Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 35 of 318
Found at i:9697197 original size:18 final size:18
Alignment explanation
Indices: 9697176--9697216 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9697166 AAATATTTGA
9697176 TAATTCTTAA-ATTAATTT
1 TAATT-TTAATATTAATTT
*
9697194 TAATTTTAATTTTAATTT
1 TAATTTTAATATTAATTT
9697212 TAATT
1 TAATT
9697217 GAAAACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TAATTTTAATATTAATTT
Found at i:9697198 original size:6 final size:6
Alignment explanation
Indices: 9697187--9697216 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
9697177 AATTCTTAAA
9697187 TTAATT TTAATT TTAATT TTAATT TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT
9697217 GAAAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:9700654 original size:26 final size:26
Alignment explanation
Indices: 9700619--9700700 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
9700609 TGAAATTCCC
*
9700619 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
9700645 ATCATAGAACATTTACCCAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9700671 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9700697 ATCA
1 ATCA
9700701 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9701705 original size:10 final size:10
Alignment explanation
Indices: 9701692--9701805 Score: 75
Period size: 10 Copynumber: 12.0 Consensus size: 10
9701682 ATAAAACTAC
9701692 TTAAAAATTA
1 TTAAAAATTA
9701702 TTAAAAATTA
1 TTAAAAATTA
9701712 TTAAAAA-TA
1 TTAAAAATTA
*
9701721 TAAATAAGATTA
1 TTAA-AA-ATTA
9701733 TT-AAAATGTA
1 TTAAAAAT-TA
*
9701743 --AAAAATCA
1 TTAAAAATTA
9701751 -TAAAAA-TA
1 TTAAAAATTA
* *
9701759 -TAAATATCA
1 TTAAAAATTA
*
9701768 TTAAAAAGTA
1 TTAAAAATTA
9701778 -T-AAAATTA
1 TTAAAAATTA
*
9701786 TTAAAAATCA
1 TTAAAAATTA
*
9701796 TAAAAAATTA
1 TTAAAAATTA
9701806 CAAAAAAAAT
Statistics
Matches: 81, Mismatches: 13, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
8 13 0.16
9 20 0.25
10 43 0.53
11 2 0.02
12 3 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:9701732 original size:18 final size:16
Alignment explanation
Indices: 9701692--9701810 Score: 67
Period size: 18 Copynumber: 6.4 Consensus size: 16
9701682 ATAAAACTAC
9701692 TTAAAAATTATTAAAAATTA
1 TTAAAAA-TA-TAAAAA--A
9701712 TTAAAAATATAAATAAGA
1 TTAAAAATATAAA-AA-A
*
9701730 TTATTAAAATGTAAAAAA
1 TTA--AAAATATAAAAAA
*
9701748 TCATAAAAATATAAATATCA
1 T--TAAAAATATAAA-A-AA
*
9701768 TTAAAAAGTATAAAATTA
1 TTAAAAA-TATAAAA-AA
9701786 TTAAAAATCATAAAAAA
1 TTAAAAAT-ATAAAAAA
9701803 TTACAAAA
1 TTA-AAAA
9701811 AAAATTATAA
Statistics
Matches: 83, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.06
18 45 0.54
19 13 0.16
20 20 0.24
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
TTAAAAATATAAAAAA
Found at i:9701745 original size:38 final size:35
Alignment explanation
Indices: 9701703--9701799 Score: 106
Period size: 35 Copynumber: 2.6 Consensus size: 35
9701693 TAAAAATTAT
* *
9701703 TAAAAATTATTAAAAATATAAATAAGATTATTAAAATG
1 TAAAAATTATTAAAAATATAAAT---ATCATTAAAAAG
*
9701741 TAAAAAATCA-TAAAAATATAAATATCATTAAAAAG
1 T-AAAAATTATTAAAAATATAAATATCATTAAAAAG
9701776 TATAAAATTATTAAAAATCATAAA
1 TA-AAAATTATTAAAAAT-ATAAA
9701800 AAATTACAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
34 1 0.02
35 17 0.33
36 7 0.14
37 5 0.10
38 14 0.27
39 7 0.14
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (35 bp):
TAAAAATTATTAAAAATATAAATATCATTAAAAAG
Found at i:9701767 original size:17 final size:17
Alignment explanation
Indices: 9701744--9701800 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
9701734 TAAAATGTAA
9701744 AAAATCA-TAAAAATAT
1 AAAATCATTAAAAATAT
9701760 AAATATCATTAAAAAGTAT
1 AAA-ATCATTAAAAA-TAT
*
9701779 AAAATTATTAAAAATCAT
1 AAAATCATTAAAAAT-AT
9701797 AAAA
1 AAAA
9701801 AATTACAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 3 0.08
17 5 0.14
18 22 0.61
19 6 0.17
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAATCATTAAAAATAT
Found at i:9701772 original size:28 final size:27
Alignment explanation
Indices: 9701693--9701803 Score: 91
Period size: 28 Copynumber: 4.0 Consensus size: 27
9701683 TAAAACTACT
* *
9701693 TAAAAATTATTAAAAATTATTAAAAATA
1 TAAAAA-TATTAAAAATCATAAAAAATA
* *
9701721 TAAATAAGATTATTAAAAT-GTAAAAAATCA
1 TAAA-AATATTA--AAAATCATAAAAAAT-A
* *
9701751 TAAAAATA-TAAATATCATTAAAAAGTA
1 TAAAAATATTAAAAATCA-TAAAAAATA
*
9701778 TAAAATTATTAAAAATCATAAAAAAT
1 TAAAAATATTAAAAATCATAAAAAAT
9701804 TACAAAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
26 4 0.06
27 15 0.23
28 25 0.38
29 12 0.18
30 10 0.15
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (27 bp):
TAAAAATATTAAAAATCATAAAAAATA
Found at i:9701799 original size:9 final size:9
Alignment explanation
Indices: 9701743--9701801 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
9701733 TTAAAATGTA
9701743 AAAAATCAT
1 AAAAATCAT
9701752 AAAAAT-AT
1 AAAAATCAT
*
9701760 AAATATCATT
1 AAAAATCA-T
9701770 AAAAAGT-AT
1 AAAAA-TCAT
*
9701779 -AAAATTATT
1 AAAAATCA-T
9701788 AAAAATCAT
1 AAAAATCAT
9701797 AAAAA
1 AAAAA
9701802 ATTACAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
7 1 0.02
8 12 0.29
9 15 0.37
10 12 0.29
11 1 0.02
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAATCAT
Found at i:9701844 original size:17 final size:17
Alignment explanation
Indices: 9701704--9701844 Score: 51
Period size: 17 Copynumber: 8.1 Consensus size: 17
9701694 AAAAATTATT
*
9701704 AAAAATTATTAAAAATATA
1 AAAAATTA-TAAAAA-GTA
*
9701723 AATAAGATTATTAAAATGTA
1 AA-AA-ATTA-TAAAAAGTA
*
9701743 AAAAATCATAAAAA-TA
1 AAAAATTATAAAAAGTA
* *
9701759 TAAATATCATTAAAAAGTA
1 -AAAAATTA-TAAAAAGTA
*
9701778 TAAAATTATTAAAAA-TCA
1 AAAAATTA-TAAAAAGT-A
* *
9701796 TAAAAA--ATTACAA--A
1 -AAAAATTATAAAAAGTA
**
9701810 AAAAATTATAAAGTGTA
1 AAAAATTATAAAAAGTA
*
9701827 AAAATTTATAAAAAGTA
1 AAAAATTATAAAAAGTA
9701844 A
1 A
9701845 TAATAACTAA
Statistics
Matches: 93, Mismatches: 18, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
13 5 0.05
14 1 0.01
15 3 0.03
16 6 0.06
17 30 0.32
18 22 0.24
19 10 0.11
20 6 0.06
21 10 0.11
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (17 bp):
AAAAATTATAAAAAGTA
Found at i:9702236 original size:19 final size:16
Alignment explanation
Indices: 9702207--9702250 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 16
9702197 ATTACCTTTT
9702207 TATAATATTTTACATTATA
1 TATAAT-TTTTA-ATT-TA
9702226 TATATATTTTTAATTTA
1 TATA-ATTTTTAATTTA
9702243 TATAATTT
1 TATAATTT
9702251 AAATATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.17
17 6 0.25
18 3 0.12
19 9 0.38
20 2 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TATAATTTTTAATTTA
Found at i:9702242 original size:24 final size:24
Alignment explanation
Indices: 9702215--9702260 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
9702205 TTTATAATAT
* *
9702215 TTTACATTATATATATATTTTTAA
1 TTTACATAATATAAATATTTTTAA
* *
9702239 TTTATATAATTTAAATATTTTT
1 TTTACATAATATAAATATTTTT
9702261 TAAGTGATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTACATAATATAAATATTTTTAA
Found at i:9702824 original size:2 final size:2
Alignment explanation
Indices: 9702817--9702853 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9702807 TGTCTTAAGT
9702817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9702854 TTCTTTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9706330 original size:25 final size:25
Alignment explanation
Indices: 9706302--9706380 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
9706292 ATCAATTTGT
9706302 AGCTCGTGAGAGCTTACCGATTCTC
1 AGCTCGTGAGAGCTTACCGATTCTC
*
9706327 AGCTCGT-ATGAGCTTACCGATT-TGT
1 AGCTCGTGA-GAGCTTACCGATTCT-C
* * *
9706352 AGCTCGTGAGAGCATACCAATTCAC
1 AGCTCGTGAGAGCTTACCGATTCTC
9706377 AGCT
1 AGCT
9706381 TGTATGAGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
24 2 0.04
25 42 0.93
26 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
AGCTCGTGAGAGCTTACCGATTCTC
Found at i:9706350 original size:50 final size:50
Alignment explanation
Indices: 9706280--9706389 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
9706270 ATGCCATAGA
* * * * *
9706280 TCGTATGAGATTATCAATTTGTAGCTCGTGAGAGCTTACCGATTCTCAGC
1 TCGTATGAGCTTACCAATTTGTAGCTCGTGAGAGCATACCAATTCACAGC
*
9706330 TCGTATGAGCTTACCGATTTGTAGCTCGTGAGAGCATACCAATTCACAGC
1 TCGTATGAGCTTACCAATTTGTAGCTCGTGAGAGCATACCAATTCACAGC
*
9706380 TTGTATGAGC
1 TCGTATGAGC
9706390 ATACATGTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (50 bp):
TCGTATGAGCTTACCAATTTGTAGCTCGTGAGAGCATACCAATTCACAGC
Found at i:9711629 original size:40 final size:40
Alignment explanation
Indices: 9711571--9711796 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
9711561 CGAATATAAC
* * *
9711571 CACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* * *
9711610 CACTAGCATAAATGCCTTCGGGTCTTAGCCCGG-ATATAG-
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
9711649 CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 C-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
9711690 AACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* * *
9711730 AACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAAT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
9711770 CACTAGCACAAATGTCTTCGGGACTTA
1 CACTCGCACAAATGCCTTCGGGACTTA
9711797 ACCCCGTTAG
Statistics
Matches: 167, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 8 0.05
40 157 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
Found at i:9711678 original size:80 final size:80
Alignment explanation
Indices: 9711547--9711796 Score: 310
Period size: 80 Copynumber: 3.1 Consensus size: 80
9711537 ACCCAAGTAT
* * * * * * *
9711547 CTTCGGGATTTAG-CCGAATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGG
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAG
*
9711609 TCACTAGCATAAATGC
65 TCACTAGCACAAATGC
*
9711625 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* * *
9711690 AACTCGCACCAATGC
66 CACTAGCACAAATGC
* * *
9711705 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAA
1 CTTCGGGACTTAGCCCGGATA-TAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
*
9711769 TCACTAGCACAAATGT
65 TCACTAGCACAAATGC
9711785 CTTCGGGACTTA
1 CTTCGGGACTTA
9711797 ACCCCGTTAG
Statistics
Matches: 148, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 11 0.07
79 18 0.12
80 117 0.79
81 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
CACTAGCACAAATGC
Found at i:9719721 original size:40 final size:40
Alignment explanation
Indices: 9719675--9719848 Score: 219
Period size: 40 Copynumber: 4.3 Consensus size: 40
9719665 CTCGCACAAG
* * *
9719675 GCCTTCGGGTCTTAGCCCGG-ATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCACAAAT
* *
9719715 GCCTTCGGGTCTTAGCCCGG-ATATAG-CAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTC-ACTAGCACAAAT
* *
9719755 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAAT
*
9719795 GCCTTCGGGACTTAGCCCGGAATTAATCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAAT
*
9719835 GTCTTCGGGACTTA
1 GCCTTCGGGACTTA
9719849 ACCCCGTTAG
Statistics
Matches: 122, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 119 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAAT
Found at i:9719770 original size:80 final size:79
Alignment explanation
Indices: 9719639--9719848 Score: 232
Period size: 80 Copynumber: 2.6 Consensus size: 79
9719629 ACCCAAGTAT
* * * *
9719639 CTTCGGGAT-TTAG-CCGAATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATG
1 CTTCGGG-TCTTAGCCCGGATATAA-CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
* *
9719700 GTCACTAGCATAAATGC
63 GTAACTAGCACAAATGC
*
9719717 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CTTCGGGTCTTAGCCCGGATATAAC-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
*
9719782 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* * *
9719797 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGTCTTCGGGACTTA
1 CTTCGGGTCTTAGCCCGGATA-TAA-CACTCGCACAAATGCCTTCGGGACTTA
9719849 ACCCCGTTAG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 12 0.11
79 17 0.15
80 80 0.71
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCCGGATATAACACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
ACTAGCACAAATGC
Found at i:9722371 original size:26 final size:25
Alignment explanation
Indices: 9722342--9722415 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 25
9722332 AATTTTCTCG
9722342 AAATTTTGTTGGAGGTAAAATTGTCA-
1 AAATTTT-TT-GAGGTAAAATTGTCAC
* *
9722368 AAATTTTATCGAGGGTAAAATCGTCAC
1 AAATTTT-TTGA-GGTAAAATTGTCAC
9722395 AAATTTATTTGA-GTAAAATTG
1 AAATTT-TTTGAGGTAAAATTG
9722416 GGATGAGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
25 10 0.25
26 20 0.50
27 9 0.22
28 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (25 bp):
AAATTTTTTGAGGTAAAATTGTCAC
Found at i:9735773 original size:15 final size:15
Alignment explanation
Indices: 9735755--9735783 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9735745 TGTTGGCTTT
9735755 ACAAATGCAACACCG
1 ACAAATGCAACACCG
9735770 ACAAATGCAACACC
1 ACAAATGCAACACC
9735784 AGGAGGAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.34, G:0.10, T:0.07
Consensus pattern (15 bp):
ACAAATGCAACACCG
Found at i:9736229 original size:3 final size:3
Alignment explanation
Indices: 9736221--9736248 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9736211 CATTTCTTAT
9736221 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9736249 GCTTTGCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9739661 original size:9 final size:9
Alignment explanation
Indices: 9739647--9739677 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
9739637 AGTATACAAG
9739647 ATAACAATA
1 ATAACAATA
9739656 ATAACAATA
1 ATAACAATA
9739665 ATAACAATA
1 ATAACAATA
9739674 ATAA
1 ATAA
9739678 TAATCATACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (9 bp):
ATAACAATA
Found at i:9742420 original size:289 final size:285
Alignment explanation
Indices: 9741887--9742462 Score: 879
Period size: 285 Copynumber: 2.0 Consensus size: 285
9741877 AAGCTAGGCC
* * * *
9741887 CAAGACAGGTTTTTACCTACCAAATTAGCATTATCAATGGATAATAATGTCTTTTGGTCTAAAAA
1 CAAGACAGGTTTTTACCTACCAAATCAACATTACCAATGGATAATAATGTATTTTGGTCTAAAAA
*
9741952 CAACTCTATTACTATTTCAAAAGGCCATGATCAATATTTTCTAGCCCATCATGAATAATGCATTG
66 CAACTCTATTACTATTCCAAAAGGCCATGATCAATATTTTCTAGCCCATCATGAATAATGCATTG
* * *
9742017 ATATATATATATCGATGACATCTTTTTATATAGTTTAAATGAACAAGCCAATATTGCTCTTCTGA
131 A-ATATATATATCGATGACATCTTTCTATATAGTTCAAATGAACAAGCCAATATCGCTCTTCTGA
* *
9742082 ATTAGTTCAAGTAATTGGTCATTCAATATGGAAATATGCTATTAGAAAGAAAGATAAAAACCTAC
195 ATTAGTTCAAGTAATTGGTCATTCAATATGGAAATATGC---CAGAAAGAAAGATAAAAACCAAC
9742147 AAATTTGAGATAGAATTCTTGGGGATGAA
257 AAATTTGAGATAGAATTCTTGGGGATGAA
* **
9742176 CAAGACAGGTTTTTGCCTACCAAATCAACATTACCAATGGATAATAATGTATTTTGGTCTGGAAA
1 CAAGACAGGTTTTTACCTACCAAATCAACATTACCAATGGATAATAATGTATTTTGGTCTAAAAA
* *
9742241 CAACTCTATTACTATTCCAAAAGGCCATGATCAATATTTTCTAGCCTATCATGGATAATGCATTG
66 CAACTCTATTACTATTCCAAAAGGCCATGATCAATATTTTCTAGCCCATCATGAATAATGCATTG
* *
9742306 -ATATATAT-T-GATGACGTCTTTCTATATAGTTCAAATGAATAAGCCAATATCGCTCTTCTGAA
131 AATATATATATCGATGACATCTTTCTATATAGTTCAAATGAACAAGCCAATATCGCTCTTCTGAA
* * * *
9742368 TTAGTTTAAGTAGTTGGTCATTCAATATGGAATTATGTTGCCAGAAAGAAAGATACAAACCAACA
196 TTAGTTCAAGTAATTGGTCATTCAATATGGAA--AT-ATGCCAGAAAGAAAGATAAAAACCAACA
9742433 AATTTGAGATAGAATTCTTGGGGATGAA
258 AATTTGAGATAGAATTCTTGGGGATGAA
9742461 CA
1 CA
9742463 TTAGAGAAAG
Statistics
Matches: 263, Mismatches: 21, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
285 129 0.49
286 1 0.00
287 10 0.04
288 3 0.01
289 120 0.46
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (285 bp):
CAAGACAGGTTTTTACCTACCAAATCAACATTACCAATGGATAATAATGTATTTTGGTCTAAAAA
CAACTCTATTACTATTCCAAAAGGCCATGATCAATATTTTCTAGCCCATCATGAATAATGCATTG
AATATATATATCGATGACATCTTTCTATATAGTTCAAATGAACAAGCCAATATCGCTCTTCTGAA
TTAGTTCAAGTAATTGGTCATTCAATATGGAAATATGCCAGAAAGAAAGATAAAAACCAACAAAT
TTGAGATAGAATTCTTGGGGATGAA
Found at i:9743222 original size:35 final size:35
Alignment explanation
Indices: 9743183--9743253 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
9743173 TCTAGAATCA
*
9743183 CATATCTTTGAAGATCCCCTTCCATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTTCCAAG
* *
9743218 CATATCTTTGAAGATCACTTTCTATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTTCCAAG
9743253 C
1 C
9743254 TCCGAAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTTCCAAG
Found at i:9751200 original size:35 final size:35
Alignment explanation
Indices: 9751161--9751231 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
9751151 TCTAGGATCA
9751161 CATATCTTTGAAGATCC-CCTTCCATATTTGCCAAG
1 CATATCTTTGAAGA-CCACCTTCCATATTTGCCAAG
* *
9751196 CATATCTTTGAAGACCACTTTCCATATTTTCCAAG
1 CATATCTTTGAAGACCACCTTCCATATTTGCCAAG
9751231 C
1 C
9751232 TCTGAAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.35
Consensus pattern (35 bp):
CATATCTTTGAAGACCACCTTCCATATTTGCCAAG
Found at i:9753996 original size:13 final size:13
Alignment explanation
Indices: 9753978--9754003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9753968 CAAATATGCT
9753978 AGATTTAAAGCTA
1 AGATTTAAAGCTA
9753991 AGATTTAAAGCTA
1 AGATTTAAAGCTA
9754004 TCTAGATATC
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:0.15, T:0.31
Consensus pattern (13 bp):
AGATTTAAAGCTA
Found at i:9754112 original size:35 final size:35
Alignment explanation
Indices: 9754072--9754142 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
9754062 TCTAGGATAA
* * *
9754072 CATATCTTTTAATATTC-CCTTCTATATTTTCTAAG
1 CATATCTTTGAAGA-TCACCTTCTATATTTGCTAAG
*
9754107 CATATCTTTGAAGATCACTTTCTATATTTGCTAAG
1 CATATCTTTGAAGATCACCTTCTATATTTGCTAAG
9754142 C
1 C
9754143 TCTAGAGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCTATATTTGCTAAG
Found at i:9759258 original size:35 final size:35
Alignment explanation
Indices: 9759219--9759289 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
9759209 TCTAGGATCA
*
9759219 CATATCTTT-AAAGATCCCCTTCCATATTTGCCAAG
1 CATATCTTTGAAA-ATCACCTTCCATATTTGCCAAG
*
9759254 CATATCTTTGAAAATCACTTTCCATATTTGCCAAG
1 CATATCTTTGAAAATCACCTTCCATATTTGCCAAG
9759289 C
1 C
9759290 TCTAAAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (35 bp):
CATATCTTTGAAAATCACCTTCCATATTTGCCAAG
Found at i:9760221 original size:27 final size:27
Alignment explanation
Indices: 9760153--9760226 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
9760143 AAATTCCACT
9760153 GTTATATACCCCACATATCATACATAA
1 GTTATATACCCCACATATCATACATAA
* * * *
9760180 GTGA-A-GCCATGCACATGTCATACATAA
1 GTTATATACC--CCACATATCATACATAA
9760207 GTTATATACCCCACATATCA
1 GTTATATACCCCACATATCA
9760227 GCTTTCAACT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
25 2 0.06
26 1 0.03
27 29 0.83
28 1 0.03
29 2 0.06
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.27
Consensus pattern (27 bp):
GTTATATACCCCACATATCATACATAA
Found at i:9761760 original size:16 final size:16
Alignment explanation
Indices: 9761735--9761772 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9761725 TTGTTTGAGA
*
9761735 TTTTTT-CTTTTTCCT
1 TTTTTTCCTTTTCCCT
9761750 TTTTTTCCTTTTCCCT
1 TTTTTTCCTTTTCCCT
*
9761766 ATTTTTC
1 TTTTTTC
9761773 GAATTTATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTCCTTTTCCCT
Found at i:9767049 original size:18 final size:18
Alignment explanation
Indices: 9767026--9767068 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
9767016 CTCCAACAGT
9767026 AAAAAAAACTGAAAAAGA
1 AAAAAAAACTGAAAAAGA
* *
9767044 AAAAAACACTGAAAACGA
1 AAAAAAAACTGAAAAAGA
9767062 AAAAAAA
1 AAAAAAA
9767069 TAAAAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.77, C:0.09, G:0.09, T:0.05
Consensus pattern (18 bp):
AAAAAAAACTGAAAAAGA
Found at i:9767218 original size:3 final size:3
Alignment explanation
Indices: 9767210--9767255 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
9767200 TTCAGGAACA
* *
9767210 AAG AAG AAG AAA AAG AGAG AAG AAG GA- AAG AAG -AG AAG AAG AAG
1 AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9767254 AA
1 AA
9767256 AGAAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 3 0.08
3 30 0.83
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9767232 original size:16 final size:18
Alignment explanation
Indices: 9767210--9767259 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
9767200 TTCAGGAACA
9767210 AAGAAGAAGAAA-AAGAG
1 AAGAAGAAGAAAGAAGAG
9767227 -AGAAGAAGGAAAGAAGAG
1 AAGAAGAA-GAAAGAAGAG
9767245 AAGAAGAAGAAAGAA
1 AAGAAGAAGAAAGAA
9767260 AAAAAAGGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.23
17 4 0.13
18 12 0.40
19 7 0.23
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGAAAGAAGAG
Found at i:9767243 original size:11 final size:10
Alignment explanation
Indices: 9767210--9767259 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
9767200 TTCAGGAACA
9767210 AAGAAG-AAG
1 AAGAAGAAAG
* *
9767219 AAAAAGAGAG
1 AAGAAGAAAG
9767229 AAGAAGGAAAG
1 AAGAA-GAAAG
9767240 AAG-AG-AAG
1 AAGAAGAAAG
9767248 AAGAAGAAAG
1 AAGAAGAAAG
9767258 AA
1 AA
9767260 AAAAAAGGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
8 6 0.18
9 8 0.24
10 12 0.36
11 7 0.21
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAGAAAG
Found at i:9768200 original size:153 final size:145
Alignment explanation
Indices: 9767970--9768884 Score: 1053
Period size: 145 Copynumber: 6.1 Consensus size: 145
9767960 TTTTATGCTA
* * *
9767970 AAATAAAATACCAAAATAATATATTTT-AAAAATAATATACGAAAAAAATATGAATAAAGTGAT-
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAAGAAAGT--TC
9768033 AAAATCAGGGTTATTTATTAAAAAGATATAAAAAAACACTTAAATAATACATTTGAAACATTATG
64 AAAATCAGGGTTATTTATTAAAAA-ATATAAAAAAACACTTAAATAATACATTTGAAACATTATG
9768098 TACTAAAATAATATAAAG
128 TACTAAAATAATATAAAG
9768116 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAATTTACGAAGAAA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACG---A-AAAAAA--TACGAAGAAA
* * * * *
9768181 GTATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTAAGTAATACATTTCAAA-A
60 GT-TCAAAATCAGGGTTATTTATTAAA-AAATATAAAAAAACACTTAAATAATACATTTGAAACA
* * *
9768245 TTTTTTTTGCTAAAATAATATAAA-
123 --TTATGTACTAAAATAATATAAAG
* *
9768269 AAATAAAATACGAAAATAATATA-TTTAAAAAAT-ATATACGAAAAAAATACGAATAAAGTGCTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAAGAAAGTTC-A
* *
9768332 AAATCAGGGTTATTTATTGAAAAAA-ATATAAAAAATACTTAAATAATACATTTGAAATATTATG
65 AAATCAGGGTTATTTATT-AAAAAATATA-AAAAAACACTTAAATAATACATTTGAAACATTATG
*
9768396 TACTAAAATAATATGAAG
128 TACTAAAATAATATAAAG
* * *
9768414 AAATAAAATATGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACAAAGAAAGTGTCA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAAGAAAGT-TCA
* *
9768479 AAATCAGGGTTATTTATTAAAATAGTATAAAAAAAACACTTACATAATATACATAATACGTTTGA
65 AAATCAGGGTTATTTATTAAAA-A--ATATAAAAAA-AC--AC-T--TA-A-ATAATACATTTGA
* * *
9768544 AACATT-TTTGCTAAAATAATATAAAA
119 AACATTATGTACTAAAATAATATAAAG
* * *
9768570 AAATAAAATACAAAAATAATATATTTTAAAAAATAATATAC-AAAAAAATACGAATAAAGTGCTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAAGAAAGTTC-A
*
9768634 AAATCAGGGTTATTTATTAAAAAATATTAAAAAACACTTAAATAATACATTTGAAACATTATGTA
65 AAATCAGGGTTATTTATTAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
9768699 CTAAAATAATATAAAG
130 CTAAAATAATATAAAG
* *
9768715 AAATAAAATAACACGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGA
1 AAATAAAAT---ACGAAAATAATATATTTTAAAAAATAATATACG-----AAAAAAATACGAAGA
* * * *
9768780 AAGTGCCAAAATCAGTGTTATTTATTAAATTAATAT-AAAAAACACTTACATAATACATTTGAAA
58 AAGT-TCAAAATCAGGGTTATTTATTAAA-AAATATAAAAAAACACTTAAATAATACATTTGAAA
* * *
9768844 CATT-TTTGCTAAAACAATATAAA-
121 CATTATGTACTAAAATAATATAAAG
*
9768867 AAATAATATACGAAAATA
1 AAATAAAATACGAAAATA
9768885 TTTTACTTAT
Statistics
Matches: 664, Mismatches: 61, Indels: 85
0.82 0.08 0.10
Matches are distributed among these distances:
144 40 0.06
145 104 0.16
146 46 0.07
147 63 0.09
148 32 0.05
149 16 0.02
150 4 0.01
151 15 0.02
152 31 0.05
153 101 0.15
154 92 0.14
155 48 0.07
156 55 0.08
157 17 0.03
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (145 bp):
AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAAGAAAGTTCAA
AATCAGGGTTATTTATTAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
TAAAATAATATAAAG
Found at i:9768299 original size:28 final size:25
Alignment explanation
Indices: 9768256--9768317 Score: 63
Period size: 28 Copynumber: 2.4 Consensus size: 25
9768246 TTTTTTTGCT
9768256 AAAATAATAT-AAAAAATAAAATACG
1 AAAATAATATAAAAAAAT-AAATACG
*
9768281 AAAATAATATATTTAAAAAATATATACG
1 AAAATAATATA---AAAAAATAAATACG
*
9768309 AAAAAAATA
1 AAAATAATA
9768318 CGAATAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 10 0.32
28 14 0.45
29 7 0.23
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (25 bp):
AAAATAATATAAAAAAATAAATACG
Found at i:9768374 original size:298 final size:292
Alignment explanation
Indices: 9767821--9768884 Score: 1375
Period size: 298 Copynumber: 3.6 Consensus size: 292
9767811 AGTTTTTTGT
* * * *
9767821 TAAAATAATATAAA-AAATAAAATATGAAAATAGTATATTTT-AAAAATAAAATCCGAAAATAAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-AA
* * * * *
9767884 AAAATACGAACAAGGTGCCAAAGTCA-GGTTATTTATTAAATTAATATAAAAAA-ACTTAAATAA
65 AAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACATAA
* * *
9767947 TACATTTGAAAGATTTTATGC----------T--AAAATAAAATACCAAAATAATATATTTTAAA
130 TACATTTCAAA-ATTTT-TGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTAAAA
* * *
9768000 AATAATATACGAAAAAAATATGAATAAAGTGATAAAATCAGGGTTATTTATTAAAAAGATATAAA
193 AATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATAT-AA
9768065 AAAACACTTAAATAATACATTTGAAACATTATGTAC
257 AAAACACTTAAATAATACATTTGAAACATTATGTAC
*
9768101 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAA
* *
9768166 AAATTTACGAAGAAAGTATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTA-AG
66 AAA--TACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAA-AAACACTTACA-
9768230 TAATACATTTCAAAATTTTTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTT
127 TAATACATTTCAAAA---TTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTT
9768295 AAAAAAT-ATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAAAT
189 AAAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAAAAT
* *
9768359 ATAAAAAATACTTAAATAATACATTTGAAATATTATGTAC
253 ATAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
* *
9768399 TAAAATAATATGAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAGATACG---A-AAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAA
* * *
9768460 AAATACAAAGAAAGTGTCAAAATCAGGGTTATTTATTAAAATAGTATAAAAAAAACACTTACATA
66 AAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTA--ATATAAAAAACACTTACAT-
* *
9768525 ATATACATAATACGTTTGAAACATTTTTGCTAAAATAATATAAAAAAATAAAATACAAAAATAAT
128 A-ATAC-----A--TTTCAAA-ATTTTTGCTAAAATAATAT-AAAAAATAAAATACGAAAATAAT
9768590 ATATTTTAAAAAATAATATAC-AAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-A
183 ATA-TTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAA
9768653 AAAAATATTAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
247 AAAAATA-TAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
*
9768700 TAAAATAATATAAAGAAATAAAATAACACGAAAGTAATATATTTTAAAAAATAAGATACGAAAAT
1 TAAAATAATATAAAGAAATAAAAT---ACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT
* *
9768765 AAAAAAATACGAAGAAAGTGCCAAAATCAGTGTTATTTATTAAATTAATATAAAAAACACTTACA
63 -AAAAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACA
* * *
9768830 TAATACATTTGAAACATTTTTGCTAAAACAATATAAAAAATAATATACGAAAATA
127 TAATACATTTCAAA-ATTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATA
9768885 TTTTACTTAT
Statistics
Matches: 694, Mismatches: 41, Indels: 81
0.85 0.05 0.10
Matches are distributed among these distances:
280 14 0.02
281 31 0.04
282 17 0.02
283 17 0.02
284 23 0.03
285 5 0.01
286 18 0.03
287 3 0.00
288 4 0.01
292 36 0.05
293 10 0.01
294 14 0.02
295 5 0.01
297 20 0.03
298 162 0.23
299 41 0.06
300 28 0.04
301 85 0.12
302 57 0.08
303 7 0.01
304 31 0.04
305 4 0.01
306 1 0.00
307 19 0.03
309 42 0.06
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (292 bp):
TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAA
AAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACATAAT
ACATTTCAAAATTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTAAAAAAT
AATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAA
CACTTAAATAATACATTTGAAACATTATGTAC
Found at i:9768574 original size:13 final size:14
Alignment explanation
Indices: 9768556--9768616 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 14
9768546 CATTTTTGCT
9768556 AAAATAATATA-AA
1 AAAATAATATATAA
9768569 AAAATAA-A-ATACA
1 AAAATAATATATA-A
9768582 AAAATAATATATTTTAA
1 AAAATAATATA---TAA
*
9768599 AAAATAATATACAA
1 AAAATAATATATAA
9768613 AAAA
1 AAAA
9768617 ATACGAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
11 1 0.03
12 2 0.05
13 15 0.38
14 7 0.17
15 1 0.03
17 12 0.30
18 2 0.05
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAATAATATATAA
Found at i:9770814 original size:72 final size:71
Alignment explanation
Indices: 9770728--9770864 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 71
9770718 AGTCCGAGCG
* *
9770728 ATCGCATTCGCATTCGACTGATACTTCTTATCATCCGAATTTGGCAGGCAATGACTATTTCCCGG
1 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGAATTT-GCAGGCAATGACAATTTCCCGG
9770793 GCTCGTC
65 GCTCGTC
** * * *
9770800 ATCGCATTCACATTCGGTTGATATTTCTTATCATCCGGATTTGCGGGCAATGACAATTTCCCGGG
1 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGAATTTGCAGGCAATGACAATTTCCCGGG
9770865 ATCATCGGGG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
71 21 0.36
72 37 0.64
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (71 bp):
ATCGCATTCACATTCGACTGATACTTCTTATCATCCGAATTTGCAGGCAATGACAATTTCCCGGG
CTCGTC
Found at i:9776186 original size:26 final size:25
Alignment explanation
Indices: 9776140--9776205 Score: 91
Period size: 26 Copynumber: 2.7 Consensus size: 25
9776130 AATAATAATA
*
9776140 ACTAACAATAAT--TATGGTTTTTT
1 ACTAACAATAATAATAAGGTTTTTT
9776163 ACTAACAATAATAATAAGGATTTTTT
1 ACTAACAATAATAATAAGG-TTTTTT
*
9776189 ACTAACAATATTAATAA
1 ACTAACAATAATAATAA
9776206 CTAACAACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 12 0.32
25 4 0.11
26 22 0.58
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (25 bp):
ACTAACAATAATAATAAGGTTTTTT
Found at i:9776323 original size:16 final size:17
Alignment explanation
Indices: 9776296--9776382 Score: 65
Period size: 17 Copynumber: 5.2 Consensus size: 17
9776286 AAAATTTATA
* *
9776296 CCTTCTTTTTTTCTTTT
1 CCTTCTTTTTTCCTTCT
*
9776313 CTTTCTTTTTTCCTTCT
1 CCTTCTTTTTTCCTTCT
9776330 CCTTCTTTTTCTTCCTTCT
1 CCTTC-TTTT-TTCCTTCT
** *
9776349 -CTTCTCCTTTCTTTC-
1 CCTTCTTTTTTCCTTCT
*
9776364 CCTT-TATTTT-CTTCT
1 CCTTCTTTTTTCCTTCT
9776379 CCTT
1 CCTT
9776383 ACCGCTGATT
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
14 3 0.05
15 8 0.14
16 9 0.16
17 20 0.36
18 8 0.14
19 8 0.14
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (17 bp):
CCTTCTTTTTTCCTTCT
Found at i:9776329 original size:15 final size:17
Alignment explanation
Indices: 9776296--9776353 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 17
9776286 AAAATTTATA
9776296 CCTTCT-TT-TTTTCTT
1 CCTTCTCTTCTTTTCTT
9776311 --TTCT-TTCTTTT-TT
1 CCTTCTCTTCTTTTCTT
9776324 CCTTCTCCTTCTTTTTCTT
1 CCTTCT-CTTC-TTTTCTT
9776343 CCTTCTCTTCT
1 CCTTCTCTTCT
9776354 CCTTTCTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 8 0.22
14 4 0.11
15 4 0.11
17 4 0.11
18 8 0.22
19 8 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTCTTCTTTTCTT
Found at i:9776359 original size:19 final size:19
Alignment explanation
Indices: 9776316--9776361 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
9776306 TTCTTTTCTT
*
9776316 TCTTTTTTCCTTCTCCTTC
1 TCTTTCTTCCTTCTCCTTC
*
9776335 TTTTTCTTCCTTCT-CTTC
1 TCTTTCTTCCTTCTCCTTC
9776353 TCCTTTCTT
1 T-CTTTCTT
9776362 TCCCTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (19 bp):
TCTTTCTTCCTTCTCCTTC
Found at i:9776491 original size:27 final size:27
Alignment explanation
Indices: 9776461--9776530 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
9776451 GACCCACACA
*
9776461 ACTGGTGCCGCCTCTGCCAGAGGCAAG
1 ACTGGTGCCGCCTCTGCCAGAGGCAAC
9776488 ACTGGTGCCGCCTCTGCCAGAGGCAAC
1 ACTGGTGCCGCCTCTGCCAGAGGCAAC
9776515 ACTGGTGCCGCCTCTG
1 ACTGGTGCCGCCTCTG
9776531 GCACCAACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.16, C:0.36, G:0.31, T:0.17
Consensus pattern (27 bp):
ACTGGTGCCGCCTCTGCCAGAGGCAAC
Found at i:9776575 original size:19 final size:17
Alignment explanation
Indices: 9776547--9776588 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
9776537 ACATGACCCA
9776547 TTTTTTTTTTTCAGTGTT
1 TTTTTTTTTTTCAGT-TT
9776565 TTTTTTCTTTTTCAGTTT
1 TTTTTT-TTTTTCAGTTT
9776583 TTTTTT
1 TTTTTT
9776589 ACTGTTGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTTCAGTTT
Found at i:9787593 original size:16 final size:18
Alignment explanation
Indices: 9787566--9787598 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9787556 TAGAATTGGG
9787566 TTGAGAAAATTA-TTTAA
1 TTGAGAAAATTAGTTTAA
9787583 TTGAG-AAATTAGTTTA
1 TTGAGAAAATTAGTTTA
9787599 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAGTTTAA
Found at i:9788394 original size:16 final size:16
Alignment explanation
Indices: 9788375--9788414 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9788365 TTTTGATAAG
9788375 ATATGATTTTTTTATT
1 ATATGATTTTTTTATT
9788391 ATATGCA-TTTTTTATT
1 ATATG-ATTTTTTTATT
9788407 ATAT-ATTT
1 ATATGATTT
9788415 GAATGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 2 0.09
16 18 0.82
17 1 0.05
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (16 bp):
ATATGATTTTTTTATT
Found at i:9788904 original size:21 final size:21
Alignment explanation
Indices: 9788879--9788920 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9788869 TTTGGTGATT
9788879 TTCAAGTCTTTTGGATTTTGG
1 TTCAAGTCTTTTGGATTTTGG
9788900 TTCAAGTCTTTTGGATTTTGG
1 TTCAAGTCTTTTGGATTTTGG
9788921 GAAATCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.52
Consensus pattern (21 bp):
TTCAAGTCTTTTGGATTTTGG
Found at i:9792795 original size:39 final size:39
Alignment explanation
Indices: 9792729--9792925 Score: 243
Period size: 39 Copynumber: 5.1 Consensus size: 39
9792719 AAATAGAAAT
* *
9792729 CCGGTGATTATTCGGGCT-TCTGCCTAGCAAGCTTTGTG
1 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* * * *
9792767 CTGGTGATTAATCCGGCTATGTGCCTAGCAGTCTTTGTG
1 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* *
9792806 CCGGTGATTATTCGGGCTATATGCCTAGTAGGCTTTGTG
1 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
** *
9792845 CCAATGATTATTCGGGCTATGTGCCTAGTAGGCTTTGTG
1 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* * ** *
9792884 CTGGTGCTTATTCGGTTTATGTGCCTAGCAGGCTGTGTG
1 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
9792923 CCG
1 CCG
9792926 ATGTATTGAA
Statistics
Matches: 134, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
38 15 0.11
39 119 0.89
ACGTcount: A:0.14, C:0.20, G:0.30, T:0.36
Consensus pattern (39 bp):
CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
Found at i:9817868 original size:23 final size:24
Alignment explanation
Indices: 9817830--9817874 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9817820 TTTGCTCTTC
*
9817830 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
9817854 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
9817875 ACTTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:9818145 original size:55 final size:52
Alignment explanation
Indices: 9817990--9818197 Score: 197
Period size: 55 Copynumber: 3.8 Consensus size: 52
9817980 ATCCTTTTGA
*
9817990 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATG
* * * * *
9818043 AACTCACCAATGCCATGCCTTGGCATGGTATTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT-G
* *
9818097 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG
* * *
9818150 AAACCTTACCAATTGTCATG-CATTGGCATGGTTTTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGTC-TTGACATGGTCTTACAT-GTATCCTT
9818198 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
52 2 0.02
53 46 0.36
54 10 0.08
55 66 0.52
56 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (52 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATG
Found at i:9821750 original size:43 final size:40
Alignment explanation
Indices: 9821678--9821809 Score: 124
Period size: 43 Copynumber: 3.2 Consensus size: 40
9821668 TTGCTTCCAC
* *
9821678 GTTGCTTT-TTTTTGTCTAAACTTGGATGTTGCTTTCCCAA
1 GTTGCTTTCTTTTTGTCT-GACTTGAATGTTGCTTTCCCAA
*
9821718 GTTGCTTTCTTCTATTGTCTGATCTTGAATGTTGTTTTCCCAA
1 GTTGCTTTCTT-T-TTGTCTGA-CTTGAATGTTGCTTTCCCAA
* * * *
9821761 GTTGCTTCTTTTTTTGTCTAGACAT-AGATGTTGCCTTCCCAC
1 GTTGCTT-TCTTTTTGTCT-GACTTGA-ATGTTGCTTTCCCAA
9821803 GTTGCTT
1 GTTGCTT
9821810 GATATTTTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
40 8 0.10
41 3 0.04
42 29 0.38
43 34 0.44
44 3 0.04
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.49
Consensus pattern (40 bp):
GTTGCTTTCTTTTTGTCTGACTTGAATGTTGCTTTCCCAA
Found at i:9821792 original size:42 final size:41
Alignment explanation
Indices: 9821684--9821809 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 41
9821674 CCACGTTGCT
* *
9821684 TTTTTTTGTCTAAACTTGGATGTTGCTTTCCCAAGTTGCTTTC
1 TTTTTTTGTCTAGAC-TAGATGTTGCTTTCCCAAGTTGC-TTC
* * * *
9821727 TTCTATTGTCT-GATCTTGAATGTTGTTTTCCCAAGTTGCTTC
1 TTTTTTTGTCTAGA-CTAG-ATGTTGCTTTCCCAAGTTGCTTC
* *
9821769 TTTTTTTGTCTAGACATAGATGTTGCCTTCCCACGTTGCTT
1 TTTTTTTGTCTAGAC-TAGATGTTGCTTTCCCAAGTTGCTT
9821810 GATATTTTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
42 35 0.51
43 33 0.49
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.49
Consensus pattern (41 bp):
TTTTTTTGTCTAGACTAGATGTTGCTTTCCCAAGTTGCTTC
Found at i:9827432 original size:28 final size:28
Alignment explanation
Indices: 9827392--9827447 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
9827382 TGAATCAAAC
9827392 CAATTAAAAAGTATCTTGTCTGAGTTTA
1 CAATTAAAAAGTATCTTGTCTGAGTTTA
9827420 CAATTAAAAAGTATCTTGTCTGAGTTTA
1 CAATTAAAAAGTATCTTGTCTGAGTTTA
9827448 ACTTCTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (28 bp):
CAATTAAAAAGTATCTTGTCTGAGTTTA
Found at i:9828575 original size:24 final size:24
Alignment explanation
Indices: 9828544--9828592 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
9828534 CCACTAAGGG
* * *
9828544 ACTACTGAAATTTAATAACTTCGT
1 ACTACTGAAACTTAAAAACCTCGT
9828568 ACTACTGAAACTTAAAAACCTCGT
1 ACTACTGAAACTTAAAAACCTCGT
9828592 A
1 A
9828593 TTATCTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (24 bp):
ACTACTGAAACTTAAAAACCTCGT
Found at i:9828819 original size:12 final size:12
Alignment explanation
Indices: 9828802--9828827 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9828792 CCCTACTTCA
9828802 TCCAACTTTGGC
1 TCCAACTTTGGC
9828814 TCCAACTTTGGC
1 TCCAACTTTGGC
9828826 TC
1 TC
9828828 TCAGCTTGTA
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:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (12 bp):
TCCAACTTTGGC
Found at i:9829726 original size:42 final size:42
Alignment explanation
Indices: 9829661--9829748 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
9829651 ATCTTCACCT
* *
9829661 AAGAACTTAAATGCATTCATATGCTAGGAAAATAGAGAAATG
1 AAGAACATAAATGCATTCATATGCTAGGAAAATAGAAAAATG
* ** * * *
9829703 AAGAACATAAATGCGTTTGTATGCTTGGGATATAGAAAAATG
1 AAGAACATAAATGCATTCATATGCTAGGAAAATAGAAAAATG
9829745 AAGA
1 AAGA
9829749 GATTTGATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.25
Consensus pattern (42 bp):
AAGAACATAAATGCATTCATATGCTAGGAAAATAGAAAAATG
Found at i:9836618 original size:12 final size:12
Alignment explanation
Indices: 9836596--9836633 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
9836586 TAGCAAAAAA
9836596 CTCTC-AAATTT
1 CTCTCTAAATTT
9836607 CTCTCTAAATTT
1 CTCTCTAAATTT
9836619 CTC-CTTAAATTT
1 CTCTC-TAAATTT
9836631 CTC
1 CTC
9836634 AAAGCTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (12 bp):
CTCTCTAAATTT
Found at i:9838418 original size:18 final size:18
Alignment explanation
Indices: 9838395--9838438 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9838385 ATACCAAGTG
9838395 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
9838413 TGTATCCTAACCTTTATA
1 TGTATCCTAACCCTTATA
*
9838431 TGTTTCCT
1 TGTATCCT
9838439 TTTCCCAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:9842171 original size:125 final size:125
Alignment explanation
Indices: 9841950--9842466 Score: 510
Period size: 124 Copynumber: 4.1 Consensus size: 125
9841940 GGCCAAACAT
* * * ** * *
9841950 GAACTATTATAGAAAAAGAGTGTCTATGTGGGAGCTTTTTCAAT-AATTTTACTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCATGT-GGAGCTTTTTTTATCAATTTTGCTGACAGTGCATA
* * *
9842014 CTGCTTGAAGCATTTTTGACACTATTTGTTTAGAAGCGTCTTCTCAAAATTATTTTTT-AG
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
* * *
9842074 GAACTACTATAGAAAAAGAGCGTCCATATAGGAGCTTTTTTTATCAATTTTGCTCATAGTGCATA
1 GAACTACTATAGAAAAAGAGCGTCCATGT-GGAGCTTTTTTTATCAATTTTGCTGACAGTGCATA
* * *
9842139 CTACTTAAAGCGTTTTTGACACTATTTGTTTAGAAACGTTTTCTCAAAATTATTTTTTCAA
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
* *
9842200 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAG-TTTTTTTCATCAATTTTGCTGACAGTGCAT
1 GAACTACTATAGAAAAAGAGCGTCCATGTG-GAGCTTTTTTT-ATCAATTTTGCTGACAGTGCAT
* * *
9842264 TCTGCTTGAAGCGTTTTTGACATTATTTGTTCA-AAATCGTCCTT-TCAAAATTATTTTTTCAA
64 ACTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAA-CGT-CTTCTCAAAATTATTTTTTCAA
* * * * * * * * * *
9842326 GAATTACTGTAAAAAAAAAGC--CCACAGGGGAGCTTTTTTCAGT-AAATTTGCTAACAATGCAT
1 GAACTACTATAGAAAAAGAGCGTCCA-TGTGGAGCTTTTTTTA-TCAATTTTGCTGACAGTGCAT
* * * * * * * * * * *
9842388 CCTGTTTGAAACGTTTTTGACACTATTTATTTAGAACCATTTTTTCAAAATTAGTTTGTCAG
64 ACTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
* *
9842450 GAACTATTCTAGAAAAA
1 GAACTACTATAGAAAAA
9842467 AAATAAAAAT
Statistics
Matches: 329, Mismatches: 53, Indels: 22
0.81 0.13 0.05
Matches are distributed among these distances:
123 2 0.01
124 117 0.36
125 91 0.28
126 117 0.36
127 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (125 bp):
GAACTACTATAGAAAAAGAGCGTCCATGTGGAGCTTTTTTTATCAATTTTGCTGACAGTGCATAC
TGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
Found at i:9842434 original size:124 final size:125
Alignment explanation
Indices: 9841979--9842466 Score: 499
Period size: 126 Copynumber: 3.9 Consensus size: 125
9841969 GTGTCTATGT
* * *
9841979 GGGAGC-TTTTTCAAT-AATTTTACTGACAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTG
1 GGGAGCTTTTTTC-ATCAATTTTGCTGACAGTGCATCCTGCTTGAAACGTTTTTGACACTATTTG
* * * * *
9842042 TTTAGAAGCGTCTTCTCAAAATTATTTTTT-AGGAACTACTATAGAAAAAGAGCGTCCATAT
65 TTTAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACTACTGTAGAAAAAGAGCG-CCACAG
* * * * * *
9842103 AGGAGCTTTTTTTATCAATTTTGCTCATAGTGCATACTACTT-AAAGCGTTTTTGACACTATTTG
1 GGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCCTGCTTGAAA-CGTTTTTGACACTATTTG
*
9842167 TTTAGAAACGTTTTCTCAAAATTATTTTTTCAAGAACTACTGTAGAAAAAGAGCGTCCAC-G
65 TTTAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACTACTGTAGAAAAAGAGCG-CCACAG
* * * * *
9842228 TGAGAGTTTTTTTCATCAATTTTGCTGACAGTGCATTCTGCTTGAAGCGTTTTTGACATTATTTG
1 -GGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCCTGCTTGAAACGTTTTTGACACTATTTG
* * * *
9842293 TTCA-AAATCGTCCTT-TCAAAATTATTTTTTCAAGAATTACTGTAAAAAAAAAGC-CCACAG
65 TTTAGAAA-CGT-CTTCTCAAAATTATTTTTTCAAGAACTACTGTAGAAAAAGAGCGCCACAG
* * * * *
9842353 GGGAGCTTTTTTCAGT-AAATTTGCTAACAATGCATCCTGTTTGAAACGTTTTTGACACTATTTA
1 GGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCATCCTGCTTGAAACGTTTTTGACACTATTTG
* * * * * * * * *
9842417 TTTAGAACCATTTTTTCAAAATTAGTTTGTCAGGAACTATTCTAGAAAAA
65 TTTAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACTACTGTAGAAAAA
9842467 AAATAAAAAT
Statistics
Matches: 301, Mismatches: 51, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
123 2 0.01
124 98 0.33
125 78 0.26
126 119 0.40
127 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (125 bp):
GGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCCTGCTTGAAACGTTTTTGACACTATTTGT
TTAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACTACTGTAGAAAAAGAGCGCCACAG
Found at i:9842465 original size:250 final size:249
Alignment explanation
Indices: 9841950--9842466 Score: 594
Period size: 250 Copynumber: 2.1 Consensus size: 249
9841940 GGCCAAACAT
* * * *
9841950 GAACTATTATAGAAAAAGAGTGTCTATGTGGGAGCTTTTTCAATAATTTTACTGACAGTGCATCC
1 GAACTATTATAGAAAAAGAGCGTCCACGTGAGAGCTTTTTCAATAATTTTACTGACAGTGCATCC
* * *
9842015 TGCTTGAAGCATTTTTGACACTATTTGTTTAGAAGCGTCTTCTCAAAATTATTTTTTAGGAACTA
66 TGCTTGAAGCATTTTTGACACTATTTGTTCAAAAGCGTCTTCTCAAAATTATTTTTTAAGAACTA
* * * * * * * * *
9842080 CTATAGAAAAAGAGCGTCCATATAGGAGCTTTTTTTATCAATTTTGCTCATAGTGCATACTACTT
131 CTATAAAAAAAAAGCG-CCACAGAGGAGCTTTTTTCATCAAATTTGCTAACAATGCATACTACTT
* * * *
9842145 AAAGCGTTTTTGACACTATTTGTTTAGAAACGTTTTCTCAAAATTATTTTTTCAA
195 AAAGCGTTTTTGACACTATTTATTTAGAAACATTTTCTCAAAATTAGTTTGTCAA
* * * *
9842200 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGTTTTTTTC-ATCAATTTTGCTGACAGTGCAT
1 GAACTATTATAGAAAAAGAGCGTCCACGTGAGAG-CTTTTTCAAT-AATTTTACTGACAGTGCAT
* * * *
9842264 TCTGCTTGAAGCGTTTTTGACATTATTTGTTCAAAATCGTCCTT-TCAAAATTATTTTTTCAAGA
64 CCTGCTTGAAGCATTTTTGACACTATTTGTTCAAAAGCGT-CTTCTCAAAATTATTTTTT-AAGA
* * * *
9842328 ATTACTGTAAAAAAAAAGC-CCACAGGGGAGCTTTTTTCAGT-AAATTTGCTAACAATGCATCCT
127 ACTACTATAAAAAAAAAGCGCCACAGAGGAGCTTTTTTCA-TCAAATTTGCTAACAATGCATACT
** * * *
9842391 GTTTGAAA-CGTTTTTGACACTATTTATTTAGAACCATTTTTTCAAAATTAGTTTGTCAG
191 ACTT-AAAGCGTTTTTGACACTATTTATTTAGAAACATTTTCTCAAAATTAGTTTGTCAA
*
9842450 GAACTATTCTAGAAAAA
1 GAACTATTATAGAAAAA
9842467 AAATAAAAAT
Statistics
Matches: 222, Mismatches: 39, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
250 124 0.56
251 77 0.35
252 21 0.09
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (249 bp):
GAACTATTATAGAAAAAGAGCGTCCACGTGAGAGCTTTTTCAATAATTTTACTGACAGTGCATCC
TGCTTGAAGCATTTTTGACACTATTTGTTCAAAAGCGTCTTCTCAAAATTATTTTTTAAGAACTA
CTATAAAAAAAAAGCGCCACAGAGGAGCTTTTTTCATCAAATTTGCTAACAATGCATACTACTTA
AAGCGTTTTTGACACTATTTATTTAGAAACATTTTCTCAAAATTAGTTTGTCAA
Found at i:9842571 original size:34 final size:33
Alignment explanation
Indices: 9842533--9842638 Score: 126
Period size: 34 Copynumber: 3.2 Consensus size: 33
9842523 TATTATTTAA
9842533 AAAAAACCTAAACCCAAATTTAATTAATTTTCTT
1 AAAAAACCTAAACCCAAATTTAATTAATTTT-TT
9842567 AAAAATA-CTAAACCCAAATTTAATTAATTTATTT
1 AAAAA-ACCTAAACCCAAATTTAATTAATTT-TTT
* ** **
9842601 TAAACCCCTAAACCTTAATTTAATT-ATTTTTT
1 AAAAAACCTAAACCCAAATTTAATTAATTTTTT
9842633 AAAAAA
1 AAAAAA
9842639 GAACACTAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
32 6 0.10
33 4 0.07
34 49 0.80
35 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (33 bp):
AAAAAACCTAAACCCAAATTTAATTAATTTTTT
Found at i:9842712 original size:21 final size:21
Alignment explanation
Indices: 9842683--9842732 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
9842673 TAAAACTTAG
*
9842683 AACCTTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
9842704 AACCCTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
9842725 AACCCTAA
1 AACCCTAA
9842733 CCTAAAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (21 bp):
AACCCTAAATTATTTTAACAA
Found at i:9842768 original size:24 final size:23
Alignment explanation
Indices: 9842736--9842795 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
9842726 ACCCTAACCT
9842736 AAAAA-CCCTAAACCAAAACATGC
1 AAAAAGCCCTAAA-CAAAACATGC
* *
9842759 AAAAAGCCCTAGGGACTAAACATGC
1 AAAAAGCCCTA--AACAAAACATGC
9842784 AAAAAGCCCTAA
1 AAAAAGCCCTAA
9842796 CCTAGAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 5 0.16
24 5 0.16
25 20 0.65
26 1 0.03
ACGTcount: A:0.52, C:0.27, G:0.12, T:0.10
Consensus pattern (23 bp):
AAAAAGCCCTAAACAAAACATGC
Found at i:9845024 original size:13 final size:13
Alignment explanation
Indices: 9845006--9845031 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9844996 ATTTTAAAAA
9845006 ATTTGAAATGTTT
1 ATTTGAAATGTTT
9845019 ATTTGAAATGTTT
1 ATTTGAAATGTTT
9845032 TATAATATAT
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:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTGAAATGTTT
Found at i:9845067 original size:21 final size:21
Alignment explanation
Indices: 9845035--9845103 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
9845025 AATGTTTTAT
*
9845035 AATATATATTTTTAAAATTTTA
1 AATAT-TATTTTTAAAATATTA
9845057 AATATTATTTTT-AAATATTA
1 AATATTATTTTTAAAATATTA
*
9845077 AATA-TATTTTTAATAATATAA
1 AATATTATTTTTAA-AATATTA
9845098 AATATT
1 AATATT
9845104 TAAATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.17
20 12 0.29
21 17 0.40
22 6 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTATTTTTAAAATATTA
Found at i:9845070 original size:13 final size:13
Alignment explanation
Indices: 9845052--9845076 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9845042 ATTTTTAAAA
9845052 TTTTAAATATTAT
1 TTTTAAATATTAT
9845065 TTTTAAATATTA
1 TTTTAAATATTA
9845077 AATATATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:9845102 original size:19 final size:19
Alignment explanation
Indices: 9845032--9845104 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
9845022 TGAAATGTTT
9845032 TATAATATATATTTTTAAAA
1 TATAA-ATATATTTTTAAAA
*
9845052 TTTTAAATATTATTTTT-AAA
1 -TATAAATA-TATTTTTAAAA
9845072 TATTAAATATATTTTTAATAA
1 TA-TAAATATATTTTTAA-AA
9845093 TATAAA-ATATTT
1 TATAAATATATTT
9845105 AAATATTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
19 14 0.30
20 17 0.37
21 15 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAAATATATTTTTAAAA
Found at i:9845109 original size:18 final size:19
Alignment explanation
Indices: 9845054--9845109 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
9845044 TTTTAAAATT
9845054 TTAAATATTATTTTTAAAT-A
1 TTAAATA-TA-TTTTAAATAA
*
9845074 TTAAATATATTTTTAATAA
1 TTAAATATATTTTAAATAA
9845093 TATAAA-ATA-TTTAAATA
1 T-TAAATATATTTTAAATA
9845110 TTTTAAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 14 0.44
19 7 0.22
20 11 0.34
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAATATATTTTAAATAA
Found at i:9846091 original size:17 final size:18
Alignment explanation
Indices: 9846069--9846105 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
9846059 AGTCATCTTT
*
9846069 AAAAATAATA-TATTTAA
1 AAAAATAAAATTATTTAA
9846086 AAAAATAAAATTATTTAA
1 AAAAATAAAATTATTTAA
9846104 AA
1 AA
9846106 TATTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATAAAATTATTTAA
Found at i:9846348 original size:40 final size:39
Alignment explanation
Indices: 9846291--9846419 Score: 117
Period size: 40 Copynumber: 3.4 Consensus size: 39
9846281 TAATAATAAT
*
9846291 AAAATAAATAAATAAATAAGGAAAAATAAAAAAGTTAAA
1 AAAATTAATAAATAAATAAGGAAAAATAAAAAAGTTAAA
* ** * *
9846330 AAAATTAATAGAACAAATAATAAAAAATCAATAA--T--A
1 AAAATTAATA-AATAAATAAGGAAAAATAAAAAAGTTAAA
* *
9846366 ATAA--AATAAATAAATAAGGACAAATAAAAAAGTTAAA
1 AAAATTAATAAATAAATAAGGAAAAATAAAAAAGTTAAA
*
9846403 AAAATTAAAAAAGTAAA
1 AAAATTAATAAA-TAAA
9846420 AAAAGAGAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 15
0.69 0.15 0.15
Matches are distributed among these distances:
33 17 0.25
34 4 0.06
35 1 0.01
36 4 0.06
37 4 0.06
38 1 0.01
39 14 0.21
40 22 0.33
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (39 bp):
AAAATTAATAAATAAATAAGGAAAAATAAAAAAGTTAAA
Found at i:9846364 original size:14 final size:15
Alignment explanation
Indices: 9846344--9846378 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9846334 TTAATAGAAC
9846344 AAATAATAA-AAAAT
1 AAATAATAATAAAAT
*
9846358 CAATAATAATAAAAT
1 AAATAATAATAAAAT
9846373 AAATAA
1 AAATAA
9846379 ATAAGGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAATAATAAAAT
Found at i:9846404 original size:9 final size:9
Alignment explanation
Indices: 9846390--9846424 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9846380 TAAGGACAAA
9846390 TAAAAAAGT
1 TAAAAAAGT
*
9846399 TAAAAAAAT
1 TAAAAAAGT
9846408 TAAAAAAGT
1 TAAAAAAGT
*
9846417 AAAAAAAG
1 TAAAAAAG
9846425 AGAAAGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (9 bp):
TAAAAAAGT
Found at i:9846411 original size:18 final size:17
Alignment explanation
Indices: 9846390--9846423 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
9846380 TAAGGACAAA
9846390 TAAAAAAGTTAAAAAAAT
1 TAAAAAAG-TAAAAAAAT
9846408 TAAAAAAGTAAAAAAA
1 TAAAAAAGTAAAAAAA
9846424 GAGAAAGAAA
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:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
TAAAAAAGTAAAAAAAT
Found at i:9850684 original size:6 final size:7
Alignment explanation
Indices: 9850665--9850693 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
9850655 AAATGATTTC
9850665 GCTTTTT
1 GCTTTTT
9850672 GCTTTTT
1 GCTTTTT
9850679 GCTTTTT
1 GCTTTTT
9850686 GCTTTTT
1 GCTTTTT
9850693 G
1 G
9850694 TCGTGTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.17, T:0.69
Consensus pattern (7 bp):
GCTTTTT
Found at i:9851827 original size:19 final size:18
Alignment explanation
Indices: 9851803--9851838 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9851793 CAAAAGTTTT
*
9851803 ATTTTAATATTTTTTATAC
1 ATTTTAAT-TTTATTATAC
9851822 ATTTTAATTTTATTATA
1 ATTTTAATTTTATTATA
9851839 TAAACTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTAATTTTATTATAC
Found at i:9857041 original size:23 final size:22
Alignment explanation
Indices: 9857015--9857066 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
9857005 TAAAAGAACA
9857015 TATATAAATAATAAGAAAAATAT-
1 TATATAAATAAT-A-AAAAATATC
* *
9857038 TATAATAAGTACTAAAAAATATC
1 TAT-ATAAATAATAAAAAATATC
9857061 TATATA
1 TATATA
9857067 TATATACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 11 0.44
23 7 0.28
24 7 0.28
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
TATATAAATAATAAAAAATATC
Found at i:9857608 original size:19 final size:18
Alignment explanation
Indices: 9857584--9857619 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
9857574 AATATGTTTA
9857584 CAACAATAATAATAATAAG
1 CAACAATAAT-ATAATAAG
9857603 CAACAATAATATAATAA
1 CAACAATAATATAATAA
9857620 TAATATAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.22
Consensus pattern (18 bp):
CAACAATAATATAATAAG
Found at i:9857620 original size:24 final size:25
Alignment explanation
Indices: 9857589--9857639 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
9857579 GTTTACAACA
9857589 ATAATAATAATA-AGCAACAA-TAAT
1 ATAATAATAATATAGCAA-AACTAAT
9857613 ATAATAATAATATAGCAAAACTAAT
1 ATAATAATAATATAGCAAAACTAAT
9857638 AT
1 AT
9857640 TACAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (25 bp):
ATAATAATAATATAGCAAAACTAAT
Found at i:9858875 original size:17 final size:16
Alignment explanation
Indices: 9858848--9858898 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
9858838 GGTCTGATGT
9858848 TGGG-TTGGGGTTTAA
1 TGGGTTTGGGGTTTAA
9858863 TGGGTTTGAGGGTTTAAA
1 TGGGTTTG-GGGTTT-AA
* *
9858881 GGGGTTTGGGTTTTAA
1 TGGGTTTGGGGTTTAA
9858897 TG
1 TG
9858899 TAAGTGGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 11 0.37
18 9 0.30
ACGTcount: A:0.16, C:0.00, G:0.43, T:0.41
Consensus pattern (16 bp):
TGGGTTTGGGGTTTAA
Found at i:9858887 original size:18 final size:17
Alignment explanation
Indices: 9858855--9858888 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9858845 TGTTGGGTTG
*
9858855 GGGTTTAATGGGTTTGA
1 GGGTTTAAGGGGTTTGA
9858872 GGGTTTAAAGGGGTTTG
1 GGGTTT-AAGGGGTTTG
9858889 GGTTTTAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (17 bp):
GGGTTTAAGGGGTTTGA
Found at i:9869115 original size:27 final size:27
Alignment explanation
Indices: 9869084--9869146 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
9869074 AATCCTCCAT
*
9869084 AACACACTAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* * *
9869111 GACACACCGGTATATCATATCCTCCCA
1 AACACACCAGTATATCATAGCCTCCCA
9869138 AACACACCA
1 AACACACCA
9869147 ATAAAGCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.38, C:0.35, G:0.08, T:0.19
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:9870070 original size:15 final size:16
Alignment explanation
Indices: 9870050--9870080 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9870040 AAATCCAAAT
9870050 TTTCCCTTTTT-TTCC
1 TTTCCCTTTTTCTTCC
9870065 TTTCCCTTTTTCTTCC
1 TTTCCCTTTTTCTTCC
9870081 CCTGTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTCCCTTTTTCTTCC
Found at i:9870438 original size:8 final size:8
Alignment explanation
Indices: 9870425--9870472 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 8
9870415 ACATTTAAGA
*
9870425 AAATATAC
1 AAATATAT
9870433 AAATATAT
1 AAATATAT
*
9870441 ATATATAT
1 AAATATAT
*
9870449 ATATATAT
1 AAATATAT
*
9870457 ATATATAT
1 AAATATAT
9870465 AAATATAT
1 AAATATAT
9870473 TACATGTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (8 bp):
AAATATAT
Found at i:9870442 original size:2 final size:2
Alignment explanation
Indices: 9870435--9870472 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
9870425 AAATATACAA
*
9870435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9870473 TACATGTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9870628 original size:26 final size:27
Alignment explanation
Indices: 9870568--9870629 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
9870558 CCAAAATTTT
* *
9870568 AAATCAAATAATAATAATATTATTAATA
1 AAATCTAATAACAATAATA-TATTAATA
*
9870596 AATTCTAATAACAATAATA-ATTAATA
1 AAATCTAATAACAATAATATATTAATA
9870622 AAATCTAA
1 AAATCTAA
9870630 GAAAAATCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 14 0.47
28 16 0.53
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (27 bp):
AAATCTAATAACAATAATATATTAATA
Found at i:9870733 original size:1 final size:1
Alignment explanation
Indices: 9870727--9870751 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9870717 TTTTGTTCTC
9870727 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
9870752 CAGTTCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9871147 original size:117 final size:117
Alignment explanation
Indices: 9871008--9871243 Score: 364
Period size: 117 Copynumber: 2.0 Consensus size: 117
9870998 TTATCCAATA
*
9871008 GTCATTATCAATGTTAAGGTATGATTCTCTAAAGATATAAAAGAAATTATTAAAAATTCAAAATA
1 GTCATGATCAATGTTAAGGTATGATTCTCTAAAGATATAAAAGAAATTATTAAAAATTCAAAATA
* *
9871073 TTTGTATCTGATCCGATATTCATTCTTAGTCTGAGTAATATAAGCAATAACT
66 TTTGTATCTGATCCAATATTCATTCCTAGTCTGAGTAATATAAGCAATAACT
* * * * *
9871125 GTCATGATCGATGTTAATGTATGATTTTCTAAAGATATAAAAGAAGTTATTAAAAATTTAAAATA
1 GTCATGATCAATGTTAAGGTATGATTCTCTAAAGATATAAAAGAAATTATTAAAAATTCAAAATA
* * * *
9871190 TTTGTATTTGATTCAATATTTATTCCTAGTCTGAGTAATATAGGCAATAACT
66 TTTGTATCTGATCCAATATTCATTCCTAGTCTGAGTAATATAAGCAATAACT
9871242 GT
1 GT
9871244 TTTTAAAGAA
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 107 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (117 bp):
GTCATGATCAATGTTAAGGTATGATTCTCTAAAGATATAAAAGAAATTATTAAAAATTCAAAATA
TTTGTATCTGATCCAATATTCATTCCTAGTCTGAGTAATATAAGCAATAACT
Found at i:9872173 original size:2 final size:2
Alignment explanation
Indices: 9872166--9872199 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9872156 GAAATGAATA
9872166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9872200 TCATGAATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9887505 original size:43 final size:43
Alignment explanation
Indices: 9887439--9887595 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
9887429 CTCATACAAC
** *
9887439 GCCAATGTCCCAGATGTGGTCTTACATGTAATCAAATATCGAT
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGAT
* * * *
9887482 GCCACTGTCCCATACA-GAGTCTTACACGAAATCATATA-CGAT
1 GCCAATGTCCCAGACATG-GTCTTACACGTAATCAAATATCGAT
9887524 GCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCGAT
1 GCCAATGTCCCAGACATGGTCTTACACGT-AATCA-AATATCGAT
* * * *
9887568 CCCGACGTCCCAGACGTGGTCTTACACG
1 GCCAATGTCCCAGACATGGTCTTACACG
9887596 ATAACACATA
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 29 0.31
43 36 0.38
44 29 0.31
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGAT
Found at i:9887588 original size:44 final size:42
Alignment explanation
Indices: 9887445--9887595 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 42
9887435 CAACGCCAAT
* *
9887445 GTCCCAGATGTGGTCTTACATGT-AATCAAATATCGATGCCAC
1 GTCCCAGACGTGGTCTTACACGTAAATCAAA-ATCGATGCCAC
* * * *
9887487 TGTCCCATACAG-AGTCTTACACG-AAATC-ATATACGATGCCAAT
1 -GTCCCAGAC-GTGGTCTTACACGTAAATCAAAAT-CGATGCC-AC
* *
9887530 GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATCCCGAC
1 GTCCCAGACGTGGTCTTACACGTAAATCA-AAATCGATGCC-AC
9887574 GTCCCAGACGTGGTCTTACACG
1 GTCCCAGACGTGGTCTTACACG
9887596 ATAACACATA
Statistics
Matches: 86, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
41 2 0.02
42 26 0.30
43 26 0.30
44 29 0.34
45 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACACGTAAATCAAAATCGATGCCAC
Found at i:9887592 original size:86 final size:85
Alignment explanation
Indices: 9887439--9887596 Score: 205
Period size: 86 Copynumber: 1.8 Consensus size: 85
9887429 CTCATACAAC
** * * *
9887439 GCCAATGTCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCATACAGAGTCT
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATCCCACTGTCCCAGACAGAGTCT
9887504 TACACGAAATCATATACGAT
66 TACACGAAATCATATACGAT
*
9887524 GCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCGATCCCGAC-GTCCCAGAC-GTG
1 GCCAATGTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATCCC-ACTGTCCCAGACAG-A
9887586 GTCTTACACGA
62 GTCTTACACGA
9887597 TAACACATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 27 0.43
86 32 0.51
87 4 0.06
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (85 bp):
GCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATCCCACTGTCCCAGACAGAGTCT
TACACGAAATCATATACGAT
Found at i:9888961 original size:2 final size:2
Alignment explanation
Indices: 9888954--9889001 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
9888944 TCCAAGCTGA
9888954 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9888996 AT AT AT
1 AT AT AT
9889002 GCATGTCAGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9893525 original size:45 final size:46
Alignment explanation
Indices: 9893362--9893536 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
9893352 TGGTTGAGCA
*
9893362 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
9893408 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
9893453 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
9893501 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9893537 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:9901062 original size:45 final size:46
Alignment explanation
Indices: 9900899--9901073 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
9900889 TGGTTGAGCA
*
9900899 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
9900945 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
9900990 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
9901038 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9901074 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:9905845 original size:5 final size:5
Alignment explanation
Indices: 9905835--9905866 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
9905825 TTGTGTGTTC
9905835 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9905867 TTCACAGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:9905849 original size:9 final size:9
Alignment explanation
Indices: 9905835--9905865 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
9905825 TTGTGTGTTC
9905835 TTTATTTTA
1 TTTATTTTA
9905844 TTTATTTTA
1 TTTATTTTA
9905853 TTTTATTTTA
1 -TTTATTTTA
9905863 TTT
1 TTT
9905866 TTTCACAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:9913099 original size:39 final size:39
Alignment explanation
Indices: 9913056--9913149 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
9913046 ATCGTGATCT
* *
9913056 GAAGCCCGAAATCTAGCTAAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAAGCTAACTAAAGCACATAAGTGCTAAACA
* * *
9913095 GAAGCCC-AGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGA-AAGCTAACTAAAGCACATAAGTGCTAAACA
*
9913134 GAAGCCCGAAGGCTAA
1 GAAGCCCGAAAGCTAA
9913150 TTGAAGCTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.02
39 46 0.96
40 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAAGCTAACTAAAGCACATAAGTGCTAAACA
Found at i:9913138 original size:21 final size:21
Alignment explanation
Indices: 9913075--9913138 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
9913065 AATCTAGCTA
9913075 AAGCACATAAGTGCTAAACAG
1 AAGCACATAAGTGCTAAACAG
* * *
9913096 AAGCCCA-GAG-GCT-AACTG
1 AAGCACATAAGTGCTAAACAG
*
9913114 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAGTGCTAAACAG
9913135 AAGC
1 AAGC
9913139 CCGAAGGCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 10 0.29
19 5 0.15
20 5 0.15
21 14 0.41
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.12
Consensus pattern (21 bp):
AAGCACATAAGTGCTAAACAG
Found at i:9913155 original size:39 final size:39
Alignment explanation
Indices: 9913075--9913156 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
9913065 AATCTAGCTA
9913075 AAGCACATAAGTGCTAAACAGAAGCCCAGAGGCTAACTG
1 AAGCACATAAGTGCTAAACAGAAGCCCAGAGGCTAACTG
* *
9913114 AAGCACATAAGTGCTAAACGGAAGCCC-GAAGGCTAATTG
1 AAGCACATAAGTGCTAAACAGAAGCCCAG-AGGCTAACTG
9913153 AAGC
1 AAGC
9913157 TCATCAGAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
38 1 0.03
39 39 0.98
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.13
Consensus pattern (39 bp):
AAGCACATAAGTGCTAAACAGAAGCCCAGAGGCTAACTG
Found at i:9920275 original size:35 final size:35
Alignment explanation
Indices: 9920235--9920304 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
9920225 TCTAGGATCA
* *
9920235 CATATCTTTGAAGGTCTCCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
*
9920270 CATATCTTTGAAGATCACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
9920305 TTCCAGAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Found at i:9924008 original size:20 final size:19
Alignment explanation
Indices: 9923976--9924014 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
9923966 GTACAACGAT
*
9923976 CTAAAAAGTATAAAAAATA
1 CTAAAAAGGATAAAAAATA
*
9923995 CTAAAAACGGATAAGAAATA
1 CTAAAAA-GGATAAAAAATA
9924015 GTTACCATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (19 bp):
CTAAAAAGGATAAAAAATA
Found at i:9928480 original size:33 final size:35
Alignment explanation
Indices: 9928441--9928521 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 35
9928431 AAAAAATGCA
* *
9928441 CAAAAAAATAACA-CCCAAACAGCAAAAACAGA-AG
1 CAAAAAAATAACAGCACAAACAACAAAAACA-ACAG
* *
9928475 C--AAAAATAACAGTACAAATAACAAAAACAACAG
1 CAAAAAAATAACAGCACAAACAACAAAAACAACAG
9928508 CAAAAAAATAACAG
1 CAAAAAAATAACAG
9928522 AACCAAAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
32 11 0.28
33 16 0.41
34 1 0.03
35 11 0.28
ACGTcount: A:0.67, C:0.20, G:0.07, T:0.06
Consensus pattern (35 bp):
CAAAAAAATAACAGCACAAACAACAAAAACAACAG
Found at i:9931247 original size:22 final size:24
Alignment explanation
Indices: 9931219--9931263 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
9931209 AATTTTTTTC
9931219 TACTTTAAATT-TTAT-TCAAAAA
1 TACTTTAAATTGTTATATCAAAAA
*
9931241 TACTTTAATTTGTTATATCAAAA
1 TACTTTAAATTGTTATATCAAAA
9931264 CATATTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (24 bp):
TACTTTAAATTGTTATATCAAAAA
Found at i:9934328 original size:93 final size:93
Alignment explanation
Indices: 9934169--9934351 Score: 330
Period size: 93 Copynumber: 2.0 Consensus size: 93
9934159 TGAGCATTCG
*
9934169 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCC
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCC
9934234 GAGTTCGTGAAATGTAACTAGGCATCCA
66 GAGTTCGTGAAATGTAACTAGGCATCCA
* * *
9934262 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATTTCTGAACTTGTTGAGTTGAGTCC
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCC
9934327 GAGTTCGTGAAATGTAACTAGGCAT
66 GAGTTCGTGAAATGTAACTAGGCAT
9934352 TGCGAATGTC
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (93 bp):
AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCC
GAGTTCGTGAAATGTAACTAGGCATCCA
Found at i:9934367 original size:56 final size:54
Alignment explanation
Indices: 9934293--9934621 Score: 248
Period size: 47 Copynumber: 6.7 Consensus size: 54
9934283 GTTCACTTAT
* * *
9934293 GGATGCGAATTTCTGAACTTGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
1 GGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
* *
9934347 GGCATTGCGAATGTCCGAACTTGTTGAGTTGAGTCCGAGTTTGTGAAATGTAACTA
1 GG-A-TGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
* *
9934403 -G--GC--A--TCC-AAGCTCATTGAGTTGAGTCCGAGTTC----ACT-T-A-T-
1 GGATGCGAATGTCCGAA-CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
* * *
9934442 GGATGCGAATGTCCGAACTCATTGAGTTGAGTTCGAGTTCATGAAATGTAACTA
1 GGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
* *
9934496 -G--GC--A--TCCGAACTCATTGAGTTGAGTCCGAGTTC----ACT-T-A-T-
1 GGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
9934535 GGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
1 GGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
*
9934589 -G--GC--A--TCTGAACTCGTTGAGTTGAGTCCGAGTTC
1 GGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
9934622 ACTTATGGAT
Statistics
Matches: 227, Mismatches: 14, Indels: 75
0.72 0.04 0.24
Matches are distributed among these distances:
40 4 0.02
41 2 0.01
42 6 0.03
43 4 0.02
44 2 0.01
46 55 0.24
47 81 0.36
49 3 0.01
50 4 0.02
51 8 0.04
52 2 0.01
53 4 0.02
54 2 0.01
55 2 0.01
56 48 0.21
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (54 bp):
GGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:9934456 original size:93 final size:92
Alignment explanation
Indices: 9934352--9934668 Score: 501
Period size: 93 Copynumber: 3.4 Consensus size: 92
9934342 AACTAGGCAT
* *
9934352 TGCGAATGTCCGAACTTGTTGAGTTGAGTCCGAGTTTGTGAAATGTAACTAGGCATCCAAGCTCA
1 TGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCAA-CTCA
9934417 TTGAGTTGAGTCCGAGTTCACTTATGGA
65 TTGAGTTGAGTCCGAGTTCACTTATGGA
* * *
9934445 TGCGAATGTCCGAACTCATTGAGTTGAGTTCGAGTTCATGAAATGTAACTAGGCATCCGAACTCA
1 TGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCC-AACTCA
9934510 TTGAGTTGAGTCCGAGTTCACTTATGGA
65 TTGAGTTGAGTCCGAGTTCACTTATGGA
* *
9934538 TGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCTGAACTCG
1 TGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATC-CAACTCA
9934603 TTGAGTTGAGTCCGAGTTCACTTATGGA
65 TTGAGTTGAGTCCGAGTTCACTTATGGA
* * *
9934631 TGCGAACG-CCTGAGCTCGTTGAGTTGAATCCGAGTTCG
1 TGCGAATGTCC-GAACTCGTTGAGTTGAGTCCGAGTTCG
9934669 CTTATGGGCG
Statistics
Matches: 208, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
92 2 0.01
93 204 0.98
94 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (92 bp):
TGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCAACTCAT
TGAGTTGAGTCCGAGTTCACTTATGGA
Found at i:9934467 original size:149 final size:149
Alignment explanation
Indices: 9934203--9934500 Score: 515
Period size: 149 Copynumber: 2.0 Consensus size: 149
9934193 CACTTATGGA
*
9934203 TGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCAAGCTCG
1 TGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCAAGCTCA
* * **
9934268 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATTTCTGAACTTGTTGAGTTGAGTCCGAGTTC
66 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGTTGAGTCCGAGTTC
*
9934333 GTGAAATGTAACTAGGCAT
131 ATGAAATGTAACTAGGCAT
* *
9934352 TGCGAATGTCCGAACTTGTTGAGTTGAGTCCGAGTTTGTGAAATGTAACTAGGCATCCAAGCTCA
1 TGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCAAGCTCA
*
9934417 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGTTGAGTTCGAGTTC
66 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGTTGAGTCCGAGTTC
9934482 ATGAAATGTAACTAGGCAT
131 ATGAAATGTAACTAGGCAT
9934501 CCGAACTCAT
Statistics
Matches: 140, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 140 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (149 bp):
TGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCAAGCTCA
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGTTGAGTCCGAGTTC
ATGAAATGTAACTAGGCAT
Found at i:9944092 original size:2 final size:2
Alignment explanation
Indices: 9944085--9944109 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9944075 CACTTACCCC
9944085 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9944110 ATGAATGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9944813 original size:8 final size:8
Alignment explanation
Indices: 9944800--9944847 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
9944790 CTTTTATGTT
9944800 TTATTATA
1 TTATTATA
*
9944808 TTATTAAA
1 TTATTATA
9944816 TTA-T-TA
1 TTATTATA
9944822 -TATTATA
1 TTATTATA
*
9944829 TTAATATA
1 TTATTATA
9944837 TTATTATA
1 TTATTATA
9944845 TTA
1 TTA
9944848 ATTTCTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 2 0.06
6 2 0.06
7 3 0.09
8 26 0.79
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:9944825 original size:21 final size:21
Alignment explanation
Indices: 9944801--9944847 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
9944791 TTTTATGTTT
*
9944801 TATTATATTATTAAATTATTA
1 TATTATATTAATAAATTATTA
*
9944822 TATTATATTAATATATTATTA
1 TATTATATTAATAAATTATTA
9944843 TATTA
1 TATTA
9944848 ATTTCTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATATTAATAAATTATTA
Found at i:9947905 original size:2 final size:2
Alignment explanation
Indices: 9947898--9947923 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9947888 ATTCTTCTTA
9947898 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9947924 TTGTCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9948549 original size:19 final size:18
Alignment explanation
Indices: 9948527--9948605 Score: 55
Period size: 16 Copynumber: 4.5 Consensus size: 18
9948517 CACATATAAA
9948527 AATAATTAAAATATAATAT
1 AATAA-TAAAATATAATAT
9948546 AAT-A-AAAATAT--TAT
1 AATAATAAAATATAATAT
9948560 AA-AATATAAATATATATAT
1 AATAATA-AAATATA-ATAT
*
9948579 AATAAATCAAAAT-TCATAT
1 AAT-AAT-AAAATATAATAT
9948598 AAT-ATAAA
1 AATAATAAA
9948606 TTATTATCAT
Statistics
Matches: 50, Mismatches: 1, Indels: 21
0.69 0.01 0.29
Matches are distributed among these distances:
14 6 0.12
15 1 0.02
16 16 0.32
17 2 0.04
18 1 0.02
19 15 0.30
20 1 0.02
21 7 0.14
22 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAATAAAATATAATAT
Found at i:9948553 original size:16 final size:16
Alignment explanation
Indices: 9948528--9948584 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
9948518 ACATATAAAA
*
9948528 ATAATTAAAATATAAT
1 ATAATAAAAATATAAT
*
9948544 ATAATAAAAATATTAT
1 ATAATAAAAATATAAT
* *
9948560 AAAATATAAATATATAT
1 ATAATAAAAATATA-AT
9948577 ATAATAAA
1 ATAATAAA
9948585 TCAAAATTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
16 25 0.76
17 8 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAATAAAAATATAAT
Found at i:9948578 original size:22 final size:22
Alignment explanation
Indices: 9948493--9948584 Score: 76
Period size: 23 Copynumber: 3.9 Consensus size: 22
9948483 AAAACACTTA
* *
9948493 ATAAATAGTATAAATTATAAAAT
1 ATAAATA-TAAAAATAATAAAAT
* *
9948516 ACACATATAAAAATAATTAAAAT
1 ATAAATATAAAAATAA-TAAAAT
9948539 ATAATATAATAAAAATATTATAAAAT
1 ATAA-AT-ATAAAAATA--ATAAAAT
* *
9948565 ATAAATATATATATAATAAA
1 ATAAATATAAAAATAATAAA
9948585 TCAAAATTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
22 12 0.21
23 13 0.23
24 9 0.16
25 11 0.20
26 10 0.18
27 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (22 bp):
ATAAATATAAAAATAATAAAAT
Found at i:9948591 original size:21 final size:20
Alignment explanation
Indices: 9948537--9948591 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
9948527 AATAATTAAA
9948537 ATATAATATAATAAAA-ATAT
1 ATATAATA-AATAAAATATAT
9948557 -TAT-A-AAATATAAATATAT
1 ATATAATAAATA-AAATATAT
9948575 ATATAATAAATCAAAAT
1 ATATAATAAAT-AAAAT
9948592 TCATATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 5 0.17
19 6 0.21
20 1 0.03
21 8 0.28
22 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATAATAAATAAAATATAT
Found at i:9948602 original size:36 final size:32
Alignment explanation
Indices: 9948535--9948637 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 32
9948525 AAAATAATTA
*
9948535 AAATATAATATAATAAAAATATTATAAAATAT
1 AAATATAATATAATAAAAAAATTATAAAATAT
*
9948567 AAATATATATATAATAAATCAAAATTCATATAATAT
1 AAATATA-ATATAATAAA--AAAATT-ATAAAATAT
* * * *
9948603 AAAT-TATTATCATATCAAAATTTATAACAATAT
1 AAATATAATATAATA-AAAAAATTATAA-AATAT
9948636 AA
1 AA
9948638 CACATCAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
32 10 0.17
33 22 0.38
34 6 0.10
35 8 0.14
36 12 0.21
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (32 bp):
AAATATAATATAATAAAAAAATTATAAAATAT
Found at i:9950969 original size:43 final size:43
Alignment explanation
Indices: 9950918--9951075 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 43
9950908 TATCCCGGAT
* ** * *
9950918 ATGGTCTTACATGTTATCACATATCGATACCACTATCCCAGAC
1 ATGGTCTTACACGAAATCACATATCGATACCAATGTCCCAGAC
* * * * *
9950961 AGGGTCTTATACGAAATCATATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATATCGATACCAATGTCCCAGAC
* * *
9951004 ATGGTCTTACACGAAATCACA-ATACAATGCCAATGTCTCAGAC
1 ATGGTCTTACACGAAATCACATAT-CGATACCAATGTCCCAGAC
* * *
9951047 ATGGTCTTACATGTAATCACATCTCGATA
1 ATGGTCTTACACGAAATCACATATCGATA
9951076 ATACTAATGT
Statistics
Matches: 92, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 1 0.01
43 90 0.98
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCACATATCGATACCAATGTCCCAGAC
Done.