Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold90
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: 1653315
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 63894 characters in sequence are not A, C, G, or T
File 1 of 10
Found at i:4390 original size:2 final size:2
Alignment explanation
Indices: 4383--4410 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4373 AAGAATTATT
4383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4411 GAGAGAGAGA
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):
TA
Found at i:4415 original size:2 final size:2
Alignment explanation
Indices: 4410--4454 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4400 ATATATATAT
4410 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4452 AG A
1 AG A
4455 TATTTTCATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4508 original size:2 final size:2
Alignment explanation
Indices: 4501--4530 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4491 TTCTACCATA
4501 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
4531 GCACTAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4604 original size:2 final size:2
Alignment explanation
Indices: 4597--4642 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
4587 TTAGACCCCC
* *
4597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4639 AT AT
1 AT AT
4643 TATTCTATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5144 original size:16 final size:16
Alignment explanation
Indices: 5091--5130 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5081 ATATCATTAC
*
5091 TATTT-AATAAT-TAT
1 TATTTAAATAATAAAT
5105 TATTTAAATAATAAAT
1 TATTTAAATAATAAAT
5121 TATTTAAATA
1 TATTTAAATA
5131 TTTAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 6 0.26
16 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTAAATAATAAAT
Found at i:5520 original size:22 final size:22
Alignment explanation
Indices: 5495--5538 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
5485 TCATGTTAAC
5495 AAATATTGATATTAATATAAAA
1 AAATATTGATATTAATATAAAA
5517 AAATATTGATATTAATATAAAA
1 AAATATTGATATTAATATAAAA
5539 TCACATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (22 bp):
AAATATTGATATTAATATAAAA
Found at i:5590 original size:18 final size:17
Alignment explanation
Indices: 5567--5600 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
5557 ATATCAAACA
5567 TTAAAATAATGACAATTG
1 TTAAAATAATGA-AATTG
5585 TTAAAATAATGAAATT
1 TTAAAATAATGAAATT
5601 AAAATTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (17 bp):
TTAAAATAATGAAATTG
Found at i:9661 original size:6 final size:6
Alignment explanation
Indices: 9650--9681 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
9640 TACGATCAAG
9650 CCCTCC CCCTCC CCCTCC CCC-CC CCC-CC CCCT
1 CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCCT
9682 ACAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.00, C:0.88, G:0.00, T:0.12
Consensus pattern (6 bp):
CCCTCC
Found at i:9874 original size:16 final size:16
Alignment explanation
Indices: 9853--9916 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 16
9843 TGCTGTTAAA
9853 TTTAAAATAATATTAT
1 TTTAAAATAATATTAT
9869 TTTAAAATAAT-TTA-
1 TTTAAAATAATATTAT
*
9883 -TTAAAATATTATTAT
1 TTTAAAATAATATTAT
*
9898 TTTTAAATAA-ATT-T
1 TTTAAAATAATATTAT
9912 TTTAA
1 TTTAA
9917 CCACAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 9 0.22
14 8 0.20
15 6 0.15
16 18 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAAATAATATTAT
Found at i:9888 original size:29 final size:30
Alignment explanation
Indices: 9854--9916 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
9844 GCTGTTAAAT
9854 TTAAAATAATATTATTTTAAAAT-AATTTA
1 TTAAAATAATATTATTTTAAAATAAATTTA
* * *
9883 TTAAAATATTATTATTTTTAAATAAATTTT
1 TTAAAATAATATTATTTTAAAATAAATTTA
9913 TTAA
1 TTAA
9917 CCACAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TTAAAATAATATTATTTTAAAATAAATTTA
Found at i:13166 original size:4 final size:4
Alignment explanation
Indices: 13145--13245 Score: 59
Period size: 4 Copynumber: 25.5 Consensus size: 4
13135 ATTTAACAAA
* * * ** *
13145 AATT TATT AATAT AATT AATT AA-T ATTT GATT AAAA AATT ATATT -TTT
1 AATT AATT AAT-T AATT AATT AATT AATT AATT AATT AATT A-ATT AATT
* *
13193 AATT AATT AA-T -ATT TATT TATT AATAT AATT AATT -ATT AATAT AATT
1 AATT AATT AATT AATT AATT AATT AAT-T AATT AATT AATT AAT-T AATT
13240 AATT AA
1 AATT AA
13246 AATTCAAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
2 1 0.01
3 9 0.12
4 50 0.67
5 15 0.20
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (4 bp):
AATT
Found at i:13231 original size:16 final size:16
Alignment explanation
Indices: 13191--13244 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
13181 AATTATATTT
13191 TTAATTAATTAATAT--
1 TTAATT-ATTAATATAA
*
13206 TTATTTATTAATATAA
1 TTAATTATTAATATAA
13222 TTAATTATTAATATAA
1 TTAATTATTAATATAA
13238 TTAATTA
1 TTAATTA
13245 AAATTCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
14 8 0.23
15 5 0.14
16 22 0.63
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAATTATTAATATAA
Found at i:13374 original size:2 final size:2
Alignment explanation
Indices: 13367--13402 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13357 ACCGTCAACA
13367 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
13403 TGGTTGAAAT
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:13478 original size:13 final size:13
Alignment explanation
Indices: 13459--13491 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
13449 CATAAAACAG
13459 TAATATTTTAATAA
1 TAATATTTTAA-AA
13473 -AATATTTTAAAA
1 TAATATTTTAAAA
13485 TAATATT
1 TAATATT
13492 ATTTTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 16 0.89
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATATTTTAAAA
Found at i:14360 original size:19 final size:19
Alignment explanation
Indices: 14332--14370 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14322 AGGTTTATTT
*
14332 ATGAATAAGAACAGC-AAAG
1 ATGAACAAGAA-AGCGAAAG
14351 ATGAACAAGAAAGCGAAAG
1 ATGAACAAGAAAGCGAAAG
14370 A
1 A
14371 GTTGGAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.59, C:0.10, G:0.23, T:0.08
Consensus pattern (19 bp):
ATGAACAAGAAAGCGAAAG
Found at i:14469 original size:25 final size:24
Alignment explanation
Indices: 14415--14469 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 24
14405 AAAAAATTAA
14415 ATATTATATATTTAATATATTATT
1 ATATTATATATTTAATATATTATT
14439 A-A--ATATATTTAAT-TATTATATT
1 ATATTATATATTTAATATA-T-TATT
14461 ATATTATAT
1 ATATTATAT
14470 TATATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
20 2 0.08
21 12 0.46
22 5 0.19
23 2 0.08
24 1 0.04
25 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATTATATATTTAATATATTATT
Found at i:14522 original size:13 final size:13
Alignment explanation
Indices: 14487--14540 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
14477 AAAACTTTTA
*
14487 ATATATTCAAATT
1 ATATATTAAAATT
*
14500 TTAT-TTAAAATT
1 ATATATTAAAATT
* *
14512 GTATATTAAAATA
1 ATATATTAAAATT
*
14525 ATATATTAAATTT
1 ATATATTAAAATT
14538 ATA
1 ATA
14541 ATTTATATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
12 10 0.30
13 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:14633 original size:12 final size:12
Alignment explanation
Indices: 14613--14659 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
14603 AAAATATATA
14613 TATAA-ATATTT
1 TATAATATATTT
14624 TATAATATATTAT
1 TATAATATATT-T
14637 ATATAATATATTT
1 -TATAATATATTT
14650 T-TAAATATAT
1 TAT-AATATAT
14660 AATATATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 6 0.19
12 13 0.41
13 2 0.06
14 11 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TATAATATATTT
Found at i:14643 original size:14 final size:14
Alignment explanation
Indices: 14594--14687 Score: 80
Period size: 14 Copynumber: 7.3 Consensus size: 14
14584 AATATATTTT
*
14594 TTATATATAA-AAA
1 TTATATATAATATA
14607 TATATATATAA-ATA
1 T-TATATATAATATA
14621 TT-T-TATAATATA
1 TTATATATAATATA
14633 TTATATATAATATA
1 TTATATATAATATA
*
14647 TT-TTTA-AATATA
1 TTATATATAATATA
*
14659 TAATATATAATAT-
1 TTATATATAATATA
*
14672 TTA-AT-TATTATA
1 TTATATATAATATA
14684 TTAT
1 TTAT
14688 TTTAAAATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
11 10 0.15
12 18 0.27
13 11 0.16
14 28 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATATATAATATA
Found at i:14656 original size:26 final size:25
Alignment explanation
Indices: 14601--14671 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
14591 TTTTTATATA
*
14601 TAAAAATA-TATATATAA-ATATTT
1 TAAATATATTATATATAATATATTT
14624 TATAATATATTATATATAATATATTTT
1 TA-AATATATTATATATAATATA-TTT
*
14651 TAAATATATAATATATAATAT
1 TAAATATATTATATATAATAT
14672 TTAATTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 2 0.05
24 5 0.12
25 9 0.21
26 21 0.50
27 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TAAATATATTATATATAATATATTT
Found at i:14663 original size:7 final size:7
Alignment explanation
Indices: 14605--14676 Score: 58
Period size: 7 Copynumber: 10.4 Consensus size: 7
14595 TATATATAAA
14605 AATATAT
1 AATATAT
*
14612 ATATAAAT
1 A-ATATAT
* *
14620 ATTTTAT
1 AATATAT
14627 AATATAT
1 AATATAT
*
14634 TATATAT
1 AATATAT
14641 AATATAT
1 AATATAT
* *
14648 -TTTTA-
1 AATATAT
14653 AATATAT
1 AATATAT
14660 AATATAT
1 AATATAT
*
14667 AATATTT
1 AATATAT
14674 AAT
1 AAT
14677 TATTATATTA
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
6 6 0.12
7 37 0.76
8 6 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
AATATAT
Found at i:17179 original size:14 final size:15
Alignment explanation
Indices: 17150--17186 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
17140 TAGTGATAAT
*
17150 TAATATATTAAAAAA
1 TAATAAATTAAAAAA
17165 TAATAAATT-AAAAA
1 TAATAAATTAAAAAA
17179 TAATAAAT
1 TAATAAAT
17187 CGATCTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATAAATTAAAAAA
Found at i:17789 original size:14 final size:11
Alignment explanation
Indices: 17757--17794 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
17747 ATTATAACAT
17757 AAAA-ATAATA
1 AAAATATAATA
17767 AAAATATAATA
1 AAAATATAATA
* *
17778 AAAATTTGATA
1 AAAATATAATA
17789 AAAATA
1 AAAATA
17795 AAATTCGCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AAAATATAATA
Found at i:18413 original size:26 final size:27
Alignment explanation
Indices: 18382--18447 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
18372 TTAAAAATTC
**
18382 TTAAATTAATATTAATA-TTTTTATTA
1 TTAAATTAATAAAAATATTTTTTATTA
18408 TTAAATTTAAATAAAAATATTTTTTATTA
1 TTAAA-TT-AATAAAAATATTTTTTATTA
18437 TTAAA-TAATAA
1 TTAAATTAATAA
18448 TTCGAACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 10 0.29
27 3 0.09
28 8 0.23
29 14 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAAATTAATAAAAATATTTTTTATTA
Found at i:26986 original size:13 final size:13
Alignment explanation
Indices: 26968--26993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26958 CAAAGAATAG
26968 ATGTATCGATACA
1 ATGTATCGATACA
26981 ATGTATCGATACA
1 ATGTATCGATACA
26994 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:26990 original size:34 final size:33
Alignment explanation
Indices: 26947--27013 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
26937 AATTTCCTAG
*
26947 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
26981 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
27014 TTCCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:27130 original size:21 final size:21
Alignment explanation
Indices: 27104--27180 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
27094 GTTAGGACCC
* *
27104 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
27125 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
27146 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
27167 TGTATCGATACATT
1 TGTATCGATACATT
27181 TGGAAATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:27917 original size:118 final size:115
Alignment explanation
Indices: 27710--27920 Score: 250
Period size: 118 Copynumber: 1.8 Consensus size: 115
27700 AGGTGTCCAC
** *
27710 TTTTCAAGGACAAAGGAAAAGAGAATGAAATGGGTCTTGCTCCTTGAAGACCAAGGAAGAAAAGA
1 TTTTCAAGGACAAAGGAAAAGAGAATGAAATACGTCATGCTCCTTGAAGACCAA-GAAGAAAAGA
*
27775 AAAGGAAAGTGTCTTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCCCG
65 AAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCCCG
* *
27826 TTTTCCAAGGACAAAGGAAAAGGGAAATGAAATACGTCATGCT-CTCTGAGGA-CAA-AAGAAAG
1 TTTT-CAAGGACAAAGGAAAAGAG-AATGAAATACGTCATGCTCCT-TGAAGACCAAGAAGAAA-
* *
27888 AGGAAAGTAAAGTGTATCCTGC-TCTTTGAGGAC
62 AGAAAAGGAAAGTG--TCCTGCTTC-TTGAGGAC
27921 TAAAAAGTGC
Statistics
Matches: 80, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
115 6 0.08
116 16 0.20
117 25 0.31
118 33 0.41
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.20
Consensus pattern (115 bp):
TTTTCAAGGACAAAGGAAAAGAGAATGAAATACGTCATGCTCCTTGAAGACCAAGAAGAAAAGAA
AAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCCCG
Found at i:28373 original size:59 final size:59
Alignment explanation
Indices: 27908--30414 Score: 3464
Period size: 59 Copynumber: 43.2 Consensus size: 59
27898 AGTGTATCCT
* * *
27908 GCTCTTTGAGGACTAAAAAGTGCCACCAA-TTCGTGTGGGCTTT----G-AAAGGCGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTT-GTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * * *
27963 GCTTTTTGAGGACTAAAAGGTGCCACCAATTTGTGTGGGCTTT--AAG---AGGTGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
** * *
28018 GCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * *
28073 GCTCTTTGGGGACTGAAAGGTGCTACCAACTTGTGTGGGCTTT--AAG---AGGTGTCCT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
28128 GCTCTTTG-GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
** * * *
28182 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * * *
28237 ACTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCC
* * *
28298 GCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCTC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
28357 GCTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * *
28416 GCTCTTTGAGGACTAAAGGTGCTACCAACTTGTGTGGGCTTT-----AAAAGGTGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
28470 GCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTGTCCT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
** * * *
28525 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * *
28580 GCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCC
* * *
28641 GCTCTTTGAGGATTGAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
28700 ACTCTTTGAGGACTGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * *
28759 GCTCTTTGAGGATTCAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
28813 GCTCTTTGGGGACTGAAATGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
** *
28873 ATTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
28932 GCTCTCTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
28991 GCTCTTTGAGGACTTAAGGTGCCACCAACTTGTGTGGTCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
29050 GTTCTTTGAGGACTGAAGGTGCAACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
29109 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
29168 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
29227 GCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
29286 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
29345 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
29404 GCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGACTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
29463 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
29522 GCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * **
29576 GCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCTT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCC
* *
29637 GCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
29696 GCTCTTTGAGGACTGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
29755 GCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
29809 GCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
**
29869 ATTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
29928 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
29987 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
30046 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
30105 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
30164 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * *
30223 GCTCTTTGAGGACTGAAAGTGCCACCAATTTGTGTGGACTTTAAAAGAAAAGGCGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
30282 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * * *
30341 GCTCTTTGAGGACTGAAGGTGCCACCGACTTGTGTGGGCTTTAAGAGGAACAGGCATCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAA-AAGAAAAGGCGTCCC
30401 GCTCTTTGAGGACT
1 GCTCTTTGAGGACT
30415 AAAAAGCGGA
Statistics
Matches: 2241, Mismatches: 160, Indels: 97
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.00
53 1 0.00
54 144 0.06
55 418 0.19
56 8 0.00
57 2 0.00
59 1458 0.65
60 145 0.06
61 64 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (59 bp):
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
Found at i:28518 original size:29 final size:29
Alignment explanation
Indices: 28430--28520 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
28420 TTTGAGGACT
*
28430 AAAGGTGCTACCAACTTGTGTGGGCTTTA
1 AAAGGTGCCACCAACTTGTGTGGGCTTTA
** * *
28459 AAAGGTGTCCTGC-TCTT-TG-GGGAC--TG
1 AAAGGTG-CCACCAACTTGTGTGGG-CTTTA
28485 AAAGGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGTGCCACCAACTTGTGTGGGCTTTA
28514 AAAGGTG
1 AAAGGTG
28521 TCCTGCTCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
25 3 0.07
26 11 0.24
27 6 0.13
28 6 0.13
29 18 0.39
30 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (29 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTTA
Found at i:29621 original size:29 final size:29
Alignment explanation
Indices: 29537--29622 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
29527 TTGAGGATTG
*
29537 AAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGTGCCACCAACTTGTGTGGGCTTTGA
** *
29566 AAGGTGTCCTGC-TCTT-TG-GGGAC--TGA
1 AAGGTG-CCACCAACTTGTGTGGG-CTTTGA
29592 AAGGTGCCACCAACTTGTGTGGGCTTTGA
1 AAGGTGCCACCAACTTGTGTGGGCTTTGA
29621 AA
1 AA
29623 AGAAAAAGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
25 3 0.07
26 11 0.26
27 6 0.14
28 6 0.14
29 14 0.33
30 3 0.07
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (29 bp):
AAGGTGCCACCAACTTGTGTGGGCTTTGA
Found at i:31412 original size:21 final size:21
Alignment explanation
Indices: 31383--31435 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
31373 TTAAGCAGAT
31383 TTTTCTTTTTTT-TTTTCTTTG
1 TTTTCTTTTTTTGTTTT-TTTG
*
31404 TTTTGTTTTTTTGTTTTTTTG
1 TTTTCTTTTTTTGTTTTTTTG
31425 TTTTCTTTTTT
1 TTTTCTTTTTT
31436 GAAGAGAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.87
Consensus pattern (21 bp):
TTTTCTTTTTTTGTTTTTTTG
Found at i:31417 original size:8 final size:8
Alignment explanation
Indices: 31388--31428 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
31378 CAGATTTTTC
31388 TTTT-TTT
1 TTTTGTTT
*
31395 TTTTCTTT
1 TTTTGTTT
31403 GTTTTGTTT
1 -TTTTGTTT
31412 TTTTGTTT
1 TTTTGTTT
31420 TTTTGTTT
1 TTTTGTTT
31428 T
1 T
31429 CTTTTTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
7 4 0.13
8 20 0.65
9 7 0.23
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (8 bp):
TTTTGTTT
Found at i:31428 original size:13 final size:12
Alignment explanation
Indices: 31382--31435 Score: 56
Period size: 13 Copynumber: 4.4 Consensus size: 12
31372 CTTAAGCAGA
*
31382 TTTTTCTTTT-T
1 TTTTTTTTTTGT
*
31393 TTTTTTCTTTGT
1 TTTTTTTTTTGT
31405 TTTGTTTTTTTGT
1 TTT-TTTTTTTGT
*
31418 TTTTTTGTTTTCT
1 TTTTTT-TTTTGT
31431 TTTTT
1 TTTTT
31436 GAAGAGAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 8 0.22
12 7 0.19
13 21 0.58
ACGTcount: A:0.00, C:0.06, G:0.07, T:0.87
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:37712 original size:78 final size:78
Alignment explanation
Indices: 37630--37799 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 78
37620 AACAAGGCTC
* * *
37630 GAGTATCCCCGGTTATGAGAAATCGATGA-TTAGAAAAAAAATCGAGATTGGAGTATCCCCTCGA
1 GAGTATCCCCGATTATGAGAAATCAAT-ATTTAGAAAAAAAACCGAGATTGGAGTATCCCCTCGA
*
37694 AAATAACGGGGTTG
65 AAATAACGGGATTG
* * * * * * * *
37708 GAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCCGATTATGAGAAATCAATA-TTTAGAAAAAAAACCGAGATTGGAGTATCCCCTCGA
*
37773 AAGTAACGGGATTG
65 AAATAACGGGATTG
37787 GAGTATCCCCGAT
1 GAGTATCCCCGAT
37800 GAAATAACGA
Statistics
Matches: 76, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 1 0.01
78 24 0.32
79 51 0.67
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (78 bp):
GAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAACCGAGATTGGAGTATCCCCTCGAA
AATAACGGGATTG
Found at i:37791 original size:28 final size:27
Alignment explanation
Indices: 37753--37822 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
37743 AATAAAGCCG
** *
37753 GGGTTGGAGTATCCCCTCGGAAGTAAC
1 GGGTTGGAGTATCCCCGAGGAAATAAC
*
37780 GGGATTGGAGTATCCCCGATGAAATAAC
1 GGG-TTGGAGTATCCCCGAGGAAATAAC
37808 GAGGTTGGAGTATCC
1 G-GGTTGGAGTATCC
37823 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.08
28 32 0.86
29 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGGAAATAAC
Found at i:37880 original size:52 final size:51
Alignment explanation
Indices: 37810--37980 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
37800 GAAATAACGA
* *
37810 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGAAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGAAAATAAAACCG
* ** * **
37861 GAGTTGAAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCCG
1 G-GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGAAAATAAAA-CCG
* * * *
37914 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAG-CAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTGAAAATAAAACC-G
37966 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
37981 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
51 3 0.03
52 78 0.80
53 16 0.16
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGAAAATAAAACCG
Found at i:37994 original size:212 final size:211
Alignment explanation
Indices: 37702--38149 Score: 600
Period size: 212 Copynumber: 2.1 Consensus size: 211
37692 GAAAATAACG
* * * * * *
37702 GGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTATC
* * *
37766 CCCTCGGAAGTAACGGGATTGGAGTATCCCCGATGAAATAACGAGG-TTGGAGTATCCTCGATTG
66 CCCTCAGAAATAACGGGATTGGAGTATCCCCGATG-AATAACG-GGTTTGGAGTATCCCCGATTG
*
37830 TGA-AAAATTGGT-ATTTTTGAAAATAAAATCGGAGTT-GAAGTATCCCCGATTAAAGGAAAATT
129 TGAGAAAATTGGTGATTTTTGAAAATAAAAACGGAGTTAG-AGTATCCCCGATTAAA-GAAAATT
*
37892 GGCGTTTTGAAAATAAAACCC
192 AGCGTTTTGAAAATAAAA-CC
* * *
37913 GGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTATC
* *
37978 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGTTTGGAGTATCCCCGATTGTG
66 CCCTCAGAAATAACGGGATTGGAGTATCCCCGATGAATAACGGGTTTGGAGTATCCCCGATTGTG
* * * * *
38043 AGGAAATTGGTGTTTTTTGGAAATAAAAACGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTG
131 AGAAAATTGGTGATTTTTGAAAATAAAAACGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGCG
*
38108 TTTTGAAAATAAAATC
196 TTTTGAAAATAAAACC
*
38124 GGAGTTGGAATATCCCCGATTGTGGA
1 GG-GTTGGAGTATCCCCGATTGTGGA
38150 GAATTGAGAA
Statistics
Matches: 208, Mismatches: 23, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
210 2 0.01
211 49 0.24
212 120 0.58
213 36 0.17
214 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (211 bp):
GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTATC
CCCTCAGAAATAACGGGATTGGAGTATCCCCGATGAATAACGGGTTTGGAGTATCCCCGATTGTG
AGAAAATTGGTGATTTTTGAAAATAAAAACGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGCG
TTTTGAAAATAAAACC
Found at i:37998 original size:28 final size:27
Alignment explanation
Indices: 37963--38035 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
37953 GCAATAAAAC
37963 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-CATG-AATAA
* *
37991 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCCATGAATAA
*
38018 CGGGTTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
38036 GATTGTGAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.25
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCCATGAATAA
Found at i:38039 original size:107 final size:104
Alignment explanation
Indices: 37675--38089 Score: 286
Period size: 107 Copynumber: 3.9 Consensus size: 104
37665 AAAAAATCGA
* * * * * * *
37675 GATTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTT
1 GATTGGAGTAT-CCC-CGATGATTAAC-GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTT
* * * *
37739 TGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGG
63 TAGAAATAAAACCGGGGTTGGAGTATCCCCTC-GAAATAACGG
* * *
37782 GATTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTT
1 GATTGGAGTATCCCCGATG-ATTAACG-GGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTT
* * * * * *
37847 TGAAAATAAAATCGGAGTTGAAGTAT-CCC-CG-ATTAAAGG
64 AG-AAATAAAACCGGGGTTGGAGTATCCCCTCGAAATAACGG
* * ** ** * *
37886 AAAATTGGCGT-T--TTGAAAATAAAACCCGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 --GATTGGAGTATCCCCGATGAT-TAA--CGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTA
*
37948 TTTTAGCAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGG
60 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC-GAAATAACGG
* * * *
37994 GGTTGGAGTATCCCCGATGATTAACGGGTTTGGAGTATCCCCGATTGTGAGGAAATTGGTGTTTT
1 GATTGGAGTATCCCCGATGATTAACGGG-TTGGAGTATCCCCGATTGTGA-AAAATT--AGTATT
* * * *
38059 TTGGAAATAAAAACGGAGTTAGAGTATCCCC
62 TTAGAAATAAAACCGGGGTTGGAGTATCCCC
38090 GATTATAGAA
Statistics
Matches: 237, Mismatches: 50, Indels: 40
0.72 0.15 0.12
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 45 0.19
105 25 0.11
106 25 0.11
107 77 0.32
108 26 0.11
109 34 0.14
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (104 bp):
GATTGGAGTATCCCCGATGATTAACGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAG
AAATAAAACCGGGGTTGGAGTATCCCCTCGAAATAACGG
Found at i:38128 original size:51 final size:53
Alignment explanation
Indices: 38026--38144 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 53
38016 AACGGGTTTG
* * * *
38026 GAGTATCCCCGATTGTGAGGAAATTGGTGTTTTTTGGAAATAAAAACGGAGTTA
1 GAGTATCCCCGATTATGAGAAAATTAGTG-TTTTTGAAAATAAAAACGGAGTTA
* *
38080 GAGTATCCCCGATTAT-AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAGAAAATTAGTGTTTTTGAAAATAAAAACGGAGTTA
*
38131 GAATATCCCCGATT
1 GAGTATCCCCGATT
38145 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
51 33 0.57
53 10 0.17
54 15 0.26
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAGAAAATTAGTGTTTTTGAAAATAAAAACGGAGTTA
Found at i:40528 original size:13 final size:13
Alignment explanation
Indices: 40510--40535 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40500 ACAAAGATCC
40510 ATGTATCGATACA
1 ATGTATCGATACA
40523 ATGTATCGATACA
1 ATGTATCGATACA
40536 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:40531 original size:33 final size:33
Alignment explanation
Indices: 40489--40555 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
40479 AAAATTTTCA
***
40489 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
40522 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
40555 A
1 A
40556 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:41355 original size:55 final size:55
Alignment explanation
Indices: 41271--41828 Score: 633
Period size: 55 Copynumber: 10.0 Consensus size: 55
41261 ATAAAGTGTA
* * * *
41271 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
41326 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
41381 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTTGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
41436 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * **
41491 TCCAGCTCTTTGAAGACTGGAAAATGCCACCAACTTGTGTGGGTTTTGAAAGGTA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
41546 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
41601 TCCTGCTCTTTGAGGAATAGG-AAGTGCCACTAACTTGTGTAGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * * *
41662 TCCTGCTTTTTGAGGACTTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCG
1 TCCTGCTCTTTGAGGAC-TGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
41717 TCTTGCTCTTTGAGGACTAGG-AACTGCCACCAACTTGTGTGGGCTTTAAAAAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT----GAAAGGCG
* * * *
41776 TCCCGCTCTTTGAGGACTGGAAAATGCCACTAACTCGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
41829 AAAAGGCATC
Statistics
Matches: 442, Mismatches: 43, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
54 3 0.01
55 333 0.75
56 9 0.02
58 2 0.00
59 46 0.10
60 2 0.00
61 46 0.10
62 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:42865 original size:12 final size:11
Alignment explanation
Indices: 42848--42894 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 11
42838 TTTTTCTTTG
42848 TTTTGTTTTTT
1 TTTTGTTTTTT
42859 ATTTTGTTTTTT
1 -TTTTGTTTTTT
*
42871 TCTT-TTTTTT
1 TTTTGTTTTTT
42881 TTTTGCTTTTTT
1 TTTTG-TTTTTT
42893 TT
1 TT
42895 GAAGAGAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 9 0.29
11 3 0.10
12 19 0.61
ACGTcount: A:0.02, C:0.04, G:0.06, T:0.87
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:42884 original size:13 final size:13
Alignment explanation
Indices: 42838--42894 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 13
42828 CTTTTCTCTC
42838 TTTTTCTTTGTTTT
1 TTTTTCTTT-TTTT
42852 GTTTTT-TATTTTGTT
1 -TTTTTCT-TTTT-TT
42867 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
42880 TTTTTGCTTTTTTT
1 TTTTT-CTTTTTTT
42894 T
1 T
42895 GAAGAGAAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.18
14 21 0.55
15 10 0.26
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:55438 original size:79 final size:79
Alignment explanation
Indices: 55322--55504 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 79
55312 TGTTCCCTTG
* * ** * * * *
55322 AAAATAACGGGGCTCGAGTATCCCCGGTTGTGCGAAATCGATGA-TTAGAAAAAAAAATCGAGAT
1 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAGAAAAAAAAACCGAGAT
55386 TGGAGTATCCCCTCA
65 TGGAGTATCCCCTCA
* ** * * *
55401 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAACCGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAAACCGAGATT
*
55466 GGAGTATCCCCTCG
66 GGAGTATCCCCTCA
* *
55480 GAAGTAACGGGGTTGGAGTATCCCC
1 AAAATAACGGGGTTGGAGTATCCCC
55505 GATGAAATAA
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 85 0.99
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (79 bp):
AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAAACCGAGATT
GGAGTATCCCCTCA
Found at i:55499 original size:28 final size:28
Alignment explanation
Indices: 55459--55530 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
55449 GGAATAAAAC
** *
55459 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
55487 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
55515 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
55531 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:55522 original size:107 final size:108
Alignment explanation
Indices: 55385--55584 Score: 260
Period size: 107 Copynumber: 1.9 Consensus size: 108
55375 AAAATCGAGA
* *
55385 TTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTTG
1 TTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTTG
* *
55449 GGAATAAAACCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGG
66 GAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAACGGGG
* * * * * ***
55492 TTGGAGTATCCCC-GATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTT
1 TTGGAGTATCCCCTCA-AAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTT
*
55556 GGAAATAAAATCGGAGTTGGAGTATCCCC
65 GGAAATAAAACCGGAGTTGGAGTATCCCC
55585 GATTAAAGGA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
106 1 0.01
107 47 0.60
108 30 0.38
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (108 bp):
TTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTTG
GAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAACGGGG
Found at i:55588 original size:52 final size:51
Alignment explanation
Indices: 55518--55688 Score: 157
Period size: 52 Copynumber: 3.3 Consensus size: 51
55508 GAAATAACGA
* * * * *
55518 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAA-TCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGG-AGTTTTGAAAATAAAACCCG
* * *
55569 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCCG
1 G-GTTGGAGTATCCCCGATT-ATGAAAAATTGGAGTTTTGAAAATAAAACCCG
* * * * **
55622 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTT-AGCAACAAAACTGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTGGAGTTTTGA-AAATAAAACCCG
55674 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
55689 TCGGAAATAA
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
51 3 0.03
52 84 0.85
53 12 0.12
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGAGTTTTGAAAATAAAACCCG
Found at i:55698 original size:184 final size:185
Alignment explanation
Indices: 55488--55830 Score: 503
Period size: 184 Copynumber: 1.9 Consensus size: 185
55478 CGGAAGTAAC
* * *
55488 GGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAA-AAATTGGT-A
1 GGGGTTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCGATCGTGAAGAAATTGGTGA
* * *
55551 TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAA
66 TTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAA-GAAAATTAGCATTTTGAAAATAA
* *
55616 AACCCGG-GTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTAGCAACAAAACT
130 AA-CCGGAGTTAGAATATCCCCGATTATGGAAAAATTAGTGTTTTAGCAACAAAACT
** * *
55672 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATCGTGAAGAAATTGGTGT
1 GGGGTTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCGATCGTGAAGAAATTGGTGA
* *
55737 TTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTATTTTGAAAATAAA
66 TTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGCATTTTGAAAATAAA
* *
55802 ATCGGAGTTAGAATATCCCCGATTGTGGA
131 ACCGGAGTTAGAATATCCCCGATTATGGA
55831 GAATTGAGAA
Statistics
Matches: 140, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
184 51 0.36
185 50 0.36
186 39 0.28
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (185 bp):
GGGGTTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCGATCGTGAAGAAATTGGTGA
TTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGCATTTTGAAAATAAA
ACCGGAGTTAGAATATCCCCGATTATGGAAAAATTAGTGTTTTAGCAACAAAACT
Found at i:64144 original size:28 final size:27
Alignment explanation
Indices: 64104--64175 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
64094 GGAATAAAGC
*
64104 CGGGGTTGGAGTATCCCTTCG-GAAGTAA
1 CGGGGTTGGAGTATCCC--CGAGAAATAA
64132 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGA-GAAATAA
*
64160 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
64176 TCGATTGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 2 0.05
28 38 0.95
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGAGAAATAA
Found at i:64233 original size:52 final size:51
Alignment explanation
Indices: 64164--64390 Score: 253
Period size: 52 Copynumber: 4.4 Consensus size: 51
64154 AAATAACGAG
* * * * *
64164 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGT-GTTTTGAAAATAAAACCGGA
** * * *
64216 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTAGTGTTTTGAAAATAAAACCGGA
*
64268 GTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGTG-
1 GTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTGA-AAATAAAACCG-GA
** *
64320 GTTGGAGTATCCCCGATCATG-AAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACCGGA
*
64370 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
64391 GAGAATTGAG
Statistics
Matches: 149, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
49 1 0.01
50 41 0.28
51 3 0.02
52 93 0.62
53 11 0.07
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACCGGA
Found at i:64383 original size:102 final size:105
Alignment explanation
Indices: 64164--64392 Score: 306
Period size: 102 Copynumber: 2.2 Consensus size: 105
64154 AAATAACGAG
* * * * *
64164 GTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GTTGGAGTATCCCCGATTGTGGAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATCC
* *
64228 CCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
66 CCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACCGGA
*
64268 GTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTTTTAGCAATAAAACCGTG-GTTGGAGTATC
1 GTTGGAGTATCCCCGATTGTGGAAAAATTAGTAGTTTTAGAAATAAAACCG-GAGTTGGAGTATC
* * *
64331 CCCGA-T-CATGAAAATTAGTGTTTTGAAAATAAAATCGGA
65 CCCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACCGGA
*
64370 GTTGGAATATCCCCGATTGTGGA
1 GTTGGAGTATCCCCGATTGTGGA
64393 GAATTGAGAA
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
102 50 0.45
103 1 0.01
104 49 0.44
105 11 0.10
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (105 bp):
GTTGGAGTATCCCCGATTGTGGAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATCC
CCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACCGGA
Found at i:66220 original size:15 final size:15
Alignment explanation
Indices: 66200--66231 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
66190 GGAATAGTGC
66200 TTTTTTTGTGTTTTTT
1 TTTTTTTG-GTTTTTT
66216 TTTTTTTGGTTTTTT
1 TTTTTTTGGTTTTTT
66231 T
1 T
66232 GCTAAAGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (15 bp):
TTTTTTTGGTTTTTT
Found at i:66781 original size:13 final size:13
Alignment explanation
Indices: 66763--66788 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66753 CAAAGAATAG
66763 ATGTATCGATACA
1 ATGTATCGATACA
66776 ATGTATCGATACA
1 ATGTATCGATACA
66789 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:66785 original size:34 final size:33
Alignment explanation
Indices: 66742--66808 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
66732 AACTTCCTAG
*
66742 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
66776 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
66809 TTCCCTTGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:66925 original size:21 final size:21
Alignment explanation
Indices: 66899--66975 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
66889 GTTGGGACCC
* *
66899 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
66920 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
*
66941 TGTATCGATATATTCTACAAA
1 TGTATCGATACATTCTACAAA
66962 TGTATCGATACATT
1 TGTATCGATACATT
66976 TGGAAATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:68407 original size:219 final size:218
Alignment explanation
Indices: 68021--68686 Score: 935
Period size: 219 Copynumber: 3.0 Consensus size: 218
68011 GCATTTGGGC
* * *
68021 TTAAATTTGGAAATACAATTATTTTTTTAGTTTATTTTATTTTATTTTTTGAAATAAATTAAATA
1 TTAAATTTAGAGATGCAATTATTTTTTTAGTTTATTTTATTTTATTTTTTGAAATAAATT--A-A
*
68086 GTATTTAATATTTATATATATATTTTATTGTATCAG-AAAGCTGTGTAGAAAAAAACACAACATA
63 --A--TAATATTTATATATATATTTTATTGCATCAGAAAAGCTGTGTAG-AAAAAACACAACATA
* *
68150 TGAACTTGTTATGTAAAGACATAATATTTAACTAAAAAGATATATTGTAAAAGAACACAACTTTT
123 TGAACTTGTTATGCAAAGACATAATATTTAACTAAAAAGATATGTTGTAAAAGAACACAACTTTT
68215 GTCCTATAGATAAGTCACTTACAAAGGTGACT
188 G-CCTATAGATAAGTCACTTACAAAGGTGACT
* * * *
68247 TTAAATTTAGAGATGTAATTATTTTTTTTGGTTATTTTATTTTATTTTTTAAAATAAATTAAATA
1 TTAAATTTAGAGATGCAATTATTTTTTTAGTTTATTTTATTTTATTTTTTGAAATAAATTAAATA
*
68312 ATATTTATATATAGT-TTTTATTGCATCAGAAAAGCTGTGTAGAAAAAACACAATATATGAACTT
66 ATATTTATATATA-TATTTTATTGCATCAGAAAAGCTGTGTAGAAAAAACACAACATATGAACTT
* ** * * *
68376 GTTATGCAAATACATACCATTTAATTAAAAAGATATGTTGTAAAAGAACATAATTTTTGCCTTAT
130 GTTATGCAAAGACATAATATTTAACTAAAAAGATATGTTGTAAAAGAACACAACTTTTGCC-TAT
* *
68441 ACATAAGTCACTTACAAAGGTGATT
194 AGATAAGTCACTTACAAAGGTGACT
* *
68466 TTAAATTTGGAGATGCAATTATTTTTTTAATTTATTTTATTTTATTTTTTGAAATAAATTAAATA
1 TTAAATTTAGAGATGCAATTATTTTTTTAGTTTATTTTATTTTATTTTTTGAAATAAATTAAATA
* * * *
68531 ATATTTA-AAATATATATTATTACATCAGAAAAGCTGTGTAGAAAAAACTCAACATATGAACTTG
66 ATATTTATATATATATTTTATTGCATCAGAAAAGCTGTGTAGAAAAAACACAACATATGAACTTG
* *
68595 TTAT-CTAAAGACATAATATTTAACTAAAAAAATATGTTGTAAAAGAACACAACTTTTACTCTAT
131 TTATGC-AAAGACATAATATTTAACTAAAAAGATATGTTGTAAAAGAACACAACTTTTGC-CTAT
*
68659 AGAAAAGTCACTTACAAAGGTGACT
194 AGATAAGTCACTTACAAAGGTGACT
68684 TTA
1 TTA
68687 CATTATCTAT
Statistics
Matches: 393, Mismatches: 41, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
217 2 0.01
218 129 0.33
219 193 0.49
220 13 0.03
221 1 0.00
223 1 0.00
224 1 0.00
226 53 0.13
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (218 bp):
TTAAATTTAGAGATGCAATTATTTTTTTAGTTTATTTTATTTTATTTTTTGAAATAAATTAAATA
ATATTTATATATATATTTTATTGCATCAGAAAAGCTGTGTAGAAAAAACACAACATATGAACTTG
TTATGCAAAGACATAATATTTAACTAAAAAGATATGTTGTAAAAGAACACAACTTTTGCCTATAG
ATAAGTCACTTACAAAGGTGACT
Found at i:71896 original size:33 final size:36
Alignment explanation
Indices: 71857--71923 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
71847 TTTATATAGT
*
71857 AAATAT-ATTTTATT-TTATATAA-TAATATAATAA
1 AAATATAATTTTATTATTATAAAATTAATATAATAA
71890 AAATATAAATTTTATTATTATAAAATTAATATAA
1 AAATAT-AATTTTATTATTATAAAATTAATATAA
71924 ATTAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 6 0.21
35 8 0.28
36 7 0.24
37 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (36 bp):
AAATATAATTTTATTATTATAAAATTAATATAATAA
Found at i:72782 original size:2 final size:2
Alignment explanation
Indices: 72770--72801 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
72760 CTACTCATAG
*
72770 AT AT TT 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
72802 GGTTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:74019 original size:21 final size:21
Alignment explanation
Indices: 73980--74020 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
73970 TCATTTTATA
** *
73980 AATAAATAGTGTAATAAAAAT
1 AATAAATAGTAAAAGAAAAAT
74001 AATAAATAGTAAAAGAAAAA
1 AATAAATAGTAAAAGAAAAA
74021 GTAGTATCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (21 bp):
AATAAATAGTAAAAGAAAAAT
Found at i:74975 original size:23 final size:24
Alignment explanation
Indices: 74917--74978 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
74907 TTAATATAAA
*
74917 ATTTAATAAA-TTAAGTTTAATAT
1 ATTTAATAAATTTAAATTTAATAT
* **
74940 CTTTAAT-TTTTTAAATTT-ATAT
1 ATTTAATAAATTTAAATTTAATAT
74962 ATTTAATAAATTTAAAT
1 ATTTAATAAATTTAAAT
74979 ATCTGATTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 10 0.33
23 20 0.67
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTTAATAAATTTAAATTTAATAT
Found at i:75040 original size:19 final size:19
Alignment explanation
Indices: 74987--75040 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
74977 ATATCTGATT
*
74987 AATAATATTATTT-AATTA
1 AATAATAATATTTAAATTA
* * *
75005 AA-AATTAGATATAAATTA
1 AATAATAATATTTAAATTA
75023 AATAATAATATTTAAATT
1 AATAATAATATTTAAATT
75041 TTATACAGAT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
17 6 0.22
18 9 0.33
19 12 0.44
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AATAATAATATTTAAATTA
Found at i:75662 original size:20 final size:21
Alignment explanation
Indices: 75623--75666 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
75613 ACCCATTTAT
*
75623 TAAAAAAATTACTCATATATTA
1 TAAAAAAATTA-TCACATATTA
75645 TAAAAAAATT-TCACATATTA
1 TAAAAAAATTATCACATATTA
75665 TA
1 TA
75667 CTATATCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAAAATTATCACATATTA
Found at i:76112 original size:17 final size:18
Alignment explanation
Indices: 76075--76125 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
76065 TTTGCCCATT
*
76075 TTTATATTTAAAAGATAA
1 TTTATATTTAAAAAATAA
*
76093 TTTA-ATTTAAAAAATTA
1 TTTATATTTAAAAAATAA
*
76110 TTTATTTTTTAAAAAA
1 TTTA-TATTTAAAAAA
76126 ATTATCAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 15 0.54
18 4 0.14
19 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTATATTTAAAAAATAA
Found at i:76126 original size:20 final size:20
Alignment explanation
Indices: 76101--76164 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
76091 AATTTAATTT
**
76101 AAAAAATTATTTATTTTTTA
1 AAAAAATTATCAATTTTTTA
*
76121 AAAAAATTATCAATTTTTTT
1 AAAAAATTATCAATTTTTTA
76141 AAAAAATTATCAATTTTTTA
1 AAAAAATTATCAATTTTTTA
76161 AAAA
1 AAAA
76165 TTACTTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAAATTATCAATTTTTTA
Found at i:76175 original size:20 final size:20
Alignment explanation
Indices: 76098--76176 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
76088 GATAATTTAA
*
76098 TTTAAAAAATTATT-TATTT
1 TTTAAAAAATTATTAAATTT
* *
76117 TTTAAAAAAATTATCAATTTT
1 TTT-AAAAAATTATTAAATTT
*
76138 TTTAAAAAATTA-TCAATTT
1 TTTAAAAAATTATTAAATTT
76157 TTT-AAAAATTACTTAAATTT
1 TTTAAAAAATTA-TTAAATTT
76177 CTATTCACTA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.16
19 10 0.20
20 25 0.51
21 6 0.12
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAAAATTATTAAATTT
Found at i:78890 original size:27 final size:27
Alignment explanation
Indices: 78860--78919 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
78850 ATTAATATAC
*
78860 TTAAATCTGATTATATAAAATTTAAAA
1 TTAAATATGATTATATAAAATTTAAAA
* * ** *
78887 TTAATTATGATTATTTTTAATTTAAAT
1 TTAAATATGATTATATAAAATTTAAAA
78914 TTAAAT
1 TTAAAT
78920 GAAGTAATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (27 bp):
TTAAATATGATTATATAAAATTTAAAA
Found at i:80702 original size:1 final size:1
Alignment explanation
Indices: 80696--80722 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
80686 GGAAGAGGTC
80696 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
80723 CTCTTTTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:81158 original size:15 final size:14
Alignment explanation
Indices: 81129--81161 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
81119 AACATAAAAT
81129 TAAT-AAAAATATA
1 TAATAAAAAATATA
81142 TAATAAAAAATATTA
1 TAATAAAAAATA-TA
81157 TAATA
1 TAATA
81162 TTGATGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 7 0.39
15 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATAAAAAATATA
Found at i:81393 original size:11 final size:11
Alignment explanation
Indices: 81377--81403 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
81367 AAAAGTGGTA
81377 AATAAAAAAAT
1 AATAAAAAAAT
81388 AATAAAAAAAT
1 AATAAAAAAAT
81399 AATAA
1 AATAA
81404 TTAACTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:81810 original size:124 final size:124
Alignment explanation
Indices: 81590--81837 Score: 460
Period size: 124 Copynumber: 2.0 Consensus size: 124
81580 CGTGGTTTTC
* *
81590 CAAAGGTCCATATCAATTGGTATCAAAGCCTGTTTCATCTTACAAGGCTCATCATTTGGAACGGT
1 CAAAGGTCCATATCAATTGGTATCAAAGCCTGCTTCATCTTACAAGGCTCATCATTCGGAACGGT
*
81655 GATTCACGGAGTGGTGATCTGAGCCCAACAAGAAAAAAAAAAGAAAATGGTGTCAAACT
66 GATTCACGGAGTGGTGACCTGAGCCCAACAAGAAAAAAAAAAGAAAATGGTGTCAAACT
*
81714 CAAAGGTCCATATCAATTGGTATCAAAGCCTGCTTCATCTTACAAGGCTCATCATTCGGAGCGGT
1 CAAAGGTCCATATCAATTGGTATCAAAGCCTGCTTCATCTTACAAGGCTCATCATTCGGAACGGT
81779 GATTCACGGAGTGGTGACCTGAGCCCAACAAGAAAAAAAAAAGAAAATGGTGTCAAACT
66 GATTCACGGAGTGGTGACCTGAGCCCAACAAGAAAAAAAAAAGAAAATGGTGTCAAACT
81838 TGACTAACGT
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 120 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (124 bp):
CAAAGGTCCATATCAATTGGTATCAAAGCCTGCTTCATCTTACAAGGCTCATCATTCGGAACGGT
GATTCACGGAGTGGTGACCTGAGCCCAACAAGAAAAAAAAAAGAAAATGGTGTCAAACT
Found at i:82871 original size:2 final size:2
Alignment explanation
Indices: 82866--82904 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
82856 CTTTTTTTTA
82866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
82905 CCAGTTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84282 original size:22 final size:22
Alignment explanation
Indices: 84257--84300 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
84247 TATCCGCTTA
* *
84257 AATTTAATTAAATTTTTTTAAT
1 AATTTAAATAAATTTATTTAAT
84279 AATTTAAATAAATTTATTTAAT
1 AATTTAAATAAATTTATTTAAT
84301 TAACTCGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTTAAATAAATTTATTTAAT
Found at i:84570 original size:3 final size:3
Alignment explanation
Indices: 84562--84595 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
84552 TAACAAGCCC
84562 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
84596 CATTCATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:86733 original size:17 final size:17
Alignment explanation
Indices: 86711--86746 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
86701 AGCCTATATT
86711 ATCCAGATTTGAGTTAA
1 ATCCAGATTTGAGTTAA
86728 ATCCAGATTTGAGTTAA
1 ATCCAGATTTGAGTTAA
86745 AT
1 AT
86747 GTTAGATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (17 bp):
ATCCAGATTTGAGTTAA
Found at i:87537 original size:26 final size:25
Alignment explanation
Indices: 87493--87554 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
87483 ATGATATTAT
*
87493 TATATAAATATGTTAAAATTTTTATAAA
1 TATA-AAATATGTTAAAA-TATT-TAAA
*
87521 TATAAAATAT-TTTAAATATTTAAA
1 TATAAAATATGTTAAAATATTTAAA
87545 TATTAAAATA
1 TA-TAAAATA
87555 AAAAATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 6 0.19
25 10 0.32
26 5 0.16
27 6 0.19
28 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TATAAAATATGTTAAAATATTTAAA
Found at i:87538 original size:16 final size:17
Alignment explanation
Indices: 87506--87560 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
87496 ATAAATATGT
*
87506 TAAAATTTTTATAAATA
1 TAAAATATTTATAAATA
87523 TAAAATATTT-TAAATA
1 TAAAATATTTATAAATA
*
87539 TTTAAATA-TTA-AAATA
1 -TAAAATATTTATAAATA
*
87555 AAAAAT
1 TAAAAT
87561 TCAAATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 4 0.12
16 13 0.41
17 15 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATATTTATAAATA
Found at i:87545 original size:17 final size:18
Alignment explanation
Indices: 87490--87548 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 18
87480 AATATGATAT
87490 TATTATATAAATATGTTAAAA
1 TATT-TATAAATAT-TT-AAA
* *
87511 TTTTTATAAATA-TAAAA
1 TATTTATAAATATTTAAA
87528 TATTT-TAAATATTTAAA
1 TATTTATAAATATTTAAA
87545 TATT
1 TATT
87549 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 6 0.18
17 15 0.45
18 1 0.03
20 8 0.24
21 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TATTTATAAATATTTAAA
Found at i:90367 original size:15 final size:15
Alignment explanation
Indices: 90347--90469 Score: 67
Period size: 15 Copynumber: 8.1 Consensus size: 15
90337 AAGCTAAAAA
90347 TTTTATATATTTATT
1 TTTTATATATTTATT
*
90362 TTTTATATA--TAAT
1 TTTTATATATTTATT
**
90375 TTTTAT-TATTTAAAA
1 TTTTATATATTT-ATT
* *
90390 TATTATAAATTTATAT
1 TTTTATATATTTAT-T
**
90406 TATATT-TATAAATATT
1 T-T-TTATATATTTATT
*
90422 TTTTATATTTTTATAT
1 TTTTATATATTTAT-T
* *
90438 TTATGTCATATTTATT
1 TTTTAT-ATATTTATT
90454 TTTTATAT-TTTATT
1 TTTTATATATTTATT
90468 TT
1 TT
90470 AATTAATTTT
Statistics
Matches: 80, Mismatches: 18, Indels: 21
0.67 0.15 0.18
Matches are distributed among these distances:
12 2 0.03
13 9 0.11
14 11 0.14
15 26 0.32
16 17 0.21
17 13 0.16
18 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.66
Consensus pattern (15 bp):
TTTTATATATTTATT
Found at i:90416 original size:19 final size:19
Alignment explanation
Indices: 90392--90452 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
90382 ATTTAAAATA
90392 TTATAAATTTATATTATAT
1 TTATAAATTTATATTATAT
*
90411 TTATAAATATT-TTTTATAT
1 TTATAAAT-TTATATTATAT
* * * *
90430 TTTTATATTTATGTCATAT
1 TTATAAATTTATATTATAT
90449 TTAT
1 TTAT
90453 TTTTTATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 2 0.06
19 30 0.88
20 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTATAAATTTATATTATAT
Found at i:90435 original size:32 final size:32
Alignment explanation
Indices: 90399--90464 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
90389 ATATTATAAA
*
90399 TTTATATTATAT-TTATAAATATTTTTTATATT
1 TTTATATT-TATGTCATAAATATTTTTTATATT
**
90431 TTTATATTTATGTCATATTTATTTTTTATATT
1 TTTATATTTATGTCATAAATATTTTTTATATT
90463 TT
1 TT
90465 ATTTTAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 3 0.10
32 27 0.90
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (32 bp):
TTTATATTTATGTCATAAATATTTTTTATATT
Found at i:90461 original size:24 final size:24
Alignment explanation
Indices: 90423--90504 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
90413 ATAAATATTT
90423 TTTATATTTTTATATTTATGTCATA
1 TTTAT-TTTTTATATTTATGTCATA
* *
90448 TTTATTTTTTATATTTTATTTTA-A
1 TTTATTTTTTATA-TTTATGTCATA
* *
90472 TTAATTTTTAATA-TTATGTTCATA
1 TTTATTTTTTATATTTATG-TCATA
90496 -TTATTTTTT
1 TTTATTTTTT
90505 GTGTATTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
22 4 0.09
23 9 0.20
24 21 0.46
25 12 0.26
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTATTTTTTATATTTATGTCATA
Found at i:91271 original size:11 final size:12
Alignment explanation
Indices: 91245--91276 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
91235 TTTTGTGTTG
91245 TATTATATTTTA
1 TATTATATTTTA
91257 -ATTAT-TTTTA
1 TATTATATTTTA
91267 TATTATATTT
1 TATTATATTT
91277 GTGTTGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.28
11 10 0.56
12 3 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:91382 original size:18 final size:18
Alignment explanation
Indices: 91348--91398 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
91338 CCAATCACAT
*
91348 AAAAT-TTTAAAT-TATA
1 AAAATATTTAAATAAATA
91364 AAAATATTTAAATAAATA
1 AAAATATTTAAATAAATA
*
91382 ATAATTATTTAATATAA
1 A-AAATATTTAA-ATAA
91399 TTTAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 5 0.17
17 7 0.24
18 4 0.14
19 9 0.31
20 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATTTAAATAAATA
Found at i:91615 original size:21 final size:22
Alignment explanation
Indices: 91590--91636 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
91580 CTATTACTAG
91590 TTATTACTAAAT-TCAAATCAA
1 TTATTACTAAATATCAAATCAA
*
91611 TTATTACTAAATAATCAAATTAA
1 TTATTACTAAAT-ATCAAATCAA
91634 TTA
1 TTA
91637 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.52
23 11 0.48
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
TTATTACTAAATATCAAATCAA
Found at i:93180 original size:19 final size:20
Alignment explanation
Indices: 93156--93194 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
93146 ATTATTATTT
93156 AAAAATATTTA-AT-AATATA
1 AAAAAT-TTTATATAAATATA
93175 AAAAATTTTATATAAATATA
1 AAAAATTTTATATAAATATA
93195 TACATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTTTATATAAATATA
Found at i:95238 original size:24 final size:24
Alignment explanation
Indices: 95210--95255 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
95200 ATATATTTTT
95210 ATATA-TCACACAAATTTAAAATTA
1 ATATACTCACA-AAATTTAAAATTA
* *
95234 ATATACTTATAAAATTTAAAAT
1 ATATACTCACAAAATTTAAAAT
95256 ATTGATGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATACTCACAAAATTTAAAATTA
Found at i:95640 original size:6 final size:6
Alignment explanation
Indices: 95631--95695 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
95621 TTTAATTATA
* *
95631 ATATTT ATA-TT ATATTT TTATATT -T-TTT AAATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATAT-TT ATATTT ATATTT ATATTT ATATTT
**
95677 A-AAAT AT-TTT ATATTT ATA
1 ATATTT ATATTT ATATTT ATA
95696 AAAATATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
4 2 0.04
5 12 0.26
6 30 0.65
7 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
ATATTT
Found at i:95650 original size:13 final size:14
Alignment explanation
Indices: 95617--95654 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
95607 CGTGGAATAA
95617 AATTTTTA-ATTAT
1 AATTTTTATATTAT
*
95630 AATATTTATATTAT
1 AATTTTTATATTAT
95644 -ATTTTTATATT
1 AATTTTTATATT
95655 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTTTATATTAT
Found at i:95651 original size:22 final size:23
Alignment explanation
Indices: 95626--95670 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
95616 AAATTTTTAA
*
95626 TTATAATATTTATA-TTATATTT
1 TTATAATATTTAAATTTATATTT
* *
95648 TTATATTTTTTAAATTTATATTT
1 TTATAATATTTAAATTTATATTT
95671 ATATTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTATAATATTTAAATTTATATTT
Found at i:95686 original size:28 final size:28
Alignment explanation
Indices: 95633--95729 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 28
95623 TAATTATAAT
* * *
95633 ATTTATA-TTATATTTTTATATTTTTTAA
1 ATTTATATTTATA-TTTAAAATATTTTAA
*
95661 ATTTATATTTATATTTAAAATATTTTAT
1 ATTTATATTTATATTTAAAATATTTTAA
*** **
95689 ATTTATAAAAATA-TTAAAATATTAAAA
1 ATTTATATTTATATTTAAAATATTTTAA
95716 ATTTATATTATATA
1 ATTTATATT-TATA
95730 AATTTTAATA
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 18 0.33
28 31 0.57
29 5 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTTATATTTATATTTAAAATATTTTAA
Found at i:97279 original size:20 final size:20
Alignment explanation
Indices: 97241--97280 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
97231 TTATGGGGTT
*
97241 TTTTATTTTTATTTTATAAA
1 TTTTATTTTTATTTAATAAA
97261 TTTTATTTATTA-TTAATAAA
1 TTTTATTT-TTATTTAATAAA
97281 AAATTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATTTTTATTTAATAAA
Found at i:97850 original size:14 final size:15
Alignment explanation
Indices: 97833--97861 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
97823 TCCTTTTCTT
97833 TCTTTTTTTT-TTTC
1 TCTTTTTTTTCTTTC
97847 TCTTTTTTTTCTTTC
1 TCTTTTTTTTCTTTC
97862 CATCTTTCTT
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TCTTTTTTTTCTTTC
Found at i:98377 original size:12 final size:11
Alignment explanation
Indices: 98336--98408 Score: 62
Period size: 11 Copynumber: 6.7 Consensus size: 11
98326 TACTATTTTA
98336 AATATACAAAA-
1 AATATA-AAAAT
98347 AATA-AAAAAT
1 AATATAAAAAT
* *
98357 GACATAAAAAT
1 AATATAAAAAT
98368 AATATAAAAAT
1 AATATAAAAAT
* **
98379 AAATATAATACG
1 -AATATAAAAAT
98391 AATATAAAAAT
1 AATATAAAAAT
98402 -ATATAAA
1 AATATAAA
98409 TATATATGAG
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
9 4 0.08
10 10 0.20
11 27 0.55
12 8 0.16
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.23
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:98380 original size:17 final size:17
Alignment explanation
Indices: 98360--98408 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
98350 AAAAAATGAC
98360 ATAAAAATAATATAAAA
1 ATAAAAATAATATAAAA
* ** *
98377 ATAAATATAATACGAAT
1 ATAAAAATAATATAAAA
98394 ATAAAAAT-ATATAAA
1 ATAAAAATAATATAAA
98409 TATATATGAG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
ATAAAAATAATATAAAA
Found at i:98386 original size:23 final size:22
Alignment explanation
Indices: 98334--98402 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
98324 TATACTATTT
98334 TAAATATACAAAAAATA-AAAAA
1 TAAATATA-AAAAAATATAAAAA
* *
98356 TGACATA-AAAATAATATAAAAA
1 T-AAATATAAAAAAATATAAAAA
**
98378 TAAATATAATACGAATATAAAAA
1 TAAATATAA-AAAAATATAAAAA
98401 TA
1 TA
98403 TATAAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 11 0.29
22 10 0.26
23 17 0.45
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.23
Consensus pattern (22 bp):
TAAATATAAAAAAATATAAAAA
Found at i:98530 original size:13 final size:13
Alignment explanation
Indices: 98512--98537 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98502 CCCCTCACCT
98512 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
98525 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
98538 ATCTTTCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:98624 original size:10 final size:10
Alignment explanation
Indices: 98611--98699 Score: 55
Period size: 10 Copynumber: 9.2 Consensus size: 10
98601 ATTTCATTAT
98611 ATATATATAA
1 ATATATATAA
*
98621 ATATATAAAA
1 ATATATATAA
*
98631 AT-TA-ATAC
1 ATATATATAA
*
98639 GTA-ATATAA
1 ATATATATAA
* *
98648 AAATAACATAA
1 ATAT-ATATAA
98659 ATATCATATAA
1 ATAT-ATATAA
98670 ATATAT-T-A
1 ATATATATAA
98678 ATATAT-TAAA
1 ATATATAT-AA
*
98688 ATATAGATAA
1 ATATATATAA
98698 AT
1 AT
98700 TAATAATTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
8 12 0.20
9 7 0.12
10 23 0.38
11 18 0.30
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (10 bp):
ATATATATAA
Found at i:98692 original size:24 final size:23
Alignment explanation
Indices: 98664--98709 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
98654 CATAAATATC
*
98664 ATATAAATATATTAATATATTAAA
1 ATATAAATAAATTAATA-ATTAAA
*
98688 ATATAGATAAATTAATAATTAA
1 ATATAAATAAATTAATAATTAA
98710 TATGTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATAAATAAATTAATAATTAAA
Found at i:98827 original size:22 final size:20
Alignment explanation
Indices: 98773--98815 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
98763 AAAAACAATA
98773 TTTATA-AAAAATATAAAAT
1 TTTATACAAAAATATAAAAT
*
98792 TTTATACAAAAATATAATAT
1 TTTATACAAAAATATAAAAT
98812 TTTA
1 TTTA
98816 AATATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTATACAAAAATATAAAAT
Found at i:99292 original size:16 final size:14
Alignment explanation
Indices: 99262--99295 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
99252 TATTTTATTA
99262 TTATTTTAAAATTT
1 TTATTTTAAAATTT
99276 TTATATTTAAAATTT
1 TTAT-TTTAAAATTT
99291 TTATT
1 TTATT
99296 CAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTTAAAATTT
Found at i:99362 original size:2 final size:2
Alignment explanation
Indices: 99355--99391 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
99345 CATTTTTCAA
*
99355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
99392 AAAAAGAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:111604 original size:15 final size:15
Alignment explanation
Indices: 111586--111666 Score: 56
Period size: 15 Copynumber: 5.2 Consensus size: 15
111576 ATTTTGTTTG
111586 AAAATATTTAAATTT
1 AAAATATTTAAATTT
*
111601 AAAATTTGTTTAAATTT
1 AAAA--TATTTAAATTT
** * **
111618 AATTTATTAAAAAAT
1 AAAATATTTAAATTT
*
111633 AAAATATTTTAAATTG
1 AAAATA-TTTAAATTT
111649 AAAA-ATTTTAAATTT
1 AAAATA-TTTAAATTT
111664 AAA
1 AAA
111667 TTAATTTTAA
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
15 28 0.57
16 9 0.18
17 12 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
AAAATATTTAAATTT
Found at i:113172 original size:18 final size:17
Alignment explanation
Indices: 113151--113185 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
113141 AGACTTTACA
113151 TACACATTAGATATTTTT
1 TACA-ATTAGATATTTTT
*
113169 TACATTTAGATATTTTT
1 TACAATTAGATATTTTT
113186 CATTTTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (17 bp):
TACAATTAGATATTTTT
Found at i:114701 original size:10 final size:10
Alignment explanation
Indices: 114683--114719 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
114673 TTGGTAGGTT
114683 GAAAAAAAAG
1 GAAAAAAAAG
*
114693 GAGAAAAAAG
1 GAAAAAAAAG
114703 GAAAAAAAA-
1 GAAAAAAAAG
114712 GAAAAAAA
1 GAAAAAAA
114720 TTATATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAG
Found at i:114708 original size:9 final size:9
Alignment explanation
Indices: 114685--114719 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
114675 GGTAGGTTGA
114685 AAAAAAAGG
1 AAAAAAAGG
114694 AGAAAAAAGG
1 A-AAAAAAGG
*
114704 AAAAAAAAG
1 AAAAAAAGG
114713 AAAAAAA
1 AAAAAAA
114720 TTATATATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:116119 original size:15 final size:16
Alignment explanation
Indices: 116099--116134 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
116089 TATTAAAAAT
116099 AATTAAAAATATAA-A
1 AATTAAAAATATAATA
116114 AATTAAAAATATAATA
1 AATTAAAAATATAATA
116130 AATTA
1 AATTA
116135 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTAAAAATATAATA
Found at i:116263 original size:17 final size:18
Alignment explanation
Indices: 116243--116283 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
116233 AATTATTATT
116243 TAATAAAATTTATT-TT-A
1 TAATAAAATTT-TTATTAA
*
116260 TAATTAAATTTTTATTAA
1 TAATAAAATTTTTATTAA
116278 TAATAA
1 TAATAA
116284 TTAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 12 0.60
18 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATAAAATTTTTATTAA
Found at i:116411 original size:13 final size:13
Alignment explanation
Indices: 116393--116420 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
116383 ATTTTACCCA
116393 ATATTCTATACAT
1 ATATTCTATACAT
116406 ATATTCTATACAT
1 ATATTCTATACAT
116419 AT
1 AT
116421 TATTTTGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTCTATACAT
Found at i:116445 original size:2 final size:2
Alignment explanation
Indices: 116438--116468 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
116428 CCCAATATTC
116438 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116469 TCACCAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116980 original size:17 final size:17
Alignment explanation
Indices: 116961--116992 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
116951 GTAAATATAT
116961 TTTTTTTAA-CCAAAAC
1 TTTTTTTAACCCAAAAC
116977 TTTTTTTAACCCAAAA
1 TTTTTTTAACCCAAAA
116993 TAAAAAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTTTTAACCCAAAAC
Found at i:117607 original size:17 final size:16
Alignment explanation
Indices: 117550--117608 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
117540 TATATTTAAA
117550 AAATTTTATATTTTTAT
1 AAATTTTA-ATTTTTAT
117567 AAATTTTAATATTTTA-
1 AAATTTTAAT-TTTTAT
117583 ATAA--TTAATTTTATAT
1 A-AATTTTAATTTT-TAT
117599 AAATTTTAAT
1 AAATTTTAAT
117609 ATATTCGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
14 3 0.08
15 9 0.25
16 4 0.11
17 20 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATTTTAATTTTTAT
Found at i:118246 original size:17 final size:17
Alignment explanation
Indices: 118224--118258 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
118214 GATTACATCT
118224 AACATAAAATAAAAATA
1 AACATAAAATAAAAATA
* *
118241 AACATAAATTCAAAATA
1 AACATAAAATAAAAATA
118258 A
1 A
118259 CCCTAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (17 bp):
AACATAAAATAAAAATA
Found at i:119355 original size:111 final size:113
Alignment explanation
Indices: 119128--119389 Score: 354
Period size: 111 Copynumber: 2.3 Consensus size: 113
119118 CAAATAACTT
* *
119128 TTAATTTAAAAAAATTACATTAATAAATTAAAATATTAATTATTTTTTAAAATAAAAAATTAAAT
1 TTAATTTAAAAAAATTACATTAACAAATTAAAATATAAATTATTTTTT---ATAAAAAA-TAAAT
*
119193 TAAAAAAGATTTATTATTATTATTATTTAATAAAATTAAAAATAATATTTAA
62 TAAAAAAGATTTATTATTATTATTATTTAATAAAATAAAAAATAATATTTAA
*
119245 TTAAGTTTAAAAAAATTACATTAACAAATTAAAATATAAATTATATTTTT-T-ATAAA-AAA-T-
1 TTAA-TTTAAAAAAATTACATTAACAAATTAAAATATAAATTAT-TTTTTATAAAAAATAAATTA
* *
119305 AAAAAGTATTTATTATTATTATTTTTTAATAAAATAAAAAATGATATTTAA
64 AAAAAG-ATTTATTATTATTATTATTTAATAAAATAAAAAATAATATTTAA
*
119356 TTAAATTTAAAAAATTTACATTAACAAATTAAAA
1 TT-AATTTAAAAAAATTACATTAACAAATTAAAA
119390 AATTAACATT
Statistics
Matches: 134, Mismatches: 7, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
110 6 0.04
111 72 0.54
112 5 0.04
114 4 0.03
115 1 0.01
117 4 0.03
118 37 0.28
119 5 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (113 bp):
TTAATTTAAAAAAATTACATTAACAAATTAAAATATAAATTATTTTTTATAAAAAATAAATTAAA
AAAGATTTATTATTATTATTATTTAATAAAATAAAAAATAATATTTAA
Found at i:119387 original size:22 final size:23
Alignment explanation
Indices: 119362--119414 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
119352 TTAATTAAAT
*
119362 TTAAAAAATTTACA-TTAACAAA
1 TTAAAAAATTAACATTTAACAAA
**
119384 TTAAAAAATTAACATTTAAGGAA
1 TTAAAAAATTAACATTTAACAAA
119407 TTAAAAAA
1 TTAAAAAA
119415 AATTTAGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (23 bp):
TTAAAAAATTAACATTTAACAAA
Found at i:119412 original size:111 final size:110
Alignment explanation
Indices: 119195--119414 Score: 300
Period size: 111 Copynumber: 2.0 Consensus size: 110
119185 AATTAAATTA
* *
119195 AAAAAGATTTATTATTATTATTATTTAATAAAATTAAAAATAATATTTAATTAAGTTTAAAAAAA
1 AAAAAGATTTATTATTATTATTATTTAATAAAATAAAAAATAATATTTAATTAAATTTAAAAAAA
* *****
119260 TTACATTAACAAATTAAAATATAAATTATATTTTTTATAAAAAAT
66 TTACATTAACAAATTAAAAAATAAATTATAAGGAATATAAAAAAT
* *
119305 AAAAAGTATTTATTATTATTATTTTTTAATAAAATAAAAAATGATATTTAATTAAATTTAAAAAA
1 AAAAAG-ATTTATTATTATTATTATTTAATAAAATAAAAAATAATATTTAATTAAATTTAAAAAA
*
119370 TTTACATTAACAAATTAAAAAATTAACATT-TAAGGAAT-TAAAAAA
65 ATTACATTAACAAATTAAAAAA-TAA-ATTATAAGGAATATAAAAAA
119415 AATTTAGGGT
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
110 6 0.06
111 81 0.84
112 6 0.06
113 3 0.03
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (110 bp):
AAAAAGATTTATTATTATTATTATTTAATAAAATAAAAAATAATATTTAATTAAATTTAAAAAAA
TTACATTAACAAATTAAAAAATAAATTATAAGGAATATAAAAAAT
Found at i:127176 original size:1 final size:1
Alignment explanation
Indices: 127172--127228 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
127162 TTTTCTTGGG
* * * * * *
127172 TTTTTTTTGTTTTTGTTTTTTGTTTTTTGTTTTTTTGTTTTTTTTTTATTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
127229 GGGTGTAAAG
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:127189 original size:15 final size:15
Alignment explanation
Indices: 127171--127229 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
127161 TTTTTCTTGG
127171 GTTTTTTTTGTTTTT
1 GTTTTTTTTGTTTTT
*
127186 GTTTTTTGT-TTTTT
1 GTTTTTTTTGTTTTT
127200 G-TTTTTTTGTTTTT
1 GTTTTTTTTGTTTTT
*
127214 -TTTTTATTTTTTTTT
1 GTTTTT-TTTGTTTTT
127229 G
1 G
127230 GGTGTAAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.16
14 15 0.41
15 16 0.43
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (15 bp):
GTTTTTTTTGTTTTT
Done.