Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 283 of 318
Found at i:90464172 original size:19 final size:21
Alignment explanation
Indices: 90464148--90464186 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90464138 TTTTAAAAAA
90464148 TATAAA-A-TTTGATTTTTTT
1 TATAAATATTTTGATTTTTTT
90464167 TATAAATATTTTGATTTTTT
1 TATAAATATTTTGATTTTTT
90464187 GAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TATAAATATTTTGATTTTTTT
Found at i:90464184 original size:20 final size:20
Alignment explanation
Indices: 90464155--90464218 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
90464145 AAATATAAAA
*
90464155 TTTGATTTTTTTTATAAATAT
1 TTTGA-TTTTTTTAAAAATAT
*
90464176 TTTGATTTTTTGAAAAATAT
1 TTTGATTTTTTTAAAAATAT
* *
90464196 TTTTAATTTTTTAAAAAT-T
1 TTTGATTTTTTTAAAAATAT
90464215 TTTG
1 TTTG
90464219 TTGAGAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 4 0.11
20 28 0.76
21 5 0.14
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTGATTTTTTTAAAAATAT
Found at i:90464211 original size:19 final size:19
Alignment explanation
Indices: 90464162--90464217 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 19
90464152 AAATTTGATT
*
90464162 TTTTTTATAAATA-TTTTGA
1 TTTTTTA-AAATATTTTTAA
90464181 TTTTTTGAAAAATATTTTTAA
1 TTTTTT--AAAATATTTTTAA
90464202 TTTTTTAAAA-ATTTTT
1 TTTTTTAAAATATTTTT
90464218 GTTGAGAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 6 0.18
19 10 0.30
20 5 0.15
21 12 0.36
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTTTAAAATATTTTTAA
Found at i:90479110 original size:24 final size:24
Alignment explanation
Indices: 90479063--90479109 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
90479053 TTTAAAATAG
90479063 AAAAAATTAAAAAATATATATTTT
1 AAAAAATTAAAAAATATATATTTT
**
90479087 AAAAAATTTTAAAATATA-ATTTT
1 AAAAAATTAAAAAATATATATTTT
90479110 TTAAGTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAAAATTAAAAAATATATATTTT
Found at i:90507239 original size:16 final size:17
Alignment explanation
Indices: 90507218--90507259 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
90507208 GGTTCATTGG
90507218 AATGGAATAAGAT-TAT
1 AATGGAATAAGATCTAT
*
90507234 AATGGAAT-AGATCTGT
1 AATGGAATAAGATCTAT
90507250 AATGGAATAA
1 AATGGAATAA
90507260 AGCTGTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 18 0.78
17 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (17 bp):
AATGGAATAAGATCTAT
Found at i:90507265 original size:16 final size:16
Alignment explanation
Indices: 90507233--90507268 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
90507223 AATAAGATTA
* *
90507233 TAATGGAATAGATCTG
1 TAATGGAATAAAGCTG
90507249 TAATGGAATAAAGCTG
1 TAATGGAATAAAGCTG
90507265 TAAT
1 TAAT
90507269 CAATCATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
TAATGGAATAAAGCTG
Found at i:90514920 original size:27 final size:26
Alignment explanation
Indices: 90514875--90514934 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
90514865 CCAATTTATC
90514875 TAAAAATAAATTTTATTAT-TGAAAAA
1 TAAAAATAAATTTTATTATAT-AAAAA
*
90514901 TTAAAAATAACGTTTT-TTATATAAAAA
1 -TAAAAATAA-ATTTTATTATATAAAAA
90514928 TAAAAAT
1 TAAAAAT
90514935 TTATTTATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 7 0.23
27 18 0.60
28 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (26 bp):
TAAAAATAAATTTTATTATATAAAAA
Found at i:90515405 original size:28 final size:28
Alignment explanation
Indices: 90515356--90515422 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
90515346 AATAAAAGTC
* *
90515356 AATAAAAGTTATAAAAATTATTAA-ATTTT
1 AATAAAA-ATATAAAAAGTATTAATA-TTT
*
90515385 AATAAAAATATAAAAAGTATTTATATTT
1 AATAAAAATATAAAAAGTATTAATATTT
*
90515413 ATTAAAAATA
1 AATAAAAATA
90515423 AATAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 25 0.76
29 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (28 bp):
AATAAAAATATAAAAAGTATTAATATTT
Found at i:90515638 original size:9 final size:9
Alignment explanation
Indices: 90515624--90515856 Score: 56
Period size: 9 Copynumber: 25.0 Consensus size: 9
90515614 TTTTAGTATG
90515624 ATAATTTTT
1 ATAATTTTT
90515633 ATAATTTTT
1 ATAATTTTT
*
90515642 -TACGAATTTT
1 ATA--ATTTTT
*
90515652 ATATTTCTTT
1 ATAATT-TTT
*
90515662 ATATTTTTT
1 ATAATTTTT
90515671 ATAATTTGTT
1 ATAATTT-TT
** *
90515681 ACGA-CTTT
1 ATAATTTTT
*
90515689 ATAAAATTTT
1 AT-AATTTTT
90515699 ATAATTTTTTT
1 ATAA--TTTTT
* *
90515710 CTATATTTCT
1 ATA-ATTTTT
*
90515720 AT-ATATTCT
1 ATAAT-TTTT
90515729 ATAATTTTT
1 ATAATTTTT
90515738 -TACGA-TTTT
1 ATA--ATTTTT
*
90515747 ATAAAATTTT
1 AT-AATTTTT
90515757 ATAATTTTTT
1 ATAA-TTTTT
*
90515767 TTCAATTTTTT
1 AT-AA-TTTTT
90515778 ATAATTTTT
1 ATAATTTTT
90515787 AATAAAATTTTT
1 -AT--AATTTTT
90515799 A-ATATTTTT
1 ATA-ATTTTT
90515808 -T-ATTTTT
1 ATAATTTTT
***
90515815 AT-ATAAAT
1 ATAATTTTT
*
90515823 ATATTTTTT
1 ATAATTTTT
*
90515832 ATAAATTTT
1 ATAATTTTT
90515841 AT--TTTTT
1 ATAATTTTT
*
90515848 ATCATTTTT
1 ATAATTTTT
90515857 GTCACATGTC
Statistics
Matches: 168, Mismatches: 28, Indels: 56
0.67 0.11 0.22
Matches are distributed among these distances:
7 12 0.07
8 16 0.10
9 66 0.39
10 47 0.28
11 19 0.11
12 8 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:90515643 original size:10 final size:10
Alignment explanation
Indices: 90515624--90515810 Score: 65
Period size: 10 Copynumber: 19.2 Consensus size: 10
90515614 TTTTAGTATG
90515624 ATAA-TTTTT
1 ATAATTTTTT
90515633 ATAATTTTTT
1 ATAATTTTTT
*
90515643 ACGAA--TTTT
1 A-TAATTTTTT
90515652 AT-ATTTCTTT
1 ATAATTT-TTT
90515662 AT-ATTTTTT
1 ATAATTTTTT
*
90515671 ATAATTTGTT
1 ATAATTTTTT
** *
90515681 ACGA--CTTT
1 ATAATTTTTT
**
90515689 ATAAAATTTT
1 ATAATTTTTT
90515699 ATAATTTTTT
1 ATAATTTTTT
* *
90515709 -TCTATATTTCT
1 AT-AAT-TTTTT
* *
90515720 AT-ATATTCT
1 ATAATTTTTT
90515729 ATAATTTTTT
1 ATAATTTTTT
**
90515739 ACGA--TTTT
1 ATAATTTTTT
**
90515747 ATAAAATTTT
1 ATAATTTTTT
90515757 ATAATTTTTT
1 ATAATTTTTT
*
90515767 TTCAATTTTTT
1 AT-AATTTTTT
*
90515778 ATAATTTTTA
1 ATAATTTTTT
*
90515788 ATAAAATTTTT
1 AT-AATTTTTT
90515799 A-ATATTTTTT
1 ATA-ATTTTTT
90515809 AT
1 AT
90515811 TTTTATATAA
Statistics
Matches: 131, Mismatches: 29, Indels: 34
0.68 0.15 0.18
Matches are distributed among these distances:
7 1 0.01
8 10 0.08
9 23 0.18
10 74 0.56
11 22 0.17
12 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:90515653 original size:19 final size:19
Alignment explanation
Indices: 90515629--90515698 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
90515619 GTATGATAAT
90515629 TTTTATAATTTTTTACGAA
1 TTTTATAATTTTTTACGAA
* *
90515648 TTTTAT-ATTTCTTTA-TATT
1 TTTTATAATTT-TTTACGA-A
* *
90515667 TTTTATAATTTGTTACGAC
1 TTTTATAATTTTTTACGAA
*
90515686 TTTATAAAATTTT
1 TTT-TATAATTTT
90515699 ATAATTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
18 5 0.13
19 22 0.56
20 12 0.31
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAA
Found at i:90515698 original size:28 final size:28
Alignment explanation
Indices: 90515667--90515766 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
90515657 TCTTTATATT
* *
90515667 TTTTATAATTTGTTACGACTTTATAAAA
1 TTTTATAATTTTTTACGAATTTATAAAA
* * * *
90515695 TTTTATAATTTTTTTCTATATTTCTATATA
1 TTTTATAATTTTTTACGA-ATTTATA-AAA
* *
90515725 TTCTATAATTTTTTACGATTTTATAAAA
1 TTTTATAATTTTTTACGAATTTATAAAA
90515753 TTTTATAATTTTTT
1 TTTTATAATTTTTT
90515767 TTCAATTTTT
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
28 30 0.53
29 10 0.18
30 17 0.30
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTATAATTTTTTACGAATTTATAAAA
Found at i:90515706 original size:38 final size:37
Alignment explanation
Indices: 90515624--90515708 Score: 93
Period size: 38 Copynumber: 2.3 Consensus size: 37
90515614 TTTTAGTATG
* *
90515624 ATAA-TTTTTATAATTTTTTACGAATTTTATATTTCT
1 ATAATTTTTTATAATTTGTTACGAATTTTAAATTTCT
* *
90515660 TTATATTTTTTATAATTTGTTACGACTTTATAAAATTT-T
1 ATA-ATTTTTTATAATTTGTTACGAATTT-T-AAATTTCT
90515699 ATAATTTTTT
1 ATAATTTTTT
90515709 TCTATATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
36 2 0.05
37 1 0.03
38 28 0.70
39 4 0.10
40 5 0.12
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (37 bp):
ATAATTTTTTATAATTTGTTACGAATTTTAAATTTCT
Found at i:90515732 original size:58 final size:59
Alignment explanation
Indices: 90515651--90515767 Score: 182
Period size: 58 Copynumber: 2.0 Consensus size: 59
90515641 TTACGAATTT
* *
90515651 TATATTTCTTTATATTTTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTC
1 TATATTTC-TTATATATTCTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTC
* *
90515711 TATATTTC-TATATATTCTATAATTTTTTACGATTTTATAAAATTTTATAATTTTTTT
1 TATATTTCTTATATATTCTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTT
90515768 TCAATTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 45 0.85
60 8 0.15
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.62
Consensus pattern (59 bp):
TATATTTCTTATATATTCTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTC
Found at i:90515797 original size:21 final size:21
Alignment explanation
Indices: 90515743--90515809 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
90515733 TTTTTTACGA
90515743 TTTT-ATAAAA-TTTTATAAT
1 TTTTAATAAAATTTTTATAAT
** * *
90515762 TTTTTTTCAATTTTTTATAAT
1 TTTTAATAAAATTTTTATAAT
*
90515783 TTTTAATAAAATTTTTAATATT
1 TTTTAATAAAATTTTT-ATAAT
90515805 TTTTA
1 TTTTA
90515810 TTTTTATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 4 0.11
20 3 0.08
21 21 0.57
22 9 0.24
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAATAAAATTTTTATAAT
Found at i:90515797 original size:29 final size:29
Alignment explanation
Indices: 90515765--90515821 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
90515755 TTATAATTTT
90515765 TTTTCAAT-TTTTTATAATTTTTA-ATAAAA
1 TTTTCAATATTTTT-T-ATTTTTATATAAAA
*
90515794 TTTTTAATATTTTTTATTTTTATATAAA
1 TTTTCAATATTTTTTATTTTTATATAAA
90515822 TATATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 7 0.28
29 13 0.52
30 5 0.20
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTCAATATTTTTTATTTTTATATAAAA
Found at i:90515845 original size:15 final size:16
Alignment explanation
Indices: 90515805--90515855 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
90515795 TTTTAATATT
90515805 TTTTATTTTTATATAA
1 TTTTATTTTTATATAA
* *
90515821 ATATATTTTT-TATAAA
1 TTTTATTTTTATAT-AA
*
90515837 TTTTATTTTT-TATCA
1 TTTTATTTTTATATAA
90515852 TTTT
1 TTTT
90515856 TGTCACATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTTTTATATAA
Found at i:90515856 original size:16 final size:16
Alignment explanation
Indices: 90515805--90515849 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
90515795 TTTTAATATT
90515805 TTTTATTTTTATATAAA
1 TTTTATTTTT-TATAAA
*
90515822 -TATATTTTTTATAAA
1 TTTTATTTTTTATAAA
90515837 TTTTATTTTTTAT
1 TTTTATTTTTTAT
90515850 CATTTTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTTTTTATAAA
Found at i:90523241 original size:18 final size:20
Alignment explanation
Indices: 90523205--90523242 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
90523195 TCAAGTCCGT
*
90523205 CTAACATAGAGGAGTCCTTG
1 CTAACATAGAGGAGACCTTG
90523225 CTAACA-AG-GGAGACCTTG
1 CTAACATAGAGGAGACCTTG
90523243 ATAAGATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (20 bp):
CTAACATAGAGGAGACCTTG
Found at i:90532522 original size:100 final size:100
Alignment explanation
Indices: 90532349--90532549 Score: 384
Period size: 100 Copynumber: 2.0 Consensus size: 100
90532339 AGAATAACCC
*
90532349 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAATGCAAGAAATCCATA
1 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAAAGCAAGAAATCCATA
90532414 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
66 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
*
90532449 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTTCAAAGCAAGAAATCCATA
1 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAAAGCAAGAAATCCATA
90532514 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
66 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
90532549 T
1 T
90532550 GCGTCCAGCA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.18
Consensus pattern (100 bp):
TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAAAGCAAGAAATCCATA
AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
Found at i:90534555 original size:6 final size:6
Alignment explanation
Indices: 90534544--90534570 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
90534534 ATTGTTGTCC
90534544 ACCTCG ACCTCG ACCTCG ACCTCG ACC
1 ACCTCG ACCTCG ACCTCG ACCTCG ACC
90534571 CTAAGTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.52, G:0.15, T:0.15
Consensus pattern (6 bp):
ACCTCG
Found at i:90535434 original size:28 final size:28
Alignment explanation
Indices: 90535401--90535480 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
90535391 GTACTTTTAT
90535401 AAAATGTTTAATGTGGTACCCTACTTTG
1 AAAATGTTTAATGTGGTACCCTACTTTG
** ** *
90535429 AAAATGTCCAATGTGGTACTTATATTTTG
1 AAAATGTTTAATGTGGTAC-CCTACTTTG
90535458 AAAATGTTTAATGTGGTACCCTA
1 AAAATGTTTAATGTGGTACCCTA
90535481 ACTATCAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 19 0.45
29 23 0.55
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (28 bp):
AAAATGTTTAATGTGGTACCCTACTTTG
Found at i:90536136 original size:62 final size:62
Alignment explanation
Indices: 90536034--90536188 Score: 181
Period size: 62 Copynumber: 2.5 Consensus size: 62
90536024 CAAAGTATAA
* * * *
90536034 GTACCACATTAGACAATTTATGAAAGTACAAGGACTAAATAATACACAAATTGA-TAGTTCAG
1 GTACCACATTGGACATTTTATGAAAATACAAAGACTAAATAATACACAAATT-ACTAGTTCAG
* *
90536096 GTACCACATTGGACATTTTATGAAAATACAAATAGC-AAATAATATACAAATTACTAGTTCAG
1 GTACCACATTGGACATTTTATGAAAATACAAAGA-CTAAATAATACACAAATTACTAGTTCAG
* * *
90536158 GTATCAAATTGAACATTTTAT-AAAAGTACAA
1 GTACCACATTGGACATTTTATGAAAA-TACAA
90536189 GTAACAAAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
61 5 0.06
62 75 0.93
63 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (62 bp):
GTACCACATTGGACATTTTATGAAAATACAAAGACTAAATAATACACAAATTACTAGTTCAG
Found at i:90536257 original size:26 final size:27
Alignment explanation
Indices: 90536205--90536262 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
90536195 AAAGTGACAT
* *
90536205 TACCCCTTTTAAAAACAAAAACCATCC
1 TACCCATTTTAAAAACAAAAACAATCC
90536232 TACCCATTTTCAAAAA-AAAAA-AATCC
1 TACCCATTTT-AAAAACAAAAACAATCC
*
90536258 AACCC
1 TACCC
90536263 TATAAATATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.30
27 14 0.52
28 5 0.19
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (27 bp):
TACCCATTTTAAAAACAAAAACAATCC
Found at i:90536283 original size:13 final size:13
Alignment explanation
Indices: 90536265--90536293 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
90536255 TCCAACCCTA
90536265 TAAATATGAACTT
1 TAAATATGAACTT
90536278 TAAATATGAACTT
1 TAAATATGAACTT
90536291 TAA
1 TAA
90536294 TTTTATGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (13 bp):
TAAATATGAACTT
Found at i:90541778 original size:20 final size:17
Alignment explanation
Indices: 90541723--90541782 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 17
90541713 ATCCAAGTCA
* *
90541723 AATAAAAAAATTAAAAT
1 AATAAATAAATAAAAAT
90541740 AAATAAATAAATAAAAAT
1 -AATAAATAAATAAAAAT
90541758 AATAAATCAAATATAAGAAT
1 AATAAAT-AAATA-AA-AAT
90541778 AATAA
1 AATAA
90541783 GGAAGCGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.19
18 20 0.54
19 2 0.05
20 8 0.22
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
AATAAATAAATAAAAAT
Found at i:90544689 original size:24 final size:24
Alignment explanation
Indices: 90544631--90544697 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
90544621 CGTGGTTATG
90544631 CGGCACTATGTGTGC-AAAAACTA
1 CGGCACTATGTGTGCGAAAAACTA
*
90544654 CATGGCACTATGTGTGCGAGGAAAC-A
1 C--GGCACTATGTGTGCGA-AAAACTA
90544680 CGGCACTATGTGTGCGAA
1 CGGCACTATGTGTGCGAA
90544698 TGAGTAAGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 1 0.03
24 16 0.42
25 14 0.37
26 3 0.08
27 4 0.11
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (24 bp):
CGGCACTATGTGTGCGAAAAACTA
Found at i:90546944 original size:46 final size:45
Alignment explanation
Indices: 90546891--90547066 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
90546881 TATTTGGGCA
*
90546891 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
90546937 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
90546984 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
90547030 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90547067 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:90547046 original size:93 final size:93
Alignment explanation
Indices: 90546887--90547059 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
90546877 GGGATATTTG
* *
90546887 GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
90546952 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
90546980 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
90547045 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
90547060 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:90551881 original size:51 final size:51
Alignment explanation
Indices: 90551818--90551937 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
90551808 AACTAAGTTA
* *
90551818 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATAAT
* * * * *
90551869 TCCGGATGAAATATGATGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATAAT
*
90551920 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
90551938 TAAGTTTGAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAGTAATAAT
Found at i:90557888 original size:45 final size:45
Alignment explanation
Indices: 90557839--90557927 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
90557829 AGATGAAACT
*
90557839 TGCCACT-GAGCTGTGGGTGCA-ATGCAAAATATCACAAATAAAATC
1 TGCCACTAG-GCTATGGGTGCACA-GCAAAATATCACAAATAAAATC
* *
90557884 TGCCACTAGGCTATGGGTGCACAGCAAAATATCATAGATAAAAT
1 TGCCACTAGGCTATGGGTGCACAGCAAAATATCACAAATAAAAT
90557928 ATATCACTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (45 bp):
TGCCACTAGGCTATGGGTGCACAGCAAAATATCACAAATAAAATC
Found at i:90557942 original size:45 final size:45
Alignment explanation
Indices: 90557841--90557951 Score: 109
Period size: 45 Copynumber: 2.4 Consensus size: 45
90557831 ATGAAACTTG
* * *
90557841 CCACTGAGCTGTGGGTGCA-ATGCAAAATATCACAAATAAAATCTG
1 CCACTG-GCTATGGGTGCACATGCAAAATATCACAAATAAAATATA
* *
90557886 CCACTAGGCTATGGGTGCACA-GCAAAATATCATAGATAAAATATA
1 CCACT-GGCTATGGGTGCACATGCAAAATATCACAAATAAAATATA
* * *
90557931 TCACTGTGCTATAGATGCACA
1 CCACTG-GCTATGGGTGCACA
90557952 ATATATTTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
44 1 0.02
45 52 0.95
46 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (45 bp):
CCACTGGCTATGGGTGCACATGCAAAATATCACAAATAAAATATA
Found at i:90558187 original size:34 final size:34
Alignment explanation
Indices: 90558138--90558223 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
90558128 TTAATATGAT
* * *
90558138 ACAATTTAATTATGCTTTTAACAGGACAATACGGTA
1 ACAA-TTAA-TATGCTTATAACAAGACAATACAGTA
**
90558174 ACAATTAATATGCTTATAACAATTCAATACAGTA
1 ACAATTAATATGCTTATAACAAGACAATACAGTA
* *
90558208 GCAAATAATATGCTTA
1 ACAATTAATATGCTTA
90558224 AAATAGATCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 35 0.81
35 4 0.09
36 4 0.09
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (34 bp):
ACAATTAATATGCTTATAACAAGACAATACAGTA
Found at i:90559216 original size:15 final size:16
Alignment explanation
Indices: 90559184--90559218 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
90559174 TGGTGTAAAG
90559184 AAAAGAGAATGAAAATA
1 AAAAGAGAAT-AAAATA
90559201 AAAAGAGAAT-AAATA
1 AAAAGAGAATAAAATA
90559216 AAA
1 AAA
90559219 GGATGAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
17 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAGAGAATAAAATA
Found at i:90563041 original size:120 final size:120
Alignment explanation
Indices: 90562904--90563341 Score: 849
Period size: 120 Copynumber: 3.6 Consensus size: 120
90562894 GAATTTTTGT
90562904 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAA
1 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAA
*
90562969 TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTATTAAATTTA
66 TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
*
90563024 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA
1 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAA
90563089 TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
66 TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
90563144 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAA
1 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAA
90563209 TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
66 TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
*
90563264 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATGTTTTTAATAA
1 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAA
90563329 TAATTATGTTAAA
66 TAATTATGTTAAA
90563342 ATATGATTAA
Statistics
Matches: 314, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 314 1.00
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (120 bp):
TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAA
TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
Found at i:90563051 original size:61 final size:61
Alignment explanation
Indices: 90562986--90563293 Score: 263
Period size: 57 Copynumber: 5.1 Consensus size: 61
90562976 GTTAAATTAT
90562986 ATTTTATAGTATCATATATTATGATTTTATTAAATTTATATAAGAATATTGATTATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTATTAAATTTATATAAGAATATTGATTATTAAGA
* * * * * *
90563047 ATTTTAT--TA-AAT-TA-TAT-ATTTTAATTAAAATATATTTAATAATAATT-ATGT-TAAATT
1 ATTTTATAGTATCATATATTATGATTTT-ATT-AAATTTATATAAGAAT-ATTGAT-TATTAA-G
90563104 A
61 A
*
90563105 TATTTTATAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATATTGATTATTAAGA
1 -ATTTTATAGTATCATATATTATGATTTTATTAAATTTATATAAGAATATTGATTATTAAGA
* * * *
90563167 ATTTTAT--TA-AAT-TA-TAT-ATTTTAATTAAAATATT-TTTAATAATAATT-ATGT-TAAAT
1 ATTTTATAGTATCATATATTATGATTTT-ATT-AAAT-TTATATAAGAAT-ATTGAT-TATTAA-
*
90563223 TA
60 GA
*
90563225 TATTTTATAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATATTGATTATTAAGA
1 -ATTTTATAGTATCATATATTATGATTTTATTAAATTTATATAAGAATATTGATTATTAAGA
90563287 ATTTTAT
1 ATTTTAT
90563294 TAAATTATAT
Statistics
Matches: 192, Mismatches: 25, Indels: 60
0.69 0.09 0.22
Matches are distributed among these distances:
55 10 0.05
56 11 0.06
57 38 0.20
58 16 0.08
59 18 0.09
61 25 0.13
62 16 0.08
63 38 0.20
64 10 0.05
65 10 0.05
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (61 bp):
ATTTTATAGTATCATATATTATGATTTTATTAAATTTATATAAGAATATTGATTATTAAGA
Found at i:90563075 original size:18 final size:17
Alignment explanation
Indices: 90563047--90563081 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90563037 ATTATTAAGA
*
90563047 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
90563064 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
90563082 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:90563101 original size:44 final size:43
Alignment explanation
Indices: 90563053--90563341 Score: 122
Period size: 44 Copynumber: 7.1 Consensus size: 43
90563043 AAGAATTTTA
90563053 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 TTAAATTATATATTTTAATTAAAATATA-TTAATAATAATTATG
* ** * *
90563097 TTAAA-T-TATATTTTATAGTATCATATATT-ATGAT-TTTA-G
1 TTAAATTATATATTTTA-ATTAAAATATATTAATAATAATTATG
* * * * * *
90563136 -TAAATT-TATA---TAA-GAATAT-TGATTATTAAGAATTTTA
1 TTAAATTATATATTTTAATTAAAATAT-ATTAATAATAATTATG
*
90563173 TTAAATTATATATTTTAATTAAAATATTTTTAATAATAATTATG
1 TTAAATTATATATTTTAATTAAAATA-TATTAATAATAATTATG
* ** * *
90563217 TTAAA-T-TATATTTTATAGTATCATATATT-ATGAT-TTTA-G
1 TTAAATTATATATTTTA-ATTAAAATATATTAATAATAATTATG
* * * * * *
90563256 -TAAATT-TATA---TAA-GAATAT-TGATTATTAAGAATTTTA
1 TTAAATTATATATTTTAATTAAAATAT-ATTAATAATAATTATG
* *
90563293 TTAAATTATATATTTTAATTAAAATGTTTTTAATAATAATTATG
1 TTAAATTATATATTTTAATTAAAAT-ATATTAATAATAATTATG
90563337 TTAAA
1 TTAAA
90563342 ATATGATTAA
Statistics
Matches: 174, Mismatches: 43, Indels: 56
0.64 0.16 0.21
Matches are distributed among these distances:
33 2 0.01
34 12 0.07
35 6 0.03
36 8 0.05
38 20 0.11
39 20 0.11
40 6 0.03
41 8 0.05
42 29 0.17
43 24 0.14
44 37 0.21
45 2 0.01
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.51
Consensus pattern (43 bp):
TTAAATTATATATTTTAATTAAAATATATTAATAATAATTATG
Found at i:90563438 original size:157 final size:157
Alignment explanation
Indices: 90563277--90563584 Score: 553
Period size: 157 Copynumber: 2.0 Consensus size: 157
90563267 AAGAATATTG
* *
90563277 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATGTTTTTAATAATAATTATGTTAAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
* *
90563342 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
90563407 ATAATTTACCAAAACAAATTTCTTGTA
131 ATAATTTACCAAAACAAATTTCTTGTA
* *
90563434 ATTATTAATAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
90563499 ATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
*
90563564 ATCATTTACCAAAACAAATTT
131 ATAATTTACCAAAACAAATTT
90563585 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
ATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
ATAATTTACCAAAACAAATTTCTTGTA
Found at i:90563472 original size:18 final size:17
Alignment explanation
Indices: 90563444--90563478 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90563434 ATTATTAATA
*
90563444 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
90563461 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
90563479 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:90563735 original size:16 final size:16
Alignment explanation
Indices: 90563714--90563781 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
90563704 GATTTGCTAT
90563714 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
90563730 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
90563746 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
90563762 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
90563778 TACA
1 TACA
90563782 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:90569009 original size:14 final size:14
Alignment explanation
Indices: 90568990--90569016 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
90568980 AATCACCCCA
90568990 ATTTTATTTTACTT
1 ATTTTATTTTACTT
90569004 ATTTTATTTTACT
1 ATTTTATTTTACT
90569017 AATTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTATTTTACTT
Found at i:90569071 original size:8 final size:8
Alignment explanation
Indices: 90569046--90569111 Score: 57
Period size: 7 Copynumber: 8.1 Consensus size: 8
90569036 TATCTAATAC
90569046 TTATACTTT
1 TTATA-TTT
* *
90569055 TAATTTTT
1 TTATATTT
90569063 TTATATTT
1 TTATATTT
90569071 TTATA-TT
1 TTATATTT
90569078 TTAT-TTT
1 TTATATTT
90569085 TTATATACTT
1 TTATAT--TT
90569095 TTATTATTT
1 TTA-TATTT
90569104 TTAT-TTT
1 TTATATTT
90569111 T
1 T
90569112 ATTTAGCTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
7 16 0.33
8 16 0.33
9 8 0.17
10 5 0.10
11 3 0.06
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATATTT
Found at i:90569072 original size:17 final size:18
Alignment explanation
Indices: 90569046--90569079 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
90569036 TATCTAATAC
90569046 TTATACTTTTA-ATTTTT
1 TTATACTTTTATATTTTT
*
90569063 TTATATTTTTATATTTT
1 TTATACTTTTATATTTT
90569080 ATTTTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATACTTTTATATTTTT
Found at i:90569139 original size:8 final size:8
Alignment explanation
Indices: 90569052--90569111 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
90569042 ATACTTATAC
*
90569052 TTTTAATT
1 TTTTTATT
*
90569060 TTTTTATA
1 TTTTTATT
90569068 TTTTTA-T
1 TTTTTATT
*
90569075 ATTTTATT
1 TTTTTATT
*
90569083 TTTTATATA
1 TTTT-TATT
*
90569092 CTTTTATT
1 TTTTTATT
90569100 ATTTTTATT
1 -TTTTTATT
90569109 TTT
1 TTT
90569112 ATTTAGCTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 5 0.12
8 22 0.55
9 13 0.32
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATT
Found at i:90570133 original size:22 final size:22
Alignment explanation
Indices: 90570087--90570133 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
90570077 TATTAGATAT
**
90570087 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
90570109 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
90570131 TAA
1 TAA
90570134 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:90570407 original size:21 final size:21
Alignment explanation
Indices: 90570361--90570400 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
90570351 GCAGGGGAAG
90570361 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
90570382 GAAAG-AAGAAAAAG-GAAAA
1 GAAAGAAAGAAAAAGAGAAAA
90570401 ATTAAAGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:90572151 original size:23 final size:23
Alignment explanation
Indices: 90572119--90572163 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
90572109 CGAAATACAG
*
90572119 CTCTTCGTGAGCTTCCCGATAGA
1 CTCTTCGTGAGCCTCCCGATAGA
* *
90572142 CTCTTTGTGAGCCTGCCGATAG
1 CTCTTCGTGAGCCTCCCGATAG
90572164 TGCTCGCTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.31
Consensus pattern (23 bp):
CTCTTCGTGAGCCTCCCGATAGA
Found at i:90575009 original size:30 final size:30
Alignment explanation
Indices: 90574973--90575030 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
90574963 CCTGAGCATT
*
90574973 TCCACACGGGCTGGCCACACGCCCATGTGA
1 TCCACACGGGCTAGCCACACGCCCATGTGA
*
90575003 TCCACACGGGCTAGCCACACGCCTATGT
1 TCCACACGGGCTAGCCACACGCCCATGT
90575031 ACCCGTTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.40, G:0.24, T:0.16
Consensus pattern (30 bp):
TCCACACGGGCTAGCCACACGCCCATGTGA
Found at i:90577650 original size:20 final size:21
Alignment explanation
Indices: 90577615--90577653 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
90577605 ATGGTATATA
90577615 TAATTAACTAGTTAATCAACT
1 TAATTAACTAGTTAATCAACT
*
90577636 TAATTAA-TTGTTAATCAA
1 TAATTAACTAGTTAATCAA
90577654 ATGGATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATTAACTAGTTAATCAACT
Found at i:90589490 original size:45 final size:46
Alignment explanation
Indices: 90589422--90589514 Score: 152
Period size: 45 Copynumber: 2.0 Consensus size: 46
90589412 GAACTTAGAG
* *
90589422 AACTAAGTTGGGTATCACTACCATGAATTCGTCAACCATTGGGCTT
1 AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTGGGCTT
*
90589468 AACTACGTT-GGTATCACCACCATGAATTCCTCAACCATTGGGCTT
1 AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTGGGCTT
90589513 AA
1 AA
90589515 AGACTTATCC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 36 0.82
46 8 0.18
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (46 bp):
AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTGGGCTT
Found at i:90590408 original size:46 final size:46
Alignment explanation
Indices: 90590344--90590748 Score: 557
Period size: 46 Copynumber: 8.8 Consensus size: 46
90590334 TTTGAGATGA
* * * * *
90590344 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCATGT
* * * *
90590390 TTCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
90590436 TGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
90590482 TGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
* * *
90590528 TGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
* *
90590574 TGCTATGGTATCTTTCAACCATGGTTTTATTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCATGT
** **
90590620 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
90590666 TGCCATGGTATCTTTCAACCATGGTCTCA--CATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
**
90590710 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
90590749 TTTAGAAAGC
Statistics
Matches: 323, Mismatches: 31, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
44 41 0.13
45 8 0.02
46 270 0.84
47 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
Found at i:90592845 original size:11 final size:11
Alignment explanation
Indices: 90592823--90592852 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
90592813 TTCCTTACAT
90592823 ATAATAAATAAA
1 ATAAT-AATAAA
90592835 ATAATAATAAA
1 ATAATAATAAA
90592846 ATAATAA
1 ATAATAA
90592853 AATATCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:90594465 original size:26 final size:26
Alignment explanation
Indices: 90594431--90594516 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 26
90594421 ATCCACTCAT
90594431 GGTCCTCTG-CCTAACTCAAACTCAAA
1 GGTCCTCTGACC-AACTCAAACTCAAA
* *
90594457 GGTCTTCTGACCAACTCAAGCTC-AA
1 GGTCCTCTGACCAACTCAAACTCAAA
* * * *
90594482 TGACCTTCGGACCCACTCAAACTCAAA
1 GGTCC-TCTGACCAACTCAAACTCAAA
*
90594509 GGACCTCT
1 GGTCCTCT
90594517 AACCCATCTC
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
25 4 0.09
26 35 0.74
27 8 0.17
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.22
Consensus pattern (26 bp):
GGTCCTCTGACCAACTCAAACTCAAA
Found at i:90594521 original size:26 final size:26
Alignment explanation
Indices: 90594444--90594522 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
90594434 CCTCTGCCTA
* * *
90594444 ACTCAAACTCAAAGGTCTTCTGACCA
1 ACTCAAACTCAAAGGACCTCTGACCC
* * *
90594470 ACTCAAGCTC-AATGACCTTCGGACCC
1 ACTCAAACTCAAAGGACC-TCTGACCC
*
90594496 ACTCAAACTCAAAGGACCTCTAACCC
1 ACTCAAACTCAAAGGACCTCTGACCC
90594522 A
1 A
90594523 TCTCGACTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
25 4 0.10
26 31 0.76
27 6 0.15
ACGTcount: A:0.34, C:0.35, G:0.11, T:0.19
Consensus pattern (26 bp):
ACTCAAACTCAAAGGACCTCTGACCC
Found at i:90595566 original size:19 final size:19
Alignment explanation
Indices: 90595544--90595581 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
90595534 AAGCTAATAA
90595544 AAATCTAGTTAAAT-AATTG
1 AAAT-TAGTTAAATGAATTG
*
90595563 AAATTTGTTAAATGAATTG
1 AAATTAGTTAAATGAATTG
90595582 TACAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (19 bp):
AAATTAGTTAAATGAATTG
Found at i:90597525 original size:28 final size:29
Alignment explanation
Indices: 90597493--90597548 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
90597483 TTACCTAAAT
90597493 AATAT-AAAAA-ATAATTAATTACGAAAAA
1 AATATAAAAAACATAA-TAATTACGAAAAA
90597521 AATATAAAAAACATAATAATTACGAAAA
1 AATATAAAAAACATAATAATTACGAAAA
90597549 TAAGTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 5 0.19
29 17 0.65
30 4 0.15
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (29 bp):
AATATAAAAAACATAATAATTACGAAAAA
Found at i:90598458 original size:27 final size:28
Alignment explanation
Indices: 90598406--90598458 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
90598396 CAAATGACTA
*
90598406 TTTTTGTAATTATTCTATTTTCTATACC
1 TTTTTGTAATTAATCTATTTTCTATACC
90598434 TTTTTCGTAATTAAT-TATTTT-TATA
1 TTTTT-GTAATTAATCTATTTTCTATA
90598459 TTATTTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.48
29 8 0.35
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTTGTAATTAATCTATTTTCTATACC
Found at i:90599984 original size:42 final size:42
Alignment explanation
Indices: 90599908--90600008 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
90599898 CTCGATTTGA
*** *
90599908 GATTTACGTGTAAGACTATGTCTGGGACATAGGCATC-ATATCT
1 GATTT-CGTGTAAGACTATGTCTAAAACAGAGGCATCGATA-CT
*
90599951 GATTTCGTGTAAGACTTTGTCTAAAACAGAGGCATCGATACT
1 GATTTCGTGTAAGACTATGTCTAAAACAGAGGCATCGATACT
* *
90599993 GAATTACATGTAAGAC
1 G-ATTTCGTGTAAGAC
90600009 CACGTCCGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 29 0.59
43 20 0.41
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
GATTTCGTGTAAGACTATGTCTAAAACAGAGGCATCGATACT
Found at i:90607512 original size:42 final size:43
Alignment explanation
Indices: 90607465--90607578 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
90607455 TGAGATTTAT
* *
90607465 GTGTAAGACCATGTCTGGGACATAGGCATCG-TATCT-GATTTC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATA-CTAAATTAC
* * *
90607507 GTGTAAGACCCTATCTGGGACAGAGGCATCGATACTAAATTAC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATACTAAATTAC
* * * *
90607550 ATGTAAGACCACGTCCGGGACATCGGCAT
1 GTGTAAGACCATGTCTGGGACATAGGCAT
90607579 TGTGCCCGTT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATAGGCATCGATACTAAATTAC
Found at i:90612693 original size:3 final size:3
Alignment explanation
Indices: 90612687--90612785 Score: 57
Period size: 3 Copynumber: 33.0 Consensus size: 3
90612677 TTCTGTTTTT
* *
90612687 TTA TTA TTTA TTA TTA TTA -TG TTA TTTA TTG TTA TTA TTA -TA TT-
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* *
90612731 TT- TTGCA -TA TATA ATA TT- TATA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TT--A TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
*
90612777 TCA TTA TTA
1 TTA TTA TTA
90612786 GTATATTTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
2 9 0.12
3 56 0.75
4 10 0.13
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:90613014 original size:25 final size:24
Alignment explanation
Indices: 90612986--90613047 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
90612976 TGTTTATATA
90612986 TATTATTATGTATATATTTTAACAC
1 TATTATTATGTATATATTTT-ACAC
* *
90613011 TATTAGTTA--TATATCTTTTATAC
1 TATTA-TTATGTATATATTTTACAC
90613034 TATT-TTATGTATAT
1 TATTATTATGTATAT
90613048 TTCTAATATC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.09
23 12 0.38
24 9 0.28
25 5 0.16
26 3 0.09
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTATGTATATATTTTACAC
Found at i:90613065 original size:19 final size:19
Alignment explanation
Indices: 90613041--90613078 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
90613031 TACTATTTTA
*
90613041 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
90613060 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
90613079 CATTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:90613501 original size:26 final size:28
Alignment explanation
Indices: 90613453--90613508 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
90613443 ATTATACCTA
*
90613453 TTATTTTCACTATTATCACGTAT-TATT
1 TTATTTTCAATATTATCACGTATATATT
* *
90613480 TTATTTT-AATATTATTATGTATATATT
1 TTATTTTCAATATTATCACGTATATATT
90613507 TT
1 TT
90613509 TCATATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.61
Consensus pattern (28 bp):
TTATTTTCAATATTATCACGTATATATT
Found at i:90619751 original size:27 final size:27
Alignment explanation
Indices: 90619703--90619861 Score: 148
Period size: 27 Copynumber: 5.9 Consensus size: 27
90619693 GCGAGGCTGC
* *
90619703 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
90619730 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
90619756 CAGATATATGTGACAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
90619783 CAAATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
90619810 CAGATATATGTGGTAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
90619837 CAGATAATTGTGGTATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
90619862 GACGCTTCCT
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
26 10 0.09
27 95 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:90619862 original size:54 final size:54
Alignment explanation
Indices: 90619703--90619864 Score: 213
Period size: 54 Copynumber: 3.0 Consensus size: 54
90619693 GCGAGGCTGC
* * *
90619703 CAGATAT-TGTGAC-GAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGACAG-AGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
90619756 CAGATATATGTGACAGAGCCACCAGATCAAATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
** * *
90619810 CAGATATATGTGGTAGAGCCACTAGATCAGATAATTGTGGTATAGCCACCAGGA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
90619864 C
1 C
90619865 GCTTCCTCCA
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
53 11 0.11
54 85 0.88
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:90621490 original size:26 final size:26
Alignment explanation
Indices: 90621459--90621566 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90621449 TGAAATGCCC
*
90621459 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
90621485 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90621511 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
90621537 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90621563 ATCA
1 ATCA
90621567 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90629411 original size:27 final size:27
Alignment explanation
Indices: 90629363--90629521 Score: 159
Period size: 27 Copynumber: 5.9 Consensus size: 27
90629353 GTGAGGCTGC
* * *
90629363 CAGATATTGTGAC-GAAGTCACCATATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
90629390 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
90629416 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
90629443 CAGATAATTGTGGCATAACCACCAGGA-A
1 CAGAT-ATTGTGGCAGAGCCACCA-GATA
90629471 -AGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
90629497 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
90629522 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
26 12 0.11
27 93 0.83
28 7 0.06
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:90629522 original size:54 final size:55
Alignment explanation
Indices: 90629381--90629523 Score: 220
Period size: 54 Copynumber: 2.6 Consensus size: 55
90629371 GTGACGAAGT
* * *
90629381 CACCATATACAGAT-ATTGTGGTAGAGCCACCA-GAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGAACAGATATATGTGGCAGAGC
*
90629435 CACCAGATCAGATAATTGTGGCATAACCACCAGGAA-AGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAACAGATATATGTGGCAGAGC
90629489 CACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGA
90629524 CGCTTCCTCC
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
53 5 0.06
54 74 0.90
55 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (55 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGAACAGATATATGTGGCAGAGC
Found at i:90636440 original size:27 final size:27
Alignment explanation
Indices: 90636369--90636533 Score: 221
Period size: 27 Copynumber: 6.1 Consensus size: 27
90636359 AGCATGGTTG
* *
90636369 CCAGAACAGATATA--TGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
90636394 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
90636422 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
*
90636449 CCAGATCAGATA-ATCGTGGCAGAGCCA
1 CCAGAACAGATATAT-GTGGCAGAGCCA
90636476 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
90636503 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
90636530 CCAG
1 CCAG
90636534 GACGCTTCCT
Statistics
Matches: 126, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
25 6 0.05
26 9 0.07
27 93 0.74
28 18 0.14
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:90636470 original size:54 final size:54
Alignment explanation
Indices: 90636369--90636533 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
90636359 AGCATGGTTG
* *
90636369 CCAGAACAGATATA--TGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
90636422 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * *
90636476 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
90636530 CCAG
1 CCAG
90636534 GACGCTTCCT
Statistics
Matches: 105, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
53 14 0.13
54 76 0.72
55 15 0.14
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:90636787 original size:16 final size:17
Alignment explanation
Indices: 90636766--90636798 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
90636756 CCAACTTGGG
90636766 CCCG-TTGGCCCATTAT
1 CCCGTTTGGCCCATTAT
90636782 CCCGTTTTGGCCCATTA
1 CCCG-TTTGGCCCATTA
90636799 AGCCCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.36, G:0.18, T:0.33
Consensus pattern (17 bp):
CCCGTTTGGCCCATTAT
Found at i:90660045 original size:17 final size:19
Alignment explanation
Indices: 90660006--90660047 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
90659996 TTTGGTAATA
*
90660006 ATAATATAATAATATGTAC
1 ATAATATAATAATATGCAC
*
90660025 ATAATAT-AT-ATATGCAT
1 ATAATATAATAATATGCAC
90660042 ATAATA
1 ATAATA
90660048 AAGTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.57
18 2 0.10
19 7 0.33
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
ATAATATAATAATATGCAC
Found at i:90660775 original size:18 final size:18
Alignment explanation
Indices: 90660752--90660800 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
90660742 TTTCTTGGTT
90660752 TTTTTTTTTGGGGTTAGG
1 TTTTTTTTTGGGGTTAGG
*
90660770 TTTTTTTTTTGGGTTAGG
1 TTTTTTTTTGGGGTTAGG
90660788 TTTTTTTTTGGGG
1 TTTTTTTTTGGGG
90660801 GCTTAATGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.04, C:0.00, G:0.31, T:0.65
Consensus pattern (18 bp):
TTTTTTTTTGGGGTTAGG
Found at i:90660993 original size:21 final size:21
Alignment explanation
Indices: 90660967--90661007 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
90660957 TTACATGAAC
*
90660967 TAATTTTAAAT-TATTTGGTAG
1 TAATTTAAAATCTA-TTGGTAG
90660988 TAATTTAAAATCTATTGGTA
1 TAATTTAAAATCTATTGGTA
90661008 CATATGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (21 bp):
TAATTTAAAATCTATTGGTAG
Found at i:90662802 original size:13 final size:13
Alignment explanation
Indices: 90662786--90662811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90662776 ATTATTTCTT
90662786 ATTTTACATTAAA
1 ATTTTACATTAAA
90662799 ATTTTACATTAAA
1 ATTTTACATTAAA
90662812 TAATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTACATTAAA
Found at i:90682744 original size:27 final size:27
Alignment explanation
Indices: 90682714--90682848 Score: 131
Period size: 27 Copynumber: 5.1 Consensus size: 27
90682704 GTGACGAAGT
* *
90682714 CACCATATACAGATATTGTGGTAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
90682741 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
90682768 CACCAGAT-CAGATAATTGTGGCATAAC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
90682795 CACCAGGA-A-AGATATAT-TGG-AGAGC
1 CACCA-GATACAGATAT-TGTGGCAGAGC
*
90682820 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
90682847 CA
1 CA
90682849 AGGACGCTTC
Statistics
Matches: 90, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
24 2 0.02
25 13 0.14
26 18 0.20
27 53 0.59
28 4 0.04
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:90682786 original size:54 final size:52
Alignment explanation
Indices: 90682714--90682842 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 52
90682704 GTGACGAAGT
* * *
90682714 CACCATATACAGAT-ATTGTGGTAGAGCCACCA-GAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAACCACCAGGAA-AGATATAT-TGG-AGAGC
*
90682768 CACCAGATCAGATAATTGTGGCATAACCACCAGGAAAGATATATTGGAGAGC
1 CACCAGATCAGATAATTGTGGCAGAACCACCAGGAAAGATATATTGGAGAGC
90682820 CACCAGATCAGATAATTGTGGCA
1 CACCAGATCAGATAATTGTGGCA
90682843 TAGCCAAGGA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
52 28 0.41
53 8 0.12
54 30 0.43
55 3 0.04
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (52 bp):
CACCAGATCAGATAATTGTGGCAGAACCACCAGGAAAGATATATTGGAGAGC
Found at i:90682836 original size:52 final size:54
Alignment explanation
Indices: 90682714--90682844 Score: 180
Period size: 52 Copynumber: 2.5 Consensus size: 54
90682704 GTGACGAAGT
* * * *
90682714 CACCATATACAGAT-ATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAACCACCAGAACAGATATATGTGGCAGAGC
90682768 CACCAGATCAGATAATTGTGGCATAACCACCAGGAA-AGATATAT-TGG-AGAGC
1 CACCAGATCAGATAATTGTGGCATAACCACCA-GAACAGATATATGTGGCAGAGC
90682820 CACCAGATCAGATAATTGTGGCATA
1 CACCAGATCAGATAATTGTGGCATA
90682845 GCCAAGGACG
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
52 30 0.42
53 8 0.11
54 30 0.42
55 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAACCACCAGAACAGATATATGTGGCAGAGC
Found at i:90689770 original size:27 final size:26
Alignment explanation
Indices: 90689735--90689900 Score: 215
Period size: 27 Copynumber: 6.2 Consensus size: 26
90689725 AGCATGGTTG
* * *
90689735 CCAGAACAGATAATATGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
90689761 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
90689789 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
90689816 CCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
90689843 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
90689870 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
90689897 CCAG
1 CCAG
90689901 GACGCTTCCT
Statistics
Matches: 127, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.06
27 102 0.80
28 18 0.14
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:90689799 original size:54 final size:54
Alignment explanation
Indices: 90689735--90689900 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
90689725 AGCATGGTTG
* * *
90689735 CCAGAACAGATA-ATATGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
90689789 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * *
90689843 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
90689897 CCAG
1 CCAG
90689901 GACGCTTCCT
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
54 88 0.84
55 17 0.16
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:90689852 original size:81 final size:81
Alignment explanation
Indices: 90689735--90689900 Score: 237
Period size: 81 Copynumber: 2.0 Consensus size: 81
90689725 AGCATGGTTG
*
90689735 CCAGAACAGATAATATGACAGAGTCACCAGATACAGATA-ATCGTGGCAGAGCCACCAGAACAGA
1 CCAGAACAGATAATATGACAGAGCCACCAGATACAGATATAT-GTGGCAGAGCCACCAGAACAGA
90689799 TATATGTGGCAGAGCCA
65 TATATGTGGCAGAGCCA
* * * *
90689816 CCAGATCAGATAATCGTGGCAGAGCCACCAGA-ACAGATATATGTGGCAGAGCCACCAGATCAGA
1 CCAGAACAGATAAT-ATGACAGAGCCACCAGATACAGATATATGTGGCAGAGCCACCAGAACAGA
* *
90689880 TATTTGTGGCATAGCCA
65 TATATGTGGCAGAGCCA
90689897 CCAG
1 CCAG
90689901 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 60 0.79
82 16 0.21
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (81 bp):
CCAGAACAGATAATATGACAGAGCCACCAGATACAGATATATGTGGCAGAGCCACCAGAACAGAT
ATATGTGGCAGAGCCA
Found at i:90699510 original size:27 final size:27
Alignment explanation
Indices: 90699470--90699628 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
90699460 AGGAAGCGTC
*
90699470 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
90699497 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
90699523 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
90699551 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
90699578 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
90699605 CTGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
90699629 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 102 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:90699549 original size:54 final size:54
Alignment explanation
Indices: 90699467--90699628 Score: 256
Period size: 54 Copynumber: 3.0 Consensus size: 54
90699457 TGGAGGAAGC
90699467 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
90699521 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
90699575 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTTTGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
90699628 G
1 G
90699629 GCAGCCTCGC
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
53 13 0.13
54 89 0.87
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:90699609 original size:81 final size:80
Alignment explanation
Indices: 90699470--90699628 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 80
90699460 AGGAAGCGTC
*
90699470 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
90699535 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
90699551 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
90699614 TTGTCACAATATCTG
64 ATGCCACAATATCTG
90699629 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
80 16 0.23
81 54 0.77
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:90706831 original size:43 final size:44
Alignment explanation
Indices: 90706769--90706852 Score: 134
Period size: 43 Copynumber: 1.9 Consensus size: 44
90706759 ATGCCTAAAA
* *
90706769 AAAAAGAGATCAAGGTGAAAACCTGAAAAGGGCATCTTGATAAT
1 AAAAAGAGATCAAGGTGAAAACCCGAAAAAGGCATCTTGATAAT
*
90706813 AAAAAG-GATCAAGGTGAAAACCCGAAAAAGGCGTCTTGAT
1 AAAAAGAGATCAAGGTGAAAACCCGAAAAAGGCATCTTGAT
90706853 TAACACAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 31 0.84
44 6 0.16
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (44 bp):
AAAAAGAGATCAAGGTGAAAACCCGAAAAAGGCATCTTGATAAT
Found at i:90707804 original size:14 final size:14
Alignment explanation
Indices: 90707785--90707816 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
90707775 TGCTGAGCTG
*
90707785 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
90707799 TTTTCAATTTATGT
1 TTTTCAATTTATGT
90707813 TTTT
1 TTTT
90707817 GAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:90707907 original size:74 final size:74
Alignment explanation
Indices: 90707799--90708113 Score: 474
Period size: 73 Copynumber: 4.2 Consensus size: 74
90707789 CAATTTCTGT
* * *
90707799 TTTTCAATTTATGTTTTTGAAAAATCAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGT
1 TTTTCAATTTCTGTTTTT-CAAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
90707864 CACGCTGAGGTA
63 CACGCTGAGGTA
* *
90707876 TTTTTAATTCCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
*
90707941 GCTAAGGTA
66 GCTGAGGTA
* *
90707950 TTTTCAATTTCTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
90708014 GCTGAGGTA
66 GCTGAGGTA
*
90708023 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
1 TTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
90708086 TGCTGAGGTA
65 CGCTGAGGTA
*
90708096 TTTTCAATTTCTATTTTT
1 TTTTCAATTTCTGTTTTT
90708114 TTCAATTTAT
Statistics
Matches: 220, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
73 95 0.43
74 65 0.30
75 41 0.19
76 4 0.02
77 15 0.07
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
GCTGAGGTA
Found at i:90708117 original size:16 final size:16
Alignment explanation
Indices: 90708096--90708129 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
90708086 TGCTGAGGTA
*
90708096 TTTTCAATTTCTATTT
1 TTTTCAATTTATATTT
90708112 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
90708128 TT
1 TT
90708130 CAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:90708128 original size:14 final size:16
Alignment explanation
Indices: 90708096--90708132 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
90708086 TGCTGAGGTA
*
90708096 TTTTCAATTTCTATTT
1 TTTTCAATTTCTATAT
90708112 TTTTCAA-TT-TATAT
1 TTTTCAATTTCTATAT
90708126 TTTTCAA
1 TTTTCAA
90708133 AAAAAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 11 0.55
15 2 0.10
16 7 0.35
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTCAATTTCTATAT
Found at i:90708218 original size:14 final size:13
Alignment explanation
Indices: 90708192--90708227 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
90708182 TGCTGAGGTA
90708192 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
90708205 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
90708219 TTTTCAAAA
1 TTTTCAAAA
90708228 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:90708228 original size:92 final size:92
Alignment explanation
Indices: 90708037--90708296 Score: 279
Period size: 88 Copynumber: 2.9 Consensus size: 92
90708027 CAATTTCTGC
*
90708037 TTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG----ATGCTGAGGTAT
1 TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTAT
* * * *
90708097 TTTCAATTTCTATTTTTTTCAATTTATAT
66 TTTCAATTTC--TGTTTTGCAAATTATAG
* *
90708126 TTTTCAAAAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGGCTCGGGTCACATGCTGAGGT
1 TTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGT
** *
90708191 ATTTTCAAAATCTGTTTTGCAAATTCT-G
64 ATTTTCAATTTCTGTTTTGCAAATTATAG
* * * *
90708219 TTTTC---AAAAATCAACTCATATTGCGAG-GAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTA
1 TTTTCAAAAAAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCGGGTCACATGCTGAGGTA
90708280 TTTTCAATTTCTGTTTT
65 TTTTCAATTTCTGTTTT
90708297 TAATGTCTGT
Statistics
Matches: 145, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
87 1 0.01
88 63 0.43
89 5 0.03
92 40 0.28
93 5 0.03
94 11 0.08
96 20 0.14
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (92 bp):
TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTAT
TTTCAATTTCTGTTTTGCAAATTATAG
Found at i:90708252 original size:88 final size:87
Alignment explanation
Indices: 90708136--90708346 Score: 239
Period size: 88 Copynumber: 2.4 Consensus size: 87
90708126 TTTTCAAAAA
* * * *
90708136 AAAAATCAACTCATATTGAGA-GAGGTGAGTTGAGGCTCGGGTCACATGCTGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGGA-GTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAA
90708200 ATCTGTTTTGCAAAT-TCTGT-TTT
65 ATCTGTTTT--AAATGTCTGTATTT
* * *
90708223 CAAAAATCAACTCATATTGCGAGGAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 -AAAAATCAACTCATATTGCGAGGAGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAA
* *
90708288 TTCTGTTTTTAATGTCTGTATTT
65 ATCTGTTTTAAATGTCTGTATTT
* * * *
90708311 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGGAGTGAGTTGAGC
90708347 TCAAGATCAC
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
86 3 0.03
87 8 0.08
88 93 0.88
89 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGGAGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAAA
TCTGTTTTAAATGTCTGTATTT
Found at i:90710314 original size:19 final size:19
Alignment explanation
Indices: 90710287--90710324 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
90710277 TACTATTTTA
*
90710287 TGTACATTTCTAATATCAT
1 TGTACATTTCTAACATCAT
*
90710306 TGTATATTTCTAACATCAT
1 TGTACATTTCTAACATCAT
90710325 CATTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (19 bp):
TGTACATTTCTAACATCAT
Found at i:90726631 original size:42 final size:42
Alignment explanation
Indices: 90726568--90726706 Score: 226
Period size: 42 Copynumber: 3.3 Consensus size: 42
90726558 GCCCAACTAA
*
90726568 TTACACG-AAGTCTCATGTCGATGCCATATCCCAGATATGGTC
1 TTACACGTAA-TCTCATATCGATGCCATATCCCAGATATGGTC
*
90726610 TTACCCGTAATCTCATATCGATGCCATATCCCAGATATGGTC
1 TTACACGTAATCTCATATCGATGCCATATCCCAGATATGGTC
*
90726652 TTACACGTAATCTCATATCGAGGCCATATCCCAGATATGGTC
1 TTACACGTAATCTCATATCGATGCCATATCCCAGATATGGTC
*
90726694 TTACACTTAATCT
1 TTACACGTAATCT
90726707 TAATAACCCT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 89 0.98
43 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (42 bp):
TTACACGTAATCTCATATCGATGCCATATCCCAGATATGGTC
Found at i:90728012 original size:53 final size:53
Alignment explanation
Indices: 90727938--90728083 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
90727928 CTTACACGGT
* * *
90727938 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATTACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
90727993 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
90728046 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
90728084 AACGAGCACA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:90746249 original size:53 final size:53
Alignment explanation
Indices: 90746179--90746318 Score: 201
Period size: 53 Copynumber: 2.6 Consensus size: 53
90746169 CACATATCAT
* * *
90746179 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATTAC
* * *
90746232 ACTGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
*
90746285 ACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGG
90746319 GCACACTTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 1 0.01
53 77 0.99
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
Found at i:90747913 original size:9 final size:9
Alignment explanation
Indices: 90747901--90747927 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
90747891 TAACTCATTT
90747901 ATTATTCAA
1 ATTATTCAA
90747910 ATTATTCAA
1 ATTATTCAA
90747919 ATTATTCAA
1 ATTATTCAA
90747928 TTCAGTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTATTCAA
Found at i:90753432 original size:50 final size:50
Alignment explanation
Indices: 90753296--90753484 Score: 236
Period size: 50 Copynumber: 3.8 Consensus size: 50
90753286 TAGACAAGGC
* * * *
90753296 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAT
* * * *
90753345 TATCCGGTACATGTAGTAGGCTGCACTTAGTACTACACACGTGACCAAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAT
* * * *
90753395 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAAT
* *
90753446 TATCTGGTACACATAGTAGCCTGCACTTAGTACTGCACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
90753485 TGCGACCTCA
Statistics
Matches: 118, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 39 0.33
50 41 0.35
51 38 0.32
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAT
Found at i:90753768 original size:27 final size:27
Alignment explanation
Indices: 90753738--90753791 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
90753728 TCATACAACC
* *
90753738 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
90753765 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
90753792 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:90758456 original size:5 final size:5
Alignment explanation
Indices: 90758446--90758482 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
90758436 CTGTGTGTTC
90758446 TTTAT TTTA- TTT-T TTTATT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTT
90758483 TCACAAAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 6 0.21
5 18 0.62
6 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:90780766 original size:9 final size:9
Alignment explanation
Indices: 90780742--90780803 Score: 88
Period size: 9 Copynumber: 6.8 Consensus size: 9
90780732 AAGCATTAAC
*
90780742 AAACACAATA
1 AAACAC-ATT
90780752 AAACACATT
1 AAACACATT
90780761 AAACACATT
1 AAACACATT
90780770 AAACACATT
1 AAACACATT
90780779 AAACACATT
1 AAACACATT
* *
90780788 AAATACTTT
1 AAACACATT
90780797 AAACACA
1 AAACACA
90780804 AGAAACTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
9 41 0.87
10 6 0.13
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (9 bp):
AAACACATT
Found at i:90782242 original size:13 final size:13
Alignment explanation
Indices: 90782221--90782252 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90782211 ACAACCCTTA
*
90782221 TAATAATCGTAAT
1 TAATTATCGTAAT
90782234 TAATTATCGTAAT
1 TAATTATCGTAAT
90782247 TAATTA
1 TAATTA
90782253 ATTTATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (13 bp):
TAATTATCGTAAT
Found at i:90782580 original size:24 final size:24
Alignment explanation
Indices: 90782553--90782600 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
90782543 ATAAGAAGTA
90782553 AGTATATTTTATACCAAATTTAAG
1 AGTATATTTTATACCAAATTTAAG
90782577 AGTATATTTTATACCAAATTTAAG
1 AGTATATTTTATACCAAATTTAAG
90782601 GGATAAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (24 bp):
AGTATATTTTATACCAAATTTAAG
Found at i:90783101 original size:22 final size:22
Alignment explanation
Indices: 90783076--90783119 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
90783066 TAGTTATATA
90783076 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
90783098 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
90783120 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:90783155 original size:13 final size:14
Alignment explanation
Indices: 90783139--90783180 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
90783129 TTTCAATTTT
90783139 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
90783152 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
90783167 ATTTTAAATAATAT
1 ATTTT-AATAATAT
90783181 TATTCACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:90783165 original size:16 final size:16
Alignment explanation
Indices: 90783143--90783179 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
90783133 AATTTTATTT
90783143 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
90783160 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
90783175 TAATA
1 TAATA
90783180 TTATTCACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:90783230 original size:21 final size:22
Alignment explanation
Indices: 90783206--90783252 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
90783196 GAAAATATTC
*
90783206 AATATTA-ATATTTTAATAATA
1 AATATTATATATTATAATAATA
*
90783227 AATA-TATATATTATAATTATA
1 AATATTATATATTATAATAATA
90783248 AATAT
1 AATAT
90783253 ATTAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATTATATATTATAATAATA
Found at i:90783253 original size:21 final size:21
Alignment explanation
Indices: 90783213--90783254 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
90783203 TTCAATATTA
*
90783213 ATATTTTAATAATAAATATAT
1 ATATTATAATAATAAATATAT
*
90783234 ATATTATAATTATAAATATAT
1 ATATTATAATAATAAATATAT
90783255 TAATAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTATAATAATAAATATAT
Found at i:90783263 original size:21 final size:21
Alignment explanation
Indices: 90783219--90783263 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
90783209 ATTAATATTT
*
90783219 TAATAATAAATATATATATTA
1 TAATAATAAATATATATATAA
*
90783240 TAATTATAAATATAT-TAATAA
1 TAATAATAAATATATAT-ATAA
90783261 TAA
1 TAA
90783264 ATATTTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAATAAATATATATATAA
Found at i:90784181 original size:8 final size:8
Alignment explanation
Indices: 90784154--90784188 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
90784144 AAAAATTATT
90784154 TTAAATTTA
1 TTAAA-TTA
90784163 TTAAA-TA
1 TTAAATTA
90784170 TTAAATTA
1 TTAAATTA
90784178 TTAAATTA
1 TTAAATTA
90784186 TTA
1 TTA
90784189 TATGCATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.28
8 13 0.52
9 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTAAATTA
Found at i:90784826 original size:29 final size:29
Alignment explanation
Indices: 90784781--90784836 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
90784771 GCGTAAGTTT
*
90784781 TTTTTCTAAGTTCAATTTGGTACCTAAGC
1 TTTTTCTAAGTTCAATTTAGTACCTAAGC
* * *
90784810 TTTTTCTAGGTTTAATTTAGTGCCTAA
1 TTTTTCTAAGTTCAATTTAGTACCTAA
90784837 ACTTGTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.48
Consensus pattern (29 bp):
TTTTTCTAAGTTCAATTTAGTACCTAAGC
Found at i:90791658 original size:23 final size:22
Alignment explanation
Indices: 90791606--90791658 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
90791596 TCCACGTCTT
*
90791606 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
90791628 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
90791651 TTTCTTTT
1 TTTCTTTT
90791659 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:90799328 original size:46 final size:46
Alignment explanation
Indices: 90799310--90799466 Score: 140
Period size: 46 Copynumber: 3.3 Consensus size: 46
90799300 TGACAAGTGG
* * *
90799310 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
90799356 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * **
90799402 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAAAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
90799454 AAAGTGATAAGTG
1 AAAGTGATAAGTG
90799467 GCTACACTTA
Statistics
Matches: 100, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
46 57 0.57
52 43 0.43
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:90799329 original size:52 final size:51
Alignment explanation
Indices: 90799258--90799449 Score: 277
Period size: 52 Copynumber: 3.8 Consensus size: 51
90799248 ATCAAGTGAC
* **
90799258 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
90799310 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
90799356 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
*
90799407 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAG
90799450 AAACAAAGTG
Statistics
Matches: 126, Mismatches: 8, Indels: 12
0.86 0.05 0.08
Matches are distributed among these distances:
46 44 0.35
52 82 0.65
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:90799364 original size:98 final size:98
Alignment explanation
Indices: 90799244--90799467 Score: 385
Period size: 98 Copynumber: 2.3 Consensus size: 98
90799234 TTTGAGTACT
*
90799244 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
90799309 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
90799342 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
90799407 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
90799440 TCTGATCAAGAAACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
90799468 CTACACTTAT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 118 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:90799476 original size:37 final size:37
Alignment explanation
Indices: 90799429--90799538 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
90799419 TGATAGCTTC
*
90799429 GGCTATACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
90799466 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
90799503 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
90799538 G
1 G
90799539 ATCATACGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 53 0.78
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:90806078 original size:44 final size:43
Alignment explanation
Indices: 90806013--90806146 Score: 153
Period size: 44 Copynumber: 3.0 Consensus size: 43
90806003 CATCATGACG
* *
90806013 AATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTGAAGCCAC
1 AATCTTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAGCTAC
* * *
90806056 AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAGCTA-C
* * *
90806101 GAATCTTATTTCCCTGAAGTTACAGTGGAA-CAGATTGAAGCTAC
1 -AATCTTATCTCCCTGAAGTTGCAAT-GAAGCAGATTGAAGCTAC
90806145 AA
1 AA
90806147 ATGATGGCGG
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
43 4 0.05
44 36 0.47
45 32 0.42
46 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAGCTAC
Found at i:90806209 original size:44 final size:43
Alignment explanation
Indices: 90806160--90806297 Score: 134
Period size: 44 Copynumber: 3.1 Consensus size: 43
90806150 ATGGCGGATC
*
90806160 TTATCTTCCTGAAGTTGCAGTGAAGCAAGTTGAAGTCACTAACT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGAAGT-ACTAACT
* * *** * *
90806204 TTATCTTCCTGAAGTTTCAATGGAGCAAAAAGATA-TACAAACC
1 TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGA-AGTACTAACT
* * *
90806247 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAATT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGAAG-TACTAACT
90806291 CTTATCT
1 -TTATCT
90806298 CCTTTAAGCT
Statistics
Matches: 72, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
42 1 0.01
43 31 0.43
44 33 0.46
45 7 0.10
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (43 bp):
TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGAAGTACTAACT
Found at i:90806271 original size:43 final size:44
Alignment explanation
Indices: 90806159--90806273 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
90806149 GATGGCGGAT
* *** *
90806159 CTTATCTTCCTGAAGTTGCAGTGAAGCAAGTTGAAGTCACTAAC
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAAAAAGAAGTCACAAAC
* * *
90806203 TTTATCTTCCTGAAGTTTCAATGGAGCAAAAAGATA-T-ACAAAC
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAAAAAGA-AGTCACAAAC
*
90806246 CTTATCTCCCTGAAGTTGCAGTGGAGCA
1 CTTATCTTCCTGAAGTTGCAGTGGAGCA
90806274 GGTTGAAGTT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
43 29 0.50
44 28 0.48
45 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTATCTTCCTGAAGTTGCAGTGGAGCAAAAAGAAGTCACAAAC
Done.