Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1093
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: 216631
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
File 2 of 2
Found at i:139107 original size:29 final size:28
Alignment explanation
Indices: 139032--139107 Score: 64
Period size: 29 Copynumber: 2.6 Consensus size: 28
139022 TTATGACTTG
*
139032 GAGATTTTTTTGTAATTTTATATATGTT
1 GAGATTTTTATGTAATTTTATATATGTT
* ** * *
139060 GGGATTATTTAAATTATTTTCTATA-GTTT
1 GAGATT-TTTATGTAATTTTATATATG-TT
139089 AGAGATTTTTATGTAATTT
1 -GAGATTTTTATGTAATTT
139108 CATGTGCTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
28 6 0.17
29 24 0.69
30 5 0.14
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (28 bp):
GAGATTTTTATGTAATTTTATATATGTT
Found at i:139280 original size:58 final size:57
Alignment explanation
Indices: 139189--139467 Score: 197
Period size: 58 Copynumber: 4.8 Consensus size: 57
139179 CGGTCATTTA
* * ** *
139189 TTTTCTATGATCTAACGACCTTTTATGCAAATTTTATATATTTTGGGTCATTTAGGTCAT
1 TTTTC-ATGATATAAAGA-CTTTTATGC-AATTTTATATATTTTAAGTCATTTAAGTCAT
* * * * * *
139249 TTTCCATGATATAGACACTTTTATACGAATTTCATGCATTTTTTAAGTCATTTAAGTCAT
1 TTTTCATGATATAAAGACTTTTATGC-AATTTTAT--ATATTTTAAGTCATTTAAGTCAT
* ** * * * *
139309 TTTTTATGATATAGGGATTTTTATACAA-TTTATGTATTTTAAAGTTATTTAAGTCAT
1 TTTTCATGATATAAAGACTTTTATGCAATTTTATATATTTT-AAGTCATTTAAGTCAT
* * * *
139366 TTTT-TTCGATTTAAAGACTTTTATGCAAATTTATATATATTT-GGATCATTT-AGTTCAT
1 TTTTCAT-GATATAAAGACTTTTATGCAATTTTATATAT-TTTAAG-TCATTTAAG-TCAT
* * *
139424 TTTTCATGATCTAAAGATTTTTATGCAAATATTATATATTTTAA
1 TTTTCATGATATAAAGACTTTTATGC-AATTTTATATATTTTAA
139468 AGATACTTAG
Statistics
Matches: 172, Mismatches: 36, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
56 6 0.03
57 38 0.22
58 60 0.35
59 24 0.14
60 44 0.26
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (57 bp):
TTTTCATGATATAAAGACTTTTATGCAATTTTATATATTTTAAGTCATTTAAGTCAT
Found at i:139318 original size:60 final size:57
Alignment explanation
Indices: 139235--139370 Score: 164
Period size: 60 Copynumber: 2.3 Consensus size: 57
139225 TATATTTTGG
* ** *
139235 GTCATTTAGGTCATTTTCCATGATATAGACACTTTTATACGAATTTCATGCATTTTTTAA
1 GTCATTTAAGTCATTTTTTATGATATAGACACTTTTATAC-AATTT-ATGCA-TTTTAAA
** * *
139295 GTCATTTAAGTCATTTTTTATGATATAGGGATTTTTATACAATTTATGTATTTTAAA
1 GTCATTTAAGTCATTTTTTATGATATAGACACTTTTATACAATTTATGCATTTTAAA
*
139352 GTTATTTAAGTCATTTTTT
1 GTCATTTAAGTCATTTTTT
139371 TCGATTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 24 0.36
58 4 0.06
59 5 0.07
60 34 0.51
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (57 bp):
GTCATTTAAGTCATTTTTTATGATATAGACACTTTTATACAATTTATGCATTTTAAA
Found at i:139386 original size:117 final size:117
Alignment explanation
Indices: 139265--139485 Score: 250
Period size: 117 Copynumber: 1.9 Consensus size: 117
139255 TGATATAGAC
* * * * * **
139265 ACTTTTATACGAATTTCATGCATTTTTTAAGTCATTTAAG-TCATTTTTTATGATATAGGGATTT
1 ACTTTTATACAAATTT-ATACATATTTGAA-TCATTT-AGTTCATTTTTCATGATATAAAGATTT
* * *
139329 TTATAC-AAT-TTATGTATTTTAAAGTTATTTAAGTCATTTTTTTCGATTTAAAG
63 TTATACAAATATTATATATTTTAAAGATACTTAAGTCATTTTTTTCGATTTAAAG
* * * *
139382 ACTTTTATGCAAATTTATATATATTTGGATCATTTAGTTCATTTTTCATGATCTAAAGATTTTTA
1 ACTTTTATACAAATTTATACATATTTGAATCATTTAGTTCATTTTTCATGATATAAAGATTTTTA
* *
139447 TGCAAATATTATATATTTTAAAGATACTTAGGTCATTTT
66 TACAAATATTATATATTTTAAAGATACTTAAGTCATTTT
139486 CCACAACTTA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
114 2 0.02
115 31 0.36
116 11 0.13
117 41 0.48
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (117 bp):
ACTTTTATACAAATTTATACATATTTGAATCATTTAGTTCATTTTTCATGATATAAAGATTTTTA
TACAAATATTATATATTTTAAAGATACTTAAGTCATTTTTTTCGATTTAAAG
Found at i:139486 original size:58 final size:58
Alignment explanation
Indices: 139324--139486 Score: 163
Period size: 58 Copynumber: 2.8 Consensus size: 58
139314 ATGATATAGG
* * * * ** *
139324 GATTTTTATAC-AATTTATGTATTTTAAAGTTATTTAAGTCATTTTTTTCGATTTAAA
1 GATTTTTATGCAAATTTATATATTTTAAAGATATTTAGGTCATTTTCATCGATCTAAA
* * *
139381 GACTTTTATGCAAATTTATATATATTT--GGATCATTTAGTTCATTTTTCAT-GATCTAAA
1 GATTTTTATGCAAATTTATATAT-TTTAAAGAT-ATTTAGGTCA-TTTTCATCGATCTAAA
*
139439 GATTTTTATGCAAATATTATATATTTTAAAGATACTTAGGTCATTTTC
1 GATTTTTATGCAAAT-TTATATATTTTAAAGATATTTAGGTCATTTTC
139487 CACAACTTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
57 11 0.13
58 47 0.55
59 24 0.28
60 3 0.04
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (58 bp):
GATTTTTATGCAAATTTATATATTTTAAAGATATTTAGGTCATTTTCATCGATCTAAA
Found at i:143286 original size:5 final size:5
Alignment explanation
Indices: 143276--143331 Score: 52
Period size: 5 Copynumber: 12.4 Consensus size: 5
143266 AAATAATTAA
* *
143276 AATAT AATAT AA-A- AATAT AATAT AGTAT TATAT AATAT AA-A- AA-AT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
143321 AATAT AA-AT AA
1 AATAT AATAT AA
143332 AACAAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
3 5 0.12
4 9 0.21
5 29 0.67
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:143327 original size:17 final size:17
Alignment explanation
Indices: 143305--143343 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
143295 ATATAGTATT
*
143305 ATATAATATAAAA-AATA
1 ATATAA-ATAAAACAAAA
143322 ATATAAATAAAACAAAA
1 ATATAAATAAAACAAAA
143339 ATATA
1 ATATA
143344 TGATTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAATAAAACAAAA
Found at i:143383 original size:15 final size:15
Alignment explanation
Indices: 143368--143397 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
143358 TCATATAATA
143368 TAAATTATTAATATAT
1 TAAATT-TTAATATAT
143384 TAAATTTTAATATA
1 TAAATTTTAATATA
143398 AATATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATTTTAATATAT
Found at i:143417 original size:20 final size:20
Alignment explanation
Indices: 143377--143418 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
143367 ATAAATTATT
143377 AATATATTAAATTTTAATATA
1 AATATATT-AATTTTAATATA
143398 AATATATT-ATTTTAAATATA
1 AATATATTAATTTT-AATATA
143418 A
1 A
143419 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
21 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATATTAATTTTAATATA
Found at i:143423 original size:15 final size:15
Alignment explanation
Indices: 143396--143434 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
143386 AATTTTAATA
143396 TAAATAT-ATTATTT
1 TAAATATAATTATTT
143410 TAAATATAATTATTT
1 TAAATATAATTATTT
* *
143425 AAAAAATAAT
1 TAAATATAAT
143435 ATAAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAATATAATTATTT
Found at i:143454 original size:18 final size:18
Alignment explanation
Indices: 143424--143458 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
143414 TATAATTATT
143424 TAAAAAATAATATAAATA
1 TAAAAAATAATATAAATA
143442 TAAATAAAT-ATATAAAT
1 TAAA-AAATAATATAAAT
143459 TATTGAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAAATAATATAAATA
Found at i:143774 original size:25 final size:24
Alignment explanation
Indices: 143739--143786 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
143729 AAAGCACTGA
143739 CTTTTTTTTTTTAAGTTCTTTTCT
1 CTTTTTTTTTTTAAGTTCTTTTCT
* *
143763 CTTTTTTCTTTTTCATTTCTTTTC
1 CTTTTTT-TTTTTAAGTTCTTTTC
143787 ATAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (24 bp):
CTTTTTTTTTTTAAGTTCTTTTCT
Found at i:144322 original size:20 final size:21
Alignment explanation
Indices: 144292--144335 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
144282 TATTTTAAGC
*
144292 TTATAAAATTAAGTAATATAA
1 TTATAAAATTAAGTAAAATAA
144313 TTAT-AAATTAAGTAAAATAA
1 TTATAAAATTAAGTAAAATAA
144333 TTA
1 TTA
144336 GATTAGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
TTATAAAATTAAGTAAAATAA
Found at i:144388 original size:18 final size:17
Alignment explanation
Indices: 144306--144395 Score: 50
Period size: 18 Copynumber: 5.5 Consensus size: 17
144296 AAAATTAAGT
*
144306 AATATAATTATAAATTA
1 AATATAATTATTAATTA
*
144323 AGTA-AA--A-TAATTA
1 AATATAATTATTAATTA
* *
144336 GAT-TAGTTATT-ATT-
1 AATATAATTATTAATTA
* *
144350 AATATAAATATTAATAAA
1 AATATAATTATTAAT-TA
144368 AATATATATTATTAATTA
1 AATATA-ATTATTAATTA
144386 AATATTAATT
1 AATA-TAATT
144396 TATTTAATTG
Statistics
Matches: 52, Mismatches: 11, Indels: 19
0.63 0.13 0.23
Matches are distributed among these distances:
13 7 0.13
14 3 0.06
15 10 0.19
16 5 0.10
17 3 0.06
18 14 0.27
19 10 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AATATAATTATTAATTA
Found at i:145236 original size:2 final size:2
Alignment explanation
Indices: 145229--145254 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
145219 ATCTCTTACA
145229 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
145255 TTTCACAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:146637 original size:26 final size:26
Alignment explanation
Indices: 146575--146659 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 26
146565 AAAATAATAT
*
146575 AAATATAATATAATTATATAAAA-ATTTT
1 AAATAT-ATATAA--ATATAAAATATTTA
* * *
146603 AAATTTATAT-AGTATAAATTA-TTA
1 AAATATATATAAATATAAAATATTTA
*
146627 AAATATATATAAATATAAAATATTTT
1 AAATATATATAAATATAAAATATTTA
146653 AAATATA
1 AAATATA
146660 ATTATTATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
24 17 0.37
25 10 0.22
26 10 0.22
27 4 0.09
28 5 0.11
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (26 bp):
AAATATATATAAATATAAAATATTTA
Found at i:146675 original size:20 final size:20
Alignment explanation
Indices: 146641--146719 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
146631 ATATATAAAT
**
146641 ATAAAATATTTTAAATATAA
1 ATAAAATATAATAAATATAA
* ** *
146661 TTATTATATAATAAAAATAA
1 ATAAAATATAATAAATATAA
146681 ATAAAATATAATATAATATTAA
1 ATAAAATATAATA-AATA-TAA
*
146703 ATAAAAAAT-ATAAATAT
1 ATAAAATATAATAAATAT
146720 TTAAAAACTT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
19 1 0.02
20 28 0.61
21 6 0.13
22 11 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAAATATAATAAATATAA
Found at i:146683 original size:35 final size:35
Alignment explanation
Indices: 146629--146721 Score: 91
Period size: 35 Copynumber: 2.6 Consensus size: 35
146619 AATTATTAAA
*
146629 ATATATATAAATATAAAATATTTTA-AATATAATTATT
1 ATATA-ATAAAAAT-AAATATTTTATAATATAA-TATT
***
146666 ATATAATAAAAATAAATAAAATATAATATAATATT
1 ATATAATAAAAATAAATATTTTATAATATAATATT
*
146701 AAATAA-AAAATATAAATATTT
1 ATATAATAAAA-ATAAATATTT
146722 AAAAACTTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
34 4 0.09
35 23 0.50
36 14 0.30
37 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (35 bp):
ATATAATAAAAATAAATATTTTATAATATAATATT
Found at i:146690 original size:22 final size:22
Alignment explanation
Indices: 146665--146715 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
146655 ATATAATTAT
146665 TATATAATAAAAATAAATAAAA
1 TATATAATAAAAATAAATAAAA
* *
146687 TATA-ATATAATATTAAATAAAA
1 TATATA-ATAAAAATAAATAAAA
*
146709 AATATAA
1 TATATAA
146716 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
TATATAATAAAAATAAATAAAA
Found at i:146716 original size:31 final size:31
Alignment explanation
Indices: 146628--146716 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
146618 AAATTATTAA
* *
146628 AATAT-ATATAAATATAAAATATTTTAAATAT
1 AATATAATATAAATA-AAAATATATAAAATAT
* *
146659 AAT-TATTATATAATAAAAATAAATAAAATAT
1 AATATAATATA-AATAAAAATATATAAAATAT
146690 AATATAATATTAAATAAAAA-ATATAAA
1 AATATAATA-TAAATAAAAATATATAAA
146717 TATTTAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
30 1 0.02
31 29 0.60
32 16 0.33
33 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (31 bp):
AATATAATATAAATAAAAATATATAAAATAT
Found at i:146719 original size:25 final size:25
Alignment explanation
Indices: 146652--146715 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
146642 TAAAATATTT
* *
146652 TAAATATAATTATTATATAATAAAAA
1 TAAATA-AAATATAATATAATAAAAA
*
146678 TAAATAAAATATAATATAATATTAAA
1 TAAATAAAATATAATATAATA-AAAA
146704 T-AA-AAAATATAA
1 TAAATAAAATATAA
146716 ATATTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.26
25 15 0.44
26 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAATAAAATATAATATAATAAAAA
Found at i:147536 original size:24 final size:25
Alignment explanation
Indices: 147509--147575 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 25
147499 TATGATTTTT
*
147509 TTAAAAAAATATAAATTAATTA-AA
1 TTAAAAAAATATAATTTAATTATAA
* * *
147533 TTAAAGAAATA-AATTTATTTATTA
1 TTAAAAAAATATAATTTAATTATAA
*
147557 TTAAAAAATTATAATTTAA
1 TTAAAAAAATATAATTTAA
147576 AAAGAATTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 8 0.24
24 20 0.59
25 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (25 bp):
TTAAAAAAATATAATTTAATTATAA
Found at i:148069 original size:23 final size:24
Alignment explanation
Indices: 147997--148069 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 24
147987 TAACTCGAAT
*
147997 TATTATTTATT-TTTTAAATAATAAA
1 TATTATTT-TTATATTAAAT-ATAAA
* *
148022 AATTATTTTTATATT-AATATTAA
1 TATTATTTTTATATTAAATATAAA
148045 TA-TA-TTTTATAATTAAATATAAA
1 TATTATTTTTAT-ATTAAATATAAA
148068 TA
1 TA
148070 AAAATATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
21 6 0.15
22 5 0.12
23 14 0.35
24 5 0.12
25 10 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TATTATTTTTATATTAAATATAAA
Found at i:148692 original size:17 final size:17
Alignment explanation
Indices: 148672--148714 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 17
148662 AATTAATTGA
148672 AATTATATAATTTTTTT
1 AATTATATAATTTTTTT
148689 AATTAT-T-A-TTTTTT
1 AATTATATAATTTTTTT
148703 AA-TA-ATAATTTT
1 AATTATATAATTTT
148715 AAAATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.13
14 9 0.39
15 4 0.17
16 1 0.04
17 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTATATAATTTTTTT
Found at i:148809 original size:12 final size:12
Alignment explanation
Indices: 148792--148825 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
148782 ATTTAAAAAA
148792 ATTATTTATAAT
1 ATTATTTATAAT
148804 ATTATTTAT-AT
1 ATTATTTATAAT
148815 ATT-TTTATAAT
1 ATTATTTATAAT
148826 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.24
11 7 0.33
12 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTTATAAT
Found at i:148862 original size:25 final size:27
Alignment explanation
Indices: 148791--148862 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 27
148781 AATTTAAAAA
*
148791 AATTATTTATAATATTATTTATATATTTT
1 AATTA-TTA-AATATTAATTATATATTTT
* *
148820 TATAATTAAAT-TTAAATTAT-T-TTTT
1 AATTATTAAATATT-AATTATATATTTT
148845 AATTATTAAATATTAATT
1 AATTATTAAATATTAATT
148863 CAAATAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
25 17 0.47
26 5 0.14
27 8 0.22
28 3 0.08
29 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
AATTATTAAATATTAATTATATATTTT
Found at i:149295 original size:20 final size:19
Alignment explanation
Indices: 149267--149332 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
149257 ATTATTAAAT
**
149267 TTAAAAATATTAAATATAA
1 TTAAAAATAAAAAATATAA
149286 TTAAATAATAAAAAATATAA
1 TTAAA-AATAAAAAATATAA
*
149306 TATGATATAATAAAAAATAT-A
1 T-T-A-AAAATAAAAAATATAA
149327 TTAAAA
1 TTAAAA
149333 TTTATATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.05
19 6 0.15
20 14 0.36
21 3 0.08
22 13 0.33
23 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAAAATAAAAAATATAA
Found at i:149318 original size:22 final size:20
Alignment explanation
Indices: 149278--149331 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
149268 TAAAAATATT
149278 AAATATAATTAAATAATAAA
1 AAATATAATTAAATAATAAA
*
149298 AAATATAATATGATATAATAAA
1 AAATATAAT-T-AAATAATAAA
149320 AAATAT-ATTAAA
1 AAATATAATTAAA
149332 ATTTATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.07
20 10 0.33
21 3 0.10
22 15 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAATATAATTAAATAATAAA
Found at i:149333 original size:32 final size:32
Alignment explanation
Indices: 149297--149380 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
149287 TAAATAATAA
*
149297 AAAATATAATATGATAT-AATAAAAAATATATT
1 AAAAT-TAATATAATATAAATAAAAAATATATT
* * **
149329 AAAATTTATATAATATAAATTATTAATATATT
1 AAAATTAATATAATATAAATAAAAAATATATT
*
149361 AAAATTGATATAAATATAAA
1 AAAATTAATAT-AATATAAA
149381 ATATTTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 9 0.20
32 27 0.61
33 8 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (32 bp):
AAAATTAATATAATATAAATAAAAAATATATT
Found at i:149344 original size:17 final size:17
Alignment explanation
Indices: 149324--149382 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 17
149314 AATAAAAAAT
149324 ATATTAAAATTTATATA
1 ATATTAAAATTTATATA
*
149341 ATA-TAAATTATTA-AT-
1 ATATTAAAAT-TTATATA
*
149356 ATATTAAAATTGATATA
1 ATATTAAAATTTATATA
149373 A-ATATAAAAT
1 ATAT-TAAAAT
149383 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
15 5 0.15
16 16 0.47
17 13 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATATTAAAATTTATATA
Found at i:149363 original size:16 final size:14
Alignment explanation
Indices: 149321--149372 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
149311 TATAATAAAA
149321 AATATATTAAAATT
1 AATATATTAAAATT
*
149335 TATATAATATAAATTATT
1 AATAT-AT-TAAA--ATT
149353 AATATATTAAAATT
1 AATATATTAAAATT
*
149367 GATATA
1 AATATA
149373 AATATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 12 0.39
15 2 0.06
16 8 0.26
17 2 0.06
18 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
AATATATTAAAATT
Found at i:149377 original size:18 final size:16
Alignment explanation
Indices: 149328--149382 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
149318 AAAAATATAT
149328 TAAAATT-TATATAATA
1 TAAAATTATATA-AATA
149344 T-AAATTAT-TAATATA
1 TAAAATTATATAA-ATA
149359 TTAAAATTGATATAAATA
1 -TAAAATT-ATATAAATA
149377 TAAAAT
1 TAAAAT
149383 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
14 1 0.03
15 10 0.30
16 3 0.09
17 11 0.33
18 5 0.15
19 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
TAAAATTATATAAATA
Found at i:151089 original size:9 final size:9
Alignment explanation
Indices: 151073--151174 Score: 73
Period size: 9 Copynumber: 10.8 Consensus size: 9
151063 TATTATTAAC
151073 TTTATATAT
1 TTTATATAT
*
151082 TTTTTATAT
1 TTTATATAT
151091 TTTATATTAT
1 TTTATA-TAT
151101 ATTTATATAT
1 -TTTATATAT
*
151111 TTAATATAT
1 TTTATATAT
*
151120 TATAATTATAT
1 T-TTA-TATAT
* *
151131 TTAAAATA-
1 TTTATATAT
151139 TTTATATA-
1 TTTATATAT
*
151147 ATTATATTAT
1 TTTATA-TAT
151157 ATTTATATTAT
1 -TTTATA-TAT
151168 TTTATAT
1 TTTATAT
151175 TATATTTTAA
Statistics
Matches: 78, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
8 11 0.14
9 28 0.36
10 18 0.23
11 21 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTATATAT
Found at i:151102 original size:5 final size:5
Alignment explanation
Indices: 151092--151223 Score: 78
Period size: 5 Copynumber: 25.8 Consensus size: 5
151082 TTTTTATATT
* **
151092 TTATA TTATA TT-TA -TATA TT-TA ATATA TTATAA TTATA TT-TA AAATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA
* *
151139 TT-TA -TATAA TTATA TTATA TTTATA TTATT TTATA TTATA TTTTAA
1 TTATA TTAT-A TTATA TTATA -TTATA TTATA TTATA TTATA TTAT-A
* *
151185 TTATTT TTAATA TTATA TTTATA TCATATA TAATA TTAT
1 TTA-TA TT-ATA TTATA -TTATA T--TATA TTATA TTAT
151224 CAAGTTCACT
Statistics
Matches: 98, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
3 2 0.02
4 12 0.12
5 51 0.52
6 26 0.27
7 7 0.07
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:151105 original size:11 final size:11
Alignment explanation
Indices: 151077--151223 Score: 108
Period size: 11 Copynumber: 14.3 Consensus size: 11
151067 ATTAACTTTA
151077 TATATTT-T-T
1 TATATTTATAT
151086 TATATTTTATAT
1 TATA-TTTATAT
151098 TATA-TT-TA-
1 TATATTTATAT
151106 TATATTTA-A-
1 TATATTTATAT
151115 TATA-TTATAAT
1 TATATTTAT-AT
151126 TATATTTA-A-
1 TATATTTATAT
*
151135 AATATTTATA-
1 TATATTTATAT
151145 TA-A-TTATAT
1 TATATTTATAT
151154 TATATTTATAT
1 TATATTTATAT
151165 TAT-TTTATAT
1 TATATTTATAT
151175 TATATTT-TAAT
1 TATATTTAT-AT
*
151186 TATTTTTAATAT
1 TATATTT-ATAT
151198 TATATTTATAT
1 TATATTTATAT
* *
151209 CATATATAATAT
1 TATAT-TTATAT
151221 TAT
1 TAT
151224 CAAGTTCACT
Statistics
Matches: 113, Mismatches: 7, Indels: 33
0.74 0.05 0.22
Matches are distributed among these distances:
8 12 0.11
9 23 0.20
10 21 0.19
11 33 0.29
12 23 0.20
13 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATTTATAT
Found at i:151105 original size:29 final size:28
Alignment explanation
Indices: 151073--151208 Score: 107
Period size: 29 Copynumber: 4.6 Consensus size: 28
151063 TATTATTAAC
151073 TTTATATATTTTTTATATTTTATATTATA
1 TTTATATATTTTTTATATTTTA-ATTATA
** *
151102 TTTATATATTTAATATATTATAATTATA
1 TTTATATATTTTTTATATTTTAATTATA
* * *
151130 TTTA-A-AATATTTATATAATTATATTATA
1 TTTATATATTTTTTATAT-TTTA-ATTATA
*
151158 TTTATATTATTTTATATTATATTTTAATTATT
1 TTTATA-TA-TTT-T-TTATATTTTAATTATA
151190 TTTA-ATATTATATTTATAT
1 TTTATATATT-T-TTTATAT
151209 CATATATAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
26 7 0.08
27 3 0.04
28 20 0.24
29 28 0.33
30 5 0.06
31 2 0.02
32 10 0.12
33 4 0.05
34 6 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTATATATTTTTTATATTTTAATTATA
Found at i:151145 original size:28 final size:27
Alignment explanation
Indices: 151084--151180 Score: 117
Period size: 28 Copynumber: 3.6 Consensus size: 27
151074 TTATATATTT
* *
151084 TTTATATTTTATATTATATTT-ATATA
1 TTTATATATTATATTATATTTAAAATA
151110 TTTAATATATTATAATTATATTTAAAATA
1 TTT-ATATATTAT-ATTATATTTAAAATA
* *
151139 TTTATATAATTATATTATATTTATATTA
1 TTTATAT-ATTATATTATATTTAAAATA
151167 TTT-TATATTATATT
1 TTTATATATTATATT
151181 TTAATTATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
26 11 0.17
27 11 0.17
28 29 0.46
29 12 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTATATATTATATTATATTTAAAATA
Found at i:151169 original size:37 final size:37
Alignment explanation
Indices: 151099--151171 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 37
151089 ATTTTATATT
151099 ATATTTATATATTTAATATATTATAATTATATTTAAA
1 ATATTTATATATTTAATATATTATAATTATATTTAAA
*
151136 ATATTTATATAATTATATTATATT-TATATTAT-TTTA
1 ATATTTATAT-ATT-TAATATATTATA-ATTATATTTA
151172 TATTATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
37 10 0.31
38 9 0.28
39 13 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (37 bp):
ATATTTATATATTTAATATATTATAATTATATTTAAA
Found at i:151223 original size:23 final size:22
Alignment explanation
Indices: 151077--151213 Score: 65
Period size: 21 Copynumber: 6.2 Consensus size: 22
151067 ATTAACTTTA
* *
151077 TATATTT-TTTATATTTTATAT
1 TATATTTATATATATTTAATAT
*
151098 TATATTTATATAT-TTAATATAT
1 TATATTTATATATATTTA-ATAT
* **
151120 TATAATTATAT-T-TAAAATATT
1 TATATTTATATATATTTAATA-T
151141 TATATAATTATATTATATTT-ATAT
1 TATAT--TTATA-TATATTTAATAT
*
151165 TAT-TTTATATTATATTTTA-AT
1 TATATTTATA-TATATTTAATAT
*
151186 TATTTTTAATATTATATTT-ATAT
1 TATATTT-ATA-TATATTTAATAT
*
151209 CATAT
1 TATAT
151214 ATAATATTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.03
21 36 0.38
22 23 0.24
23 22 0.23
24 5 0.05
25 4 0.04
26 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (22 bp):
TATATTTATATATATTTAATAT
Found at i:151486 original size:23 final size:25
Alignment explanation
Indices: 151460--151506 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
151450 AATTAGTACA
*
151460 ATTTTT-TAAAAATTAAT-TAATAT
1 ATTTTTATAAAAATAAATATAATAT
*
151483 ATTTTTATAATAATAAATATAATA
1 ATTTTTATAAAAATAAATATAATA
151507 ATTAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 9 0.45
25 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTTTATAAAAATAAATATAATAT
Found at i:152223 original size:13 final size:13
Alignment explanation
Indices: 152205--152255 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
152195 AAATAAAAGA
152205 AAAAATATAAAAT
1 AAAAATATAAAAT
**
152218 AAAAATATATTAT
1 AAAAATATAAAAT
*
152231 AAAAA-ATTAAAT
1 AAAAATATAAAAT
152243 AATAAATAATAAA
1 AA-AAAT-ATAAA
152256 TTTTGTGAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
12 6 0.21
13 19 0.66
15 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAAATATAAAAT
Found at i:152235 original size:19 final size:17
Alignment explanation
Indices: 152182--152234 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
152172 ATCCTATGAA
152182 AAAAATATATATAAAAT
1 AAAAATATATATAAAAT
* *
152199 AAAAGAAAAAATATAAAAT
1 -AAA-AATATATATAAAAT
152218 AAAAATATATTATAAAA
1 AAAAATATA-TATAAAA
152235 AATTAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.14
18 13 0.45
19 12 0.41
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAAATATATATAAAAT
Found at i:152250 original size:39 final size:39
Alignment explanation
Indices: 152180--152255 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
152170 TCATCCTATG
*
152180 AAAAAAATATATATAAAATAAAAGAAAAAAT-ATAAAAT
1 AAAAAAATATATAAAAAATAAAAGAAAAAATAATAAAAT
* * * *
152218 AAAAATATATTATAAAAAATTAAATAATAAATAATAAA
1 AAAAAAATA-TATAAAAAATAAAAGAAAAAATAATAAA
152256 TTTTGTGAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 8 0.26
39 18 0.58
40 5 0.16
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (39 bp):
AAAAAAATATATAAAAAATAAAAGAAAAAATAATAAAAT
Found at i:152352 original size:2 final size:2
Alignment explanation
Indices: 152345--152373 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
152335 ATTTGCCTAG
152345 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
152374 TTATTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:152421 original size:6 final size:6
Alignment explanation
Indices: 152398--152449 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
152388 ATAATATGAT
* * *
152398 TAAATAA TATAAA T-AAAA TAAAAA TATAATA TAAAAA TAAAAA TAAATA
1 TAAA-AA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA TAAAAA TAAAAA
152447 TAA
1 TAA
152450 TTTAAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
5 4 0.11
6 26 0.68
7 8 0.21
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (6 bp):
TAAAAA
Found at i:152424 original size:30 final size:31
Alignment explanation
Indices: 152390--152449 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
152380 AATTAGATAT
* *
152390 AATATGAT-TAAATAATATAAATAAA-ATAAA
1 AATATAATATAAA-AATAAAAATAAATATAAA
152420 AATATAATATAAAAATAAAAATAAATATAA
1 AATATAATATAAAAATAAAAATAAATATAA
152450 TTTAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (31 bp):
AATATAATATAAAAATAAAAATAAATATAAA
Found at i:152440 original size:25 final size:24
Alignment explanation
Indices: 152401--152467 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 24
152391 ATATGATTAA
152401 ATAATAT--AAAT-AAAATAAAAAT
1 ATAATATAAAAATAAAAAT-AAAAT
152423 ATAATATAAAAATAAAAAT-AAAT
1 ATAATATAAAAATAAAAATAAAAT
*
152446 ATAATTTAAATATATAAAAATA
1 ATAATATAAA-A-ATAAAAATA
152468 TTAAAATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
22 7 0.18
23 13 0.34
24 5 0.13
25 13 0.34
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
ATAATATAAAAATAAAAATAAAAT
Found at i:152554 original size:10 final size:11
Alignment explanation
Indices: 152535--152565 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
152525 TAAACACGAT
152535 TATAATATAAA
1 TATAATATAAA
152546 TAT-ATATAAA
1 TATAATATAAA
152556 TATAATATAA
1 TATAATATAA
152566 TTACACGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TATAATATAAA
Found at i:152783 original size:21 final size:20
Alignment explanation
Indices: 152748--152796 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
152738 ACTATAACGT
*
152748 AATATAATATATATAAAATA
1 AATAAAATATATATAAAATA
* *
152768 ATTAAAATATGATATAATATA
1 AATAAAATAT-ATATAAAATA
152789 AATAAAAT
1 AATAAAAT
152797 TTTATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AATAAAATATATATAAAATA
Found at i:152836 original size:16 final size:16
Alignment explanation
Indices: 152815--152880 Score: 53
Period size: 16 Copynumber: 4.2 Consensus size: 16
152805 TTTATAATAT
152815 AAATTATTATATATTA
1 AAATTATTATATATTA
* * *
152831 AAATTAATATAAATAA
1 AAATTATTATATATTA
* *
152847 AAAATATTATA-ACTA
1 AAATTATTATATATTA
* * *
152862 TAATTATAATATAATA
1 AAATTATTATATATTA
152878 AAA
1 AAA
152881 AATATAAAAT
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
15 10 0.27
16 27 0.73
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTATTATATATTA
Found at i:152855 original size:32 final size:32
Alignment explanation
Indices: 152807--152885 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
152797 TTTATAATTT
* * *
152807 TATAATATAAATTATTATATATTAAAA-T-TAA
1 TATAATAAAAAATATTATA-ACTAAAATTATAA
*
152838 TATAAATAAAAAATATTATAACTATAATTATAA
1 TAT-AATAAAAAATATTATAACTAAAATTATAA
152871 TATAATAAAAAATAT
1 TATAATAAAAAATAT
152886 AAAATAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 8 0.20
32 27 0.66
33 6 0.15
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (32 bp):
TATAATAAAAAATATTATAACTAAAATTATAA
Found at i:152867 original size:47 final size:48
Alignment explanation
Indices: 152747--152905 Score: 120
Period size: 47 Copynumber: 3.4 Consensus size: 48
152737 TACTATAACG
* * *
152747 TAATAT-AATATATATAAAAT-AATTAAAATATGATATAATATAA-ATAAAA
1 TAATATAAATAT-TATAATATAAATTATAATAT-A-ATAA-AAAATATAAAA
** * * *
152796 TTTTAT-AATTTTATAATATAAATTATTATATATTAAAATTAATAT-AAA
1 TAATATAAATATTATAATATAAATTATAATATAATAAAA--AATATAAAA
152844 TAA-A-AAATATTATAACTAT-AATTATAATATAATAAAAAATATAAAA
1 TAATATAAATATTATAA-TATAAATTATAATATAATAAAAAATATAAAA
152890 TAATATAAATA-TATAA
1 TAATATAAATATTATAA
152906 ATTATCACAT
Statistics
Matches: 88, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
45 5 0.06
46 7 0.08
47 35 0.40
48 22 0.25
49 19 0.22
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (48 bp):
TAATATAAATATTATAATATAAATTATAATATAATAAAAAATATAAAA
Found at i:152886 original size:17 final size:17
Alignment explanation
Indices: 152830--152905 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
152820 ATTATATATT
152830 AAAAT-TAATATAAATAA
1 AAAATATAATAT-AATAA
152847 AAAATAT--TATAACT-A
1 AAAATATAATATAA-TAA
* *
152862 TAATTATAATATAATAA
1 AAAATATAATATAATAA
*
152879 AAAATATAAAATAATATA
1 AAAATATAATATAATA-A
*
152897 AATATATAA
1 AAAATATAA
152906 ATTATCACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
15 8 0.17
16 5 0.11
17 24 0.51
18 10 0.21
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATATAATATAATAA
Found at i:152897 original size:33 final size:33
Alignment explanation
Indices: 152831--152902 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
152821 TTATATATTA
*
152831 AAAT-TAATATAAATAAAAAATATTATAACTAT
1 AAATATAATATAAATAAAAAATATAATAACTAT
*
152863 AATTATAATAT-AATAAAAAATATAAAATAA-TAT
1 AAATATAATATAAATAAAAAATAT--AATAACTAT
152896 AAATATA
1 AAATATA
152903 TAAATTATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 15 0.44
33 15 0.44
34 4 0.12
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (33 bp):
AAATATAATATAAATAAAAAATATAATAACTAT
Found at i:153398 original size:21 final size:21
Alignment explanation
Indices: 153367--153421 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
153357 ATATAATCAT
* **
153367 TAATTTATTTTATCGTTACAA
1 TAATTAATTTTATCAATACAA
* *
153388 TAATTAGTTTTATCAATATAA
1 TAATTAATTTTATCAATACAA
153409 TAATTAATTTTAT
1 TAATTAATTTTAT
153422 ATTACTTACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (21 bp):
TAATTAATTTTATCAATACAA
Found at i:154738 original size:112 final size:112
Alignment explanation
Indices: 154593--154806 Score: 385
Period size: 112 Copynumber: 1.9 Consensus size: 112
154583 TATCTAATGG
*
154593 AACTTATCGAATCTAATAAACTATACAAGTCGACAAACCTAATCATAACAATGCATTATAACCTC
1 AACTTATCGAATCTAATAAACTATACAACTCGACAAACCTAATCATAACAATGCATTATAACCTC
154658 -TATCTAAATCTTGCTTCAAACACCCAAACAAGCTTAGTATCGAACCA
66 TTATCTAAATCTTGCTTCAAACACCCAAACAAG-TTAGTATCGAACCA
*
154705 AACTTATCGAATCTAATAAACTATACAACTCGACAAATCTAATCATAACAATGCATTATAACCTC
1 AACTTATCGAATCTAATAAACTATACAACTCGACAAACCTAATCATAACAATGCATTATAACCTC
*
154770 TTATCTAAATCTTGCTTCAAACACCCAAGCAAGTTAG
66 TTATCTAAATCTTGCTTCAAACACCCAAACAAGTTAG
154807 ACCTACCATG
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
112 67 0.68
113 31 0.32
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (112 bp):
AACTTATCGAATCTAATAAACTATACAACTCGACAAACCTAATCATAACAATGCATTATAACCTC
TTATCTAAATCTTGCTTCAAACACCCAAACAAGTTAGTATCGAACCA
Found at i:154882 original size:2 final size:2
Alignment explanation
Indices: 154875--154910 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
154865 GTTTTACCTC
154875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
154911 TAAAGTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:155396 original size:16 final size:16
Alignment explanation
Indices: 155334--155387 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
155324 AGTCGTTCAG
*
155334 GATTCAAATCATTTTA
1 GATTTAAATCATTTTA
* *
155350 -AGTTTAGATAATTTTA
1 GA-TTTAAATCATTTTA
*
155366 GATTTAAATCATTTTG
1 GATTTAAATCATTTTA
155382 GATTTA
1 GATTTA
155388 TATTATTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (16 bp):
GATTTAAATCATTTTA
Found at i:156431 original size:8 final size:8
Alignment explanation
Indices: 156418--156451 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
156408 TATTTCTATG
*
156418 TACATACA
1 TACATATA
156426 TACATATA
1 TACATATA
*
156434 TATATATA
1 TACATATA
156442 TACATATA
1 TACATATA
156450 TA
1 TA
156452 TTTGTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (8 bp):
TACATATA
Found at i:157171 original size:3 final size:3
Alignment explanation
Indices: 157163--157197 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
157153 TAAAATAGTT
157163 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
157198 TTGTAAAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:157372 original size:17 final size:17
Alignment explanation
Indices: 157342--157385 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
157332 TAAAAAAATT
*
157342 TAAA-TTTTAATATTTA
1 TAAATTTTTATTATTTA
*
157358 TAAATTTTTATTATTTT
1 TAAATTTTTATTATTTA
*
157375 TAAGTTTTTAT
1 TAAATTTTTAT
157386 AAGTGTTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TAAATTTTTATTATTTA
Found at i:162102 original size:2 final size:2
Alignment explanation
Indices: 162095--162132 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
162085 TTTAGTATGC
*
162095 AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
162133 CCAGGCCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:165121 original size:22 final size:23
Alignment explanation
Indices: 165077--165123 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
165067 CTGAAAATTT
* *
165077 AAATTACTATTTATAAATTATTAA
1 AAATTAATATTTAT-AATAATTAA
165101 AAATTAATATTTAT-ATAATTAA
1 AAATTAATATTTATAATAATTAA
165123 A
1 A
165124 TTTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
24 13 0.62
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATTAATATTTATAATAATTAA
Found at i:168315 original size:17 final size:17
Alignment explanation
Indices: 168293--168343 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
168283 TTTTTATATT
168293 AAATAATTAAAAAATAA
1 AAATAATTAAAAAATAA
168310 AAATAATTAAAAAATAA
1 AAATAATTAAAAAATAA
* *
168327 AAAT-TTTAAAATATAA
1 AAATAATTAAAAAATAA
168343 A
1 A
168344 TAAATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 11 0.34
17 21 0.66
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAATTAAAAAATAA
Found at i:168329 original size:24 final size:25
Alignment explanation
Indices: 168290--168376 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 25
168280 TATTTTTTAT
* *
168290 ATTAAATAATTAAAAAATAAAAATA
1 ATTAAATAAATAAAAATTAAAAATA
*
168315 ATTAAA-AAATAAAAATTTTAAAAT-
1 ATTAAATAAATAAAAA-TTAAAAATA
**
168339 A-TAAATAAATAAATTTTAAAAA-A
1 ATTAAATAAATAAAAATTAAAAATA
168362 TATTAAA-AAATAAAA
1 -ATTAAATAAATAAAA
168377 TAGAAAGCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
23 10 0.20
24 24 0.48
25 16 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
ATTAAATAAATAAAAATTAAAAATA
Found at i:168375 original size:17 final size:17
Alignment explanation
Indices: 168293--168376 Score: 68
Period size: 17 Copynumber: 5.1 Consensus size: 17
168283 TTTTTATATT
168293 AAATAATTAAAAAAT-AA
1 AAAT-ATTAAAAAATAAA
168310 AAATAATTAAAAAAT-AA
1 AAAT-ATTAAAAAATAAA
* *
168327 AAATTTTAAAATATAAA
1 AAATATTAAAAAATAAA
* ***
168344 TAA-A-TAAATTTTAAA
1 AAATATTAAAAAATAAA
168359 AAATATTAAAAAATAAA
1 AAATATTAAAAAATAAA
168376 A
1 A
168377 TAGAAAGCCT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
15 11 0.20
16 9 0.17
17 34 0.63
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATATTAAAAAATAAA
Found at i:171124 original size:225 final size:219
Alignment explanation
Indices: 170729--171147 Score: 517
Period size: 225 Copynumber: 1.9 Consensus size: 219
170719 CCAAACGGAC
* *
170729 AAAAAAGTTTTCATGCATCAAGAAACCAGATTGCTCAAAAATTCACAGGCATAAAATCAAAACTG
1 AAAAAAGCTTTCATGCATCAAGAAACCAGATTGCTCAAAAATTCACAAGCATAAAATCAAAACTG
* * *
170794 TAGAACACTAAAGAAATTTTGTTATTCCTCAAATATTTACATGAAAAGACTAAGCAGGAAATTTC
66 TACAACAATAAAGAAATTTTGTTATTCCTCAAATATGTACATGAAAAGACTAAGCAGGAAATTTC
* * **
170859 ATAAGATAGGATACACGACAGATATTACTACACGAAACACTTGTATATCTATTTCAGGGCAAGAA
131 ATAAGATAGGATACACGAAAGATATTACTACACAAAACACTCATATATCTATTTCAGGGCAAGAA
170924 AGATTGTAAACAGGGATTAAGAGA
196 AGATTGTAAACAGGGATTAAGAGA
* * * *
170948 AAAAGAAGCTTTCATGCATTAAGAAACCAGATTGCTCAAAATTTCATATAAGCATAACATCAAAA
1 AAAA-AAGCTTTCATGCATCAAGAAACCAGATTGCTCAAAAATTC--ACAAGCATAAAATCAAAA
** *
171013 CTGT-CAACAATAGAA-AAATTTTGTTATGT-CTCAGAATAAATGTACAT-AGCAGACATTATGC
63 CTGTACAACAATA-AAGAAATTTTGTTAT-TCCTCA-AAT--ATGTACATGAAAAGAC--TAAG-
* * *
171074 CA-GAAATTTC-TCAAGATAGGATACATGAAATATGTTACTACACAAAACACTCATATATCTATT
120 CAGGAAATTTCAT-AAGATAGGATACACGAAAGATATTACTACACAAAACACTCATATATCTATT
171137 TCAGGGCAAGA
184 TCAGGGCAAGA
171148 GAGAAAAAGA
Statistics
Matches: 169, Mismatches: 19, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
219 4 0.02
220 37 0.22
221 22 0.13
222 25 0.15
223 5 0.03
224 8 0.05
225 66 0.39
226 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (219 bp):
AAAAAAGCTTTCATGCATCAAGAAACCAGATTGCTCAAAAATTCACAAGCATAAAATCAAAACTG
TACAACAATAAAGAAATTTTGTTATTCCTCAAATATGTACATGAAAAGACTAAGCAGGAAATTTC
ATAAGATAGGATACACGAAAGATATTACTACACAAAACACTCATATATCTATTTCAGGGCAAGAA
AGATTGTAAACAGGGATTAAGAGA
Found at i:178145 original size:15 final size:18
Alignment explanation
Indices: 178121--178157 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
178111 AGCCGAAAGT
178121 AAAAGTGC-TTTTA-AAA
1 AAAAGTGCTTTTTATAAA
178137 AAAAG-GCTTTTTATAAA
1 AAAAGTGCTTTTTATAAA
178154 AAAA
1 AAAA
178158 TAAATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.11
16 10 0.53
17 7 0.37
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (18 bp):
AAAAGTGCTTTTTATAAA
Found at i:178299 original size:31 final size:32
Alignment explanation
Indices: 178240--178329 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 32
178230 AAAAATATGA
* *
178240 TTATAATAAAAATATATAAATATTTTAAAATT
1 TTATAATATAAATATATAAATATATTAAAATT
* *
178272 TTATGATATAAAT-TATTAATATATTAAAATT
1 TTATAATATAAATATATAAATATATTAAAATT
*
178303 TTATAAATATAAAATAATTTAAATATA
1 TTAT-AATAT-AAAT-ATATAAATATA
178330 ATTATTTATG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
31 20 0.43
32 15 0.32
33 4 0.09
35 8 0.17
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (32 bp):
TTATAATATAAATATATAAATATATTAAAATT
Found at i:178315 original size:16 final size:16
Alignment explanation
Indices: 178265--178330 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
178255 ATAAATATTT
*
178265 TAAAATTTTAT-GATA
1 TAAAATTTTATAAATA
*
178280 T-AAATTATTA-ATATA
1 TAAAATT-TTATAAATA
178295 TTAAAATTTTATAAATA
1 -TAAAATTTTATAAATA
*
178312 TAAAATAATT-TAAATA
1 TAAAAT-TTTATAAATA
178328 TAA
1 TAA
178331 TTATTTATGA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
14 5 0.12
15 7 0.17
16 19 0.45
17 11 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TAAAATTTTATAAATA
Found at i:178539 original size:17 final size:17
Alignment explanation
Indices: 178519--178568 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
178509 TAAATTAATT
178519 AAATTTTTTAATTTTTA
1 AAATTTTTTAATTTTTA
* *
178536 AAATATTTTAA--ATTA
1 AAATTTTTTAATTTTTA
178551 AAATTATTTT-ATTTTTA
1 AAATT-TTTTAATTTTTA
178568 A
1 A
178569 GTTATTTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 8 0.31
16 4 0.15
17 14 0.54
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATTTTTTAATTTTTA
Found at i:178573 original size:16 final size:16
Alignment explanation
Indices: 178524--178600 Score: 57
Period size: 16 Copynumber: 4.8 Consensus size: 16
178514 TAATTAAATT
**
178524 TTTTAATTTTTAAAATA
1 TTTTAA-TTTTAAGTTA
* * *
178541 TTTTAAATTAAAATTA
1 TTTTAATTTTAAGTTA
*
178557 TTTTATTTTTAAGTTA
1 TTTTAATTTTAAGTTA
* *
178573 TTTTGGA-TTTAAGTAA
1 TTTT-AATTTTAAGTTA
178589 TTTTAATTTTAA
1 TTTTAATTTTAA
178601 ATAATTAAAC
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
15 1 0.02
16 40 0.85
17 6 0.13
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (16 bp):
TTTTAATTTTAAGTTA
Found at i:178627 original size:22 final size:20
Alignment explanation
Indices: 178591--178636 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
178581 TTAAGTAATT
*
178591 TTAATTTTAAATAATTAAAC
1 TTAATTTTAAATAATCAAAC
*
178611 TTAATATTTAAATTAATCAAAT
1 TTAAT-TTTAAA-TAATCAAAC
178633 TTAA
1 TTAA
178637 CACTTGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 6 0.27
22 11 0.50
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAATTTTAAATAATCAAAC
Found at i:178836 original size:21 final size:21
Alignment explanation
Indices: 178794--178834 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
178784 ATCAAATTAA
*
178794 ATTAAATCGAATTTAAATTTT
1 ATTAAATCGAATTAAAATTTT
*
178815 ATTAAAT-TAATTAAAATTTT
1 ATTAAATCGAATTAAAATTTT
178835 TAAATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTAAATCGAATTAAAATTTT
Found at i:178967 original size:12 final size:13
Alignment explanation
Indices: 178950--178979 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
178940 AAAAGCCACC
178950 AAAAATTAAAAA-
1 AAAAATTAAAAAG
178962 AAAAATTAAAAAG
1 AAAAATTAAAAAG
178975 AAAAA
1 AAAAA
178980 GAAAGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAATTAAAAAG
Found at i:179190 original size:18 final size:19
Alignment explanation
Indices: 179167--179256 Score: 100
Period size: 18 Copynumber: 4.8 Consensus size: 19
179157 ATAATTTGAG
179167 TATTTATATAATATTTAT-
1 TATTTATATAATATTTATA
*
179185 TATTTATATTATATTTATA
1 TATTTATATAATATTTATA
*
179204 TATTT-TATTATA-TTATA
1 TATTTATATAATATTTATA
179221 -ATTATATATAAAATATTTATA
1 TATT-TATAT--AATATTTATA
179242 TATTTATATAA-ATTT
1 TATTTATATAATATTT
179257 TAATATTTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 14
0.80 0.03 0.18
Matches are distributed among these distances:
16 3 0.05
17 6 0.10
18 31 0.49
19 7 0.11
20 3 0.05
21 10 0.16
22 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTATATAATATTTATA
Found at i:179196 original size:23 final size:27
Alignment explanation
Indices: 179170--179230 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
179160 ATTTGAGTAT
179170 TTATATA-ATA-TTTATTAT-TTAT-A
1 TTATATATATATTTTATTATATTATAA
179193 TTATATTTATATATTTTATTATATTATAA
1 TTATA--TATATATTTTATTATATTATAA
179222 TTATATATA
1 TTATATATA
179231 AAATATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
23 5 0.16
25 2 0.06
26 3 0.09
27 12 0.38
28 4 0.12
29 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TTATATATATATTTTATTATATTATAA
Found at i:179200 original size:29 final size:29
Alignment explanation
Indices: 179167--179250 Score: 104
Period size: 29 Copynumber: 2.9 Consensus size: 29
179157 ATAATTTGAG
179167 TATTTATATAATATTTATTATTTATATTA
1 TATTTATATAATATTTATTATTTATATTA
179196 TATTTATAT-AT-TTTATTATATTATAATTA
1 TATTTATATAATATTTATTAT-TTAT-ATTA
*
179225 TA--TATAAAATATTTATATATTTATAT
1 TATTTATATAATATTTAT-TATTTATAT
179251 AAATTTTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
27 12 0.24
28 10 0.20
29 24 0.49
30 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TATTTATATAATATTTATTATTTATATTA
Found at i:179207 original size:8 final size:8
Alignment explanation
Indices: 179194--179251 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
179184 TTATTTATAT
179194 TATATTTA
1 TATATTTA
179202 TATATTT-
1 TATATTTA
179209 TATTATATTA
1 TA-TAT-TTA
179219 TA-A-TTA
1 TATATTTA
*
179225 TATA-TAA
1 TATATTTA
*
179232 AATATTTA
1 TATATTTA
179240 TATATTTA
1 TATATTTA
179248 TATA
1 TATA
179252 AATTTTAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 5 0.12
7 8 0.20
8 24 0.59
9 2 0.05
10 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATTTA
Found at i:179262 original size:18 final size:18
Alignment explanation
Indices: 179167--179291 Score: 61
Period size: 18 Copynumber: 7.0 Consensus size: 18
179157 ATAATTTGAG
*
179167 TATTTATAT-AATATTTAT
1 TATTTATATAAAT-TTTAA
*
179185 TATTTATAT-TATATTTATA
1 TATTTATATAAAT-TTTA-A
* *
179204 TATTT-TATTATATTATAA
1 TATTTATA-TAAATTTTAA
*
179222 T-TATATATAAAATATTTATA
1 TATTTATAT-AAAT-TTTA-A
179242 TATTTATATAAATTTTAA
1 TATTTATATAAATTTTAA
*
179260 TATTT-TA-ATAA-TTT-G
1 TATTTATATA-AATTTTAA
179275 TA-TTATATAAATTTTAA
1 TATTTATATAAATTTTAA
179292 AAAATTATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 27
0.70 0.07 0.22
Matches are distributed among these distances:
14 2 0.02
15 6 0.07
16 8 0.09
17 7 0.08
18 31 0.36
19 16 0.19
20 9 0.11
21 6 0.07
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
TATTTATATAAATTTTAA
Found at i:180133 original size:18 final size:17
Alignment explanation
Indices: 180108--180160 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 17
180098 TTAATTATTT
180108 TTTAATTAATATTAAAA
1 TTTAATTAATATTAAAA
180125 TTTATATTAATATTTAATTAA
1 TTTA-ATTAATA-TTAA--AA
180146 TTTAATTAAT-TTAAA
1 TTTAATTAATATTAAA
180161 TATAAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 11 0.34
19 4 0.12
20 6 0.19
21 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAATTAATATTAAAA
Found at i:180154 original size:32 final size:31
Alignment explanation
Indices: 180096--180192 Score: 74
Period size: 32 Copynumber: 3.0 Consensus size: 31
180086 AGTTTATAAT
* *
180096 TATTAATTATTTTTTAATTAATATTAAAATTTA
1 TATTAA-TATTTATTAATTTA-ATTAAAATTTA
180129 TATTAATATTTAATTAATTTAATT--AATTTAAA
1 TATTAATATTT-ATTAATTTAATTAAAATTT--A
* *
180161 TATAAATATTTTATTAA-TTAAATAATAATTTA
1 TATTAATA-TTTATTAATTTAATTAA-AATTTA
180193 AATCTATTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
30 5 0.09
31 5 0.09
32 22 0.42
33 16 0.30
34 5 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TATTAATATTTATTAATTTAATTAAAATTTA
Found at i:180216 original size:36 final size:37
Alignment explanation
Indices: 180176--180252 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 37
180166 ATATTTTATT
180176 AATTAAATAAT-AATTTAAATCT-ATTTAAATAAAATA
1 AATTAAATAATAAATTT-AATCTAATTTAAATAAAATA
* * *
180212 AATT-ATTATTAAATTTAATCTAATTTAAATTAAATA
1 AATTAAATAATAAATTTAATCTAATTTAAATAAAATA
180248 AATTA
1 AATTA
180253 CTTAATTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 9 0.26
36 26 0.74
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (37 bp):
AATTAAATAATAAATTTAATCTAATTTAAATAAAATA
Found at i:180890 original size:44 final size:44
Alignment explanation
Indices: 180827--180917 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
180817 GTGTAAGATC
* *
180827 TATTATTTAATTAATAAAATCATATTTGTAAAATATAATAAAAA
1 TATTATTTAATTAAGAAAATCATATTTATAAAATATAATAAAAA
* * * *
180871 TATTATTTAATTAGGAAAATTATATTTATAAATTATAATAAAGA
1 TATTATTTAATTAAGAAAATCATATTTATAAAATATAATAAAAA
180915 TAT
1 TAT
180918 AATTATATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (44 bp):
TATTATTTAATTAAGAAAATCATATTTATAAAATATAATAAAAA
Found at i:180906 original size:30 final size:31
Alignment explanation
Indices: 180888--180948 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
180878 TAATTAGGAA
180888 AATTATATTTATAAATTA-TAATAAAGATAT
1 AATTATATTTATAAATTATTAATAAAGATAT
180918 AATTATATTTATAAATTA-TAATAAAGATAT
1 AATTATATTTATAAATTATTAATAAAGATAT
180948 A
1 A
180949 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (31 bp):
AATTATATTTATAAATTATTAATAAAGATAT
Found at i:180957 original size:24 final size:24
Alignment explanation
Indices: 180891--180957 Score: 62
Period size: 30 Copynumber: 2.5 Consensus size: 24
180881 TTAGGAAAAT
* *
180891 TATATTTATAAATTATAATAAAGA
1 TATATTAAAAAATTATAATAAAGA
180915 TATAATTATATTTATAAATTATAATAAAGA
1 TAT-ATTA-A---A-AAATTATAATAAAGA
180945 TATATTAAAAAAT
1 TATATTAAAAAAT
180958 AAAGAACTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
24 7 0.20
25 4 0.11
26 1 0.03
28 1 0.03
29 4 0.11
30 18 0.51
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (24 bp):
TATATTAAAAAATTATAATAAAGA
Found at i:183937 original size:17 final size:17
Alignment explanation
Indices: 183915--183947 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
183905 TTTATCTCCC
183915 GAAAATATAATACGAAT
1 GAAAATATAATACGAAT
*
183932 GAAAATATCATACGAA
1 GAAAATATAATACGAA
183948 CATATCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
GAAAATATAATACGAAT
Found at i:184766 original size:21 final size:21
Alignment explanation
Indices: 184741--184781 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
184731 ATTTAAATTT
184741 AAATTATTATTTAT-TTATTAA
1 AAATTATT-TTTATATTATTAA
184762 AAATTATTTTTATATTATTA
1 AAATTATTTTTATATTATTA
184782 TTTTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
AAATTATTTTTATATTATTAA
Found at i:184781 original size:14 final size:14
Alignment explanation
Indices: 184764--184790 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
184754 TTTATTAAAA
184764 ATTATTTTTATATT
1 ATTATTTTTATATT
184778 ATTATTTTTATAT
1 ATTATTTTTATAT
184791 ATTTTATAAT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTATTTTTATATT
Found at i:184814 original size:32 final size:32
Alignment explanation
Indices: 184733--184814 Score: 83
Period size: 35 Copynumber: 2.5 Consensus size: 32
184723 ACATGTTCAT
*
184733 TTAAATTTAAATTATTATTTATTTATTAAAAA
1 TTAAATTTAAATTATTATTTATATATTAAAAA
** * * *
184765 TTATTTTTATATTATTATTTTTATATATTTTATAA
1 TTAAATTTAAATTATTA--TTTATATA-TTAAAAA
184800 TTAAATTTAAATTAT
1 TTAAATTTAAATTAT
184815 ATTATTTTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 14 0.37
34 7 0.18
35 17 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TTAAATTTAAATTATTATTTATATATTAAAAA
Found at i:186573 original size:12 final size:12
Alignment explanation
Indices: 186541--186576 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
186531 CAATAATTCG
186541 TTTATTTATAT-
1 TTTATTTATATA
186552 TTTATTTATATA
1 TTTATTTATATA
*
186564 TTTATATATATA
1 TTTATTTATATA
186576 T
1 T
186577 ATCATAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTATTTATATA
Found at i:187387 original size:2 final size:2
Alignment explanation
Indices: 187355--187413 Score: 68
Period size: 2 Copynumber: 30.5 Consensus size: 2
187345 ATTTATTTAA
* * * *
187355 AT AT AA AT AT A- AT AT AA AT AT AT AA AT -T AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
187395 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
187414 ATAGATAGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:188441 original size:13 final size:13
Alignment explanation
Indices: 188425--188467 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
188415 ATTTTTTTAA
188425 AATATTTATATTT
1 AATATTTATATTT
188438 AATATTTATATTT
1 AATATTTATATTT
188451 AATA--TATATTT
1 AATATTTATATTT
188462 AGATAT
1 A-ATAT
188468 AAATATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.29
12 3 0.11
13 17 0.61
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:189781 original size:20 final size:21
Alignment explanation
Indices: 189758--189796 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
189748 CTATATTTAA
189758 TATTTATTTAATA-TTAAAAT
1 TATTTATTTAATAGTTAAAAT
189778 TATTTATTTAATAGTTAAA
1 TATTTATTTAATAGTTAAA
189797 TTCTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTATTTAATAGTTAAAAT
Found at i:193688 original size:16 final size:15
Alignment explanation
Indices: 193650--193688 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 15
193640 AAATTTAAAA
193650 ATTATAAATTTTTAGT
1 ATTA-AAATTTTTAGT
193666 ATCTAAAATTTTTAGAT
1 AT-TAAAATTTTTAG-T
193683 ATTAAA
1 ATTAAA
193689 TAAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (15 bp):
ATTAAAATTTTTAGT
Found at i:194726 original size:13 final size:14
Alignment explanation
Indices: 194700--194743 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
194690 TTAAAACATG
194700 AAATTT-AT-AAAA
1 AAATTTAATAAAAA
194712 AAATTTAA-AAAAA
1 AAATTTAATAAAAA
*
194725 AAA-TAAATAAAAA
1 AAATTTAATAAAAA
194738 AAATTT
1 AAATTT
194744 TATTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 9 0.35
13 16 0.62
14 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATTTAATAAAAA
Found at i:195113 original size:12 final size:12
Alignment explanation
Indices: 195087--195124 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
195077 ACGAAAGGCC
**
195087 AAAAGAAAATCA
1 AAAAGAAAAAAA
195099 AAAAGAAAAAAA
1 AAAAGAAAAAAA
195111 AAAA-AAAAAAA
1 AAAAGAAAAAAA
195122 AAA
1 AAA
195125 GATTAACCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.89, C:0.03, G:0.05, T:0.03
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:196856 original size:2 final size:2
Alignment explanation
Indices: 196849--196891 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
196839 ACTTGTAAAC
196849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
196891 A
1 A
196892 AAAGTGGGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:198144 original size:3 final size:3
Alignment explanation
Indices: 198124--198216 Score: 145
Period size: 3 Copynumber: 31.7 Consensus size: 3
198114 ATATTATACT
* *
198124 ATA ATA ACA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
198172 ATA ATA ATA ATG AT- ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
198217 TATTATTATT
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
2 4 0.05
3 79 0.95
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:198221 original size:3 final size:3
Alignment explanation
Indices: 198215--198240 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
198205 AATAATAATA
198215 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
198241 AGGATGCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:206750 original size:17 final size:18
Alignment explanation
Indices: 206709--206825 Score: 67
Period size: 16 Copynumber: 6.8 Consensus size: 18
206699 TATATTATAA
206709 TTATATTTA-A-AATATT
1 TTATATTTATATAATATT
206725 TT-TATTTATATAA-ATT
1 TTATATTTATATAATATT
*
206741 TTATATTTATATACTACTAT
1 TTATATTTATATAATA-T-T
* *
206761 ATAAATTT-TA-AA-A-T
1 TTATATTTATATAATATT
*
206775 ATATATTTATATCATATATT
1 TTATATTTATAT-A-ATATT
206795 TTATAATTTATA-AATA--
1 TTAT-ATTTATATAATATT
*
206811 TTATATTTATTTAAT
1 TTATATTTATATAAT
206826 TATATTTAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
14 8 0.10
15 14 0.17
16 15 0.19
17 14 0.17
18 6 0.08
19 5 0.06
20 11 0.14
21 7 0.09
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATTTATATAATATT
Found at i:206751 original size:15 final size:16
Alignment explanation
Indices: 206709--206820 Score: 54
Period size: 15 Copynumber: 6.6 Consensus size: 16
206699 TATATTATAA
206709 TTATATTTA-AAATAT
1 TTATATTTATAAATAT
*
206724 TTTTATTTATATAA-ATT
1 TTATATTTATA-AATA-T
206741 TTATATTTATATACTACTAT
1 TTATATTTATA-A--A-TAT
* *
206761 ATAAATTT-TAAA-AT
1 TTATATTTATAAATAT
*
206775 ATATATTTATATCATATATT
1 TTATATTTATA--A-ATA-T
206795 TTATAATTTATAAATA-
1 TTAT-ATTTATAAATAT
206811 TTATATTTAT
1 TTATATTTAT
206821 TTAATTATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 28
0.69 0.05 0.25
Matches are distributed among these distances:
14 9 0.12
15 16 0.21
16 7 0.09
17 16 0.21
18 5 0.06
19 5 0.06
20 11 0.14
21 8 0.10
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATATTTATAAATAT
Found at i:206833 original size:29 final size:31
Alignment explanation
Indices: 206795--206867 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
206785 ATCATATATT
* *
206795 TTATAATTTATAAA-TATTATATTT-ATTTAA
1 TTAT-ATTTATAAATTATCAAATTTAATTTAA
206825 TTATATTTA-AAATTATCAAATTTAATTTAA
1 TTATATTTATAAATTATCAAATTTAATTTAA
206855 TATATTATTTATA
1 T-TA-TATTTATA
206868 CATGTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 3 0.08
29 13 0.36
30 11 0.31
31 2 0.06
32 6 0.17
33 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (31 bp):
TTATATTTATAAATTATCAAATTTAATTTAA
Found at i:207158 original size:2 final size:2
Alignment explanation
Indices: 207153--207180 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
207143 TATGTATTAA
207153 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
207181 GATTTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:207899 original size:90 final size:90
Alignment explanation
Indices: 207723--207904 Score: 303
Period size: 90 Copynumber: 2.0 Consensus size: 90
207713 AACAGTTCAG
* * *
207723 ATTATCTTGCATAAGATTTTACTATAAAGGATCGTTCCCTATGATAAAAAATACTCACTTTTTTA
1 ATTATCTTGCATAAGATTTTACCATAAAGCATCGTTCCCTATGATAAAAAACACTCACTTTTTTA
*
207788 AAAATTAAAATTTTAATTGGTAAGA
66 AAAATTAAAAATTTAATTGGTAAGA
*
207813 ATTATCTTGTATAAGATTTTACCATAAAGCATCGTTCCCTATGATAAAAAACACTCACTTTTCTT
1 ATTATCTTGCATAAGATTTTACCATAAAGCATCGTTCCCTATGATAAAAAACACTCACTTTT-TT
207878 AAAAATTAAAAATTTAA-TGGTAAGA
65 AAAAATTAAAAATTTAATTGGTAAGA
207903 AT
1 AT
207905 CCGATTCTCA
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
90 68 0.79
91 18 0.21
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (90 bp):
ATTATCTTGCATAAGATTTTACCATAAAGCATCGTTCCCTATGATAAAAAACACTCACTTTTTTA
AAAATTAAAAATTTAATTGGTAAGA
Found at i:207952 original size:69 final size:70
Alignment explanation
Indices: 207860--208022 Score: 229
Period size: 70 Copynumber: 2.3 Consensus size: 70
207850 CCTATGATAA
* * *
207860 AAAACACTCACTTTTCTTAAAAATTAAAAATTTA-ATGGTAAGAATCCGATTCTCATGTTTGTTA
1 AAAATACTCAC-TTTCTTGAAAATTAAAAATTTAGATGGTAAGAATACGATTCTCATGTTTGTTA
207924 TACCGG
65 TACCGG
* * * * *
207930 AAAATACTCACTCTCTTGAAAATTGAAATTTTAGTTGGTAAGAATATGATTCTCATGTTTGTTAT
1 AAAATACTCACTTTCTTGAAAATTAAAAATTTAGATGGTAAGAATACGATTCTCATGTTTGTTAT
207995 ACCGG
66 ACCGG
*
208000 AAAGTACTCACTTTCTTGAAAAT
1 AAAATACTCACTTTCTTGAAAAT
208023 GTCACATTCC
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
69 18 0.22
70 64 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (70 bp):
AAAATACTCACTTTCTTGAAAATTAAAAATTTAGATGGTAAGAATACGATTCTCATGTTTGTTAT
ACCGG
Found at i:213689 original size:2 final size:2
Alignment explanation
Indices: 213670--213709 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
213660 ATAAATAACT
* *
213670 TA TA TG TA TA TA TT 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
213710 AGATTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Done.