Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168404.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_62, 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: 141830
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
File 2 of 5
Found at i:36128 original size:15 final size:15
Alignment explanation
Indices: 36086--36128 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
36076 TAAAATTGTT
36086 AATATTAATAATAGAA
1 AATATTAAT-ATAGAA
36102 ATATATTAATAT-GCAA
1 A-ATATTAATATAG-AA
36118 AATATTAATAT
1 AATATTAATAT
36129 TAAGATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.44
16 6 0.24
17 8 0.32
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (15 bp):
AATATTAATATAGAA
Found at i:36381 original size:26 final size:24
Alignment explanation
Indices: 36352--36419 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
36342 ACTAAATAAA
36352 TATTTTATTAATTATTCAAACAGAAT
1 TATTTTATTAATTATTCAAA-A-AAT
* * *
36378 TATTTTATCAATAATCCAAAAAAT
1 TATTTTATTAATTATTCAAAAAAT
*
36402 TCATCATTATTAATTATT
1 T-AT-TTTATTAATTATT
36420 ATTAATGTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
24 4 0.12
25 3 0.09
26 26 0.79
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (24 bp):
TATTTTATTAATTATTCAAAAAAT
Found at i:37554 original size:412 final size:418
Alignment explanation
Indices: 36734--37577 Score: 1323
Period size: 412 Copynumber: 2.0 Consensus size: 418
36724 TACTATAATA
*
36734 TTATCAAATTAATACAATAATAATTGTTTATAAATTATTAGTCCAAATTATCATTAATATAATAA
1 TTATTAAATTAATACAATAATAATTGTTTATAAATTATTAGTCCAAATTATCATTAATATAATAA
* *
36799 TTGAATGTTTGAGTATAAATTTGTAACAAATTTATAAAAATTATGGCAATTATTATTATTTATTA
66 TTGAATGTTTGAGTATAAATATGTAACAAATTTATAAAAATTATGACAATTATTATTATTTATTA
36864 ATATCAATAAATAGTCATAAAAATTATTGTTAATATTATTTAACTAATAAATATCGTTAATTAAC
131 ATATCAATAAATAGTCATAAAAATTATTGTT-ATA-TA-TTAACT-AT-AATA-C-TTAATTAAC
36929 TATTTTATATTAATTACTAATATTATTATAATAATAAATTATAATTGCTTATTAATTTTTGAAAT
189 TATTTTATATTAATTACTAATATTATTATAATAATAAATTATAATTGCTTATTAATTTTTGAAAT
* * *
36994 ATTAAGAAATTAGTATTATTTTATTTTGGATAAGCTTTTATGAATTGAAACAATTGTTTTTTGTC
254 ATTAAGAAATTAGTATTATTTTATTTTGGATAACCTTTTATGAACTGAAACAATTATTTTTTGTC
* *
37059 AAAACAAAAGGTCATAACGATTTTAAATAAATAATTGTTCAAATAGTCATAACTCTTTAAACTTG
319 AAAACAAAAGGTCATAACGATTTTAAATAAATAATTGTTCAAATAATCATAACTATTTAAACTTG
* *
37124 ATCGGTAAATAAATTTATTTTTTCATATCTTTTGC
384 ATCGGTAAACAAATTTATTTTTTCATATATTTTGC
*
37159 TTATTAAATATAATACAATAATAATTGTTTATAAATTATTAGTCCAAATTATCGTTAATATAATA
1 TTATTAAAT-TAATACAATAATAATTGTTTATAAATTATTAGTCCAAATTATCATTAATATAATA
* *
37224 ATTGAATGTTTTAGTATAAATATGTAACAAATTTATAAAAATTATGACAATTTTTTATTACTATT
65 ATTGAATGTTTGAGTATAAATATGTAACAAATTTATAAAAATTATGACAA-TTATTATTA-T-TT
* *
37289 TTTAATAT-AATAAATAGTTATAAAAATTATTG-T-TA-A-T-A-T-T-ATA-TTAATTAACTAT
127 ATTAATATCAATAAATAGTCATAAAAATTATTGTTATATATTAACTATAATACTTAATTAACTAT
37344 TTTATATTAATTACTAA-ATTATTATAATAATAAATTATAATTGCTTATTAATTTTTGAAATATT
192 TTTATATTAATTACTAATATTATTATAATAATAAATTATAATTGCTTATTAATTTTTGAAATATT
*
37408 AAGAAATTAGTATTATTTTATTTTGGATAACCTTTTATGAACTGAAACAATTATTTGTTTTTCAA
257 AAGAAATTAGTATTATTTTATTTTGGATAACCTTTTATGAACTGAAACAATTATTT-TTTGTCAA
* * *
37473 AACAAAAGGTCATAATGATTTTAAATAAATAATTGTTTAAATAATCATAACTATTTGAACTTGAT
321 AACAAAAGGTCATAACGATTTTAAATAAATAATTGTTCAAATAATCATAACTATTTAAACTTGAT
*
37538 CGGTAAACAGATTTATTTTTTCATATATTTTGC
386 CGGTAAACAAATTTATTTTTTCATATATTTTGC
37571 TTATTAA
1 TTATTAA
37578 TTTTTTGAAT
Statistics
Matches: 394, Mismatches: 20, Indels: 23
0.90 0.05 0.05
Matches are distributed among these distances:
411 100 0.25
412 133 0.34
415 3 0.01
417 1 0.00
419 1 0.00
420 1 0.00
421 1 0.00
423 1 0.00
425 10 0.03
426 101 0.26
427 9 0.02
428 24 0.06
429 9 0.02
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (418 bp):
TTATTAAATTAATACAATAATAATTGTTTATAAATTATTAGTCCAAATTATCATTAATATAATAA
TTGAATGTTTGAGTATAAATATGTAACAAATTTATAAAAATTATGACAATTATTATTATTTATTA
ATATCAATAAATAGTCATAAAAATTATTGTTATATATTAACTATAATACTTAATTAACTATTTTA
TATTAATTACTAATATTATTATAATAATAAATTATAATTGCTTATTAATTTTTGAAATATTAAGA
AATTAGTATTATTTTATTTTGGATAACCTTTTATGAACTGAAACAATTATTTTTTGTCAAAACAA
AAGGTCATAACGATTTTAAATAAATAATTGTTCAAATAATCATAACTATTTAAACTTGATCGGTA
AACAAATTTATTTTTTCATATATTTTGC
Found at i:37736 original size:15 final size:16
Alignment explanation
Indices: 37716--37745 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37706 TAAATATTTT
37716 ATTATTGATT-AATAA
1 ATTATTGATTCAATAA
37731 ATTATTGATTCAATA
1 ATTATTGATTCAATA
37746 GACTATTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (16 bp):
ATTATTGATTCAATAA
Found at i:37898 original size:23 final size:23
Alignment explanation
Indices: 37839--37899 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
37829 TTCATTACAC
* *
37839 AATTTGTATTATTATAAATTAAT
1 AATTTATATTATTATAAATAAAT
37862 -A-TTATACTTAATTATAAATAAAT
1 AATTTATA-TT-ATTATAAATAAAT
37885 AATTTATATTATTAT
1 AATTTATATTATTAT
37900 TTATCACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 4 0.12
22 3 0.09
23 17 0.53
24 3 0.09
25 5 0.16
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTTATATTATTATAAATAAAT
Found at i:38675 original size:16 final size:17
Alignment explanation
Indices: 38646--38753 Score: 58
Period size: 17 Copynumber: 6.1 Consensus size: 17
38636 TTATACTCAA
38646 TATTATATAAATTAAAT
1 TATTATATAAATTAAAT
* *
38663 TATT-TATACATTATAT
1 TATTATATAAATTAAAT
* * *
38679 TAGTATAAAAATTATAT
1 TATTATATAAATTAAAT
* * *
38696 TATACAAATAATATTTAATT
1 TAT-TATATAA-A-TTAAAT
38716 TATTATAATAAAATTATAAT
1 TATTAT-AT-AAATTA-AAT
*
38736 TA-TAGTATTAATTAAAT
1 TATTA-TATAAATTAAAT
38753 T
1 T
38754 TAACAAACCT
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
16 13 0.19
17 20 0.29
18 9 0.13
19 9 0.13
20 15 0.22
21 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TATTATATAAATTAAAT
Found at i:39633 original size:19 final size:21
Alignment explanation
Indices: 39586--39633 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
39576 TAAATATAAT
*
39586 ATAATAATTATTATATTATTTA
1 ATAAT-ATTATTATATTATTAA
39608 ATAAATATTATTA-A-TATTAA
1 AT-AATATTATTATATTATTAA
39628 ATAATA
1 ATAATA
39634 GAACTAACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 1 0.04
22 9 0.38
23 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAATATTATTATATTATTAA
Found at i:39791 original size:20 final size:21
Alignment explanation
Indices: 39745--39791 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
39735 TTTTAATATT
* *
39745 TTAATTAATTAATATATATTA
1 TTAATTAATTAAAATATATAA
39766 TT-ATTAATTAAAATA-ATAA
1 TTAATTAATTAAAATATATAA
39785 TTAATTA
1 TTAATTA
39792 TAACATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 16 0.70
21 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATTAATTAAAATATATAA
Found at i:39801 original size:16 final size:16
Alignment explanation
Indices: 39748--39802 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
39738 TAATATTTTA
*
39748 ATTAATTAATATATATT
1 ATTAATTAAT-TATAAT
*
39765 ATT-ATTAATTAAAAT
1 ATTAATTAATTATAAT
* *
39780 AATAATTAATTATAAC
1 ATTAATTAATTATAAT
39796 ATTAATT
1 ATTAATT
39803 TTTTTAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 6 0.19
16 22 0.71
17 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAATTAATTATAAT
Found at i:40412 original size:15 final size:16
Alignment explanation
Indices: 40380--40455 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 16
40370 TTTAGTATTA
40380 ATTATATAATTAATGT
1 ATTATATAATTAATGT
40396 ATTAT-TAA-TAATAGT
1 ATTATATAATTAAT-GT
* *
40411 ATAATCTAATTTAA--T
1 ATTATATAA-TTAATGT
40426 ATTATAT-ATTAAT-T
1 ATTATATAATTAATGT
40440 ATTGATATAATATAAT
1 ATT-ATATAAT-TAAT
40456 AATTGTCATA
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
13 4 0.08
14 9 0.18
15 19 0.39
16 10 0.20
17 4 0.08
18 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (16 bp):
ATTATATAATTAATGT
Found at i:40502 original size:26 final size:26
Alignment explanation
Indices: 40455--40504 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
40445 TATAATATAA
*
40455 TAATTGTCATAATTTATTATTATTTT
1 TAATTGTCATAATATATTATTATTTT
*
40481 TAATTGT-ATAATATGTTAATTATT
1 TAATTGTCATAATATATT-ATTATT
40505 ATTACTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (26 bp):
TAATTGTCATAATATATTATTATTTT
Found at i:40980 original size:21 final size:20
Alignment explanation
Indices: 40955--41002 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
40945 TTATTAAACC
*
40955 ATTATAATTATTATATTATA
1 ATTATAATTATTATAATATA
*
40975 TATTATATTTATTATAATATA
1 -ATTATAATTATTATAATATA
40996 ATTATAA
1 ATTATAA
41003 AAACTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTATAATTATTATAATATA
Found at i:41224 original size:17 final size:19
Alignment explanation
Indices: 41189--41225 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
41179 ATAACCTCTT
41189 AATTATATATATTAATATA
1 AATTATATATATTAATATA
*
41208 AATTAT-TA-ATTATTATA
1 AATTATATATATTAATATA
41225 A
1 A
41226 CTATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTATATATATTAATATA
Found at i:41302 original size:21 final size:20
Alignment explanation
Indices: 41274--41335 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
41264 ATAATTTCTC
41274 AATT-TAATATTATAAATTAT
1 AATTATAAT-TTATAAATTAT
*
41294 AATTATAATTTAATAATTTAT
1 AATTATAATTT-ATAAATTAT
* * *
41315 TATTA-AATTAATTAATTAT
1 AATTATAATTTATAAATTAT
41334 AA
1 AA
41336 AATTAGTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 8 0.24
20 10 0.29
21 16 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTATAATTTATAAATTAT
Found at i:41312 original size:34 final size:34
Alignment explanation
Indices: 41257--41335 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
41247 TATGTATTTA
*
41257 AATT-ATTATAATTTCTCAATTTAATATTATAAATT
1 AATTAATTATAATTTATCAATTTAATA-T-TAAATT
*
41292 -A-TAATTATAATTTAAT-AATTTATTATTAAATT
1 AATTAATTATAATTT-ATCAATTTAATATTAAATT
41324 AATTAATTATAA
1 AATTAATTATAA
41336 AATTAGTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
32 6 0.16
33 3 0.08
34 28 0.74
35 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (34 bp):
AATTAATTATAATTTATCAATTTAATATTAAATT
Found at i:41332 original size:16 final size:16
Alignment explanation
Indices: 41307--41340 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41297 TATAATTTAA
* *
41307 TAATTTATTATTAAAT
1 TAATTAATTATAAAAT
41323 TAATTAATTATAAAAT
1 TAATTAATTATAAAAT
41339 TA
1 TA
41341 GTATATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTAATTATAAAAT
Found at i:41533 original size:34 final size:33
Alignment explanation
Indices: 41485--41549 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
41475 ACTCTATACT
* *
41485 TATAGTAATCTAAATTTATTAATAAATTATAATA
1 TATAGTAATATAAATTT-TAAATAAATTATAATA
* *
41519 TATATTAATATAAATTTTAAATAATTTATAA
1 TATAGTAATATAAATTTTAAATAAATTATAA
41550 ATAATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 12 0.44
34 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (33 bp):
TATAGTAATATAAATTTTAAATAAATTATAATA
Found at i:41740 original size:10 final size:11
Alignment explanation
Indices: 41719--41758 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
41709 ATGTTTAACA
*
41719 TAATTCATAAT
1 TAATTAATAAT
41730 TAATT-ATAAT
1 TAATTAATAAT
41740 TAATTAATAA-
1 TAATTAATAAT
41750 T-ATTAATAA
1 TAATTAATAA
41759 ATAAATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.29
10 11 0.39
11 9 0.32
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATTAATAAT
Found at i:41756 original size:13 final size:14
Alignment explanation
Indices: 41726--41768 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
41716 ACATAATTCA
*
41726 TAATTAATTATAAT
1 TAATTAATAATAAT
41740 TAATTAATAAT-AT
1 TAATTAATAATAAT
*
41753 TAATAAATAAATAAT
1 TAATTAAT-AATAAT
41768 T
1 T
41769 TATATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.36
14 13 0.52
15 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATTAATAATAAT
Found at i:41775 original size:17 final size:17
Alignment explanation
Indices: 41745--41777 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41735 ATAATTAATT
41745 AATAATATTAATAAATA
1 AATAATATTAATAAATA
41762 AATAAT-TTATATAAAT
1 AATAATATTA-ATAAAT
41778 TATTTGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATATTAATAAATA
Found at i:41978 original size:23 final size:23
Alignment explanation
Indices: 41941--41986 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
41931 TAATATTTCA
*
41941 TATTATTATATAATTTTTTAATT
1 TATTATTATATAATTTTATAATT
41964 TATTCATTATA-AATTTTATAATT
1 TATT-ATTATATAATTTTATAATT
41987 AACTAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATTATATAATTTTATAATT
Found at i:42575 original size:13 final size:13
Alignment explanation
Indices: 42559--42607 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
42549 CTAATAATCT
*
42559 ATATATTTAATGA
1 ATATAATTAATGA
* **
42572 ATATATTTAATTT
1 ATATAATTAATGA
*
42585 ATATAACTAATGA
1 ATATAATTAATGA
42598 ATATAATTAA
1 ATATAATTAA
42608 CTAATATTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (13 bp):
ATATAATTAATGA
Found at i:42588 original size:26 final size:26
Alignment explanation
Indices: 42553--42607 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
42543 ATATAACTAA
** *
42553 TAATCTATATATTTAATGAATATATT
1 TAATCTATATAACTAATGAATATAAT
*
42579 TAATTTATATAACTAATGAATATAAT
1 TAATCTATATAACTAATGAATATAAT
42605 TAA
1 TAA
42608 CTAATATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (26 bp):
TAATCTATATAACTAATGAATATAAT
Found at i:42629 original size:17 final size:17
Alignment explanation
Indices: 42609--42643 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
42599 TATAATTAAC
*
42609 TAATATTATATTATATA
1 TAATATTATAATATATA
42626 TAATATTATAATATATA
1 TAATATTATAATATATA
42643 T
1 T
42644 TTGATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATATTATAATATATA
Found at i:42954 original size:26 final size:26
Alignment explanation
Indices: 42924--42973 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
42914 TTATTAATTA
*
42924 ATAATT-TAAATATTAATATTATAAAT
1 ATAATTATAAAT-TTAATATAATAAAT
*
42950 ATAATTATTAATTTAATATAATAA
1 ATAATTATAAATTTAATATAATAA
42974 GTTAGTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATAATTATAAATTTAATATAATAAAT
Found at i:42988 original size:21 final size:20
Alignment explanation
Indices: 42912--42989 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 20
42902 TATAATCCAA
*
42912 AATTATTAA-TTAATA-ATTT
1 AATTATTAATTTAATATA-AT
* *
42931 AAATATTAATATT-ATAAATAT
1 AATTATTAAT-TTAATATA-AT
42952 AATTATTAATTTAATATAAT
1 AATTATTAATTTAATATAAT
42972 AAGTTAGTTAA-TTAATAT
1 AA-TTA-TTAATTTAATAT
42990 TATATATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
19 8 0.16
20 9 0.18
21 28 0.57
22 4 0.08
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AATTATTAATTTAATATAAT
Found at i:43119 original size:42 final size:43
Alignment explanation
Indices: 43067--43156 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 43
43057 TATATATTCT
* *
43067 TATTATAAAATTATAATAAAA-TAAATATATAAT-TTATTAA-TA
1 TATTACAAAATTA-AATAAAATTAAAT-TATAATATTAATAATTA
* *
43109 TATTACAAAATTAATTAAAATTAAATTATACTATTAATAATTA
1 TATTACAAAATTAAATAAAATTAAATTATAATATTAATAATTA
43152 TATTA
1 TATTA
43157 ATCATAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
41 11 0.27
42 23 0.56
43 7 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (43 bp):
TATTACAAAATTAAATAAAATTAAATTATAATATTAATAATTA
Found at i:43198 original size:78 final size:76
Alignment explanation
Indices: 43089--43249 Score: 179
Period size: 78 Copynumber: 2.1 Consensus size: 76
43079 ATAATAAAAT
*
43089 AAATATATAATTTATTAATATATTACAAAATTA-ATTAAAAT-TAAATTATACTATTAATA-ATT
1 AAATATATAATTTATTAATATATTACAAAATTATA-TAAAATAT-AATTA-A-TATTAATATATA
43151 ATATTAATCATAATA
62 ATATTAATCATAATA
*
43166 AAAT-TATAATTTATTTTAAT-TATTTACTAAATTATATAAAATATAATTAATATTAATATATAA
1 AAATATATAATTTA--TTAATATA-TTACAAAATTATATAAAATATAATTAATATTAATATATAA
* *
43229 TATTAATAATTATTA
63 TATTAATCA-TAATA
43244 AAATAT
1 AAATAT
43250 TGTTAAGTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
76 17 0.24
77 18 0.25
78 34 0.47
79 3 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (76 bp):
AAATATATAATTTATTAATATATTACAAAATTATATAAAATATAATTAATATTAATATATAATAT
TAATCATAATA
Found at i:44657 original size:14 final size:13
Alignment explanation
Indices: 44633--44664 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
44623 ACTAATAAAA
44633 TATTTATATTAAT
1 TATTTATATTAAT
44646 TATTTAATATTAAT
1 TATTT-ATATTAAT
44660 TATTT
1 TATTT
44665 TGAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTATATTAAT
Found at i:44691 original size:19 final size:19
Alignment explanation
Indices: 44642--44692 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
44632 ATATTTATAT
*
44642 TAATTATTTAATATTAATTA
1 TAATTA-TTAATATTAACTA
* *
44662 T-TTTGAATAATATTAACTA
1 TAATT-ATTAATATTAACTA
44681 TAATTATTAATA
1 TAATTATTAATA
44693 AAAAAATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TAATTATTAATATTAACTA
Found at i:45834 original size:12 final size:12
Alignment explanation
Indices: 45779--45839 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
45769 TAATAAGGTA
45779 AATATTTATAATT
1 AATATTT-TAATT
*
45792 AATATTTAAATT
1 AATATTTTAATT
* *
45804 ATAAATATTAA-T
1 A-ATATTTTAATT
*
45816 AATTATTTTAATG
1 AA-TATTTTAATT
45829 AATATTTTAAT
1 AATATTTTAAT
45840 ATTTCGAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
11 1 0.03
12 22 0.58
13 15 0.39
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
AATATTTTAATT
Found at i:46231 original size:25 final size:25
Alignment explanation
Indices: 46177--46232 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
46167 TATTACTATT
* *
46177 TAAAATCG-TAATTAAGTATCATAA
1 TAAAATTGTTAATTAAATATCATAA
46201 TAAAATTGTTAATTAAAATATCA-AA
1 TAAAATTGTTAATT-AAATATCATAA
*
46226 TTAAATT
1 TAAAATT
46233 TATTTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.26
25 13 0.48
26 7 0.26
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (25 bp):
TAAAATTGTTAATTAAATATCATAA
Found at i:46582 original size:17 final size:18
Alignment explanation
Indices: 46551--46587 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
46541 CAATATAATT
*
46551 ATTAATATAACTAACACA
1 ATTAATATAAATAACACA
46569 ATTAA-ATAAATAACACA
1 ATTAATATAAATAACACA
46586 AT
1 AT
46588 AGTATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (18 bp):
ATTAATATAAATAACACA
Found at i:46853 original size:18 final size:18
Alignment explanation
Indices: 46830--46864 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46820 GTCCAATTAA
46830 ATTATATAATAAATAATT
1 ATTATATAATAAATAATT
*
46848 ATTATATAATATATAAT
1 ATTATATAATAAATAAT
46865 ATACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATATAATAAATAATT
Found at i:46865 original size:25 final size:25
Alignment explanation
Indices: 46832--46897 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
46822 CCAATTAAAT
*
46832 TATATAATAAATAATTATTATATA-A
1 TATATAATAAATAATTATAAT-TACA
* *
46857 TATATAATATACAATTATAATTACA
1 TATATAATAAATAATTATAATTACA
*
46882 TATTATAATAATTAAT
1 TA-TATAATAAATAAT
46898 ATGATTCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 2 0.06
25 21 0.64
26 10 0.30
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (25 bp):
TATATAATAAATAATTATAATTACA
Found at i:46877 original size:13 final size:14
Alignment explanation
Indices: 46845--46891 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
46835 ATAATAAATA
*
46845 ATTATTATATA-AT
1 ATTATAATATACAT
46858 A-TATAATATACA-
1 ATTATAATATACAT
46870 ATTATAAT-TACAT
1 ATTATAATATACAT
46883 ATTATAATA
1 ATTATAATA
46892 ATTAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATAATATACAT
Found at i:46922 original size:14 final size:15
Alignment explanation
Indices: 46830--46946 Score: 59
Period size: 14 Copynumber: 7.5 Consensus size: 15
46820 GTCCAATTAA
46830 ATTATATAATAAATAATT
1 ATTAT-TAAT-AATAA-T
46848 ATTATATAATATATAAT
1 ATTAT-TAATA-ATAAT
*
46865 ATACAATT-ATAATTACAT
1 AT--TATTAATAA-TA-AT
46883 ATTA-TAATAATTAAT
1 ATTATTAATAA-TAAT
* *
46898 ATGATTCATAA-AAT
1 ATTATTAATAATAAT
46912 ATTATTAATAAT-AT
1 ATTATTAATAATAAT
46926 -TTAATT-ATAATAAT
1 ATT-ATTAATAATAAT
46940 -TTATTAA
1 ATTATTAA
46947 ATTATTACAT
Statistics
Matches: 82, Mismatches: 6, Indels: 26
0.72 0.05 0.23
Matches are distributed among these distances:
13 10 0.12
14 22 0.27
15 6 0.07
16 14 0.17
17 9 0.11
18 19 0.23
19 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (15 bp):
ATTATTAATAATAAT
Found at i:47005 original size:18 final size:19
Alignment explanation
Indices: 46982--47017 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46972 ATTTATTATA
46982 ATAAATAGTAA-TAATATT
1 ATAAATAGTAACTAATATT
*
47000 ATAAATATTAACTAATAT
1 ATAAATAGTAACTAATAT
47018 ATGACTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAAATAGTAACTAATATT
Found at i:47062 original size:18 final size:18
Alignment explanation
Indices: 46914--47064 Score: 53
Period size: 18 Copynumber: 8.1 Consensus size: 18
46904 CATAAAATAT
*
46914 TATTAATAATATTTAATTA
1 TATTAAT-ATATTAAATTA
* *
46933 TAATAATTTATTAAATTA
1 TATTAATATATTAAATTA
* *
46951 TTACATGATACTATATAAATTA
1 -TA-TTAATA-TAT-TAAATTA
* *
46973 T-TTATTATAATAAA-TA
1 TATTAATATATTAAATTA
* *
46989 GTAATAATATTATAAATATTA
1 -TATTAATA-TATTAA-ATTA
* * *
47010 -ACTAATATATGACTATTA
1 TATTAATATATTA-AATTA
47028 GT-TTAA-A-ATTGAAATTA
1 -TATTAATATATT-AAATTA
47045 TATTAATATATTAAATTA
1 TATTAATATATTAAATTA
47063 TA
1 TA
47065 ATAGCCAAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 33
0.65 0.13 0.22
Matches are distributed among these distances:
16 3 0.03
17 15 0.15
18 34 0.35
19 27 0.28
20 5 0.05
21 6 0.06
22 7 0.07
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TATTAATATATTAAATTA
Found at i:47440 original size:5 final size:5
Alignment explanation
Indices: 47430--47461 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
47420 AATAAATGGT
47430 TATTA TATTA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT
47462 AATAATTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:47541 original size:13 final size:14
Alignment explanation
Indices: 47511--47543 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
47501 GAAATATTAT
47511 TAATATTATCTAATA
1 TAAT-TTATCTAATA
47526 TAATTTATCT-ATA
1 TAATTTATCTAATA
47539 TAATT
1 TAATT
47544 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 6 0.33
15 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTTATCTAATA
Found at i:47676 original size:15 final size:16
Alignment explanation
Indices: 47649--47678 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47639 CAATTATATT
47649 AATATTAATATAATTA
1 AATATTAATATAATTA
47665 AATATTAA-ATAATT
1 AATATTAATATAATT
47679 CATTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATTAATATAATTA
Found at i:48598 original size:143 final size:143
Alignment explanation
Indices: 48329--48619 Score: 354
Period size: 143 Copynumber: 2.0 Consensus size: 143
48319 AAAACATTTG
* * ** * *
48329 TTTTACGACAAAACAAAATGTCATAACGATTTGAAATAAATAATTATTCATATAGCCTTAACTAT
1 TTTTACAACAAAACAAAAGGTCATAACGATTAAAAATAAATAATGATTCAAATAGCCTTAACTAT
* * * *
48394 TTGAATTGGTTAGGTAAACAAATTTATTTTTTAAATTTATCAGTTATTAAATTTCATAATATTAC
66 TTGAATTGATTAGATAAACAAATTTATTTTTTAAATTCATCACTTATTAAATTTCATAATATTAC
*
48459 TAGATTAGTATTA
131 TAAATTAGTATTA
* * * *
48472 TTTTACAACAAAACAAAAGGTTATAACGATTAAAAATATATAATGGTTCAAATAG-TTATAACTA
1 TTTTACAACAAAACAAAAGGTCATAACGATTAAAAATAAATAATGATTCAAATAGCCT-TAACTA
* * * *
48536 TTTGAATTGATTCGATAAACAGATTTATTTTTTAAATCTCCT-ACTTATTAATTTTTCA-AATAT
65 TTTGAATTGATTAGATAAACAAATTTATTTTTTAAAT-TCATCACTTATTAA-ATTTCATAATAT
*
48599 TAGTAAATTAGTATTA
128 TACTAAATTAGTATTA
48615 TTTTA
1 TTTTA
48620 TTTTGAATAG
Statistics
Matches: 125, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
142 1 0.01
143 117 0.94
144 7 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (143 bp):
TTTTACAACAAAACAAAAGGTCATAACGATTAAAAATAAATAATGATTCAAATAGCCTTAACTAT
TTGAATTGATTAGATAAACAAATTTATTTTTTAAATTCATCACTTATTAAATTTCATAATATTAC
TAAATTAGTATTA
Found at i:48797 original size:181 final size:177
Alignment explanation
Indices: 48479--49348 Score: 590
Period size: 181 Copynumber: 4.8 Consensus size: 177
48469 TTATTTTACA
* ** * * * * *
48479 ACAAAACAAAAGGTTATAACGATTAAAAATATATAATGGTTCAAATAGTTATAACTATTTGAATT
1 ACAAAACAAAAGGTCATAACGATTTTAAATAGATAATTGTTCAAATAGTAATAAATATTTGAACT
* *
48544 GATTCGATAAACAGATTTATTTTTTAAATCTCCTACTTATTAATTTTTCA-AATATTAGTAAATT
66 GATTCGATAAACTGATTTA-TTTTTAAATCT-CTACTTA-TAATTTTT-ATAATATTAATAAATT
* *
48608 AGTATTATTTTATTTTGAATAGGCTTGTATGATGAAAAAAAATTGCTTTATG
127 AGTATTATTTTATTTTGAATAGGCTTGTATGATG-AAAACAATTGTTTTATG
* * * * ** *
48660 ACAAAACAAAAGTTCATAATGATTTTAAATAGATAATTGTTTAAATGGCCATAATTATTTGAACT
1 ACAAAACAAAAGGTCATAACGATTTTAAATAGATAATTGTTCAAATAGTAATAAATATTTGAACT
* *
48725 GATTCGATAAACTGGTTTATGTTTTAAATCTCTAACTTATCAATTTTTATAATATTAATAAAGTA
66 GATTCGATAAACTGATTTAT-TTTTAAATCTCT-ACTTAT-AATTTTTATAATATTAATAAATTA
* * *
48790 ATATTATTTTA-TTTCAGAT-GAGCTTTTATGAACTG-AAACAATTGTTTTATG
128 GTATTATTTTATTTTGA-ATAG-GCTTGTATG-A-TGAAAACAATTGTTTTATG
* * * *
48841 ATAAAATATAAGGTCATAACGATTTTAAATAGATAATTGTTCAAATAGTAAAAAATATTTGAACT
1 ACAAAACAAAAGGTCATAACGATTTTAAATAGATAATTGTTCAAATAGTAATAAATATTTGAACT
* * * *
48906 -TTTCGGTAAA-TAGATTT-TTTTTCTAATTTCTTACTTAATAATTTTT-TGAATATTAATAAAT
66 GATTCGATAAACT-GATTTATTTTT-AAATCTC-TACTT-ATAATTTTTAT-AATATTAATAAAT
* * * * *
48967 TAGTATTATTTTATTTCGAATAAG-TATGTATGAGTTAAAGCAATTATTTTATG
126 TAGTATTATTTTATTTTGAATAGGCT-TGTATGA-TGAAAACAATTGTTTTATG
* * * * * ** *
49020 ACTAAACAAAAGGTCAAAAATGATTTGAAATAGATAATTGTTCTAATAGTCTTAACTATTTGAAC
1 ACAAAACAAAAGGTC-ATAACGATTTTAAATAGATAATTGTTCAAATAGTAATAAATATTTGAAC
* * ** * * * *
49085 TAATTC-AGCAAACACATTTATTTTTTAAATC-CTTACTTATTAATGTTTAGAATATTATTAATT
65 TGATTCGA-TAAACTGATTTA-TTTTTAAATCTC-TACTTA-TAATTTTTATAATATTAATAAAT
* * *** * * ** * *
49148 TAGCAATATTTTACACTAAATAAGCTTGT-TGAATAGAAATTAAATGTTTTAGG
126 TAGTATTATTTTATTTTGAATAGGCTTGTATG-AT-GAAAACAATTGTTTTATG
* * ** * * *
49201 ACAAAACAAAA-ATCATAACAATTGGAGATAGATAATTGTTCCAAAAGATAGTCCATAACTATTT
1 ACAAAACAAAAGGTCATAACGATTTTAAATAGATAATTGTT-C--AA-ATAGT-AATAAATATTT
* * * * * * *
49265 GAATTGGTT-GGTAAA--GATATTAGTTTTTAAATCTCT--TAATTAATTTTCAAAATAGTAATA
61 GAACTGATTCGATAAACTGAT-TTA-TTTTTAAATCTCTACTTA-TAATTTTTATAATATTAATA
*
49325 AA-TAGTATTATTTTATTCTGAATA
123 AATTAGTATTATTTTATTTTGAATA
49349 TTTTGTATGA
Statistics
Matches: 541, Mismatches: 112, Indels: 74
0.74 0.15 0.10
Matches are distributed among these distances:
178 8 0.01
179 113 0.21
180 96 0.18
181 272 0.50
182 20 0.04
183 16 0.03
184 16 0.03
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (177 bp):
ACAAAACAAAAGGTCATAACGATTTTAAATAGATAATTGTTCAAATAGTAATAAATATTTGAACT
GATTCGATAAACTGATTTATTTTTAAATCTCTACTTATAATTTTTATAATATTAATAAATTAGTA
TTATTTTATTTTGAATAGGCTTGTATGATGAAAACAATTGTTTTATG
Found at i:48797 original size:324 final size:320
Alignment explanation
Indices: 48197--48800 Score: 701
Period size: 324 Copynumber: 1.9 Consensus size: 320
48187 ATAAATAAAT
* * *
48197 GTTCAAATTGTTATAACTAATTGAACTAGTATGGTAAATAGATTTATTTATTAAATCTTTTATTA
1 GTTCAAATAGTTATAACTAATTGAACTAGTATGATAAACAGATTTATTTATTAAATCTTTTATTA
* * *
48262 ATTTTTGAAATATTAATAAATTAATATTATTTTATTTTGAACAAACTTATATGAACAAAAACATT
66 ATTTTTCAAATATTAATAAATTAATATTATTTTATTTTGAACAAACTTATATGAACAAAAAAAAT
* * *
48327 TGTTTTACGACAAAACAAAATGTCATAACGATTTGAAATAAATAATTATTCATATAGCCTTAACT
131 TGCTTTACGACAAAACAAAATGTCATAACGATTTGAAATAAATAATTATTCAAATAGCCATAACT
* * * * * * * *
48392 ATTTGAATTGGTTAGGTAAACAAATTTATTTTTTAAATTTATCAGTTATTAAATTTCATAATATT
196 ATTTGAACTGATTAGATAAACAAATTTATGTTTTAAATCTATAACTTATCAAATTTCATAATATT
* * * *
48457 ACTAGATTAGTATTATTTTACAACAAAACAAAAGGTTATAACGATTAAAAATATATAATG
261 AATAAAGTAATATTATTTTACAACAAAACAAAAGGTTATAACGATTAAAAATATATAATG
* * *
48517 GTTCAAATAGTTATAACTATTTGAA-TTG-ATTCGATAAACAGATTTATTTTTTAAATCTCCTAC
1 GTTCAAATAGTTATAACTAATTGAACTAGTA-T-GATAAACAGATTTATTTATTAAATCT--T--
* * * ** * **
48580 TTATTAATTTTTCAAATATTAGTAAATTAGTATTATTTTATTTTGAATAGGCTTGTATGATGAAA
60 TTATTAATTTTTCAAATATTAATAAATTAATATTATTTTATTTTGAACAAACTTATATGAACAAA
* * * * * * *
48645 AAAAATTGCTTTATGACAAAACAAAA-GTTCATAATGATTTTAAATAGATAATTGTTTAAATGGC
125 AAAAATTGCTTTACGACAAAACAAAATG-TCATAACGATTTGAAATAAATAATTATTCAAATAGC
* * *** * * *
48709 CATAATTATTTGAACTGATTCGATAAACTGGTTTATGTTTTAAATCTCTAACTTATCAATTTTTA
189 CATAACTATTTGAACTGATTAGATAAACAAATTTATGTTTTAAATCTATAACTTATCAAATTTCA
48774 TAATATTAATAAAGTAATATTATTTTA
254 TAATATTAATAAAGTAATATTATTTTA
48801 TTTCAGATGA
Statistics
Matches: 230, Mismatches: 47, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
318 1 0.00
319 3 0.01
320 46 0.20
322 1 0.00
323 1 0.00
324 178 0.77
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (320 bp):
GTTCAAATAGTTATAACTAATTGAACTAGTATGATAAACAGATTTATTTATTAAATCTTTTATTA
ATTTTTCAAATATTAATAAATTAATATTATTTTATTTTGAACAAACTTATATGAACAAAAAAAAT
TGCTTTACGACAAAACAAAATGTCATAACGATTTGAAATAAATAATTATTCAAATAGCCATAACT
ATTTGAACTGATTAGATAAACAAATTTATGTTTTAAATCTATAACTTATCAAATTTCATAATATT
AATAAAGTAATATTATTTTACAACAAAACAAAAGGTTATAACGATTAAAAATATATAATG
Found at i:49160 original size:360 final size:361
Alignment explanation
Indices: 48488--49160 Score: 795
Period size: 360 Copynumber: 1.9 Consensus size: 361
48478 AACAAAACAA
* * * * *
48488 AAGGTTATAACGATTAAAAATATATAATGGTTCAAATAGTTATAACTATTTGAATTGATTCGATA
1 AAGGTCATAACGATTAAAAATAGATAATGGTTCAAATAGTAAAAAATATTTGAATT-ATTCGATA
* *
48553 AACAGATTTATTTTTTAAATCTCCTACTTATTAATTTTTCAAATATTAGTAAATTAGTATTATTT
65 AACAGATTTATTTTTTAAATCTCCTACTTAATAATTTTTCAAATATTAATAAATTAGTATTATTT
* * * * *
48618 TATTTTGAATAGGCTTGTATGATGAAAAAAAATTGCTTTATGACAAAACAAAAGTTCATAATGAT
130 TATTTCGAATAAGCTTGTATGATGAAAAAAAATTACTTTATGACAAAACAAAAGGTCAAAATGAT
* * * * * ***
48683 TTTAAATAGATAATTGTTTAAATGGCCATAATTATTTGAACTGATTCGATAAACTGGTTTATGTT
195 TTGAAATAGATAATTGTTTAAATAGCCATAACTATTTGAACTAATTCGACAAACACATTTATGTT
* * * *
48748 TTAAATCTCTAACTTATCAATTTTTATAATATTAATAAAGTAATATTATTTTATTTCAGATGAGC
260 TTAAATCTCTAACTTATCAATGTTTAGAATATTAATAAAGTAACAATATTTTATTTCAGATGAGC
48813 TTTTATGAACTGAAACAATTGTTTTATGATAAAATAT
325 TTTTATGAACTGAAACAATTGTTTTATGATAAAATAT
** * *
48850 AAGGTCATAACGATTTTAAATAGATAATTGTTCAAATAGTAAAAAATATTTGAACTT-TTCGGTA
1 AAGGTCATAACGATTAAAAATAGATAATGGTTCAAATAGTAAAAAATATTTGAA-TTATTCGATA
* * * **
48914 AATAGATTT-TTTTTCT-AATTTCTTACTTAATAATTTTTTGAATATTAATAAATTAGTATTATT
65 AACAGATTTATTTTT-TAAATCTCCTACTTAATAATTTTTCAAATATTAATAAATTAGTATTATT
* ** * *
48977 TTATTTCGAATAAG-TATGTATGA-GTTAAAGCAATTATTTTATGACTAAACAAAAGGTCAAAAA
129 TTATTTCGAATAAGCT-TGTATGATG-AAAAAAAATTACTTTATGACAAAACAAAAGGTC-AAAA
* *
49040 TGATTTGAAATAGATAATTGTTCT-AATAGTCTTAACTATTTGAACTAATTC-AGCAAACACATT
191 TGATTTGAAATAGATAATTGTT-TAAATAGCCATAACTATTTGAACTAATTCGA-CAAACACATT
* * * * ** *
49103 TATTTTTTAAATC-CTTACTTATTAATGTTTAGAATATTATTAATTTAGCAATATTTTA
254 TATGTTTTAAATCTCTAACTTATCAATGTTTAGAATATTAATAAAGTAACAATATTTTA
49161 CACTAAATAA
Statistics
Matches: 257, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
359 2 0.01
360 127 0.49
361 79 0.31
362 47 0.18
363 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.43
Consensus pattern (361 bp):
AAGGTCATAACGATTAAAAATAGATAATGGTTCAAATAGTAAAAAATATTTGAATTATTCGATAA
ACAGATTTATTTTTTAAATCTCCTACTTAATAATTTTTCAAATATTAATAAATTAGTATTATTTT
ATTTCGAATAAGCTTGTATGATGAAAAAAAATTACTTTATGACAAAACAAAAGGTCAAAATGATT
TGAAATAGATAATTGTTTAAATAGCCATAACTATTTGAACTAATTCGACAAACACATTTATGTTT
TAAATCTCTAACTTATCAATGTTTAGAATATTAATAAAGTAACAATATTTTATTTCAGATGAGCT
TTTATGAACTGAAACAATTGTTTTATGATAAAATAT
Found at i:49977 original size:182 final size:180
Alignment explanation
Indices: 49393--50630 Score: 906
Period size: 180 Copynumber: 7.0 Consensus size: 180
49383 ATTAAATTTT
*
49393 AATA-ATTTA-TTTTTAAA-CTTTTTACTTTATTAATT-TTTGGAATCATTAAT-AATTA-T-TT
1 AATAGATTTATTTTTTAAATC-TTTTA-ATTATTAATTGTTT--AAT-ATTAATAAATTAGTATT
* * * * *
49451 ATTTTATTTGAAATAAGCTTGA-ATG-ATAGAACCAATTGTTTTATAACAAAACAAAAGGTTGTA
61 ATTTTATTTCAAATAAGCTT-ATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTTATA
* * *
49514 ATGTTTTGAAAATAGATAATTATT-AAGATAGTC-T-ACTATTTGAATTTGTTCGATA
125 ATGATTTG-AAATAAATAATTATTCAA-ATAGTCATAACTATTTGAACTTGTTCGATA
* * * * *
49569 AATAAATTT-TTTTTTAATTCTCTTACTTTTTAATT-TTTGGAATATTAATAAATTAGTATTATT
1 AATAGATTTATTTTTTAAATCTTTTAATTATTAATTGTTT--AATATTAATAAATTAGTATTATT
* * ** * * *
49632 TTATTTCAAATAAGCTAACATGAATTG-AACAATTGTTTTATTACAAAACAAAATGTTACAATGA
64 TTATTTCAAATAAGCTTATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTTATAATGA
* * * * * *
49696 TTTGAAGTAGATAATTATTCAAATAGTTATGACTATTTGAACTTGTTTGGTA
129 TTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGATA
* * * * * *
49748 AACT-TA-TT-TTTTTAAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATCAATATTATT
1 AA-TAGATTTATTTTTTAAATCTTTTAATTATTAATTGTT-TAATATTAATAAATTAGTATTATT
* * ** * *
49810 TTAATAT-GAATAAGCTCGTATGGACAGAAACAATTGTTTTATGACAAAACAAAAAAGTTATAA-
64 TT-ATTTCAAATAAGCTTATATGAACAGAAACAATTGTTTTATGACAAAAC-AAAAGGTTATAAT
* * * *
49873 GAATTTGAAATAAATAATTATTTAGATAGTCATAACGATTTGAATTTGTTCGATA
127 G-ATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGATA
49928 AATAGATTTATTTTTTAAATCTTTTAATTATTAATTGTCTTAATATTAATAAATTTA-TATTATT
1 AATAGATTTATTTTTTAAATCTTTTAATTATTAATTGT-TTAATATTAATAAA-TTAGTATTATT
* * ** * * *
49992 TTA-TTCGAAGTAAGCTTATATGAACA-AATAAAATCATTATATGACAAACCAAAAGGTTAT-AG
64 TTATTTC-AAATAAGCTTATATGAACAGAA-ACAATTGTTTTATGACAAAACAAAAGGTTATAAT
** * * ** * * * * *
50054 GATTCCAAATCAATAATTGTTTTAATTGCCATAATTATTTAAACTTGTTCGGTA
127 GATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGATA
* * *
50108 AATAGATTCATTTTTTAAATCTCTTAATTATTAATT-TTTAGAATATTAATAAGA-TGGTATTAT
1 AATAGATTTATTTTTTAAATCTTTTAATTATTAATTGTTT--AATATTAATAA-ATTAGTATTAT
* * * * * *
50171 TTTATTTCCAATAACCTTATATGAACTGAAATAAGTTTTTTTTATGACAAAACAAAAGGTCATAA
63 TTTATTTCAAATAAGCTTATATGAACAGAAACAA--TTGTTTTATGACAAAACAAAAGGTTATAA
* * * * * *
50236 CGATTTGAAATAGATAACTATTCAAATAGTCATGAC----TG-TCTAG---G-T-
126 TGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGATA
* *** **
50281 AATCATATTTATTTCAAAAAT-TTTTAACTTATTAATTGTCAAAATATTAATAAATTAGTATTAT
1 AAT-AGATTTATTTTTTAAATCTTTTAA-TTATTAATTGT-TTAATATTAATAAATTAGTATTAT
* * * * * * * * *
50345 TTTAATCCAAATAAGCTTGTATGAATAGAAACAATTGTTTTATAACAGAACAAAATGTCATAAAG
63 TTTATTTCAAATAAGCTTATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTTATAATG
* ** *
50410 ATTTGAAATAAATAATTACTCAAATAGTCATAACTATTTGAACAAGTTTGATA
128 ATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGATA
* * * *
50463 AATAGATTTATTTTTTAAATC----ACTTTTTAATT-TTTGAAATATTAATAGATTAGTATTACT
1 AATAGATTTATTTTTTAAATCTTTTAATTATTAATTGTTT--AATATTAATAAATTAGTATTATT
* * * * * *
50523 TTATTCCTAATAAACTTATATGAACA-AAACCATTAGTTTTATGACAAAACAAAAAGTAATAATG
64 TTATTTCAAATAAGCTTATATGAACAGAAACAATT-GTTTTATGACAAAACAAAAGGTTATAATG
* ** * * *
50587 GTTTGAAATATGTAATTGTTCAAATAGTCATAATTATTTAAACT
128 ATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACT
50631 GATTATGTAA
Statistics
Matches: 844, Mismatches: 163, Indels: 109
0.76 0.15 0.10
Matches are distributed among these distances:
172 56 0.07
173 9 0.01
174 67 0.08
175 8 0.01
176 35 0.04
177 149 0.18
178 128 0.15
179 55 0.07
180 173 0.20
181 35 0.04
182 102 0.12
183 27 0.03
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (180 bp):
AATAGATTTATTTTTTAAATCTTTTAATTATTAATTGTTTAATATTAATAAATTAGTATTATTTT
ATTTCAAATAAGCTTATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTTATAATGATT
TGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGATA
Found at i:50932 original size:19 final size:20
Alignment explanation
Indices: 50880--50932 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
50870 ATATTAATTA
*
50880 TATTAATATTAATATAATATT
1 TATTAATATT-ATATAATAAT
50901 TATTGAATA--ATATAATAAT
1 TATT-AATATTATATAATAAT
50920 TATT-ATATTATAT
1 TATTAATATTATAT
50933 TTTATTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 3 0.11
19 17 0.61
21 4 0.14
22 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TATTAATATTATATAATAAT
Found at i:51998 original size:181 final size:179
Alignment explanation
Indices: 51291--52206 Score: 653
Period size: 181 Copynumber: 5.2 Consensus size: 179
51281 TATTAACATA
* * * * *
51291 ACAAAACAAAAA-TCATAA-CATGTTGAAATAAATAATTGCTCAAATAGCCATAA-TGATTAGAA
1 ACAAAACAAAAAGTCATAATGAT-TTGAAATAGATAATTGTTCAAATAGTCATAACT-ATTTGAA
* * * * ** * * *** *
51353 CTTGTTTGGTAAACAAATTTATTTTTAAAATTTTTTACTTACTAATTGTCAAAATATTAATAAAT
64 CTGGTTTGATAAATAAATTTATTTTTTAAA-TCCTTACTTATTAATTTTTGGAATATT-ATAGAT
* * *** * * * **
51418 TAGCATTATTTTAATGCAAATAAGCTTGTATGAATAGAAACAATTGTTTTACA
127 TAGTATTATTTTATTTTGAATAAGCTTGTATGAACAAAAATAATTGTTTTATG
* *
51471 ACAAAACAAAAAGTCATAATGATTTGAAATAAATAATTGCTCAAATAGTCATAACTATTTGAACT
1 ACAAAACAAAAAGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT
* * * * * *
51536 AGTTTGATACATAGATTTATTGTCTAAAT-C--ACTTATTAA-TTTTGAAATATTAGTAGATTAG
66 GGTTTGATAAATAAATTTATTTTTTAAATCCTTACTTATTAATTTTTGGAATATTA-TAGATTAG
* * * * * *
51597 TATTACTTTATTCCT-AATAAACTTATATGAAC-AACAT--TTGTTGTATG
130 TATTATTTTATT-TTGAATAAGCTTGTATGAACAAAAATAATTGTTTTATG
* * * *
51644 ACAAAACAAAAAATAATAATGATTTGAAAT-GTATAATTGTTCAAATAGT-ATAATTTTTTGAAC
1 ACAAAACAAAAAGTCATAATGATTTGAAATAG-ATAATTGTTCAAATAGTCATAACTATTTGAAC
* * *
51707 TGGTTAGATAAACAGAA-TTATTTTTTAAATCTCTTACTTATTACTTTTT-GAA-A-TA-A-ATT
65 TGGTTTGATAAATA-AATTTATTTTTTAAATC-CTTACTTATTAATTTTTGGAATATTATAGATT
* * * * ** * *
51766 CA-TTTTATTTTATTTCGAATAAGCTAGCATGAATTGAGAA-AATTATTTTATG
128 -AGTATTATTTTATTTTGAATAAGCTTGTATGAA-CAAAAATAATTGTTTTATG
* * * * * *
51818 ACAAGACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCATATAGTCTTAACTATTTGAATT
1 ACAAAACAAAAAGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT
** *
51883 GGTTTGGCAAATAAATTTATTTTTTAAATCCCTTAGTTATTAATTTTTGGAATATTATTAGATTA
66 GGTTTGATAAATAAATTTATTTTTTAAAT-CCTTACTTATTAATTTTTGGAATATTA-TAGATTA
*
51948 GTATTGTTTTATTTTGAATAAGCTTGTATGAACAAAAATAATTGTTTTATG
129 GTATTATTTTATTTTGAATAAGCTTGTATGAACAAAAATAATTGTTTTATG
* * * * * *
51999 ACATAACAAAAGGTTATAATGATTTGAAGTATAGAATTGTTCAAATAGTCATAACTATTTGAACT
1 ACAAAACAAAAAGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT
** * * * * * * * * *
52064 -AATTCAGTAAACATATTCATATTTTAAAT--AT-CTTATTAATTTTTGAAAGATTAATAAATTA
66 GGTTTGA-TAAATAAATTTATTTTTTAAATCCTTACTTATTAATTTTTGGAATATT-ATAGATTA
* ** * * * *
52125 TTATTATTTTATTTCAAATAATCATGTATGATA-AAAAACAATTGTTATATG
129 GTATTATTTTATTTTGAATAAGCTTGTATGA-ACAAAAATAATTGTTTTATG
* * *
52176 ACCAAAC-AAAAGATGATAACGATTTGAAATA
1 ACAAAACAAAAAG-TCATAATGATTTGAAATA
52207 ATATTTTATT
Statistics
Matches: 580, Mismatches: 122, Indels: 71
0.75 0.16 0.09
Matches are distributed among these distances:
171 25 0.04
172 35 0.06
173 54 0.09
174 54 0.09
175 53 0.09
176 57 0.10
177 98 0.17
178 5 0.01
180 20 0.03
181 176 0.30
182 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (179 bp):
ACAAAACAAAAAGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT
GGTTTGATAAATAAATTTATTTTTTAAATCCTTACTTATTAATTTTTGGAATATTATAGATTAGT
ATTATTTTATTTTGAATAAGCTTGTATGAACAAAAATAATTGTTTTATG
Found at i:52425 original size:17 final size:16
Alignment explanation
Indices: 52405--52448 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
52395 AATAATTTAA
52405 ATTACTTATTAATAATT
1 ATTA-TTATTAATAATT
52422 ATTATATATTAATAATT
1 ATTAT-TATTAATAATT
*
52439 TTTAATTATT
1 ATT-ATTATT
52449 TTTTTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.88
18 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTATTAATAATT
Found at i:52782 original size:21 final size:21
Alignment explanation
Indices: 52739--52783 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
52729 ATATTGATTA
* * *
52739 TTAAATTAAATAGAATAATAT
1 TTAAAATAAATACAATAAGAT
*
52760 TTAAAATAAATACAATTAGAT
1 TTAAAATAAATACAATAAGAT
52781 TTA
1 TTA
52784 TAACTAAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
TTAAAATAAATACAATAAGAT
Found at i:54064 original size:51 final size:48
Alignment explanation
Indices: 54009--54148 Score: 129
Period size: 51 Copynumber: 2.7 Consensus size: 48
53999 TTTTGTTTAT
54009 ATAAATAATTTATTAATAATTAATATAAATATTTATAATCAAATATTAATA
1 ATAAATAATTTATT-ATAATTAATATAAATATTTA-AAT-AAATATTAATA
* * *
54060 ATAAATATATTT-TTATAACTAATATAACTTATATTTAAATAAGTATTATTA
1 ATAAATA-ATTTATTATAATTAATATAA---ATATTTAAATAAATATTAATA
* * *
54111 ATTAATTATTAATATTATAATTAATATTAATTATTTAA
1 ATAAATAATT--TATTATAATTAATA-TAAATATTTAA
54149 TAGTATATAA
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
50 15 0.20
51 30 0.41
52 8 0.11
53 18 0.24
54 3 0.04
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (48 bp):
ATAAATAATTTATTATAATTAATATAAATATTTAAATAAATATTAATA
Found at i:54067 original size:13 final size:13
Alignment explanation
Indices: 54027--54067 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
54017 TTTATTAATA
54027 ATTAAT-ATAAAT
1 ATTAATAATAAAT
*
54039 ATTTATAATCAAAT
1 ATTAATAAT-AAAT
54053 ATTAATAATAAAT
1 ATTAATAATAAAT
54066 AT
1 AT
54068 ATTTTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 5 0.20
13 8 0.32
14 12 0.48
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTAATAATAAAT
Found at i:54168 original size:32 final size:29
Alignment explanation
Indices: 54097--54172 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
54087 CTTATATTTA
* *
54097 AATAAGTATTATTAATTAATTATTAATAT
1 AATAAGTAATATTAATTAATTAATAATAT
* * *
54126 TATAATTAATATTAATTATTTAATAGTATAT
1 AATAAGTAATATTAATTAATTAATA--ATAT
54157 AATTAAGTAATATTAA
1 AA-TAAGTAATATTAA
54173 AATTGTTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 20 0.54
31 5 0.14
32 12 0.32
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
AATAAGTAATATTAATTAATTAATAATAT
Found at i:54387 original size:26 final size:28
Alignment explanation
Indices: 54338--54389 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
54328 TTTAAAATTT
**
54338 AAATATTATATATATTATCTATTATTAC
1 AAATATTATATATATTATAAATTATTAC
54366 AAATA-TATA-ATATTATAAATTATT
1 AAATATTATATATATTATAAATTATT
54390 GCTATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 4 0.18
28 5 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (28 bp):
AAATATTATATATATTATAAATTATTAC
Found at i:54469 original size:11 final size:11
Alignment explanation
Indices: 54453--54482 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
54443 TAGGTATCTA
54453 ATATAATTACG
1 ATATAATTACG
*
54464 ATATAATTATG
1 ATATAATTACG
54475 ATATAATT
1 ATATAATT
54483 GTGTAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (11 bp):
ATATAATTACG
Found at i:54871 original size:10 final size:10
Alignment explanation
Indices: 54809--54873 Score: 53
Period size: 10 Copynumber: 6.1 Consensus size: 10
54799 CTCATCTTAT
*
54809 AATATTAACA
1 AATATTAATA
54819 AATATTATATA
1 AATATTA-ATA
54830 AAT-TT-ATA
1 AATATTAATA
54838 ATATATTCAATTA
1 A-ATATT-AA-TA
54851 AATTAATTAATA
1 AA-T-ATTAATA
54863 AATATTAATA
1 AATATTAATA
54873 A
1 A
54874 TCTTATAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
8 4 0.09
9 2 0.04
10 19 0.41
11 6 0.13
12 6 0.13
13 6 0.13
14 3 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATTAATA
Found at i:54933 original size:24 final size:23
Alignment explanation
Indices: 54834--54942 Score: 64
Period size: 25 Copynumber: 4.5 Consensus size: 23
54824 TATATAAATT
* *
54834 TATAATATATTCAATTAAATTAAT-
1 TATAA-ATATTTAATT-TATTAATA
54858 TAATAAATATTAATAATCTTA-TAATA
1 T-ATAAATATT--TAAT-TTATTAATA
* *
54884 TATAAATATTTTATTTATTATGTA
1 TATAAATATTTAATTTATTA-ATA
54908 TATAAAATAGTTTAATTT-TTAATA
1 TAT-AAATA-TTTAATTTATTAATA
54932 TA-AATATATTT
1 TATAA-ATATTT
54943 TATAATATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
22 8 0.12
23 8 0.12
24 15 0.22
25 25 0.36
26 12 0.17
27 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TATAAATATTTAATTTATTAATA
Found at i:54954 original size:17 final size:18
Alignment explanation
Indices: 54922--54967 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
54912 AAATAGTTTA
54922 ATTTTTAATATAAATA-T
1 ATTTTTAATATAAATATT
54939 ATTTTATAATAT-AATATT
1 ATTTT-TAATATAAATATT
54957 ATTTATTAATA
1 ATTT-TTAATA
54968 GTAAGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.35
18 16 0.62
19 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTTAATATAAATATT
Found at i:55132 original size:30 final size:31
Alignment explanation
Indices: 55056--55133 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 31
55046 ACTATTATTA
*
55056 AATATT-TAAATAATATTTGTTATTAATTAAT
1 AATATTATAAAT-ATATTTGATATTAATTAAT
*
55087 AATATTATAATTATATTT-ATATT-ATTAAT
1 AATATTATAAATATATTTGATATTAATTAAT
55116 AAT-TATAGTAAATATATT
1 AATAT-TA-TAAATATATT
55134 ATTTGAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 1 0.02
29 11 0.27
30 13 0.32
31 12 0.29
32 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (31 bp):
AATATTATAAATATATTTGATATTAATTAAT
Found at i:55133 original size:21 final size:20
Alignment explanation
Indices: 55088--55134 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
55078 TTAATTAATA
**
55088 ATATT-ATAATTATATTTAT
1 ATATTAATAATTATATAAAT
55107 ATTATTAATAATTATAGTAAAT
1 A-TATTAATAATTATA-TAAAT
55129 ATATTA
1 ATATTA
55135 TTTGAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 14 0.61
22 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATTAATAATTATATAAAT
Found at i:55536 original size:13 final size:13
Alignment explanation
Indices: 55520--55544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55510 ATTAAATTAA
55520 TATTATATAATTT
1 TATTATATAATTT
55533 TATTATATAATT
1 TATTATATAATT
55545 AAATATATGA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATATAATTT
Found at i:55894 original size:25 final size:25
Alignment explanation
Indices: 55865--55921 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
55855 AGTTTATTTA
*
55865 AATAATTAA-ATAATTTAATTATAAT
1 AATAATTAATAT-ATTTAATGATAAT
* *
55890 TATAATTGATATATTTAATGATAAT
1 AATAATTAATATATTTAATGATAAT
55915 AATAATT
1 AATAATT
55922 GTTATTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
AATAATTAATATATTTAATGATAAT
Found at i:55922 original size:25 final size:23
Alignment explanation
Indices: 55877--55931 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 23
55867 TAATTAAATA
* *
55877 ATTTAATTATAATTATAATTGATAT
1 ATTTAATGATAATAATAATTG-T-T
55902 ATTTAATGATAATAATAATTGTT
1 ATTTAATGATAATAATAATTGTT
55925 ATTTAAT
1 ATTTAAT
55932 TATTTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 8 0.29
24 1 0.04
25 19 0.68
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (23 bp):
ATTTAATGATAATAATAATTGTT
Found at i:56208 original size:22 final size:25
Alignment explanation
Indices: 56092--56210 Score: 68
Period size: 25 Copynumber: 4.8 Consensus size: 25
56082 CTAAAAAACT
*
56092 TATA-ATTATAATAATATTATTAATA
1 TATATATTATAATAATA-TATTATTA
* * * *
56117 TAAAGACTATTAATAATAT-TTATAA
1 TATATATTA-TAATAATATATTATTA
* * * **
56142 TCATATATAACTAATTATAAACAATTA
1 T-ATATATTA-TAATAATATATTATTA
*
56169 TATATATTATAATTATATATTATTA
1 TATATATTATAATAATATATTATTA
56194 TA-AT-TTA-AATAATATAT
1 TATATATTATAATAATATAT
56211 ATAATTAAAA
Statistics
Matches: 71, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
22 9 0.13
23 3 0.04
24 2 0.03
25 23 0.32
26 22 0.31
27 12 0.17
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (25 bp):
TATATATTATAATAATATATTATTA
Found at i:56224 original size:17 final size:17
Alignment explanation
Indices: 56170--56224 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
56160 AAACAATTAT
*
56170 ATATATTATAATTATATA
1 ATATA-TATAATTAAATA
*
56188 TTAT-TATAATTTAAATA
1 ATATATATAA-TTAAATA
*
56205 ATATATATAATTAAAAA
1 ATATATATAATTAAATA
56222 ATA
1 ATA
56225 ATTTATTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 5 0.16
17 18 0.58
18 8 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATATAATTAAATA
Found at i:56332 original size:22 final size:20
Alignment explanation
Indices: 56307--56352 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
56297 TTATTTAAGT
*
56307 TTAATAATATTTTATTATTATA
1 TTAATAATAGTTTA-TATTA-A
*
56329 TTAATTATAGTTTATATTAA
1 TTAATAATAGTTTATATTAA
56349 TTAA
1 TTAA
56353 ACTTAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 5 0.23
22 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTAATAATAGTTTATATTAA
Found at i:57436 original size:18 final size:16
Alignment explanation
Indices: 57396--57469 Score: 53
Period size: 18 Copynumber: 4.4 Consensus size: 16
57386 AAATAATAAT
* *
57396 TTATTAATATAATATAA
1 TTATTTATATAA-ATTA
*
57413 TAATTTAATATAAATTA
1 TTATTT-ATATAAATTA
*
57430 GTTATTTGTATAATATTA
1 -TTATTTATATAA-ATTA
57448 TTAATTTATA-AAATTA
1 TT-ATTTATATAAATTA
57464 -TATTTA
1 TTATTTA
57470 ATAGATAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
14 5 0.11
15 1 0.02
16 4 0.09
17 16 0.34
18 21 0.45
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TTATTTATATAAATTA
Found at i:57805 original size:36 final size:36
Alignment explanation
Indices: 57749--57819 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
57739 TCATAGTCAT
*
57749 TTATTTATATAACAATTATATTAATA-ATAATATTAA
1 TTATTTATATAACAAGTATA-TAATATATAATATTAA
* *
57785 TTATTTATATTATAAGTATATAATATTATAATATT
1 TTATTTATATAACAAGTATATAATA-TATAATATT
57820 TACTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 5 0.17
36 17 0.57
37 8 0.27
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (36 bp):
TTATTTATATAACAAGTATATAATATATAATATTAA
Found at i:57963 original size:18 final size:16
Alignment explanation
Indices: 57931--57982 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 16
57921 ATATAATAAT
57931 TAATATTAT-ATTTAAA
1 TAAT-TTATAATTTAAA
57947 TAATTGTTATAATTTAAAA
1 TAA-T-TTATAATTT-AAA
57966 TAATTTATTAATTTAAA
1 TAATTTA-TAATTTAAA
57983 ATGAATTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.10
17 11 0.35
18 11 0.35
19 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTTATAATTTAAA
Found at i:57983 original size:18 final size:19
Alignment explanation
Indices: 57934--57989 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 19
57924 TAATAATTAA
57934 TATTATATTT-AAATAATTG
1 TATTA-ATTTAAAATAATTG
57953 T-TATAATTTAAAATAATT-
1 TAT-TAATTTAAAATAATTG
57971 TATTAATTTAAAATGAATT
1 TATTAATTTAAAAT-AATT
57990 AGATTAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (19 bp):
TATTAATTTAAAATAATTG
Found at i:58059 original size:14 final size:13
Alignment explanation
Indices: 58026--58090 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 13
58016 AAATTTAATC
*
58026 TATTAACAATTATT
1 TATTAATAATTA-T
58040 TATTAATAATTAT
1 TATTAATAATTAT
58053 TAGTTAATAAGTTAT
1 TA-TTAATAA-TTAT
* *
58068 AATAATACTAATTAT
1 --TATTAATAATTAT
58083 TA-TAATAA
1 TATTAATAA
58091 CTAATTGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 18 0.42
15 8 0.19
16 5 0.12
17 2 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
TATTAATAATTAT
Found at i:58082 original size:15 final size:16
Alignment explanation
Indices: 58064--58096 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
58054 AGTTAATAAG
58064 TTATAATAAT-ACTAA
1 TTATAATAATAACTAA
*
58079 TTATTATAATAACTAA
1 TTATAATAATAACTAA
58095 TT
1 TT
58097 GAAATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATAATAATAACTAA
Found at i:58216 original size:12 final size:12
Alignment explanation
Indices: 58199--58270 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
58189 ATAGTTCATT
58199 ATTATATTATAA
1 ATTATATTATAA
* *
58211 ATTATAAT-TCA
1 ATTATATTATAA
58222 ATTATATTATAA
1 ATTATATTATAA
*
58234 A-TAGTATTAT-T
1 ATTA-TATTATAA
*
58245 ATTATTATTTTATA
1 ATTA-TATTATA-A
58259 ATTAATATTATA
1 ATT-ATATTATA
58271 TTAGTTAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
11 12 0.27
12 23 0.51
14 9 0.20
15 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (12 bp):
ATTATATTATAA
Found at i:58251 original size:26 final size:25
Alignment explanation
Indices: 58196--58273 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 25
58186 AAAATAGTTC
*
58196 ATTATTATATTATAAAT-TATAATT
1 ATTATTATATTATAAATATATTATT
58220 CA--ATTATATTATAAATAGTATTATT
1 -ATTATTATATTATAAATA-TATTATT
* *
58245 ATTATTATTTTATAATTAATATTA-T
1 ATTATTATATTATAAAT-ATATTATT
58270 ATTA
1 ATTA
58274 GTTAAATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
23 14 0.31
24 1 0.02
25 12 0.27
26 17 0.38
27 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
ATTATTATATTATAAATATATTATT
Found at i:58596 original size:30 final size:30
Alignment explanation
Indices: 58548--58606 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
58538 TTTGCTTGGA
58548 TAAATTTAAATAAATAATTTACTAATTTAT
1 TAAATTTAAATAAATAATTTACTAATTTAT
* *
58578 TAAAGTTT-AATAAGTAATTTATTAATTTA
1 TAAA-TTTAAATAAATAATTTACTAATTTA
58607 ATTGTTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAATTTAAATAAATAATTTACTAATTTAT
Found at i:59145 original size:40 final size:41
Alignment explanation
Indices: 59118--59195 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 41
59108 ATATATAAAT
59118 TAATTATTATT-AATAATAAATAATATAATAAATAATATAA
1 TAATTATTATTAAATAATAAATAATATAATAAATAATATAA
* * *
59158 TAATTATTATTAAATAAT-AATATTATATTAACTAATAT
1 TAATTATTATTAAATAATAAATAATATAATAAATAATAT
59196 TACTATCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 28 0.82
41 6 0.18
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (41 bp):
TAATTATTATTAAATAATAAATAATATAATAAATAATATAA
Found at i:59147 original size:12 final size:12
Alignment explanation
Indices: 59130--59160 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
59120 ATTATTATTA
59130 ATAATAAATAAT
1 ATAATAAATAAT
59142 ATAATAAATAAT
1 ATAATAAATAAT
59154 ATAATAA
1 ATAATAA
59161 TTATTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:59207 original size:40 final size:40
Alignment explanation
Indices: 59118--59237 Score: 95
Period size: 40 Copynumber: 3.0 Consensus size: 40
59108 ATATATAAAT
*
59118 TAATTATTATTAATAATAAATAATATAATAAATAATATAA
1 TAATCATTATTAATAATAAATAATATAATAAATAATATAA
* * * * *
59158 TAATTATTATTAAATAAT-AATATTATATTAACTAATATTAC
1 TAATCATTATT-AATAATAAATAATATAATAAATAATA-TAA
** *
59199 T-ATCATTA-TAGA-AATTTATAATAATACTAAATAATATAA
1 TAATCATTATTA-ATAATAAATAAT-ATAATAAATAATATAA
59238 CTTTAAATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
38 4 0.06
39 8 0.12
40 44 0.68
41 9 0.14
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (40 bp):
TAATCATTATTAATAATAAATAATATAATAAATAATATAA
Found at i:59570 original size:18 final size:20
Alignment explanation
Indices: 59547--59603 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 20
59537 TAATAAATTA
59547 AATATTAATTGA-ATTA-AT
1 AATATTAATTGATATTATAT
*
59565 AATATTAA-TAATATTATAT
1 AATATTAATTGATATTATAT
59584 AATATATAATTGTATATTAT
1 AATAT-TAATTG-ATATTAT
59604 TACTTATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 2 0.06
18 12 0.38
19 7 0.22
20 3 0.09
21 1 0.03
22 7 0.22
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
AATATTAATTGATATTATAT
Found at i:59571 original size:9 final size:9
Alignment explanation
Indices: 59559--59593 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
59549 TATTAATTGA
59559 ATTAATAAT
1 ATTAATAAT
59568 ATTAATAAT
1 ATTAATAAT
59577 ATTATATAAT
1 ATTA-ATAAT
59587 ATATAAT
1 AT-TAAT
59594 TGTATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.54
10 9 0.38
11 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTAATAAT
Found at i:59750 original size:23 final size:24
Alignment explanation
Indices: 59724--59769 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
59714 AATCATTTGC
59724 ATTAATAACTA-TTAA-TATACAAA
1 ATTAATAA-TATTTAATTATACAAA
*
59747 ATTATTAATATTTAATTATACAA
1 ATTAATAATATTTAATTATACAA
59770 TTAACAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 11 0.55
24 7 0.35
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTAATAATATTTAATTATACAAA
Found at i:59864 original size:13 final size:13
Alignment explanation
Indices: 59831--59870 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
59821 ATTAAAATAT
59831 TAATA-TTA-TAA
1 TAATATTTATTAA
59842 TAATAGTTTATTAA
1 TAATA-TTTATTAA
59856 TAATATTTATTAA
1 TAATATTTATTAA
59869 TA
1 TA
59871 TAAGCTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.19
13 13 0.50
14 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TAATATTTATTAA
Found at i:59899 original size:40 final size:41
Alignment explanation
Indices: 59836--59914 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
59826 AATATTAATA
59836 TTATAATAATAGTTTATTAATAA-T-ATTTATTAATATAAGC
1 TTATAATAATAGTTTATTAATAATTAATTTATT-ATATAAGC
* *
59876 TTATAATAA-ATTTTAATTTATAATTAATTTATTATATAA
1 TTATAATAATAGTTT-ATTAATAATTAATTTATTATATAA
59915 ATTATATATC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 4 0.12
40 16 0.47
41 7 0.21
42 7 0.21
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (41 bp):
TTATAATAATAGTTTATTAATAATTAATTTATTATATAAGC
Found at i:59920 original size:40 final size:40
Alignment explanation
Indices: 59826--59920 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
59816 TAATTATTAA
*
59826 AATATTAATATTATAATAATAGTTTATTAATAATATTTATT
1 AATA-TAAGATTATAATAATAGTTTATTAATAATATTTATT
* * *
59867 AATATAAGCTTATAATAA-ATTTTAATTTATAATTAATTTATT
1 AATATAAGATTATAATAATAGTTT-ATTAATAA-T-ATTTATT
59909 -ATATAA-ATTATA
1 AATATAAGATTATA
59921 TATCCTCAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
39 4 0.09
40 24 0.52
41 11 0.24
42 7 0.15
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (40 bp):
AATATAAGATTATAATAATAGTTTATTAATAATATTTATT
Found at i:60002 original size:19 final size:20
Alignment explanation
Indices: 59975--60019 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
59965 AAACAAATTT
59975 TATAATAAAATTATAA-TAA
1 TATAATAAAATTATAATTAA
* *
59994 TATATTAAAATTTTAATTAA
1 TATAATAAAATTATAATTAA
60014 TA-AATA
1 TATAATA
60020 TGATTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATAATAAAATTATAATTAA
Found at i:60059 original size:16 final size:16
Alignment explanation
Indices: 60040--60071 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60030 ATTATATATA
60040 TTTATTATTAACTAAT
1 TTTATTATTAACTAAT
*
60056 TTTATTATTAATTAAT
1 TTTATTATTAACTAAT
60072 AATATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATTATTAACTAAT
Found at i:60586 original size:39 final size:39
Alignment explanation
Indices: 60530--60608 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 39
60520 ATTTAAAAAA
* * *
60530 AATTAATTAGTTTAAATAATTATTAAATTATA-ATAATTT
1 AATTAAGTAGTTTAAATAATTAAT-AATTATATAAAATTT
60569 AATTAAGTA-TTTAAAATAATTAATAATTATATAAAATTT
1 AATTAAGTAGTTT-AAATAATTAATAATTATATAAAATTT
60608 A
1 A
60609 TTTTTATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 10 0.29
39 25 0.71
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.46
Consensus pattern (39 bp):
AATTAAGTAGTTTAAATAATTAATAATTATATAAAATTT
Found at i:60592 original size:26 final size:25
Alignment explanation
Indices: 60528--60592 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
60518 AGATTTAAAA
* *
60528 AAAATTAATTAGTTTAAATAATTATT
1 AAAA-TAATTAATTTAAATAAGTATT
*
60554 AAATTATAA-TAATTTAATTAAGTATTT
1 AAA--ATAATTAATTTAAATAAGTA-TT
60581 AAAATAATTAAT
1 AAAATAATTAAT
60593 AATTATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 4 0.12
26 19 0.59
27 8 0.25
28 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
AAAATAATTAATTTAAATAAGTATT
Found at i:60605 original size:20 final size:22
Alignment explanation
Indices: 60561--60605 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
60551 ATTAAATTAT
*
60561 AATAATTTAATTAAGTATTTAA
1 AATAATTTAATTAAGTATATAA
*
60583 AATAA-TTAA-TAATTATATAA
1 AATAATTTAATTAAGTATATAA
60603 AAT
1 AAT
60606 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 4 0.19
22 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AATAATTTAATTAAGTATATAA
Found at i:60797 original size:19 final size:18
Alignment explanation
Indices: 60775--60854 Score: 60
Period size: 19 Copynumber: 4.4 Consensus size: 18
60765 ATAATGCCTA
60775 ATTATTTAAATATAATATT
1 ATTA-TTAAATATAATATT
*
60794 ATTAATTAATTAT-A-ATT
1 ATT-ATTAAATATAATATT
* *
60811 A-TAATAATTGATAATAATT
1 ATTATTAAAT-ATAAT-ATT
60830 ATTATTATAA-ATAATATT
1 ATTATTA-AATATAATATT
60848 ATTATTA
1 ATTATTA
60855 TCTATGAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
15 6 0.12
16 3 0.06
17 5 0.10
18 11 0.22
19 19 0.38
20 5 0.10
21 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (18 bp):
ATTATTAAATATAATATT
Found at i:60847 original size:15 final size:16
Alignment explanation
Indices: 60823--60852 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
60813 AATAATTGAT
60823 AATAATTATTATTATA
1 AATAATTATTATTATA
60839 AATAA-TATTATTAT
1 AATAATTATTATTAT
60853 TATCTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATAATTATTATTATA
Found at i:61446 original size:27 final size:28
Alignment explanation
Indices: 61416--61476 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
61406 ATCACAATTG
61416 TTATAATGTTATTAAA-AATAACAT-TAT
1 TTATAATGTTA-TAAATAATAACATATAT
* *
61443 TTATAATGTTATAAATATTAACTTATAT
1 TTATAATGTTATAAATAATAACATATAT
61471 TTATAA
1 TTATAA
61477 ATATGAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 4 0.13
27 17 0.57
28 9 0.30
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (28 bp):
TTATAATGTTATAAATAATAACATATAT
Found at i:61573 original size:40 final size:40
Alignment explanation
Indices: 61528--61606 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
61518 ATTAATATTA
61528 AAAATTA-TGACAATTTATAATTAATATTTATTATAAATTT
1 AAAATTAGTGA-AATTTATAATTAATATTTATTATAAATTT
* * *
61568 AAAATTAGTTAATTTTATAATTAATATTTATTATTAATT
1 AAAATTAGTGAAATTTATAATTAATATTTATTATAAATT
61607 ATTAATAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 33 0.94
41 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (40 bp):
AAAATTAGTGAAATTTATAATTAATATTTATTATAAATTT
Found at i:61645 original size:25 final size:24
Alignment explanation
Indices: 61593--61646 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
61583 TATAATTAAT
* *
61593 ATTTATTATTAATTATTAATAACT
1 ATTTATTATTAATTACTAATAACA
61617 ATTTATTTCATTAA-TACTAATAACA
1 ATTTA-TT-ATTAATTACTAATAACA
61642 ATTTA
1 ATTTA
61647 ATTAGTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 16 0.62
26 5 0.19
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTATTATTAATTACTAATAACA
Found at i:61875 original size:13 final size:14
Alignment explanation
Indices: 61850--61897 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
61840 TAATTATCCG
61850 AAATTATAATAATT
1 AAATTATAATAATT
61864 AAATTA-AATAATTT
1 AAATTATAATAA-TT
* *
61878 TAATTTTAAT-ATT
1 AAATTATAATAATT
61891 AAATTAT
1 AAATTAT
61898 TAAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 12 0.43
14 13 0.46
15 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTATAATAATT
Found at i:61881 original size:22 final size:22
Alignment explanation
Indices: 61851--61899 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
61841 AATTATCCGA
61851 AATTATAATAATTAA-ATTAAAT
1 AATTATAAT-ATTAATATTAAAT
* *
61873 AATTTTAATTTTAATATTAAAT
1 AATTATAATATTAATATTAAAT
*
61895 TATTA
1 AATTA
61900 AAATGATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTATAATATTAATATTAAAT
Found at i:61976 original size:14 final size:15
Alignment explanation
Indices: 61952--61980 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61942 TAATAACTAT
61952 ATATCATAATAAAAA
1 ATATCATAATAAAAA
61967 ATAT-ATAATAAAAA
1 ATATCATAATAAAAA
61981 TTAATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATCATAATAAAAA
Found at i:62600 original size:19 final size:18
Alignment explanation
Indices: 62543--62597 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 18
62533 ATTTGAATTG
* *
62543 ATTTATAAAATA-TATTT
1 ATTTTTAAAATATTATTA
* *
62560 ATTTTTAAATCTCTTATTA
1 ATTTTTAAA-ATATTATTA
62579 ATTTTTAAAATATTATTA
1 ATTTTTAAAATATTATTA
62597 A
1 A
62598 ATTAGTATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 8 0.27
18 9 0.30
19 13 0.43
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTTAAAATATTATTA
Found at i:63029 original size:20 final size:19
Alignment explanation
Indices: 62950--63031 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
62940 ATTTATAATT
*
62950 TATAAATAAATTAATAATAA
1 TATAAAT-AATTAATTATAA
62970 TAT-AATAA-TAATTAT-A
1 TATAAATAATTAATTATAA
* *** *
62986 TTTCCTTATTTAATTATAA
1 TATAAATAATTAATTATAA
*
63005 TATAAATAATTAATTAATTA
1 TATAAATAATTAATT-ATAA
63025 TATAAAT
1 TATAAAT
63032 TTATATTATA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
16 3 0.06
17 8 0.17
18 9 0.19
19 14 0.30
20 13 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TATAAATAATTAATTATAA
Found at i:63031 original size:71 final size:68
Alignment explanation
Indices: 62944--63124 Score: 163
Period size: 75 Copynumber: 2.6 Consensus size: 68
62934 CCTAATATTT
* * * *
62944 ATAAT-TTATAAATAAATTAATAATAATATAATAATAATTATATTTCCTTATTTA-ATTATAATA
1 ATAATATTATTAATAAATTAATAATAATATAATAATAATTATAATTACTTATTTATAATATAATA
63007 -TAA
66 CT-A
* * *
63010 ATAATTAATTAATTATATAAATTTATATTATAAATTATTATAATAATTATAATTATTTATTTATA
1 ATAA-T-ATT-ATTA-ATAAA-TTA-ATAAT-AA-TATAATAATAATTATAATTACTTATTTATA
63075 ATATAATACTA
58 ATATAATACTA
* *
63086 ATAATATTATTAATAATTTAATAAATATTA-AATAATAAT
1 ATAATATTATTAATAAATTAAT-AATAATATAATAATAAT
63125 ATTACTTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 22
0.74 0.09 0.18
Matches are distributed among these distances:
66 4 0.04
67 1 0.01
68 8 0.09
69 4 0.04
70 6 0.07
71 10 0.11
72 7 0.08
73 8 0.09
74 5 0.05
75 25 0.27
76 13 0.14
77 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (68 bp):
ATAATATTATTAATAAATTAATAATAATATAATAATAATTATAATTACTTATTTATAATATAATA
CTA
Found at i:63039 original size:23 final size:22
Alignment explanation
Indices: 62991--63052 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 22
62981 TTATATTTCC
*
62991 TTAT-TTAATT-ATAATATAAA
1 TTATATTAATTAATTATATAAA
63011 -TA-ATTAATTAATTATATAAA
1 TTATATTAATTAATTATATAAA
*
63031 TTTATATT-ATAAATTATTATAA
1 -TTATATTAATTAATTA-TATAA
63053 TAATTATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 8 0.24
20 9 0.26
22 9 0.26
23 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATATTAATTAATTATATAAA
Found at i:63057 original size:25 final size:26
Alignment explanation
Indices: 63016--63065 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
63006 ATAAATAATT
63016 AATTAATTATATAAATT-TATATTATA
1 AATTAATTATATAAATTATA-ATTATA
63042 AATT-ATTATA-ATAATTATAATTAT
1 AATTAATTATATA-AATTATAATTAT
63066 TTATTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
24 1 0.05
25 15 0.68
26 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
AATTAATTATATAAATTATAATTATA
Found at i:63079 original size:19 final size:18
Alignment explanation
Indices: 63030--63081 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
63020 AATTATATAA
*
63030 ATTTATATTATAAATTATT
1 ATTTATAATAT-AATTATT
*
63049 A-TAATAATTATAATTATTT
1 ATTTATAA-TATAATTA-TT
63068 ATTTATAATATAAT
1 ATTTATAATATAAT
63082 ACTAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 9 0.33
19 13 0.48
20 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTATAATATAATTATT
Found at i:63148 original size:15 final size:16
Alignment explanation
Indices: 63118--63162 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
63108 AAATATTAAA
63118 TAATAAT-ATTACTTTT
1 TAATAATAATTA-TTTT
63134 T-AT-ATAATTATTTT
1 TAATAATAATTATTTT
*
63148 TAATAATACTTATTT
1 TAATAATAATTATTT
63163 AAATTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.28
15 8 0.32
16 10 0.40
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATAATAATTATTTT
Found at i:63626 original size:19 final size:19
Alignment explanation
Indices: 63560--63626 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 19
63550 CAAAAAAACA
* * *
63560 TATTTATTTTTTAAATTTT
1 TATTTATATATTAAATTAT
63579 TATTTATAT-TT-AA-TAT
1 TATTTATATATTAAATTAT
* *
63595 AATAGTATAATATTAAATTAT
1 TAT-TTAT-ATATTAAATTAT
63616 TATTTATATAT
1 TATTTATATAT
63627 ATATACTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
16 4 0.11
17 5 0.14
18 4 0.11
19 14 0.38
20 5 0.14
21 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (19 bp):
TATTTATATATTAAATTAT
Found at i:63946 original size:21 final size:22
Alignment explanation
Indices: 63912--63952 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
63902 TTAATCAATT
* *
63912 ATATATAATTATAATTAATAAA
1 ATATATAATAATAACTAATAAA
63934 ATAT-TAATAATAACTAATA
1 ATATATAATAATAACTAATA
63953 GTCTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATATAATAATAACTAATAAA
Found at i:64095 original size:31 final size:31
Alignment explanation
Indices: 64060--64118 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
64050 ATTTACTAAA
*
64060 TATTATAAATTAAGATTATTAGTTATTATTT
1 TATTATAAATTAAGATTATAAGTTATTATTT
* *
64091 TATTATAAATTAATATTATAATTTATTA
1 TATTATAAATTAAGATTATAAGTTATTA
64119 AGATTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (31 bp):
TATTATAAATTAAGATTATAAGTTATTATTT
Found at i:64779 original size:22 final size:22
Alignment explanation
Indices: 64737--64781 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
64727 TTAATTATTG
*
64737 TTATTAATTAATATTAGTTAAT
1 TTATTAATTAACATTAGTTAAT
64759 TTATTAATTAACATTTA-TTAAT
1 TTATTAATTAACA-TTAGTTAAT
64781 T
1 T
64782 AGTAAATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTAATTAACATTAGTTAAT
Found at i:65397 original size:22 final size:23
Alignment explanation
Indices: 65364--65413 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
65354 TTTGTTATTA
65364 TTAATATTAAATATTAT-TAAATT
1 TTAATATTAAAT-TTATATAAATT
65387 TTAA-ATTAAATTTATATAAA-T
1 TTAATATTAAATTTATATAAATT
65408 TTAATA
1 TTAATA
65414 ATATTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 9 0.36
22 12 0.48
23 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATATTAAATTTATATAAATT
Found at i:65614 original size:21 final size:21
Alignment explanation
Indices: 65590--65632 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
65580 AATAAATTTA
65590 TATAATTATGT-AATATTAAAT
1 TATAATTATGTCAA-ATTAAAT
* *
65611 TATATTTATTTCAAATTAAAT
1 TATAATTATGTCAAATTAAAT
65632 T
1 T
65633 TATTGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TATAATTATGTCAAATTAAAT
Found at i:66809 original size:19 final size:18
Alignment explanation
Indices: 66780--66833 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
66770 TCAAATCATT
66780 CAAAACTTTTGTTAAGTCA
1 CAAAA-TTTTGTTAAGTCA
66799 CAAAATATTTGTTAAGT--
1 CAAAAT-TTTGTTAAGTCA
*
66816 CAAACTTTTGTTAAGTCA
1 CAAAATTTTGTTAAGTCA
66834 AAGCTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 10 0.32
17 5 0.16
18 1 0.03
19 15 0.48
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (18 bp):
CAAAATTTTGTTAAGTCA
Found at i:66827 original size:16 final size:16
Alignment explanation
Indices: 66782--66835 Score: 72
Period size: 16 Copynumber: 3.2 Consensus size: 16
66772 AAATCATTCA
66782 AAACTTTTGTTAAGTCAC
1 AAACTTTTGTTAAGT--C
*
66800 AAAATATTTGTTAAGTC
1 AAACT-TTTGTTAAGTC
66817 AAACTTTTGTTAAGTC
1 AAACTTTTGTTAAGTC
66833 AAA
1 AAA
66836 GCTTATTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 14 0.42
17 5 0.15
18 4 0.12
19 10 0.30
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (16 bp):
AAACTTTTGTTAAGTC
Found at i:68458 original size:18 final size:19
Alignment explanation
Indices: 68419--68461 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
68409 TTAACAATCT
*
68419 TAATTATTTATTAAGATTA
1 TAATTATTTATTAAGATAA
68438 TAATTATTT-TTAA-ATAAA
1 TAATTATTTATTAAGAT-AA
68456 TAATTA
1 TAATTA
68462 AATAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 11 0.50
19 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TAATTATTTATTAAGATAA
Found at i:68941 original size:20 final size:19
Alignment explanation
Indices: 68918--68982 Score: 71
Period size: 17 Copynumber: 3.5 Consensus size: 19
68908 CTTATTAATA
68918 ATAAATATTAATTATTTATT
1 ATAAATATTAA-TATTTATT
*
68938 ATAAATATT-A-ATTTATC
1 ATAAATATTAATATTTATT
* *
68955 ATAAATATTAATAATTACT
1 ATAAATATTAATATTTATT
*
68974 ATTAATATT
1 ATAAATATT
68983 TAATTAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
17 15 0.39
18 1 0.03
19 13 0.34
20 9 0.24
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAAATATTAATATTTATT
Found at i:68985 original size:7 final size:6
Alignment explanation
Indices: 68910--69002 Score: 52
Period size: 6 Copynumber: 15.5 Consensus size: 6
68900 TATTTTACCT
* * * *
68910 TATTAA TAATAAA TATTAA TTATTTAT TATAAA TATTAA T-TT-A TCATAAA
1 TATTAA T-ATTAA TATTAA -TA-TTAA TATTAA TATTAA TATTAA T-ATTAA
* *
68960 TATTAA TAATTAC TATTAA TATTTA -ATTAA -ATTAA TA-TAA TAT
1 TATTAA T-ATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TAT
69003 AAGTTTTAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
4 2 0.03
5 16 0.24
6 29 0.44
7 16 0.24
8 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
TATTAA
Found at i:70190 original size:19 final size:21
Alignment explanation
Indices: 70168--70208 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
70158 ATAATAAGAT
70168 TATTTAAT-TAAAAA-ATTAA
1 TATTTAATATAAAAATATTAA
70187 TATTTAATAATAAAAATATTAA
1 TATTTAAT-ATAAAAATATTAA
70209 ATTAGTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATTTAATATAAAAATATTAA
Found at i:70384 original size:24 final size:21
Alignment explanation
Indices: 70323--70385 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 21
70313 TATATAATTC
70323 AATATTATATATATTA-TTTTA
1 AATATTATATA-ATTATTTTTA
* *
70344 AATAATATATGATTTATTTATATA
1 AATATTATAT-AATTATTT-T-TA
70368 AATTATTATATAATTATT
1 AA-TATTATATAATTATT
70386 AATAGTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 12 0.36
22 3 0.09
23 1 0.03
24 10 0.30
25 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AATATTATATAATTATTTTTA
Found at i:70409 original size:62 final size:59
Alignment explanation
Indices: 70343--70456 Score: 142
Period size: 62 Copynumber: 1.9 Consensus size: 59
70333 ATATTATTTT
* *
70343 AAATAATATA-TGATTTA-TTTATATAAATTATTATATAATTATTAATAGTTCAAATGCTTATA
1 AAATAATATATTG-TTTATTTTAAAT-AAGTATTA-ATAATTA-TAATA-TTCAAATGCTTATA
*
70405 AAATAATATATTGTTTATTTTAAATAAGTATTAATTATTATAATATTCAAAT
1 AAATAATATATTGTTTATTTTAAATAAGTATTAATAATTATAATATTCAAAT
70457 TATATTAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
59 7 0.15
60 5 0.11
61 6 0.13
62 21 0.45
63 8 0.17
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (59 bp):
AAATAATATATTGTTTATTTTAAATAAGTATTAATAATTATAATATTCAAATGCTTATA
Found at i:70490 original size:15 final size:15
Alignment explanation
Indices: 70472--70524 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
70462 TAAATATTAA
70472 TATATAATAATTTAT
1 TATATAATAATTTAT
*
70487 TATATTATAATTTA-
1 TATATAATAATTTAT
* *
70501 TAAATAAATACTTTAT
1 TATAT-AATAATTTAT
70517 TA-ATAATA
1 TATATAATA
70525 GTTATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 8 0.25
15 22 0.69
16 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TATATAATAATTTAT
Done.