Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 156 of 190
Found at i:25284080 original size:20 final size:20
Alignment explanation
Indices: 25284057--25284219 Score: 57
Period size: 22 Copynumber: 8.4 Consensus size: 20
25284047 GCTATTAAAT
25284057 ATGCAATCAAATATATAATC
1 ATGCAATCAAATATATAATC
* *
25284077 ATGCAAATAATAATAT-TAATA
1 ATGC-AATCA-AATATATAATC
**
25284098 AT-CACGC-AA-ATA-AA-C
1 ATGCAATCAAATATATAATC
*
25284113 ATGCAATTAAATATATAATC
1 ATGCAATCAAATATATAATC
* *
25284133 ATGTAAATAAAAATATATAA--
1 ATG-CAAT-CAAATATATAATC
*
25284153 A--CTATGC-AA-ATA-AA-C
1 ATGCAAT-CAAATATATAATC
* * *
25284168 ATGCAATTAAAAATATAATT
1 ATGCAATCAAATATATAATC
25284188 ATGCAAATCATAATATATAAATC
1 ATGC-AATCA-AATATAT-AATC
25284211 ATGCAATCA
1 ATGCAATCA
25284220 TGTAAATAAT
Statistics
Matches: 102, Mismatches: 21, Indels: 38
0.63 0.13 0.24
Matches are distributed among these distances:
14 2 0.02
15 6 0.06
16 8 0.08
17 11 0.11
18 6 0.06
19 5 0.05
20 14 0.14
21 17 0.17
22 26 0.25
23 7 0.07
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.29
Consensus pattern (20 bp):
ATGCAATCAAATATATAATC
Found at i:25284124 original size:88 final size:86
Alignment explanation
Indices: 25283967--25284135 Score: 209
Period size: 88 Copynumber: 1.9 Consensus size: 86
25283957 TAACAATGTA
* *
25283967 AAATATGCAATTAAATATAATCATGCAAATAAAAATATTAATAATAAAGCAATCACACAACTAAA
1 AAATATGCAATAAAATATAATCATGCAAATAAAAATATTAATAATAAAGCAATCAAACAACTAAA
25284032 TAAAT-TAATAATCATGCTATT
66 TAAATAT-ATAATCATGCTATT
* * * *
25284053 AAATATGCAATCAAATATATAATCATGCAAATAATAATATTAATAATCACGCAAAT-AAACATGC
1 AAATATGCAAT-AAA-ATATAATCATGCAAATAAAAATATTAATAATAAAGC-AATCAAACA-AC
*
25284117 -AATTAAATATATAATCATG
62 TAAATAAATATATAATCATG
25284136 TAAATAAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
86 11 0.15
87 2 0.03
88 53 0.75
89 5 0.07
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (86 bp):
AAATATGCAATAAAATATAATCATGCAAATAAAAATATTAATAATAAAGCAATCAAACAACTAAA
TAAATATATAATCATGCTATT
Found at i:25284149 original size:22 final size:23
Alignment explanation
Indices: 25284121--25284166 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
25284111 ACATGCAATT
* *
25284121 AAATATATAATC-ATGTAAATAA
1 AAATATATAAACTATGCAAATAA
25284143 AAATATATAAACTATGCAAATAA
1 AAATATATAAACTATGCAAATAA
25284166 A
1 A
25284167 CATGCAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (23 bp):
AAATATATAAACTATGCAAATAA
Found at i:25284184 original size:55 final size:55
Alignment explanation
Indices: 25284041--25284216 Score: 221
Period size: 55 Copynumber: 3.2 Consensus size: 55
25284031 ATAAATTAAT
* * * *
25284041 AATCATGCTATTAAATATGCAATCAAATATATAATCATGCAAATAATAATAT-TAA
1 AATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAATATAT-A
* * *
25284096 TAATCACGCAAATAAACATGCAATTAAATATATAATCATGTAAATAAAAATATATA
1 -AATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAATATATA
* * *
25284152 AA-CTATGCAAATAAACATGCAATTAAAAATATAATTATGCAAATCATAATATATA
1 AATC-ATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAATATATA
25284207 AATCATGCAA
1 AATCATGCAA
25284217 TCATGTAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
54 1 0.01
55 55 0.53
56 47 0.45
57 1 0.01
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (55 bp):
AATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAATATATA
Found at i:25284209 original size:14 final size:14
Alignment explanation
Indices: 25284192--25284239 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
25284182 ATAATTATGC
25284192 AAATCATAATATAT
1 AAATCATAATATAT
*
25284206 AAATCATGCAATCATGT
1 AAATCAT--AAT-ATAT
*
25284223 AAATAATAATATAT
1 AAATCATAATATAT
25284237 AAA
1 AAA
25284240 CCATGCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 13 0.46
15 3 0.11
16 3 0.11
17 9 0.32
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.31
Consensus pattern (14 bp):
AAATCATAATATAT
Found at i:25284814 original size:12 final size:13
Alignment explanation
Indices: 25284794--25284829 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
25284784 TATGACTAAA
25284794 AAAAAATTAAAC-
1 AAAAAATTAAACT
*
25284806 AATAAATTAAACT
1 AAAAAATTAAACT
25284819 AAAAAATTAAA
1 AAAAAATTAAA
25284830 ATACAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAAATTAAACT
Found at i:25286001 original size:4 final size:4
Alignment explanation
Indices: 25285992--25286021 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
25285982 AATGTGTATG
*
25285992 AATA AATA AACA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
25286022 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:25286598 original size:16 final size:16
Alignment explanation
Indices: 25286561--25286599 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
25286551 ATTATTTTAA
* *
25286561 ATATAAATATAAAATT
1 ATATATATATAAAAAT
*
25286577 AAATATATATAAAAAT
1 ATATATATATAAAAAT
25286593 ATATATA
1 ATATATA
25286600 ATTAAATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATATATAAAAAT
Found at i:25286610 original size:22 final size:22
Alignment explanation
Indices: 25286557--25286619 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
25286547 AAATATTATT
*
25286557 TTAAATATAAATATAAAATTAA
1 TTAAATATAAAAATAAAATTAA
* * *
25286579 ATATATATAAAAAT-ATATATAA
1 TTAAATATAAAAATAAAAT-TAA
*
25286601 TTAAATATAAAATTAAAAT
1 TTAAATATAAAAATAAAAT
25286620 AATAATTTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
21 3 0.10
22 25 0.81
23 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAATATAAAAATAAAATTAA
Found at i:25286626 original size:12 final size:13
Alignment explanation
Indices: 25286564--25286626 Score: 73
Period size: 12 Copynumber: 5.1 Consensus size: 13
25286554 ATTTTAAATA
25286564 TAAATATAA-AAT
1 TAAATATAATAAT
25286576 TAAATATATATAA-
1 TAAATATA-ATAAT
25286589 -AAATATATATAAT
1 TAAATATA-ATAAT
25286602 TAAATATAA-AAT
1 TAAATATAATAAT
25286614 TAAA-ATAATAAT
1 TAAATATAATAAT
25286626 T
1 T
25286627 TTTTTATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.09
12 31 0.67
13 2 0.04
14 9 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TAAATATAATAAT
Found at i:25286954 original size:1 final size:1
Alignment explanation
Indices: 25286944--25286973 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
25286934 CAAACGCGTG
*
25286944 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
25286974 ATCAAGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:25288471 original size:21 final size:21
Alignment explanation
Indices: 25288427--25288471 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25288417 CGTCTGTCTT
* * *
25288427 TTTTCTTTTTTTTTTTTTTAA
1 TTTTCTTATTATTTTTTATAA
*
25288448 TTTTCTTATTATTTTTTATGA
1 TTTTCTTATTATTTTTTATAA
25288469 TTT
1 TTT
25288472 ATTCAATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTCTTATTATTTTTTATAA
Found at i:25295522 original size:21 final size:21
Alignment explanation
Indices: 25295474--25295511 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
25295464 TAAAATTTTA
25295474 AAGTTTGA-C-AATTTGACTC
1 AAGTTTGATCAAATTTGACTC
25295493 AAGTTTGATCAAATTTGAC
1 AAGTTTGATCAAATTTGAC
25295512 CTAATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (21 bp):
AAGTTTGATCAAATTTGACTC
Found at i:25306507 original size:44 final size:44
Alignment explanation
Indices: 25306449--25306537 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
25306439 GAGATATTAT
*
25306449 GTGATAAAAAGATATTAATCATACACTAAGACCATTCACAGATA
1 GTGATAAAAAGATATTAATCATACACTAAGACCATTCACAAATA
* *
25306493 GTGATAAAAGGATATTAATCATACACTAAGATCATTCACAAATA
1 GTGATAAAAAGATATTAATCATACACTAAGACCATTCACAAATA
25306537 G
1 G
25306538 GTTGTCAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (44 bp):
GTGATAAAAAGATATTAATCATACACTAAGACCATTCACAAATA
Found at i:25315133 original size:48 final size:48
Alignment explanation
Indices: 25315068--25315162 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
25315058 TAAAAATAAT
* **
25315068 ATTTTAAAATTTATTAATTAAATAAATATATTATTAACATAACAAAAA
1 ATTTTAAAATTTATTAATTAAATAAACATATTACCAACATAACAAAAA
*
25315116 ATTTT-AAATTTCGTTAATTAAATAAACATATTACCAACATAACAAAA
1 ATTTTAAAATTT-ATTAATTAAATAAACATATTACCAACATAACAAAA
25315163 TTACCGATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 6 0.14
48 36 0.86
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (48 bp):
ATTTTAAAATTTATTAATTAAATAAACATATTACCAACATAACAAAAA
Found at i:25315165 original size:17 final size:17
Alignment explanation
Indices: 25315145--25315181 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
25315135 AAATAAACAT
25315145 ATTACCAACATAACAAA
1 ATTACCAACATAACAAA
* *
25315162 ATTACCGATATAACAAA
1 ATTACCAACATAACAAA
25315179 ATT
1 ATT
25315182 CGTTCGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (17 bp):
ATTACCAACATAACAAA
Found at i:25316592 original size:21 final size:21
Alignment explanation
Indices: 25316552--25316592 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
25316542 CAATTAATAG
**
25316552 TTTTTTAAAATTTTAATTATC
1 TTTTTTAAAAAATTAATTATC
*
25316573 TTTTTTAAAAAATTATTTAT
1 TTTTTTAAAAAATTAATTAT
25316593 TATTATTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTTAAAAAATTAATTATC
Found at i:25326522 original size:16 final size:16
Alignment explanation
Indices: 25326496--25326535 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
25326486 AGAGAGTGAG
25326496 AGAGAAGAGAAAGAAGA
1 AGAG-AGAGAAAGAAGA
*
25326513 AGAGAGAGAAAGAGGA
1 AGAGAGAGAAAGAAGA
*
25326529 AGGGAGA
1 AGAGAGA
25326536 TATGAAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (16 bp):
AGAGAGAGAAAGAAGA
Found at i:25326972 original size:60 final size:58
Alignment explanation
Indices: 25326908--25327081 Score: 240
Period size: 60 Copynumber: 2.9 Consensus size: 58
25326898 ATAAAAAATA
* * **
25326908 TAAAATAAAATTTTCAAGAAAAATATTTTTAAGAAAAAGTTAAAAGTATCAATTTTTTTT
1 TAAAATAAAAATTTC-A-AAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCAT
* *
25326968 TAAAATAAAAAAATCTCAAAAAATATTTTTGAGAAAAAATTAAAAGTATCAATTTTTCAT
1 TAAAAT--AAAAATTTCAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCAT
* *
25327028 GAAAATAAAAATTTCTAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTT
1 TAAAATAAAAATTTCAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTT
25327082 CCTTGTATAA
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
58 45 0.44
60 49 0.48
61 1 0.01
62 7 0.07
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (58 bp):
TAAAATAAAAATTTCAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCAT
Found at i:25327052 original size:58 final size:59
Alignment explanation
Indices: 25326926--25327081 Score: 233
Period size: 58 Copynumber: 2.6 Consensus size: 59
25326916 AATTTTCAAG
* ** *
25326926 AAAAATATTTTTAAGAAAAAGTTAAAAGTATCAATTTTTTTTTAAAATAAAAAAATCTCA
1 AAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCATGAAAAT-AAAAAATCTCA
* * *
25326986 AAAAATATTTTTGAGAAAAAATTAAAAGTATCAATTTTTCATGAAAAT-AAAAATTTCT
1 AAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCATGAAAATAAAAAATCTCA
25327044 AAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTT
1 AAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTT
25327082 CCTTGTATAA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
58 45 0.51
60 43 0.49
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (59 bp):
AAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCATGAAAATAAAAAATCTCA
Found at i:25329189 original size:35 final size:34
Alignment explanation
Indices: 25329150--25329215 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
25329140 CGGTTTAAAA
25329150 TTTTTCAAAT-ATTTTTTATTTTTTTTTCTTTTCCT
1 TTTTTC-AATGATTTTTT-TTTTTTTTTCTTTTCCT
** *
25329185 TTTTTCCTTGATTTTTTTTTTTTTTTGTTTT
1 TTTTTCAATGATTTTTTTTTTTTTTTCTTTT
25329216 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 14 0.52
35 13 0.48
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (34 bp):
TTTTTCAATGATTTTTTTTTTTTTTTCTTTTCCT
Found at i:25329200 original size:1 final size:1
Alignment explanation
Indices: 25329196--25329227 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
25329186 TTTTCCTTGA
*
25329196 TTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
25329228 GTAAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:25329227 original size:17 final size:17
Alignment explanation
Indices: 25329161--25329229 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 17
25329151 TTTTCAAATA
* *
25329161 TTTTTTATTTTTTTTTC
1 TTTTTTTTTTTTTTTTG
** **
25329178 TTTTCCTTTTTTCCTTG
1 TTTTTTTTTTTTTTTTG
*
25329195 ATTTTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTG
25329212 TTTTTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTG
25329229 T
1 T
25329230 AAATTAATAA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.03, C:0.07, G:0.04, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTTG
Found at i:25329457 original size:84 final size:84
Alignment explanation
Indices: 25329306--25329467 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 84
25329296 TAAGAGATCT
** * **
25329306 AAGGTCTTATAAATCTCAAAACTAAAATAGATTCAACTCAAAAGACTTATGAGTCATATTCGAAA
1 AAGGTCTTATAAATCTCAAAACTAAAATAGATTCAACTCAAAAGACTTACAAATCATACCCGAAA
*
25329371 GACTTAGAGATTATGTCTA
66 GACATAGAGATTATGTCTA
* * * *
25329390 AAGGTCTTATAAATCTCGAAAGTAAAATAGATTCAACT-AGAAAGACTTACAAATCCTGCCC-AG
1 AAGGTCTTATAAATCTCAAAACTAAAATAGATTCAACTCA-AAAGACTTACAAATCATACCCGA-
25329453 AAGACATAGAGATTA
64 AAGACATAGAGATTA
25329468 CTCTCGAAGG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 2 0.03
84 64 0.97
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (84 bp):
AAGGTCTTATAAATCTCAAAACTAAAATAGATTCAACTCAAAAGACTTACAAATCATACCCGAAA
GACATAGAGATTATGTCTA
Found at i:25329745 original size:107 final size:105
Alignment explanation
Indices: 25329554--25329821 Score: 331
Period size: 107 Copynumber: 2.5 Consensus size: 105
25329544 GCGATGAAAC
* * * * * *
25329554 TTTAAAAATGTTTTGCCCAAAAGTCTTAAGGATTATGCCTAGAGGTCTTAAAGATTTTAAAATAT
1 TTTAAAATTATTTTGCCCAAAGGTCTTAA-AATTATACCCAGAGGTCTTAAAGATTTTAAAATAT
*
25329619 TTGAATACTCCTCACATATTAAAAGCGTTGAAACTTTAAAAA
65 TTGAATACTCCTCACATATTAAAAGCATTG-AACTTTAAAAA
* * * *
25329661 TTTAAAATTATTTTGCCTAGAGGTCTTAAAAATTATACCCGGAGGTCTTAAAGATTTTAAAATCT
1 TTTAAAATTATTTTGCCCAAAGGTCTT-AAAATTATACCCAGAGGTCTTAAAGATTTTAAAATAT
* * * *
25329726 TTGAA-AGCTTCTCATATATTAGAGGCATTGAACTTTAAAAA
65 TTGAATA-CTCCTCACATATTAAAAGCATTGAACTTTAAAAA
* * *
25329767 TTTAAAATTATTTTGCCCAAAGGTCTTAAAATTGTATCCAAAGGTCTTAAAGATT
1 TTTAAAATTATTTTGCCCAAAGGTCTTAAAATTATACCCAGAGGTCTTAAAGATT
25329822 ATGTTCGAAG
Statistics
Matches: 138, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
105 24 0.17
106 37 0.27
107 75 0.54
108 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (105 bp):
TTTAAAATTATTTTGCCCAAAGGTCTTAAAATTATACCCAGAGGTCTTAAAGATTTTAAAATATT
TGAATACTCCTCACATATTAAAAGCATTGAACTTTAAAAA
Found at i:25329823 original size:127 final size:128
Alignment explanation
Indices: 25329681--25329948 Score: 315
Period size: 127 Copynumber: 2.1 Consensus size: 128
25329671 TTTTGCCTAG
* * * *
25329681 AGGTCTTAAAAATTATACCCGGAGGTCTTAAAGATTTTAAAATCTTTGAAAGCTTCTCATATATT
1 AGGTCTTAAAGATTATACCCGAAGGTCTTAAAGATCTTAAAATCTTTGAAAGCTCCTCATATATT
* * **
25329746 AGAGGCATTGA-ACTTTAAAAATTTAAAATTATTTTGCCCAAAGGTCTT-AAAATTGTATCCAA
66 AAAGACATTGAGACTTTAAAAATTTAAAA-TATTTTGCCCAAACATCTTAAAAATTGTATCCAA
*** * *
25329808 AGGTCTTAAAGATTATGTTCGAAGGTCTTAAAGATCTTAAAATCTTTGAATGCTCCTTATATATT
1 AGGTCTTAAAGATTATACCCGAAGGTCTTAAAGATCTTAAAATCTTTGAAAGCTCCTCATATATT
* ** * * ** * *
25329873 AAAGACATTTAGACTTTAAATTTTTAAAATGTTTTGCTCGGACATCTTAAAAATTGTGTCCAG
66 AAAGACATTGAGACTTTAAAAATTTAAAATATTTTGCCCAAACATCTTAAAAATTGTATCCAA
25329936 AGGTCTTAAAGAT
1 AGGTCTTAAAGAT
25329949 CTCAAAATGT
Statistics
Matches: 117, Mismatches: 22, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
127 77 0.66
128 40 0.34
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (128 bp):
AGGTCTTAAAGATTATACCCGAAGGTCTTAAAGATCTTAAAATCTTTGAAAGCTCCTCATATATT
AAAGACATTGAGACTTTAAAAATTTAAAATATTTTGCCCAAACATCTTAAAAATTGTATCCAA
Found at i:25329996 original size:234 final size:234
Alignment explanation
Indices: 25329570--25330008 Score: 562
Period size: 234 Copynumber: 1.9 Consensus size: 234
25329560 AATGTTTTGC
* * *
25329570 CCAAAAGTCTTAAGGATTATGCCTAGAGGTCTTAAAGATTTTAAAATATTTGAATACTCCTCACA
1 CCAAAAGTCTTAAAGATTATGCCGAGAGGTCTTAAAGATCTTAAAATATTTGAATACTCCTCACA
* **
25329635 TATTAAAAGCGTTGAAACTTTAAAAATTTAAAATTATTTTGCCTAGAGGTCTTAAAAATTATACC
66 TATTAAAAGCATTGAAACTTTAAAAATTTAAAATTATTTTGCCTAGACATCTTAAAAATTATACC
* * *
25329700 CGGAGGTCTTAAAGATTTTAAAATCTTTGAAAGCTTCTCATATATTAGAGGCATTGAACTTTAAA
131 CAGAGGTCTTAAAGATCTCAAAATCTTTGAAAGCTTCTCATATATTAGAGGCATTGAACTTTAAA
25329765 AATTTAAAATTATTTTGCCCAAAGGTCTTAAAATTGTAT
196 AATTTAAAATTATTTTGCCCAAAGGTCTTAAAATTGTAT
* * * * * *
25329804 CCAAAGGTCTTAAAGATTATGTTCGA-AGGTCTTAAAGATCTTAAAATCTTTGAATGCTCCTTAT
1 CCAAAAGTCTTAAAGATTATG-CCGAGAGGTCTTAAAGATCTTAAAATATTTGAATACTCCTCAC
* * ** * * *
25329868 ATATT-AAAGACATTTAGACTTTAAATTTTTAAAA-TGTTTTG-CTCGGACATCTTAAAAATTGT
65 ATATTAAAAG-CATTGAAACTTTAAAAATTTAAAATTATTTTGCCT-AGACATCTTAAAAATTAT
** * * * *
25329930 GTCCAGAGGTCTTAAAGATCTCAAAATGTTTGAATGTTTTTCATATATTAGAGGCATTGAAACTT
128 ACCCAGAGGTCTTAAAGATCTCAAAATCTTTGAAAGCTTCTCATATATTAGAGGCATTG-AACTT
25329995 TAAAAATTTAAAAT
192 TAAAAATTTAAAAT
25330009 GTTTTTCCTG
Statistics
Matches: 173, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
232 2 0.01
233 74 0.43
234 95 0.55
235 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (234 bp):
CCAAAAGTCTTAAAGATTATGCCGAGAGGTCTTAAAGATCTTAAAATATTTGAATACTCCTCACA
TATTAAAAGCATTGAAACTTTAAAAATTTAAAATTATTTTGCCTAGACATCTTAAAAATTATACC
CAGAGGTCTTAAAGATCTCAAAATCTTTGAAAGCTTCTCATATATTAGAGGCATTGAACTTTAAA
AATTTAAAATTATTTTGCCCAAAGGTCTTAAAATTGTAT
Found at i:25330830 original size:40 final size:42
Alignment explanation
Indices: 25330768--25330872 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
25330758 AATACAAATA
* * * *
25330768 ATGCAAATACGAATATCATTTTTT-T-ATACAGATGCAAGTG
1 ATGCAAATACAAATGTCTTTTTTTGTGATACAAATGCAAGTG
* *
25330808 ATGCAAATATC-AATGTCTTTTTTTGTGATGCAAATGTAAGTG
1 ATGCAAATA-CAAATGTCTTTTTTTGTGATACAAATGCAAGTG
* *
25330850 ATACAAATGCAAATGTCTTTTTT
1 ATGCAAATACAAATGTCTTTTTT
25330873 ATGACATAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
40 20 0.37
41 3 0.06
42 31 0.57
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (42 bp):
ATGCAAATACAAATGTCTTTTTTTGTGATACAAATGCAAGTG
Found at i:25331251 original size:68 final size:68
Alignment explanation
Indices: 25331147--25331321 Score: 172
Period size: 68 Copynumber: 2.6 Consensus size: 68
25331137 ACTAGGCTTG
* * * * ** * ***
25331147 AAATCTTCATCAAGTGTCAGGTAAACAGGGAATAAATTTTCATTGGGAGTTAACTAAGCTGGGCT
1 AAATCTTCTTCAGGTGCCAGGTAAACTGGGCTTAAATTTTCATTGAGAACCAACTAAGCTGGGCT
25331212 TTA
66 TTA
* ** * * *
25331215 AAATCTTCTTCAGGTGCCAGGCAAACTGGGCTTAAATTTTTTTTTAGAACCAACTAATCTGGGTT
1 AAATCTTCTTCAGGTGCCAGGTAAACTGGGCTTAAATTTTCATTGAGAACCAACTAAGCTGGGCT
25331280 TTA
66 TTA
* *
25331283 AAATCTCCATT-AGGTACCAGGTAAACTGGGCTTAAATTT
1 AAATCTTC-TTCAGGTGCCAGGTAAACTGGGCTTAAATTT
25331322 CATCAAAGGC
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
68 85 0.98
69 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (68 bp):
AAATCTTCTTCAGGTGCCAGGTAAACTGGGCTTAAATTTTCATTGAGAACCAACTAAGCTGGGCT
TTA
Found at i:25331478 original size:35 final size:34
Alignment explanation
Indices: 25331333--25331507 Score: 110
Period size: 34 Copynumber: 5.2 Consensus size: 34
25331323 ATCAAAGGCT
* * * *
25331333 AGATAAACTGGGTTTAAAATCTTTAT-TGGGAGCT
1 AGATAAACTAGGCTTAAAATCTTTATAAGGG-GCC
* ** * * *
25331367 AGCTAAGTTGGGCTTAAAAT-TTTCATCA-GGGTC
1 AGATAAACTAGGCTTAAAATCTTT-ATAAGGGGCC
* ** *
25331400 AGATAAACTAGGCTT-AAATTTTTACT-A-GTACT
1 AGATAAACTAGGCTTAAAATCTTTA-TAAGGGGCC
*
25331432 AGCTAAACTAGGCTTTAAAATCTTTATAAGGGGCC
1 AGATAAACTAGGC-TTAAAATCTTTATAAGGGGCC
* * *
25331467 AGATAAACTAGGCTTAAAATTTTTATCATGGGCC
1 AGATAAACTAGGCTTAAAATCTTTATAAGGGGCC
25331501 AGATAAA
1 AGATAAA
25331508 TTGGGTTTAA
Statistics
Matches: 109, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
32 19 0.17
33 22 0.20
34 54 0.50
35 14 0.13
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (34 bp):
AGATAAACTAGGCTTAAAATCTTTATAAGGGGCC
Found at i:25331492 original size:34 final size:33
Alignment explanation
Indices: 25331377--25331583 Score: 141
Period size: 34 Copynumber: 6.2 Consensus size: 33
25331367 AGCTAAGTTG
* *
25331377 GGCTTAAAATTTTCATCAGGGTCAGATAAACTA
1 GGCTTAAAATTTTTATCAGGGCCAGATAAACTA
** * *
25331410 GGCTT-AAATTTTTA-CTAGTACTAGCTAAACTA
1 GGCTTAAAATTTTTATC-AGGGCCAGATAAACTA
* *
25331442 GGCTTTAAAATCTTTATAAGGGGCCAGATAAACTA
1 GGC-TTAAAATTTTTATCA-GGGCCAGATAAACTA
*
25331477 GGCTTAAAATTTTTATCATGGGCCAGATAAA-TT
1 GGCTTAAAATTTTTATCA-GGGCCAGATAAACTA
* * * * ** * * *
25331510 GGGTTTAAATTTTCATTGAAAGCCAGCTAAGCTG
1 GGCTTAAAATTTTTA-TCAGGGCCAGATAAACTA
* * * *
25331544 GGCATAAAATCTTTATCAAGTGCCAAATAAACTA
1 GGCTTAAAATTTTTATC-AGGGCCAGATAAACTA
25331578 GGCTTA
1 GGCTTA
25331584 TGTGCCAGCT
Statistics
Matches: 128, Mismatches: 38, Indels: 15
0.71 0.21 0.08
Matches are distributed among these distances:
31 1 0.01
32 22 0.17
33 29 0.23
34 62 0.48
35 14 0.11
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (33 bp):
GGCTTAAAATTTTTATCAGGGCCAGATAAACTA
Found at i:25331589 original size:22 final size:22
Alignment explanation
Indices: 25331563--25331609 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
25331553 TCTTTATCAA
25331563 GTGCCAAATAA-ACTAGGCTTAT
1 GTGCCAAATAATA-TAGGCTTAT
**
25331585 GTGCCAGCTAATATAGGCTTAT
1 GTGCCAAATAATATAGGCTTAT
25331607 GTG
1 GTG
25331610 TCGGCTAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (22 bp):
GTGCCAAATAATATAGGCTTAT
Found at i:25331616 original size:22 final size:22
Alignment explanation
Indices: 25331576--25331618 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25331566 CCAAATAAAC
25331576 TAGGCTTATGTGCCAGCTAATA
1 TAGGCTTATGTGCCAGCTAATA
* *
25331598 TAGGCTTATGTGTCGGCTAAT
1 TAGGCTTATGTGCCAGCTAAT
25331619 CTGGGTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (22 bp):
TAGGCTTATGTGCCAGCTAATA
Found at i:25333366 original size:75 final size:72
Alignment explanation
Indices: 25333242--25333384 Score: 182
Period size: 75 Copynumber: 1.9 Consensus size: 72
25333232 TTTTTTTTTA
*
25333242 ATGATCAACATGCCCCTAAGATGCATGGGTCACACCAATTTTTGGGTAAAGAAATAAAAGGTTGG
1 ATGATCAACATGACCCT-AGATGCATGGGTCACACCAATTTTTGGGTAAAGAAATAAAAGGTTGG
25333307 TAAGTTTC
65 TAAGTTTC
***
25333315 ATGATCAACATGACCCT-GATGACATATGGGTCA-AGCCAACTTTTTGGGTAAAGGGCTAAAAGG
1 ATGATCAACATGACCCTAGATG-C--ATGGGTCACA-CCAA-TTTTTGGGTAAAGAAATAAAAGG
25333378 TTGGTAA
61 TTGGTAA
25333385 ATATAAGCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
71 4 0.07
72 1 0.02
73 17 0.28
74 12 0.20
75 27 0.44
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (72 bp):
ATGATCAACATGACCCTAGATGCATGGGTCACACCAATTTTTGGGTAAAGAAATAAAAGGTTGGT
AAGTTTC
Found at i:25341592 original size:24 final size:24
Alignment explanation
Indices: 25341565--25341614 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
25341555 TCTCACTCTG
25341565 CAAAACATAAGTAATAATCATAAT
1 CAAAACATAAGTAATAATCATAAT
25341589 CAAAACATAAGTAATAATCATAAT
1 CAAAACATAAGTAATAATCATAAT
25341613 CA
1 CA
25341615 CATAGGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.14, G:0.04, T:0.24
Consensus pattern (24 bp):
CAAAACATAAGTAATAATCATAAT
Found at i:25341871 original size:18 final size:19
Alignment explanation
Indices: 25341831--25341871 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25341821 CCTCAACCCT
* *
25341831 GAAAACAGAGGAAGTAGAA
1 GAAAACAGAGGAAGAAAAA
25341850 GAAAACAGAGG-AGAAAAA
1 GAAAACAGAGGAAGAAAAA
25341868 GAAA
1 GAAA
25341872 GAGGAGAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.63, C:0.05, G:0.29, T:0.02
Consensus pattern (19 bp):
GAAAACAGAGGAAGAAAAA
Found at i:25343947 original size:19 final size:21
Alignment explanation
Indices: 25343923--25343965 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
25343913 TTTATGAATG
25343923 TTGTATTT-AGTTAA-TTAAA
1 TTGTATTTCAGTTAATTTAAA
25343942 TTGTATTTCGAGTTAATTTAAA
1 TTGTATTTC-AGTTAATTTAAA
25343964 TT
1 TT
25343966 TTTAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (21 bp):
TTGTATTTCAGTTAATTTAAA
Found at i:25344994 original size:14 final size:14
Alignment explanation
Indices: 25344976--25345010 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
25344966 AATATATTTA
25344976 ATAAAAAATAAAAT
1 ATAAAAAATAAAAT
* *
25344990 CTAAAATATAAAAT
1 ATAAAAAATAAAAT
25345004 ATAAAAA
1 ATAAAAA
25345011 GCAAAATAAA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAAAAATAAAAT
Found at i:25345021 original size:12 final size:12
Alignment explanation
Indices: 25345004--25345047 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
25344994 AATATAAAAT
25345004 ATAAAAAGCAAA
1 ATAAAAAGCAAA
25345016 ATAAAAA-CAAA
1 ATAAAAAGCAAA
*
25345027 ATAAAAAACAAA
1 ATAAAAAGCAAA
25345039 ATAAAAAGC
1 ATAAAAAGC
25345048 TCAGAAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.37
12 19 0.63
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.09
Consensus pattern (12 bp):
ATAAAAAGCAAA
Found at i:25345171 original size:12 final size:13
Alignment explanation
Indices: 25345130--25345175 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
25345120 TAATTTTATT
25345130 AATATAATATATATA
1 AATATAATA-ATA-A
*
25345145 AATATAA-AATTA
1 AATATAATAATAA
25345157 AAT-TAATAATAA
1 AATATAATAATAA
25345169 AATATAA
1 AATATAA
25345176 CTTTTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 3 0.11
12 11 0.41
13 5 0.19
14 1 0.04
15 7 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATATAATAATAA
Found at i:25345529 original size:13 final size:13
Alignment explanation
Indices: 25345511--25345535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25345501 AAAAACAAGA
25345511 AAAAGGAAAAAAG
1 AAAAGGAAAAAAG
25345524 AAAAGGAAAAAA
1 AAAAGGAAAAAA
25345536 AATAGTTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAGGAAAAAAG
Found at i:25347373 original size:97 final size:95
Alignment explanation
Indices: 25347256--25347446 Score: 337
Period size: 97 Copynumber: 2.0 Consensus size: 95
25347246 AAGATCAAAT
25347256 AAAAATCAAAATAAGTAAAATTTATAAAATGAAAAGATAGATTAAATCTTAATTATATATAAATA
1 AAAAATCAAAATAAGTAAAATTTATAAAATGAAAAGATAGATTAAATCTTAATTATATATAAATA
*
25347321 TAGTATTTTTTTACAAAACTAAAATATTAAAC
66 TA--ATATTTTTACAAAACTAAAATATTAAAC
* *
25347353 AAAAGTCAAAATAAGTAAAATTTATAAAATGAAAAGATAGATTAAATCTTAATTATGTATAAATA
1 AAAAATCAAAATAAGTAAAATTTATAAAATGAAAAGATAGATTAAATCTTAATTATATATAAATA
25347418 TAATATTTTTACAAAACTAAAATATTAAA
66 TAATATTTTTACAAAACTAAAATATTAAA
25347447 TAGTAAGTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 26 0.29
97 65 0.71
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.34
Consensus pattern (95 bp):
AAAAATCAAAATAAGTAAAATTTATAAAATGAAAAGATAGATTAAATCTTAATTATATATAAATA
TAATATTTTTACAAAACTAAAATATTAAAC
Found at i:25348299 original size:26 final size:26
Alignment explanation
Indices: 25348251--25348301 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
25348241 TTTCAAATTA
* * *
25348251 AAAAAATTAAAAAAATTATTAAATAT
1 AAAAAATGAAAAAAATAAATAAATAT
25348277 AAAAAATGAAAAAAATAAATAAATA
1 AAAAAATGAAAAAAATAAATAAATA
25348302 ATTTAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAAAATGAAAAAAATAAATAAATAT
Found at i:25348982 original size:7 final size:8
Alignment explanation
Indices: 25348932--25348998 Score: 50
Period size: 8 Copynumber: 8.2 Consensus size: 8
25348922 CATGATTTTT
25348932 AATATCAAA
1 AATAT-AAA
25348941 AA-ATAAA
1 AATATAAA
25348948 AATATATAA
1 AATATA-AA
*
25348957 AATATTTTAA
1 AATA--TAAA
25348967 AATATAAA
1 AATATAAA
25348975 AATA-AAA
1 AATATAAA
*
25348982 AATTTAAA
1 AATATAAA
*
25348990 TAT-TAAA
1 AATATAAA
25348997 AA
1 AA
25348999 AAATAATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
7 16 0.33
8 17 0.35
9 8 0.17
10 6 0.12
11 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (8 bp):
AATATAAA
Found at i:25348992 original size:21 final size:21
Alignment explanation
Indices: 25348966--25349007 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25348956 AAATATTTTA
25348966 AAATA-TAAAAATAAAAAATTT
1 AAATATTAAAAA-AAAAAATTT
*
25348987 AAATATTAAAAAAAATAATTT
1 AAATATTAAAAAAAAAAATTT
25349008 TGAGACATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATATTAAAAAAAAAAATTT
Found at i:25349685 original size:15 final size:14
Alignment explanation
Indices: 25349658--25349699 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
25349648 AAAATCAATA
25349658 ATTTAATTATATAT
1 ATTTAATTATATAT
25349672 ATTTAATGTATATA-
1 ATTTAAT-TATATAT
*
25349686 ATTAAATTAT-TAT
1 ATTTAATTATATAT
25349699 A
1 A
25349700 AAACATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 2 0.08
13 4 0.16
14 13 0.52
15 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
ATTTAATTATATAT
Found at i:25349912 original size:23 final size:23
Alignment explanation
Indices: 25349861--25349915 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
25349851 TGAAGTTGTT
25349861 ATTTAAAAAATCCTTATTTTTAC
1 ATTTAAAAAATCCTTATTTTTAC
* **
25349884 A-GTAAAAAATTTTTATTTTTTA-
1 ATTTAAAAAATCCTTA-TTTTTAC
25349906 ATTTAAAAAA
1 ATTTAAAAAA
25349916 ATTAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTTAAAAAATCCTTATTTTTAC
Found at i:25363890 original size:17 final size:16
Alignment explanation
Indices: 25363870--25363921 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
25363860 TATTTATTAG
*
25363870 TTAAATTATATATATTT
1 TTAAATTATATATA-AT
25363887 TTAAAATT-TATATAAT
1 TT-AAATTATATATAAT
25363903 TTAAATTATTAATATAAT
1 TTAAATTA-T-ATATAAT
25363921 T
1 T
25363922 ATTAAAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.17
16 3 0.10
17 9 0.30
18 13 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAATTATATATAAT
Found at i:25363908 original size:15 final size:17
Alignment explanation
Indices: 25363870--25363911 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
25363860 TATTTATTAG
*
25363870 TTAAATTATATATATTT
1 TTAAATTATATATATAT
25363887 TTAAAATT-TATATA-AT
1 TT-AAATTATATATATAT
25363903 TTAAATTAT
1 TTAAATTAT
25363912 TAATATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 5 0.23
16 4 0.18
17 8 0.36
18 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAAATTATATATATAT
Found at i:25364527 original size:22 final size:22
Alignment explanation
Indices: 25364477--25364527 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
25364467 TATTAGAATC
**
25364477 AATTAAATTTTAATTAATTAAA
1 AATTAAATTTTAAAAAATTAAA
* **
25364499 AAGTAAATTTTAAAAAATTGTA
1 AATTAAATTTTAAAAAATTAAA
25364521 AATTAAA
1 AATTAAA
25364528 GAAAAAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
AATTAAATTTTAAAAAATTAAA
Found at i:25364655 original size:3 final size:3
Alignment explanation
Indices: 25364637--25364683 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
25364627 ATATTGATGT
* *
25364637 TTA TTG TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25364684 TATTTTTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:25365516 original size:13 final size:14
Alignment explanation
Indices: 25365494--25365539 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
25365484 CGATCGTAAG
25365494 TTTTTCTTTTTCTA
1 TTTTTCTTTTTCTA
*
25365508 TTTTT-TTTTTTTA
1 TTTTTCTTTTTCTA
25365521 TTTTTCCATTTTT-TA
1 TTTTT-C-TTTTTCTA
25365536 TTTT
1 TTTT
25365540 ATTTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 12 0.43
14 5 0.18
15 6 0.21
16 5 0.18
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTTCTA
Found at i:25365518 original size:15 final size:14
Alignment explanation
Indices: 25365494--25365572 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 14
25365484 CGATCGTAAG
* *
25365494 TTTTTCTTTTTCTA
1 TTTTTTTTTTTTTA
25365508 -TTTTTTTTTTTTA
1 TTTTTTTTTTTTTA
**
25365521 TTTTTCCATTTTTTA
1 TTTTT-TTTTTTTTA
*
25365536 TTTTATTTTATTTTCA
1 TTTT-TTTT-TTTTTA
25365552 TTTTTTATCTTATTTTA
1 TTTTTT-T-TT-TTTTA
25365569 TTTT
1 TTTT
25365573 ACTAATTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
13 11 0.22
14 4 0.08
15 14 0.28
16 12 0.24
17 9 0.18
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTTTTTA
Found at i:25365539 original size:5 final size:5
Alignment explanation
Indices: 25365531--25365573 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
25365521 TTTTTCCATT
*
25365531 TTTTA TTTTA TTTTA TTTTCA TTTTTTA TCTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTT-A --TTTTA TTTTA TTTTA TTTTA
25365574 CTAATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 27 0.82
6 1 0.03
7 1 0.03
8 4 0.12
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:25365539 original size:23 final size:23
Alignment explanation
Indices: 25365494--25365572 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 23
25365484 CGATCGTAAG
* *
25365494 TTTTTCTTTTTCTA-TTTTT-TT
1 TTTTTATTTTTCCATTTTTTATT
25365515 TTTTTATTTTTCCATTTTTTATT
1 TTTTTATTTTTCCATTTTTTATT
25365538 TTATTT-TATTTT-CATTTTTTATCT
1 TT-TTTAT-TTTTCCATTTTTTAT-T
25365562 TATTTTATTTT
1 T-TTTTATTTT
25365573 ACTAATTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
21 12 0.24
22 5 0.10
23 15 0.31
24 15 0.31
25 2 0.04
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTATTTTTCCATTTTTTATT
Found at i:25365559 original size:13 final size:13
Alignment explanation
Indices: 25365495--25365559 Score: 57
Period size: 14 Copynumber: 5.1 Consensus size: 13
25365485 GATCGTAAGT
25365495 TTTTC-TTTTTCTA
1 TTTTCATTTTT-TA
**
25365508 TTTTTTTTTTTTA
1 TTTTCATTTTTTA
25365521 TTTTTCCATTTTTTA
1 -TTTT-CATTTTTTA
25365536 TTTT-A--TTTTA
1 TTTTCATTTTTTA
25365546 TTTTCATTTTTTA
1 TTTTCATTTTTTA
25365559 T
1 T
25365560 CTTATTTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 9 0.21
11 1 0.02
12 1 0.02
13 12 0.28
14 13 0.30
15 7 0.16
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCATTTTTTA
Found at i:25365559 original size:18 final size:17
Alignment explanation
Indices: 25365536--25365572 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
25365526 CCATTTTTTA
*
25365536 TTTTATTTTATTTTCATT
1 TTTTATCTTATTTT-ATT
25365554 TTTTATCTTATTTTATT
1 TTTTATCTTATTTTATT
25365571 TT
1 TT
25365573 ACTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATCTTATTTTATT
Found at i:25367409 original size:31 final size:30
Alignment explanation
Indices: 25367374--25367439 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
25367364 ACCATTTCCG
25367374 AAAAACCT-ATCGAAAAATTCAATCGACGTCC
1 AAAAA-CTGATCGAAAAATTCAA-CGACGTCC
* * *
25367405 AAAAATTGATCGAAAAATTCAACGATGTCG
1 AAAAACTGATCGAAAAATTCAACGACGTCC
25367435 AAAAA
1 AAAAA
25367440 TTGACTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.20
Consensus pattern (30 bp):
AAAAACTGATCGAAAAATTCAACGACGTCC
Found at i:25367441 original size:30 final size:31
Alignment explanation
Indices: 25367382--25367443 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
25367372 CGAAAAACCT
25367382 ATCGAAAAATTCAATCGACGTCCAAAAATTG
1 ATCGAAAAATTCAATCGACGTCCAAAAATTG
* *
25367413 ATCGAAAAATTCAA-CGATGTCGAAAAATTG
1 ATCGAAAAATTCAATCGACGTCCAAAAATTG
25367443 A
1 A
25367444 CTGAAATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.52
31 14 0.48
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.23
Consensus pattern (31 bp):
ATCGAAAAATTCAATCGACGTCCAAAAATTG
Found at i:25367977 original size:36 final size:36
Alignment explanation
Indices: 25367937--25368018 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
25367927 GAACCAAGTC
25367937 CAATGGGCTTAGGCCTGGACCCTATTAAATCAGGCT
1 CAATGGGCTTAGGCCTGGACCCTATTAAATCAGGCT
* * * * *
25367973 CAATGGGCTTAGGCTTGGATCTTGTTGAATCAGGCT
1 CAATGGGCTTAGGCCTGGACCCTATTAAATCAGGCT
25368009 CAATGGGCTT
1 CAATGGGCTT
25368019 GGGTCCTGAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (36 bp):
CAATGGGCTTAGGCCTGGACCCTATTAAATCAGGCT
Found at i:25368306 original size:43 final size:43
Alignment explanation
Indices: 25368175--25368675 Score: 242
Period size: 43 Copynumber: 11.7 Consensus size: 43
25368165 TCCCCTAAAC
* * * * *
25368175 AGAGGCTCAA-AACTTTTGAAAAAATAAATACAGCTCATTTAAAT
1 AGAGGCACAACAAC-TTTG-AAAAATAAATAAAACTCCTTTAAGT
* * * * * *
25368219 AAAAGCTCAACGACTTTGAAAAAT--A-AAAACT-TTTCTAAGC
1 AGAGGCACAACAACTTTGAAAAATAAATAAAACTCCTT-TAAGT
* * **
25368259 AGAGGCTCAACGACTTAAAAAAATAAATAAAACTCCTTTAAGT
1 AGAGGCACAACAACTTTGAAAAATAAATAAAACTCCTTTAAGT
* ** * *
25368302 AGAGGCACAACAACTTTGGAAAATAAATAAGGCTCCTCTAAGA
1 AGAGGCACAACAACTTTGAAAAATAAATAAAACTCCTTTAAGT
* ** **
25368345 AGAGGCACAACAACTTTGAAAAATATTTTGAAAAGTAAAGGCTCCCCTAAAC
1 AGAGGCACAACAACTTTG-AAAA-A---T--AAA-TAAA-ACTCCTTTAAGT
* * ** * * **
25368397 AAAGGCACAATAACTTTGAAAAAT--A-AAAGTTTCTCTAAAC
1 AGAGGCACAACAACTTTGAAAAATAAATAAAACTCCTTTAAGT
* * *** **
25368437 AGAGTCATAACAACTTTGAAAAATAAATAGGGCTCCTTTAAAC
1 AGAGGCACAACAACTTTGAAAAATAAATAAAACTCCTTTAAGT
* *
25368480 AGAGGCACAACAACTTTGAAAAAT--A-AAAGCT-CTTCTAAAT
1 AGAGGCACAACAACTTTGAAAAATAAATAAAACTCCTT-TAAGT
* * * *
25368520 AGAGGCACAACAATTTTGGAAAATAAATAGAGCT-CTTCTAAGT
1 AGAGGCACAACAACTTTGAAAAATAAATAAAACTCCTT-TAAGT
*** * *
25368563 AGAGGCACAACAACTTTGAAAAATAAATAGGGCTCATCTAAGT
1 AGAGGCACAACAACTTTGAAAAATAAATAAAACTCCTTTAAGT
* * ** * **
25368606 AGAGGCATAATAACTTTGAAAAAT--A-AAGGCTCATTTAAAC
1 AGAGGCACAACAACTTTGAAAAATAAATAAAACTCCTTTAAGT
25368646 AGAGGCACAACAACTTTGAAAAATAAATAA
1 AGAGGCACAACAACTTTGAAAAATAAATAA
25368676 TGCTCATTTA
Statistics
Matches: 367, Mismatches: 64, Indels: 53
0.76 0.13 0.11
Matches are distributed among these distances:
39 5 0.01
40 119 0.32
41 6 0.02
42 4 0.01
43 174 0.47
44 18 0.05
45 3 0.01
47 1 0.00
48 1 0.00
50 4 0.01
51 7 0.02
52 25 0.07
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (43 bp):
AGAGGCACAACAACTTTGAAAAATAAATAAAACTCCTTTAAGT
Found at i:25368479 original size:83 final size:83
Alignment explanation
Indices: 25368392--25368672 Score: 347
Period size: 83 Copynumber: 3.4 Consensus size: 83
25368382 AAGGCTCCCC
* * * * *
25368392 TAAACAAAGGCACAATAACTTTGAAAAATAAAAGTTTC-TCTAAACAGAGTCATAACAACTTTGA
1 TAAACAGAGGCACAACAACTTTGAAAAATAAAAG-CTCATCTAAATAGAGGCATAACAACTTTGA
25368456 AAAATAAATAGGGCTCCTT
65 AAAATAAATAGGGCTCCTT
* * * *
25368475 TAAACAGAGGCACAACAACTTTGAAAAATAAAAGCTCTTCTAAATAGAGGCACAACAATTTTGGA
1 TAAACAGAGGCACAACAACTTTGAAAAATAAAAGCTCATCTAAATAGAGGCATAACAACTTTGAA
*
25368540 AAATAAATAGAGCT-CTT
66 AAATAAATAGGGCTCCTT
** * *
25368557 CTAAGTAGAGGCACAACAACTTTGAAAAATAAATAGGGCTCATCTAAGTAGAGGCATAATAACTT
1 -TAAACAGAGGCACAACAACTTTGAAAAATAAA-A--GCTCATCTAAATAGAGGCATAACAACTT
*
25368622 TGAAAAAT-AA-A-GGCTCATT
62 TGAAAAATAAATAGGGCTCCTT
25368641 TAAACAGAGGCACAACAACTTTGAAAAATAAA
1 TAAACAGAGGCACAACAACTTTGAAAAATAAA
25368673 TAATGCTCAT
Statistics
Matches: 171, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
82 5 0.03
83 130 0.76
84 4 0.02
85 2 0.01
86 30 0.18
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (83 bp):
TAAACAGAGGCACAACAACTTTGAAAAATAAAAGCTCATCTAAATAGAGGCATAACAACTTTGAA
AAATAAATAGGGCTCCTT
Found at i:25368692 original size:43 final size:42
Alignment explanation
Indices: 25368399--25368694 Score: 265
Period size: 43 Copynumber: 7.1 Consensus size: 42
25368389 CCCTAAACAA
* ** * *
25368399 AGGCACAATAACTTTGAAAAAT-AA-AAGTTTCTCTAAACAG
1 AGGCACAACAACTTTGAAAAATAAATAAGGCTCTTTAATCAG
* * * *
25368439 AGTCATAACAACTTTGAAAAATAAATAGGGCTCCTTTAAACAG
1 AGGCACAACAACTTTGAAAAATAAATAAGGCT-CTTTAATCAG
25368482 AGGCACAACAACTTTGAAAAAT-AA-AA-GCTCTTCTAAAT-AG
1 AGGCACAACAACTTTGAAAAATAAATAAGGCTCTT-T-AATCAG
* *
25368522 AGGCACAACAATTTTGGAAAATAAAT-AGAGCTCTTCTAAGT-AG
1 AGGCACAACAACTTTGAAAAATAAATAAG-GCTCTT-TAA-TCAG
* *
25368565 AGGCACAACAACTTTGAAAAATAAATAGGGCTCATCTAAGT-AG
1 AGGCACAACAACTTTGAAAAATAAATAAGGCTC-TTTAA-TCAG
* * *
25368608 AGGCATAATAACTTTGAAAAAT--A-AAGGCTCATTTAAACAG
1 AGGCACAACAACTTTGAAAAATAAATAAGGCTC-TTTAATCAG
*
25368648 AGGCACAACAACTTTGAAAAATAAATAATGCTCATTTAATCAG
1 AGGCACAACAACTTTGAAAAATAAATAAGGCTC-TTTAATCAG
25368691 AGGC
1 AGGC
25368695 TCCACGACTC
Statistics
Matches: 214, Mismatches: 26, Indels: 29
0.80 0.10 0.11
Matches are distributed among these distances:
39 3 0.01
40 78 0.36
41 9 0.04
42 8 0.04
43 114 0.53
44 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (42 bp):
AGGCACAACAACTTTGAAAAATAAATAAGGCTCTTTAATCAG
Found at i:25368693 original size:126 final size:124
Alignment explanation
Indices: 25368371--25368694 Score: 368
Period size: 126 Copynumber: 2.6 Consensus size: 124
25368361 TGAAAAATAT
* ** * * * * *
25368371 TTTGAAAAGTAAAGGCTCCCCTAAACAAAGGCACAATAACTTTGAAAAATAAA-AGT-TTCTCTA
1 TTTGAAAAATAAAGGCT-CTTTAAACAGAGGCACAACAACTTTGAAAAATAAATAATGCTCTTTA
* * * * *
25368434 AACAGAGTCATAACAACTTTGAAAAATAAATAGGGCTCCTTTAAACAGAGGCACAACAAC
65 ATCAGAGGCACAACAACTTTGAAAAATAAATAGGGCTCATCTAAACAGAGGCACAACAAC
* * * *
25368494 TTTGAAAAATAAAAGCTCTTCTAAATAGAGGCACAACAATTTTGGAAAATAAATAGA-GCTCTTC
1 TTTGAAAAATAAAGGCTCTT-TAAACAGAGGCACAACAACTTTGAAAAATAAATA-ATGCTCTT-
** * *
25368558 TAAGT-AGAGGCACAACAACTTTGAAAAATAAATAGGGCTCATCTAAGTAGAGGCATAATAAC
63 TAA-TCAGAGGCACAACAACTTTGAAAAATAAATAGGGCTCATCTAAACAGAGGCACAACAAC
25368620 TTTGAAAAATAAAGGCTCATTTAAACAGAGGCACAACAACTTTGAAAAATAAATAATGCTCATTT
1 TTTGAAAAATAAAGGCTC-TTTAAACAGAGGCACAACAACTTTGAAAAATAAATAATGCTC-TTT
25368685 AATCAGAGGC
64 AATCAGAGGC
25368695 TCCACGACTC
Statistics
Matches: 166, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
122 1 0.01
123 42 0.25
124 1 0.01
125 5 0.03
126 113 0.68
127 4 0.02
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (124 bp):
TTTGAAAAATAAAGGCTCTTTAAACAGAGGCACAACAACTTTGAAAAATAAATAATGCTCTTTAA
TCAGAGGCACAACAACTTTGAAAAATAAATAGGGCTCATCTAAACAGAGGCACAACAAC
Found at i:25369055 original size:22 final size:22
Alignment explanation
Indices: 25369025--25369077 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
25369015 TTTCACATCT
25369025 AAAATCTCAAAGGTTCTCATTTG
1 AAAA-CTCAAAGGTTCTCATTTG
*
25369048 AAAACTCAAAGGTTGTCATTTG
1 AAAACTCAAAGGTTCTCATTTG
*
25369070 AAGACTCA
1 AAAACTCA
25369078 CAATCTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (22 bp):
AAAACTCAAAGGTTCTCATTTG
Found at i:25370229 original size:37 final size:36
Alignment explanation
Indices: 25370161--25370238 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 36
25370151 CTCTTTCGAA
* *
25370161 TTTTCAATTTGAGTTTTTTTTTTCTCTTCTTT-TCAT
1 TTTTCAATTTGAATTTTTTTTTTCTCCTCTTTCTC-T
*
25370197 TTTTCAATTTTTAATTTTCTTTTTT-TCCTCTTTCTCT
1 TTTTCAA-TTTGAATTTT-TTTTTTCTCCTCTTTCTCT
25370234 TTTTC
1 TTTTC
25370239 TTTCTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 7 0.19
37 21 0.58
38 8 0.22
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.71
Consensus pattern (36 bp):
TTTTCAATTTGAATTTTTTTTTTCTCCTCTTTCTCT
Found at i:25370230 original size:29 final size:27
Alignment explanation
Indices: 25370175--25370256 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 27
25370165 CAATTTGAGT
* *
25370175 TTTTTTTTTCTCTTCTTTTCATTTTTCAA
1 TTTTTTTTTCT-TT-TTTTCCTCTTTCAA
**
25370204 TTTTTAATTTTCTTTTTTTCCTCTTTCTC
1 TTTTT--TTTTCTTTTTTTCCTCTTTCAA
* *
25370233 TTTTTCTTTCTTTTTTTTCTCTTT
1 TTTTTTTTTCTTTTTTTCCTCTTT
25370257 TTTATTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
27 17 0.38
29 20 0.44
30 2 0.04
31 6 0.13
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTTTTTTTCTTTTTTTCCTCTTTCAA
Found at i:25370237 original size:1 final size:1
Alignment explanation
Indices: 25370233--25370307 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
25370223 CCTCTTTCTC
* * * * * * * * * *
25370233 TTTTTCTTTCTTTTTTTTCTCTTTTTTATTTTTTTTGTTTTTTATTTTATTTTTTTATTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
25370298 TTTATTTTTT
1 TTTTTTTTTT
25370308 CATCTATTAG
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.07, C:0.05, G:0.03, T:0.85
Consensus pattern (1 bp):
T
Found at i:25370246 original size:10 final size:9
Alignment explanation
Indices: 25370211--25370308 Score: 65
Period size: 9 Copynumber: 10.6 Consensus size: 9
25370201 CAATTTTTAA
25370211 TTTTC-TTT
1 TTTTCTTTT
* *
25370219 TTTTCCTCT
1 TTTTCTTTT
*
25370228 TTCTCTTTT
1 TTTTCTTTT
25370237 TCTTTCTTTT
1 T-TTTCTTTT
*
25370247 TTTTCTCTT
1 TTTTCTTTT
*
25370256 TTTTATTTT
1 TTTTCTTTT
*
25370265 TTTTGTTTT
1 TTTTCTTTT
*
25370274 TTATTTTATTT
1 TT-TTCT-TTT
*
25370285 TTTTATTTT
1 TTTTCTTTT
25370294 GTTTT-TTATT
1 -TTTTCTT-TT
25370304 TTTTC
1 TTTTC
25370309 ATCTATTAGT
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
8 5 0.07
9 42 0.58
10 20 0.28
11 5 0.07
ACGTcount: A:0.05, C:0.11, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:25370264 original size:27 final size:27
Alignment explanation
Indices: 25370212--25370308 Score: 79
Period size: 27 Copynumber: 3.5 Consensus size: 27
25370202 AATTTTTAAT
* *
25370212 TTTCTTTTTTTCCTCTTTCTCT-TTTTC
1 TTTCTTTTTTTTCTCTTT-TTTATTTTC
*
25370239 TTTCTTTTTTTTCTCTTTTTTATTTTT
1 TTTCTTTTTTTTCTCTTTTTTATTTTC
* * * *
25370266 TTTGTTTTTTATTTTATTTTTTTATTTTG
1 TTTCTTTTTT-TTCT-CTTTTTTATTTTC
*
25370295 TTTTTTATTTTTTC
1 TTTCTT-TTTTTTC
25370309 ATCTATTAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
26 2 0.04
27 30 0.53
28 3 0.05
29 18 0.32
30 4 0.07
ACGTcount: A:0.05, C:0.11, G:0.02, T:0.81
Consensus pattern (27 bp):
TTTCTTTTTTTTCTCTTTTTTATTTTC
Found at i:25370267 original size:21 final size:20
Alignment explanation
Indices: 25370227--25370307 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 20
25370217 TTTTTTCCTC
*
25370227 TTTCTCTTTTTCTTTCTTTTTT
1 TTTCT-TTTTTATTT-TTTTTT
25370249 TTCTCTTTTTTATTTTTTTTGT
1 TT-TCTTTTTTATTTTTTTT-T
*
25370271 TTT-TTATTTTATTTTTTTAT
1 TTTCTT-TTTTATTTTTTTTT
*
25370291 TTTGTTTTTTATTTTTT
1 TTTCTTTTTTATTTTTT
25370308 CATCTATTAG
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
20 17 0.32
21 20 0.38
22 13 0.25
23 3 0.06
ACGTcount: A:0.06, C:0.07, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTCTTTTTTATTTTTTTTT
Found at i:25370289 original size:13 final size:12
Alignment explanation
Indices: 25370261--25370305 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
25370251 CTCTTTTTTA
25370261 TTTT-TTTTGTT
1 TTTTATTTTGTT
*
25370272 TTTTATTTTATTT
1 TTTTATTTT-GTT
25370285 TTTTATTTTGTT
1 TTTTATTTTGTT
25370297 TTTTATTTT
1 TTTTATTTT
25370306 TTCATCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 4 0.13
12 15 0.50
13 11 0.37
ACGTcount: A:0.09, C:0.00, G:0.04, T:0.87
Consensus pattern (12 bp):
TTTTATTTTGTT
Found at i:25370306 original size:13 final size:13
Alignment explanation
Indices: 25370264--25370306 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
25370254 TTTTTTATTT
25370264 TTTTTGTTTTTTA
1 TTTTTGTTTTTTA
25370277 TTTTAT-TTTTTTA
1 TTTT-TGTTTTTTA
25370290 -TTTTGTTTTTTA
1 TTTTTGTTTTTTA
25370302 TTTTT
1 TTTTT
25370307 TCATCTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 10 0.37
13 15 0.56
14 1 0.04
ACGTcount: A:0.09, C:0.00, G:0.05, T:0.86
Consensus pattern (13 bp):
TTTTTGTTTTTTA
Found at i:25371676 original size:31 final size:31
Alignment explanation
Indices: 25371622--25371689 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
25371612 CAAAAACCTG
*
25371622 TCAAAAAATTCAACTGACATAAAAAAATTTA
1 TCAAAAAATTCAACTGACATAAAAAAATTCA
**
25371653 TCAAAAAATTCAA-TCGATGTAAAAAAATTCA
1 TCAAAAAATTCAACT-GACATAAAAAAATTCA
25371684 TCAAAA
1 TCAAAA
25371690 TCTAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 1 0.03
31 32 0.97
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.25
Consensus pattern (31 bp):
TCAAAAAATTCAACTGACATAAAAAAATTCA
Found at i:25372194 original size:36 final size:35
Alignment explanation
Indices: 25372152--25372229 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
25372142 GCTTGAAAAT
*
25372152 TTGGACCAAATTAAACCAAGCCCAGTGGGCTTAGGC
1 TTGGACCAAATTAAACCAAG-CCAATGGGCTTAGGC
** * *
25372188 TTGGACCCTATTGAATCAAGCCAATGGGCTTAGGC
1 TTGGACCAAATTAAACCAAGCCAATGGGCTTAGGC
*
25372223 CTGGACC
1 TTGGACC
25372230 CTGTTGAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 20 0.56
36 16 0.44
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.22
Consensus pattern (35 bp):
TTGGACCAAATTAAACCAAGCCAATGGGCTTAGGC
Found at i:25372228 original size:35 final size:36
Alignment explanation
Indices: 25372168--25372254 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
25372158 CAAATTAAAC
* *
25372168 CAAGCCCAGTGGGCTTAGGCTTGGACCCTATTGAAT
1 CAAGCCCAATGGGCTTAGGCCTGGACCCTATTGAAT
*
25372204 CAAG-CCAATGGGCTTAGGCCTGGACCCTGTTGAA-
1 CAAGCCCAATGGGCTTAGGCCTGGACCCTATTGAAT
* *
25372238 CTAGGCCCAATAGGCTT
1 C-AAGCCCAATGGGCTT
25372255 GGACCTGTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
34 1 0.02
35 29 0.66
36 14 0.32
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (36 bp):
CAAGCCCAATGGGCTTAGGCCTGGACCCTATTGAAT
Found at i:25382844 original size:3 final size:3
Alignment explanation
Indices: 25382820--25382933 Score: 129
Period size: 3 Copynumber: 37.7 Consensus size: 3
25382810 CAATTAATGT
* * *
25382820 TTA TTG TTA CTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
25382868 TTA TTTC TTA TTA TTA CTA TTA TTA TTG TTA TTG TTG TTG TTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
25382914 TTT TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
25382934 TTTCTTTCCT
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
3 92 0.98
4 2 0.02
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:25383765 original size:14 final size:14
Alignment explanation
Indices: 25383740--25383796 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
25383730 AGATCATAGG
*
25383740 TTTTCATTTTTTTA
1 TTTTTATTTTTTTA
25383754 TTTTT-TTATTTTTA
1 TTTTTATT-TTTTTA
*
25383768 TTTTTAGTTATTTTA
1 TTTTTA-TTTTTTTA
*
25383783 TTTTTCTTTTTTTA
1 TTTTTATTTTTTTA
25383797 AAATTCTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 2 0.06
14 22 0.61
15 10 0.28
16 2 0.06
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:25383781 original size:21 final size:20
Alignment explanation
Indices: 25383748--25383793 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
25383738 GGTTTTCATT
*
25383748 TTTTTATTTTTTTATTTTTA
1 TTTTTATTATTTTATTTTTA
*
25383768 TTTTTAGTTATTTTATTTTTC
1 TTTTTA-TTATTTTATTTTTA
25383789 TTTTT
1 TTTTT
25383794 TTAAAATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTTATTATTTTATTTTTA
Found at i:25392732 original size:49 final size:48
Alignment explanation
Indices: 25392679--25392845 Score: 167
Period size: 49 Copynumber: 3.4 Consensus size: 48
25392669 TTTTTAGATC
* *
25392679 AGATTTTTAAAATTTTAAAACCTTTGTTTATTAGGAGCTTTTAATTATA
1 AGATTTTTAAAATTTCAAAACCTTTATTTATTAGGAGCTTTT-ATTATA
* * * * *
25392728 AGATTTTTAAAGTTTCAAAACTTTTATTTATTAGGTG-TTTTTTTAAAA
1 AGATTTTTAAAATTTCAAAACCTTTATTTATTAGGAGCTTTTATT-ATA
* * * *
25392776 GAGATTTTTAACATTTCAAAACCTATATTTATGAGGAACTTTT-TCATATA
1 -AGATTTTTAAAATTTCAAAACCTTTATTTATTAGGAGCTTTTAT--TATA
*
25392826 AGATTTTTAAATTTTCAAAA
1 AGATTTTTAAAATTTCAAAA
25392846 TCTCTATTAA
Statistics
Matches: 96, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
47 2 0.02
48 6 0.06
49 81 0.84
50 6 0.06
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (48 bp):
AGATTTTTAAAATTTCAAAACCTTTATTTATTAGGAGCTTTTATTATA
Found at i:25392859 original size:49 final size:49
Alignment explanation
Indices: 25392777--25392895 Score: 145
Period size: 49 Copynumber: 2.4 Consensus size: 49
25392767 TTTTTAAAAG
* *
25392777 AGATTTTTAACATTTCAAAACCTATATTTATGAGGA-ACTTTTTCATAT-A
1 AGATTTTTAA-ATTTCAAAATCTATATTAATGAGGAGA-TTTTTCATATGA
* *
25392826 AGATTTTTAAATTTTCAAAATCTCTATTAATGAGTAGATTTTTCATATGA
1 AGATTTTTAAA-TTTCAAAATCTATATTAATGAGGAGATTTTTCATATGA
25392876 A-ATTTTTAAAGTTTCAAAAT
1 AGATTTTTAAA-TTTCAAAAT
25392896 GTTTGGTTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
48 1 0.02
49 58 0.94
50 3 0.05
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (49 bp):
AGATTTTTAAATTTCAAAATCTATATTAATGAGGAGATTTTTCATATGA
Found at i:25392868 original size:98 final size:97
Alignment explanation
Indices: 25392679--25392894 Score: 222
Period size: 98 Copynumber: 2.2 Consensus size: 97
25392669 TTTTTAGATC
* * * * *
25392679 AGATTTTTAAAATTTTAAAACCTTTGTTTATTAGGAGCTTTTAATTATAAGATTTTTAAAGTTTC
1 AGATTTTT-AAATTTCAAAACCTATATTTATGAGGAACTTTTAATTATAAGATTTTTAAAGTTTC
* * * * *
25392744 AAAACTTTTATTTATTAGGTGTTTTTTTAAAAG
65 AAAACTTCTATTAATGAGGTGATTTTTCAAAAG
* *
25392777 AGATTTTTAACATTTCAAAACCTATATTTATGAGGAACTTTTTCA-TATAAGATTTTTAAATTTT
1 AGATTTTTAA-ATTTCAAAACCTATATTTATGAGGAAC-TTTTAATTATAAGATTTTTAAAGTTT
* *
25392841 CAAAA-TCTCTATTAATGA-GTAGATTTTTCATATG
64 CAAAACT-TCTATTAATGAGGT-GATTTTTCAAAAG
*
25392875 AAATTTTTAAAGTTTCAAAA
1 AGATTTTTAAA-TTTCAAAA
25392895 TGTTTGGTTT
Statistics
Matches: 98, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
97 6 0.06
98 87 0.89
99 5 0.05
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (97 bp):
AGATTTTTAAATTTCAAAACCTATATTTATGAGGAACTTTTAATTATAAGATTTTTAAAGTTTCA
AAACTTCTATTAATGAGGTGATTTTTCAAAAG
Found at i:25393740 original size:2 final size:2
Alignment explanation
Indices: 25393733--25393760 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25393723 ACTTATAGTT
25393733 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25393761 GATAAAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25394953 original size:7 final size:7
Alignment explanation
Indices: 25394941--25394967 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25394931 TGCAATGAAA
25394941 AAAATTG
1 AAAATTG
25394948 AAAATTG
1 AAAATTG
25394955 AAAATTG
1 AAAATTG
25394962 AAAATT
1 AAAATT
25394968 TAACCTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (7 bp):
AAAATTG
Found at i:25397104 original size:18 final size:18
Alignment explanation
Indices: 25397077--25397112 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25397067 CATATAAATA
*
25397077 TAAAATTTAAATATATTT
1 TAAAAATTAAATATATTT
*
25397095 TAAAAATTAAATGTATTT
1 TAAAAATTAAATATATTT
25397113 ATTTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TAAAAATTAAATATATTT
Found at i:25398834 original size:20 final size:20
Alignment explanation
Indices: 25398806--25398848 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25398796 CAAAGTTGTG
* *
25398806 CTTATGTTATCTATATTTGA
1 CTTACGTTACCTATATTTGA
*
25398826 CTTACGTTACCTGTATTTGA
1 CTTACGTTACCTATATTTGA
25398846 CTT
1 CTT
25398849 GTGTTACGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (20 bp):
CTTACGTTACCTATATTTGA
Found at i:25401300 original size:11 final size:12
Alignment explanation
Indices: 25401273--25401311 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
25401263 TATATCATTT
25401273 AAAATTTTAATA
1 AAAATTTTAATA
25401285 AAAATTTT-ATA
1 AAAATTTTAATA
*
25401296 TAAA-TTTAATA
1 AAAATTTTAATA
25401307 AAAAT
1 AAAAT
25401312 AAAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.13
11 12 0.52
12 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAATTTTAATA
Found at i:25410774 original size:15 final size:15
Alignment explanation
Indices: 25410756--25410794 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
25410746 AATTTATAAT
25410756 TTGTTTTTTTTATTA
1 TTGTTTTTTTTATTA
*
25410771 TTGTATTTTTTATTA
1 TTGTTTTTTTTATTA
*
25410786 TTATTTTTT
1 TTGTTTTTT
25410795 GTTTTCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (15 bp):
TTGTTTTTTTTATTA
Found at i:25410923 original size:14 final size:14
Alignment explanation
Indices: 25410878--25410915 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
25410868 TCAGTAAAAT
*
25410878 AAATAGAAACT-AA
1 AAATAGAAATTAAA
25410891 AAATA-AAATTAAA
1 AAATAGAAATTAAA
25410904 AAATAGAAATTA
1 AAATAGAAATTA
25410916 GAATATAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 4 0.18
13 12 0.55
14 6 0.27
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (14 bp):
AAATAGAAATTAAA
Found at i:25411768 original size:3 final size:3
Alignment explanation
Indices: 25411746--25411889 Score: 125
Period size: 3 Copynumber: 48.7 Consensus size: 3
25411736 AATGAAGAAA
* * * *
25411746 AAT AA- AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAC AAC AAC AAC
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * *
25411790 AAC AAC AAA AAT AAT GAT AAT GAT -AT AAT ACT ATAC AAT -GT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
25411834 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25411882 AAT AAT AA
1 AAT AAT AA
25411890 AACACAGTGT
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
2 7 0.06
3 111 0.91
4 4 0.03
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:25412593 original size:17 final size:18
Alignment explanation
Indices: 25412571--25412604 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25412561 AGGTTCTAGA
*
25412571 TTTGCATAGA-TTTTAGT
1 TTTGCAAAGACTTTTAGT
25412588 TTTGCAAAGACTTTTAG
1 TTTGCAAAGACTTTTAG
25412605 ATTTATAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (18 bp):
TTTGCAAAGACTTTTAGT
Found at i:25412645 original size:86 final size:86
Alignment explanation
Indices: 25412486--25412762 Score: 245
Period size: 86 Copynumber: 3.2 Consensus size: 86
25412476 TTTAACAAAA
* * ** *** ** *
25412486 TCGCAAAGA-TTCAAGATTTGTAAAGGTTTTTAGATTCATAAGAATGGAAGGTTCGTAAGATTTC
1 TCGCAAAGATTTC-AGGTTTGCAAAGACTTTTAGATTCATAAGAAAAAAATATTTGTAAGATTTC
*
25412550 AAGTTTCGCAGAGGTTCTAGAT
65 AAGTTTCGCAAAGGTTCTAGAT
* * * * * *
25412572 TTGCATAGATTTTAGTTTTGCAAAGACTTTTAGATTTATAGGAAAAAAATATTTGTAAGA-TTCT
1 TCGCAAAGATTTCAGGTTTGCAAAGACTTTTAGATTCATAAGAAAAAAATATTTGTAAGATTTC-
*
25412636 AAGTTTCGCAAAGGTTTTAGAT
65 AAGTTTCGCAAAGGTTCTAGAT
* * * * * *
25412658 TCGTAAAGATTTCAGGTTTGCAAGGACTTTTAGATTCATAAGAAAGAAAGATTCT-CAAAATTTC
1 TCGCAAAGATTTCAGGTTTGCAAAGACTTTTAGATTCATAAGAAAAAAATATT-TGTAAGATTTC
* *
25412722 AAGCTTCGTAAAGGTTCTAGAT
65 AAGTTTCGCAAAGGTTCTAGAT
* * *
25412744 TTGTAAAGATTTCAAGTTT
1 TCGCAAAGATTTCAGGTTT
25412763 TACAAAGATA
Statistics
Matches: 153, Mismatches: 34, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
85 3 0.02
86 144 0.94
87 6 0.04
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (86 bp):
TCGCAAAGATTTCAGGTTTGCAAAGACTTTTAGATTCATAAGAAAAAAATATTTGTAAGATTTCA
AGTTTCGCAAAGGTTCTAGAT
Found at i:25413825 original size:10 final size:9
Alignment explanation
Indices: 25413810--25413851 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
25413800 CTAAGTTTCC
*
25413810 TCTTTTTTC
1 TCTTTTTTT
25413819 TCTTTTTCTT
1 TCTTTTT-TT
25413829 TCTTTTTTT
1 TCTTTTTTT
25413838 T-TTTTTTT
1 TCTTTTTTT
*
25413846 GCTTTT
1 TCTTTT
25413852 ACTTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 7 0.24
9 14 0.48
10 8 0.28
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.83
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:25413836 original size:12 final size:11
Alignment explanation
Indices: 25413812--25413862 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
25413802 AAGTTTCCTC
25413812 TTTTTTCTCTTT
1 TTTTTTCT-TTT
*
25413824 TTCTTTCTTTT
1 TTTTTTCTTTT
25413835 TTTTTT-TTTT
1 TTTTTTCTTTT
*
25413845 TGCTTTTACTTTT
1 T--TTTTTCTTTT
25413858 TTTTT
1 TTTTT
25413863 AATTTTTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 5 0.15
11 12 0.36
12 11 0.33
13 5 0.15
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:25413836 original size:21 final size:23
Alignment explanation
Indices: 25413812--25413862 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
25413802 AAGTTTCCTC
*
25413812 TTTTTTCTCTTTTT-C-TTT-CT
1 TTTTTTTTCTTTTTGCTTTTACT
*
25413832 TTTTTTTTTTTTTTGCTTTTACT
1 TTTTTTTTCTTTTTGCTTTTACT
25413855 TTTTTTTT
1 TTTTTTTT
25413863 AATTTTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 12 0.46
21 1 0.04
22 3 0.12
23 10 0.38
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (23 bp):
TTTTTTTTCTTTTTGCTTTTACT
Found at i:25413843 original size:19 final size:19
Alignment explanation
Indices: 25413810--25413881 Score: 56
Period size: 22 Copynumber: 3.6 Consensus size: 19
25413800 CTAAGTTTCC
* *
25413810 TCTTTTTTCTCTTTTTCTT
1 TCTTTTTTTTTTTTTTCTT
25413829 TCTTTTTTTTTTTTTTTGCTTT
1 TC-TTTTTTTTTTTTTT-C-TT
**
25413851 TACTTTTTTTTTAATTT-TT
1 T-CTTTTTTTTTTTTTTCTT
25413870 TCTATTTTTTTT
1 TCT-TTTTTTTT
25413882 GCATACCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.05
19 13 0.30
20 12 0.27
21 1 0.02
22 15 0.34
23 1 0.02
ACGTcount: A:0.06, C:0.11, G:0.01, T:0.82
Consensus pattern (19 bp):
TCTTTTTTTTTTTTTTCTT
Found at i:25413868 original size:26 final size:27
Alignment explanation
Indices: 25413812--25413877 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
25413802 AAGTTTCCTC
* *
25413812 TTTTTTCTCTTTTTCTTTCTTTTTT-T
1 TTTTTTCTCTTTTACTTTCTTTTTTAA
*
25413838 TTTTTTTTGCTTTTACTTT-TTTTTTAA
1 TTTTTTCT-CTTTTACTTTCTTTTTTAA
*
25413865 TTTTTTCTATTTT
1 TTTTTTCTCTTTT
25413878 TTTTGCATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 17 0.52
27 16 0.48
ACGTcount: A:0.06, C:0.11, G:0.02, T:0.82
Consensus pattern (27 bp):
TTTTTTCTCTTTTACTTTCTTTTTTAA
Found at i:25418133 original size:19 final size:21
Alignment explanation
Indices: 25418111--25418160 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
25418101 GTAAATATAT
25418111 AAAAAGAAAAT-AAAATA-AA
1 AAAAAGAAAATAAAAATAGAA
*
25418130 AAAATG-AAATAAAAATAGAA
1 AAAAAGAAAATAAAAATAGAA
*
25418150 AAAAGGAAAAT
1 AAAAAGAAAAT
25418161 TTGCAATTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 7 0.27
21 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAAAGAAAATAAAAATAGAA
Found at i:25418139 original size:13 final size:13
Alignment explanation
Indices: 25418046--25418144 Score: 51
Period size: 13 Copynumber: 7.6 Consensus size: 13
25418036 TAATAAAATC
25418046 AATAAAATAAATAGA
1 AATAAAA-AAATA-A
*
25418061 AAT-TAAAAATAA
1 AATAAAAAAATAA
*
25418073 AATAAAATAATCAA
1 AATAAAAAAAT-AA
* * *
25418087 AATCAAAATATAG
1 AATAAAAAAATAA
** * *
25418100 GGTAAATATAT-A
1 AATAAAAAAATAA
*
25418112 AA-AAGAAAATAA
1 AATAAAAAAATAA
*
25418124 AATAAAAAAATGA
1 AATAAAAAAATAA
25418137 AATAAAAA
1 AATAAAAA
25418145 TAGAAAAAAG
Statistics
Matches: 61, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
11 5 0.08
12 7 0.11
13 34 0.56
14 12 0.20
15 3 0.05
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (13 bp):
AATAAAAAAATAA
Found at i:25418975 original size:3 final size:3
Alignment explanation
Indices: 25418967--25419027 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
25418957 AAATAAAGTA
* *
25418967 AAT AAT AAT AAT AAT AAT AAT ATAC AAT -AT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* *
25419012 GAT -AT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
25419028 AACACAGTGC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25422013 original size:27 final size:27
Alignment explanation
Indices: 25421994--25422058 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
25421984 ATAAGTTAAT
25421994 ATTAAT-TTTTAAAATAAATATATAAAA
1 ATTAATATTTTAAAA-AAATATATAAAA
* *
25422021 ATTAATATTTTAAAAAAATTTAT-AAT
1 ATTAATATTTTAAAAAAATATATAAAA
*
25422047 ATTATTATTTTA
1 ATTAATATTTTA
25422059 TTTATTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.38
27 13 0.38
28 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTAATATTTTAAAAAAATATATAAAA
Found at i:25422035 original size:14 final size:14
Alignment explanation
Indices: 25421989--25422035 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
25421979 TATTAATAAG
*
25421989 TTAATATTAAT-TT
1 TTAAAATTAATATT
* *
25422002 TTAAAATAAATATA
1 TTAAAATTAATATT
*
25422016 TAAAAATTAATATT
1 TTAAAATTAATATT
25422030 TTAAAA
1 TTAAAA
25422036 AAATTTATAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAAATTAATATT
Found at i:25422057 original size:26 final size:27
Alignment explanation
Indices: 25421990--25422058 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
25421980 ATTAATAAGT
25421990 TAATATTAAT-TTTTAAAATAAATATA
1 TAATATTAATATTTTAAAATAAATATA
* *
25422016 TAAAAATTAATATTTTAAAA-AAATTTA
1 T-AATATTAATATTTTAAAATAAATATA
*
25422043 TAATATTATTATTTTA
1 TAATATTAATATTTTA
25422059 TTTATTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 14 0.38
27 15 0.41
28 8 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATATTAATATTTTAAAATAAATATA
Found at i:25422466 original size:2 final size:2
Alignment explanation
Indices: 25422461--25422488 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25422451 CTCTCTTCCG
25422461 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25422489 AAGTCTGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:25431406 original size:20 final size:20
Alignment explanation
Indices: 25431381--25431418 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
25431371 ATAAGATATT
25431381 TTTTCTTTAAAATGAAAAAA
1 TTTTCTTTAAAATGAAAAAA
25431401 TTTTCTTTAAAATGAAAA
1 TTTTCTTTAAAATGAAAA
25431419 TTGTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
TTTTCTTTAAAATGAAAAAA
Found at i:25432376 original size:36 final size:37
Alignment explanation
Indices: 25432321--25432390 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
25432311 GAACTGACTT
* * *
25432321 TTCTTGAGTACCAATAAAAGTCACTTATAATGAATAG
1 TTCTTGAGTACCAACAAAAGTCACCTACAATGAATAG
25432358 TTCTTGAG-ACCAACAAAAGTCACCTACAATGAA
1 TTCTTGAGTACCAACAAAAGTCACCTACAATGAA
25432391 CAATACTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 22 0.73
37 8 0.27
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (37 bp):
TTCTTGAGTACCAACAAAAGTCACCTACAATGAATAG
Found at i:25438745 original size:12 final size:12
Alignment explanation
Indices: 25438699--25438754 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
25438689 GATCTAGTTC
25438699 TTATCTTTTTTAT
1 TTATCTTTTTT-T
*
25438712 TTTTCTATTATTTT
1 TTATCT-TT-TTTT
*
25438726 TT-TATTTTTTT
1 TTATCTTTTTTT
*
25438737 TTATCTTTTTTG
1 TTATCTTTTTTT
25438749 TTATCT
1 TTATCT
25438755 AGTTTAGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 6 0.17
12 15 0.42
13 7 0.19
14 5 0.14
15 3 0.08
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (12 bp):
TTATCTTTTTTT
Found at i:25441196 original size:10 final size:10
Alignment explanation
Indices: 25441181--25441230 Score: 68
Period size: 10 Copynumber: 5.2 Consensus size: 10
25441171 TTACTTTTAC
25441181 TAGTATATTA
1 TAGTATATTA
*
25441191 TAGTATAGTA
1 TAGTATATTA
*
25441201 TAGTATAATA
1 TAGTATATTA
25441211 TAGTATATTA
1 TAGTATATTA
25441221 TA-T-TATTA
1 TAGTATATTA
25441229 TA
1 TA
25441231 TTATGGTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
8 7 0.19
9 1 0.03
10 29 0.78
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (10 bp):
TAGTATATTA
Found at i:25441201 original size:15 final size:14
Alignment explanation
Indices: 25441181--25441234 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
25441171 TTACTTTTAC
25441181 TAGTATATTATAGTA
1 TAGTATATTATA-TA
*
25441196 TAGTATAGTATAATA
1 TAGTATATTAT-ATA
25441211 TAGTATATTATAT-
1 TAGTATATTATATA
*
25441224 TATTATATTAT
1 TAGTATATTAT
25441235 GGTGTGGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 10 0.29
14 2 0.06
15 22 0.63
16 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (14 bp):
TAGTATATTATATA
Found at i:25441223 original size:5 final size:5
Alignment explanation
Indices: 25441184--25441273 Score: 58
Period size: 5 Copynumber: 17.6 Consensus size: 5
25441174 CTTTTACTAG
* * * * *
25441184 TATAT TATAG TATAG TATAG TATAA TATAG TATAT TATA- T-TAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * *
25441232 TATGGT GTGGTAT TATAT TATAT TGTAT TATAT TATTAT TAT
1 TAT-AT -T-ATAT TATAT TATAT TATAT TATAT TA-TAT TAT
25441274 TGTTTTCTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 55 0.80
6 7 0.10
7 2 0.03
8 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:25442149 original size:28 final size:27
Alignment explanation
Indices: 25442118--25442190 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
25442108 TTCTATTTTA
25442118 ATTTTA-ATTTTTGATTTAATTTGATTTG
1 ATTTTAGATTTTT-ATTTAATTT-ATTTG
* * * *
25442146 ATTTTATATTTATATTTTATTTATTTT
1 ATTTTAGATTTTTATTTAATTTATTTG
25442173 ATTTATAGATTTTT-TTTA
1 ATTT-TAGATTTTTATTTA
25442191 TTATCATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
27 11 0.30
28 21 0.57
29 5 0.14
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (27 bp):
ATTTTAGATTTTTATTTAATTTATTTG
Found at i:25442184 original size:22 final size:22
Alignment explanation
Indices: 25442131--25442192 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
25442121 TTAATTTTTG
*
25442131 ATTTA-ATTTGATTTGATTTTAT
1 ATTTAGATTTTATTT-ATTTTAT
*
25442153 ATTTATATTTTATTTATTTTAT
1 ATTTAGATTTTATTTATTTTAT
*
25442175 -TTATAGATTTTTTTTATT
1 ATT-TAGATTTTATTTATT
25442193 ATCATATTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.06
22 25 0.71
23 8 0.23
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
ATTTAGATTTTATTTATTTTAT
Found at i:25442222 original size:22 final size:21
Alignment explanation
Indices: 25442165--25442224 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
25442155 TTATATTTTA
*
25442165 TTTATT-TTA-TTTATAGATT
1 TTTATTATTATTTTATTGATT
* **
25442184 TTTTTTATTATCATATTGATT
1 TTTATTATTATTTTATTGATT
25442205 TTTATTACTTATTTTATTGA
1 TTTATTA-TTATTTTATTGA
25442225 ATAACTTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 5 0.16
20 3 0.10
21 13 0.42
22 10 0.32
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTATTATTATTTTATTGATT
Found at i:25446576 original size:20 final size:22
Alignment explanation
Indices: 25446549--25446598 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
25446539 AGTTTATCTT
*
25446549 GAAAAAAAAA-AGATAAATGAA
1 GAAAAAAAAAGAGAAAAATGAA
25446570 GAAAAAAAAAGAGAAAAATGAA
1 GAAAAAAAAAGAGAAAAATGAA
25446592 GAAAAAA
1 GAAAAAA
25446599 TTATGAGGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (22 bp):
GAAAAAAAAAGAGAAAAATGAA
Found at i:25446922 original size:11 final size:12
Alignment explanation
Indices: 25446890--25446920 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
25446880 GTAAAAAAAG
25446890 AAAATAAAGAAA
1 AAAATAAAGAAA
25446902 AAAATAAAGAAA
1 AAAATAAAGAAA
25446914 AAAATAA
1 AAAATAA
25446921 GACCTACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (12 bp):
AAAATAAAGAAA
Found at i:25447951 original size:65 final size:64
Alignment explanation
Indices: 25447874--25448004 Score: 149
Period size: 65 Copynumber: 2.0 Consensus size: 64
25447864 TCAATCCAAA
* * * *
25447874 TTATTTTCTTGATTTGTGACTT-AGTCCTAGTCA-TTTGTTTTGATCTCGACTCAGTCCAGATCA
1 TTATTTTCTTGATTCGT-ACTTCAATCCTAGTCACCTT-TTTT-ATCTCGACTCAATCCAGATCA
25447937 TT
63 TT
* * * *
25447939 TTATTTTTTTGATTCGTAGTTCAATCCTCGTCACCTTTTTTATCTTGACTCAATCCAGATCATT
1 TTATTTTCTTGATTCGTACTTCAATCCTAGTCACCTTTTTTATCTCGACTCAATCCAGATCATT
25448003 TT
1 TT
25448005 TCTAACTTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
64 26 0.46
65 28 0.50
66 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (64 bp):
TTATTTTCTTGATTCGTACTTCAATCCTAGTCACCTTTTTTATCTCGACTCAATCCAGATCATT
Found at i:25448305 original size:5 final size:5
Alignment explanation
Indices: 25448297--25448333 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
25448287 TACGGTGTGG
*
25448297 TATTA TATTG TATTA TATTA TATTA TATTA TTATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA -TATTA T
25448334 TATAGTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:25448317 original size:15 final size:16
Alignment explanation
Indices: 25448297--25448361 Score: 61
Period size: 15 Copynumber: 4.4 Consensus size: 16
25448287 TACGGTGTGG
*
25448297 TATTATATTGTATTA-
1 TATTATATTATATTAT
25448312 TATTATATTATATTAT
1 TATTATATTATATTAT
*
25448328 TA-T-TATTATAGT-T
1 TATTATATTATATTAT
25448341 TATT-T-TTATTATTAT
1 TATTATATTA-TATTAT
25448356 TATTAT
1 TATTAT
25448362 TTTCTTTCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
13 6 0.14
14 13 0.31
15 20 0.48
16 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TATTATATTATATTAT
Found at i:25448330 original size:3 final size:3
Alignment explanation
Indices: 25448307--25448362 Score: 59
Period size: 3 Copynumber: 20.3 Consensus size: 3
25448297 TATTATATTG
* *
25448307 TAT TA- TAT TA- TAT TA- TAT TAT TAT TAT TA- TAG T-T TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25448350 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
25448363 TTCTTTCCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 9 0.20
3 36 0.80
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:25448330 original size:13 final size:13
Alignment explanation
Indices: 25448250--25448361 Score: 56
Period size: 13 Copynumber: 8.2 Consensus size: 13
25448240 TATAATAGAG
25448250 TATATTATATTAT
1 TATATTATATTAT
*
25448263 TATGTTATATTAT
1 TATATTATATTAT
*
25448276 TATTATTGTATTACGGT
1 TA-TATTATATTA---T
*
25448293 GTGGTATTATATTGTAT
1 -T-ATATTATA-T-TAT
25448310 TATA-T-TA-TAT
1 TATATTATATTAT
25448320 TATATTATTATTAT
1 TATATTA-TATTAT
25448334 TATAGTT-TATT-T
1 TATA-TTATATTAT
25448346 T-TATTATTATTAT
1 TATATTA-TATTAT
25448359 TAT
1 TAT
25448362 TTTCTTTCCA
Statistics
Matches: 76, Mismatches: 6, Indels: 33
0.66 0.05 0.29
Matches are distributed among these distances:
10 9 0.12
11 3 0.04
12 6 0.08
13 24 0.32
14 17 0.22
15 4 0.05
16 1 0.01
17 2 0.03
18 7 0.09
19 1 0.01
20 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.08, T:0.61
Consensus pattern (13 bp):
TATATTATATTAT
Done.