Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 353 of 378
Found at i:106028118 original size:34 final size:35
Alignment explanation
Indices: 106028074--106028177 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 35
106028064 ATGTTTTACA
106028074 ATTTTTTTTAAATTTTAAT-TATTATTTTCAAAATT
1 ATTTTTTTTAAATTTTAATATA-TATTTTCAAAATT
* *
106028109 A-TTTTTTT-AACTTTAGATATATATTTGT-GAAATT
1 ATTTTTTTTAAATTTTA-ATATATATTT-TCAAAATT
106028143 ATTTTTTTATAAATTTTAAATATATATTTTTCAAA
1 ATTTTTTT-TAAATTTT-AATATATA-TTTTCAAA
106028178 TTAGTCTTGA
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
33 6 0.11
34 20 0.36
35 10 0.18
36 1 0.02
37 13 0.23
38 6 0.11
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (35 bp):
ATTTTTTTTAAATTTTAATATATATTTTCAAAATT
Found at i:106028179 original size:37 final size:36
Alignment explanation
Indices: 106028074--106028180 Score: 123
Period size: 37 Copynumber: 3.0 Consensus size: 36
106028064 ATGTTTTACA
*
106028074 ATTTTTTTTAAATTTTAATTAT-TA-TTTTCAAAATT
1 ATTTTTTTTAAATTTTAAATATATATTTTTC-AAATT
* * * *
106028109 A-TTTTTTT-AACTTTAGATATATATTTGTGAAATT
1 ATTTTTTTTAAATTTTAAATATATATTTTTCAAATT
106028143 ATTTTTTTATAAATTTTAAATATATATTTTTCAAATT
1 ATTTTTTT-TAAATTTTAAATATATATTTTTCAAATT
106028180 A
1 A
106028181 GTCTTGAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
33 9 0.16
34 15 0.26
35 10 0.17
36 1 0.02
37 23 0.40
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (36 bp):
ATTTTTTTTAAATTTTAAATATATATTTTTCAAATT
Found at i:106028404 original size:7 final size:7
Alignment explanation
Indices: 106028376--106028437 Score: 58
Period size: 7 Copynumber: 9.1 Consensus size: 7
106028366 TGACTATTAA
106028376 TAAAT-T
1 TAAATAT
106028382 TAAATAT
1 TAAATAT
106028389 T-AATA-
1 TAAATAT
106028394 TAAATAT
1 TAAATAT
*
106028401 TAAAAAAT
1 T-AAATAT
106028409 TAAATAT
1 TAAATAT
** *
106028416 TATTTTT
1 TAAATAT
106028423 TAAATAT
1 TAAATAT
106028430 TAAATAT
1 TAAATAT
106028437 T
1 T
106028438 TTTTTTCTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
5 1 0.02
6 13 0.30
7 24 0.55
8 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATAT
Found at i:106028431 original size:21 final size:21
Alignment explanation
Indices: 106028380--106028443 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
106028370 TATTAATAAA
* * *
106028380 TTTAAATATT-AATATAAATA
1 TTTAAATATTAAATATTATTT
* *
106028400 TTAAAAAATTAAATATTATTT
1 TTTAAATATTAAATATTATTT
106028421 TTTAAATATTAAATATT-TTT
1 TTTAAATATTAAATATTATTT
106028441 TTT
1 TTT
106028444 CTTTTTTTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAAATATTAAATATTATTT
Found at i:106028472 original size:15 final size:16
Alignment explanation
Indices: 106028440--106028473 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
106028430 TAAATATTTT
106028440 TTTTCTTTTTTTATTG
1 TTTTCTTTTTTTATTG
*
106028456 TTTTGTTTTTTTA-TG
1 TTTTCTTTTTTTATTG
106028471 TTT
1 TTT
106028474 AATTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.06, C:0.03, G:0.09, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTTTTATTG
Found at i:106028617 original size:26 final size:26
Alignment explanation
Indices: 106028579--106028643 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
106028569 TTTAAATTTT
*
106028579 AAAT-ATAATTTTTAAATACATTTAAA
1 AAATCATAATTTTTAAATA-ATATAAA
* *
106028605 AAATCATAATTTTTTAATAATATAAG
1 AAATCATAATTTTTAAATAATATAAA
106028631 AAATCATAATTTT
1 AAATCATAATTTT
106028644 ATTTTGTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 22 0.63
27 13 0.37
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (26 bp):
AAATCATAATTTTTAAATAATATAAA
Found at i:106029973 original size:8 final size:8
Alignment explanation
Indices: 106029939--106029998 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
106029929 TAGTGATGTG
*
106029939 AATAATAA
1 AATATTAA
*
106029947 AGTATATAA
1 AATAT-TAA
106029956 AATA-TAA
1 AATATTAA
106029963 AATATTAA
1 AATATTAA
*
106029971 AATATCAA
1 AATATTAA
*
106029979 AATATCAA
1 AATATTAA
*
106029987 AATATTAG
1 AATATTAA
106029995 AATA
1 AATA
106029999 ATAATTAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
7 7 0.16
8 31 0.70
9 6 0.14
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:106029998 original size:24 final size:22
Alignment explanation
Indices: 106029950--106029998 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 22
106029940 ATAATAAAGT
106029950 ATATAAAATATAAAATATTAAA
1 ATATAAAATATAAAATATTAAA
*
106029972 ATATCAAAATATCAAAATATTAGA
1 ATAT-AAAATAT-AAAATATTAAA
106029996 ATA
1 ATA
106029999 ATAATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.17
23 7 0.29
24 13 0.54
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATAAAATATAAAATATTAAA
Found at i:106030211 original size:22 final size:24
Alignment explanation
Indices: 106030152--106030220 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 24
106030142 GTGATAATAT
* *
106030152 TAAAAATATGTACATAATATAGTG
1 TAAAAATATATACATAATATAATG
*
106030176 TAAAAAATACATACATAATATAAT-
1 T-AAAAATATATACATAATATAATG
*
106030200 T-AAAATATATACATAAGATAA
1 TAAAAATATATACATAATATAA
106030221 CATGTAGGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 18 0.46
24 2 0.05
25 19 0.49
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (24 bp):
TAAAAATATATACATAATATAATG
Found at i:106030360 original size:23 final size:25
Alignment explanation
Indices: 106030317--106030362 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
106030307 TATACCTAAT
106030317 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
106030342 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
106030363 ACAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:106030686 original size:16 final size:16
Alignment explanation
Indices: 106030648--106030686 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
106030638 CCAAAAAAAA
*
106030648 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
106030664 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
106030680 AATAACT
1 AAAAACT
106030687 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:106030885 original size:30 final size:30
Alignment explanation
Indices: 106030844--106030942 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
106030834 TAGGTACAAG
106030844 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
106030874 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
106030904 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
106030934 TGGTGGTGG
1 TGGTGGTGG
106030943 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:106031873 original size:96 final size:93
Alignment explanation
Indices: 106031718--106032164 Score: 358
Period size: 92 Copynumber: 4.9 Consensus size: 93
106031708 ACAGATTTTA
* * *
106031718 AAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG-CA
1 AAAATACCTCGGTGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACA
106031781 AAGCATAAATTGAAAAAAAAAAACCATCAATTG
66 AA-CATAAATTG-AAAAAAAAAA-CA--AATTG
106031814 AAAATACCTCGGTGTGTGACCTGAGGCTCAACTCACCT-TCGCAATATGAGTTGATTTTTTTGAC
1 AAAATACCTCGGTGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAC
*
106031878 AAACATAAATTGAAAAAAAAAAGAAATTG
65 AAACATAAATTGAAAAAAAAAACAAATTG
** * * *
106031907 AAAATATTTCAGCGTGT--CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGA
1 AAAATACCTCGGTGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-GA
* * * *
106031970 AAAACA-AAATTTG---AAAAACAGAATTTG
64 CAAACATAAA-TTGAAAAAAAAAACAAATTG
* * * * * *
106031997 AAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTG-
1 AAAATACCTCGGTGTGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA
* * * *
106032060 -AAACATAGAAATTG---AAGAACAGAAATGG
64 CAAACAT--AAATTGAAAAAAAAAACAAATTG
* * * * *
106032088 AAAACACCTC--AGTGT--CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-
1 AAAATACCTCGGTGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAC
*
106032148 AAGACAGAAATTGAAAA
65 AA-ACATAAATTGAAAA
106032165 TACCTCAATG
Statistics
Matches: 304, Mismatches: 29, Indels: 42
0.81 0.08 0.11
Matches are distributed among these distances:
87 44 0.14
88 3 0.01
89 12 0.04
90 28 0.09
91 43 0.14
92 65 0.21
93 28 0.09
95 16 0.05
96 46 0.15
97 15 0.05
98 4 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (93 bp):
AAAATACCTCGGTGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACA
AACATAAATTGAAAAAAAAAACAAATTG
Found at i:106031964 original size:91 final size:92
Alignment explanation
Indices: 106031617--106032164 Score: 431
Period size: 87 Copynumber: 6.0 Consensus size: 92
106031607 ACTAGACATT
* * * * * *
106031617 AAAAACAGAAATTGAAAATAGCTTAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAAAAGAAATTGAAAATACCTCAG--CGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGA
106031681 GTTGA--TTTTT-AAAACA-AAATTTG---
64 GTTGATTTTTTTGAAAACATAAA-TTGAAA
* * ** * * ** * *
106031704 TAAAACAGATTTTAAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
106031769 TTGA--TTTTTGCAAAGCATAAATTGAAAA
65 TTGATTTTTTTG-AAAACATAAATTG-AAA
* * *
106031797 AAAAAAACCATCAATTGAAAATACCTCGGTGTGTGACCTGAGGCTCAACTCACCT-TCGCAATAT
1 AAAAAAA-GA--AATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATAT
106031861 GAGTTGATTTTTTTGACAAACATAAATTGAAA
62 GAGTTGATTTTTTTGA-AAACATAAATTGAAA
** *
106031893 AAAAAAAGAAATTGAAAATATTTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAGT
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
106031957 TGATTTTTTTGGAAAAACA-AAATTTG---
66 TGATTTTTTT-G-AAAACATAAA-TTGAAA
* * ** * *
106031983 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAG
*
106032048 CTGATTTTTTTG-AAACATAGAAATTG---
65 TTGATTTTTTTGAAAACAT--AAATTGAAA
* * * * * * *
106032074 AAGAACAGAAATGGAAAACACCTCA--GTGT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
106032136 TGATTTTTTTGAAAGACAGAAATTGAAA
66 TGATTTTTTTGAAA-ACATAAATTGAAA
106032164 A
1 A
106032165 TACCTCAATG
Statistics
Matches: 382, Mismatches: 50, Indels: 55
0.78 0.10 0.11
Matches are distributed among these distances:
85 3 0.01
86 2 0.01
87 98 0.26
88 3 0.01
89 20 0.05
90 31 0.08
91 44 0.12
92 65 0.17
93 32 0.08
94 2 0.01
95 16 0.04
96 49 0.13
97 17 0.04
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (92 bp):
AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAACATAAATTGAAA
Found at i:106032000 original size:13 final size:14
Alignment explanation
Indices: 106031968--106032000 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
106031958 GATTTTTTTG
106031968 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
106031982 GAAAAACAGAATTT
1 GAAAAACAAAATTT
106031996 GAAAA
1 GAAAA
106032001 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:106032218 original size:73 final size:73
Alignment explanation
Indices: 106032077--106032510 Score: 581
Period size: 73 Copynumber: 5.9 Consensus size: 73
106032067 GAAATTGAAG
* * * * *
106032077 AACAGAAATGGAAAACACCTC-A-GTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
106032140 TTTTTTGA-A
65 -TTTTTGACA
* *
106032149 AGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
106032214 TTTTTGACA
65 TTTTTGACA
* * *
106032223 AACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
106032286 TTTTGACA
66 TTTTGACA
* * * *
106032294 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
106032359 TTTTTTGAAA
65 -TTTTTGACA
* * * *
106032369 AACAGAAATTGAAAATACCTTAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAG
1 AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
106032434 TTTTGACA
66 TTTTGACA
* * * *
106032442 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
106032507 TTTT
66 TTTT
106032511 TTAGAAACAT
Statistics
Matches: 323, Mismatches: 31, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
71 68 0.21
72 2 0.01
73 147 0.46
74 3 0.01
75 103 0.32
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (73 bp):
AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGACA
Found at i:106032452 original size:148 final size:146
Alignment explanation
Indices: 106032071--106032530 Score: 649
Period size: 148 Copynumber: 3.1 Consensus size: 146
106032061 AACATAGAAA
* * * *
106032071 TTGAAGAACAGAAATGGAAAACACCTCAGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 TTGAAAAACAGAAATTGAAAATACCTCAGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGT
* * ** *
106032136 TGATTTTTTTGA-AAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTC
66 TGA--TTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
106032200 GCAATATGAGTTGA--TTT
128 GCAATATGAGTTGATTTTT
* * * *
106032217 TTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAAACAGAAATTGAAAATACCTCAGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGT
*
106032282 TGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCA
66 TGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
106032347 ATATGAGTTGATTTTT
131 ATATGAGTTGATTTTT
* * *
106032363 TTGAAAAACAGAAATTGAAAATACCTTAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACC-TCA-GTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* *
106032428 GTTGAGTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCG
64 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
106032493 CAATATGAGTTGATTTTT
129 CAATATGAGTTGATTTTT
* * *
106032511 TT-AGAAACATAAATTAAAAA
1 TTGAAAAACAGAAATTGAAAA
106032531 ACAAAAATTG
Statistics
Matches: 282, Mismatches: 27, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
144 64 0.23
145 2 0.01
146 85 0.30
147 17 0.06
148 114 0.40
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (146 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTT
Found at i:106032733 original size:14 final size:13
Alignment explanation
Indices: 106032698--106032742 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
106032688 TTGATTTTTG
106032698 AAAAACAGAAATT
1 AAAAACAGAAATT
*
106032711 AAAAGCAGAAATT
1 AAAAACAGAAATT
106032724 GAAAAACAGAAATT
1 -AAAAACAGAAATT
106032738 AAAAA
1 AAAAA
106032743 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:106032754 original size:100 final size:100
Alignment explanation
Indices: 106032521--106032830 Score: 403
Period size: 100 Copynumber: 3.1 Consensus size: 100
106032511 TTAGAAACAT
* * * * * *
106032521 AAATTAAAAAACAAAAATTGAAAACACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAGTCACCTCTCGCAATA
* * *
106032586 TGAGTTGA--TTTGAAAAGCAGAATTTGTAAGGCA
66 TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCA
* *
106032619 AAAATGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAGTCACCTCTCACAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAGTCACCTCTCGCAATA
*
106032684 TGAGTTGATTTTTGAAAAACAGAAATT-AAAAGCA
66 TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCA
* * *
106032718 GAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTC-AGCTCACCTCTCGCAA
1 -AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAG-TCACCTCTCGCAA
* *
106032782 TATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACGA
64 TATGAGTTGATTTTTGAAAAGCAGAAATTG-AAAAGC-A
106032821 AAATTGAAAA
1 AAATTGAAAA
106032831 TACCTCAGCG
Statistics
Matches: 185, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
98 65 0.35
99 7 0.04
100 97 0.52
102 15 0.08
103 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (100 bp):
AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAGTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCA
Found at i:106032879 original size:90 final size:87
Alignment explanation
Indices: 106032711--106032886 Score: 237
Period size: 90 Copynumber: 2.0 Consensus size: 87
106032701 AACAGAAATT
* * *
106032711 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
*
106032776 TCGCAATATGAGTTGATTTTTG
66 TCGCAAAATGAGTTGATTTTTG
* * * *
106032798 AAAAGCATAAATTGAAAAA-ACGAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCA
1 AAAAGCAGAAATTGAAAAACA-G-AAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCA
106032862 CCTCTCGCAAAATGAGTTGATTTTT
62 CCTCTCGCAAAATGAGTTGATTTTT
106032887 TTGAAAGATA
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
86 1 0.01
87 19 0.25
88 15 0.19
89 1 0.01
90 41 0.53
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAAAATGAGTTGATTTTTG
Found at i:106038441 original size:20 final size:21
Alignment explanation
Indices: 106038416--106038464 Score: 91
Period size: 20 Copynumber: 2.4 Consensus size: 21
106038406 TGAAAAAAAG
106038416 TTTGAAATTTGACATTTGA-T
1 TTTGAAATTTGACATTTGATT
106038436 TTTGAAATTTGACATTTGATT
1 TTTGAAATTTGACATTTGATT
106038457 TTTGAAAT
1 TTTGAAAT
106038465 AAACAGGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (21 bp):
TTTGAAATTTGACATTTGATT
Found at i:106039314 original size:21 final size:20
Alignment explanation
Indices: 106039290--106039328 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
106039280 TATTGAAACT
*
106039290 AAAACTAATACTAATAATAGC
1 AAAACTAATA-AAATAATAGC
106039311 AAAACTAATAAAATAATA
1 AAAACTAATAAAATAATA
106039329 TAGTACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAACTAATAAAATAATAGC
Found at i:106039399 original size:24 final size:24
Alignment explanation
Indices: 106039357--106039419 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
106039347 CTAAAAACAC
* * *
106039357 TATAATATGAATATGTACAT-ATAA
1 TATAATATTAAAATATACATAAT-A
106039381 TATAATATTAAAATATACATAATA
1 TATAATATTAAAATATACATAATA
106039405 TATACATATATAAAA
1 TATA-ATAT-TAAAA
106039420 CATGTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 22 0.67
25 6 0.18
26 5 0.15
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (24 bp):
TATAATATTAAAATATACATAATA
Found at i:106039871 original size:3 final size:3
Alignment explanation
Indices: 106039863--106039922 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
106039853 ACATTAGAAG
106039863 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
106039911 TAA TAA TAA TAA
1 TAA TAA TAA TAA
106039923 AAATTAAAGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:106040581 original size:12 final size:12
Alignment explanation
Indices: 106040546--106040583 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
106040536 ATGTATATAT
106040546 AAAGAAAGAAAA
1 AAAGAAAGAAAA
*
106040558 AAACAACA-AAAA
1 AAAGAA-AGAAAA
106040570 AAAGAAAGAAAA
1 AAAGAAAGAAAA
106040582 AA
1 AA
106040584 GATTCGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 1 0.05
12 20 0.91
13 1 0.05
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:106044491 original size:8 final size:8
Alignment explanation
Indices: 106044457--106044508 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
106044447 TAGTGATGTG
*
106044457 AATAATAA
1 AATATTAA
*
106044465 AGTATATAA
1 AATAT-TAA
106044474 AATA-TAA
1 AATATTAA
106044481 AATATTAA
1 AATATTAA
*
106044489 AATATCAA
1 AATATTAA
*
106044497 AATATTAG
1 AATATTAA
106044505 AATA
1 AATA
106044509 ATAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 23 0.64
9 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:106044498 original size:16 final size:15
Alignment explanation
Indices: 106044461--106044508 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
106044451 GATGTGAATA
*
106044461 ATAAAGTATATAAAAT
1 ATAAAATAT-TAAAAT
106044477 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
106044492 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
106044508 A
1 A
106044509 ATAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:106044699 original size:25 final size:25
Alignment explanation
Indices: 106044662--106044807 Score: 93
Period size: 25 Copynumber: 5.8 Consensus size: 25
106044652 TGATAATATT
*
106044662 AAAAATATGTACATAATATAGTGTA
1 AAAAATATATACATAATATAGTGTA
* *
106044687 AAAAATACATACATAATATAAT-T-
1 AAAAATATATACATAATATAGTGTA
* *
106044710 -AAAATATATACATAAGATAACATGTA
1 AAAAATATATACATAATAT-A-GTGTA
* * * *
106044736 GGAAAAAAATATAAATAATATAGTATT
1 --AAAAATATATACATAATATAGTGTA
* * *
106044763 AAAGATATATACATAAAATAGTAT-
1 AAAAATATATACATAATATAGTGTA
* * *
106044787 ATATATATATACGTAATATAG
1 AAAAATATATACATAATATAG
106044808 AATTTAGAAT
Statistics
Matches: 95, Mismatches: 19, Indels: 15
0.74 0.15 0.12
Matches are distributed among these distances:
22 16 0.17
23 1 0.01
24 20 0.21
25 40 0.42
27 2 0.02
28 1 0.01
29 15 0.16
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (25 bp):
AAAAATATATACATAATATAGTGTA
Found at i:106044720 original size:22 final size:22
Alignment explanation
Indices: 106044663--106044853 Score: 71
Period size: 25 Copynumber: 8.0 Consensus size: 22
106044653 GATAATATTA
* *
106044663 AAAATATGTACATAATATAGTGT
1 AAAATATATACATAATATAAT-T
*
106044686 AAAAAATACATACATAATATAATT
1 --AAAATATATACATAATATAATT
*
106044710 AAAATATATACATAAGATAACATGT
1 AAAATATATACATAATAT-A-AT-T
* *
106044735 AGGAAAAAAATATAAATAATATAGTATT
1 ----AAAATATATACATAATATA--ATT
* *
106044763 AAAGATATATACATAAAATAGTAT
1 AAA-ATATATACATAATATAAT-T
* *
106044787 ATATATATATACGTAATATAGAATT
1 A-AAATATATACATAATAT--AATT
* * *
106044812 TAGA-ATATACCTAATAT-ATT
1 AAAATATATACATAATATAATT
* *
106044832 AAAAGAATATATATAATATAAT
1 AAAA-TATATACATAATATAAT
106044854 ATTAAGAAAT
Statistics
Matches: 126, Mismatches: 24, Indels: 34
0.68 0.13 0.18
Matches are distributed among these distances:
20 5 0.04
22 27 0.21
23 16 0.13
24 23 0.18
25 34 0.27
26 2 0.02
28 2 0.02
29 17 0.13
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAATATATACATAATATAATT
Found at i:106050610 original size:34 final size:33
Alignment explanation
Indices: 106050570--106050692 Score: 133
Period size: 34 Copynumber: 3.6 Consensus size: 33
106050560 TATGGTTAAT
106050570 ATTTAAAAA-ATAATATTTAAAATTAAAAAAATTA
1 ATTTAAAAATAT-ATATTTAAAATTAAAAAAA-TA
*
106050604 ATTTAAAAATATACATTTAAAATTTATAAAAAATA
1 ATTTAAAAATATATATTTAAAA-TTA-AAAAAATA
* **
106050639 ATTTCAAAAATATATATCTAAAATTTTAAAAATA
1 ATTT-AAAAATATATATTTAAAATTAAAAAAATA
* *
106050673 ATCTAATAATA-ATATTTAAA
1 ATTTAAAAATATATATTTAAA
106050693 TTTTTAAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
32 8 0.10
33 6 0.08
34 28 0.36
35 13 0.17
36 22 0.29
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (33 bp):
ATTTAAAAATATATATTTAAAATTAAAAAAATA
Found at i:106050612 original size:21 final size:21
Alignment explanation
Indices: 106050574--106050613 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
106050564 GTTAATATTT
*
106050574 AAAAAATAATATTTAAAATTA
1 AAAAAATAATATTAAAAATTA
106050595 AAAAAATTAAT-TTAAAAAT
1 AAAAAA-TAATATTAAAAAT
106050614 ATACATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATAATATTAAAAATTA
Found at i:106050627 original size:21 final size:22
Alignment explanation
Indices: 106050603--106050647 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
106050593 TAAAAAAATT
*
106050603 AATTTA-AAAATATACATTT-AA
1 AATTTATAAAAAATA-ATTTCAA
106050624 AATTTATAAAAAATAATTTCAA
1 AATTTATAAAAAATAATTTCAA
106050646 AA
1 AA
106050648 ATATATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTTATAAAAAATAATTTCAA
Found at i:106050649 original size:69 final size:67
Alignment explanation
Indices: 106050570--106050705 Score: 166
Period size: 69 Copynumber: 2.0 Consensus size: 67
106050560 TATGGTTAAT
* *
106050570 ATTTAAAAAATA-ATATTTAAAATTAAAAAAATTAATTTAAAAATATACATTTAAAATTTATAAA
1 ATTTAAAAAATATATATCTAAAATTAAAAAAA-TAATCTAAAAATA-ACATTT-AAATTTATAAA
106050634 AAATA
63 AAATA
* ** * * *
106050639 ATTTCAAAAATATATATCTAAAATTTTAAAAATAATCTAATAATAATATTTAAATTTTTAAAAAA
1 ATTTAAAAAATATATATCTAAAATTAAAAAAATAATCTAAAAATAACATTTAAATTTATAAAAAA
106050704 TA
66 TA
106050706 TATATTATAG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
67 15 0.26
68 5 0.09
69 22 0.38
70 16 0.28
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (67 bp):
ATTTAAAAAATATATATCTAAAATTAAAAAAATAATCTAAAAATAACATTTAAATTTATAAAAAA
TA
Found at i:106050949 original size:36 final size:35
Alignment explanation
Indices: 106050903--106051011 Score: 100
Period size: 34 Copynumber: 3.1 Consensus size: 35
106050893 TAATAATTTC
* *
106050903 AAAACTAATTTGAAAAATATACATTTAAAATTTATA
1 AAAAATAATTTCAAAAATATA-ATTTAAAATTTATA
* * *
106050939 AAAAATAATTTCACAAATATATATCT-AAAGTTA-A
1 AAAAATAATTTCAAAAATATA-ATTTAAAATTTATA
* *
106050973 AAAAATAATTTTAAAAATAATAA-TTACAATTT-TA
1 AAAAATAATTTCAAAAAT-ATAATTTAAAATTTATA
106051007 AAAAA
1 AAAAA
106051012 ATATTGTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
33 1 0.02
34 28 0.47
35 9 0.15
36 21 0.36
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.34
Consensus pattern (35 bp):
AAAAATAATTTCAAAAATATAATTTAAAATTTATA
Found at i:106050991 original size:34 final size:36
Alignment explanation
Indices: 106050903--106050991 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
106050893 TAATAATTTC
* * * *
106050903 AAAACTAATTTGAAAAATATACATTTAAAATTTATA
1 AAAAATAATTTCAAAAATATACATCTAAAAGTTATA
* *
106050939 AAAAATAATTTCACAAATATATATCT-AAAGTTA-A
1 AAAAATAATTTCAAAAATATACATCTAAAAGTTATA
*
106050973 AAAAATAATTTTAAAAATA
1 AAAAATAATTTCAAAAATA
106050992 ATAATTACAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
34 18 0.40
35 6 0.13
36 21 0.47
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (36 bp):
AAAAATAATTTCAAAAATATACATCTAAAAGTTATA
Found at i:106051094 original size:13 final size:13
Alignment explanation
Indices: 106051078--106051131 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
106051068 TTAAATACAC
106051078 AAAATAAAATAAG
1 AAAATAAAATAAG
*
106051091 AAAATAATATAA-
1 AAAATAAAATAAG
**
106051103 AACCTAAAA-AAG
1 AAAATAAAATAAG
106051115 AAAA-AAAATTAAG
1 AAAATAAAA-TAAG
106051128 AAAA
1 AAAA
106051132 AGACAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
11 6 0.19
12 8 0.25
13 18 0.56
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAATAAAATAAG
Found at i:106051131 original size:19 final size:18
Alignment explanation
Indices: 106051108--106051171 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
106051098 TATAAAACCT
106051108 AAAAAAGAAAAAAAATTA
1 AAAAAAGAAAAAAAATTA
* *
106051126 AGAAAAAG-ACAAAATTTAA
1 A-AAAAAGAAAAAAAATT-A
*
106051145 TAAAAAAGTAAAAAAAAATA
1 -AAAAAAG-AAAAAAAATTA
106051165 AAAAAAG
1 AAAAAAG
106051172 GGTGGCAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
18 8 0.22
19 20 0.56
20 2 0.06
21 6 0.17
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (18 bp):
AAAAAAGAAAAAAAATTA
Found at i:106051282 original size:21 final size:19
Alignment explanation
Indices: 106051252--106051299 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
106051242 CAAACTTTTC
106051252 AAAAATTAAAAAAAAAGTTA
1 AAAAATTAAAAAAAAA-TTA
*
106051272 AAAAATGTAAAAAGAAATTA
1 AAAAAT-TAAAAAAAAATTA
106051292 AAGAAATT
1 AA-AAATT
106051300 GTATTTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (19 bp):
AAAAATTAAAAAAAAATTA
Found at i:106051370 original size:14 final size:14
Alignment explanation
Indices: 106051351--106051377 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106051341 AAAAATATGG
106051351 TTAATATTTAAAAA
1 TTAATATTTAAAAA
106051365 TTAATATTTAAAA
1 TTAATATTTAAAA
106051378 TTTTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:106051401 original size:36 final size:33
Alignment explanation
Indices: 106051356--106051491 Score: 105
Period size: 36 Copynumber: 3.9 Consensus size: 33
106051346 TATGGTTAAT
106051356 ATTTAAAAATTAATATTTAAAATTTTAAAAAATTA
1 ATTTAAAAA-TAATATTTAAAA-TTTAAAAAATTA
* *
106051391 ATTTGAAAAATAAATTTTTAAAATATATAAAAATTA
1 ATTT-AAAAAT-AATATTTAAAATTTA-AAAAATTA
* * *
106051427 ATTTCACAAATATATATCT-AAAGTTAAAAAA-TA
1 ATTT-AAAAATA-ATATTTAAAATTTAAAAAATTA
* * *
106051460 TTTTTAAAAATAACAATTAAAATTTTAAAAAA
1 -ATTTAAAAATAATATTTAAAA-TTTAAAAAA
106051492 GTATTATAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
32 3 0.04
33 11 0.14
34 16 0.20
35 14 0.17
36 36 0.45
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (33 bp):
ATTTAAAAATAATATTTAAAATTTAAAAAATTA
Found at i:106051592 original size:10 final size:9
Alignment explanation
Indices: 106051537--106051599 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
106051527 TTTTAAAGTT
106051537 AATAATAAAA
1 AATAA-AAAA
106051547 AATAAAACAA
1 AATAAAA-AA
*
106051557 AATAAACAA
1 AATAAAAAA
* *
106051566 AAT-GAAAT
1 AATAAAAAA
*
106051574 AAGAAAAAA
1 AATAAAAAA
*
106051583 ATTAAAAAA
1 AATAAAAAA
106051592 AATAAAAA
1 AATAAAAA
106051600 GATACAATTT
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
8 4 0.10
9 24 0.59
10 13 0.32
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.14
Consensus pattern (9 bp):
AATAAAAAA
Found at i:106051646 original size:22 final size:23
Alignment explanation
Indices: 106051621--106051676 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
106051611 TTAAGGAACA
106051621 AAATA-AAAAAGTAAAA-AAAAAG
1 AAATATAAAAA-TAAAAGAAAAAG
*
106051643 AAATATGAAAATAAAAGAAAAAG
1 AAATATAAAAATAAAAGAAAAAG
*
106051666 AAA-ACAAAAAT
1 AAATATAAAAAT
106051677 GTGTCAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.11
Consensus pattern (23 bp):
AAATATAAAAATAAAAGAAAAAG
Found at i:106051653 original size:17 final size:16
Alignment explanation
Indices: 106051626--106051675 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
106051616 GAACAAAATA
106051626 AAAAAGTAAAAAAAAAG
1 AAAAAG-AAAAAAAAAG
* *
106051643 AAATATGAAAATAAAAG
1 AAA-AAGAAAAAAAAAG
106051660 AAAAAGAAAACAAAAA
1 AAAAAGAAAA-AAAAA
106051676 TGTGTCAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 6 0.22
17 19 0.70
18 2 0.07
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:106054933 original size:21 final size:21
Alignment explanation
Indices: 106054886--106054947 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
106054876 GTTAAAAATA
* *
106054886 ACTGTAACGATAAGATTAGTT
1 ACTGTAGCGATAAGATTAGAT
*
106054907 ATTGTAGCGATAAGATT-GAAT
1 ACTGTAGCGATAAGATTAG-AT
106054928 ACTGTAGC-AGTAAGATTAGA
1 ACTGTAGCGA-TAAGATTAGA
106054948 AATGGCAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.06
21 31 0.91
22 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.31
Consensus pattern (21 bp):
ACTGTAGCGATAAGATTAGAT
Found at i:106066856 original size:20 final size:22
Alignment explanation
Indices: 106066823--106066867 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
106066813 AAAGTAAATA
**
106066823 AAACAAAGGTTAAAA-AAA-AG
1 AAACAAAGCATAAAAGAAACAG
106066843 AAACAAAGCATAAAAGAAACAG
1 AAACAAAGCATAAAAGAAACAG
106066865 AAA
1 AAA
106066868 GCTCAAGCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 3 0.14
22 5 0.24
ACGTcount: A:0.71, C:0.09, G:0.13, T:0.07
Consensus pattern (22 bp):
AAACAAAGCATAAAAGAAACAG
Found at i:106067912 original size:27 final size:27
Alignment explanation
Indices: 106067838--106067916 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
106067828 TTTAATGCCT
*
106067838 TTCTGGTGTGTTTGGAAAGATTATTTA
1 TTCTGGTGTGTTTGGAAGGATTATTTA
*
106067865 TTCTGATGTGTTTGGAAGGATTATTTA
1 TTCTGGTGTGTTTGGAAGGATTATTTA
**
106067892 TTCTGGTGTGTTTGGTTGGATTATT
1 TTCTGGTGTGTTTGGAAGGATTATT
106067917 CTGGTGTGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.18, C:0.04, G:0.28, T:0.51
Consensus pattern (27 bp):
TTCTGGTGTGTTTGGAAGGATTATTTA
Found at i:106067915 original size:23 final size:23
Alignment explanation
Indices: 106067889--106067934 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
106067879 GAAGGATTAT
106067889 TTATTCTGGTGTGTTTGGTTGGA
1 TTATTCTGGTGTGTTTGGTTGGA
*
106067912 TTATTCTGGTGTGTTTTGTTGGA
1 TTATTCTGGTGTGTTTGGTTGGA
106067935 ATCTGTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.09, C:0.04, G:0.33, T:0.54
Consensus pattern (23 bp):
TTATTCTGGTGTGTTTGGTTGGA
Found at i:106068768 original size:18 final size:18
Alignment explanation
Indices: 106068736--106068770 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
106068726 TAATGAATGC
106068736 ATTATATTATAAATGTTA
1 ATTATATTATAAATGTTA
106068754 ATTA-ATTATATAATGTT
1 ATTATATTATA-AATGTT
106068771 TGTAAGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
ATTATATTATAAATGTTA
Found at i:106073915 original size:9 final size:9
Alignment explanation
Indices: 106073901--106073945 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
106073891 TTTCTTAGAT
106073901 TATATATTA
1 TATATATTA
106073910 TATATATTA
1 TATATATTA
106073919 TATATAATTA
1 TATAT-ATTA
106073929 T-TATTATTA
1 TATA-TATTA
106073938 -ATA-ATTA
1 TATATATTA
106073945 T
1 T
106073946 TATTATGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
7 4 0.12
9 22 0.69
10 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATATATTA
Found at i:106073920 original size:16 final size:14
Alignment explanation
Indices: 106073899--106073950 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 14
106073889 TTTTTCTTAG
106073899 ATTATATATTATATAT
1 ATTAT-TATTA-ATAT
106073915 ATTA-TATATAAT-T
1 ATTATTAT-TAATAT
106073928 ATTATTATTAATA-
1 ATTATTATTAATAT
106073941 ATTATTATTA
1 ATTATTATTA
106073951 TGGTTTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 19 0.58
14 8 0.24
15 2 0.06
16 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTATTATTAATAT
Found at i:106073992 original size:27 final size:24
Alignment explanation
Indices: 106073940--106073990 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 24
106073930 TATTATTAAT
*
106073940 AATTATTATTATGGTTTTATATTA
1 AATTATTATTATGGTTTTAAATTA
*
106073964 AATTATTATTAT--TGTTAAATTA
1 AATTATTATTATGGTTTTAAATTA
106073986 AATTA
1 AATTA
106073991 AAATAGTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.52
24 12 0.48
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (24 bp):
AATTATTATTATGGTTTTAAATTA
Found at i:106075337 original size:27 final size:27
Alignment explanation
Indices: 106075299--106075350 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
106075289 TTTAATGCCT
106075299 TTCTGGTGTGTTTGGGAGGATTATTTA
1 TTCTGGTGTGTTTGGGAGGATTATTTA
**
106075326 TTCTGGTGTGTTTGGTTGGATTATT
1 TTCTGGTGTGTTTGGGAGGATTATT
106075351 CTGGTGTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.12, C:0.04, G:0.33, T:0.52
Consensus pattern (27 bp):
TTCTGGTGTGTTTGGGAGGATTATTTA
Found at i:106075349 original size:23 final size:23
Alignment explanation
Indices: 106075323--106075368 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
106075313 GGAGGATTAT
106075323 TTATTCTGGTGTGTTTGGTTGGA
1 TTATTCTGGTGTGTTTGGTTGGA
106075346 TTATTCTGGTGTGTTTGGTTGGA
1 TTATTCTGGTGTGTTTGGTTGGA
106075369 ATCTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.04, G:0.35, T:0.52
Consensus pattern (23 bp):
TTATTCTGGTGTGTTTGGTTGGA
Found at i:106079646 original size:54 final size:55
Alignment explanation
Indices: 106079546--106079651 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 55
106079536 GCCCCGAGGC
* *
106079546 TCAACTCACCTCTAGCAACATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTAGCAACATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * * *
106079600 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTAGCAACATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
106079652 CAGAAATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
54 32 0.74
55 11 0.26
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (55 bp):
TCAACCCACCTCTAGCAACATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:106079658 original size:13 final size:13
Alignment explanation
Indices: 106079631--106079664 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
106079621 GAGTTGATTC
*
106079631 TTGAACAACATAAA
1 TTGAA-AACAGAAA
106079645 TTGAAAACAGAAA
1 TTGAAAACAGAAA
106079658 TTGAAAA
1 TTGAAAA
106079665 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:106079737 original size:14 final size:14
Alignment explanation
Indices: 106079718--106079752 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
106079708 AGCTGATTTT
* *
106079718 TTGAAAAGTAGGAA
1 TTGAAAAGCAGAAA
106079732 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
106079746 TTGAAAA
1 TTGAAAA
106079753 TACCTCAGCT
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:0.54, C:0.03, G:0.23, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:106079780 original size:87 final size:86
Alignment explanation
Indices: 106079600--106079796 Score: 265
Period size: 87 Copynumber: 2.3 Consensus size: 86
106079590 ATTAAAAGGT
* *
106079600 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACATAAATTGAAAACAGAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGCTGATTCTTGAACAACATAAATTGAAAACAGAAATTGAAAA
*
106079665 TACCTCAGCGTGACCTGAGGC
66 TACCTCAGCGTGACCCGAGGC
* *
106079686 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAA-AA-GTAGGAATTGAAAAGCAGAAATTG
1 TCAACTCACCTCTCGCAATATGAGCTGA-TTCTTGAACAACATA--AATTGAAAA-CAGAAATTG
*
106079749 AAAATACCTCAGC-TGCCCCGAGGC
62 AAAATACCTCAGCGTGACCCGAGGC
**
106079773 TTGACTCACCTCTCGCAATATGAG
1 TCAACTCACCTCTCGCAATATGAG
106079797 TTGGTTTTAG
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
85 2 0.02
86 28 0.28
87 47 0.47
88 22 0.22
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (86 bp):
TCAACTCACCTCTCGCAATATGAGCTGATTCTTGAACAACATAAATTGAAAACAGAAATTGAAAA
TACCTCAGCGTGACCCGAGGC
Found at i:106079842 original size:14 final size:14
Alignment explanation
Indices: 106079823--106079849 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106079813 AAAAATTAAA
106079823 AACAGAATTTGAAT
1 AACAGAATTTGAAT
106079837 AACAGAATTTGAA
1 AACAGAATTTGAA
106079850 AATACCTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (14 bp):
AACAGAATTTGAAT
Found at i:106079981 original size:88 final size:88
Alignment explanation
Indices: 106079827--106079994 Score: 257
Period size: 88 Copynumber: 1.9 Consensus size: 88
106079817 ATTAAAAACA
* * * * *
106079827 GAATTTGAATAACAGAATTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCATCTCTTGCA
1 GAATTTGAAAAACAGAAATTGAAAATACCTCGACACGTGACCCAAGGCTCAACTCATCTCTCGCA
106079892 ATATGAGTTGATTTTGACGAACG
66 ATATGAGTTGATTTTGACGAACG
* *
106079915 GAATTTGAAAAACAGAAATTGAAAATAGCTC-AGCACGTGAGCCAAGGCTCAACTCATCTCTCGC
1 GAATTTGAAAAACAGAAATTGAAAATACCTCGA-CACGTGACCCAAGGCTCAACTCATCTCTCGC
106079979 AATATGAGTTGATTTT
65 AATATGAGTTGATTTT
106079995 TGAAAAATAG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 1 0.01
88 71 0.99
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (88 bp):
GAATTTGAAAAACAGAAATTGAAAATACCTCGACACGTGACCCAAGGCTCAACTCATCTCTCGCA
ATATGAGTTGATTTTGACGAACG
Found at i:106080261 original size:74 final size:71
Alignment explanation
Indices: 106080013--106080361 Score: 377
Period size: 74 Copynumber: 4.9 Consensus size: 71
106080003 AGAAATTAAA
* * * *
106080013 AGGCTTAACTCACCTTTCGCAA-ATGAGTCAATTTTCT-AAACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT-TGAAACATAAATTAAAAATACCTCAGCG
*
106080076 TG-CCCG
65 TGACCTG
* * * * *
106080082 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGGAACATAAATTGAAATTACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
* *
106080146 GTCTTG
66 GACCTG
*
106080152 AGGCTCAACTCACCTCTCGCAATATGAG-CTGATTTTTGAAACAACAGGAATTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTC-GATTTTTGAAAC-ATA--AATTAAAAATACCTCA
106080216 GCGTGACCTG
62 GCGTGACCTG
** * *
106080226 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTTGAAACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTTGAAACATAAATTAAAAATACCTCAGC-
106080291 TGTGACCTG
64 -GTGACCTG
** * * *
106080300 AGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTGAAAACATGAATT-AAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTG-AAACATAAATTAAAAATACCTCAG
106080362 AGTACCCAAA
Statistics
Matches: 234, Mismatches: 33, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
68 1 0.00
69 46 0.20
70 39 0.17
71 8 0.03
72 19 0.08
73 18 0.08
74 92 0.39
75 11 0.05
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
GACCTG
Found at i:106080337 original size:148 final size:141
Alignment explanation
Indices: 106080060--106080361 Score: 390
Period size: 146 Copynumber: 2.1 Consensus size: 141
106080050 AAACATAAAC
** *
106080060 TAAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAACAT
1 TAAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTGAAACAT
* * * *
106080125 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
66 AAACTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
106080190 AAACAACAGGAAT
131 -AA-AACAGGAAT
* **
106080203 TAAAAATACCTCAGCGTGACCTGAGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTTGAAA
1 TAAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTCAA--TTTTGAAA
* ** * *
106080268 CATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAT
63 CATAAACTAAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
106080333 TTTTGAAAACATGAAT
126 TTTTGAAAACAGGAAT
106080349 T-AAAATACCTCAG
1 TAAAAATACCTCAG
106080362 AGTACCCAAA
Statistics
Matches: 138, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
143 18 0.13
144 31 0.22
145 12 0.09
146 38 0.28
147 2 0.01
148 37 0.27
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (141 bp):
TAAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTGAAACAT
AAACTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAAACAGGAAT
Found at i:106099808 original size:45 final size:44
Alignment explanation
Indices: 106099732--106099819 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 44
106099722 ATTGTAAATG
*
106099732 AAATTATAATTATTTTTAGATGCATAATTATCACAATTTCTATT
1 AAATTATAATTATTTTTAAATGCATAATTATCACAATTTCTATT
*
106099776 AAATTATAATTATTTTTTAAATGTATAATTATCACAATTTCTAT
1 AAATTATAATTA-TTTTTAAATGCATAATTATCACAATTTCTAT
106099820 AATTATTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 12 0.29
45 29 0.71
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (44 bp):
AAATTATAATTATTTTTAAATGCATAATTATCACAATTTCTATT
Found at i:106100514 original size:2 final size:2
Alignment explanation
Indices: 106100507--106100549 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
106100497 AGTTTATCTA
106100507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106100549 A
1 A
106100550 AACTATTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:106101334 original size:26 final size:26
Alignment explanation
Indices: 106101305--106101412 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
106101295 TGGTACAAAT
106101305 TGATAATAGG-TTAGGTAAATGTTCCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
*
106101331 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
106101357 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
106101383 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
106101409 TGAT
1 TGAT
106101413 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 2 0.03
26 75 0.97
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:106108100 original size:26 final size:26
Alignment explanation
Indices: 106108071--106108177 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
106108061 TGGTACAAAT
106108071 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106108097 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106108123 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106108149 TAATAAT-GTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106108174 TGAT
1 TGAT
106108178 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 20 0.27
26 54 0.73
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106112522 original size:15 final size:16
Alignment explanation
Indices: 106112502--106112533 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
106112492 AATTTTAATA
106112502 ATTTTTATG-ATTTTT
1 ATTTTTATGTATTTTT
106112517 ATTTTTATGTATTTTT
1 ATTTTTATGTATTTTT
106112533 A
1 A
106112534 ATAATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (16 bp):
ATTTTTATGTATTTTT
Found at i:106114965 original size:2 final size:2
Alignment explanation
Indices: 106114958--106115010 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
106114948 TAGTGAGTTC
106114958 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106115000 AT AT AT AT AT A
1 AT AT AT AT AT A
106115011 CACGAAACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:106116537 original size:26 final size:27
Alignment explanation
Indices: 106116508--106116567 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
106116498 TATGGCGTTG
*
106116508 AAAAATACATACATAACATAGTAT-TA
1 AAAAATACATACATAACATAATATGTA
* * *
106116534 AAAAACATATACATAAGATAATATGTA
1 AAAAATACATACATAACATAATATGTA
106116561 AAAAATA
1 AAAAATA
106116568 TAATATAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.25
Consensus pattern (27 bp):
AAAAATACATACATAACATAATATGTA
Found at i:106116874 original size:27 final size:25
Alignment explanation
Indices: 106116805--106116882 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 25
106116795 CATAGTATAT
106116805 ATATACACATAATATAGTTATTAAGA
1 ATATACACATAATATAG-TATTAAGA
* *
106116831 AAATACATATAATATATAGTATTAAGA
1 ATATACACAT-A-ATATAGTATTAAGA
*
106116858 ATATACACAATACATATGGTATTAA
1 ATATACAC-ATA-ATATAGTATTAA
106116883 AAAATATAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.19
27 27 0.63
28 8 0.19
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
ATATACACATAATATAGTATTAAGA
Found at i:106116894 original size:15 final size:15
Alignment explanation
Indices: 106116871--106116901 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
106116861 TACACAATAC
*
106116871 ATATGGTATTAAAAA
1 ATATAGTATTAAAAA
106116886 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
106116901 A
1 A
106116902 ACATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:106117479 original size:129 final size:131
Alignment explanation
Indices: 106117325--106117599 Score: 536
Period size: 129 Copynumber: 2.1 Consensus size: 131
106117315 ATAATAAAAC
106117325 ATATATATATATAATAATAGTATTAGAAATATACATACAATGGTATAAAAGATGTATAACTAATG
1 ATATATATATATAATAATAGTATTAGAAATATACATACAATGGTATAAAAGATGTATAACTAATG
106117390 ATGCTAAAATATATGCATAATAATATATAT-AAA-ATATACACAATATAGTTACAAATATATATA
66 ATGCTAAAATATATGCATAATAATATATATAAAATATATACACAATATAGTTACAAATATATATA
106117453 T
131 T
106117454 ATATATATATATAATAATAGTATTAGAAATATACATACAATGGTATAAAAGATGTATAACTAATG
1 ATATATATATATAATAATAGTATTAGAAATATACATACAATGGTATAAAAGATGTATAACTAATG
106117519 ATGCTAAAATATATGCATAATAATATATATAAAATATATACACAATATAGTTACAAATATATATA
66 ATGCTAAAATATATGCATAATAATATATATAAAATATATACACAATATAGTTACAAATATATATA
106117584 T
131 T
106117585 ATATATATATATAAT
1 ATATATATATATAAT
106117600 CGTAATATAG
Statistics
Matches: 144, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
129 95 0.66
130 3 0.02
131 46 0.32
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (131 bp):
ATATATATATATAATAATAGTATTAGAAATATACATACAATGGTATAAAAGATGTATAACTAATG
ATGCTAAAATATATGCATAATAATATATATAAAATATATACACAATATAGTTACAAATATATATA
T
Found at i:106117545 original size:14 final size:11
Alignment explanation
Indices: 106117523--106117595 Score: 58
Period size: 12 Copynumber: 6.2 Consensus size: 11
106117513 CTAATGATGC
106117523 TAAAATATATGCA
1 TAAAATATAT--A
106117536 TAATAATATATA
1 TAA-AATATATA
106117548 TAAAATATATA
1 TAAAATATATA
* *
106117559 CACAATATAGT-
1 TAAAATATA-TA
106117570 TACAAATATATA
1 TA-AAATATATA
*
106117582 TATATATATATA
1 TA-AAATATATA
106117594 TA
1 TA
106117596 TAATCGTAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
11 17 0.34
12 23 0.46
13 3 0.06
14 7 0.14
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (11 bp):
TAAAATATATA
Found at i:106117671 original size:131 final size:129
Alignment explanation
Indices: 106117325--106117689 Score: 402
Period size: 129 Copynumber: 2.8 Consensus size: 129
106117315 ATAATAAAAC
* * * *
106117325 ATATATATATATAATAATAGTATTAGAAATATACATACAATGGTATAAAAGATGTATAACTAATG
1 ATATATATATATAATAATAGAATTAGAAATATACATACAATGATATAAAAGATGTATAACAAATA
** *
106117390 ATGCTAAAATATATGCATAATAATATATAT-AAA-ATATACACAATATAGTTACAAATATATATA
66 ATAATAAAAAATAT--ATAATAATATATATAAAATATATACACAATATAGTTACAAATATATATA
106117453 T
129 T
* * * *
106117454 ATATATATATATAATAATAGTATTAGAAATATACATACAATGGTATAAAAGATGTATAACTAATG
1 ATATATATATATAATAATAGAATTAGAAATATACATACAATGATATAAAAGATGTATAACAAATA
** *
106117519 ATGCTAAAATATATGCATAATAATATATATAAAATATATACACAATATAGTTACAAATATATATA
66 ATAATAAAAAATAT--ATAATAATATATATAAAATATATACACAATATAGTTACAAATATATATA
106117584 T
129 T
* * * *
106117585 ATATATATATATAATCGTAATATAGAATTTGGAATATGCCT--AAT-ATATTAAAAGA-GTATAA
1 ATATATATATATAA---T-A-ATAGAATTAGAAATATACATACAATGATA-TAAAAGATGTATAA
*
106117646 CAAATAATAATAAAAAACTAT-TAATAATAATATATAATATATAT
60 CAAATAATAATAAAAAA-TATATAATAAT-ATATATAAAATATAT
106117690 GCGTATAACT
Statistics
Matches: 214, Mismatches: 12, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
129 95 0.44
130 3 0.01
131 52 0.24
132 14 0.07
133 20 0.09
134 14 0.07
135 1 0.00
136 15 0.07
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (129 bp):
ATATATATATATAATAATAGAATTAGAAATATACATACAATGATATAAAAGATGTATAACAAATA
ATAATAAAAAATATATAATAATATATATAAAATATATACACAATATAGTTACAAATATATATAT
Found at i:106118933 original size:26 final size:25
Alignment explanation
Indices: 106118903--106118961 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
106118893 GTGGGTTTAT
* *
106118903 TTTGGGTTGTTTGTT-TGGAAATTGGG
1 TTTGGGTTGTTGGTTAT--AAATGGGG
106118929 TTTGGGGTTGTTGGTTATAAATGGGG
1 TTT-GGGTTGTTGGTTATAAATGGGG
106118955 TTTGGGT
1 TTTGGGT
106118962 AATTTGGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 4 0.14
26 13 0.45
27 11 0.38
28 1 0.03
ACGTcount: A:0.12, C:0.00, G:0.41, T:0.47
Consensus pattern (25 bp):
TTTGGGTTGTTGGTTATAAATGGGG
Found at i:106120657 original size:22 final size:23
Alignment explanation
Indices: 106120629--106120674 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
106120619 AATACAATGA
* *
106120629 TATTTAAAATATTTTACATATTT
1 TATTAAAAATAATTTACATATTT
106120652 TATTAAAAATAATTTACATATTT
1 TATTAAAAATAATTTACATATTT
106120675 GAAATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTAAAAATAATTTACATATTT
Found at i:106120679 original size:18 final size:17
Alignment explanation
Indices: 106120658--106120701 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
106120648 ATTTTATTAA
*
106120658 AAATAATTTACATATTTG
1 AAATAATTTA-ATATTTC
*
106120676 AAATAATAATAATATTTC
1 AAATAAT-TTAATATTTC
106120694 AAATAATT
1 AAATAATT
106120702 ATTTGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (17 bp):
AAATAATTTAATATTTC
Found at i:106120686 original size:24 final size:23
Alignment explanation
Indices: 106120634--106120688 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
106120624 AATGATATTT
* * *
106120634 AAAATATTTTACATATTTTATTA
1 AAAATAATTTACATATTTAAATA
106120657 AAAATAATTTACATATTTGAAATA
1 AAAATAATTTACATATTT-AAATA
*
106120681 ATAATAAT
1 AAAATAAT
106120689 ATTTCAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
AAAATAATTTACATATTTAAATA
Found at i:106126225 original size:73 final size:73
Alignment explanation
Indices: 106126126--106126272 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
106126116 AAAAATTATT
106126126 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTTATCCAAAAAATACTGT
1 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTTATCCAAAAAATACTGT
106126191 TCTATCAC
66 TCTATCAC
*
106126199 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTTATCCAGAAAATACTGT
1 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTTATCCAAAAAATACTGT
106126264 TCTATCAC
66 TCTATCAC
106126272 T
1 T
106126273 CCCATTTTCA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (73 bp):
TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTTATCCAAAAAATACTGT
TCTATCAC
Found at i:106131807 original size:20 final size:21
Alignment explanation
Indices: 106131768--106131807 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
106131758 TTTTAACATT
*
106131768 TTCCACGTGTATGATTTCATG
1 TTCCACGTGGATGATTTCATG
*
106131789 TTCCACGTGGCTG-TTTCAT
1 TTCCACGTGGATGATTTCAT
106131808 AGGATGTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (21 bp):
TTCCACGTGGATGATTTCATG
Found at i:106132111 original size:15 final size:16
Alignment explanation
Indices: 106132091--106132123 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
106132081 TTTATATTAG
106132091 TATTG-TATTTATAAT
1 TATTGATATTTATAAT
106132106 TATTGTATATTTATAAT
1 TATTG-ATATTTATAAT
106132123 T
1 T
106132124 GTAATCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
17 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TATTGATATTTATAAT
Found at i:106139497 original size:4 final size:4
Alignment explanation
Indices: 106139488--106139516 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
106139478 AGCAAACGTG
106139488 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
106139517 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:106140345 original size:20 final size:20
Alignment explanation
Indices: 106140320--106140360 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
106140310 AAGTTCCGGA
106140320 TTTGTTCCGATGAAGTACTT
1 TTTGTTCCGATGAAGTACTT
106140340 TTTGTTCCGATGAAGTACTT
1 TTTGTTCCGATGAAGTACTT
106140360 T
1 T
106140361 GTGTACTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (20 bp):
TTTGTTCCGATGAAGTACTT
Found at i:106141863 original size:75 final size:75
Alignment explanation
Indices: 106141745--106141916 Score: 196
Period size: 75 Copynumber: 2.4 Consensus size: 75
106141735 CATGGCAAAG
* ** *
106141745 TGTGAAACGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
106141804 CCATACTGAGC
65 CCATACCGAGC
106141815 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
106141880 CATACCGAGT
66 CATACCGAGC
***
106141890 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
106141917 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:106141883 original size:35 final size:36
Alignment explanation
Indices: 106141748--106141912 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 36
106141738 GGCAAAGTGT
* * **
106141748 GAAACGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTATCCCATACTGAGTTAA
* **
106141783 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATTATCCCATACTGAGTTAA
106141818 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATTATC----CCATACTGAGTTAA
* *
106141858 GAAATGTAGGTATGGCATT-TCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTATCCCATACTGAGTT-AA
*
106141894 AAAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
106141913 TCAATGAGGA
Statistics
Matches: 114, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
35 64 0.56
36 19 0.17
39 2 0.02
40 29 0.25
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (36 bp):
GAAATGTAGGTATGGTATTATCCCATACTGAGTTAA
Found at i:106141906 original size:36 final size:35
Alignment explanation
Indices: 106141844--106141914 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
106141834 ATTATCAAAT
* *
106141844 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
106141879 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
106141915 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:106145542 original size:47 final size:48
Alignment explanation
Indices: 106145445--106145542 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 48
106145435 CAATTATCGC
* *
106145445 ATTTTTTTAATTTTAATTTTATAATTTATATTTTTTTTCAAAAATTTAT
1 ATTTTTTTAATTTT-ATTTTATAATTTATATCTTTTTTCAAAAATGTAT
* *
106145494 ATTTTTTTGATTTT-TTTTAT-ATTTATATACTTTTTT-AATATATGTAT
1 ATTTTTTTAATTTTATTTTATAATTTATAT-CTTTTTTCAA-AAATGTAT
106145541 AT
1 AT
106145543 ATTTAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
46 10 0.23
47 20 0.47
49 13 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (48 bp):
ATTTTTTTAATTTTATTTTATAATTTATATCTTTTTTCAAAAATGTAT
Found at i:106156158 original size:12 final size:12
Alignment explanation
Indices: 106156136--106156171 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
106156126 AACAAAAAAT
106156136 TGAAGTAAATAAG
1 TGAA-TAAATAAG
106156149 TGAATAAATAAG
1 TGAATAAATAAG
*
106156161 TGAGTAAATAA
1 TGAATAAATAA
106156172 CTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (12 bp):
TGAATAAATAAG
Found at i:106156901 original size:33 final size:33
Alignment explanation
Indices: 106156847--106157030 Score: 119
Period size: 33 Copynumber: 5.7 Consensus size: 33
106156837 ACTTTATCTG
* *
106156847 TGTTTACTGTCCCAACGGACTATCTCTATTATA
1 TGTTTACTGTCCTAACAGACTATCTCTATTATA
* * * *
106156880 TGTTAACTGTCCTAACAGACTATCTCTGTTCTG
1 TGTTTACTGTCCTAACAGACTATCTCTATTATA
** * *
106156913 TGTTTACTGTCCTAGTAGACTA--TCTATTCTG
1 TGTTTACTGTCCTAACAGACTATCTCTATTATA
* * * * *
106156944 CGTTTATTGTCCCAAC-GAACTATCTTTATTATG
1 TGTTTACTGTCCTAACAG-ACTATCTCTATTATA
* * * *
106156977 TGTTTATTGT-CTCAATAGATTATCTCT-TT-TG
1 TGTTTACTGTCCT-AACAGACTATCTCTATTATA
* *
106157008 TGTTTACTGTCCTAGCGGACTAT
1 TGTTTACTGTCCTAACAGACTAT
106157031 TTCTTTGGAT
Statistics
Matches: 118, Mismatches: 27, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
30 1 0.01
31 40 0.34
32 5 0.04
33 71 0.60
34 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTTTACTGTCCTAACAGACTATCTCTATTATA
Found at i:106157001 original size:97 final size:92
Alignment explanation
Indices: 106156820--106157022 Score: 246
Period size: 97 Copynumber: 2.2 Consensus size: 92
106156810 ACTTACCGGG
* * * *
106156820 GTTTACTGTCCTGGTGGACTTTATCTGTGTTTACTGTCCCAACGGACTATCTCTATTATATGTTA
1 GTTTACTGTCCTAGTAGACTTTATCTGCGTTTACTGTCCCAACGAACTATCTCTATTATATGTTA
106156885 ACTGTCCTAACAGACTATCTCTGTTCTGT
66 ACTGTCCTAACAGACTATCTCT-TT-TGT
* * *
106156914 GTTTACTGTCCTAGTAGACTATCTATTCTGCGTTTATTGTCCCAACGAACTATCTTTATTATGTG
1 GTTTACTGTCCTAGTAGACT-T-TA-TCTGCGTTTACTGTCCCAACGAACTATCTCTATTATATG
* * * *
106156979 TTTATTGT-CTCAATAGATTATCTCTTTTGT
63 TTAACTGTCCT-AACAGACTATCTCTTTTGT
106157009 GTTTACTGTCCTAG
1 GTTTACTGTCCTAG
106157023 CGGACTATTT
Statistics
Matches: 94, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
94 18 0.19
95 18 0.19
96 6 0.06
97 52 0.55
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (92 bp):
GTTTACTGTCCTAGTAGACTTTATCTGCGTTTACTGTCCCAACGAACTATCTCTATTATATGTTA
ACTGTCCTAACAGACTATCTCTTTTGT
Found at i:106157030 original size:64 final size:64
Alignment explanation
Indices: 106156845--106157030 Score: 158
Period size: 64 Copynumber: 2.9 Consensus size: 64
106156835 GGACTTTATC
* ** * * * * *
106156845 TGTGTTTACTGTCCCAACGGACTATCTCTATTATATGTTAACTGTCCTAACAGACTATCTCTGTT
1 TGTGTTTACTGTCCTAATAGACTA--TCTATTCTGTGTTTACTGTCCTAACGGACTATCTCTATT
*
106156910 C
64 A
* * * * * *
106156911 TGTGTTTACTGTCCTAGTAGACTATCTATTCTGCGTTTATTGTCCCAACGAACTATCTTTATTA
1 TGTGTTTACTGTCCTAATAGACTATCTATTCTGTGTTTACTGTCCTAACGGACTATCTCTATTA
* * * * *
106156975 TGTGTTTATTGT-CTCAATAGATTATCTCTTTTGTGTTTACTGTCCTAGCGGACTAT
1 TGTGTTTACTGTCCT-AATAGACTATCTATTCTGTGTTTACTGTCCTAACGGACTAT
106157031 TTCTTTGGAT
Statistics
Matches: 94, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
63 2 0.02
64 72 0.77
66 20 0.21
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (64 bp):
TGTGTTTACTGTCCTAATAGACTATCTATTCTGTGTTTACTGTCCTAACGGACTATCTCTATTA
Found at i:106161568 original size:32 final size:32
Alignment explanation
Indices: 106161532--106161600 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
106161522 GATCTACACA
106161532 GGCAATG-TCAATCTGGGCGTGTGGGCCACATG
1 GGCAATGCT-AATCTGGGCGTGTGGGCCACATG
106161564 GGCAATGCTAATCTGGGCGTGTGGGCCACATG
1 GGCAATGCTAATCTGGGCGTGTGGGCCACATG
106161596 GGCAA
1 GGCAA
106161601 ACCACACGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.38, T:0.20
Consensus pattern (32 bp):
GGCAATGCTAATCTGGGCGTGTGGGCCACATG
Found at i:106161616 original size:30 final size:32
Alignment explanation
Indices: 106161540--106161620 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
106161530 CAGGCAATGT
* *
106161540 CAATCTGGGCGTGTGGGCCACATGGGCAATGC
1 CAATCTGAGCGTGTGGGCCACATGGGCAATAC
* *
106161572 TAATCTGGGCGTGTGGGCCACATGGGCAA-AC
1 CAATCTGAGCGTGTGGGCCACATGGGCAATAC
106161603 CACA-C-GAGCGTGTGGGCC
1 CA-ATCTGAGCGTGTGGGCC
106161621 CATTTATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 12 0.27
31 3 0.07
32 29 0.66
ACGTcount: A:0.20, C:0.26, G:0.37, T:0.17
Consensus pattern (32 bp):
CAATCTGAGCGTGTGGGCCACATGGGCAATAC
Found at i:106162812 original size:11 final size:11
Alignment explanation
Indices: 106162796--106162842 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
106162786 CCACGTTAGC
106162796 AAATTATTTTA
1 AAATTATTTTA
*
106162807 AAATTATTGTA
1 AAATTATTTTA
*
106162818 AAA-AATTATTA
1 AAATTATT-TTA
*
106162829 AAATGATTTTA
1 AAATTATTTTA
106162840 AAA
1 AAA
106162843 CCATCATCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 3 0.10
11 24 0.80
12 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:106176862 original size:16 final size:16
Alignment explanation
Indices: 106176841--106176871 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106176831 AATTGGGTTA
*
106176841 AGAAAATTATTTAATC
1 AGAAAATTAATTAATC
106176857 AGAAAATTAATTAAT
1 AGAAAATTAATTAAT
106176872 TTAATAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AGAAAATTAATTAATC
Found at i:106180256 original size:6 final size:7
Alignment explanation
Indices: 106180240--106180266 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
106180230 GGCTCAGCTG
106180240 TTTTCCT
1 TTTTCCT
106180247 TTTTCCT
1 TTTTCCT
106180254 TTTTCCT
1 TTTTCCT
106180261 TTTTCC
1 TTTTCC
106180267 AATGAACAAT
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:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTCCT
Found at i:106181411 original size:50 final size:51
Alignment explanation
Indices: 106181354--106181451 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 51
106181344 TATAACTCTC
* *
106181354 AATATTTACACGGTA-TCAAATTAATCTTAATTTTTAAAAATTTAATCCCT
1 AATATTTACACAGTAGTCAAATTAATCTTAATTTTTAAAAATGTAATCCCT
* * * *
106181404 AATATTTACATATTATGTCAATTTAGTCTTAATTTTTAAAAATGTAAT
1 AATATTTACACAGTA-GTCAAATTAATCTTAATTTTTAAAAATGTAAT
106181452 TCTCAATGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 12 0.30
52 28 0.70
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (51 bp):
AATATTTACACAGTAGTCAAATTAATCTTAATTTTTAAAAATGTAATCCCT
Found at i:106181464 original size:52 final size:52
Alignment explanation
Indices: 106181369--106181470 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 52
106181359 TTACACGGTA
* *
106181369 TCAAATTAATCTTAATTTTTAAAAATTTAATCCCTAATATTTACATATTATG
1 TCAAATTAATCTTAATTTTTAAAAATGTAATCCCTAATATTTACACATTATG
* * * *
106181421 TCAATTTAGTCTTAATTTTTAAAAATGTAAT-TCTCAATGTTTACACATTA
1 TCAAATTAATCTTAATTTTTAAAAATGTAATCCCT-AATATTTACACATTA
106181471 CCTAATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.05
52 41 0.95
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (52 bp):
TCAAATTAATCTTAATTTTTAAAAATGTAATCCCTAATATTTACACATTATG
Found at i:106182985 original size:20 final size:19
Alignment explanation
Indices: 106182940--106182977 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
106182930 CATCCAAACA
106182940 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
106182959 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
106182978 TCTAGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:106189785 original size:15 final size:15
Alignment explanation
Indices: 106189765--106189795 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
106189755 ATTGAGAAAT
106189765 TTTTAAAAGTTCAAA
1 TTTTAAAAGTTCAAA
*
106189780 TTTTAAAAGTTGAAA
1 TTTTAAAAGTTCAAA
106189795 T
1 T
106189796 GTGGAAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTTAAAAGTTCAAA
Found at i:106202257 original size:13 final size:13
Alignment explanation
Indices: 106202239--106202263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106202229 ACAGGCACAA
106202239 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
106202252 AAAAAAAAAAAA
1 AAAAAAAAAAAA
106202264 AAGACAAACA
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:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:106202257 original size:14 final size:14
Alignment explanation
Indices: 106202238--106202264 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106202228 AACAGGCACA
106202238 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
106202252 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
106202265 AGACAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:106202257 original size:15 final size:15
Alignment explanation
Indices: 106202237--106202267 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
106202227 GAACAGGCAC
106202237 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
106202252 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
106202267 A
1 A
106202268 CAAACAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:106203706 original size:24 final size:23
Alignment explanation
Indices: 106203658--106203708 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
106203648 AATTATAGCT
* **
106203658 AAATTTAATGAAAATAGAATCTA
1 AAATTTAATGAAAAAAGAAAATA
106203681 AAATTTAAATGAAAAAAGAAAATA
1 AAATTT-AATGAAAAAAGAAAATA
106203705 AAAT
1 AAAT
106203709 CTCTTGCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (23 bp):
AAATTTAATGAAAAAAGAAAATA
Found at i:106204874 original size:31 final size:31
Alignment explanation
Indices: 106204839--106204904 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
106204829 AACCCTTCTT
106204839 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATTAAATCCAACCAAAAACAGCAAATATA
* * *
106204870 GCATTGAATCCAACCAAATACAGCAAATGTA
1 GCATTAAATCCAACCAAAAACAGCAAATATA
106204901 GCAT
1 GCAT
106204905 AAAAAAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.23, G:0.11, T:0.18
Consensus pattern (31 bp):
GCATTAAATCCAACCAAAAACAGCAAATATA
Found at i:106205624 original size:13 final size:14
Alignment explanation
Indices: 106205600--106205628 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
106205590 ACTACCAACG
106205600 AATTAAACCATTAT
1 AATTAAACCATTAT
106205614 AATTAAA-CATTAT
1 AATTAAACCATTAT
106205627 AA
1 AA
106205629 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:106210682 original size:9 final size:9
Alignment explanation
Indices: 106210668--106210788 Score: 63
Period size: 9 Copynumber: 13.4 Consensus size: 9
106210658 TAAGTATAAT
106210668 TAAGTTATG
1 TAAGTTATG
106210677 TAAGTTATG
1 TAAGTTATG
* * *
106210686 ATATGATATA
1 -TAAGTTATG
*
106210696 T-ATTTATG
1 TAAGTTATG
106210704 T-A-TTATG
1 TAAGTTATG
106210711 TAAGTTATG
1 TAAGTTATG
* *
106210720 CAAATTATG
1 TAAGTTATG
*
106210729 TAAGATATGATA
1 TAAG-T-T-ATG
*
106210741 TATATTTATG
1 TA-AGTTATG
106210751 T-A-TTATG
1 TAAGTTATG
*
106210758 TAAGTTTTG
1 TAAGTTATG
*
106210767 TAAATTATG
1 TAAGTTATG
*
106210776 TAAATTATG
1 TAAGTTATG
106210785 TAAG
1 TAAG
106210789 ATATAATATA
Statistics
Matches: 85, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
7 12 0.14
8 8 0.09
9 47 0.55
10 10 0.12
11 2 0.02
12 5 0.06
13 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:106210717 original size:43 final size:43
Alignment explanation
Indices: 106210668--106210775 Score: 153
Period size: 47 Copynumber: 2.4 Consensus size: 43
106210658 TAAGTATAAT
*
106210668 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAATTATGATATGATATATATTTATGTATTATG
*
106210711 TAAGTTATGCAAATTATGTAAGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAATTA--T--GATATGATATATATTTATGTATTATG
*
106210758 TAAGTTTTGTAAATTATG
1 TAAGTTATGTAAATTATG
106210776 TAAATTATGT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
43 15 0.26
45 2 0.04
47 40 0.70
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (43 bp):
TAAGTTATGTAAATTATGATATGATATATATTTATGTATTATG
Found at i:106210745 original size:47 final size:47
Alignment explanation
Indices: 106210685--106210778 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
106210675 TGTAAGTTAT
106210685 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
* *
106210732 GATATGATATATATTTATGTATTATGTAAGTTTTGTAAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
106210779 ATTATGTAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (47 bp):
GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
Found at i:106211267 original size:110 final size:105
Alignment explanation
Indices: 106211058--106211523 Score: 767
Period size: 105 Copynumber: 4.4 Consensus size: 105
106211048 CAATATTTAA
*
106211058 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
106211123 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
*
106211163 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATACTTTTTTGT
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATA-TTTTTCGT
*
106211228 GATTAAATTAAAATAAATAAAATAAAATATTTAAAATAAATCTTT
65 GATTAAATT---A-AAATAAAATAAAATATTTAAAATAAAACTTT
106211273 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
*
106211338 ATTAAATTAAATTAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* * * * *
106211378 AAATGCAATTTACTTTAATTAGCTAATTTAAAAATAAAATAAAAGTACACAAAATA-TTTTCTTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
*
106211442 ATTAAATTAAAATAAAATAAAATATTAAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
*
106211482 AATTACAATTTAATTTAATTAGGTAA-TT-AAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
106211524 CTTTAGCGGC
Statistics
Matches: 339, Mismatches: 17, Indels: 13
0.92 0.05 0.04
Matches are distributed among these distances:
102 14 0.04
103 2 0.01
104 67 0.20
105 136 0.40
106 17 0.05
109 17 0.05
110 86 0.25
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (105 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
Found at i:106211432 original size:215 final size:209
Alignment explanation
Indices: 106211058--106211523 Score: 774
Period size: 215 Copynumber: 2.2 Consensus size: 209
106211048 CAATATTTAA
*
106211058 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
*
106211123 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGCTA
* *
106211188 ATTTAAAAATAAAATAAAAGTAGACAAAATACTTTTTTGTGATTAAATTAAAATAAATAAAATAA
131 ATTTAAAAATAAAATAAAAGTACACAAAATA-TTTTCT-TGATTAAATT---A-AAATAAAATAA
* *
106211253 AATATTTAAAATAAATCTTT
190 AATATTAAAAATAAAACTTT
106211273 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
* * *
106211338 ATTAAATTAAATTAAAATAAAATATTTAAAATAAAACTTTAAATGCAATTTACTTTAATTAGCTA
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGCTA
106211403 ATTTAAAAATAAAATAAAAGTACACAAAATATTTTCTTGATTAAATTAAAATAAAATAAAATATT
131 ATTTAAAAATAAAATAAAAGTACACAAAATATTTTCTTGATTAAATTAAAATAAAATAAAATATT
106211468 AAAAATAAAACTTT
196 AAAAATAAAACTTT
*
106211482 AATTACAATTTAATTTAATTAGGTAA-TT-AAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
106211524 CTTTAGCGGC
Statistics
Matches: 241, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
207 14 0.06
208 2 0.01
209 54 0.22
210 1 0.00
213 10 0.04
214 5 0.02
215 155 0.64
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (209 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGCTA
ATTTAAAAATAAAATAAAAGTACACAAAATATTTTCTTGATTAAATTAAAATAAAATAAAATATT
AAAAATAAAACTTT
Found at i:106214275 original size:21 final size:21
Alignment explanation
Indices: 106214250--106214326 Score: 54
Period size: 21 Copynumber: 3.6 Consensus size: 21
106214240 ACTCTACCCC
106214250 TAAACCACAAACCTCAAACTA
1 TAAACCACAAACCTCAAACTA
*
106214271 TAAACC-CTAAATCTCAAAACCT-
1 TAAACCAC-AAACCTC-AAA-CTA
* *
106214293 TAAACTCA-AAA-CTCTATCATA
1 TAAAC-CACAAACCTCAAAC-TA
106214314 TAAACCACAAACC
1 TAAACCACAAACC
106214327 AATAAACCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 17
0.69 0.05 0.27
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 23 0.52
22 12 0.27
23 3 0.07
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCACAAACCTCAAACTA
Found at i:106214296 original size:15 final size:14
Alignment explanation
Indices: 106214231--106214304 Score: 57
Period size: 14 Copynumber: 5.3 Consensus size: 14
106214221 CCCAATCCAT
106214231 AAACCCTAAACTC-
1 AAACCCTAAACTCA
* *
106214244 TACCCCTAAAC-CA
1 AAACCCTAAACTCA
106214257 CAAA-CCTCAAACT-A
1 -AAACCCT-AAACTCA
106214271 TAAACCCTAAATCTCA
1 -AAACCCTAAA-CTCA
*
106214287 AAACCTTAAACTCA
1 AAACCCTAAACTCA
106214301 AAAC
1 AAAC
106214305 TCTATCATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
12 1 0.02
13 12 0.25
14 20 0.42
15 14 0.29
16 1 0.02
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (14 bp):
AAACCCTAAACTCA
Found at i:106214558 original size:15 final size:15
Alignment explanation
Indices: 106214523--106214570 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
106214513 CTTAAACCCC
* *
106214523 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
106214538 AA-CCATAATCCCTA
1 AACCCATAATCCATA
106214552 AACCCATAATCCATA
1 AACCCATAATCCATA
106214567 AACC
1 AACC
106214571 TTAAAATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:106214575 original size:22 final size:21
Alignment explanation
Indices: 106214526--106214632 Score: 69
Period size: 22 Copynumber: 5.0 Consensus size: 21
106214516 AAACCCCAAC
*
106214526 CCTTAAACCATAAACCATAAT
1 CCTTAAACCATAAACCATAAA
* *
106214547 CCCTAAACCCATAATCCATAAA
1 CCTTAAA-CCATAAACCATAAA
*
106214569 CCTTAAA--ATAGTAACTCATACA
1 CCTTAAACCATA--AAC-CATAAA
* *
106214591 CTTTAAACCCTAAACCA-AAA
1 CCTTAAACCATAAACCATAAA
* *
106214611 -CTCTAAACCCTAAACCCTAAA
1 CCT-TAAACCATAAACCATAAA
106214632 C
1 C
106214633 TATAATGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
19 4 0.06
20 15 0.23
21 13 0.20
22 32 0.48
24 2 0.03
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (21 bp):
CCTTAAACCATAAACCATAAA
Found at i:106214606 original size:7 final size:7
Alignment explanation
Indices: 106214594--106214632 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
106214584 TCATACACTT
106214594 TAAACCC
1 TAAACCC
106214601 TAAA-CC
1 TAAACCC
* *
106214607 AAAACTC
1 TAAACCC
106214614 TAAACCC
1 TAAACCC
106214621 TAAACCC
1 TAAACCC
106214628 TAAAC
1 TAAAC
106214633 TATAATGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:106214770 original size:14 final size:13
Alignment explanation
Indices: 106214751--106214830 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 13
106214741 ACTCTTAATT
106214751 CATAAACCATAAAC
1 CATAAACC-TAAAC
*
106214765 CATAAATCCTAAAA
1 CATAAA-CCTAAAC
106214779 CATAAACCCTAAACC
1 CATAAA-CCTAAA-C
* *
106214794 CATAACCCTTAACCC
1 CATAAACC-TAA-AC
*
106214809 CCTAACACCTAAAC
1 CATAA-ACCTAAAC
*
106214823 CTTAAACC
1 CATAAACC
106214831 CCAACCCTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
13 3 0.06
14 29 0.56
15 18 0.35
16 2 0.04
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.17
Consensus pattern (13 bp):
CATAAACCTAAAC
Found at i:106214867 original size:25 final size:25
Alignment explanation
Indices: 106214822--106214869 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
106214812 AACACCTAAA
*
106214822 CCTTAAACCCCAACCCTTAAACCAC
1 CCTTAAACCACAACCCTTAAACCAC
*
106214847 CCTTAAACCATAATCCC-TAAACC
1 CCTTAAACCACAA-CCCTTAAACC
106214870 TATAATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (25 bp):
CCTTAAACCACAACCCTTAAACCAC
Found at i:106215350 original size:75 final size:75
Alignment explanation
Indices: 106215246--106215500 Score: 232
Period size: 75 Copynumber: 3.4 Consensus size: 75
106215236 TAATACTCGA
* * * * *
106215246 TCTTTAGCGGCATTTTTAAAAGGCACCGCTAAAGCCACTAAAAGCTCAATAAAAAACGACGGCGT
1 TCTTTTGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATAAAAAACGACGGCGT
*
106215311 TTTGCAAAAT
66 TGTGCAAAAT
* * * *
106215321 TCTTTTGCGGCGTTTCTAAAAAGCGCCGCTAAAGCCAATAAAGGCTTAATAGAAAACGACGGCGT
1 TCTTTTGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATAAAAAACGACGGCGT
**
106215386 TGTGTTAAAT
66 TGTGCAAAAT
** ** * * *
106215396 T-TTTTGCGGCGTTTTTTGTAAAGCGCCGCTAAAGCC-ATTGAAGCTCAGT-TAAAACAACGGCG
1 TCTTTTGCGGCG-TTTTTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATAAAAAACGACGGCG
* *
106215458 TTGAGCATAA-
65 TTGTGCAAAAT
* * *
106215468 -GTTTTGTGGCATTTTTTTAAAAAGCGCCGCTAA
1 TCTTTTGCGGC--GTTTTTAAAAAGCGCCGCTAA
106215501 TGCTCGTTCT
Statistics
Matches: 146, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
72 8 0.05
73 35 0.24
74 18 0.12
75 85 0.58
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (75 bp):
TCTTTTGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATAAAAAACGACGGCGT
TGTGCAAAAT
Found at i:106218605 original size:16 final size:15
Alignment explanation
Indices: 106218580--106218615 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
106218570 ATATCATTTT
106218580 AATTTTTTTAAAAAA
1 AATTTTTTTAAAAAA
*
106218595 AATTATTTTTAAAAAT
1 AATT-TTTTTAAAAAA
106218611 AATTT
1 AATTT
106218616 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTTTTTAAAAAA
Found at i:106219536 original size:25 final size:25
Alignment explanation
Indices: 106219503--106219551 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
106219493 GTAGTTGATT
* *
106219503 TTTTTTTTTTTTG-CTTCAATCAAG
1 TTTTTATTTTATGACTTCAATCAAG
106219527 TTTTTATTTTATGACTTCAATCAAG
1 TTTTTATTTTATGACTTCAATCAAG
106219552 CATGGGCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.57
Consensus pattern (25 bp):
TTTTTATTTTATGACTTCAATCAAG
Done.