Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 53 of 332
Found at i:15722905 original size:26 final size:26
Alignment explanation
Indices: 15722876--15722931 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
15722866 TGGTACAAAT
** *
15722876 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGAATTAGGTAAATATTCCA
15722902 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGAATTAGGTAAATATTCCA
15722928 TGAT
1 TGAT
15722932 GGGCATTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (26 bp):
TGATAATGAATTAGGTAAATATTCCA
Found at i:15724472 original size:37 final size:37
Alignment explanation
Indices: 15724413--15724518 Score: 185
Period size: 37 Copynumber: 2.9 Consensus size: 37
15724403 AGCTCAGACG
* *
15724413 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
15724450 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
15724487 TAATCTCCACACGTAGTCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
15724519 AGAATATATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:15724723 original size:48 final size:48
Alignment explanation
Indices: 15724668--15725060 Score: 653
Period size: 48 Copynumber: 8.1 Consensus size: 48
15724658 GCACATCGCC
15724668 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
15724716 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * * *
15724768 TATATATTTCACA-TTGACCATTCGGCTTTACCATATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
15724816 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
15724864 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
15724912 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
15724960 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
15725008 TACATATTTCACATTAGTCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
15725056 TACAT
1 TACAT
15725061 CAATTTCAGC
Statistics
Matches: 325, Mismatches: 14, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
48 280 0.86
49 2 0.01
51 2 0.01
52 41 0.13
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:15728363 original size:27 final size:27
Alignment explanation
Indices: 15728278--15728379 Score: 109
Period size: 27 Copynumber: 3.8 Consensus size: 27
15728268 AGGAAGCGTC
* *
15728278 CTGGTGGCTGTGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
*
15728305 CTCGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
15728332 GTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* * *
15728359 CTGGTGACTTTGTCACAATAT
1 CTGGTGGCTCTGCCACAATAT
15728380 TTGGCAGCCT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
26 9 0.14
27 54 0.86
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:15738321 original size:147 final size:147
Alignment explanation
Indices: 15738098--15738364 Score: 428
Period size: 147 Copynumber: 1.8 Consensus size: 147
15738088 ATTCCCATGG
*
15738098 CCTGGCGCACTTCCTCCACTTCTTACCACATTGCCAACAAGACTGCCCCCTCTACCAAGCATTCC
1 CCTGGCGCACTTCCTCCACTTCCTACCACATTGCCAACAAGACTGCCCCCTCTACCAAGCATTCC
* *
15738163 CTCAGTCCCCACAATCCCAACTGCAATTCCCCCTATTCCTTTCTCTTT-TCCACCATTGCCATCT
66 CTCAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCT-TTTCTCCACCATTGCCATCT
15738227 TTCCCTAATCTCCCAAAC
130 TTCCCTAATCTCCCAAAC
* * * *
15738245 CCTGGGGCACTTCCTCCACTTCCTACCACATTGCCAAGAGGACTGCCCCCTCTGCCAAGCATTCC
1 CCTGGCGCACTTCCTCCACTTCCTACCACATTGCCAACAAGACTGCCCCCTCTACCAAGCATTCC
* * *
15738310 TTCAGTCCCCACAACCCCAACTACAGTTCCCTCTATTCCTTTCTTTTCTCCACCA
66 CTCAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCTTTTCTCCACCA
15738365 CCTTCTCAAT
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
146 3 0.03
147 106 0.97
ACGTcount: A:0.20, C:0.44, G:0.09, T:0.27
Consensus pattern (147 bp):
CCTGGCGCACTTCCTCCACTTCCTACCACATTGCCAACAAGACTGCCCCCTCTACCAAGCATTCC
CTCAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCTTTTCTCCACCATTGCCATCTT
TCCCTAATCTCCCAAAC
Found at i:15741060 original size:75 final size:75
Alignment explanation
Indices: 15740971--15741123 Score: 270
Period size: 75 Copynumber: 2.0 Consensus size: 75
15740961 AAAAAGAGAA
*
15740971 AACCTAAAATTTAACGAATCGACATCAAAACTTACTCAATAACCTCCCAAAATAAAATGCTAACA
1 AACCTAAAATTTAACGAATCAACATCAAAACTTACTCAATAACCTCCCAAAATAAAATGCTAACA
15741036 ATGTAACTTC
66 ATGTAACTTC
* * *
15741046 AACCTAAAATTTAACGAATCAACATCAAAACTTACTCAATAACCTTCTAAAATAGAATGCTAACA
1 AACCTAAAATTTAACGAATCAACATCAAAACTTACTCAATAACCTCCCAAAATAAAATGCTAACA
15741111 ATGTAACTTC
66 ATGTAACTTC
15741121 AAC
1 AAC
15741124 TAGTCCGTAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (75 bp):
AACCTAAAATTTAACGAATCAACATCAAAACTTACTCAATAACCTCCCAAAATAAAATGCTAACA
ATGTAACTTC
Found at i:15746192 original size:51 final size:49
Alignment explanation
Indices: 15746098--15746215 Score: 116
Period size: 51 Copynumber: 2.4 Consensus size: 49
15746088 TGTTCTGCAT
* * *
15746098 TTAATAAAGTCATGCATTATGTAACTTTCATGTTAGTTAAGTTTGCATCA
1 TTAATTAAGTCATGCATTAAGTAACTTT-ATGTTAGTTAAGTTTACATCA
*
15746148 TTAAATTAAGTCATGCATTAAGTAACTCATT-TGTTCA-TTTAGTTTACATC-
1 TT-AATTAAGTCATGCATTAAGTAACT--TTATGTT-AGTTAAGTTTACATCA
* *
15746198 TTAATTAAATTATGCATT
1 TTAATTAAGTCATGCATT
15746216 TAAACATCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
49 14 0.24
50 4 0.07
51 37 0.64
52 1 0.02
53 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (49 bp):
TTAATTAAGTCATGCATTAAGTAACTTTATGTTAGTTAAGTTTACATCA
Found at i:15752976 original size:147 final size:147
Alignment explanation
Indices: 15752755--15753019 Score: 451
Period size: 147 Copynumber: 1.8 Consensus size: 147
15752745 TCCCATGGCC
15752755 TGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCCCT
1 TGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCCCT
* *
15752820 CAGTCCCCACAATCCCAACTGCAATTCCCCCTATTCCTTTCTCTTT-TCCACCATTGCCATCTTT
66 CAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCT-TTTCTCCACCATTGCCATCTTT
15752884 CCCTAATCTCCCAAACCT
130 CCCTAATCTCCCAAACCT
* * *
15752902 TGGGGCGCTTCCTCCACTTCCTACCACATTTCCAAGAGGACTGCCCCCTCTGCCAAGCATTCCTT
1 TGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCCCT
* *
15752967 CAGTCCCCACAACCCCAACTACAGTTCCCTCTATTCCTTTCTTTTCTCCACCA
66 CAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCTTTTCTCCACCA
15753020 CCTTCTCGTT
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
146 3 0.03
147 107 0.97
ACGTcount: A:0.19, C:0.43, G:0.10, T:0.28
Consensus pattern (147 bp):
TGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCCCT
CAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCTTTTCTCCACCATTGCCATCTTTC
CCTAATCTCCCAAACCT
Found at i:15753584 original size:17 final size:17
Alignment explanation
Indices: 15753564--15753599 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
15753554 AATGCTTTTA
15753564 AAATTAGATCG-ATAATT
1 AAATTA-ATCGAATAATT
15753581 AAATTAATCGAATAATT
1 AAATTAATCGAATAATT
15753598 AA
1 AA
15753600 TTCTCAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (17 bp):
AAATTAATCGAATAATT
Found at i:15755542 original size:147 final size:147
Alignment explanation
Indices: 15755321--15755585 Score: 451
Period size: 147 Copynumber: 1.8 Consensus size: 147
15755311 TCCCATGGCC
15755321 TGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCCCT
1 TGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCCCT
* *
15755386 CAGTCCCCACAATCCCAACTGCAATTCCCCCTATTCCTTTCTCTTT-TCCACCATTGCCATCTTT
66 CAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCT-TTTCTCCACCATTGCCATCTTT
15755450 CCCTAATCTCCCAAACCT
130 CCCTAATCTCCCAAACCT
* * *
15755468 TGGGGCGCTTCCTCCACTTCCTACCACATTTCCAAGAGGACTGCCCCCTCTGCCAAGCATTCCTT
1 TGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCCCT
* *
15755533 CAGTCCCCACAACCCCAACTACAGTTCCCTCTATTCCTTTCTTTTCTCCACCA
66 CAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCTTTTCTCCACCA
15755586 CCTTCTCGTT
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
146 3 0.03
147 107 0.97
ACGTcount: A:0.19, C:0.43, G:0.10, T:0.28
Consensus pattern (147 bp):
TGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCCCT
CAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCTTTTCTCCACCATTGCCATCTTTC
CCTAATCTCCCAAACCT
Found at i:15759428 original size:7 final size:7
Alignment explanation
Indices: 15759416--15759480 Score: 76
Period size: 7 Copynumber: 9.1 Consensus size: 7
15759406 CTACCTCTCG
15759416 AACCCTA
1 AACCCTA
15759423 AACCCTA
1 AACCCTA
*
15759430 AATCCTA
1 AACCCTA
*
15759437 AACCCTG
1 AACCCTA
**
15759444 AACTTTA
1 AACCCTA
*
15759451 AAGCCTA
1 AACCCTA
15759458 CAACCCTA
1 -AACCCTA
15759466 AACCCTA
1 AACCCTA
15759473 AACCCTA
1 AACCCTA
15759480 A
1 A
15759481 GATCCCGGCA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
7 41 0.87
8 6 0.13
ACGTcount: A:0.42, C:0.37, G:0.03, T:0.18
Consensus pattern (7 bp):
AACCCTA
Found at i:15761067 original size:15 final size:15
Alignment explanation
Indices: 15761049--15761088 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
15761039 AATAATACTA
*
15761049 AATATATATATACAT
1 AATATATATACACAT
*
15761064 AATATATGTACACAT
1 AATATATATACACAT
15761079 AATATATATA
1 AATATATATA
15761089 AAATGAACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (15 bp):
AATATATATACACAT
Found at i:15761169 original size:20 final size:21
Alignment explanation
Indices: 15761146--15761206 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
15761136 AATACTACAT
*
15761146 AAATATGTACATAT-ATATTA
1 AAATATATACATATAATATTA
*
15761166 AAATAAATACATAATAATATTA
1 AAATATATACAT-ATAATATTA
*
15761188 AAAGTATATACATAAAATA
1 AAA-TATATACATATAATA
15761207 GTGTTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 10 0.29
21 2 0.06
22 14 0.41
23 8 0.24
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (21 bp):
AAATATATACATATAATATTA
Found at i:15761188 original size:22 final size:23
Alignment explanation
Indices: 15761153--15761206 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
15761143 CATAAATATG
15761153 TACAT-AT-ATATTAAAA-TAAA
1 TACATAATAATATTAAAAGTAAA
*
15761173 TACATAATAATATTAAAAGTATA
1 TACATAATAATATTAAAAGTAAA
15761196 TACATAA-AATA
1 TACATAATAATA
15761207 GTGTTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 5 0.17
21 2 0.07
22 13 0.43
23 10 0.33
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (23 bp):
TACATAATAATATTAAAAGTAAA
Found at i:15761213 original size:25 final size:25
Alignment explanation
Indices: 15761185--15761253 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 25
15761175 CATAATAATA
15761185 TTAAAAGTATATACATAAAATAG-TG
1 TTAAAA-TATATACATAAAATAGTTG
*
15761210 TTAAAA-ATGCATACATAATATAGTTG
1 TTAAAATAT--ATACATAAAATAGTTG
15761236 TTAATATATATATACATA
1 TTAA-A-ATATATACATA
15761254 TTAGAAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
23 2 0.05
25 18 0.49
26 6 0.16
27 8 0.22
28 1 0.03
29 2 0.05
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (25 bp):
TTAAAATATATACATAAAATAGTTG
Found at i:15761360 original size:3 final size:3
Alignment explanation
Indices: 15761354--15761380 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15761344 CATATACTAC
15761354 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
15761381 GATGTATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15761667 original size:19 final size:18
Alignment explanation
Indices: 15761643--15761747 Score: 59
Period size: 19 Copynumber: 5.3 Consensus size: 18
15761633 ACATGAGATG
15761643 ATATAAAAATATATACATAA
1 ATATAAAAATATATA-AT-A
15761663 TATAATAAAATATATGAATAATA
1 -AT-ATAAAA-ATAT--ATAATA
* *
15761686 TGATATTAAAAAAATATACAAA
1 --ATA-TAAAAATATATA-ATA
*
15761708 ATATAAAAAAATATAATA
1 ATATAAAAATATATAATA
* *
15761726 TTAAAAAAATA-ATAATA
1 ATATAAAAATATATAATA
15761743 ATATA
1 ATATA
15761748 CATAATATAA
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
17 9 0.13
18 10 0.15
19 12 0.18
20 3 0.04
21 5 0.07
22 8 0.12
23 9 0.13
24 9 0.13
25 3 0.04
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
ATATAAAAATATATAATA
Found at i:15761701 original size:16 final size:16
Alignment explanation
Indices: 15761682--15761742 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
15761672 ATATATGAAT
*
15761682 AATATGATATTAAAAA
1 AATATAATATTAAAAA
*
15761698 AATATACAAAATATAAAAA
1 AATAT--AATAT-TAAAAA
15761717 AATATAATATTAAAAA
1 AATATAATATTAAAAA
15761733 AATAATAATA
1 AAT-ATAATA
15761743 ATATACATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 14 0.37
17 10 0.26
18 3 0.08
19 11 0.29
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
AATATAATATTAAAAA
Found at i:15761740 original size:17 final size:17
Alignment explanation
Indices: 15761688--15761742 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
15761678 GAATAATATG
*
15761688 ATATTAAAAAAATATACA
1 ATATTAAAAAAATA-ATA
*
15761706 AAATATAAAAAAAT-ATA
1 ATAT-TAAAAAAATAATA
15761723 ATATTAAAAAAATAATA
1 ATATTAAAAAAATAATA
15761740 ATA
1 ATA
15761743 ATATACATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.28
17 11 0.34
18 3 0.09
19 9 0.28
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
ATATTAAAAAAATAATA
Found at i:15761746 original size:35 final size:35
Alignment explanation
Indices: 15761664--15761782 Score: 109
Period size: 35 Copynumber: 3.3 Consensus size: 35
15761654 TATACATAAT
* * *
15761664 ATAATAAAATATATGAATAATATGATATTAAAAAA
1 ATAATAAAATATATAAAAAATATAATATTAAAAAA
*
15761699 ATATACAAAATATA-AAAAAATATAATATTAAAAAA
1 ATA-ATAAAATATATAAAAAATATAATATTAAAAAA
* * *
15761734 ATAATAATA-ATATACATAATATAAGAGTATTAAAATAA
1 ATAATAAAATATATAAAAAATAT-A-A-TATTAAAA-AA
15761772 ATAA-AAAATAT
1 ATAATAAAATAT
15761783 GGAAGGAATG
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
33 3 0.04
34 11 0.16
35 25 0.37
36 10 0.15
37 11 0.16
38 8 0.12
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (35 bp):
ATAATAAAATATATAAAAAATATAATATTAAAAAA
Found at i:15761816 original size:12 final size:11
Alignment explanation
Indices: 15761799--15762136 Score: 62
Period size: 12 Copynumber: 29.7 Consensus size: 11
15761789 AATGAGTAAA
15761799 AATAATATACAT
1 AATAATATA-AT
15761811 AATAATATAAT
1 AATAATATAAT
* *
15761822 AAGAAAATAAT
1 AATAATATAAT
*
15761833 -ATATTTATAAT
1 AATA-ATATAAT
* *
15761844 AAGTACT-TAAA
1 AA-TAATATAAT
*
15761855 AAT-ATTTACATT
1 AATAATATA-A-T
* *
15761867 TATATATGTA-T
1 AATA-ATATAAT
15761878 AATAATGATAA-
1 AATAAT-ATAAT
15761889 AA-AATAATAAT
1 AATAAT-ATAAT
* *
15761900 AATAGTGAAAAT
1 AATAAT-ATAAT
15761912 AATAAATATAAT
1 AAT-AATATAAT
15761924 AATAAATATAAT
1 AAT-AATATAAT
* *
15761936 AATAGAAAAAGAT
1 AATA-ATATA-AT
* *
15761949 AATACTATGTAAA
1 AATA--ATATAAT
15761962 AAGT-ATATATAT
1 AA-TAATATA-AT
15761974 ACAT-ATATAAT
1 A-ATAATATAAT
15761985 AA-AATAT-AT
1 AATAATATAAT
*
15761994 ACTAATATTAAT
1 AATAATA-TAAT
15762006 AATAAT-T-AT
1 AATAATATAAT
**
15762015 AATAGAGGTAA-
1 AATA-ATATAAT
15762026 AAGTAGATATAAT
1 AA-TA-ATATAAT
*
15762039 AATATAAATAAT
1 AATA-ATATAAT
* *
15762051 ACGTACATGAAAAAT
1 A-ATA-AT--ATAAT
15762066 AATAATA-AAT
1 AATAATATAAT
*
15762076 AATAATATAAA
1 AATAATATAAT
* *
15762087 AAGAAAAT-AT
1 AATAATATAAT
* *
15762097 GATAAAATAAT
1 AATAATATAAT
* *
15762108 AGT-GTATAA-
1 AATAATATAAT
15762117 AATAATAATAAT
1 AATAAT-ATAAT
15762129 AATAATAT
1 AATAATAT
15762137 TTACAATAAA
Statistics
Matches: 238, Mismatches: 52, Indels: 73
0.66 0.14 0.20
Matches are distributed among these distances:
9 12 0.05
10 47 0.20
11 62 0.26
12 82 0.34
13 21 0.09
14 9 0.04
15 5 0.02
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.32
Consensus pattern (11 bp):
AATAATATAAT
Found at i:15761897 original size:3 final size:3
Alignment explanation
Indices: 15761876--15762135 Score: 64
Period size: 3 Copynumber: 84.0 Consensus size: 3
15761866 TTATATATGT
* *
15761876 ATA ATA ATG ATA A-A A-A ATA ATA ATA ATA GTGA A-A ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * * *
15761918 TATA ATA ATA A-A TATA ATA ATA GA-A AAA GATA ATA CTA TGTA AAA
1 -ATA ATA ATA ATA -ATA ATA ATA -ATA ATA -ATA ATA ATA -ATA ATA
* *
15761963 AGTA TATA TATA CATA TATA ATA A-A ATA TATA CTA ATA TTA ATA ATA
1 A-TA -ATA -ATA -ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* *
15762010 ATT ATA ATA GAGGTA A-A AGTA GAT- ATA ATA AT- ATAA ATA ATA CGTA
1 ATA ATA ATA -A--TA ATA A-TA -ATA ATA ATA ATA AT-A ATA ATA -ATA
* * * *
15762056 CATGA AAA ATA ATA ATAA ATA ATA AT- ATA AAA AGA A-A AT- ATG ATA
1 -AT-A ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
15762101 A-A ATA ATA GTGT ATA A-A ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
15762136 TTTACAATAA
Statistics
Matches: 195, Mismatches: 29, Indels: 66
0.67 0.10 0.23
Matches are distributed among these distances:
2 27 0.14
3 124 0.64
4 38 0.19
5 4 0.02
6 2 0.01
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:15762001 original size:20 final size:21
Alignment explanation
Indices: 15761968--15762015 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
15761958 TAAAAAGTAT
15761968 ATATATACATATA-TAATAAA
1 ATATATACATATATTAATAAA
15761988 ATATATAC-TAATATTAATAATA
1 ATATATACAT-ATATTAATAA-A
15762010 AT-TATA
1 ATATATA
15762016 ATAGAGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 11 0.44
21 10 0.40
22 3 0.12
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATACATATATTAATAAA
Found at i:15762218 original size:3 final size:3
Alignment explanation
Indices: 15762210--15762335 Score: 120
Period size: 3 Copynumber: 43.7 Consensus size: 3
15762200 TATTAAAAAT
*
15762210 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
15762258 T-A TAA TAA TAG TAA CT-A TAG TAA TAA T-A TAT TGA TAA -AA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
15762300 -AA -AA TAA TAG TGA TAA TAA GAA TAT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
15762336 GTCATAAGGA
Statistics
Matches: 99, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
2 11 0.11
3 87 0.88
4 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15762350 original size:27 final size:27
Alignment explanation
Indices: 15762296--15762359 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
15762286 TATTGATAAA
* * *
15762296 ATAAAAAATAATAGTGATAATAAGAAT
1 ATAAATAATAATAGTCATAAGAAGAAT
* * *
15762323 ATTAATAATAATAGTCATAAGGATAAT
1 ATAAATAATAATAGTCATAAGAAGAAT
15762350 ATAAATAATA
1 ATAAATAATA
15762360 TTTAAAATAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (27 bp):
ATAAATAATAATAGTCATAAGAAGAAT
Found at i:15764393 original size:77 final size:75
Alignment explanation
Indices: 15764253--15764396 Score: 200
Period size: 75 Copynumber: 1.9 Consensus size: 75
15764243 AAAAACAGAA
* * *
15764253 TTTGAAAAATAGAAACTGAAAATGCCTCAGCATGTCCCGAGGTTCAACTCACCTCTCGCAATATG
1 TTTGAAAAATAGAAACTAAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATG
15764318 AGCTTATTTT
66 AGCTTATTTT
* * *
15764328 TTTGAAAAATAGAAATTAAAAATATCTCGGCATGTGGCCCGAGGGCT-AACTCACCTCTCGCAAT
1 TTTGAAAAATAGAAACTAAAAATACCTCAGCATGT--CCCGA-GGCTCAACTCACCTCTCGCAAT
15764392 ATGAG
63 ATGAG
15764397 TTGATAGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
75 30 0.50
77 27 0.45
78 3 0.05
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (75 bp):
TTTGAAAAATAGAAACTAAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATG
AGCTTATTTT
Found at i:15764446 original size:64 final size:64
Alignment explanation
Indices: 15764336--15764465 Score: 181
Period size: 64 Copynumber: 2.0 Consensus size: 64
15764326 TTTTTGAAAA
* * * *
15764336 ATAGAAATTAAAAATATCTCGGCATGTGGCCCGAGGGCTAACTCACCTCTCGCAATATGAGTTG
1 ATAGAAACTAAAAATATCTCAGCATGTGACCCGAGGGCTAACTCACCTCTCACAATATGAGTTG
* * *
15764400 ATAGAAACTAAAAATATCTCAGCGTGTGACTCGA-GGCTCAATTCACCTCTCACAATATGAGTTG
1 ATAGAAACTAAAAATATCTCAGCATGTGACCCGAGGGCT-AACTCACCTCTCACAATATGAGTTG
15764464 AT
1 AT
15764466 TTTTTTAATG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 4 0.07
64 54 0.93
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (64 bp):
ATAGAAACTAAAAATATCTCAGCATGTGACCCGAGGGCTAACTCACCTCTCACAATATGAGTTG
Found at i:15772948 original size:4 final size:4
Alignment explanation
Indices: 15772939--15772971 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
15772929 ATGTACATGC
15772939 AATG AATG AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG AATG AATG A
15772972 CAAATAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:15776865 original size:15 final size:15
Alignment explanation
Indices: 15776847--15776886 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
15776837 AATAATACTA
*
15776847 AATATATATATACAT
1 AATATATATACACAT
*
15776862 AATATATGTACACAT
1 AATATATATACACAT
15776877 AATATATATA
1 AATATATATA
15776887 AAATGAACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (15 bp):
AATATATATACACAT
Found at i:15776969 original size:20 final size:21
Alignment explanation
Indices: 15776946--15777006 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
15776936 AATACTACAT
*
15776946 AAATATGTACATAT-ATATTA
1 AAATATATACATATAATATTA
15776966 AAATA-ACTACATAATAATATTA
1 AAATATA-TACAT-ATAATATTA
*
15776988 AAAGTATATACATAAAATA
1 AAA-TATATACATATAATA
15777007 GTGTTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 10 0.29
21 2 0.06
22 14 0.41
23 7 0.21
24 1 0.03
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (21 bp):
AAATATATACATATAATATTA
Found at i:15776988 original size:22 final size:23
Alignment explanation
Indices: 15776953--15777029 Score: 65
Period size: 25 Copynumber: 3.4 Consensus size: 23
15776943 CATAAATATG
15776953 TACAT-AT-ATATTAAAA-TA-A
1 TACATAATAATATTAAAAGTATA
15776972 CTACATAATAATATTAAAAGTATA
1 -TACATAATAATATTAAAAGTATA
* *
15776996 TACATAA-AATAGTGTTAAAAATACA
1 TACATAATAATA---TTAAAAGTATA
15777021 TACATAATA
1 TACATAATA
15777030 TAGTTGTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.11
21 2 0.04
22 13 0.28
23 9 0.19
24 1 0.02
25 16 0.34
26 1 0.02
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (23 bp):
TACATAATAATATTAAAAGTATA
Found at i:15777013 original size:25 final size:25
Alignment explanation
Indices: 15776985--15777047 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
15776975 CATAATAATA
15776985 TTAAAAGTATATACATAAAATAG-TG
1 TTAAAA-TATATACATAAAATAGTTG
* *
15777010 TTAAAAATACATACATAATATAGTTG
1 TT-AAAATATATACATAAAATAGTTG
15777036 TTAAAATATATA
1 TTAAAATATATA
15777048 TCTACATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 25 0.76
26 8 0.24
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAATATATACATAAAATAGTTG
Found at i:15777147 original size:21 final size:21
Alignment explanation
Indices: 15777101--15777166 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
15777091 ATAATACTGC
* * *
15777101 ATAAACATATACATATATATG
1 ATAAACATATATACATATATA
* *
15777122 TTAAAGATATATACATATATA
1 ATAAACATATATACATATATA
15777143 ATAAACATATAATA-ATA-ATA
1 ATAAACATAT-ATACATATATA
15777163 ATAA
1 ATAA
15777167 TAATAATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 7 0.19
21 27 0.73
22 3 0.08
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (21 bp):
ATAAACATATATACATATATA
Found at i:15777157 original size:3 final size:3
Alignment explanation
Indices: 15777151--15777181 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15777141 TAATAAACAT
15777151 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15777182 GATGTATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15777502 original size:9 final size:10
Alignment explanation
Indices: 15777445--15777559 Score: 71
Period size: 9 Copynumber: 11.3 Consensus size: 10
15777435 ACATGAGATG
15777445 ATATAAAAAT
1 ATATAAAAAT
*
15777455 ATATACATAAT
1 ATATA-AAAAT
15777466 ATA-ATAAAAT
1 ATATA-AAAAT
15777476 ATATGAATAATAT
1 ATAT-AA-AA-AT
15777489 GATATTAAAAAT
1 -ATA-TAAAAAT
15777501 ATATACAAAAT
1 ATATA-AAAAT
15777512 ATATAAAAA-
1 ATATAAAAAT
*
15777521 ATAT-AATAT
1 ATATAAAAAT
*
15777530 -TAAAAAAAT
1 ATATAAAAAT
*
15777539 A-ATAATAAT
1 ATATAAAAAT
*
15777548 ATA-AATAAT
1 ATATAAAAAT
15777557 ATA
1 ATA
15777560 AGAGTATTAA
Statistics
Matches: 85, Mismatches: 8, Indels: 25
0.72 0.07 0.21
Matches are distributed among these distances:
8 5 0.06
9 24 0.28
10 20 0.24
11 21 0.25
12 5 0.06
13 4 0.05
14 5 0.06
15 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:15777512 original size:36 final size:35
Alignment explanation
Indices: 15777463--15777560 Score: 108
Period size: 36 Copynumber: 2.8 Consensus size: 35
15777453 ATATATACAT
* * * *
15777463 AATATAATAAAATATATGAATAATATGATATTAAA
1 AATATAACAAAATATATAAAAAATATAATATTAAA
15777498 AATATATACAAAATATATAAAAAATATAATATTAAA
1 AATATA-ACAAAATATATAAAAAATATAATATTAAA
* * * *
15777534 AAAATAATAATA-ATATAAATAATATAA
1 AATATAACAAAATATATAAAAAATATAA
15777561 GAGTATTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 14 0.26
35 10 0.19
36 30 0.56
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (35 bp):
AATATAACAAAATATATAAAAAATATAATATTAAA
Found at i:15777513 original size:46 final size:43
Alignment explanation
Indices: 15777442--15777528 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 43
15777432 TGCACATGAG
* *
15777442 ATGATATAAAAATATATACATAATATAATAAAATATATGAATAAT
1 ATGATATAAAAATATATACAAAATAT-ATAAAAAATAT-AATAAT
15777487 ATGATATTAAAAATATATACAAAATATATAAAAAATATAATA
1 ATGATA-TAAAAATATATACAAAATATATAAAAAATATAATA
15777529 TTAAAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
44 4 0.10
45 16 0.41
46 19 0.49
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (43 bp):
ATGATATAAAAATATATACAAAATATATAAAAAATATAATAAT
Found at i:15777535 original size:25 final size:27
Alignment explanation
Indices: 15777498--15777551 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
15777488 TGATATTAAA
15777498 AATATATACAAAATATATAA-AA-AATAT
1 AATATATACAAAA-A-ATAATAATAATAT
15777525 AATAT-TA-AAAAAATAATAATAATAT
1 AATATATACAAAAAATAATAATAATAT
15777550 AA
1 AA
15777552 ATAATATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.16
24 3 0.12
25 11 0.44
26 2 0.08
27 5 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (27 bp):
AATATATACAAAAAATAATAATAATAT
Found at i:15777540 original size:14 final size:14
Alignment explanation
Indices: 15777509--15777558 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
15777499 ATATATACAA
15777509 AATATATAAAAAATAT
1 AATAT-TAAAAAA-AT
15777525 AATATTAAAAAAAT
1 AATATTAAAAAAAT
* *
15777539 AATAATAATATAAAT
1 AATATTAA-AAAAAT
15777554 AATAT
1 AATAT
15777559 AAGAGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 9 0.30
15 16 0.53
16 5 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATATTAAAAAAAT
Found at i:15777548 original size:20 final size:20
Alignment explanation
Indices: 15777523--15777578 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
15777513 TATAAAAAAT
15777523 ATAATATTAAAAAAATAATA
1 ATAATATTAAAAAAATAATA
*
15777543 ATAATA-T-AAATAAT-ATA
1 ATAATATTAAAAAAATAATA
* *
15777560 AGAGTATTAAAATAAATAA
1 ATAATATTAAAA-AAATAA
15777579 ATAAATATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
17 7 0.25
18 7 0.25
19 4 0.14
20 9 0.32
21 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
ATAATATTAAAAAAATAATA
Found at i:15777702 original size:3 final size:3
Alignment explanation
Indices: 15777681--15777937 Score: 53
Period size: 3 Copynumber: 83.0 Consensus size: 3
15777671 TTATATATGT
* *
15777681 ATA ATA ATG ATA A-A A-A ATA ATA ATA ATA GTGA A-A ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * * *
15777723 TATA ATA ATA A-A TATA ATA ATA GA-A AAA GATA ATA CTA TGTA AAA
1 -ATA ATA ATA ATA -ATA ATA ATA -ATA ATA -ATA ATA ATA -ATA ATA
* *
15777768 AGTA TATA TATA CATA TATA ATA A-A ATA TATA CTA ATA TTA ATA ATA
1 A-TA -ATA -ATA -ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* *
15777815 ATT ATA ATA GAGGTA A-A AGTA GAT- ATA ATA AT- ATAA ATA ATA CGTA
1 ATA ATA ATA -A--TA ATA A-TA -ATA ATA ATA ATA AT-A ATA ATA -ATA
* * *
15777861 CATGA A-A AGTA ATA ATAA ATA ATA ATA A-A ATA AAA AGA A-A AT- ATG
1 -AT-A ATA A-TA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15777906 ATA A-A ATA ATA GAGT- ATA A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA
15777938 TTTACAATAA
Statistics
Matches: 194, Mismatches: 23, Indels: 74
0.67 0.08 0.25
Matches are distributed among these distances:
2 30 0.15
3 117 0.60
4 40 0.21
5 5 0.03
6 2 0.01
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:15777729 original size:12 final size:12
Alignment explanation
Indices: 15777714--15777744 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15777704 TAATAGTGAA
15777714 AATAATAAATAT
1 AATAATAAATAT
15777726 AATAATAAATAT
1 AATAATAAATAT
15777738 AATAATA
1 AATAATA
15777745 GAAAAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:15777806 original size:20 final size:21
Alignment explanation
Indices: 15777773--15777820 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
15777763 TAAAAAGTAT
15777773 ATATATACATATA-TAATAAA
1 ATATATACATATATTAATAAA
15777793 ATATATAC-TAATATTAATAATA
1 ATATATACAT-ATATTAATAA-A
15777815 AT-TATA
1 ATATATA
15777821 ATAGAGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 11 0.44
21 10 0.40
22 3 0.12
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATACATATATTAATAAA
Found at i:15778018 original size:3 final size:3
Alignment explanation
Indices: 15778012--15778165 Score: 92
Period size: 3 Copynumber: 53.7 Consensus size: 3
15778002 TATTAAAAAT
* *
15778012 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA T-A TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
15778059 CT-A TAG TAA TAA T-A TAT TGA TAA -AA TAA -AA -AA TAA TAG TGA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * **
15778100 TAA TAA GAA TAT TAA TAA TAA TAG TCA TAA GGA TAA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* *
15778145 TAT TAA AAA TAA -AA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
15778166 GCAAAGATAA
Statistics
Matches: 111, Mismatches: 30, Indels: 20
0.69 0.19 0.12
Matches are distributed among these distances:
2 17 0.15
3 91 0.82
4 3 0.03
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:15779214 original size:49 final size:49
Alignment explanation
Indices: 15779142--15779251 Score: 204
Period size: 49 Copynumber: 2.3 Consensus size: 49
15779132 GGCGGCTAGG
15779142 GGGGCTAGGGTTTCTAATTTCTGAAAATAAGTTCTGGGCTAATGTTAGT
1 GGGGCTAGGGTTTCTAATTTCTGAAAATAAGTTCTGGGCTAATGTTAGT
*
15779191 GGGGCTAGGGTTTCTAATTTCTGAAAATAAGTTCTGGGCTGATGTTAGT
1 GGGGCTAGGGTTTCTAATTTCTGAAAATAAGTTCTGGGCTAATGTTAGT
15779240 -GGGCTAGGGTTT
1 GGGGCTAGGGTTT
15779252 GTTTAATTGG
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
48 12 0.20
49 48 0.80
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.36
Consensus pattern (49 bp):
GGGGCTAGGGTTTCTAATTTCTGAAAATAAGTTCTGGGCTAATGTTAGT
Found at i:15782111 original size:39 final size:39
Alignment explanation
Indices: 15782057--15782132 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 39
15782047 TTAGTTTGTT
*
15782057 TCTTTAGATATGTCATAGTTTGAACATTATTAATATGAG
1 TCTTTAGATATGTCATAGTTTGAACATCATTAATATGAG
15782096 TCTTTA-ATTATGTCATAGTTTGAACATCATTAATATG
1 TCTTTAGA-TATGTCATAGTTTGAACATCATTAATATG
15782133 TATTCTGCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (39 bp):
TCTTTAGATATGTCATAGTTTGAACATCATTAATATGAG
Found at i:15782155 original size:44 final size:39
Alignment explanation
Indices: 15782068--15782155 Score: 95
Period size: 39 Copynumber: 2.1 Consensus size: 39
15782058 CTTTAGATAT
* * * *
15782068 GTCATAGTTTGAACATTATTAATATGAGTCTTTAATTAT
1 GTCATAGTTTGAACATCATTAATATGACTCTTTAATAAA
15782107 GTCATAGTTTGAACATCATTAATATGTATTCTGCATTTAATAAA
1 GTCATAGTTTGAACATCATTAATATG-A--CT-C-TTTAATAAA
15782151 GTCAT
1 GTCAT
15782156 GCATTGTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 25 0.62
40 1 0.03
42 1 0.03
43 1 0.03
44 12 0.30
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (39 bp):
GTCATAGTTTGAACATCATTAATATGACTCTTTAATAAA
Found at i:15785748 original size:24 final size:24
Alignment explanation
Indices: 15785721--15785767 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
15785711 ATCATCAAGG
15785721 GACAATTCTTGCAAACTCTATCAT
1 GACAATTCTTGCAAACTCTATCAT
15785745 GACAATTCTTGCAAACTCTATCA
1 GACAATTCTTGCAAACTCTATCA
15785768 ACTAATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.32
Consensus pattern (24 bp):
GACAATTCTTGCAAACTCTATCAT
Found at i:15787590 original size:17 final size:17
Alignment explanation
Indices: 15787570--15787607 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15787560 AATTTTACAA
15787570 CACTTAAAAAAATTTTC
1 CACTTAAAAAAATTTTC
* *
15787587 CACTTAGAAAATTTTTC
1 CACTTAAAAAAATTTTC
15787604 CACT
1 CACT
15787608 AAACAATGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (17 bp):
CACTTAAAAAAATTTTC
Found at i:15789230 original size:8 final size:8
Alignment explanation
Indices: 15789213--15789268 Score: 82
Period size: 8 Copynumber: 7.4 Consensus size: 8
15789203 AGTAATATAT
15789213 TATT-TTA
1 TATTATTA
15789220 TATTATTA
1 TATTATTA
15789228 TATTATTA
1 TATTATTA
15789236 TATTATTA
1 TATTATTA
*
15789244 CATTA-TA
1 TATTATTA
15789251 TA-TATTA
1 TATTATTA
15789258 TATTATTA
1 TATTATTA
15789266 TAT
1 TAT
15789269 ATATGTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
6 2 0.05
7 11 0.25
8 31 0.70
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTATTA
Found at i:15789267 original size:13 final size:13
Alignment explanation
Indices: 15789210--15789272 Score: 62
Period size: 13 Copynumber: 5.0 Consensus size: 13
15789200 ATAAGTAATA
*
15789210 TATTATTTTATAT
1 TATTATATTATAT
15789223 TATTATA-T-TAT
1 TATTATATTATAT
*
15789234 TA-TATTATTACAT
1 TATTA-TATTATAT
15789247 TATATATATTATAT
1 TAT-TATATTATAT
15789261 TATTATA-TATAT
1 TATTATATTATAT
15789273 GTAAAACAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
10 2 0.05
11 7 0.17
12 7 0.17
13 14 0.33
14 10 0.24
15 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:15789892 original size:58 final size:58
Alignment explanation
Indices: 15789791--15789908 Score: 164
Period size: 58 Copynumber: 2.0 Consensus size: 58
15789781 AAATATAGTG
* ** *
15789791 ATTGGTAGCAATTCTGCATAAGTTCTGGGCTACCATAGTTCTGTGTGAGCATCGATGT
1 ATTGGTAGCAATTCTGCATAAGTTCTGGCCTACCATAAATCTGTGTGAGCATCGAAGT
* * * *
15789849 ATTGGTAGTAATTCTGCATAAGTTGTGGCCTATCGTAAATCTGTGTGAGCATCGAAGT
1 ATTGGTAGCAATTCTGCATAAGTTCTGGCCTACCATAAATCTGTGTGAGCATCGAAGT
15789907 AT
1 AT
15789909 ATGATTTACC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (58 bp):
ATTGGTAGCAATTCTGCATAAGTTCTGGCCTACCATAAATCTGTGTGAGCATCGAAGT
Found at i:15795032 original size:28 final size:27
Alignment explanation
Indices: 15794979--15795032 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
15794969 TATTTGAATG
* * * *
15794979 ATAAATTTTTATTTTTTAAGTTTATTA
1 ATAAATTTTTATATTTGAAATGTATTA
15795006 ATAAATATTTTATATTTGAAATGTATT
1 ATAAAT-TTTTATATTTGAAATGTATT
15795033 TAGTTTCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (27 bp):
ATAAATTTTTATATTTGAAATGTATTA
Found at i:15796823 original size:14 final size:14
Alignment explanation
Indices: 15796804--15796831 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15796794 CTAAAACCCC
15796804 AAACCATAGACATT
1 AAACCATAGACATT
15796818 AAACCATAGACATT
1 AAACCATAGACATT
15796832 TTATTTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AAACCATAGACATT
Found at i:15797456 original size:7 final size:7
Alignment explanation
Indices: 15797432--15797514 Score: 51
Period size: 7 Copynumber: 11.7 Consensus size: 7
15797422 TCATTGTATA
15797432 TTTAGGG
1 TTTAGGG
*
15797439 TTAAGGG
1 TTTAGGG
*
15797446 TTTAGGC
1 TTTAGGG
***
15797453 TTTATAA
1 TTTAGGG
15797460 TTTAGGG
1 TTTAGGG
* *
15797467 CTTAGAG
1 TTTAGGG
*
15797474 TTTAGTG
1 TTTAGGG
15797481 TTTATGGG
1 TTTA-GGG
*
15797489 -ATAGGG
1 TTTAGGG
*
15797495 GTTAGAGG
1 TTTAG-GG
15797503 TTTAGGG
1 TTTAGGG
15797510 TTTAG
1 TTTAG
15797515 ATTAATTAGT
Statistics
Matches: 56, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
6 3 0.05
7 45 0.80
8 8 0.14
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (7 bp):
TTTAGGG
Found at i:15797763 original size:65 final size:64
Alignment explanation
Indices: 15797686--15797885 Score: 238
Period size: 65 Copynumber: 3.0 Consensus size: 64
15797676 AAAAACGCAA
15797686 CAAAAAACATAATAGTTTAACGAAAACGGCGTCGTTTTAATTGGAGATTTAGGGGATTAGCGCCG
1 CAAAAAA-ATAATAGTTTAACGAAAACGGCGTCGTTTTAATTGGAGATTTAGGGGATTAGCGCCG
*
15797751 CAAAAAATATAATAGTTTAACGAAAACGGCGTCGTTTTAATTGGAGATTTAGGGAATTAGTAGCA
1 CAAAAAA-ATAATAGTTTAACGAAAACGGCGTCGTTTTAATTGGAGATTTAGGGGA-T--T---A
15797816 GCGACGCCG
59 --G-CGCCG
** * * * *
15797825 CAAAAAAATAGCAGTTTAATGAAAACGGCGTCATTTTAATTGGAGGTTTAGGGGAGTAGCG
1 CAAAAAAATAATAGTTTAACGAAAACGGCGTCGTTTTAATTGGAGATTTAGGGGATTAGCG
15797886 GTGTTTTTTG
Statistics
Matches: 117, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
64 2 0.02
65 55 0.47
66 1 0.01
67 1 0.01
68 1 0.01
70 1 0.01
71 1 0.01
73 43 0.37
74 12 0.10
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (64 bp):
CAAAAAAATAATAGTTTAACGAAAACGGCGTCGTTTTAATTGGAGATTTAGGGGATTAGCGCCG
Found at i:15801948 original size:24 final size:23
Alignment explanation
Indices: 15801920--15801969 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 23
15801910 AACAACTTAG
15801920 AGCGGAGGCAGCAG-AGAGGGAGGC
1 AGCGG-GGCAGCAGCA-AGGGAGGC
15801944 AGC--GGCAGCAGCAAGGGAGGC
1 AGCGGGGCAGCAGCAAGGGAGGC
15801965 AGCGG
1 AGCGG
15801970 CAGTAGCGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 19 0.83
22 1 0.04
24 3 0.13
ACGTcount: A:0.28, C:0.20, G:0.52, T:0.00
Consensus pattern (23 bp):
AGCGGGGCAGCAGCAAGGGAGGC
Found at i:15801951 original size:21 final size:21
Alignment explanation
Indices: 15801926--15801981 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
15801916 TTAGAGCGGA
15801926 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGAGAGGGAGGCAGC
15801947 GGCAGCAGCA-AGGGAGGCAGC
1 GGCAGCAG-AGAGGGAGGCAGC
* *
15801968 GGCAGTAGCGAGGG
1 GGCAGCAGAGAGGG
15801982 CAGTAGAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.52, T:0.02
Consensus pattern (21 bp):
GGCAGCAGAGAGGGAGGCAGC
Found at i:15802247 original size:33 final size:33
Alignment explanation
Indices: 15802210--15802290 Score: 112
Period size: 31 Copynumber: 2.5 Consensus size: 33
15802200 TTAGATTTAA
* *
15802210 TGTTTTTGGTTGTATTTTTTATGCTACATTTGT
1 TGTTTTTGGTTGGATTTTTCATGCTACATTTGT
* *
15802243 TGTTTTTGGTTGGA--TTTCATGTTATATTTGT
1 TGTTTTTGGTTGGATTTTTCATGCTACATTTGT
15802274 TGTTTTTGGTTGGATTT
1 TGTTTTTGGTTGGATTT
15802291 AATGAAGAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 28 0.67
33 14 0.33
ACGTcount: A:0.11, C:0.04, G:0.22, T:0.63
Consensus pattern (33 bp):
TGTTTTTGGTTGGATTTTTCATGCTACATTTGT
Found at i:15802432 original size:43 final size:43
Alignment explanation
Indices: 15802384--15802634 Score: 283
Period size: 43 Copynumber: 5.9 Consensus size: 43
15802374 AAAGTTATGG
* *
15802384 CTTTTAACGGCGCTTTTCTCACAAACACCGCTAAAAGCCATGA
1 CTTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAAGCCATGA
* * * * * *
15802427 CTTTTAGTGGCAC-TTCCCCAACAAACGCCACTAAAAGCTATGA
1 CTTTTAGCGGCGCTTTTCTC-ACAAACGCCGCTAAAAGCCATGA
* *
15802470 CTTTTAGCGGCGCTTTTCGCACAAACGCTGCTAAAAG-CATGA
1 CTTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAAGCCATGA
* * * **
15802512 CTTTTAGAGGCGTTTTTGTCACAAACGTTGCTAAAAGCCA-GCA
1 CTTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAAGCCATG-A
* * * *
15802555 CTTTTAGCGGCGCTTTTCTCATAAATGCCACTAAAAACCATGA
1 CTTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAAGCCATGA
*
15802598 CTTTTAGCTGCGCTTTTCTCACAAACGCCGCTAAAAG
1 CTTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAAG
15802635 TCTTGATATT
Statistics
Matches: 169, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
42 41 0.24
43 123 0.73
44 5 0.03
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
CTTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAAGCCATGA
Found at i:15804303 original size:45 final size:45
Alignment explanation
Indices: 15804239--15804331 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
15804229 TTGGGATCAA
15804239 GAAAAAGGGTCTCGATCTTCTGAAGCCGAATGCACTGAAGATTTT
1 GAAAAAGGGTCTCGATCTTCTGAAGCCGAATGCACTGAAGATTTT
15804284 GAAAAAGGGTCTCGATCTTCTGAAGCCGAATGCACTGAAGATTTT
1 GAAAAAGGGTCTCGATCTTCTGAAGCCGAATGCACTGAAGATTTT
15804329 GAA
1 GAA
15804332 TTCCTAGAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (45 bp):
GAAAAAGGGTCTCGATCTTCTGAAGCCGAATGCACTGAAGATTTT
Found at i:15807532 original size:42 final size:38
Alignment explanation
Indices: 15807445--15807535 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 38
15807435 GCGTTTGGCC
* *
15807445 AAAAAACGCCGTAAAAGTTATATATTAGTGGCGCTTTA
1 AAAAAACGCCGTAAAAGTGAGATATTAGTGGCGCTTTA
15807483 AAGAAAACGCCGCTAAAAGTCAGAGATATT-GTGGCGCTTGTTA
1 AA-AAAACGCCG-TAAAAGT--GAGATATTAGTGGCGC-T-TTA
15807526 AAAAAACGCC
1 AAAAAACGCC
15807536 ACAAAAGATC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
38 2 0.04
39 9 0.20
40 7 0.16
41 7 0.16
42 15 0.33
43 5 0.11
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (38 bp):
AAAAAACGCCGTAAAAGTGAGATATTAGTGGCGCTTTA
Found at i:15807813 original size:39 final size:38
Alignment explanation
Indices: 15807770--15807898 Score: 96
Period size: 39 Copynumber: 3.1 Consensus size: 38
15807760 CTATAGAGGC
15807770 ATTAGTGGCGTTTTACTAAAAACGCCGCAACATATAAGA
1 ATTAGTGGCGTTTTA-TAAAAACGCCGCAACATATAAGA
* * * * *
15807809 ATTAGCGGCGTTTCTATAGAAACGCTGCAAAAGTGGCTATAGAGGC
1 ATTAGTGGCGTTT-TATAAAAACGCCGCAACA-----TATA-A-GA
* * *
15807855 ATTAGTGGCGTTTTATTTAAAATGCCGCAACATATCAGA
1 ATTAGTGGCGTTTTA-TAAAAACGCCGCAACATATAAGA
15807894 ATTAG
1 ATTAG
15807899 CGGCATTTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
39 31 0.46
40 3 0.04
41 3 0.04
44 4 0.06
45 3 0.04
46 24 0.35
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (38 bp):
ATTAGTGGCGTTTTATAAAAACGCCGCAACATATAAGA
Found at i:15807839 original size:105 final size:105
Alignment explanation
Indices: 15807653--15807841 Score: 288
Period size: 105 Copynumber: 1.8 Consensus size: 105
15807643 TATTTTAATG
* * * * *
15807653 AGCTATAGAGGCATTAGTGGCGTTTTACTTAAAACGCCGTAATATATCAGAATTAGCGGTGCTTC
1 AGCTATAGAGGCATTAGTGGCGTTTTACTAAAAACGCCGCAACATATAAGAATTAGCGGCGCTTC
* *
15807718 TTTAAAAATGCCGCAAAAGCCTTCAGAGAAACGACGACGT
66 TATAAAAACGCCGCAAAAGCCTTCAGAGAAACGACGACGT
*
15807758 AGCTATAGAGGCATTAGTGGCGTTTTACTAAAAACGCCGCAACATATAAGAATTAGCGGCGTTTC
1 AGCTATAGAGGCATTAGTGGCGTTTTACTAAAAACGCCGCAACATATAAGAATTAGCGGCGCTTC
* *
15807823 TATAGAAACGCTGCAAAAG
66 TATAAAAACGCCGCAAAAG
15807842 TGGCTATAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (105 bp):
AGCTATAGAGGCATTAGTGGCGTTTTACTAAAAACGCCGCAACATATAAGAATTAGCGGCGCTTC
TATAAAAACGCCGCAAAAGCCTTCAGAGAAACGACGACGT
Found at i:15808757 original size:15 final size:15
Alignment explanation
Indices: 15808739--15808770 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15808729 TTTAATTTAG
15808739 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
15808754 AAGATAAATATATAT
1 AAGATAAATATAAAT
15808769 AA
1 AA
15808771 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:15809573 original size:25 final size:24
Alignment explanation
Indices: 15809528--15809579 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
15809518 CTTTGCCCCG
* * *
15809528 ATTCTGAAATCCCAATTTCCCTAA
1 ATTCAGAAATCCCAAATTCCCCAA
15809552 ATTCAGAAATCTCCAAATTCCCCAA
1 ATTCAGAAATC-CCAAATTCCCCAA
15809577 ATT
1 ATT
15809580 GGCAAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.31
Consensus pattern (24 bp):
ATTCAGAAATCCCAAATTCCCCAA
Found at i:15809711 original size:37 final size:37
Alignment explanation
Indices: 15809605--15809722 Score: 148
Period size: 37 Copynumber: 3.2 Consensus size: 37
15809595 AAATCTCCCT
* * *
15809605 GTGCATTGCAACCCATCTCCTT-CATCGCCTTCTCCCT
1 GTGCATCGCAACCCATCT-CTTCCATCGCCTTCGCCCC
* * *
15809642 GTGCATCGCAAACCATCCCCTCCATCGCCTTCGCCCC
1 GTGCATCGCAACCCATCTCTTCCATCGCCTTCGCCCC
*
15809679 GTGCATCGCAACCCATCTCTTCCATTGCCTTCGCCCC
1 GTGCATCGCAACCCATCTCTTCCATCGCCTTCGCCCC
*
15809716 ATGCATC
1 GTGCATC
15809723 TGCTGCATAG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
36 2 0.03
37 67 0.97
ACGTcount: A:0.15, C:0.46, G:0.13, T:0.26
Consensus pattern (37 bp):
GTGCATCGCAACCCATCTCTTCCATCGCCTTCGCCCC
Found at i:15812187 original size:27 final size:26
Alignment explanation
Indices: 15812138--15812296 Score: 187
Period size: 27 Copynumber: 5.9 Consensus size: 26
15812128 AGGAAGCGTC
* *
15812138 CTGGTGGCTATGCTACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
15812165 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
15812191 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAA-TATCTGAT
*
15812219 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
15812246 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* *
15812273 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
15812297 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.09
27 104 0.89
28 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:15812217 original size:54 final size:54
Alignment explanation
Indices: 15812135--15812278 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
15812125 TGGAGGAAGC
*
15812135 GTCCTGGTGGCTATGCTACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
15812189 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
15812243 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
15812279 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:15812290 original size:81 final size:80
Alignment explanation
Indices: 15812138--15812296 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 80
15812128 AGGAAGCGTC
* *
15812138 CTGGTGGCTATGCTACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
15812203 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
15812219 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
15812282 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
15812297 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 17 0.25
81 52 0.75
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:15813993 original size:14 final size:15
Alignment explanation
Indices: 15813971--15814007 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
15813961 TTACTATAAT
15813971 AATTATATGAAGTAA
1 AATTATATGAAGTAA
15813986 AA-TATATGAAGTAA
1 AATTATATGAAGTAA
15814000 AATTATAT
1 AATTATAT
15814008 TGTATACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (15 bp):
AATTATATGAAGTAA
Found at i:15815488 original size:19 final size:17
Alignment explanation
Indices: 15815447--15815480 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15815437 CATGTTTCTA
15815447 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
15815464 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
15815481 TTTTTCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
ATTCAAAAGTAATATAT
Found at i:15815525 original size:16 final size:16
Alignment explanation
Indices: 15815504--15815535 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15815494 CTAGCAACTC
*
15815504 ACATAATTTACATAAT
1 ACATAACTTACATAAT
15815520 ACATAACTTACATAAT
1 ACATAACTTACATAAT
15815536 TTAAAGTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (16 bp):
ACATAACTTACATAAT
Found at i:15815587 original size:64 final size:63
Alignment explanation
Indices: 15815504--15815775 Score: 216
Period size: 64 Copynumber: 4.3 Consensus size: 63
15815494 CTAGCAACTC
* * * * *
15815504 ACATAATTTACATAATACATAACTTACATAATTTAAAGTTCAAATTTTATAACTCACATAATTT
1 ACATAACTCACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAA-TT
* * * *
15815568 ACTTAACTCACATAATACATGACTTACATAATTTAGAGATCAAATTTCATAACTTACATGA-T
1 ACATAACTCACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATT
* * ** *
15815630 ACATAACTTACATAAT--TTAA-AGACCA-AATTTCATAAGTTACATAATTTACATAACTTACAT
1 ACATAACTCACATAATACATAACTTA-CATAATTT-A-AAGAT-CA-AATTT-CATAACTTACAT
*
15815691 AATA
60 AATT
* * * * *
15815695 ACTTAAAGTTCA-A-ATTTCATAACTTACATAATTTAAAGATCAAATTTCATAAGTTACATAATT
1 ACAT-AA-CTCACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAA-T
15815758 T
63 T
*
15815759 ACATAACTTACATAATA
1 ACATAACTCACATAATA
15815776 ATTTAAAGAT
Statistics
Matches: 158, Mismatches: 34, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
59 6 0.04
60 5 0.03
61 3 0.02
62 19 0.12
63 21 0.13
64 76 0.48
65 7 0.04
66 7 0.04
67 8 0.05
68 6 0.04
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (63 bp):
ACATAACTCACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATT
Found at i:15815625 original size:30 final size:30
Alignment explanation
Indices: 15815521--15815858 Score: 139
Period size: 30 Copynumber: 11.5 Consensus size: 30
15815511 TTACATAATA
*
15815521 CATAACTTACATAATTTAAAGTTCAAATTT
1 CATAACTTACATAATTTAAAGATCAAATTT
* * * * *
15815551 TATAACTCACATAATTTACTTAA-CTCACATAATA
1 CATAACTTACATAATTTA---AAGATCA-A-ATTT
* *
15815585 CATGACTTACATAATTTAGAGATCAAATTT
1 CATAACTTACATAATTTAAAGATCAAATTT
* ** **
15815615 CATAACTTACATGATACATAACTTACATAATTT
1 CATAACTTACATAATTTA-AAGAT-CA-AATTT
* *
15815648 -A-AA--GACCA-AATTTCATAAGTTACATAATTT
1 CATAACTTA-CATAATTT-A-AAGAT-CA-AATTT
*
15815678 ACATAACTTACATAATAACTTAAAGTTCAAATTT
1 -CATAACTTACATAAT---TTAAAGATCAAATTT
15815712 CATAACTTACATAATTTAAAGATCAAATTT
1 CATAACTTACATAATTTAAAGATCAAATTT
* *
15815742 CATAAGTTACATAATTT--ACAT--AA---
1 CATAACTTACATAATTTAAAGATCAAATTT
* *
15815765 C-TTACATA-ATAATTTAAAGATCAAATTT
1 CATAACTTACATAATTTAAAGATCAAATTT
* *
15815793 CATAAGTTACATAATTT--ACAT--AA---
1 CATAACTTACATAATTTAAAGATCAAATTT
* *
15815816 C-TTACATA-ATAATTTAAAGATCAAATTT
1 CATAACTTACATAATTTAAAGATCAAATTT
15815844 CATAACTTACATAAT
1 CATAACTTACATAAT
15815859 ACATAACTTA
Statistics
Matches: 228, Mismatches: 42, Indels: 76
0.66 0.12 0.22
Matches are distributed among these distances:
21 14 0.06
22 8 0.04
23 8 0.04
25 4 0.02
26 4 0.02
28 8 0.04
29 12 0.05
30 91 0.40
31 6 0.03
32 10 0.04
33 25 0.11
34 24 0.11
35 6 0.03
36 5 0.02
37 1 0.00
38 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.36
Consensus pattern (30 bp):
CATAACTTACATAATTTAAAGATCAAATTT
Found at i:15815632 original size:46 final size:46
Alignment explanation
Indices: 15815571--15815726 Score: 204
Period size: 46 Copynumber: 3.3 Consensus size: 46
15815561 ATAATTTACT
* * *
15815571 TAACTCACATAATACATGACTTACATAATTTAGAGATCAAATTTCA
1 TAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCA
* *
15815617 TAACTTACATGATACATAACTTACATAATTTAAAGACCAAATTTCA
1 TAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCA
* *
15815663 TAAGTTACATAATTTACATAACTTACATAATAACTTAAAGTTCAAATTTCA
1 TAACTTACATAA--TACATAACTTACATAAT---TTAAAGATCAAATTTCA
15815714 TAACTTACATAAT
1 TAACTTACATAAT
15815727 TTAAAGATCA
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
46 51 0.54
48 17 0.18
49 1 0.01
51 26 0.27
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (46 bp):
TAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCA
Found at i:15815643 original size:9 final size:9
Alignment explanation
Indices: 15815499--15815773 Score: 57
Period size: 9 Copynumber: 30.2 Consensus size: 9
15815489 GTTCACTAGC
*
15815499 AACTCACAT
1 AACTTACAT
*
15815508 AATTTACAT
1 AACTTACAT
15815517 AA--TACAT
1 AACTTACAT
15815524 AACTTACAT
1 AACTTACAT
* *
15815533 AATTTAAAGTT
1 AACTTACA--T
* **
15815544 CAAATTTTAT
1 -AACTTACAT
*
15815554 AACTCACAT
1 AACTTACAT
* *
15815563 AATTTACTT
1 AACTTACAT
*
15815572 AACTCACAT
1 AACTTACAT
15815581 AA--TACAT
1 AACTTACAT
*
15815588 GACTTACAT
1 AACTTACAT
* *
15815597 AATTTAGAGAT
1 AACTT--ACAT
* *
15815608 CAAATTTCAT
1 -AACTTACAT
15815618 AACTTACAT
1 AACTTACAT
*
15815627 GA--TACAT
1 AACTTACAT
15815634 AACTTACAT
1 AACTTACAT
* * *
15815643 AATTTAAAGACC
1 AACTT--ACA-T
* *
15815655 AAATTTCAT
1 AACTTACAT
*
15815664 AAGTTACAT
1 AACTTACAT
*
15815673 AATTTACAT
1 AACTTACAT
15815682 AACTTACAT
1 AACTTACAT
* *
15815691 AA-TAACTT
1 AACTTACAT
*
15815699 AAAGTT-CA-
1 -AACTTACAT
*
15815707 AA-TTTCAT
1 AACTTACAT
15815715 AACTTACAT
1 AACTTACAT
* *
15815724 AATTTAAAGAT
1 AACTT--ACAT
* *
15815735 CAAATTTCAT
1 -AACTTACAT
*
15815745 AAGTTACAT
1 AACTTACAT
*
15815754 AATTTACAT
1 AACTTACAT
15815763 AACTTACAT
1 AACTTACAT
15815772 AA
1 AA
15815774 TAATTTAAAG
Statistics
Matches: 189, Mismatches: 54, Indels: 46
0.65 0.19 0.16
Matches are distributed among these distances:
6 2 0.01
7 22 0.12
8 6 0.03
9 126 0.67
10 7 0.04
11 9 0.05
12 17 0.09
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.36
Consensus pattern (9 bp):
AACTTACAT
Found at i:15815731 original size:81 final size:81
Alignment explanation
Indices: 15815631--15815810 Score: 324
Period size: 81 Copynumber: 2.2 Consensus size: 81
15815621 TTACATGATA
15815631 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
1 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
*
15815696 CTTAAAGTTCAAATTT
66 CTTAAAGATCAAATTT
*
15815712 CATAACTTACATAATTTAAAGATCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
1 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
*
15815777 TTTAAAGATCAAATTT
66 CTTAAAGATCAAATTT
*
15815793 CATAAGTTACATAATTTA
1 CATAACTTACATAATTTA
15815811 CATAACTTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (81 bp):
CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
CTTAAAGATCAAATTT
Found at i:15815777 original size:51 final size:51
Alignment explanation
Indices: 15815700--15815926 Score: 371
Period size: 51 Copynumber: 4.6 Consensus size: 51
15815690 TAATAACTTA
15815700 AAGTT-CA-AATTT-CATAACTTAC---ATAATTTAAAGATCAAATTTCAT
1 AAGTTACATAATTTACATAACTTACATAATAATTTAAAGATCAAATTTCAT
15815745 AAGTTACATAATTTACATAACTTACATAATAATTTAAAGATCAAATTTCAT
1 AAGTTACATAATTTACATAACTTACATAATAATTTAAAGATCAAATTTCAT
15815796 AAGTTACATAATTTACATAACTTACATAATAATTTAAAGATCAAATTTCAT
1 AAGTTACATAATTTACATAACTTACATAATAATTTAAAGATCAAATTTCAT
* *
15815847 AACTTACATAA--TACATAACTTACATAATAATTTAAAGATCAAAATTCAT
1 AAGTTACATAATTTACATAACTTACATAATAATTTAAAGATCAAATTTCAT
*
15815896 AACTTACATAATTTACATAACTTACATAATA
1 AAGTTACATAATTTACATAACTTACATAATA
15815927 CATAACTTAC
Statistics
Matches: 172, Mismatches: 2, Indels: 10
0.93 0.01 0.05
Matches are distributed among these distances:
45 5 0.03
46 2 0.01
47 5 0.03
48 10 0.06
49 48 0.28
51 102 0.59
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.36
Consensus pattern (51 bp):
AAGTTACATAATTTACATAACTTACATAATAATTTAAAGATCAAATTTCAT
Found at i:15815811 original size:9 final size:9
Alignment explanation
Indices: 15815788--15815825 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
15815778 TTAAAGATCA
15815788 AATTT-CAT
1 AATTTACAT
*
15815796 AAGTTACAT
1 AATTTACAT
15815805 AATTTACAT
1 AATTTACAT
*
15815814 AACTTACAT
1 AATTTACAT
15815823 AAT
1 AAT
15815826 AATTTAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
8 4 0.16
9 21 0.84
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (9 bp):
AATTTACAT
Found at i:15815815 original size:132 final size:127
Alignment explanation
Indices: 15815589--15815858 Score: 441
Period size: 132 Copynumber: 2.1 Consensus size: 127
15815579 ATAATACATG
* *
15815589 ACTTACATAATTTAGAGATCAAATTTCATAACTTACATGATACATAACTTACATAATTTAAAGAC
1 ACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAAAGAC
*
15815654 CAAATTTCATAAGTTACATAATTTACATAACTTACATAATAACTTAAAGTTCAAATTTCATA
66 CAAATTTCATAAGTTACATAATTTACATAACTTACATAATAACTTAAAGATCAAATTTCATA
*
15815716 ACTTACATAATTTAAAGATCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAATTTA
1 ACTTACATAATTTAAAGATCAAATTTCATAACTTACATAA--TACATAACTTAC---ATAATTTA
* *
15815781 AAGATCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAATTTAAAGATCAAATTTCA
61 AAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAACTTAAAGATCAAATTTCA
15815846 TA
126 TA
15815848 ACTTACATAAT
1 ACTTACATAAT
15815859 ACATAACTTA
Statistics
Matches: 132, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
127 37 0.28
129 12 0.09
132 83 0.63
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (127 bp):
ACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAAAGAC
CAAATTTCATAAGTTACATAATTTACATAACTTACATAATAACTTAAAGATCAAATTTCATA
Found at i:15815865 original size:16 final size:16
Alignment explanation
Indices: 15815844--15816018 Score: 142
Period size: 16 Copynumber: 10.9 Consensus size: 16
15815834 GATCAAATTT
15815844 CATAACTTACATAATA
1 CATAACTTACATAATA
15815860 CATAACTTACATAATA
1 CATAACTTACATAATA
** * *
15815876 -ATTTAA-AGATCAAAATT
1 CA--TAACTTA-CATAATA
15815893 CATAACTTACATAATTTA
1 CATAACTTACATAA--TA
15815911 CATAACTTACATAATA
1 CATAACTTACATAATA
*
15815927 CATAACTTACAAAATA
1 CATAACTTACATAATA
*
15815943 CATAACTTACATAAAA
1 CATAACTTACATAATA
* * *
15815959 CATGACTTACATGATT
1 CATAACTTACATAATA
* ** * *
15815975 TA-AAGAT-CAAAATT
1 CATAACTTACATAATA
15815989 CATAACTTACATAATA
1 CATAACTTACATAATA
*
15816005 CATGACTTACATAA
1 CATAACTTACATAA
15816019 CTTAATTATA
Statistics
Matches: 123, Mismatches: 27, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
14 6 0.05
15 6 0.05
16 86 0.70
17 9 0.07
18 16 0.13
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:15815895 original size:100 final size:98
Alignment explanation
Indices: 15815722--15816018 Score: 193
Period size: 100 Copynumber: 3.0 Consensus size: 98
15815712 CATAACTTAC
* * *
15815722 ATAATTTAAAGATCAAATTTCATAAGTTACATAATTTACATAACTTACATAATA-ATTTAA-AGA
1 ATAATTTAAAGATCAAAATTCATAACTTACATAA-TTACATAACTTACATAATACA--TAACATA
* * * *
15815785 TCAAATTTCATAAGTTACATAATTTACATAACTTACATA
63 -CAAAATACATAACTTACATAA--AACATAACTTACATA
* *
15815824 ATAATTTAAAGATCAAATTTCATAACTTACATAA-TACATAACTTACATAATA-ATTTAA-AGAT
1 ATAATTTAAAGATCAAAATTCATAACTTACATAATTACATAACTTACATAATACA--TAACATA-
* *
15815886 CAAAATTCATAACTTACATAATTTACATAACTTACATA
63 CAAAATACATAACTTACATAA--AACATAACTTACATA
** * * * * ** *
15815924 ATACA--T-AACTTACAAAATACATAACTTACATAA-AACATGACTTACATGATTTA-AAGAT-C
1 ATA-ATTTAAAGAT-CAAAATTCATAACTTACATAATTACATAACTTACATAATACATAACATAC
* * *
15815983 AAAATTCATAACTTACATAATACATGACTTACATA
64 AAAATACATAACTTACATAAAACATAACTTACATA
15816018 A
1 A
15816019 CTTAATTATA
Statistics
Matches: 178, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
94 15 0.08
96 21 0.12
97 2 0.01
98 4 0.02
99 34 0.19
100 68 0.38
101 1 0.01
102 33 0.19
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (98 bp):
ATAATTTAAAGATCAAAATTCATAACTTACATAATTACATAACTTACATAATACATAACATACAA
AATACATAACTTACATAAAACATAACTTACATA
Found at i:15815911 original size:9 final size:9
Alignment explanation
Indices: 15815893--15815956 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
15815883 GATCAAAATT
15815893 CATAACTTA
1 CATAACTTA
*
15815902 CATAATTTA
1 CATAACTTA
15815911 CATAACTTA
1 CATAACTTA
15815920 CATAA--TA
1 CATAACTTA
15815927 CATAACTTA
1 CATAACTTA
*
15815936 CA-AA-ATA
1 CATAACTTA
15815943 CATAACTTA
1 CATAACTTA
15815952 CATAA
1 CATAA
15815957 AACATGACTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
7 11 0.23
8 4 0.09
9 32 0.68
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (9 bp):
CATAACTTA
Found at i:15822180 original size:30 final size:30
Alignment explanation
Indices: 15822146--15822208 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
15822136 GCCTATTTTA
15822146 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
15822176 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
15822206 TTG
1 TTG
15822209 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:15822970 original size:18 final size:17
Alignment explanation
Indices: 15822943--15822981 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
15822933 TATTTTTTCA
*
15822943 AATTAGAATTATGTTTAT
1 AATTAGAATTAT-TATAT
*
15822961 AATTATAATTATTATAT
1 AATTAGAATTATTATAT
15822978 AATT
1 AATT
15822982 TGGTTTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
AATTAGAATTATTATAT
Found at i:15823864 original size:16 final size:16
Alignment explanation
Indices: 15823839--15823876 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 16
15823829 TAAACTTTCA
15823839 TTTTTTTTTCT-ATTC
1 TTTTTTTTTCTCATTC
15823854 TTTTTTGTTTCTCATTC
1 TTTTTT-TTTCTCATTC
15823871 TGTTTT
1 T-TTTT
15823877 CTTACCTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 5 0.25
17 5 0.25
18 4 0.20
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.76
Consensus pattern (16 bp):
TTTTTTTTTCTCATTC
Found at i:15824100 original size:21 final size:21
Alignment explanation
Indices: 15824076--15824115 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15824066 GAATGGAAAA
*
15824076 TAAATGAAAAAAAAAGAAAGT
1 TAAAAGAAAAAAAAAGAAAGT
* *
15824097 TAAAAGAACATAAAAGAAA
1 TAAAAGAAAAAAAAAGAAA
15824116 AAATCAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.12
Consensus pattern (21 bp):
TAAAAGAAAAAAAAAGAAAGT
Found at i:15824290 original size:15 final size:15
Alignment explanation
Indices: 15824270--15824320 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
15824260 ATAACACAAT
15824270 AATATAAATTATTAA
1 AATATAAATTATTAA
15824285 AATATAATATT-TT-A
1 AATATAA-ATTATTAA
*
15824299 AATATAAATAATTAA
1 AATATAAATTATTAA
15824314 AATATAA
1 AATATAA
15824321 TATAATGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.06
14 10 0.31
15 17 0.53
16 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATAAATTATTAA
Found at i:15827522 original size:20 final size:20
Alignment explanation
Indices: 15827486--15827523 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15827476 TTGTGATCAG
*
15827486 ATTAAATTAGTCTATTTATT
1 ATTAAATTAGTCAATTTATT
15827506 ATTAAA-TAGATCAATTTA
1 ATTAAATTAG-TCAATTTA
15827524 GTCCCTATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
ATTAAATTAGTCAATTTATT
Found at i:15835464 original size:16 final size:16
Alignment explanation
Indices: 15835428--15835461 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15835418 CTAATACTAA
*
15835428 TAATAAAGTAATAACT
1 TAATAAAATAATAACT
15835444 TAATAAAATAATAA-T
1 TAATAAAATAATAACT
15835459 TAA
1 TAA
15835462 ATACTAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (16 bp):
TAATAAAATAATAACT
Found at i:15837343 original size:40 final size:40
Alignment explanation
Indices: 15837260--15837522 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
15837250 TTGAATGCTG
* * * * * *
15837260 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
15837300 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
15837340 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
15837380 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
15837420 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
15837460 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
15837499 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15837523 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:15837542 original size:79 final size:80
Alignment explanation
Indices: 15837299--15837557 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
15837289 AAGTGAATAT
* * * * * * *
15837299 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
15837363 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
15837379 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
15837444 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
15837459 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
15837523 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
15837538 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
15837558 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:15845287 original size:40 final size:40
Alignment explanation
Indices: 15845204--15845466 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
15845194 TTGAATGCTG
* * * * * *
15845204 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
15845244 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
15845284 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
15845324 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
15845364 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
15845404 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
15845443 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15845467 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:15845486 original size:79 final size:80
Alignment explanation
Indices: 15845243--15845501 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
15845233 AAGTGAATAT
* * * * * * *
15845243 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
15845307 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
15845323 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
15845388 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
15845403 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
15845467 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
15845482 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
15845502 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:15852276 original size:46 final size:48
Alignment explanation
Indices: 15852172--15852285 Score: 151
Period size: 48 Copynumber: 2.4 Consensus size: 48
15852162 TGTCTTCGAC
* * *
15852172 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * * *
15852220 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCATATATATATAAT
15852266 ATGGACTTACATGACTCATT
1 ATGGACTTACATGACTCATT
15852286 TCTGCCCTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 21 0.37
47 1 0.02
48 35 0.61
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:15853745 original size:20 final size:20
Alignment explanation
Indices: 15853683--15853751 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
15853673 GGCTTAACCA
15853683 CATTACTGGCAGTTTATCTG
1 CATTACTGGCAGTTTATCTG
*
15853703 CAATACTGGCAGCTTT-TCTG
1 CATTACTGGCAG-TTTATCTG
*
15853723 CATTACTGACAGTTTATCTG
1 CATTACTGGCAGTTTATCTG
*
15853743 CATTGCTGG
1 CATTACTGG
15853752 TGGCTCGATC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (20 bp):
CATTACTGGCAGTTTATCTG
Found at i:15853798 original size:21 final size:21
Alignment explanation
Indices: 15853737--15853798 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
15853727 ACTGACAGTT
* *
15853737 TATCTGCATTGCTGGTGGCTC
1 TATCTGCATTACTGGTGGCAC
* * *
15853758 GATCAT--ATTACTTGTAGCAC
1 TATC-TGCATTACTGGTGGCAC
15853778 TATCTGCATTACTGGTGGCAC
1 TATCTGCATTACTGGTGGCAC
15853799 CGTCAACAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
19 1 0.03
20 13 0.43
21 15 0.50
22 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (21 bp):
TATCTGCATTACTGGTGGCAC
Found at i:15855449 original size:99 final size:99
Alignment explanation
Indices: 15855154--15855449 Score: 515
Period size: 99 Copynumber: 3.0 Consensus size: 99
15855144 CATTCTCAAA
*
15855154 AGATCCTTAAATTTCTCTCATGCATC--ATAATGTCTCCATATCAAATTGAGAAAAAGAAGAGAT
1 AGATCCTTAAATCTCTCTCATGCATCATATAATGTCTCCATATCAAATTGAGAAAAAGAAGAGAT
* * *
15855217 GTTGTTTCTCAACTTACCTATTTTAGTTGGTGAG
66 GTTGTTTCTCAACTTAACTATTTTAGCTGGTGGG
*
15855251 AGATCCTTAAATCTCTCTCATGCATCATATAATGTCTCCATATCAATTTGAGAAAAAGAAGAGAT
1 AGATCCTTAAATCTCTCTCATGCATCATATAATGTCTCCATATCAAATTGAGAAAAAGAAGAGAT
*
15855316 GTTGTTTCTCAACTTAATTATTTTAGCTGGTGGG
66 GTTGTTTCTCAACTTAACTATTTTAGCTGGTGGG
15855350 AGATCCTTAAATCTCTCTCATGCATCATATAATGTCTCCATATCAAATTGAGAAAAAGAAGAGAT
1 AGATCCTTAAATCTCTCTCATGCATCATATAATGTCTCCATATCAAATTGAGAAAAAGAAGAGAT
*
15855415 GTTGTTTCTCAACTTAACTATTTTAGCTGATGGG
66 GTTGTTTCTCAACTTAACTATTTTAGCTGGTGGG
15855449 A
1 A
15855450 AGTACTTCAA
Statistics
Matches: 188, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
97 25 0.13
99 163 0.87
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (99 bp):
AGATCCTTAAATCTCTCTCATGCATCATATAATGTCTCCATATCAAATTGAGAAAAAGAAGAGAT
GTTGTTTCTCAACTTAACTATTTTAGCTGGTGGG
Found at i:15856046 original size:13 final size:14
Alignment explanation
Indices: 15856016--15856047 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15856006 CGAACAAACG
15856016 AAAAATTAGAATGT
1 AAAAATTAGAATGT
15856030 AAAAATTA-AAT-T
1 AAAAATTAGAATGT
15856042 AAAAAT
1 AAAAAT
15856048 AAAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 3 0.17
14 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
AAAAATTAGAATGT
Found at i:15856052 original size:6 final size:6
Alignment explanation
Indices: 15856029--15856072 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
15856019 AATTAGAATG
* *
15856029 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA
15856073 ATTTCTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
TAAAAA
Found at i:15856059 original size:20 final size:19
Alignment explanation
Indices: 15856030--15856075 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
15856020 ATTAGAATGT
*
15856030 AAAAATTAAATTAAAAATA
1 AAAAATTAAAATAAAAATA
15856049 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAATA
15856069 AAAAATT
1 AAAAATT
15856076 TCTAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATTAAAATAAAAATA
Found at i:15857152 original size:31 final size:31
Alignment explanation
Indices: 15857117--15857178 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
15857107 TCATTTTGCT
15857117 CCCAAATGCTCTCCTAAGTATAAAAACATGA
1 CCCAAATGCTCTCCTAAGTATAAAAACATGA
15857148 CCCAAATGCTCTCCTAAGTATAAAAACATGA
1 CCCAAATGCTCTCCTAAGTATAAAAACATGA
15857179 ATTTAAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.23
Consensus pattern (31 bp):
CCCAAATGCTCTCCTAAGTATAAAAACATGA
Found at i:15863067 original size:19 final size:19
Alignment explanation
Indices: 15863035--15863082 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
15863025 TAGACTCTTT
**
15863035 TTTTTAATAA-TTTGTTAA
1 TTTTTAATAATTTTGGAAA
15863053 TTTTTAATAATTTTGGAAA
1 TTTTTAATAATTTTGGAAA
15863072 TTTTT-ATAATT
1 TTTTTAATAATT
15863083 CTTAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTTAATAATTTTGGAAA
Found at i:15863082 original size:28 final size:27
Alignment explanation
Indices: 15863050--15863121 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
15863040 AATAATTTGT
*
15863050 TAATTTTTAATAATTTTGGAAAT-TTTTA
1 TAATTTTTAATAATTTT--AAATATTCTA
*
15863078 TAATTCTTAATAATATTTAAATATTCTA
1 TAATTTTTAATAAT-TTTAAATATTCTA
15863106 TAATTTTT-ATAATTTT
1 TAATTTTTAATAATTTT
15863122 TTGAAAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 3 0.08
27 9 0.23
28 24 0.62
29 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (27 bp):
TAATTTTTAATAATTTTAAATATTCTA
Found at i:15864530 original size:13 final size:13
Alignment explanation
Indices: 15864514--15864552 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
15864504 TTATTTTATT
15864514 TTATTTAGTTTTA
1 TTATTTAGTTTTA
15864527 TTATTTA-TTTTA
1 TTATTTAGTTTTA
*
15864539 TTAATTTAGCTTTA
1 TT-ATTTAGTTTTA
15864553 GCTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 7 0.30
13 12 0.52
14 4 0.17
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (13 bp):
TTATTTAGTTTTA
Found at i:15869497 original size:46 final size:46
Alignment explanation
Indices: 15869430--15869607 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
15869420 TGTAACCTGC
* *
15869430 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * * *
15869476 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * **
15869522 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
15869569 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
15869608 CTCAACCATC
Statistics
Matches: 104, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
46 71 0.68
47 33 0.32
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:15869549 original size:93 final size:93
Alignment explanation
Indices: 15869437--15869608 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
15869427 TGCCCATAAG
***
15869437 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
15869502 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
15869530 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
15869595 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
15869609 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:15874009 original size:10 final size:10
Alignment explanation
Indices: 15873994--15874019 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15873984 GGCAACCTAA
15873994 ATTTATTTTC
1 ATTTATTTTC
15874004 ATTTATTTTC
1 ATTTATTTTC
15874014 ATTTAT
1 ATTTAT
15874020 ATAATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATTTTC
Found at i:15874348 original size:17 final size:17
Alignment explanation
Indices: 15874326--15874372 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
15874316 AACTTACCAT
15874326 ACCCAATACCCACATAA
1 ACCCAATACCCACATAA
* *
15874343 ACCCAA-ACCCAAAATCA
1 ACCCAATACCC-ACATAA
15874360 ACCCAATACCCAC
1 ACCCAATACCCAC
15874373 CAACCAACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 4 0.16
17 17 0.68
18 4 0.16
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.09
Consensus pattern (17 bp):
ACCCAATACCCACATAA
Found at i:15877798 original size:13 final size:13
Alignment explanation
Indices: 15877782--15877820 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
15877772 TTATTTTATT
15877782 TTATTTAGTTTTA
1 TTATTTAGTTTTA
15877795 TTATTTA-TTTTA
1 TTATTTAGTTTTA
*
15877807 TTAATTTAGCTTTA
1 TT-ATTTAGTTTTA
15877821 GCTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 7 0.30
13 12 0.52
14 4 0.17
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (13 bp):
TTATTTAGTTTTA
Found at i:15884158 original size:14 final size:14
Alignment explanation
Indices: 15884139--15884166 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15884129 TAGGATTCTG
15884139 ATACATGTTTACTT
1 ATACATGTTTACTT
15884153 ATACATGTTTACTT
1 ATACATGTTTACTT
15884167 GCACTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
ATACATGTTTACTT
Found at i:15886666 original size:11 final size:11
Alignment explanation
Indices: 15886639--15886667 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
15886629 TTTGGATATT
15886639 TTTTAAAATAA
1 TTTTAAAATAA
15886650 -TTTAAAATAA
1 TTTTAAAATAA
15886660 TTTTAAAA
1 TTTTAAAA
15886668 ATTAATTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTTAAAATAA
Found at i:15886826 original size:16 final size:15
Alignment explanation
Indices: 15886796--15886835 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
15886786 AAGTTATTTA
*
15886796 AATTTATTTATTTTTT
1 AATTT-TTTAATTTTT
15886812 AGATTTTTTAATTTTT
1 A-ATTTTTTAATTTTT
15886828 AATTTTTT
1 AATTTTTT
15886836 TTTATCTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 11 0.50
17 4 0.18
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
AATTTTTTAATTTTT
Found at i:15896561 original size:2 final size:2
Alignment explanation
Indices: 15896554--15896580 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15896544 GTTGAGAAAT
15896554 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
15896581 TTATCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15899669 original size:15 final size:16
Alignment explanation
Indices: 15899649--15899681 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15899639 ATATATATTT
15899649 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
15899664 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
15899681 T
1 T
15899682 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:15899754 original size:21 final size:22
Alignment explanation
Indices: 15899728--15899786 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
15899718 GTTTTAAGAA
*
15899728 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
15899749 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
15899771 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
15899787 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:15899801 original size:26 final size:24
Alignment explanation
Indices: 15899757--15899806 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
15899747 ATTTGTTTTA
*
15899757 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
15899781 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
15899807 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:15900137 original size:27 final size:27
Alignment explanation
Indices: 15900107--15900161 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
15900097 AATTCTAACT
15900107 AAATTAGATCACTTTTAATTTGGGCTA
1 AAATTAGATCACTTTTAATTTGGGCTA
15900134 AAATTAGATCACTTTTAATTTGGGCTA
1 AAATTAGATCACTTTTAATTTGGGCTA
15900161 A
1 A
15900162 CCTATCATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (27 bp):
AAATTAGATCACTTTTAATTTGGGCTA
Found at i:15904379 original size:17 final size:17
Alignment explanation
Indices: 15904359--15904409 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
15904349 ATATGAATTG
15904359 AATTCAATTGTGAATAT
1 AATTCAATTGTGAATAT
*
15904376 AATTC-A---T-CATA-
1 AATTCAATTGTGAATAT
15904387 AATTCAATTGTGAATAT
1 AATTCAATTGTGAATAT
15904404 AATTCA
1 AATTCA
15904410 TCATAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 12
0.65 0.05 0.30
Matches are distributed among these distances:
11 5 0.19
12 4 0.15
13 1 0.04
15 1 0.04
16 4 0.15
17 11 0.42
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (17 bp):
AATTCAATTGTGAATAT
Done.