Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 116 of 216
Found at i:37075984 original size:16 final size:17
Alignment explanation
Indices: 37075946--37075986 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
37075936 TTCTTCTCCA
37075946 TTTTCATTTTTTGCTTC
1 TTTTCATTTTTTGCTTC
* *
37075963 TCTTCATTTTTT-TTTC
1 TTTTCATTTTTTGCTTC
37075979 TTTTCATT
1 TTTTCATT
37075987 GGCCAGCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTCATTTTTTGCTTC
Found at i:37081390 original size:21 final size:22
Alignment explanation
Indices: 37081348--37081390 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
37081338 AAACCACAAA
* *
37081348 ATATAATTTTAATAACTTTAAT
1 ATATAATTTTAATAAATCTAAT
*
37081370 ATATATTTTTAA-AAATCTAAT
1 ATATAATTTTAATAAATCTAAT
37081391 GGTACCCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATAATTTTAATAAATCTAAT
Found at i:37082383 original size:30 final size:30
Alignment explanation
Indices: 37082326--37082388 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
37082316 AAATATGGGC
* * *
37082326 TTATCTGGATACAAATCAAAGGGTAAGGGT
1 TTATCTGGATACAAATCAAAAGATAAGGCT
* *
37082356 TTATTTGGATACAAATTAAAAGATAAGGCT
1 TTATCTGGATACAAATCAAAAGATAAGGCT
37082386 TTA
1 TTA
37082389 AGAAAACTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (30 bp):
TTATCTGGATACAAATCAAAAGATAAGGCT
Found at i:37083713 original size:20 final size:19
Alignment explanation
Indices: 37083688--37083729 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
37083678 TTCCCTTTCC
37083688 TTTTT-CTTTTTTTGATTATT
1 TTTTTCCTTTTTTT-ATT-TT
37083708 TTTTTCCTTTTTTTATTTT
1 TTTTTCCTTTTTTTATTTT
37083727 TTT
1 TTT
37083730 ACTTCACTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTCCTTTTTTTATTTT
Found at i:37091197 original size:26 final size:26
Alignment explanation
Indices: 37091134--37091189 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
37091124 AAGAAGAAAG
* * *
37091134 AAAATAAAAAA-ATAAAATCTAATCT
1 AAAAAAAAAAAGAGAAAACCTAATCT
37091159 AAAAAAAAAAAGAGAAAACCTAATCT
1 AAAAAAAAAAAGAGAAAACCTAATCT
37091185 AAAAA
1 AAAAA
37091190 TGAAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (26 bp):
AAAAAAAAAAAGAGAAAACCTAATCT
Found at i:37091207 original size:10 final size:10
Alignment explanation
Indices: 37091186--37091220 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
37091176 ACCTAATCTA
37091186 AAAATGAAAAG
1 AAAAT-AAAAG
37091197 AAAATAAAAG
1 AAAATAAAAG
*
37091207 AAAATAAAAT
1 AAAATAAAAG
37091217 AAAA
1 AAAA
37091221 AGAAAGGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (10 bp):
AAAATAAAAG
Found at i:37091215 original size:15 final size:16
Alignment explanation
Indices: 37091184--37091225 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
37091174 AAACCTAATC
37091184 TAAAAATGAAAAGAAAA
1 TAAAAA-GAAAAGAAAA
*
37091201 T-AAAAGAAAATAAAA
1 TAAAAAGAAAAGAAAA
37091216 TAAAAAGAAA
1 TAAAAAGAAA
37091226 GGAACACCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 10 0.43
16 12 0.52
17 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (16 bp):
TAAAAAGAAAAGAAAA
Found at i:37093247 original size:30 final size:30
Alignment explanation
Indices: 37093211--37093373 Score: 181
Period size: 30 Copynumber: 5.5 Consensus size: 30
37093201 TCATCAACCA
* *
37093211 ATGAAAAGGGATGGCTTCGGCTATTGAATT
1 ATGAAAAGGGATGGCTTCGACTATCGAATT
* *
37093241 ATGAAAAGGGATGG-TGACGACTATC-AATA
1 ATGAAAAGGGATGGCT-TCGACTATCGAATT
*
37093270 ATGAAAAGGGATGG-TGAT-GACCATCGAATT
1 ATGAAAAGGGATGGCT--TCGACTATCGAATT
* *
37093300 ATGAAAATGGATGGCTTCGACAATCGAATT
1 ATGAAAAGGGATGGCTTCGACTATCGAATT
* *
37093330 ATGAAAAGGGATAGCTTCGACTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCGAATT
*
37093360 ATGGAAAGGGATGG
1 ATGAAAAGGGATGG
37093374 TGGTGACCAT
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
29 26 0.23
30 85 0.76
31 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.28, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGACTATCGAATT
Found at i:37100141 original size:306 final size:304
Alignment explanation
Indices: 37099718--37100270 Score: 883
Period size: 306 Copynumber: 1.8 Consensus size: 304
37099708 TAATAGCCCG
* * *
37099718 TTTTAAGTGAAATTAGAATAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTATTATTAT
1 TTTTAAGTGAAATCAAAACAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTATTATTAT
* *
37099783 TATTTTAATGTCTACAGCATGTTAGTATCACCGTATAAAAATTTCGTTAAGAAATTTTACCATTT
66 TATTTTAATGTCTACAGCATGTTAGTATCACCATATAAAAATTTCATTAAGAAATTTTACCATTT
* *
37099848 GCATGCTTAATTTGATAAAAAGGACTAAATTGCAAAAGATGCAAAATTAGAGTTCTGTAAATTAA
131 GCATGCTTAATTTGATAAAAAAGACTAAATTGCAAAAGATACAAAATTAGAGTTCTGTAAATTAA
* * * *
37099913 AGGCACTAAATGGATATATAATTACTGTGTAAGAGT-CTTTATGTGGTAATTAGACCATTTTTTG
196 AGACACTAAATGGATATAGAATTAATGTCTAAGAGTGC-TTATGTGGTAATTAGACCATTTTTTG
37099977 TTTAAGTGGAAAAATATGGCCATTAAATTAAGTTGTAACAACCCA
260 TTTAAGTGGAAAAATATGGCCATTAAATTAAGTTGTAACAACCCA
* *
37100022 TTTTTAGTGAAATCAAAACAGTGGTTTTGGGACCATAAATCTGACGTGAAAATATTTATTTTATT
1 TTTTAAGTGAAATCAAAACAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTA--TTATT
* *
37100087 ATTATTTTAATGTCTGCAGCATGTTAGTATCACCATATAAAAATTTTATTAAGAAATTTTACCAT
64 ATTATTTTAATGTCTACAGCATGTTAGTATCACCATATAAAAATTTCATTAAGAAATTTTACCAT
* * * * *
37100152 TTGCATGCTTAATTTGATAAAAAAGAGTGAATTGCAAAAGGTACAAAATTAGAGTTTTTTAAATT
129 TTGCATGCTTAATTTGATAAAAAAGACTAAATTGCAAAAGATACAAAATTAGAGTTCTGTAAATT
*
37100217 AACGACACTAAATGGATATAGAATTAATGTCTAAGAGTGCTTATGTGGTAATTA
194 AAAGACACTAAATGGATATAGAATTAATGTCTAAGAGTGCTTATGTGGTAATTA
37100271 TTGTTTATTT
Statistics
Matches: 225, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
304 53 0.24
306 171 0.76
307 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (304 bp):
TTTTAAGTGAAATCAAAACAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTATTATTAT
TATTTTAATGTCTACAGCATGTTAGTATCACCATATAAAAATTTCATTAAGAAATTTTACCATTT
GCATGCTTAATTTGATAAAAAAGACTAAATTGCAAAAGATACAAAATTAGAGTTCTGTAAATTAA
AGACACTAAATGGATATAGAATTAATGTCTAAGAGTGCTTATGTGGTAATTAGACCATTTTTTGT
TTAAGTGGAAAAATATGGCCATTAAATTAAGTTGTAACAACCCA
Found at i:37101204 original size:30 final size:30
Alignment explanation
Indices: 37101157--37101493 Score: 97
Period size: 30 Copynumber: 11.3 Consensus size: 30
37101147 TCATCAACCA
* * *
37101157 ATGAAAAGAGATGGCTTCAGGTATCAAAAT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * *
37101187 ATGGAAAGGGATAGCTTCAGCTATCGAATT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * *
37101217 ATGAAAAGGGAT-G-GTCACGACCATCAACA-
1 ATGAAAAGGGATAGCTTCA-G-CTATCAAAAT
* * ** * **
37101246 ATGAAAAGAGATGGCGAC-GACCAT-TGAAT
1 ATGAAAAGGGATAGCTTCAG-CTATCAAAAT
* * * **
37101275 TTTACAAAGGGATGGCTTTGGCTAT-AAAATT
1 ATGA-AAAGGGATAGCTTCAGCTATCAAAA-T
* *
37101306 ATGAAAATGGATGGCTTC-GACTATCAAAATT
1 ATGAAAAGGGATAGCTTCAG-CTATCAAAA-T
* * *
37101337 ATGAAAAGGAACAGCTTCAGCTATCAAATT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * * *
37101367 ATGAAAAAGGAT-G-GTGACGACCATCAACAAT
1 ATGAAAAGGGATAGCTTCA-G-CTATCAA-AAT
* * * *
37101398 -T-AAAAGGGAT-G-GTGACGACCATCAAATT
1 ATGAAAAGGGATAGCTTCA-G-CTATCAAAAT
* * * *
37101426 ATTAAAAGGGATGGCTTCGGCTATCAAAAC
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * * *
37101456 ATTAAAATGGATAGCTTCAGCTATCGAACT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
37101486 ATGAAAAG
1 ATGAAAAG
37101494 AAGTGGTAAC
Statistics
Matches: 231, Mismatches: 58, Indels: 36
0.71 0.18 0.11
Matches are distributed among these distances:
28 8 0.03
29 48 0.21
30 135 0.58
31 38 0.16
32 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCAGCTATCAAAAT
Found at i:37101407 original size:29 final size:29
Alignment explanation
Indices: 37101359--37101439 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 29
37101349 AGCTTCAGCT
* *
37101359 ATCAAATTATGAAAAAGGATGGTGACGACC
1 ATCAAA-TATTAAAAGGGATGGTGACGACC
37101389 ATCAACA-ATTAAAAGGGATGGTGACGACC
1 ATCAA-ATATTAAAAGGGATGGTGACGACC
37101418 ATCAAATTATTAAAAGGGATGG
1 ATCAAA-TATTAAAAGGGATGG
37101440 CTTCGGCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 1 0.02
29 25 0.54
30 19 0.41
31 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.21
Consensus pattern (29 bp):
ATCAAATATTAAAAGGGATGGTGACGACC
Found at i:37101434 original size:150 final size:149
Alignment explanation
Indices: 37101157--37101493 Score: 439
Period size: 150 Copynumber: 2.3 Consensus size: 149
37101147 TCATCAACCA
* * * * *
37101157 ATGAAAA-GAGATGGCTTCAGGTATCAAAATATGGAAAGGGATAGCTTCAGCTATCGAATTATGA
1 ATGAAAATG-GATGGCTTCAGCTATCAAAATATGAAAAGGAACAGCTTCAGCTATCAAATTATGA
* **
37101221 AAAGGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATTGAATTTTACAAAGGG
65 AAAAGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATCAAATTTTACAAAGGG
* *
37101286 ATGGCTTTGGCTAT-AAAATT
130 ATGGCTTCGGCTATCAAAA-C
37101306 ATGAAAATGGATGGCTTC-GACTATCAAAATTATGAAAAGGAACAGCTTCAGCTATCAAATTATG
1 ATGAAAATGGATGGCTTCAG-CTATCAAAA-TATGAAAAGGAACAGCTTCAGCTATCAAATTATG
* * * *
37101370 AAAAAGGATGGTGACGACCATCAACAATTAAAAGGGATGGTGACGACCATCAAATTATTA-AAAG
64 AAAAAGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATCAAATT-TTACAAAG
37101434 GGATGGCTTCGGCTATCAAAAC
128 GGATGGCTTCGGCTATCAAAAC
* * * *
37101456 ATTAAAATGGATAGCTTCAGCTATCGAACTATGAAAAG
1 ATGAAAATGGATGGCTTCAGCTATCAAAATATGAAAAG
37101494 AAGTGGTAAC
Statistics
Matches: 164, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
148 1 0.01
149 33 0.20
150 122 0.74
151 8 0.05
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (149 bp):
ATGAAAATGGATGGCTTCAGCTATCAAAATATGAAAAGGAACAGCTTCAGCTATCAAATTATGAA
AAAGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATCAAATTTTACAAAGGGA
TGGCTTCGGCTATCAAAAC
Found at i:37102718 original size:20 final size:20
Alignment explanation
Indices: 37102679--37102719 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37102669 CCCTATAGTT
* *
37102679 TAAAAATTTTAATCTTTTTC
1 TAAAAATTTTAATATGTTTC
*
37102699 TAAAAATTTTTATATGTTTC
1 TAAAAATTTTAATATGTTTC
37102719 T
1 T
37102720 GATTTGTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (20 bp):
TAAAAATTTTAATATGTTTC
Found at i:37104151 original size:14 final size:15
Alignment explanation
Indices: 37104128--37104156 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37104118 TTTTTTTATA
37104128 AAAAATAAATAAAAT
1 AAAAATAAATAAAAT
37104143 AAAAA-AAATAAAAT
1 AAAAATAAATAAAAT
37104157 CACTCACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATAAATAAAAT
Found at i:37107030 original size:27 final size:27
Alignment explanation
Indices: 37106915--37107023 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 27
37106905 TTAAGAGTTC
*
37106915 GCCACAAAGGCTA-TCTATACAGAGTAT
1 GCCACAAAGGCGATTC-ATACAGAGTAT
* **
37106942 GCCAAAAAGATGATTCATACAGAGTAT
1 GCCACAAAGGCGATTCATACAGAGTAT
* * *
37106969 GCCACAAAGGTGATTCATACAGACTAC
1 GCCACAAAGGCGATTCATACAGAGTAT
*
37106996 GCCACAAAGGCGATTCATTCAGAGTAT
1 GCCACAAAGGCGATTCATACAGAGTAT
37107023 G
1 G
37107024 TTACAAATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
27 67 0.97
28 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (27 bp):
GCCACAAAGGCGATTCATACAGAGTAT
Found at i:37108149 original size:16 final size:16
Alignment explanation
Indices: 37108128--37108159 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37108118 AGGGCGTAAC
37108128 GGAATAGAGGCATAAT
1 GGAATAGAGGCATAAT
*
37108144 GGAATAGAGGCGTAAT
1 GGAATAGAGGCATAAT
37108160 AGCAAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.34, T:0.19
Consensus pattern (16 bp):
GGAATAGAGGCATAAT
Found at i:37108471 original size:22 final size:21
Alignment explanation
Indices: 37108446--37108497 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
37108436 TAGATATTCT
*
37108446 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
37108468 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
37108490 TAAT-TTAA
1 TAATATTAA
37108498 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:37108507 original size:121 final size:119
Alignment explanation
Indices: 37108372--37108662 Score: 485
Period size: 120 Copynumber: 2.4 Consensus size: 119
37108362 TTAATCATAT
37108372 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
37108437 -AGATATTCTTAATATTAAATTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAGATATTCTT-ATATGAAATTACTAAAATCAT-A-ATATAATACTATAAAATATAA
37108493 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * *
37108558 AAATATATTCTTATATGGATTTACTAAAATCATAATATAATACTATAAAATATAA
66 -AAGATATTCTTATATGAAATTACTAAAATCATAATATAATACTATAAAATATAA
* *
37108613 TTTAAAATAAATATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
37108663 CTAAAGTTTG
Statistics
Matches: 162, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
120 69 0.43
121 66 0.41
122 18 0.11
123 9 0.06
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (119 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAGATATTCTTATATGAAATTACTAAAATCATAATATAATACTATAAAATATAA
Found at i:37108634 original size:26 final size:27
Alignment explanation
Indices: 37108589--37108656 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
37108579 TACTAAAATC
*
37108589 ATAATATAATACTATAAAATATAATTTA
1 ATAATA-AATATTATAAAATATAATTTA
*
37108617 A-AATAAATATTATTAAATATAATTTA
1 ATAATAAATATTATAAAATATAATTTA
37108643 ATAA-AAATA-TATAA
1 ATAATAAATATTATAA
37108657 TTTAATCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.11
26 25 0.69
27 6 0.17
28 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (27 bp):
ATAATAAATATTATAAAATATAATTTA
Found at i:37111604 original size:16 final size:17
Alignment explanation
Indices: 37111577--37111614 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
37111567 GGACAATGTT
**
37111577 GAAAAATCTAAAGGAGA
1 GAAAAATCTAAAACAGA
37111594 GAAAAAT-TAAAACAGA
1 GAAAAATCTAAAACAGA
37111610 GAAAA
1 GAAAA
37111615 CCGAAGACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.66, C:0.05, G:0.18, T:0.11
Consensus pattern (17 bp):
GAAAAATCTAAAACAGA
Found at i:37112096 original size:20 final size:20
Alignment explanation
Indices: 37112071--37112114 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
37112061 AGTGAACCAA
37112071 ACGGTGTATTGAGTGGGGCC
1 ACGGTGTATTGAGTGGGGCC
37112091 ACGGTGTATTGAGTGGGGCC
1 ACGGTGTATTGAGTGGGGCC
37112111 ACGG
1 ACGG
37112115 AATAGGGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.45, T:0.23
Consensus pattern (20 bp):
ACGGTGTATTGAGTGGGGCC
Found at i:37125839 original size:105 final size:106
Alignment explanation
Indices: 37125708--37125905 Score: 301
Period size: 105 Copynumber: 1.9 Consensus size: 106
37125698 ATGGATTAAG
* * * *
37125708 ATTTAAGAGGATTTTTGGCTATTTGGTCAAACGAAAAAATCGAAACTCAGCACATTAGGGCACGT
1 ATTTAAGAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGAGCACGT
*
37125773 TTCCTCGAAATT-CCAAACGTAAAATATTCTCTTACTCTAAA
66 TTCCTCG-AATTCCCAAACGCAAAATATTCTCTTACTCTAAA
*
37125814 ATTTAA-AGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAACACATTAGAGCACGT
1 ATTTAAGAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGAGCACGT
* *
37125878 TTTCTCGAATTCCCAAATGCAAAATATT
66 TTCCTCGAATTCCCAAACGCAAAATATT
37125906 GCCTTTATTA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
104 4 0.05
105 73 0.88
106 6 0.07
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (106 bp):
ATTTAAGAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGAGCACGT
TTCCTCGAATTCCCAAACGCAAAATATTCTCTTACTCTAAA
Found at i:37126757 original size:23 final size:23
Alignment explanation
Indices: 37126713--37126769 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
37126703 ATTACAGAAA
*
37126713 TATATAAAAAAAATATAGGTATG
1 TATATAAAAAAAAGATAGGTATG
** *
37126736 TATATAAATCAAAGATATGTATG
1 TATATAAAAAAAAGATAGGTATG
*
37126759 TAGAATAAAAA
1 TA-TATAAAAA
37126770 TAGTTTATTA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (23 bp):
TATATAAAAAAAAGATAGGTATG
Found at i:37127024 original size:20 final size:20
Alignment explanation
Indices: 37127001--37127077 Score: 52
Period size: 22 Copynumber: 3.6 Consensus size: 20
37126991 ATAACATAAT
37127001 AAAATAAAATAATATATATA
1 AAAATAAAATAATATATATA
37127021 AAAAGCT-AAATAGATATATA-A
1 AAAA--TAAAATA-ATATATATA
37127042 ACTAATATAATAATAATA-ATAGTA
1 A--AA-ATAA-AATAATATATA-TA
*
37127066 ATAATAAAATAA
1 AAAATAAAATAA
37127078 CAATAGAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 20
0.69 0.01 0.30
Matches are distributed among these distances:
20 9 0.20
21 11 0.24
22 13 0.28
23 6 0.13
24 7 0.15
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAATAAAATAATATATATA
Found at i:37127082 original size:20 final size:20
Alignment explanation
Indices: 37127044--37127083 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37127034 ATATATAAAC
*
37127044 TAATATAATAATAATAATAG
1 TAATATAATAATAACAATAG
37127064 TAATAATAA-AATAACAATAG
1 TAAT-ATAATAATAACAATAG
37127084 AAAAGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (20 bp):
TAATATAATAATAACAATAG
Found at i:37129163 original size:11 final size:11
Alignment explanation
Indices: 37129147--37129172 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37129137 ATTTTTTTAA
37129147 TTTTAAAATAC
1 TTTTAAAATAC
37129158 TTTTAAAATAC
1 TTTTAAAATAC
37129169 TTTT
1 TTTT
37129173 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:37130262 original size:6 final size:6
Alignment explanation
Indices: 37130251--37130275 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37130241 TTATGTAGCT
37130251 AGGTAC AGGTAC AGGTAC AGGTAC A
1 AGGTAC AGGTAC AGGTAC AGGTAC A
37130276 AAACACAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (6 bp):
AGGTAC
Found at i:37141502 original size:57 final size:56
Alignment explanation
Indices: 37141401--37141516 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 56
37141391 ATCGAAATGG
* * *
37141401 TGAAAATGGAGAAATGCGAAACATTTGAAAATTATTATGGTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAAT-CGAAAAATTTGAAAATGATAATGGTTTCTCCAAAATAAAAA
* *
37141458 TGAAAATGGAGAAAT-GAAATAATTTGGAAATGATAATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATCGAAA-AATTTGAAAATGATAATGG-TTTCTCCAAAATAAAAA
37141515 TG
1 TG
37141517 GAGAAATAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
55 4 0.08
56 15 0.29
57 33 0.63
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (56 bp):
TGAAAATGGAGAAATCGAAAAATTTGAAAATGATAATGGTTTCTCCAAAATAAAAA
Found at i:37141564 original size:49 final size:50
Alignment explanation
Indices: 37141454--37141565 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 50
37141444 CTCCAAAATA
* * *
37141454 AAAATGAAAATGGAGAAATGAAATAATTTGGAAATGATAATGGTTTTCTCC
1 AAAATGAAAATGGAGAAATGAAACAATTTGGAAATGA-AATGGTTTCCCCC
*
37141505 AAAATGAAAATGGAGAAAT-AGAACCATTTGGAAATG-AATGGTTTCCCCC
1 AAAATGAAAATGGAGAAATGA-AACAATTTGGAAATGAAATGGTTTCCCCC
*
37141554 AAACTGAAAATG
1 AAAATGAAAATG
37141566 AAATTGATCT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
49 22 0.40
50 1 0.02
51 32 0.58
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.25
Consensus pattern (50 bp):
AAAATGAAAATGGAGAAATGAAACAATTTGGAAATGAAATGGTTTCCCCC
Found at i:37141840 original size:20 final size:20
Alignment explanation
Indices: 37141815--37141856 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
37141805 TCAAATTATA
37141815 AAGTATTGAATTAAAAGTCT
1 AAGTATTGAATTAAAAGTCT
37141835 AAGTATTGAATTAAAAGTCT
1 AAGTATTGAATTAAAAGTCT
37141855 AA
1 AA
37141857 AAAGTGCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (20 bp):
AAGTATTGAATTAAAAGTCT
Found at i:37148474 original size:3 final size:3
Alignment explanation
Indices: 37148459--37148500 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
37148449 GCAATCTAAG
*
37148459 GAA GAA GAC GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
37148501 AGAGAGGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:37155373 original size:17 final size:19
Alignment explanation
Indices: 37155326--37155374 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
37155316 AATAGTATTT
*
37155326 TATTAATTTAATATTAAAG
1 TATTATTTTAATATTAAAG
*
37155345 TGATTATCTTAATATTAAA-
1 T-ATTATTTTAATATTAAAG
37155364 T-TTATTTTAAT
1 TATTATTTTAAT
37155375 GCTTATCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.35
19 2 0.08
20 15 0.58
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (19 bp):
TATTATTTTAATATTAAAG
Found at i:37174643 original size:7 final size:7
Alignment explanation
Indices: 37174633--37174657 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37174623 TGTTTTATGA
37174633 TTTAGGG
1 TTTAGGG
37174640 TTTAGGG
1 TTTAGGG
37174647 TTTAGGG
1 TTTAGGG
37174654 TTTA
1 TTTA
37174658 TATATGTTTT
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:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:37174701 original size:22 final size:21
Alignment explanation
Indices: 37174667--37174714 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
37174657 ATATATGTTT
*
37174667 TATGGTTTAGGGTTTAAGGAA
1 TATGGGTTAGGGTTTAAGGAA
* *
37174688 TATGGGTTATGGGTTTAGGGAT
1 TATGGGTTA-GGGTTTAAGGAA
37174710 TATGG
1 TATGG
37174715 TGTAAGAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.40
Consensus pattern (21 bp):
TATGGGTTAGGGTTTAAGGAA
Found at i:37177237 original size:31 final size:31
Alignment explanation
Indices: 37177199--37177278 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
37177189 AAGGATTTTA
37177199 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
*
37177230 ATTGGTTTTTGCTA-CTAAGATGGTACCTTTT
1 ATTGGTTTTTGC-AGCTAAGATGGTACCTTCT
* *
37177261 ATTGTTTTTTGCTGCTAA
1 ATTGGTTTTTGCAGCTAA
37177279 ATCAACCATG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.19, C:0.14, G:0.20, T:0.47
Consensus pattern (31 bp):
ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
Found at i:37177808 original size:15 final size:15
Alignment explanation
Indices: 37177772--37177813 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
37177762 ATAAATATTT
* *
37177772 ATATACATTTTTAAT
1 ATATATATTTTTAAA
37177787 ATATATATTTTTAAA
1 ATATATATTTTTAAA
*
37177802 ATTTATATTTTT
1 ATATATATTTTT
37177814 TTCAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATATATTTTTAAA
Found at i:37177808 original size:17 final size:18
Alignment explanation
Indices: 37177788--37177825 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
37177778 ATTTTTAATA
37177788 TATATATTTTT-AAAATT
1 TATATATTTTTCAAAATT
*
37177805 TATATTTTTTTCAAAATT
1 TATATATTTTTCAAAATT
37177823 TAT
1 TAT
37177826 CAATCATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATATTTTTCAAAATT
Found at i:37177887 original size:12 final size:12
Alignment explanation
Indices: 37177872--37177940 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 12
37177862 ATCATATCAT
37177872 AACTTATATATA
1 AACTTATATATA
*
37177884 AACTTACATAATACA
1 AACTT--AT-ATATA
*
37177899 TAACTTAAATAATA
1 -AACTTATAT-ATA
* *
37177913 TA-TAATATATA
1 AACTTATATATA
37177924 AACTTATATATA
1 AACTTATATATA
37177936 AACTT
1 AACTT
37177941 GCATAACTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
11 4 0.09
12 22 0.51
13 3 0.07
14 5 0.12
15 4 0.09
16 5 0.12
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (12 bp):
AACTTATATATA
Found at i:37177905 original size:16 final size:16
Alignment explanation
Indices: 37177884--37177917 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37177874 CTTATATATA
*
37177884 AACTTACATAATACAT
1 AACTTAAATAATACAT
*
37177900 AACTTAAATAATATAT
1 AACTTAAATAATACAT
37177916 AA
1 AA
37177918 TATATAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (16 bp):
AACTTAAATAATACAT
Found at i:37177968 original size:20 final size:19
Alignment explanation
Indices: 37177943--37178017 Score: 61
Period size: 20 Copynumber: 4.1 Consensus size: 19
37177933 ATAAACTTGC
*
37177943 ATAACTTATATAATAACATA
1 ATAACTTACATAAT-ACATA
37177963 ATAACTTACATAATAC---
1 ATAACTTACATAATACATA
* * *
37177979 ATAGCCTACAT-A-ACTTAA
1 ATAACTTACATAATACAT-A
37177997 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
37178016 AT
1 AT
37178018 CTTCCTAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
14 2 0.05
15 1 0.02
16 9 0.21
18 9 0.21
19 6 0.14
20 16 0.37
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:37178044 original size:41 final size:41
Alignment explanation
Indices: 37177999--37178341 Score: 229
Period size: 41 Copynumber: 8.4 Consensus size: 41
37177989 TAACTTAAAT
* *
37177999 AACTTACATAATACATAATCTT-CCTAACTTACATTATACAC
1 AACTTACATAATACATAA-CTTACATAACTTACATAATACAC
*
37178040 AACTTACATAATACATTACTTACATAACTTACATAAT--AC
1 AACTTACATAATACATAACTTACATAACTTACATAATACAC
* * * *
37178079 -A-TTAC-T--TACATAACTTACTTTACTTACAGTACTTACAT
1 AACTTACATAATACATAACTTACATAACTTACA-TA-ATACAC
* *
37178117 AA--TACATAATACATAACTTACATAACATACA-ATATACAT
1 AACTTACATAATACATAACTTACATAACTTACATA-ATACAC
* *
37178156 AACTTACATTACTTACAGT-ACTTACATAA--TACATAACTTACAT
1 AACTTACA-TA-ATACA-TAACTTACATAACTTACATAA--TACAC
* * *
37178199 AACATACA-ATATACATAACTTACATAACATACATAATACAT
1 AACTTACATA-ATACATAACTTACATAACTTACATAATACAC
* * *
37178240 AACTTACAT-A-ACATACAATATACATAACTTACACAACTTACAT
1 AACTTACATAATACATA-ACT-TACATAACTTACATAA--TACAC
* * *
37178283 AACATACATAATACATAACTTACATAA--TACACAACTTACAT
1 AACTTACATAATACATAACTTACATAACTTACATAA--TACAC
37178324 AACTTACATAATACATAA
1 AACTTACATAATACATAA
37178342 AAATATAGCA
Statistics
Matches: 251, Mismatches: 24, Indels: 54
0.76 0.07 0.16
Matches are distributed among these distances:
34 19 0.08
35 2 0.01
36 2 0.01
37 4 0.02
38 5 0.02
39 17 0.07
40 7 0.03
41 130 0.52
42 3 0.01
43 53 0.21
44 4 0.02
45 5 0.02
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (41 bp):
AACTTACATAATACATAACTTACATAACTTACATAATACAC
Found at i:37178045 original size:16 final size:16
Alignment explanation
Indices: 37178024--37178325 Score: 119
Period size: 16 Copynumber: 18.7 Consensus size: 16
37178014 TAATCTTCCT
*
37178024 AACTTACATTATACAC
1 AACTTACATAATACAC
*
37178040 AACTTACATAATACAT
1 AACTTACATAATACAC
* *
37178056 TACTTACATAACTTACAT
1 AACTTACATAA--TACAC
* *
37178074 AA--TACATTACTTACAT
1 AACTTACA-TA-ATACAC
* * *
37178090 AACTTACTTTACTTACAG
1 AACTTAC-ATA-ATACAC
* *
37178108 TACTTACATAATACAT
1 AACTTACATAATACAC
*
37178124 AA--TACATAACTTACAT
1 AACTTACATAA--TACAC
* *
37178140 AACATACA-ATATACAT
1 AACTTACATA-ATACAC
* *
37178156 AACTTACATTACTTACAG
1 AACTTACA-TA-ATACAC
* *
37178174 TACTTACATAATACAT
1 AACTTACATAATACAC
* *
37178190 AACTTACATAACATAC
1 AACTTACATAATACAC
*
37178206 AA-TATACATAACTTACAT
1 AACT-TACATAA--TACAC
* *
37178224 AACATACATAATACAT
1 AACTTACATAATACAC
* *
37178240 AACTTACATAACATAC
1 AACTTACATAATACAC
37178256 AA-TATACATAACTTACAC
1 AACT-TACATAA--TACAC
37178274 AACTTAC---ATA-AC
1 AACTTACATAATACAC
*
37178286 -A--TACATAATACAT
1 AACTTACATAATACAC
37178299 AACTTACATAATACAC
1 AACTTACATAATACAC
37178315 AACTTACATAA
1 AACTTACATAA
37178326 CTTACATAAT
Statistics
Matches: 222, Mismatches: 35, Indels: 58
0.70 0.11 0.18
Matches are distributed among these distances:
9 3 0.01
11 1 0.00
12 5 0.02
13 3 0.01
14 8 0.04
15 3 0.01
16 132 0.59
17 7 0.03
18 59 0.27
19 1 0.00
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:37178063 original size:9 final size:9
Alignment explanation
Indices: 37178051--37178182 Score: 92
Period size: 9 Copynumber: 14.6 Consensus size: 9
37178041 ACTTACATAA
37178051 TACATTACT
1 TACATTACT
*
37178060 TACATAACT
1 TACATTACT
*
37178069 TACA-TA-A
1 TACATTACT
37178076 TACATTACT
1 TACATTACT
*
37178085 TACATAACT
1 TACATTACT
*
37178094 TACTTTACT
1 TACATTACT
*
37178103 TACAGTACT
1 TACATTACT
37178112 TACATAATACAT
1 TACAT--TAC-T
*
37178124 AATACATAACT
1 --TACATTACT
* *
37178135 TACATAACA
1 TACATTACT
*
37178144 TACAATA--
1 TACATTACT
*
37178151 TACATAACT
1 TACATTACT
37178160 TACATTACT
1 TACATTACT
*
37178169 TACAGTACT
1 TACATTACT
37178178 TACAT
1 TACAT
37178183 AATACATAAC
Statistics
Matches: 95, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
7 9 0.09
8 3 0.03
9 71 0.75
11 4 0.04
12 3 0.03
14 5 0.05
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (9 bp):
TACATTACT
Found at i:37178089 original size:75 final size:74
Alignment explanation
Indices: 37177963--37178309 Score: 278
Period size: 75 Copynumber: 4.7 Consensus size: 74
37177953 TAATAACATA
* * *
37177963 ATAACTTACATAATACATAGCCTACATAACTTAAATAACTTACA-TA-ATACATAATCTT-CCTA
1 ATAACTTACATAATACATA-CTTACATAACTTACATAA--TACATTACTTACATAA-CTTACCTA
37178025 ACTTACATTATAC
62 ACTTACATTATAC
* * *
37178038 ACAACTTACATAATACATTACTTACATAACTTACATAATACATTACTTACATAACTTACTTTACT
1 ATAACTTACATAATACA-TACTTACATAACTTACATAATACATTACTTACATAACTTACCTAACT
*
37178103 TACAGTACTTAC
65 TACATTA--TAC
* * * *
37178115 ATAA--TACATAATACATAACTTACATAACATACA-ATATACATAACTTACATTACTTACAGT-A
1 ATAACTTACATAATACAT-ACTTACATAACTTACATA-ATACATTACTTACATAACTTAC-CTAA
*
37178176 CTTACATAATAC
63 CTTACATTATAC
* *
37178188 ATAACTTACAT-A-ACATACAATATACATAACTTACATAACATACA-TA-ATACATAACTTACAT
1 ATAACTTACATAATACATAC--T-TACATAACTTACAT-A-ATACATTACTTACATAACTTACCT
* *
37178249 AACATACAATATAC
61 AACTTACATTATAC
* *
37178263 ATAACTTAC-----ACA-ACTTACATAACATACATAATACATAACTTACATAA
1 ATAACTTACATAATACATACTTACATAACTTACATAATACATTACTTACATAA
37178310 TACACAACTT
Statistics
Matches: 227, Mismatches: 26, Indels: 45
0.76 0.09 0.15
Matches are distributed among these distances:
66 5 0.02
67 2 0.01
68 20 0.09
69 1 0.00
71 2 0.01
72 5 0.02
73 15 0.07
74 10 0.04
75 151 0.67
76 4 0.02
77 12 0.05
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (74 bp):
ATAACTTACATAATACATACTTACATAACTTACATAATACATTACTTACATAACTTACCTAACTT
ACATTATAC
Found at i:37178115 original size:109 final size:107
Alignment explanation
Indices: 37177991--37178341 Score: 430
Period size: 109 Copynumber: 3.2 Consensus size: 107
37177981 AGCCTACATA
* * * * * *
37177991 ACTTAAATAACTTACATAATACATAATCTTCCTAACTTACATTATACACAACT-TACATAA-TAC
1 ACTTACATAACTTACATAATACATAA--TACATAACTTACATAACATACAA-TATACATAACTAC
* **
37178054 ATTACTTACATAACTTACATAATACATTACTTACATAACTTACTTT
63 ATTACTTACATAACTTACATAATACATAACTTACATAAC-TACAAT
37178100 ACTTACAGT-ACTTACATAATACATAATACATAACTTACATAACATACAATATACATAACTTACA
1 ACTTACA-TAACTTACATAATACATAATACATAACTTACATAACATACAATATACATAAC-TACA
37178164 TTACTTACAGT-ACTTACATAATACATAACTTACATAACATACAAT
64 TTACTTACA-TAACTTACATAATACATAACTTACATAAC-TACAAT
37178209 A--TACATAACTTACATAACATACATAATACATAACTTACATAACATACAATATACATAACTTAC
1 ACTTACATAACTTACAT-A-ATACATAATACATAACTTACATAACATACAATATACATAAC-TAC
** *
37178272 ACAACTTACATAACATACATAATACATAACTTACATAA-TACACA-
63 ATTACTTACATAACTTACATAATACATAACTTACATAACTACA-AT
37178316 ACTTACATAACTTACATAATACATAA
1 ACTTACATAACTTACATAATACATAA
37178342 AAATATAGCA
Statistics
Matches: 217, Mismatches: 13, Indels: 26
0.85 0.05 0.10
Matches are distributed among these distances:
106 2 0.01
107 50 0.23
108 4 0.02
109 159 0.73
110 2 0.01
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (107 bp):
ACTTACATAACTTACATAATACATAATACATAACTTACATAACATACAATATACATAACTACATT
ACTTACATAACTTACATAATACATAACTTACATAACTACAAT
Found at i:37178326 original size:25 final size:25
Alignment explanation
Indices: 37177936--37178341 Score: 229
Period size: 25 Copynumber: 16.4 Consensus size: 25
37177926 CTTATATATA
*
37177936 AACTTGCATAACTT--AT-ATA-AT
1 AACTTACATAACTTACATAATACAT
*
37177957 AACATA-ATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* * *
37177981 AGCCTACATAACTTAAATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
*
37178008 AA--TACATAATCTT-CCTAACTTACAT
1 AACTTACATAA-CTTACATAA--TACAT
* *
37178033 TA--TACACAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
*
37178056 TACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* * *
37178081 TACTTACATAACTTACTTTACTTACAGT
1 AACTTACATAACTTAC-ATA-ATACA-T
37178109 -ACTTACATAA--TACATAATACAT
1 AACTTACATAACTTACATAATACAT
*
37178131 AACTTACATAACATACA-ATATACAT
1 AACTTACATAACTTACATA-ATACAT
* *
37178156 AACTTACATTACTTACAGTACTTACAT
1 AACTTACATAACTTACA-TA-ATACAT
37178183 AA--TACATAACTTACAT-A-ACAT
1 AACTTACATAACTTACATAATACAT
*
37178204 ACAATATACATAACTTACATAACATACAT
1 A-ACT-TACATAACTTACAT-A-ATACAT
37178233 AA--TACATAACTTACAT-A-ACAT
1 AACTTACATAACTTACATAATACAT
* *
37178254 ACAATATACATAACTTACACAACTTACAT
1 A-ACT-TACATAACTTACATAA--TACAT
*
37178283 AACATACATAA--TACATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
*
37178308 AA--TACACAACTTACATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
37178333 AA--TACATAA
1 AACTTACATAA
37178342 AAATATAGCA
Statistics
Matches: 319, Mismatches: 28, Indels: 72
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.02
21 14 0.04
22 6 0.02
23 30 0.09
24 13 0.04
25 194 0.61
26 6 0.02
27 35 0.11
28 4 0.01
29 10 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:37178359 original size:50 final size:50
Alignment explanation
Indices: 37177950--37178341 Score: 292
Period size: 50 Copynumber: 7.7 Consensus size: 50
37177940 TGCATAACTT
* * * *
37177950 ATATA-ATAACATA-ATAACTTACATAATACATAGCCTACATAACTTA-A
1 ATATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
* * * *
37177997 ATAACTTACATAA--TACATAATCTT-CCTAACTTACAT--TATACACAACTTAC-
1 AT-A--TACATAACTTACATAA-CTTACATAA--TACATAACATACATAACATACA
* * * * *
37178047 ATAATACATTACTTACATAACTTACATAATACATTACTTACATAACTTACT
1 AT-ATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
* *
37178098 TTACTTACAGT-ACTTACATAA--TACATAATACATAACTTACATAACATACA
1 ATA--TACA-TAACTTACATAACTTACATAATACATAACATACATAACATACA
*
37178148 ATATACATAACTTACATTACTTACAGTACTTACATAATACATAACTTACATAACATACA
1 ATATACATAACTTAC---A--T--A--ACTTACATAATACATAACATACATAACATACA
* *
37178207 ATATACATAACTTACATAACATACATAATACATAACTTACATAACATACA
1 ATATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
* *
37178257 ATATACATAACTTACACAACTTACATAACATACAT-A-ATACATAACTTAC-
1 ATATACATAACTTACATAACTTACAT-A-ATACATAACATACATAACATACA
*
37178306 ATAATACACAACTTACATAACTTACATAATACATAA
1 AT-ATACATAACTTACATAACTTACATAATACATAA
37178342 AAATATAGCA
Statistics
Matches: 290, Mismatches: 21, Indels: 66
0.77 0.06 0.18
Matches are distributed among these distances:
47 3 0.01
48 28 0.10
49 9 0.03
50 163 0.56
51 11 0.04
52 26 0.09
53 2 0.01
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
59 44 0.15
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.31
Consensus pattern (50 bp):
ATATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
Found at i:37178369 original size:84 final size:82
Alignment explanation
Indices: 37178060--37178338 Score: 187
Period size: 84 Copynumber: 3.2 Consensus size: 82
37178050 ATACATTACT
* * *
37178060 TACATAACTTACATAATACATTACTTACATAACTTACTTTACTTACAGTACTTACATAATACATA
1 TACATAACTTACATAATACA-CAATTACATAACTTAC-ATA--TACA-TAC--A-AT-ATACATA
37178125 ATACATAACTTACATAACATACA-ATA
57 ATACATAACTTACATAACATACATA-A
* * * * *
37178151 TACATAACTTACATTACTTACAGTACTTACATAA--TACATA-ACTTACATAACATACA-ATATA
1 TACATAACTTACA-TA-ATACA-CAATTACATAACTTACATATACATAC--AATATACATA-ATA
37178212 CATAACTTACATAACATACATAA
60 CATAACTTACATAACATACATAA
* * * * *
37178235 TACATAACTTACATAACATACAATATACATAACTTACACA-ACTTACATAACATACATAATACAT
1 TACATAACTTACATAATACACAAT-TACATAACTTACATATACATAC--AATATACATAATACAT
*
37178299 AACTTACAT-A-ATACACAA
63 AACTTACATAACATACATAA
37178317 CTTACATAACTTACATAATACA
1 --TACATAACTTACATAATACA
37178339 TAAAAATATA
Statistics
Matches: 163, Mismatches: 15, Indels: 27
0.80 0.07 0.13
Matches are distributed among these distances:
81 2 0.01
82 16 0.10
83 4 0.02
84 96 0.59
85 3 0.02
86 5 0.03
87 2 0.01
90 2 0.01
91 16 0.10
92 2 0.01
93 15 0.09
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (82 bp):
TACATAACTTACATAATACACAATTACATAACTTACATATACATACAATATACATAATACATAAC
TTACATAACATACATAA
Found at i:37181050 original size:43 final size:43
Alignment explanation
Indices: 37180975--37181166 Score: 232
Period size: 42 Copynumber: 4.5 Consensus size: 43
37180965 AATAGCGACA
*
37180975 TTTGTGGGAAAAGCG-CGCTAAAAGTCATGTTCTTTAGCGGCG
1 TTTGTTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
* *
37181017 TTTGTTGGAAAAGCACCGCTAAAAGTCATGTTCTTTAGCGGCA
1 TTTGTTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
* *
37181060 TTTG-TGGGAAAGCGCTGCTAAAAGTCATGTTCTTTAGCGGCG
1 TTTGTTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
* * * * **
37181102 TTCGTAGAAAAAGCGCCGCT-AAAGAACATG-AGTTTAGCGGCG
1 TTTGTTGGAAAAGCGCCGCTAAAAG-TCATGTTCTTTAGCGGCG
37181144 TTTG-TGGAAAAAGCGCCGCTAAA
1 TTTGTTGG-AAAAGCGCCGCTAAA
37181167 GAACGTGACC
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 79 0.62
43 47 0.37
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (43 bp):
TTTGTTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
Found at i:37181114 original size:85 final size:85
Alignment explanation
Indices: 37180967--37181124 Score: 255
Period size: 85 Copynumber: 1.9 Consensus size: 85
37180957 CACCAAACAA
* * *
37180967 TAGCGACATTTGTGGGAAAAGCGCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTTGGAAAAGCA
1 TAGCGACATTTGTGGGAAAAGCGCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCA
37181032 CCGCTAAAAGTCATGTTCTT
66 CCGCTAAAAGTCATGTTCTT
*
37181052 TAGCGGCATTTGTGGG-AAAGCGCTGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGC
1 TAGCGACATTTGTGGGAAAAGCGC-GCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGC
*
37181116 GCCGCTAAA
65 ACCGCTAAA
37181125 GAACATGAGT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
84 7 0.10
85 60 0.90
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (85 bp):
TAGCGACATTTGTGGGAAAAGCGCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCA
CCGCTAAAAGTCATGTTCTT
Found at i:37181157 original size:85 final size:84
Alignment explanation
Indices: 37180967--37181166 Score: 251
Period size: 85 Copynumber: 2.3 Consensus size: 84
37180957 CACCAAACAA
* * * *
37180967 TAGCGACATTTGTGGGAAAAGCGCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTTGGAAAAGCA
1 TAGCGGCATTTGT-GGAAAAGCGCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCA
* *
37181032 CCGCTAAAAGTCATGTTCTT
65 CCGCTAAAAGACATGTACTT
* *
37181052 TAGCGGCATTTGTGGGAAAGCGCTGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCG
1 TAGCGGCATTTGTGGAAAAGCGC-GCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCA
*
37181117 CCGCT-AAAGAACATG-AGTT
65 CCGCTAAAAG-ACATGTACTT
*
37181136 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAA
1 TAGCGGCATTTGTGG-AAAAGCG-CGCTAAA
37181167 GAACGTGACC
Statistics
Matches: 100, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
84 29 0.29
85 70 0.70
86 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (84 bp):
TAGCGGCATTTGTGGAAAAGCGCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCAC
CGCTAAAAGACATGTACTT
Found at i:37181167 original size:42 final size:42
Alignment explanation
Indices: 37180975--37181189 Score: 206
Period size: 42 Copynumber: 5.1 Consensus size: 42
37180965 AATAGCGACA
* *
37180975 TTTGTGGGAAAAGCG-CGCTAAAAGTCATGTTCTTTAGCGGCG
1 TTTGT-GGAAAAGCGCCGCTAAAAGACATGTACTTTAGCGGCG
* * * *
37181017 TTTGTTGGAAAAGCACCGCTAAAAGTCATGTTCTTTAGCGGCA
1 TTTG-TGGAAAAGCGCCGCTAAAAGACATGTACTTTAGCGGCG
* * * *
37181060 TTTGTGGGAAAGCGCTGCTAAAAGTCATGTTCTTTAGCGGCG
1 TTTGTGGAAAAGCGCCGCTAAAAGACATGTACTTTAGCGGCG
* * *
37181102 TTCGTAGAAAAAGCGCCGCT-AAAGAACATG-AGTTTAGCGGCG
1 TTTGT-GGAAAAGCGCCGCTAAAAG-ACATGTACTTTAGCGGCG
*
37181144 TTTGTGGAAAAAGCGCCGCT-AAAGA-ACGTGACCTTTAGCGGCG
1 TTTGTGG-AAAAGCGCCGCTAAAAGACATGT-A-CTTTAGCGGCG
37181187 TTT
1 TTT
37181190 TTTCTACAAA
Statistics
Matches: 148, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 85 0.57
43 59 0.40
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (42 bp):
TTTGTGGAAAAGCGCCGCTAAAAGACATGTACTTTAGCGGCG
Found at i:37198404 original size:29 final size:29
Alignment explanation
Indices: 37198331--37198570 Score: 257
Period size: 29 Copynumber: 8.2 Consensus size: 29
37198321 GTGTGCTAAA
* * *
37198331 CGATGGTCGAAACCATCCCTTTTCTTTAAT
1 CGATGGTCGTAACCATCCCTTTTC-ATATT
* *
37198361 CGATGGTTGTTACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* *
37198390 CGATGGTCGTCACCATCCCTTTCCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* **
37198419 CGATGGTCATCCCCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
** * * *
37198448 CGATGGTCAAAACCATCTCTTTTCTCTAAT
1 CGATGGTCGTAACCATCCCTTTTC-ATATT
* * *
37198478 CAATGGTTG-AAGCCATCCTTTTTCATATT
1 CGATGGTCGTAA-CCATCCCTTTTCATATT
*
37198507 CGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* *
37198536 CGATGGTCGAAACCATTCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
37198565 CGATGG
1 CGATGG
37198571 GCGTCGATAC
Statistics
Matches: 176, Mismatches: 31, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
29 135 0.77
30 41 0.23
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.38
Consensus pattern (29 bp):
CGATGGTCGTAACCATCCCTTTTCATATT
Found at i:37198537 original size:117 final size:117
Alignment explanation
Indices: 37198331--37198570 Score: 358
Period size: 117 Copynumber: 2.1 Consensus size: 117
37198321 GTGTGCTAAA
* * * *
37198331 CGATGGTCGAAACCATCCCTTTTCTTTAATCGATGGTTGTTACCATCCCTTTTCATATTCGATGG
1 CGATGGTCAAAACCATCCCTTTTCTCTAATCAATGGTTGTAACCATCCCTTTTCATATTCGATGG
**
37198396 TCGTCACCATCCCTTTCCATATTCGATGGTC-ATCCCCATCCCTTTTCATATT
66 TCGTCACCATCCCTTTCCATATTCGATGGTCGA-AACCATCCCTTTTCATATT
* *
37198448 CGATGGTCAAAACCATCTCTTTTCTCTAATCAATGGTTG-AAGCCATCCTTTTTCATATTCGATG
1 CGATGGTCAAAACCATCCCTTTTCTCTAATCAATGGTTGTAA-CCATCCCTTTTCATATTCGATG
* *
37198512 GTCGTCACCATCCCTTTTCATATTCGATGGTCGAAACCATTCCTTTTCATATT
65 GTCGTCACCATCCCTTTCCATATTCGATGGTCGAAACCATCCCTTTTCATATT
37198565 CGATGG
1 CGATGG
37198571 GCGTCGATAC
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
116 1 0.01
117 109 0.98
118 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.38
Consensus pattern (117 bp):
CGATGGTCAAAACCATCCCTTTTCTCTAATCAATGGTTGTAACCATCCCTTTTCATATTCGATGG
TCGTCACCATCCCTTTCCATATTCGATGGTCGAAACCATCCCTTTTCATATT
Found at i:37202253 original size:20 final size:20
Alignment explanation
Indices: 37202230--37202273 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
37202220 AAATACAGAC
37202230 AAAACCACTAAAATCTTTTT
1 AAAACCACTAAAATCTTTTT
* * * *
37202250 AAAACTACTTATATTTTTTT
1 AAAACCACTAAAATCTTTTT
37202270 AAAA
1 AAAA
37202274 GATGGGAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAACCACTAAAATCTTTTT
Found at i:37202504 original size:4 final size:4
Alignment explanation
Indices: 37202497--37202524 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
37202487 CATGTTATTT
37202497 CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC
37202525 AATTTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CATC
Found at i:37204125 original size:110 final size:110
Alignment explanation
Indices: 37203987--37204235 Score: 290
Period size: 110 Copynumber: 2.3 Consensus size: 110
37203977 TATTCGGGCA
* * * * *
37203987 ATGGATTGTGGATCC-TCACTAGACCATATAGGGATACTACATCTCGATA-TACTGGGGATAACC
1 ATGGATTGTGGATCCTTC-CTAAACCATATAGGGATACTACAT-TCCACACCACTAGGGATAACC
*
37204050 CCAAAT-GACCATCCCACTTGAAACGATAGATGATTCCTCTTCT-AGCT
64 CC-AATCAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTGA-CT
* * * *
37204097 ATGGATTGTGGATCCTTCCTAAATCATATTGGGATCCTATATTCCACACCACTAGGGATAACCCC
1 ATGGATTGTGGATCCTTCCTAAACCATATAGGGATACTACATTCCACACCACTAGGGATAACCCC
** *
37204162 AATCAACCATCCCACTTGAATTGATAGATGATTCTTCTTCTGACT
66 AATCAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTGACT
* * *
37204207 GTGGATCGTGGATCCTTCCTGAACCATAT
1 ATGGATTGTGGATCCTTCCTAAACCATAT
37204236 TGGGTTAACC
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
109 7 0.06
110 108 0.92
111 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (110 bp):
ATGGATTGTGGATCCTTCCTAAACCATATAGGGATACTACATTCCACACCACTAGGGATAACCCC
AATCAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTGACT
Found at i:37204236 original size:110 final size:110
Alignment explanation
Indices: 37204041--37204239 Score: 294
Period size: 110 Copynumber: 1.8 Consensus size: 110
37204031 CGATATACTG
* *
37204041 GGGATAACCCCAAATGACCATCCCACTTGAAACGATAGATGATTCCTCTTCTAGCTATGGATTGT
1 GGGATAACCCCAAATAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTAGCTATGGATCGT
*
37204106 GGATCCTTCCTAAATCATATTGGGATCCTATATTCCACACCACTA
66 GGATCCTTCCTAAACCATATTGGGATCCTATATTCCACACCACTA
** * *
37204151 GGGATAACCCC-AATCAACCATCCCACTTGAATTGATAGATGATTCTTCTTCT-GACTGTGGATC
1 GGGATAACCCCAAAT-AACCATCCCACTTGAAACGATAGATGATTCCTCTTCTAG-CTATGGATC
*
37204214 GTGGATCCTTCCTGAACCATATTGGG
64 GTGGATCCTTCCTAAACCATATTGGG
37204240 TTAACCCCCA
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
109 4 0.05
110 75 0.95
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (110 bp):
GGGATAACCCCAAATAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTAGCTATGGATCGT
GGATCCTTCCTAAACCATATTGGGATCCTATATTCCACACCACTA
Found at i:37204323 original size:20 final size:20
Alignment explanation
Indices: 37204298--37204339 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
37204288 AGACTGCCAA
*
37204298 GGGATCGCATATCCTCCTTG
1 GGGATCGCATATCCTCCCTG
37204318 GGGATCGCATATCCTCCCTG
1 GGGATCGCATATCCTCCCTG
37204338 GG
1 GG
37204340 ATTAGCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (20 bp):
GGGATCGCATATCCTCCCTG
Found at i:37208438 original size:17 final size:17
Alignment explanation
Indices: 37208416--37208448 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37208406 ATATTTAATA
37208416 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
37208433 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
37208449 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:37216501 original size:6 final size:6
Alignment explanation
Indices: 37216490--37216520 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
37216480 AATGATTCTT
37216490 ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA A
1 ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA A
37216521 GGATGCAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (6 bp):
ATGTGA
Found at i:37219109 original size:36 final size:36
Alignment explanation
Indices: 37219054--37219124 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
37219044 CCCAAGGCTG
37219054 AGCACCACCCAAAAATCCTAGAAAAGGAAAAATATA
1 AGCACCACCCAAAAATCCTAGAAAAGGAAAAATATA
* * *
37219090 AGCACCACCCAGAATTCCTAGAAGAGGAAAAATAT
1 AGCACCACCCAAAAATCCTAGAAAAGGAAAAATAT
37219125 GCAAGGTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.51, C:0.23, G:0.14, T:0.13
Consensus pattern (36 bp):
AGCACCACCCAAAAATCCTAGAAAAGGAAAAATATA
Found at i:37225123 original size:18 final size:18
Alignment explanation
Indices: 37225102--37225141 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
37225092 AAACAGCATG
37225102 TGAAAAAGAAAAACAAAA
1 TGAAAAAGAAAAACAAAA
**
37225120 TGAAATTGAAAAACAAAA
1 TGAAAAAGAAAAACAAAA
37225138 TGAA
1 TGAA
37225142 CATGAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.12
Consensus pattern (18 bp):
TGAAAAAGAAAAACAAAA
Found at i:37225147 original size:18 final size:18
Alignment explanation
Indices: 37225109--37225168 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
37225099 ATGTGAAAAA
37225109 GAAAAACAAAATGAAATT
1 GAAAAACAAAATGAAATT
37225127 GAAAAACAAAATGAACA-T
1 GAAAAACAAAATGAA-ATT
37225145 GAAAGAA-AACAA-GAAATT
1 GAAA-AACAA-AATGAAATT
37225163 GAAAAA
1 GAAAAA
37225169 GACAATGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.08
18 30 0.79
19 5 0.13
ACGTcount: A:0.68, C:0.07, G:0.13, T:0.12
Consensus pattern (18 bp):
GAAAAACAAAATGAAATT
Found at i:37231897 original size:12 final size:12
Alignment explanation
Indices: 37231868--37231940 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
37231858 TCTTCACTCG
*
37231868 TTTCTTTTGCAA
1 TTTCTTTTTCAA
**
37231880 ACTCTTTTTCAA
1 TTTCTTTTTCAA
*
37231892 TTTCTTTTTCCACTC
1 TTTCTTTTT-CA--A
37231907 TTTCTTTTTC--
1 TTTCTTTTTCAA
*
37231917 -TTCTCTTTCAA
1 TTTCTTTTTCAA
37231928 TTTCTTTTTCAA
1 TTTCTTTTTCAA
37231940 T
1 T
37231941 CCCTTTTTGC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 8 0.17
12 27 0.57
13 2 0.04
14 1 0.02
15 9 0.19
ACGTcount: A:0.14, C:0.23, G:0.01, T:0.62
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:37232010 original size:21 final size:22
Alignment explanation
Indices: 37231982--37232027 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
37231972 GAAATCTCAT
*
37231982 TTTCATTTTTTTTTC-AT-TTC
1 TTTCATTTATTTTTCAATGTTC
37232002 TTTCAATTTATTTTTCAATGTTC
1 TTTC-ATTTATTTTTCAATGTTC
37232025 TTT
1 TTT
37232028 TCTCGCTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 10 0.45
22 2 0.09
23 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCATTTATTTTTCAATGTTC
Found at i:37234210 original size:20 final size:20
Alignment explanation
Indices: 37234185--37234229 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
37234175 TAAATTCGAG
37234185 TAATTAAAAC-AAGACAC-AAT
1 TAATT-AAACTAAGAC-CTAAT
37234205 TAATTAAACTAAGACCTAAT
1 TAATTAAACTAAGACCTAAT
37234225 TAATT
1 TAATT
37234230 CGGTTAGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.29
Consensus pattern (20 bp):
TAATTAAACTAAGACCTAAT
Found at i:37236176 original size:31 final size:32
Alignment explanation
Indices: 37236139--37236199 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
37236129 TTCAAACTCG
37236139 TTTTCTCTTCTTTC-T-TCAATTTCTTTTTCGA
1 TTTTCTCTT-TTTCATCTCAATTTCTTTTTCGA
37236170 TTTTCTCTTTTTCAATCTCAATTTCTTTTT
1 TTTTCTCTTTTTC-ATCTCAATTTCTTTTT
37236200 TCTTTTTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.15
31 9 0.33
32 1 0.04
33 13 0.48
ACGTcount: A:0.11, C:0.21, G:0.02, T:0.66
Consensus pattern (32 bp):
TTTTCTCTTTTTCATCTCAATTTCTTTTTCGA
Found at i:37236207 original size:33 final size:33
Alignment explanation
Indices: 37236139--37236232 Score: 88
Period size: 33 Copynumber: 2.9 Consensus size: 33
37236129 TTCAAACTCG
37236139 TTTTCTCTTCTTTC-T-TCAATTTC-TTTTTCGA
1 TTTTCTCTT-TTTCATCTCAATTTCTTTTTTCGA
*
37236170 TTTTCTCTTTTTCAATCTCAATTTCTTTTTTC-T
1 TTTTCTCTTTTTC-ATCTCAATTTCTTTTTTCGA
** * *
37236203 TTTTCTCACTCTCACTCTCATTTTCTTTTT
1 TTTTCTCTTTTTCA-TCTCAATTTCTTTTT
37236233 CAATTTCTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
30 4 0.08
31 9 0.17
32 2 0.04
33 32 0.60
34 6 0.11
ACGTcount: A:0.11, C:0.24, G:0.01, T:0.64
Consensus pattern (33 bp):
TTTTCTCTTTTTCATCTCAATTTCTTTTTTCGA
Found at i:37236215 original size:27 final size:26
Alignment explanation
Indices: 37236169--37236233 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
37236159 TTCTTTTTCG
*
37236169 ATTTTCTCTTTT-TCAATCTCAATTTC
1 ATTTTCT-TTTTCTCAATCTCAATCTC
* * *
37236195 TTTTTTCTTTTTCTCACTCTCACTCTC
1 -ATTTTCTTTTTCTCAATCTCAATCTC
37236222 ATTTTCTTTTTC
1 ATTTTCTTTTTC
37236234 AATTTCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 15 0.47
27 17 0.53
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTTCTTTTTCTCAATCTCAATCTC
Found at i:37237528 original size:41 final size:41
Alignment explanation
Indices: 37237481--37237562 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
37237471 ATATTTTATT
37237481 TTATCTTTTAGTAGTTTATTAAAATAACAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAAAATAACAGAATTATTTTCC
* *
37237522 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAAAATAACAGAATTATTTTCC
37237563 CAATTAAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAAAATAACAGAATTATTTTCC
Found at i:37240931 original size:19 final size:19
Alignment explanation
Indices: 37240907--37240945 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37240897 TTTTAAAGAA
37240907 ATTTAGGTAGATAAATCTT
1 ATTTAGGTAGATAAATCTT
37240926 ATTTAGGTAGATAAATCTT
1 ATTTAGGTAGATAAATCTT
37240945 A
1 A
37240946 GAATAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
ATTTAGGTAGATAAATCTT
Found at i:37241031 original size:41 final size:41
Alignment explanation
Indices: 37240983--37241062 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
37240973 TTATTTTATT
37240983 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
* *
37241024 TTATCTTTTTGTAGTTTATTAGAATAAGGGAATTATTTT
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTT
37241063 TCCAATTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
Found at i:37254359 original size:17 final size:17
Alignment explanation
Indices: 37254309--37254351 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
37254299 TATCTTAATT
* *
37254309 AATTATATAATCATTTTA
1 AATTATTTAAT-ATATTA
*
37254327 AATTATTTATTATATTA
1 AATTATTTAATATATTA
37254344 AATTATTT
1 AATTATTT
37254352 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTAATATATTA
Found at i:37254795 original size:22 final size:22
Alignment explanation
Indices: 37254725--37254795 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
37254715 AAATTCAATA
*
37254725 TCAATTTCCTTCAAAAATTCTC
1 TCAAATTCCTTCAAAAATTCTC
37254747 TC-AATTCCGTTCAAAAATTCTC
1 TCAAATTCC-TTCAAAAATTCTC
* *
37254769 TCAAATTCCTTCCAAAATTTTC
1 TCAAATTCCTTCAAAAATTCTC
37254791 TCAAA
1 TCAAA
37254796 CTCTCAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 5 0.11
22 33 0.75
23 6 0.14
ACGTcount: A:0.34, C:0.27, G:0.01, T:0.38
Consensus pattern (22 bp):
TCAAATTCCTTCAAAAATTCTC
Found at i:37254823 original size:30 final size:30
Alignment explanation
Indices: 37254766--37254824 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
37254756 TTCAAAAATT
**
37254766 CTCTCAAATTCCTTCCAAAATTTTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
37254796 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
37254825 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:37254835 original size:21 final size:22
Alignment explanation
Indices: 37254796--37254837 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
37254786 TTTTCTCAAA
37254796 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
37254818 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
37254838 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:37254926 original size:30 final size:30
Alignment explanation
Indices: 37254883--37254944 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
37254873 AATTTCATTA
*
37254883 TTTTAAGAAAATTTTAAAATTTTTAATTTT
1 TTTTAAGAAAATTTTAAAATTTTTAATATT
*
37254913 TTTTAA-AATAATTTTAATATTTTTAATATT
1 TTTTAAGAA-AATTTTAAAATTTTTAATATT
37254943 TT
1 TT
37254945 CAACAATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTTAAGAAAATTTTAAAATTTTTAATATT
Found at i:37255064 original size:14 final size:15
Alignment explanation
Indices: 37255035--37255068 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37255025 AAATTTTAAA
37255035 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
37255050 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
37255064 TTTTA
1 TTTTA
37255069 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:37256610 original size:6 final size:6
Alignment explanation
Indices: 37256599--37256626 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
37256589 TTTACATGAA
37256599 AACCCT AACCCT AACCCT AACCCT AACC
1 AACCCT AACCCT AACCCT AACCCT AACC
37256627 TATTTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
AACCCT
Found at i:37256628 original size:41 final size:41
Alignment explanation
Indices: 37256571--37256655 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
37256561 CCAGACATTC
37256571 ACCCTAACCCTAACCTATTTTACATGAAAA-CCCTAACCCTA
1 ACCCTAACCCTAACCTATTTTA-ATGAAAATCCCTAACCCTA
*
37256612 ACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTA
1 ACCCTAACCCTAACCTATTTTAATGAAAATCCCTAACCCTA
37256653 ACC
1 ACC
37256656 TAATTTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
40 6 0.14
41 36 0.86
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (41 bp):
ACCCTAACCCTAACCTATTTTAATGAAAATCCCTAACCCTA
Found at i:37256655 original size:29 final size:29
Alignment explanation
Indices: 37256611--37257259 Score: 545
Period size: 29 Copynumber: 23.0 Consensus size: 29
37256601 CCCTAACCCT
*
37256611 AACCCTAACCCTAACCTATTTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
37256640 ATCCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* ***
37256669 AACCCTTACCCTATTTTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* ***
37256698 AACCCTTACCCTATTTTAATTTAATT--A
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
37256725 AA----AACCCTAACCTAATTTAGTTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * *
37256750 AACCCTAACCCTAACATATTTTACA-TGAA
1 AACCCTAACCCTAACCTAATTTA-ATTAAA
* *
37256779 AACTCTAACCCTAACCTATTTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
37256808 ATCCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* **
37256837 AACTCTAA-CCTAATTTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* ***
37256865 AACCCTTACCCTATTTTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* ***
37256894 AACCCTTACCCTATTTTAATTTAATT--A
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
37256921 AA----AGCCCTAACCTAATTTAGTTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
37256946 AACCCTAACCCTAACCTATTTTACA-TGAA
1 AACCCTAACCCTAACCTAATTTA-ATTAAA
* *
37256975 AACCCTAACCTTAACCTATTTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
37257004 ATCCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* ** *
37257033 AACCCTAA-CTTAATTTAATATAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * ***
37257061 AACCCTTACCTTATTTTAATTTAATT--A
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
37257088 AA--C--ACCCTAACCTAATTTAGTTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * *
37257113 AACCTTAACCCTAACCT-ATTTTATATGAA
1 AACCCTAACCCTAACCTAATTTAAT-TAAA
37257142 AACCCTAACCCTAACCT-ATCTTAATTAAA
1 AACCCTAACCCTAACCTAAT-TTAATTAAA
* *
37257171 ATCCCTAACCCTAACCTAATTTAATTGAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * * ** * *
37257200 AACCCTTACCTTGATTTATCATTTTATTTGAA
1 AACCCTAACCCTAACCTA--A-TTTAATTAAA
*
37257232 ATCCCTAACCCTAACCTAATTTAATTAA
1 AACCCTAACCCTAACCTAATTTAATTAA
37257260 TGTTAAACCC
Statistics
Matches: 509, Mismatches: 81, Indels: 60
0.78 0.12 0.09
Matches are distributed among these distances:
23 43 0.08
25 10 0.02
27 9 0.02
28 54 0.11
29 364 0.72
30 7 0.01
31 1 0.00
32 21 0.04
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.35
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:37256752 original size:81 final size:81
Alignment explanation
Indices: 37256646--37257081 Score: 305
Period size: 81 Copynumber: 5.2 Consensus size: 81
37256636 TAAAATCCCT
*
37256646 AACCCTAACCTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTTACCCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTTACCCTAATTTAATTTAATTAAAAACCCTTACCCTA
37256711 TTTTAATTTAATTAAA
66 TTTTAATTTAATTAAA
* * ** * *
37256727 AACCCTAACCTAATTTAGTTAAAAACCCTAACCCTAACATATTTTACATGAAAACTCTAACCC-T
1 AACCCTAACCTAATTTAATTAAAAACCCTTACCCTAATTTAATTTA-AT-TAAA----AACCCTT
* * ****
37256791 AACCTATTTTAATTAAAATCCCT
60 ACCCTATTTTAATT-TAATTAAA
* *
37256814 AACCCTAACCTAATTTAATTAAAAACTC-TAACCTAATTTAATTTAATTAAAAACCCTTACCCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTTACCCTAATTTAATTTAATTAAAAACCCTTACCCTA
37256878 TTTTAATTTAATTAAA
66 TTTTAATTTAATTAAA
* * ** * *
37256894 AACCCTTACCCTATTTTAATTTAATTAAA-----AGCCCTAACCTAATTTAGTTAAAAACCCTAA
1 AACCC-TAACCTAATTTAA-TTAA--AAACCCTTA-CCCTAATTTAATTTAATTAAAAACCCTTA
*** * *
37256954 CCCTAACCTATTTTACA-TGAA
61 CCCTATTTTAATTTA-ATTAAA
* * **
37256975 AACCCTAACCTTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCC-T
1 AACCCTAACC-T-A---A-TTTAATTAAAAACCCTTACCCTAATTTAATTTAATTAAAAACCCTT
* * * *
37257039 AACTTAATTTAATATAATTAAA
60 ACCCTATTTTAATTTAATTAAA
* *
37257061 AACCCTTACCTTATTTTAATT
1 AACCCTAACC-TAATTTAATT
37257082 TAATTAAACA
Statistics
Matches: 276, Mismatches: 53, Indels: 52
0.72 0.14 0.14
Matches are distributed among these distances:
80 18 0.07
81 116 0.42
82 8 0.03
83 5 0.02
84 6 0.02
85 8 0.03
86 55 0.20
87 59 0.21
88 1 0.00
ACGTcount: A:0.41, C:0.23, G:0.01, T:0.35
Consensus pattern (81 bp):
AACCCTAACCTAATTTAATTAAAAACCCTTACCCTAATTTAATTTAATTAAAAACCCTTACCCTA
TTTTAATTTAATTAAA
Found at i:37256895 original size:196 final size:196
Alignment explanation
Indices: 37256613--37257205 Score: 876
Period size: 196 Copynumber: 3.0 Consensus size: 196
37256603 CTAACCCTAA
* * **
37256613 CCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCCTTAC
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTTAC
37256678 CCTATTTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTAACCTAATTT
65 CCTATTTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTAACCTAATTT
* *
37256743 AGTTAAAAACCCTAACCCTAACATATTTTACATGAAAACTCTAACCCTAACCTATTTTAATTAAA
130 AGTTAAAAACCCTAACCCTAACCTATTTTACATGAAAACCCTAACCCTAACCTATTTTAATTAAA
37256808 AT
195 AT
*
37256810 CCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTTAATTAAAAACCCTTACC
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTTACC
*
37256875 CTATTTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAGCCCTAACCTAATTTA
66 CTATTTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTAACCTAATTTA
*
37256940 GTTAAAAACCCTAACCCTAACCTATTTTACATGAAAACCCTAACCTTAACCTATTTTAATTAAAA
131 GTTAAAAACCCTAACCCTAACCTATTTTACATGAAAACCCTAACCCTAACCTATTTTAATTAAAA
37257005 T
196 T
* *
37257006 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTTAATATAATTAAAAACCCTTACC
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTTACC
* * * * * *
37257071 TTATTTTAATTTAATTAAACACCC-TAACCTAATTT-AGTTAA--AAACCTTAACCCTAACCTAT
66 CTATTTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAA----AACCCTAACCTAA
* * * *
37257132 TTTA-TATGAAAACCCTAACCCTAACCTATCTTA-ATTAAAATCCCTAACCCTAACCTAATTTAA
127 TTTAGT-TAAAAACCCTAACCCTAACCTATTTTACATGAAAA-CCCTAACCCTAACCTATTTTAA
37257195 TTGAAAA-
190 TT-AAAAT
37257202 CCCT
1 CCCT
37257206 TACCTTGATT
Statistics
Matches: 365, Mismatches: 24, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
192 3 0.01
194 5 0.01
195 16 0.04
196 305 0.84
197 36 0.10
ACGTcount: A:0.40, C:0.24, G:0.01, T:0.34
Consensus pattern (196 bp):
CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTTACC
CTATTTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTAACCTAATTTA
GTTAAAAACCCTAACCCTAACCTATTTTACATGAAAACCCTAACCCTAACCTATTTTAATTAAAA
T
Found at i:37256931 original size:167 final size:167
Alignment explanation
Indices: 37256614--37257209 Score: 771
Period size: 167 Copynumber: 3.6 Consensus size: 167
37256604 TAACCCTAAC
* *
37256614 CCTAACCCTAACCTATTTTA-ATTAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCCTTAC
1 CCTAACCCTAACCTATTTTACATGAAAA-CCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
*** * *
37256678 CCTATTTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCC-TAACCTAATT
65 CCTAACCTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTTACCCTATTT
* * * ** *
37256742 T-AGTTAA--AAACCCTAACCCTAACATATTTTACATGAAAA
130 TAATTTAATTAAA--C--ACCCTAACCTAATTTAGTTAAAAA
* *
37256781 CTCTAACCCTAACCTATTTTA-ATTAAAATCCCTAACCCTAACCTAATTTAATTAAAAACTCTAA
1 C-CTAACCCTAACCTATTTTACATGAAAA-CCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
**
37256845 -CCTAATTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTTACCCTATT
64 CCCTAACCTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTTACCCTATT
37256909 TTAATTTAATTAAA-AGCCCTAACCTAATTTAGTTAAAAA
129 TTAATTTAATTAAACA-CCCTAACCTAATTTAGTTAAAAA
* * *
37256948 CCCTAACCCTAACCTATTTTACATGAAAACCCTAACCTTAACCTATTTTAATTAAAATCCCTAAC
1 -CCTAACCCTAACCTATTTTACATGAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
* * * * *
37257013 CCTAACCTAATTTAATTAAAAACCC-TAACTTAATTTAATATAATTAAAAACCCTTACCTTATTT
65 CCTAACCTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTTACCCTATTT
37257077 TAATTTAATTAAACACCCTAACCTAATTTAGTTAAAAA
130 TAATTTAATTAAACACCCTAACCTAATTTAGTTAAAAA
* *
37257115 CCTTAACCCTAACCTATTTTATATGAAAACCCTAACCCTAACCT-ATCTTAATTAAAATCCCTAA
1 CC-TAACCCTAACCTATTTTACATGAAAACCCTAACCCTAACCTAAT-TTAATTAAAAACCCTAA
*
37257179 CCCTAACCTAATTTAATTGAAAACCCTTACC
64 CCCTAACCTAATTTAATTAAAAACCCTTACC
37257210 TTGATTTATC
Statistics
Matches: 388, Mismatches: 28, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
166 4 0.01
167 273 0.70
168 103 0.27
169 5 0.01
171 3 0.01
ACGTcount: A:0.40, C:0.24, G:0.01, T:0.34
Consensus pattern (167 bp):
CCTAACCCTAACCTATTTTACATGAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC
CTAACCTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTTACCCTATTTT
AATTTAATTAAACACCCTAACCTAATTTAGTTAAAAA
Found at i:37257040 original size:23 final size:23
Alignment explanation
Indices: 37257010--37257122 Score: 82
Period size: 23 Copynumber: 4.4 Consensus size: 23
37257000 TAAAATCCCT
37257010 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
37257033 AACCCTAACTTAATTTAATATAATTAAA
1 AACCCTAACCTAA--T--T-TAATTAAA
*
37257061 AACCCTTACCTTATTTTAATTTAATTAAA
1 AACCCTAACC------TAATTTAATTAAA
* *
37257090 CACCCTAACCTAATTTAGTTAAA
1 AACCCTAACCTAATTTAATTAAA
*
37257113 AACCTTAACC
1 AACCCTAACC
37257123 CTAACCTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
23 32 0.45
25 1 0.01
27 1 0.01
28 16 0.23
29 16 0.23
30 1 0.01
32 1 0.01
34 3 0.04
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:37262393 original size:27 final size:27
Alignment explanation
Indices: 37262354--37262408 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
37262344 ACAAGTATCA
*
37262354 ACTTGAAAAAAAAATAATTTAAATACC
1 ACTTGAAAAAAAAAAAATTTAAATACC
* * *
37262381 ACTTGTAACAAAAAAAATTTAAGTACC
1 ACTTGAAAAAAAAAAAATTTAAATACC
37262408 A
1 A
37262409 AAATGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.25
Consensus pattern (27 bp):
ACTTGAAAAAAAAAAAATTTAAATACC
Found at i:37263093 original size:31 final size:31
Alignment explanation
Indices: 37263058--37263123 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
37263048 GAAATAGATA
* *
37263058 CATGTGGCAAATGGAGTAATATTTTT-GCAAG
1 CATGTGACAAAAGGAGTAAT-TTTTTAGCAAG
37263089 CATGTGACAAAAGGAGTAATTTTTTAGCAAG
1 CATGTGACAAAAGGAGTAATTTTTTAGCAAG
37263120 CATG
1 CATG
37263124 GTCAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (31 bp):
CATGTGACAAAAGGAGTAATTTTTTAGCAAG
Found at i:37264024 original size:23 final size:23
Alignment explanation
Indices: 37263993--37264037 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
37263983 TACAATCAAC
37263993 ATTACATATATC-AACAAGCCATA
1 ATTACATAT-TCAAACAAGCCATA
*
37264016 ATTAGATATTCAAAACAAGCCA
1 ATTACATATTC-AAACAAGCCA
37264038 AAATAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 8 0.42
24 9 0.47
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (23 bp):
ATTACATATTCAAACAAGCCATA
Found at i:37265322 original size:100 final size:101
Alignment explanation
Indices: 37265143--37265371 Score: 361
Period size: 100 Copynumber: 2.3 Consensus size: 101
37265133 TCTATATTCG
*
37265143 TAGTGCCATAACCCAGTTATGGTCTTATCATAAAAATACCATAGCCCAACTATGGTCTTACATAT
1 TAGTGCCATAACCCAATTATGGTCTTATCATAAAAATACCATAGCCCAACTATGGTCTTACATAT
37265208 AAACACTGCCATGGTCCAAACATGGTCTTACCTTCA
66 AAACACTGCCATGGTCCAAACATGGTCTTACCTTCA
* * * * * * *
37265244 TA-TGTCATAACCCATTTATGGTCTTATCATCAGAATGCCATAGCCTAATTATGGTCTTACATAT
1 TAGTGCCATAACCCAATTATGGTCTTATCATAAAAATACCATAGCCCAACTATGGTCTTACATAT
* *
37265308 AAACACTGCCATGGTCCAACCATGGTCTTACGTTCA
66 AAACACTGCCATGGTCCAAACATGGTCTTACCTTCA
37265344 TAGTGCCATAACCCAATTATGGTCTTAT
1 TAGTGCCATAACCCAATTATGGTCTTAT
37265372 TCGTCAATCC
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
100 91 0.78
101 25 0.22
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (101 bp):
TAGTGCCATAACCCAATTATGGTCTTATCATAAAAATACCATAGCCCAACTATGGTCTTACATAT
AAACACTGCCATGGTCCAAACATGGTCTTACCTTCA
Found at i:37265366 original size:33 final size:31
Alignment explanation
Indices: 37265229--37265370 Score: 86
Period size: 33 Copynumber: 4.3 Consensus size: 31
37265219 TGGTCCAAAC
* *
37265229 ATGGTCTTACCTTCATATGTCATAACCCATTT
1 ATGGTCTTA-CTTCATATGCCATAACCCAATT
* * * *
37265261 ATGGTCTTATCATCAGAATGCCATAGCCTAATT
1 ATGGTCTTA-CTTCA-TATGCCATAACCCAATT
* * *** **
37265294 ATGGTCTTACATATAAACACTGCCATGGTCCAACC
1 ATGGTCTTAC-T-T-CATA-TGCCATAACCCAATT
37265329 ATGGTCTTACGTTCATAGTGCCATAACCCAATT
1 ATGGTCTTAC-TTCATA-TGCCATAACCCAATT
37265362 ATGGTCTTA
1 ATGGTCTTA
37265371 TTCGTCAATC
Statistics
Matches: 81, Mismatches: 24, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
32 14 0.17
33 42 0.52
34 3 0.04
35 22 0.27
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (31 bp):
ATGGTCTTACTTCATATGCCATAACCCAATT
Found at i:37278070 original size:16 final size:16
Alignment explanation
Indices: 37278046--37278077 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37278036 ATTATTGATT
*
37278046 ACTCTATTTTATTACA
1 ACTCCATTTTATTACA
37278062 ACTCCATTTTATTACA
1 ACTCCATTTTATTACA
37278078 TTGAATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (16 bp):
ACTCCATTTTATTACA
Found at i:37279807 original size:87 final size:87
Alignment explanation
Indices: 37279581--37279810 Score: 354
Period size: 87 Copynumber: 2.6 Consensus size: 87
37279571 AAGTAAATTC
* *
37279581 ATCAAGTCCATCTTAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAGAGTAATAAATTC
1 ATCAAGTCCGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAGAGTAATAAATTC
**
37279646 AATCTCACATGTTGGTGAATAT
66 AATCTCACATGTCAGTGAATAT
*
37279668 ATCAAGTCCGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTAATTAAGAGTAATAAATTC
1 ATCAAGTCCGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAGAGTAATAAATTC
37279733 AATCTCACATGTCAGTGAATAT
66 AATCTCACATGTCAGTGAATAT
* * * * *
37279755 ATCAAGTCCGTCTGAATAAGACCACCCAAA-TCCTGGGATATGAATTCGTTAAGAGT
1 ATCAAGTCCGTCTCAATAGGACCACCCAAACT-TTGGGATATGAACTCATTAAGAGT
37279811 GAGAACTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 1 0.01
87 130 0.99
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (87 bp):
ATCAAGTCCGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAGAGTAATAAATTC
AATCTCACATGTCAGTGAATAT
Found at i:37281258 original size:26 final size:25
Alignment explanation
Indices: 37281229--37281281 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
37281219 ATCCGCTTAT
37281229 GGTCCTCCGACCAACTCAAACTCTAA
1 GGTCCTCCGACCAACTCAAACTC-AA
* * *
37281255 GGTCTTCGGACCCACTCAAACTCAA
1 GGTCCTCCGACCAACTCAAACTCAA
37281280 GG
1 GG
37281282 GACCTTCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (25 bp):
GGTCCTCCGACCAACTCAAACTCAA
Found at i:37302346 original size:69 final size:67
Alignment explanation
Indices: 37302228--37302359 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 67
37302218 ATAGACAATA
* * * * *
37302228 TAATGGTTTTGCCTTTTAACTTAATAAGTAAACATTTATCAAAATGACGTAATTTTGTCTTTTAA
1 TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGACGTAATTTTGCCTTTTAA
37302293 CT
66 CT
*
37302295 TAATGATTTTGACTTTTAACTTTAAAAAGGTAAACATTTATCAAAACGACGTAGTTTTGCCTTTT
1 TAATGATTTTGACTTTTAAC-TTAAAAA-GTAAACATTTATCAAAACGACGTAATTTTGCCTTTT
37302360 CTTATTTGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 18 0.32
68 6 0.11
69 33 0.58
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (67 bp):
TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGACGTAATTTTGCCTTTTAA
CT
Found at i:37307084 original size:23 final size:23
Alignment explanation
Indices: 37307056--37307172 Score: 78
Period size: 23 Copynumber: 5.1 Consensus size: 23
37307046 AATTACTAAT
37307056 TTGCACCGAAGTGTCACTTTCAA
1 TTGCACCGAAGTGTCACTTTCAA
* * *
37307079 TTGCA-CTAGAGTGTCACTGTCAG
1 TTGCACCGA-AGTGTCACTTTCAA
* *
37307102 TTGCACCGGAGTGTCTCTGTT-AA
1 TTGCACCGAAGTGTCACT-TTCAA
* * *
37307125 TTGCATCGAAGTGCCA-TGATCAA
1 TTGCACCGAAGTGTCACT-TTCAA
** * *
37307148 TTGCACAAAAGTTTCACTTTAAA
1 TTGCACCGAAGTGTCACTTTCAA
37307171 TT
1 TT
37307173 TGCGTGTTGA
Statistics
Matches: 69, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
22 5 0.07
23 61 0.88
24 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (23 bp):
TTGCACCGAAGTGTCACTTTCAA
Found at i:37307936 original size:18 final size:18
Alignment explanation
Indices: 37307913--37307950 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
37307903 TTTTTACACT
37307913 TTTCAATTTAGTCTCTTG
1 TTTCAATTTAGTCTCTTG
37307931 TTTCAATTTAGTCTCTTG
1 TTTCAATTTAGTCTCTTG
37307949 TT
1 TT
37307951 CCATACTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.58
Consensus pattern (18 bp):
TTTCAATTTAGTCTCTTG
Found at i:37311242 original size:132 final size:132
Alignment explanation
Indices: 37311004--37311312 Score: 347
Period size: 132 Copynumber: 2.3 Consensus size: 132
37310994 TCTCTATTGA
* ** *
37311004 GTATTTGTATTTTGGGA-TAGTGGCAGAAGTGATGTTTTGACCACAACGATTGACTTCTCCATCA
1 GTATTTGTATTTTGGGAGT-GTGACAGAAGTGATGTTTTGACCACAACGATAAAATTCTCCATCA
* * * *
37311068 AAATAATTTATAGTTTGAGAGAGCCATAAAAGTGATGTTTTGACCATAACAGTTGACTTATTTGC
65 AAAGAATTTATAGTTTGAAAGAGCCATAAAAGTGA-GTTTTGACCAAAACAGTTGACTTATTCGC
*
37311133 TATG
129 TAGG
* * * *
37311137 GTATTTATATTTTGAGAGTGTGACAGAAGTGATG-TTTGACCACAACGATAAAATTCTTCATTAA
1 GTATTTGTATTTTGGGAGTGTGACAGAAGTGATGTTTTGACCACAACGATAAAATTCTCCATCAA
** * ** *
37311201 AAGAATTTATA-TTCTGAAAGAGTGATGAAAGTG-GCTCTTTGACCAAAATGGTTGACTTCTTCG
66 AAGAATTTATAGTT-TGAAAGAGCCATAAAAGTGAG-T-TTTGACCAAAACAGTTGACTTATTCG
37311264 CTAGG
128 CTAGG
** *
37311269 GTATTTGTATTTTGGGAGAATGACAGAAATGATGTTTTGACCAC
1 GTATTTGTATTTTGGGAGTGTGACAGAAGTGATGTTTTGACCAC
37311313 CACAATTGAT
Statistics
Matches: 147, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
130 1 0.01
131 3 0.02
132 104 0.71
133 38 0.26
134 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (132 bp):
GTATTTGTATTTTGGGAGTGTGACAGAAGTGATGTTTTGACCACAACGATAAAATTCTCCATCAA
AAGAATTTATAGTTTGAAAGAGCCATAAAAGTGAGTTTTGACCAAAACAGTTGACTTATTCGCTA
GG
Found at i:37311377 original size:133 final size:132
Alignment explanation
Indices: 37310952--37311452 Score: 430
Period size: 133 Copynumber: 3.8 Consensus size: 132
37310942 ATTTGTATTT
* * * ** * *
37310952 TGAAAGAGTGACGAAAGTGGCGTTTT-AGCCACAATGG-TCACTTC-TCTATTGAGTATTTGTAT
1 TGAAAGAGTGATGAAAGTGGCGTTTTGA-CCACAACGGTTGACTTCTTCGCTAGGGTATTTGTAT
* * * * *
37311014 TTTGGGATAGTGGCAGAAGTGATGTTTTGACCACAACGATTGACTTCTCCATCAAAATAA--TTT
65 TTTGGGAGAGTGACAGAAGTGATGTTTTGACCACAACGATTGAATTCTCTAT-AAAAGAATTTTT
37311077 ATAG
129 ATAG
* ** * ** * * * * * *
37311081 TTTGAGAGAGCCATAAAAGTGATGTTTTGACCATAACAGTTGACTTATTTGCTATGGTATTTATA
1 --TGAAAGAGTGATGAAAGTGGCGTTTTGACCACAACGGTTGACTTCTTCGCTAGGGTATTTGTA
* * **
37311146 TTTTGAGAGTGTGACAGAAGTGATG-TTTGACCACAACGATAAAATTCT-TCATTAAAAGAATTT
64 TTTTGGGAGAGTGACAGAAGTGATGTTTTGACCACAACGATTGAATTCTCT-A-TAAAAGAATTT
* **
37311209 ATATTC
127 TTATAG
* *
37311215 TGAAAGAGTGATGAAAGTGGC-TCTTTGACCAAAATGGTTGACTTCTTCGCTAGGGTATTTGTAT
1 TGAAAGAGTGATGAAAGTGGCGT-TTTGACCACAACGGTTGACTTCTTCGCTAGGGTATTTGTAT
* * * * *
37311279 TTTGGGAGAATGACAGAAATGATGTTTTGACCACCACAATTGATTTCTCTACTAAGAA-AATTTT
65 TTTGGGAGAGTGACAGAAGTGATGTTTTGACCACAACGATTGAATTCTCTA-TAA-AAGAATTTT
37311343 TATAG
128 TATAG
* ****
37311348 TGATAGAGTGATGAAAGTGGCGTTTTGACCACAACGACCAACTTCTTCGCTAGGGTATTTGTATT
1 TGAAAGAGTGATGAAAGTGGCGTTTTGACCACAACGGTTGACTTCTTCGCTAGGGTATTTGTATT
* * *
37311413 TTGGAAGAGTGAC--AAGTGATTTTTTGACCACAATGATTGA
66 TTGGGAGAGTGACAGAAGTGATGTTTTGACCACAACGATTGA
37311453 CTCCTCCTGT
Statistics
Matches: 287, Mismatches: 71, Indels: 24
0.75 0.19 0.06
Matches are distributed among these distances:
131 48 0.17
132 102 0.36
133 129 0.45
134 8 0.03
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (132 bp):
TGAAAGAGTGATGAAAGTGGCGTTTTGACCACAACGGTTGACTTCTTCGCTAGGGTATTTGTATT
TTGGGAGAGTGACAGAAGTGATGTTTTGACCACAACGATTGAATTCTCTATAAAAGAATTTTTAT
AG
Found at i:37311407 original size:265 final size:261
Alignment explanation
Indices: 37310933--37311445 Score: 547
Period size: 265 Copynumber: 1.9 Consensus size: 261
37310923 TGACTTTTTT
* * * *
37310933 ATTAATAGAATTTGTATTTTGAAAGAGTGACGAAAGTGGCGTTTTAGCCACAATGGTCACTTCTC
1 ATTAAAAGAATTTATATTCTGAAAGAGTGACGAAAGTGGCGTTTTAGCCAAAATGGTCACTTCTC
* * * * * * *
37310998 TATTGAGTATTTGTATTTTGGGATAGTGGCAGAAGTGATGTTTTGACCACAACGATTGACTTCTC
66 GATAGAGTATTTGTATTTTGGGAGAATGACAGAAATGATGTTTTGACCACAACAATTGACTTCTC
* * ***
37311063 CATCAAAATAATTTATAGTTTGAGAGAGCCATAAAAGTGATGTTTTGACCATAACAGTTGACTTA
131 CATCAAAATAATTTATAG-TTGAGAGAGCCATAAAAGTGACGTTTTGACCACAACAGCCAACTTA
* * *
37311128 TTTGCTATGGTATTTATATTTT-GAGAGTGTGACAGAAGTGA-TGTTTGACCACAACGATAAAAT
195 TTCGCTAGGGTATTTATATTTTGGA-AGAGTGAC--AAGTGATTGTTTGACCACAACGATAAAAT
37311191 TCTTC
257 TCTTC
* *
37311196 ATTAAAAGAATTTATATTCTGAAAGAGTGATGAAAGTGGC-TCTTT-GACCAAAATGGTTGACTT
1 ATTAAAAGAATTTATATTCTGAAAGAGTGACGAAAGTGGCGT-TTTAG-CCAAAATGG-TCACTT
* * * *
37311259 CTTCGCTAGGGTATTTGTATTTTGGGAGAATGACAGAAATGATGTTTTGACCACCACAATTGATT
63 C-TCGATAGAGTATTTGTATTTTGGGAGAATGACAGAAATGATGTTTTGACCACAACAATTGACT
* * ** * *
37311324 TCTCTA-CTAAGAA-AATTTTTATAG-TGATAGAGTGATGAAAGTGGCGTTTTGACCACAAC-GA
127 TCTCCATC-AA-AATAA--TTTATAGTTGAGAGAGCCATAAAAGTGACGTTTTGACCACAACAG-
* * *
37311385 CCAACTTCTTCGCTAGGGTATTTGTATTTTGGAAGAGTGACAAGTGATTTTTTGACCACAA
187 CCAACTTATTCGCTAGGGTATTTATATTTTGGAAGAGTGACAAGTGATTGTTTGACCACAA
37311446 TGATTGACTC
Statistics
Matches: 205, Mismatches: 34, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
262 2 0.01
263 53 0.26
264 20 0.10
265 119 0.58
266 4 0.02
267 7 0.03
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (261 bp):
ATTAAAAGAATTTATATTCTGAAAGAGTGACGAAAGTGGCGTTTTAGCCAAAATGGTCACTTCTC
GATAGAGTATTTGTATTTTGGGAGAATGACAGAAATGATGTTTTGACCACAACAATTGACTTCTC
CATCAAAATAATTTATAGTTGAGAGAGCCATAAAAGTGACGTTTTGACCACAACAGCCAACTTAT
TCGCTAGGGTATTTATATTTTGGAAGAGTGACAAGTGATTGTTTGACCACAACGATAAAATTCTT
C
Found at i:37316276 original size:10 final size:10
Alignment explanation
Indices: 37316269--37316314 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
37316259 TGTTAACATA
37316269 TTTTAACACAT
1 TTTTAACAC-T
*
37316280 GTTTAACACT
1 TTTTAACACT
*
37316290 TTTTTACACT
1 TTTTAACACT
37316300 TTTTAACACT
1 TTTTAACACT
37316310 TTTTA
1 TTTTA
37316315 CCTTATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 23 0.74
11 8 0.26
ACGTcount: A:0.28, C:0.17, G:0.02, T:0.52
Consensus pattern (10 bp):
TTTTAACACT
Found at i:37316286 original size:11 final size:10
Alignment explanation
Indices: 37316261--37316314 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
37316251 TTACCTTATG
*
37316261 TTAACATATT
1 TTAACACATT
37316271 TTAACACATGT
1 TTAACACAT-T
*
37316282 TTAACACTTT
1 TTAACACATT
* *
37316292 TTTACACTTT
1 TTAACACATT
*
37316302 TTAACACTTT
1 TTAACACATT
37316312 TTA
1 TTA
37316315 CCTTATTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
10 30 0.77
11 9 0.23
ACGTcount: A:0.31, C:0.17, G:0.02, T:0.50
Consensus pattern (10 bp):
TTAACACATT
Found at i:37316323 original size:20 final size:20
Alignment explanation
Indices: 37316246--37316325 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
37316236 TGAAGAAAAT
*
37316246 ACTTTTTACCTTATGTTAAC
1 ACTTTTTACCTTATTTTAAC
* **
37316266 A-TATTTTAACACATGTTTAAC
1 ACT-TTTTACCTTAT-TTTAAC
37316287 ACTTTTTTACAC-T-TTTTAAC
1 AC-TTTTTAC-CTTATTTTAAC
37316307 ACTTTTTACCTTATTTTAA
1 ACTTTTTACCTTATTTTAA
37316326 TTAAATAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
18 1 0.02
19 9 0.19
20 23 0.49
21 7 0.15
22 5 0.11
23 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (20 bp):
ACTTTTTACCTTATTTTAAC
Found at i:37317392 original size:20 final size:20
Alignment explanation
Indices: 37317354--37317392 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37317344 GTAAATTGGT
*
37317354 AAATAAAAGAAAAACTAAAC
1 AAATAAAACAAAAACTAAAC
37317374 AAATAAAACACAAAA-TAAA
1 AAATAAAACA-AAAACTAAA
37317393 GATGATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (20 bp):
AAATAAAACAAAAACTAAAC
Found at i:37318463 original size:20 final size:21
Alignment explanation
Indices: 37318438--37318481 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
37318428 TGGTTCAATG
*
37318438 GGTAAGAAAAGG-AATGGCAT
1 GGTAAGAAAAGGAAATGGAAT
*
37318458 GGTAAGTAAAGGAAATGGAAT
1 GGTAAGAAAAGGAAATGGAAT
37318479 GGT
1 GGT
37318482 TCATGATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.43, C:0.02, G:0.36, T:0.18
Consensus pattern (21 bp):
GGTAAGAAAAGGAAATGGAAT
Found at i:37320723 original size:39 final size:40
Alignment explanation
Indices: 37320609--37320793 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
37320599 GCTACTCGTT
*
37320609 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
37320649 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
37320689 CCAATGCCTTCGGG-TTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
37320728 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
37320769 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37320794 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37320777 original size:79 final size:80
Alignment explanation
Indices: 37320609--37320793 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
37320599 GCTACTCGTT
* *
37320609 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
37320673 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * **
37320690 CAATGCCTTCGGG-TTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
37320753 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
37320769 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
37320794 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:37321998 original size:56 final size:56
Alignment explanation
Indices: 37321931--37322050 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
37321921 TATTAGTTTA
37321931 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
37321987 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
37322043 TTGCCCAT
1 TTGCCCAT
37322051 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:37322472 original size:30 final size:30
Alignment explanation
Indices: 37322430--37322492 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
37322420 TTTGGGAGTC
37322430 ACATGGTCGTGTGACACACACGGCCTAGCT
1 ACATGGTCGTGTGACACACACGGCCTAGCT
37322460 ACATGG-CTGTGTGACACACACGGCCTAGCT
1 ACATGGTC-GTGTGACACACACGGCCTAGCT
37322490 ACA
1 ACA
37322493 CGACTCTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.19
Consensus pattern (30 bp):
ACATGGTCGTGTGACACACACGGCCTAGCT
Found at i:37327681 original size:50 final size:50
Alignment explanation
Indices: 37327615--37327725 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
37327605 GAAAGGAGCG
* * * *
37327615 CAAACCATCCACTAAGGGAGGAAGGAGCCCAATCGTCTACTTGAGATGCC
1 CAAACCATCCACTAAGGCAGAAAGGAGCCCAACCGTCCACTTGAGATGCC
* * * *
37327665 TAAACCGTCCAGTAAGGCAGAAAGGAGCCCAACCGTCCACTTGAGGTGCC
1 CAAACCATCCACTAAGGCAGAAAGGAGCCCAACCGTCCACTTGAGATGCC
*
37327715 CAAACTATCCA
1 CAAACCATCCA
37327726 TGGTACTTGG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (50 bp):
CAAACCATCCACTAAGGCAGAAAGGAGCCCAACCGTCCACTTGAGATGCC
Found at i:37329854 original size:16 final size:16
Alignment explanation
Indices: 37329833--37329863 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37329823 CCATTATATG
37329833 CGAGCTATCTGTATTA
1 CGAGCTATCTGTATTA
*
37329849 CGAGCTATGTGTATT
1 CGAGCTATCTGTATT
37329864 GCAAACTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (16 bp):
CGAGCTATCTGTATTA
Found at i:37333452 original size:42 final size:43
Alignment explanation
Indices: 37333369--37333507 Score: 149
Period size: 42 Copynumber: 3.2 Consensus size: 43
37333359 TCCCAGATGT
* * * * *
37333369 GGTCTTACATGTAATCAAATATCGATGCCACTGCCCCAGACAG
1 GGTCTTACACGAAATCATATATCGATGCCAATGTCCCAGACAG
* *
37333412 GGTCTTACACGAAATCATATA-CGATGCCAATGTCCTAGACAT
1 GGTCTTACACGAAATCATATATCGATGCCAATGTCCCAGACAG
* *
37333454 GGTCTTACACGTAAATC-TCAAATCGATGCCAACGTCCCAGAC-G
1 GGTCTTACACG-AAATCAT-ATATCGATGCCAATGTCCCAGACAG
37333497 TGGTCTTACAC
1 -GGTCTTACAC
37333508 AATAAAACAT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 29 0.36
43 25 0.31
44 27 0.33
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGAAATCATATATCGATGCCAATGTCCCAGACAG
Found at i:37336908 original size:42 final size:42
Alignment explanation
Indices: 37336846--37336943 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
37336836 GGTGAATCGA
* * * *
37336846 GTGTGGGCTACCTTGCACCTAACATATTCAGGGCACACGCCC
1 GTGTGGTCTACCCTGTACCTAACACATTCAGGGCACACGCCC
*
37336888 GTGTGGTTTACCCTGTACCTAACACATTCAGGGCACACGCCC
1 GTGTGGTCTACCCTGTACCTAACACATTCAGGGCACACGCCC
37336930 GTGTGGTCTACCCT
1 GTGTGGTCTACCCT
37336944 TAATTGATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.24
Consensus pattern (42 bp):
GTGTGGTCTACCCTGTACCTAACACATTCAGGGCACACGCCC
Found at i:37337097 original size:21 final size:21
Alignment explanation
Indices: 37337050--37337091 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37337040 CTAAACTAAT
*
37337050 TCATAACACATGATCACTAGA
1 TCATAACACATGATCACAAGA
37337071 TCATAACACATGATCACAAGA
1 TCATAACACATGATCACAAGA
37337092 CTATAATCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.21
Consensus pattern (21 bp):
TCATAACACATGATCACAAGA
Found at i:37347586 original size:43 final size:43
Alignment explanation
Indices: 37347525--37347675 Score: 230
Period size: 43 Copynumber: 3.5 Consensus size: 43
37347515 TGTCCCAGAC
* * *
37347525 ATGGTCTTACATGGAAATCTCATATCGCTGCCAATAGCCCAGCT
1 ATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
37347569 ATGGTCTTACACGAAATCTCAAATTGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
37347612 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
37347655 ATGATCTTACATGAAATCTCA
1 ATGGTCTTACACGAAATCTCA
37347676 CCTCAGAAGT
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
43 87 0.89
44 11 0.11
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:37347831 original size:31 final size:31
Alignment explanation
Indices: 37347790--37347996 Score: 274
Period size: 31 Copynumber: 6.7 Consensus size: 31
37347780 ATCCAATGCT
* *
37347790 CAAATC-AATTCGGTAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
37347820 CGAATCAAATTCGGCAATGTATATCTACATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
**
37347851 CAAATC-AATTCGATAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
37347881 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
37347912 CAAATCAAATTCAGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
37347943 CAATTCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
37347974 CAAATCAAATTTGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
37347997 AAACATATAC
Statistics
Matches: 153, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
30 31 0.20
31 122 0.80
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:37347887 original size:61 final size:61
Alignment explanation
Indices: 37347790--37347981 Score: 269
Period size: 61 Copynumber: 3.1 Consensus size: 61
37347780 ATCCAATGCT
* * * *
37347790 CAAATCAATTCGGTAATATATATCCATATACGAATCAAATTCGGCAATGTATATCTACATA
1 CAAATCAATTCGATAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATA
* *
37347851 CAAATCAATTCGATAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAATTCGATAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATA
* * * *
37347912 CAAATCAAATTC-AGCAATGTATATCTATAAACAATTCAAATTCGGCAATGTATATCTATATA
1 CAAATC-AATTCGA-TAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATA
37347974 CAAATCAA
1 CAAATCAA
37347982 ATTTGGCAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
61 64 0.55
62 53 0.45
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (61 bp):
CAAATCAATTCGATAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATA
Found at i:37348017 original size:93 final size:92
Alignment explanation
Indices: 37347790--37348007 Score: 285
Period size: 92 Copynumber: 2.4 Consensus size: 92
37347780 ATCCAATGCT
* * ** * * *
37347790 CAAATC-AATTCGGTAATATATATCCATATACGAATCAAATTCGGCAATGTATATCTACATACAA
1 CAAATCAAATTCGGCAATGTATAAACATATACAAATCAAATTCAGCAATGTATATCTACAAACAA
*
37347854 ATCAATTCGATAATGTATATCCATATA
66 ATCAATTCGACAATGTATATCCATATA
* *
37347881 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCAGCAATGTATATCTATAAACAA
1 CAAATCAAATTCGGCAATGTATAAACATATACAAATCAAATTCAGCAATGTATATCTACAAACAA
* * *
37347946 TTCAAATTCGGCAATGTATATCTATATA
66 ATC-AATTCGACAATGTATATCCATATA
*
37347974 CAAATCAAATTTGGCAATGTATAAAACATATACA
1 CAAATCAAATTCGGCAATGTAT-AAACATATACA
37348008 TTTAAATTCA
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
91 6 0.05
92 53 0.48
93 42 0.38
94 10 0.09
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (92 bp):
CAAATCAAATTCGGCAATGTATAAACATATACAAATCAAATTCAGCAATGTATATCTACAAACAA
ATCAATTCGACAATGTATATCCATATA
Found at i:37350589 original size:16 final size:16
Alignment explanation
Indices: 37350570--37350618 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
37350560 AAACTATCTC
*
37350570 TATTGCGAGCTATGTG
1 TATTGCGAACTATGTG
*
37350586 TATTGCAAACTATGCCT-
1 TATTGCGAACTATG--TG
37350603 TATTGCGAACTATGTG
1 TATTGCGAACTATGTG
37350619 AAATGCAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.44
17 13 0.48
18 1 0.04
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (16 bp):
TATTGCGAACTATGTG
Found at i:37350626 original size:33 final size:32
Alignment explanation
Indices: 37350556--37350631 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
37350546 AAACCATTAT
* *
37350556 ATGCAAACTATCTCTATTGCGAGCTATGTGTA
1 ATGCAAACTATCTCTATTGCGAACTATGTGAA
*
37350588 TTGCAAACTATGC-CTTATTGCGAACTATGTGAA
1 ATGCAAACTAT-CTC-TATTGCGAACTATGTGAA
*
37350621 ATGCAAGCTAT
1 ATGCAAACTAT
37350632 ACACTATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 11 0.30
33 26 0.70
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (32 bp):
ATGCAAACTATCTCTATTGCGAACTATGTGAA
Done.