Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 31 of 325
Found at i:11614726 original size:57 final size:57
Alignment explanation
Indices: 11614657--11614770 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
11614647 AAAAAAGAAA
11614657 ACCAAAATTTCAGCTTAATTCGATTTACAATATTTGATCCTGAAATTATGCTGCATG
1 ACCAAAATTTCAGCTTAATTCGATTTACAATATTTGATCCTGAAATTATGCTGCATG
*
11614714 ACCAAAATTTCAGCTTAATTTGATTTACAATATTTGATCCTGAAATTATGCTGCATG
1 ACCAAAATTTCAGCTTAATTCGATTTACAATATTTGATCCTGAAATTATGCTGCATG
11614771 TGATGGTGAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (57 bp):
ACCAAAATTTCAGCTTAATTCGATTTACAATATTTGATCCTGAAATTATGCTGCATG
Found at i:11618215 original size:21 final size:21
Alignment explanation
Indices: 11618189--11618228 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11618179 GTCTTAACTG
11618189 CTGATGTGACAAGTTAACTAA
1 CTGATGTGACAAGTTAACTAA
* *
11618210 CTGATGTGGCCAGTTAACT
1 CTGATGTGACAAGTTAACT
11618229 TGCCACATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (21 bp):
CTGATGTGACAAGTTAACTAA
Found at i:11618671 original size:13 final size:13
Alignment explanation
Indices: 11618655--11618689 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11618645 TGCTGTGGAA
11618655 AAGTACTTTTGAG
1 AAGTACTTTTGAG
*
11618668 AAGTACTTTTGAT
1 AAGTACTTTTGAG
*
11618681 AAGTGCTTT
1 AAGTACTTT
11618690 GGAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (13 bp):
AAGTACTTTTGAG
Found at i:11618844 original size:12 final size:12
Alignment explanation
Indices: 11618827--11618853 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11618817 ATATTTTAGC
11618827 AAAAATATAAAA
1 AAAAATATAAAA
11618839 AAAAATATAAAA
1 AAAAATATAAAA
11618851 AAA
1 AAA
11618854 TAATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATATAAAA
Found at i:11620403 original size:9 final size:9
Alignment explanation
Indices: 11620391--11620423 Score: 52
Period size: 8 Copynumber: 3.9 Consensus size: 9
11620381 TCCCCTCTTA
11620391 TTCTTTTTC
1 TTCTTTTTC
11620400 TTC-TTTTC
1 TTCTTTTTC
11620408 TTCTTTTTC
1 TTCTTTTTC
11620417 TT-TTTTT
1 TTCTTTTT
11620424 AAACCCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 13 0.57
9 10 0.43
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:11620423 original size:17 final size:17
Alignment explanation
Indices: 11620391--11620422 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11620381 TCCCCTCTTA
11620391 TTCTTTTTCTTCTTTTC
1 TTCTTTTTCTTCTTTTC
11620408 TTCTTTTTCTT-TTTT
1 TTCTTTTTCTTCTTTT
11620423 TAAACCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTCTTTTTCTTCTTTTC
Found at i:11624123 original size:24 final size:24
Alignment explanation
Indices: 11624096--11624147 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11624086 TTAGTAAGTC
*
11624096 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11624120 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11624144 AAAT
1 AAAT
11624148 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11627946 original size:11 final size:11
Alignment explanation
Indices: 11627930--11627963 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
11627920 GAAGAAGGTT
11627930 ATGTTTAAAGA
1 ATGTTTAAAGA
11627941 ATGTTTAAAGA
1 ATGTTTAAAGA
11627952 ATGTTTAAAGA
1 ATGTTTAAAGA
11627963 A
1 A
11627964 GAGGGAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (11 bp):
ATGTTTAAAGA
Found at i:11644825 original size:44 final size:45
Alignment explanation
Indices: 11644772--11644874 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
11644762 TGTCTTTGAC
* * *
11644772 ATGGACTTACATGAATTATTCCCGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCCGTCTCCAAAGCCATATTATAAT
** * * *
11644816 ATGGACTTACATGGCTCAATCCTGTCTCTAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCCGTCTCCAAAGCCATA-TTATAAT
11644862 ATGGACTTACATG
1 ATGGACTTACATG
11644875 GCTCATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.63
46 18 0.37
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCCGTCTCCAAAGCCATATTATAAT
Found at i:11651303 original size:28 final size:28
Alignment explanation
Indices: 11651250--11651333 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
11651240 CACTTTGTGC
11651250 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
11651279 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
11651307 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
11651334 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:11651345 original size:23 final size:24
Alignment explanation
Indices: 11651254--11651347 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
11651244 TTGTGCTATT
11651254 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
11651281 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
11651311 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
11651334 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
11651348 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:11651596 original size:21 final size:21
Alignment explanation
Indices: 11651572--11651620 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
11651562 CAAGCACCTT
11651572 GTGTGTCGCAGCAGGCACTTC
1 GTGTGTCGCAGCAGGCACTTC
***
11651593 GTGTGTCGTTTCAGGCACTTC
1 GTGTGTCGCAGCAGGCACTTC
11651614 GTGTGTC
1 GTGTGTC
11651621 ATTTCAGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.10, C:0.24, G:0.33, T:0.33
Consensus pattern (21 bp):
GTGTGTCGCAGCAGGCACTTC
Found at i:11651625 original size:21 final size:21
Alignment explanation
Indices: 11651583--11651633 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
11651573 TGTGTCGCAG
*
11651583 CAGGCACTTCGTGTGTCGTTT
1 CAGGCACTTCGTGTGTCATTT
11651604 CAGGCACTTCGTGTGTCATTT
1 CAGGCACTTCGTGTGTCATTT
11651625 CAGGCACTT
1 CAGGCACTT
11651634 ATGTGTCGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.35
Consensus pattern (21 bp):
CAGGCACTTCGTGTGTCATTT
Found at i:11652583 original size:22 final size:22
Alignment explanation
Indices: 11652558--11652601 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11652548 GAGAACTCAG
11652558 TTAGAGGCTTTACGACCTCACC
1 TTAGAGGCTTTACGACCTCACC
11652580 TTAGAGGCTTTACGACCTCACC
1 TTAGAGGCTTTACGACCTCACC
11652602 CTCTTACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (22 bp):
TTAGAGGCTTTACGACCTCACC
Found at i:11655933 original size:46 final size:46
Alignment explanation
Indices: 11655880--11656057 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
11655870 GGATATTTGG
11655880 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * * *
11655926 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA
*
11655972 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* ** *
11656019 ACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
11656058 CGCGGGTTAC
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
46 75 0.66
47 38 0.34
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:11656038 original size:93 final size:93
Alignment explanation
Indices: 11655879--11656050 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
11655869 GGGATATTTG
* *
11655879 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
11655944 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
11655972 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
11656037 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
11656051 ACTTATGCGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:11658942 original size:5 final size:5
Alignment explanation
Indices: 11658934--11658960 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11658924 TCTTTAGTTT
11658934 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
11658961 TAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:11659199 original size:11 final size:11
Alignment explanation
Indices: 11659183--11659224 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
11659173 TAAATTCACT
11659183 TAATTAAACTC
1 TAATTAAACTC
11659194 TAATTAACCACT-
1 TAATTAA--ACTC
11659206 TAATTAAACTC
1 TAATTAAACTC
11659217 TAATTAAA
1 TAATTAAA
11659225 AATATTTACG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.11
11 15 0.54
12 7 0.25
13 3 0.11
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATTAAACTC
Found at i:11659205 original size:23 final size:23
Alignment explanation
Indices: 11659179--11659223 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
11659169 AAATTAAATT
11659179 CACTTAATTAAACTCTAATTAAC
1 CACTTAATTAAACTCTAATTAAC
11659202 CACTTAATTAAACTCTAATTAA
1 CACTTAATTAAACTCTAATTAA
11659224 AAATATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (23 bp):
CACTTAATTAAACTCTAATTAAC
Found at i:11659211 original size:12 final size:11
Alignment explanation
Indices: 11659152--11659223 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 11
11659142 AGTCCTTTTT
*
11659152 CTTAATT-ACT
1 CTTAATTAACA
11659162 CTTAATTAA-A
1 CTTAATTAACA
11659172 -TTAAATT--CA
1 CTT-AATTAACA
11659181 CTTAATTAA-A
1 CTTAATTAACA
11659191 CTCTAATTAACCA
1 CT-TAATTAA-CA
11659204 CTTAATTAA-A
1 CTTAATTAACA
11659214 CTCTAATTAA
1 CT-TAATTAA
11659224 AAATATTTAC
Statistics
Matches: 51, Mismatches: 1, Indels: 19
0.72 0.01 0.27
Matches are distributed among these distances:
9 7 0.14
10 19 0.37
11 15 0.29
12 7 0.14
13 3 0.06
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (11 bp):
CTTAATTAACA
Found at i:11663066 original size:22 final size:24
Alignment explanation
Indices: 11663014--11663066 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
11663004 TATAATTTTC
* **
11663014 TTAATAAAAAATATATTATTTTTT
1 TTAAAAAAAAATATATTATTTAGT
*
11663038 TTCAAAAAAAATATA-TA-TTAGT
1 TTAAAAAAAAATATATTATTTAGT
11663060 TTAAAAA
1 TTAAAAA
11663067 TCTAAAAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 9 0.38
23 2 0.08
24 13 0.54
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TTAAAAAAAAATATATTATTTAGT
Found at i:11663666 original size:18 final size:18
Alignment explanation
Indices: 11663645--11663683 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11663635 GTGAATAGTA
* *
11663645 AAATTAAACTTAAATATT
1 AAATTAAACATAAAAATT
11663663 AAATTAAACATAAAAATT
1 AAATTAAACATAAAAATT
11663681 AAA
1 AAA
11663684 CTCACACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATTAAACATAAAAATT
Found at i:11668530 original size:12 final size:11
Alignment explanation
Indices: 11668513--11668554 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
11668503 AAGTCATATT
11668513 TAATTTTTATA
1 TAATTTTTATA
*
11668524 TATATTTTAATA
1 TA-ATTTTTATA
11668536 -AATTTATTATA
1 TAATTT-TTATA
11668547 TAATTTTT
1 TAATTTTT
11668555 TCACCTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 4 0.15
11 9 0.35
12 13 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:11681251 original size:30 final size:30
Alignment explanation
Indices: 11681183--11681253 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
11681173 TTGATTGAAT
* *
11681183 TAAAATTAAAGTTTCGTGTATATATTTAAAC
1 TAAAATTAAAGTTTCGTGTATAAATGT-AAC
11681214 TAAAATTAAAGTTTCATGTGTATAAATGT-AC
1 TAAAATTAAAGTTTC--GTGTATAAATGTAAC
11681245 -AAAATTAAA
1 TAAAATTAAA
11681254 ATTCATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 9 0.25
31 17 0.47
33 10 0.28
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (30 bp):
TAAAATTAAAGTTTCGTGTATAAATGTAAC
Found at i:11703136 original size:17 final size:18
Alignment explanation
Indices: 11703096--11703139 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
11703086 ATTTCTAGTG
* *
11703096 TTTAGATTTTTGTATTTA
1 TTTAAATTTTTGTATATA
*
11703114 TATAAATTTTT-TATATA
1 TTTAAATTTTTGTATATA
11703131 TTTAAATTT
1 TTTAAATTT
11703140 ATGTTATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTAAATTTTTGTATATA
Found at i:11716280 original size:17 final size:16
Alignment explanation
Indices: 11716255--11716291 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
11716245 ATTAATAAGT
*
11716255 TTATTATTATTTAATTA
1 TTATGATTATTT-ATTA
11716272 TTATGATTATTTATTA
1 TTATGATTATTTATTA
11716288 TTAT
1 TTAT
11716292 ATTTCTCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTATGATTATTTATTA
Found at i:11717400 original size:22 final size:21
Alignment explanation
Indices: 11717337--11717400 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
11717327 TTTTTTTAAG
11717337 AAAATAAAGATAACAAAATAAA
1 AAAATAAAGA-AACAAAATAAA
* * **
11717359 AAGATAAAGAAATACTATAAA
1 AAAATAAAGAAACAAAATAAA
*
11717380 ATAAATAAAGAAAGAAAATAA
1 A-AAATAAAGAAACAAAATAA
11717401 TTCAAAAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
21 9 0.27
22 24 0.73
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.16
Consensus pattern (21 bp):
AAAATAAAGAAACAAAATAAA
Found at i:11727962 original size:5 final size:5
Alignment explanation
Indices: 11727952--11727983 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
11727942 TTATGTTTTA
11727952 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
11727984 AAACTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:11730292 original size:5 final size:5
Alignment explanation
Indices: 11730284--11730364 Score: 56
Period size: 5 Copynumber: 15.4 Consensus size: 5
11730274 TTCTTTAGTT
* * * *
11730284 TATAA TATAA TATAA TATAATA TATAA TATAA TTAAAA CATAA AATATC
1 TATAA TATAA TATAA TAT-A-A TATAA TATAA -TATAA TATAA TATA-A
* *
11730333 TTTAT TATATA TATAA TATAA TA-AA TATAA TA
1 TATAA TATA-A TATAA TATAA TATAA TATAA TA
11730365 ATATATTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
4 4 0.07
5 40 0.67
6 12 0.20
7 4 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:11730374 original size:17 final size:17
Alignment explanation
Indices: 11730290--11730379 Score: 58
Period size: 17 Copynumber: 5.1 Consensus size: 17
11730280 AGTTTATAAT
*
11730290 ATAATATAATATAATAT-
1 ATAATATATTA-AATATA
*
11730307 ATAATATAATTAAAACATA
1 ATAATAT-ATT-AAATATA
* *
11730326 A-AATATCTTTATTATATA
1 ATAATAT-ATTA-AATATA
*
11730344 TATAATATAATAAATATA
1 -ATAATATATTAAATATA
*
11730362 ATAATATATTAAACATA
1 ATAATATATTAAATATA
11730379 A
1 A
11730380 AAAAAATCTT
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
17 24 0.43
18 22 0.39
19 5 0.09
20 5 0.09
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAATATATTAAATATA
Found at i:11739469 original size:28 final size:28
Alignment explanation
Indices: 11739437--11739492 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
11739427 CTTTGAGCAC
11739437 ACATTAATCTCTTGAATGAGAACAATCA
1 ACATTAATCTCTTGAATGAGAACAATCA
*
11739465 ACATTAATCTCTTGAATGAGAACGATCA
1 ACATTAATCTCTTGAATGAGAACAATCA
11739493 TCTCACTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (28 bp):
ACATTAATCTCTTGAATGAGAACAATCA
Found at i:11753482 original size:31 final size:31
Alignment explanation
Indices: 11753432--11753491 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
11753422 CTTTTTTGGC
11753432 AAATTTAGATGATTATGGTACATA-TTTTCA
1 AAATTTAGATGATTATGGTACATACTTTTCA
11753462 AAATCTTATGATG-TTATGGTACATACTTTT
1 AAAT-TTA-GATGATTATGGTACATACTTTT
11753492 TGATTCTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.15
31 15 0.56
32 8 0.30
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.45
Consensus pattern (31 bp):
AAATTTAGATGATTATGGTACATACTTTTCA
Found at i:11758123 original size:75 final size:73
Alignment explanation
Indices: 11757918--11758178 Score: 477
Period size: 73 Copynumber: 3.5 Consensus size: 73
11757908 ATTATTATTT
* *
11757918 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTAATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
11757983 ATTTTAAG
66 ATTTTAAG
11757991 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
11758056 ATTTTAAG
66 ATTTTAAG
*
11758064 TGGATGTAATGATAAAACTTATAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGAT
1 TGGATGTAATGATGAAAC-T-TAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGAT
11758129 TTATTTTAAG
64 TTATTTTAAG
11758139 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
11758179 GTCAAGTTGT
Statistics
Matches: 182, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
73 109 0.60
74 2 0.01
75 71 0.39
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:11761261 original size:71 final size:70
Alignment explanation
Indices: 11761145--11761280 Score: 236
Period size: 71 Copynumber: 1.9 Consensus size: 70
11761135 CTTCCTCCAA
*
11761145 CTTTTCGTCAAGCGAAGTGTTCGATAAAATGCTTCACTGATGAAAAGGAAAGGCCTTTCAAATTC
1 CTTTTCGTCAAGCGAAGTGTTCGATAAAATGCTTCACTGATGAAAAAGAAA-GCCTTTCAAATTC
11761210 TTTCAT
65 TTTCAT
* *
11761216 CTTTTCGTCGAGCGAAGTGTTCGATAAAATGCTTCACTGTTGAAAAAGAAAGCCTTTCAAATTCT
1 CTTTTCGTCAAGCGAAGTGTTCGATAAAATGCTTCACTGATGAAAAAGAAAGCCTTTCAAATTCT
11761281 AACGTTTGTG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
70 14 0.23
71 48 0.77
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (70 bp):
CTTTTCGTCAAGCGAAGTGTTCGATAAAATGCTTCACTGATGAAAAAGAAAGCCTTTCAAATTCT
TTCAT
Found at i:11765756 original size:17 final size:17
Alignment explanation
Indices: 11765736--11765769 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11765726 AGGTTTAGAT
11765736 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
11765753 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
11765770 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:11781228 original size:19 final size:19
Alignment explanation
Indices: 11781200--11781244 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
11781190 TACGTAATTT
*
11781200 TTTGAAAAAATTTACCTAG
1 TTTGATAAAATTTACCTAG
11781219 TTTGATAAAATTTACCTAG
1 TTTGATAAAATTTACCTAG
11781238 TTTGATA
1 TTTGATA
11781245 TTAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (19 bp):
TTTGATAAAATTTACCTAG
Found at i:11785560 original size:31 final size:29
Alignment explanation
Indices: 11785506--11785564 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
11785496 CAAATTAGAA
11785506 AAAAGAAAAAAAATTACAACTAAAATAAC
1 AAAAGAAAAAAAATTACAACTAAAATAAC
11785535 AAAAGAAAAAAAAGGTTA-AAGCTAAAATAA
1 AAAAGAAAAAAAA--TTACAA-CTAAAATAA
11785565 ACAACTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 13 0.48
30 2 0.07
31 12 0.44
ACGTcount: A:0.71, C:0.07, G:0.08, T:0.14
Consensus pattern (29 bp):
AAAAGAAAAAAAATTACAACTAAAATAAC
Found at i:11786778 original size:15 final size:15
Alignment explanation
Indices: 11786758--11786787 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11786748 GTTTGTTTCA
*
11786758 AATATATTTAATTTT
1 AATATATTGAATTTT
11786773 AATATATTGAATTTT
1 AATATATTGAATTTT
11786788 TTTATTCTAT
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:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
AATATATTGAATTTT
Found at i:11797535 original size:52 final size:49
Alignment explanation
Indices: 11797450--11797816 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
11797440 TTTGAGTACT
* **
11797450 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
11797496 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
11797548 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
11797594 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
11797640 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
11797692 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
11797744 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
11797790 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
11797817 GCTACACTTA
Statistics
Matches: 292, Mismatches: 15, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:11797570 original size:98 final size:97
Alignment explanation
Indices: 11797450--11797816 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
11797440 TTTGAGTACT
* *
11797450 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
11797515 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
11797548 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
11797608 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
11797640 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
11797705 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
11797744 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
11797809 GATAAGTG
65 GA-AAGTG
11797817 GCTACACTTA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 145 0.60
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:11797798 original size:196 final size:196
Alignment explanation
Indices: 11797464--11797816 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
11797454 ATCAAGTGAT
* * *
11797464 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
11797529 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
11797594 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
11797659 G
196 G
* *
11797660 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
11797725 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
11797790 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
11797817 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:11797853 original size:150 final size:149
Alignment explanation
Indices: 11797450--11797805 Score: 467
Period size: 150 Copynumber: 2.4 Consensus size: 149
11797440 TTTGAGTACT
* * * * *
11797450 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
11797515 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
11797573 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
11797594 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
11797659 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
11797723 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
11797744 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
11797806 AGTGATAAGT
Statistics
Matches: 192, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
144 83 0.43
145 1 0.01
149 7 0.04
150 91 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:11797876 original size:36 final size:37
Alignment explanation
Indices: 11797780--11797924 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
11797770 GATAGCTTTA
*
11797780 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
11797817 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
11797854 GCTACACTTAT-TGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
11797890 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
11797925 ATCATACGTA
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
35 11 0.11
36 39 0.38
37 52 0.51
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:11797891 original size:73 final size:72
Alignment explanation
Indices: 11797780--11797924 Score: 229
Period size: 73 Copynumber: 2.0 Consensus size: 72
11797770 GATAGCTTTA
*
11797780 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATC-AGAAAC-AAG
11797845 TGATAAGTG
64 TGATAAGTG
* **
11797854 GCTACACTTAT-TGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGATCAGGGACAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAGAAACAAGTG
11797918 ATAAGTG
66 ATAAGTG
11797925 ATCATACGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
71 12 0.18
72 4 0.06
73 40 0.60
74 11 0.16
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (72 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAGAAACAAGTG
ATAAGTG
Found at i:11799094 original size:40 final size:39
Alignment explanation
Indices: 11798981--11799133 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
11798971 TGATTCCACT
* ** *
11798981 CCCCATACTACTTTGTTTTATTATTAATTAAAATTACTC
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACAATTC
*
11799020 CCCCATACTATTTCGTTTTATTATTAATTAAAACAATTC
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACAATTC
11799059 CCCCATACTATTTTGTTTTCATTATTAATTAAAACAATTC
1 CCCCATACTATTTTGTTTT-ATTATTAATTAAAACAATTC
11799099 CCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 CCCCATACTATTTTG-TTTTATTATTAATTAAAAC
11799134 CATACTTTAT
Statistics
Matches: 106, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 52 0.49
40 50 0.47
41 4 0.04
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.46
Consensus pattern (39 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACAATTC
Found at i:11799107 original size:79 final size:79
Alignment explanation
Indices: 11798981--11799133 Score: 245
Period size: 79 Copynumber: 1.9 Consensus size: 79
11798971 TGATTCCACT
**
11798981 CCCCATACTACTTTGTTTTATTATTAATTAAAATTACTCCCCCATACTATTTCG-TTTTATTATT
1 CCCCATACTACTTTGTTTTATTATTAATTAAAACAACTCCCCCATACTATTTCGTTTTTATTATT
11799045 AATTAAAACAATTC
66 AATTAAAACAATTC
* * *
11799059 CCCCATACTATTTTGTTTTCATTATTAATTAAAACAATTCCCCCATACTATTTTGTTTTTATTAT
1 CCCCATACTACTTTGTTTT-ATTATTAATTAAAACAACTCCCCCATACTATTTCGTTTTTATTAT
11799124 TAATTAAAAC
65 TAATTAAAAC
11799134 CATACTTTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
78 18 0.26
79 31 0.46
80 19 0.28
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.46
Consensus pattern (79 bp):
CCCCATACTACTTTGTTTTATTATTAATTAAAACAACTCCCCCATACTATTTCGTTTTTATTATT
AATTAAAACAATTC
Found at i:11799193 original size:24 final size:24
Alignment explanation
Indices: 11799148--11799196 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
11799138 CTTTATTTTC
*
11799148 TCCTTTCTTTTTATCATAAAAAAA
1 TCCTTTCTTTTTAACATAAAAAAA
*
11799172 TCCTTTCTTTTTTAAGATAAAAAAA
1 TCCTTTC-TTTTTAACATAAAAAAA
11799197 CAACAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (24 bp):
TCCTTTCTTTTTAACATAAAAAAA
Found at i:11803656 original size:20 final size:17
Alignment explanation
Indices: 11803621--11803665 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
11803611 ATTTTTATGG
11803621 TTTTATGATTTTTAATAAT
1 TTTTAT-ATTTTTAAT-AT
11803640 TATTTATATTTTGTAATAT
1 T-TTTATATTTT-TAATAT
11803659 TTTTATA
1 TTTTATA
11803666 ATATTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTATATTTTTAATAT
Found at i:11803684 original size:21 final size:21
Alignment explanation
Indices: 11803645--11803684 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11803635 ATAATTATTT
*
11803645 ATATTTTGTAATATTTTTATA
1 ATATTTTGTAATATGTTTATA
11803666 ATATTTTG-AATCATGTTTA
1 ATATTTTGTAAT-ATGTTTA
11803685 AAACAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (21 bp):
ATATTTTGTAATATGTTTATA
Found at i:11808989 original size:12 final size:13
Alignment explanation
Indices: 11808964--11808990 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11808954 CTACCTCAGC
11808964 TTTTATGTCTTTT
1 TTTTATGTCTTTT
11808977 TTTTATGTCTTTT
1 TTTTATGTCTTTT
11808990 T
1 T
11808991 ATTCAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTATGTCTTTT
Found at i:11811686 original size:23 final size:21
Alignment explanation
Indices: 11811657--11811739 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
11811647 TAATCAGTAT
*
11811657 ACGACACATAAAGTGCCTGAA
1 ACGACACACAAAGTGCCTGAA
* * *
11811678 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTGAA
* *
11811699 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCTG-AA
*
11811721 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
11811740 AATCAGTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 36 0.69
22 1 0.02
23 15 0.29
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTGAA
Found at i:11812549 original size:29 final size:28
Alignment explanation
Indices: 11812517--11812571 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
11812507 GCTCGAATGC
11812517 TTTCTGTTCTCTT-TTCTCTATTCTTTTTG
1 TTTCTGTTCT-TTATTCTCT-TTCTTTTTG
* *
11812546 TTTCTTTTCTTTATTCTGTTTCTTTT
1 TTTCTGTTCTTTATTCTCTTTCTTTT
11812572 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.04, C:0.18, G:0.05, T:0.73
Consensus pattern (28 bp):
TTTCTGTTCTTTATTCTCTTTCTTTTTG
Found at i:11812554 original size:22 final size:23
Alignment explanation
Indices: 11812516--11812562 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
11812506 TGCTCGAATG
11812516 CTTTCTGTTCTCTTTTCTCTATT
1 CTTTCTGTTCTCTTTTCTCTATT
* *
11812539 CTTTTTGTT-TCTTTTCTTTATT
1 CTTTCTGTTCTCTTTTCTCTATT
11812561 CT
1 CT
11812563 GTTTCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.70
Consensus pattern (23 bp):
CTTTCTGTTCTCTTTTCTCTATT
Found at i:11812574 original size:14 final size:12
Alignment explanation
Indices: 11812526--11812575 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
11812516 CTTTCTGTTC
*
11812526 TCTTTTCTCTAT
1 TCTTTTCTTTAT
*
11812538 TCTTTT-TGT-T
1 TCTTTTCTTTAT
11812548 TCTTTTCTTTAT
1 TCTTTTCTTTAT
11812560 TCTGTTTCTTTTAT
1 TCT-TTTC-TTTAT
11812574 TC
1 TC
11812576 ACTTTAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 7 0.22
11 4 0.12
12 10 0.31
13 4 0.12
14 7 0.22
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (12 bp):
TCTTTTCTTTAT
Found at i:11816257 original size:18 final size:18
Alignment explanation
Indices: 11816231--11816265 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11816221 GGTATTTTTT
*
11816231 TATTATATATTTTATATC
1 TATTATATAGTTTATATC
*
11816249 TATTTTATAGTTTATAT
1 TATTATATAGTTTATAT
11816266 TCGAATTTTG
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:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TATTATATAGTTTATATC
Found at i:11823690 original size:36 final size:36
Alignment explanation
Indices: 11823643--11823714 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
11823633 AAAGAGATGA
11823643 AATATTGACAAAAAGTAATGCAAATGGCTTCAACTT
1 AATATTGACAAAAAGTAATGCAAATGGCTTCAACTT
11823679 AATATTGACAAAAAGTAATGCAAATGGCTTCAACTT
1 AATATTGACAAAAAGTAATGCAAATGGCTTCAACTT
11823715 TGATATGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (36 bp):
AATATTGACAAAAAGTAATGCAAATGGCTTCAACTT
Found at i:11825960 original size:15 final size:15
Alignment explanation
Indices: 11825942--11825971 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11825932 TTAGAATAAT
*
11825942 CATATTTCAAAAACA
1 CATATTTAAAAAACA
11825957 CATATTTAAAAAACA
1 CATATTTAAAAAACA
11825972 ACCATTATTT
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:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
CATATTTAAAAAACA
Found at i:11828215 original size:30 final size:29
Alignment explanation
Indices: 11828181--11828238 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
11828171 TTTACAATTA
*
11828181 ATAAAATTACACTTTAATCTTTTAAAAATG
1 ATAAAATTACAATTTAAT-TTTTAAAAATG
**
11828211 ATAAAATTTTAATTTAATTTTTAAAAAT
1 ATAAAATTACAATTTAATTTTTAAAAAT
11828239 TATAGACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (29 bp):
ATAAAATTACAATTTAATTTTTAAAAATG
Found at i:11829598 original size:40 final size:40
Alignment explanation
Indices: 11829554--11829633 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
11829544 AGTACATCAA
11829554 ATATTCTTCATAATGTGCTCTTAAATAAAGAGGTTAGATG
1 ATATTCTTCATAATGTGCTCTTAAATAAAGAGGTTAGATG
11829594 ATATTCTTCATAATGTGCTCTTAAATAAAGAGGTTAGATG
1 ATATTCTTCATAATGTGCTCTTAAATAAAGAGGTTAGATG
11829634 CTTCGCATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (40 bp):
ATATTCTTCATAATGTGCTCTTAAATAAAGAGGTTAGATG
Found at i:11837577 original size:96 final size:96
Alignment explanation
Indices: 11837409--11837602 Score: 275
Period size: 96 Copynumber: 2.0 Consensus size: 96
11837399 TCGCTTCTTT
*
11837409 TTGCTCCTTTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTTTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCCTGGGCTCCTT
* * * *
11837474 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
* *
11837505 TTGCTCCTCTTT-GCCCTCTTGGCTTCGGCTTTTCTCTTGCTCGAACCAAGCTTCCTGGGCT-CT
1 TTGCTCCT-TTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCCTGGGCTCCT
* *
11837568 GTATTTGCTCGATCATTCCCATCGATAACAGAC
65 -TATCTGCTCCATCATTCCCATCGATAACAGAC
11837601 TT
1 TT
11837603 CCTCGGACAC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
95 2 0.02
96 82 0.94
97 3 0.03
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.37
Consensus pattern (96 bp):
TTGCTCCTTTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCCTGGGCTCCTT
ATCTGCTCCATCATTCCCATCGATAACAGAC
Found at i:11845739 original size:46 final size:44
Alignment explanation
Indices: 11845680--11845794 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
11845670 ACAGGACAGA
* *
11845680 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
11845726 ATAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
11845770 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
11845795 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:11845786 original size:44 final size:45
Alignment explanation
Indices: 11845680--11845813 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
11845670 ACAGGACAGA
* * *
11845680 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
11845726 ATAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
11845770 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
11845814 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:11846378 original size:99 final size:100
Alignment explanation
Indices: 11846188--11846387 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 100
11846178 GTATAACTAG
11846188 ACGTTTTGTTTTGGGTATGGCATGTATAGAAACTTAGCTACTTTTGGTATAATATGAACAATGAA
1 ACGTTTTGTTTTGGGTATGGCATGTATAGAAACTTAGCTACTTTTGGTATAATATGAACAATGAA
11846253 TGATGTGTAAATACTTGCTAGTGATTAGCTAATAA
66 TGATGTGTAAATACTTGCTAGTGATTAGCTAATAA
11846288 ACGTTTTGTTTTGGGTATGGCATGTATAGAAACTTAGCTACTTTT-GTATAATATGAACAATGAA
1 ACGTTTTGTTTTGGGTATGGCATGTATAGAAACTTAGCTACTTTTGGTATAATATGAACAATGAA
11846352 TGATGTGTAAATACTTGCTAGTGATTAGCTAATAA
66 TGATGTGTAAATACTTGCTAGTGATTAGCTAATAA
11846387 A
1 A
11846388 ATAGGCGATG
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 55 0.55
100 45 0.45
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (100 bp):
ACGTTTTGTTTTGGGTATGGCATGTATAGAAACTTAGCTACTTTTGGTATAATATGAACAATGAA
TGATGTGTAAATACTTGCTAGTGATTAGCTAATAA
Found at i:11858869 original size:19 final size:19
Alignment explanation
Indices: 11858845--11858881 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11858835 ATAAATTTTG
* *
11858845 AAAATTTTATAATTATTTA
1 AAAATTTAAAAATTATTTA
11858864 AAAATTTAAAAATTATTT
1 AAAATTTAAAAATTATTT
11858882 TTGATTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATTTAAAAATTATTTA
Found at i:11863106 original size:30 final size:30
Alignment explanation
Indices: 11863072--11863134 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
11863062 ACTTATTTTA
*
11863072 TTGTTTATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
11863102 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
11863132 TTG
1 TTG
11863135 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:11863234 original size:17 final size:19
Alignment explanation
Indices: 11863207--11863253 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
11863197 TTGTTAGAAA
*
11863207 ATATTTATTTTGATGT-TT
1 ATATATATTTTGATGTATT
* *
11863225 TTA-ATATTTTTATGTATT
1 ATATATATTTTGATGTATT
11863243 ATATATATTTT
1 ATATATATTTT
11863254 AAAATTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 10 0.43
18 6 0.26
19 7 0.30
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (19 bp):
ATATATATTTTGATGTATT
Found at i:11867293 original size:34 final size:34
Alignment explanation
Indices: 11867250--11867317 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
11867240 CATTTGATAA
11867250 AACTTAAATGGTGAACAGTCAAATTCATCATAGT
1 AACTTAAATGGTGAACAGTCAAATTCATCATAGT
11867284 AACTTAAATGGTGAACAGTCAAATTCATCATAGT
1 AACTTAAATGGTGAACAGTCAAATTCATCATAGT
11867318 CAGCTTCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (34 bp):
AACTTAAATGGTGAACAGTCAAATTCATCATAGT
Found at i:11885549 original size:11 final size:11
Alignment explanation
Indices: 11885528--11885556 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11885518 GGTTCTGTCA
11885528 TTCTC-TTCTT
1 TTCTCTTTCTT
11885538 TTCTCTTTCTT
1 TTCTCTTTCTT
11885549 TTCTCTTT
1 TTCTCTTT
11885557 TGCACCATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
TTCTCTTTCTT
Found at i:11887135 original size:37 final size:37
Alignment explanation
Indices: 11887094--11887169 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
11887084 AATGGTTACC
11887094 ATAAGTTGATTCATTAAGCAACAATGTTTGACTTTTA
1 ATAAGTTGATTCATTAAGCAACAATGTTTGACTTTTA
** *
11887131 ATAAGTTGATTCATTAAGCTGCAATGTTTTACTTTTA
1 ATAAGTTGATTCATTAAGCAACAATGTTTGACTTTTA
11887168 AT
1 AT
11887170 CATTCTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (37 bp):
ATAAGTTGATTCATTAAGCAACAATGTTTGACTTTTA
Found at i:11897023 original size:12 final size:12
Alignment explanation
Indices: 11897006--11897059 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
11896996 ATAGTCAAAT
11897006 AAAAATATATAA
1 AAAAATATATAA
*
11897018 AAAAATGT-TATA
1 AAAAATATATA-A
*
11897030 TAAAATCATATAA
1 AAAAAT-ATATAA
*
11897043 ACAAATATATAA
1 AAAAATATATAA
11897055 AAAAA
1 AAAAA
11897060 ACTAAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
11 2 0.06
12 23 0.70
13 6 0.18
14 2 0.06
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (12 bp):
AAAAATATATAA
Found at i:11901652 original size:17 final size:16
Alignment explanation
Indices: 11901621--11901655 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
11901611 ACTGGATTGA
*
11901621 TTTTAATTTAATTTAT
1 TTTTAATTAAATTTAT
11901637 TTTTATATTAAATTTAT
1 TTTTA-ATTAAATTTAT
11901654 TT
1 TT
11901656 GTTTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTAATTAAATTTAT
Found at i:11901655 original size:21 final size:21
Alignment explanation
Indices: 11901625--11901676 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
11901615 GATTGATTTT
11901625 AATTTAATTTATTTTTATATTA
1 AATTT-ATTTATTTTTATATTA
* * *
11901647 AATTTATTTGTTTTTTTATTG
1 AATTTATTTATTTTTATATTA
*
11901668 AATTGATTT
1 AATTTATTT
11901677 TATATATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (21 bp):
AATTTATTTATTTTTATATTA
Found at i:11922849 original size:47 final size:47
Alignment explanation
Indices: 11922740--11922850 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
11922730 CCGGGATAAG
* * *
11922740 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
11922787 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
11922834 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
11922851 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:11923611 original size:4 final size:4
Alignment explanation
Indices: 11923589--11923632 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
11923579 AAATCCTAAA
* * *
11923589 TTTC TTT- TTTT TTTA TTTC TTTC TTTC TTTC CTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
11923633 CACGTTTGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:11923706 original size:42 final size:43
Alignment explanation
Indices: 11923610--11923706 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 43
11923600 TTTATTTCTT
* * *
11923610 TCTTTCT-TTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
11923652 TCTTTCTA-TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
11923694 T-TTTCTATTCTTT
1 TCTTTCTATTCTTT
11923707 ACTTATTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
41 6 0.12
42 44 0.88
ACGTcount: A:0.07, C:0.27, G:0.07, T:0.59
Consensus pattern (43 bp):
TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
Found at i:11924571 original size:31 final size:30
Alignment explanation
Indices: 11924518--11924591 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 30
11924508 TTTGGACAGG
* *
11924518 ATTAAATCTTTTAATGTGTTTAGGAGGTTTA
1 ATTAAATATTTCAATGTGTTTAGG-GGTTTA
* * * *
11924549 ATTAAATGTTTCAATTTTTTTAGGGTTTTA
1 ATTAAATATTTCAATGTGTTTAGGGGTTTA
11924579 A-TAAATATTTCAA
1 ATTAAATATTTCAA
11924592 AAATCCTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 11 0.30
30 6 0.16
31 20 0.54
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTAAATATTTCAATGTGTTTAGGGGTTTA
Found at i:11925008 original size:31 final size:29
Alignment explanation
Indices: 11924969--11925029 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 29
11924959 AACTTTTCCC
*
11924969 ATTTTCTCAAATGGGTACCTGAACTCTTTT
1 ATTTTCTCAAATAGGTACCTGAACT-TTTT
*
11924999 ATTTATCTCAAATAGGTAGCTGAACTTTTT
1 ATTT-TCTCAAATAGGTACCTGAACTTTTT
11925029 A
1 A
11925030 ACTCCATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (29 bp):
ATTTTCTCAAATAGGTACCTGAACTTTTT
Found at i:11938770 original size:28 final size:27
Alignment explanation
Indices: 11938709--11938773 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
11938699 ATACCTATGT
* *
11938709 TATAATAATTAAAGTTAAAATATGTTA
1 TATAATAATTAAAGTAAAAATATATTA
*
11938736 TCTTAATAATT-AAGTAAATATATATATTA
1 T-ATAATAATTAAAGTAAA-A-ATATATTA
11938765 TATAATAAT
1 TATAATAAT
11938774 AGCTAGTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
27 7 0.23
28 16 0.52
29 8 0.26
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (27 bp):
TATAATAATTAAAGTAAAAATATATTA
Found at i:11940096 original size:46 final size:46
Alignment explanation
Indices: 11940031--11940300 Score: 337
Period size: 46 Copynumber: 5.9 Consensus size: 46
11940021 TTATCTTCGA
* * * *
11940031 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
* ** * *
11940077 CATGTTGCCATGGTATCTTTCGACCATGGTCTTTTTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
* * *
11940123 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
*
11940168 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGT
** * * * *
11940214 CACATTGCCATGGTATCTTTCAACTATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
*
11940260 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
11940301 CATTTCAGAA
Statistics
Matches: 198, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
45 47 0.24
46 147 0.74
47 4 0.02
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
Found at i:11940188 original size:91 final size:92
Alignment explanation
Indices: 11940031--11940302 Score: 366
Period size: 91 Copynumber: 3.0 Consensus size: 92
11940021 TTATCTTCGA
* * *
11940031 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
* * *
11940096 TCGACCATGGTCTTTTTCATTTCCCGT
66 TCAACCATGGTCTTATTCATTTCACGT
* * * *
11940123 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
* *
11940187 TCAACCATGGTCTTATTCTTTTCATGT
66 TCAACCATGGTCTTATTCATTTCACGT
** * * *
11940214 CACATTGCCATGGTATCTTTCAACTATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
**
11940279 TCAACCATGGTCTTACACATTTCA
66 TCAACCATGGTCTTATTCATTTCA
11940303 TTTCAGAAAG
Statistics
Matches: 155, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
91 79 0.51
92 76 0.49
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (92 bp):
CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATTCATTTCACGT
Found at i:11940263 original size:137 final size:137
Alignment explanation
Indices: 11940031--11940293 Score: 366
Period size: 137 Copynumber: 1.9 Consensus size: 137
11940021 TTATCTTCGA
* * **
11940031 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACATTGCCATGGTATCTT
* *** * *
11940096 TCGACCATGGTCTTTTTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGGTCTTACACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
11940161 TTCCCGT
131 TTCCCGT
* * *
11940168 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACATTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCACATTGCCATGGTATCT
* * *
11940232 TTCAACTATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
65 TTCAACCATGGTCTTACACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
11940294 CACATTTCAT
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
136 5 0.05
137 104 0.95
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (137 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACATTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
TTCCCGT
Found at i:11942302 original size:11 final size:11
Alignment explanation
Indices: 11942286--11942333 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
11942276 CTTTATATAC
11942286 TAATAAAATAA
1 TAATAAAATAA
*
11942297 TAATAAAATATCT
1 TAATAAAATA--A
* *
11942310 TATTAAAATAT
1 TAATAAAATAA
11942321 TAATAAAATAA
1 TAATAAAATAA
11942332 TA
1 TA
11942334 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:11943233 original size:18 final size:18
Alignment explanation
Indices: 11943210--11943251 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
11943200 ATTACAAAAA
*
11943210 AAAATTAAAAATATTTTT
1 AAAATTAAAAATATTTAT
11943228 AAAATTAAAAATATTTAT
1 AAAATTAAAAATATTTAT
11943246 AAAATT
1 AAAATT
11943252 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTAAAAATATTTAT
Found at i:11944588 original size:26 final size:27
Alignment explanation
Indices: 11944558--11944612 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
11944548 CATTATAAAG
*
11944558 ATGTAATTATA-ATGTATTAATAAAAC
1 ATGTAATTAAATATGTATTAATAAAAC
11944584 ATGTAATTAAATATGTATTAATAAAAC
1 ATGTAATTAAATATGTATTAATAAAAC
11944611 AT
1 AT
11944613 AAAATAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (27 bp):
ATGTAATTAAATATGTATTAATAAAAC
Found at i:11946185 original size:78 final size:78
Alignment explanation
Indices: 11946068--11946282 Score: 308
Period size: 78 Copynumber: 2.8 Consensus size: 78
11946058 TAATTGTAGT
* * * *
11946068 GAATTAGGATTACCTTTTCAAGTCAAATCCTACCCACCTTAAGTTATCATAAGGAATCATATATC
1 GAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAGGAATCATATATC
*
11946133 GTGT-AATCTAGC
66 ATGTAAATCTAGC
* *
11946145 GAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCATAATGAATCATATAT
1 GAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAGGAATCATATAT
* *
11946210 CATTTAAATGTAGC
65 CATGTAAATCTAGC
*
11946224 GAATCAGGATTACCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCAT-AGTGAATCA
1 GAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAG-GAATCA
11946283 GGAATAAATC
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
77 12 0.10
78 92 0.75
79 19 0.15
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (78 bp):
GAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAGGAATCATATATC
ATGTAAATCTAGC
Found at i:11946304 original size:39 final size:39
Alignment explanation
Indices: 11946247--11946381 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 39
11946237 CTTTTCAGGT
*
11946247 CAAATCCTATCCGCCTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCC-ACTTAAGTTACCATAGTGAATCAGGAA
* * *
11946287 TAAATCCTATTCACTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTAAGTTACCATAGTGAATCAGGAA
* * **
11946326 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCAC-TTAAGTTACCATAGTGAATCAGGAA
*
11946366 CGAATCCTATCCACTT
1 CAAATCCTATCCACTT
11946382 TGTATTCTCG
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 39 0.48
40 43 0.52
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (39 bp):
CAAATCCTATCCACTTAAGTTACCATAGTGAATCAGGAA
Found at i:11951298 original size:46 final size:46
Alignment explanation
Indices: 11951248--11951420 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
11951238 TGGTTGAGCA
*
11951248 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
11951294 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
11951341 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
11951387 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
11951421 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:11951404 original size:93 final size:93
Alignment explanation
Indices: 11951245--11951415 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
11951235 GGATGGTTGA
* *
11951245 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
11951310 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
11951338 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
11951403 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11951416 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11958428 original size:6 final size:6
Alignment explanation
Indices: 11958417--11958442 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11958407 GTGCCTGTCT
11958417 TGCACA TGCACA TGCACA TGCACA TG
1 TGCACA TGCACA TGCACA TGCACA TG
11958443 GTTAATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (6 bp):
TGCACA
Found at i:11959794 original size:21 final size:19
Alignment explanation
Indices: 11959765--11959804 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 19
11959755 CGGAAAATAA
11959765 TTTTTGAAAAATGATTTACT
1 TTTTTG-AAAATGATTTACT
11959785 TTTTTAGAAAATGATTTACT
1 TTTTT-GAAAATGATTTACT
11959805 GAAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (19 bp):
TTTTTGAAAATGATTTACT
Found at i:11964063 original size:31 final size:31
Alignment explanation
Indices: 11964005--11964073 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
11963995 ATTTAAATTA
*
11964005 AAAAAATATTAAAATTATAAATCAATAATAT
1 AAAAAATATTAAAATTATAAATAAATAATAT
* * * *
11964036 GAAAAATAATTAAAA-TATCATTAAATAATTT
1 AAAAAAT-ATTAAAATTATAAATAAATAATAT
11964067 AAAAAAT
1 AAAAAAT
11964074 TGAGACATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (31 bp):
AAAAAATATTAAAATTATAAATAAATAATAT
Found at i:11968174 original size:12 final size:12
Alignment explanation
Indices: 11968157--11968190 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11968147 CTAGACCAAC
11968157 AATAATTAAATA
1 AATAATTAAATA
*
11968169 AATAATTAAAAA
1 AATAATTAAATA
11968181 AAT-ATTAAAT
1 AATAATTAAAT
11968191 TGGTTGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAATTAAATA
Found at i:11970079 original size:21 final size:21
Alignment explanation
Indices: 11970055--11970101 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11970045 AAAAGAGAAT
* **
11970055 AGAATGAAAGAAAAGAGGGGG
1 AGAAAGAAAGAAAAGAAAGGG
11970076 AGAAAGAAAGAAAAGAAAGGG
1 AGAAAGAAAGAAAAGAAAGGG
11970097 AGAAA
1 AGAAA
11970102 AGGGAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (21 bp):
AGAAAGAAAGAAAAGAAAGGG
Found at i:11970515 original size:33 final size:35
Alignment explanation
Indices: 11970478--11970571 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
11970468 AACATTTGTT
11970478 AATATA-AAG-TGAATTGAAATATATTGAATTGAG
1 AATATATAAGATGAATTGAAATATATTGAATTGAG
** *
11970511 AATATATCTGATTAATTGAAATATATTGAATTGAG
1 AATATATAAGATGAATTGAAATATATTGAATTGAG
** * *
11970546 AATATATCTGATTAGTTGAAATATAT
1 AATATATAAGATGAATTGAAATATAT
11970572 ACTGATTGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 6 0.11
34 1 0.02
35 48 0.87
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.38
Consensus pattern (35 bp):
AATATATAAGATGAATTGAAATATATTGAATTGAG
Found at i:11970516 original size:16 final size:15
Alignment explanation
Indices: 11970487--11970571 Score: 80
Period size: 19 Copynumber: 5.0 Consensus size: 15
11970477 TAATATAAAG
11970487 TGAATTGAAATATAT
1 TGAATTGAAATATAT
11970502 TGAATTGAGAATATAT
1 TGAATTGA-AATATAT
11970518 CTGATTAATTGAAATATAT
1 -TG---AATTGAAATATAT
11970537 TGAATTGAGAATATAT
1 TGAATTGA-AATATAT
11970553 CTGATTAGTTGAAATATAT
1 -TGA--A-TTGAAATATAT
11970572 ACTGATTGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
15 14 0.23
16 14 0.23
17 5 0.08
18 2 0.03
19 15 0.25
20 10 0.17
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.40
Consensus pattern (15 bp):
TGAATTGAAATATAT
Found at i:11970529 original size:20 final size:19
Alignment explanation
Indices: 11970489--11970578 Score: 88
Period size: 20 Copynumber: 5.0 Consensus size: 19
11970479 ATATAAAGTG
11970489 AATTGAAATATAT-TG---
1 AATTGAAATATATCTGATT
11970504 AATTGAGAATATATCTGATT
1 AATTGA-AATATATCTGATT
11970524 AATTGAAATATAT-TG---
1 AATTGAAATATATCTGATT
11970539 AATTGAGAATATATCTGATT
1 AATTGA-AATATATCTGATT
*
11970559 AGTTGAAATATATACTGATT
1 AATTGAAATATAT-CTGATT
11970579 GAAAACTAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 17
0.78 0.01 0.21
Matches are distributed among these distances:
15 12 0.19
16 14 0.22
17 4 0.06
18 2 0.03
19 14 0.22
20 17 0.27
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.40
Consensus pattern (19 bp):
AATTGAAATATATCTGATT
Found at i:11970530 original size:35 final size:35
Alignment explanation
Indices: 11970489--11970571 Score: 157
Period size: 35 Copynumber: 2.4 Consensus size: 35
11970479 ATATAAAGTG
11970489 AATTGAAATATATTGAATTGAGAATATATCTGATT
1 AATTGAAATATATTGAATTGAGAATATATCTGATT
11970524 AATTGAAATATATTGAATTGAGAATATATCTGATT
1 AATTGAAATATATTGAATTGAGAATATATCTGATT
*
11970559 AGTTGAAATATAT
1 AATTGAAATATAT
11970572 ACTGATTGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.40
Consensus pattern (35 bp):
AATTGAAATATATTGAATTGAGAATATATCTGATT
Found at i:11970954 original size:18 final size:18
Alignment explanation
Indices: 11970914--11970977 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
11970904 TAAATAAAGG
** *
11970914 TACTGAATAATTGACTAC
1 TACTGAATAAACGACTAT
* *
11970932 CACTGAATAAACGACTGT
1 TACTGAATAAACGACTAT
* *
11970950 TACTGAATAAATGATTAT
1 TACTGAATAAACGACTAT
11970968 TACTGAATAA
1 TACTGAATAA
11970978 CTGATTAATA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (18 bp):
TACTGAATAAACGACTAT
Found at i:11970982 original size:18 final size:18
Alignment explanation
Indices: 11970950--11971009 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
11970940 AAACGACTGT
* *
11970950 TACTGAATAAATGATTAT
1 TACTGAATAACTGATTAA
11970968 TACTGAATAACTGATTAA
1 TACTGAATAACTGATTAA
* *
11970986 TACTG-ATGACTGACTAA
1 TACTGAATAACTGATTAA
11971003 TACTGAA
1 TACTGAA
11971010 CAATAAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.41
18 22 0.59
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (18 bp):
TACTGAATAACTGATTAA
Found at i:11974897 original size:2 final size:2
Alignment explanation
Indices: 11974890--11974933 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
11974880 TCATCACTGA
*
11974890 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11974932 CT
1 CT
11974934 TTATTTGTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:11980889 original size:15 final size:15
Alignment explanation
Indices: 11980869--11980976 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
11980859 TTTATTGAAA
11980869 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
11980884 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
11980898 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
11980914 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
11980928 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
11980944 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
11980958 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
11980974 ATC
1 ATC
11980977 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:11980906 original size:30 final size:30
Alignment explanation
Indices: 11980861--11980986 Score: 200
Period size: 30 Copynumber: 4.2 Consensus size: 30
11980851 TATCTATATT
*
11980861 TATT-GAAAATCAAAGATATGGGTATCAAA
1 TATTGGAAAGTCAAAGATATGGGTATCAAA
* *
11980890 TAATAGAAAGTCAAAGATATGGGTATCAAA
1 TATTGGAAAGTCAAAGATATGGGTATCAAA
11980920 TATTGGAAAGTCAAAGATATGGGTATCAAA
1 TATTGGAAAGTCAAAGATATGGGTATCAAA
*
11980950 TATTGGAAAGTCAAAGATATGGGTATCGAGA
1 TATTGGAAAGTCAAAGATATGGGTATC-AAA
11980981 TATTGG
1 TATTGG
11980987 CATAATAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 3 0.03
30 79 0.88
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (30 bp):
TATTGGAAAGTCAAAGATATGGGTATCAAA
Found at i:11981680 original size:22 final size:22
Alignment explanation
Indices: 11981633--11981683 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
11981623 TATTTAACGC
* *
11981633 ATTATATCTTGTCATATATCTTT
1 ATTAT-TCTTGTCATATATATAT
11981656 ATTATTCTT-TCATATTATATAT
1 ATTATTCTTGTCATA-TATATAT
11981678 ATTATT
1 ATTATT
11981684 TAAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 15 0.60
23 5 0.20
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTATTCTTGTCATATATATAT
Found at i:11982495 original size:131 final size:132
Alignment explanation
Indices: 11982245--11982492 Score: 385
Period size: 131 Copynumber: 1.9 Consensus size: 132
11982235 TCATTCATTC
** *
11982245 AAAAGTTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAGTTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
*
11982310 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCGAAATTTCACTCGCGTCTT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAACATCACTTCGAAATTTCACTCGCGTCTT
11982375 TT
131 TT
*
11982377 AAAA-TTCTTCAAAACGAATACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAGTTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
* * * *
11982441 TTGGGTTGCAATTTTGCGTTTG-TCCAAAGTAATCGAGCATCCCTTC-AAATTT
66 TTGGGTTGCAATTTCGCGTTTGCT-CAAAATAATCGAACATCACTTCGAAATTT
11982493 TCATTCATAT
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
130 7 0.07
131 95 0.90
132 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (132 bp):
AAAAGTTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAACATCACTTCGAAATTTCACTCGCGTCTT
TT
Found at i:11982511 original size:131 final size:132
Alignment explanation
Indices: 11982245--11982526 Score: 372
Period size: 131 Copynumber: 2.1 Consensus size: 132
11982235 TCATTCATTC
* ** *
11982245 AAAAGTTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
* * *
11982310 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCGAAATTTCACTCGCGTCTT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAACATCACTTCGAAATTTCACTCACATCTT
11982375 -T
131 CT
* *
11982376 TAAAATTCTTCAAAACGAATACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
* * * * * *
11982441 TTGGGTTGCAATTTTGCGTTTG-TCCAAAGTAATCGAGCATCCCTTC-AAATTTTCATTCATATC
66 TTGGGTTGCAATTTCGCGTTTGCT-CAAAATAATCGAACATCACTTCGAAA-TTTCACTCACATC
11982504 TTCT
129 TTCT
* *
11982508 AAAAATTATTTAAAACGAA
1 AAAAATTCTTCAAAACGAA
11982527 AGCTATATTC
Statistics
Matches: 130, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
130 4 0.03
131 109 0.84
132 17 0.13
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (132 bp):
AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAACATCACTTCGAAATTTCACTCACATCTT
CT
Found at i:11984813 original size:10 final size:10
Alignment explanation
Indices: 11984785--11984851 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
11984775 CATCAATGTA
11984785 TAATAAAT-T
1 TAATAAATAT
11984794 TAATTAAAATAT
1 TAA-T-AAATAT
11984806 TAATAAATAT
1 TAATAAATAT
* *
11984816 TTATATATAT
1 TAATAAATAT
11984826 ATAATAAA-AT
1 -TAATAAATAT
*
11984836 TAATTAATAT
1 TAATAAATAT
11984846 ATAATA
1 -TAATA
11984852 TATGAGTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
9 9 0.20
10 19 0.41
11 14 0.30
12 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TAATAAATAT
Found at i:11984847 original size:20 final size:20
Alignment explanation
Indices: 11984783--11984851 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
11984773 TGCATCAATG
* *
11984783 TATAATAAATTTAATTAAAA
1 TATAATAAAATTAATTAATA
*
11984803 TATTAATAAATATTTA-TATATA
1 TA-TAATAAA-ATTAATTA-ATA
11984825 TATAATAAAATTAATTAATA
1 TATAATAAAATTAATTAATA
11984845 TATAATA
1 TATAATA
11984852 TATGAGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 16 0.39
21 18 0.44
22 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAATAAAATTAATTAATA
Found at i:11985272 original size:18 final size:17
Alignment explanation
Indices: 11985249--11985282 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11985239 TCTTAAAAAT
*
11985249 TATAAAGATATAAATTAA
1 TATAAAAATA-AAATTAA
11985267 TATAAAAATAAAATTA
1 TATAAAAATAAAATTA
11985283 CATTGTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TATAAAAATAAAATTAA
Found at i:11992862 original size:17 final size:17
Alignment explanation
Indices: 11992831--11992864 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11992821 AAAATTTCAA
*
11992831 CTTTTAAACCCTAAATC
1 CTTTTAAACCATAAATC
*
11992848 CTTTTAAATCATAAATC
1 CTTTTAAACCATAAATC
11992865 TTAATCTAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (17 bp):
CTTTTAAACCATAAATC
Found at i:11994501 original size:8 final size:8
Alignment explanation
Indices: 11994488--11994547 Score: 57
Period size: 8 Copynumber: 7.1 Consensus size: 8
11994478 ATTAATTATT
11994488 TTTTAAAA
1 TTTTAAAA
11994496 TTTTAAAA
1 TTTTAAAA
11994504 TTTTAAAA
1 TTTTAAAA
* *
11994512 ATTAAAAA
1 TTTTAAAA
11994520 TTATTTAAAA
1 -T-TTTAAAA
*
11994530 TATTAAAAA
1 T-TTTAAAA
*
11994539 TTATAAAA
1 TTTTAAAA
11994547 T
1 T
11994548 ATATTTTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 28 0.65
9 9 0.21
10 6 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TTTTAAAA
Found at i:11994512 original size:9 final size:9
Alignment explanation
Indices: 11994487--11994546 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
11994477 CATTAATTAT
*
11994487 TTTTTAAAA
1 TTTTAAAAA
11994496 TTTT-AAAA
1 TTTTAAAAA
11994504 TTTTAAAAA
1 TTTTAAAAA
11994513 --TTAAAAA
1 TTTTAAAAA
*
11994520 TTATTTAAAA
1 TT-TTAAAAA
*
11994530 TATTAAAAA
1 TTTTAAAAA
*
11994539 TTATAAAA
1 TTTTAAAA
11994547 TATATTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 7 0.17
8 8 0.19
9 20 0.48
10 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:11994530 original size:26 final size:28
Alignment explanation
Indices: 11994497--11994553 Score: 91
Period size: 26 Copynumber: 2.1 Consensus size: 28
11994487 TTTTTAAAAT
*
11994497 TTTAAAATTTTAAAAATTA-AAAAT-TA
1 TTTAAAATATTAAAAATTATAAAATATA
11994523 TTTAAAATATTAAAAATTATAAAATATA
1 TTTAAAATATTAAAAATTATAAAATATA
11994551 TTT
1 TTT
11994554 TTATACTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 18 0.64
27 5 0.18
28 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TTTAAAATATTAAAAATTATAAAATATA
Found at i:11994551 original size:19 final size:19
Alignment explanation
Indices: 11994500--11994552 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
11994490 TTAAAATTTT
11994500 AAAATT-TT-AAAA-ATTA
1 AAAATTATTAAAAATATTA
*
11994516 AAAATTATTTAAAATATTA
1 AAAATTATTAAAAATATTA
11994535 AAAATTA-TAAAATATATT
1 AAAATTATTAAAA-ATATT
11994553 TTTATACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 8 0.25
19 16 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTATTAAAAATATTA
Found at i:11995403 original size:13 final size:13
Alignment explanation
Indices: 11995385--11995411 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11995375 AAGAATGGAG
11995385 TGGTAGCACCAAC
1 TGGTAGCACCAAC
11995398 TGGTAGCACCAAC
1 TGGTAGCACCAAC
11995411 T
1 T
11995412 AGTGCTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (13 bp):
TGGTAGCACCAAC
Found at i:11995815 original size:12 final size:12
Alignment explanation
Indices: 11995798--11995822 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11995788 TAAGCTCTCT
11995798 AAATTTTATTAA
1 AAATTTTATTAA
11995810 AAATTTTATTAA
1 AAATTTTATTAA
11995822 A
1 A
11995823 CAACTTCAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTTATTAA
Found at i:12000987 original size:5 final size:5
Alignment explanation
Indices: 12000977--12001002 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12000967 AACAAGACTT
12000977 TCTAA TCTAA TCTAA TCTAA TCTAA T
1 TCTAA TCTAA TCTAA TCTAA TCTAA T
12001003 TCCATTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
TCTAA
Found at i:12004453 original size:33 final size:30
Alignment explanation
Indices: 12004377--12004457 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 30
12004367 ATTTTTAAGC
12004377 AATA-AATATT-AATTATTTATAAAATTTA
1 AATATAATATTAAATTATTTATAAAATTTA
* * *
12004405 ATTAGAATATATAAATTATATTTTAAATATTTA
1 AATATAATAT-TAAATTAT-TTATAAA-ATTTA
12004438 AATATAACTATTAAA-TATTT
1 AATATAA-TATTAAATTATTT
12004458 GTAATTAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 3 0.07
29 5 0.12
30 1 0.02
31 8 0.19
32 9 0.21
33 14 0.33
34 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AATATAATATTAAATTATTTATAAAATTTA
Found at i:12006523 original size:28 final size:28
Alignment explanation
Indices: 12006491--12006551 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
12006481 TCGTTGATAT
*
12006491 TATATT-TTTTTAGAA-ATTTAAACTAATA
1 TATATTCTTTTT-GAAGATTTAAA-AAATA
*
12006519 TATATTCTTTTTGAAGTTTTAAAAAATA
1 TATATTCTTTTTGAAGATTTAAAAAATA
12006547 TATAT
1 TATAT
12006552 AGATAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 18 0.62
29 11 0.38
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (28 bp):
TATATTCTTTTTGAAGATTTAAAAAATA
Found at i:12024529 original size:5 final size:6
Alignment explanation
Indices: 12024503--12024533 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
12024493 TATAAGATTA
12024503 TTTATT ATTTATT TTTATT TTTATT TTTATT
1 TTTATT -TTTATT TTTATT TTTATT TTTATT
12024534 AATATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:12024643 original size:27 final size:27
Alignment explanation
Indices: 12024586--12024643 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
12024576 TAATTTGAAT
**
12024586 ATTTTATTTTTTATAAAAAGATAATTT
1 ATTTTATTTTTTATAAAAAGATAATAA
12024613 ATTTTATTTTTTAATAAAATA-A-AATAA
1 ATTTTATTTTTT-ATAAAA-AGATAATAA
12024640 ATTT
1 ATTT
12024644 AATATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 19 0.70
28 7 0.26
29 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTTATTTTTTATAAAAAGATAATAA
Done.