Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010660.1 Kokia drynarioides strain JFW-HI SEQ_125604, 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: 179113
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Warning! 348 characters in sequence are not A, C, G, or T
Found at i:26 original size:13 final size:13
Alignment explanation
Indices: 2--34 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1 T
2 TCTTTCTTTCTTTC
1 TCTTT-TTTCTTTC
16 TCTTTTTTCTTTC
1 TCTTTTTTCTTTC
29 T-TTTTT
1 TCTTTTT
35 CCTTCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 9 0.47
14 5 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TCTTTTTTCTTTC
Found at i:32 original size:11 final size:11
Alignment explanation
Indices: 1--46 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
1 TTCTTTCTTTCT
1 TTCTTTCTTT-T
13 TTC--TCTTTT
1 TTCTTTCTTTT
22 TTCTTTCTTTT
1 TTCTTTCTTTT
* *
33 TTCCTTCATTT
1 TTCTTTCTTTT
44 TTC
1 TTC
47 GTTGGTCCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 4 0.13
10 5 0.17
11 18 0.60
12 3 0.10
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (11 bp):
TTCTTTCTTTT
Found at i:1079 original size:28 final size:28
Alignment explanation
Indices: 1051--1105 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
1041 AATATCAAAT
* *
1051 TTATATATGAATTTT-AATTTGATGTAA
1 TTATACATAAATTTTGAATTTGATGTAA
* *
1078 TTATGCATAAATTTTGATTTTGATGTAA
1 TTATACATAAATTTTGAATTTGATGTAA
1106 CGGTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.51
Consensus pattern (28 bp):
TTATACATAAATTTTGAATTTGATGTAA
Found at i:1784 original size:21 final size:20
Alignment explanation
Indices: 1760--1803 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
1750 TTTAACTTTC
1760 TTTATATATTTTTTTATAATT
1 TTTATATA-TTTTTTATAATT
*
1781 TTTATATATTTTTTGTAATT
1 TTTATATATTTTTTATAATT
1801 TTT
1 TTT
1804 GTTGAGAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTATATATTTTTTATAATT
Found at i:5076 original size:22 final size:22
Alignment explanation
Indices: 5051--5101 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
5041 CGAGCAAACT
5051 AGTAAGAAAATAGACAAAGACA
1 AGTAAGAAAATAGACAAAGACA
5073 AGTAAGAAAATAGACAAAGACA
1 AGTAAGAAAATAGACAAAGACA
5095 AGTAAGA
1 AGTAAGA
5102 GGGGGAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.63, C:0.08, G:0.20, T:0.10
Consensus pattern (22 bp):
AGTAAGAAAATAGACAAAGACA
Found at i:7394 original size:11 final size:12
Alignment explanation
Indices: 7372--7406 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
7362 TGTAAAATGT
7372 AAAAATTAAAAAC
1 AAAAA-TAAAAAC
7385 -AAAATAAAAAC
1 AAAAATAAAAAC
7396 AAAAATAAAAA
1 AAAAATAAAAA
7407 TGACTAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (12 bp):
AAAAATAAAAAC
Found at i:8525 original size:25 final size:25
Alignment explanation
Indices: 8471--8517 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
8461 GTTATATCTA
8471 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
*
8496 AATTAAA-TCTAAACA-ATAATTT
1 AATTAAATTCTAAAAAGATAATTT
8518 CCTAATTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:15798 original size:25 final size:25
Alignment explanation
Indices: 15733--15804 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 25
15723 ACACAAGATT
*
15733 TCAACAAACATGAAGCCTACAACATA
1 TCAACAAACACGAAGCCTACAACA-A
** *
15759 T-ATTAAAAAC--A-CCTACAACAA
1 TCAACAAACACGAAGCCTACAACAA
15780 TCAACAAACACGAAGCCTACAACAA
1 TCAACAAACACGAAGCCTACAACAA
15805 ATATTAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 9
0.69 0.14 0.18
Matches are distributed among these distances:
21 2 0.06
22 15 0.43
23 1 0.03
24 1 0.03
25 15 0.43
26 1 0.03
ACGTcount: A:0.53, C:0.28, G:0.06, T:0.14
Consensus pattern (25 bp):
TCAACAAACACGAAGCCTACAACAA
Found at i:16496 original size:17 final size:17
Alignment explanation
Indices: 16470--16513 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
16460 AAGAAAGTGG
*
16470 TTTTTCTATTTTATAGA
1 TTTTTATATTTTATAGA
* *
16487 TTTTTATATTTTGTGGA
1 TTTTTATATTTTATAGA
*
16504 TTTATATATT
1 TTTTTATATT
16514 ATAAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (17 bp):
TTTTTATATTTTATAGA
Found at i:17666 original size:30 final size:29
Alignment explanation
Indices: 17617--17685 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
17607 GTTTTAGATT
* *
17617 CTTTAAAAGTTGAAGAAAAAAATTTTAGGTC
1 CTTTAAAAGTT-AAGAAAAAAAATTT-GGGC
*
17648 TTTTAAAAGTT-AGTAAAAAAAATTTGGGC
1 CTTTAAAAGTTAAG-AAAAAAAATTTGGGC
17677 CTTTAAAAG
1 CTTTAAAAG
17686 CTAAAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 13 0.39
30 10 0.30
31 10 0.30
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (29 bp):
CTTTAAAAGTTAAGAAAAAAAATTTGGGC
Found at i:17771 original size:60 final size:60
Alignment explanation
Indices: 17650--17775 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
17640 TTTAGGTCTT
* **
17650 TTAAAAGTTAGTAAAAAAAATTTGGGCCTTTAAAAGCTAAAATAATAATTTTTTGGACCC
1 TTAAAAGTTAGTAAAAAAAATTTGGGCCTTTAAAAGCTAAAAGAATAATTTTTTAAACCC
* * **
17710 TTAAAAGTTGGTAAAAAAAATTT-GG-CTTTCAAAAGTTAAAAGAATTTTTTTTTAAATCCC
1 TTAAAAGTTAGTAAAAAAAATTTGGGCCTTT-AAAAGCTAAAAGAATAATTTTTTAAA-CCC
17770 TTAAAA
1 TTAAAA
17776 ATTAAAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 4 0.07
59 22 0.39
60 31 0.54
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.36
Consensus pattern (60 bp):
TTAAAAGTTAGTAAAAAAAATTTGGGCCTTTAAAAGCTAAAAGAATAATTTTTTAAACCC
Found at i:23903 original size:19 final size:19
Alignment explanation
Indices: 23879--23918 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23869 AATTTAATAA
23879 TTTTATAATTTT-TATTTAT
1 TTTTAT-ATTTTATATTTAT
*
23898 TTTTATTTTTTATATTTAT
1 TTTTATATTTTATATTTAT
23917 TT
1 TT
23919 AATTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATATTTTATATTTAT
Found at i:23906 original size:24 final size:24
Alignment explanation
Indices: 23876--23931 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
23866 TAAAATTTAA
*
23876 TAATTTTATAATTTTTATTT-ATTT
1 TAATTTT-TAATATTTATTTAATTT
* *
23900 TTATTTTTTATATTTATTTAATTT
1 TAATTTTTAATATTTATTTAATTT
23924 TAATTTTT
1 TAATTTTT
23932 TTATGATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (24 bp):
TAATTTTTAATATTTATTTAATTT
Found at i:25364 original size:2 final size:2
Alignment explanation
Indices: 25357--25384 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25347 CATGTATCCC
25357 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
25385 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28155 original size:29 final size:31
Alignment explanation
Indices: 28114--28172 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
28104 ATGAATTTAC
28114 CACTAAACTTTGAATTTT-ACTAAATTTTGT
1 CACTAAACTTTGAATTTTAACTAAATTTTGT
* * *
28144 CACTAATC-TTGATTTTTAATTAAATTTTG
1 CACTAAACTTTGAATTTTAACTAAATTTTG
28173 CCAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (31 bp):
CACTAAACTTTGAATTTTAACTAAATTTTGT
Found at i:30091 original size:17 final size:16
Alignment explanation
Indices: 30062--30107 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
30052 TTTATTCTAA
30062 TTTAATTATTTTTATT
1 TTTAATTATTTTTATT
*
30078 TTTAATTAATTTTTATC
1 TTTAATT-ATTTTTATT
*
30095 ATTAATT-TTTTTA
1 TTTAATTATTTTTA
30108 AAATGTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 6 0.22
16 7 0.26
17 14 0.52
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTAATTATTTTTATT
Found at i:35113 original size:18 final size:18
Alignment explanation
Indices: 35090--35135 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
35080 CATCTTATGG
* *
35090 TCGTGGTAGAGGTAGTTT
1 TCGTGGTAAAGGCAGTTT
35108 TCGTGGTAAAGGCAGTTT
1 TCGTGGTAAAGGCAGTTT
*
35126 TCATGGTAAA
1 TCGTGGTAAA
35136 AGCCAAGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.35
Consensus pattern (18 bp):
TCGTGGTAAAGGCAGTTT
Found at i:39971 original size:104 final size:104
Alignment explanation
Indices: 39791--39981 Score: 258
Period size: 104 Copynumber: 1.8 Consensus size: 104
39781 TTTTTTCTCC
* * ** *
39791 TAAGAATATATTGACCCTTTTGATGCGAAATGGAATGACAATCCAAGCATCCCATCTCGATTACT
1 TAAGAATACATTGACCCTTTTGACGCGAAACAGAATGACAACCCAAGCATCCCATCTCGATTACT
*
39856 CAGCCAAACACACTCCTAATTTATTATAATCTTTTTACT
66 CAACCAAACACACTCCTAATTTATTATAATCTTTTTACT
* * * * *
39895 TAAGAATGCATTGGCCCTTTTGACGCGAAACAGAATGACAACCCAAGCATTCCATC-CAGGTTAT
1 TAAGAATACATTGACCCTTTTGACGCGAAACAGAATGACAACCCAAGCATCCCATCTC-GATTAC
*
39959 TCAACCCAACACACTCCTAATTT
65 TCAACCAAACACACTCCTAATTT
39982 GTTTTTCTAT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
103 1 0.01
104 73 0.99
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.29
Consensus pattern (104 bp):
TAAGAATACATTGACCCTTTTGACGCGAAACAGAATGACAACCCAAGCATCCCATCTCGATTACT
CAACCAAACACACTCCTAATTTATTATAATCTTTTTACT
Found at i:44339 original size:17 final size:17
Alignment explanation
Indices: 44289--44343 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
44279 AAGTCCTTTT
* *
44289 AAAATTTAAAACTATTA
1 AAAATTTAAAATTATAA
*
44306 AAAATCATAAAAGTTATAA
1 AAAAT-TTAAAA-TTATAA
44325 AAAATTTAAAATTATAA
1 AAAATTTAAAATTATAA
44342 AA
1 AA
44344 GTTTCATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 13 0.41
18 10 0.31
19 9 0.28
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATTTAAAATTATAA
Found at i:47443 original size:2 final size:2
Alignment explanation
Indices: 47430--47480 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
47420 TTGAGAATAC
* * *
47430 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
47472 GT AT AT AT A
1 AT AT AT AT A
47481 CAGACACAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:48310 original size:21 final size:20
Alignment explanation
Indices: 48269--48311 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
48259 TACGTGATAA
*
48269 TTTATGTAATTAATGTATAT
1 TTTATGTAATTAATATATAT
48289 TTTATGTTAATATAATAT-TAT
1 TTTATG-TAAT-TAATATATAT
48310 TT
1 TT
48312 ATTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
TTTATGTAATTAATATATAT
Found at i:50649 original size:27 final size:28
Alignment explanation
Indices: 50616--50683 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
50606 AATATCAAAC
*
50616 TTAAGTATCAAATT-GGAT-AAAAAAATT
1 TTAAGTATCAAATTAAG-TCAAAAAAATT
*
50643 TTAAGTACCAAATTAAGTCAAAAAAATT
1 TTAAGTATCAAATTAAGTCAAAAAAATT
* *
50671 TTAATTATTAAAT
1 TTAAGTATCAAAT
50684 AAAAAAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 14 0.41
28 20 0.59
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.35
Consensus pattern (28 bp):
TTAAGTATCAAATTAAGTCAAAAAAATT
Found at i:51988 original size:24 final size:25
Alignment explanation
Indices: 51944--51992 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
51934 AAAATTGATA
51944 CCTAGCAAAAAAGACTAAATTAAGC
1 CCTAGCAAAAAAGACTAAATTAAGC
*
51969 CCTAGCAAAAAGGACT-AATTAAGC
1 CCTAGCAAAAAAGACTAAATTAAGC
51993 TTGTTAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.16
Consensus pattern (25 bp):
CCTAGCAAAAAAGACTAAATTAAGC
Found at i:52485 original size:621 final size:626
Alignment explanation
Indices: 51338--52569 Score: 2037
Period size: 621 Copynumber: 2.0 Consensus size: 626
51328 GAACGCTCAC
*
51338 CCCTAGCAAAAAGGACTAAATTAAGCTTGTTAGATAACTTTGAAACGTTATTGACTAAATCAAAT
1 CCCTAGCAAAAAGGACTAAATTAAGCTTGTTAGATAACTTTGAAACATTATTGACTAAATCAAAT
51403 AAATTGGAAACTGTTATGAAATTATGTTGTAGATAGGAAGCATAAGGTCACTAATGAAAGAATAT
66 AAATTGGAAACTGTTATGAAATTATGTTGTAGATAGGAAGCATAAGGTCACTAATGAAAGAATAT
51468 GAAATCGGATTTTGATCCGGTATTAGATATTGAACAATATGAGTAACCCAGGTATAATGACTAAA
131 GAAATCGGATTTTGATCCGGTATTAGATATTGAACAATATGAGTAACCCAGGTATAATGACTAAA
**
51533 TTGAATAAAATGCAAAATGTTTTACTATTTGTTTGGTTGTGAATTTGATGTAAACTGATATTGTT
196 TTGAATAAAATGCAAAAAATTTTACTATTTGTTTGGTTGTGAA--T-A-GTAAACTGATATTGTT
* *
51598 TTATTATTGAATTATTGAATATAGTTTAATACGTAAATACATATACATATGCGAGAGATGGGAAA
257 TTATTATTGAATTATTGAACATAGTTTAATACGTAAATACATATACATATGCGAGAGATAGGAAA
* *
51663 GTCGAAAATCGTAGATGAGTAGCGAACAATTTCAATTGGTACTTTTATGATTCAAGTTTAGTACA
322 GTCAAAAATCGTAGATGAGTAGCGAACAATTTCAATTGGTACTTTTATGATTCAAGTTTAATACA
* * * *** * *
51728 TCTGTCGAAACCTTTTTTTCGAAAAAAATCCCGACTTTTATTTTTAAAATTGTAAATGGAGTGCC
387 TATGTCAAAACCATTTTTAAAAAAAAAATCCCGACTTATATTTTTAAAATTGAAAATGGAGTGCC
* * *
51793 ACCAATTTTTTTTTATTTGGTGTGATTGGATCACCATAAAATATTTAAGTTTATTTAAACAAAAG
452 ACCAATTCTTTTTTATTTGGTATGATTGGATCACCATAAAATATTTAAGTTTATTTAAACAAAAA
* *
51858 TTTTGGTCTTTGAAATCCAGAAAAT-AGATTCGGAAGTCAATTATGTGTGAGGAAAGATTAGCAC
517 TTTTGGTCTTCGAAATCCAGAAAATAAG-TTCGGAAGTCAATTATGTGTGAGGAAAGATTAACAC
*
51922 CTTCATACGCCCAAAATTGATACCTAGCAAAAAAGACTAAATTAAG
581 CTTCACACGCCCAAAATTGATACCTAGCAAAAAAGACTAAATTAAG
*
51968 CCCTAGCAAAAAGGACT-AATTAAGCTTGTTAGATAACTTTG-AACATTATTGACTAAATTAAAT
1 CCCTAGCAAAAAGGACTAAATTAAGCTTGTTAGATAACTTTGAAACATTATTGACTAAATCAAAT
*
52031 AAATTGGAAACTGTTATGAAATTATGTTGTAGATAGGAAGTATAAGGTCACTAATGAAAGAATAT
66 AAATTGGAAACTGTTATGAAATTATGTTGTAGATAGGAAGCATAAGGTCACTAATGAAAGAATAT
*
52096 GAAATCGGATTTTGATCCGGTGTTAGATATTGAACAATATGAGTAACCCAGGTATAATGACTAAA
131 GAAATCGGATTTTGATCCGGTATTAGATATTGAACAATATGAGTAACCCAGGTATAATGACTAAA
52161 TTGAATAAAATGCAAAAAATTTTACTATTTGTTTGGTTGTG-A-A-TAAACTGATATTGTTTTAT
196 TTGAATAAAATGCAAAAAATTTTACTATTTGTTTGGTTGTGAATAGTAAACTGATATTGTTTTAT
52223 TATTGAATTATTGAACATAGTTTAATACGTAAATACATATACATATGCGAGAGATAGGAAAGTCA
261 TATTGAATTATTGAACATAGTTTAATACGTAAATACATATACATATGCGAGAGATAGGAAAGTCA
** * * *
52288 AAAATTTTAGATGATTAGCGAACAATTTCAGTTGGTACTTTTATGATTCAAGTTTAATACGTATG
326 AAAATCGTAGATGAGTAGCGAACAATTTCAATTGGTACTTTTATGATTCAAGTTTAATACATATG
* *
52353 TCAAAACCATTTTTAAAAAAAAAAGTCCTGACTTATATTTTTAAAATTGAAAATGGTGTGCCACC
391 TCAAAACCATTTTTAAAAAAAAAA-TCCCGACTTATATTTTTAAAATTGAAAATGGAGTGCCACC
* *
52418 AA-TCTTTTTTATTTGGTATGATTGGATTATCATAAAATATTTAAGTTTATTTAAACAAAAATTT
455 AATTCTTTTTTATTTGGTATGATTGGATCACCATAAAATATTTAAGTTTATTTAAACAAAAATTT
* *
52482 TGGTCTTCGAAATCCAGAAAATAAGTTCGGAAGTCAGTTATGTGTGAGGAAGGATTAACACCTTC
520 TGGTCTTCGAAATCCAGAAAATAAGTTCGGAAGTCAATTATGTGTGAGGAAAGATTAACACCTTC
*
52547 ACACGCCCAAAATTGATCCCTAG
585 ACACGCCCAAAATTGATACCTAG
52570 ACGATTATTT
Statistics
Matches: 564, Mismatches: 36, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
621 294 0.52
622 40 0.07
623 1 0.00
627 1 0.00
628 187 0.33
629 24 0.04
630 17 0.03
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (626 bp):
CCCTAGCAAAAAGGACTAAATTAAGCTTGTTAGATAACTTTGAAACATTATTGACTAAATCAAAT
AAATTGGAAACTGTTATGAAATTATGTTGTAGATAGGAAGCATAAGGTCACTAATGAAAGAATAT
GAAATCGGATTTTGATCCGGTATTAGATATTGAACAATATGAGTAACCCAGGTATAATGACTAAA
TTGAATAAAATGCAAAAAATTTTACTATTTGTTTGGTTGTGAATAGTAAACTGATATTGTTTTAT
TATTGAATTATTGAACATAGTTTAATACGTAAATACATATACATATGCGAGAGATAGGAAAGTCA
AAAATCGTAGATGAGTAGCGAACAATTTCAATTGGTACTTTTATGATTCAAGTTTAATACATATG
TCAAAACCATTTTTAAAAAAAAAATCCCGACTTATATTTTTAAAATTGAAAATGGAGTGCCACCA
ATTCTTTTTTATTTGGTATGATTGGATCACCATAAAATATTTAAGTTTATTTAAACAAAAATTTT
GGTCTTCGAAATCCAGAAAATAAGTTCGGAAGTCAATTATGTGTGAGGAAAGATTAACACCTTCA
CACGCCCAAAATTGATACCTAGCAAAAAAGACTAAATTAAG
Found at i:53995 original size:63 final size:63
Alignment explanation
Indices: 53927--54106 Score: 260
Period size: 65 Copynumber: 2.8 Consensus size: 63
53917 TTTCTTATTA
53927 TTTTTATTTATTTATTTATTATTTTTATGAATATAAATAAATAAATAAATAATAATATTAATT
1 TTTTTATTTATTTATTTATTATTTTTATGAATATAAATAAATAAATAAATAATAATATTAATT
*
53990 TTTTTA-TTATTTATTTATTTATTATTGTATGAATATAAATAAATAAATGTAA-AATAATATTAA
1 TTTTTATTTATTTATTTA-TTATT-TT-TATGAATATAAATAAATAAAT-AAATAATAATATTAA
54053 TT
62 TT
*
54055 TTGTTT-TATTATTTATTTATTA-TTTTATGAATATAGATAAATAAATAAATAA
1 TT-TTTAT-TTATTTATTTATTATTTTTATGAATATAAATAAATAAATAAATAA
54107 CAAATCCAAA
Statistics
Matches: 106, Mismatches: 3, Indels: 16
0.85 0.02 0.13
Matches are distributed among these distances:
62 13 0.12
63 33 0.31
64 4 0.04
65 37 0.35
66 8 0.08
67 11 0.10
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (63 bp):
TTTTTATTTATTTATTTATTATTTTTATGAATATAAATAAATAAATAAATAATAATATTAATT
Found at i:54000 original size:15 final size:15
Alignment explanation
Indices: 53982--54015 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
53972 TAAATAATAA
*
53982 TATTAATTTTTTTAT
1 TATTAATTTATTTAT
*
53997 TATTTATTTATTTAT
1 TATTAATTTATTTAT
54012 TATT
1 TATT
54016 GTATGAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTAATTTATTTAT
Found at i:59134 original size:12 final size:12
Alignment explanation
Indices: 59117--59153 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
59107 TTTCACCCAA
59117 AAAAAAAAAAGG
1 AAAAAAAAAAGG
*
59129 AAAAAAAAAAAG
1 AAAAAAAAAAGG
59141 AAAAGAAAAAAGG
1 AAAA-AAAAAAGG
59154 GGAGGTCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGG
Found at i:59134 original size:13 final size:13
Alignment explanation
Indices: 59116--59153 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
59106 ATTTCACCCA
59116 AAAAAAAAAAAGG
1 AAAAAAAAAAAGG
59129 AAAAAAAAAAA-G
1 AAAAAAAAAAAGG
*
59141 AAAAGAAAAAAGG
1 AAAAAAAAAAAGG
59154 GGAGGTCGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGG
Found at i:60579 original size:40 final size:40
Alignment explanation
Indices: 60535--61591 Score: 880
Period size: 40 Copynumber: 26.7 Consensus size: 40
60525 ACTAAAAAGT
* * *
60535 AGATTGAAGACCATCCAATCTCTTACCCCAACCATAGGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
* * *
60575 AGATTGAAG--CAGTCCAATCTTTTACCCTAACCAAAAGGT
1 AGATTGAAGACCA-TCCAATCTTTTACCCTAACCAGAGGGC
* * * **
60614 AGATTGGAG-TCATCCAATCTCTTACCCCGACCATG-GGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCA-GAGGGC
**
60653 AGATTGAAGTA--ATCCAATCTTTTACCCTAATTAGAGGGC
1 AGATTGAAG-ACCATCCAATCTTTTACCCTAACCAGAGGGC
*
60692 AGATTGAAGACCATCCAATCTTTTACCCTAACTAGAGGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
* **
60732 AGATTAAAGACCAT-CAGATCTTTTACCCTAACCAGAGTAC
1 AGATTGAAGACCATCCA-ATCTTTTACCCTAACCAGAGGGC
* * * *
60772 AGATT-AATGACCATTCAATCTTTTA-CCTCGATCATG-GAGC
1 AGATTGAA-GACCATCCAATCTTTTACCCT-AACCA-GAGGGC
* * * **
60812 AAATTAAAGTA--ATCCAATATTTTACCCTAATAAGAGGGC
1 AGATTGAAG-ACCATCCAATCTTTTACCCTAACCAGAGGGC
* * * *
60851 ATATTGAAGACCATTCAATCTTTTA-CCTCGACC-GTAAGGC
1 AGATTGAAGACCATCCAATCTTTTACCCT-AACCAG-AGGGC
* * *
60891 AGATTGAAG-CAATCCAATCTTTTACCCTAACTAGAGGAC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
* * ** * *
60930 AGATTGAAAACCATCCAATCTCTTACCCCGACTATG-GGAC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCA-GAGGGC
* *
60970 AGATTGAAG-CAATCCAATCTTTTACCCTAACCAGAAGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
* *
61009 AGATTGAAGACGATCCAATCTTTTACCCTAACTAGAGGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
* ** *
61049 AGATTGAAGACCATCCAATCTCTTACCCCGACCATG-GGGT
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCA-GAGGGC
* * *
61089 AGATTGAAG-CAATCCAATCTTTTACCCTAACTAGAGAGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
* * * **
61128 AAATTGAAGGCCATCCAATTTTTTTACCCTAATTAGAGGGC
1 AGATTGAAGACCATCCAA-TCTTTTACCCTAACCAGAGGGC
* * *
61169 AGATTGAAGACCAT-TAGATCTTTTACCCTAACTAGAGGAC
1 AGATTGAAGACCATCCA-ATCTTTTACCCTAACCAGAGGGC
* * *
61209 AGATTGAAGACCATCCAATCTCTTA-CCTCGATCATGA-GGC
1 AGATTGAAGACCATCCAATCTTTTACCCT-AACCA-GAGGGC
* * * * *
61249 AAATT-AAAACAATCCAATCTTTTATCCTAATCAGAGGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
** *
61288 AGATTGAAGACCATCCAATCTTTTACCCCGACC-GTGTGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAG-GGC
*
61328 AGATTGAAG-CAATCCAATCTTTTACCCTAACCAGAGGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
* * **
61367 AGATTGAAGACCATCCGATCTCTTACCCCGACCATG-GGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCA-GAGGGC
* * *
61407 AGATTGAAG-CAATCCAATCTTTTACCCTAACTAGAGGGT
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
* * * **
61446 AAATTGAAGACCATCCGATCTCTTACCCCGACCATG-GGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCA-GAGGGC
* * * *
61486 AGATTGAAG-CAATCCGATCTTTTACCCTAACTAGAGGGT
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
* * * **
61525 AGATTGAAGACCATTCGATCTATTACCCCGACCATG-GGGC
1 AGATTGAAGACCATCCAATCTTTTACCCTAACCA-GAGGGC
* *
61565 AGATTGAA-ACAATCCAATATTTTACCC
1 AGATTGAAGACCATCCAATCTTTTACCC
61592 CTACAACTAT
Statistics
Matches: 819, Mismatches: 150, Indels: 97
0.77 0.14 0.09
Matches are distributed among these distances:
38 12 0.01
39 346 0.42
40 415 0.51
41 46 0.06
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
AGATTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGC
Found at i:60616 original size:79 final size:79
Alignment explanation
Indices: 60505--61591 Score: 731
Period size: 79 Copynumber: 13.7 Consensus size: 79
60495 TTTTTGAAAA
* * * * * * * * *
60505 CCATTCAATTTTTTACGCTAACTAAAAAGTAGATTGAAGACCATCCAATCTCTTACCCCAACCAT
1 CCATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCCTAACCAG
60570 AGGGCAGATTGAAG
66 AGGGCAGATTGAAG
* * * * **
60584 -CAGTCCAATCTTTTACCCTAACCAAAAGGTAGATTGGAG-TCATCCAATCTCTTACCCCGACCA
1 CCA-TCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCCTAACCA
60647 TG-GGGCAGATTGAAG
65 -GAGGGCAGATTGAAG
** ** * * *
60662 TAATCCAATCTTTTACCCTAATTAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCTAACTAG
1 CCATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCCTAACCAG
*
60727 AGGGCAGATTAAAG
66 AGGGCAGATTGAAG
* * * *
60741 ACCAT-CAGATCTTTTACCCTAACC-AGAGTACAGATT-AATGACCATTCAATCTTTTA-CCTCG
1 -CCATCCA-ATCTTTTACCCTAACCAAAAG-GCAGATTGAA-GACCATCCAATCTTTTACCCT-A
* * * *
60802 ATCATG-GAGCAAATTAAAG
61 ACCA-GAGGGCAGATTGAAG
** * * * * * *
60821 TAATCCAATATTTTACCCTAA-TAAGAGGGCATATTGAAGACCATTCAATCTTTTA-CCTCGACC
1 CCATCCAATCTTTTACCCTAACCAA-AAGGCAGATTGAAGACCATCCAATCTTTTACCCT-AACC
*
60884 -GTAAGGCAGATTGAAG
64 AG-AGGGCAGATTGAAG
* * * * * ** *
60900 CAATCCAATCTTTTACCCTAA-CTAGAGGACAGATTGAAAACCATCCAATCTCTTACCCCGACTA
1 CCATCCAATCTTTTACCCTAACCAAAAGG-CAGATTGAAGACCATCCAATCTTTTACCCTAACCA
*
60964 TG-GGACAGATTGAAG
65 -GAGGGCAGATTGAAG
* * * *
60979 CAATCCAATCTTTTACCCTAACCAGAAGGCAGATTGAAGACGATCCAATCTTTTACCCTAACTAG
1 CCATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCCTAACCAG
61044 AGGGCAGATTGAAG
66 AGGGCAGATTGAAG
* ** *** * * *
61058 ACCATCCAATCTCTTACCCCGACCATGGGGTAGATTGAAG-CAATCCAATCTTTTACCCTAACTA
1 -CCATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCCTAACCA
* *
61122 GAGAGCAAATTGAAGG
65 GAGGGCAGATTGAA-G
* ** * * * *
61138 CCATCCAATTTTTTTACCCTAATTAGAGGGCAGATTGAAGACCAT-TAGATCTTTTACCCTAACT
1 CCATCCAA-TCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCA-ATCTTTTACCCTAACC
*
61202 AGAGGACAGATTGAAG
64 AGAGGGCAGATTGAAG
* * * ** * * * * *
61218 ACCATCCAATCTCTTA-CCTCGATCATGAGGCAAATT-AAAACAATCCAATCTTTTATCCTAATC
1 -CCATCCAATCTTTTACCCT-AACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCCTAACC
61281 AGAGGGCAGATTGAAG
64 AGAGGGCAGATTGAAG
** **** *
61297 ACCATCCAATCTTTTACCCCGACCGTGTGGCAGATTGAAG-CAATCCAATCTTTTACCCTAACCA
1 -CCATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCCTAACCA
61361 GAGGGCAGATTGAAG
65 GAGGGCAGATTGAAG
* * ** *** * *
61376 ACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAG-CAATCCAATCTTTTACCCTAACTA
1 -CCATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCCTAACCA
* *
61440 GAGGGTAAATTGAAG
65 GAGGGCAGATTGAAG
* * ** *** * * *
61455 ACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAG-CAATCCGATCTTTTACCCTAACTA
1 -CCATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCCTAACCA
*
61519 GAGGGTAGATTGAAG
65 GAGGGCAGATTGAAG
* * * ** *** * *
61534 ACCATTCGATCTATTACCCCGACCATGGGGCAGATTGAA-ACAATCCAATATTTTACCC
1 -CCATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCC
61592 CTACAACTAT
Statistics
Matches: 840, Mismatches: 134, Indels: 68
0.81 0.13 0.07
Matches are distributed among these distances:
77 1 0.00
78 71 0.08
79 589 0.70
80 138 0.16
81 41 0.05
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (79 bp):
CCATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCATCCAATCTTTTACCCTAACCAG
AGGGCAGATTGAAG
Found at i:60946 original size:119 final size:117
Alignment explanation
Indices: 60535--61591 Score: 739
Period size: 119 Copynumber: 8.9 Consensus size: 117
60525 ACTAAAAAGT
* * * * *
60535 AGATTGAAGACCATCCAATCTCTTACCCCAACCATAGGGCAGATTGAAG--CAGTCCAATCTTTT
1 AGATTGAAG-CAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCA-TCCAATCTTTT
* * * * * * * * * **
60598 ACCCTAACCAAAAGGTAGATTGGAG-TCATCCAATCTCTTACCCCGACCATGGGGC
64 ACCCTAA-TAGAGGGCAGATTGAAGACCATCCAATCTTTTA-CCCAACCGTAAGGC
* *
60653 AGATTGAAGTAATCCAATCTTTTACCCTAATTAGAGGGCAGATTGAAGACCATCCAATCTTTTAC
1 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTTTTAC
* *
60718 CCTAACTAGAGGGCAGATTAAAGACCAT-CAGATCTTTTACCCTAACC--AGAGTAC
66 CCTAA-TAGAGGGCAGATTGAAGACCATCCA-ATCTTTTACCC-AACCGTA-AG-GC
* * * * * * * *
60772 AGATT-AATGACCATTCAATCTTTTACCTCGATC-ATG-GAGCAAATTAAAGTA--ATCCAATAT
1 AGATTGAA-G-CAATCCAATCTTTTACC-CTAACTA-GAGGGCAGATTGAAG-ACCATCCAATCT
* * *
60832 TTTACCCTAATAAGAGGGCATATTGAAGACCATTCAATCTTTTACCTCGACCGTAAGGC
61 TTTACCCTAAT-AGAGGGCAGATTGAAGACCATCCAATCTTTTACC-CAACCGTAAGGC
* * *
60891 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGACAGATTGAAAACCATCCAATCTCTTAC
1 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTTTTA-
* * * *
60956 CCCGACTATG-GGACAGATTGAAG-CAATCCAATCTTTTACCCTAACCAG-AAGGC
65 CCCTAATA-GAGGGCAGATTGAAGACCATCCAATCTTTTACCC-AACC-GTAAGGC
* *
61009 AGATTGAAGACGATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTCTTA
1 AGATTGAAG-CAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTTTTA
* * *
61074 CCCCGACCAT-G-GGGTAGATTGAAG-CAATCCAATCTTTTACCCTAA-C-TAGAGAGC
65 -CCCTA--ATAGAGGGCAGATTGAAGACCATCCAATCTTTTACCC-AACCGTA-AG-GC
* * * * *
61128 AAATTGAAGGCCATCCAATTTTTTTACCCTAATTAGAGGGCAGATTGAAGACCAT-TAGATCTTT
1 AGATTGAA-GCAATCCAA-TCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCA-ATCTTT
* * * * * *
61192 TACCCTAACTAGAGGACAGATTGAAGACCATCCAATCTCTTACCTCGATCATGAGGC
63 TACCCTAA-TAGAGGGCAGATTGAAGACCATCCAATCTTTTACC-CAACCGTAAGGC
* * * *
61249 AAATTAAAACAATCCAATCTTTTATCCTAA-TCAGAGGGCAGATTGAAGACCATCCAATCTTTTA
1 AGATTGAAGCAATCCAATCTTTTACCCTAACT-AGAGGGCAGATTGAAGACCATCCAATCTTTTA
** ** * * *
61313 CCCCGACCGTGTGGCAGATTGAAG-CAATCCAATCTTTTACCCTAACCAG-AGGGC
65 CCCTAATAGAG-GGCAGATTGAAGACCATCCAATCTTTTACCC-AACC-GTAAGGC
* * * ** * *
61367 AGATTGAAGACCATCCGATCTCTTACCCCGACCATG-GGGCAGATTGAAG-CAATCCAATCTTTT
1 AGATTGAAG-CAATCCAATCTTTTACCCTAACTA-GAGGGCAGATTGAAGACCATCCAATCTTTT
* * * * * * **
61430 ACCCTAACTAGAGGGTAAATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGC
64 ACCCTAA-TAGAGGGCAGATTGAAGACCATCCAATCTTTTA-CCCAACCGTAAGGC
* * * * *
61486 AGATTGAAGCAATCCGATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATTCGATCTATTAC
1 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTTTTA-
* * *
61551 CCCGACCAT-G-GGGCAGATTGAA-ACAATCCAATATTTTACCC
65 CCCTA--ATAGAGGGCAGATTGAAGACCATCCAATCTTTTACCC
61592 CTACAACTAT
Statistics
Matches: 750, Mismatches: 130, Indels: 119
0.75 0.13 0.12
Matches are distributed among these distances:
117 45 0.06
118 208 0.28
119 351 0.47
120 108 0.14
121 32 0.04
122 5 0.01
123 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (117 bp):
AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTTTTAC
CCTAATAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCAACCGTAAGGC
Found at i:61420 original size:158 final size:158
Alignment explanation
Indices: 60535--61618 Score: 855
Period size: 158 Copynumber: 6.8 Consensus size: 158
60525 ACTAAAAAGT
* * * * * *
60535 AGATTGAAGACCATCCAATCTCTTACCCCAACCATAGGGCAGATTGAAG--CAGTCCAATCTTTT
1 AGATTGAAGACAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCA-TCCAATCTCTT
** *** * ** * ** * *
60598 ACCCTAACCAAAAGGTAGATTGGAGTC-ATCCAATCTCTTACCCCGACCATG-GGGCAGATTGAA
65 ACCCCGACCATGGGGCAGATT-GAAACAATCCAATCTTTTACCCTAACTA-GAGGGCAAATTGAA
* ** *
60661 GTA--ATCCAATCTTTTACCCTAATTAGAGGGC
128 G-ACCATCCAATCTTTTACCCCAA-CCGTGGGC
* * *
60692 AGATTGAAGACCATCCAATCTTTTACCCTAACTAGAGGGCAGATTAAAGACCAT-CAGATCTTTT
1 AGATTGAAGACAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCA-ATCTCTT
** ** * * * * *
60756 ACCCTAACCA-GAGTACAGATT-AATGACCATTCAATCTTTTACCTCGATC-ATG-GAGCAAATT
65 ACCCCGACCATG-GGGCAGATTGAA--ACAATCCAATCTTTTACC-CTAACTA-GAGGGCAAATT
* * * ** *
60817 AAAGTA--ATCCAATATTTTACCCTAATAAGAGGGC
125 GAAG-ACCATCCAATCTTTTACCCCAA-CCGTGGGC
* * * * * * *
60851 ATATTGAAGACCATTCAATCTTTTACCTCGACCGTA-A-GGCAGATTGAAG-CAATCCAATCTTT
1 AGATTGAAGACAATCCAATCTTTTACC-CTAAC-TAGAGGGCAGATTGAAGACCATCCAATCTCT
** * * * * ** * *
60913 TACCCTAACTA-GAGGACAGATTGAAAACCATCCAATCTCTTACCCCGACTATG-GGACAGATTG
64 TACCCCGACCATG-GGGCAGATTG-AAACAATCCAATCTTTTACCCTAACTA-GAGGGCAAATTG
* * **
60976 AAG-CAATCCAATCTTTTACCCTAACCAGAAGGC
126 AAGACCATCCAATCTTTTACCCCAACC-GTGGGC
*
61009 AGATTGAAGACGATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTCTTA
1 AGATTGAAGACAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTCTTA
* * * *
61074 CCCCGACCATGGGGTAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGAGCAAATTGAAGGC
66 CCCCGACCATGGGGCAGATTGAAACAATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAGAC
* * ** *
61139 CATCCAATTTTTTTACCCTAATTAGAGGGC
131 CATCCAA-TCTTTTACCCCAA-CCGTGGGC
* * *
61169 AGATTGAAGACCAT-TAGATCTTTTACCCTAACTAGAGGACAGATTGAAGACCATCCAATCTCTT
1 AGATTGAAGACAATCCA-ATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTCTT
* * * * * * *
61233 ACCTCGATCATGAGGCAAATTAAAACAATCCAATCTTTTATCCTAA-TCAGAGGGCAGATTGAAG
65 ACCCCGACCATGGGGCAGATTGAAACAATCCAATCTTTTACCCTAACT-AGAGGGCAAATTGAAG
*
61297 ACCATCCAATCTTTTACCCCGACCGTGTGGC
129 ACCATCCAATCTTTTACCCCAACCGTG-GGC
* *
61328 AGATTGAAG-CAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTA
1 AGATTGAAGACAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTCTTA
* *
61392 CCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGTAAATTGAAGAC
66 CCCCGACCATGGGGCAGATTGAAACAATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAGAC
* * * *
61457 CATCCGATCTCTTACCCCGACCATGGGGC
131 CATCCAATCTTTTACCCCAACCGT-GGGC
* * * * *
61486 AGATTGAAG-CAATCCGATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATTCGATCTATTA
1 AGATTGAAGACAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTCTTA
*
61550 CCCCGACCATGGGGCAGATTGAAACAATCCAATATTTTACCCCTACAACTATAGAGAGGCAAATT
66 CCCCGACCATGGGGCAGATTGAAACAATCCAATCTTTTA-CCCT--AAC--TAGAG-GGCAAATT
61615 GAAG
125 GAAG
61619 CTACAAAAGC
Statistics
Matches: 777, Mismatches: 113, Indels: 67
0.81 0.12 0.07
Matches are distributed among these distances:
156 3 0.00
157 53 0.07
158 396 0.51
159 159 0.20
160 145 0.19
161 5 0.01
163 5 0.01
164 11 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (158 bp):
AGATTGAAGACAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCAATCTCTTA
CCCCGACCATGGGGCAGATTGAAACAATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAAGAC
CATCCAATCTTTTACCCCAACCGTGGGC
Found at i:62282 original size:62 final size:63
Alignment explanation
Indices: 62120--62295 Score: 263
Period size: 59 Copynumber: 2.8 Consensus size: 63
62110 TTCTTATTAT
62120 TTTTATTTATTTATTTATTATTTTTATGAATATAAATAAATAAATATAAAATAATATTAATTTTG
1 TTTTA-TTATTTATTTATTA-TTTTATGAATATAAATAAATAAATATAAAATAATATTAATTTTG
*
62185 --TT-TTA-TTATTTATTATTTTATGAATATAAATAAATAAATGTAAAATAATATT-ATTTTG
1 TTTTATTATTTATTTATTATTTTATGAATATAAATAAATAAATATAAAATAATATTAATTTTG
* *
62243 TTTTATTATTTATTTATTATTTTATGAATATAGATAAATAAATAAATAAATAA
1 TTTTATTATTTATTTATTATTTTATGAATATAAATAAATAAATATA-AAATAA
62296 ATAACAAATC
Statistics
Matches: 102, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
58 6 0.06
59 36 0.35
60 12 0.12
61 6 0.06
62 34 0.33
63 8 0.08
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (63 bp):
TTTTATTATTTATTTATTATTTTATGAATATAAATAAATAAATATAAAATAATATTAATTTTG
Found at i:69227 original size:25 final size:23
Alignment explanation
Indices: 69186--69231 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
69176 CAAATTAGGG
69186 AATTATTATTTAGATTTAATTCA
1 AATTATTATTTAGATTTAATTCA
*
69209 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
69232 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCA
Found at i:75193 original size:19 final size:18
Alignment explanation
Indices: 75134--75184 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
75124 GTTTTTGGGG
75134 TTTTTTT-TAATTTTTAA
1 TTTTTTTATAATTTTTAA
* *
75151 TTATTTTTAAAATTTATAA
1 TT-TTTTTATAATTTTTAA
75170 TTTTTTTATAATTTT
1 TTTTTTTATAATTTT
75185 CTACTTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 2 0.07
18 16 0.57
19 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTTATAATTTTTAA
Found at i:87496 original size:40 final size:40
Alignment explanation
Indices: 87449--87525 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
87439 AAATGTGAAT
* *
87449 AGAAAGCTCGTCCAATTGGACGCGCTTTCCCTTAAAATCA
1 AGAAAGCTCGTCCAATTGGACACGCTTTCCCTGAAAATCA
*
87489 AGAAAGCTCGTCCAGTTGGACACGCTTTCCCTGAAAA
1 AGAAAGCTCGTCCAATTGGACACGCTTTCCCTGAAAA
87526 ATTGACTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (40 bp):
AGAAAGCTCGTCCAATTGGACACGCTTTCCCTGAAAATCA
Found at i:90586 original size:110 final size:109
Alignment explanation
Indices: 90398--90605 Score: 267
Period size: 110 Copynumber: 1.9 Consensus size: 109
90388 CGATGGCATT
* * * * * *
90398 TCACCTGCAGCATCTCTTGCATCAAAGGATGTTGACATATTTAGCTCTTGCCTTCCCTGCATGCT
1 TCACCTACAGCATCTCTGGCATAAAAGGATGTTGACATATTCAGCTCTTGCCATCCCTACATGCT
*
90463 ACGCTCATGTTTTGATAAACTTGATTAGTGGAACACAATGGCCAC
66 ACGCTCACGTTTTG-TAAACTTGATTAGTGGAACACAATGGCCAC
* * * *
90508 TCACCTACAGCATCTCTGGCATAAAAGGGT-TTG-TATATTCGGCTCTTGCCATCCCTACTTGCT
1 TCACCTACAGCATCTCTGGCATAAAAGGATGTTGACATATTCAGCTCTTGCCATCCCTACATGCT
*
90571 TCGGCTCACGTTTTTGTAAACTTGATTAGTGGAAC
66 AC-GCTCACG-TTTTGTAAACTTGATTAGTGGAAC
90606 TCGATCGCTG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
108 25 0.30
109 28 0.33
110 31 0.37
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (109 bp):
TCACCTACAGCATCTCTGGCATAAAAGGATGTTGACATATTCAGCTCTTGCCATCCCTACATGCT
ACGCTCACGTTTTGTAAACTTGATTAGTGGAACACAATGGCCAC
Found at i:103925 original size:72 final size:71
Alignment explanation
Indices: 103804--104053 Score: 331
Period size: 72 Copynumber: 3.4 Consensus size: 71
103794 TTTTCCTTTT
* * * **
103804 TTTTAATTAAAATTTATT-CATTTAAAATTTGTTTTATCTTTTATTTATTTATTCTTTTAATTAA
1 TTTTAATTTAAATTTATTGC-TTT-AAA-TTGTTTTATCCTTCAAATATTTATTCTTTTAATTAA
103868 ATTCTATTC
63 ATTCTATTC
* * *
103877 TTTTCAATTTAAATTTATAGCTTTAAATTGTTTTATCCTTCAAATATTTCTTATTTTAATTAAAT
1 TTTT-AATTTAAATTTATTGCTTTAAATTGTTTTATCCTTCAAATATTTATTCTTTTAATTAAA-
103942 TCTCTATTC
64 T-TCTATTC
* *
103951 TTTTTAATTTAAATTTATTGCTTTAAATTTGTTTTATCCTTTAATTATTTATTCTTTTAATTAAA
1 -TTTTAATTTAAATTTATTGCTTTAAA-TTGTTTTATCCTTCAAATATTTATTCTTTTAATTAAA
104016 TTCTATTC
64 TTCTATTC
104024 TTTTAATTTAAATTTATTGCTTTAAATTGT
1 TTTTAATTTAAATTTATTGCTTTAAATTGT
104054 ATTTTGGTGT
Statistics
Matches: 158, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
71 4 0.03
72 57 0.36
73 15 0.09
74 44 0.28
75 38 0.24
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (71 bp):
TTTTAATTTAAATTTATTGCTTTAAATTGTTTTATCCTTCAAATATTTATTCTTTTAATTAAATT
CTATTC
Found at i:104024 original size:19 final size:18
Alignment explanation
Indices: 103850--104051 Score: 103
Period size: 19 Copynumber: 10.9 Consensus size: 18
103840 TCTTTTATTT
103850 ATTTATTCTTTTAATTAA
1 ATTTATTCTTTTAATTAA
103868 ATTCTATTCTTTTCAATTTAA
1 ATT-TATTCTTTT-AA-TTAA
* * *
103889 ATTTATAGCTTTAAATT-G
1 ATTTAT-TCTTTTAATTAA
* * * *
103907 TTTTA-TCCTTCAA--AT
1 ATTTATTCTTTTAATTAA
* *
103922 ATTTCTTATTTTAATTAA
1 ATTTATTCTTTTAATTAA
103940 ATTCTCTATTCTTTTTAATTTAA
1 A-T-T-TATTC-TTTTAA-TTAA
* **
103963 ATTTATTGCTTTAAATTTG
1 ATTTATT-CTTTTAATTAA
* *
103982 TTTTA-TCCTTTAATT--
1 ATTTATTCTTTTAATTAA
103997 ATTTATTCTTTTAATTAA
1 ATTTATTCTTTTAATTAA
104015 ATTCTATTCTTTTAATTTAA
1 ATT-TATTCTTTTAA-TTAA
*
104035 ATTTATTGCTTTAAATT
1 ATTTATT-CTTTTAATT
104052 GTATTTTGGT
Statistics
Matches: 139, Mismatches: 25, Indels: 39
0.68 0.12 0.19
Matches are distributed among these distances:
15 7 0.05
16 19 0.14
17 7 0.05
18 13 0.09
19 35 0.25
20 30 0.22
21 16 0.12
22 7 0.05
23 5 0.04
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTATTCTTTTAATTAA
Found at i:104377 original size:21 final size:21
Alignment explanation
Indices: 104348--104393 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
104338 GAAATTTTTA
104348 CGAA-TCGAGTCGAGT-GAATT
1 CGAATTCGAGTCGAGTCGAA-T
104368 CGAATTCGAGTCGAGTCGAAT
1 CGAATTCGAGTCGAGTCGAAT
104389 CGAAT
1 CGAAT
104394 ATATTTGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 4 0.17
21 17 0.71
22 3 0.12
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (21 bp):
CGAATTCGAGTCGAGTCGAAT
Found at i:105017 original size:58 final size:58
Alignment explanation
Indices: 104948--105067 Score: 188
Period size: 58 Copynumber: 2.1 Consensus size: 58
104938 AAAAAGAGTT
* *
104948 GTTTATGAGTGTTATTT-AGGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
1 GTTTATGAGTGTT-TTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTAGGTTTA
* *
105006 GTTTATGAGTGTTTTTGAAGAATGAAATTATATTTGGGTTTAAAAATATTTAGGTTTA
1 GTTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTAGGTTTA
105064 GTTT
1 GTTT
105068 GTTTATGGGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
57 3 0.05
58 54 0.95
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (58 bp):
GTTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTAGGTTTA
Found at i:107674 original size:21 final size:21
Alignment explanation
Indices: 107640--107679 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
107630 ACTGAAAAAA
* *
107640 TTAAAAAATGTAAACAAATAT
1 TTAAAAAATATAAAAAAATAT
*
107661 TTAAAAATTATAAAAAAAT
1 TTAAAAAATATAAAAAAAT
107680 CCAATATCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (21 bp):
TTAAAAAATATAAAAAAATAT
Found at i:111332 original size:30 final size:29
Alignment explanation
Indices: 111180--111502 Score: 235
Period size: 29 Copynumber: 11.0 Consensus size: 29
111170 GAACATGGGA
* *
111180 TCAAAATGTAGA-TTTGGAAATGTTTAAGGGG
1 TCAAAATGTA-ATTTTTGAAAAGTTT-A-GGG
* * *
111211 TAAAAATGTAATTTTAGGAAAA-CTTAGGG
1 TCAAAATGTAATTTT-TGAAAAGTTTAGGG
*
111240 TCAAAATG-AAATTTTGAAGAAGTTT-GGAG
1 TCAAAATGTAATTTTTGAA-AAGTTTAGG-G
* * * * *
111269 TCAAAACGTGATTTTGGAGAAGTTTGGGG
1 TCAAAATGTAATTTTTGAAAAGTTTAGGG
*
111298 TCAAAATGTAATTTTTGATAAGTTTAGGG
1 TCAAAATGTAATTTTTGAAAAGTTTAGGG
* *
111327 ATCAAAATGAAATTTTAGAAAAGTTTAGGGG
1 -TCAAAATGTAATTTTTGAAAAGTTTA-GGG
* * *
111358 TCAAAATATAATTTTGGAGAAGTTTAGAGG
1 TCAAAATGTAATTTTTGAAAAGTTTAG-GG
* * * *
111388 TTAAAATATAA-TTTTGTAAAAATTTAGAG
1 TCAAAATGTAATTTTTG-AAAAGTTTAGGG
* * *
111417 TCAAAATGTAATTTTAGAAAAATTAAGGG
1 TCAAAATGTAATTTTTGAAAAGTTTAGGG
* * * *
111446 TCAAAATTTAA-TTTTAAAAAGTTCAGGA
1 TCAAAATGTAATTTTTGAAAAGTTTAGGG
* * *
111474 TTAAAATATAATTTTTAAAAAGTTTAGGG
1 TCAAAATGTAATTTTTGAAAAGTTTAGGG
111503 GTCTAGTGGG
Statistics
Matches: 235, Mismatches: 44, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.01
28 30 0.13
29 101 0.43
30 79 0.34
31 17 0.07
32 5 0.02
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.34
Consensus pattern (29 bp):
TCAAAATGTAATTTTTGAAAAGTTTAGGG
Found at i:111480 original size:28 final size:28
Alignment explanation
Indices: 111298--111497 Score: 111
Period size: 30 Copynumber: 6.8 Consensus size: 28
111288 AAGTTTGGGG
* * * *
111298 TCAAAATGTAATTTTTGATAAGTTTAGGGA
1 TCAAAATATAA-TTTTAAAAAG-TTAAGGA
* *
111328 TCAAAATGA-AATTTTAGAAAAGTTTAGGGG
1 TCAAAAT-ATAATTTTA-AAAAG-TTAAGGA
* *
111358 TCAAAATATAATTTTGGAGAAGTTTAGAGG-
1 TCAAAATATAATTTT-AAAAAG-TTA-AGGA
* *
111388 TTAAAATATAATTTTGTAAAAA-TTTA-GA
1 TCAAAATATAA-TTT-TAAAAAGTTAAGGA
* * *
111416 GTCAAAATGTAATTTTAGAAAAATTAAGGG
1 -TCAAAATATAATTTTA-AAAAGTTAAGGA
* *
111446 TCAAAATTTAATTTTAAAAAGTTCAGGA
1 TCAAAATATAATTTTAAAAAGTTAAGGA
*
111474 TTAAAATATAATTTTTAAAAAGTT
1 TCAAAATATAA-TTTTAAAAAGTT
111498 TAGGGGTCTA
Statistics
Matches: 136, Mismatches: 21, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.02
28 26 0.19
29 46 0.34
30 52 0.38
31 8 0.06
32 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.36
Consensus pattern (28 bp):
TCAAAATATAATTTTAAAAAGTTAAGGA
Found at i:112218 original size:14 final size:15
Alignment explanation
Indices: 112183--112226 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
112173 TTTTGAAGAA
*
112183 GAATTTGTCTTCTTTT
1 GAATCTGTCTT-TTTT
112199 GAATCTGTCTTTTTT
1 GAATCTGTCTTTTTT
*
112214 G-ATCTATCTTTTT
1 GAATCTGTCTTTTT
112227 GTTTAATGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 11 0.42
15 5 0.19
16 10 0.38
ACGTcount: A:0.14, C:0.14, G:0.11, T:0.61
Consensus pattern (15 bp):
GAATCTGTCTTTTTT
Found at i:112447 original size:13 final size:13
Alignment explanation
Indices: 112429--112453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112419 TGATAACATA
112429 AATAAGCATATTT
1 AATAAGCATATTT
112442 AATAAGCATATT
1 AATAAGCATATT
112454 CCTAGTGCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (13 bp):
AATAAGCATATTT
Found at i:113156 original size:6 final size:6
Alignment explanation
Indices: 113145--113217 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 6
113135 TTTTTTAAAA
* * *
113145 TAAATT TAAATT TAGAA-- TGAATT TAAA-T TAAAAT TAAATT CAAATT
1 TAAATT TAAATT TA-AATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * *
113191 TAAACT TAAA-A TAAATT AAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAA
113218 ATTGGGTCCA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
4 2 0.04
5 10 0.19
6 38 0.73
7 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (6 bp):
TAAATT
Found at i:113181 original size:11 final size:11
Alignment explanation
Indices: 113167--113213 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
113157 TAGAATGAAT
113167 TTAAATTAAAA
1 TTAAATTAAAA
*
113178 TTAAATTCAAAT
1 TTAAATT-AAAA
113190 TTAAACTTAAAA
1 TTAAA-TTAAAA
113202 -TAAATTAAAA
1 TTAAATTAAAA
113212 TT
1 TT
113214 TAAAATTGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 6 0.19
11 12 0.39
12 11 0.35
13 2 0.06
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAAATTAAAA
Found at i:113184 original size:17 final size:18
Alignment explanation
Indices: 113138--113213 Score: 72
Period size: 17 Copynumber: 4.5 Consensus size: 18
113128 TGGACTCTTT
113138 TTTAAAA-TAAATTTAAA
1 TTTAAAATTAAATTTAAA
* *
113155 TTTAGAA-TGAATTTAAA
1 TTTAAAATTAAATTTAAA
*
113172 -TTAAAATTAAATTCAAA
1 TTTAAAATTAAATTTAAA
* *
113189 TTTAAACTTAAA-ATAAA
1 TTTAAAATTAAATTTAAA
113206 -TTAAAATT
1 TTTAAAATT
113214 TAAAATTGGG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
16 12 0.25
17 26 0.54
18 10 0.21
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (18 bp):
TTTAAAATTAAATTTAAA
Found at i:113190 original size:23 final size:23
Alignment explanation
Indices: 113164--113217 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
113154 ATTTAGAATG
*
113164 AATTTAAA-TTAAAATTAAATTCA
1 AATTTAAACTTAAAA-TAAATTAA
113187 AATTTAAACTTAAAATAAATTAA
1 AATTTAAACTTAAAATAAATTAA
113210 AATTTAAA
1 AATTTAAA
113218 ATTGGGTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AATTTAAACTTAAAATAAATTAA
Found at i:113216 original size:17 final size:16
Alignment explanation
Indices: 113168--113219 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
113158 AGAATGAATT
*
113168 TAAATTAAAATTAAAT
1 TAAATTAAAATTAAAA
*
113184 TCAAATTTAAACTTAAAA
1 T-AAA-TTAAAATTAAAA
113202 TAAATTAAAATTTAAAA
1 TAAATTAAAA-TTAAAA
113219 T
1 T
113220 TGGGTCCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.20
17 13 0.43
18 11 0.37
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATTAAAATTAAAA
Found at i:118882 original size:18 final size:18
Alignment explanation
Indices: 118848--118882 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
118838 TTTGAATTTT
**
118848 TTATTATTTTATCAATAA
1 TTATTATTTTAAAAATAA
118866 TTATTATTTTAAAAATA
1 TTATTATTTTAAAAATA
118883 TTGCTTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTATTTTAAAAATAA
Found at i:121312 original size:34 final size:34
Alignment explanation
Indices: 121269--121334 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
121259 AGTTTGCAGC
*
121269 TGTTGGTTTACGAAATATAGCAAATATCAACAGT
1 TGTTGGTTTACGAAACATAGCAAATATCAACAGT
*
121303 TGTTGGTTTACGGAACATAGCAAATATCAACA
1 TGTTGGTTTACGAAACATAGCAAATATCAACA
121335 ACCAAACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (34 bp):
TGTTGGTTTACGAAACATAGCAAATATCAACAGT
Found at i:122804 original size:26 final size:27
Alignment explanation
Indices: 122764--122830 Score: 90
Period size: 26 Copynumber: 2.6 Consensus size: 27
122754 TTTAACTTTC
122764 TTTATATA-TTT-AAAAAAA-TAAAAT
1 TTTATATATTTTAAAAAAAAGTAAAAT
122788 TTTATATATTTTAAAAAAAAGTAAAAT
1 TTTATATATTTTAAAAAAAAGTAAAAT
122815 TTT-TGA-ATTTTAAAAA
1 TTTAT-ATATTTTAAAAA
122831 TTATTTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
24 8 0.21
25 3 0.08
26 18 0.46
27 10 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (27 bp):
TTTATATATTTTAAAAAAAAGTAAAAT
Found at i:122838 original size:12 final size:11
Alignment explanation
Indices: 122821--122858 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
122811 AAATTTTTGA
122821 ATTTTAAAAATT
1 ATTTTAAAAA-T
122833 ATTTT-AAAAT
1 ATTTTAAAAAT
122843 -TTTTAAAAAT
1 ATTTTAAAAAT
122853 ATTTTA
1 ATTTTA
122859 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.17
10 6 0.25
11 9 0.38
12 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:124199 original size:22 final size:24
Alignment explanation
Indices: 124172--124218 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
124162 ATAAAATTAT
*
124172 TAAATA-TTAAAATAAAAC-AATA
1 TAAATATTTAAAAAAAAACTAATA
124194 TAAATATTTAAAAAAAAACTAATA
1 TAAATATTTAAAAAAAAACTAATA
124218 T
1 T
124219 GACCAAGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.27
23 11 0.50
24 5 0.23
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAATATTTAAAAAAAAACTAATA
Found at i:127608 original size:9 final size:9
Alignment explanation
Indices: 127593--127632 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
127583 AAAACTCAAT
127593 TTTA-TTTA
1 TTTATTTTA
127601 TATTATTTTA
1 T-TTATTTTA
127611 TTTATTTTA
1 TTTATTTTA
127620 TTTATTTATA
1 TTTATTT-TA
127630 TTT
1 TTT
127633 TATAAATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.03
9 18 0.62
10 10 0.34
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:127610 original size:14 final size:14
Alignment explanation
Indices: 127591--127631 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
127581 ACAAAACTCA
127591 ATTTTATTTATATT
1 ATTTTATTTATATT
*
127605 ATTTTATTTATTTT
1 ATTTTATTTATATT
127619 A-TTTATTTATATT
1 ATTTTATTTATATT
127632 TTATAAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTATTTATATT
Found at i:128885 original size:30 final size:29
Alignment explanation
Indices: 128841--129022 Score: 159
Period size: 30 Copynumber: 6.1 Consensus size: 29
128831 AAAATTATGT
* *
128841 TTTAACCTTCAAACTTTCTAAAAATTCTAA
1 TTTAACCTT-AAACTTTCCAAAAATTCAAA
* *
128871 TTTTACTCTTAAACTTTCCAAAAATCCAAAA
1 TTTAAC-CTTAAACTTTCCAAAAATTC-AAA
* * *
128902 TTTTACCTCAAAATTTTCCAAAAATTCAAA
1 TTTAACCT-TAAACTTTCCAAAAATTCAAA
* * * **
128932 TTCAACCCTTGAACTTTTCAAAAATTTGAA
1 TTTAA-CCTTAAACTTTCCAAAAATTCAAA
* ** *
128962 TTTGACCCCAAATTTTCCAAAAATTC-AA
1 TTTAACCTTAAACTTTCCAAAAATTCAAA
128990 TTTAACCTCTAAACTTTCCAAAAATTCAAA
1 TTTAACCT-TAAACTTTCCAAAAATTCAAA
129020 TTT
1 TTT
129023 GACCCGGTTT
Statistics
Matches: 119, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
28 8 0.07
29 31 0.26
30 51 0.43
31 29 0.24
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (29 bp):
TTTAACCTTAAACTTTCCAAAAATTCAAA
Found at i:129305 original size:21 final size:23
Alignment explanation
Indices: 129265--129306 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
129255 TTTTTGTGTA
*
129265 ACACAGTAAATTTTTTTTAAAAT
1 ACACAGTAAATTTGTTTTAAAAT
129288 ACACA-TAAA-TTGTTTTAAA
1 ACACAGTAAATTTGTTTTAAA
129307 GAAATAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (23 bp):
ACACAGTAAATTTGTTTTAAAAT
Found at i:132990 original size:14 final size:14
Alignment explanation
Indices: 132973--133003 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
132963 AGGGTTTAAA
132973 AAATTTAATTAATT
1 AAATTTAATTAATT
*
132987 AAATTTATTTAATT
1 AAATTTAATTAATT
133001 AAA
1 AAA
133004 GATTTATTCT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:134118 original size:2 final size:2
Alignment explanation
Indices: 134111--134135 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
134101 ACGTTTATTG
134111 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 T
134136 GTATGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:134140 original size:4 final size:4
Alignment explanation
Indices: 134133--134183 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
134123 TATATATATA
134133 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
134181 TAT
1 TAT
134184 ATTTAGTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:134310 original size:26 final size:25
Alignment explanation
Indices: 134243--134369 Score: 82
Period size: 25 Copynumber: 5.0 Consensus size: 25
134233 ATAAGAGATA
*
134243 AATAGCAAGCCTTAAGCCGGTGACTT
1 AATAGCAAGCCTTGAGCCGGTGA-TT
* *
134269 -TTAGC-AGGCTTCGAGCCGGTGATT
1 AATAGCAAGCCTT-GAGCCGGTGATT
**
134293 AAATAGCAAGCCTTGAGCCAATGACTT
1 -AATAGCAAGCCTTGAGCCGGTGA-TT
* * * *
134320 -TTAG-TAGGCTTCGAGCTGGTGATTT
1 AATAGCAAGCCTT-GAGCCGGTGA-TT
*
134345 AATAGCAGGCCTTGAGCCGGTGATT
1 AATAGCAAGCCTTGAGCCGGTGATT
134370 TTTAGCAGGC
Statistics
Matches: 74, Mismatches: 19, Indels: 17
0.67 0.17 0.15
Matches are distributed among these distances:
24 12 0.16
25 27 0.36
26 24 0.32
27 11 0.15
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (25 bp):
AATAGCAAGCCTTGAGCCGGTGATT
Found at i:134318 original size:51 final size:51
Alignment explanation
Indices: 134241--134382 Score: 212
Period size: 51 Copynumber: 2.8 Consensus size: 51
134231 AAATAAGAGA
*
134241 TAAATAGCAAGCCTTAAGCCGGTGACTTTTAGCAGGCTTCGAGCCGGTGAT
1 TAAATAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGAGCCGGTGAT
** * *
134292 TAAATAGCAAGCCTTGAGCCAATGACTTTTAGTAGGCTTCGAGCTGGTGAT
1 TAAATAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGAGCCGGTGAT
* * *
134343 TTAATAGCAGGCCTTGAGCCGGTGATTTTTAGCAGGCTTC
1 TAAATAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTC
134383 ATGCCGATGA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 80 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (51 bp):
TAAATAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGAGCCGGTGAT
Found at i:134402 original size:51 final size:49
Alignment explanation
Indices: 134245--134404 Score: 169
Period size: 51 Copynumber: 3.1 Consensus size: 49
134235 AAGAGATAAA
* *
134245 TAGCAAGCCTTAAGCCGGTGACTTTTAGCAGGCTTCGAGCCGGTGATTAAA
1 TAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGAGCCGGTGATT--T
** * *
134296 TAGCAAGCCTTGAGCCAATGACTTTTAGTAGGCTTCGAGCTGGTGATTT
1 TAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGAGCCGGTGATTT
* * *
134345 AATAGCAGGCCTTGAGCCGGTGATTTTTAGCAGGCTTC-ATGCCGATGAACTTT
1 --TAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGA-GCCGGTG-A-TTT
134398 TAGCAAG
1 TAGCAAG
134405 TATTATGTAC
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
50 1 0.01
51 85 0.94
52 1 0.01
53 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (49 bp):
TAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGAGCCGGTGATTT
Found at i:144437 original size:33 final size:33
Alignment explanation
Indices: 144398--144502 Score: 99
Period size: 33 Copynumber: 3.2 Consensus size: 33
144388 TTAATATATT
144398 AAAATTTTATATATCATTATATTAAATTATTTA
1 AAAATTTTATATATCATTATATTAAATTATTTA
* * * **
144431 AAAATTTAATGTATTATCGTATTAAATTATTT-
1 AAAATTTTATATATCATTATATTAAATTATTTA
* * *
144463 -AAATATTATTTATCATTATATTTAAAAT-TTTA
1 AAAATTTTATATATCATTATA-TTAAATTATTTA
144495 AAATATTT
1 AAA-ATTT
144503 CATGTATAGT
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
31 17 0.31
32 6 0.11
33 29 0.53
34 3 0.05
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (33 bp):
AAAATTTTATATATCATTATATTAAATTATTTA
Found at i:144478 original size:64 final size:66
Alignment explanation
Indices: 144385--144509 Score: 166
Period size: 64 Copynumber: 1.9 Consensus size: 66
144375 TTATATTAAT
* * *
144385 TATTTAATATATTAAAATTTTATATATCATTATA-TTAAATTATTTAAAA-ATTTAATGTATTAT
1 TATTAAATATATTAAAATATTATATATCATTATATTTAAAAT-TTTAAAATATTTAATGTATTAT
144448 CG
65 CG
* * *
144450 TATTAAAT-TATTTAAATATTATTTATCATTATATTTAAAATTTTAAAATATTTCATGTAT
1 TATTAAATATATTAAAATATTATATATCATTATATTTAAAATTTTAAAATATTTAATGTAT
144510 AGTTATATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 29 0.56
65 23 0.44
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (66 bp):
TATTAAATATATTAAAATATTATATATCATTATATTTAAAATTTTAAAATATTTAATGTATTATC
G
Found at i:145514 original size:12 final size:13
Alignment explanation
Indices: 145483--145512 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
145473 ATCACACTTT
145483 TTTTTCATAATAC
1 TTTTTCATAATAC
145496 TTTTTCATAATAC
1 TTTTTCATAATAC
145509 TTTT
1 TTTT
145513 CAAAAACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTCATAATAC
Found at i:149403 original size:19 final size:19
Alignment explanation
Indices: 149379--149421 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
149369 TTATAACAAT
149379 AAAATATATATACAGCAAA
1 AAAATATATATACAGCAAA
*
149398 AAAATATATATACAGCAAG
1 AAAATATATATACAGCAAA
149417 AAAAT
1 AAAAT
149422 GTGACTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.63, C:0.09, G:0.07, T:0.21
Consensus pattern (19 bp):
AAAATATATATACAGCAAA
Found at i:151056 original size:15 final size:15
Alignment explanation
Indices: 151032--151061 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
151022 TAAAATTCCC
151032 TTTATATTTATTTTA
1 TTTATATTTATTTTA
*
151047 TTTATTTTTATTTTA
1 TTTATATTTATTTTA
151062 AAAAATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATATTTATTTTA
Found at i:152545 original size:30 final size:30
Alignment explanation
Indices: 152511--152820 Score: 432
Period size: 30 Copynumber: 10.5 Consensus size: 30
152501 GAGGATGAAA
* *
152511 TGGAAGTTTTGGGGTTAAAAATGGGATCTT
1 TGGAAGTTTCGGGGTTAAAAATGGGATTTT
*
152541 TGGAAGTTTCGGGGTTAAAAATGGGATCTT
1 TGGAAGTTTCGGGGTTAAAAATGGGATTTT
**
152571 TGGAAGTTTTAGGGTTAAAAATGGGATTTT
1 TGGAAGTTTCGGGGTTAAAAATGGGATTTT
* *
152601 TAGAAGTTT-GGGGGTAAAAATGGGATTTT
1 TGGAAGTTTCGGGGTTAAAAATGGGATTTT
*
152630 TGGAAGTTTTGGGGTTAAAAATGGGATTTT
1 TGGAAGTTTCGGGGTTAAAAATGGGATTTT
* *
152660 TAGAAG-TTCGGGGGTAAAAATGGGATTTT
1 TGGAAGTTTCGGGGTTAAAAATGGGATTTT
*
152689 TGGAAGTTTCGAGGTTAAAAATGGGATTTT
1 TGGAAGTTTCGGGGTTAAAAATGGGATTTT
*
152719 TGGAAG-TTCGAGGG-TAAAAATGAGATTTT
1 TGGAAGTTTCG-GGGTTAAAAATGGGATTTT
**
152748 TGGAAGTTTTTGGGTTAAAAATGGGATTTT
1 TGGAAGTTTCGGGGTTAAAAATGGGATTTT
* *
152778 TGGAAG-TTCGGGGGTAAAAATGGGTTTTT
1 TGGAAGTTTCGGGGTTAAAAATGGGATTTT
152807 TGGAAGTTTCGGGG
1 TGGAAGTTTCGGGG
152821 ACCTCCAAGG
Statistics
Matches: 250, Mismatches: 24, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
29 104 0.42
30 146 0.58
ACGTcount: A:0.28, C:0.03, G:0.34, T:0.36
Consensus pattern (30 bp):
TGGAAGTTTCGGGGTTAAAAATGGGATTTT
Found at i:152645 original size:59 final size:59
Alignment explanation
Indices: 152511--152820 Score: 485
Period size: 59 Copynumber: 5.2 Consensus size: 59
152501 GAGGATGAAA
* * *
152511 TGGAAGTTTTGGGGTTAAAAATGGGATCTTTGGAAGTTTCGGGGTTAAAAATGGGATCTT
1 TGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAG-TTCGGGGGTAAAAATGGGATTTT
* * *
152571 TGGAAGTTTTAGGGTTAAAAATGGGATTTTTAGAAGTTTGGGGGTAAAAATGGGATTTT
1 TGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGGATTTT
*
152630 TGGAAGTTTTGGGGTTAAAAATGGGATTTTTAGAAGTTCGGGGGTAAAAATGGGATTTT
1 TGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGGATTTT
* * * *
152689 TGGAAGTTTCGAGGTTAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATGAGATTTT
1 TGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGGATTTT
* *
152748 TGGAAGTTTTTGGGTTAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGGTTTTT
1 TGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGGATTTT
*
152807 TGGAAGTTTCGGGG
1 TGGAAGTTTTGGGG
152821 ACCTCCAAGG
Statistics
Matches: 229, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
59 196 0.86
60 33 0.14
ACGTcount: A:0.28, C:0.03, G:0.34, T:0.36
Consensus pattern (59 bp):
TGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGGATTTT
Found at i:154599 original size:6 final size:6
Alignment explanation
Indices: 154590--154707 Score: 72
Period size: 6 Copynumber: 20.2 Consensus size: 6
154580 TTTTAGCTTT
* * *
154590 ATTTAA ATTTATA A--TAA TTTTAA ATTTGAA A-ATAA ATTTAA ACTTAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA ATTTAA
* * *
154637 A-TTAA ATTTAA ATTCAA A-ATAA ATTTAA ATTTAAA ATTTTAA A--CAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA A-TTTAA ATTTAA
*
154683 ATTTAA ATTTTAA A-ATAA ATTTAA A
1 ATTTAA A-TTTAA ATTTAA ATTTAA A
154708 GGTAGTTTGA
Statistics
Matches: 86, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
4 4 0.05
5 17 0.20
6 45 0.52
7 17 0.20
8 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:154611 original size:17 final size:17
Alignment explanation
Indices: 154590--154673 Score: 114
Period size: 17 Copynumber: 4.9 Consensus size: 17
154580 TTTTAGCTTT
*
154590 ATTTAAATTTATAATAA
1 ATTTAAATTTAAAATAA
*
154607 TTTTAAATTTGAAAATAA
1 ATTTAAATTT-AAAATAA
* *
154625 ATTTAAACTTAAATTAA
1 ATTTAAATTTAAAATAA
*
154642 ATTTAAATTCAAAATAA
1 ATTTAAATTTAAAATAA
154659 ATTTAAATTTAAAAT
1 ATTTAAATTTAAAAT
154674 TTTAAACAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
17 43 0.75
18 14 0.25
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:154647 original size:11 final size:11
Alignment explanation
Indices: 154609--154691 Score: 62
Period size: 11 Copynumber: 7.2 Consensus size: 11
154599 TATAATAATT
154609 TTAAATTTGAAA
1 TTAAATTT-AAA
*
154621 ATAAATTTAAA
1 TTAAATTTAAA
154632 CTTAAA-TTAAA
1 -TTAAATTTAAA
*
154643 TTTAAATTCAAA
1 -TTAAATTTAAA
*
154655 ATAAATTTAAA
1 TTAAATTTAAA
154666 TTTAAAATTTTAAA
1 -TT-AAA-TTTAAA
*
154680 -CAAATTTAAA
1 TTAAATTTAAA
154690 TT
1 TT
154692 TTAAAATAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
10 6 0.11
11 25 0.45
12 16 0.29
13 3 0.05
14 6 0.11
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:154674 original size:35 final size:36
Alignment explanation
Indices: 154590--154707 Score: 116
Period size: 35 Copynumber: 3.2 Consensus size: 36
154580 TTTTAGCTTT
* * *
154590 ATTTAAATTTATAA-TAATTTTAAATTTGAAAATAA
1 ATTTAAATTTAAAATTAAATTTAAATTTCAAAATAA
*
154625 ATTTAAACTT-AAATTAAATTTAAA-TTCAAAATAA
1 ATTTAAATTTAAAATTAAATTTAAATTTCAAAATAA
*
154659 ATTTAAATTTAAAATTTTAAACAAATTTAAATTTTAAAATAA
1 ATTTAAATTTAAAA--TT----AAATTTAAATTTCAAAATAA
154701 ATTTAAA
1 ATTTAAA
154708 GGTAGTTTGA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
34 20 0.29
35 21 0.31
37 2 0.03
41 9 0.13
42 16 0.24
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (36 bp):
ATTTAAATTTAAAATTAAATTTAAATTTCAAAATAA
Found at i:161318 original size:22 final size:22
Alignment explanation
Indices: 161288--161331 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
161278 TAGCAAAAAC
*
161288 GAAATGAAACAACTAAACCTAA
1 GAAAAGAAACAACTAAACCTAA
*
161310 GAAAAGAAATAACTAAACCTAA
1 GAAAAGAAACAACTAAACCTAA
161332 ATTACAAAGA
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:0.61, C:0.16, G:0.09, T:0.14
Consensus pattern (22 bp):
GAAAAGAAACAACTAAACCTAA
Found at i:163917 original size:5 final size:5
Alignment explanation
Indices: 163902--163976 Score: 51
Period size: 5 Copynumber: 14.0 Consensus size: 5
163892 CATACCAAAA
* * * *
163902 CATAT CTTAT CATAT CATAAT GCATTGGAT CATAT CAAAT CACAT CATAC
1 CATAT CATAT CATAT CAT-AT -CA-T--AT CATAT CATAT CATAT CATAT
* *
163952 CATAC CATAC CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT
163977 AATTTCCTAC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
5 48 0.83
6 2 0.03
7 3 0.05
8 3 0.05
9 2 0.03
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (5 bp):
CATAT
Found at i:166662 original size:30 final size:29
Alignment explanation
Indices: 166584--166792 Score: 153
Period size: 29 Copynumber: 7.1 Consensus size: 29
166574 GGAAGTTTTA
* *
166584 GGGTCAAAAAATGGGATTTTTATAAGTTCG
1 GGGTC-AAAAATGAGATTTTTAGAAGTTCG
* * *
166614 AGGGTGAAAATTGA-ATTTTTGGAAGTTTCG
1 -GGGTCAAAAATGAGATTTTTAGAAG-TTCG
* *
166644 GGGTCAAAAATGAGATTTTTACAAGTTCAA
1 GGGTCAAAAATGAGATTTTTAGAAGTTC-G
* *
166674 GGGT-GAAAACG-GATTTTTTAGAAGTTTCG
1 GGGTCAAAAATGAGA-TTTTTAGAAG-TTCG
*
166703 GGGTCAAAAAT-AGGATTTTTGGAAGTTCG
1 GGGTCAAAAATGA-GATTTTTAGAAGTTCG
* * *
166732 AGGT-GAAAATG-GAATTTTTAGAAGTTTTG
1 GGGTCAAAAATGAG-ATTTTTAGAAG-TTCG
*
166761 GGGTCAAAAAT-AGGATTTTTGGAAGTTCG
1 GGGTCAAAAATGA-GATTTTTAGAAGTTCG
166790 GGG
1 GGG
166793 GTGAAAACAA
Statistics
Matches: 139, Mismatches: 25, Indels: 30
0.72 0.13 0.15
Matches are distributed among these distances:
27 1 0.01
28 17 0.12
29 60 0.43
30 54 0.39
31 7 0.05
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.33
Consensus pattern (29 bp):
GGGTCAAAAATGAGATTTTTAGAAGTTCG
Found at i:166765 original size:58 final size:59
Alignment explanation
Indices: 166550--166799 Score: 308
Period size: 59 Copynumber: 4.2 Consensus size: 59
166540 TTTTTGGACA
* * ** * *
166550 TTCGGGGGT-AAAATGGTAATTTTTGGAAGTTTTAGGGTCAAAAAATGGGATTTTTATAAG
1 TTCGAGGGTGAAAATGG-AATTTTTAGAAGTTTCGGGGTC-AAAAATAGGATTTTTAGAAG
* * *
166610 TTCGAGGGTGAAAATTGAATTTTTGGAAGTTTCGGGGTCAAAAAT-GAGATTTTTACAAG
1 TTCGAGGGTGAAAATGGAATTTTTAGAAGTTTCGGGGTCAAAAATAG-GATTTTTAGAAG
* * * *
166669 TTCAAGGGTGAAAACGGATTTTTTAGAAGTTTCGGGGTCAAAAATAGGATTTTTGGAAG
1 TTCGAGGGTGAAAATGGAATTTTTAGAAGTTTCGGGGTCAAAAATAGGATTTTTAGAAG
* *
166728 TTCGA-GGTGAAAATGGAATTTTTAGAAGTTTTGGGGTCAAAAATAGGATTTTTGGAAG
1 TTCGAGGGTGAAAATGGAATTTTTAGAAGTTTCGGGGTCAAAAATAGGATTTTTAGAAG
*
166786 TTCGGGGGTGAAAA
1 TTCGAGGGTGAAAA
166800 CAAAATTTTT
Statistics
Matches: 169, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
58 55 0.33
59 79 0.47
60 29 0.17
61 6 0.04
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (59 bp):
TTCGAGGGTGAAAATGGAATTTTTAGAAGTTTCGGGGTCAAAAATAGGATTTTTAGAAG
Found at i:166794 original size:30 final size:27
Alignment explanation
Indices: 166540--166792 Score: 150
Period size: 29 Copynumber: 8.6 Consensus size: 27
166530 GAATGGAGTT
166540 TTTTTGGACA-TTCGGGGGT-AAAATGGTAA
1 TTTTTGGA-AGTTC-GGGGTAAAAATGG--A
**
166569 TTTTTGGAAGTTTTAGGGTCAAAAAATGGGA
1 TTTTTGGAAG-TTCGGGGT--AAAAAT-GGA
** * *
166600 TTTTTATAAGTTCGAGGGTGAAAATTGAA
1 TTTTTGGAAGTTCG-GGGT-AAAAATGGA
166629 TTTTTGGAAGTTTCGGGGTCAAAAATGAGA
1 TTTTTGGAAG-TTCGGGGT-AAAAATG-GA
** * * *
166659 TTTTTACAAGTTCAAGGGTGAAAACGGA
1 TTTTTGGAAGTTC-GGGGTAAAAATGGA
*
166687 TTTTTTAGAAGTTTCGGGGTCAAAAATAGGA
1 -TTTTTGGAAG-TTCGGGGT-AAAAAT-GGA
* *
166718 TTTTTGGAAGTTCGAGGTGAAAATGGAA
1 TTTTTGGAAGTTCGGGGTAAAAATGG-A
* *
166746 TTTTTAGAAGTTTTGGGGTCAAAAATAGGA
1 TTTTTGGAAG-TTCGGGGT-AAAAAT-GGA
166776 TTTTTGGAAGTTCGGGG
1 TTTTTGGAAGTTCGGGG
166793 GTGAAAACAA
Statistics
Matches: 174, Mismatches: 32, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
27 2 0.01
28 18 0.10
29 72 0.41
30 57 0.33
31 18 0.10
32 5 0.03
33 2 0.01
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.35
Consensus pattern (27 bp):
TTTTTGGAAGTTCGGGGTAAAAATGGA
Found at i:168630 original size:18 final size:18
Alignment explanation
Indices: 168609--168694 Score: 72
Period size: 17 Copynumber: 4.8 Consensus size: 18
168599 TTTTTTAATT
168609 AATTAAATTTTAAA-TTCA
1 AATTAAATTTTAAACTT-A
168627 AATT-AATTTTAAACTTA
1 AATTAAATTTTAAACTTA
*
168644 ATTTAAA-TTTAAACTTAA
1 AATTAAATTTTAAACTT-A
** *
168662 AAGAAAAGTTTAAACTTTA
1 AATTAAATTTTAAAC-TTA
*
168681 AACTAAA-TTTAAAC
1 AATTAAATTTTAAAC
168695 CCTAAATGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
17 22 0.39
18 20 0.35
19 13 0.23
20 2 0.04
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (18 bp):
AATTAAATTTTAAACTTA
Found at i:171514 original size:15 final size:15
Alignment explanation
Indices: 171494--171523 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
171484 GAAAATGAAG
171494 TTATCAGCACTCACA
1 TTATCAGCACTCACA
171509 TTATCAGCACTCACA
1 TTATCAGCACTCACA
171524 GGTAGTGATG
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:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (15 bp):
TTATCAGCACTCACA
Found at i:172212 original size:17 final size:17
Alignment explanation
Indices: 172190--172222 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
172180 CTGGACCATG
*
172190 GCTTTGAATTTGATGCA
1 GCTTTGAATTTCATGCA
172207 GCTTTGAATTTCATGC
1 GCTTTGAATTTCATGC
172223 CCTTTAACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (17 bp):
GCTTTGAATTTCATGCA
Found at i:177784 original size:30 final size:29
Alignment explanation
Indices: 177751--177949 Score: 197
Period size: 30 Copynumber: 6.7 Consensus size: 29
177741 ATTCGAGGGC
* *
177751 AAAATGGTAATTTTTTGAAGTTTTGAGGTCA
1 AAAATGG--ATTTTTAGAAGTTTTGGGGTCA
177782 AAAATTGGATTTTTAGAAGTTTTGGGGTCA
1 AAAA-TGGATTTTTAGAAGTTTTGGGGTCA
** *
177812 AAAATGGGATTTTTAGAAGTTCGGGGGT-G
1 AAAAT-GGATTTTTAGAAGTTTTGGGGTCA
177841 AAAATGGAATTTTTAGAA-TTTTGGGGTCA
1 AAAATGG-ATTTTTAGAAGTTTTGGGGTCA
* ** *
177870 AAAATAGGATTTTTGGAAGTTCGGGGGTGA
1 AAAAT-GGATTTTTAGAAGTTTTGGGGTCA
* *
177900 AAATAT-AATTTTTAGAAGTTTCGGGGTCA
1 AAA-ATGGATTTTTAGAAGTTTTGGGGTCA
*
177929 AAAATAGGATTTTTTGAAGTT
1 AAAAT-GGATTTTTAGAAGTT
177950 CGGGGGTGAA
Statistics
Matches: 140, Mismatches: 19, Indels: 19
0.79 0.11 0.11
Matches are distributed among these distances:
28 11 0.08
29 51 0.36
30 69 0.49
31 6 0.04
32 3 0.02
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (29 bp):
AAAATGGATTTTTAGAAGTTTTGGGGTCA
Found at i:177880 original size:58 final size:59
Alignment explanation
Indices: 177782--177961 Score: 283
Period size: 58 Copynumber: 3.1 Consensus size: 59
177772 TTTGAGGTCA
*
177782 AAAATTGG-ATTTTTAGAAGTTTTGGGGTCAAAAATGGGATTTTTAGAAGTTCGGGGGTG
1 AAAA-TGGAATTTTTAGAAGTTTTGGGGTCAAAAATAGGATTTTTAGAAGTTCGGGGGTG
*
177841 AAAATGGAATTTTTAGAA-TTTTGGGGTCAAAAATAGGATTTTTGGAAGTTCGGGGGTG
1 AAAATGGAATTTTTAGAAGTTTTGGGGTCAAAAATAGGATTTTTAGAAGTTCGGGGGTG
** * *
177899 AAAATATAATTTTTAGAAGTTTCGGGGTCAAAAATAGGATTTTTTGAAGTTCGGGGGTG
1 AAAATGGAATTTTTAGAAGTTTTGGGGTCAAAAATAGGATTTTTAGAAGTTCGGGGGTG
177958 AAAA
1 AAAA
177962 CAAAATTTTT
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
58 57 0.50
59 56 0.50
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.34
Consensus pattern (59 bp):
AAAATGGAATTTTTAGAAGTTTTGGGGTCAAAAATAGGATTTTTAGAAGTTCGGGGGTG
Found at i:177951 original size:29 final size:29
Alignment explanation
Indices: 177777--177954 Score: 193
Period size: 29 Copynumber: 6.1 Consensus size: 29
177767 GAAGTTTTGA
* *
177777 GGTCAAAAATTGGATTTTTAGAAGTTTTGG
1 GGTCAAAAATAGGATTTTTAGAAG-TTCGG
*
177807 GGTCAAAAATGGGATTTTTAGAAGTTCGGG
1 GGTCAAAAATAGGATTTTTAGAAGTTC-GG
* * *
177837 GGT-GAAAAT-GGAATTTTTAGAATTTTGG
1 GGTCAAAAATAGG-ATTTTTAGAAGTTCGG
*
177865 GGTCAAAAATAGGATTTTTGGAAGTTCGGG
1 GGTCAAAAATAGGATTTTTAGAAGTTC-GG
*
177895 GGTGAAAATATA--ATTTTTAGAAGTTTCGG
1 GGTCAAAA-ATAGGATTTTTAGAAG-TTCGG
*
177924 GGTCAAAAATAGGATTTTTTGAAGTTCGG
1 GGTCAAAAATAGGATTTTTAGAAGTTCGG
177953 GG
1 GG
177955 GTGAAAACAA
Statistics
Matches: 126, Mismatches: 13, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
28 10 0.08
29 61 0.48
30 52 0.41
31 3 0.02
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (29 bp):
GGTCAAAAATAGGATTTTTAGAAGTTCGG
Found at i:177961 original size:29 final size:30
Alignment explanation
Indices: 177777--177961 Score: 202
Period size: 30 Copynumber: 6.3 Consensus size: 30
177767 GAAGTTTTGA
* **
177777 GGTCAAAAATTGGATTTTTAGAAGTTTTGG
1 GGTCAAAAATAGGATTTTTAGAAGTTCGGG
*
177807 GGTCAAAAATGGGATTTTTAGAAGTTCGGG
1 GGTCAAAAATAGGATTTTTAGAAGTTCGGG
* **
177837 GGT-GAAAAT-GGAATTTTTAGAA-TTTTGG
1 GGTCAAAAATAGG-ATTTTTAGAAGTTCGGG
*
177865 GGTCAAAAATAGGATTTTTGGAAGTTCGGG
1 GGTCAAAAATAGGATTTTTAGAAGTTCGGG
*
177895 GGTGAAAATATA--ATTTTTAGAAGTTTC-GG
1 GGTCAAAA-ATAGGATTTTTAGAAG-TTCGGG
*
177924 GGTCAAAAATAGGATTTTTTGAAGTTCGGG
1 GGTCAAAAATAGGATTTTTAGAAGTTCGGG
*
177954 GGTGAAAA
1 GGTCAAAA
177962 CAAAATTTTT
Statistics
Matches: 131, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
28 12 0.09
29 51 0.39
30 65 0.50
31 3 0.02
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (30 bp):
GGTCAAAAATAGGATTTTTAGAAGTTCGGG
Found at i:177969 original size:29 final size:28
Alignment explanation
Indices: 177820--177971 Score: 119
Period size: 29 Copynumber: 5.2 Consensus size: 28
177810 CAAAAATGGG
**
177820 ATTTTTAGAAGTTCGGGGGTGAAAATGGA
1 ATTTTTAGAAGTTCGGGGGTGAAAA-AAA
** * *
177849 ATTTTTAGAA-TTTTGGGGTCAAAAATAGG
1 ATTTTTAGAAGTTCGGGGGTGAAAAA-A-A
* *
177878 ATTTTTGGAAGTTCGGGGGTGAAAATATA
1 ATTTTTAGAAGTTCGGGGGTGAAAA-AAA
* *
177907 ATTTTTAGAAGTTTC-GGGGTCAAAAATAGG
1 ATTTTTAGAAG-TTCGGGGGTGAAAAA-A-A
*
177937 ATTTTTTGAAGTTCGGGGGTGAAAACAAA
1 ATTTTTAGAAGTTCGGGGGTGAAAA-AAA
177966 ATTTTT
1 ATTTTT
177972 GGACAGTTTA
Statistics
Matches: 95, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
28 12 0.13
29 47 0.49
30 34 0.36
31 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.36
Consensus pattern (28 bp):
ATTTTTAGAAGTTCGGGGGTGAAAAAAA
Found at i:177969 original size:59 final size:59
Alignment explanation
Indices: 177790--177980 Score: 285
Period size: 59 Copynumber: 3.2 Consensus size: 59
177780 CAAAAATTGG
* **
177790 ATTTTTAGAAGTTTTGGGGTCAAAAATGGGATTTTTAGAAGTTCGGGGGTGAAAATGGA
1 ATTTTTAGAAGTTTTGGGGTCAAAAATAGGATTTTTAGAAGTTCGGGGGTGAAAATAAA
* *
177849 ATTTTTAGAA-TTTTGGGGTCAAAAATAGGATTTTTGGAAGTTCGGGGGTGAAAATATA
1 ATTTTTAGAAGTTTTGGGGTCAAAAATAGGATTTTTAGAAGTTCGGGGGTGAAAATAAA
* * *
177907 ATTTTTAGAAGTTTCGGGGTCAAAAATAGGATTTTTTGAAGTTCGGGGGTGAAAACAAA
1 ATTTTTAGAAGTTTTGGGGTCAAAAATAGGATTTTTAGAAGTTCGGGGGTGAAAATAAA
*
177966 ATTTTTGGACAGTTT
1 ATTTTTAGA-AGTTT
177981 AGGGACCTCC
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
58 54 0.45
59 62 0.51
60 5 0.04
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (59 bp):
ATTTTTAGAAGTTTTGGGGTCAAAAATAGGATTTTTAGAAGTTCGGGGGTGAAAATAAA
Done.