Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 69 of 226
Found at i:22077220 original size:124 final size:124
Alignment explanation
Indices: 22077067--22077292 Score: 339
Period size: 124 Copynumber: 1.8 Consensus size: 124
22077057 CTGGCATGCA
*
22077067 AGTGCATCATCGGATAAACTAAAGAAAATATACTAGCACACACACTGCATCATCAGATATA-TCG
1 AGTGCATCATCGGATAAACTAAAGAAAATATACTAGCACACACACTGCATCATCAGATAAACT-G
* *
22077131 AAGC-AAATATATTGGCACACATAGTGCATCATCGGATATACAGAAGCTACTGGCACACAC
65 AA-CAAAATATACTGGCACACACAGTGCATCATCGGATATACAGAAGCTACTGGCACACAC
* * * * * *
22077191 AGTGCATCATCGGATATACTGAAGCAAATATACTGGCACACACAGTGCATCATCGGATAAACTGA
1 AGTGCATCATCGGATAAACTAAAGAAAATATACTAGCACACACACTGCATCATCAGATAAACTGA
22077256 ACAAAATATACTGGCACACACAGTGCATCATCGGATA
66 ACAAAATATACTGGCACACACAGTGCATCATCGGATA
22077293 AACTGAAGTA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
123 1 0.01
124 89 0.98
125 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (124 bp):
AGTGCATCATCGGATAAACTAAAGAAAATATACTAGCACACACACTGCATCATCAGATAAACTGA
ACAAAATATACTGGCACACACAGTGCATCATCGGATATACAGAAGCTACTGGCACACAC
Found at i:22080582 original size:33 final size:34
Alignment explanation
Indices: 22080537--22080603 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
22080527 ACATATAATC
* * *
22080537 TCAGTTTGGGCCTAA-GCCTTTTCAGTATCAGTA
1 TCAGTTTAGGCCTAATCCCATTTCAGTATCAGTA
22080570 TCAGTTTAGGCCTAATCCCATTTCAGTATCAGTA
1 TCAGTTTAGGCCTAATCCCATTTCAGTATCAGTA
22080604 AGCATTAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (34 bp):
TCAGTTTAGGCCTAATCCCATTTCAGTATCAGTA
Found at i:22081198 original size:13 final size:13
Alignment explanation
Indices: 22081180--22081204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22081170 ATATTCCTAC
22081180 ACACCCGTGTGGT
1 ACACCCGTGTGGT
22081193 ACACCCGTGTGG
1 ACACCCGTGTGG
22081205 GGCCCATGCG
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:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (13 bp):
ACACCCGTGTGGT
Found at i:22082016 original size:20 final size:20
Alignment explanation
Indices: 22081968--22082016 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
22081958 ATTTTTGATA
22081968 AACTTCCC-CCCAATCCCCT
1 AACTTCCCTCCCAATCCCCT
*
22081987 AACTT-TCTCCCATAT-CCCT
1 AACTTCCCTCCCA-ATCCCCT
22082006 AACTTCCCTCC
1 AACTTCCCTCC
22082017 TAAAAAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 18 0.72
20 6 0.24
ACGTcount: A:0.20, C:0.51, G:0.00, T:0.29
Consensus pattern (20 bp):
AACTTCCCTCCCAATCCCCT
Found at i:22089406 original size:50 final size:49
Alignment explanation
Indices: 22089346--22089474 Score: 127
Period size: 49 Copynumber: 2.6 Consensus size: 49
22089336 TTGTGAGAGG
* * *
22089346 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCG-ATATGAGAAC-
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA--GTACAGGA-AACA
* * * * * **
22089396 TCTCATGTAAGACCATATCTGAGATATGACATTTGCAGTACAGGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCAGTACAGGAAACA
22089445 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
22089475 TTTGGAATGT
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
48 4 0.06
49 29 0.47
50 29 0.47
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCAGTACAGGAAACA
Found at i:22096915 original size:50 final size:50
Alignment explanation
Indices: 22096835--22096971 Score: 206
Period size: 50 Copynumber: 2.7 Consensus size: 50
22096825 ACTGAGGTTG
*
22096835 TGAGAGGTCCCACGTAAGACCATG-CATGGGACATGGCGTTGGTAT-CGAGA
1 TGAGAGGTCCCTCGTAAGACCATGTC-TGGGACATGGCGTTGGT-TCCGAGA
22096885 TGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCGTTGGTTCCGAGA
1 TGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCGTTGGTTCCGAGA
* * *
22096935 GGAGAGGTCCCTTGTAAGACCATGTCTAGGACATGGC
1 TGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGC
22096972 ATGGGCACCG
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
49 1 0.01
50 79 0.98
51 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.22
Consensus pattern (50 bp):
TGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCGTTGGTTCCGAGA
Found at i:22097001 original size:50 final size:49
Alignment explanation
Indices: 22096947--22097069 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 49
22096937 AGAGGTCCCT
* * *
22096947 TGTAAGACCATGTCTAGGACATGGCATGGGCACCG-ATATGAGAAC-TCTCA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCA--GTACAGGA-AACATCTCA
* * **
22096997 TGTAAGACCATATCTGGGATATGGCATTTGCAGTACAGGAAACATCTCA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCAGTACAGGAAACATCTCA
22097046 TGTAAGACCATGTCTGGGACATGG
1 TGTAAGACCATGTCTGGGACATGG
22097070 TTTTGGCATG
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
48 4 0.06
49 31 0.50
50 27 0.44
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATGGGCAGTACAGGAAACATCTCA
Found at i:22103161 original size:20 final size:20
Alignment explanation
Indices: 22103093--22103161 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 20
22103083 TTTCTTTGCA
*
22103093 AAATATAAGTATCGATATTT
1 AAATAAAAGTATCGATATTT
** * **
22103113 ATTTTAGGGTATCGATATTT
1 AAATAAAAGTATCGATATTT
*
22103133 -TATGAAAAAGTATCGATATTT
1 AAAT--AAAAGTATCGATATTT
22103154 AAATAAAA
1 AAATAAAA
22103162 ATTGATACCA
Statistics
Matches: 35, Mismatches: 11, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.51
21 13 0.37
22 2 0.06
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (20 bp):
AAATAAAAGTATCGATATTT
Found at i:22118374 original size:37 final size:37
Alignment explanation
Indices: 22118333--22118415 Score: 157
Period size: 37 Copynumber: 2.2 Consensus size: 37
22118323 GCTAAGCTTA
*
22118333 GTGTGTTGGCTAGGTGGGTCATTTTTATCCCCACATG
1 GTGTGTTGGCTAGGTGGGTCAATTTTATCCCCACATG
22118370 GTGTGTTGGCTAGGTGGGTCAATTTTATCCCCACATG
1 GTGTGTTGGCTAGGTGGGTCAATTTTATCCCCACATG
22118407 GTGTGTTGG
1 GTGTGTTGG
22118416 TTGGTACGGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.13, C:0.17, G:0.33, T:0.37
Consensus pattern (37 bp):
GTGTGTTGGCTAGGTGGGTCAATTTTATCCCCACATG
Found at i:22121915 original size:117 final size:118
Alignment explanation
Indices: 22121712--22122004 Score: 342
Period size: 121 Copynumber: 2.5 Consensus size: 118
22121702 CAAATAGACG
* * * *
22121712 TTTGTTTTTTATTTACTTAACAAATGTCCCATTGT-CTTATTTTTTTGAGATTTTGGTATTGTAG
1 TTTGTTTTTTATTTACTTAACAAATGTCTCATTGTGTTTATTTTTTTGAGAGTTTGATATTGTAG
*
22121776 AAAAGATGTTAGGAAGAAAGGAAGCAAGTA-TCT-TTTCTTTTAATATTGTTTT
66 AAAAGATGTTAGGAAGAAAGGAAGCAAGTATTCTGTTTCTTTTAACATT-TTTT
* *
22121828 TTTGTCTTTTATTTACTTAACAAATAGTCTCATTGTGTTTATTTTTTTGAGAGTTT-ATTTTGTA
1 TTTGTTTTTTATTTACTTAACAAAT-GTCTCATTGTGTTTATTTTTTTGAGAGTTTGATATTGTA
* * * * * *
22121892 GGAAGGGTGTTTGGAAGAAAGGAAGCAAGTATGTTTGTGTTTTTTTTAACATTTTTT
65 GAAAAGATGTTAGGAAGAAAGGAAGCAAGTA---TTCTGTTTCTTTTAACATTTTTT
* * * * *
22121949 TTTGTTTTTTATGTACTTAATAGATGGTCTCATTGTGTTGAATTTTTTGAGAGTTT
1 TTTGTTTTTTATTTACTTAACAAAT-GTCTCATTGTGTTTATTTTTTTGAGAGTTT
22122005 TAATTTTTAT
Statistics
Matches: 150, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
116 24 0.16
117 42 0.28
118 17 0.11
121 55 0.37
122 12 0.08
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (118 bp):
TTTGTTTTTTATTTACTTAACAAATGTCTCATTGTGTTTATTTTTTTGAGAGTTTGATATTGTAG
AAAAGATGTTAGGAAGAAAGGAAGCAAGTATTCTGTTTCTTTTAACATTTTTT
Found at i:22129678 original size:28 final size:28
Alignment explanation
Indices: 22129642--22129696 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
22129632 TGTCTTTGTA
*
22129642 GTTTGTTCATTTAATCTCATCTTTTTTT
1 GTTTCTTCATTTAATCTCATCTTTTTTT
22129670 GTTTCTTCATTTAATCTCATCTTTTTT
1 GTTTCTTCATTTAATCTCATCTTTTTT
22129697 GCTTTTGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.15, C:0.16, G:0.05, T:0.64
Consensus pattern (28 bp):
GTTTCTTCATTTAATCTCATCTTTTTTT
Found at i:22133150 original size:9 final size:9
Alignment explanation
Indices: 22133136--22133171 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
22133126 GGTTGCAAAA
22133136 AGGACGATG
1 AGGACGATG
*
22133145 AGGACGACG
1 AGGACGATG
22133154 AGGACGATG
1 AGGACGATG
*
22133163 AGGATGATG
1 AGGACGATG
22133172 TTTCTTCGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.33, C:0.11, G:0.44, T:0.11
Consensus pattern (9 bp):
AGGACGATG
Found at i:22133719 original size:14 final size:14
Alignment explanation
Indices: 22133696--22133750 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
22133686 AATTATTTTT
*
22133696 ATTTTTATTTTAAA
1 ATTTTAATTTTAAA
* *
22133710 ATTTTAATTTTTAT
1 ATTTTAATTTTAAA
*
22133724 ATTTCAAATTTTAAA
1 ATTT-TAATTTTAAA
22133739 A-TTTAATTTTAA
1 ATTTTAATTTTAA
22133751 TTATTAGTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
13 8 0.24
14 17 0.52
15 8 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTTAATTTTAAA
Found at i:22133732 original size:21 final size:20
Alignment explanation
Indices: 22133690--22133737 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
22133680 GAAATTAATT
*
22133690 ATTTTTATTTTTATTTTAAA
1 ATTTTAATTTTTATTTTAAA
*
22133710 ATTTTAATTTTTATATTTCAA
1 ATTTTAATTTTTAT-TTTAAA
22133731 ATTTTAA
1 ATTTTAA
22133738 AATTTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTAATTTTTATTTTAAA
Found at i:22133743 original size:21 final size:21
Alignment explanation
Indices: 22133699--22133747 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
22133689 TATTTTTATT
**
22133699 TTTAT-TTTAAAATTTTAATT
1 TTTATATTTAAAATTTTAAAA
*
22133719 TTTATATTTCAAATTTTAAAA
1 TTTATATTTAAAATTTTAAAA
22133740 TTTA-ATTT
1 TTTATATTT
22133748 TAATTATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATATTTAAAATTTTAAAA
Found at i:22138776 original size:29 final size:29
Alignment explanation
Indices: 22138730--22138793 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
22138720 GGTTGTCACT
*
22138730 TCCACCTAGGTGCTGCCT-ATCAGATGCCC
1 TCCACCTAGGTGCTGCCTGA-CACATGCCC
*
22138759 TCCACCTGGGTG-TCGCCTGACACATGCCC
1 TCCACCTAGGTGCT-GCCTGACACATGCCC
*
22138788 TTCACC
1 TCCACC
22138794 CCTCCAACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 28 0.93
30 1 0.03
ACGTcount: A:0.16, C:0.41, G:0.20, T:0.23
Consensus pattern (29 bp):
TCCACCTAGGTGCTGCCTGACACATGCCC
Found at i:22143151 original size:20 final size:20
Alignment explanation
Indices: 22143126--22143175 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
22143116 TGGCTTAAAA
22143126 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
22143146 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
22143163 GTGGTAGTGGATT
1 TTGGTAGTGGATT
22143176 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:22147790 original size:20 final size:20
Alignment explanation
Indices: 22147765--22147814 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
22147755 TGGCTTAAAA
22147765 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
22147785 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
22147802 GTGGTAGTGGATT
1 TTGGTAGTGGATT
22147815 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:22149401 original size:30 final size:29
Alignment explanation
Indices: 22149345--22149423 Score: 70
Period size: 30 Copynumber: 2.7 Consensus size: 29
22149335 TTTAGGATTG
*
22149345 AAATTTTTAAATGTGAAAATTTTAAGTATT
1 AAATTTTT-ATTGTGAAAATTTTAAGTATT
* * *
22149375 AAATTTTTATTGTTAAATTTTATAAGTGTT
1 AAATTTTTATTGTGAAAATTT-TAAGTATT
* * *
22149405 GAATTTGTATT-AGAAAATT
1 AAATTTTTATTGTGAAAATT
22149424 ATTTGAAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (29 bp):
AAATTTTTATTGTGAAAATTTTAAGTATT
Found at i:22162530 original size:24 final size:24
Alignment explanation
Indices: 22162482--22162530 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
22162472 TTCTAAAAAA
*
22162482 TTCAAAAAAATATACATAAATATT
1 TTCAAAAAAATATACATAAAAATT
*
22162506 TTCAAATAAATATA-ATAATAAATT
1 TTCAAAAAAATATACATAA-AAATT
22162530 T
1 T
22162531 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (24 bp):
TTCAAAAAAATATACATAAAAATT
Found at i:22162578 original size:25 final size:26
Alignment explanation
Indices: 22162539--22162587 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
22162529 TTAAATTTAA
22162539 ATTTAATATTAATATTAAATAAAAAT
1 ATTTAATATTAATATTAAATAAAAAT
22162565 ATTT-ATATTAATATTAAATAAAA
1 ATTTAATATTAATATTAAATAAAA
22162588 TAAGCCCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTTAATATTAATATTAAATAAAAAT
Found at i:22162649 original size:18 final size:19
Alignment explanation
Indices: 22162622--22162665 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
22162612 CCCATCCTCC
22162622 CACCCCCACCCTC-ACCCT
1 CACCCCCACCCTCGACCCT
*
22162640 CACCCTCACCCTCGACCCT
1 CACCCCCACCCTCGACCCT
*
22162659 CTCCCCC
1 CACCCCC
22162666 TCAAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.14, C:0.70, G:0.02, T:0.14
Consensus pattern (19 bp):
CACCCCCACCCTCGACCCT
Found at i:22162659 original size:7 final size:6
Alignment explanation
Indices: 22162622--22162659 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
22162612 CCCATCCTCC
*
22162622 CACCCC CACCCT CACCCT CACCCT CACCCT CGACCCT C
1 CACCCT CACCCT CACCCT CACCCT CACCCT C-ACCCT C
22162660 TCCCCCTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.16, C:0.68, G:0.03, T:0.13
Consensus pattern (6 bp):
CACCCT
Found at i:22176473 original size:41 final size:41
Alignment explanation
Indices: 22176428--22176512 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
22176418 AGTTTGCTCA
*
22176428 CTATCTTCCGGTCAGGACTGATTATTCGCTTCAGAAATTGG
1 CTATCTTCCGGTCAGGACTAATTATTCGCTTCAGAAATTGG
22176469 CTATCTTCCGGTCAGGACTAATTATTCGCTTCAGAAATTGG
1 CTATCTTCCGGTCAGGACTAATTATTCGCTTCAGAAATTGG
22176510 CTA
1 CTA
22176513 AGTTGTATGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (41 bp):
CTATCTTCCGGTCAGGACTAATTATTCGCTTCAGAAATTGG
Found at i:22178639 original size:49 final size:49
Alignment explanation
Indices: 22178562--22178664 Score: 170
Period size: 49 Copynumber: 2.1 Consensus size: 49
22178552 TTTTAGAGTG
* *
22178562 TGTGTCCAGACCGTGTGAGTGTTATTTTGGGTTTTGAGTCACACTGGCA
1 TGTGCCCAGACCGTGTGAGTGTTATTTTGGGTTTTGAGTCACACAGGCA
* *
22178611 TGTGCCCAGACTGTGTGGGTGTTATTTTGGGTTTTGAGTCACACAGGCA
1 TGTGCCCAGACCGTGTGAGTGTTATTTTGGGTTTTGAGTCACACAGGCA
22178660 TGTGC
1 TGTGC
22178665 TTGACTGTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.16, C:0.17, G:0.32, T:0.36
Consensus pattern (49 bp):
TGTGCCCAGACCGTGTGAGTGTTATTTTGGGTTTTGAGTCACACAGGCA
Found at i:22181253 original size:21 final size:21
Alignment explanation
Indices: 22181158--22181259 Score: 107
Period size: 21 Copynumber: 4.9 Consensus size: 21
22181148 CAAACACGCC
*
22181158 AACAGAAGCTCATAAGAGCT-
1 AACAGAAGCTCGTAAGAGCTG
* ***
22181178 AAGCAAAAGCTTAAAAGAGCTG
1 AA-CAGAAGCTCGTAAGAGCTG
** *
22181200 AACAGAAGCTCAAAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTG
*
22181221 AACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
22181242 AACAGAAGCTCGTAAGAG
1 AACAGAAGCTCGTAAGAG
22181260 TTGATCAACC
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.13
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:22181259 original size:42 final size:42
Alignment explanation
Indices: 22181158--22181259 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
22181148 CAAACACGCC
* *
22181158 AACAGAAGCTCATAAGAGCTAAGCAAAAGCTTAAAAGAGCTG
1 AACAGAAGCTCATAAGAGCTAAACAAAAGCTCAAAAGAGCTG
* * ***
22181200 AACAGAAGCTCAAAAGAGCTAAACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCATAAGAGCTAAACAAAAGCTCAAAAGAGCTG
*
22181242 AACAGAAGCTCGTAAGAG
1 AACAGAAGCTCATAAGAG
22181260 TTGATCAACC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.13
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAAAAGCTCAAAAGAGCTG
Found at i:22181468 original size:17 final size:17
Alignment explanation
Indices: 22181448--22181484 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
22181438 ATTAAATTCG
*
22181448 ATAATATATTTCCAACA
1 ATAATATAATTCCAACA
*
22181465 ATAATTTAATTCCAACA
1 ATAATATAATTCCAACA
22181482 ATA
1 ATA
22181485 GAAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATATAATTCCAACA
Found at i:22187275 original size:21 final size:21
Alignment explanation
Indices: 22187247--22187317 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
22187237 ACACACCAAT
*
22187247 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
* *
22187268 AAAAGCTCAAAAGAGCTTAAC
1 AGAAGCTCAAAAGAGCTGAAC
*
22187289 AGAAGCTCAAAAAAGCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
22187310 AGAAGCTC
1 AGAAGCTC
22187318 GTAAGAGTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.13
Consensus pattern (21 bp):
AGAAGCTCAAAAGAGCTGAAC
Found at i:22193118 original size:5 final size:5
Alignment explanation
Indices: 22193097--22193129 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
22193087 AATGTTTAAG
22193097 TATA- TATAT TATA- TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
22193130 AATAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:22200575 original size:18 final size:17
Alignment explanation
Indices: 22200545--22200579 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22200535 TTCCTTTTGG
22200545 CCTTAGTTGTTCTATAT
1 CCTTAGTTGTTCTATAT
*
22200562 CCTTAAGTTTTTCTATAT
1 CCTT-AGTTGTTCTATAT
22200580 TTGGGGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (17 bp):
CCTTAGTTGTTCTATAT
Found at i:22204327 original size:31 final size:30
Alignment explanation
Indices: 22204262--22204328 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
22204252 TCTTTATTTT
* *
22204262 CCCCCAAAATTTTTACTCCTTCCCACTTTC
1 CCCCCAAAACTTTTACTCCTTCCCACTCTC
*
22204292 CCCCCAAAACTTTTACTCCTCTCCCATCTCAC
1 CCCCCAAAACTTTTACTCCT-TCCCA-CTCTC
22204324 CCCCC
1 CCCCC
22204329 TTCTACCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 19 0.59
31 5 0.16
32 8 0.25
ACGTcount: A:0.19, C:0.51, G:0.00, T:0.30
Consensus pattern (30 bp):
CCCCCAAAACTTTTACTCCTTCCCACTCTC
Found at i:22204775 original size:17 final size:18
Alignment explanation
Indices: 22204741--22204775 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22204731 TTTATTAAAA
22204741 AATACATTTTTTACATTT
1 AATACATTTTTTACATTT
*
22204759 AATATATTTTTTA-ATTT
1 AATACATTTTTTACATTT
22204776 CAAAATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
AATACATTTTTTACATTT
Found at i:22210367 original size:14 final size:15
Alignment explanation
Indices: 22210330--22210371 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
22210320 AAGCAATATC
22210330 CATTCAAAATCTAAAG
1 CATTCAAAATC-AAAG
22210346 -ATTCAAAATCAAAG
1 CATTCAAAATCAAAG
22210360 CATT-AAAA-CAAA
1 CATTCAAAATCAAA
22210372 AACACTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (15 bp):
CATTCAAAATCAAAG
Found at i:22216808 original size:28 final size:28
Alignment explanation
Indices: 22216768--22216830 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
22216758 ATGAACCATA
* *
22216768 AAAAATTATGAAAAATGGAAATAAAATAT
1 AAAAA-TAAGAAAAATAGAAATAAAATAT
* * *
22216797 AAAAATAAGAAAAATATATATAAAATCT
1 AAAAATAAGAAAAATAGAAATAAAATAT
22216825 AAAAAT
1 AAAAAT
22216831 TTTATATGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (28 bp):
AAAAATAAGAAAAATAGAAATAAAATAT
Found at i:22218648 original size:51 final size:51
Alignment explanation
Indices: 22218558--22218665 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
22218548 CCAAACATTT
* * *
22218558 GTTCATATAAAATAATAGTTCTTACCAAATGACAGTTCATGCAAAATAATA
1 GTTCATATAAAATAATAGTTCATACCAAATAACAATTCATGCAAAATAATA
* *
22218609 GTTCATATGAAAT-ATCAGTTCATACCGAATAACAATTCATGCAAAATAATA
1 GTTCATATAAAATAAT-AGTTCATACCAAATAACAATTCATGCAAAATAATA
22218660 GTTCAT
1 GTTCAT
22218666 GCTCCATCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 2 0.04
51 49 0.96
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (51 bp):
GTTCATATAAAATAATAGTTCATACCAAATAACAATTCATGCAAAATAATA
Found at i:22218667 original size:17 final size:17
Alignment explanation
Indices: 22218558--22218665 Score: 83
Period size: 17 Copynumber: 6.4 Consensus size: 17
22218548 CCAAACATTT
*
22218558 GTTCATATAAAATAATA
1 GTTCATACAAAATAATA
* * * *
22218575 GTTCTTACCAAATGACA
1 GTTCATACAAAATAATA
*
22218592 GTTCATGCAAAATAATA
1 GTTCATACAAAATAATA
**
22218609 GTTCATATGAAAT-ATCA
1 GTTCATACAAAATAAT-A
** *
22218626 GTTCATACCGAATAACA
1 GTTCATACAAAATAATA
* *
22218643 ATTCATGCAAAATAATA
1 GTTCATACAAAATAATA
22218660 GTTCAT
1 GTTCAT
22218666 GCTCCATCAT
Statistics
Matches: 66, Mismatches: 23, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
16 2 0.03
17 63 0.95
18 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (17 bp):
GTTCATACAAAATAATA
Found at i:22219761 original size:33 final size:31
Alignment explanation
Indices: 22219707--22219814 Score: 89
Period size: 33 Copynumber: 3.5 Consensus size: 31
22219697 ATATACATTT
* * *
22219707 TATATATTAGATA-ATACAAAACCTATAAACTCA
1 TATATATTATATATA-ATAAAACC-A-AAACACA
*
22219740 TATATATTATATATAATAAAACC--CACACA
1 TATATATTATATATAATAAAACCAAAACACA
* * * *
22219769 CATATATTATATAT-TTAACACCAAAACCCA
1 TATATATTATATATAATAAAACCAAAACACA
22219799 TATATATTATATATAA
1 TATATATTATATATAA
22219815 ATAACAAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
28 6 0.10
29 17 0.28
30 17 0.28
33 19 0.32
34 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.33
Consensus pattern (31 bp):
TATATATTATATATAATAAAACCAAAACACA
Found at i:22221297 original size:32 final size:31
Alignment explanation
Indices: 22221232--22221298 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
22221222 ACCTAAAATT
* * *
22221232 ATTAATTCTAATTATTTTAATATTTTATTTA
1 ATTAATTCTAATTATTTTAATATCTAATCTA
22221263 ATTAATTTCTAATTA-TTTAATTATCTAATCTA
1 ATTAA-TTCTAATTATTTTAA-TATCTAATCTA
22221295 ATTA
1 ATTA
22221299 CGATTTTCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTAATTCTAATTATTTTAATATCTAATCTA
Found at i:22226206 original size:19 final size:18
Alignment explanation
Indices: 22226182--22226218 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
22226172 TAATTGAATT
*
22226182 AAAATAAATTTAAATTTTA
1 AAAATAAAATT-AATTTTA
22226201 AAAATAAAATTAATTTTA
1 AAAATAAAATTAATTTTA
22226219 TAATTCGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATAAAATTAATTTTA
Found at i:22228427 original size:25 final size:26
Alignment explanation
Indices: 22228376--22228432 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
22228366 CTTGTTATCT
*
22228376 TTTTTTCAAATTTCAGCTTCTCATAC
1 TTTTTCCAAATTTCAGCTTCTCATAC
*
22228402 TTTTTCCAAATTTCGGCCTT-TC-TAC
1 TTTTTCCAAATTTCAG-CTTCTCATAC
22228427 TTTTTC
1 TTTTTC
22228433 TTTGAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 9 0.32
26 16 0.57
27 3 0.11
ACGTcount: A:0.18, C:0.25, G:0.05, T:0.53
Consensus pattern (26 bp):
TTTTTCCAAATTTCAGCTTCTCATAC
Found at i:22239264 original size:43 final size:42
Alignment explanation
Indices: 22239189--22239315 Score: 132
Period size: 43 Copynumber: 3.0 Consensus size: 42
22239179 CAAAAAGCTC
* *
22239189 ATACGATGCCAAC-GTCCTAGAC-GTGGTCTTACATGTAATCAA
1 ATACGATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCAA
* * *
22239231 ATAACGATGCCACTGTCCCAGACAGGGTTTTACACGAAATCAT
1 AT-ACGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAA
* * *
22239274 ATATGATGCCAATGTCCCAGACATGGTCTTACACGTGAATCA
1 ATACGATGCCACTGTCCCAGACAGGGTCTTACACGT-AATCA
22239316 CATATCGGAA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 33 0.46
43 37 0.52
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
ATACGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAA
Found at i:22242984 original size:18 final size:18
Alignment explanation
Indices: 22242961--22243019 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
22242951 AAGACTTAAA
22242961 CACATCTAAACATCCTAT
1 CACATCTAAACATCCTAT
22242979 CACATCTAAACA---TA-
1 CACATCTAAACATCCTAT
*
22242993 C-CATTTCAAACATCCTAT
1 CACATCT-AAACATCCTAT
22243011 CACATCTAA
1 CACATCTAA
22243020 CCAACATGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 4 0.12
14 6 0.18
15 2 0.06
17 2 0.06
18 15 0.45
19 4 0.12
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (18 bp):
CACATCTAAACATCCTAT
Found at i:22246349 original size:23 final size:22
Alignment explanation
Indices: 22246314--22246384 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
22246304 GGGAAAAAAT
22246314 AAAAAAAT-GAATTATAGGGACA
1 AAAAAAATCGAATTATA-GGACA
*
22246336 AAAAAAATCAAATTATAGGA-A
1 AAAAAAATCGAATTATAGGACA
*
22246357 AAAAAAAGTCGAATTACAAGGACA
1 AAAAAAA-TCGAATTA-TAGGACA
22246381 AAAA
1 AAAA
22246385 GGGTTGAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.19
22 18 0.43
23 11 0.26
24 5 0.12
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.15
Consensus pattern (22 bp):
AAAAAAATCGAATTATAGGACA
Found at i:22246466 original size:22 final size:23
Alignment explanation
Indices: 22246441--22246502 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
22246431 TACATGAACT
22246441 AAAAATTTGAATTATAGAGACAA
1 AAAAATTTGAATTATAGAGACAA
* *
22246464 AAAAA--TCAATTTACAGAGACAA
1 AAAAATTTGAA-TTATAGAGACAA
22246486 AAAAATTTGAATTATAG
1 AAAAATTTGAATTATAG
22246503 GGGGAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.09
22 16 0.50
23 10 0.31
24 3 0.09
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.26
Consensus pattern (23 bp):
AAAAATTTGAATTATAGAGACAA
Found at i:22246551 original size:40 final size:43
Alignment explanation
Indices: 22246441--22246557 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 43
22246431 TACATGAACT
*
22246441 AAAAATTTGAATTATAGAGACAAAAAAATCAATTTACAGAGACAA
1 AAAAATTTGAATTATAGGGACAAAAAAATCAA--TACAGAGACAA
** *
22246486 AAAAATTTGAATTATAGGGGGAAAAAAA-C-A-ACAGGGACAA
1 AAAAATTTGAATTATAGGGACAAAAAAATCAATACAGAGACAA
* * *
22246526 ACAAATTAGAATTATAGGGACAAAAAATTCAA
1 AAAAATTTGAATTATAGGGACAAAAAAATCAA
22246558 ATTGCAAGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
40 32 0.52
41 1 0.02
42 1 0.02
43 1 0.02
44 1 0.02
45 25 0.41
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.20
Consensus pattern (43 bp):
AAAAATTTGAATTATAGGGACAAAAAAATCAATACAGAGACAA
Found at i:22250621 original size:86 final size:88
Alignment explanation
Indices: 22250524--22250699 Score: 248
Period size: 91 Copynumber: 2.0 Consensus size: 88
22250514 AGTGTAAAAA
* *
22250524 GCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCC-C-TTTTTTTGCACTCAATTGGGTACTTGA
1 GCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCCTCTTTTTTTTACACTCAATTGGGTACTTGA
** *
22250587 ACTTTCAAAATGTATAAAAAAGT
66 ACTGCCAAAATGCATAAAAAAGT
*
22250610 GCCCTTAAACTTTTTCAAAAAAAGAAATTAAGCCCTGTCTTTTTTTTTACACTCAATTGGGTACT
1 GCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCC--TC-TTTTTTTTACACTCAATTGGGTACT
*
22250675 TGAACTGCCAAAATGCATCAAAAAG
63 TGAACTGCCAAAATGCATAAAAAAG
22250700 GCTCTTTGAC
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
86 33 0.42
89 1 0.01
91 44 0.56
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (88 bp):
GCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCCTCTTTTTTTTACACTCAATTGGGTACTTGA
ACTGCCAAAATGCATAAAAAAGT
Found at i:22250849 original size:19 final size:19
Alignment explanation
Indices: 22250826--22250889 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
22250816 ATAAAAATAA
22250826 ATAAAAATTATAAAAAATT
1 ATAAAAATTATAAAAAATT
* * **
22250845 GTAAAAAATTGTAAAATTTT
1 AT-AAAAATTATAAAAAATT
*
22250865 ATAAAAATCATAAAAAATT
1 ATAAAAATTATAAAAAATT
22250884 ATAAAA
1 ATAAAA
22250890 TGCATCAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (19 bp):
ATAAAAATTATAAAAAATT
Found at i:22250890 original size:29 final size:28
Alignment explanation
Indices: 22250829--22250890 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
22250819 AAAATAAATA
** *
22250829 AAAATTATAAAAAATTGTAAAAAATTGT
1 AAAATTATAAAAAATCATAAAAAATTAT
*
22250857 AAAATTTTATAAAAATCATAAAAAATTAT
1 AAAATTATA-AAAAATCATAAAAAATTAT
22250886 AAAAT
1 AAAAT
22250891 GCATCAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAATTATAAAAAATCATAAAAAATTAT
Found at i:22251952 original size:19 final size:19
Alignment explanation
Indices: 22251928--22252038 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
22251918 AATCTTTAGG
22251928 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
22251947 GATATGCAATATTAGTTAT
1 GATATGCAATCTTAGATAT
**
22251966 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22251985 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
22252004 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22252023 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
22252039 GGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22251979 original size:38 final size:38
Alignment explanation
Indices: 22251935--22252038 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
22251925 AGGGATATGC
* *
22251935 AATCTTAGATATGATATGCAATATTAGTTATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
22251973 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
22252011 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
22252039 GGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATGATATAT
Found at i:22252074 original size:21 final size:23
Alignment explanation
Indices: 22252030--22252074 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22252020 TATGATATGC
*
22252030 AATCTTAGAGGATATGATTTTGT
1 AATCTTAGAGGATATGAATTTGT
*
22252053 AATCTTAGA-GAT-TTAATTTGT
1 AATCTTAGAGGATATGAATTTGT
22252074 A
1 A
22252075 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (23 bp):
AATCTTAGAGGATATGAATTTGT
Found at i:22265964 original size:23 final size:23
Alignment explanation
Indices: 22265938--22265985 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
22265928 CCAGAAAAAG
22265938 TAAGATCCACTTTCAAAGTTTTC
1 TAAGATCCACTTTCAAAGTTTTC
22265961 TAAGATCCACTTTCAAAGTTTTC
1 TAAGATCCACTTTCAAAGTTTTC
22265984 TA
1 TA
22265986 TTAATAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (23 bp):
TAAGATCCACTTTCAAAGTTTTC
Found at i:22269248 original size:17 final size:17
Alignment explanation
Indices: 22269226--22269265 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
22269216 GGCCAATTTG
22269226 GGGCATGTGGACCACAC
1 GGGCATGTGGACCACAC
* *
22269243 GGGCATGTGGGCCACAT
1 GGGCATGTGGACCACAC
22269260 GGGCAT
1 GGGCAT
22269266 ATGAGCCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (17 bp):
GGGCATGTGGACCACAC
Found at i:22270678 original size:36 final size:35
Alignment explanation
Indices: 22270637--22270715 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 35
22270627 TACTTTCTAT
* *
22270637 TTGGTGTGTTTTGGTGGGACTAGCTCTGT-TGAGCA
1 TTGGTGTGTTCTAGTGGGACTAGCTCT-TATGAGCA
*
22270672 TCTGGTGTGTTCTAGTTGGACTAGCTCTTATGAGCA
1 T-TGGTGTGTTCTAGTGGGACTAGCTCTTATGAGCA
22270708 TTGGTGTG
1 TTGGTGTG
22270716 ATTGGCTCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
35 9 0.23
36 30 0.77
ACGTcount: A:0.13, C:0.13, G:0.34, T:0.41
Consensus pattern (35 bp):
TTGGTGTGTTCTAGTGGGACTAGCTCTTATGAGCA
Found at i:22273902 original size:28 final size:26
Alignment explanation
Indices: 22273861--22273959 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 26
22273851 ACTTTATAAA
22273861 ATTTTATAATTTTTTATATTTCTATAT
1 ATTTTATAATTTTTTATATTT-TATAT
* *
22273888 ATTTTATAATTTTTTATGTTGTTCATAA
1 ATTTTATAATTTTTTATATT-TT-ATAT
* *
22273916 ATTTTACAATTTTTTTATATATTT-TACG
1 ATTTTATAA-TTTTTTATAT-TTTATA-T
22273944 ATTTTTATAATTTTTT
1 A-TTTTATAATTTTTT
22273960 TCCTCTAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
27 22 0.37
28 19 0.32
29 18 0.30
30 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (26 bp):
ATTTTATAATTTTTTATATTTTATAT
Found at i:22274639 original size:7 final size:7
Alignment explanation
Indices: 22274617--22274661 Score: 56
Period size: 8 Copynumber: 6.1 Consensus size: 7
22274607 GTTTAGAGAC
22274617 TAGGGTT
1 TAGGGTT
22274624 TATGGGTT
1 TA-GGGTT
22274632 TAGGGTTT
1 TAGGG-TT
22274640 TAGTGGTT
1 TAG-GGTT
22274648 TAGGG-T
1 TAGGGTT
22274654 TAGGGTT
1 TAGGGTT
22274661 T
1 T
22274662 TGTTAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 6 0.18
7 9 0.26
8 17 0.50
9 2 0.06
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (7 bp):
TAGGGTT
Found at i:22274769 original size:34 final size:33
Alignment explanation
Indices: 22274730--22274847 Score: 139
Period size: 34 Copynumber: 3.4 Consensus size: 33
22274720 AGGTTTAAAA
22274730 TTTTTAAAAAAATTAATTAAATTAGGTTTTAGGG
1 TTTTTAAAAAAATTAATTAAATTAGG-TTTAGGG
* ** *
22274764 GTTTTAAGTAAATTAATTAAATTAGGGTCTAGGG
1 TTTTTAAAAAAATTAATTAAATTA-GGTTTAGGG
22274798 TTTTTAAGAAAAA-TAATTAAATTAAGGTTTAGGG
1 TTTTTAA-AAAAATTAATTAAATT-AGGTTTAGGG
22274832 TTTTTTAAAAATAATT
1 -TTTTTAAAAA-AATT
22274848 TTGTGTTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
34 54 0.77
35 15 0.21
36 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.42
Consensus pattern (33 bp):
TTTTTAAAAAAATTAATTAAATTAGGTTTAGGG
Found at i:22275115 original size:125 final size:126
Alignment explanation
Indices: 22274923--22276194 Score: 1520
Period size: 125 Copynumber: 10.2 Consensus size: 126
22274913 GATTTTGTTT
* * * * * * * *
22274923 TTTTTCTACAGCAGTTTCTAAAAAAATTAATTTTGAGAATATGATTCTAAAAAAATAGTGACAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAA-TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
* *
22274988 AATGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* ** * * *
22275050 TTTTTCTATAGTAGTTTTTG-AAAAATAATTTTGAAAAGACGGTTCTGAAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * * * *
22275114 ATGCTTTAAGTAGTACGCACTGTTAGCAAAAGTACT-AAAAAAACCCCCACGTGGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* ** * *
22275174 TTTTTGTACAGTAGTTCCTG-AAAAATAATTTTGAGAAGATAGTTTTGAAAAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * *
22275238 CTGCTTCAAGCAGCATGCACTATTAGCAAAATTACTAAAAAAAGCTCTCACGTGGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * **
22275299 TTTTTTTACAGTAGTTCTTG-AAAAGTAATTTTGAGAAGACAATTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * *
22275363 ACGCTTAAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* **
22275424 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * * *
22275489 ACGCTTCAAGCAGGATACATTGTCAGCAAAATTACTG-AAAAATCTCCCATGCGGATGCTA
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
** ** * * *
22275549 TTTTTCTATTGTAGTTTTTGAAAAAATAATTTTGAGAAGACGGTTAT-AAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* ** * * * *
22275613 ACGCTTCAATTAGTATGTACTGTCAGCAAAAGTACT-AAAAAAGCTCCCACATGGACGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
22275673 TTTTTCTACAGTAGCTCCTGAAAAAATAATTTTTAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * *
22275738 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACATGGATGCTT
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* **
22275799 TTTTTCTATAACAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTG-AAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * *
22275863 ACGTTTCAAGCAGGATGCACTGTCAACAAAATTACT-AACAAAAGCTTCCATGTAGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAA-AAAAGCTCCCACGTGGACGCTC
* * * *
22275924 TTTTTTTATAGTAGTTCCTGAAAAAATAATTCT-AAAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * *
22275988 ATGCTTCAAGCAAGATGCACTGTCAACAAAATTACTGAAACAAGCTCCCATGTGGACGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
** * *
22276049 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATAGTTCTGAAAATATAGTTTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
** *
22276114 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCATACGTGGACGTTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
22276175 TTTTTCTATAGTAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
22276195 CTTGGCTTTA
Statistics
Matches: 984, Mismatches: 152, Indels: 19
0.85 0.13 0.02
Matches are distributed among these distances:
124 220 0.22
125 503 0.51
126 245 0.25
127 16 0.02
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:22281209 original size:18 final size:18
Alignment explanation
Indices: 22281186--22281224 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
22281176 GGAAAATGAA
*
22281186 ACATATAAGAGTTAGGAT
1 ACATATAAGAGTTAGAAT
*
22281204 ACATATAAGGGTTAGAAT
1 ACATATAAGAGTTAGAAT
22281222 ACA
1 ACA
22281225 CACCTGGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.26
Consensus pattern (18 bp):
ACATATAAGAGTTAGAAT
Found at i:22282795 original size:20 final size:21
Alignment explanation
Indices: 22282767--22282805 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
22282757 ATTAATTAAA
*
22282767 ATTACATAA-ATGAAAAAAAT
1 ATTAAATAATATGAAAAAAAT
*
22282787 ATTAAATAATATTAAAAAA
1 ATTAAATAATATGAAAAAA
22282806 TTGAAACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
ATTAAATAATATGAAAAAAAT
Found at i:22284250 original size:6 final size:6
Alignment explanation
Indices: 22284239--22284272 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
22284229 TAATGCTCAT
22284239 CCATTG CCATTG CCATTG CCATTG CCATTG CCAT
1 CCATTG CCATTG CCATTG CCATTG CCATTG CCAT
22284273 CAATATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.35, G:0.15, T:0.32
Consensus pattern (6 bp):
CCATTG
Found at i:22285805 original size:28 final size:28
Alignment explanation
Indices: 22285773--22285829 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
22285763 GATAATAAAG
*
22285773 ATAGAATTTTGTTTTTCTCTCAAATGGA
1 ATAGAATTTTGCTTTTCTCTCAAATGGA
22285801 ATAGAATTTTGCTTTTCTCTCAAATGGA
1 ATAGAATTTTGCTTTTCTCTCAAATGGA
22285829 A
1 A
22285830 ACGTATAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (28 bp):
ATAGAATTTTGCTTTTCTCTCAAATGGA
Found at i:22287122 original size:7 final size:7
Alignment explanation
Indices: 22287110--22287142 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
22287100 TCTGAAATTG
22287110 ATATACT
1 ATATACT
22287117 ATATACT
1 ATATACT
22287124 ATATACT
1 ATATACT
22287131 ATATACT
1 ATATACT
22287138 ATATA
1 ATATA
22287143 ATGTTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATACT
Found at i:22291894 original size:87 final size:86
Alignment explanation
Indices: 22291748--22291911 Score: 224
Period size: 87 Copynumber: 1.9 Consensus size: 86
22291738 AAATTTAGAT
* *
22291748 TCGGTGAATTCATCAAGTACGTCTCAATAAGACCATCCACACTCTCGAATATGAACTCATTAAGA
1 TCGGTGAATTCATCAAGTACATCTCAATAAGACCATCCAAACTCTCGAATATGAACTCATTAAGA
22291813 GTAATAAACTCAACATCTCAAG
66 GTAA-AAACTCAACATCTCAAG
* * **
22291835 TCGGTGAATTCATCAAGT-CTATCTCAATAGGACCA-CTCAAACTCTTGGCTATGAACTCATTAA
1 TCGGTGAATTCATCAAGTAC-ATCTCAATAAGACCATC-CAAACTCTCGAATATGAACTCATTAA
*
22291898 GAGTAAGAACTCAA
64 GAGTAAAAACTCAA
22291912 ACTTATGCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 9 0.13
87 59 0.87
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (86 bp):
TCGGTGAATTCATCAAGTACATCTCAATAAGACCATCCAAACTCTCGAATATGAACTCATTAAGA
GTAAAAACTCAACATCTCAAG
Found at i:22300091 original size:10 final size:11
Alignment explanation
Indices: 22300019--22300112 Score: 58
Period size: 12 Copynumber: 8.8 Consensus size: 11
22300009 CACTCTCACT
22300019 TTCTTTTTCAA
1 TTCTTTTTCAA
**
22300030 TTTCTTTTTCGTT
1 -TTCTTTTTC-AA
22300043 TTCTTTTTCACA
1 TTCTTTTTCA-A
* *
22300055 ATCTTTTTCGA
1 TTCTTTTTCAA
22300066 TTC-TTTTC--
1 TTCTTTTTCAA
*
22300074 -TCTCTTTCAA
1 TTCTTTTTCAA
22300084 TT-TTTTTC--
1 TTCTTTTTCAA
22300092 TTCTTTTTCAA
1 TTCTTTTTCAA
22300103 TCTCTTTTTC
1 T-TCTTTTTC
22300113 TTTTTCATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
7 2 0.03
8 6 0.10
9 6 0.10
10 10 0.16
11 5 0.08
12 34 0.54
ACGTcount: A:0.11, C:0.21, G:0.02, T:0.66
Consensus pattern (11 bp):
TTCTTTTTCAA
Found at i:22300102 original size:19 final size:19
Alignment explanation
Indices: 22300056--22300119 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 19
22300046 TTTTTCACAA
* *
22300056 TCTTTTTCGATTCTTTTC-
1 TCTTTTTCAATTTTTTTCT
*
22300074 TCTCTTTCAATTTTTTTCT
1 TCTTTTTCAATTTTTTTCT
* *
22300093 TCTTTTTCAATCTCTTT-T
1 TCTTTTTCAATTTTTTTCT
22300111 TCTTTTTCA
1 TCTTTTTCA
22300120 TTACAACATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 25 0.64
19 14 0.36
ACGTcount: A:0.09, C:0.22, G:0.02, T:0.67
Consensus pattern (19 bp):
TCTTTTTCAATTTTTTTCT
Found at i:22301083 original size:13 final size:12
Alignment explanation
Indices: 22301057--22301090 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
22301047 ATATATCTCC
22301057 TTTTTTC-AAAT
1 TTTTTTCGAAAT
22301068 TTTTTTCGAAAT
1 TTTTTTCGAAAT
22301080 TTTTTTACGAA
1 TTTTTT-CGAA
22301091 CCTACTCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 10 0.48
13 4 0.19
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (12 bp):
TTTTTTCGAAAT
Found at i:22302003 original size:40 final size:40
Alignment explanation
Indices: 22301959--22302035 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
22301949 TCTGCCTTGG
* *
22301959 GAAGCTGAACATGCAGCAACATTTTAATGGGAGTTTTTTA
1 GAAGCTGAACATGCAACAACATTTTAATAGGAGTTTTTTA
*
22301999 GAAGCTGAACGTGCAACAACATTTTAATAGGAGTTTT
1 GAAGCTGAACATGCAACAACATTTTAATAGGAGTTTT
22302036 GGAGCACGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (40 bp):
GAAGCTGAACATGCAACAACATTTTAATAGGAGTTTTTTA
Found at i:22304752 original size:18 final size:17
Alignment explanation
Indices: 22304723--22304758 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
22304713 ATCTCTCCCG
*
22304723 TTTTGAAATATTATAAA
1 TTTTGAAATATTAGAAA
22304740 TTTTGATAATATTAGAAA
1 TTTTGA-AATATTAGAAA
22304758 T
1 T
22304759 CAACTACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (17 bp):
TTTTGAAATATTAGAAA
Found at i:22305405 original size:16 final size:16
Alignment explanation
Indices: 22305377--22305426 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
22305367 AGTTAAAATG
22305377 TAATTTCATAATTGTAT
1 TAATTT-ATAATTGTAT
*
22305394 TAATTTATAATTTTAT
1 TAATTTATAATTGTAT
* * *
22305410 AAATATATAAATGTAT
1 TAATTTATAATTGTAT
22305426 T
1 T
22305427 GTCCCATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 21 0.78
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (16 bp):
TAATTTATAATTGTAT
Found at i:22309929 original size:21 final size:22
Alignment explanation
Indices: 22309903--22309943 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
22309893 AAAAATAAAC
22309903 TGCTATTTT-TTGTTATTTTAA
1 TGCTATTTTCTTGTTATTTTAA
*
22309924 TGCTATTTTCTTGTTGTTTT
1 TGCTATTTTCTTGTTATTTT
22309944 CTCCGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.68
Consensus pattern (22 bp):
TGCTATTTTCTTGTTATTTTAA
Found at i:22316272 original size:21 final size:23
Alignment explanation
Indices: 22316233--22316275 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
22316223 ATTCAAAATA
22316233 AAATAATACAGTCTAAAAATATC
1 AAATAATACAGTCTAAAAATATC
*
22316256 AAATAATA-A-TCTTAAAATAT
1 AAATAATACAGTCTAAAAATAT
22316276 TTTTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATAATACAGTCTAAAAATATC
Found at i:22317103 original size:34 final size:33
Alignment explanation
Indices: 22316998--22317095 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 33
22316988 GAGCAATACG
*
22316998 GTAGCAATCAATATGCTTATAACAGTTCAATATA
1 GTAGCAAT-AATATGCTTATAACAGTTCAATAAA
*
22317032 GTAGCAAATAATATGCTTATAACGGTTCAATAAA
1 GTAGC-AATAATATGCTTATAACAGTTCAATAAA
*
22317066 GTAGCAAGTAATATGCTTATAACAGATCAA
1 GTAGCAA-TAATATGCTTATAACAGTTCAA
22317096 CTCAGTAGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.03
34 53 0.91
35 3 0.05
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (33 bp):
GTAGCAATAATATGCTTATAACAGTTCAATAAA
Found at i:22318378 original size:11 final size:11
Alignment explanation
Indices: 22318362--22318386 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22318352 AACTTGTTCA
22318362 AATTAATCATC
1 AATTAATCATC
22318373 AATTAATCATC
1 AATTAATCATC
22318384 AAT
1 AAT
22318387 ACACAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTAATCATC
Found at i:22326898 original size:27 final size:29
Alignment explanation
Indices: 22326868--22326921 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
22326858 TTTTTTCTTT
*
22326868 TAAAAAAACATAAATT-T-AAAAAAAATG
1 TAAAAAAACAAAAATTGTCAAAAAAAATG
*
22326895 TAAAAATACAAAAATTGTCAAAAAAAA
1 TAAAAAAACAAAAATTGTCAAAAAAAA
22326922 ACCTCTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 14 0.61
28 1 0.04
29 8 0.35
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (29 bp):
TAAAAAAACAAAAATTGTCAAAAAAAATG
Found at i:22328313 original size:12 final size:12
Alignment explanation
Indices: 22328298--22328340 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
22328288 TGATAAATAA
*
22328298 TAAAATAATATT
1 TAAAATAAAATT
*
22328310 TAAAATAAAATG
1 TAAAATAAAATT
22328322 TAATAATAAAATT
1 TAA-AATAAAATT
22328335 TAAAAT
1 TAAAAT
22328341 TAACATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
TAAAATAAAATT
Found at i:22331859 original size:29 final size:29
Alignment explanation
Indices: 22331811--22331866 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
22331801 GTCGTACATA
** *
22331811 GTCTGGCACACGACTGTGTGTCACACACG
1 GTCTGGCACACGACCATGTGCCACACACG
22331840 GTCTGGCACACGACCATGTGCCACACA
1 GTCTGGCACACGACCATGTGCCACACA
22331867 TGGCTTACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (29 bp):
GTCTGGCACACGACCATGTGCCACACACG
Found at i:22332235 original size:16 final size:16
Alignment explanation
Indices: 22332214--22332244 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22332204 AATTTCATAA
*
22332214 AACCAATTACAACAAG
1 AACCAATTAAAACAAG
22332230 AACCAATTAAAACAA
1 AACCAATTAAAACAA
22332245 CCTCTTTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.23, G:0.03, T:0.13
Consensus pattern (16 bp):
AACCAATTAAAACAAG
Found at i:22336645 original size:6 final size:6
Alignment explanation
Indices: 22336634--22336660 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
22336624 ATGTGCAACT
22336634 CAATAC CAATAC CAATAC CAATAC CAA
1 CAATAC CAATAC CAATAC CAATAC CAA
22336661 GCAGACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (6 bp):
CAATAC
Found at i:22336936 original size:23 final size:23
Alignment explanation
Indices: 22336910--22336954 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22336900 TGATTTTGAA
*
22336910 TATTATTTGACAAA-ATTTCTAAG
1 TATT-TTTCACAAATATTTCTAAG
*
22336933 TATTTTTCATAAATATTTCTAA
1 TATTTTTCACAAATATTTCTAA
22336955 AAAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (23 bp):
TATTTTTCACAAATATTTCTAAG
Found at i:22356612 original size:14 final size:12
Alignment explanation
Indices: 22356583--22356614 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22356573 CACGGTCTGC
22356583 CACACAGCTTAG
1 CACACAGCTTAG
*
22356595 CACACAGTTTAG
1 CACACAGCTTAG
22356607 CACACAGC
1 CACACAGC
22356615 CTACCACACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.34, C:0.34, G:0.16, T:0.16
Consensus pattern (12 bp):
CACACAGCTTAG
Found at i:22356648 original size:12 final size:12
Alignment explanation
Indices: 22356614--22356640 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22356604 TAGCACACAG
22356614 CCTACCACACGT
1 CCTACCACACGT
22356626 CCTACCACACGT
1 CCTACCACACGT
22356638 CCT
1 CCT
22356641 GACACACGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.52, G:0.07, T:0.19
Consensus pattern (12 bp):
CCTACCACACGT
Found at i:22359706 original size:232 final size:232
Alignment explanation
Indices: 22359300--22359759 Score: 758
Period size: 232 Copynumber: 2.0 Consensus size: 232
22359290 GCTGCCTATC
* ** *
22359300 GAGAAAGACTCAGTTTGAGCCCACAAAACCCAAATCCATGACTACCATATGAACTCATTTCAATA
1 GAGAAAGACTCAGCTTGAGCCCACAAAACCCAAATCCACAACTACCATATGAACTCATTTCAACA
*
22359365 AATTATCTACAATGTCAGAAATACACAGATCAGTTTAGAGTCTTCACCACAGTTCTCATGTCAAT
66 AATTATCTACAATGTCAGAAATACACAGATCAGTTCAGAGTCTTCACCACAGTTCTCATGTCAAT
22359430 TCATATTAGAATGTTTGACCAAACCACAGTTTCAATCACTACTATGTCTCAACAAATCATAATAA
131 TCATATTAGAATGTTTGACCAAACCACAGTTTCAATCACTACTATGTCTCAACAAATCATAATAA
* *
22359495 CTAAACAGGAATACTTATAGGTTTAGTGTCAGACATT
196 CTAAACAGGAATACTTACAAGTTTAGTGTCAGACATT
* * ** *
22359532 GAGAAAGACTCAGCTTGAGCCCATAAAACTCACGTCCACAACTACCATGTGAACTCATTTCAACA
1 GAGAAAGACTCAGCTTGAGCCCACAAAACCCAAATCCACAACTACCATATGAACTCATTTCAACA
* * * *
22359597 AATTATCTACAATGTCAGAAATGCATAGATCAGTTCAGAGTCTTTACCACAGTTCTTATGTCAAT
66 AATTATCTACAATGTCAGAAATACACAGATCAGTTCAGAGTCTTCACCACAGTTCTCATGTCAAT
*
22359662 TCATTTTAGAATGTTTGACCAAACCACAGTTTCAATCACTACTATGTCTCAACAAATCATAATAA
131 TCATATTAGAATGTTTGACCAAACCACAGTTTCAATCACTACTATGTCTCAACAAATCATAATAA
*
22359727 CTGAACAGGAATACTTACAAGTTTAGTGTCAGA
196 CTAAACAGGAATACTTACAAGTTTAGTGTCAGA
22359760 AACTCGATCC
Statistics
Matches: 210, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
232 210 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (232 bp):
GAGAAAGACTCAGCTTGAGCCCACAAAACCCAAATCCACAACTACCATATGAACTCATTTCAACA
AATTATCTACAATGTCAGAAATACACAGATCAGTTCAGAGTCTTCACCACAGTTCTCATGTCAAT
TCATATTAGAATGTTTGACCAAACCACAGTTTCAATCACTACTATGTCTCAACAAATCATAATAA
CTAAACAGGAATACTTACAAGTTTAGTGTCAGACATT
Found at i:22360266 original size:22 final size:22
Alignment explanation
Indices: 22360241--22360301 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
22360231 ACATAGTATG
* *
22360241 TCAGATACAGATGCAGAACATA
1 TCAGATTCAGATGCAGAACAAA
* * * *
22360263 TCAGATTTATATGTAGAATAAA
1 TCAGATTCAGATGCAGAACAAA
22360285 TCAGATTCAGATGCAGA
1 TCAGATTCAGATGCAGA
22360302 TTTCTAACCC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (22 bp):
TCAGATTCAGATGCAGAACAAA
Found at i:22361009 original size:22 final size:22
Alignment explanation
Indices: 22360984--22361044 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
22360974 ACATGGTATG
* *
22360984 TCAGATACAGATGCAGAACATA
1 TCAGATTCAGATGCAGAACAAA
* * * *
22361006 TCAGATTTATATGTAGAATAAA
1 TCAGATTCAGATGCAGAACAAA
22361028 TCAGATTCAGATGCAGA
1 TCAGATTCAGATGCAGA
22361045 TTTCTAACCC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (22 bp):
TCAGATTCAGATGCAGAACAAA
Found at i:22361759 original size:22 final size:22
Alignment explanation
Indices: 22361734--22361793 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
22361724 TATGGTATGC
* *
22361734 CAGATACAGATGCAGAACATAT
1 CAGATTCAGATGCAGAACAAAT
* * * *
22361756 CAGATTTATATGTAGAATAAAT
1 CAGATTCAGATGCAGAACAAAT
22361778 CAGATTCAGATGCAGA
1 CAGATTCAGATGCAGA
22361794 TTTCTAACCC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (22 bp):
CAGATTCAGATGCAGAACAAAT
Found at i:22362865 original size:748 final size:749
Alignment explanation
Indices: 22360137--22363655 Score: 6262
Period size: 749 Copynumber: 4.7 Consensus size: 749
22360127 ATTTAGTACT
* * *
22360137 AATTAGTAAACTACAATTGTTATCTCATTTACCGTAGATCATCTGTTACTCAGAATTAGATACAG
1 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
* *
22360202 AATAGAAACAAAGAAAGTCGGATATAGTTACATAGTATGTCAGATACAGATGCAGAACATATCAG
66 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
* *
22360267 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCTATTACACACCATCTT
131 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
* * *
22360332 TATCCATCTCAACACACCATATAGGGCATCAAGTACTCGTCCATCCTTACACTGCGTAATGACTA
196 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
* * ** *
22360397 TATCTCACGTTTCAGAATAATCAAAGCGTAATTGTCAGATCAGAATGCGATAAATCGCCACAGAT
261 TATCTCACATTTCAGAATAATCACAGCGTAGCTGCCAGATCAGAATGCGATAAATCGCCACAGAT
* * * *
22360462 TTAATAGATAATTAAACAGTCACACTTCCTTC-TTAAACAACACCAATCTCAATACGAATGCAAT
326 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
* * *
22360526 CCAACGGATGCAGATTTAAGTATGCGGAGTAACATATTCAGATCATACTCAATGTTATGTGTATA
391 CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
* *
22360591 ATAATAGTTTATACAAAAAC-----ACCCACTAATGGATTTCATAGCCAAAATTAGATTATACTG
456 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
22360651 GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
521 GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
*
22360716 TCAGATTCAGATTCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
586 TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
*
22360781 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACATTTCAGAAT
651 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
22360846 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
716 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
* *
22360880 AATTAGTAAACTACAATTGTAATCTCATTTATCGTAGATCATCTGTTACTCAGAATTAGATACAA
1 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
*
22360945 AATATAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
66 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
22361010 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
131 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
* * *
22361075 CATCCATCCCAACACACCATATAAGGCATCAAATGCTCGTCCATCCCTACACTGCGTAATGACTA
196 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
*
22361140 TATCTCACGTTTCAGAATAATCACAGCGTAGCTGCCAGATCAGAATGCGATAAATCGCCACAGAT
261 TATCTCACATTTCAGAATAATCACAGCGTAGCTGCCAGATCAGAATGCGATAAATCGCCACAGAT
* *
22361205 TCAATAGATAATTAAACAGTCACACTTCTTTCTTTATACAGCACCAATCTGAATGCGAATGCAAT
326 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
*
22361270 CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATTCTCAATGTTATGTGTATA
391 CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
22361335 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
456 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
*
22361400 GCTCTACTGTTACATGGTATGTCAGATACAAATGTAGAACATATCAGATTTATATGTAGAATAAA
521 GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
*
22361465 TCAGATTCAGATGCAGATTTCTAACCCCATTCATTACACACCATCTCTATCCATCCCAACACACC
586 TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
* *
22361530 ATATAGGGCATCAAGTACTCGTCCATTCCTACACTGCGTAATGACTATATGTTACGTTTCAGAAT
651 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
22361595 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
716 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
22361629 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
1 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
* * *
22361694 AATAGAAACAAAGAAAGTCGGATATAGTTATATGGTATGCCAGATACAGATGCAGAACATATCAG
66 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
22361759 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
131 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
* *
22361824 CATCCATCCCAACACACTATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCTTAATGACTA
196 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
* * * *
22361889 TATATCACATTTTAGAATAATCACAGCGTAGCTGCCAGATCAGAATGTGATAAATCGCCATAGAT
261 TATCTCACATTTCAGAATAATCACAGCGTAGCTGCCAGATCAGAATGCGATAAATCGCCACAGAT
*
22361954 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCCCAATGCGAATGCAAT
326 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
*
22362019 CCAACGGATGCAGATTTAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
391 CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
* *
22362084 ATAATAGTTTATACAAAAACAAATTATCCACTAATAGATTTCATAGCCCAAATTAGATCATACTG
456 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
* * * *
22362149 GCTCTACTGTTACATGGCATGTTAGATATAGATGTAGAACATATCATATTTATATGTAGAATAAA
521 GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
22362214 TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
586 TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
* *
22362279 ATATAGGGTATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGCAT
651 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
22362344 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
716 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
22362378 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
1 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
*
22362443 AATAGAAACAAAGAAAGTCAGATACAGTTACATGGTAT-TCAGATACAGATGCAGAACATATCAG
66 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
* *
22362507 ATTTATATGTAGAATAAATCAGATTCAAATGCAGATTTCTAACCCTATCCATTACACACCATCTC
131 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
*
22362572 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCTTACACTGCGTAATGACTA
196 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
*
22362637 TATCTCACATTTTAGAATAATCACAGCGTAGCTGCCAGATCAGAATGCGATAAATC-CTCACAGA
261 TATCTCACATTTCAGAATAATCACAGCGTAGCTGCCAGATCAGAATGCGATAAATCGC-CACAGA
22362701 TTCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAA
325 TTCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAA
22362766 TCCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTAT
390 TCCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTAT
* *
22362831 AATAATAGTTTATACAAAAACCAATTACCCACTAATAGATTTCATAGCCCAAATTAGATCATACT
455 AATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACT
* *
22362896 GGCTCTACTGTTACATGGTATGTTAGATATAGATGTAGAACATATCAGATTTATATGTAGAATAA
520 GGCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAA
22362961 ATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACAC
585 ATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACAC
22363026 CATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAA
650 CATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAA
*
22363091 TAATCGCAGCGTAGCTGCCAGATCAGAATGTAATA
715 TAATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
22363126 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
1 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
*
22363191 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAAAACATATCAG
66 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
*
22363256 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATCACACACCATCTC
131 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
22363321 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
196 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
* * * *
22363386 TATGTCACATTTCAGAATAATCGCAGCGTAGCTGCCAGATCAGAATGTGATAAATCACCACAGAT
261 TATCTCACATTTCAGAATAATCACAGCGTAGCTGCCAGATCAGAATGCGATAAATCGCCACAGAT
* *
22363451 TTAATAGATAATTAAATAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
326 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
* *
22363516 CCAACGGATGCAAATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATTTTATGTGTATA
391 CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
22363581 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
456 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
22363646 GCTCTACTGT
521 GCTCTACTGT
22363656 AGGCCTATGT
Statistics
Matches: 2661, Mismatches: 106, Indels: 12
0.96 0.04 0.00
Matches are distributed among these distances:
743 337 0.13
744 109 0.04
747 1 0.00
748 727 0.27
749 1486 0.56
750 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (749 bp):
AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
TATCTCACATTTCAGAATAATCACAGCGTAGCTGCCAGATCAGAATGCGATAAATCGCCACAGAT
TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
Found at i:22364213 original size:24 final size:24
Alignment explanation
Indices: 22364182--22364229 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
22364172 AAAAACTTCG
22364182 ACACTAACCTAAAAAGTAAAGTAA
1 ACACTAACCTAAAAAGTAAAGTAA
22364206 ACACTAACCTAAAAAGTAAAGTAA
1 ACACTAACCTAAAAAGTAAAGTAA
22364230 CTCTTACCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (24 bp):
ACACTAACCTAAAAAGTAAAGTAA
Found at i:22366825 original size:68 final size:68
Alignment explanation
Indices: 22366716--22366871 Score: 213
Period size: 68 Copynumber: 2.3 Consensus size: 68
22366706 CAGTTATGAT
* * * * * * *
22366716 CTTACACAAATTAAACTCATGTTTACTGTCCTAACGGACTCCATATGTTGCCATAGTCTAGCTAT
1 CTTACACATATTAAACCCATGTTCACTATCCTAACGAACTCCATATGTTGCCATAGACTAACTAT
22366781 GGG
66 GGG
** *
22366784 CTTACACATATTAAACCCATGTTCACTATCCTGGCGAACTCCTTATGTTGCCATAGACTAACTAT
1 CTTACACATATTAAACCCATGTTCACTATCCTAACGAACTCCATATGTTGCCATAGACTAACTAT
*
22366849 GGT
66 GGG
22366852 CTTACACATATTAAACCCAT
1 CTTACACATATTAAACCCAT
22366872 ATTTAACTGG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 77 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (68 bp):
CTTACACATATTAAACCCATGTTCACTATCCTAACGAACTCCATATGTTGCCATAGACTAACTAT
GGG
Found at i:22368763 original size:25 final size:25
Alignment explanation
Indices: 22368720--22368776 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
22368710 TGTAACTAAA
*
22368720 TATTAGG-CTTGTGCAAGTGTTATC
1 TATTAGGCCTTGTGCAAGTGTCATC
*
22368744 TATTAGGCCTTGTGCTAGTGTCATC
1 TATTAGGCCTTGTGCAAGTGTCATC
*
22368769 TATCAGGC
1 TATTAGGC
22368777 TTTGAGCCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.39
Consensus pattern (25 bp):
TATTAGGCCTTGTGCAAGTGTCATC
Found at i:22374688 original size:16 final size:17
Alignment explanation
Indices: 22374667--22374698 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
22374657 AAATATGCAA
22374667 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
22374683 TCACATAACTTCATAT
1 TCACATAACTTCATAT
22374699 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:22374960 original size:41 final size:42
Alignment explanation
Indices: 22374890--22374968 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 42
22374880 TCTTACATGT
* *
22374890 AATCACATATCGATGCCACTATCCCAGACAGGGTCTTAGACA
1 AATCAAATATCGATGCCAATATCCCAGACAGGGTCTTAGACA
* * *
22374932 AATCAAATA-CGATGCCAATGTCCTAGACATGGTCTTA
1 AATCAAATATCGATGCCAATATCCCAGACAGGGTCTTA
22374969 CACGTATGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 24 0.75
42 8 0.25
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
AATCAAATATCGATGCCAATATCCCAGACAGGGTCTTAGACA
Found at i:22375000 original size:84 final size:84
Alignment explanation
Indices: 22374859--22375017 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 84
22374849 CGCTCGTACA
* *
22374859 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTATCCCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTATCCCAGAC-GTGG
*
22374923 TCTTAGACAAATCAAATACG
65 TCTTACACAAATCAAATACG
* * *
22374943 ATGCCAATGTCCTAGACATGGTCTTACACGT-ATGCACA-AGTCGATGCCAAC-GTCCCAGACGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAT-CACATA-TCGATGCC-ACTATCCCAGACGT
22375005 GGTCTTACACAAA
63 GGTCTTACACAAA
22375018 AATACATATT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
83 4 0.06
84 59 0.91
85 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTATCCCAGACGTGGT
CTTACACAAATCAAATACG
Found at i:22375014 original size:43 final size:41
Alignment explanation
Indices: 22374859--22375014 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 41
22374849 CGCTCGTACA
*
22374859 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-ATCACA-ATCG
* * **
22374902 ATGCC-ACTATCCCAGACAG-GGTCTTAGACAAATCA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATCACAAT-CG
* * *
22374943 ATGCCAATGTCCTAGACATGGTCTTACACGTATGCACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAT-CACAA-TCG
22374986 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
22375015 AAAAATACAT
Statistics
Matches: 90, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
40 2 0.02
41 26 0.29
42 9 0.10
43 51 0.57
44 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATCACAATCG
Found at i:22379959 original size:31 final size:31
Alignment explanation
Indices: 22379921--22379979 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
22379911 TACTATTAGA
22379921 ATTAGCTCAGTTGGAAAATTTATCTATCAAG
1 ATTAGCTCAGTTGGAAAATTTATCTATCAAG
22379952 ATTAGCTCAGTTGGAAAATTTATCTATC
1 ATTAGCTCAGTTGGAAAATTTATCTATC
22379980 TCATGAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (31 bp):
ATTAGCTCAGTTGGAAAATTTATCTATCAAG
Found at i:22382646 original size:43 final size:42
Alignment explanation
Indices: 22382491--22382646 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
22382481 CGCTCGTACA
*
22382491 ATGCCAACGTCCCAGACGTGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATA-CACA-ATCG
* **
22382534 ATGCC-ACTGTCCCAGACAG-GGTCTTAGACAAAT-CA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATACACAAT-CG
* * * *
22382575 ATGCTAATGTCCTAGACATGGTCTTACACGTATACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAA-TCG
22382618 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
22382647 AAAAATACAT
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
40 2 0.02
41 26 0.29
42 7 0.08
43 52 0.58
44 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATCG
Found at i:22389316 original size:11 final size:11
Alignment explanation
Indices: 22389300--22389324 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22389290 TCAATTAGGT
22389300 TTTTAGCATAG
1 TTTTAGCATAG
22389311 TTTTAGCATAG
1 TTTTAGCATAG
22389322 TTT
1 TTT
22389325 AATCAATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTTAGCATAG
Found at i:22390706 original size:20 final size:21
Alignment explanation
Indices: 22390670--22390709 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
22390660 TTTGTCCGGG
*
22390670 CTCAAAATTAAATAAATAAAA
1 CTCAAAATTAAAAAAATAAAA
22390691 CTCAAAA-TAAAAAAATAAA
1 CTCAAAATTAAAAAAATAAA
22390710 TAGTCCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (21 bp):
CTCAAAATTAAAAAAATAAAA
Found at i:22399013 original size:13 final size:13
Alignment explanation
Indices: 22398993--22399028 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
22398983 TCAAAGTTAT
22398993 CCTAGCCCAAATA
1 CCTAGCCCAAATA
*
22399006 CTTAGCCCAAATA
1 CCTAGCCCAAATA
22399019 CCTAGCCCAA
1 CCTAGCCCAA
22399029 TTGCTAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.39, G:0.08, T:0.17
Consensus pattern (13 bp):
CCTAGCCCAAATA
Found at i:22399429 original size:23 final size:22
Alignment explanation
Indices: 22399399--22399441 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
22399389 ATTTTTACGA
22399399 TTTCTTTT-TTTCTTCTTCTTTGT
1 TTTCTTTTGTTT-TTC-TCTTTGT
22399422 TTTCTTTTGTTTTTCTCTTT
1 TTTCTTTTGTTTTTCTCTTT
22399442 TCAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 11 0.58
24 3 0.16
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTCTTTTGTTTTTCTCTTTGT
Found at i:22400255 original size:45 final size:46
Alignment explanation
Indices: 22400186--22400306 Score: 147
Period size: 45 Copynumber: 2.6 Consensus size: 46
22400176 CTTAACATTG
*
22400186 TTTTAAATTTATCATTAGTATTATTTTAATATATAATATA-CTATTA
1 TTTTAAATTTATCATTAGTATTATTTTAATATATAATATATC-ATAA
* * * *
22400232 TTTTAAA-TTATCATTAATATTATTTAAATTTATCATATATCATAA
1 TTTTAAATTTATCATTAGTATTATTTTAATATATAATATATCATAA
* *
22400277 TTTGAAATTTATCATGTAGTATAATTTTAA
1 TTTTAAATTTATCAT-TAGTATTATTTTAA
22400307 ACTTATCATA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 37 0.59
46 15 0.24
47 11 0.17
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (46 bp):
TTTTAAATTTATCATTAGTATTATTTTAATATATAATATATCATAA
Found at i:22400287 original size:24 final size:23
Alignment explanation
Indices: 22400187--22400339 Score: 120
Period size: 24 Copynumber: 6.7 Consensus size: 23
22400177 TTAACATTGT
*
22400187 TTTAAATTTATCAT-TAGTATTA
1 TTTAAATTTATCATATAGTATAA
* * * * *
22400209 TTTTAATATATAATATACTATTAT
1 TTTAAATTTATCATATAGTA-TAA
* *
22400233 TTTAAA-TTATCAT-TAATATTA
1 TTTAAATTTATCATATAGTATAA
22400254 TTTAAATTTATCATATA-TCATAA
1 TTTAAATTTATCATATAGT-ATAA
*
22400277 TTTGAAATTTATCATGTAGTATAA
1 TTT-AAATTTATCATATAGTATAA
* *
22400301 TTTTAAACTTATCATATCGT-T-A
1 -TTTAAATTTATCATATAGTATAA
*
22400323 TTTATATTTATCATATA
1 TTTAAATTTATCATATA
22400340 CTATTTTTAT
Statistics
Matches: 103, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
21 21 0.20
22 24 0.23
23 18 0.17
24 36 0.35
25 4 0.04
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.52
Consensus pattern (23 bp):
TTTAAATTTATCATATAGTATAA
Found at i:22405131 original size:16 final size:17
Alignment explanation
Indices: 22405112--22405146 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22405102 GGGAAGGAGT
*
22405112 AAAAGTTTTGAAGGAAA
1 AAAAATTTTGAAGGAAA
22405129 AAAAATTTTGAAGGAAA
1 AAAAATTTTGAAGGAAA
22405146 A
1 A
22405147 GTAAAAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (17 bp):
AAAAATTTTGAAGGAAA
Found at i:22408529 original size:184 final size:180
Alignment explanation
Indices: 22408235--22408623 Score: 463
Period size: 180 Copynumber: 2.2 Consensus size: 180
22408225 CATGGTAAAT
* *
22408235 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATTAGTCATATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-TAGTCATATCTCTCTGAAGTCGCAG
* * * *
22408300 TGGAGCAGACTGAAAATAGCGAATCTTATTTCCCTGAAGTTACAGTGGAACGGATT-AAACTATA
65 TAGAGAAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAAACTATA
22408364 AATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATGACAAAC
130 AATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATGACAAAC
* * * *
22408415 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCA-AGTCTTATCTC-CTTGAAGTCG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG---CCATAGTCATATCTCTC-TGAAGTCG
* *
22408478 CAGTAGAGAAGACTGAAGATCATATCAAATCTTATTTCCCTGAAGTTACAGTGGAACATATTGAA
62 CAGTAGAGAAGACTGAA-A--ATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAA
* **
22408543 GCTATAAATTGTAGATCTTATCTCTCTGAAGTTGC-----AGCAGATCAT-AGCAAAC
124 ACTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATGA-CAAAC
* * * *
22408595 ATTATCGCCCTGAAATTACAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
22408624 TTGCAGTAGA
Statistics
Matches: 180, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
179 1 0.01
180 72 0.40
181 32 0.18
182 1 0.01
183 3 0.02
184 37 0.21
185 34 0.19
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (180 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAGTCATATCTCTCTGAAGTCGCAGT
AGAGAAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAAACTATAA
ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATGACAAAC
Found at i:22408873 original size:20 final size:21
Alignment explanation
Indices: 22408832--22408872 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22408822 TTTTCCCAAG
*
22408832 CCCAAAACTAAATAAATAAAA
1 CCCAAAACTAAAAAAATAAAA
22408853 CCCAAAA-TAAAAAAAATAAA
1 CCCAAAACT-AAAAAAATAAA
22408873 CAATCCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.12
Consensus pattern (21 bp):
CCCAAAACTAAAAAAATAAAA
Found at i:22425041 original size:51 final size:51
Alignment explanation
Indices: 22424965--22425065 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
22424955 AGATACTTGA
** * *
22424965 GTATCCGAGTTCGTTTAATAAGGTTCATCGGGTGAAATAAATTACATGAAG
1 GTATCCGAGCCCGTTTAATAAGGTTCATCGGGCGAAACAAATTACATGAAG
*
22425016 GTATCCGAGCCCGTTTACTAAGGTTCATCGGGCGAAACAAATTACATGAA
1 GTATCCGAGCCCGTTTAATAAGGTTCATCGGGCGAAACAAATTACATGAA
22425066 TTGAGAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (51 bp):
GTATCCGAGCCCGTTTAATAAGGTTCATCGGGCGAAACAAATTACATGAAG
Found at i:22429141 original size:8 final size:8
Alignment explanation
Indices: 22429124--22429177 Score: 99
Period size: 8 Copynumber: 6.8 Consensus size: 8
22429114 TACTTGGGAA
22429124 AAATGATT
1 AAATGATT
*
22429132 AAATGGTT
1 AAATGATT
22429140 AAATGATT
1 AAATGATT
22429148 AAATGATT
1 AAATGATT
22429156 AAATGATT
1 AAATGATT
22429164 AAATGATT
1 AAATGATT
22429172 AAATGA
1 AAATGA
22429178 ACTTGAACAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (8 bp):
AAATGATT
Found at i:22430574 original size:25 final size:22
Alignment explanation
Indices: 22430531--22430577 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 22
22430521 AAAATATATT
22430531 AAATATATATTTTTTATTTTTA
1 AAATATATATTTTTTATTTTTA
22430553 AAATATAATAGTTTTTTAATTTTTA
1 AAATAT-ATA-TTTTTT-ATTTTTA
22430578 GTTTCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 3 0.14
24 6 0.27
25 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
AAATATATATTTTTTATTTTTA
Found at i:22430575 original size:24 final size:22
Alignment explanation
Indices: 22430531--22430575 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
22430521 AAAATATATT
*
22430531 AAATATATATTTTTTATTTTTA
1 AAATATATATTTTTTAATTTTA
22430553 AAATATAATAGTTTTTTAATTTT
1 AAATAT-ATA-TTTTTTAATTTT
22430576 TAGTTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
AAATATATATTTTTTAATTTTA
Found at i:22434053 original size:9 final size:9
Alignment explanation
Indices: 22434039--22434079 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
22434029 TTGCAAAAAG
*
22434039 GACGATGAT
1 GACGATGAC
22434048 GACGATGAC
1 GACGATGAC
*
22434057 GAAGATGAC
1 GACGATGAC
*
22434066 GACGGTGAC
1 GACGATGAC
22434075 GACGA
1 GACGA
22434080 GGTTTCTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.34, C:0.17, G:0.37, T:0.12
Consensus pattern (9 bp):
GACGATGAC
Found at i:22435211 original size:9 final size:9
Alignment explanation
Indices: 22435197--22435229 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
22435187 AACTTACAAA
22435197 AATTAATAC
1 AATTAATAC
22435206 AATT-A-AC
1 AATTAATAC
22435213 AATTAATAC
1 AATTAATAC
22435222 AATTAATA
1 AATTAATA
22435230 ATTTGATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.27
8 2 0.09
9 14 0.64
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTAATAC
Found at i:22435218 original size:16 final size:16
Alignment explanation
Indices: 22435197--22435232 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
22435187 AACTTACAAA
22435197 AATTAATACAATTAAC
1 AATTAATACAATTAAC
*
22435213 AATTAATACAATTAAT
1 AATTAATACAATTAAC
22435229 AATT
1 AATT
22435233 TGATAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTAATACAATTAAC
Found at i:22435323 original size:16 final size:16
Alignment explanation
Indices: 22435302--22435343 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
22435292 AATAATTTGA
*
22435302 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
22435318 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
22435334 TAGTTTTAAT
1 TAATTTTAAT
22435344 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:22438151 original size:17 final size:17
Alignment explanation
Indices: 22438124--22438157 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22438114 CCATTTTTAA
22438124 TTTTAATTTTAATATATT
1 TTTTAATTTTAAT-TATT
22438142 TTTTAA-TTTAATTATT
1 TTTTAATTTTAATTATT
22438158 ACGTTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTAATTTTAATTATT
Found at i:22443870 original size:4 final size:4
Alignment explanation
Indices: 22443861--22443905 Score: 65
Period size: 4 Copynumber: 11.2 Consensus size: 4
22443851 TTGCTTGTAC
*
22443861 ATAA ATAA ATAA ATAA ATAA ATAA ATAAA ATGA A-AA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
22443906 GGCTCAAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 2 0.05
4 31 0.84
5 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:22445539 original size:12 final size:12
Alignment explanation
Indices: 22445522--22445551 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22445512 ACAAAGTCCA
22445522 AATTTAATTTCC
1 AATTTAATTTCC
*
22445534 AATTTAATTTCT
1 AATTTAATTTCC
22445546 AATTTA
1 AATTTA
22445552 TTTATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:22451308 original size:18 final size:18
Alignment explanation
Indices: 22451267--22451305 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22451257 TACATAGATT
*
22451267 TTTATTTTTATAATTTTA
1 TTTATTTTCATAATTTTA
*
22451285 TTTATTTTCATTATTGTTA
1 TTTATTTTCATAATT-TTA
22451304 TT
1 TT
22451306 ATTGTCTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTATTTTCATAATTTTA
Found at i:22452009 original size:67 final size:67
Alignment explanation
Indices: 22451901--22452036 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
22451891 AATAGAAAGA
22451901 GGTTTTGATTCACGTTCAGTTACTAAATAGAGAGCTTGTAATGGAAAATAGGTTTCTTGATAAAG
1 GGTTTTGATTCACGTTCAGTTACTAAATAGAGAGCTTGTAATGGAAAATAGGTTTCTTGATAAAG
22451966 TG
66 TG
22451968 GGTTTTGATTCACGTTCAGTTACTAAATAGAGAGCTTGTAATGGAAAATAGGTTTCTTGATAAAG
1 GGTTTTGATTCACGTTCAGTTACTAAATAGAGAGCTTGTAATGGAAAATAGGTTTCTTGATAAAG
22452033 TG
66 TG
22452035 GG
1 GG
22452037 AGACAATACG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (67 bp):
GGTTTTGATTCACGTTCAGTTACTAAATAGAGAGCTTGTAATGGAAAATAGGTTTCTTGATAAAG
TG
Found at i:22454371 original size:41 final size:40
Alignment explanation
Indices: 22454306--22454393 Score: 113
Period size: 41 Copynumber: 2.2 Consensus size: 40
22454296 AGGGACTAAA
*
22454306 GTGAAAACCCGCAAAAGGCACTTTGAATCTTAAAAAAAAAG
1 GTGAAAACCCGCAAAAGGCACTTTGAATC-CAAAAAAAAAG
* ** *
22454347 GTGAAAACCCGCAAAATGTGCTTTGAGTCCAAAAAAAAAG
1 GTGAAAACCCGCAAAAGGCACTTTGAATCCAAAAAAAAAG
*
22454387 ATGAAAA
1 GTGAAAA
22454394 ATGAAAAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 16 0.39
41 25 0.61
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.17
Consensus pattern (40 bp):
GTGAAAACCCGCAAAAGGCACTTTGAATCCAAAAAAAAAG
Done.