Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 276 of 310
Found at i:91007252 original size:31 final size:31
Alignment explanation
Indices: 91007159--91007255 Score: 85
Period size: 31 Copynumber: 3.1 Consensus size: 31
91007149 TACTAAATAT
**
91007159 AAAA-ATTTAATAAATTTAACCCCTAATATTTA
1 AAAATATTTAATAAATTTAACTTC-AA-ATTTA
* *
91007191 CAAAT-TTT-ATTAATTTAA-TTCAAATTTTA
1 AAAATATTTAATAAATTTAACTTCAAA-TTTA
*
91007220 AAAATATTTAATAAATTTAACTTCAACATTAA
1 AAAATATTTAATAAATTTAACTTCAA-ATTTA
91007252 AAAA
1 AAAA
91007256 ATTGATAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
28 1 0.02
29 10 0.19
30 4 0.08
31 18 0.35
32 18 0.35
33 1 0.02
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (31 bp):
AAAATATTTAATAAATTTAACTTCAAATTTA
Found at i:91010430 original size:24 final size:24
Alignment explanation
Indices: 91010403--91010455 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
91010393 CACATATCAA
91010403 CACAATCTGTATAAACATGAAAAC
1 CACAATCTGTATAAACATGAAAAC
*
91010427 CACAATCTGTATAACCATGAAAAC
1 CACAATCTGTATAAACATGAAAAC
91010451 CACAA
1 CACAA
91010456 CAGCTTCGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.25, G:0.08, T:0.19
Consensus pattern (24 bp):
CACAATCTGTATAAACATGAAAAC
Found at i:91012136 original size:16 final size:15
Alignment explanation
Indices: 91012110--91012144 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
91012100 TGATGTGAAT
91012110 AATATAAAATATTAA
1 AATATAAAATATTAA
*
91012125 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
91012141 AATA
1 AATA
91012145 ATAATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:91012309 original size:20 final size:20
Alignment explanation
Indices: 91012252--91012311 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
91012242 AATACTACAT
91012252 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
91012271 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
91012294 AAATATGTACATAATATA
1 AAATATGTACATAATATA
91012312 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:91012781 original size:30 final size:30
Alignment explanation
Indices: 91012702--91012786 Score: 127
Period size: 30 Copynumber: 2.8 Consensus size: 30
91012692 NNNNNNNNNN
* **
91012702 GTGTGGCTAGTGGAGTAAGTGGTGGAGCAA
1 GTGTGGCTAGTGGAATTGGTGGTGGAGCAA
91012732 GTGTGGCTAGT-GAAGTTGGTGGTGGAGCAA
1 GTGTGGCTAGTGGAA-TTGGTGGTGGAGCAA
91012762 GTGTGGCTAGTGGAATTGGTGGTGG
1 GTGTGGCTAGTGGAATTGGTGGTGG
91012787 CAAAGGCTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
29 2 0.04
30 45 0.90
31 3 0.06
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAATTGGTGGTGGAGCAA
Found at i:91016812 original size:18 final size:19
Alignment explanation
Indices: 91016789--91016826 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
91016779 TATTTTATAG
*
91016789 TTATTATAAATA-AAAAAA
1 TTATTATAAAAATAAAAAA
91016807 TTATTATAAAAATAAAAAA
1 TTATTATAAAAATAAAAAA
91016826 T
1 T
91016827 CAATTCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TTATTATAAAAATAAAAAA
Found at i:91018090 original size:48 final size:48
Alignment explanation
Indices: 91018017--91018114 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
91018007 ACCAAAAAGT
*
91018017 TATATATATATATAAAGTGTGTGTGTGAGAGGAAAATAGACTATCAAG
1 TATATATATATATAAAGTGTATGTGTGAGAGGAAAATAGACTATCAAG
91018065 TATATATATATATAAAGTGTATGTGTGAGAGGAAAATAGACTATCAAG
1 TATATATATATATAAAGTGTATGTGTGAGAGGAAAATAGACTATCAAG
91018113 TA
1 TA
91018115 CCAAACTAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (48 bp):
TATATATATATATAAAGTGTATGTGTGAGAGGAAAATAGACTATCAAG
Found at i:91019239 original size:26 final size:26
Alignment explanation
Indices: 91019202--91019285 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
91019192 TGATACAAAT
* *
91019202 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91019228 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91019254 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91019280 TGATAA
1 TGATAA
91019286 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:91025493 original size:7 final size:7
Alignment explanation
Indices: 91025462--91025676 Score: 53
Period size: 7 Copynumber: 30.6 Consensus size: 7
91025452 AAGAAATGAC
91025462 ATAATAAT
1 ATAAT-AT
91025470 ATAA-A-
1 ATAATAT
91025475 ATAAT-T
1 ATAATAT
*
91025481 ACAATAT
1 ATAATAT
91025488 ATAATAT
1 ATAATAT
91025495 GA-AAGTAT
1 -ATAA-TAT
*
91025503 A-AATGT
1 ATAATAT
*
91025509 A-AA-AA
1 ATAATAT
91025514 ATAATAT
1 ATAATAT
91025521 ATAATAT
1 ATAATAT
*
91025528 AT-ATAA
1 ATAATAT
91025534 ATAAT-T
1 ATAATAT
91025540 AATAAATAT
1 -AT-AATAT
*
91025549 ATAATACA
1 ATAATA-T
* *
91025557 AGTAAAAAC
1 A-T-AATAT
91025566 ATAATA-
1 ATAATAT
91025572 ATAATAT
1 ATAATAT
91025579 ATAAGTA-
1 ATAA-TAT
*
91025586 ATAATGT
1 ATAATAT
*
91025593 AAAATAAT
1 ATAAT-AT
*
91025601 AATAATTT
1 -ATAATAT
* *
91025609 GTGAA-AA
1 AT-AATAT
*
91025616 ACAATAT
1 ATAATAT
* *
91025623 ACAATAG
1 ATAATAT
91025630 ATAATA-
1 ATAATAT
91025636 ATAATAT
1 ATAATAT
91025643 AAATAATAT
1 --ATAATAT
*
91025652 ATAATGAA
1 ATAAT-AT
91025660 ATAAT-T
1 ATAATAT
91025666 ATAATAT
1 ATAATAT
91025673 ATAA
1 ATAA
91025677 AAAATAAGGT
Statistics
Matches: 154, Mismatches: 27, Indels: 53
0.66 0.12 0.23
Matches are distributed among these distances:
5 5 0.03
6 37 0.24
7 68 0.44
8 27 0.18
9 14 0.09
10 3 0.02
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (7 bp):
ATAATAT
Found at i:91025544 original size:11 final size:12
Alignment explanation
Indices: 91025514--91025554 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
91025504 AATGTAAAAA
*
91025514 ATAATATATAAT
1 ATAATAAATAAT
91025526 ATATATAAATAAT
1 ATA-ATAAATAAT
91025539 -TAATAAAT-AT
1 ATAATAAATAAT
91025549 ATAATA
1 ATAATA
91025555 CAAGTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 2 0.08
11 11 0.42
12 5 0.19
13 8 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:91025560 original size:59 final size:57
Alignment explanation
Indices: 91025462--91025588 Score: 132
Period size: 59 Copynumber: 2.2 Consensus size: 57
91025452 AAGAAATGAC
* * **
91025462 ATAATAATATAAAATAATTACAATATATAATATGAAAGTATAAATGTAAAAAATAATAT
1 ATAATAATATAAAATAATTAAAATATATAATA-GAAAGTAAAAACAT-AAAAATAATAT
* *
91025521 ATAAT-ATATATAAATAATTAATAAATATATAATA-CAAGTAAAAACATAATAATAATAT
1 ATAATAATATA-AAATAATT-A-AAATATATAATAGAAAGTAAAAACATAAAAATAATAT
91025579 ATAAGTAATA
1 ATAA-TAATA
91025589 ATGTAAAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
58 19 0.33
59 23 0.40
60 4 0.07
61 11 0.19
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.32
Consensus pattern (57 bp):
ATAATAATATAAAATAATTAAAATATATAATAGAAAGTAAAAACATAAAAATAATAT
Found at i:91025655 original size:19 final size:20
Alignment explanation
Indices: 91025618--91025676 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 20
91025608 TGTGAAAAAC
91025618 AATATACAATAGATA-ATAAT-
1 AATATA-AATA-ATATATAATG
91025638 AATATAAATAATATATAATG
1 AATATAAATAATATATAATG
91025658 AA-ATAATTATAATATATAA
1 AATATAA--ATAATATATAA
91025677 AAAATAAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.09
19 13 0.37
20 8 0.23
21 11 0.31
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (20 bp):
AATATAAATAATATATAATG
Found at i:91025670 original size:14 final size:15
Alignment explanation
Indices: 91025618--91025670 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
91025608 TGTGAAAAAC
*
91025618 AATATACAATAGATAAT
1 AATATATAAT-GA-AAT
91025635 AATA-AT-AT-AAAT
1 AATATATAATGAAAT
91025647 AATATATAATGAAAT
1 AATATATAATGAAAT
91025662 AAT-TATAAT
1 AATATATAAT
91025671 ATATAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
12 7 0.22
13 3 0.09
14 8 0.25
15 9 0.28
16 1 0.03
17 4 0.12
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (15 bp):
AATATATAATGAAAT
Found at i:91025730 original size:25 final size:27
Alignment explanation
Indices: 91025702--91025752 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
91025692 AATAAAACAA
91025702 ATAACAAT-ATA-AAA-AAATTATATAT
1 ATAACAATAATAGAAATAAA-TATATAT
*
91025727 ATAATAATAATAGAAATAAATATATA
1 ATAACAATAATAGAAATAAATATATA
91025753 GGGTTAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.32
26 3 0.14
27 9 0.41
28 3 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
ATAACAATAATAGAAATAAATATATAT
Found at i:91027422 original size:26 final size:26
Alignment explanation
Indices: 91027386--91027547 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
91027376 TGATACAAAT
*
91027386 TGATAACGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91027412 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
91027438 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
91027464 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
91027490 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91027516 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91027542 TGATAA
1 TGATAA
91027548 GAATTTCATG
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:91029846 original size:17 final size:18
Alignment explanation
Indices: 91029824--91029860 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
91029814 TATTTTATAG
91029824 TTATTAT-AAATAAAAAA
1 TTATTATAAAATAAAAAA
91029841 TTATTATAAAAATAAAAAA
1 TTATTAT-AAAATAAAAAA
91029860 T
1 T
91029861 CAATTCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTATTATAAAATAAAAAA
Found at i:91035009 original size:54 final size:54
Alignment explanation
Indices: 91034932--91035034 Score: 179
Period size: 54 Copynumber: 1.9 Consensus size: 54
91034922 ATCAGTGACA
*
91034932 AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAATT
1 AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAATT
* *
91034986 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGA
91035035 TAAATGTGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (54 bp):
AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAATT
Found at i:91054366 original size:119 final size:119
Alignment explanation
Indices: 91054155--91054390 Score: 445
Period size: 119 Copynumber: 2.0 Consensus size: 119
91054145 ATTTTGTGCG
91054155 GGAAATTATTGAAGAGGGGAAAATTTGTCTTCAGAAGATCAAGACTGCAGATAATCCCGCAGATA
1 GGAAATTATTGAAGAGGGGAAAATTTGTCTTCAGAAGATCAAGACTGCAGATAATCCCGCAGATA
91054220 TGATGACCAAGGTGGTAACAACAACCAAGTTCGAACATTGTTTGAACTTGATCA
66 TGATGACCAAGGTGGTAACAACAACCAAGTTCGAACATTGTTTGAACTTGATCA
* *
91054274 GGAAATTATTGATGAGGGGAAAATTTGTCTTCAGAAGATCAAGATTGCAGATAATCCCGCAGATA
1 GGAAATTATTGAAGAGGGGAAAATTTGTCTTCAGAAGATCAAGACTGCAGATAATCCCGCAGATA
*
91054339 TGATGACCAAGGTGGTAACAGCAACCAAGTTCGAACATTGTTTGAACTTGAT
66 TGATGACCAAGGTGGTAACAACAACCAAGTTCGAACATTGTTTGAACTTGAT
91054391 TAATATCCTG
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 114 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (119 bp):
GGAAATTATTGAAGAGGGGAAAATTTGTCTTCAGAAGATCAAGACTGCAGATAATCCCGCAGATA
TGATGACCAAGGTGGTAACAACAACCAAGTTCGAACATTGTTTGAACTTGATCA
Found at i:91057057 original size:11 final size:10
Alignment explanation
Indices: 91057041--91057081 Score: 66
Period size: 10 Copynumber: 4.1 Consensus size: 10
91057031 AGCCAGTTCG
91057041 ATTAAAAAATT
1 ATTAAAAAA-T
91057052 ATTAAAAAAT
1 ATTAAAAAAT
91057062 -TTAAAAAAT
1 ATTAAAAAAT
91057071 ATTAAAAAAT
1 ATTAAAAAAT
91057081 A
1 A
91057082 AAAAAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.31
10 11 0.38
11 9 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATTAAAAAAT
Found at i:91057068 original size:10 final size:9
Alignment explanation
Indices: 91057042--91057090 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
91057032 GCCAGTTCGA
91057042 TTAAAAAATT
1 TTAAAAAA-T
91057052 ATTAAAAAAT
1 -TTAAAAAAT
91057062 TTAAAAAAT
1 TTAAAAAAT
91057071 ATTAAAAAAT
1 -TTAAAAAAT
**
91057081 AAAAAAAAT
1 TTAAAAAAT
91057090 T
1 T
91057091 GAACCCAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 16 0.47
10 10 0.29
11 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:91057073 original size:19 final size:20
Alignment explanation
Indices: 91057042--91057090 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
91057032 GCCAGTTCGA
91057042 TTAAAAAATTATTAAAAAAT
1 TTAAAAAATTATTAAAAAAT
91057062 TTAAAAAA-TATTAAAAAAT
1 TTAAAAAATTATTAAAAAAT
**
91057081 AAAAAAAATT
1 TTAAAAAATT
91057091 GAACCCAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
TTAAAAAATTATTAAAAAAT
Found at i:91062072 original size:28 final size:28
Alignment explanation
Indices: 91062038--91062101 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
91062028 ATACAAGTTT
*
91062038 TTTTATTTTGATTTTTA-AAAATTTATAA
1 TTTTATTTTGA-TATTAGAAAATTTATAA
91062066 TTTTATTTTGATATTAGAAAATTTATAA
1 TTTTATTTTGATATTAGAAAATTTATAA
*
91062094 TTGTATTT
1 TTTTATTT
91062102 ATAATTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (28 bp):
TTTTATTTTGATATTAGAAAATTTATAA
Found at i:91064413 original size:5 final size:5
Alignment explanation
Indices: 91064399--91064478 Score: 54
Period size: 5 Copynumber: 15.0 Consensus size: 5
91064389 CAATCTTTCT
* * * *
91064399 TTTTA TTTTTA TTTTTA TTTATTA TTTTC CTTTC TTTTC TTTTA TTATT-
1 TTTTA -TTTTA -TTTTA -TT-TTA TTTTA TTTTA TTTTA TTTTA TT-TTA
*
91064448 TATTA TTTTA TTTTA TTATTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA
91064479 GTTAAATATT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
4 2 0.03
5 36 0.56
6 23 0.36
7 3 0.05
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:91064423 original size:13 final size:12
Alignment explanation
Indices: 91064398--91064477 Score: 56
Period size: 13 Copynumber: 6.3 Consensus size: 12
91064388 CCAATCTTTC
91064398 TTTTTATTTTTA
1 TTTTTATTTTTA
91064410 TTTTTATTTATTA
1 TTTTTATTT-TTA
** *
91064423 TTTTCCTTTCTTT
1 TTTTTATTT-TTA
91064436 TCTTTTATTATTTA
1 T-TTTTATT-TTTA
91064450 TTATTT-TATTTTA
1 TT-TTTAT-TTTTA
*
91064463 TTATTA-TTTTA
1 TTTTTATTTTTA
91064474 TTTT
1 TTTT
91064478 AGTTAAATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.15
12 11 0.21
13 21 0.40
14 12 0.23
15 1 0.02
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:91064456 original size:20 final size:21
Alignment explanation
Indices: 91064433--91064478 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
91064423 TTTTCCTTTC
*
91064433 TTTTCTTTTATTATT-TATTA
1 TTTTATTTTATTATTATATTA
*
91064453 TTTTATTTTATTATTATTTTA
1 TTTTATTTTATTATTATATTA
91064474 TTTTA
1 TTTTA
91064479 GTTAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTATTTTATTATTATATTA
Found at i:91064459 original size:8 final size:8
Alignment explanation
Indices: 91064438--91064475 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
91064428 CTTTCTTTTC
91064438 TTTTATTA
1 TTTTATTA
91064446 -TTTATTA
1 TTTTATTA
91064453 TTTTATT-
1 TTTTATTA
91064460 TTATTATTA
1 TT-TTATTA
91064469 TTTTATT
1 TTTTATT
91064476 TTAGTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 9 0.33
8 16 0.59
9 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATTA
Found at i:91065632 original size:118 final size:118
Alignment explanation
Indices: 91065424--91065654 Score: 363
Period size: 118 Copynumber: 2.0 Consensus size: 118
91065414 TGTTTTCCAT
* * *
91065424 GGTTATGAGTACAGCTTAGATCGTGGCTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
91065489 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
66 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
** *
91065542 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
* ****
91065607 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTA
91065655 ACCGGAAATA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
118 102 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
Found at i:91068127 original size:22 final size:22
Alignment explanation
Indices: 91068069--91068127 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
91068059 CACGCAGTTG
*
91068069 TGTGACCTATC-CACATGGCCA
1 TGTGACCTATCTCACACGGCCA
*
91068090 TGTGACCCA-CTCACACGGCCA
1 TGTGACCTATCTCACACGGCCA
91068111 TGT-AGCCTATCTCACAC
1 TGTGA-CCTATCTCACAC
91068128 AGGCATGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 2 0.06
21 23 0.72
22 7 0.22
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (22 bp):
TGTGACCTATCTCACACGGCCA
Found at i:91069111 original size:17 final size:18
Alignment explanation
Indices: 91069084--91069125 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
91069074 TATAAATTAA
91069084 AAAATATATAAATT-TTTT
1 AAAA-ATATAAATTATTTT
91069102 AAAAATATAAATTAATTTT
1 AAAAATATAAATT-ATTTT
91069121 AAAAA
1 AAAAA
91069126 GTATGATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 4 0.18
19 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATATAAATTATTTT
Found at i:91069118 original size:21 final size:20
Alignment explanation
Indices: 91069080--91069120 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
91069070 CGGATATAAA
*
91069080 TTAAAAAATATATAAATTTT
1 TTAAAAAATAAATAAATTTT
*
91069100 TTAAAAATATAAATTAATTTT
1 TTAAAAA-ATAAATAAATTTT
91069121 AAAAAGTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAAAATAAATAAATTTT
Found at i:91070283 original size:56 final size:57
Alignment explanation
Indices: 91070217--91070331 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 57
91070207 CTCTAAAAAA
* * *
91070217 TTCATTATCTAAATTTACC-TTACCATGAATTAAACCTGCAGAAAAAAATCA-TAAAT
1 TTCATAATCTAAATTTACCTTTACCATAAATTAAACATGCAG-AAAAAATCATTAAAT
* * *
91070273 TTCATAATCTAATTTTGCCTTTTACCATAAATTACACATGCAGAAAAAATCATTAAAT
1 TTCATAATCTAAATTTACC-TTTACCATAAATTAAACATGCAGAAAAAATCATTAAAT
91070331 T
1 T
91070332 ATTATGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
56 16 0.32
57 9 0.18
58 25 0.50
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.35
Consensus pattern (57 bp):
TTCATAATCTAAATTTACCTTTACCATAAATTAAACATGCAGAAAAAATCATTAAAT
Found at i:91071960 original size:3 final size:3
Alignment explanation
Indices: 91071952--91071992 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
91071942 GGAAAACATA
91071952 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
91071993 AGAGGGAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:91072941 original size:28 final size:27
Alignment explanation
Indices: 91072909--91072998 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 27
91072899 CTTTATGCAT
91072909 ACATTTTTAAATTTTTTATTTGAAAGTA
1 ACATTTTT-AATTTTTTATTTGAAAGTA
* * *
91072937 ACATTTTT--TTTTTCATATCTT-TATGCA
1 ACATTTTTAATTTTT--TAT-TTGAAAGTA
91072964 TACATTTTTAATTTTTTTATTTGAAAGTA
1 -ACATTTTTAA-TTTTTTATTTGAAAGTA
91072993 ACATTT
1 ACATTT
91072999 CTTTGCTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
25 5 0.10
27 6 0.12
28 26 0.54
29 6 0.12
31 5 0.10
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.57
Consensus pattern (27 bp):
ACATTTTTAATTTTTTATTTGAAAGTA
Found at i:91074549 original size:17 final size:16
Alignment explanation
Indices: 91074500--91074536 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
91074490 AAGCTAAGTC
91074500 AAAAAAGAAAACGAAA
1 AAAAAAGAAAACGAAA
91074516 AAAAAAGAAAACGAAA
1 AAAAAAGAAAACGAAA
91074532 AAAAA
1 AAAAA
91074537 GGTAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAACGAAA
Found at i:91075654 original size:26 final size:25
Alignment explanation
Indices: 91075602--91075655 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
91075592 TACTTTTATA
**
91075602 AAATAATTAATAAAATTAATTGGTC
1 AAATAATTAATAAAATTAATTAATC
* *
91075627 AAATCAATTAATAGAATTAGTTAATC
1 AAAT-AATTAATAAAATTAATTAATC
91075653 AAA
1 AAA
91075656 CTAGTCACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (25 bp):
AAATAATTAATAAAATTAATTAATC
Found at i:91079470 original size:10 final size:10
Alignment explanation
Indices: 91079455--91079491 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
91079445 AAATTAAAAT
91079455 TAAAATAATA
1 TAAAATAATA
*
91079465 TAAAATGATA
1 TAAAATAATA
*
91079475 TAAAAAAATA
1 TAAAATAATA
91079485 TAAAATA
1 TAAAATA
91079492 CAAAATTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
TAAAATAATA
Found at i:91080343 original size:28 final size:29
Alignment explanation
Indices: 91080296--91080351 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
91080286 AATCAATGAC
91080296 CAAAATTTGAATAAGTAAATATAAGTATA
1 CAAAATTTGAATAAGTAAATATAAGTATA
91080325 CAAAATTTG-ATAAGTAAATATAAGTAT
1 CAAAATTTGAATAAGTAAATATAAGTAT
91080352 GCAACTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (29 bp):
CAAAATTTGAATAAGTAAATATAAGTATA
Found at i:91081452 original size:14 final size:14
Alignment explanation
Indices: 91081433--91081464 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
91081423 TCCAATCACC
91081433 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
91081447 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
91081461 GGGC
1 GGGC
91081465 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:91084929 original size:14 final size:14
Alignment explanation
Indices: 91084910--91084941 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
91084900 TCCAATCACC
91084910 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
91084924 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
91084938 GGGC
1 GGGC
91084942 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:91085980 original size:35 final size:37
Alignment explanation
Indices: 91085932--91086017 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 37
91085922 AGATGAGTTC
* *
91085932 AAAAATATAAAAAAATTAATAATTATTTA-AAAATT-T
1 AAAATTAT-AAAAAATTAATAATAATTTATAAAATTAT
*
91085968 AAAATTATAAAAAATTATTAATAATTTATAAAATTAT
1 AAAATTATAAAAAATTAATAATAATTTATAAAATTAT
91086005 AAAATTAATAAAA
1 AAAATT-ATAAAA
91086018 TGCACATATG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 18 0.41
36 13 0.30
37 7 0.16
38 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (37 bp):
AAAATTATAAAAAATTAATAATAATTTATAAAATTAT
Found at i:91086008 original size:27 final size:28
Alignment explanation
Indices: 91085943--91086011 Score: 58
Period size: 27 Copynumber: 2.5 Consensus size: 28
91085933 AAAATATAAA
*
91085943 AAAATTA-ATAATTATTT-AAAAA-TTT
1 AAAATTATAAAATTATTTAAAAAATTTT
*
91085968 AAAATTATAAAAAATTA-TT-AATAATTTAT
1 AAAATTAT--AAAATTATTTAAAAAATTT-T
91085997 AAAATTATAAAATTA
1 AAAATTATAAAATTA
91086012 ATAAAATGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 7 0.19
27 13 0.35
28 8 0.22
29 9 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAATTATAAAATTATTTAAAAAATTTT
Found at i:91086009 original size:8 final size:8
Alignment explanation
Indices: 91085961--91086018 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 8
91085951 TAATTATTTA
91085961 AAAATT-T
1 AAAATTAT
91085968 AAAATTAT
1 AAAATTAT
91085976 AAAAAATTATT
1 --AAAATTA-T
91085987 AATAATTTAT
1 AA-AA-TTAT
91085997 AAAATTAT
1 AAAATTAT
91086005 AAAATTAAT
1 AAAATT-AT
91086014 AAAAT
1 AAAAT
91086019 GCACATATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 6 0.14
8 11 0.25
9 11 0.25
10 12 0.27
11 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAATTAT
Found at i:91086018 original size:17 final size:17
Alignment explanation
Indices: 91085961--91086018 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
91085951 TAATTATTTA
*
91085961 AAAATT-TAAAATTATAA
1 AAAATTATAAAATTA-AT
*
91085978 AAAATTATTAATAATTTAT
1 AAAATTA-TAA-AATTAAT
91085997 AAAATTATAAAATTAAT
1 AAAATTATAAAATTAAT
91086014 AAAAT
1 AAAAT
91086019 GCACATATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 17 0.49
18 3 0.09
19 11 0.31
20 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTATAAAATTAAT
Found at i:91086759 original size:10 final size:10
Alignment explanation
Indices: 91086744--91086793 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
91086734 TAATTTTAGG
91086744 ATTTAT-TTT
1 ATTTATCTTT
91086753 CATTTATCTTT
1 -ATTTATCTTT
*
91086764 AATTATCTTT
1 ATTTATCTTT
*
91086774 ATTTAT-TGGT
1 ATTTATCT-TT
91086784 ATTTATCTTT
1 ATTTATCTTT
91086794 TAGAATTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 1 0.03
10 28 0.85
11 4 0.12
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:91087535 original size:18 final size:18
Alignment explanation
Indices: 91087506--91087545 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
91087496 TTTATTTTTT
91087506 ATTTATTTTAATTTCTGCA
1 ATTTATTTTAATTTC-GCA
91087525 ATTTA-TTTAATTTCGCA
1 ATTTATTTTAATTTCGCA
91087542 ATTT
1 ATTT
91087546 CAATTCACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 9 0.43
19 5 0.24
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTTATTTTAATTTCGCA
Found at i:91088591 original size:25 final size:25
Alignment explanation
Indices: 91088545--91088592 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
91088535 ATTTAAAATT
*
91088545 ATATTTTTAATTTTTAATTTTTTTC
1 ATATTTTTAATTTTTAAATTTTTTC
91088570 ATATTTTT-ATTTTTAGAATTTTT
1 ATATTTTTAATTTTTA-AATTTTT
91088593 AAATAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (25 bp):
ATATTTTTAATTTTTAAATTTTTTC
Found at i:91091582 original size:16 final size:16
Alignment explanation
Indices: 91091561--91091596 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
91091551 TAAAAAATTT
*
91091561 AAACTTAAAATGATTA
1 AAACTTAAAATGACTA
*
91091577 AAACTTAAATTGACTA
1 AAACTTAAAATGACTA
91091593 AAAC
1 AAAC
91091597 ATGTAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.28
Consensus pattern (16 bp):
AAACTTAAAATGACTA
Found at i:91093841 original size:17 final size:18
Alignment explanation
Indices: 91093806--91093844 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
91093796 ATACGACCCT
*
91093806 TCAAATAACATACCCATG
1 TCAAATAACATACCAATG
*
91093824 TCAAAT-ACGTACCAATG
1 TCAAATAACATACCAATG
91093841 TCAA
1 TCAA
91093845 CACACCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.23
Consensus pattern (18 bp):
TCAAATAACATACCAATG
Found at i:91096980 original size:33 final size:33
Alignment explanation
Indices: 91096943--91097010 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
91096933 CATAATTATA
91096943 ATTATATTAATTTTTTATCAATAATAAATTTAC
1 ATTATATTAATTTTTTATCAATAATAAATTTAC
*
91096976 ATTATATTAATTTTTTATCGATAATAAATTTAC
1 ATTATATTAATTTTTTATCAATAATAAATTTAC
91097009 AT
1 AT
91097011 GAGTTATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (33 bp):
ATTATATTAATTTTTTATCAATAATAAATTTAC
Found at i:91101105 original size:12 final size:12
Alignment explanation
Indices: 91101088--91101113 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91101078 TTCAAGCTTC
91101088 TTCATTTTCTTT
1 TTCATTTTCTTT
91101100 TTCATTTTCTTT
1 TTCATTTTCTTT
91101112 TT
1 TT
91101114 TTTTTGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCATTTTCTTT
Found at i:91102888 original size:28 final size:30
Alignment explanation
Indices: 91102855--91102911 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
91102845 TCTAGAATTT
*
91102855 TTATAA-TTTTTAATAA-TTTTTTAAAAAA
1 TTATAACTTTTAAATAACTTTTTTAAAAAA
*
91102883 TTATAACTTTTAAATAACTTTTTTTAAAA
1 TTATAACTTTTAAATAACTTTTTTAAAAA
91102912 CCCACGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 9 0.36
30 10 0.40
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
TTATAACTTTTAAATAACTTTTTTAAAAAA
Found at i:91106841 original size:34 final size:35
Alignment explanation
Indices: 91106781--91106850 Score: 81
Period size: 34 Copynumber: 2.0 Consensus size: 35
91106771 TTAAATTAGT
* *
91106781 ATGTTATTAATACATAAAATAATAATATAT-TATA
1 ATGTTACTAATACATAAAATAATAATACATATATA
* *
91106815 ATGTTACTATTAC-TAAAACTATTAATACATATATA
1 ATGTTACTAATACATAAAA-TAATAATACATATATA
91106850 A
1 A
91106851 CTATTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (35 bp):
ATGTTACTAATACATAAAATAATAATACATATATA
Found at i:91107278 original size:223 final size:229
Alignment explanation
Indices: 91106850--91107278 Score: 567
Period size: 223 Copynumber: 1.9 Consensus size: 229
91106840 TACATATATA
* *
91106850 ACTATTATTATAAGATAGATTATAATAAAAAAATATAATATTGCATGATATTAATTATAATGTTT
1 ACTATTATTATAAGATAGATTATAATAAAAAAATATAATATTACATGA-ATTAATTATAACGTTT
*
91106915 AATCATTGATGCATATATATAAACTATTAATATATCATATGATATGATATAGCATTATATAATAT
65 AATCATTGATGCATATATATAAACTATT-ATATATCATATGATATGATATAACATTATATAATAT
* * * * * *
91106980 AGTAAGAGGGTTAACTTTTAAATGTATATATGAAAAGCATACTGACTTAGAGTATATTTCAACTA
129 AGTAAGAGGGATAAATTTCAAATG-ATATATGAAAAGCACACGGACTTAGAGCATATTTCAACTA
91107045 GTATAATAAT-ATATAATAAGTAATAAATAATATACT
193 GTATAATAATAATATAATAAGTAATAAATAATATACT
* * * *
91107081 ACTATTGTTATAATATAGATTATAAT-AAAAGATATAGTATTACATG-A-T-ATTATAACGTTTA
1 ACTATTATTATAAGATAGATTATAATAAAAAAATATAATATTACATGAATTAATTATAACGTTTA
*
91107142 ATCATTTATGCGTATATATATAAACTA-T-TA-AT-ATATGATATGATATAACATTATATAATAT
66 ATCATTGATGC--ATATATATAAACTATTATATATCATATGATATGATATAACATTATATAATAT
* * *
91107203 AGTAGGAGGGATAAATTTCAAATG-TA-A-GAAAAGTACAGGGACTTAGAGCATATTTCAACTAG
129 AGTAAGAGGGATAAATTTCAAATGATATATGAAAAGCACACGGACTTAGAGCATATTTCAACTAG
91107265 TATAATAAATAATA
194 TATAAT-AATAATA
91107279 ATATATGATA
Statistics
Matches: 177, Mismatches: 17, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
219 36 0.20
220 4 0.02
221 5 0.03
223 48 0.27
224 2 0.01
225 2 0.01
226 22 0.12
227 2 0.01
228 15 0.08
230 17 0.10
231 24 0.14
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.37
Consensus pattern (229 bp):
ACTATTATTATAAGATAGATTATAATAAAAAAATATAATATTACATGAATTAATTATAACGTTTA
ATCATTGATGCATATATATAAACTATTATATATCATATGATATGATATAACATTATATAATATAG
TAAGAGGGATAAATTTCAAATGATATATGAAAAGCACACGGACTTAGAGCATATTTCAACTAGTA
TAATAATAATATAATAAGTAATAAATAATATACT
Found at i:91107818 original size:9 final size:9
Alignment explanation
Indices: 91107798--91107847 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
91107788 TCACTCTCTC
91107798 AATATA-AT
1 AATATATAT
91107806 AATATATAT
1 AATATATAT
*
91107815 AATAGATAT
1 AATATATAT
*
91107824 TATA-ATGAT
1 AATATAT-AT
*
91107833 AAAATATAT
1 AATATATAT
91107842 AATATA
1 AATATA
91107848 AACAAAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
8 8 0.24
9 24 0.71
10 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (9 bp):
AATATATAT
Found at i:91109573 original size:26 final size:26
Alignment explanation
Indices: 91109536--91109697 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
91109526 TGATACAAAT
*
91109536 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91109562 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91109588 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
91109614 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91109640 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91109666 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91109692 TGATAA
1 TGATAA
91109698 GAATTTCATG
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 126 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91109630 original size:78 final size:78
Alignment explanation
Indices: 91109536--91109697 Score: 297
Period size: 78 Copynumber: 2.1 Consensus size: 78
91109526 TGATACAAAT
* * *
91109536 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTA
1 TGATAATAGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTA
91109601 GGTAAATGTTTCA
66 GGTAAATGTTTCA
91109614 TGATAATAGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTA
91109679 GGTAAATGTTTCA
66 GGTAAATGTTTCA
91109692 TGATAA
1 TGATAA
91109698 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (78 bp):
TGATAATAGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTA
GGTAAATGTTTCA
Found at i:91116410 original size:26 final size:26
Alignment explanation
Indices: 91116381--91116436 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
91116371 TGGTACAAAT
91116381 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91116407 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91116433 TGAT
1 TGAT
91116437 GGGTATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91120772 original size:22 final size:21
Alignment explanation
Indices: 91120747--91120788 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
91120737 ATATTAAGAT
91120747 AAAACAATAAGTGATAATAATG
1 AAAACAATAAGT-ATAATAATG
* *
91120769 AAAAGAATAGGTATAATAAT
1 AAAACAATAAGTATAATAAT
91120789 AAATAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAAACAATAAGTATAATAATG
Found at i:91120893 original size:23 final size:26
Alignment explanation
Indices: 91120841--91120894 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
91120831 TGTATACAAG
* *
91120841 AATAATAAAATATATGTACTAATATT
1 AATAATAAAATATATGTACGAATATA
91120867 AATAAT-AAATATA-GTACGAATA-A
1 AATAATAAAATATATGTACGAATATA
91120890 AATAA
1 AATAA
91120895 ATGTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.19
24 8 0.31
25 7 0.27
26 6 0.23
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AATAATAAAATATATGTACGAATATA
Found at i:91121012 original size:26 final size:25
Alignment explanation
Indices: 91120937--91121063 Score: 81
Period size: 24 Copynumber: 5.2 Consensus size: 25
91120927 AAAAATATAC
* *
91120937 ATATACATATAATAGTATTTAAGAAT
1 ATATACATA-AATAGTATATAAAAAT
**
91120963 ATATACATAAGAT-G-ATATGGAAAT
1 ATATACATAA-ATAGTATATAAAAAT
*
91120987 ATGTACATAGAATAGTATATAAAAAT
1 ATATACATA-AATAGTATATAAAAAT
*
91121013 ATA-AC-T-AATAATAT-TGAAAATAT
1 ATATACATAAATAGTATAT-AAAA-AT
*
91121036 AGATACAT-AATA-TATATAAAACAT
1 ATATACATAAATAGTATATAAAA-AT
91121060 ATAT
1 ATAT
91121064 GATATATACA
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
21 1 0.01
22 11 0.14
23 4 0.05
24 31 0.39
25 12 0.15
26 21 0.26
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.33
Consensus pattern (25 bp):
ATATACATAAATAGTATATAAAAAT
Found at i:91121083 original size:21 final size:20
Alignment explanation
Indices: 91121045--91121092 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
91121035 TAGATACATA
* *
91121045 ATATATATAAAACATATATG
1 ATATATACAAAACATATACG
*
91121065 ATATATACATAAACGTATACG
1 ATATATACA-AAACATATACG
*
91121086 ACATATA
1 ATATATA
91121093 TATATTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
ATATATACAAAACATATACG
Found at i:91121489 original size:3 final size:3
Alignment explanation
Indices: 91121475--91121516 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
91121465 AAGTAAACAC
91121475 TAA TACA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
91121517 TTGAGATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.06
3 29 0.81
4 5 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:91121507 original size:133 final size:133
Alignment explanation
Indices: 91121358--91121649 Score: 568
Period size: 133 Copynumber: 2.2 Consensus size: 133
91121348 AAAAAAAAAG
91121358 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
1 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
91121423 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
66 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
91121488 TAA
131 TAA
91121491 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
1 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
91121556 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
66 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
91121621 TAA
131 TAA
91121624 TAATAATAATAATA-ATAATAATAATA
1 TAATAATAATAATATA-AATAATAATA
91121650 ATAATAATAA
Statistics
Matches: 158, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
132 1 0.01
133 157 0.99
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (133 bp):
TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
TAA
Found at i:91121622 original size:3 final size:3
Alignment explanation
Indices: 91121608--91121663 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
91121598 AAGTAAACAC
91121608 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
91121654 TAA TAA TAA T
1 TAA TAA TAA T
91121664 TAAAGTAGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:91123545 original size:3 final size:3
Alignment explanation
Indices: 91123531--91123572 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
91123521 AAGTAAACAC
91123531 TAA TACA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
91123573 TTGAGATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.06
3 29 0.81
4 5 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:91123563 original size:133 final size:133
Alignment explanation
Indices: 91123414--91123705 Score: 568
Period size: 133 Copynumber: 2.2 Consensus size: 133
91123404 AAAAAAAAAG
91123414 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
1 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
91123479 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
66 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
91123544 TAA
131 TAA
91123547 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
1 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
91123612 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
66 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
91123677 TAA
131 TAA
91123680 TAATAATAATAATA-ATAATAATAATA
1 TAATAATAATAATATA-AATAATAATA
91123706 ATAATAATAA
Statistics
Matches: 158, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
132 1 0.01
133 157 0.99
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (133 bp):
TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
TAA
Found at i:91123678 original size:3 final size:3
Alignment explanation
Indices: 91123664--91123719 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
91123654 AAGTAAACAC
91123664 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
91123710 TAA TAA TAA T
1 TAA TAA TAA T
91123720 TAAAGTAGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:91125225 original size:17 final size:17
Alignment explanation
Indices: 91125203--91125236 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
91125193 ACCTTAGAAA
91125203 GGCAAGATCTAATATCC
1 GGCAAGATCTAATATCC
91125220 GGCAAGATCTAATATCC
1 GGCAAGATCTAATATCC
91125237 TCGATCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (17 bp):
GGCAAGATCTAATATCC
Found at i:91125909 original size:55 final size:54
Alignment explanation
Indices: 91125545--91125908 Score: 557
Period size: 54 Copynumber: 6.7 Consensus size: 54
91125535 ATGTGACCCG
* * * ** *
91125545 AGGCTCAACTCACCTATTGCAATATAAGTTGATTTTTGAAAAGTATAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
** *
91125599 ATACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
91125653 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-AGAAATTAAA
*
91125708 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAA
* *
91125763 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-AGAAATTAAA
91125818 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
91125872 AGGCTCAACTCACCTTTCGCGATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
91125909 TTCAACTCAC
Statistics
Matches: 285, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
54 142 0.50
55 132 0.46
56 11 0.04
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:91125909 original size:110 final size:109
Alignment explanation
Indices: 91125545--91125908 Score: 595
Period size: 110 Copynumber: 3.3 Consensus size: 109
91125535 ATGTGACCCG
* ** * ** * **
91125545 AGGCTCAACTCACCTATTGCAATATAAGTTGATTTTTG-AAAAGTATAAATTAAAATACTCAACT
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACT
91125609 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
91125653 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACT
91125718 CACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAA
66 CACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTAAA
91125763 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACT
*
91125828 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
* * *
91125872 AGGCTCAACTCACCTTTCGCGATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
91125909 TTCAACTCAC
Statistics
Matches: 241, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
108 34 0.14
109 98 0.41
110 109 0.45
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (109 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
Found at i:91125919 original size:34 final size:34
Alignment explanation
Indices: 91125876--91125943 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
91125866 ATTAAAAGGC
* *
91125876 TCAACTCACCTTTCGCGATATGAGTTGATTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
91125910 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
91125944 GAAAAATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (34 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
Found at i:91125994 original size:55 final size:55
Alignment explanation
Indices: 91125910--91126235 Score: 521
Period size: 55 Copynumber: 5.9 Consensus size: 55
91125900 TTGATTTTTT
*
91125910 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
* *
91125965 TCAACTCACCTCTCACAATATGAGTTGA-TTTTTGAAAAACAAAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
91126019 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
* *
91126074 TCAACTTACCTCTCGCAATATGAGTTGGTTTTTTTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTT-G---ATTTTTTGAAAAACAGAAATTAAAAGGC
*
91126133 TCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTT-GATTTTTTGAAAAACAGAAATTAAAAGGC
* *
91126189 TCAACTCACCTCTCGCAATATGAATTGA-TTTTTGACAAACAGAAATT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT
91126236 GAAATTACCT
Statistics
Matches: 255, Mismatches: 11, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
54 69 0.27
55 78 0.31
56 54 0.21
59 54 0.21
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (55 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
Found at i:91125997 original size:88 final size:88
Alignment explanation
Indices: 91125822--91125997 Score: 307
Period size: 89 Copynumber: 2.0 Consensus size: 88
91125812 ATTAAAAGGC
91125822 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
* * *
91125887 TTCGCGATATGAGTTGATTTTTT
66 CTCACAATATGAGTTGATTTTTT
*
91125910 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
91125975 TCTCACAATATGAGTTGATTTTT
65 TCTCACAATATGAGTTGATTTTT
91125998 GAAAAACAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
88 28 0.34
89 55 0.66
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (88 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
CTCACAATATGAGTTGATTTTTT
Found at i:91126025 original size:143 final size:143
Alignment explanation
Indices: 91125767--91126052 Score: 493
Period size: 143 Copynumber: 2.0 Consensus size: 143
91125757 ATTAAAAGGC
91125767 TCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCACC
* * * *
91125832 TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTTTCGCGATAT
66 TCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATAT
91125897 GAGTTGATTTTTT
131 GAGTTGATTTTTT
* * *
91125910 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-TAGAAATTAAAAGGCTCAACTCAC
1 TCAACTCACCTCTCACAATATGAGTTGA-TTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCAC
91125974 CTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
65 CTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
91126039 TGAGTTGATTTTTT
130 TGAGTTGATTTTTT
91126053 GAAAAACAGA
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
143 124 0.92
144 11 0.08
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (143 bp):
TCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCACC
TCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTT
Found at i:91126054 original size:198 final size:198
Alignment explanation
Indices: 91125712--91126108 Score: 742
Period size: 198 Copynumber: 2.0 Consensus size: 198
91125702 ATTAAAAGGC
91125712 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
91125777 TCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
66 TCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
* *
91125842 TGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTTTCGCGATATGAGTTGATTT
131 TGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
91125907 TTT
196 TTT
91125910 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
91125975 TCTCACAATATGAGTTGATTTTTGAAAAAC-AAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
66 TCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
* *
91126039 TGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTTACCTCTCGCAATATGAGTTGGTT
131 TGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
91126104 TTTT
195 TTTT
91126108 T
1 T
91126109 TTTGAAAAAC
Statistics
Matches: 194, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
197 42 0.22
198 152 0.78
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (198 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
TCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTT
Found at i:91126106 original size:109 final size:109
Alignment explanation
Indices: 91125910--91126235 Score: 526
Period size: 109 Copynumber: 2.9 Consensus size: 109
91125900 TTGATTTTTT
*
91125910 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
* *
91125975 TCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGC
66 TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
*
91126019 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTTACC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
*
91126084 TCTCGCAATATGAGTTGGTTTTTTTTTTGAAAAACAGAAATTAAAAGGC
66 TCTCGCAATATGAGTT-G----ATTTTTGAAAAACAGAAATTAAAAGGC
*
91126133 TCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCAC
1 TCAACTCACCTCTCGCAATATGAGTT-GATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCAC
* *
91126198 CTCTCGCAATATGAATTGATTTTTGACAAACAGAAATT
65 CTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
91126236 GAAATTACCT
Statistics
Matches: 201, Mismatches: 10, Indels: 11
0.91 0.05 0.05
Matches are distributed among these distances:
109 78 0.39
110 19 0.09
114 52 0.26
115 52 0.26
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (109 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
Found at i:91126335 original size:73 final size:71
Alignment explanation
Indices: 91126184--91126385 Score: 262
Period size: 73 Copynumber: 2.8 Consensus size: 71
91126174 CAGAAATTAA
* * *
91126184 AAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACAGTAATTGAAAATACCTCAG
* *
91126249 CGTGTCCT
64 CGTGACCC
* *
91126257 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA-TAATTGAAAATACCTCGGCA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGTAATTGAAAATACCTCAGC-
91126321 TGTGAACCC
65 -GTG-ACCC
* *
91126330 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATTAAATTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGT-AATTGAAAA
91126386 AAACAAAAAT
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
70 16 0.14
71 5 0.04
72 3 0.03
73 81 0.70
74 1 0.01
75 9 0.08
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (71 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGTAATTGAAAATACCTCAGCG
TGACCC
Found at i:91126450 original size:90 final size:90
Alignment explanation
Indices: 91126302--91126568 Score: 342
Period size: 91 Copynumber: 2.9 Consensus size: 90
91126292 TTTGAAACAT
* *
91126302 AATTGAAAATACCTCGGCATGTGAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
1 AATTGAAAATACCTCAGCATGTG-A-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTT
91126366 TTGAAAAATTAAATTGAAAAAAACAAA
64 TTGAAAAATTAAATTGAAAAAAACAAA
* * *
91126393 AATTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTT
1 AATTGAAAATACCTCAGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTT
** ** *
91126458 AAAAAAAACAGGAATTG--AAAAACAGA
65 TGAAAAATTA--AATTGAAAAAAACAAA
* *
91126484 AATTGAAAATACGTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTT
91126549 TGAAAAATATAAATTGAAAA
65 TGAAAAAT-TAAATTGAAAA
91126569 GCAGAAATTA
Statistics
Matches: 149, Mismatches: 19, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
89 2 0.01
90 37 0.25
91 100 0.67
92 5 0.03
93 5 0.03
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (90 bp):
AATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTT
GAAAAATTAAATTGAAAAAAACAAA
Found at i:91126492 original size:13 final size:14
Alignment explanation
Indices: 91126461--91126492 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
91126451 GACTTTTAAA
*
91126461 AAAAACAGGAATTG
1 AAAAACAGAAATTG
91126475 AAAAACAGAAATTG
1 AAAAACAGAAATTG
91126489 AAAA
1 AAAA
91126493 TACGTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAAACAGAAATTG
Found at i:91126576 original size:14 final size:14
Alignment explanation
Indices: 91126559--91126596 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
91126549 TGAAAAATAT
*
91126559 AAATTGAAAAGCAG
1 AAATTGAAAAGCAA
*
91126573 AAATTAAAAAGCAA
1 AAATTGAAAAGCAA
91126587 AAATTGAAAA
1 AAATTGAAAA
91126597 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.66, C:0.05, G:0.13, T:0.16
Consensus pattern (14 bp):
AAATTGAAAAGCAA
Found at i:91126668 original size:14 final size:14
Alignment explanation
Indices: 91126645--91126695 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
91126635 ATATGAGTTG
91126645 ATTTGAAAAGCAGA
1 ATTTGAAAAGCAGA
*
91126659 ATTTGTAAAGCAGA
1 ATTTGAAAAGCAGA
* *
91126673 AATTGAAAAACAGA
1 ATTTGAAAAGCAGA
*
91126687 AATTGAAAA
1 ATTTGAAAA
91126696 TACCTCAGCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.55, C:0.06, G:0.18, T:0.22
Consensus pattern (14 bp):
ATTTGAAAAGCAGA
Found at i:91126766 original size:14 final size:14
Alignment explanation
Indices: 91126747--91126781 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
91126737 GAGTTAATTT
* *
91126747 TTGAAAAGCATAAA
1 TTGAAAAACAGAAA
91126761 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
91126775 TTGAAAA
1 TTGAAAA
91126782 TACGTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:91135322 original size:22 final size:21
Alignment explanation
Indices: 91135297--91135338 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
91135287 ATATTAAGAT
91135297 AAAACAATAAGTGATAATAATG
1 AAAACAATAAGT-ATAATAATG
* *
91135319 AAAAGAATAGGTATAATAAT
1 AAAACAATAAGTATAATAAT
91135339 AAATAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAAACAATAAGTATAATAATG
Found at i:91135443 original size:23 final size:26
Alignment explanation
Indices: 91135391--91135444 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
91135381 TGTATACAAG
* *
91135391 AATAATAAAATATATGTACTAATATT
1 AATAATAAAATATATGTACGAATATA
91135417 AATAAT-AAATATA-GTACGAATA-A
1 AATAATAAAATATATGTACGAATATA
91135440 AATAA
1 AATAA
91135445 ATGTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.19
24 8 0.31
25 7 0.27
26 6 0.23
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AATAATAAAATATATGTACGAATATA
Found at i:91135562 original size:26 final size:25
Alignment explanation
Indices: 91135487--91135613 Score: 81
Period size: 24 Copynumber: 5.2 Consensus size: 25
91135477 AAAAATATAC
* *
91135487 ATATACATATAATAGTATTTAAGAAT
1 ATATACATA-AATAGTATATAAAAAT
**
91135513 ATATACATAAGAT-G-ATATGGAAAT
1 ATATACATAA-ATAGTATATAAAAAT
*
91135537 ATGTACATAGAATAGTATATAAAAAT
1 ATATACATA-AATAGTATATAAAAAT
*
91135563 ATA-AC-T-AATAATAT-TGAAAATAT
1 ATATACATAAATAGTATAT-AAAA-AT
*
91135586 AGATACAT-AATA-TATATAAAACAT
1 ATATACATAAATAGTATATAAAA-AT
91135610 ATAT
1 ATAT
91135614 GATATATACA
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
21 1 0.01
22 11 0.14
23 4 0.05
24 31 0.39
25 12 0.15
26 21 0.26
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.33
Consensus pattern (25 bp):
ATATACATAAATAGTATATAAAAAT
Found at i:91135633 original size:21 final size:20
Alignment explanation
Indices: 91135595--91135642 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
91135585 TAGATACATA
* *
91135595 ATATATATAAAACATATATG
1 ATATATACAAAACATATACG
*
91135615 ATATATACATAAACGTATACG
1 ATATATACA-AAACATATACG
*
91135636 ACATATA
1 ATATATA
91135643 TATTAGAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
ATATATACAAAACATATACG
Found at i:91135940 original size:12 final size:13
Alignment explanation
Indices: 91135908--91135940 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
91135898 TGAAAAAAAG
91135908 TAATAATA-ATAA
1 TAATAATATATAA
91135920 TAATAATATA-AA
1 TAATAATATATAA
91135932 TAATAATAT
1 TAATAATAT
91135941 TGAGATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATATATAA
Found at i:91136045 original size:3 final size:3
Alignment explanation
Indices: 91136031--91136064 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
91136021 AAGTAAACAC
91136031 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
91136065 ATTAAAGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:91136648 original size:18 final size:19
Alignment explanation
Indices: 91136621--91136659 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
91136611 AAAGGTAAAA
91136621 TTTTTCCTTTTTTAT-TAT
1 TTTTTCCTTTTTTATATAT
*
91136639 TTTTTTCTTTTTTATATAT
1 TTTTTCCTTTTTTATATAT
91136658 TT
1 TT
91136660 ATTAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCCTTTTTTATATAT
Found at i:91140720 original size:17 final size:17
Alignment explanation
Indices: 91140694--91140732 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
91140684 CTCATAAAAG
*
91140694 TGGTTGTTTTTAATAAA
1 TGGTTATTTTTAATAAA
91140711 TGGTTATTTTTAATAAA
1 TGGTTATTTTTAATAAA
91140728 TGGTT
1 TGGTT
91140733 TGATTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (17 bp):
TGGTTATTTTTAATAAA
Found at i:91142142 original size:57 final size:54
Alignment explanation
Indices: 91142073--91142187 Score: 185
Period size: 57 Copynumber: 2.1 Consensus size: 54
91142063 AGGAATAAAC
*
91142073 TTTTCTCCATATGTCTAAATAGGTATAACTTGTTGAAAACTATAATAATATGATTCT
1 TTTTCTCCATATGTCTAAATAGGTATAACTTGTCGAAAAC--T-ATAATATGATTCT
*
91142130 TTTTCTCTATATGTCTAAATAGGTATAACTTGTCGAAAACTATAATATGATTCT
1 TTTTCTCCATATGTCTAAATAGGTATAACTTGTCGAAAACTATAATATGATTCT
91142184 TTTT
1 TTTT
91142188 ACGCCTATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
54 17 0.30
55 1 0.02
57 38 0.68
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (54 bp):
TTTTCTCCATATGTCTAAATAGGTATAACTTGTCGAAAACTATAATATGATTCT
Found at i:91143221 original size:80 final size:82
Alignment explanation
Indices: 91143110--91143268 Score: 191
Period size: 80 Copynumber: 2.0 Consensus size: 82
91143100 TTTAAAATTT
* * * * * *
91143110 TAATAATTTTTCTATAAGTTTCCTATATTTTTTTATAATTCTTAACAAAAATTGTAA-TATTTTA
1 TAATAATTTATCTAGAAGTTTCCTATATTTTTTAATAATTCTTAAAAAAAATTATAACT-TTTAA
91143174 ATAA-TTTTTATTAACAG
65 ATAACTTTTTATTAACAG
* *
91143191 TAATAATTTATCTAGAA-TTT-TTATAATTTTTTAATAATTTTTAAAAAAAATTATAACTTTTAA
1 TAATAATTTATCTAGAAGTTTCCTAT-ATTTTTTAATAATTCTTAAAAAAAATTATAACTTTTAA
*
91143254 ATAACTTTTTTTTAA
65 ATAACTTTTTATTAA
91143269 ATCCACATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
79 3 0.05
80 38 0.58
81 25 0.38
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.52
Consensus pattern (82 bp):
TAATAATTTATCTAGAAGTTTCCTATATTTTTTAATAATTCTTAAAAAAAATTATAACTTTTAAA
TAACTTTTTATTAACAG
Found at i:91147472 original size:21 final size:21
Alignment explanation
Indices: 91147446--91147486 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
91147436 ATCTGCTCAA
* *
91147446 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
91147467 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
91147487 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:91152292 original size:16 final size:17
Alignment explanation
Indices: 91152260--91152293 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
91152250 AATAAAATTT
91152260 TAAAATATTAATTTAATA
1 TAAAATATT-ATTTAATA
91152278 TAAAATATT-TTTAATA
1 TAAAATATTATTTAATA
91152294 CTATAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATATTATTTAATA
Found at i:91152752 original size:16 final size:17
Alignment explanation
Indices: 91152723--91152765 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
91152713 TAAACAATAA
91152723 TATATAATATACTACTAT
1 TATAT-ATATACTACTAT
*
91152741 TATATATA-ACTATTAT
1 TATATATATACTACTAT
91152757 TATA-ATATA
1 TATATATATA
91152766 GATTATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 12 0.52
17 3 0.13
18 5 0.22
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATATATACTACTAT
Found at i:91153391 original size:13 final size:13
Alignment explanation
Indices: 91153373--91153400 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
91153363 TTCATGTGTT
91153373 TATACATTATTGG
1 TATACATTATTGG
91153386 TATACATTATTGG
1 TATACATTATTGG
91153399 TA
1 TA
91153401 AAAGAAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (13 bp):
TATACATTATTGG
Found at i:91153721 original size:48 final size:48
Alignment explanation
Indices: 91153665--91153760 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
91153655 AAGGTGTAAG
91153665 GTGCAGATTCAAACAAGAAAGCCTACTATCTACCACATTGCGAGTTTA
1 GTGCAGATTCAAACAAGAAAGCCTACTATCTACCACATTGCGAGTTTA
*
91153713 GTGCAGATTCAAACAAGAAAGCCTACTATCTACCACATTGCGATTTTA
1 GTGCAGATTCAAACAAGAAAGCCTACTATCTACCACATTGCGAGTTTA
91153761 CATGTTAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (48 bp):
GTGCAGATTCAAACAAGAAAGCCTACTATCTACCACATTGCGAGTTTA
Found at i:91158070 original size:18 final size:18
Alignment explanation
Indices: 91158038--91158075 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
91158028 AATTTAAATA
91158038 AATGATAATTCTTTTTTT
1 AATGATAATTCTTTTTTT
91158056 AATG-TAATTCTTTTTTT
1 AATGATAATTCTTTTTTT
91158073 AAT
1 AAT
91158076 ATATTCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (18 bp):
AATGATAATTCTTTTTTT
Found at i:91158652 original size:16 final size:17
Alignment explanation
Indices: 91158623--91158665 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
91158613 TAAACAATAA
91158623 TATATAATATACTACTAT
1 TATAT-ATATACTACTAT
*
91158641 TATATATA-ACTATTAT
1 TATATATATACTACTAT
91158657 TATA-ATATA
1 TATATATATA
91158666 GATTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 12 0.52
17 3 0.13
18 5 0.22
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATATATACTACTAT
Found at i:91158933 original size:18 final size:17
Alignment explanation
Indices: 91158888--91158933 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
91158878 AAATAATACA
91158888 TTTTATCTTTTTATTAT
1 TTTTATCTTTTTATTAT
* * *
91158905 TTCTATTTTTTTTTCTAT
1 TTTTATCTTTTTAT-TAT
91158923 TTTTATCTTTT
1 TTTTATCTTTT
91158934 AGTAAGAGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATCTTTTTATTAT
Found at i:91165896 original size:26 final size:26
Alignment explanation
Indices: 91165858--91165993 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
91165848 CATGAAATTC
91165858 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
91165884 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91165910 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
91165936 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
91165962 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91165988 TTATCA
1 TTATCA
91165994 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91166696 original size:46 final size:47
Alignment explanation
Indices: 91166636--91166732 Score: 178
Period size: 46 Copynumber: 2.1 Consensus size: 47
91166626 TATAAGTGCC
*
91166636 TAAACTTTTTATTTTCAGTAGTGATTTTTATTGTTATACAATTATAG
1 TAAACTTTTTATTTTCAGTAGTGATTCTTATTGTTATACAATTATAG
91166683 TAAAC-TTTTATTTTCAGTAGTGATTCTTATTGTTATACAATTATAG
1 TAAACTTTTTATTTTCAGTAGTGATTCTTATTGTTATACAATTATAG
91166729 TAAA
1 TAAA
91166733 AACAATCCAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 44 0.90
47 5 0.10
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (47 bp):
TAAACTTTTTATTTTCAGTAGTGATTCTTATTGTTATACAATTATAG
Found at i:91167578 original size:16 final size:17
Alignment explanation
Indices: 91167549--91167586 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
91167539 AATAATATAC
91167549 AATAT-ACTACTATTAT
1 AATATAACTACTATTAT
*
91167565 -ATATAACTATTATTAT
1 AATATAACTACTATTAT
91167581 AATATA
1 AATATA
91167587 GATTATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 4 0.21
16 10 0.53
17 5 0.26
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAACTACTATTAT
Found at i:91167751 original size:33 final size:33
Alignment explanation
Indices: 91167712--91167777 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
91167702 AGGGATAATT
91167712 TTTTGAATCCATGGATTTGCTAGAGACCTGTAA
1 TTTTGAATCCATGGATTTGCTAGAGACCTGTAA
91167745 TTTTGAATCCATGGATTTGCTAGAGACCTGTAA
1 TTTTGAATCCATGGATTTGCTAGAGACCTGTAA
91167778 CGCCCCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36
Consensus pattern (33 bp):
TTTTGAATCCATGGATTTGCTAGAGACCTGTAA
Found at i:91168108 original size:32 final size:32
Alignment explanation
Indices: 91168072--91168136 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
91168062 TGTATGCATT
91168072 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
91168104 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
91168136 T
1 T
91168137 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:91170664 original size:12 final size:12
Alignment explanation
Indices: 91170647--91170677 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
91170637 ACTCGAGGAA
91170647 GAGGCCGTGATC
1 GAGGCCGTGATC
*
91170659 GAGGCCGTGGTC
1 GAGGCCGTGATC
91170671 GAGGCCG
1 GAGGCCG
91170678 AGGTAGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.26, G:0.48, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGATC
Found at i:91175557 original size:26 final size:26
Alignment explanation
Indices: 91175528--91175582 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
91175518 TGATACAAAT
91175528 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91175554 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91175580 TGA
1 TGA
91175583 CGGGCATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91178447 original size:26 final size:26
Alignment explanation
Indices: 91178418--91178473 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
91178408 TGATACAAAT
*
91178418 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91178444 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91178470 TGAT
1 TGAT
91178474 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91181395 original size:25 final size:25
Alignment explanation
Indices: 91181346--91181394 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
91181336 AATGTAAAAA
91181346 AAAAAGAATTTTACTTTTATCTTTT
1 AAAAAGAATTTTACTTTTATCTTTT
91181371 AAAAA-AATTTTACTTTTATCTTTT
1 AAAAAGAATTTTACTTTTATCTTTT
91181395 TTGGAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (25 bp):
AAAAAGAATTTTACTTTTATCTTTT
Found at i:91182535 original size:16 final size:17
Alignment explanation
Indices: 91182506--91182548 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
91182496 TAAACAATAA
91182506 TATATAATATACTACTAT
1 TATAT-ATATACTACTAT
*
91182524 TATATATA-ACTATTAT
1 TATATATATACTACTAT
91182540 TATA-ATATA
1 TATATATATA
91182549 GATTATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 12 0.52
17 3 0.13
18 5 0.22
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATATATACTACTAT
Found at i:91182721 original size:227 final size:231
Alignment explanation
Indices: 91182296--91182722 Score: 569
Period size: 227 Copynumber: 1.9 Consensus size: 231
91182286 TAATACATAA
*
91182296 ATAACTATTATTATAATATAGATTATAATAAAAGATATAATATTACATGATATTATAATGTTTAA
1 ATAACTATTATTATAATATAGATTATAATAAAAGATATAATATTACATGATATTATAACGTTTAA
* * * * *
91182361 TCATCGATGCATATATATAAATTATTATCAGATTATATATGTTATGATATAGCATTATATAATAT
66 TCATCGATGCATATATAT-AATTA-TAGCAGATTATATATGTTAGGACATAACATTATATAACAT
* * * ** * * *
91182426 AGTAAGAGGGTTAACTTTTAAATGTATGAAAAGTATAGAGACTTGGAGCATATTTCAACTAGTAT
129 AGGAAGAGGGATAACTTTTAAATATAAAAAAAATATAGAGACTTAGAGCATATTTCAACTAATAT
91182491 AATAATAAACAATAATATATAATATACTACTATTATAT
194 AATAATAAACAATAATATATAATATACTACTATTATAT
* *
91182529 ATAACTATTATTATAATATAGATTATAATAAAA-ATATAGTATTACATTATATTATAACGTTTAA
1 ATAACTATTATTATAATATAGATTATAATAAAAGATATAATATTACATGATATTATAACGTTTAA
* ** *
91182593 TTATTTATGCATATATAT-A-TA-AGC-TATTA-ATATGTGATAGGACATAACATTATATAACAT
66 TCATCGATGCATATATATAATTATAGCAGATTATATATGT--TAGGACATAACATTATATAACAT
* * *
91182653 AGGAGGAGGGATAATTTTTAAATATAAAAAAAATATAGGGACTTAGAGCATATTTCAACTAATAT
129 AGGAAGAGGGATAACTTTTAAATATAAAAAAAATATAGAGACTTAGAGCATATTTCAACTAATAT
91182718 AATAA
194 AATAA
91182723 ATAATAATAT
Statistics
Matches: 169, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
225 6 0.04
226 4 0.02
227 80 0.47
229 2 0.01
230 1 0.01
232 43 0.25
233 33 0.20
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (231 bp):
ATAACTATTATTATAATATAGATTATAATAAAAGATATAATATTACATGATATTATAACGTTTAA
TCATCGATGCATATATATAATTATAGCAGATTATATATGTTAGGACATAACATTATATAACATAG
GAAGAGGGATAACTTTTAAATATAAAAAAAATATAGAGACTTAGAGCATATTTCAACTAATATAA
TAATAAACAATAATATATAATATACTACTATTATAT
Found at i:91182773 original size:227 final size:231
Alignment explanation
Indices: 91182296--91182773 Score: 544
Period size: 227 Copynumber: 2.1 Consensus size: 231
91182286 TAATACATAA
* * *
91182296 ATAACTATTATTATAATATAGATTATAATAAAAGATATAATATTACATGATATTATAATGTTTAA
1 ATAACTACTACTATAATATAGATTATAATAAAAGATATAATATTACATGATATTATAACGTTTAA
* * * * *
91182361 TCATCGATGCATATATATAAATTATTATCAGATTATATATGTTATGATATAGCATTATATAATAT
66 TCATCGATGCATATATAT-AATTA-TAGCAGATTATATATGTTAGGACATAACATTATATAACAT
* * * ** * * *
91182426 AGTAAGAGGGTTAACTTTTAAATGTATGAAAAGTATAGAGACTTGGAGCATATTTCAACTAGTAT
129 AGGAAGAGGGATAACTTTTAAATATAAAAAAAATATAGAGACTTAGAGCATATTTCAACTAATAT
*
91182491 AATAATAAACAATAATATATAATATACTACTATTATAT
194 AATAATAAACAATAATATATAATATAATACTATTATAT
* * * *
91182529 ATAACTATTATTATAATATAGATTATAATAAAA-ATATAGTATTACATTATATTATAACGTTTAA
1 ATAACTACTACTATAATATAGATTATAATAAAAGATATAATATTACATGATATTATAACGTTTAA
* ** *
91182593 TTATTTATGCATATATAT-A-TA-AGC-TATTA-ATATGTGATAGGACATAACATTATATAACAT
66 TCATCGATGCATATATATAATTATAGCAGATTATATATGT--TAGGACATAACATTATATAACAT
* * *
91182653 AGGAGGAGGGATAATTTTTAAATATAAAAAAAATATAGGGACTTAGAGCATATTTCAACTAATAT
129 AGGAAGAGGGATAACTTTTAAATATAAAAAAAATATAGAGACTTAGAGCATATTTCAACTAATAT
*
91182718 AATAA-ATAATAATATATGATAGTAAT-TAATA-TATTATAT
194 AATAATA-AACAATA-AT-ATA-TAATATAATACTATTATAT
*
91182757 ATTACT-CTACTATAATA
1 ATAACTACTACTATAATA
91182774 ATATGTAATA
Statistics
Matches: 211, Mismatches: 28, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
225 6 0.03
226 5 0.02
227 95 0.45
228 15 0.07
229 9 0.04
230 5 0.02
232 43 0.20
233 33 0.16
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (231 bp):
ATAACTACTACTATAATATAGATTATAATAAAAGATATAATATTACATGATATTATAACGTTTAA
TCATCGATGCATATATATAATTATAGCAGATTATATATGTTAGGACATAACATTATATAACATAG
GAAGAGGGATAACTTTTAAATATAAAAAAAATATAGAGACTTAGAGCATATTTCAACTAATATAA
TAATAAACAATAATATATAATATAATACTATTATAT
Found at i:91182846 original size:16 final size:16
Alignment explanation
Indices: 91182812--91182860 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
91182802 ACAATTTATC
* *
91182812 TTTT-TATTATTTCTA
1 TTTTCTATTTTTTCTT
*
91182827 TTTTCTTTTTTTTCTT
1 TTTTCTATTTTTTCTT
91182843 TTTTCTATTTTTTCTT
1 TTTTCTATTTTTTCTT
91182859 TT
1 TT
91182861 AGTAAGAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 4 0.14
16 25 0.86
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTATTTTTTCTT
Found at i:91186138 original size:18 final size:20
Alignment explanation
Indices: 91186101--91186138 Score: 53
Period size: 18 Copynumber: 1.9 Consensus size: 20
91186091 AATTTTAATA
91186101 ATTTTTGTATAAGTTTCCTAT
1 ATTTTTGTATAAG-TTCCTAT
91186122 ATTTTT-TATAA-TTCCTA
1 ATTTTTGTATAAGTTCCTA
91186139 ACTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTTTGTATAAGTTCCTAT
Found at i:91186186 original size:11 final size:11
Alignment explanation
Indices: 91186172--91186205 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
91186162 TTATCTAGAA
*
91186172 TTTTCATAATT
1 TTTTAATAATT
91186183 TTTTAATAATT
1 TTTTAATAATT
*
91186194 TTTTAAAAATT
1 TTTTAATAATT
91186205 T
1 T
91186206 ATAACTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAATAATT
Found at i:91188186 original size:66 final size:66
Alignment explanation
Indices: 91188110--91188243 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
91188100 ATAGAATAAT
* *
91188110 AAAAATAATCATGCTAAGCAAATGGGAATATACCCAAAAGAAAACATAATAAACGCACTAATTAT
1 AAAAACAATCATGCTAAGCAAATGGGAATATACCCAAAAGAAAACATAATAAACGCACTAATCAT
91188175 A
66 A
*
91188176 AAAAACAATCATGCTAAGCAAATGGGAATATACCCAAAAGAAAACATAATAAATGCACTAATCAT
1 AAAAACAATCATGCTAAGCAAATGGGAATATACCCAAAAGAAAACATAATAAACGCACTAATCAT
91188241 A
66 A
91188242 AA
1 AA
91188244 TAAAACATTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.55, C:0.16, G:0.10, T:0.19
Consensus pattern (66 bp):
AAAAACAATCATGCTAAGCAAATGGGAATATACCCAAAAGAAAACATAATAAACGCACTAATCAT
A
Found at i:91188846 original size:21 final size:21
Alignment explanation
Indices: 91188803--91188846 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
91188793 AATGAACAAT
*
91188803 AAAAAATTTAATAAATATTCA
1 AAAAAATTTAATAAATATGCA
*
91188824 AAAAAATTT-ATACAATGTGCA
1 AAAAAATTTAATA-AATATGCA
91188845 AA
1 AA
91188847 TTTTAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAAAATTTAATAAATATGCA
Found at i:91194067 original size:18 final size:19
Alignment explanation
Indices: 91194040--91194078 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
91194030 TTCGTTTTTG
91194040 TTTCAAATTT-AGTCCATT
1 TTTCAAATTTAAGTCCATT
* *
91194058 TTTCAGATTTAAGTTCATT
1 TTTCAAATTTAAGTCCATT
91194077 TT
1 TT
91194079 CATATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTCAAATTTAAGTCCATT
Found at i:91194232 original size:21 final size:22
Alignment explanation
Indices: 91194199--91194265 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 22
91194189 TATGACGTAC
91194199 ATATTT-T-TAATATTA-TAAT
1 ATATTTATATAATATTATTAAT
91194218 ATATTTATATAATATTATTAAT
1 ATATTTATATAATATTATTAAT
* * *
91194240 AAATTTTATATTAATAATATTCAT
1 ATA-TTTATA-TAATATTATTAAT
91194264 AT
1 AT
91194266 TAGGTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 1 0.03
21 8 0.21
22 6 0.15
23 6 0.15
24 12 0.31
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATTTATATAATATTATTAAT
Found at i:91194254 original size:24 final size:23
Alignment explanation
Indices: 91194205--91194260 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
91194195 GTACATATTT
*
91194205 TTAATATTA-TAATATATTTATA
1 TTAATATTATTAATAAATTTATA
91194227 -TAATATTATTAATAAATTTTATA
1 TTAATATTATTAATAAA-TTTATA
*
91194250 TTAATAATATT
1 TTAATATTATT
91194261 CATATTAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 8 0.28
22 6 0.21
23 6 0.21
24 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATATTATTAATAAATTTATA
Done.