Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009636.1 Hibiscus syriacus cultivar Beakdansim tig00117040_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 700957
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 1 of 4
Found at i:4598 original size:2 final size:2
Alignment explanation
Indices: 4591--4627 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
4581 CCTAAATGAA
4591 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT A- 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
4628 GTTTGAGCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4610 original size:15 final size:15
Alignment explanation
Indices: 4590--4627 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
4580 ACCTAAATGA
4590 AATATATATATATAT
1 AATATATATATATAT
4605 AATATATATATATAT
1 AATATATATATATAT
4620 AATATATA
1 AATATATA
4628 GTTTGAGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATATATATAT
Found at i:4611 original size:13 final size:12
Alignment explanation
Indices: 4591--4627 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
4581 CCTAAATGAA
4591 ATATATATATAT
1 ATATATATATAT
4603 ATA-ATATATAT
1 ATATATATATAT
4614 ATATATA-ATAT
1 ATATATATATAT
4625 ATA
1 ATA
4628 GTTTGAGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATATATATAT
Found at i:7395 original size:20 final size:22
Alignment explanation
Indices: 7356--7395 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
7346 AAAAATATTG
*
7356 AGAGAAAATATAAATTAAAAAA
1 AGAGAAAATATAAATGAAAAAA
7378 AGAGAAAA-A-AAATGAAAA
1 AGAGAAAATATAAATGAAAA
7396 GATGAACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 1 0.06
22 8 0.47
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (22 bp):
AGAGAAAATATAAATGAAAAAA
Found at i:7517 original size:20 final size:19
Alignment explanation
Indices: 7471--7517 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
7461 TACTATTTAA
*
7471 TATATTATTTATATGTTAT
1 TATAATATTTATATGTTAT
*
7490 TGTAAATATTTATATTGTTAT
1 TAT-AATATTTATA-TGTTAT
7511 TATAATA
1 TATAATA
7518 CGTTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 13 0.57
21 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
TATAATATTTATATGTTAT
Found at i:8460 original size:35 final size:34
Alignment explanation
Indices: 8416--8528 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
8406 AAAACAATTC
*
8416 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
8451 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
8486 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
8521 TCAATTTC
1 TCAATTTC
8529 TGTCTTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 64 0.90
36 6 0.08
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:9592 original size:35 final size:35
Alignment explanation
Indices: 9541--9648 Score: 137
Period size: 35 Copynumber: 3.1 Consensus size: 35
9531 CTCCTTAAAC
* *
9541 TGAAGTATTTTAGAATTTGGGGTTTAGAATGTAAT
1 TGAATTATTTTAGAATTTGGGGTTTAGAATGAAAT
* *
9576 TGAATTATTTTAGAATTTAGGGTTTAGAATAAAAT
1 TGAATTATTTTAGAATTTGGGGTTTAGAATGAAAT
* * *
9611 TGAATTACTTT-GAAATTTGGGATTTATAATGAAAT
1 TGAATTATTTTAG-AATTTGGGGTTTAGAATGAAAT
9646 TGA
1 TGA
9649 TGAATGTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 1 0.02
35 62 0.98
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.43
Consensus pattern (35 bp):
TGAATTATTTTAGAATTTGGGGTTTAGAATGAAAT
Found at i:34754 original size:24 final size:27
Alignment explanation
Indices: 34722--34770 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
34712 GATACTGCTG
34722 AAATATTTAT-AT-TTTT-ATTTAATA
1 AAATATTTATGATATTTTAATTTAATA
34746 AAATATTTATGATATTTTAATTTAA
1 AAATATTTATGATATTTTAATTTAA
34771 CATTTAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 2 0.09
26 4 0.18
27 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
AAATATTTATGATATTTTAATTTAATA
Found at i:36164 original size:21 final size:20
Alignment explanation
Indices: 36126--36164 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36116 AAGTCACTGT
*
36126 TTTTATTTGTTTACGTTTAA
1 TTTTATTTGTTTAAGTTTAA
*
36146 TTTTGTTTGTATTAAGTTT
1 TTTTATTTGT-TTAAGTTT
36165 GAGTTCGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.18, C:0.03, G:0.13, T:0.67
Consensus pattern (20 bp):
TTTTATTTGTTTAAGTTTAA
Found at i:46679 original size:99 final size:96
Alignment explanation
Indices: 46497--46690 Score: 284
Period size: 99 Copynumber: 2.0 Consensus size: 96
46487 GGAAAGACTA
* *
46497 AAGGGAAGGAGGTTGAGGCATTGCCGCCATTAAAGCAACAAGAAATACAAGGGAAGGATTCTCCC
1 AAGGGAAGGAGGTTGAGGCATTGCCGCCATTAAAACAACAAGAAATACAAAGGAAGGATTCTCCC
46562 ACCGCAAAGCAAACCGGAGAAGAAAAGGCTC
66 ACCGCAAAGCAAACCGGAGAAGAAAAGGCTC
* * *
46593 AAGGGAAGG-GGATTGAGGCATTGCCGTCATTAAAACAAGAAGAAGAAATACAAAGTAAGG-TTC
1 AAGGGAAGGAGG-TTGAGGCATTGCCGCCATTAAAAC---AACAAGAAATACAAAGGAAGGATT-
46656 CTCCCACCGCAAAGCAAACCGGAGAAGAAAAGGCT
61 CTCCCACCGCAAAGCAAACCGGAGAAGAAAAGGCT
46691 GGTGAGTCCA
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
95 2 0.02
96 31 0.35
98 2 0.02
99 53 0.60
ACGTcount: A:0.41, C:0.20, G:0.27, T:0.12
Consensus pattern (96 bp):
AAGGGAAGGAGGTTGAGGCATTGCCGCCATTAAAACAACAAGAAATACAAAGGAAGGATTCTCCC
ACCGCAAAGCAAACCGGAGAAGAAAAGGCTC
Found at i:54962 original size:21 final size:21
Alignment explanation
Indices: 54936--54981 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
54926 ATAATATATT
*
54936 TAATTTATATTATTTATAATA
1 TAATTTATATTATTTAAAATA
* * *
54957 TAATTTTTATTTTTTAAAATT
1 TAATTTATATTATTTAAAATA
54978 TAAT
1 TAAT
54982 CATCAAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TAATTTATATTATTTAAAATA
Found at i:55363 original size:23 final size:21
Alignment explanation
Indices: 55310--55366 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 21
55300 GGCCATCCGA
*
55310 CCGAGGTCATCCG-AGAGCAT
1 CCGAGGCCATCCGAAGAGCAT
55330 CCGAGGCCATCCGAACGAGCTAT
1 CCGAGGCCATCCGAA-GAGC-AT
* *
55353 GCGAGGGCATCCGA
1 CCGAGGCCATCCGA
55367 GGGCAACCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.39
21 1 0.03
22 4 0.13
23 14 0.45
ACGTcount: A:0.25, C:0.32, G:0.32, T:0.12
Consensus pattern (21 bp):
CCGAGGCCATCCGAAGAGCAT
Found at i:55368 original size:33 final size:33
Alignment explanation
Indices: 55290--55392 Score: 134
Period size: 33 Copynumber: 3.1 Consensus size: 33
55280 CCAACACGCT
* * *
55290 GGGCATCCGAGGCCATCCGACCGAGGTCATCCGA
1 GGGCATCCGAGGCCATCCGAACGAGCT-ATGCGA
*
55324 GAGCATCCGAGGCCATCCGAACGAGCTATGCGA
1 GGGCATCCGAGGCCATCCGAACGAGCTATGCGA
* * *
55357 GGGCATCCGAGGGCAACCGAGCGAGCTATGCGA
1 GGGCATCCGAGGCCATCCGAACGAGCTATGCGA
55390 GGG
1 GGG
55393 AAGCCGAGCG
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
33 37 0.61
34 24 0.39
ACGTcount: A:0.23, C:0.30, G:0.36, T:0.11
Consensus pattern (33 bp):
GGGCATCCGAGGCCATCCGAACGAGCTATGCGA
Found at i:55369 original size:10 final size:10
Alignment explanation
Indices: 55290--55377 Score: 59
Period size: 10 Copynumber: 8.1 Consensus size: 10
55280 CCAACACGCT
55290 GGGCATCCGA
1 GGGCATCCGA
*
55300 GGCCATCCGA
1 GGGCATCCGA
55310 CCGAGGTCATCCGA
1 --G-GG-CATCCGA
*
55324 GAGCATCCGA
1 GGGCATCCGA
*
55334 GGCCATCCGAA
1 GGGCATCCG-A
* *
55345 CGAGCTATGCGA
1 -GGGC-ATCCGA
55357 GGGCATCCGA
1 GGGCATCCGA
*
55367 GGGCAACCGA
1 GGGCATCCGA
55377 G
1 G
55378 CGAGCTATGC
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
10 38 0.63
11 5 0.08
12 5 0.08
13 5 0.08
14 7 0.12
ACGTcount: A:0.24, C:0.32, G:0.34, T:0.10
Consensus pattern (10 bp):
GGGCATCCGA
Found at i:55400 original size:33 final size:33
Alignment explanation
Indices: 55330--55400 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
55320 CCGAGAGCAT
* * *
55330 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGCCAACCGAACGAGCTATGCGAGGGAAG
* *
55363 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAG
1 CCGAGGCCAACCGAACGAGCTATGCGAGGGAAG
55396 CCGAG
1 CCGAG
55401 CGAGGGTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.28, G:0.38, T:0.08
Consensus pattern (33 bp):
CCGAGGCCAACCGAACGAGCTATGCGAGGGAAG
Found at i:55441 original size:29 final size:29
Alignment explanation
Indices: 55408--55463 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
55398 GAGCGAGGGT
*
55408 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
55437 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
55464 TGTGTTGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:55509 original size:12 final size:12
Alignment explanation
Indices: 55492--55516 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55482 TGCCATGCAA
55492 CACGTTCATTCT
1 CACGTTCATTCT
55504 CACGTTCATTCT
1 CACGTTCATTCT
55516 C
1 C
55517 TCTGTTTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (12 bp):
CACGTTCATTCT
Found at i:55576 original size:29 final size:29
Alignment explanation
Indices: 55534--55590 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
55524 GAGCAAGGGT
*
55534 AGGTCGTCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
55563 AGGTCGCCCGGAGTGCATGGCGACCTAC
1 AGGTCGCCCGGAGTGCATGGCGACCTAC
55591 GGCCAACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.30, G:0.35, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:56395 original size:20 final size:19
Alignment explanation
Indices: 56370--56421 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
56360 GCTGCTGGAA
* *
56370 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
56390 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
56409 AACCGGGTTGACC
1 AACCGGTTTGACC
56422 CGACCCGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:56399 original size:10 final size:10
Alignment explanation
Indices: 56370--56419 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
56360 GCTGCTGGAA
56370 AACCGGTTTG
1 AACCGGTTTG
*
56380 -ACCAGTTTTG
1 AACC-GGTTTG
56390 AACCGGTTTG
1 AACCGGTTTG
*
56400 -ACCGGTCTG
1 AACCGGTTTG
*
56409 AACCGGGTTG
1 AACCGGTTTG
56419 A
1 A
56420 CCCGACCCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
9 11 0.34
10 18 0.56
11 3 0.09
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:56437 original size:17 final size:17
Alignment explanation
Indices: 56415--56472 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
56405 TCTGAACCGG
*
56415 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
56432 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
56449 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
56466 GTTGACC
1 GTTGACC
56473 GTTGACCGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:56486 original size:6 final size:7
Alignment explanation
Indices: 56462--56491 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
56452 GACCCGACCC
56462 GACCGTT
1 GACCGTT
56469 GACCGTT
1 GACCGTT
56476 GACCG-T
1 GACCGTT
56482 GACCGTT
1 GACCGTT
56489 GAC
1 GAC
56492 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:56486 original size:13 final size:14
Alignment explanation
Indices: 56462--56491 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
56452 GACCCGACCC
56462 GACCGTTGACCGTT
1 GACCGTTGACCGTT
56476 GACCG-TGACCGTT
1 GACCGTTGACCGTT
56489 GAC
1 GAC
56492 TTTCTTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:62994 original size:10 final size:10
Alignment explanation
Indices: 62965--63033 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 10
62955 GCTGCTGGAA
62965 AACCGGTTTG
1 AACCGGTTTG
*
62975 -ACCAGTTTTG
1 AACC-GGTTTG
62985 AACCGGTTTG
1 AACCGGTTTG
*
62995 -ACCGGTCTG
1 AACCGGTTTG
63004 AACCGGTTTG
1 AACCGGTTTG
*
63014 -ACCGGTCTG
1 AACCGGTTTG
*
63023 AACCGGGTTG
1 AACCGGTTTG
63033 A
1 A
63034 CCCGACCCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.40
10 26 0.54
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:63007 original size:19 final size:19
Alignment explanation
Indices: 62965--63035 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
62955 GCTGCTGGAA
* *
62965 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
62985 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
63004 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
63023 AACCGGGTTGACC
1 AACCGGTTTGACC
63036 CGACCCGACT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 35 0.73
20 13 0.27
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:63051 original size:17 final size:17
Alignment explanation
Indices: 63029--63086 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
63019 TCTGAACCGG
*
63029 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
63046 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
63063 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
63080 GTTGACC
1 GTTGACC
63087 GTTGACCGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:63086 original size:7 final size:7
Alignment explanation
Indices: 63076--63119 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
63066 GACCCGACCC
63076 GACCGTT
1 GACCGTT
63083 GACCGTT
1 GACCGTT
63090 GACCGTT
1 GACCGTT
63097 GACCG-T
1 GACCGTT
63103 GACCGTT
1 GACCGTT
63110 GACCGTT
1 GACCGTT
63117 GAC
1 GAC
63120 TTTCTTTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.17
7 30 0.83
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.25
Consensus pattern (7 bp):
GACCGTT
Found at i:63107 original size:20 final size:21
Alignment explanation
Indices: 63076--63119 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
63066 GACCCGACCC
63076 GACCGTTGACCGTTGACCGTT
1 GACCGTTGACCGTTGACCGTT
63097 GACCG-TGACCGTTGACCGTT
1 GACCGTTGACCGTTGACCGTT
63117 GAC
1 GAC
63120 TTTCTTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.25
Consensus pattern (21 bp):
GACCGTTGACCGTTGACCGTT
Found at i:65637 original size:19 final size:20
Alignment explanation
Indices: 65603--65640 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
65593 TTCTACATGT
65603 TGATTTATATGCGTTATATA
1 TGATTTATATGCGTTATATA
*
65623 TGATTT-TATGTGTTATAT
1 TGATTTATATGCGTTATAT
65641 TTTTAGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (20 bp):
TGATTTATATGCGTTATATA
Found at i:72357 original size:225 final size:225
Alignment explanation
Indices: 71966--72398 Score: 638
Period size: 225 Copynumber: 1.9 Consensus size: 225
71956 TGCCTTTCCC
* * * * * * * *
71966 AAATACTTAGATCTTTCTCTTGCTTTTGTCTCCATCTCTATCTTCGTAGCACAAGGCAAAGCTCT
1 AAATACTTAGATCCTTCTATAGCTTTTGTCGCCATCTCTATCTTCGAAGAACAAGGCAAAACCCT
72031 TGTTGCAACTCAATTTTGCTTATCTTATTTTGTACGGTGCACCCAGCTCTTTTCCATGTAATAAG
66 TGTTGCAACTCAATTTTGCTTATCTTATTTTGTACGGTGCACCCAGCTCTTTTCCATGTAATAAG
* * * * * *
72096 CACCTATCCGTTGTCATCAAATTGAAATAAGGAGTAGCACTTCGTCAGAATCATGAATCTCTATT
131 CACCGATCCATTGTCATCAAATCGAAATAAGGAGTAGCACTTCGTCAGAATAATAAATCACTA-T
72161 TC-TTCTTTCGGTTTGTTTCAACAGACTAAT
195 TCGTTCTTTCGGTTTGTTTCAACAGACTAAT
*
72191 AAATACTTAGATCCTTCTATAAG-TTTTGTCGCCAT-TTTCATCTTCGAAGAACAAGGCAAAACC
1 AAATACTTAGATCCTTCTAT-AGCTTTTGTCGCCATCTCT-ATCTTCGAAGAACAAGGCAAAACC
* *
72254 CTTGTTGCAACTCGATTTTGTTTATCTTATTTTGTACGGTGCACCCAGCTCTTTTCCATGTAATA
64 CTTGTTGCAACTCAATTTTGCTTATCTTATTTTGTACGGTGCACCCAGCTCTTTTCCATGTAATA
* * *
72319 ATCACCGATCCATTGTCATCGAATCGAAATAAGGAGTAGCACTTTGTCAGAATAATAAATCACTA
129 AGCACCGATCCATTGTCATCAAATCGAAATAAGGAGTAGCACTTCGTCAGAATAATAAATCACTA
72384 TTCGTTCTTTCGGTT
194 TTCGTTCTTTCGGTT
72399 GTTCCATATT
Statistics
Matches: 185, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
224 5 0.03
225 179 0.97
226 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (225 bp):
AAATACTTAGATCCTTCTATAGCTTTTGTCGCCATCTCTATCTTCGAAGAACAAGGCAAAACCCT
TGTTGCAACTCAATTTTGCTTATCTTATTTTGTACGGTGCACCCAGCTCTTTTCCATGTAATAAG
CACCGATCCATTGTCATCAAATCGAAATAAGGAGTAGCACTTCGTCAGAATAATAAATCACTATT
CGTTCTTTCGGTTTGTTTCAACAGACTAAT
Found at i:73803 original size:171 final size:163
Alignment explanation
Indices: 73468--73804 Score: 415
Period size: 171 Copynumber: 2.0 Consensus size: 163
73458 ATTTAGACCT
* * *
73468 CTCTTTCCATGAAGCACCAACAATCATACAAAATTTGCACTAAATCTTCTACTTTTTCCTCCTTT
1 CTCTTTCCATGAACCACCAACAATCATACAAAATTTGCACTAAATCTACTACTTTCTCCTCCTTT
* * * * * **
73533 GCACCTCGGATTCTTCATTTTTCTTAAAATATCCGTACTTGATACTCGTGTTTGACATTTACGTC
66 GCACCTCAGATTCTTCATTATTCTTAAAATATCCATACTTGATACTCGTGTCTGACATTCACGAA
*
73598 CGAGTCTGCATAATGTATTTCTTGTGATTTATA
131 CGAGTCTGCATAACGTATTTCTTGTGATTTATA
* ** *
73631 CTCTTTCCATGAACCACCAACAATCATACTAGTTTTGCACTAAATCTACTAGTTTCTCCTCCTTT
1 CTCTTTCCATGAACCACCAACAATCATACAAAATTTGCACTAAATCTACTACTTTCTCCTCCTTT
* * *
73696 GCACCTATAATGCTCAGATTCTTCATTATTCTTGAAATATTCATACTTGATACTTGTGTCTGACA
66 GCA-C-------CTCAGATTCTTCATTATTCTTAAAATATCCATACTTGATACTCGTGTCTGACA
*
73761 TTCACGAATGAGTCTG-AGTAACGTATTTCTTGTGATTTATA
123 TTCACGAACGAGTCTGCA-TAACGTATTTCTTGTGATTTATA
73802 CTC
1 CTC
73805 CAAATTAAAG
Statistics
Matches: 146, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
163 61 0.42
164 1 0.01
170 1 0.01
171 83 0.57
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (163 bp):
CTCTTTCCATGAACCACCAACAATCATACAAAATTTGCACTAAATCTACTACTTTCTCCTCCTTT
GCACCTCAGATTCTTCATTATTCTTAAAATATCCATACTTGATACTCGTGTCTGACATTCACGAA
CGAGTCTGCATAACGTATTTCTTGTGATTTATA
Found at i:75164 original size:11 final size:11
Alignment explanation
Indices: 75150--75179 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
75140 TTAAGTCGTT
75150 TTTTTAAAATA
1 TTTTTAAAATA
75161 TTTTTAAAATA
1 TTTTTAAAATA
75172 TTTCTTAA
1 TTT-TTAA
75180 GTAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:76562 original size:12 final size:14
Alignment explanation
Indices: 76525--76565 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 14
76515 TTTTTATTTT
76525 TTATTATAATTATTAA
1 TTATT-TAA-TATTAA
76541 TTATTTAATATTAA
1 TTATTTAATATTAA
76555 -TA-TTAATATTA
1 TTATTTAATATTA
76566 TTTTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
14 6 0.24
15 3 0.12
16 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTTAATATTAA
Found at i:76572 original size:20 final size:21
Alignment explanation
Indices: 76519--76573 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 21
76509 ATCGTTTTTT
*
76519 TATT-TTTTATT-ATAATTAT
1 TATTATTTTATTAATAATTAA
76538 TAATTATTTAATATTAAT-ATTAA
1 T-ATTATTT--TATTAATAATTAA
76561 TATTATTTTATTA
1 TATTATTTTATTA
76574 TTTTAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
19 1 0.03
20 8 0.27
21 3 0.10
22 7 0.23
23 9 0.30
24 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTTTATTAATAATTAA
Found at i:76575 original size:23 final size:23
Alignment explanation
Indices: 76519--76575 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 23
76509 ATCGTTTTTT
76519 TATT-TTTTATTA-TAATTATTA
1 TATTATTTTATTATTAATTATTA
*
76540 -ATTA-TTTAATATTAA-TATTAA
1 TATTATTTTATTATTAATTATT-A
76561 TATTATTTTATTATT
1 TATTATTTTATTATT
76576 TTAAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 13 0.45
21 4 0.14
22 4 0.14
23 8 0.28
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTTTATTATTAATTATTA
Found at i:77660 original size:17 final size:19
Alignment explanation
Indices: 77635--77671 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
77625 AGACAGATGG
*
77635 AACATTAAT-TAA-AAATT
1 AACAATAATATAATAAATT
77652 AACAATAATATAATAAATT
1 AACAATAATATAATAAATT
77671 A
1 A
77672 TTAACGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 3 0.18
19 6 0.35
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AACAATAATATAATAAATT
Found at i:79364 original size:10 final size:10
Alignment explanation
Indices: 79349--79391 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
79339 CACTTAATAA
79349 ATAAACGAAC
1 ATAAACGAAC
79359 ATAAACGAAC
1 ATAAACGAAC
79369 ----ACGAAC
1 ATAAACGAAC
79375 ATAAACGAAC
1 ATAAACGAAC
79385 ATAAACG
1 ATAAACG
79392 TTGGAGACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.21
10 23 0.79
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:79374 original size:16 final size:16
Alignment explanation
Indices: 79353--79385 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
79343 TAATAAATAA
79353 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
79369 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
79385 A
1 A
79386 TAAACGTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:80499 original size:65 final size:65
Alignment explanation
Indices: 80366--80575 Score: 218
Period size: 65 Copynumber: 3.2 Consensus size: 65
80356 TACACTAAGA
* * *
80366 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCTAGAGTGCATCGATGCATGGTTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCTACAGTGCATCGATGCATGGTTG
* *
80430 GTGCATCGATGCATCAAATGTATTCGATGTTTTCATAAA-ATCCT-CAGTGCATCGGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATA-CCTACAGTGCATCGATGCATGGT
80493 AT-
64 -TG
* ** * *
80495 GTGCATCGATGCATGAAATGCATTCGATG--TTCAATTTA-ATTCATGGTGCATCGATGCATGGA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCTACA--GTGCATCGATGCATGG-
80557 TTG
63 TTG
*
80560 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
80576 CTCTGAAAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
61 1 0.01
62 3 0.02
63 5 0.04
64 43 0.35
65 65 0.53
66 6 0.05
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCTACAGTGCATCGATGCATGGTTG
Found at i:81003 original size:2 final size:2
Alignment explanation
Indices: 80996--81036 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
80986 AATTGATTAA
80996 AT 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 AT A
81037 GCTTAAGCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:81610 original size:21 final size:21
Alignment explanation
Indices: 81586--81629 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
81576 GAGCTGGAGG
* *
81586 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
81607 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
81628 AG
1 AG
81630 CTCCAGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:89083 original size:18 final size:17
Alignment explanation
Indices: 89029--89077 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
89019 TTGGACCCTT
* *
89029 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
89047 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
89065 AGTGCATTCGATG
1 AGTGCA-TCGATG
89078 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:89247 original size:65 final size:64
Alignment explanation
Indices: 89049--89258 Score: 241
Period size: 65 Copynumber: 3.2 Consensus size: 64
89039 TGCACTAAGA
* * ** *
89049 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGTTG
*
89113 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGATGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGT
89176 AT-
63 -TG
* *
89178 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-TT
89242 G
64 G
*
89243 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
89259 CTCTGAAAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 52 0.42
65 64 0.51
66 1 0.01
67 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:89947 original size:24 final size:24
Alignment explanation
Indices: 89911--89956 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
89901 AGATTGGGTT
89911 AAACATAAACGAACGAACATAAAC
1 AAACATAAACGAACGAACATAAAC
* *
89935 AAACATAACCGAATGAACATAA
1 AAACATAAACGAACGAACATAA
89957 TTGAACGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.61, C:0.20, G:0.09, T:0.11
Consensus pattern (24 bp):
AAACATAAACGAACGAACATAAAC
Found at i:90707 original size:2 final size:2
Alignment explanation
Indices: 90700--90731 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
90690 CATATTGGCC
90700 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
90732 GTATGTACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94218 original size:3 final size:3
Alignment explanation
Indices: 94210--94258 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
94200 GGATTGGTGA
94210 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
94257 TA
1 TA
94259 GTCATAGCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:107212 original size:21 final size:21
Alignment explanation
Indices: 107161--107236 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
107151 TGGCTTCGAT
* **
107161 CATATGGGGATCTCTCGTGAG
1 CATATGGGGATCTATCAAGAG
** *
107182 CATACAGGGATCTATCACGAG
1 CATATGGGGATCTATCAAGAG
* * *
107203 TATATGGGGATTTCTCAAGAG
1 CATATGGGGATCTATCAAGAG
107224 CATATGGGGATCT
1 CATATGGGGATCT
107237 GTCCCAAGGG
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (21 bp):
CATATGGGGATCTATCAAGAG
Found at i:108511 original size:27 final size:27
Alignment explanation
Indices: 108475--108670 Score: 306
Period size: 27 Copynumber: 7.3 Consensus size: 27
108465 TTTCGCGGCA
*
108475 GCTGCTGTTGTGATTCCTGTTGCTTCT
1 GCTGCTGTTGTGGTTCCTGTTGCTTCT
108502 GCTGCTGTTGTGGTTCCTGTTGCTTCT
1 GCTGCTGTTGTGGTTCCTGTTGCTTCT
108529 GCTGCTGTTGTGGTTCCTGTTGCTTCT
1 GCTGCTGTTGTGGTTCCTGTTGCTTCT
* *
108556 GCTGCTGTTGTGATTCCGGTTGCTTCT
1 GCTGCTGTTGTGGTTCCTGTTGCTTCT
108583 GCTGCTGTTGTGGTTCCT-TCTGCTTCT
1 GCTGCTGTTGTGGTTCCTGT-TGCTTCT
* * *
108610 GCTGCTGCTGTGATTCCGGTTGCTTCT
1 GCTGCTGTTGTGGTTCCTGTTGCTTCT
108637 GCTGCTGTTGTGGTTCCT-TCTGCTTCT
1 GCTGCTGTTGTGGTTCCTGT-TGCTTCT
108664 GCTGCTG
1 GCTGCTG
108671 CTGTTGCTGC
Statistics
Matches: 155, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
26 2 0.01
27 152 0.98
28 1 0.01
ACGTcount: A:0.02, C:0.24, G:0.29, T:0.46
Consensus pattern (27 bp):
GCTGCTGTTGTGGTTCCTGTTGCTTCT
Found at i:110770 original size:22 final size:23
Alignment explanation
Indices: 110740--110793 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
110730 AATAAGTTCG
*
110740 ATTCATTT-ACTTTCGTAAACAT
1 ATTCATTTAACGTTCGTAAACAT
* *
110762 ATTCGTTTAACGTTCGTGAACAT
1 ATTCATTTAACGTTCGTAAACAT
* *
110785 TTTAATTTA
1 ATTCATTTA
110794 GAACATGTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (23 bp):
ATTCATTTAACGTTCGTAAACAT
Found at i:115227 original size:20 final size:19
Alignment explanation
Indices: 115204--115248 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
115194 TATCTTTTAA
*
115204 TTTATTAATTTAAAATAAAT
1 TTTATT-ATTGAAAATAAAT
* *
115224 TTTATTCTTGAAAATAATT
1 TTTATTATTGAAAATAAAT
115243 TTTATT
1 TTTATT
115249 GGAGTGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTATTATTGAAAATAAAT
Found at i:115840 original size:3 final size:3
Alignment explanation
Indices: 115832--115857 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
115822 ACTATAAACT
115832 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
115858 TTTGGATAAT
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:119144 original size:25 final size:25
Alignment explanation
Indices: 119116--119163 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
119106 AAAATTATAA
*
119116 ATTAATTAAATTATTACAAAATATC
1 ATTAAATAAATTATTACAAAATATC
* *
119141 ATTAAATGAGTTATTACAAAATA
1 ATTAAATAAATTATTACAAAATA
119164 ATTCTCAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTAAATAAATTATTACAAAATATC
Found at i:133622 original size:29 final size:28
Alignment explanation
Indices: 133572--133640 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
133562 TAACCGCAGC
133572 AATAATT--TTATAATAATATTTTAAATA
1 AATAATTAATTATAATAATATTTTAAA-A
* * *
133599 AATAATTAATTATAATATTCTTTTAGAA
1 AATAATTAATTATAATAATATTTTAAAA
*
133627 AATATTTCAATTAT
1 AATAATT-AATTAT
133641 TATCAAACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 7 0.20
28 7 0.20
29 21 0.60
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (28 bp):
AATAATTAATTATAATAATATTTTAAAA
Found at i:134345 original size:21 final size:19
Alignment explanation
Indices: 134308--134351 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
134298 TTGATAAAAA
* *
134308 ATTTATCTAAAATATTATT
1 ATTTATCTAAAACATTAAT
134327 ATTTATACATAAAACATTAAT
1 ATTTAT-C-TAAAACATTAAT
134348 ATTT
1 ATTT
134352 TTTAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 1 0.05
21 14 0.67
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTATCTAAAACATTAAT
Found at i:135722 original size:50 final size:51
Alignment explanation
Indices: 135596--135723 Score: 152
Period size: 51 Copynumber: 2.5 Consensus size: 51
135586 TTAGCAGTAA
* ** *
135596 AGCGCGCCCCCTGCACCGCGTTATACGATGATTTGACGTCACGTGGGGTAT
1 AGCGCGGCCCCTGCACCGCGTTATACGATGAGCTGACGCCACGTGGGGTAT
* * *
135647 AGCG-TGCCCCATGCACCGCGTTATACGGTGAGCTGGCGCCACGT-GGGTAT
1 AGCGCGGCCCC-TGCACCGCGTTATACGATGAGCTGACGCCACGTGGGGTAT
* *
135697 AGCGCGGCCCCTGCAGCGCGCTATACG
1 AGCGCGGCCCCTGCACCGCGTTATACG
135724 CCACGTAGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
50 28 0.43
51 37 0.57
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (51 bp):
AGCGCGGCCCCTGCACCGCGTTATACGATGAGCTGACGCCACGTGGGGTAT
Found at i:135813 original size:49 final size:51
Alignment explanation
Indices: 135735--135857 Score: 180
Period size: 49 Copynumber: 2.5 Consensus size: 51
135725 CACGTAGGGG
** *
135735 TATAGCGCGGATCAGGTACCGCGCTATACCTTTACTCCT-A-ATAATTTTA
1 TATAGCGCGGGGCAGGTACCGCGCTATACCATTACTCCTGACATAATTTTA
*
135784 TATAGCGTGGGGCAGGTACCGCGAC-ATACCATTACTCCTGACATAATTTTA
1 TATAGCGCGGGGCAGGTACCGCG-CTATACCATTACTCCTGACATAATTTTA
135835 TATAGCGCGGGGCAGGTACCGCG
1 TATAGCGCGGGGCAGGTACCGCG
135858 TTTTGTATAA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
49 33 0.50
50 2 0.03
51 31 0.47
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
TATAGCGCGGGGCAGGTACCGCGCTATACCATTACTCCTGACATAATTTTA
Found at i:137646 original size:23 final size:23
Alignment explanation
Indices: 137620--137688 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
137610 CACCATAGCT
*
137620 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
137643 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
137666 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
137689 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:137830 original size:103 final size:103
Alignment explanation
Indices: 137704--138021 Score: 600
Period size: 103 Copynumber: 3.1 Consensus size: 103
137694 TAATGTCCAT
*
137704 AAGGACTACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
137769 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
137807 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
137872 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
137910 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
** *
137975 GACTTCACATGTGTTCTAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
138013 AAGGACCAC
1 AAGGACCAC
138022 GTAGACCCTC
Statistics
Matches: 211, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 211 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:142794 original size:18 final size:18
Alignment explanation
Indices: 142754--142794 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
142744 GAAAGGCGAT
* *
142754 GGCGGCATCATATGTGGG
1 GGCGGCATCATATATGGC
142772 GGCGGCATCATATATGGC
1 GGCGGCATCATATATGGC
*
142790 TGCGG
1 GGCGG
142795 TGGCTTCGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.20, G:0.41, T:0.22
Consensus pattern (18 bp):
GGCGGCATCATATATGGC
Found at i:144435 original size:106 final size:108
Alignment explanation
Indices: 144312--144527 Score: 321
Period size: 110 Copynumber: 2.0 Consensus size: 108
144302 ATTACAAAAA
* * * * *
144312 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACT-A-ATTATTAATAA-TAATTTAAA
1 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAATATTACTAATAATTAAATTAAA
* *
144374 TTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGTCGAGATAT
65 TTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
144418 TTAATTATTAATATAATAATCATGCATTAAATAAATAACTAAATATTACTAATAATTTAAATTAA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATAACT-AATATTACTAATAA-TTAAATTAA
144483 ATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
64 ATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
144528 ATGATTTCCA
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
105 4 0.04
106 33 0.34
107 1 0.01
108 10 0.10
110 50 0.51
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (108 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATAACTAATATTACTAATAATTAAATTAAAT
TAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:144665 original size:12 final size:10
Alignment explanation
Indices: 144651--144691 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
144641 ACCTTAAAAA
*
144651 GAGAGTATTT
1 GAGAGAATTT
144661 GAGAGAAATTT
1 GAGAG-AATTT
144672 -AGAGAATTT
1 GAGAGAATTT
144681 GAGAGAATTT
1 GAGAGAATTT
144691 G
1 G
144692 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:144825 original size:50 final size:50
Alignment explanation
Indices: 144771--144928 Score: 146
Period size: 50 Copynumber: 3.1 Consensus size: 50
144761 GCCCCCTGCA
* *
144771 CCGCGCTATACCTCACGT-GT-CAGATATACAAGTATAGCGCGTTGCAGGGG
1 CCGCGCTATACCTCACGTGGTCCAGAT-CAC-AGTATAGCGCGGTGCAGGGG
* *
144821 CCGCGCTATACC-CACGTGGTGCCAGCTCACCGTATAGCGCGGTGCAGGGG
1 CCGCGCTATACCTCACGTGGT-CCAGATCACAGTATAGCGCGGTGCAGGGG
* * * *
144871 GCGCGCTATACCTCATGTTGCG-CCAAATCATC-GTATAGCGCGGTACAGGGG
1 CCGCGCTATACCTCACG-TG-GTCCAGATCA-CAGTATAGCGCGGTGCAGGGG
*
144922 GCGCGCT
1 CCGCGCT
144929 TTACTGCTAA
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
49 5 0.05
50 43 0.47
51 36 0.39
52 7 0.08
53 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.31, T:0.20
Consensus pattern (50 bp):
CCGCGCTATACCTCACGTGGTCCAGATCACAGTATAGCGCGGTGCAGGGG
Found at i:144911 original size:51 final size:50
Alignment explanation
Indices: 144802--144928 Score: 164
Period size: 51 Copynumber: 2.5 Consensus size: 50
144792 AGATATACAA
* * * **
144802 GTATAGCGCGTTGCAGGGGCCGCGCTATACCCACGTGGTGCCAGCTCACC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* * *
144852 GTATAGCGCGGTGCAGGGGGCGCGCTATACCTCATGTTGCGCCAAATCATC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACC-CACGTGGCGCCAAATCACC
*
144903 GTATAGCGCGGTACAGGGGGCGCGCT
1 GTATAGCGCGGTGCAGGGGGCGCGCT
144929 TTACTGCTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 29 0.43
51 38 0.57
ACGTcount: A:0.17, C:0.29, G:0.35, T:0.19
Consensus pattern (50 bp):
GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:151266 original size:3 final size:3
Alignment explanation
Indices: 151260--151301 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
151250 AGAAGAAGAA
151260 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
151302 AAGAAAGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:151306 original size:3 final size:3
Alignment explanation
Indices: 151300--151371 Score: 126
Period size: 3 Copynumber: 23.7 Consensus size: 3
151290 GAGGAGGAGG
151300 AGA AGAA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
151346 AGA AGA AGA AGA AGA AAA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
151372 TCGAAGTCGG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:151576 original size:3 final size:3
Alignment explanation
Indices: 151568--151648 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
151558 GATAGATTTT
151568 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
151616 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
151649 TCGGGTTGAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:151780 original size:271 final size:272
Alignment explanation
Indices: 151300--151840 Score: 1003
Period size: 271 Copynumber: 2.0 Consensus size: 272
151290 GAGGAGGAGG
151300 AGAAGAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAA
1 AGAAGAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAA
** *
151365 GAAGAAGTCGAAGTCGGGTTGATATTCTTATGAAGGAATGCACATACGGAGGGAGGAGGAGGAGG
66 GAAGAAGAAGAAGTCGGGTTGATATTCTTATGAAGGAATACACATACGGAGGGAGGAGGAGGAGG
151430 TCAAATTAAGGATGTATACATTTCGTTTAACTTATATTTTTAATATTTTTCATATTAATATTAGG
131 TCAAATTAAGGATGTATACATTTCGTTTAACTTATATTTTTAATATTTTTCATATTAATATTAGG
*
151495 TTTTGATATTTTTTATTTTATTTTGATATAATAATTTTGTTTTATGATTTTAAAATCTTATTCGA
196 TTTTGAGATTTTTTATTTTATTTTGATATAATAATTTTGTTTTATGATTTTAAAATCTTATTCGA
151560 TAGATTTTAAGA
261 TAGATTTTAAGA
*
151572 AGAAG-AAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA
1 AGAAGAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAA
*
151636 GAAGAAGAAGAAGTCGGGTTGATATTCTTATGAAGGAATACACGTACGGAGGGAGGAGGAGGAGG
66 GAAGAAGAAGAAGTCGGGTTGATATTCTTATGAAGGAATACACATACGGAGGGAGGAGGAGGAGG
151701 TCAAATTAAGGATGTATACATTTCGTTTAACTTATATTTTTAATATTTTTCATATTAATATTAGG
131 TCAAATTAAGGATGTATACATTTCGTTTAACTTATATTTTTAATATTTTTCATATTAATATTAGG
* *
151766 TTTTGAGATTTTTTATTTTATTTTTATATAATAATTTTGTTTTGTGATTTTAAAATCTTATTCGA
196 TTTTGAGATTTTTTATTTTATTTTGATATAATAATTTTGTTTTATGATTTTAAAATCTTATTCGA
151831 TAGATTTTAA
261 TAGATTTTAA
151841 AATATTTTTT
Statistics
Matches: 261, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
271 256 0.98
272 5 0.02
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.33
Consensus pattern (272 bp):
AGAAGAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAA
GAAGAAGAAGAAGTCGGGTTGATATTCTTATGAAGGAATACACATACGGAGGGAGGAGGAGGAGG
TCAAATTAAGGATGTATACATTTCGTTTAACTTATATTTTTAATATTTTTCATATTAATATTAGG
TTTTGAGATTTTTTATTTTATTTTGATATAATAATTTTGTTTTATGATTTTAAAATCTTATTCGA
TAGATTTTAAGA
Found at i:155352 original size:25 final size:26
Alignment explanation
Indices: 155315--155364 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
155305 GTTTATCCTA
* *
155315 TAAAAATAGAAAAAGTATAAACAAAT
1 TAAAAATAAAAAAAGTACAAACAAAT
*
155341 TAAAAA-AAAAAACGTACAAACAAA
1 TAAAAATAAAAAAAGTACAAACAAA
155365 CTTCGTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (26 bp):
TAAAAATAAAAAAAGTACAAACAAAT
Found at i:160385 original size:36 final size:36
Alignment explanation
Indices: 160346--160415 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
160336 AAACATGAGA
*
160346 AAAAAAATAAAAA-ATAT-TAATATAATAATATTAAT
1 AAAAAAATAAAAATATATAT-ATATAACAATATTAAT
*
160381 AAAAAAATAAAAATATATATATATAACAATGTTAA
1 AAAAAAATAAAAATATATATATATAACAATATTAA
160416 AAGAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 13 0.42
36 17 0.55
37 1 0.03
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (36 bp):
AAAAAAATAAAAATATATATATATAACAATATTAAT
Found at i:160389 original size:14 final size:14
Alignment explanation
Indices: 160354--160389 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
160344 GAAAAAAAAT
160354 AAAAAATATTAATA
1 AAAAAATATTAATA
* *
160368 TAATAATATTAATA
1 AAAAAATATTAATA
160382 AAAAAATA
1 AAAAAATA
160390 AAAATATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAAATATTAATA
Found at i:160393 original size:34 final size:32
Alignment explanation
Indices: 160345--160433 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 32
160335 TAAACATGAG
*
160345 AAAAAAAATAAAAAATATTAATATAATAATATT
1 AAAAAAAAT-AAAAATATTAATATAACAATATT
*
160378 AATAAAAAAATAAAAATATATATATATAACAATGTT
1 -A-AAAAAAATAAAAATAT-TA-ATATAACAATATT
* *
160414 AAAAGAAATAAAATTATTAA
1 AAAAAAAATAAAAATATTAA
160434 AATAGGAAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
32 1 0.02
33 2 0.04
34 23 0.48
35 11 0.23
36 11 0.23
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (32 bp):
AAAAAAAATAAAAATATTAATATAACAATATT
Found at i:160802 original size:33 final size:33
Alignment explanation
Indices: 160765--160844 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 33
160755 GTCATACTTG
*
160765 GACTCAAATGC-TTCAGTTTTAGTGTTTCAATAA
1 GACTCAAATACATT-AGTTTTAGTGTTTCAATAA
*
160798 GACTCAAATACATTTGTTTTAGTGTTTCAATAA
1 GACTCAAATACATTAGTTTTAGTGTTTCAATAA
*
160831 GATTCAAATACATT
1 GACTCAAATACATT
160845 GATTTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 41 0.95
34 2 0.05
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (33 bp):
GACTCAAATACATTAGTTTTAGTGTTTCAATAA
Found at i:160919 original size:13 final size:13
Alignment explanation
Indices: 160900--160950 Score: 61
Period size: 13 Copynumber: 3.8 Consensus size: 13
160890 GCCTACAAAA
160900 ATAATAAAA-AAT
1 ATAATAAAATAAT
160912 ATTAATAATAATAAT
1 A-TAATAA-AATAAT
160927 A-AATAAATATAAT
1 ATAATAAA-ATAAT
160940 ATAATAAAATA
1 ATAATAAAATA
160951 TTTTTGTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.06
13 20 0.59
14 8 0.24
15 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAATAAAATAAT
Found at i:160923 original size:19 final size:20
Alignment explanation
Indices: 160899--160946 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
160889 GGCCTACAAA
160899 AATAATAAAAAATATTAATAAT
1 AATAATAAAAAATATT-AT-AT
*
160921 AATAATAAATAAATATAATAT
1 AATAATAAA-AAATATTATAT
160942 AATAA
1 AATAA
160947 AATATTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 11 0.46
23 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAATAAAAAATATTATAT
Found at i:161420 original size:83 final size:83
Alignment explanation
Indices: 161274--161426 Score: 202
Period size: 83 Copynumber: 1.8 Consensus size: 83
161264 CGGTTGATAC
* * * *
161274 GCCTTGGAGCTGAATGGAATCGAACTCGAAGGTCTTTTTTGACAGATAACCTTTCTAGCCTTGAG
1 GCCTTGGAGCTGAACGGAATCGAACTCGAAGGTCTTTTTAGACAGATAACCCTTCTAGACTTGAG
*
161339 TTATGCTGTAGATGATGT
66 CTATGCTGTAGATGATGT
* * *
161357 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTAG-CAGATAACCCTTCTCA-ACTTG
1 GCCTTGGAGCTGAACGGAATCGAACTCGAAGGTCTTT-TTAGACAGATAACCCTTCT-AGACTTG
161420 AGCTATG
64 AGCTATG
161427 TTGCAAATGA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
83 56 0.93
84 4 0.07
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (83 bp):
GCCTTGGAGCTGAACGGAATCGAACTCGAAGGTCTTTTTAGACAGATAACCCTTCTAGACTTGAG
CTATGCTGTAGATGATGT
Found at i:162128 original size:110 final size:107
Alignment explanation
Indices: 161933--162186 Score: 375
Period size: 110 Copynumber: 2.4 Consensus size: 107
161923 TATTGCTCCG
* * *
161933 AGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTC-TGGAACTGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTTGGAAATGGAAAATTGTTTGTTGACAA
161997 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTA
66 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTA
* * * *
162039 AGTCCAATATCCTTTGCTGTGAAGTTGAAATTGACTCTTAATGAAATTGAAAAGTTGTTTGTTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTT--GGAAATGGAAAA-TTGTTTGTTGA
*
162104 CAATCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTG
63 CAATCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTA
* **
162149 GGTCCAATATTATTCGCTGTGAAGTTGAAATTGGCTCT
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
162187 GAAATTGGGA
Statistics
Matches: 131, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
106 34 0.26
107 1 0.01
109 8 0.06
110 88 0.67
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (107 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTTGGAAATGGAAAATTGTTTGTTGACAA
TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTA
Found at i:165148 original size:15 final size:16
Alignment explanation
Indices: 165128--165158 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
165118 TAGTAAGGTA
165128 AATAAAAAT-AAAAAT
1 AATAAAAATGAAAAAT
165143 AATAAAAATGAAAAAT
1 AATAAAAATGAAAAAT
165159 CCTACCCCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
AATAAAAATGAAAAAT
Found at i:166650 original size:3 final size:3
Alignment explanation
Indices: 166642--166689 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
166632 GGCCTGTAAA
166642 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AA- ATAT AAT -AT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT
166686 AAT A
1 AAT A
166690 TTTTTGTAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 5 0.12
3 31 0.77
4 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:166853 original size:18 final size:18
Alignment explanation
Indices: 166819--166864 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
166809 TTCAACTACA
*
166819 AATATTAATATTTTT-AAT
1 AATA-TAATTTTTTTAAAT
166837 AATATAATTTTTATTAAAT
1 AATATAATTTTT-TTAAAT
166856 AATA-AATTT
1 AATATAATTT
166865 AAATTCTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 11 0.44
19 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATATAATTTTTTTAAAT
Found at i:168758 original size:19 final size:19
Alignment explanation
Indices: 168734--168799 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
168724 TATATACTTC
168734 AAGAAACATGATTATCACA
1 AAGAAACATGATTATCACA
* * *
168753 AAGAAA-TTAGATCAACATGCA
1 AAGAAACAT-GATTATCA--CA
*
168774 CAGAAAACATGATTATCACA
1 AAG-AAACATGATTATCACA
168794 AAGAAA
1 AAGAAA
168800 TTAGGTCAAC
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
18 1 0.03
19 15 0.44
20 4 0.12
21 4 0.12
22 9 0.26
23 1 0.03
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.18
Consensus pattern (19 bp):
AAGAAACATGATTATCACA
Found at i:168778 original size:21 final size:21
Alignment explanation
Indices: 168754--168819 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
168744 ATTATCACAA
168754 AGAAATTAGATCAACATGCAC
1 AGAAATTAGATCAACATGCAC
** * * *
168775 AGAAAACATGATTATCA--CAA
1 AGAAATTA-GATCAACATGCAC
*
168795 AGAAATTAGGTCAACATGCAC
1 AGAAATTAGATCAACATGCAC
168816 AGAA
1 AGAA
168820 GCACCTTATA
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
19 5 0.16
20 8 0.26
21 12 0.39
22 6 0.19
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (21 bp):
AGAAATTAGATCAACATGCAC
Found at i:168782 original size:41 final size:41
Alignment explanation
Indices: 168737--168819 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
168727 ATACTTCAAG
168737 AAACATGATTATCACAAAGAAATTAGATCAACATGCACAGA
1 AAACATGATTATCACAAAGAAATTAGATCAACATGCACAGA
*
168778 AAACATGATTATCACAAAGAAATTAGGTCAACATGCACAGA
1 AAACATGATTATCACAAAGAAATTAGATCAACATGCACAGA
168819 A
1 A
168820 GCACCTTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.19
Consensus pattern (41 bp):
AAACATGATTATCACAAAGAAATTAGATCAACATGCACAGA
Found at i:171823 original size:1 final size:1
Alignment explanation
Indices: 171819--171855 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
171809 AAAGGGGCGC
171819 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
171856 ACTATTCAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:172466 original size:2 final size:2
Alignment explanation
Indices: 172459--172496 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
172449 TATGGGGTCA
172459 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
172497 TCATTGTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:178262 original size:32 final size:32
Alignment explanation
Indices: 178221--178284 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
178211 GCGAGGGAAG
178221 TCTGGGGCAACTGTGAAATCAGTTGCTTAGCT
1 TCTGGGGCAACTGTGAAATCAGTTGCTTAGCT
178253 TCTGGGGCAACTGTGAAATCAGTTGCTTAGCT
1 TCTGGGGCAACTGTGAAATCAGTTGCTTAGCT
178285 ATGCTGTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (32 bp):
TCTGGGGCAACTGTGAAATCAGTTGCTTAGCT
Found at i:183940 original size:29 final size:29
Alignment explanation
Indices: 183906--183991 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 29
183896 ATTTTGTATA
*
183906 TCTTAAATTTTAAAATTATCTTTTATTTTT
1 TCTTAAATTTTAAAA-TATATTTTATTTTT
*
183936 T-TTAACTTATT-AAATATATTTTATTTTT
1 TCTTAAATT-TTAAAATATATTTTATTTTT
*
183964 TCTTAACATATT-AAATATA-TTTATTTTT
1 TCTTAA-ATTTTAAAATATATTTTATTTTT
183992 ATTTTAATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
28 23 0.47
29 22 0.45
30 4 0.08
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (29 bp):
TCTTAAATTTTAAAATATATTTTATTTTT
Found at i:183961 original size:28 final size:29
Alignment explanation
Indices: 183926--183991 Score: 109
Period size: 28 Copynumber: 2.3 Consensus size: 29
183916 TAAAATTATC
*
183926 TTTTATTTTTT-TTAACTTATTAAATATA
1 TTTTATTTTTTCTTAACATATTAAATATA
183954 TTTTATTTTTTCTTAACATATTAAATATA
1 TTTTATTTTTTCTTAACATATTAAATATA
183983 -TTTATTTTT
1 TTTTATTTTT
183992 ATTTTAATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 20 0.56
29 16 0.44
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTATTTTTTCTTAACATATTAAATATA
Found at i:183998 original size:29 final size:29
Alignment explanation
Indices: 183926--183998 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
183916 TAAAATTATC
*
183926 TTTTA-TTTTTTTTAACTTATTAAATATA
1 TTTTATTTTTTTTTAACATATTAAATATA
*
183954 TTTTATTTTTTCTTAACATATTAAATATA
1 TTTTATTTTTTTTTAACATATTAAATATA
183983 -TTTATTTTTATTTTAA
1 TTTTATTTTT-TTTTAA
183999 TGTAAAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 14 0.35
29 26 0.65
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTATTTTTTTTTAACATATTAAATATA
Found at i:184103 original size:25 final size:28
Alignment explanation
Indices: 184075--184137 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
184065 AACATGTTTA
184075 AATATATATA-TT-T-TTATATTAAATT
1 AATATATATATTTATATTATATTAAATT
184100 AATATATATATTTTATATTATATTAAATT
1 AATATATATA-TTTATATTATATTAAATT
184129 AATATATAT
1 AATATATAT
184138 TTAAATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 10 0.29
27 2 0.06
28 1 0.03
29 21 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AATATATATATTTATATTATATTAAATT
Found at i:184112 original size:66 final size:64
Alignment explanation
Indices: 184037--184261 Score: 208
Period size: 66 Copynumber: 3.5 Consensus size: 64
184027 TCACTTAAAA
184037 ATATATATTTTAAAATATTTTAACTTAAAACATGTTTAAATATATATATTTTTATATTAAATTAA
1 ATATATATTTTAAAATATTTTAACTTAAAA-AT-TTTAAATATATATATTTTTATATTAAATTAA
184102 T
64 T
* * * * * *
184103 ATATATATTTTATATTATATTAAATTAATATATATTTAAATATATATTTTTATTATATTAAATTA
1 ATATATATTTTAAAATATTTTAACTTAA-AAAT-TTTAAATATATATATTT-TTATATTAAATTA
184168 AT
63 AT
* * ** * ** *
184170 ATATTTA-TAT-ATTTTTTTTATA-TTAAATTAATAATAAA-ATATATATTTTTATATTAATTTA
1 ATATATATTTTAAAATATTTTA-ACTTAAA--AATTTTAAATATATATATTTTTATATTAAATTA
*
184231 AA
63 AT
184233 ATATAT-TTTTAAAATATTTTAACTTAAAA
1 ATATATATTTTAAAATATTTTAACTTAAAA
184262 TATAAATTTT
Statistics
Matches: 127, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
62 1 0.01
63 21 0.17
64 22 0.17
65 14 0.11
66 47 0.37
67 22 0.17
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (64 bp):
ATATATATTTTAAAATATTTTAACTTAAAAATTTTAAATATATATATTTTTATATTAAATTAAT
Found at i:184117 original size:32 final size:32
Alignment explanation
Indices: 184081--184243 Score: 135
Period size: 32 Copynumber: 5.1 Consensus size: 32
184071 TTTAAATATA
184081 TATATTTTTATATTAAATTAATATATATATTT
1 TATATTTTTATATTAAATTAATATATATATTT
184113 TATA---TTATATTAAATTAATATATAT-TTAAAT
1 TATATTTTTATATTAAATTAATATATATATT---T
*
184144 ATATATTTTTATTATATTAAATTAATATATTTATATAT
1 -TATA--TTT-TTATATTAAATTAATATA--TATATTT
* * *
184182 T-T-TTTTTATATTAAATTAATA-ATAAAATA
1 TATATTTTTATATTAAATTAATATATATATTT
* *
184211 TATATTTTTATATTAATTTAAAATATAT-TTT
1 TATATTTTTATATTAAATTAATATATATATTT
184242 TA
1 TA
184244 AAATATTTTA
Statistics
Matches: 105, Mismatches: 10, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
28 2 0.02
29 25 0.24
30 1 0.01
31 22 0.21
32 27 0.26
33 3 0.03
36 1 0.01
37 1 0.01
38 19 0.18
40 3 0.03
41 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TATATTTTTATATTAAATTAATATATATATTT
Found at i:184148 original size:27 final size:29
Alignment explanation
Indices: 184088--184150 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
184078 ATATATATTT
**
184088 TTATATTAAATTAATATATATATTTTATA
1 TTATATTAAATTAATATATATATTAAATA
184117 TTATATTAAATTAATATATAT-TTAAATA
1 TTATATTAAATTAATATATATATTAAATA
184145 -TATATT
1 TTATATT
184151 TTTATTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 6 0.19
28 5 0.16
29 21 0.66
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TTATATTAAATTAATATATATATTAAATA
Found at i:184239 original size:15 final size:15
Alignment explanation
Indices: 184219--184265 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
184209 TATATATTTT
184219 TATATTAATTTAAAA
1 TATATTAATTTAAAA
184234 TATATT--TTTAAAA
1 TATATTAATTTAAAA
* *
184247 TATTTTAACTTAAAA
1 TATATTAATTTAAAA
184262 TATA
1 TATA
184266 AATTTTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 12 0.44
15 15 0.56
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TATATTAATTTAAAA
Found at i:184253 original size:23 final size:23
Alignment explanation
Indices: 184210--184254 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
184200 ATAATAAAAT
* *
184210 ATATATTTTTATATTAATTTAAA
1 ATATATTTTTAAAATAATTTAAA
*
184233 ATATATTTTTAAAATATTTTAA
1 ATATATTTTTAAAATAATTTAA
184255 CTTAAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATATATTTTTAAAATAATTTAAA
Found at i:184368 original size:31 final size:32
Alignment explanation
Indices: 184330--184398 Score: 122
Period size: 31 Copynumber: 2.2 Consensus size: 32
184320 ATATATTTAA
*
184330 ATATTTTATTATTAATTTAATAT-AAATATAT
1 ATATTTTATTATTAATTTAATATAAAAAATAT
184361 ATATTTTATTATTAATTTAATATAAAAAATAT
1 ATATTTTATTATTAATTTAATATAAAAAATAT
184393 ATATTT
1 ATATTT
184399 AAATATATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
ATATTTTATTATTAATTTAATATAAAAAATAT
Found at i:184423 original size:15 final size:16
Alignment explanation
Indices: 184397--184426 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
184387 AAATATATAT
184397 TTAAATATATTTTAAG
1 TTAAATATATTTTAAG
184413 TTAAA-ATATTTTAA
1 TTAAATATATTTTAA
184427 AAAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTAAATATATTTTAAG
Found at i:184510 original size:28 final size:28
Alignment explanation
Indices: 184479--184544 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 28
184469 ACATTAAAAT
*
184479 AAAAATAAATATATTTAATAAGTT-AAG
1 AAAAATAAATATATTTAATAAGTTAAAC
184506 AAAAATAAAATATATTTAATAAGTTAAAAC
1 AAAAAT-AAATATATTTAATAAGTT-AAAC
184536 AAAAATAAA
1 AAAAATAAA
184545 AGATAATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 6 0.17
28 18 0.51
29 3 0.09
30 8 0.23
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (28 bp):
AAAAATAAATATATTTAATAAGTTAAAC
Found at i:190467 original size:24 final size:24
Alignment explanation
Indices: 190440--190491 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
190430 CGTTCATTTA
*
190440 CGTTCGTGAACGTTCGATTATGTT
1 CGTTCATGAACGTTCGATTATGTT
* ** *
190464 CGTTTATGTTCGTTCGGTTATGTT
1 CGTTCATGAACGTTCGATTATGTT
190488 CGTT
1 CGTT
190492 TATGTTCATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.48
Consensus pattern (24 bp):
CGTTCATGAACGTTCGATTATGTT
Found at i:190476 original size:10 final size:10
Alignment explanation
Indices: 190451--190498 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
190441 GTTCGTGAAC
*
190451 GTTCGATTAT
1 GTTCGTTTAT
190461 GTTCGTTTAT
1 GTTCGTTTAT
190471 GTTCGTTCGGTTAT
1 GTTCG-T---TTAT
190485 GTTCGTTTAT
1 GTTCGTTTAT
190495 GTTC
1 GTTC
190499 ATTCATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.10, C:0.12, G:0.23, T:0.54
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:190478 original size:14 final size:14
Alignment explanation
Indices: 190461--190491 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
190451 GTTCGATTAT
*
190461 GTTCGTTTATGTTC
1 GTTCGGTTATGTTC
190475 GTTCGGTTATGTTC
1 GTTCGGTTATGTTC
190489 GTT
1 GTT
190492 TATGTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.13, G:0.26, T:0.55
Consensus pattern (14 bp):
GTTCGGTTATGTTC
Found at i:190492 original size:24 final size:24
Alignment explanation
Indices: 190450--190511 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
190440 CGTTCGTGAA
190450 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGATTATGTTCGTTTATGTT
*
190474 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGATTATGTTCGTTTATGTT
*
190498 CATTC-ATTTATGTT
1 CGTTCGA-TTATGTT
190512 TAACCCAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.13, C:0.13, G:0.19, T:0.55
Consensus pattern (24 bp):
CGTTCGATTATGTTCGTTTATGTT
Found at i:191650 original size:16 final size:16
Alignment explanation
Indices: 191630--191703 Score: 121
Period size: 16 Copynumber: 4.6 Consensus size: 16
191620 CCAACTTTTA
*
191630 TGTTCATTTATGTTCA
1 TGTTCATTTATGTTCG
191646 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
191662 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
*
191678 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
191694 TGTTCATTTA
1 TGTTCATTTA
191704 AAACGAACAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 55 1.00
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.57
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:209090 original size:18 final size:18
Alignment explanation
Indices: 209067--209104 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
209057 GATTGAATTA
209067 TCTCTACAATTTCAGCTT
1 TCTCTACAATTTCAGCTT
209085 TCTCTACAATTTCAGCTT
1 TCTCTACAATTTCAGCTT
209103 TC
1 TC
209105 ATTCGGACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.05, T:0.45
Consensus pattern (18 bp):
TCTCTACAATTTCAGCTT
Found at i:219614 original size:36 final size:36
Alignment explanation
Indices: 219573--219648 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
219563 ATTTTCGGGA
*
219573 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
219609 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
219645 TTTT
1 TTTT
219649 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:220092 original size:15 final size:15
Alignment explanation
Indices: 220072--220101 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
220062 TATCACAATC
220072 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
220087 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
220102 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:224619 original size:36 final size:36
Alignment explanation
Indices: 224578--224653 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
224568 ATTTTCGGGA
*
224578 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
224614 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
224650 TTTT
1 TTTT
224654 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:227658 original size:37 final size:37
Alignment explanation
Indices: 227617--227724 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
227607 AACATAACGT
227617 TAGAGTTTTACT-TGGATTCAAACTCCTAAAAATATAA
1 TAGAGTTTTACTAT-GATTCAAACTCCTAAAAATATAA
*
227654 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATAA
* *
227691 TAGAGTTCTACTATGATTCAAACTTCTAAAAATA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATA
227725 GGATCCACAA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
37 66 0.99
38 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (37 bp):
TAGAGTTTTACTATGATTCAAACTCCTAAAAATATAA
Found at i:228143 original size:40 final size:41
Alignment explanation
Indices: 228090--228213 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 41
228080 TTTAGATTAC
* *
228090 ATATATATGTATATGTTTCTTTTTATTATCTATTTTATTAATTT
1 ATATATATATATAT-TTACTTTTTATTAT-TATTTTATTAA-TT
* * *
228134 ATATATATATATACTTACTGTTTTTTTATGT-TTTTATTTATT
1 ATATATATATATATTTACT-TTTTATTAT-TATTTTATTAATT
* *
228176 ATATATATATTATTTTTATTTTTTATTATTATTTTATT
1 ATATATATA-TATATTTACTTTTTATTATTATTTTATT
228214 TATATATGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.39
43 19 0.28
44 21 0.31
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (41 bp):
ATATATATATATATTTACTTTTTATTATTATTTTATTAATT
Found at i:228193 original size:24 final size:24
Alignment explanation
Indices: 228164--228214 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
228154 TTTTTTTATG
228164 TTTTTATTTATTA-TATATATATTA
1 TTTTTATTTATTATTAT-TATATTA
* *
228188 TTTTTATTTTTTATTATTATTTTA
1 TTTTTATTTATTATTATTATATTA
228212 TTT
1 TTT
228215 ATATATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTATTTATTATTATTATATTA
Found at i:228211 original size:42 final size:46
Alignment explanation
Indices: 228109--228220 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 46
228099 TATATGTTTC
*
228109 TTTTTATTATCTATTTTATTAATT-TATATATATATATACTTACTG
1 TTTTTATTATCTATTTTATTTATTATATATATATATATACTTACTG
* **
228154 TTTTT-TTATGT-TTTTATTTATTATATATATAT-TATTTTTA-T-
1 TTTTTATTATCTATTTTATTTATTATATATATATATATACTTACTG
228195 TTTTTATTAT-TATTTTATTTA-TATAT
1 TTTTTATTATCTATTTTATTTATTATAT
228221 GTTTTCTTCT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
41 11 0.18
42 14 0.23
43 16 0.27
44 14 0.23
45 5 0.08
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (46 bp):
TTTTTATTATCTATTTTATTTATTATATATATATATATACTTACTG
Found at i:228260 original size:11 final size:10
Alignment explanation
Indices: 228164--228272 Score: 57
Period size: 10 Copynumber: 10.4 Consensus size: 10
228154 TTTTTTTATG
228164 TTTTTATTTA
1 TTTTTATTTA
228174 TTATATATATATTA
1 TT-T-T-TAT-TTA
228188 TTTTTATTT-
1 TTTTTATTTA
228197 TTTATTA-TTA
1 TTT-TTATTTA
228207 -TTTTATTTA
1 TTTTTATTTA
* *
228216 TATATGTTTTCTTC
1 T-T-T-TTAT-TTA
*
228230 TTTTTCTTTA
1 TTTTTATTTA
*
228240 TTTTTCTTTA
1 TTTTTATTTA
228250 TTTTATATTTA
1 TTTT-TATTTA
228261 --TTTATTTA
1 TTTTTATTTA
228269 TTTT
1 TTTT
228273 ACTTACTATT
Statistics
Matches: 79, Mismatches: 5, Indels: 30
0.69 0.04 0.26
Matches are distributed among these distances:
8 9 0.11
9 12 0.15
10 25 0.32
11 13 0.16
12 4 0.05
13 8 0.10
14 8 0.10
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:228296 original size:61 final size:64
Alignment explanation
Indices: 228185--228315 Score: 150
Period size: 62 Copynumber: 2.1 Consensus size: 64
228175 TATATATATA
* * *
228185 TTATTTTTATTTTTTATTATTATTTTATTTATATATGTTTTCTTCTTTTTCTTTAT-TTTTC-T
1 TTATTTTTATTTTTTATTATTATTTTACTTATATATGTTATCTTCTTTTTCTTTATCTTATCTT
228247 TTATTTTATATTTATTTA-T-TTATTTTACTTACTAT-T-TTATCTT-TGTTTTCTTTATCTTAT
1 TTATTTT-TATTT-TTTATTATTATTTTACTTA-TATATGTTATCTTCT-TTTTCTTTATCTTAT
228307 CTT
62 CTT
228310 TTATTT
1 TTATTT
228316 AATTTGTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
60 1 0.02
61 16 0.27
62 23 0.38
63 16 0.27
64 4 0.07
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.73
Consensus pattern (64 bp):
TTATTTTTATTTTTTATTATTATTTTACTTATATATGTTATCTTCTTTTTCTTTATCTTATCTT
Found at i:228343 original size:26 final size:26
Alignment explanation
Indices: 228308--228357 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
228298 TTATCTTATC
* * *
228308 TTTTATTTAATTTGTTTTTTTCTTCA
1 TTTTAATTAATTTATTTATTTCTTCA
228334 TTTTAATTAATTTATTTATTTCTT
1 TTTTAATTAATTTATTTATTTCTT
228358 ATCTTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTTAATTAATTTATTTATTTCTTCA
Found at i:233431 original size:116 final size:116
Alignment explanation
Indices: 233273--233483 Score: 316
Period size: 116 Copynumber: 1.8 Consensus size: 116
233263 CAATATAAGC
* * * * *
233273 TTGGATTTCAACTTTAGGATGAAGGATATTCAAGTTAAGGCTCAACTTCACAAAGAATGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAAGTTAAGGCTCAACTTCACAAAGAAGGGGCCAT
*
233338 CAACGATTTCAACTTCACGACGAAGGGAATTGTGCTCACCAGCAACATTCA
66 CAACGATTTCAACTTCACGACGAAGAGAATTGTGCTCACCAGCAACATTCA
*
233389 TTGGATTTCAACTTCACGACGAAGGATATCCAA-TTCAAGGCTCAACTTCACAACGAAGGGGCCA
1 TTGGATTTCAACTTCACGACGAAGGATATCCAAGTT-AAGGCTCAACTTCACAAAGAAGGGGCCA
* * *
233453 TCTATGGTTTCAACTTCACGACGAAGAGAAT
65 TCAACGATTTCAACTTCACGACGAAGAGAAT
233484 CGTACCCACC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
115 2 0.02
116 82 0.98
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (116 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAAGTTAAGGCTCAACTTCACAAAGAAGGGGCCAT
CAACGATTTCAACTTCACGACGAAGAGAATTGTGCTCACCAGCAACATTCA
Found at i:233654 original size:36 final size:36
Alignment explanation
Indices: 233591--233921 Score: 333
Period size: 36 Copynumber: 9.1 Consensus size: 36
233581 AATTTACTCA
233591 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
233628 AAACAAATTTTATCTCTCTT-ATGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGA-GACAGTTTCTCTTG
*
233664 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
233700 AAACAAA------ATCT-TTGA-ATA-TATTTTACATT-
1 AAACAAATTTTGTCTCTCTTGAGACAGT-TTCT-C-TTG
* *
233729 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
233765 GAACTAAGTTTTGTCTCTCTTGAGACAGTTTATCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
233802 AAACAAATTTTGCCTTCGTCTCTCTTAAGACATTTTCTCTTG
1 AAACAAA--TT---TT-GTCTCTCTTGAGACAGTTTCTCTTG
233844 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
233880 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTC
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTG
233917 AAACA
1 AAACA
233922 CCAATCTTTG
Statistics
Matches: 245, Mismatches: 26, Indels: 46
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.00
28 4 0.02
29 12 0.05
30 5 0.02
35 5 0.02
36 104 0.42
37 78 0.32
38 3 0.01
40 2 0.01
41 2 0.01
42 29 0.12
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.41
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:233843 original size:42 final size:39
Alignment explanation
Indices: 233738--233921 Score: 193
Period size: 37 Copynumber: 4.8 Consensus size: 39
233728 TAAACAAATT
* * * * *
233738 TTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAA-GTT-
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTG
*
233775 TTGTCTCTCTTGAGACAGTTTATCTTGAAACAAATTTTG
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTG
* *
233814 CCTTCGTCTCTCTTAAGACATTTTCTCTTGAAACAAA--TT-
1 --TT-GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTG
*
233853 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA-GTT-
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTG
* *
233890 TTGTCTCTCTTGAGATAGTTTCTCTTCAAACA
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
233922 CCAATCTTTG
Statistics
Matches: 128, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
36 30 0.23
37 63 0.49
38 2 0.02
40 2 0.02
41 2 0.02
42 29 0.23
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (39 bp):
TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTG
Found at i:233865 original size:78 final size:80
Alignment explanation
Indices: 233740--233892 Score: 229
Period size: 78 Copynumber: 1.9 Consensus size: 80
233730 AACAAATTTT
* * * *
233740 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTATCTTGAAA
1 GTCTCCCTTAAGACAGTTTCTCTTGAAACTAAATTTTGTCTCTCTTGAGACAGTTTATCTTGAAA
233805 CAAA-TTTTGCCTTC
66 CAAAGTTTTGCCTTC
* * *
233819 GTCTCTCTTAAGACATTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
1 GTCTCCCTTAAGACAGTTTCTCTTGAAACTAAATTTTGTCTCTCTTGAGACAGTTTATCTTGAAA
233883 CAAAGTTTTG
66 CAAAGTTTTG
233893 TCTCTCTTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 37 0.56
79 29 0.44
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.42
Consensus pattern (80 bp):
GTCTCCCTTAAGACAGTTTCTCTTGAAACTAAATTTTGTCTCTCTTGAGACAGTTTATCTTGAAA
CAAAGTTTTGCCTTC
Found at i:234021 original size:36 final size:36
Alignment explanation
Indices: 233974--234092 Score: 208
Period size: 34 Copynumber: 3.4 Consensus size: 36
233964 CCTTGGGACA
233974 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAATT
234010 GTTTCTCTTGAAACAC--AAAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAATT
*
234044 GTTTCTCTTGAAACACAAAAAAAAA-CTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAATT
234079 GTTTCTCTTGAAAC
1 GTTTCTCTTGAAAC
234093 CCAAGACCTT
Statistics
Matches: 80, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
34 34 0.43
35 23 0.29
36 23 0.29
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (36 bp):
GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAATT
Found at i:234438 original size:20 final size:20
Alignment explanation
Indices: 234413--234462 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
234403 CACGTGCTGA
*
234413 TTCAAATTCCAAGCTACAGC
1 TTCAAATTCCAAACTACAGC
234433 TTCAAATTCCAAACTACAGC
1 TTCAAATTCCAAACTACAGC
234453 TTC-AATTCCA
1 TTCAAATTCCA
234463 TACCAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.28
Consensus pattern (20 bp):
TTCAAATTCCAAACTACAGC
Found at i:234745 original size:37 final size:37
Alignment explanation
Indices: 234704--234779 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
234694 AACATAACGT
* *
234704 TAGAGTTTTACTAGGATTCAAACCCCTAAAAATATGA
1 TAGAGTTCTACTAGGATTCAAACCCCTAAAAATAGGA
* *
234741 TAGAGTTCTACTATGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTCTACTAGGATTCAAACCCCTAAAAATAGGA
234778 TA
1 TA
234780 CACAAGCGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (37 bp):
TAGAGTTCTACTAGGATTCAAACCCCTAAAAATAGGA
Done.