Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 322 of 373
Found at i:108201610 original size:19 final size:20
Alignment explanation
Indices: 108201588--108201628 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
108201578 TATTTATACA
*
108201588 AAATGTAATA-ATTAAGAAT
1 AAATGTAATATATTAAAAAT
*
108201607 AAATTTAATATATTAAAAAT
1 AAATGTAATATATTAAAAAT
108201627 AA
1 AA
108201629 TAGTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATGTAATATATTAAAAAT
Found at i:108202013 original size:29 final size:25
Alignment explanation
Indices: 108201952--108202013 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 25
108201942 ACTCTCTTTA
108201952 TTTTATTTTAATTTATAATTTAATC
1 TTTTATTTTAATTTATAATTTAATC
* *
108201977 TCTATATTTTTATTTATACAAATTTAATTC
1 T-TTTATTTTAATTTAT---AATTTAA-TC
108202007 TTTTATT
1 TTTTATT
108202014 ATTTTTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 1 0.03
26 13 0.45
29 12 0.41
30 3 0.10
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTATTTTAATTTATAATTTAATC
Found at i:108202834 original size:21 final size:21
Alignment explanation
Indices: 108202810--108202850 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108202800 TAAGAAATAC
*
108202810 CATAAAATTCTTAAAATTTTT
1 CATAAAATTCTAAAAATTTTT
*
108202831 CATAATATTCTAAAAATTTT
1 CATAAAATTCTAAAAATTTT
108202851 CTAAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (21 bp):
CATAAAATTCTAAAAATTTTT
Found at i:108209803 original size:35 final size:35
Alignment explanation
Indices: 108209757--108209917 Score: 180
Period size: 35 Copynumber: 4.5 Consensus size: 35
108209747 TTGAAGTACT
** * *
108209757 ATACCTACATTTTTCAACTCGGTATGGGA-AATGCC
1 ATACCTACATTTCACAACTCAGTAT-GGATAATACC
**
108209792 ATACCTACATTTCTTAACTCAGTATGGATTTGATAATACC
1 ATACCTACATTTCACAACTCAGTAT-G----GATAATACC
*
108209832 ATACCTACATTTCACAGCTCAGTATGGATAATACC
1 ATACCTACATTTCACAACTCAGTATGGATAATACC
* *
108209867 ATACCTACATTTCACAACTTAGTATGGATGATACC
1 ATACCTACATTTCACAACTCAGTATGGATAATACC
108209902 ATACCTACATTTCACA
1 ATACCTACATTTCACA
108209918 CTTTGCCATG
Statistics
Matches: 111, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
35 81 0.73
39 3 0.03
40 27 0.24
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
ATACCTACATTTCACAACTCAGTATGGATAATACC
Found at i:108209838 original size:75 final size:70
Alignment explanation
Indices: 108209757--108209917 Score: 189
Period size: 75 Copynumber: 2.2 Consensus size: 70
108209747 TTGAAGTACT
** * * **
108209757 ATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACTCAGTATGGAT
1 ATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACTCAGTATGGA-
108209821 TTGATAATACC
64 -TG---ATACC
* *
108209832 ATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACTTAGTATGGATG
1 ATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTCAGTATGGATG
108209897 ATACC
66 ATACC
108209902 ATACCTACATTTCACA
1 ATACCTACATTTCACA
108209918 CTTTGCCATG
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
70 21 0.27
73 2 0.03
74 3 0.04
75 51 0.66
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (70 bp):
ATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTCAGTATGGATG
ATACC
Found at i:108215053 original size:42 final size:42
Alignment explanation
Indices: 108215004--108215131 Score: 163
Period size: 42 Copynumber: 3.1 Consensus size: 42
108214994 CTTCGTTTTC
** * * *
108215004 TCGATGCCATAGTTCAACTATGGTTTTACACATTTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
108215047 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
108215088 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
108215129 TCG
1 TCG
108215132 CACTGATGCC
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 11 0.14
42 63 0.83
43 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:108215192 original size:47 final size:46
Alignment explanation
Indices: 108215090--108215210 Score: 161
Period size: 47 Copynumber: 2.6 Consensus size: 46
108215080 TTCATATATC
* * * * *
108215090 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCGCACT
1 GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACT
* *
108215136 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACT
1 GATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACACT
*
108215183 GATGACATATCCCAGATATGGTCTTATA
1 GATGCCATATCCCAGATATGGTCTTATA
108215211 TGGAAATCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 26 0.39
47 40 0.61
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACT
Found at i:108215272 original size:31 final size:31
Alignment explanation
Indices: 108215237--108215416 Score: 245
Period size: 31 Copynumber: 5.8 Consensus size: 31
108215227 CTTGTCACTT
*
108215237 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
108215268 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
108215299 GTAGCCGGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
108215330 GTAGCCGGAA-CTGCCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
* *
108215361 GTAGCAGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
***
108215392 GTAGCTTCAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
108215417 TGTCATTTGT
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 3 0.02
31 127 0.96
32 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:108215396 original size:93 final size:93
Alignment explanation
Indices: 108215237--108215416 Score: 281
Period size: 93 Copynumber: 1.9 Consensus size: 93
108215227 CTTGTCACTT
* *
108215237 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAGGTA
1 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGATCAGGTA
*
108215302 GCCGGAGCTACCACTTTTCACTGATCAA
66 GCCGCAGCTACCACTTTTCACTGATCAA
* *
108215330 GTAGCCGGAA-CTGCCACTTTTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGATCAGGT
1 GTAGCC-GAAGCTACCACTATTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGATCAGGT
**
108215394 AGCTTCAGCTACCACTTTTCACT
65 AGCCGCAGCTACCACTTTTCACT
108215417 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
93 76 0.96
94 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (93 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGATCAGGTA
GCCGCAGCTACCACTTTTCACTGATCAA
Found at i:108215494 original size:50 final size:51
Alignment explanation
Indices: 108215400--108215520 Score: 181
Period size: 50 Copynumber: 2.4 Consensus size: 51
108215390 AGGTAGCTTC
* *
108215400 AGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGA
1 AGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGA
* * *
108215451 AGCTATCACTTATCACTT-TCATTTTTCCTTGATCGGATAAGTGTAGCCGA
1 AGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGA
*
108215501 AGTTATCACTTATCACTTGT
1 AGCTATCACTTATCACTTGT
108215521 TGCCATGGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 46 0.73
51 17 0.27
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (51 bp):
AGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGA
Found at i:108216257 original size:42 final size:42
Alignment explanation
Indices: 108216198--108216281 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
108216188 GATTCGAATG
108216198 ATGTCTTAATTTGTTTCTATTGAAAATAAACTCATTCAGGAT
1 ATGTCTTAATTTGTTTCTATTGAAAATAAACTCATTCAGGAT
108216240 ATGTCTTAATTTGTTTCTATTGAAAATAAACTCATTCAGGAT
1 ATGTCTTAATTTGTTTCTATTGAAAATAAACTCATTCAGGAT
108216282 TCTAAACATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (42 bp):
ATGTCTTAATTTGTTTCTATTGAAAATAAACTCATTCAGGAT
Found at i:108221844 original size:45 final size:46
Alignment explanation
Indices: 108221790--108221890 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 46
108221780 TATTTCTAAT
108221790 AATTATTTGAAATATT-TCACATATAAA-AATAATAATATTTGAAAC
1 AATTATTTGAAATATTAT-ACATATAAATAATAATAATATTTGAAAC
* * * * *
108221835 AATTTTTTGAAATATTATATATATAAATAATAGTGATATTTGAAAT
1 AATTATTTGAAATATTATACATATAAATAATAATAATATTTGAAAC
108221881 AATTATTTGA
1 AATTATTTGA
108221891 TTTTATAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 23 0.48
46 25 0.52
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (46 bp):
AATTATTTGAAATATTATACATATAAATAATAATAATATTTGAAAC
Found at i:108232971 original size:21 final size:22
Alignment explanation
Indices: 108232942--108232988 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
108232932 CAGAAGGAGT
*
108232942 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
108232964 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
108232985 GAGT
1 GAGT
108232989 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:108235378 original size:20 final size:21
Alignment explanation
Indices: 108235355--108235399 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
108235345 TTATTTTGTG
108235355 TAAAAAAAATTTT-ATCAATA
1 TAAAAAAAATTTTAATCAATA
* *
108235375 TAAATAATATTTTAAATCAATA
1 TAAAAAAAATTTT-AATCAATA
108235397 TAA
1 TAA
108235400 TATAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAAAATTTTAATCAATA
Found at i:108239428 original size:11 final size:11
Alignment explanation
Indices: 108239414--108239477 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
108239404 TATTTTTTAT
108239414 TTAAAAATAAA
1 TTAAAAATAAA
108239425 TTAAAAATAAA
1 TTAAAAATAAA
* *
108239436 ATACATCAAATAGA
1 TTA-A--AAATAAA
*
108239450 CTAAAAAT--A
1 TTAAAAATAAA
108239459 TT-AAAATAAA
1 TTAAAAATAAA
108239469 TTAAAAATA
1 TTAAAAATA
108239478 TGTTTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 3 0.07
11 23 0.53
12 1 0.02
13 1 0.02
14 8 0.19
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (11 bp):
TTAAAAATAAA
Found at i:108240497 original size:15 final size:15
Alignment explanation
Indices: 108240479--108240508 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108240469 TTTTGATGTC
*
108240479 TTAAATTTTTTTTAT
1 TTAAATTATTTTTAT
108240494 TTAAATTATTTTTAT
1 TTAAATTATTTTTAT
108240509 ACATTTTATA
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTAAATTATTTTTAT
Found at i:108241579 original size:12 final size:12
Alignment explanation
Indices: 108241557--108241587 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
108241547 TAGGGTAGGA
108241557 AAAAGAAGAAAAT
1 AAAA-AAGAAAAT
108241570 AAAAAAGAAAAT
1 AAAAAAGAAAAT
108241582 AAAAAA
1 AAAAAA
108241588 AAGGAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (12 bp):
AAAAAAGAAAAT
Found at i:108245237 original size:16 final size:17
Alignment explanation
Indices: 108245212--108245243 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
108245202 ATTTTTTAAA
108245212 AAAAATTATAATTTTTT
1 AAAAATTATAATTTTTT
108245229 AAAAA-TATAATTTTT
1 AAAAATTATAATTTTT
108245244 ATAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAAATTATAATTTTTT
Found at i:108245270 original size:19 final size:21
Alignment explanation
Indices: 108245224--108245291 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 21
108245214 AAATTATAAT
*
108245224 TTTTTAAAAATATAATTTTTATAA
1 TTTTTAAAAAT-T-ATTTTGA-AA
*
108245248 TTTTTATAAA-TATTTTG-AA
1 TTTTTAAAAATTATTTTGAAA
108245267 -TTTTAAAAATTATTTTGAAA
1 TTTTTAAAAATTATTTTGAAA
108245287 TTTTT
1 TTTTT
108245292 GTTGAGAGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 8 0.21
19 9 0.24
20 2 0.05
21 9 0.24
22 1 0.03
24 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTTAAAAATTATTTTGAAA
Found at i:108248026 original size:17 final size:17
Alignment explanation
Indices: 108248004--108248036 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
108247994 TGATTACCTC
*
108248004 CTTTTTTTTTTCTTTTT
1 CTTTTTTTTATCTTTTT
108248021 CTTTTTTTTATCTTTT
1 CTTTTTTTTATCTTTT
108248037 GGGTATGTGA
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:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (17 bp):
CTTTTTTTTATCTTTTT
Found at i:108249554 original size:15 final size:15
Alignment explanation
Indices: 108249534--108249564 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
108249524 TATAATTTTA
108249534 TTATTTTAATAATTT
1 TTATTTTAATAATTT
*
108249549 TTATTTTTATAATTT
1 TTATTTTAATAATTT
108249564 T
1 T
108249565 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTTAATAATTT
Found at i:108249600 original size:30 final size:32
Alignment explanation
Indices: 108249550--108249623 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 32
108249540 TAATAATTTT
* *
108249550 TATTTTTATAATTTTAAAAAAATTAAAT-TAA
1 TATTATTATTATTTTAAAAAAATTAAATATAA
* *
108249581 -ATTATTATTATTTTTAAAAATTTAAATATAA
1 TATTATTATTATTTTAAAAAAATTAAATATAA
*
108249612 TTTTATTATTAT
1 TATTATTATTAT
108249624 CAATTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 23 0.64
31 3 0.08
32 10 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
TATTATTATTATTTTAAAAAAATTAAATATAA
Found at i:108257020 original size:97 final size:98
Alignment explanation
Indices: 108256835--108257032 Score: 240
Period size: 97 Copynumber: 2.0 Consensus size: 98
108256825 TTTTTCTCTA
* * * *
108256835 CCAACATTGCTATCTCTAATTTTTCTATTCTGAGTATAGTGCTAATTTTTCCATTGCTTAGTATT
1 CCAACATTGCTATCTCTAATTTTTCTATTCAGAGTACAATACTAATTTTTCCATTGCTTAGTATT
**
108256900 CTACTGTCCTGAACTCCCTTTGTGTCATTA-TG
66 CTACTGTCAAGAACTCCCTTTGTGTCATTATTG
** * *
108256932 CCAACATTTTTATCTCTGATTTTTCTATTCAGAGTACAATACTGATTTTTCCATTGCTTA-TATT
1 CCAACATTGCTATCTCTAATTTTTCTATTCAGAGTACAATACTAATTTTTCCATTGCTTAGTATT
* * *
108256996 CTATTAG-CAAGAACTCCTTGTTGTGTCTTTATTG
66 CTACT-GTCAAGAACTCCCT-TTGTGTCATTATTG
108257030 CCA
1 CCA
108257033 TATATACTAT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
96 17 0.20
97 63 0.74
98 5 0.06
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (98 bp):
CCAACATTGCTATCTCTAATTTTTCTATTCAGAGTACAATACTAATTTTTCCATTGCTTAGTATT
CTACTGTCAAGAACTCCCTTTGTGTCATTATTG
Found at i:108262388 original size:18 final size:17
Alignment explanation
Indices: 108262348--108262391 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
108262338 AACCATTAAT
108262348 ATTT-TAAAAAAATAAA
1 ATTTATAAAAAAATAAA
108262364 A-TTATAAAAATAATAAA
1 ATTTATAAAAA-AATAAA
108262381 ATTTATAAAAA
1 ATTTATAAAAA
108262392 GAGATAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.08
16 7 0.28
17 7 0.28
18 9 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTTATAAAAAAATAAA
Found at i:108262610 original size:14 final size:14
Alignment explanation
Indices: 108262591--108262620 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
108262581 AAATTGTTTC
108262591 TTTCTCGTAATAGA
1 TTTCTCGTAATAGA
108262605 TTTCTCGTAATAGA
1 TTTCTCGTAATAGA
108262619 TT
1 TT
108262621 GGTGGACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (14 bp):
TTTCTCGTAATAGA
Found at i:108263913 original size:9 final size:9
Alignment explanation
Indices: 108263901--108263940 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
108263891 ATTTTCCTTT
108263901 TTTTTATAA
1 TTTTTATAA
*
108263910 TTTTTCTAA
1 TTTTTATAA
* *
108263919 ATTTTATTA
1 TTTTTATAA
108263928 TTTTTATAA
1 TTTTTATAA
108263937 TTTT
1 TTTT
108263941 AGAATGAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:108267339 original size:51 final size:51
Alignment explanation
Indices: 108267257--108267376 Score: 197
Period size: 51 Copynumber: 2.4 Consensus size: 51
108267247 ACTTTTGATC
*
108267257 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
108267308 AGTGATAAGTGATAAGTGGTAGCTTCT-GCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTT-TAGCTACACTTATCTGATCAGTGACA
*
108267359 AGTGACAAGTGACAAGTG
1 AGTGACAAGTGATAAGTG
108267377 ATAAATGTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:108267364 original size:7 final size:7
Alignment explanation
Indices: 108267352--108267377 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
108267342 TTATCTGATC
108267352 AGTGACA
1 AGTGACA
108267359 AGTGACA
1 AGTGACA
108267366 AGTGACA
1 AGTGACA
108267373 AGTGA
1 AGTGA
108267378 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:108273608 original size:37 final size:35
Alignment explanation
Indices: 108273567--108273651 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 35
108273557 AATGAGTAAA
* *
108273567 TTTTAAATTTTTATTATAATTTTAT-TAATTTTTCTAT
1 TTTTAAATTTTTAATA-AATTTTGTAT-ATTTTTC-AT
*
108273604 TTTTAATATTTGTAATAAATTTTGTATATTTTTCAT
1 TTTTAA-ATTTTTAATAAATTTTGTATATTTTTCAT
108273640 TTTTAAATTTTT
1 TTTTAAATTTTT
108273652 TTTTAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
35 5 0.12
36 8 0.19
37 20 0.48
38 9 0.21
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (35 bp):
TTTTAAATTTTTAATAAATTTTGTATATTTTTCAT
Found at i:108274182 original size:23 final size:22
Alignment explanation
Indices: 108274166--108274212 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
108274156 ATTTTTCAAT
108274166 AAAAATACATAAAATTTTATAA
1 AAAAATACATAAAATTTTATAA
* *
108274188 ATAAATACATACAATTTTATAA
1 AAAAATACATAAAATTTTATAA
108274210 AAA
1 AAA
108274213 TATTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAATACATAAAATTTTATAA
Found at i:108283907 original size:39 final size:39
Alignment explanation
Indices: 108283863--108283949 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
108283853 ATGCAAAATG
*
108283863 CATCAAATAAGTTTGGATAATAGCCTAAACACCCAACTT
1 CATCAAACAAGTTTGGATAATAGCCTAAACACCCAACTT
*
108283902 CATCAAACAAGTTTGGCTAATAGCCTAAACACCCAACTT
1 CATCAAACAAGTTTGGATAATAGCCTAAACACCCAACTT
108283941 CATCAAACA
1 CATCAAACA
108283950 TGTTAGTCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.23
Consensus pattern (39 bp):
CATCAAACAAGTTTGGATAATAGCCTAAACACCCAACTT
Found at i:108285954 original size:30 final size:28
Alignment explanation
Indices: 108285912--108285993 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 28
108285902 TATTTTCTAT
*
108285912 TTTTATTTTAAAAAGTTTATTTTTTATAA
1 TTTTATTTTAAAAACTTTATTTTTTA-AA
*
108285941 TTTTATTTCTAAAAACTTGTTTTTTTTAAA
1 TTTTATTT-TAAAAACTT-TATTTTTTAAA
* * *
108285971 TGTTATTTTTAAAATTTTATTTT
1 TTTTATTTTAAAAACTTTATTTT
108285994 ATTTTTACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 5 0.11
29 15 0.33
30 17 0.38
31 8 0.18
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTTATTTTAAAAACTTTATTTTTTAAA
Found at i:108286881 original size:16 final size:19
Alignment explanation
Indices: 108286850--108286889 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
108286840 CTAAAATTTT
108286850 AAAAATTATATATTTAA-A
1 AAAAATTATATATTTAATA
108286868 AAAAATTAT-T-TTTAATA
1 AAAAATTATATATTTAATA
108286885 AAAAA
1 AAAAA
108286890 GTTGGTCTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 7 0.33
18 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTATATATTTAATA
Found at i:108287236 original size:22 final size:22
Alignment explanation
Indices: 108287208--108287252 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
108287198 AAAAGTACTA
*
108287208 TGGCAAATTTATGGCATTCGGT
1 TGGCAAATTTATGGCATCCGGT
108287230 TGGCAAATTTATGGCATCCGGT
1 TGGCAAATTTATGGCATCCGGT
108287252 T
1 T
108287253 CAGGTTGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (22 bp):
TGGCAAATTTATGGCATCCGGT
Found at i:108292309 original size:16 final size:15
Alignment explanation
Indices: 108292259--108292309 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
108292249 TTATATTTTC
108292259 AAAAAA-AAATTATTTT
1 AAAAAATAAA-TA-TTT
*
108292275 AAAAAATAAAAATTAT
1 AAAAAATAAATATT-T
108292291 AAAAAATAAACTATTT
1 AAAAAATAAA-TATTT
108292307 AAA
1 AAA
108292310 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 2 0.07
16 22 0.73
17 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAAATAAATATTT
Found at i:108292342 original size:24 final size:26
Alignment explanation
Indices: 108292281--108292344 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 26
108292271 TTTTAAAAAA
108292281 TAAAAATTATAAAA-AATAAACTATT
1 TAAAAATTATAAAATAATAAACTATT
** *
108292306 TAAATTTTTTAAAATAA-AAA-TATT
1 TAAAAATTATAAAATAATAAACTATT
*
108292330 TAAAAATTCTAAAAT
1 TAAAAATTATAAAAT
108292345 TTCGACATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 16 0.50
25 14 0.44
26 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAAAATTATAAAATAATAAACTATT
Found at i:108295919 original size:17 final size:17
Alignment explanation
Indices: 108295893--108295927 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
108295883 AATTTGAAAG
*
108295893 AAAAAGAAAGAACAAAA
1 AAAAAAAAAGAACAAAA
*
108295910 AAAAAAAAAGAAGAAAA
1 AAAAAAAAAGAACAAAA
108295927 A
1 A
108295928 GAAGGAGACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAACAAAA
Found at i:108300075 original size:21 final size:21
Alignment explanation
Indices: 108300049--108300092 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
108300039 TGGGGTGATT
108300049 TTGGATTGTTGTAAAAAGAAG
1 TTGGATTGTTGTAAAAAGAAG
108300070 TTGGATTGTTGTAAAAAGAAG
1 TTGGATTGTTGTAAAAAGAAG
108300091 TT
1 TT
108300093 TGTTGTTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (21 bp):
TTGGATTGTTGTAAAAAGAAG
Found at i:108302697 original size:13 final size:14
Alignment explanation
Indices: 108302681--108302716 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
108302671 CAATCTCATA
108302681 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
108302694 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
108302707 TCTC-ATTTCA
1 TCTCAATTTCA
108302717 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:108302706 original size:18 final size:19
Alignment explanation
Indices: 108302668--108302708 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
108302658 TGGTTCATGT
108302668 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
108302687 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
108302705 TTTC
1 TTTC
108302709 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:108302898 original size:39 final size:38
Alignment explanation
Indices: 108302831--108302965 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
108302821 ACCAATATGG
* * *
108302831 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTA-TCCGAAGAAATATTTGA
* * * *
108302870 CACCCAGTGTCTCATCGGCCTATCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTATCCGAAGAAATATTTGA
* * * * *
108302908 TACCCAGTACCTCATCGAATCTATCCAAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTATCCGAAGAAATAT-TTGA
*
108302949 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
108302966 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 36 0.49
40 3 0.04
41 16 0.22
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTATCCGAAGAAATATTTGA
Found at i:108303231 original size:18 final size:19
Alignment explanation
Indices: 108303205--108303243 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
108303195 TTTCAATTCA
108303205 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
108303224 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
108303242 AT
1 AT
108303244 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:108304567 original size:5 final size:5
Alignment explanation
Indices: 108304557--108304609 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
108304547 TTACTTATTT
* *
108304557 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATCATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
108304605 ATATA
1 ATATA
108304610 TATTTTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:108304573 original size:12 final size:12
Alignment explanation
Indices: 108304556--108304611 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
108304546 TTTACTTATT
108304556 TATATAATATAA
1 TATATAATATAA
108304568 TATATAATATAATA
1 TATATAATAT-A-A
108304582 TACTATAATATAA
1 TA-TATAATATAA
* *
108304595 T-CATAATTTAA
1 TATATAATATAA
108304606 TATATA
1 TATATA
108304612 TTTTTTAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.24
12 13 0.35
13 3 0.08
14 4 0.11
15 8 0.22
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:108309435 original size:17 final size:18
Alignment explanation
Indices: 108309413--108309446 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
108309403 TCTATTGAGT
108309413 CGTGTGGG-CCACATGGA
1 CGTGTGGGCCCACATGGA
108309430 CGTGTGGGCCCACATGG
1 CGTGTGGGCCCACATGG
108309447 GTCAACCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.15, C:0.26, G:0.41, T:0.18
Consensus pattern (18 bp):
CGTGTGGGCCCACATGGA
Found at i:108312687 original size:22 final size:21
Alignment explanation
Indices: 108312662--108312715 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
108312652 GTTCATGTAA
108312662 TTAAATTGTATATTTATATGTT
1 TTAAATTGTATA-TTATATGTT
*
108312684 TTAAATTG-A-ATTATTTGTT
1 TTAAATTGTATATTATATGTT
*
108312703 TCTGAATTGTATA
1 T-TAAATTGTATA
108312716 ATTTCCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 2 0.07
22 9 0.33
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (21 bp):
TTAAATTGTATATTATATGTT
Found at i:108320610 original size:23 final size:22
Alignment explanation
Indices: 108320562--108320624 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
108320552 CTTCATGCGC
* * *
108320562 GCAAGTGACAATAGCAGTCTCGT
1 GCAAGTGACAGTGGCA-CCTCGT
108320585 GCAAGTGACAGTGGCACCTCGAT
1 GCAAGTGACAGTGGCACCTCG-T
*
108320608 GCAAGTGATAGTGGCAC
1 GCAAGTGACAGTGGCAC
108320625 TTTGGTGTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 4 0.11
23 31 0.89
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (22 bp):
GCAAGTGACAGTGGCACCTCGT
Found at i:108340919 original size:5 final size:5
Alignment explanation
Indices: 108340895--108340929 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
108340885 CTTTTGTTTT
108340895 ATATA TATATA ATAATA ATATA ATATA ATATA ATA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATA
108340930 ACATACTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:108342521 original size:545 final size:545
Alignment explanation
Indices: 108341492--108342584 Score: 2177
Period size: 545 Copynumber: 2.0 Consensus size: 545
108341482 GATGCAGAAG
108341492 CAATTTCCAAATCTGCTGAGTTAGTCATATATTTGCAACATTTCAAGTGATAGTTGTCCATATTG
1 CAATTTCCAAATCTGCTGAGTTAGTCATATATTTGCAACATTTCAAGTGATAGTTGTCCATATTG
108341557 ACCAAGTCTAACTAAGCTATTATTATAGTGAGCAGGAGGGGGAACTGAAGCTGGTGCATGAGAGG
66 ACCAAGTCTAACTAAGCTATTATTATAGTGAGCAGGAGGGGGAACTGAAGCTGGTGCATGAGAGG
108341622 GGGTAGGGGTAGGAACTGGAGCTAGAATATGGGGGCGACCCATGGCTGTCAATGGAGAAGGCATA
131 GGGTAGGGGTAGGAACTGGAGCTAGAATATGGGGGCGACCCATGGCTGTCAATGGAGAAGGCATA
*
108341687 ATTTTCTGCAACATCATACTTTAGGGTTTAAAAGGATTTTAGAGAGGTCTAGACAAAGGATCATT
196 ATTTTCTGCAACATCATACTTTAGGGTTTAAAAGGATTTTAGAGAGGTCTAGACAAAGGATCACT
108341752 GCGTGAAGGTGAACCGGTGAGCTGCTGAATAATGTTCTGAAAATCATTCTTGCTGATGTTGTAAG
261 GCGTGAAGGTGAACCGGTGAGCTGCTGAATAATGTTCTGAAAATCATTCTTGCTGATGTTGTAAG
108341817 CCTGAGGTTGAGGCTACTCCCTAGCAGCATTATTATCAAAATTAGGTTGATGCAATGGGCTCTTC
326 CCTGAGGTTGAGGCTACTCCCTAGCAGCATTATTATCAAAATTAGGTTGATGCAATGGGCTCTTC
108341882 CTTATATTCTTCCCTGTCTTGTTCTCACCTAGATGATTATTAAGTTGATTCTTCGAATTATTCAT
391 CTTATATTCTTCCCTGTCTTGTTCTCACCTAGATGATTATTAAGTTGATTCTTCGAATTATTCAT
108341947 TTCCAAAAACCAAACTGCAAAGTGAACTACAAAAAGTCAATCCCAATTTTTTTTACAAACACCCA
456 TTCCAAAAACCAAACTGCAAAGTGAACTACAAAAAGTCAATCCCAATTTTTTTTACAAACACCCA
108342012 CAAAGTCAAACCGTTTAAAAAGCTT
521 CAAAGTCAAACCGTTTAAAAAGCTT
108342037 CAATTTCCAAATCTGCTGAGTTAGTCATATATTTGCAACATTTCAAGTGATAGTTGTCCATATTG
1 CAATTTCCAAATCTGCTGAGTTAGTCATATATTTGCAACATTTCAAGTGATAGTTGTCCATATTG
108342102 ACCAAGTCTAACTAAGCTATTATTATAGTGAGCAGGAGGGGGAACTGAAGCTGGTGCATGAGAGG
66 ACCAAGTCTAACTAAGCTATTATTATAGTGAGCAGGAGGGGGAACTGAAGCTGGTGCATGAGAGG
108342167 GGGTAGGGGTAGGAACTGGAGCTAGAATATGGGGGCGACCCATGGCTGTCAATGGAGAAGGCATA
131 GGGTAGGGGTAGGAACTGGAGCTAGAATATGGGGGCGACCCATGGCTGTCAATGGAGAAGGCATA
108342232 ATTTTCTGCAACATCATACTTTAGGGTTTAAAAGGATTTTAGAGAGGTCTAGACAAAGGATCACT
196 ATTTTCTGCAACATCATACTTTAGGGTTTAAAAGGATTTTAGAGAGGTCTAGACAAAGGATCACT
108342297 GCGTGAAGGTGAACCGGTGAGCTGCTGAATAATGTTCTGAAAATCATTCTTGCTGATGTTGTAAG
261 GCGTGAAGGTGAACCGGTGAGCTGCTGAATAATGTTCTGAAAATCATTCTTGCTGATGTTGTAAG
108342362 CCTGAGGTTGAGGCTACTCCCTAGCAGCATTATTATCAAAATTAGGTTGATGCAATGGGCTCTTC
326 CCTGAGGTTGAGGCTACTCCCTAGCAGCATTATTATCAAAATTAGGTTGATGCAATGGGCTCTTC
108342427 CTTATATTCTTCCCTGTCTTGTTCTCACCTAGATGATTATTAAGTTGATTCTTCGAATTATTCAT
391 CTTATATTCTTCCCTGTCTTGTTCTCACCTAGATGATTATTAAGTTGATTCTTCGAATTATTCAT
108342492 TTCCAAAAACCAAACTGCAAAGTGAACTACAAAAAGTCAATCCCAATTTTTTTTACAAACACCCA
456 TTCCAAAAACCAAACTGCAAAGTGAACTACAAAAAGTCAATCCCAATTTTTTTTACAAACACCCA
108342557 CAAAGTCAAACCGTTTAAAAAGCTT
521 CAAAGTCAAACCGTTTAAAAAGCTT
108342582 CAA
1 CAA
108342585 ATGAATATAC
Statistics
Matches: 547, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
545 547 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (545 bp):
CAATTTCCAAATCTGCTGAGTTAGTCATATATTTGCAACATTTCAAGTGATAGTTGTCCATATTG
ACCAAGTCTAACTAAGCTATTATTATAGTGAGCAGGAGGGGGAACTGAAGCTGGTGCATGAGAGG
GGGTAGGGGTAGGAACTGGAGCTAGAATATGGGGGCGACCCATGGCTGTCAATGGAGAAGGCATA
ATTTTCTGCAACATCATACTTTAGGGTTTAAAAGGATTTTAGAGAGGTCTAGACAAAGGATCACT
GCGTGAAGGTGAACCGGTGAGCTGCTGAATAATGTTCTGAAAATCATTCTTGCTGATGTTGTAAG
CCTGAGGTTGAGGCTACTCCCTAGCAGCATTATTATCAAAATTAGGTTGATGCAATGGGCTCTTC
CTTATATTCTTCCCTGTCTTGTTCTCACCTAGATGATTATTAAGTTGATTCTTCGAATTATTCAT
TTCCAAAAACCAAACTGCAAAGTGAACTACAAAAAGTCAATCCCAATTTTTTTTACAAACACCCA
CAAAGTCAAACCGTTTAAAAAGCTT
Found at i:108343489 original size:3 final size:3
Alignment explanation
Indices: 108343481--108343505 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
108343471 ATATGCAAAC
108343481 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
108343506 GTTTTGTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:108344348 original size:19 final size:20
Alignment explanation
Indices: 108344317--108344361 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
108344307 CGGAAAATAA
108344317 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
108344337 TTTCTG-AAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
108344356 TTTCTG
1 TTTCTG
108344362 GTGTTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:108344464 original size:18 final size:18
Alignment explanation
Indices: 108344438--108344480 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
108344428 AAAAGTTATT
*
108344438 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
108344456 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
108344474 TTTATAT
1 TTTATAT
108344481 TTTAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:108351758 original size:24 final size:24
Alignment explanation
Indices: 108351729--108351779 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
108351719 ATTCAAATTG
* *
108351729 CTACTAACAAGCTAACAACTCCTC
1 CTACTAACAAGCTAACAAATCCCC
108351753 CTACTAACAAGCTAACAAATCCCC
1 CTACTAACAAGCTAACAAATCCCC
108351777 CTA
1 CTA
108351780 AGACTTAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.37, G:0.04, T:0.20
Consensus pattern (24 bp):
CTACTAACAAGCTAACAAATCCCC
Found at i:108351822 original size:26 final size:26
Alignment explanation
Indices: 108351786--108351839 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
108351776 CCTAAGACTT
*
108351786 AGTCTTATTATTTTAAAAATAGTTGC
1 AGTCTTATTATTTTAAAAATAGCTGC
108351812 AGTCTTATTATTTTAAAAATAGCTGC
1 AGTCTTATTATTTTAAAAATAGCTGC
108351838 AG
1 AG
108351840 CCTTGAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (26 bp):
AGTCTTATTATTTTAAAAATAGCTGC
Found at i:108354767 original size:41 final size:41
Alignment explanation
Indices: 108354710--108354824 Score: 196
Period size: 41 Copynumber: 2.8 Consensus size: 41
108354700 GAATGTAATA
* *
108354710 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
108354751 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
108354792 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
108354825 TACTGAATCA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
40 3 0.04
41 68 0.96
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:108357052 original size:26 final size:26
Alignment explanation
Indices: 108357016--108357069 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
108357006 CCTAAGACTT
108357016 AGTCTTATTATTTTAAAAATAGCCGC
1 AGTCTTATTATTTTAAAAATAGCCGC
*
108357042 AGTCTTATTATTTTAAAAATAGCTGC
1 AGTCTTATTATTTTAAAAATAGCCGC
108357068 AG
1 AG
108357070 CCTTGAGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (26 bp):
AGTCTTATTATTTTAAAAATAGCCGC
Found at i:108357517 original size:6 final size:6
Alignment explanation
Indices: 108357506--108357531 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
108357496 GCATGAGATA
108357506 GGGCAG GGGCAG GGGCAG GGGCAG GG
1 GGGCAG GGGCAG GGGCAG GGGCAG GG
108357532 ACTGAAGCTG
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:0.15, C:0.15, G:0.69, T:0.00
Consensus pattern (6 bp):
GGGCAG
Found at i:108373491 original size:4 final size:4
Alignment explanation
Indices: 108373484--108373512 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
108373474 AATGTTTTAA
108373484 AATT AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT AATT A
108373513 TAATAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:108378067 original size:21 final size:21
Alignment explanation
Indices: 108378033--108378076 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
108378023 AAATCTCTAC
*
108378033 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
108378054 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
108378075 AA
1 AA
108378077 GCTCATTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:108378317 original size:19 final size:18
Alignment explanation
Indices: 108378231--108378317 Score: 58
Period size: 18 Copynumber: 4.8 Consensus size: 18
108378221 ATGATAACGG
108378231 TTTATTTTAA-ATTTTGAA
1 TTTA-TTTAATATTTTGAA
**
108378249 TATTATTTAATATTTTTTCA
1 T-TTATTTAATA-TTTTGAA
*
108378269 TTTATGT-A-ATTTT-AA
1 TTTATTTAATATTTTGAA
*
108378284 TTAATTTTAAT-TTTTGAA
1 TTTA-TTTAATATTTTGAA
108378302 TATTATTTAATATTTT
1 T-TTATTTAATATTTT
108378318 TTCATTTATA
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
15 4 0.08
16 6 0.11
17 6 0.11
18 16 0.30
19 15 0.28
20 6 0.11
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTATTTAATATTTTGAA
Found at i:108378326 original size:19 final size:19
Alignment explanation
Indices: 108378251--108378331 Score: 55
Period size: 19 Copynumber: 4.5 Consensus size: 19
108378241 ATTTTGAATA
*
108378251 TTATTTAATATTTTTTCAT
1 TTATTTAATATTTTTTAAT
*
108378270 TTATGT-A-A--TTTTAAT
1 TTATTTAATATTTTTTAAT
* * *
108378285 TAATTTTA-ATTTTTGAAT
1 TTATTTAATATTTTTTAAT
*
108378303 ATTATTTAATATTTTTTCAT
1 -TTATTTAATATTTTTTAAT
*
108378323 TTATATAAT
1 TTATTTAAT
108378332 TTTAATTAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
15 10 0.21
16 2 0.04
17 1 0.02
18 7 0.15
19 19 0.40
20 8 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATTTAATATTTTTTAAT
Found at i:108378343 original size:19 final size:19
Alignment explanation
Indices: 108378268--108378343 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 19
108378258 ATATTTTTTC
*
108378268 ATTTATGTAATTTTAATTA
1 ATTTATATAATTTTAATTA
* *
108378287 ATTT-TA-ATTTTTGAATATT
1 ATTTATATAATTTT-AAT-TA
*
108378306 ATTTA-AT-ATTTT--TTC
1 ATTTATATAATTTTAATTA
108378321 ATTTATATAATTTTAATTA
1 ATTTATATAATTTTAATTA
108378340 ATTT
1 ATTT
108378344 GTATTTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
15 6 0.14
16 3 0.07
17 10 0.23
18 4 0.09
19 20 0.47
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTATATAATTTTAATTA
Found at i:108378350 original size:53 final size:53
Alignment explanation
Indices: 108378234--108378343 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
108378224 ATAACGGTTT
* *
108378234 ATTTTAAATTTTGAATATTATTTAATATTTTTTCATTTATGTAATTTTAATTA
1 ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
108378287 ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
1 ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
108378340 ATTT
1 ATTT
108378344 GTATTTTATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (53 bp):
ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
Found at i:108380158 original size:21 final size:21
Alignment explanation
Indices: 108380108--108380159 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
108380098 AACACCCAGA
*
108380108 ACCAGAGCAACCACAACCTCC
1 ACCAGAGCAACCACAACCCCC
*
108380129 GCC-GAAGCAACCACAACCCCC
1 ACCAG-AGCAACCACAACCCCC
108380150 ACCAGAGCAA
1 ACCAGAGCAA
108380160 AGAAGGAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.38, C:0.46, G:0.13, T:0.02
Consensus pattern (21 bp):
ACCAGAGCAACCACAACCCCC
Found at i:108383675 original size:126 final size:126
Alignment explanation
Indices: 108383339--108383835 Score: 558
Period size: 126 Copynumber: 4.0 Consensus size: 126
108383329 GGTCAATTAT
* * * * * *** *
108383339 GAACTACTGTAGAAAAAAAACGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCATC
1 GAACTACTATTGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* *
108383404 CTGCTTGAAGCATCTTTGACACTGTTTGTTCAGAAACATCTTCTCAAAATTA--TTTT-AG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * *
108383462 GAACTACTATTGAAAAAGAACGTTCACGTAGGAGC-TTTTTCTATAAATTTGCTGACAGTGCATC
1 GAACTACTATTGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* ** * *
108383526 CTGCTTAAATTATTTTTGACACTATTTTTTCAGAAACATCTTCTCAAAATTATTTTTTCAT
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * * * *
108383587 GAACTACTATTGAAAAAGAGCATCCATGT-GGTAACTTTTTTCCGTAATTTTACTTACAGTGAAT
1 GAACTACTATTGAAAAAGAGCGTCCACGTAGG-AGCTTTTTTCTGTAATTTTGCTGACAGTGCAT
* * * *
108383651 TCTGCTTGAAGCGTTTTTGACACTAATTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * *
108383713 GAACTACTGTAGAAAAAGAGTGCCCACGTAGGAGCTTTTTT-TGTATTTTTGCTGACAGTGCATC
1 GAACTACTATTGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* ** * * *
108383777 CTGTTTGAAGTGTTTTT-ATACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCA
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCA
108383836 AGGTAAAAAT
Statistics
Matches: 314, Mismatches: 54, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
122 71 0.23
123 30 0.10
124 45 0.14
125 60 0.19
126 106 0.34
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
GAACTACTATTGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:108383928 original size:28 final size:30
Alignment explanation
Indices: 108383897--108383969 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
108383887 AAAAACTAAG
*
108383897 CCCTAATTTAATTAAATTT-AACCTTA-AA
1 CCCTAATTTAATTAAATTTAAACCCTAGAA
*
108383925 CCCTAATTTAATT-TATTTAAAACCCTAGAA
1 CCCTAATTTAATTAAATTT-AAACCCTAGAA
*
108383955 CCCTAATTTACTTAA
1 CCCTAATTTAATTAA
108383970 TTTTTTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.11
28 13 0.35
29 6 0.16
30 14 0.38
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.38
Consensus pattern (30 bp):
CCCTAATTTAATTAAATTTAAACCCTAGAA
Found at i:108383959 original size:30 final size:28
Alignment explanation
Indices: 108383892--108383969 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 28
108383882 TTTAAAAAAA
*
108383892 CTAAGCCCTAATTTAATTAAATTTAACC
1 CTAAACCCTAATTTAATTAAATTTAACC
* *
108383920 TTAAACCCTAATTTAATT-TATTTAAAACC
1 CTAAACCCTAATTTAATTAAATTT--AACC
*
108383949 CTAGAACCCTAATTTACTTAA
1 CTA-AACCCTAATTTAATTAA
108383970 TTTTTTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 4 0.10
28 16 0.40
29 6 0.15
30 14 0.35
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.37
Consensus pattern (28 bp):
CTAAACCCTAATTTAATTAAATTTAACC
Found at i:108384015 original size:7 final size:7
Alignment explanation
Indices: 108383979--108384011 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
108383969 ATTTTTTTAA
108383979 AAACCAT
1 AAACCAT
108383986 AAACCAT
1 AAACCAT
108383993 AAACCAT
1 AAACCAT
*
108384000 AAACCCT
1 AAACCAT
108384007 AAACC
1 AAACC
108384012 CTAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCAT
Found at i:108384037 original size:18 final size:18
Alignment explanation
Indices: 108384007--108384051 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
108383997 CATAAACCCT
108384007 AAACCCT-AATTTATTTA
1 AAACCCTAAATTTATTTA
108384024 AAACCCTAAATTTATTTA
1 AAACCCTAAATTTATTTA
*
108384042 AAATCCTAAA
1 AAACCCTAAA
108384052 AACCCTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.36
Consensus pattern (18 bp):
AAACCCTAAATTTATTTA
Found at i:108384078 original size:27 final size:28
Alignment explanation
Indices: 108384013--108384087 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
108384003 CCCTAAACCC
*
108384013 TAATTTATTT-AAAACCCTAAATTTATT
1 TAATTTATTTAAAAACCCTAAATTTACT
* *
108384040 TAA--AATCCTAAAAACCCT-AATTTACT
1 TAATTTAT-TTAAAAACCCTAAATTTACT
*
108384066 TAATTTATTTAAAAACCATAAA
1 TAATTTATTTAAAAACCCTAAA
108384088 CCCTAATGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
25 2 0.05
26 11 0.30
27 20 0.54
28 4 0.11
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (28 bp):
TAATTTATTTAAAAACCCTAAATTTACT
Found at i:108384921 original size:12 final size:12
Alignment explanation
Indices: 108384904--108384929 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
108384894 GTAAAAAGGA
108384904 AACAAATAGATG
1 AACAAATAGATG
108384916 AACAAATAGATG
1 AACAAATAGATG
108384928 AA
1 AA
108384930 TAAGCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (12 bp):
AACAAATAGATG
Found at i:108385399 original size:13 final size:12
Alignment explanation
Indices: 108385381--108385438 Score: 73
Period size: 13 Copynumber: 4.7 Consensus size: 12
108385371 AAAAATGATA
108385381 AAATAAATCAAAC
1 AAATAAAT-AAAC
108385394 AAATAACATAAA-
1 AAATAA-ATAAAC
*
108385406 AAATAAACAAAC
1 AAATAAATAAAC
108385418 AAATAAATAAGAC
1 AAATAAATAA-AC
108385431 AAATAAAT
1 AAATAAAT
108385439 GATTCTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 4 0.10
12 15 0.38
13 19 0.47
14 2 0.05
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.16
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:108386797 original size:22 final size:21
Alignment explanation
Indices: 108386744--108386799 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
108386734 GCCTTTTCTG
*
108386744 TATTTGGGTTAAGGTTGGGTT
1 TATTTGGGTCAAGGTTGGGTT
* * *
108386765 AATTTTAGGTCAGGGTTTGGGTT
1 TA-TTTGGGTCAAGG-TTGGGTT
108386788 TATTTGGGTCAA
1 TATTTGGGTCAA
108386800 AGTTTGTTTG
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
21 1 0.04
22 17 0.65
23 8 0.31
ACGTcount: A:0.18, C:0.04, G:0.34, T:0.45
Consensus pattern (21 bp):
TATTTGGGTCAAGGTTGGGTT
Found at i:108387823 original size:23 final size:24
Alignment explanation
Indices: 108387795--108387839 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
108387785 TTTATTGAAA
*
108387795 TTAATTAATTGATT-ATTTTATAT
1 TTAATTAATTAATTAATTTTATAT
108387818 TTAATTAATTAATTAATTTTAT
1 TTAATTAATTAATTAATTTTAT
108387840 TGAGTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTAATTAATTAATTAATTTTATAT
Found at i:108395931 original size:3 final size:3
Alignment explanation
Indices: 108395925--108396033 Score: 218
Period size: 3 Copynumber: 36.3 Consensus size: 3
108395915 GCTTCAATTT
108395925 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
108395973 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
108396021 TTC TTC TTC TTC T
1 TTC TTC TTC TTC T
108396034 GTTCTTTCTA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 106 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:108397521 original size:25 final size:25
Alignment explanation
Indices: 108397493--108397548 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
108397483 AATAACATAA
* * *
108397493 ATAATAGTATTTAAATCTCAAACTT
1 ATAAAAGTAATTAAATATCAAACTT
108397518 ATAAAAGTAATTAAATATCAAACTT
1 ATAAAAGTAATTAAATATCAAACTT
*
108397543 AAAAAA
1 ATAAAA
108397549 TATTAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (25 bp):
ATAAAAGTAATTAAATATCAAACTT
Found at i:108397560 original size:25 final size:25
Alignment explanation
Indices: 108397503--108397554 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
108397493 ATAATAGTAT
* *
108397503 TTAAATCTCAAACTTATAAAAGTAA
1 TTAAATATCAAACTTATAAAAATAA
108397528 TTAAATATCAAACTTA-AAAAAT-A
1 TTAAATATCAAACTTATAAAAATAA
108397551 TTAA
1 TTAA
108397555 TTATATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 5 0.20
25 15 0.60
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (25 bp):
TTAAATATCAAACTTATAAAAATAA
Found at i:108400929 original size:23 final size:23
Alignment explanation
Indices: 108400902--108400945 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
108400892 ACTAGTAATC
* *
108400902 AAAATTACTCAAATAATTTCATA
1 AAAATTAATCAAATAAATTCATA
108400925 AAAATTAATCAAATAAATTCA
1 AAAATTAATCAAATAAATTCA
108400946 AGTGCATGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAATTAATCAAATAAATTCATA
Found at i:108402062 original size:20 final size:20
Alignment explanation
Indices: 108402037--108402076 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
108402027 CATTAAAAGG
*
108402037 TCAGTGCTTGTGCTTCCATC
1 TCAGTGCTAGTGCTTCCATC
108402057 TCAGTGCTAGTGCTTCCATC
1 TCAGTGCTAGTGCTTCCATC
108402077 ATTCACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.30, G:0.20, T:0.38
Consensus pattern (20 bp):
TCAGTGCTAGTGCTTCCATC
Found at i:108411295 original size:2 final size:2
Alignment explanation
Indices: 108411288--108411319 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
108411278 TTGTTTTGGC
108411288 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
108411320 CAATTCCCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:108412234 original size:31 final size:29
Alignment explanation
Indices: 108412199--108412265 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 29
108412189 CATATCTAAC
*
108412199 TTTAATTTAATATGTAATTATATACATCAA
1 TTTAATTTAATATATAATTATATACAT-AA
*
108412229 TTTTAATTTAATATATAATTATATATATAA
1 -TTTAATTTAATATATAATTATATACATAA
108412259 TTTAATT
1 TTTAATT
108412266 GTGATTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 7 0.21
30 2 0.06
31 25 0.74
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (29 bp):
TTTAATTTAATATATAATTATATACATAA
Found at i:108413389 original size:3 final size:3
Alignment explanation
Indices: 108413381--108413411 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
108413371 GCTTACTTGT
*
108413381 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
108413412 CTTCTTGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:108417041 original size:21 final size:21
Alignment explanation
Indices: 108417015--108417055 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
108417005 ATCTGCTCAA
108417015 ACTCCACCTGTCT-TGGAGTAC
1 ACTCCACCTG-CTGTGGAGTAC
108417036 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
108417056 TTGCTCGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.27
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:108423824 original size:28 final size:28
Alignment explanation
Indices: 108423764--108423826 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
108423754 ATGCACTTAA
*
108423764 CATTAAA-TTTTTTATTTATTAGAAAAT
1 CATTAAATTTTTTTATTTATTAAAAAAT
**
108423791 GTTTAAATTTTTATTATTT-TTAAAAAAT
1 CATTAAATTTTT-TTATTTATTAAAAAAT
108423819 CATTAAAT
1 CATTAAAT
108423827 AATTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 5 0.17
28 18 0.62
29 6 0.21
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (28 bp):
CATTAAATTTTTTTATTTATTAAAAAAT
Found at i:108424883 original size:14 final size:14
Alignment explanation
Indices: 108424860--108424889 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
108424850 ACCTAAAAGT
*
108424860 TTTCTTTCACTTAG
1 TTTCTCTCACTTAG
108424874 TTTCTCTCACTTAG
1 TTTCTCTCACTTAG
108424888 TT
1 TT
108424890 GCACCTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTCTCTCACTTAG
Found at i:108425373 original size:6 final size:6
Alignment explanation
Indices: 108425365--108425404 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
108425355 TAAACTTGCA
* **
108425365 AAAAAA AAAAAC AAAAAC AAAAAC AAAAGG AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
108425405 GGAAAAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:108425405 original size:12 final size:12
Alignment explanation
Indices: 108425371--108425410 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
108425361 TGCAAAAAAA
**
108425371 AAAAACAAAAAC
1 AAAAACAAAAGG
108425383 AAAAACAAAAGG
1 AAAAACAAAAGG
108425395 AAAAACAAAAGG
1 AAAAACAAAAGG
108425407 AAAA
1 AAAA
108425411 GAAAAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAGG
Found at i:108425410 original size:18 final size:17
Alignment explanation
Indices: 108425366--108425415 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
108425356 AAACTTGCAA
* *
108425366 AAAAAAAAAACAAAAAC
1 AAAAACAAAAGAAAAAC
108425383 AAAAACAAAAGGAAAAAC
1 AAAAACAAAA-GAAAAAC
**
108425401 AAAAGGAAAAGAAAA
1 AAAAACAAAAGAAAA
108425416 GAAAAGCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAACAAAAGAAAAAC
Found at i:108427681 original size:6 final size:6
Alignment explanation
Indices: 108427670--108427694 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
108427660 ATAAATTTAG
108427670 ATTAAA ATTAAA ATTAAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA A
108427695 GAAAATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTAAA
Found at i:108436575 original size:18 final size:18
Alignment explanation
Indices: 108436554--108436589 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
108436544 TTGTTGGTTT
*
108436554 TGATGATGTTGTTGATGA
1 TGATGATGGTGTTGATGA
108436572 TGATGATGGTGTTGATGA
1 TGATGATGGTGTTGATGA
108436590 AACTGTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (18 bp):
TGATGATGGTGTTGATGA
Found at i:108441856 original size:29 final size:29
Alignment explanation
Indices: 108441820--108441878 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
108441810 ACTCGTATTT
108441820 ATATTTGATAAAAGTGATTATTTTATTAA
1 ATATTTGATAAAAGTGATTATTTTATTAA
108441849 ATATTTGATAAAAGTGATTATTTTATTAA
1 ATATTTGATAAAAGTGATTATTTTATTAA
108441878 A
1 A
108441879 AAATAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (29 bp):
ATATTTGATAAAAGTGATTATTTTATTAA
Found at i:108443524 original size:25 final size:21
Alignment explanation
Indices: 108443455--108443519 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
108443445 CCTGATCAGT
** * *
108443455 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
108443476 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
108443497 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
108443518 AT
1 AT
108443520 CGATAAAGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:108451257 original size:21 final size:21
Alignment explanation
Indices: 108451231--108451313 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
108451221 TGATCAGTAT
*
108451231 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
108451252 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
108451273 ACGACACACGAGGTGCTTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
108451295 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
108451314 GATCGATATA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:108451281 original size:23 final size:22
Alignment explanation
Indices: 108451229--108451303 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 22
108451219 CCTGATCAGT
** *
108451229 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
108451250 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
*
108451271 ATACGACACACGAGGTGCTTGAA
1 ATACGACACACGAGGTGCCTG-A
108451294 ATACGACACA
1 ATACGACACA
108451304 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 35 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:108453662 original size:20 final size:20
Alignment explanation
Indices: 108453630--108453667 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
108453620 AAATTAATTT
108453630 AAACTAAAGGTATCGATAGC
1 AAACTAAAGGTATCGATAGC
108453650 AAACTTAAA-GTATCGATA
1 AAAC-TAAAGGTATCGATA
108453668 CTTCTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (20 bp):
AAACTAAAGGTATCGATAGC
Found at i:108456204 original size:12 final size:12
Alignment explanation
Indices: 108456189--108456229 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
108456179 TGATAATATA
*
108456189 AATAACAACGAT
1 AATAACAACAAT
*
108456201 AATAACAATAAT
1 AATAACAACAAT
*
108456213 AATAACAATAAT
1 AATAACAACAAT
108456225 AATAA
1 AATAA
108456230 TAATGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.22
Consensus pattern (12 bp):
AATAACAACAAT
Found at i:108456213 original size:3 final size:3
Alignment explanation
Indices: 108456199--108456233 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
108456189 AATAACAACG
* *
108456199 ATA ATA ACA ATA ATA ATA ACA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
108456234 GAAGAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:108456277 original size:17 final size:17
Alignment explanation
Indices: 108456257--108456307 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
108456247 TTTTGAAATT
*
108456257 ATAAAAAAAATAAGTAA
1 ATAAAAATAATAAGTAA
108456274 AT--AAATAAT--G-AA
1 ATAAAAATAATAAGTAA
108456286 ATAAAAATAATAAGTAA
1 ATAAAAATAATAAGTAA
108456303 ATAAA
1 ATAAA
108456308 CAAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 10
0.72 0.03 0.26
Matches are distributed among these distances:
12 4 0.14
13 1 0.04
14 7 0.25
15 6 0.21
16 1 0.04
17 9 0.32
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
ATAAAAATAATAAGTAA
Found at i:108456291 original size:25 final size:25
Alignment explanation
Indices: 108456262--108456325 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
108456252 AAATTATAAA
**
108456262 AAAAATAAGTAAATAAATAATGAAAT
1 AAAAATAA-TAAATAAATAAACAAAT
*
108456288 AAAAATAATAAGTAAATAAACAAAT
1 AAAAATAATAAATAAATAAACAAAT
108456313 AAAAACTAATAAA
1 AAAAA-TAATAAA
108456326 GGTTTAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (25 bp):
AAAAATAATAAATAAATAAACAAAT
Found at i:108456421 original size:3 final size:3
Alignment explanation
Indices: 108456415--108456470 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
108456405 AAGAATAAGA
108456415 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
108456463 ATG ATG AT
1 ATG ATG AT
108456471 AGTTGAAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:108457434 original size:13 final size:13
Alignment explanation
Indices: 108457399--108457439 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
108457389 TTTAATCTTT
108457399 GCAAGTGGCGGTG
1 GCAAGTGGCGGTG
*
108457412 GCAAG-AGCGGTG
1 GCAAGTGGCGGTG
*
108457424 GCCAGTGGCGGTG
1 GCAAGTGGCGGTG
108457437 GCA
1 GCA
108457440 GGCTTTGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.17, C:0.20, G:0.51, T:0.12
Consensus pattern (13 bp):
GCAAGTGGCGGTG
Found at i:108458783 original size:10 final size:10
Alignment explanation
Indices: 108458770--108458854 Score: 55
Period size: 10 Copynumber: 7.9 Consensus size: 10
108458760 CTAATTTCCC
108458770 CTTTCTTTTT
1 CTTTCTTTTT
108458780 CTTTCTTTTTT
1 CTTTC-TTTTT
*
108458791 CTTTCTCTCTT
1 CTTTCT-TTTT
108458802 -TTTCGTTTCACTT
1 CTTTC-TTT---TT
* *
108458815 CTCTATTCTTT
1 CTTTCTT-TTT
108458826 CTTTCTTTTT
1 CTTTCTTTTT
* *
108458836 ATTTCTTTTA
1 CTTTCTTTTT
108458846 CTTTCTTTT
1 CTTTCTTTT
108458855 ATTTACTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
10 30 0.52
11 21 0.36
13 4 0.07
14 3 0.05
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.72
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:108458849 original size:20 final size:20
Alignment explanation
Indices: 108458826--108458863 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
108458816 TCTATTCTTT
108458826 CTTTCTTTTTATTT-CTTTTA
1 CTTTC-TTTTATTTACTTTTA
108458846 CTTTCTTTTATTTACTTT
1 CTTTCTTTTATTTACTTT
108458864 ATGTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTCTTTTATTTACTTTTA
Found at i:108467724 original size:14 final size:14
Alignment explanation
Indices: 108467705--108467734 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
108467695 GTTGCTTACG
108467705 TAGTTGTTCTCCTC
1 TAGTTGTTCTCCTC
108467719 TAGTTGTTCTCCTC
1 TAGTTGTTCTCCTC
108467733 TA
1 TA
108467735 TTTTGTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.27, G:0.13, T:0.50
Consensus pattern (14 bp):
TAGTTGTTCTCCTC
Found at i:108470390 original size:12 final size:14
Alignment explanation
Indices: 108470375--108470406 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
108470365 GTGAGAGCAC
108470375 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
108470387 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
108470401 ATGTGT
1 ATGTGT
108470407 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:108470487 original size:50 final size:49
Alignment explanation
Indices: 108470430--108470563 Score: 196
Period size: 49 Copynumber: 2.7 Consensus size: 49
108470420 AGGTCACGTA
*
108470430 TGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATAGTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GGTCGCATG
* ** *
108470480 TGTAGTACTAAGTGCAGGCTATTACGTGTACTGGATTGTTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCGCATG
* *
108470529 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
108470564 CAGCTTCAGT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 39 0.53
50 35 0.47
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCGCATG
Found at i:108470543 original size:49 final size:50
Alignment explanation
Indices: 108470374--108470563 Score: 202
Period size: 50 Copynumber: 3.8 Consensus size: 50
108470364 TGTGAGAGCA
* * * *** * *
108470374 CATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCG
* * *
108470426 CGTATGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATAGTTAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCG
* ** *
108470476 CATGTGTAGTACTAAGTGCAGGCTATTACGTGTACTGGATTGTT-GGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCG
* *
108470525 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
108470564 CAGCTTCAGT
Statistics
Matches: 115, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
49 39 0.34
50 44 0.38
52 32 0.28
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCG
Found at i:108470785 original size:16 final size:15
Alignment explanation
Indices: 108470764--108470793 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
108470754 AAATAGAGTA
108470764 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
108470780 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
108470794 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:108476037 original size:32 final size:32
Alignment explanation
Indices: 108475996--108476059 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
108475986 AGCTCCTTTG
108475996 TCTCCTGTGTCAATATCTTGATCGGTTCTTCA
1 TCTCCTGTGTCAATATCTTGATCGGTTCTTCA
108476028 TCTCCTGTGTCAATATCTTGATCGGTTCTTCA
1 TCTCCTGTGTCAATATCTTGATCGGTTCTTCA
108476060 CTATAAGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.44
Consensus pattern (32 bp):
TCTCCTGTGTCAATATCTTGATCGGTTCTTCA
Found at i:108476745 original size:9 final size:9
Alignment explanation
Indices: 108476731--108476771 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
108476721 TTTATACAAA
*
108476731 TAATTCGGT
1 TAATTCGGG
108476740 TAATTCGGG
1 TAATTCGGG
108476749 TAATTCGGG
1 TAATTCGGG
*
108476758 TAATTCGGT
1 TAATTCGGG
108476767 TAATT
1 TAATT
108476772 TTATACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (9 bp):
TAATTCGGG
Found at i:108477564 original size:23 final size:23
Alignment explanation
Indices: 108477530--108477573 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
108477520 TGTACAGACA
108477530 TAGTACCGCTGTGAGCCTCGCGT
1 TAGTACCGCTGTGAGCCTCGCGT
*
108477553 TAGTACCTCTGTGAGCCTCGC
1 TAGTACCGCTGTGAGCCTCGC
108477574 TAGTATCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.32, G:0.27, T:0.27
Consensus pattern (23 bp):
TAGTACCGCTGTGAGCCTCGCGT
Found at i:108478374 original size:16 final size:17
Alignment explanation
Indices: 108478347--108478380 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
108478337 AAATGGATTT
108478347 AATAGAAATTAAATAGA
1 AATAGAAATTAAATAGA
108478364 AATAG-AATTAAATAGA
1 AATAGAAATTAAATAGA
108478380 A
1 A
108478381 TTCTCTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AATAGAAATTAAATAGA
Found at i:108479319 original size:16 final size:16
Alignment explanation
Indices: 108479298--108479348 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
108479288 TTTCTAGTAT
*
108479298 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
108479314 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
108479330 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
108479346 TTT
1 TTT
108479349 GCTCTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:108480349 original size:11 final size:12
Alignment explanation
Indices: 108480319--108480357 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
108480309 CTGAGAGTGG
108480319 TAAAGTAAATAA
1 TAAAGTAAATAA
108480331 -AAAGTAAATAA
1 TAAAGTAAATAA
*
108480342 TAAA-TAAAGAA
1 TAAAGTAAATAA
108480353 TAAAG
1 TAAAG
108480358 AGAATAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 21 0.88
12 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (12 bp):
TAAAGTAAATAA
Found at i:108487642 original size:12 final size:12
Alignment explanation
Indices: 108487625--108487657 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
108487615 TGTTTTTACC
108487625 TAATTCCTTCAA
1 TAATTCCTTCAA
108487637 TAATTCCTTCAA
1 TAATTCCTTCAA
108487649 TAATTCCTT
1 TAATTCCTT
108487658 TTTTTCTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATTCCTTCAA
Found at i:108496064 original size:13 final size:13
Alignment explanation
Indices: 108496046--108496082 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
108496036 AGATAATTAG
108496046 CAAATCATACATA
1 CAAATCATACATA
108496059 CAAATCATACATA
1 CAAATCATACATA
*
108496072 TAAATTCATAC
1 CAAA-TCATAC
108496083 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:108498885 original size:47 final size:47
Alignment explanation
Indices: 108498814--108499311 Score: 834
Period size: 47 Copynumber: 10.5 Consensus size: 47
108498804 ATTCAGCCAA
108498814 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
108498863 GAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
108498910 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
108498959 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
108499006 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
108499055 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
108499102 GAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
108499149 GAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
108499196 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * ** *
108499243 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACATGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
108499290 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
108499312 TCCCGAAGGG
Statistics
Matches: 430, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
47 330 0.77
49 100 0.23
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:108498926 original size:96 final size:96
Alignment explanation
Indices: 108498814--108499311 Score: 855
Period size: 96 Copynumber: 5.2 Consensus size: 96
108498804 ATTCAGCCAA
108498814 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
108498879 GATAAGGCCTAATGACCGATGTGATGAATGT
66 GATAAGGCCTAATGGCCGATGTGATGAATGT
108498910 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
108498975 GATAAGGCCTAATGGCCGATGTGATGAATGT
66 GATAAGGCCTAATGGCCGATGTGATGAATGT
108499006 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
108499071 GATAAGGCCTAATGGCCGATGTGATGAATGT
66 GATAAGGCCTAATGGCCGATGTGATGAATGT
* *
108499102 G-AAG-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
108499165 GATAAGGCCTAATGGCCGATGTGATGAATGT
66 GATAAGGCCTAATGGCCGATGTGATGAATGT
108499196 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
* * * * * ** *
108499259 GACAGGGCCGAGTGGCCAACATGATGGATGT
66 GATAAGGCCTAATGGCCGATGTGATGAATGT
108499290 GAAAGTGTATA-A-ATGTGATAAG
1 GAAAGTGTATATATATGTGATAAG
108499312 TCCCGAAGGG
Statistics
Matches: 386, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
94 184 0.48
95 7 0.02
96 195 0.51
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
GATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:108499568 original size:37 final size:37
Alignment explanation
Indices: 108499430--108499567 Score: 249
Period size: 37 Copynumber: 3.7 Consensus size: 37
108499420 CTGAGCTCTA
108499430 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
108499467 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
108499504 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
108499541 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
108499568 TCGTCTGAGC
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:108501451 original size:21 final size:22
Alignment explanation
Indices: 108501405--108501445 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
108501395 TAGTTATCTA
*
108501405 ATCAATTCTAATCAATGATTCT
1 ATCAATTCTAATCAATAATTCT
*
108501427 ATCAATT-TAATCCATAATT
1 ATCAATTCTAATCAATAATT
108501446 TCATCATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (22 bp):
ATCAATTCTAATCAATAATTCT
Done.