTTGATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
10 10 0.26
11 19 0.50
12 6 0.16
13 3 0.08
ACGTcount: A:0.12, C:0.03, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:9464319 original size:15 final size:14
Alignment explanation
Indices: 9464299--9464343 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
9464289 TTATTTTTCT
9464299 TTTTTTATTAGTTTA
1 TTTTTTATTA-TTTA
*
9464314 TTTTTTATT-TTTC
1 TTTTTTATTATTTA
9464327 TTTTTT-TTATTTA
1 TTTTTTATTATTTA
9464340 TTTT
1 TTTT
9464344 GATATTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 2 0.07
13 16 0.59
15 9 0.33
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTTTTATTATTTA
Found at i:9470499 original size:17 final size:18
Alignment explanation
Indices: 9470465--9470526 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
9470455 AATTCATTGG
*
9470465 TTTTTAATTTAATATAAA
1 TTTTTAATATAATATAAA
*
9470483 TTTTTAATAT-ATTTAAA
1 TTTTTAATATAATATAAA
* *
9470500 TAATTTTAACTATAAAATAAT
1 T--TTTTAA-TATAATATAAA
9470521 TTTTTA
1 TTTTTA
9470527 TTTTATCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 7 0.20
18 9 0.26
19 11 0.31
20 3 0.09
21 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTTAATATAATATAAA
Found at i:9476541 original size:7 final size:7
Alignment explanation
Indices: 9476531--9476555 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9476521 TTTTTTTCCC
9476531 TTTTATA
1 TTTTATA
9476538 TTTTATA
1 TTTTATA
9476545 TTTTATA
1 TTTTATA
9476552 TTTT
1 TTTT
9476556 TAAAAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:9484949 original size:159 final size:163
Alignment explanation
Indices: 9484758--9485095 Score: 569
Period size: 160 Copynumber: 2.1 Consensus size: 163
9484748 AAAGGCAAAC
*
9484758 AAGATATGATATATTGGTCATATCATTATAGCAA-TTTTTTTTTTCTTTTT-GCATTAAGTAAAA
1 AAGAAATGATATATTGGTCATATCATTATAGCAACTTTTTTTTTT-TTTTTGGCATTAAGTAAAA
*
9484821 GAAAAAAATTAACTTGATTATGAATATATCTGAATTGTGAAGTAAAATAAAAAAATATGAAAATA
65 GAAAAAAATTAACTTGATTATGAATATATATGAATTGTGAAGTAAAATAAAAAAATATGAAAATA
* *
9484886 AATAGAAAGAT-GAGAG-AGAGA-AAAAATAATA
130 AATAAAAAGATAGAGAGAAGAGAGAAAAAAAATA
9484917 AAGAAATGATATATTGGTCATATCATTATAGCAACTTTTTTTTTTTTTTTGGCATTAAGTAAAAG
1 AAGAAATGATATATTGGTCATATCATTATAGCAACTTTTTTTTTTTTTTTGGCATTAAGTAAAAG
*
9484982 AAAAAAATTAACTTGATTATGGATATATATGAATTGTGAAGTAAAATAAAAAAATATGAAAATAA
66 AAAAAAATTAACTTGATTATGAATATATATGAATTGTGAAGTAAAATAAAAAAATATGAAAATAA
9485047 ATAAAAAGATGAGAGAGAAAGAGAGAAAAAAAATA
131 ATAAAAAGAT-AGAGAG-AAGAGAGAAAAAAAATA
9485082 AAGAAATGATATAT
1 AAGAAATGATATAT
9485096 GATTCGTAAG
Statistics
Matches: 167, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
159 38 0.23
160 96 0.57
162 5 0.03
164 5 0.03
165 23 0.14
ACGTcount: A:0.50, C:0.04, G:0.14, T:0.32
Consensus pattern (163 bp):
AAGAAATGATATATTGGTCATATCATTATAGCAACTTTTTTTTTTTTTTTGGCATTAAGTAAAAG
AAAAAAATTAACTTGATTATGAATATATATGAATTGTGAAGTAAAATAAAAAAATATGAAAATAA
ATAAAAAGATAGAGAGAAGAGAGAAAAAAAATA
Found at i:9489960 original size:25 final size:25
Alignment explanation
Indices: 9489915--9489962 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
9489905 CATAAAATCA
*
9489915 TTTTTAAAATGTGACATTTAATAAT
1 TTTTTAAAATGTAACATTTAATAAT
*
9489940 TTTTTAAAATTTAAC-TCTTAATA
1 TTTTTAAAATGTAACAT-TTAATA
9489963 CCTATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTTTAAAATGTAACATTTAATAAT
Done.