Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 104 of 279
Found at i:33149166 original size:22 final size:21
Alignment explanation
Indices: 33149140--33149188 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
33149130 ATATATGTAC
33149140 ATAATATAATAAGAAAATATA
1 ATAATATAATAAGAAAATATA
**
33149161 TATAATATAATATTAAAATATA
1 -ATAATATAATAAGAAAATATA
33149183 ATAATA
1 ATAATA
33149189 CAACATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
ATAATATAATAAGAAAATATA
Found at i:33149226 original size:21 final size:21
Alignment explanation
Indices: 33149153--33149226 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
33149143 ATATAATAAG
33149153 AAAATATATATAATATA-ATATT
1 AAAATATA-AT-ATATACATATT
*
33149175 AAAATATAATA-ATACAACATT
1 AAAATATAATATATAC-ATATT
33149196 AAAA-A-AATATGATACATA-T
1 AAAATATAATAT-ATACATATT
33149215 AAAATATAATAT
1 AAAATATAATAT
33149227 TTAAAGTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
19 12 0.27
20 5 0.11
21 19 0.43
22 8 0.18
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (21 bp):
AAAATATAATATATACATATT
Found at i:33149865 original size:16 final size:16
Alignment explanation
Indices: 33149824--33149871 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
33149814 GAAGAAAAAA
* *
33149824 AGAAAAAAGAGAAGGG
1 AGAAAAGAGAGAGGGG
33149840 AGAAAAGAGAGAGGGG
1 AGAAAAGAGAGAGGGG
*
33149856 AGAAAGGAGAGAGGGG
1 AGAAAAGAGAGAGGGG
33149872 TTCCGGCCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (16 bp):
AGAAAAGAGAGAGGGG
Found at i:33152259 original size:15 final size:16
Alignment explanation
Indices: 33152239--33152291 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
33152229 GAAATTAAAT
33152239 ATAATTATAAA-ATAA
1 ATAATTATAAATATAA
*
33152254 ATAATTA-AAATTTAA
1 ATAATTATAAATATAA
**
33152269 ATAAAGATAAATATAA
1 ATAATTATAAATATAA
*
33152285 AAAATTA
1 ATAATTA
33152292 ATTGAACATT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
14 3 0.10
15 15 0.52
16 11 0.38
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAATTATAAATATAA
Found at i:33152287 original size:24 final size:24
Alignment explanation
Indices: 33152245--33152292 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33152235 AAATATAATT
* *
33152245 ATAAAATAAATAATTAAAATTTAA
1 ATAAAATAAATAATAAAAAATTAA
33152269 ATAAAGATAAAT-ATAAAAAATTAA
1 ATAAA-ATAAATAATAAAAAATTAA
33152293 TTGAACATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
ATAAAATAAATAATAAAAAATTAA
Found at i:33155256 original size:20 final size:20
Alignment explanation
Indices: 33155231--33155296 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
33155221 ATGATGTTGC
33155231 TGCTTTTGCGATTTATAATT
1 TGCTTTTGCGATTTATAATT
* * *
33155251 TGC-TTTAC-CTTTGAT-GTT
1 TGCTTTTGCGATTT-ATAATT
33155269 GCTGCTTTTGCGATTTATAATT
1 --TGCTTTTGCGATTTATAATT
33155291 TGCTTT
1 TGCTTT
33155297 ACCTTTCAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 5 0.15
19 6 0.18
20 12 0.35
21 6 0.18
22 5 0.15
ACGTcount: A:0.15, C:0.14, G:0.17, T:0.55
Consensus pattern (20 bp):
TGCTTTTGCGATTTATAATT
Found at i:33155277 original size:40 final size:40
Alignment explanation
Indices: 33155222--33155302 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
33155212 TTAATAAATA
33155222 TGATGTTGCTGCTTTTGCGATTTATAATTTGCTTTACCTT
1 TGATGTTGCTGCTTTTGCGATTTATAATTTGCTTTACCTT
33155262 TGATGTTGCTGCTTTTGCGATTTATAATTTGCTTTACCTT
1 TGATGTTGCTGCTTTTGCGATTTATAATTTGCTTTACCTT
33155302 T
1 T
33155303 CAGCAATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (40 bp):
TGATGTTGCTGCTTTTGCGATTTATAATTTGCTTTACCTT
Found at i:33162768 original size:10 final size:10
Alignment explanation
Indices: 33162736--33162777 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
33162726 TTTGGAGTTA
33162736 TTTTAGTTATT
1 TTTTAGTT-TT
33162747 TATTTA-TTTT
1 T-TTTAGTTTT
*
33162757 TTTTTGTTTT
1 TTTTAGTTTT
33162767 TTTTAGTTTT
1 TTTTAGTTTT
33162777 T
1 T
33162778 AAATTTACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 3 0.11
10 17 0.63
11 3 0.11
12 4 0.15
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (10 bp):
TTTTAGTTTT
Found at i:33162919 original size:21 final size:19
Alignment explanation
Indices: 33162893--33162935 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
33162883 AATTTTTTAA
33162893 ATTTTAAAAAATTCAAAAAAT
1 ATTTT-AAAAATT-AAAAAAT
*
33162914 ATTTTAAAAATTAAAAATT
1 ATTTTAAAAATTAAAAAAT
33162933 ATT
1 ATT
33162936 ACAAAAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 7 0.33
21 5 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTTAAAAATTAAAAAAT
Found at i:33163613 original size:27 final size:26
Alignment explanation
Indices: 33163557--33163614 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
33163547 TGTGGAGTTT
* * *
33163557 AAATATTTAAAGTTAAAATTATTTGT
1 AAATATTTAAAATTAAAATTATATGA
33163583 AAATATTTAAAAATTAAAATT-TAATGA
1 AAATATTT-AAAATTAAAATTAT-ATGA
33163610 AAATA
1 AAATA
33163615 ATCGGGGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (26 bp):
AAATATTTAAAATTAAAATTATATGA
Found at i:33166142 original size:28 final size:27
Alignment explanation
Indices: 33166078--33166142 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
33166068 ACACAAATTG
* * *
33166078 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
33166105 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
33166134 AAAATAAAA
1 AAAATAAAA
33166143 ATATATATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:33167251 original size:22 final size:22
Alignment explanation
Indices: 33167223--33167265 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
33167213 AAAAAAAGAG
*
33167223 TATTTATTTATAGATCATCTAC
1 TATTTATGTATAGATCATCTAC
*
33167245 TATTTATGTATGGATCATCTA
1 TATTTATGTATAGATCATCTA
33167266 TTAACTTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (22 bp):
TATTTATGTATAGATCATCTAC
Found at i:33172080 original size:44 final size:46
Alignment explanation
Indices: 33172034--33172121 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
33172024 AATTTATTTT
* *
33172034 AAAAAAA-TTAATCCTCAAATTATTATTTAAATTAT-ACTTTTATTA
1 AAAAAAAGTTAATCCACAAATTATTATCTAAATT-TCACTTTTATTA
33172079 AAAAAAAGTTTAATCCACAAATTATTATCTAAATTTCACTTTT
1 AAAAAAAG-TTAATCCACAAATTATTATCTAAATTTCACTTTT
33172122 TTTTAATTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
45 7 0.18
46 1 0.03
47 30 0.79
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.42
Consensus pattern (46 bp):
AAAAAAAGTTAATCCACAAATTATTATCTAAATTTCACTTTTATTA
Found at i:33175737 original size:29 final size:28
Alignment explanation
Indices: 33175700--33175763 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
33175690 TTAATACTTA
* *
33175700 TATTATTTTAT-TTATCAGTTTGGCTCCTG
1 TATT-TTTTATATTATAAGTTTAGC-CCTG
*
33175729 TACTTTTTTTTATTATAAGTTTAGCCCTG
1 TA-TTTTTTATATTATAAGTTTAGCCCTG
33175758 TATTTT
1 TATTTT
33175764 AGTTCTGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 4 0.13
29 13 0.43
30 13 0.43
ACGTcount: A:0.19, C:0.12, G:0.11, T:0.58
Consensus pattern (28 bp):
TATTTTTTATATTATAAGTTTAGCCCTG
Found at i:33176066 original size:20 final size:20
Alignment explanation
Indices: 33176041--33176080 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33176031 CGTAAAATGA
*
33176041 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
33176061 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
33176081 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:33176070 original size:34 final size:35
Alignment explanation
Indices: 33176026--33176092 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
33176016 CAGTAAAATA
*
33176026 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
33176060 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
33176093 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:33176096 original size:14 final size:15
Alignment explanation
Indices: 33176020--33176096 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
33176010 GATTGCCAGT
* *
33176020 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
33176034 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
33176048 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
33176068 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
33176083 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
33176097 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:33190822 original size:6 final size:7
Alignment explanation
Indices: 33190810--33190835 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33190800 GTTTTTATAT
33190810 TTAAAAA
1 TTAAAAA
33190817 TTAAAAA
1 TTAAAAA
33190824 TTAAAAA
1 TTAAAAA
33190831 TTAAA
1 TTAAA
33190836 TACTCTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:33192128 original size:41 final size:41
Alignment explanation
Indices: 33192071--33192156 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
33192061 ACACCAAATC
**
33192071 AACATAGTAGATAATGTTTACGACAAACTTGATAAGAAGTA
1 AACATAGTAGATAATGTTTAAAACAAACTTGATAAGAAGTA
33192112 AACATAGTAGATAATGTTTAAAACAAACTTGATAAGAAGTA
1 AACATAGTAGATAATGTTTAAAACAAACTTGATAAGAAGTA
33192153 AACA
1 AACA
33192157 CATTCTCATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (41 bp):
AACATAGTAGATAATGTTTAAAACAAACTTGATAAGAAGTA
Found at i:33192154 original size:21 final size:21
Alignment explanation
Indices: 33192093--33192154 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
33192083 AATGTTTACG
33192093 ACAAACTTGATAAGAAGT-AA
1 ACAAACTTGATAAGAAGTAAA
* * * **
33192113 ACATAGTAGATAATG-TTTAAA
1 ACAAACTTGATAA-GAAGTAAA
33192134 ACAAACTTGATAAGAAGTAAA
1 ACAAACTTGATAAGAAGTAAA
33192155 CACATTCTCA
Statistics
Matches: 29, Mismatches: 10, Indels: 5
0.66 0.23 0.11
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.24
Consensus pattern (21 bp):
ACAAACTTGATAAGAAGTAAA
Found at i:33195124 original size:16 final size:16
Alignment explanation
Indices: 33195098--33195131 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
33195088 AATCACAATG
33195098 ATAACATGCGTAATAAA
1 ATAACATGCGTAA-AAA
33195115 ATAA-ATGCGTAAAAA
1 ATAACATGCGTAAAAA
33195130 AT
1 AT
33195132 TAATAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (16 bp):
ATAACATGCGTAAAAA
Found at i:33195484 original size:18 final size:20
Alignment explanation
Indices: 33195461--33195508 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
33195451 AAAAAGAAAT
33195461 ATAATAATA-C-TAGTAATA
1 ATAATAATAGCATAGTAATA
*
33195479 ATAATAATAGCAGTAGTAATG
1 ATAATAATAGCA-TAGTAATA
33195500 ATAATAATA
1 ATAATAATA
33195509 ATAAGAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.35
19 1 0.04
21 16 0.62
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.31
Consensus pattern (20 bp):
ATAATAATAGCATAGTAATA
Found at i:33198158 original size:18 final size:18
Alignment explanation
Indices: 33198137--33198171 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33198127 CTCAGTAGCA
*
33198137 ATCAGTTATTCAATAACG
1 ATCAATTATTCAATAACG
*
33198155 ATCAATTATTCAGTAAC
1 ATCAATTATTCAATAAC
33198172 AGTCAGTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
ATCAATTATTCAATAACG
Found at i:33198168 original size:36 final size:36
Alignment explanation
Indices: 33198078--33198178 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 36
33198068 CTTCATTTAG
* * * *
33198078 TAACATTCAATTATTCAGTAGTAATTAGTTATTCAG
1 TAACAATCAATTATTCAGTAGCAATCAGTTATTCAA
* **
33198114 TAACAATCATTTGCTCAGTAGCAATCAGTTATTCAA
1 TAACAATCAATTATTCAGTAGCAATCAGTTATTCAA
* * *
33198150 TAACGATCAATTATTCAGTAACAGTCAGT
1 TAACAATCAATTATTCAGTAGCAATCAGT
33198179 CATCCAGTAC
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (36 bp):
TAACAATCAATTATTCAGTAGCAATCAGTTATTCAA
Found at i:33199695 original size:13 final size:15
Alignment explanation
Indices: 33199669--33199701 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
33199659 CATTTACTTT
33199669 ATATATATTATAATA
1 ATATATATTATAATA
33199684 ATATA-ATT-TAATA
1 ATATATATTATAATA
33199697 ATATA
1 ATATA
33199702 CTTATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATATTATAATA
Found at i:33200631 original size:44 final size:44
Alignment explanation
Indices: 33200556--33200722 Score: 160
Period size: 44 Copynumber: 3.8 Consensus size: 44
33200546 TATTTGCTAT
* * * *
33200556 CTTCGATCTACTCCA-TCACAACATCAGGGAGATAAGATCTATAA
1 CTTCAATCTGCTCCACT-ACAACTTCAAGGAGATAAGATCTATAA
* * * *
33200600 CTTCAATCTGCTCCATTGCAACTTCAAGGAGATAAGGTCTATGA
1 CTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATCTATAA
* ** *
33200644 CTTTAATCTGCTCCACTACAACTTC-AGGAAGATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTACAACTTCAAGG-AGATAAGA-TCTATAA
*
33200689 CTTCAA-CTTGCTCCACTACAACTTCAGGGAGATA
1 CTTCAATC-TGCTCCACTACAACTTCAAGGAGATA
33200723 GTGTTTGCTA
Statistics
Matches: 101, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
43 3 0.03
44 65 0.64
45 31 0.31
46 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATCTATAA
Found at i:33200677 original size:133 final size:133
Alignment explanation
Indices: 33200467--33200722 Score: 306
Period size: 133 Copynumber: 1.9 Consensus size: 133
33200457 AGATTGGTAT
* * * * * *
33200467 CTTCAACCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTTATGGCTTTAATCTGTTCTATTGAAA
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGCTTATGACTTTAATCTGCTCCACTGAAA
* * * *
33200532 CTTTAGAGAGATAATATTTGCTATCTTCGA-TCTACTCCA-TCACAACATCAGGGAGATAAGATC
66 CTTCAGAGAGATAAGATTCGCTATCTTCAACT-TACTCCACT-ACAACATCAGGGAGATAAGATC
33200595 TATAA
129 TATAA
* *
33200600 CTTCAATCTGCTCCATTGCAACTTCAAGGAGATAAGG-TCTATGACTTTAATCTGCTCCACT-AC
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGCT-TATGACTTTAATCTGCTCCACTGA-
* *
33200663 AACTTCAG-GAAGATAAGATTCGCTATCTTCAACTTGCTCCACTACAACTTCAGGGAGATA
64 AACTTCAGAG-AGATAAGATTCGCTATCTTCAACTTACTCCACTACAACATCAGGGAGATA
33200723 GTGTTTGCTA
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
132 3 0.03
133 99 0.95
134 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (133 bp):
CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGCTTATGACTTTAATCTGCTCCACTGAAA
CTTCAGAGAGATAAGATTCGCTATCTTCAACTTACTCCACTACAACATCAGGGAGATAAGATCTA
TAA
Found at i:33201423 original size:35 final size:35
Alignment explanation
Indices: 33201336--33201816 Score: 309
Period size: 35 Copynumber: 13.3 Consensus size: 35
33201326 CCGACCTTTA
* *
33201336 AAAAAGGTTGGGATAGACCTAGTC-AAGGCCAATCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGG-CAA-CCTT
* * * *
33201373 GAAAAAGGTTAGGATAGACCCATATAAGACAACCTT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
** * *
33201409 AAAAAGGTTGGGATAGGTCAGTCTGAGGCAACCCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAA-CCTT
** * * *
33201445 AAAAAAGGTTAAGATCA-ACTCGTTTAAGGCAACCTC
1 -AAAAAGGTTGGGAT-AGACCCGTCTAAGGCAACCTT
* * ** * *
33201481 AAAAAAGTTGGGATAAACCTTATCTAAGGTAATTCTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAA-CCTT
* * *
33201518 GCAAAAGGTTGGGATAGACTCGTTTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
**
33201554 AAAAAGGTTGGGATAGACATTGTCTAAGGCAACCCTT
1 AAAAAGGTTGGGATAGAC-CCGTCTAAGGCAA-CCTT
* * * *
33201591 AAAAAAGGTTAGGATAGACTCGTCTAAAGCAACCCT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* *
33201627 AAAAAGGCTGGGATAGACCGTGTCTAAGGCAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
* * * ** *
33201664 AAAAAGGTTGAGATAAAGCCGTCTAATACAACTTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
** * * * * *
33201699 AAAAAGGTTAAGACATACCTTGCCTAAGACAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
* *
33201736 AAAAAGGTTGGGATAAACCCGTCTAAGGCAGCCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* * * * * * *
33201771 TAAAAGGTTAGGATAAACCCATTTAAGACAATCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
33201806 AAAAAGGTTGG
1 AAAAAGGTTGG
33201817 AATAAGTACG
Statistics
Matches: 340, Mismatches: 88, Indels: 33
0.74 0.19 0.07
Matches are distributed among these distances:
34 1 0.00
35 125 0.37
36 77 0.23
37 83 0.24
38 54 0.16
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
Found at i:33201475 original size:37 final size:37
Alignment explanation
Indices: 33201333--33201678 Score: 234
Period size: 37 Copynumber: 9.5 Consensus size: 37
33201323 ATGCCGACCT
* * * *
33201333 TTAAAAAAGGTTGGGATAGACCTAG-TCAAGGCCAATCT
1 TTAAAAAAGGTTGGGATAGA-CTCGTTTAAGG-CAACCC
* * * * * *
33201371 TTGAAAAAGGTTAGGATAGACCCATATAAGACAA-CC
1 TTAAAAAAGGTTGGGATAGACTCGTTTAAGGCAACCC
* * *
33201407 TT-AAAAAGGTTGGGATAG-GTCAGTCTGAGGCAACCC
1 TTAAAAAAGGTTGGGATAGACTC-GTTTAAGGCAACCC
**
33201443 TTAAAAAAGGTTAAGATCA-ACTCGTTTAAGGCAA-CC
1 TTAAAAAAGGTTGGGAT-AGACTCGTTTAAGGCAACCC
* * * * **
33201479 TCAAAAAA-GTTGGGATAAAC-CTTATCTAAGGTAATTC
1 TTAAAAAAGGTTGGGATAGACTCGT-T-TAAGGCAACCC
**
33201516 TTGCAAAAGGTTGGGATAGACTCGTTTAAGGCAA-CC
1 TTAAAAAAGGTTGGGATAGACTCGTTTAAGGCAACCC
* *
33201552 TT-AAAAAGGTTGGGATAGACATTGTCTAAGGCAACCC
1 TTAAAAAAGGTTGGGATAGAC-TCGTTTAAGGCAACCC
* * *
33201589 TTAAAAAAGGTTAGGATAGACTCGTCTAAAGCAACCC
1 TTAAAAAAGGTTGGGATAGACTCGTTTAAGGCAACCC
*
33201626 -T-AAAAAGGCTGGGATAGAC-CGTGTCTAAGGCAA-CC
1 TTAAAAAAGGTTGGGATAGACTCGT-T-TAAGGCAACCC
* *
33201661 TTTAAAAAGGTTGAGATA
1 TTAAAAAAGGTTGGGATA
33201679 AAGCCGTCTA
Statistics
Matches: 243, Mismatches: 46, Indels: 39
0.74 0.14 0.12
Matches are distributed among these distances:
34 7 0.03
35 66 0.27
36 46 0.19
37 69 0.28
38 53 0.22
39 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.24
Consensus pattern (37 bp):
TTAAAAAAGGTTGGGATAGACTCGTTTAAGGCAACCC
Found at i:33201669 original size:145 final size:143
Alignment explanation
Indices: 33201336--33201707 Score: 401
Period size: 145 Copynumber: 2.6 Consensus size: 143
33201326 CCGACCTTTA
*
33201336 AAAAAGGTTGGGATAGACCTAGTC-AAGGCCAATCTTTGAAAAAGGTTAGGATAGACCCATATAA
1 AAAAAGGTTGGGATAGACCT-GTCTAAGG-CAATCTTT-AAAAAGGTTGGGATAGACCCATATAA
* *
33201400 GACAACCTTAAAAAGGTTGGGATAGGTCAGTCTGAGGCAACCCTTAAAAAAGGTTAAGATCAACT
63 GACAACCTTAAAAAGGTTGGGATAGGACAGTCTAAGGCAACCCTTAAAAAAGGTTAAGATCAACT
* *
33201465 CGTTTAAGGCAACCTC
128 CGTCTAAAGCAACCTC
* * * * ** * * *
33201481 AAAAAAGTTGGGATAAACCTTATCTAAGGTAATTCTTGCAAAAGGTTGGGATAGACTCGTTTAAG
1 AAAAAGGTTGGGATAGACC-TGTCTAAGGCAA-TCTTTAAAAAGGTTGGGATAGACCCATATAAG
* *
33201546 GCAACCTTAAAAAGGTTGGGATA-GACATTGTCTAAGGCAACCCTTAAAAAAGGTTAGGAT-AGA
64 ACAACCTTAAAAAGGTTGGGATAGGACA--GTCTAAGGCAACCCTTAAAAAAGGTTAAGATCA-A
33201609 CTCGTCTAAAGCAACC-C
126 CTCGTCTAAAGCAACCTC
* * * * * * * *
33201626 TAAAAAGGCTGGGATAGACCGTGTCTAAGGCAACCTTTAAAAAGGTTGAGATAAAGCCGTCTAAT
1 -AAAAAGGTTGGGATAGACC-TGTCTAAGGCAATCTTTAAAAAGGTTGGGATAGACCCATATAAG
*
33201691 ACAACTTTAAAAAGGTT
64 ACAACCTTAAAAAGGTT
33201708 AAGACATACC
Statistics
Matches: 187, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
144 3 0.02
145 105 0.56
146 79 0.42
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (143 bp):
AAAAAGGTTGGGATAGACCTGTCTAAGGCAATCTTTAAAAAGGTTGGGATAGACCCATATAAGAC
AACCTTAAAAAGGTTGGGATAGGACAGTCTAAGGCAACCCTTAAAAAAGGTTAAGATCAACTCGT
CTAAAGCAACCTC
Found at i:33201740 original size:37 final size:36
Alignment explanation
Indices: 33201650--33201780 Score: 106
Period size: 36 Copynumber: 3.7 Consensus size: 36
33201640 TAGACCGTGT
* * * *
33201650 CTAAGGCAACCTTTAAAAAGGTTGAGATAAAGCCGT
1 CTAAGACAACCTTTAAAAAGGTTAAGACAAAGCCGC
* *
33201686 CTAATACAA-CTTTAAAAAGGTTAAGACATA-CCTTGC
1 CTAAGACAACCTTTAAAAAGGTTAAGACAAAGCC--GC
** * * *
33201722 CTAAGACAACCTTTAAAAAGGTTGGGATAAACCCGT
1 CTAAGACAACCTTTAAAAAGGTTAAGACAAAGCCGC
* *
33201758 CTAAGGCAGCCTTT-AAAAGGTTA
1 CTAAGACAACCTTTAAAAAGGTTA
33201781 GGATAAACCC
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
34 2 0.03
35 26 0.34
36 29 0.38
37 17 0.22
38 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (36 bp):
CTAAGACAACCTTTAAAAAGGTTAAGACAAAGCCGC
Found at i:33201776 original size:72 final size:72
Alignment explanation
Indices: 33201336--33201785 Score: 355
Period size: 73 Copynumber: 6.2 Consensus size: 72
33201326 CCGACCTTTA
* * * * * * *
33201336 AAAAAGGTTGGGATAGACCTAGTC-AAGGCCAATCTTTGAAAAAGGTTAGGATAGACCCATATAA
1 AAAAAGGTTAGGATAGACCTTGTCTAAGG-CAACCTTT-AAAAAGGTTGGGATAAACCCGTCTAA
*
33201400 GACAACCTT
64 GGCAACCTT
* ** * * * ** * * *
33201409 AAAAAGGTTGGGATAGGTC-AGTCTGAGGCAACCCTTAAAAAAGGTTAAGATCAACTCGTTTAAG
1 AAAAAGGTTAGGATAGACCTTGTCTAAGGCAA-CCTTTAAAAAGGTTGGGATAAACCCGTCTAAG
*
33201473 GCAACCTC
65 GCAACCTT
* * * * * * ** * * *
33201481 AAAAAAGTTGGGATAAACCTTATCTAAGGTAATTCTTGCAAAAGGTTGGGATAGACTCGTTTAAG
1 AAAAAGGTTAGGATAGACCTTGTCTAAGGCAA-CCTTTAAAAAGGTTGGGATAAACCCGTCTAAG
33201546 GCAACCTT
65 GCAACCTT
* * * * * * *
33201554 AAAAAGGTTGGGATAGACATTGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACTCGTCTAAA
1 AAAAAGGTTAGGATAGACCTTGTCTAAGGCAA-CCTTTAAAAAGGTTGGGATAAACCCGTCTAAG
*
33201619 GCAACCCT
65 GCAACCTT
* * * * * **
33201627 AAAAAGGCTGGGATAGACCGTGTCTAAGGCAACCTTTAAAAAGGTTGAGATAAAGCCGTCTAATA
1 AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAAACCCGTCTAAGG
*
33201692 CAACTTT
66 CAACCTT
* * * * *
33201699 AAAAAGGTTAAGACATACCTTGCCTAAGACAACCTTTAAAAAGGTTGGGATAAACCCGTCTAAGG
1 AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAAACCCGTCTAAGG
*
33201764 CAGCCTT
66 CAACCTT
*
33201771 TAAAAGGTTAGGATA
1 AAAAAGGTTAGGATA
33201786 AACCCATTTA
Statistics
Matches: 301, Mismatches: 73, Indels: 7
0.79 0.19 0.02
Matches are distributed among these distances:
72 149 0.50
73 152 0.50
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (72 bp):
AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAAACCCGTCTAAGG
CAACCTT
Found at i:33205608 original size:110 final size:110
Alignment explanation
Indices: 33205414--33205633 Score: 386
Period size: 110 Copynumber: 2.0 Consensus size: 110
33205404 AATAAGGGTG
* *
33205414 AAAAAAAAACTTGATTAAAAATAGCTCTGTTCTGGTTGACATTGGTTAATTGATTCACTGACTAA
1 AAAAAAAAACTTGATTAAAAATAGCTCTGTTCTGGTTGACATCGGTTAATTGATTCACAGACTAA
*
33205479 ACCGTTCTTTAGTAGCATTGGTCTCTCCTTCACTCCCGTCTTCAT
66 ACCGTTCTTTAGTAACATTGGTCTCTCCTTCACTCCCGTCTTCAT
33205524 AAAAAAAAACTTGATTAAAAATAGCTCTGTTCTGGTTGACATCGGTTAATTGATTCACAGACTAA
1 AAAAAAAAACTTGATTAAAAATAGCTCTGTTCTGGTTGACATCGGTTAATTGATTCACAGACTAA
* * *
33205589 ACTGTTCTTTAGTAACATTGGTCTTTCCTTCACTCTCGTCTTCAT
66 ACCGTTCTTTAGTAACATTGGTCTCTCCTTCACTCCCGTCTTCAT
33205634 TTAATCTGTC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 104 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (110 bp):
AAAAAAAAACTTGATTAAAAATAGCTCTGTTCTGGTTGACATCGGTTAATTGATTCACAGACTAA
ACCGTTCTTTAGTAACATTGGTCTCTCCTTCACTCCCGTCTTCAT
Found at i:33205745 original size:21 final size:21
Alignment explanation
Indices: 33205721--33205767 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
33205711 CCAGAATCAT
*
33205721 TAAATCCTAAACTATAAACAC
1 TAAATCATAAACTATAAACAC
* *
33205742 TAAATCATAAACTTTAAACTC
1 TAAATCATAAACTATAAACAC
33205763 TAAAT
1 TAAAT
33205768 TAATTAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAATCATAAACTATAAACAC
Found at i:33206498 original size:52 final size:52
Alignment explanation
Indices: 33206442--33206545 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
33206432 TTCTATGCTT
33206442 GTCATGAAAAATGTAATGAGGATATATGAATCTTAAACCTTATTCTCACTCG
1 GTCATGAAAAATGTAATGAGGATATATGAATCTTAAACCTTATTCTCACTCG
33206494 GTCATGAAAAATGTAATGAGGATATATGAATCTTAAACCTTATTCTCACTCG
1 GTCATGAAAAATGTAATGAGGATATATGAATCTTAAACCTTATTCTCACTCG
33206546 AAATTATTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (52 bp):
GTCATGAAAAATGTAATGAGGATATATGAATCTTAAACCTTATTCTCACTCG
Found at i:33207055 original size:140 final size:139
Alignment explanation
Indices: 33206801--33207486 Score: 704
Period size: 140 Copynumber: 5.0 Consensus size: 139
33206791 AACACAAGTT
* * **
33206801 GGCATAGTGTTGGACAAAACCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCTGA-TCC
1 GGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACT-C
* * *
33206865 TTATACAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGGC
65 TTATACAAAGAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGT-TTGGC
33206930 CCAAAAGTGTC
129 CCAAAAGTGTC
* * * *
33206941 GGCATAGTGTTGGACAAAGCTAACTCTTATTTAAGTGTTGCCTTTGGTATGCATATTCCAACTCT
1 GGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACTCT
* * * * * *
33207006 TATACAAAGAGTTGACCAAAACGTATGCCGACAAGTTTACCCCAGCACTT-----A-----G---
66 TATACAAAGAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGTTTGGCCC
*
33207058 AAAAGTGCC
131 AAAAGTGTC
* * * ** *
33207067 GGCATAGTGTTGAACAAAGCCT-AATCTTATATAAGCATTGTCTTAGGCATGCATATCCCAACTC
1 GGCATAGTGTTGGACAAAG-CTGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACTC
* * * ** * *
33207131 TTATACAAAGGGTTGGACAAAGTGTACATCAACAAGTTTATCCCAACACTTAGGAAAAGTTTCGG
65 TTATACAAAGAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGG-AAAGTTT-GG
*
33207196 CCCAAAAGTTTC
128 CCCAAAAGTGTC
* * * * *
33207208 GGCATAGTGTTGGATAAAG-TCGGCTCCTATTTAAGCGTTGCCTTAGGCATACATATCCCAACTC
1 GGCATAGTGTTGGACAAAGCT-GACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACTC
* * * * *
33207272 TTATATAAAG-GATTGGCCAAAGTGTATATTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGG
65 TTATACAAAGAG-TTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGT-TTGG
33207336 CCCAAAAGTGTC
128 CCCAAAAGTGTC
* * *
33207348 GGCATAATGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGTATATCCCAACTCT
1 GGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACTCT
* * * ** * *
33207413 TATACAAATAGTTGGCCAAAACGTATGTCGACAAGTCTATCCCAACATTTAAAAAAGTGTCGCCT
66 TATACAAAGAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGTTTGGCC-
33207478 CAAAAGTGT
130 CAAAAGTGT
33207487 TGTAGTAAGC
Statistics
Matches: 445, Mismatches: 77, Indels: 48
0.78 0.14 0.08
Matches are distributed among these distances:
126 100 0.22
127 2 0.00
129 1 0.00
132 1 0.00
135 1 0.00
138 1 0.00
139 4 0.01
140 227 0.51
141 108 0.24
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (139 bp):
GGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACTCT
TATACAAAGAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGTTTGGCCC
AAAAGTGTC
Found at i:33207166 original size:126 final size:127
Alignment explanation
Indices: 33206932--33207190 Score: 317
Period size: 126 Copynumber: 2.0 Consensus size: 127
33206922 GTGTTGGCCC
* * * ** * *
33206932 AAAAGTGTCGGCATAGTGTTGGACAAAGCTAACTCTTATTTAAGTGTTGCCTTTGGTATGCATAT
1 AAAAGTGCCGGCATAGTGTTGAACAAAGCTAACTCTTATATAAGCATTGCCTTAGGCATGCATAT
* ** * *
33206997 TCCAACTCTTATACAAAGAGTTGACCAAAACGTATGCCGACAAGTTTACCCCAGCACTTA-G
66 CCCAACTCTTATACAAAGAGTTGACCAAAACGTACACCAACAAGTTTACCCCAACACTTAGG
*
33207058 AAAAGTGCCGGCATAGTGTTGAACAAAGCCTAA-TCTTATATAAGCATTGTCTTAGGCATGCATA
1 AAAAGTGCCGGCATAGTGTTGAACAAAG-CTAACTCTTATATAAGCATTGCCTTAGGCATGCATA
* ** * *
33207122 TCCCAACTCTTATACAAAGGGTTGGA-CAAAGTGTACATCAACAAGTTTATCCCAACACTTAGG
65 TCCCAACTCTTATACAAAGAGTT-GACCAAAACGTACACCAACAAGTTTACCCCAACACTTAGG
33207185 AAAAGT
1 AAAAGT
33207191 TTCGGCCCAA
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
126 99 0.88
127 13 0.12
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (127 bp):
AAAAGTGCCGGCATAGTGTTGAACAAAGCTAACTCTTATATAAGCATTGCCTTAGGCATGCATAT
CCCAACTCTTATACAAAGAGTTGACCAAAACGTACACCAACAAGTTTACCCCAACACTTAGG
Found at i:33207308 original size:267 final size:266
Alignment explanation
Indices: 33206801--33207336 Score: 621
Period size: 267 Copynumber: 2.0 Consensus size: 266
33206791 AACACAAGTT
* * * ** **
33206801 GGCATAGTGTTGGACAAAACCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCTGATCCT
1 GGCATAGTGTTGAACAAAACCGAATCTTATATAAGCATTGCCTTAGGCATGCATATCCCAATCCT
* ** ***
33206866 TATACAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGGCC
66 TATACAAAGAGTTGGACAAAGCATACATCAACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCC
* * * * *
33206931 CAAAAGTGTCGGCATAGTGTTGGACAAAGCTAACTCTTATTTAAGTGTTGCCTTTGGTATGCATA
131 CAAAAGTGTCGGCATAGTGTTGGACAAAGCTAACTCCTATTTAAGCGTTGCCTTAGGCATACATA
* * * *
33206996 TTCCAACTCTTATACAAAGAGTTGACCAAAACGTATGCCGACAAGTTTACCCCAGCACTTAGAAA
196 TCCCAACTCTTATACAAAGAGTTGACCAAAACGTATACCGACAAGTCTACCCCAACACTTAGAAA
33207061 AGTGCC
261 AGTGCC
* * *
33207067 GGCATAGTGTTGAACAAAGCCTAATCTTATATAAGCATTGTCTTAGGCATGCATATCCCAA-CTC
1 GGCATAGTGTTGAACAAAACCGAATCTTATATAAGCATTGCCTTAGGCATGCATATCCCAATC-C
* ** *
33207131 TTATACAAAGGGTTGGACAAAGTGTACATCAACAAGTTTATCCCAACACTTAGGAAAAGT-TTCG
65 TTATACAAAGAGTTGGACAAAGCATACATCAACAAGTCTATCCCAACACTTAGG-AAAGTGTT-G
* * **
33207195 GCCCAAAAGTTTCGGCATAGTGTTGGATAAAG-TCGGCTCCTATTTAAGCGTTGCCTTAGGCATA
128 GCCCAAAAGTGTCGGCATAGTGTTGGACAAAGCT-AACTCCTATTTAAGCGTTGCCTTAGGCATA
* * ** ** *
33207259 CATATCCCAACTCTTATATAAAG-GATTGGCCAAAGTGTATATTGACAAGTCTATCCCAACACTT
192 CATATCCCAACTCTTATACAAAGAG-TTGACCAAAACGTATACCGACAAGTCTACCCCAACACTT
* *
33207323 AGGAAAGTGTC
256 AGAAAAGTGCC
33207334 GGC
1 GGC
33207337 CCAAAAGTGT
Statistics
Matches: 223, Mismatches: 42, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
265 1 0.00
266 100 0.45
267 122 0.55
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (266 bp):
GGCATAGTGTTGAACAAAACCGAATCTTATATAAGCATTGCCTTAGGCATGCATATCCCAATCCT
TATACAAAGAGTTGGACAAAGCATACATCAACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCC
CAAAAGTGTCGGCATAGTGTTGGACAAAGCTAACTCCTATTTAAGCGTTGCCTTAGGCATACATA
TCCCAACTCTTATACAAAGAGTTGACCAAAACGTATACCGACAAGTCTACCCCAACACTTAGAAA
AGTGCC
Found at i:33220830 original size:47 final size:49
Alignment explanation
Indices: 33220717--33220838 Score: 142
Period size: 48 Copynumber: 2.5 Consensus size: 49
33220707 ATAAGTTGCC
* * * * **
33220717 GATGCCATGTCCCAGATATAGTCTTATACTGGCTCTCATATATGCGTGAT
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCCCTCA-ATATGAATGAT
*
33220767 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTC-ATCTGAATGAT
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCCCTCAATATGAATGAT
*
33220813 GATGCCATGTCCCAGACATGGTCTTA
1 GATGCCATGTCCCAGACATAGTCTTA
33220839 TACTGGCGCA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 12 0.19
47 14 0.22
48 20 0.32
49 13 0.21
50 4 0.06
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATAGTCTTACACTAGCCCTCAATATGAATGAT
Found at i:33222284 original size:17 final size:17
Alignment explanation
Indices: 33222262--33222304 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
33222252 GGGCACATAC
33222262 CCGTGTGGCTCCCATGG
1 CCGTGTGGCTCCCATGG
33222279 CCGTGTGGCTCCCATGG
1 CCGTGTGGCTCCCATGG
33222296 CCGTGTGGC
1 CCGTGTGGC
33222305 CAGCCCGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.05, C:0.35, G:0.37, T:0.23
Consensus pattern (17 bp):
CCGTGTGGCTCCCATGG
Found at i:33222452 original size:40 final size:42
Alignment explanation
Indices: 33222389--33222466 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
33222379 ATGCAAGGGA
*
33222389 CACACGGTCTATCAACATGCCCGTGTG-CAAGCCGTGTGTCT
1 CACACGGTCTATCAACACGCCCGTGTGACAAGCCGTGTGTCT
*
33222430 CACAC-GTCTGATC-ACACGCCCGTGTGACATGCCGTGT
1 CACACGGTCT-ATCAACACGCCCGTGTGACAAGCCGTGT
33222467 AGACTCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 16 0.48
41 17 0.52
ACGTcount: A:0.19, C:0.33, G:0.24, T:0.23
Consensus pattern (42 bp):
CACACGGTCTATCAACACGCCCGTGTGACAAGCCGTGTGTCT
Found at i:33222736 original size:23 final size:24
Alignment explanation
Indices: 33222708--33222755 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
33222698 AGTGACTATT
33222708 TTATAAACATAA-TTTTGCTTATA
1 TTATAAACATAATTTTTGCTTATA
33222731 TTATAAACATAATTTTTGCTTATA
1 TTATAAACATAATTTTTGCTTATA
33222755 T
1 T
33222756 AGATTAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (24 bp):
TTATAAACATAATTTTTGCTTATA
Found at i:33223819 original size:23 final size:24
Alignment explanation
Indices: 33223766--33223819 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 24
33223756 CTTTTAATTA
*
33223766 TTAT-ATTATATTATTATTATATT
1 TTATAATTATATTATTATTATATC
33223789 TTAGTAATTAATATTATTATT-TA-C
1 TTA-TAATT-ATATTATTATTATATC
33223813 TTATAAT
1 TTATAAT
33223820 ATAAGTAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 7 0.26
24 4 0.15
25 5 0.19
26 11 0.41
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATAATTATATTATTATTATATC
Found at i:33225614 original size:3 final size:3
Alignment explanation
Indices: 33225606--33225674 Score: 93
Period size: 3 Copynumber: 23.0 Consensus size: 3
33225596 AAAAAGAAAT
* * * *
33225606 ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA ATA ATA ATG ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
33225654 ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
33225675 CAATGTTAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:33226755 original size:11 final size:12
Alignment explanation
Indices: 33226734--33226779 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 12
33226724 GCCATTCGTG
33226734 TTTGGGTTTTGT
1 TTTGGGTTTTGT
33226746 TTTGGG-TTTG-
1 TTTGGGTTTTGT
33226756 -TTGGGTTTTGT
1 TTTGGGTTTTGT
*
33226767 TTTGAG-TTTGT
1 TTTGGGTTTTGT
33226778 TT
1 TT
33226780 GGATTGGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 5 0.17
10 4 0.13
11 11 0.37
12 10 0.33
ACGTcount: A:0.02, C:0.00, G:0.33, T:0.65
Consensus pattern (12 bp):
TTTGGGTTTTGT
Found at i:33226761 original size:21 final size:21
Alignment explanation
Indices: 33226735--33226778 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
33226725 CCATTCGTGT
*
33226735 TTGGGTTTTGTTTTGGGTTTG
1 TTGGGTTTTGTTTTGAGTTTG
33226756 TTGGGTTTTGTTTTGAGTTTG
1 TTGGGTTTTGTTTTGAGTTTG
33226777 TT
1 TT
33226779 TGGATTGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.00, G:0.34, T:0.64
Consensus pattern (21 bp):
TTGGGTTTTGTTTTGAGTTTG
Found at i:33227830 original size:40 final size:41
Alignment explanation
Indices: 33227779--33227888 Score: 123
Period size: 41 Copynumber: 2.6 Consensus size: 41
33227769 GCAAAAAATG
* *
33227779 TAAAACACAGAGCAATAGTGGCGTTTTA-CCAAAAACGCCGT
1 TAAAA-ACAGAGCAATAGCGGCGTTTTATCCAAAAACGCCGC
* * *
33227820 TAAAAACAGAGCAATAGCGGTGTTTTATGCTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTATCCAAAAACGCCGC
* *
33227861 TAAAAACCAGGGCATTAGCGGCGCTTTT
1 TAAAAA-CAGAGCAATAGCGGCG-TTTT
33227889 GGTAAAATGC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 20 0.34
41 21 0.36
42 13 0.22
43 4 0.07
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCGTTTTATCCAAAAACGCCGC
Found at i:33227895 original size:41 final size:41
Alignment explanation
Indices: 33227810--33228070 Score: 290
Period size: 41 Copynumber: 6.4 Consensus size: 41
33227800 CGTTTTACCA
* * * * * *
33227810 AAAACGCCGTTAAAAA-CAGAGCAATAGCGGTGTTTTATGCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTT-CGGT
* *
33227851 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * * * **
33227892 AAAATGCTGCTAAGAACCAGAGCATTACCGGCGCTTTCTAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* ** *
33227933 AAAATGCCATTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
33227974 AAAACGCCGCTTAATACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * * *
33228015 AAAATGCCGCTAAAAACCAGAACATTAACGGCACTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
33228056 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
33228071 GTCATATAAC
Statistics
Matches: 186, Mismatches: 33, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
41 170 0.91
42 16 0.09
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
Found at i:33228070 original size:123 final size:123
Alignment explanation
Indices: 33227810--33228070 Score: 335
Period size: 123 Copynumber: 2.1 Consensus size: 123
33227800 CGTTTTACCA
* * * * *
33227810 AAAACGCCGTTAAAAACAGAGCAATAGCGGTGTTTTATGCTAAAACGCCGCTAAAAACCAGGGCA
1 AAAACGCCGTTAAAAACAGAGCAATAGCGGCGCTTTACGATAAAACGCCGCTAAAAACCAGAGCA
* * * * * * *
33227875 TTAGCGGCGCTTTTGGTAAAATGCTGCTAAGAACCAGAGCATTACCGGCGCTTTCTAT
66 TTAGCGGCGCTTTCGGTAAAATGCCGCTAAAAACCAGAACATTAACGGCACTTTCGAT
* * * * *
33227933 AAAATGCCATTAAAAACCAGAGCATTAGCGGCGCTTT-CGATAAAACGCCGCTTAATACCAGAGC
1 AAAACGCCGTTAAAAA-CAGAGCAATAGCGGCGCTTTACGATAAAACGCCGCTAAAAACCAGAGC
*
33227997 ATTAGCGGCGCTTTCGGTAAAATGCCGCTAAAAACCAGAACATTAACGGCACTTTCGGT
65 ATTAGCGGCGCTTTCGGTAAAATGCCGCTAAAAACCAGAACATTAACGGCACTTTCGAT
*
33228056 AAAACGCCGCTAAAA
1 AAAACGCCGTTAAAA
33228071 GTCATATAAC
Statistics
Matches: 116, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
123 99 0.85
124 17 0.15
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (123 bp):
AAAACGCCGTTAAAAACAGAGCAATAGCGGCGCTTTACGATAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTCGGTAAAATGCCGCTAAAAACCAGAACATTAACGGCACTTTCGAT
Found at i:33228257 original size:14 final size:14
Alignment explanation
Indices: 33228235--33228286 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
33228225 TTAATTATCA
*
33228235 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
33228249 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
33228263 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
33228277 TTAAGGTTTA
1 TTATGGTTTA
33228287 GGAGTTAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:33228349 original size:7 final size:7
Alignment explanation
Indices: 33228339--33228465 Score: 51
Period size: 7 Copynumber: 17.9 Consensus size: 7
33228329 TATGGATTAT
33228339 GGTTTAG
1 GGTTTAG
33228346 GGTTTAG
1 GGTTTAG
33228353 GGTTTAG
1 GGTTTAG
*
33228360 TG-TT-G
1 GGTTTAG
*
33228365 GAGTTTAA
1 G-GTTTAG
*
33228373 GGTGTAAG
1 GGT-TTAG
*
33228381 GGTTTGG
1 GGTTTAG
* *
33228388 GGCTAAG
1 GGTTTAG
* *
33228395 GGTTAAA
1 GGTTTAG
*
33228402 GGTTAAG
1 GGTTTAG
* *
33228409 AGTTTAA
1 GGTTTAG
33228416 GGTTTAG
1 GGTTTAG
**
33228423 TATTTAG
1 GGTTTAG
*
33228430 TGTTTATG
1 GGTTTA-G
* *
33228438 GGATAAG
1 GGTTTAG
*
33228445 GGTTAAG
1 GGTTTAG
33228452 AGGTTTAG
1 -GGTTTAG
33228460 GGTTTA
1 GGTTTA
33228466 AATTAATTAG
Statistics
Matches: 88, Mismatches: 26, Indels: 12
0.70 0.21 0.10
Matches are distributed among these distances:
5 1 0.01
6 3 0.03
7 68 0.77
8 16 0.18
ACGTcount: A:0.24, C:0.01, G:0.37, T:0.39
Consensus pattern (7 bp):
GGTTTAG
Found at i:33229793 original size:16 final size:16
Alignment explanation
Indices: 33229750--33229809 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
33229740 ATAATAAATT
33229750 TAAAAT-ATAATATATAA
1 TAAAATAATAAT-TAT-A
33229767 TAAAA-AATAATT-TA
1 TAAAATAATAATTATA
33229781 TAAGAATAATAATTATA
1 TAA-AATAATAATTATA
33229798 TAAAATATATAA
1 TAAAATA-ATAA
33229810 AATATATTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.11
15 3 0.08
16 12 0.32
17 19 0.50
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
TAAAATAATAATTATA
Found at i:33230322 original size:19 final size:19
Alignment explanation
Indices: 33230296--33230386 Score: 125
Period size: 19 Copynumber: 4.9 Consensus size: 19
33230286 AATCATATCT
* *
33230296 TCTAAGATAGTATATCATA
1 TCTAAGATTGCATATCATA
* *
33230315 TTTAAGATTGCA-ACCATA
1 TCTAAGATTGCATATCATA
33230333 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
33230350 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33230369 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
33230387 TGAAGATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.24
18 14 0.22
19 34 0.54
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:33230350 original size:35 final size:36
Alignment explanation
Indices: 33230308--33230378 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 36
33230298 TAAGATAGTA
*
33230308 TATCATATTTAAGATTGCA-ACCATATCTAAGATTG
1 TATCATATCTAAGATTGCATACCATATCTAAGATTG
*
33230343 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATACCATATCTAAGATTG
33230379 CATATCATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 18 0.55
36 15 0.45
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATACCATATCTAAGATTG
Found at i:33230393 original size:36 final size:35
Alignment explanation
Indices: 33230308--33230394 Score: 97
Period size: 36 Copynumber: 2.5 Consensus size: 35
33230298 TAAGATAGTA
**
33230308 TATCATATTTAAGATTGCAACCATATCTAAGATTG
1 TATCATATCGAAGATTGCAACCATATCTAAGATTG
* *
33230343 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCGAAGATTGCA-ACCATATCTAAGATTG
33230379 CATATCAT-T-GAAGATT
1 --TATCATATCGAAGATT
33230395 ATATTTCCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
35 18 0.39
36 21 0.46
37 1 0.02
38 6 0.13
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TATCATATCGAAGATTGCAACCATATCTAAGATTG
Found at i:33231845 original size:7 final size:7
Alignment explanation
Indices: 33231835--33231873 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
33231825 TGAAAATTTT
33231835 AAAATAA
1 AAAATAA
33231842 AAAATAA
1 AAAATAA
33231849 AAAATAA
1 AAAATAA
33231856 AAAATAA
1 AAAATAA
33231863 AAAATTAA
1 AAAA-TAA
33231871 AAA
1 AAA
33231874 CTTAAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:33231873 original size:16 final size:16
Alignment explanation
Indices: 33231840--33231904 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 16
33231830 ATTTTAAAAT
33231840 AAAAAATAAAAAA-T-
1 AAAAAATAAAAAATTA
33231854 AAAAAATAAAAAATTA
1 AAAAAATAAAAAATTA
** *
33231870 AAAACTTAAAAACTTA
1 AAAAAATAAAAAATTA
** *
33231886 AAAACTTAAAAACTTA
1 AAAAAATAAAAAATTA
33231902 AAA
1 AAA
33231905 TTTTAATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
14 13 0.28
15 1 0.02
16 32 0.70
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAAATAAAAAATTA
Found at i:33231878 original size:8 final size:8
Alignment explanation
Indices: 33231860--33231904 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
33231850 AAATAAAAAA
*
33231860 TAAAAAAT
1 TAAAAACT
33231868 TAAAAACT
1 TAAAAACT
33231876 TAAAAACT
1 TAAAAACT
33231884 TAAAAACT
1 TAAAAACT
33231892 TAAAAACT
1 TAAAAACT
33231900 TAAAA
1 TAAAA
33231905 TTTTAATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAAAACT
Found at i:33231910 original size:24 final size:24
Alignment explanation
Indices: 33231808--33231904 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 24
33231798 AAAAATGATA
* *
33231808 AAAAACTTCAAAAAAATTGAAAATTT
1 AAAAACTT--AAAAAATTAAAAACTT
* *
33231834 TAAAA--TAAAAAA-TAAAAA-AT
1 AAAAACTTAAAAAATTAAAAACTT
*
33231854 AAAAA-ATAAAAAATTAAAAACTT
1 AAAAACTTAAAAAATTAAAAACTT
*
33231877 AAAAACTTAAAAACTTAAAAACTT
1 AAAAACTTAAAAAATTAAAAACTT
33231901 AAAA
1 AAAA
33231905 TTTTAATATT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
20 5 0.08
21 12 0.20
22 12 0.20
23 6 0.10
24 21 0.35
26 4 0.07
ACGTcount: A:0.70, C:0.06, G:0.01, T:0.23
Consensus pattern (24 bp):
AAAAACTTAAAAAATTAAAAACTT
Found at i:33231978 original size:23 final size:24
Alignment explanation
Indices: 33231938--33231983 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
33231928 CATATTTCAA
* * *
33231938 TTAAAAAGATCAATATT-CAAAAT
1 TTAAAAAAATAAAAATTCCAAAAT
33231961 TTAAAAAAATAAAAATTCCAAAA
1 TTAAAAAAATAAAAATTCCAAAA
33231984 AATGATAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (24 bp):
TTAAAAAAATAAAAATTCCAAAAT
Found at i:33232175 original size:41 final size:42
Alignment explanation
Indices: 33232077--33232175 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 42
33232067 GTTTTTTCCA
* * *
33232077 AAAAATACCGTAAAAAAGTTGAGCTATAGTGACGTTTTTGGT
1 AAAAATGCCGCAAAAAAGTTGAGATATAGTGACGTTTTTGGT
* * ** **
33232119 GAAAACGTTGC-AAAAAGTTGAGATATAGTGGTGTTTTT-GT
1 AAAAATGCCGCAAAAAAGTTGAGATATAGTGACGTTTTTGGT
33232159 AAAAATGCCGCAAAAAA
1 AAAAATGCCGCAAAAAA
33232176 CTTTCACTCG
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
40 9 0.21
41 29 0.67
42 5 0.12
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (42 bp):
AAAAATGCCGCAAAAAAGTTGAGATATAGTGACGTTTTTGGT
Found at i:33237329 original size:9 final size:9
Alignment explanation
Indices: 33237315--33237351 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
33237305 TATACTTTGA
33237315 TATTCGAAT
1 TATTCGAAT
33237324 TATTCGAAT
1 TATTCGAAT
*
33237333 TATTCGAGT
1 TATTCGAAT
33237342 TATTCGAAT
1 TATTCGAAT
33237351 T
1 T
33237352 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33237824 original size:23 final size:23
Alignment explanation
Indices: 33237795--33238391 Score: 468
Period size: 23 Copynumber: 26.0 Consensus size: 23
33237785 TAGTAGTAAA
33237795 TGCTGCAAATTGAAGTGTTTAAG
1 TGCTGCAAATTGAAGTGTTTAAG
* *
33237818 TACTGCAATTTGAAGTGTTT-AG
1 TGCTGCAAATTGAAGTGTTTAAG
* *
33237840 TTGCTGGAAATTG-AGATGTTTTA-
1 -TGCTGCAAATTGAAG-TGTTTAAG
* * * * *
33237863 TCGTTG-TAATTGAGGTGTATAAA
1 T-GCTGCAAATTGAAGTGTTTAAG
* ** *
33237886 TGTTGTTAATTGATA-TGTTAAAG
1 TGCTGCAAATTGA-AGTGTTTAAG
33237909 TGCTGCAAATTGAAGTGTTTGAA-
1 TGCTGCAAATTGAAGTGTTT-AAG
* *
33237932 TGCTGTAAATTGAAGTGTTTAAA
1 TGCTGCAAATTGAAGTGTTTAAG
* ** * *
33237955 TGTTGTTAATTGAAATGTTAAAG
1 TGCTGCAAATTGAAGTGTTTAAG
33237978 TGCTGCAAATTGAAGTGTTTTAA-
1 TGCTGCAAATTGAAGTG-TTTAAG
* *
33238001 TGCTGTAAATTGAAGTGTTAAAG
1 TGCTGCAAATTGAAGTGTTTAAG
*
33238024 TGCTACAAATTGAAGTGTTTGAA-
1 TGCTGCAAATTGAAGTGTTT-AAG
* * *
33238047 TGTTGTAAATTGAAGTGTTTAAA
1 TGCTGCAAATTGAAGTGTTTAAG
* *
33238070 TGCTGTAAATTGAAGTGTTAAAG
1 TGCTGCAAATTGAAGTGTTTAAG
*
33238093 TGCTACAAATTGAAGTGTTTGAA-
1 TGCTGCAAATTGAAGTGTTT-AAG
* * * *
33238116 TGTTGTAAATTGAAGTATTTAAA
1 TGCTGCAAATTGAAGTGTTTAAG
* * *
33238139 TGCTGTAAATTGAAGTGCTTAAA
1 TGCTGCAAATTGAAGTGTTTAAG
*
33238162 TGTTGCAAATTGAAGTGTTTAAG
1 TGCTGCAAATTGAAGTGTTTAAG
*
33238185 TACTGCAAATTGAAGTGTTT-AG
1 TGCTGCAAATTGAAGTGTTTAAG
* * *
33238207 TTGCTGGACATTG-AGATGTTTTA-
1 -TGCTGCAAATTGAAG-TGTTTAAG
* * * *
33238230 TCGCTG-TAATTGAGGTGTATAAA
1 T-GCTGCAAATTGAAGTGTTTAAG
* ** *
33238253 TGTTGTTAATTGATA-TGTTAAAG
1 TGCTGCAAATTGA-AGTGTTTAAG
*
33238276 TGCTGCAAATTGAAGTGTTAAAG
1 TGCTGCAAATTGAAGTGTTTAAG
33238299 TGCTGCAAATTGAAGTGTTTGAA-
1 TGCTGCAAATTGAAGTGTTT-AAG
*
33238322 TGCTGCAAATTGAAGTGTTTAAA
1 TGCTGCAAATTGAAGTGTTTAAG
* * * *
33238345 TGTTGTAAATTGAAGTGCTTAAA
1 TGCTGCAAATTGAAGTGTTTAAG
*
33238368 TGTTGCAAATTGAAGTGTTTAAG
1 TGCTGCAAATTGAAGTGTTTAAG
33238391 T
1 T
33238392 ACTTATTTTG
Statistics
Matches: 467, Mismatches: 79, Indels: 56
0.78 0.13 0.09
Matches are distributed among these distances:
22 50 0.11
23 403 0.86
24 14 0.03
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.39
Consensus pattern (23 bp):
TGCTGCAAATTGAAGTGTTTAAG
Found at i:33238387 original size:69 final size:68
Alignment explanation
Indices: 33237791--33238389 Score: 552
Period size: 69 Copynumber: 8.7 Consensus size: 68
33237781 TATTTAGTAG
* * * * ** *
33237791 TAAATGCTGCAAATTGAAGTGTTTAAGTACTGCAATTTGAAGTGTTTAGTTGCTGGAAATTG-AG
1 TAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
33237855 ATGTT
65 -TGTT
* * * * **
33237860 T-TATCGTTGT-AATTGAGGTGTATAAATGTTGTTAATTGATA-TG-TTAAAGTGCTGCAAATTG
1 TAAAT-GCTGTAAATTGAAGTGT-TAAATGCTGCAAATTGA-AGTGTTTAAA-TGCTGCAAATTG
33237921 AAGTGTT
62 AAGTGTT
* * ** *
33237928 TGAATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATG-TTAAAGTGCTGCAAATTGAA
1 TAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAA-TGCTGCAAATTGAA
33237992 GTGTT
64 GTGTT
* * * * *
33237997 TTAATGCTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTGAATGTTGTAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
33238062 TGTT
65 TGTT
* * * *
33238066 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTGAATGTTGTAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
*
33238131 TATT
65 TGTT
* * *
33238135 TAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAG
1 TAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
33238200 TGTT
65 TGTT
** * * ** * * * * **
33238204 TAGTTGCTGGACATTG-AGATGTTTTATCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTGAT
1 TAAATGCTGTAAATTGAAG-TGTTAAAT-GCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGA-
33238267 A-TG-T
63 AGTGTT
* *
33238271 TAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAA
1 TAAA-TGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAA
33238336 GTGTT
64 GTGTT
* *
33238341 TAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
1 TAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAA
33238390 GTACTTATTT
Statistics
Matches: 441, Mismatches: 67, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
67 7 0.02
68 100 0.23
69 314 0.71
70 20 0.05
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (68 bp):
TAAATGCTGTAAATTGAAGTGTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGT
GTT
Found at i:33239168 original size:26 final size:26
Alignment explanation
Indices: 33239139--33239246 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
33239129 TGGTACAAAT
33239139 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
33239165 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33239191 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33239217 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33239243 TGAT
1 TGAT
33239247 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33244051 original size:18 final size:17
Alignment explanation
Indices: 33244028--33244074 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
33244018 TATTCTAATT
*
33244028 AATTATATAATTATTTTA
1 AATTAT-TAATTATATTA
*
33244046 AATTATTTATTATATTA
1 AATTATTAATTATATTA
*
33244063 AATGA-TAATTAT
1 AATTATTAATTAT
33244075 TTGTAATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 6 0.24
17 13 0.52
18 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTATTAATTATATTA
Found at i:33244057 original size:17 final size:17
Alignment explanation
Indices: 33244037--33244091 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
33244027 TAATTATATA
33244037 ATTATTTTAAATTATTT
1 ATTATTTTAAATTATTT
* * *
33244054 ATTATATTAAATGA-TA
1 ATTATTTTAAATTATTT
33244070 ATTATTTGT-AATTATTT
1 ATTATTT-TAAATTATTT
*
33244087 TTTAT
1 ATTAT
33244092 AGTTAATACA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 11 0.38
17 18 0.62
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
ATTATTTTAAATTATTT
Found at i:33244071 original size:33 final size:34
Alignment explanation
Indices: 33244034--33244097 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
33244024 AATTAATTAT
33244034 ATAATTATTT-TAAATTATTTATTATA-TTAAATG
1 ATAATTATTTGT-AATTATTTATTATAGTTAAATG
*
33244067 ATAATTATTTGTAATTATTTTTTATAGTTAA
1 ATAATTATTTGTAATTATTTATTATAGTTAA
33244098 TACATCTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (34 bp):
ATAATTATTTGTAATTATTTATTATAGTTAAATG
Found at i:33246802 original size:30 final size:30
Alignment explanation
Indices: 33246762--33246825 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
33246752 TGGGATTGAT
33246762 AAGACCTAATATCT-CATTCAGAAGCTTGGG
1 AAGACCTAATAT-TGCATTCAGAAGCTTGGG
* * *
33246792 AAGACTTAATATTGCATTTAGGAGCTTGGG
1 AAGACCTAATATTGCATTCAGAAGCTTGGG
33246822 AAGA
1 AAGA
33246826 TTCGATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (30 bp):
AAGACCTAATATTGCATTCAGAAGCTTGGG
Found at i:33247868 original size:15 final size:14
Alignment explanation
Indices: 33247848--33247886 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
33247838 AATTATTTTA
33247848 TTTTATAAGAATTAT
1 TTTTATAA-AATTAT
*
33247863 TTTTATTAAATTAT
1 TTTTATAAAATTAT
*
33247877 TTTTAGAAAA
1 TTTTATAAAA
33247887 AAAAATAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
TTTTATAAAATTAT
Found at i:33247987 original size:15 final size:15
Alignment explanation
Indices: 33247967--33248009 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
33247957 TTTTTGGTAA
33247967 ATTAAAAATTTAAAT
1 ATTAAAAATTTAAAT
*
33247982 ATTAAAAAGTTAAAT
1 ATTAAAAATTTAAAT
*
33247997 ATGAAAAATTTAA
1 ATTAAAAATTTAA
33248010 TTGTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (15 bp):
ATTAAAAATTTAAAT
Found at i:33251618 original size:7 final size:7
Alignment explanation
Indices: 33251608--33251632 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33251598 AGTCATTTCA
33251608 TATTTAG
1 TATTTAG
33251615 TATTTAG
1 TATTTAG
33251622 TATTTAG
1 TATTTAG
33251629 TATT
1 TATT
33251633 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:33252238 original size:18 final size:18
Alignment explanation
Indices: 33252215--33252257 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
33252205 TGTCAGGTGC
* *
33252215 GTATCCTAGCCTTTATAT
1 GTATCCTAACCCTTATAT
33252233 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
33252251 GTTTCCT
1 GTATCCT
33252258 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:33254396 original size:125 final size:125
Alignment explanation
Indices: 33254104--33254570 Score: 715
Period size: 125 Copynumber: 3.7 Consensus size: 125
33254094 TCCACATGAG
* * * *
33254104 AGCTTTTTTCAGTAATTTTACTGATAGTGCATCCTGCTTGAAGTGATTTTT-ACACTATTTGTTT
1 AGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTGCTTAAAGCG-TTTTTGACACTATTTGTTC
* * * * *
33254168 AGAAACATCTTCTCAAAATTATTTTTTTAGGAACTAC-AGTA-AAAAAAATTGCGTCTACGTGGG
65 AGAAACATCTTCTCAAAATTA-TTTTTCAGGAACTACTA-TAGAAAAAGA--GCGTCCATGTGGT
* * *
33254231 AGCATTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTAAAGCGTTTTTGACACTATTTGTTCA
1 AGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTGCTTAAAGCGTTTTTGACACTATTTGTTCA
33254296 GAAACATCTTCTCAAAATTATTTTTCAGGAACTACTATAGAAAAAGAGCGTCCATGTGGT
66 GAAACATCTTCTCAAAATTATTTTTCAGGAACTACTATAGAAAAAGAGCGTCCATGTGGT
*
33254356 AGCTTTTTTTAGTAATTTTGCTGATAGTGCATCCTGCTTAAAGCGTTTTTGACACTATTTGTTCA
1 AGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTGCTTAAAGCGTTTTTGACACTATTTGTTCA
33254421 GAAACATCTTCTCAAAATTATTTTTCAGGAACTACTATAGAAAAAGAGCGTCCATGTGGT
66 GAAACATCTTCTCAAAATTATTTTTCAGGAACTACTATAGAAAAAGAGCGTCCATGTGGT
* *
33254481 AGCTTTTTTTAGTAATTTTGCTGATAGTGCATCCTGCTTAAAGCGTTTTTGACACTATTTGTTTA
1 AGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTGCTTAAAGCGTTTTTGACACTATTTGTTCA
**
33254546 GAAAGGTCTTCTCAAAATTATTTTT
66 GAAACATCTTCTCAAAATTATTTTT
33254571 TGGGGTAAAA
Statistics
Matches: 318, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
125 218 0.69
126 21 0.07
127 79 0.25
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (125 bp):
AGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTGCTTAAAGCGTTTTTGACACTATTTGTTCA
GAAACATCTTCTCAAAATTATTTTTCAGGAACTACTATAGAAAAAGAGCGTCCATGTGGT
Found at i:33254723 original size:34 final size:33
Alignment explanation
Indices: 33254631--33254756 Score: 128
Period size: 34 Copynumber: 3.7 Consensus size: 33
33254621 TTTGAAAAAA
*
33254631 CTAAACCCTAATTTAATTAACTTTAACCTT-AAACC
1 CTAAACCCTAATTTAATTAA-TTT-A-TTTAAAACC
* * *
33254666 CTAATCTCTAATTTAATTTATTTATTTAAAACC
1 CTAAACCCTAATTTAATTAATTTATTTAAAACC
* *
33254699 CTTAAACCCTAATTTACTTAATTTATTTAAAAATC
1 C-TAAACCCTAATTTAATTAATTTATTT-AAAACC
* *
33254734 ATAAACCTTAATTTAATTAATTT
1 CTAAACCCTAATTTAATTAATTT
33254757 TTAAAAAAGA
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.03
33 7 0.09
34 45 0.59
35 22 0.29
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (33 bp):
CTAAACCCTAATTTAATTAATTTATTTAAAACC
Found at i:33254854 original size:15 final size:15
Alignment explanation
Indices: 33254834--33254872 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
33254824 TTATTTTAGC
* *
33254834 AAAACCCTAACCCTA
1 AAAACCCTAAACCAA
33254849 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
*
33254864 AAAATCCTA
1 AAAACCCTA
33254873 GGGACTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:33255127 original size:29 final size:29
Alignment explanation
Indices: 33255068--33255128 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
33255058 CGTTTTGCCA
* *
33255068 AAATCGGTCCTTTTCGATAAATAATGCTG
1 AAATCGGTCCTTTCCGATAAATAATACTG
33255097 AAATCGGTCCATTTCCG-TAAAT-ATACTTG
1 AAATCGGTCC-TTTCCGATAAATAATAC-TG
33255126 AAA
1 AAA
33255129 ATGGGCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 20 0.71
30 5 0.18
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (29 bp):
AAATCGGTCCTTTCCGATAAATAATACTG
Found at i:33258196 original size:17 final size:18
Alignment explanation
Indices: 33258174--33258210 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
33258164 GATAAAGACT
33258174 AAACCCCGAAAACCC-AA
1 AAACCCCGAAAACCCGAA
33258191 AAACCCCGAAAACCCGAA
1 AAACCCCGAAAACCCGAA
33258209 AA
1 AA
33258211 TAAAGAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.54, C:0.38, G:0.08, T:0.00
Consensus pattern (18 bp):
AAACCCCGAAAACCCGAA
Found at i:33259586 original size:9 final size:9
Alignment explanation
Indices: 33259563--33259759 Score: 83
Period size: 10 Copynumber: 20.4 Consensus size: 9
33259553 CTAATTTAAG
33259563 TTTTTATAA
1 TTTTTATAA
33259572 TTTTTTTATAA
1 --TTTTTATAA
33259583 -TTTTATAA
1 TTTTTATAA
*
33259591 TTTATATCAA
1 TTTTTAT-AA
* *
33259601 TTTTAATAC
1 TTTTTATAA
* *
33259610 TTTTTTTAT
1 TTTTTATAA
*
33259619 TTTTTATGA
1 TTTTTATAA
33259628 TTTTTATAGA
1 TTTTTATA-A
* * *
33259638 ATTTAATATG
1 TTTTTATA-A
33259648 TTTTTATAA
1 TTTTTATAA
33259657 TATTTTA-AA
1 T-TTTTATAA
* *
33259666 TATTTTGGTTA
1 T-TTTT-ATAA
*
33259677 CTTTTATAA
1 TTTTTATAA
* *
33259686 TTTGTTAGAT
1 TTT-TTATAA
*
33259696 TTTTTTTACA
1 TTTTTATA-A
*
33259706 TCTTTTACAA
1 T-TTTTATAA
*
33259716 TTCTTATAAA
1 TTTTTAT-AA
33259726 TTTTTATAA
1 TTTTTATAA
*
33259735 GTTTATATCAA
1 -TTTTTAT-AA
33259746 TTTTTATATA
1 TTTTTATA-A
33259756 TTTT
1 TTTT
33259760 AATATTTAAT
Statistics
Matches: 137, Mismatches: 36, Indels: 27
0.69 0.18 0.14
Matches are distributed among these distances:
8 8 0.06
9 48 0.35
10 64 0.47
11 17 0.12
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:33259614 original size:37 final size:36
Alignment explanation
Indices: 33259569--33259657 Score: 85
Period size: 37 Copynumber: 2.4 Consensus size: 36
33259559 TAAGTTTTTA
*
33259569 TAAT-TTTTTTATAATTTTATAATTTATATCA-ATTT
1 TAATATTTTTTATAATTTTATAATTTATAT-AGAATT
* * *
33259604 TAATACTTTTTT-TATTTTTTATGATTTTTATAGAATT
1 TAATA-TTTTTTATA-ATTTTATAATTTATATAGAATT
33259641 TAATATGTTTTTATAAT
1 TAATAT-TTTTTATAAT
33259658 ATTTTAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
35 4 0.09
36 4 0.09
37 33 0.77
38 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.63
Consensus pattern (36 bp):
TAATATTTTTTATAATTTTATAATTTATATAGAATT
Found at i:33260661 original size:16 final size:18
Alignment explanation
Indices: 33260640--33260672 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33260630 TTAAACATAA
33260640 AATTAA-AC-AAATTCAC
1 AATTAACACTAAATTCAC
33260656 AATTAACACTAAATTCA
1 AATTAACACTAAATTCA
33260673 TTCTCTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTAACACTAAATTCAC
Found at i:33261468 original size:14 final size:15
Alignment explanation
Indices: 33261436--33261468 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
33261426 TTCACGTTAG
33261436 TTCTTTTCTTCTTCC
1 TTCTTTTCTTCTTCC
33261451 -TCTTTTCTT-TTCC
1 TTCTTTTCTTCTTCC
33261464 TTCTT
1 TTCTT
33261469 CCTTTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTTTTCTTCTTCC
Found at i:33261474 original size:17 final size:20
Alignment explanation
Indices: 33261436--33261501 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 20
33261426 TTCACGTTAG
33261436 TTCTTTT-CTTCTTCCTCTT
1 TTCTTTTCCTTCTTCCTCTT
33261455 TTCTTTTCCTTCTTCCTTTCTT
1 TTCTTTTCCTTCTTCC--TCTT
* *
33261477 TTC-TTTCCTTGTT-CTTTT
1 TTCTTTTCCTTCTTCCTCTT
33261495 TTCTTTT
1 TTCTTTT
33261502 TGCTTGTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 6 0.15
19 10 0.24
20 9 0.22
21 9 0.22
22 7 0.17
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (20 bp):
TTCTTTTCCTTCTTCCTCTT
Found at i:33263017 original size:3 final size:3
Alignment explanation
Indices: 33263009--33263041 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
33262999 TTTATCTGCT
33263009 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33263042 CCATTGGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33265796 original size:11 final size:10
Alignment explanation
Indices: 33265757--33265807 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
33265747 TCACACCATG
33265757 CTTCCTTTTT
1 CTTCCTTTTT
*
33265767 CCTCTCTTTTT
1 CTTC-CTTTTT
* *
33265778 -TTCATTTTC
1 CTTCCTTTTT
33265787 CTTCCTTTTT
1 CTTCCTTTTT
33265797 CTCTCCTTTTT
1 CT-TCCTTTTT
33265808 GTTTTTCTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
9 4 0.12
10 14 0.44
11 14 0.44
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (10 bp):
CTTCCTTTTT
Found at i:33277172 original size:18 final size:18
Alignment explanation
Indices: 33277151--33277194 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
33277141 TGAATAAATT
*
33277151 TCAAATATAAAATATTCA
1 TCAAATATAAAATACTCA
33277169 TCAATTATATAAAATACTCA
1 TCAA--ATATAAAATACTCA
33277189 T-AAATA
1 TCAAATA
33277195 AACTCCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 3 0.13
18 4 0.17
19 2 0.09
20 14 0.61
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
TCAAATATAAAATACTCA
Found at i:33285661 original size:13 final size:13
Alignment explanation
Indices: 33285645--33285697 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
33285635 TTTAAACCAA
33285645 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
* *
33285658 ACTTATCAAAAGC
1 ACTTTTCAAAAGT
*
33285671 ACTTTTGAAAAGT
1 ACTTTTCAAAAGT
33285684 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
33285697 A
1 A
33285698 TTGCCAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:33287943 original size:17 final size:17
Alignment explanation
Indices: 33287903--33287940 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
33287893 AAGGAATAGT
33287903 AAAATA-TTAAAAATAA
1 AAAATATTTAAAAATAA
33287919 ATAAATATTTAAAAAATAA
1 A-AAATATTT-AAAAATAA
33287938 AAA
1 AAA
33287941 TATGTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.05
17 5 0.26
18 4 0.21
19 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATATTTAAAAATAA
Found at i:33292302 original size:14 final size:15
Alignment explanation
Indices: 33292276--33292315 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
33292266 TTAATTAAAC
33292276 AATAATAATAATGGT
1 AATAATAATAATGGT
33292291 AATAATAA-AATGGT
1 AATAATAATAATGGT
*
33292305 AATACTAATAA
1 AATAATAATAA
33292316 AATGTGCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (15 bp):
AATAATAATAATGGT
Found at i:33292442 original size:14 final size:14
Alignment explanation
Indices: 33292423--33292454 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33292413 ATATTAATAG
33292423 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
*
33292437 AAAAAAATAAGAAT
1 AAAAAAATAAAAAT
33292451 AAAA
1 AAAA
33292455 TGCGCAGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:33293257 original size:17 final size:18
Alignment explanation
Indices: 33293216--33293257 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
33293206 TTTCTTTTTT
*
33293216 TAAAAAAAGCTAGTAAAA
1 TAAAAAAAGCTAGAAAAA
*
33293234 -AATAAAAGC-AGAAAAA
1 TAAAAAAAGCTAGAAAAA
33293250 TAAAAAAA
1 TAAAAAAA
33293258 CAACCTTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.12
Consensus pattern (18 bp):
TAAAAAAAGCTAGAAAAA
Found at i:33294037 original size:51 final size:51
Alignment explanation
Indices: 33293977--33294074 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
33293967 TGGAGATAAG
* * *
33293977 ATTTATAGCTTTAATCTACTCTACTGCAATTTCAGAGAGATAAGATTTGTA
1 ATTTATAGCTTTAATCTACTCCACTGCAACTTCAGAGAAATAAGATTTGTA
** *
33294028 ATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
1 ATTTATAGCTTTAATCTACTCCACTGCAACTTCAGAGAAATAAGATT
33294075 CGTTATTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (51 bp):
ATTTATAGCTTTAATCTACTCCACTGCAACTTCAGAGAAATAAGATTTGTA
Found at i:33294116 original size:45 final size:44
Alignment explanation
Indices: 33293939--33294469 Score: 315
Period size: 44 Copynumber: 11.9 Consensus size: 44
33293929 GATATTAATA
* * * *
33293939 ACTTCAATCTGCTCCACTTGCGACTTCATGGAGATAAGATTT-AT
1 ACTTTAATCTGCTCCAC-TGCAACTTCAGGGAGATAAGATTTGTT
* * * *
33293983 AGCTTTAATCTACTCTACTGCAATTTCAGAGAGATAAGATTTGTAATTTAT
1 A-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-----T-T
* * *
33294034 AGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTT
1 A-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTT
* * * *
33294079 ATTTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTA
1 ACTTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTT
* * * * * * * *
33294124 ACTTTAACCTGCCCCACTACAACTTAAGAGAGATAAGGTTTATA
1 ACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTT
* * * * * *
33294168 ACTTTAATCTACTCTATTGCAACTTTAGAGAGATAAGATTTGCT
1 ACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTT
* * * ** ***
33294212 ATCTTCAATCTACTCGACTGCAA-TT-A--GATTTGTCATTTG-T
1 A-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTT
* * * * * *
33294252 AGCTTTAATCAT--TCCACTGCAATTTCAGGGAAATAAAACTCGCT
1 A-CTTTAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTT
* * * * *
33294296 ATCTTTAGTCTGCTCCACTTCAACTTTAGGGAGATAAGACTTGTA
1 A-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTT
* * * *
33294341 ACTTTAACCTGCCCCATTGCAACTTCAGGGAGATAAGATTT-AT
1 ACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTT
* * * *
33294384 AGCTTTAATCTGCTCTACTGCAATTTCAGAGAGATAAGATTTGCT
1 A-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTT
* * * *
33294429 ATCTTCAATTTACTCCACTGCAACTTCAGGGAGATGAGATT
1 A-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
33294470 CGCCATTATC
Statistics
Matches: 372, Mismatches: 95, Indels: 39
0.74 0.19 0.08
Matches are distributed among these distances:
39 9 0.02
40 11 0.03
41 10 0.03
43 9 0.02
44 166 0.45
45 129 0.35
46 1 0.00
51 37 0.10
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
ACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTT
Found at i:33294380 original size:173 final size:171
Alignment explanation
Indices: 33294092--33294408 Score: 391
Period size: 173 Copynumber: 1.8 Consensus size: 171
33294082 TTCAGTCTGC
* * *
33294092 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCTGCCCCACTACAACTTAAGAGAGA
1 TCCACTGCAACTTCAGGGAAATAAAACTCGTAACTTTAACCTGCCCCACTACAACTTAAGAGAGA
** * * * * * *
33294157 TAAGGTTTATAACTTTAATCTACTCTATTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATC
66 TAAGACTTATAACTTTAACCTACCCCATTGCAACTTCAGAGAGATAAGATTT-ATAGCTTCAATC
33294222 TACTCGACTGCAATTAGATTTGTCATTTGTAGCTTTAATCAT
130 TACTCGACTGCAATTAGATTTGTCATTTGTAGCTTTAATCAT
* * ** * * * *
33294264 TCCACTGCAATTTCAGGGAAATAAAACTCGCTATCTTTAGTCTGCTCCACTTCAACTTTAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAAACTCG-TAACTTTAACCTGCCCCACTACAACTTAAGAGAG
* * * *
33294329 ATAAGACTTGTAACTTTAACCTGCCCCATTGCAACTTCAGGGAGATAAGATTTATAGCTTTAATC
65 ATAAGACTTATAACTTTAACCTACCCCATTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATC
* *
33294394 TGCTCTACTGCAATT
130 TACTCGACTGCAATT
33294409 TCAGAGAGAT
Statistics
Matches: 119, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
172 48 0.40
173 71 0.60
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (171 bp):
TCCACTGCAACTTCAGGGAAATAAAACTCGTAACTTTAACCTGCCCCACTACAACTTAAGAGAGA
TAAGACTTATAACTTTAACCTACCCCATTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATCT
ACTCGACTGCAATTAGATTTGTCATTTGTAGCTTTAATCAT
Found at i:33294397 original size:88 final size:89
Alignment explanation
Indices: 33294298--33294469 Score: 204
Period size: 89 Copynumber: 1.9 Consensus size: 89
33294288 AACTCGCTAT
* * * * * *
33294298 CTTTAGTCTGCTCCACTTCAACTTT-AGGGAGATAAGACTTG-TAACTTTAACCTGCCCCATTGC
1 CTTTAATCTGCTCCACTGCAA-TTTCAGAGAGATAAGACTTGCTAACTTCAACCTACCCCACTGC
33294361 AACTTCAGGGAGATAAGATTTATAG
65 AACTTCAGGGAGATAAGATTTATAG
* * * ** *
33294386 CTTTAATCTGCTCTACTGCAATTTCAGAGAGATAAGATTTGCTATCTTCAATTTACTCCACTGCA
1 CTTTAATCTGCTCCACTGCAATTTCAGAGAGATAAGACTTGCTAACTTCAACCTACCCCACTGCA
*
33294451 ACTTCAGGGAGATGAGATT
66 ACTTCAGGGAGATAAGATT
33294470 CGCCATTATC
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
87 3 0.04
88 32 0.46
89 34 0.49
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (89 bp):
CTTTAATCTGCTCCACTGCAATTTCAGAGAGATAAGACTTGCTAACTTCAACCTACCCCACTGCA
ACTTCAGGGAGATAAGATTTATAG
Found at i:33294421 original size:217 final size:218
Alignment explanation
Indices: 33294019--33294451 Score: 656
Period size: 217 Copynumber: 2.0 Consensus size: 218
33294009 CAGAGAGATA
* * * *
33294019 AGATTTGTAATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTTATTTT
1 AGATTTGTAATTTATAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAAACTCGCTATTTT
33294084 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCTGCCCCACTACAACTT
66 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCTGCCCCACTACAACTT
* *
33294149 AAGAGAGATAAGGTTTATAACTTTAATCTACTCTATTGCAACTTTAGAGAGATAAGATTTGCTAT
131 AAGAGAGATAAGATTTATAACTTTAATCTACTCTACTGCAACTTTAGAGAGATAAGATTTGCTAT
*
33294214 CTTCAATCTACTCGACTGCAATT
196 CTTCAATCTACTCCACTGCAATT
* * *
33294237 AGATTTGTCATTTGTAGCTTTAATC-ATTCCACTGCAATTTCAGGGAAATAAAACTCGCTATCTT
1 AGATTTGTAATTTATAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAAACTCGCTAT-TT
* * * *
33294301 T-AGTCTGCTCCACTTCAACTTTAGGGAGATAAGACTTGTAACTTTAACCTGCCCCATTGCAACT
65 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCTGCCCCACTACAACT
* * * *
33294365 TCAGGGAGATAAGATTTATAGCTTTAATCTGCTCTACTGCAA-TTTCAGAGAGATAAGATTTGCT
130 TAAGAGAGATAAGATTTATAACTTTAATCTACTCTACTGCAACTTT-AGAGAGATAAGATTTGCT
*
33294429 ATCTTCAATTTACTCCACTGCAA
194 ATCTTCAATCTACTCCACTGCAA
33294452 CTTCAGGGAG
Statistics
Matches: 194, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
216 3 0.02
217 165 0.85
218 26 0.13
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (218 bp):
AGATTTGTAATTTATAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAAACTCGCTATTTT
CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCTGCCCCACTACAACTT
AAGAGAGATAAGATTTATAACTTTAATCTACTCTACTGCAACTTTAGAGAGATAAGATTTGCTAT
CTTCAATCTACTCCACTGCAATT
Found at i:33296782 original size:27 final size:25
Alignment explanation
Indices: 33296742--33296836 Score: 82
Period size: 27 Copynumber: 3.6 Consensus size: 25
33296732 AGCATGGCTG
* *
33296742 CCAGAACAAATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTG-TAGAGCCA
*
33296768 CCAGATACAGATAATCGTGTCAGAACCA
1 CCAGA-ACAGATAAT-GTGT-AGAGCCA
* *
33296796 CTAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGT-GTAGAGCCA
*
33296823 CCAGATCAGATAAT
1 CCAGAACAGATAAT
33296837 TGTGGCATAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
26 7 0.12
27 34 0.61
28 15 0.27
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (25 bp):
CCAGAACAGATAATGTGTAGAGCCA
Found at i:33296840 original size:27 final size:27
Alignment explanation
Indices: 33296761--33296852 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
33296751 ATAATGTGAT
* * *
33296761 AGAGTCACCAGATACAGATAATCGTGTC
1 AGAGCCACCAGAT-CAGATAATTGTGGC
* * *
33296789 AGAACCACTAGAACAGAT-ATATGTGGC
1 AGAGCCACCAGATCAGATAAT-TGTGGC
33296816 AGAGCCACCAGATCAGATAATTGTGGC
1 AGAGCCACCAGATCAGATAATTGTGGC
*
33296843 ATAGCCACCA
1 AGAGCCACCA
33296853 AGACGCTTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.04
27 39 0.75
28 11 0.21
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (27 bp):
AGAGCCACCAGATCAGATAATTGTGGC
Found at i:33300447 original size:24 final size:24
Alignment explanation
Indices: 33300412--33300485 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
33300402 ACACAGTTCA
*
33300412 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTGATCAGCTCCTAAATCCTCT
*
33300436 CCCTGATTAGCTCCTAAATCCTCT
1 CCCTGATCAGCTCCTAAATCCTCT
* *
33300460 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTGATCAGCTCCTAAATCCTCT
33300484 CC
1 CC
33300486 AGACAGACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.22, C:0.41, G:0.05, T:0.32
Consensus pattern (24 bp):
CCCTGATCAGCTCCTAAATCCTCT
Found at i:33305747 original size:15 final size:16
Alignment explanation
Indices: 33305722--33305752 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
33305712 CACATTATAC
33305722 TTTTCAAACTTTGGAG
1 TTTTCAAACTTTGGAG
33305738 TTTT-AAACTTTGGAG
1 TTTTCAAACTTTGGAG
33305753 GGAGCACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (16 bp):
TTTTCAAACTTTGGAG
Found at i:33307137 original size:20 final size:20
Alignment explanation
Indices: 33307114--33307151 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33307104 TTAAATTTCA
*
33307114 AAAGATAAATACAAATAATT
1 AAAGATAAATAAAAATAATT
33307134 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
33307152 ATCCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:33323425 original size:21 final size:21
Alignment explanation
Indices: 33323382--33323427 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
33323372 ACTGACTTTG
*
33323382 ATCTCACAACTACAGTATCTA
1 ATCTCACAACTACAATATCTA
*
33323403 ATCTCACAACTCCAATAAT-TA
1 ATCTCACAACTACAAT-ATCTA
33323424 ATCT
1 ATCT
33323428 TGCTACCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.39, C:0.28, G:0.02, T:0.30
Consensus pattern (21 bp):
ATCTCACAACTACAATATCTA
Found at i:33326352 original size:20 final size:20
Alignment explanation
Indices: 33326302--33326352 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
33326292 TTTTCTCTTA
** *
33326302 AAAAAATTT-AAATCCAACT
1 AAAAAATTTAAAATAAAAAT
*
33326321 AAAAATACTTAAAATAAAAAT
1 AAAAA-ATTTAAAATAAAAAT
33326342 AAAAAATTTAA
1 AAAAAATTTAA
33326353 TTTATTATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.20
20 8 0.32
21 12 0.48
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAAATTTAAAATAAAAAT
Found at i:33333486 original size:45 final size:44
Alignment explanation
Indices: 33333421--33333531 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 44
33333411 AGCAGTAACA
* *
33333421 GTAACAGTAACGGTAGCAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACGATAACAGTATTCAACACACAAAGTGTC-GAAT-T
33333466 GTAACAGTAACGATAACAGTATTCAACACACAAAGTGTCGAATT
1 GTAACAGTAACGATAACAGTATTCAACACACAAAGTGTCGAATT
33333510 GATAACAGTAACGATAACAGTA
1 G-TAACAGTAACGATAACAGTA
33333532 ACAGTAGTCG
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 2 0.03
45 59 0.95
46 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (44 bp):
GTAACAGTAACGATAACAGTATTCAACACACAAAGTGTCGAATT
Found at i:33335107 original size:20 final size:20
Alignment explanation
Indices: 33335084--33335122 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
33335074 AAAACCATAA
33335084 CAATTA-ATAATTATAATATT
1 CAATTATATAA-TATAATATT
33335104 CAATTATATAATATAATAT
1 CAATTATATAATATAATAT
33335123 ATATATAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
CAATTATATAATATAATATT
Found at i:33339936 original size:19 final size:20
Alignment explanation
Indices: 33339898--33339937 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
33339888 CCTGCAAAAT
33339898 AGAAACAGAAAAGAAAGCAA
1 AGAAACAGAAAAGAAAGCAA
* *
33339918 AGAAGCAGAAACG-AAGCAA
1 AGAAACAGAAAAGAAAGCAA
33339937 A
1 A
33339938 ATAGTAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.65, C:0.12, G:0.23, T:0.00
Consensus pattern (20 bp):
AGAAACAGAAAAGAAAGCAA
Found at i:33341248 original size:21 final size:22
Alignment explanation
Indices: 33341224--33341264 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
33341214 TAAACGAGTT
* *
33341224 AACATATTTCTTTT-TTTTAAA
1 AACACATTTATTTTATTTTAAA
33341245 AACACATTTATTTTATTTTA
1 AACACATTTATTTTATTTTA
33341265 TTTTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (22 bp):
AACACATTTATTTTATTTTAAA
Found at i:33341292 original size:18 final size:17
Alignment explanation
Indices: 33341271--33341318 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
33341261 TTTATTTTAT
33341271 TATTATATATATCATCAC
1 TATTATAT-TATCATCAC
*
33341289 TATTGATATTATCATTAC
1 TATT-ATATTATCATCAC
33341307 TATTATCATTAT
1 TATTAT-ATTAT
33341319 TTTTATCTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 21 0.78
19 4 0.15
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTATATTATCATCAC
Found at i:33345449 original size:19 final size:19
Alignment explanation
Indices: 33345422--33345465 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
33345412 TTTTTTTGCA
* *
33345422 TTCATTCATTTGCACTACAT
1 TTCA-TCATATGCACTAAAT
33345442 TTCATCATATGCACTAAAT
1 TTCATCATATGCACTAAAT
33345461 TTCAT
1 TTCAT
33345466 GAAAAGGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (19 bp):
TTCATCATATGCACTAAAT
Found at i:33353471 original size:51 final size:46
Alignment explanation
Indices: 33353075--33353667 Score: 298
Period size: 51 Copynumber: 12.8 Consensus size: 46
33353065 AAATTCACAG
* **
33353075 TCTTATCTCCCTGAAGTTGCAGTGGAACAGGCTGAA--GATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGATA-CAAA
* * * * * * *
33353120 TCTTATTTCCCTAAAGTTGTAGTAGAACAGATTGAAGCTATAAATTACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---T-GA-TACAAA
* * * * *
33353171 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCAA---A-ACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGATACAAA
* ** *
33353212 TCTTATCTCCCTGAAGTTGCAATGGAGCAGGCT-AA-AGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGATA-CAAA
* * * * * *
33353257 TCTTATCTTCCTGAAGTTGCAATTGAACAGATT-AAGGATATAAATTACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-G---T-GA-TACAAA
* * * * * *
33353308 TCTTATCTCTCTGAAGTTGCAATAGAGCAGA-TCAA---A-ATAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGATACAAA
* * * * *
33353349 TTTTATCTTCCTAAAGTTACAGTGGAGCAGACTGAA--GATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGATA-CAAA
*
33353394 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGTTGGAAATCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T-G--AT-ACAAA
* * * *
33353445 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGT--TACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGATACAAA
* * *
33353489 TCTTATCTCCCTTAAGTTGCAGTGGAGCAGACTGAA--GATAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGATA-CAAA
* * * * *
33353534 TCTTATCTCCTTGGAGTTACAGTGGAGTAGATTGAAGCTAGAAATTACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T-G--A-TACAAA
* * *
33353585 -CATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAA--GCTACAAG
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGATACAAA
* *
33353629 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTG
33353668 GAGCATATTG
Statistics
Matches: 419, Mismatches: 84, Indels: 89
0.71 0.14 0.15
Matches are distributed among these distances:
41 57 0.14
42 4 0.01
43 4 0.01
44 74 0.18
45 129 0.31
46 1 0.00
47 1 0.00
49 2 0.00
50 6 0.01
51 134 0.32
52 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGATACAAA
Found at i:33353509 original size:44 final size:44
Alignment explanation
Indices: 33353446--33353659 Score: 198
Period size: 44 Copynumber: 4.7 Consensus size: 44
33353436 AATCACAAAC
*
33353446 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGT
* * * *
33353490 CTTATCTCCCTTAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-C-AAGT
* * * * *
33353535 CTTATCTCCTTGGAGTTACAGTGGAGTAGATTGAAGCTAGAAATTAC-AGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA---AG---TTACAAGT
* * *
33353585 CATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCTACAAGT
1 C-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGT
*
33353630 CTTATCTTCCTGAAGTTGCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
33353660 CTGAAGTGGA
Statistics
Matches: 134, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
44 64 0.48
45 31 0.23
46 3 0.02
47 2 0.01
49 3 0.02
50 2 0.01
51 27 0.20
52 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGT
Found at i:33353540 original size:140 final size:137
Alignment explanation
Indices: 33353073--33353665 Score: 684
Period size: 137 Copynumber: 4.3 Consensus size: 137
33353063 GTAAATTCAC
* * * *
33353073 AGTCTTATCTCCCTGAAGTTGCAGTGGAACAGGCTGAAGATAGCAAATCTTATTTCCCTAAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
* * * * * *
33353138 GTAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
66 GCAGTGGAACAGATTGAAGCTAGAAATTACAGACCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
33353203 CAAAACA
131 CAAAACA
* * * *
33353210 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGGCTAAAGATAGCAAATCTTATCTTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
* * * * * * *
33353275 GCAATTGAACAGATT-AAGGATATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGA
66 GCAGTGGAACAGATTGAA-GCTAGAAATTACAGACCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
*
33353339 TCAAAATA
130 TCAAAACA
* * * *
33353347 AGTTTTATCTTCCTAAAGTTACAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
* * * * * * * *
33353412 GCAGTGGAGCAGATTTAAGTTGGAAATCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGT
66 GCAGTGGAACAGATTGAAGCTAGAAATTACAGACCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
*
33353477 TAAAGTTACA
131 CAAA---ACA
* * * *
33353487 AGTCTTATCTCCCTTAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCTTGGAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
* ** * * *
33353552 ACAGTGGAGTAGATTGAAGCTAGAAATTACAGACATTATCTCCCTGAAGTTGCAGTGGAGCAGGT
66 GCAGTGGAACAGATTGAAGCTAGAAATTACAGACCTTATCTCCCTGAAGTTGCAGTAGAGCA-GA
* *
33353617 TGAAGCTACA
130 TCAA--AACA
*
33353627 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
33353666 TGGAGCATAT
Statistics
Matches: 392, Mismatches: 56, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
136 2 0.01
137 230 0.59
138 2 0.01
140 154 0.39
141 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (137 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAACAGATTGAAGCTAGAAATTACAGACCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
CAAAACA
Found at i:33353602 original size:96 final size:95
Alignment explanation
Indices: 33353214--33353665 Score: 291
Period size: 96 Copynumber: 4.8 Consensus size: 95
33353204 AAAACAAGTC
* * * * * *
33353214 TTATCTCCCTGAAGTTGCAATGGAGCAGGCTAAAGATAGCAAATCTTATCTTCCTGAAGTTGCAA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAGTCTTATCTTCCTGAAGTTACAG
* * * * *
33353279 TTGAACAGA-TTAAGGATATAAATTACAGATC-
65 TGGAGCAGACTGAA-GCTAGAAATTACAGA-CA
* * * * * * *
33353310 TTATCTCTCTGAAGTTGCAATAGAGCAGA-TCAA-A-ATAAGTTTTATCTTCCTAAAGTTACAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAGTCTTATCTTCCTGAAGTTACAGT
*
33353372 GGAGCAGACTGAAGATAGCAAA-T-----C-
66 GGAGCAGACTGAAGCTAG-AAATTACAGACA
* * ** *
33353396 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGTTGGAAATCACAAACCTTATCTCCCTGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA----G--AT-ACAAGTCTTATCTTCCTGAAG
* * * *
33353461 TTGCAGTGGAGC--A--G--GTTA-AAGTTACAAGTC-
59 TTACAGTGGAGCAGACTGAAGCTAGAAATTAC-AGACA
* *
33353491 TTATCTCCCTTAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-TCTTATC-TCCTTGGAGTTAC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-C-AAGTCTTATCTTCC-TGAAGTTAC
* *
33353554 AGTGGAGTAGATTGAAGCTAGAAATTACAGACA
63 AGTGGAGCAGACTGAAGCTAGAAATTACAGACA
** * *
33353587 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCTACAAGTCTTATCTTCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAGTCTTATCTTCCTGAAGTTACAGT
33353652 GGAGCAGACTGAAG
66 GGAGCAGACTGAAG
33353666 TGGAGCATAT
Statistics
Matches: 278, Mismatches: 46, Indels: 65
0.71 0.12 0.17
Matches are distributed among these distances:
86 27 0.10
87 3 0.01
88 5 0.02
89 24 0.09
90 5 0.02
91 2 0.01
92 33 0.12
93 8 0.03
94 5 0.02
95 71 0.26
96 95 0.34
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (95 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAGTCTTATCTTCCTGAAGTTACAGT
GGAGCAGACTGAAGCTAGAAATTACAGACA
Found at i:33360013 original size:17 final size:18
Alignment explanation
Indices: 33359978--33360018 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
33359968 AATTATTATA
33359978 TATAATTTATAAATCATT
1 TATAATTTATAAATCATT
*
33359996 T-TAATTTTTAATAT-ATT
1 TATAATTTATAA-ATCATT
33360013 TATAAT
1 TATAAT
33360019 ATATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TATAATTTATAAATCATT
Found at i:33360015 original size:28 final size:30
Alignment explanation
Indices: 33359968--33360025 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
33359958 TTTTCAAATA
33359968 AATTATTATATATAATTTATAA-ATCATTTT
1 AATTATTATATATAATTTATAATAT-ATTTT
*
33359998 AATTTTTA-ATAT-ATTTATAATATATTTT
1 AATTATTATATATAATTTATAATATATTTT
33360026 TTTATTCCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 13 0.50
29 6 0.23
30 7 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
AATTATTATATATAATTTATAATATATTTT
Found at i:33368403 original size:5 final size:5
Alignment explanation
Indices: 33368393--33368417 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33368383 TTGGTAGGAT
33368393 AGAGG AGAGG AGAGG AGAGG AGAGG
1 AGAGG AGAGG AGAGG AGAGG AGAGG
33368418 CAGATGGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
AGAGG
Found at i:33369048 original size:19 final size:18
Alignment explanation
Indices: 33369000--33369054 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
33368990 CTAAACTTAT
33369000 TATGAAAAT-TTTAAAAA
1 TATGAAAATATTTAAAAA
* *
33369017 TAT-AAATAAATTTAAAAT
1 TATGAAA-ATATTTAAAAA
33369035 TAATGAAAATATTTAAAAA
1 T-ATGAAAATATTTAAAAA
33369054 T
1 T
33369055 TTTCTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 8 0.27
19 12 0.40
20 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (18 bp):
TATGAAAATATTTAAAAA
Found at i:33372500 original size:10 final size:9
Alignment explanation
Indices: 33372485--33372516 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
33372475 GATGATATAC
33372485 AAAAAAAGA
1 AAAAAAAGA
33372494 AAAAAAAGA
1 AAAAAAAGA
*
33372503 AAAAAAATA
1 AAAAAAAGA
33372512 AAAAA
1 AAAAA
33372517 TCATACTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.91, C:0.00, G:0.06, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:33372809 original size:3 final size:3
Alignment explanation
Indices: 33372801--33372832 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
33372791 AAACAAAGTA
*
33372801 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33372833 CGAGTTGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33378288 original size:3 final size:3
Alignment explanation
Indices: 33378280--33378322 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
33378270 AAACAAAGTA
33378280 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33378323 TGGGCGAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.