Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 69 of 186
Found at i:21989736 original size:4 final size:4
Alignment explanation
Indices: 21989727--21989760 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
21989717 AGATTATTAC
*
21989727 TTGA TTGA TTGA TTGA TTGA TTGA CTGA TTGA TT
1 TTGA TTGA TTGA TTGA TTGA TTGA TTGA TTGA TT
21989761 ATGTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (4 bp):
TTGA
Found at i:21990052 original size:33 final size:32
Alignment explanation
Indices: 21989961--21990052 Score: 116
Period size: 32 Copynumber: 2.9 Consensus size: 32
21989951 CCCTTATATG
* *
21989961 TGTTTGTA-AACCATGATAAGTATATAACCCT
1 TGTTTGAAGAACCTTGATAAGTATATAACCCT
* *
21989992 TGTTTGAGGAA-CTCTAATAAGTATATAACCCT
1 TGTTTGAAGAACCT-TGATAAGTATATAACCCT
21990024 TGTTTGAAGAACCTTGATAAAGTATATAA
1 TGTTTGAAGAACCTTGAT-AAGTATATAA
21990053 ACCCATGTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
31 7 0.14
32 32 0.63
33 12 0.24
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTTTGAAGAACCTTGATAAGTATATAACCCT
Found at i:21990783 original size:17 final size:17
Alignment explanation
Indices: 21990763--21990811 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
21990753 TTAACTATCA
21990763 AATTAAATTAATTCAAT
1 AATTAAATTAATTCAAT
*
21990780 AATTAATTTAATTCAAT
1 AATTAAATTAATTCAAT
21990797 AATT-AATTGAATTCA
1 AATTAAATT-AATTCA
21990812 GTGACAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 3 0.10
17 26 0.90
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (17 bp):
AATTAAATTAATTCAAT
Found at i:21995916 original size:17 final size:16
Alignment explanation
Indices: 21995881--21995922 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
21995871 TAGTATTGTT
21995881 ATTTTT-TAA-TAAAA
1 ATTTTTATAACTAAAA
21995895 A-TTTTATAACTACAAA
1 ATTTTTATAACTA-AAA
21995911 ATTTTTATAACT
1 ATTTTTATAACT
21995923 TTCTATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.17
14 4 0.17
15 2 0.08
16 4 0.17
17 10 0.42
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTTTATAACTAAAA
Found at i:21997809 original size:9 final size:9
Alignment explanation
Indices: 21997795--21997825 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
21997785 TTTTAAAGTG
21997795 TAGTCCAAT
1 TAGTCCAAT
21997804 TAGTCCAAT
1 TAGTCCAAT
21997813 TAGTCCAAT
1 TAGTCCAAT
21997822 TAGT
1 TAGT
21997826 TTACTCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (9 bp):
TAGTCCAAT
Found at i:21998271 original size:7 final size:7
Alignment explanation
Indices: 21998259--21998290 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
21998249 AAAACTATAA
21998259 AAATATT
1 AAATATT
21998266 AAATATT
1 AAATATT
21998273 AAATATT
1 AAATATT
21998280 AAATATT
1 AAATATT
21998287 AAAT
1 AAAT
21998291 TAAAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATATT
Found at i:22005627 original size:25 final size:26
Alignment explanation
Indices: 22005599--22005647 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
22005589 ATCAATTTAT
22005599 TTTTTAAAATTTTCTTT-ATTTTTCC
1 TTTTTAAAATTTTCTTTAATTTTTCC
* *
22005624 TTTTTAGAATTTTTTTTAATTTTT
1 TTTTTAAAATTTTCTTTAATTTTT
22005648 TTCCAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTTAAAATTTTCTTTAATTTTTCC
Found at i:22007461 original size:15 final size:16
Alignment explanation
Indices: 22007431--22007463 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22007421 AAGACTATAA
22007431 AAAAATATGAAAAGAT
1 AAAAATATGAAAAGAT
*
22007447 AAAAATAT-AATAGAT
1 AAAAATATGAAAAGAT
22007462 AA
1 AA
22007464 TACAGATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAAATATGAAAAGAT
Found at i:22008101 original size:23 final size:23
Alignment explanation
Indices: 22008071--22008117 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22008061 AAAATGGATT
22008071 TGGCTTTCCTTTTCCTTGTTTAA
1 TGGCTTTCCTTTTCCTTGTTTAA
22008094 TGGCTTTCCTTTTCCTTGTTTAA
1 TGGCTTTCCTTTTCCTTGTTTAA
22008117 T
1 T
22008118 AAAGAATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.09, C:0.21, G:0.13, T:0.57
Consensus pattern (23 bp):
TGGCTTTCCTTTTCCTTGTTTAA
Found at i:22012117 original size:23 final size:22
Alignment explanation
Indices: 22012065--22012117 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
22012055 TCCACGTCTT
*
22012065 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
22012087 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
22012110 TTTCTTTT
1 TTTCTTTT
22012118 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:22021290 original size:40 final size:40
Alignment explanation
Indices: 22021246--22021509 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
22021236 GCTCCTCGTT
* *
22021246 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
22021286 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
22021326 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
22021366 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
22021406 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
22021445 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
22021486 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22021510 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:22032408 original size:40 final size:40
Alignment explanation
Indices: 22032364--22032625 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
22032354 GCTCCTCGTT
* *
22032364 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
22032404 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22032444 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22032483 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22032522 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
22032561 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
22032602 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22032626 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:22047254 original size:28 final size:28
Alignment explanation
Indices: 22047143--22047255 Score: 120
Period size: 28 Copynumber: 4.0 Consensus size: 28
22047133 ATACCTATAT
* * *
22047143 ATATGGCCCACTAAGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
22047171 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* *
22047199 ATGTGGCCCATTAGGCCCCAAATCACATTC
1 ATATGGCCCACTAGG-CCC-AATCACATTC
22047229 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
22047256 TATAGTCATG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
28 49 0.68
29 10 0.14
30 13 0.18
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:22051323 original size:27 final size:28
Alignment explanation
Indices: 22051242--22051336 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
22051232 GAGATTGGCG
* * * *
22051242 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
22051271 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
22051299 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
22051326 CTGAGTGTGCG
1 CTAAGTGTGCG
22051337 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:22051347 original size:27 final size:27
Alignment explanation
Indices: 22051267--22051349 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
22051257 TAAATTGTAC
* *
22051267 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
22051295 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
22051322 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
22051349 A
1 A
22051350 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:22053899 original size:39 final size:39
Alignment explanation
Indices: 22053752--22053902 Score: 230
Period size: 39 Copynumber: 3.9 Consensus size: 39
22053742 TTCTAGCACG
* * * *
22053752 TAGCCTGCGGACTTCAAGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGACCTCATGTCCGGATATATTCCCAGCATA
* *
22053791 TAGCCTGTGGACCTCATGTCCGGATATATTTCCAGCATA
1 TAGCCTGCGGACCTCATGTCCGGATATATTCCCAGCATA
**
22053830 TAGCCTGCGGACCTCATGTCCGGGCATATTCCCAGCATA
1 TAGCCTGCGGACCTCATGTCCGGATATATTCCCAGCATA
22053869 TAGCCTGCGGACCTCATGTCCGGATATATTCCCA
1 TAGCCTGCGGACCTCATGTCCGGATATATTCCCA
22053903 ATATCATGCA
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 102 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (39 bp):
TAGCCTGCGGACCTCATGTCCGGATATATTCCCAGCATA
Found at i:22062909 original size:39 final size:39
Alignment explanation
Indices: 22062866--22062975 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 39
22062856 TTCAAGCACG
* * * *
22062866 TAGCCTGTGGACTTCAAGTTCGGATATATTTCTAGCATA
1 TAGCCTGCGGACCTCATGTTCGGATATATTCCTAGCATA
* *
22062905 TAGCCTGCGGACCTCATGTCTGGGCT-TATTCCTAGCATA
1 TAGCCTGCGGACCTCATGT-TCGGATATATTCCTAGCATA
* *
22062944 TAGCTTGCGGACCTCATGTCCGGATATATTCC
1 TAGCCTGCGGACCTCATGTTCGGATATATTCC
22062976 CAATATCATG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 3 0.05
39 52 0.88
40 4 0.07
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.33
Consensus pattern (39 bp):
TAGCCTGCGGACCTCATGTTCGGATATATTCCTAGCATA
Found at i:22075998 original size:85 final size:85
Alignment explanation
Indices: 22075855--22076048 Score: 329
Period size: 85 Copynumber: 2.3 Consensus size: 85
22075845 CGGGCAGGCC
*
22075855 ACACGGGCGTGTGCTTTGGCCGTGTGTCCCTAAATGAACGATGATGTCACAAACAGAATGTTGAG
1 ACACGGGCGTGTGCTTTGGCCGTGTGTCCCTAAATGAACGATGATGTCACAAACAGAATGTCGAG
22075920 GTTTTTGAACACGGGCGACA
66 GTTTTTGAACACGGGCGACA
* * *
22075940 ACACGGGCGTGTGCTTTGGCCGTGTGTCCCTAAATGAATGATGATGTCATAAATAGAATGTCGAG
1 ACACGGGCGTGTGCTTTGGCCGTGTGTCCCTAAATGAACGATGATGTCACAAACAGAATGTCGAG
22076005 GTTTTTGAACACGGGCGACA
66 GTTTTTGAACACGGGCGACA
*
22076025 ACACGGGCGTGT-C-TAGGCCGTGTG
1 ACACGGGCGTGTGCTTTGGCCGTGTG
22076049 AGGGACACGG
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
83 10 0.10
84 1 0.01
85 93 0.89
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (85 bp):
ACACGGGCGTGTGCTTTGGCCGTGTGTCCCTAAATGAACGATGATGTCACAAACAGAATGTCGAG
GTTTTTGAACACGGGCGACA
Found at i:22079267 original size:40 final size:39
Alignment explanation
Indices: 22079223--22079447 Score: 290
Period size: 40 Copynumber: 5.7 Consensus size: 39
22079213 GCCACTAGCT
*
22079223 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
22079263 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
22079302 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
22079342 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
22079382 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
22079422 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
22079448 TATCATCCGA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 40 0.24
40 127 0.76
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:22084702 original size:47 final size:47
Alignment explanation
Indices: 22084651--22084802 Score: 277
Period size: 47 Copynumber: 3.2 Consensus size: 47
22084641 TTTAGGATTT
22084651 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
*
22084698 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
* *
22084745 AATGTGATGAATGTGAACATGCATATGTATGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
22084792 AATGTGATGAA
1 AATGTGATGAA
22084803 CGTGGAAGTG
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 101 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
Found at i:22084705 original size:22 final size:22
Alignment explanation
Indices: 22084678--22084752 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
22084668 CATGCATATG
22084678 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
22084700 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
22084725 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
22084747 TGTGAT
1 TGTGAT
22084753 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:22084799 original size:22 final size:22
Alignment explanation
Indices: 22084724--22084799 Score: 52
Period size: 22 Copynumber: 3.3 Consensus size: 22
22084714 ACATGCATAT
*
22084724 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
22084746 ATGTGATGAATGTG-A-ACAT-G-CA
1 ATGTGAT-AA-G-GCAGA-ATGGCCA
22084768 TATGTATGATAAGGCAGAATGGCCA
1 -ATG--TGATAAGGCAGAATGGCCA
22084793 ATGTGAT
1 ATGTGAT
22084800 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 22
0.65 0.02 0.34
Matches are distributed among these distances:
22 14 0.33
23 11 0.26
24 10 0.24
25 7 0.17
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:22084835 original size:47 final size:47
Alignment explanation
Indices: 22084651--22084845 Score: 275
Period size: 47 Copynumber: 4.1 Consensus size: 47
22084641 TTTAGGATTT
*
22084651 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
22084698 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
22084745 AATGTGATGAATGTGAACATGCATATGTATGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * * * *
22084792 AATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGACT
1 AATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCC
22084839 AATGTGA
1 AATGTGA
22084846 AATGTGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
47 130 0.98
48 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:22084874 original size:46 final size:46
Alignment explanation
Indices: 22084816--22085044 Score: 359
Period size: 46 Copynumber: 5.0 Consensus size: 46
22084806 GGAAGTGTAT
* * *
22084816 ATATGTGGTAAAGCCGAATGACTAATGTGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
22084862 ATATGAGGTAAAGCTGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
22084908 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
22084954 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
22085000 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
22085045 TGTATATATA
Statistics
Matches: 171, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 171 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:22091368 original size:28 final size:29
Alignment explanation
Indices: 22091328--22091383 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
22091318 CACGGGCAAC
22091328 GACACGTGGGTGT-CT-AGGCCGTGTGAAG
1 GACACGTGGGTGTGCTCA-GCCGTGTGAAG
22091356 GACACG-GGCGTGTGCTCAGCCGTGTGAA
1 GACACGTGG-GTGTGCTCAGCCGTGTGAA
22091384 AACCCCTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 2 0.08
28 10 0.40
29 12 0.48
30 1 0.04
ACGTcount: A:0.18, C:0.21, G:0.41, T:0.20
Consensus pattern (29 bp):
GACACGTGGGTGTGCTCAGCCGTGTGAAG
Found at i:22094197 original size:49 final size:49
Alignment explanation
Indices: 22094130--22094259 Score: 156
Period size: 49 Copynumber: 2.7 Consensus size: 49
22094120 GTACATTAAA
* * *
22094130 GTCGATGCCGTGTCCCAGACAAGTCTTATACTGACTTTCATATATCAAGGT
1 GTCGATGCCATGTCCCAGACAGGTCTTATACTGACTCTCATATAT--AGGT
* * * * *
22094181 -T-GATGCCATGTGCCAGACAGGTCTTACACTGGCTCTCATCTATTGGT
1 GTCGATGCCATGTCCCAGACAGGTCTTATACTGACTCTCATATATAGGT
22094228 GTCGATGCCATGTCCCAGACAGGTCTTATACT
1 GTCGATGCCATGTCCCAGACAGGTCTTATACT
22094260 AACACACAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
47 3 0.04
48 1 0.01
49 62 0.93
50 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTATACTGACTCTCATATATAGGT
Found at i:22099185 original size:23 final size:22
Alignment explanation
Indices: 22099109--22099196 Score: 83
Period size: 21 Copynumber: 4.1 Consensus size: 22
22099099 TACCTGATCA
* *
22099109 GAATATGATACATAA-GTGCCT
1 GAATACGACACATAAGGTGCCT
**
22099130 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACATAAGGTGCCT
* *
22099151 G-CTGCGACACATAAGGTGCCT
1 GAATACGACACATAAGGTGCCT
*
22099172 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACATAAGGTGCCT
22099195 GA
1 GA
22099197 TCAGTAAAGC
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
20 7 0.13
21 26 0.50
22 1 0.02
23 18 0.35
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (22 bp):
GAATACGACACATAAGGTGCCT
Found at i:22099413 original size:23 final size:24
Alignment explanation
Indices: 22099387--22099481 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
22099377 AAATGTCCAA
22099387 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
22099410 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
22099438 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
22099467 CCAAAACACACCAGA
1 CCAAAACACACCAGA
22099482 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:22099483 original size:29 final size:28
Alignment explanation
Indices: 22099401--22099484 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
22099391 AACACACCAG
* *
22099401 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
22099429 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
22099457 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
22099485 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:22099782 original size:37 final size:37
Alignment explanation
Indices: 22099726--22099806 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
22099716 AACATATATC
* *
22099726 CAAAATTCTATTTCCACATCAATCACATATATCCATA
1 CAAATTTCTATTTCAACATCAATCACATATATCCATA
*
22099763 CAAATTTCTATTTCAACATCAATCACATATATCTATA
1 CAAATTTCTATTTCAACATCAATCACATATATCCATA
22099800 CAAATTT
1 CAAATTT
22099807 AATTCAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (37 bp):
CAAATTTCTATTTCAACATCAATCACATATATCCATA
Found at i:22106603 original size:20 final size:20
Alignment explanation
Indices: 22106561--22106605 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
22106551 AGCACATGTA
* **
22106561 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAAAAT
*
22106581 TTCATCAAATTTTACAAAAT
1 TTCATAAAATTTTACAAAAT
22106601 TTCAT
1 TTCAT
22106606 TTTAGTCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTACAAAAT
Found at i:22113701 original size:12 final size:12
Alignment explanation
Indices: 22113684--22113710 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22113674 ACACACGCCC
22113684 GTGTGCTAGGCT
1 GTGTGCTAGGCT
22113696 GTGTGCTAGGCT
1 GTGTGCTAGGCT
22113708 GTG
1 GTG
22113711 CCCAACCTGT
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:0.07, C:0.15, G:0.44, T:0.33
Consensus pattern (12 bp):
GTGTGCTAGGCT
Found at i:22114849 original size:40 final size:40
Alignment explanation
Indices: 22114748--22114896 Score: 149
Period size: 40 Copynumber: 3.7 Consensus size: 40
22114738 TCAAATTCTT
* * * *
22114748 GCACACTAAGTGCCAATACATAGCTGAAACTATTTC-AATCTCA
1 GCACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAA---GA
* *
22114791 -CACACTAAGTGGCATACATAGCCGAAGCTATCTCGAAGC
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAAGA
* * * *
22114830 GCACACTAAGTGCCCTACATAGCCAAAGCTATCTTGAATA
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAAGA
*
22114870 GCACACTAAGTGCCGTACATAGCCGAA
1 GCACACTAAGTGCCATACATAGCCGAA
22114897 TTGTCGTCAA
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
40 58 0.64
41 18 0.20
42 14 0.16
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.21
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAAGA
Found at i:22118903 original size:96 final size:95
Alignment explanation
Indices: 22118751--22119096 Score: 383
Period size: 96 Copynumber: 3.6 Consensus size: 95
22118741 ATATTCTAAG
* * * ** * *
22118751 CATGGTATTACATTGGCTCACATGTTGAGGCCGATGCCATGTCCTAGACATCGTCTTACACTAGC
1 CATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGGTCTTACACTAGC
*
22118816 TCTCGTCTCAATGCCGATGCCATGTCCCAGA
66 TCTCAT-TCAATGCCGATGCCATGTCCCAGA
*
22118847 CATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCTAGACATGGTCTTACACTAGC
1 CATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGGTCTTACACTAGC
* * * *
22118912 ACACATATCAATGTCGATGCCATGTCCGAGA
66 TCTCAT-TCAATGCCGATGCCATGTCCCAGA
* * *
22118943 CATGGTCTTACATTGGCTCTCATTACAT-T-GCCGATGCCATGTTCC-AAACATGGTCTTACAAT
1 CATGGTCTTACACTGGCTCTCA-TA-ATGTGGCCGATGCCATG-TCCTAGACATGGTCTTACACT
* * * * * * *
22119005 GGGTCTCATTACATTGCTGATGCTATGTTCCAAA
63 AGCTCTCATT-CAATGCCGATGCCATGTCCCAGA
* * *
22119039 CATGGTCTCACACTGGTTCTCATATTGTGGCCGATGCCATGTCCTAGACATGGTCTTA
1 CATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGGTCTTA
22119097 GATTAGCACA
Statistics
Matches: 209, Mismatches: 34, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
94 1 0.00
95 7 0.03
96 193 0.92
97 6 0.03
98 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (95 bp):
CATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGGTCTTACACTAGC
TCTCATTCAATGCCGATGCCATGTCCCAGA
Found at i:22118995 original size:144 final size:144
Alignment explanation
Indices: 22118779--22119096 Score: 376
Period size: 144 Copynumber: 2.2 Consensus size: 144
22118769 CACATGTTGA
* *
22118779 GGCCGATGCCATGTCCTAGACATCGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCC
1 GGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCC
* * * *
22118844 AGACATGGTCTTACACTGGCTCTCA-TA-ATGTGGCTGATGCCATG-TCCTAGACATGGTCTTAC
66 AAACATGGTCTTACAATGGCTCTCATTACAT-T-GCTGATGCCATGTTCC-AAACATGGTCTCAC
22118906 ACTAGCACACATATCAAT
128 ACTAGCACACATAT-AAT
* * * * * *
22118924 -GTCGATGCCATGTCCGAGACATGGTCTTACATTGGCTCTCAT-TACATTGCCGATGCCATGTTC
1 GGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATCT-CAATGCCGATGCCATGTCC
* *
22118987 CAAACATGGTCTTACAATGGGTCTCATTACATTGCTGATGCTATGTTCCAAACATGGTCTCACAC
65 CAAACATGGTCTTACAATGGCTCTCATTACATTGCTGATGCCATGTTCCAAACATGGTCTCACAC
* ** * **
22119052 TGGTTCTCATATTGT
130 TAGCACACATATAAT
22119067 GGCCGATGCCATGTCCTAGACATGGTCTTA
1 GGCCGATGCCATGTCCTAGACATGGTCTTA
22119097 GATTAGCACA
Statistics
Matches: 146, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
143 2 0.01
144 136 0.93
145 6 0.04
146 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (144 bp):
GGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCC
AAACATGGTCTTACAATGGCTCTCATTACATTGCTGATGCCATGTTCCAAACATGGTCTCACACT
AGCACACATATAAT
Found at i:22119111 original size:48 final size:47
Alignment explanation
Indices: 22118734--22119096 Score: 277
Period size: 48 Copynumber: 7.6 Consensus size: 47
22118724 GGTGAATTGT
* * * * * * *
22118734 CGATGCCATATTCTA-AGCATGGTATTACATTGGCTCACATGTTGAGGC
1 CGATGCCATGTCCTAGA-CATGGTCTTACACTGGCTCTCATATTG-TGC
* * * * **
22118782 CGATGCCATGTCCTAGACATCGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAT-TGTGC
* *
22118830 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATTGT-GC
* * * * ** *
22118878 TGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAATGT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAT-TGTGC
* * *
22118926 CGATGCCATGTCCGAGACATGGTCTTACATTGGCTCTCATTACAT-TGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCA-TA-TTGTGC
* * * *
22118974 CGATGCCATGTTCC-AAACATGGTCTTACAATGGGTCTCATTACAT-TGC
1 CGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCA-TA-TTGTGC
* * * * *
22119022 TGATGCTATGTTCC-AAACATGGTCTCACACTGGTTCTCATATTGTGGC
1 CGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATATTGT-GC
22119070 CGATGCCATGTCCTAGACATGGTCTTA
1 CGATGCCATGTCCTAGACATGGTCTTA
22119097 GATTAGCACA
Statistics
Matches: 254, Mismatches: 51, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
46 1 0.00
47 7 0.03
48 239 0.94
49 7 0.03
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (47 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATTGTGC
Found at i:22122826 original size:11 final size:9
Alignment explanation
Indices: 22122801--22122836 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
22122791 AACTAAAATC
22122801 TTGAGAGAA
1 TTGAGAGAA
22122810 TTGAGAGAA
1 TTGAGAGAA
* *
22122819 TTAAGAGAC
1 TTGAGAGAA
22122828 TTGAGAGAA
1 TTGAGAGAA
22122837 CTGATAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.03, G:0.31, T:0.22
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:22123089 original size:15 final size:16
Alignment explanation
Indices: 22123059--22123089 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22123049 CTTTTTGGCT
22123059 AATTTAGTAGTTTTTC
1 AATTTAGTAGTTTTTC
22123075 AATTTAGTA-TTTTTC
1 AATTTAGTAGTTTTTC
22123090 TTTCTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (16 bp):
AATTTAGTAGTTTTTC
Found at i:22123697 original size:15 final size:16
Alignment explanation
Indices: 22123652--22123696 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
22123642 TTAACAACAA
* *
22123652 TTTTCAAATTATATAAT
1 TTTTCAAATT-TTTATT
22123669 TTTTCAAATTTTTATT
1 TTTTCAAATTTTTATT
*
22123685 TTTTGAAATTTT
1 TTTTCAAATTTT
22123697 AGAACTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTCAAATTTTTATT
Found at i:22123809 original size:16 final size:17
Alignment explanation
Indices: 22123773--22123813 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
22123763 CGATAGTTTA
22123773 TTTAATTTTATAAAATT
1 TTTAATTTTATAAAATT
* *
22123790 TTTAATTTT-TTAACTT
1 TTTAATTTTATAAAATT
22123806 TTTAATTT
1 TTTAATTT
22123814 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTAATTTTATAAAATT
Found at i:22125349 original size:14 final size:13
Alignment explanation
Indices: 22125332--22125410 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 13
22125322 ATCCATTATT
22125332 TTTTATATCATATA
1 TTTTATAT-ATATA
*
22125346 TTTTATCTATAAATTA
1 TTTTA--TATATA-TA
*
22125362 TATTATATTATATA
1 TTTTATA-TATATA
*
22125376 TTTTATTTTATATA
1 TTTTA-TATATATA
*
22125390 TTTCTTTATATATA
1 TTT-TATATATATA
22125404 TTTTATA
1 TTTTATA
22125411 AAATTGTATT
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
13 3 0.06
14 32 0.63
15 7 0.14
16 9 0.18
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTATATATATA
Found at i:22125779 original size:18 final size:18
Alignment explanation
Indices: 22125753--22125793 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
22125743 TACCATATTA
*
22125753 TATTTCATACTATATTTT
1 TATTACATACTATATTTT
22125771 TATTACATACTATATTTT
1 TATTACATACTATATTTT
22125789 TATTA
1 TATTA
22125794 TTCAATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTACATACTATATTTT
Found at i:22125866 original size:22 final size:22
Alignment explanation
Indices: 22125828--22125877 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
22125818 CTTTCTCATA
* *
22125828 TATTTTTTTATTATATATTATT
1 TATTTTTTTATTATATACTAAT
*
22125850 TATTTTGTTT-TTTTATACTAAT
1 TATTTT-TTTATTATATACTAAT
22125872 TATTTT
1 TATTTT
22125878 ACCATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (22 bp):
TATTTTTTTATTATATACTAAT
Found at i:22125929 original size:21 final size:22
Alignment explanation
Indices: 22125903--22125963 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
22125893 GCAAAATACT
22125903 TATTATATTT-TTATTATTTTA
1 TATTATATTTCTTATTATTTTA
22125924 TATTATATTTCCTTA-TATTTTA
1 TATTATATTT-CTTATTATTTTA
* *
22125946 T-TCATATTATATTATTAT
1 TATTATATT-TCTTATTAT
22125964 ACATAACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.56
22 12 0.35
23 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATATTTCTTATTATTTTA
Found at i:22139473 original size:26 final size:26
Alignment explanation
Indices: 22139443--22139505 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
22139433 TGGCCCTTCA
*
22139443 GAGCTTCCCGATTAAAGGCTCTCTGT
1 GAGCTTCCCGATTAAAGGCTCTCCGT
* **
22139469 GAGCTTCCTGATTATTGGCTCTCCGT
1 GAGCTTCCCGATTAAAGGCTCTCCGT
*
22139495 -ATCTTCCCGAT
1 GAGCTTCCCGAT
22139506 GTAGCTTACT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
25 9 0.29
26 22 0.71
ACGTcount: A:0.16, C:0.29, G:0.21, T:0.35
Consensus pattern (26 bp):
GAGCTTCCCGATTAAAGGCTCTCCGT
Found at i:22142065 original size:46 final size:45
Alignment explanation
Indices: 22142009--22142183 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
22141999 TGGTTGAACA
**
22142009 TCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * * *
22142055 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
*
22142100 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
*
22142148 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
22142184 GGCGGGTTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:22142166 original size:93 final size:93
Alignment explanation
Indices: 22142007--22142176 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
22141997 GATGGTTGAA
** * *
22142007 CATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCGAACTCGTTGAGTT
22142072 GAGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* *
22142100 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCGAACTCGTTGAGTT
22142165 GAGTCCGAGTTC
66 GAGTCCGAGTTC
22142177 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:22144634 original size:40 final size:40
Alignment explanation
Indices: 22144557--22144777 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
22144547 ACCCAAGTAT
* *
22144557 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
*
22144596 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
22144636 CTTCGGGACTTAGCTCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
22144676 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* ** *
22144716 CTTCGGATCTTAGTTCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* **
22144756 CTTCAGGAATTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
22144778 CATTCGAATA
Statistics
Matches: 155, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.08
40 140 0.90
41 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:22147591 original size:40 final size:39
Alignment explanation
Indices: 22147547--22147850 Score: 385
Period size: 40 Copynumber: 7.7 Consensus size: 39
22147537 GCCACTAGCT
* *
22147547 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
22147587 CAAATGCGTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
22147626 CAAATGCCTTCGGGACTTAGCTCGGATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
22147666 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
22147705 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
22147745 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
22147785 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
22147825 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
22147851 TATCATCCAA
Statistics
Matches: 236, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
39 76 0.32
40 160 0.68
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:22147656 original size:79 final size:79
Alignment explanation
Indices: 22147547--22147850 Score: 423
Period size: 79 Copynumber: 3.8 Consensus size: 79
22147537 GCCACTAGCT
* * *
22147547 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTTGCACAAATGCGTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
22147612 TATAATAACTCGCA
66 TATAATAACTCGCA
*
22147626 CAAATGCCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
*
22147691 TATAATAACTTGCA
66 TATAATAACTCGCA
* * * *
22147705 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
* *
22147770 ATATAGTAGCTCGCA
66 -TATAATAACTCGCA
* ** * *
22147785 CGAATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTGCACAAATGCCT-TCGGGACTTAGCCC
22147848 GGT
64 GGT
22147851 TATCATCCAA
Statistics
Matches: 201, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
79 138 0.69
80 63 0.31
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
TATAATAACTCGCA
Found at i:22147743 original size:119 final size:117
Alignment explanation
Indices: 22147524--22147850 Score: 440
Period size: 119 Copynumber: 2.8 Consensus size: 117
22147514 CCTTCGGAGT
** * *
22147524 TTAGCCGGATATAGCCACTAGCTCAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTTGCACA
1 TTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTTGCACA
* *
22147589 AATGCGTTCGGGACTTAGCCCGGTATAATAACTCGCACAAATGCCTTCGGGAC
65 AATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCACAAACGCCTTCGGGAC
* *
22147642 TTAGCTCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGTATAATAACTTGCACA
1 TTAGC-CGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTTGCACA
*
22147707 AATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGAC
65 AATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCACAAACGCCTTCGGGAC
* * * * ** * *
22147761 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCTC
1 TTAG-CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTTGCAC
22147826 AAATG-CTCTCGGGACTTAGCCCGGT
64 AAATGCCT-TCGGGACTTAGCCCGGT
22147851 TATCATCCAA
Statistics
Matches: 186, Mismatches: 18, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
118 42 0.23
119 114 0.61
120 30 0.16
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (117 bp):
TTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTTGCACAA
ATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCACAAACGCCTTCGGGAC
Found at i:22159282 original size:46 final size:46
Alignment explanation
Indices: 22159208--22159383 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
22159198 TGTTTGGGCA
* ** *
22159208 TCCGAACTCGTTCAGTTGAGTCTAAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
*** * * * *
22159254 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGA-ACG
* * *
22159301 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * **
22159347 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22159384 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 68 0.67
47 34 0.33
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:22159363 original size:93 final size:93
Alignment explanation
Indices: 22159204--22159374 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
22159194 AGGATGTTTG
* * *
22159204 GGCATCCGAACTCGTTCAGTTGAGTCTAAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTCAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
22159269 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * * *
22159297 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTCAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
22159362 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
22159375 TGCTTATGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTCAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:22162334 original size:15 final size:15
Alignment explanation
Indices: 22162314--22162391 Score: 88
Period size: 15 Copynumber: 5.2 Consensus size: 15
22162304 CATAGTATCG
*
22162314 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
22162329 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
22162344 TAT-TCTGGATTTCTT
1 TATCT-TGGATTTCTT
*
22162359 TAT-TCTGGGTTTCTT
1 TATCT-TGGATTTCTT
*
22162374 TATCTTAGATTTCTT
1 TATCTTGGATTTCTT
22162389 TAT
1 TAT
22162392 TCGGTTTTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
14 1 0.02
15 53 0.96
16 1 0.02
ACGTcount: A:0.13, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:22164838 original size:46 final size:45
Alignment explanation
Indices: 22164788--22164963 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
22164778 TGTTTGAGCA
*
22164788 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
*** * *
22164834 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAATG
* *
22164881 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
22164927 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22164964 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 4 0.04
46 62 0.58
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:22164944 original size:93 final size:93
Alignment explanation
Indices: 22164785--22164956 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
22164775 GGATGTTTGA
* * *
22164785 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCCAACTCGTTGAGT
22164850 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
22164878 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCCAA-CTCGTTGAG
22164942 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
22164957 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:22179429 original size:21 final size:21
Alignment explanation
Indices: 22179390--22179429 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22179380 TTTGCCTAAG
*
22179390 ATATGAATTTAATTGAATTCA
1 ATATGAATTTAATTAAATTCA
22179411 ATATGAATATT-ATTAAATT
1 ATATGAAT-TTAATTAAATT
22179430 GAGTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (21 bp):
ATATGAATTTAATTAAATTCA
Found at i:22180103 original size:24 final size:24
Alignment explanation
Indices: 22180028--22180106 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 24
22180018 GGCTATCTGA
22180028 AGCTTCCTGATTAATGGCTC-TTCAG
1 AGCTTCCTGATT-ATGGCTCTTTC-G
*
22180053 AGCTATCC-G-TTATTGGCTCGTAT-G
1 AGCT-TCCTGATTA-TGGCTC-TTTCG
22180077 AGCTTCCTGATTATGGCTCTTTCG
1 AGCTTCCTGATTATGGCTCTTTCG
22180101 AGCTTC
1 AGCTTC
22180107 TCGTTATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
23 6 0.13
24 27 0.60
25 8 0.18
26 4 0.09
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (24 bp):
AGCTTCCTGATTATGGCTCTTTCG
Found at i:22180130 original size:49 final size:49
Alignment explanation
Indices: 22180027--22180131 Score: 126
Period size: 49 Copynumber: 2.1 Consensus size: 49
22180017 TGGCTATCTG
* * *
22180027 AAGCTTCCTGATTAATGGCTCTTCAGAGCTATCCGTTATTGGCTCGTAT
1 AAGCTTCCTGATTAATGGCTCTTCAGAGCTATCCGTTATTAGCCCGGAT
*
22180076 GAGCTTCCTGATT-ATGGCTCTTTC-GAGCT-TCTCGTTATATAGCCCGGAT
1 AAGCTTCCTGATTAATGGCTC-TTCAGAGCTATC-CGTTAT-TAGCCCGGAT
22180125 AAGCTTC
1 AAGCTTC
22180132 TTGTTACAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
47 2 0.04
48 18 0.38
49 28 0.58
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (49 bp):
AAGCTTCCTGATTAATGGCTCTTCAGAGCTATCCGTTATTAGCCCGGAT
Found at i:22184688 original size:118 final size:118
Alignment explanation
Indices: 22184480--22184832 Score: 699
Period size: 118 Copynumber: 3.0 Consensus size: 118
22184470 ATATTTAGCC
22184480 ATCACTTTTCTCCTAATTATCTTTAAATTGTCCCAAACACTAGACTTGGTACTAATCAGAATATT
1 ATCACTTTTCTCCTAATTATCTTTAAATTGTCCCAAACACTAGACTTGGTACTAATCAGAATATT
22184545 CTTTGAAAATAAGTTTGGGGGAGTTGAAAAGGAGTATCAAATGCTCAAAAAAT
66 CTTTGAAAATAAGTTTGGGGGAGTTGAAAAGGAGTATCAAATGCTCAAAAAAT
22184598 ATCACTTTTCTCCTAATTATCTTTAAATTGTCCCAAACACTAGACTTGGTACTAATCAGAATATT
1 ATCACTTTTCTCCTAATTATCTTTAAATTGTCCCAAACACTAGACTTGGTACTAATCAGAATATT
22184663 CTTTGAAAATAAGTTTGGGGGAGTTGAAAAGGAGTATCAAATGCTCAAAAAAT
66 CTTTGAAAATAAGTTTGGGGGAGTTGAAAAGGAGTATCAAATGCTCAAAAAAT
22184716 ATCACTTTTCTCCTAATTATCTTTAAATTGTCCCAAACACTAGACTTGGTACTAATCAGAATATT
1 ATCACTTTTCTCCTAATTATCTTTAAATTGTCCCAAACACTAGACTTGGTACTAATCAGAATATT
22184781 CTTTGAAAATAAGTTT-GGGGAGTTGAAAAGGAGTATCAAATGCTCAAAAAAT
66 CTTTGAAAATAAGTTTGGGGGAGTTGAAAAGGAGTATCAAATGCTCAAAAAAT
22184833 TGTAGTACAT
Statistics
Matches: 235, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
117 36 0.15
118 199 0.85
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (118 bp):
ATCACTTTTCTCCTAATTATCTTTAAATTGTCCCAAACACTAGACTTGGTACTAATCAGAATATT
CTTTGAAAATAAGTTTGGGGGAGTTGAAAAGGAGTATCAAATGCTCAAAAAAT
Found at i:22184879 original size:15 final size:13
Alignment explanation
Indices: 22184860--22184893 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22184850 AATGCTCATG
*
22184860 AAAAAAAAAGAGA
1 AAAAAAAAAAAGA
*
22184873 AAGAAAAAAAAGA
1 AAAAAAAAAAAGA
22184886 AAAAAAAA
1 AAAAAAAA
22184894 GAGAGCATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:22187463 original size:28 final size:26
Alignment explanation
Indices: 22187408--22187520 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
22187398 AGCATGGCTG
* *
22187408 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
22187434 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
22187462 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
22187489 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
22187517 CCAG
1 CCAG
22187521 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 6 0.08
27 39 0.50
28 33 0.42
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:22187491 original size:55 final size:54
Alignment explanation
Indices: 22187408--22187520 Score: 165
Period size: 55 Copynumber: 2.1 Consensus size: 54
22187398 AGCATGGCTG
*
22187408 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * *
22187462 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
22187517 CCAG
1 CCAG
22187521 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 19 0.36
55 34 0.64
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:22191438 original size:38 final size:38
Alignment explanation
Indices: 22191396--22191528 Score: 94
Period size: 38 Copynumber: 3.4 Consensus size: 38
22191386 AATCATTAAA
22191396 AATAGTAGAGATATGATTAGATGATGAATAAAATATGG
1 AATAGTAGAGATATGATTAGATGATGAATAAAATATGG
* *** * **
22191434 AATAGACAGCAGCCGTGATGT-GA-GTTTG-A-AAAATCATTAAA
1 AATAG-TAG-AGATATGAT-TAGATG-ATGAATAAAAT-A-T-GG
22191475 AATAGTAGAGATATGATTAGATGATGAATAAAATATGG
1 AATAGTAGAGATATGATTAGATGATGAATAAAATATGG
* *
22191513 AATAGAAGAAATATGA
1 AATAGTAGAGATATGA
22191529 GTCTATTTTC
Statistics
Matches: 68, Mismatches: 16, Indels: 22
0.64 0.15 0.21
Matches are distributed among these distances:
38 25 0.37
39 16 0.24
40 16 0.24
41 11 0.16
ACGTcount: A:0.47, C:0.04, G:0.23, T:0.26
Consensus pattern (38 bp):
AATAGTAGAGATATGATTAGATGATGAATAAAATATGG
Found at i:22191489 original size:79 final size:79
Alignment explanation
Indices: 22191358--22191518 Score: 304
Period size: 79 Copynumber: 2.0 Consensus size: 79
22191348 AAATAGATTC
22191358 AGACAGCAACAGTGATGTGAGTTTGAAAAATCATTAAAAATAGTAGAGATATGATTAGATGATGA
1 AGACAGCAACAGTGATGTGAGTTTGAAAAATCATTAAAAATAGTAGAGATATGATTAGATGATGA
22191423 ATAAAATATGGAAT
66 ATAAAATATGGAAT
* *
22191437 AGACAGCAGCCGTGATGTGAGTTTGAAAAATCATTAAAAATAGTAGAGATATGATTAGATGATGA
1 AGACAGCAACAGTGATGTGAGTTTGAAAAATCATTAAAAATAGTAGAGATATGATTAGATGATGA
22191502 ATAAAATATGGAAT
66 ATAAAATATGGAAT
22191516 AGA
1 AGA
22191519 AGAAATATGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.46, C:0.06, G:0.22, T:0.26
Consensus pattern (79 bp):
AGACAGCAACAGTGATGTGAGTTTGAAAAATCATTAAAAATAGTAGAGATATGATTAGATGATGA
ATAAAATATGGAAT
Found at i:22193787 original size:15 final size:15
Alignment explanation
Indices: 22193748--22193827 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
22193738 GTATCTTGGG
*
22193748 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
22193763 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
22193778 TTTCTTTATTCTAGG-
1 TTTCTTTATTCT-GGA
*
22193793 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
22193808 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
22193822 TTTCTT
1 TTTCTT
22193828 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 12 0.22
15 39 0.71
16 4 0.07
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:22193817 original size:30 final size:30
Alignment explanation
Indices: 22193739--22193818 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
22193729 CATAGTATCG
* * *
22193739 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
*
22193769 TAT-TCTGGATTTCTTTATTCTAGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCT-GGATCTCTC
22193799 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
22193819 GGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 39 0.91
31 3 0.07
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:22196289 original size:46 final size:46
Alignment explanation
Indices: 22196222--22196397 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
22196212 TATTTGGGCA
* *
22196222 TCCGAACTCGTTGACTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
22196268 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGAGATGTAT-C-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAATG
* *
22196313 CATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
22196361 -CCCAAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22196398 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
45 6 0.06
46 62 0.60
47 32 0.31
48 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22196377 original size:93 final size:93
Alignment explanation
Indices: 22196218--22196389 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
22196208 AGGATATTTG
* *
22196218 GGCATCCGAACTCGTTGACTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAACTCATTGAG
22196283 TTGAGTCCGAGTTCGTGAGATGTATCTA
66 TTGAGTCCGAGTTCGTGAGATGTATCTA
* * * **
22196311 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG-CCCAAGCTTGTTGA
1 GGCATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAA-CTCATTGA
22196375 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
22196390 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTATCTA
Found at i:22207348 original size:7 final size:7
Alignment explanation
Indices: 22207338--22207367 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
22207328 ATGAATGATT
22207338 AGGGATG
1 AGGGATG
22207345 AGGGATG
1 AGGGATG
22207352 AGGGATG
1 AGGGATG
22207359 AGGGATG
1 AGGGATG
22207366 AG
1 AG
22207368 TAGAAATGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.57, T:0.13
Consensus pattern (7 bp):
AGGGATG
Found at i:22212210 original size:20 final size:20
Alignment explanation
Indices: 22212185--22212222 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22212175 TGTACATATA
22212185 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
22212205 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
22212223 TAGTCCTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:22216179 original size:93 final size:93
Alignment explanation
Indices: 22216020--22216191 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
22216010 ACCCATAAGC
* * *
22216020 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCACAAGAGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGAATCCACAAGAGAACTCGGACTCAACTCAA
22216085 CGAGCTCAGATGCCTAGTTACATCTCAT
66 CGAGCTCAGATGCCTAGTTACATCTCAT
* * *
22216113 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGAATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGAATCCACAAGAGAACTCGGACTCAACTCAA
*
22216178 CGAGTTCAGATGCC
66 CGAGCTCAGATGCC
22216192 AAAATATCTG
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:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGAATCCACAAGAGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAT
Found at i:22216184 original size:46 final size:46
Alignment explanation
Indices: 22216012--22216181 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
22216002 TGTAACCCAC
* * * *
22216012 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGAAT
* * * * * *
22216058 CCACAAGAGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCG--A-AT
* *
22216108 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGAAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGAAT
22216151 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
22216182 TTCAGATGCC
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 2 0.02
46 59 0.60
47 30 0.30
48 1 0.01
49 1 0.01
50 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGAAT
Found at i:22219719 original size:9 final size:9
Alignment explanation
Indices: 22219705--22219741 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
22219695 ATAGTATATG
22219705 CTTCATAAA
1 CTTCATAAA
22219714 CTTCATAAA
1 CTTCATAAA
22219723 CTTCATAAA
1 CTTCATAAA
22219732 CTTCATAAA
1 CTTCATAAA
22219741 C
1 C
22219742 ATCCAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (9 bp):
CTTCATAAA
Found at i:22225351 original size:24 final size:27
Alignment explanation
Indices: 22225279--22225351 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
22225269 AATAGAAGTA
22225279 AAATAAAAAGTACTTTAACAAGATAAAT
1 AAATAAAAAGTACTTTAA-AAGATAAAT
***
22225307 AAATATAAAAGTGAAAATAAAA-AT-AAT
1 AAATA-AAAAGT-ACTTTAAAAGATAAAT
22225334 AAATAAAAAGT-CTTTAAA
1 AAATAAAAAGTACTTTAAA
22225352 CATCGTCATC
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
24 4 0.11
26 6 0.16
27 8 0.22
28 7 0.19
29 8 0.22
30 4 0.11
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (27 bp):
AAATAAAAAGTACTTTAAAAGATAAAT
Found at i:22227877 original size:54 final size:54
Alignment explanation
Indices: 22227804--22227911 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
22227794 ACACTCCTCA
*
22227804 TTCCTGCTATCTATTTTATCAAAATAAGGTTTTAGATGAGTACTATTTACCTTG
1 TTCCTGCTATCAATTTTATCAAAATAAGGTTTTAGATGAGTACTATTTACCTTG
22227858 TTCCTGCTATCAATTTTATCAAAATAAGGTTTTAGATGAGTACTATTTACCTTG
1 TTCCTGCTATCAATTTTATCAAAATAAGGTTTTAGATGAGTACTATTTACCTTG
22227912 AACGTACCGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.44
Consensus pattern (54 bp):
TTCCTGCTATCAATTTTATCAAAATAAGGTTTTAGATGAGTACTATTTACCTTG
Found at i:22234262 original size:28 final size:28
Alignment explanation
Indices: 22234222--22234314 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
22234212 GCAATCAAAT
* *
22234222 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
22234250 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
22234278 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
22234306 ATGACACTT
1 ATGGCACTT
22234315 CATGTGCAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:22234320 original size:28 final size:28
Alignment explanation
Indices: 22234222--22234328 Score: 135
Period size: 28 Copynumber: 3.8 Consensus size: 28
22234212 GCAATCAAAT
* * *
22234222 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
22234250 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
22234278 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
22234306 ATGACACTTCA-TGTGCAAAATAT
1 ATGGCACTT-AGTGTGCGAAATAT
22234329 CGAATGATTC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
28 70 0.99
29 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:22234541 original size:43 final size:44
Alignment explanation
Indices: 22234440--22234552 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
22234430 TTTATAATGG
* * * *
22234440 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAAGCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAGGCTATAAGCCGGTGAATAA
*
22234485 T-ATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-A-AA
1 TGA-TATCGGGCTTCGAGCCTAGCAGGCTATAA-GCCGGTGAATAA
*
22234528 TGATATCGGGCTTCAAGCCTAGCAG
1 TGATATCGGGCTTCGAGCCTAGCAG
22234553 ACCAAATGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
43 23 0.40
44 26 0.45
45 9 0.16
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (44 bp):
TGATATCGGGCTTCGAGCCTAGCAGGCTATAAGCCGGTGAATAA
Found at i:22234649 original size:40 final size:41
Alignment explanation
Indices: 22234501--22234648 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 41
22234491 CGGGCTTCGG
*
22234501 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * * * *
22234544 GCCTAGCAGACCAAATGTCGGTGAATGAGTTCAGGCTTAGA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
22234585 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
22234625 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
22234649 TTTGATAAAA
Statistics
Matches: 80, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
40 31 0.39
41 28 0.35
42 10 0.12
43 11 0.14
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:22237101 original size:68 final size:67
Alignment explanation
Indices: 22237022--22237170 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 67
22237012 CATCATGTGT
* * * *
22237022 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
22237084 ATGTAG
62 ATGTAG
** * *
22237090 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
22237155 AG
66 AG
22237157 ACAAGAGAGCTACG
1 ACAAGAGAGCTACG
22237171 CGATAAACTG
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:22237127 original size:64 final size:64
Alignment explanation
Indices: 22237046--22237229 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
22237036 AGACATTATG
* *
22237046 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGCGATAA
* * * * * *
22237110 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGCGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGCGAT
22237175 AA
63 AA
* * * *
22237177 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
22237230 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGCGATAA
Found at i:22256067 original size:67 final size:67
Alignment explanation
Indices: 22255988--22256120 Score: 257
Period size: 67 Copynumber: 2.0 Consensus size: 67
22255978 AGACATTATG
*
22255988 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGGTAAGGACACCATGTAGACAAGAGAGCTACGGGAT
1 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGGTAAGGACACCATGTAGACAAGAGAGCTACGAGAT
22256053 AT
66 AT
22256055 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGGTAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGGTAAGGACACCATGTAGACAAGAGAGCTACGAGAT
22256120 A
66 A
22256121 AACTGGCTAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (67 bp):
ATGTAGCTAGGTCGCATGCGTGGTTCCAAGGTAAGGACACCATGTAGACAAGAGAGCTACGAGAT
AT
Found at i:22258707 original size:48 final size:48
Alignment explanation
Indices: 22258604--22258928 Score: 381
Period size: 48 Copynumber: 6.9 Consensus size: 48
22258594 GTAACACCGG
* * * *
22258604 GATAAATGTGCCTATGTAAGACCATGTTTGGGACA----ATCGACGAT
1 GATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGAT
*
22258648 GATATATGTGCCTGTGTAAGACAATGTCTGGGACATGGCATCGGCGAT
1 GATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGAT
* **
22258696 GGTATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGAAAT
1 GATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGAT
* **
22258744 GATATATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGGAAAT
1 GATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGAT
* *
22258792 GATATATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGGTGAT
1 GATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGAT
* * * ** *
22258840 GATATGTCTTCCAATGTAAGACCATGTCTGGGACATGGCATGGGCGAT
1 GATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGAT
* ** * * *
22258888 GATATGTG-GATTCATGTATGACCATGTCGGGGACATGGCAT
1 GATATATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
22258929 TTGTACTTTA
Statistics
Matches: 248, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
44 31 0.12
48 217 0.88
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (48 bp):
GATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGAT
Found at i:22261817 original size:19 final size:19
Alignment explanation
Indices: 22261793--22261838 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
22261783 TGGCCTAGGG
22261793 ACACGGGCGTGTCAATGGC
1 ACACGGGCGTGTCAATGGC
22261812 ACACGGGCGTGTCAATGGC
1 ACACGGGCGTGTCAATGGC
22261831 ACACGGGC
1 ACACGGGC
22261839 ATCTCCTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.22, C:0.28, G:0.37, T:0.13
Consensus pattern (19 bp):
ACACGGGCGTGTCAATGGC
Found at i:22263565 original size:39 final size:40
Alignment explanation
Indices: 22263520--22263704 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
22263510 GCTCCTCGTT
* * *
22263520 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
22263560 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
22263599 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
22263639 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
22263680 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
22263705 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:22263620 original size:40 final size:39
Alignment explanation
Indices: 22263487--22263704 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
22263477 AAATCACGTA
* * **
22263487 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
22263526 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
22263565 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
22263605 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
22263645 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
22263685 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
22263705 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:22271490 original size:40 final size:40
Alignment explanation
Indices: 22271392--22271654 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
22271382 TCCTCGTTCA
* * * * *
22271392 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
22271431 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22271471 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22271511 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
22271551 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
22271591 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
22271631 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22271655 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:22271663 original size:41 final size:41
Alignment explanation
Indices: 22271586--22271663 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
22271576 TTAGTATCTC
* * *
22271586 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
22271627 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
22271664 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:22279161 original size:48 final size:48
Alignment explanation
Indices: 22279090--22279509 Score: 547
Period size: 48 Copynumber: 8.8 Consensus size: 48
22279080 ACCATGCTAA
22279090 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
22279138 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGGATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
22279186 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* ** * * *
22279234 ATGTGCCTGTGTTAGATGATGTTTGGGGCATGGCATCGGCGATGGTAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
22279282 ATGTGCTTATCTAAGACCATGTATGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
22279330 GTGTG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * * * *
22279378 GTGTACCAGAGTATGACCATGTTTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
22279426 TTGTGCCAGTGTAAGATCATGTCTAGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* ** * *
22279474 GTG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
22279510 TGGTACTTTA
Statistics
Matches: 323, Mismatches: 46, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
47 2 0.01
48 320 0.99
49 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:22286952 original size:27 final size:26
Alignment explanation
Indices: 22286904--22286955 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22286894 GCGAGGCTGC
*
22286904 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
22286930 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
22286956 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:22287637 original size:27 final size:27
Alignment explanation
Indices: 22287607--22287779 Score: 213
Period size: 27 Copynumber: 6.4 Consensus size: 27
22287597 TGGGCAAAAT
* * *
22287607 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
22287634 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
22287661 GGTATTTCTACCCGACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
22287688 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
22287715 AATAATTCTATCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * *
22287742 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
22287769 GGTAATTCTAC
1 GGTAATTCTAC
22287780 AACTTATCCA
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.02
27 119 0.95
28 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:22287697 original size:54 final size:54
Alignment explanation
Indices: 22287607--22287779 Score: 240
Period size: 54 Copynumber: 3.2 Consensus size: 54
22287597 TGGGCAAAAT
* *
22287607 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
22287661 GGTATTTCTACCCGACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** * * * *
22287715 AATAATTCTATCCTAC-AGGGATATTTCAGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTC
22287769 GGTAATTCTAC
1 GGTAATTCTAC
22287780 AACTTATCCA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
53 4 0.04
54 100 0.96
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (54 bp):
GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:22290915 original size:17 final size:18
Alignment explanation
Indices: 22290883--22290916 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22290873 CTCTCCTAAA
*
22290883 ACAATTTTGATCTTTCTC
1 ACAATTCTGATCTTTCTC
22290901 ACAATTCTG-TCTTTCT
1 ACAATTCTGATCTTTCT
22290917 GTATGCTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.50
Consensus pattern (18 bp):
ACAATTCTGATCTTTCTC
Found at i:22293324 original size:27 final size:26
Alignment explanation
Indices: 22293276--22293329 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
22293266 TCACACAAGT
*
22293276 TAGTCATTTACACACGAGGGGCAAAA
1 TAGTCATTTACACACGAAGGGCAAAA
* *
22293302 TAGTCATTTCACACCCTAAGGGCAAAA
1 TAGTCATTT-ACACACGAAGGGCAAAA
22293329 T
1 T
22293330 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (26 bp):
TAGTCATTTACACACGAAGGGCAAAA
Found at i:22293337 original size:27 final size:27
Alignment explanation
Indices: 22293294--22293350 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
22293284 TACACACGAG
*
22293294 GGGCAAAATAGTCATTTCACACCC-TAA
1 GGGCAAAATAGTAATTTCAC-CCCATAA
* *
22293321 GGGCAAAATGGTAATTTTACCCCATAA
1 GGGCAAAATAGTAATTTCACCCCATAA
22293348 GGG
1 GGG
22293351 TATCTCGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
GGGCAAAATAGTAATTTCACCCCATAA
Found at i:22293378 original size:27 final size:27
Alignment explanation
Indices: 22293330--22293529 Score: 247
Period size: 27 Copynumber: 7.4 Consensus size: 27
22293320 AGGGCAAAAT
* * * * *
22293330 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
22293357 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
22293384 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
22293411 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22293438 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
22293465 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
22293492 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
22293519 GGTAATTCTAC
1 GGTAATTCTAC
22293530 AACTTATCCA
Statistics
Matches: 146, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:22293387 original size:54 final size:54
Alignment explanation
Indices: 22293329--22293529 Score: 278
Period size: 54 Copynumber: 3.7 Consensus size: 54
22293319 AAGGGCAAAA
* * *
22293329 TGGTAATTT-TACCCCATAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTT
1 TGGT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
* *
22293383 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
* * *
22293437 TGGTATTTCTACCCTACAGGGGTATTTCAATAATTCTACCCTATAGGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
* * * *
22293491 CGGTAATTCTACCTTACAAGGGTATTTCGGTAATTCTAC
1 TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTAC
22293530 AACTTATCCA
Statistics
Matches: 130, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 4 0.03
54 126 0.97
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
Found at i:22299363 original size:6 final size:7
Alignment explanation
Indices: 22299348--22299377 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
22299338 TGGTTCATGG
22299348 TTTTATT
1 TTTTATT
22299355 TTTTATT
1 TTTTATT
22299362 TTTTA-T
1 TTTTATT
22299368 TTTTATT
1 TTTTATT
22299375 TTT
1 TTT
22299378 GGCTTTGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTATT
Found at i:22299370 original size:13 final size:14
Alignment explanation
Indices: 22299348--22299377 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
22299338 TGGTTCATGG
22299348 TTTTATTTTTTATT
1 TTTTATTTTTTATT
22299362 TTTTA-TTTTTATT
1 TTTTATTTTTTATT
22299375 TTT
1 TTT
22299378 GGCTTTGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTATTTTTTATT
Found at i:22303182 original size:42 final size:41
Alignment explanation
Indices: 22303111--22303213 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 41
22303101 TTGTGATTTG
* *
22303111 CGTGTAAGACCATGTTTGGGACATCGGCATCGTATATGAGTT
1 CGTGTAAGACCATGTCTGAGACATCGGCATCG-ATATGAGTT
* *
22303153 CGTGTAAGACCTTGTCTGAGACAGT-GGCATCGATATGTGATT
1 CGTGTAAGACCATGTCTGAGACA-TCGGCATCGATATGAG-TT
* *
22303195 ACATGTAAGACCACGTCTG
1 -CGTGTAAGACCATGTCTG
22303214 GGACGTTGGC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
41 6 0.12
42 29 0.57
43 16 0.31
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (41 bp):
CGTGTAAGACCATGTCTGAGACATCGGCATCGATATGAGTT
Found at i:22303205 original size:43 final size:43
Alignment explanation
Indices: 22303053--22303217 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 43
22303043 ACATAGGATT
* * *
22303053 TCGATATGTGATTTCATGTAAGACCACGTCTGGGAC-GTTGCCA
1 TCGATATGTGAGTTCATGTAAGACCATGTCTGGGACAG-TGGCA
* * * *
22303096 TCGATTTGTGATTTGCGTGTAAGACCATGTTTGGGACA-TCGGCA
1 TCGATATGTGAGTT-CATGTAAGACCATGTCTGGGACAGT-GGCA
* * * *
22303140 TCG-TATATGAGTTCGTGTAAGACCTTGTCTGAGACAGTGGCA
1 TCGATATGTGAGTTCATGTAAGACCATGTCTGGGACAGTGGCA
*
22303182 TCGATATGTGA-TTACATGTAAGACCACGTCTGGGAC
1 TCGATATGTGAGTT-CATGTAAGACCATGTCTGGGAC
22303218 GTTGGCGTTA
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
42 29 0.29
43 46 0.46
44 25 0.25
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGATATGTGAGTTCATGTAAGACCATGTCTGGGACAGTGGCA
Found at i:22305293 original size:20 final size:21
Alignment explanation
Indices: 22305261--22305299 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
22305251 AATGAAACAG
22305261 ATTTAGCAAAATTA-AACACA
1 ATTTAGCAAAATTATAACACA
22305281 ATTT-GCAACAATTATAACA
1 ATTTAGCAA-AATTATAACA
22305300 TAAATAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.28
Consensus pattern (21 bp):
ATTTAGCAAAATTATAACACA
Found at i:22306094 original size:7 final size:7
Alignment explanation
Indices: 22306084--22306110 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22306074 AATGATGAAT
22306084 GATGAGG
1 GATGAGG
22306091 GATGAGG
1 GATGAGG
22306098 GATGAGG
1 GATGAGG
22306105 GATGAG
1 GATGAG
22306111 TAGAAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:22315329 original size:27 final size:27
Alignment explanation
Indices: 22315267--22315331 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
22315257 GGGCATATTC
22315267 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
22315294 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
22315321 GTCTTTTTACC
1 GTCATTTTACC
22315332 TATAGTCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:22315403 original size:27 final size:27
Alignment explanation
Indices: 22315373--22315458 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
22315363 GTAAATCTAC
22315373 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAAGGTATTTCAGTAATTTTGT
* *
22315400 AAACCAATGGTATTTCTA-TAATTTTTAT
1 AAACCAAAGGTATTTC-AGTAA-TTTTGT
* * * *
22315428 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAAGGTATTTCAGTAATTTTGT
22315456 AAA
1 AAA
22315459 TCAGGGGTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
27 18 0.38
28 16 0.33
29 14 0.29
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCAGTAATTTTGT
Found at i:22315486 original size:27 final size:27
Alignment explanation
Indices: 22315408--22315558 Score: 94
Period size: 27 Copynumber: 5.5 Consensus size: 27
22315398 GTAAACCAAT
* *
22315408 GGTATTTCT-ATAATTTTTATAAAGTCAAG
1 GGTATTT-TGATAA-TTTTACAAA-TCAGG
* **
22315437 GGTATTTCTG-TAACTTTGTAAATCAGG
1 GGTATTT-TGATAATTTTACAAATCAGG
* *
22315464 GGTATCTTGATAATTTTACAAAT-TGAG
1 GGTATTTTGATAATTTTACAAATCAG-G
* * * *
22315491 GGTATTTCGATAATTTCACAAACCAAG
1 GGTATTTTGATAATTTTACAAATCAGG
* *
22315518 GGTATTTTGGTAATTTTATAAA-CTAGG
1 GGTATTTTGATAATTTTACAAATC-AGG
*
22315545 GGTATTTTGGTAAT
1 GGTATTTTGATAAT
22315559 AGATCGGNNN
Statistics
Matches: 98, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
26 4 0.04
27 75 0.77
28 7 0.07
29 12 0.12
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTATTTTGATAATTTTACAAATCAGG
Found at i:22319838 original size:85 final size:86
Alignment explanation
Indices: 22319683--22319840 Score: 232
Period size: 85 Copynumber: 1.8 Consensus size: 86
22319673 ATGTGATATC
* * * *
22319683 GTGTAAGACCACGTCTGGGACATTGGCATCGATTTGGTATTTACGTGTAAGACCACGTCTGGGAC
1 GTGTAAGACCACGTCTAGGACAGTGGCATCGATTTGGTATTTACATGTAAGACCACATCTGGGAC
22319748 GTTGGCATCATACTTGATTTT
66 GTTGGCATCATACTTGATTTT
*
22319769 GTGTAAGACC-CTGTCTAGGACAGTGGCATCGATATTTG-A-TTACATGTAAGACCACATCTGGG
1 GTGTAAGACCAC-GTCTAGGACAGTGGCATCGAT-TTGGTATTTACATGTAAGACCACATCTGGG
22319831 ACGTTGGCAT
64 ACGTTGGCAT
22319841 TGTACGAGGT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
85 32 0.49
86 30 0.46
87 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (86 bp):
GTGTAAGACCACGTCTAGGACAGTGGCATCGATTTGGTATTTACATGTAAGACCACATCTGGGAC
GTTGGCATCATACTTGATTTT
Found at i:22319839 original size:43 final size:43
Alignment explanation
Indices: 22319682--22319840 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 43
22319672 TATGTGATAT
* *
22319682 CGTGTAAGACCACGTCTGGGACATTGGCATCGAT-TTGGTATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTG-A-TTA
* *
22319726 CGTGTAAGACCACGTCTGGGACGTTGGCATC-ATACTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
* *
22319768 TGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
* *
22319811 CATGTAAGACCACATCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
22319841 TGTACGAGGT
Statistics
Matches: 97, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 35 0.36
44 33 0.34
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:22325943 original size:22 final size:22
Alignment explanation
Indices: 22325870--22325945 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
22325860 GTTCACATTC
22325870 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
22325892 ATCACGTATAT-G-CATGTTC-ACATT
1 ATCAC--AT-TGGCCA--TTCGGCCTT
22325916 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
22325939 ATCACAT
1 ATCACAT
22325946 ATACGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:22325991 original size:22 final size:22
Alignment explanation
Indices: 22325870--22325991 Score: 56
Period size: 22 Copynumber: 5.3 Consensus size: 22
22325860 GTTCACATTC
*
22325870 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCAGCCTT
*
22325892 ATCACGTATAT-G-CATGTTCA-CATT
1 ATCAC--AT-TGGCCA--TTCAGCCTT
*
22325916 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
* *
22325939 ATCACATAT-ACGCATGTTCA-CATT
1 ATCACAT-TGGC-CA--TTCAGCCTT
*
22325963 CAACACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCAGCCTT
22325986 ATCACA
1 ATCACA
22325992 CATACGCGTG
Statistics
Matches: 73, Mismatches: 11, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 26 0.36
23 14 0.19
24 14 0.19
25 19 0.26
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:22326045 original size:47 final size:47
Alignment explanation
Indices: 22325745--22326042 Score: 472
Period size: 47 Copynumber: 6.3 Consensus size: 47
22325735 TAGTCTCATA
22325745 GGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
*
22325792 GGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
* *
22325839 GG-TTATATCACACATATGCAAGTTCACATTCATCACATTGGCCATTC
1 GGCCT-TATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
**
22325886 GGCCTTATCACGTATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
* * *
22325933 GGCCTTATCACATATACGCATGTTCACATTCAACACATTGGCCATTC
1 GGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
* * *
22325980 AGCCTTATCACACATACGCGTGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
*
22326027 GCCCTTATCACACATA
1 GGCCTTATCACACATA
22326043 CGCNNNNNNN
Statistics
Matches: 232, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 230 0.99
48 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.32
Consensus pattern (47 bp):
GGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTC
Found at i:22335810 original size:26 final size:26
Alignment explanation
Indices: 22335781--22335888 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22335771 TGGTACAAAT
22335781 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
22335807 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22335833 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
22335859 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22335885 TGAT
1 TGAT
22335889 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:22345464 original size:28 final size:28
Alignment explanation
Indices: 22345411--22345654 Score: 235
Period size: 28 Copynumber: 8.7 Consensus size: 28
22345401 AACACGTCAG
* *
22345411 GAAAGAATAAGCCCTTATGG-AGAACTAT
1 GAAAGAATAAGCCTTTGTGGCA-AACTAT
* *
22345439 AAAAAAATAAGCCTTTGTGGCAAACTAT
1 GAAAGAATAAGCCTTTGTGGCAAACTAT
* **
22345467 GAAAAGAATAAGCCTTTGAGGTGAACTAT
1 G-AAAGAATAAGCCTTTGTGGCAAACTAT
* ** *
22345496 GAAAGAATAAGTCTTTGTGGGGAATTA-
1 GAAAGAATAAGCCTTTGTGGCAAACTAT
* *
22345523 GAAAAGAATGAGCCTTTATGGCAAACTAT
1 G-AAAGAATAAGCCTTTGTGGCAAACTAT
*
22345552 GAAAGAATAAGTCTTTGTGG-AGAACTAT
1 GAAAGAATAAGCCTTTGTGGCA-AACTAT
* * *
22345580 GAAAGAATAAGTCTTTGTGGCGAGCTAT
1 GAAAGAATAAGCCTTTGTGGCAAACTAT
* **
22345608 GAAAGAATAAGCCTTTGTTGTGAACTAT
1 GAAAGAATAAGCCTTTGTGGCAAACTAT
*
22345636 GAAAG-ATTAGCCTTTGTGG
1 GAAAGAATAAGCCTTTGTGG
22345655 TGAACTCTGT
Statistics
Matches: 180, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
27 14 0.08
28 140 0.78
29 26 0.14
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.27
Consensus pattern (28 bp):
GAAAGAATAAGCCTTTGTGGCAAACTAT
Found at i:22345590 original size:84 final size:84
Alignment explanation
Indices: 22345411--22345660 Score: 306
Period size: 84 Copynumber: 3.0 Consensus size: 84
22345401 AACACGTCAG
* * * * *
22345411 GAAAGAATAAGCCCTTATGGAGAACTATAAAAAAATAAGCCTTTGTGGCAAACTATGAAAAGAAT
1 GAAAGAATAAGTCTTTGTGGAGAACTAGAAAAGAATAAGCCTTTGTGGCAAACTATG-AAAGAAT
*
22345476 AAGCCTTTGAGGTGAACTAT
65 AAGCCTTTGTGGTGAACTAT
* * * *
22345496 GAAAGAATAAGTCTTTGTGGGGAATTAGAAAAGAATGAGCCTTTATGGCAAACTATGAAAGAATA
1 GAAAGAATAAGTCTTTGTGGAGAACTAGAAAAGAATAAGCCTTTGTGGCAAACTATGAAAGAATA
* *
22345561 AGTCTTTGTGGAGAACTAT
66 AGCCTTTGTGGTGAACTAT
* * * **
22345580 GAAAGAATAAGTCTTTGTGGCGAGCTATG-AAAGAATAAGCCTTTGTTGTGAACTATGAAAG-AT
1 GAAAGAATAAGTCTTTGTGGAGAACTA-GAAAAGAATAAGCCTTTGTGGCAAACTATGAAAGAAT
*
22345643 TAGCCTTTGTGGTGAACT
65 AAGCCTTTGTGGTGAACT
22345661 CTGTATGAAG
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
83 17 0.12
84 75 0.53
85 49 0.35
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (84 bp):
GAAAGAATAAGTCTTTGTGGAGAACTAGAAAAGAATAAGCCTTTGTGGCAAACTATGAAAGAATA
AGCCTTTGTGGTGAACTAT
Found at i:22345640 original size:56 final size:56
Alignment explanation
Indices: 22345411--22345660 Score: 272
Period size: 56 Copynumber: 4.5 Consensus size: 56
22345401 AACACGTCAG
* * * * *
22345411 GAAAGAATAAGCCCTTATGGAGAACTATAAAAAAATAAGCCTTTGTGGCA-AACTAT
1 GAAAGAATAAGCCTTTGTGGCGAACTATGAAAGAATAAGCCTTTGTGG-AGAACTAT
* * * * *
22345467 GAAAAGAATAAGCCTTTGAGGTGAACTATGAAAGAATAAGTCTTTGTGGGGAATTA-
1 G-AAAGAATAAGCCTTTGTGGCGAACTATGAAAGAATAAGCCTTTGTGGAGAACTAT
* * * *
22345523 GAAAAGAATGAGCCTTTATGGCAAACTATGAAAGAATAAGTCTTTGTGGAGAACTAT
1 G-AAAGAATAAGCCTTTGTGGCGAACTATGAAAGAATAAGCCTTTGTGGAGAACTAT
* * * *
22345580 GAAAGAATAAGTCTTTGTGGCGAGCTATGAAAGAATAAGCCTTTGTTGTGAACTAT
1 GAAAGAATAAGCCTTTGTGGCGAACTATGAAAGAATAAGCCTTTGTGGAGAACTAT
* *
22345636 GAAAG-ATTAGCCTTTGTGGTGAACT
1 GAAAGAATAAGCCTTTGTGGCGAACT
22345661 CTGTATGAAG
Statistics
Matches: 163, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
55 16 0.10
56 102 0.63
57 45 0.28
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (56 bp):
GAAAGAATAAGCCTTTGTGGCGAACTATGAAAGAATAAGCCTTTGTGGAGAACTAT
Found at i:22353598 original size:22 final size:22
Alignment explanation
Indices: 22353533--22353592 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
22353523 CTAGGTACTT
**
22353533 GTCTTGAGACATAAGGTGTCAA
1 GTCTTGAGACATAAAATGTCAA
22353555 GTCTTGAGACATAAAATGTCAA
1 GTCTTGAGACATAAAATGTCAA
22353577 GTCTTGAGACATAAAA
1 GTCTTGAGACATAAAA
22353593 CATCAAAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (22 bp):
GTCTTGAGACATAAAATGTCAA
Found at i:22355156 original size:48 final size:48
Alignment explanation
Indices: 22355085--22355315 Score: 327
Period size: 48 Copynumber: 4.8 Consensus size: 48
22355075 GACACCGTGC
* *
22355085 TAAATGTGCCTGTGTAAGACCATGCCTGGGACATGGCATCGGTGATGA
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* * *
22355133 TAAATGTGTCTGGGTAAGACCATGTCTGGGACATGGTATCGGCGATGA
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
22355181 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* * * * * * *
22355229 TATATGTGCCAGTATAAGACCATGTTTGGGAAATGGGATCTGCGATGA
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
** *
22355277 TATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCAT
22355316 TGATAATGAT
Statistics
Matches: 163, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 163 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (48 bp):
TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
Found at i:22355325 original size:48 final size:48
Alignment explanation
Indices: 22355088--22355362 Score: 318
Period size: 48 Copynumber: 5.7 Consensus size: 48
22355078 ACCGTGCTAA
* * * *
22355088 ATGTGCCTGTGTAAGACCATGCCTGGGACATGGCATCGGTGATGATAA
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * * *
22355136 ATGTGTCTGGGTAAGACCATGTCTGGGACATGGTATCGGCGATGATAA
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
*
22355184 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * * *
22355232 ATGTGCCAGTATAAGACCATGTTTGGGAAATGGGATCTGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * ***
22355280 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGATAATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
22355328 GTGGGTTCA-TGTAAGACCATGTCGGGGACATGGCA
1 ATGTG-CCAGTGTAAGACCATGTCTGGGACATGGCA
22355363 CCAATCCCGA
Statistics
Matches: 198, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
48 196 0.99
49 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (48 bp):
ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:22358201 original size:4 final size:4
Alignment explanation
Indices: 22358189--22358218 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
22358179 ATACATACCA
22358189 AATT GAATT AATT AATT AATT AATT AATT A
1 AATT -AATT AATT AATT AATT AATT AATT A
22358219 TAAAGTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (4 bp):
AATT
Done.