Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168071.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_32, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 761692
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 4 of 17
Found at i:142384 original size:180 final size:181
Alignment explanation
Indices: 141986--142410 Score: 466
Period size: 180 Copynumber: 2.3 Consensus size: 181
141976 TATGATAAGG
* * * * *
141986 AATAATTGTTTTATGACAAAAC-AAAGATCTA-AATTATTTGAGACTGATAATTGTTCAAATAGT
1 AATAATTGTTTTATGACAAAACAAAAGAT-TATAATGATTTGAAACAGATAATTGTTCAAATGGC
* *
142049 CATAATTATTTGAATTGATTCGATAAACATATTTATTTTTTTAAATTTTCTTACTTATTAATTTT
65 CATAATTATTTGAATTAATTCGATAAACAAATTTA-TTTTTTAAATTTTCTTACTTATTAATTTT
* *** *
142114 TGAAATATTAAAAAATTAGTAATATTTTATTTTGAATAAGCTTGTATGATTAAA
129 GGAAATATTAAAAAATTAGTAATATTTTATTCCCAATAAGCTTGTATAATT-AA
* * * * **
142168 AACAAATATTTTATGACAAAACAAAAGATCATAATGATTTGAAACAGATAATCATTCAAATGGCC
1 AATAATTGTTTTATGACAAAACAAAAGATTATAATGATTTGAAACAGATAATTGTTCAAATGGCC
* * * *
142233 ATATTTATTTTAATTAATTCGGTAAATAAATTTA-TTTTTAAA-TTTCTTACTTATT-ATTTTAG
66 ATAATTATTTGAATTAATTCGATAAACAAATTTATTTTTTAAATTTTCTTACTTATTAATTTT-G
* * **
142295 GAAATATTAATAAATTAGTATTATTTTATTCCCTCTAAGCTTGTATTAACTT-A
130 GAAATATTAAAAAATTAGTAATATTTTATTCCCAATAAGCTTGTA-TAA-TTAA
* * * * * *
142348 AATAATTGTTTTATTACAAATCAAAAGGTTATAATGATTTTAAATAGAAAATTGTTCAAATGG
1 AATAATTGTTTTATGACAAAACAAAAGATTATAATGATTTGAAACAGATAATTGTTCAAATGG
142411 TAAACAAATT
Statistics
Matches: 200, Mismatches: 38, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
179 5 0.03
180 103 0.51
181 10 0.05
182 22 0.11
183 60 0.30
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (181 bp):
AATAATTGTTTTATGACAAAACAAAAGATTATAATGATTTGAAACAGATAATTGTTCAAATGGCC
ATAATTATTTGAATTAATTCGATAAACAAATTTATTTTTTAAATTTTCTTACTTATTAATTTTGG
AAATATTAAAAAATTAGTAATATTTTATTCCCAATAAGCTTGTATAATTAA
Found at i:142801 original size:12 final size:12
Alignment explanation
Indices: 142786--142811 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
142776 TTTAATTTTC
142786 TTGGTTATTAAG
1 TTGGTTATTAAG
142798 TTGGTTATTAAG
1 TTGGTTATTAAG
142810 TT
1 TT
142812 TAATGACAAT
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:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (12 bp):
TTGGTTATTAAG
Found at i:142913 original size:13 final size:14
Alignment explanation
Indices: 142880--142927 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 14
142870 TATTTAACTG
142880 TTAATAATAAATAA
1 TTAATAATAAATAA
142894 TCATAATAATAAA-AA
1 T--TAATAATAAATAA
*
142909 TTAATCAGTAAATAA
1 TTAAT-AATAAATAA
142924 TTAA
1 TTAA
142928 ATGTTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 9 0.31
16 10 0.34
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (14 bp):
TTAATAATAAATAA
Found at i:143123 original size:20 final size:20
Alignment explanation
Indices: 143072--143124 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
143062 GACAAATTTT
143072 AATTTAA-TAATT-ATATAA
1 AATTTAACTAATTAATATAA
*
143090 AATTGTTACT-ATTAATATAA
1 AATT-TAACTAATTAATATAA
*
143110 CATTTAACTAATTAA
1 AATTTAACTAATTAA
143125 ATCCCGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.14
19 9 0.32
20 15 0.54
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (20 bp):
AATTTAACTAATTAATATAA
Found at i:143869 original size:10 final size:10
Alignment explanation
Indices: 143838--143871 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
143828 ATTATAATCC
143838 TTATTAATTA
1 TTATTAATTA
*
143848 TAATTAATTA
1 TTATTAATTA
*
143858 TTATTATTTA
1 TTATTAATTA
143868 TTAT
1 TTAT
143872 AATATAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATTAATTA
Found at i:143927 original size:9 final size:10
Alignment explanation
Indices: 143913--143995 Score: 84
Period size: 9 Copynumber: 8.1 Consensus size: 10
143903 TTAATTGGAT
143913 TATTAAAT-A
1 TATTAAATAA
143922 TATT-AATAA
1 TATTAAATAA
143931 TATTAATATAA
1 TATTAA-ATAA
143942 TATTATTAATAA
1 TATTA--AATAA
143954 TATT-AATAA
1 TATTAAATAA
143963 TATTAATATAA
1 TATTAA-ATAA
143974 TATTATTAATAA
1 TATTA--AATAA
143986 TATT-AATAA
1 TATTAAATAA
143995 T
1 T
143996 TTATTCAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 18
0.78 0.00 0.22
Matches are distributed among these distances:
8 3 0.05
9 24 0.37
10 2 0.03
11 18 0.28
12 16 0.25
13 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TATTAAATAA
Found at i:143947 original size:32 final size:32
Alignment explanation
Indices: 143911--143995 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
143901 TTTTAATTGG
143911 ATTATTAA-ATATATTAATAATATTAATATAAT
1 ATTATTAATA-ATATTAATAATATTAATATAAT
143943 ATTATTAATAATATTAATAATATTAATATAAT
1 ATTATTAATAATATTAATAATATTAATATAAT
143975 ATTATTAATAATATTAATAAT
1 ATTATTAATAATATTAATAAT
143996 TTATTCAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 51 0.98
33 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
ATTATTAATAATATTAATAATATTAATATAAT
Found at i:143950 original size:23 final size:22
Alignment explanation
Indices: 143918--143999 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 22
143908 TGGATTATTA
143918 AATA-TATTAATAATATTAATAT
1 AATATTATTAATAATATT-ATAT
143940 AATATTATTAATAATATTA-AT
1 AATATTATTAATAATATTATAT
*
143961 AATATTAAT-ATAATATTAT-T
1 AATATTATTAATAATATTATAT
*
143981 AATAATATTAATAAT-TTAT
1 AATATTATTAATAATATTAT
144000 TCAATAGCCA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
20 21 0.39
21 15 0.28
22 5 0.09
23 13 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATTATTAATAATATTATAT
Found at i:144000 original size:23 final size:21
Alignment explanation
Indices: 143911--144054 Score: 111
Period size: 23 Copynumber: 6.8 Consensus size: 21
143901 TTTTAATTGG
143911 ATTATTAA-ATATATTAATAAT
1 ATTATTAATA-ATATTAATAAT
* *
143932 ATTAAT-ATAATATTATTAAT
1 ATTATTAATAATATTAATAAT
*
143952 AATATTAATAATATTAATATAAT
1 ATTATTAATAATATT-A-ATAAT
143975 ATTATTAATAATATTAATAAT
1 ATTATTAATAATATTAATAAT
** *
143996 -TTATTCAATAGCCATTAATAGT
1 ATTATT-AATA-ATATTAATAAT
*
144018 ATTGTTAAT--TATTAATACA-
1 ATTATTAATAATATTAATA-AT
144037 ATTATTAATTAATGATTA
1 ATTATTAA-TAAT-ATTA
144055 TTAAAATTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 22
0.74 0.10 0.17
Matches are distributed among these distances:
19 14 0.14
20 21 0.21
21 23 0.23
22 14 0.14
23 26 0.27
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
ATTATTAATAATATTAATAAT
Found at i:144005 original size:12 final size:11
Alignment explanation
Indices: 143922--144005 Score: 63
Period size: 11 Copynumber: 7.7 Consensus size: 11
143912 TTATTAAATA
143922 TATTAATAATAT
1 TATTAATAAT-T
*
143934 TAAT-ATAATAT
1 TATTAATAAT-T
143945 TATTAATAA--
1 TATTAATAATT
143954 TATTAATAATAT
1 TATTAATAAT-T
*
143966 TAAT-ATAATAT
1 TATTAATAAT-T
143977 TATTAATAA--
1 TATTAATAATT
143986 TATTAATAATT
1 TATTAATAATT
143997 TATTCAATA
1 TATT-AATA
144006 GCCATTAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
9 18 0.30
11 24 0.40
12 18 0.30
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (11 bp):
TATTAATAATT
Found at i:144381 original size:163 final size:163
Alignment explanation
Indices: 144192--144497 Score: 427
Period size: 163 Copynumber: 1.9 Consensus size: 163
144182 TAACTATTTG
144192 AATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTACCATAAAACAATTGTTTCAGT-TCA
1 AATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTACCATAAAACAATTGTTT-AGTATC-
* * * * * **
144256 ATA-AAACTTATCCAAAATAAAATAATATTACTTTATTACTATTTGAAAAATTGAGAAGTTGGAG
64 ATACAAACTTATCCAAAATAAAATAATACTAATTTATTAATATTTGAAAAATTAAGAACTAAGAG
144320 ATTTAAAAAATAAATTAGTTTATCGAATCAATTCA
129 ATTTAAAAAATAAATTAGTTTATCGAATCAATTCA
* * ** **
144355 AATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTATTATAAAACAATTGTTTTTTATCAT
1 AATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTACCATAAAACAATTGTTTAGTATCAT
* * * *
144420 ACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTTAAAAATTAATAACTAAGAGAT
66 ACAAACTTATCCAAAATAAAATAATACTAATTTATTAATATTTGAAAAATTAAGAACTAAGAGAT
144485 TTAAAAAATAAAT
131 TTAAAAAATAAAT
144498 CTATTTACCA
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
162 4 0.03
163 120 0.97
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (163 bp):
AATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTACCATAAAACAATTGTTTAGTATCAT
ACAAACTTATCCAAAATAAAATAATACTAATTTATTAATATTTGAAAAATTAAGAACTAAGAGAT
TTAAAAAATAAATTAGTTTATCGAATCAATTCA
Found at i:144539 original size:19 final size:19
Alignment explanation
Indices: 144512--144563 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
144502 TTACCAAACC
144512 AGTTTAAATAATTATAACT
1 AGTTTAAATAATTATAACT
* * *
144531 AGTTCAAATAGTTATTACT
1 AGTTTAAATAATTATAACT
*
144550 A-TTTAAACAATTAT
1 AGTTTAAATAATTAT
144564 CTATTTCAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (19 bp):
AGTTTAAATAATTATAACT
Found at i:144716 original size:199 final size:200
Alignment explanation
Indices: 144358--144720 Score: 514
Period size: 199 Copynumber: 1.8 Consensus size: 200
144348 CAATTCAAAT
* * * * * *
144358 AATTATTTATTTCAAATCATTATGACCTTTTGTTTTATTATAAAACAATTGTTTTTTATCATACA
1 AATTATCTATTTCAAATCATTATAACCTTTTGTTCTATCATAAAACAATTATTTTGTATCATACA
* * *** *
144423 AGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTTAAAAATTAATAACTAAGAGATTTA
66 AACTTATTCAAAATAAAATAATACTAATTTAATAATAGACTAAAAATTAATAACTAAAAGATTTA
*
144488 AAAAATAAATCTATTTACCAAACCAGTTTAAATAATTATAACTAGTTCAAATAGTTATTACTATT
131 AAAAATAAATCCATTTACCAAACCAGTTTAAATAATTATAACTAGTTCAAATAGTTATTACTATT
144553 TAAAC
196 TAAAC
**
144558 AATTATCTATTTCAAATTGTTATAACCTTTTGTTCTATCATAAAACAATTATTTATGT-TCATAC
1 AATTATCTATTTCAAATCATTATAACCTTTTGTTCTATCATAAAACAATTATTT-TGTATCATAC
* * *
144622 AAATTTATTCAAAA-AAAATAATACTAATTTAATAATAGACTAAAAATTCATAATTAAAAGATTT
65 AAACTTATTCAAAATAAAATAATACTAATTTAATAATAGACTAAAAATTAATAACTAAAAGATTT
* * *
144686 AAAAAATAAATCCATTTGCTAAATCAGTTTAAATA
130 AAAAAATAAATCCATTTACCAAACCAGTTTAAATA
144721 GTTAAGACTA
Statistics
Matches: 141, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
199 74 0.52
200 65 0.46
201 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.40
Consensus pattern (200 bp):
AATTATCTATTTCAAATCATTATAACCTTTTGTTCTATCATAAAACAATTATTTTGTATCATACA
AACTTATTCAAAATAAAATAATACTAATTTAATAATAGACTAAAAATTAATAACTAAAAGATTTA
AAAAATAAATCCATTTACCAAACCAGTTTAAATAATTATAACTAGTTCAAATAGTTATTACTATT
TAAAC
Found at i:144800 original size:3 final size:3
Alignment explanation
Indices: 144787--144838 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
144777 TTTATTAACT
*
144787 ATA ATTA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATT ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
144832 ATTA ATA
1 A-TA ATA
144839 GAATATTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:145706 original size:28 final size:30
Alignment explanation
Indices: 145675--145751 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 30
145665 ACGATAATTG
145675 TTATAATTAATTAATAATATATTA-ATA-T-
1 TTATAATTAATTAATAATA-ATTATATAGTA
* *
145703 TTAT-ATTAGTCTAATATTAATTATATAGTA
1 TTATAATTAAT-TAATAATAATTATATAGTA
*
145733 TTATGAATTAATTATTAAT
1 TTAT-AATTAATTAATAAT
145752 TAGAATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
27 9 0.24
28 14 0.37
29 1 0.03
30 4 0.11
31 5 0.13
32 5 0.13
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (30 bp):
TTATAATTAATTAATAATAATTATATAGTA
Found at i:145857 original size:19 final size:19
Alignment explanation
Indices: 145833--145873 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
145823 AAATATCACT
145833 TAATTTATAATAATATTAA
1 TAATTTATAATAATATTAA
** *
145852 TAATTTATTTTATTATTAA
1 TAATTTATAATAATATTAA
145871 TAA
1 TAA
145874 ATCTTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATTTATAATAATATTAA
Found at i:145889 original size:20 final size:19
Alignment explanation
Indices: 145847--145916 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 19
145837 TTATAATAAT
*
145847 ATTAATAAT-TTATTTTATT
1 ATTAATAATCTTA-TTTATA
145866 ATTAATAAATCTTATTTATA
1 ATTAAT-AATCTTATTTATA
*
145886 ATTATATTAA-CTTATTAATA
1 ATTA-A-TAATCTTATTTATA
145906 ATTAAATAATC
1 ATT-AATAATC
145917 AATCAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
19 9 0.21
20 26 0.60
21 7 0.16
22 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTAATAATCTTATTTATA
Found at i:146377 original size:18 final size:19
Alignment explanation
Indices: 146356--146406 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 19
146346 ATCTTATAAC
146356 ATATATTAAA-AATAATAT
1 ATATATTAAATAATAATAT
146374 ATATAACTTAAATAATAATAT
1 ATAT-A-TTAAATAATAATAT
146395 -TATA-TAAATAAT
1 ATATATTAAATAAT
146407 TATTTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.27
18 4 0.13
19 2 0.07
20 8 0.27
21 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATATTAAATAATAATAT
Found at i:146390 original size:21 final size:21
Alignment explanation
Indices: 146361--146401 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
146351 ATAACATATA
146361 TTAAAAATAATA-TATATAAC
1 TTAAAAATAATATTATATAAC
146381 TTAAATAATAATATTATATAA
1 TTAAA-AATAATATTATATAA
146402 ATAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAATAATATTATATAAC
Found at i:146408 original size:12 final size:12
Alignment explanation
Indices: 146368--146435 Score: 52
Period size: 12 Copynumber: 5.7 Consensus size: 12
146358 ATATTAAAAA
146368 TAATATATATAACT
1 TAAT-TATATAA-T
*
146382 TAAATA-ATAA-
1 TAATTATATAAT
*
146392 T-ATTATATAAA
1 TAATTATATAAT
* *
146403 TAATTATTTATT
1 TAATTATATAAT
146415 TAATTATATAAT
1 TAATTATATAAT
146427 TAAATTATA
1 T-AATTATA
146436 GTTAAAACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 3 0.07
10 5 0.12
11 1 0.02
12 22 0.51
13 9 0.21
14 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATTATATAAT
Found at i:146602 original size:13 final size:13
Alignment explanation
Indices: 146584--146608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
146574 TAAATGACTA
146584 ATTAATTATAAAG
1 ATTAATTATAAAG
146597 ATTAATTATAAA
1 ATTAATTATAAA
146609 ATTGTATATA
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
ATTAATTATAAAG
Found at i:146715 original size:17 final size:17
Alignment explanation
Indices: 146693--146729 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
146683 ATTAACTATA
146693 ATATTATTTAAAATTAT
1 ATATTATTTAAAATTAT
* *
146710 ATATTATTTTATATTAT
1 ATATTATTTAAAATTAT
146727 ATA
1 ATA
146730 ACCATATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTATTTAAAATTAT
Found at i:147582 original size:16 final size:16
Alignment explanation
Indices: 147561--147593 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
147551 TAACTTAATT
147561 ATTTACT-TTAATATTA
1 ATTTACTATT-ATATTA
147577 ATTTACTATTATATTA
1 ATTTACTATTATATTA
147593 A
1 A
147594 AACAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTACTATTATATTA
Found at i:147623 original size:20 final size:22
Alignment explanation
Indices: 147584--147636 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
147574 TTAATTTACT
147584 ATTATATTAAAACAAAATATTTG
1 ATTATA-TAAAACAAAATATTTG
*
147607 ATT-TATAAAAC-AAATATTTT
1 ATTATATAAAACAAAATATTTG
147627 ATTATATAAA
1 ATTATATAAA
147637 TGAAACTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 11 0.39
21 12 0.43
22 2 0.07
23 3 0.11
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTATATAAAACAAAATATTTG
Found at i:148498 original size:19 final size:19
Alignment explanation
Indices: 148423--148499 Score: 61
Period size: 21 Copynumber: 3.9 Consensus size: 19
148413 ATAATAAATT
*
148423 TAATTATT-TAGTTATAAT-
1 TAATTATTATAG-AATAATA
* *
148441 TAAATATTATAAATATAATAA
1 TAATTATTATAGA-ATAAT-A
148462 TAA-TATATATATGAATAATA
1 TAATTAT-TATA-GAATAATA
148482 TAATTATTATAGAATAAT
1 TAATTATTATAGAATAAT
148500 GTCAAATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
18 7 0.15
19 14 0.29
20 11 0.23
21 15 0.31
22 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
TAATTATTATAGAATAATA
Found at i:148678 original size:48 final size:47
Alignment explanation
Indices: 148567--148681 Score: 119
Period size: 48 Copynumber: 2.4 Consensus size: 47
148557 TAAATATGAT
* * *
148567 TATATTGGAAATATTA--ATAATAATTAAAATTATTACTATTAGTTA
1 TATATTGGTAATATTATTATTATAATTAAAATTATTACTATTAGTAA
* * * *
148612 TATTTTGCTATTATTTATTATTATAATTAATATTATTACTATTA-TAA
1 TATATTGGTAATA-TTATTATTATAATTAAAATTATTACTATTAGTAA
148659 TAATAATTGGTAATATTATTATT
1 T-AT-ATTGGTAATATTATTATT
148682 TAAACTAACT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
45 9 0.16
46 3 0.05
47 3 0.05
48 33 0.60
49 7 0.13
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (47 bp):
TATATTGGTAATATTATTATTATAATTAAAATTATTACTATTAGTAA
Found at i:148843 original size:24 final size:22
Alignment explanation
Indices: 148816--148885 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 22
148806 ATAATAATAA
148816 TAATATATAATTTAATAATTTATT
1 TAAT-TATAATTT-ATAATTTATT
148840 TAATTATAAATATTATAATTTA--
1 TAATTAT-AAT-TTATAATTTATT
148862 TAATTATAGA-TTATAATTTATT
1 TAATTATA-ATTTATAATTTATT
148884 TA
1 TA
148886 TCCCAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
20 10 0.24
21 1 0.02
22 10 0.24
23 3 0.07
24 15 0.37
25 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
TAATTATAATTTATAATTTATT
Found at i:148864 original size:7 final size:7
Alignment explanation
Indices: 148815--148882 Score: 52
Period size: 7 Copynumber: 9.3 Consensus size: 7
148805 AATAATAATA
*
148815 ATAATAT
1 ATAATTT
148822 ATAATTT
1 ATAATTT
148829 AATAATTT
1 -ATAATTT
148837 ATTTAA-TT
1 A--TAATTT
148845 ATAAATATT
1 AT-AAT-TT
148854 ATAATTT
1 ATAATTT
148861 ATAA-TT
1 ATAATTT
148867 ATAGA-TT
1 ATA-ATTT
148874 ATAATTT
1 ATAATTT
148881 AT
1 AT
148883 TTATCCCAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
6 7 0.13
7 25 0.48
8 13 0.25
9 7 0.13
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (7 bp):
ATAATTT
Found at i:149058 original size:11 final size:12
Alignment explanation
Indices: 148994--149080 Score: 56
Period size: 12 Copynumber: 7.1 Consensus size: 12
148984 AAATTAATAT
*
148994 TTATGTATTGTAA
1 TTATATATT-TAA
149007 TTATA-ATTTAAAA
1 TTATATATTT--AA
*
149020 TTATATAATTAA
1 TTATATATTTAA
*
149032 -TATATTGTTATTAA
1 TTATA-T-AT-TTAA
149046 TTA-ATATTTAA
1 TTATATATTTAA
149057 TTATATATTTAA
1 TTATATATTTAA
*
149069 ATATA-ATTTAA
1 TTATATATTTAA
149080 T
1 T
149081 AATGATAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
11 18 0.31
12 19 0.32
13 12 0.20
14 8 0.14
15 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
TTATATATTTAA
Found at i:149060 original size:18 final size:20
Alignment explanation
Indices: 149018--149076 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 20
149008 TATAATTTAA
149018 AATTATATAATTAATATATT
1 AATTATATAATTAATATATT
*
149038 -GTTAT-TAATTAATAT-TT
1 AATTATATAATTAATATATT
*
149055 AATTATATATTTAA-ATA-T
1 AATTATATAATTAATATATT
149073 AATT
1 AATT
149077 TAATAATGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 2 0.06
18 21 0.64
19 10 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
AATTATATAATTAATATATT
Found at i:149257 original size:24 final size:24
Alignment explanation
Indices: 149225--149271 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
149215 TTATTATATG
149225 TTATAAATATCATATATTA-ATAAC
1 TTATAAATATCATAT-TTATATAAC
* *
149249 TTATGAATATTATATTTATATAA
1 TTATAAATATCATATTTATATAA
149272 TAATTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
TTATAAATATCATATTTATATAAC
Found at i:149730 original size:13 final size:15
Alignment explanation
Indices: 149702--149750 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 15
149692 ATATATTCAT
149702 TTTAATAATATATAA
1 TTTAATAATATATAA
149717 TTTAA-AAT-TATAA
1 TTTAATAATATATAA
149730 TTTATATAATAATATATA
1 TTTA-ATAAT-ATATA-A
149748 TTT
1 TTT
149751 TCTAAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.31
14 4 0.14
15 8 0.28
17 4 0.14
18 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTAATAATATATAA
Found at i:150281 original size:166 final size:167
Alignment explanation
Indices: 150011--150348 Score: 642
Period size: 166 Copynumber: 2.0 Consensus size: 167
150001 TATTTTATTA
150011 TTAAATTAATATCTAATTAACTATTATAAATAATAATATATATTATATTATAAAACATTAAAATA
1 TTAAATTAATATCTAATTAACTATTATAAATAATAATATATATTATATTATAAAACATTAAAATA
150076 ATAGTATACAACTTATATAATTTATTTTATTATGATAAAAATATTCATAATAATTATTATAATAT
66 ATAGTATACAACTTATATAATTTATTTTATTATGATAAAAATATTCATAATAATTATTATAATAT
150141 ATAATTTTATATATTACAAGATAATTGTTTATTATAT
131 ATAATTTTATATATTACAAGATAATTGTTTATTATAT
*
150178 TTAAATTAGTATCTAATTAACTATTATAAATAATAATATATATTATATTAT-AAACATTAAAATA
1 TTAAATTAATATCTAATTAACTATTATAAATAATAATATATATTATATTATAAAACATTAAAATA
150242 ATAGTATACAACTTATATAATTTATTTTATTATGATAAAAATATTCATAATAATTATTATAATAT
66 ATAGTATACAACTTATATAATTTATTTTATTATGATAAAAATATTCATAATAATTATTATAATAT
* *
150307 TTAATTTTATATATTATAAGATAATTGTTTATTATAT
131 ATAATTTTATATATTACAAGATAATTGTTTATTATAT
150344 TTAAA
1 TTAAA
150349 ATAAAATGAT
Statistics
Matches: 168, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
166 118 0.70
167 50 0.30
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (167 bp):
TTAAATTAATATCTAATTAACTATTATAAATAATAATATATATTATATTATAAAACATTAAAATA
ATAGTATACAACTTATATAATTTATTTTATTATGATAAAAATATTCATAATAATTATTATAATAT
ATAATTTTATATATTACAAGATAATTGTTTATTATAT
Found at i:150495 original size:18 final size:18
Alignment explanation
Indices: 150472--150523 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
150462 TTTTAACATA
150472 ATATAAAATTATTATAAT
1 ATATAAAATTATTATAAT
* *
150490 ATATAACATTATAAT-AT
1 ATATAAAATTATTATAAT
150507 ATATAATAATT-TTATAA
1 ATATAA-AATTATTATAA
150524 AATAACTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAAAATTATTATAAT
Found at i:150556 original size:22 final size:22
Alignment explanation
Indices: 150498--150562 Score: 55
Period size: 24 Copynumber: 2.9 Consensus size: 22
150488 ATATATAACA
150498 TTATAATATATATAATA--A-TT
1 TTATAATAT-TATAATACTATTT
* *
150518 TTATAAAATAACTTAATACTATTT
1 TTATAATATTA--TAATACTATTT
150542 TTATAATATTATAATAACTAT
1 TTATAATATTATAAT-ACTAT
150563 AAAGAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.03
20 8 0.23
21 5 0.14
22 4 0.11
23 6 0.17
24 11 0.31
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATAATATTATAATACTATTT
Found at i:150571 original size:43 final size:43
Alignment explanation
Indices: 150498--150602 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
150488 ATATATAACA
* * *
150498 TTATAATATATATAATAATTTTATAAAATAACTTAATACTATT-T
1 TTATAATAT-TATAATAACTATATAAAATAA-ATAATACTATTGT
*
150542 TTATAATATTATAATAACTATA-AAGAATAAATAATATTATTGT
1 TTATAATATTATAATAACTATATAA-AATAAATAATACTATTGT
150585 TTATTATATAATTATAAT
1 TTA-TA-AT-ATTATAAT
150603 TAATATTTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
42 11 0.21
43 20 0.38
44 11 0.21
45 2 0.04
46 8 0.15
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (43 bp):
TTATAATATTATAATAACTATATAAAATAAATAATACTATTGT
Found at i:150767 original size:23 final size:23
Alignment explanation
Indices: 150740--150790 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
150730 AATTAATTAA
*
150740 AATTAAT-TATTAATATTAATATT
1 AATTAATATATTAA-ATAAATATT
* *
150763 TATTATTATATTAAATAAATATT
1 AATTAATATATTAAATAAATATT
150786 AATTA
1 AATTA
150791 TAATATATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTAATATATTAAATAAATATT
Found at i:150779 original size:19 final size:19
Alignment explanation
Indices: 150731--150804 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 19
150721 ATACTAATAA
150731 ATTA-ATTAAA-ATTAATT
1 ATTATATTAAATATTAATT
*
150748 ATTAATATT-AATATTTATT
1 ATT-ATATTAAATATTAATT
150767 ATTATATTAAATA--AA-T
1 ATTATATTAAATATTAATT
150783 ATTA-ATTATAATATATAATT
1 ATTATATTA-AATAT-TAATT
150803 AT
1 AT
150805 ATTGTGTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
15 4 0.09
16 9 0.20
17 4 0.09
18 8 0.17
19 18 0.39
20 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTATATTAAATATTAATT
Found at i:150805 original size:13 final size:12
Alignment explanation
Indices: 150747--150805 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
150737 TAAAATTAAT
150747 TATTAA-TATTAA
1 TATTAATTA-TAA
* *
150759 TATTTATTATTA
1 TATTAATTATAA
*
150771 TATTAAATA-AA
1 TATTAATTATAA
150782 TATTAATTATAA
1 TATTAATTATAA
150794 TATATAATTATA
1 TAT-TAATTATA
150806 TTGTGTTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 9 0.24
12 19 0.50
13 10 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATTAATTATAA
Found at i:151442 original size:10 final size:10
Alignment explanation
Indices: 151358--151462 Score: 55
Period size: 10 Copynumber: 10.6 Consensus size: 10
151348 ATACTATTTT
151358 ATTAT-TAT-
1 ATTATATATA
151366 ATTATATA-A
1 ATTATATATA
151375 A-TATA-ATA
1 ATTATATATA
* *
151383 CTTATATTTA
1 ATTATATATA
151393 ATCTATAT-TAA
1 AT-TATATAT-A
151404 ATTAGTATAATCTA
1 ATTA-TAT-A--TA
151418 ATTA-AGTAT-
1 ATTATA-TATA
*
151427 ATTATATAAA
1 ATTATATATA
151437 ATTATATATA
1 ATTATATATA
*
151447 ATTATGTATA
1 ATTATATATA
151457 ATTATA
1 ATTATA
151463 AGTTTCAAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 28
0.68 0.06 0.25
Matches are distributed among these distances:
7 1 0.01
8 10 0.13
9 13 0.17
10 31 0.41
11 11 0.15
12 2 0.03
13 1 0.01
14 5 0.07
15 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (10 bp):
ATTATATATA
Found at i:151557 original size:21 final size:21
Alignment explanation
Indices: 151525--151565 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
151515 ATTGTACTAA
*
151525 ATTATAATTTATATAATTAAT
1 ATTATAATTTATAAAATTAAT
151546 ATTATTAA-TTATAAAATTAA
1 ATTA-TAATTTATAAAATTAA
151566 AAAATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTATAATTTATAAAATTAAT
Found at i:151989 original size:180 final size:180
Alignment explanation
Indices: 151718--152611 Score: 789
Period size: 181 Copynumber: 5.0 Consensus size: 180
151708 TTGTTGAATT
* * * * *
151718 AGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCGTTTTGACCTTTTGTTTAGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACC-TTTGTTTTGT
* ** * * *
151783 CATAAAATAATTGCTTCAAC-TCATA-AATGCTTATTCAAAATAAAATAATACTAATTTATTAAC
65 CATAAAACAATTG-TTTTACTTCATACAA-GCTTATTCGAAATAAAATAATATTAATTTATTAAT
151846 ATTCAAAAAATGATTAAGTAAGA-AATTAGAAAAA-AAATCTATTTACCGAA-CA
128 ATT-AAAAAATGATTAAGTAAGAGAATTA-AAAAATAAATCTATTTACCGAACCA
* * * * *
151898 AGTTCAAATATTTTTGACTATTTGAACAATTATCTATTTAAAATCGTTATGACCTTATATTTTAT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTT-TGTTTTGT
* * * *
151963 CATAAAATAATTGTTTTAGTTCATAAAAGCTTA-TCTGAAATAAAATAATATTACTTTATTAATA
65 CATAAAACAATTGTTTTACTTCATACAAGCTTATTC-GAAATAAAATAATATTAATTTATTAATA
* * * * *
152027 TTATAAAAATTGA-TAAGTTAGAGATTTAAAACATAAATC-AGTTTATCGAATC-
129 TTA-AAAAA-TGATTAAGTAAGAGAATTAAAAAATAAATCTA-TTTACCGAACCA
* * * * * * * *
152079 AGTTCAAATAATTATGGCCATTTAAACAATTATCTATTTCAAATCATTATGAACTTTTTTTTGTT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTGTTTTGTC
* * *
152144 ATAAAACAATTGTTTTTCATCATACAAGCCTATTC-AGAATAAAATAATATTAATTTATTAATAT
66 ATAAAACAATTGTTTTACTTCATACAAGCTTATTCGA-AATAAAATAATATTAATTTATTAATA-
* * * * * * * ** **
152208 TTGAAAAATTAATAAGTAGGAGATTTAAAAAATAAATATGTTTATAGAA-TT
129 TTAAAAAATGATTAAGTAAGAGAATTAAAAAATAAATCTATTTACCGAACCA
* * * *
152259 AGTTAAAATAGTTATGACTATTTGAACAATTATATATTTTC-AATCATTATAACCTTTTGTTTTG
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTA-TTTCAAATCGTTATGACC-TTTGTTTTG
* * * *
152323 TCATAAAACAATT-ATTTATCTTCATACAAGCTTATTCGAAATAAAATAATACTAATCTAGTAAT
64 TCATAAAACAATTGTTTTA-CTTCATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAAT
* * * * * * * * * * *
152387 ATTATGAAATTTAATAACTGATAGATTTAAAAAATAAATTTATTCACTGAACCA
128 ATTA-AAAAATGATTAAGTAAGAGAATTAAAAAATAAATCTATTTACCGAACCA
* * * * *
152441 A-TTCAAATAGTTAAGGCTATATGGATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACC-TTTGTTTTGT
* * * *
152505 CATAAAACAAATGTTTTTA-TTCATATAAGTTTGTTCGAAATAAAATAATATTAATTTATTAATA
65 CATAAAACAATTG-TTTTACTTCATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATA
** * *
152569 TTTCAAAA--ATTAA-TAAGAGATTTAATAAATAAATCTATTTACC
129 TTAAAAAATGATTAAGTAAGAGAATTAAAAAATAAATCTATTTACC
152612 ATACTTGTTT
Statistics
Matches: 583, Mismatches: 106, Indels: 53
0.79 0.14 0.07
Matches are distributed among these distances:
177 24 0.04
178 4 0.01
179 11 0.02
180 264 0.45
181 273 0.47
182 3 0.01
183 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTGTTTTGTC
ATAAAACAATTGTTTTACTTCATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATT
AAAAAATGATTAAGTAAGAGAATTAAAAAATAAATCTATTTACCGAACCA
Found at i:152366 original size:361 final size:361
Alignment explanation
Indices: 151745--152585 Score: 921
Period size: 361 Copynumber: 2.3 Consensus size: 361
151735 CTATTAGAAT
* * * *
151745 AATTATCTATTTCAAATCGTTTTGACCTTTTGTTTAGTCATAAAATAATTG--CTTCAACTCATA
1 AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTC-ACTCATA
* * * * * *
151808 AATGCTTATTCAAAATAAAATAATACTAATTTATTAACATTCAAAAAATGATTAAGTAAGAAATT
65 AA-GCTTATTCAGAATAAAATAATATTAATTTATTAATATTTAAAAAATTAATAAGTAAGAAATT
* * * * * *
151873 AGAAAAAAAATCTATTTACCGAACAAGTTCAAATATTTTTGACTATTTGAACAATTATCTATTTA
129 AGAAAAAAAATATATTTACAGAACAAGTTAAAATAGTTATGACTATTTGAACAATTATATATTTA
* * * * *
151938 AAATCGTTATGACCTTATATTTTATCATAAAATAATTGTTTTAGTTCATAAAAGCTTATCTGAAA
194 AAATCATTATAACCTTATATTTTATCATAAAACAATTATTTTACTTCATAAAAGCTTATCTGAAA
* * * * * * * *
152003 TAAAATAATATTACTTTATTAATATTATAAAAATTGATAAGTTAGAGATTTAAAACATAAA-TCA
259 TAAAATAATACTAATCTAGTAATATTATAAAAATTAATAACTGAGAGATTTAAAAAATAAATTCA
* * * * *
152067 GTTTA-TCGAATCAGTTCAAATAATTATGGCCATTTAAAC
324 -TTCACT-GAACCAATTCAAATAATTAAGGCCATATAAAC
* * *
152106 AATTATCTATTTCAAATCATTATGAACTTTT-TTTTGTTATAAAACAATTGTTTTTCA-TCATAC
1 AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTCACTCATA-
* * * *
152169 AAGCCTATTCAGAATAAAATAATATTAATTTATTAATATTTGAAAAATTAATAAGTAGGAGATTT
65 AAGCTTATTCAGAATAAAATAATATTAATTTATTAATATTTAAAAAATTAATAAGTAAGA-AATT
* * **
152234 A-AAAAATAAATATGTTTATAGAATTAGTTAAAATAGTTATGACTATTTGAACAATTATATATTT
129 AGAAAAA-AAATATATTTACAGAACAAGTTAAAATAGTTATGACTATTTGAACAATTATATATTT
** * * * *
152298 TCAATCATTATAACCTTTTGTTTTGTCATAAAACAATTA-TTTATCTTCATACAAGCTTAT-TCG
193 AAAATCATTATAACCTTATATTTTATCATAAAACAATTATTTTA-CTTCATAAAAGCTTATCT-G
* * *
152361 AAATAAAATAATACTAATCTAGTAATATTATGAAATTTAATAACTGATAGATTTAAAAAATAAAT
256 AAATAAAATAATACTAATCTAGTAATATTATAAAAATTAATAACTGAGAGATTTAAAAAATAAAT
* * * ** *
152426 TTATTCACTGAACCAATTCAAATAGTTAAGGCTATATGGAT
321 TCATTCACTGAACCAATTCAAATAATTAAGGCCATATAAAC
* *
152467 AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAAATGTTTTT-ATTCATAT
1 AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTCACTCATA-
* * *
152531 AAGTTTGTTC-GAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAG
65 AAGCTTATTCAG-AATAAAATAATATTAATTTATTAATATTTAAAAAATTAATAAG
152586 AGATTTAATA
Statistics
Matches: 399, Mismatches: 69, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
360 80 0.20
361 237 0.59
362 82 0.21
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (361 bp):
AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTCACTCATAA
AGCTTATTCAGAATAAAATAATATTAATTTATTAATATTTAAAAAATTAATAAGTAAGAAATTAG
AAAAAAAATATATTTACAGAACAAGTTAAAATAGTTATGACTATTTGAACAATTATATATTTAAA
ATCATTATAACCTTATATTTTATCATAAAACAATTATTTTACTTCATAAAAGCTTATCTGAAATA
AAATAATACTAATCTAGTAATATTATAAAAATTAATAACTGAGAGATTTAAAAAATAAATTCATT
CACTGAACCAATTCAAATAATTAAGGCCATATAAAC
Found at i:152389 original size:181 final size:181
Alignment explanation
Indices: 151673--152585 Score: 902
Period size: 180 Copynumber: 5.1 Consensus size: 181
151663 AAATATTGCT
* * * * * *
151673 AAATTAATAAGTAAG-GATTTAAAAAACAAATGTGTTTGTTGAATTAGTTCAAATAGTTAAGACT
1 AAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTATCGAATCAGTTCAAATAGTTATGACT
* * * * * * *
151737 ATTAGAATAATTATCTATTTCAAATCGTTTTGACCTTTTGTTTAGTCATAAAATAATTGCTTCAA
66 ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTG-TTTAT
* * * **
151802 C-TCATA-AATGCTTATTCAAAATAAAATAATACTAATTTATTAACATTCAAA
130 CTTCATACAA-GCTTATTCGAAATAAAATAATATTAATTTATTAATATTTGAA
* * * * * * * *
151853 AAATGATTAAGTAAGA-AATTAGAAAAA-AAATCTATTTACCGAA-CAAGTTCAAATATTTTTGA
1 AAATTAATAAGTAAGAGATTTA-AAAAATAAATATGTTTATCGAATC-AGTTCAAATAGTTATGA
* * * * *
151915 CTATTTGAACAATTATCTATTTAAAATCGTTATGACCTTATATTTTATCATAAAATAATTGTTT-
64 CTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTA
* * *
151979 TAGTTCATAAAAGCTTA-TCTGAAATAAAATAATATTACTTTATTAATATTAT-AA
129 T-CTTCATACAAGCTTATTC-GAAATAAAATAATATTAATTTATTAATATT-TGAA
* * * * *
152033 AAATTGATAAGTTAGAGATTTAAAACATAAATCA-GTTTATCGAATCAGTTCAAATAATTATGGC
1 AAATTAATAAGTAAGAGATTTAAAAAATAAAT-ATGTTTATCGAATCAGTTCAAATAGTTATGAC
* * * * * *
152097 CATTTAAACAATTATCTATTTCAAATCATTATGAACTTTT-TTTTGTTATAAAACAATTGTTTTT
65 TATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTAT
* *
152161 CATCATACAAGCCTATTC-AGAATAAAATAATATTAATTTATTAATATTTGAA
130 CTTCATACAAGCTTATTCGA-AATAAAATAATATTAATTTATTAATATTTGAA
* * * *
152213 AAATTAATAAGTAGGAGATTTAAAAAATAAATATGTTTATAGAATTAGTTAAAATAGTTATGACT
1 AAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTATCGAATCAGTTCAAATAGTTATGACT
* * * *
152278 ATTTGAACAATTATATATTTTC-AATCATTATAACCTTTTGTTTTGTCATAAAACAATTATTTAT
66 ATTTGAACAATTATCTA-TTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTAT
* * *
152342 CTTCATACAAGCTTATTCGAAATAAAATAATACTAATCTAGTAATATTATG-A
130 CTTCATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATT-TGAA
* * * * * * * * * * *
152394 AATTTAATAACTGATAGATTTAAAAAATAAATTTATTCA-CTGAACCAATTCAAATAGTTAAGGC
1 AAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTATC-GAATCAGTTCAAATAGTTATGAC
* * * * *
152458 TATATGGATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAAATGTTTTT
65 TATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTAT
* * * * *
152523 ATTCATATAAGTTTGTTCGAAATAAAATAATATTAATTTATTAATATTTCAA
130 CTTCATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTGAA
152575 AAATTAATAAG
1 AAATTAATAAG
152586 AGATTTAATA
Statistics
Matches: 599, Mismatches: 110, Indels: 47
0.79 0.15 0.06
Matches are distributed among these distances:
179 7 0.01
180 296 0.49
181 292 0.49
182 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (181 bp):
AAATTAATAAGTAAGAGATTTAAAAAATAAATATGTTTATCGAATCAGTTCAAATAGTTATGACT
ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTATC
TTCATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTGAA
Found at i:154020 original size:181 final size:177
Alignment explanation
Indices: 153603--154310 Score: 561
Period size: 181 Copynumber: 4.0 Consensus size: 177
153593 TTTATTGAAC
* * * * * * * *
153603 AAAATTTA-AATAAGTGATTTAAAAAGT-GAATATGTTTACCAAATCAGTTTAAATAATTATGGC
1 AAAATTAATAATAAGAGATTTAAAAAATAAAATATGTTTA-CTAA-CAGTTCAAATAGTTATGAC
* ** * * * * * * *
153666 CATTTCAATAATTATCTATTTCAAATTATTCTTACC-TTTGTTTGGTCATAATGACAATTGTTTT
64 TATTAGAACAATTATCTATTTCAAATTATTATAACCTTTTGTTTTGTCATAA-AACAAGTATTTT
* * * *
153730 TGATCATACAAGCTTATTTGGAATAAAATAATACTAATTTTATTAATCTTTCA
128 T-TTCATACAAGCTTATTTGAAATAAAATAATACTAA-TCTATTAATATTT-A
* *
153783 AAAATTAATAAGTAAGAGATTTAAAAAA-ATAAATCA-GTTTACAAAACAATTCAAATAGTTATG
1 AAAATTAATAA-TAAGAGATTTAAAAAATA-AAAT-ATGTTTAC-TAACAGTTCAAATAGTTATG
* * * * * *
153846 ACTATTAGAACAGTTGTATACTTCAAATTGTTATAACCTTTTGTTTTGTCATAATACAAGTATTT
62 ACTATTAGAACAATTATCTATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAACAAGTATTT
* * *
153911 CTTTTCATACAAGCTTATTTGAAATAAAATAAAACTAATCTAATAATATTATG
127 -TTTTCATACAAGCTTATTTGAAATAAAATAATACTAATCTATTAATATT-TA
** **
153964 AAAATTAATAACTAAGAGATTTAAAAAATAAAAT-TGTTTGTTGAACTAGTTCAAATAGTTAAAA
1 AAAATTAATAA-TAAGAGATTTAAAAAATAAAATATGTTTACT-AAC-AGTTCAAATAGTTATGA
* *
154028 CTA-TATGAATAATTATCTATTTCAAATCATTATAACCTTTTGTTTTGTCATAAAACAA-TATTT
63 CTATTA-GAACAATTATCTATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAACAAGTATTT
* * * * *
154091 TCAATTCATACTAGCTTATTT-AGATTAAAATAATA--AATTTATTAAAATTTCA
127 T--TTTCATACAAGCTTATTTGA-AATAAAATAATACTAATCTATTAATATTT-A
* * * * * *
154143 AAAA-T--TAATAAGAGAATT-AAAAAT--ATTATATTTACCTAACCAGTTTAAAGAATTATGAC
1 AAAATTAATAATAAGAGATTTAAAAAATAAAATATGTTTA-CTAA-CAGTTCAAATAGTTATGAC
* * * *
154202 TATTTGAACAATTATCTATTTCAAATTGTTATGACTTTTTGTTTTGTCATAAAACTAATGT-TTT
64 TATTAGAACAATTATCTATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAAC-AA-GTATTT
* * *
154266 TGTTCATATAAGTTTATTTGAAATAAAATAATACTAATCTATTAA
127 TTTTCATACAAGCTTATTTGAAATAAAATAATACTAATCTATTAA
154311 AATAATACTA
Statistics
Matches: 425, Mismatches: 75, Indels: 61
0.76 0.13 0.11
Matches are distributed among these distances:
172 2 0.00
173 91 0.21
174 12 0.03
175 22 0.05
176 4 0.01
178 2 0.00
179 16 0.04
180 22 0.05
181 129 0.30
182 97 0.23
183 27 0.06
184 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (177 bp):
AAAATTAATAATAAGAGATTTAAAAAATAAAATATGTTTACTAACAGTTCAAATAGTTATGACTA
TTAGAACAATTATCTATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAACAAGTATTTTTTT
CATACAAGCTTATTTGAAATAAAATAATACTAATCTATTAATATTTA
Found at i:154424 original size:225 final size:217
Alignment explanation
Indices: 154098--154535 Score: 687
Period size: 225 Copynumber: 2.0 Consensus size: 217
154088 TTTTCAATTC
* * *
154098 ATACTAGCTTATTTAGATTAAAATAATAAATTTATTAAAATTTCAAAAATTAATAAGAGAATTAA
1 ATACTAGCTTATTTAGAATAAAATAATAAAATGATTAAAATTTCAAAAATTAATAAGAGAATTAA
154163 AAATATTATATTTACCTAACCAGTTTAAAGAATTATGACTATTTGAACAATTATCTATTTCAAAT
66 AAATATTATATTTACCTAACCAGTTTAAAGAATTATGACTATTTGAACAATTATCTATTTCAAAT
** *
154228 TGTTATGACTTTTTGTTTTGTCATAAAACTAATGTTTTTGTTCATATAAGTTTATTTGAAATAAA
131 TGTTATGACCATTTGTTTTGTCATAAAACTAATGTTTTTGTTCATACAAGTTTATTTGAAATAAA
* *
154293 ATAATACTAATCTATTAAAATA
196 ACAATACTAATATATTAAAATA
154315 ATACTAGCTTATTTAGAATAAAATAAAATAAAATGATTAAAATTTCAAAAATTAATAAGTAAGAG
1 ATACTAGCTTATTTAGAATAAAAT--AATAAAATGATTAAAATTTCAAAAA-T--TAA-TAAGAG
* * *
154380 AATTAAAAAATAATTATGTTTACCTAAGCAGTTTAAATAATTATGACTATTTGAACAATTATCTA
60 AATT-AAAAAT-ATTATATTTACCTAACCAGTTTAAAGAATTATGACTATTTGAACAATTATCTA
* *
154445 TTTCAAATTGTTATGACCATTTGTTTTGTCATAAAACTAATGTTTTTGTTCTTACAAGTTTGTTT
123 TTTCAAATTGTTATGACCATTTGTTTTGTCATAAAACTAATGTTTTTGTTCATACAAGTTTATTT
154510 GAAATAAAACAATACTAATATATTAA
188 GAAATAAAACAATACTAATATATTAA
154536 TATTTCAAAA
Statistics
Matches: 200, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
217 23 0.12
219 23 0.12
220 1 0.00
222 3 0.01
223 10 0.05
224 6 0.03
225 134 0.67
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.40
Consensus pattern (217 bp):
ATACTAGCTTATTTAGAATAAAATAATAAAATGATTAAAATTTCAAAAATTAATAAGAGAATTAA
AAATATTATATTTACCTAACCAGTTTAAAGAATTATGACTATTTGAACAATTATCTATTTCAAAT
TGTTATGACCATTTGTTTTGTCATAAAACTAATGTTTTTGTTCATACAAGTTTATTTGAAATAAA
ACAATACTAATATATTAAAATA
Found at i:154903 original size:181 final size:181
Alignment explanation
Indices: 154671--155144 Score: 431
Period size: 181 Copynumber: 2.6 Consensus size: 181
154661 CTATTTATTC
* * *
154671 AAGCTTATTC-AGATTAAAATAATATAAATTTATTAATATTTTGACAATTAATAAGTAA-AAATG
1 AAGCTTATTCGA-AATAAAATAATATAAAGTTATTAATATTTTGAAAATTAATAAGTAAGAAATG
* * * * * *
154734 TAAAAAATTAAATATGTTTATTGAACTAGATCCAACAGTTATGACTATTTGAATAATTATCTATT
65 TAAAAAA-TAAATATGTTTACTGAACAAGATCAAACAATTATAACTATTTGAAAAATTATCTATT
* * *
154799 TCAAATCGTTATGACCTTTT-CTTCTATCATAAAAAAATTATTTCAATTCATAT
129 GCAAATCGCTATAACCTTTTGCTT-TATCATAAAAAAATTATTTCAATTCATAT
* * * *
154852 AAGCTTATTCGAAATAAAATAATATTAAGTTATTAATATTTTGAAAATTAATAATTAAGAGATTT
1 AAGCTTATTCGAAATAAAATAATATAAAGTTATTAATATTTTGAAAATTAATAAGTAAGAAATGT
* * * * * * * *
154917 AAAAAATGAATCTGTTTACTGAACAAGTTTAAATAATTATAATTATTTGAAAAATTATTTATTGG
66 AAAAAATAAATATGTTTACTGAACAAGATCAAACAATTATAACTATTTGAAAAATTATCTATTGC
* * ** * **
154982 AAATTGCTATAACCTTTTGCTTTGTCATAAAATGATTTTTTCTGTTCATAT
131 AAATCGCTATAACCTTTTGCTTTATCATAAAAAAATTATTTCAATTCATAT
* * * * ** * *
155033 AAGCTTATTTTG-AATAAAATAATACATATTTATTAA-ATTAAGACAATTAATAAATAA-AAGAT
1 AAGCTTA-TTCGAAATAAAATAATATAAAGTTATTAATATTTTGAAAATTAATAAGTAAGAA-AT
* * * * * * * *
155095 -TTAAAAATAATTCTATTTACTGAACAAGTTCAAATAATTATGACTTTTTG
64 GTAAAAAATAAATATGTTTACTGAACAAGATCAAACAATTATAACTATTTG
155145 TTTTGTCATA
Statistics
Matches: 239, Mismatches: 49, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
179 43 0.18
180 19 0.08
181 160 0.67
182 17 0.07
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (181 bp):
AAGCTTATTCGAAATAAAATAATATAAAGTTATTAATATTTTGAAAATTAATAAGTAAGAAATGT
AAAAAATAAATATGTTTACTGAACAAGATCAAACAATTATAACTATTTGAAAAATTATCTATTGC
AAATCGCTATAACCTTTTGCTTTATCATAAAAAAATTATTTCAATTCATAT
Found at i:155155 original size:144 final size:146
Alignment explanation
Indices: 154996--155290 Score: 359
Period size: 144 Copynumber: 2.0 Consensus size: 146
154986 TGCTATAACC
** **
154996 TTTTGCTTTGTCATAAAATGATT-TTTTCTGTTCATA-TAAGCTTATTTTGAATAAAATAATACA
1 TTTTGCTTTGTCATAAAACAATTGTTTT-TGTTCATACT-AGCTTATTCAGAATAAAATAATA-A
* *
155059 T-ATTTATTAA-A-TTAAGACAATTAATAAATAAAAGATTT-AAAAATAATTCTATTTACTGAAC
63 TAATTTATTAATATTTAA-ACAATTAATAAATAAAAGATTTAAAAAATAAATATATTTACTGAAC
*
155120 AAGTTCAAATAATTATGACT
127 AAGTTCAAATAATCATGACT
* *
155140 TTTTGTTTTGTCATAAAACAATTGTTTTTGTTCATACTAGCTTATTCAGAATAAAATAATATTAA
1 TTTTGCTTTGTCATAAAACAATTGTTTTTGTTCATACTAGCTTATTCAGAATAAAATAATAATAA
* * * * **
155205 TTTATTAATATTTCAACAATTTATAAGTAAAAGATTTAAAAAATAAATATGTTTGTTGAACAAGT
66 TTTATTAATATTTAAACAATTAATAAATAAAAGATTTAAAAAATAAATATATTTACTGAACAAGT
*
155270 TCAAATAGTCATGACT
131 TCAAATAATCATGACT
*
155286 ATTTG
1 TTTTG
155291 AATAATAATC
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
143 1 0.01
144 58 0.45
145 26 0.20
146 43 0.34
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (146 bp):
TTTTGCTTTGTCATAAAACAATTGTTTTTGTTCATACTAGCTTATTCAGAATAAAATAATAATAA
TTTATTAATATTTAAACAATTAATAAATAAAAGATTTAAAAAATAAATATATTTACTGAACAAGT
TCAAATAATCATGACT
Found at i:155869 original size:178 final size:176
Alignment explanation
Indices: 155433--156052 Score: 579
Period size: 178 Copynumber: 3.5 Consensus size: 176
155423 TTATCGATCA
* * * *
155433 AGTTGAAATAGTTATGACTATCTAAACAATTATCTATTTCAAAACATTATGACATTTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACATTTTATTTTGT
* * * * * * *
155498 CATAAAACAATTGGTTATGTTCATGCAAGCATAATTT-GAATAAAATAATAT-AAATTTATTAAT
66 CATAAAACAATTGTTTCTATTCATACAAGC-TTATTTGGAATAAAATAAT-TCTAATTAATTAAT
* *** * *** *
155561 ATTCCAAAAATTAATAAGTATA-ATTTTAGAAAATAAAGCTATTTTTTGAGCA
129 ATTCC-AAAATTAATAAGTAAAGATTTT--AAAA-AATTTTGTTTACCGAG-T
* * * * * *
155613 AATTCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAATCACTATGACCA-TTTGTTTTA
1 AGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGA-CATTTTATTTTG
* *
155677 TCATAAACCAATTGTTTCTATTCAAACAAGCTTATTTGGAATAAAATAATTCTAATTAATTAATA
65 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAATAATTCTAATTAATTAATA
155742 TTCCAAAATTAATAAGTAAAAGATTTTAAAAAATTTTGTTTACCGAGT
130 TTCCAAAATTAATAAGT-AAAGATTTTAAAAAATTTTGTTTACCGAGT
* * *
155790 GAGTTCAAATAGTTATGATTGTTTAAACAATTATTTATTTCAAATCATTATGATC-TTTTATTTT
1 -AGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGA-CATTTTATTTT
* * * * *
155854 GTTATAAAACAATTGTTTCTATTTATACAAGTTTACTTGGAATAAAATAATACTAA-TATATTAA
64 GTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAATAATTCTAATTA-ATTAA
* * * *
155918 CATTCTAAAAATTAATAAGTTGAAGA-TTTAAAAAATTAATTAGTTTACCGAACT
128 TATTC-CAAAATTAATAAG-TAAAGATTTTAAAAAATT--TT-GTTTACCG-AGT
** * * * * **
155972 AGTTCAAATAGTCGTGTCCATTTGAACTATTATCTATTTCAAATTGTTATGACATTTTATTTTGT
1 AGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACATTTTATTTTGT
**
156037 TGTAAAACAATTGTTT
66 CATAAAACAATTGTTT
156053 TCTTATCGAT
Statistics
Matches: 366, Mismatches: 59, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
177 2 0.01
178 130 0.36
179 39 0.11
180 111 0.30
181 82 0.22
182 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (176 bp):
AGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACATTTTATTTTGT
CATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAATAATTCTAATTAATTAATAT
TCCAAAATTAATAAGTAAAGATTTTAAAAAATTTTGTTTACCGAGT
Found at i:156931 original size:19 final size:18
Alignment explanation
Indices: 156894--156929 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
156884 TATTGCTAGG
156894 TTAATAATATTCTAAAAA
1 TTAATAATATTCTAAAAA
156912 TTAATAAGTATT-TAAAAA
1 TTAATAA-TATTCTAAAAA
156930 ATAAATGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (18 bp):
TTAATAATATTCTAAAAA
Found at i:157451 original size:180 final size:179
Alignment explanation
Indices: 156080--157875 Score: 1087
Period size: 180 Copynumber: 10.1 Consensus size: 179
156070 AAATAGTTAT
* * * *
156080 GACTATCTAAACAATTATCTATTTCAAAACATTATG-ACATTTTGTTTTGTCATAAAACAATTGG
1 GACTATTTGAACAATTATCTATTTCAAATCATTATGAAC-TTTT-TTTTGTCATAAAACAATTGT
* * * * *
156144 TTCTATTCATGCGAGCGTATT-TTGAATAAAATAATATAAATTTATTAATATTTCAAAAATTAAT
64 TTCTATTCATACAAGCTTATTCAT-AATAAAATAATATTAATTTATTAATATTTCAAAAATTAAT
** * *
156208 AAGTAAA-ATTTAGAAAAATAAGCTA-TTT-TAGAACACA-TTCAAATAGTTTA
128 AAGTAAAGATTTA-AAAAATAAATTAGTTTATTGAAC-CAGTTCAAATAATTTA
* * * * *
156258 TGACTATTTGAACAATTATATATTTCAAATCATTATGACCATCTGTTTTGTCATAAACCAATTGT
1 -GACTATTTGAACAATTATCTATTTCAAATCATTATGAAC-TTTTTTTTGTCATAAAACAATTGT
* *** * * * *
156323 TTCTATTCAAACAAGCTTATTTGGAATAAAATAAT-TCCAATTAATT-ATA-TTCCAAAATTAGT
64 TTCTATTCATACAAGCTTATTCATAATAAAATAATAT-TAATTTATTAATATTTCAAAAATTAAT
* ** *** *
156385 AA-TAAAATATTTAAAAAATAAATTTA-TTTACCGAGTGAGTTCAAAT-AGTTA
128 AAGT-AAAGATTTAAAAAATAAA-TTAGTTTATTGAACCAGTTCAAATAATTTA
* * * ** * * * *
156436 TGATTGTTTGAACAATTATTTATTTCAAATTGTTACGATCTTTGTTTTGTTATAAAACAATTGTT
1 -GACTATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTTTTTGTCATAAAACAATTGTT
* ** *** * * *
156501 TTTATTCATACAAATTTATTTGGAATAAAATAATACTAATATATTAACA-TTCTAAAAATTAATA
65 TCTATTCATACAAGCTTATTCATAATAAAATAATATTAATTTATTAATATTTC-AAAAATTAATA
* * * *
156565 AGTTGAAGATTTAAAAAATTAATTAGTTTATTGAACCAGTTCAAAT-A-GTC
129 AG-TAAAGATTTAAAAAATAAATTAGTTTATTGAACCAGTTCAAATAATTTA
* * * ** * ** *
156615 GTC-ATTTGAGCTATTATCTATTTCAAATTGTTATG-ACATTTTATTTTCTTGTAAAACAATTAT
1 GACTATTTGAACAATTATCTATTTCAAATCATTATGAAC-TTTT-TTTTGTCATAAAACAATTGT
* * *
156678 TTCTATTCATACACA-ATTATTTATAATAAAATAATA-TAATTTATTACTATTTCAAAAATTAAT
64 TTCTATTCATACA-AGCTTATTCATAATAAAATAATATTAATTTATTAATATTTCAAAAATTAAT
* * * * * *
156741 AAG---AGATTTAAAAACTATATCT-CTTTACTGAACCAGTTTAAATAGTTGTA
128 AAGTAAAGATTTAAAAAATAAAT-TAGTTTATTGAACCAGTTCAAATAATT-TA
* * * * * *
156791 -ACTATTTAAACAATTATCTATCTCAAATCATTATGATCTTTGTTTTGTCCTAAAACATTTGTTT
1 GACTATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTTTTTGTCATAAAACAATTGTTT
* * * * ** ** *
156855 CTGTTCATACAAGCTTATTCACAGTAAAATATTGCTAGGTTAATAATA-TTCTAAAAATTAATAA
66 CTATTCATACAAGCTTATTCATAATAAAATAATATTAATTTATTAATATTTC-AAAAATTAATAA
** * * * *
156919 GT----ATTTAAAAAATAAATGT-GTTTGCTGATCTAGTTCAAATAGTTAA
130 GTAAAGATTTAAAAAATAAAT-TAGTTTATTGAACCAGTTCAAATAATTTA
* * ** *
156965 GACTATTAGAACAATTATCTATTTCAAATCATTCT-AACCTTTTGTTTAATCATAAAATAATTGT
1 GACTATTTGAACAATTATCTATTTCAAATCATTATGAA-CTTTT-TTTTGTCATAAAACAATTGT
** * * * *
157029 TT-TAGTTCATACATTCTTATTCAAAATAAATTAATACTAATTTATTAACATTT-AGAAAATTAA
64 TTCTA-TTCATACAAGCTTATTCATAATAAAATAATATTAATTTATTAATATTTCA-AAAATTAA
* * * * *
157092 TAAGCAAGAAATTTTAAAAAATAAATTTA-TTTATCGAACAAGTTCAAAT-AGTTA
127 TAAGTAA-AGA-TTTAAAAAATAAA-TTAGTTTATTGAACCAGTTCAAATAATTTA
* * * * *
157146 TGACTATTTGAATAATTATCTATCTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGT
1 -GACTATTTGAACAATTATCTATTTCAAATCATTATGAACTTTT-TTTTGTCATAAAACAATTGT
* * * * * * *
157211 TT-TAGATCATAAAAGCTTGTCCCA-AATAAAATAATATTACTTTATTAATATTTTAAAAATTGA
64 TTCTA-TTCATACAAGCTTAT-TCATAATAAAATAATATTAATTTATTAATATTTCAAAAATTAA
* ** *
157274 TAAGTTAAAGATTTAAAACATAAATTAGTTTATTGAATTAGTTAAAATAATTTA
127 TAAG-TAAAGATTTAAAAAATAAATTAGTTTATTGAACCAGTTCAAATAATTTA
* * * * *
157328 GGCCATTTGAACATTTATCTATTTCAAATCATTATGAACTTTTTTTTGACATAAAACAATTATTT
1 GACTATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTTTTTGTCATAAAACAATTGTTT
* * * *
157393 TTCA-TCATACTAGCTTATTCGTAATAAAATAATATTAATTTATTAATATTTCAAAAATTAAGAA
66 CT-ATTCATACAAGCTTATTCATAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAA
* * * *
157457 GTAGGAGATTTAAAAAATAAATCT-GTTTATCGAACCAATTCAAAT-AGTTA
130 GTA-AAGATTTAAAAAATAAAT-TAGTTTATTGAACCAGTTCAAATAATTTA
* * * * * *
157507 TGACTATTTG---TATT-TC-AATT----TC-GTAT-AACTTTTTGTTCTTTCATAAAATAATTA
1 -GACTATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTT-TT-TGTCATAAAACAATTG
* * * * * * * **
157561 TTTTTATTCACACAAGTTTATTCAGAATAAAATAATACTAATGTAATAATATTTTGAAAATTAAT
63 TTTCTATTCATACAAGCTTATTCATAATAAAATAATATTAATTTATTAATATTTCAAAAATTAAT
* * * ** * * * *
157626 AAATAATATATTTAAAAAATAAATTTGTTTGCTAAATCAGTTCAAATAGTTAA
128 AAGTAA-AGATTTAAAAAATAAATTAGTTTATTGAACCAGTTCAAATAATTTA
* ** * * ** * * * *
157679 GGCTATAGGAACAATTATTTATTTTAAATTGTTAT-AACATTTTGTTTTATCGTAAAATAATTTT
1 GACTATTTGAACAATTATCTATTTCAAATCATTATGAAC-TTTT-TTTTGTCATAAAACAATTGT
* * * * * *
157743 TTC-AGTTCTTACTAA-CTTATTCAGAATAAAATAATA-AAAATTATTAATGTTTCACAAATTAA
64 TTCTA-TTCATAC-AAGCTTATTCATAATAAAATAATATTAATTTATTAATATTTCAAAAATTAA
* * * ** * *
157805 TCAA-TAAGAGATTTAATAAATAATTTTGTTTGCTAAACCAGTTGAAATAA-TTA
127 T-AAGTAA-AGATTTAAAAAATAAATTAGTTTATTGAACCAGTTCAAATAATTTA
*
157858 TGACTATTTGAATAATTA
1 -GACTATTTGAACAATTA
157876 AAATAAATTA
Statistics
Matches: 1266, Mismatches: 274, Indels: 153
0.75 0.16 0.09
Matches are distributed among these distances:
169 8 0.01
170 7 0.01
171 108 0.09
172 2 0.00
173 32 0.03
174 7 0.01
175 120 0.09
176 122 0.10
177 140 0.11
178 107 0.08
179 118 0.09
180 219 0.17
181 119 0.09
182 149 0.12
183 8 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
GACTATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTTTTTGTCATAAAACAATTGTTT
CTATTCATACAAGCTTATTCATAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAG
TAAAGATTTAAAAAATAAATTAGTTTATTGAACCAGTTCAAATAATTTA
Found at i:157630 original size:22 final size:20
Alignment explanation
Indices: 157605--157649 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
157595 ATACTAATGT
157605 AATAATAT-TTTGAAAATTAATA
1 AATAATATATTT-AAAA--AATA
157627 AATAATATATTTAAAAAATA
1 AATAATATATTTAAAAAATA
157647 AAT
1 AAT
157650 TTGTTTGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.32
22 12 0.55
23 3 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AATAATATATTTAAAAAATA
Found at i:157789 original size:351 final size:355
Alignment explanation
Indices: 156524--157875 Score: 925
Period size: 351 Copynumber: 3.8 Consensus size: 355
156514 ATTTATTTGG
* * * * * * * *
156524 AATAAAATAATACTAATATATTAACATTCTAAAAATTAATAAGTTGAAGATTTAAAAAATTAATT
1 AATAAAATAATACTAATGTAATAATATTTTAAAAATTAATAAGATAAATATTTAAAAAATAAATT
* ** * * * * * * ** *
156589 AGTTTATTGAACCAGTTCAAATAG-T-CGTC-ATTTGAGCTATTATCTATTTCAAATTGTTATGA
66 TGTTTGCT-AATCAGTTCAAATAGTTAAGGCTA-TAGAACAATTATCTATTTCAAATCATTATAA
* * ** * * * * *
156651 CATTTTATTTTCTTGTAAAACAATTATTTCTA-TTCATAC-ACAATTATTTATAATAAAATAATA
129 C-TTTTGTTTTATCATAAAATAATTTTTTC-AGTTCATACTA-ACTTATTCAGAATAAAATAATA
* * * * *
156714 -TAATTTATTACTATTTCAAAAATT---AA-TAAGAGATTTAAAAACTATATCTCTTTA-CTGAA
191 CTAATTTATTAATATTTCAAAAATTAACAAGTAAGAGATTTAAAAAATAAATTTGTTTATC-GAA
* * * * * * * * * *
156773 CCAGTTTAAATAGTTGTAACTATTTAAACAATTATCTATCTCAAATCATTATGATC-TTTGTTTT
255 CCAATTCAAATAGTTATGACTATTT-GATAATTATCAATCT---ATCAGTATAACCTTTTGTTTT
* * * * * * *
156837 GTCCTAAAACATTTGTTTCT-GTTCATACAAGCTTAT-TCA
316 ATCATAAAACAATTGTTT-TAGATCACAAAAGCTTATCCCA
* * * * *
156876 CAGTAAAATATTGCT-AGGTTAATAATATTCTAAAAATTAATAAG-----TATTTAAAAAATAAA
1 -AATAAAATAATACTAATG-TAATAATATTTTAAAAATTAATAAGATAAATATTTAAAAAATAAA
* * * *
156935 TGTGTTTGCTGATCTAGTTCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAATCATTCT
64 TTTGTTTGCTAATC-AGTTCAAATAGTTAAGGCTA-TAGAACAATTATCTATTTCAAATCATTAT
* * * *
157000 AACCTTTTGTTTAATCATAAAATAATTGTTTT-AGTTCATAC-ATTCTTATTCAAAATAAATTAA
127 AA-CTTTTGTTTTATCATAAAATAATT-TTTTCAGTTCATACTA-ACTTATTCAGAATAAAATAA
* * * * *
157063 TACTAATTTATTAACATTT-AGAAAATTAATAAGCAAGAAATTTTAAAAAATAAATTTATTTATC
189 TACTAATTTATTAATATTTCA-AAAATTAACAAGTAAGAGA-TTTAAAAAATAAATTTGTTTATC
* * *
157127 GAA-CAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATCTAAAATCATTATGACCTTTTG
252 GAACCAA-TTCAAATAGTTATGACTATTTG-ATAATTATCAATCT---ATCAGTATAACCTTTTG
* *
157191 TTTTATCATAAAACAATTGTTTTAGATCATAAAAGCTTGTCCCA
312 TTTTATCATAAAACAATTGTTTTAGATCACAAAAGCTTATCCCA
* * * * * * * *
157235 AATAAAATAATATTACTTTATTAATATTTTAAAAATTGATAAGTTAAAGATTTAAAACATAAATT
1 AATAAAATAATACTAATGTAATAATATTTTAAAAATTAATAAGATAAATATTTAAAAAATAAATT
* ** * * * * * * *
157300 AGTTTATTGAATTAGTTAAAATAATTTAGGCCATTTGAACATTTATCTATTTCAAATCATTATGA
66 TGTTTGCT-AATCAGTTCAAATAGTTAAGGCTA-TAGAACAATTATCTATTTCAAATCATTAT-A
* *
157365 ACTTTT-TTTTGA-CATAAAACAATTATTTTTCA--TCATACTAGCTTATTC-GTAATAAAATAA
128 ACTTTTGTTTT-ATCATAAAATAA-T-TTTTTCAGTTCATACTAACTTATTCAG-AATAAAATAA
* * * *
157425 TATTAATTTATTAATATTTCAAAAATTAAGAAGTAGGAGATTTAAAAAATAAATCTGTTTATCGA
189 TACTAATTTATTAATATTTCAAAAATTAACAAGTAAGAGATTTAAAAAATAAATTTGTTTATCGA
*
157490 ACCAATTCAAATAGTTATGACTATTTG-T-ATT-TCAAT-T-TC-GTATAACTTTTTGTTCTT-T
254 ACCAATTCAAATAGTTATGACTATTTGATAATTATCAATCTATCAGTATAACCTTTTGTT-TTAT
* * * * * *
157548 CATAAAATAATTATTTTTA-TTCACACAAGTTTAT-TCA
318 CATAAAACAATT-GTTTTAGATCACAAAAGCTTATCCCA
*
157585 GAATAAAATAATACTAATGTAATAATATTTTGAAAATTAATAA-ATAATATATTTAAAAAATAAA
1 -AATAAAATAATACTAATGTAATAATATTTTAAAAATTAATAAGATAA-ATATTTAAAAAATAAA
* * **
157649 TTTGTTTGCTAAATCAGTTCAAATAGTTAAGGCTATAGGAACAATTATTTATTTTAAATTGTTAT
64 TTTGTTTGCT-AATCAGTTCAAATAGTTAAGGCTATA-GAACAATTATCTATTTCAAATCATTAT
* *
157714 AACATTTTGTTTTATCGTAAAATAATTTTTTCAGTTCTTACTAACTTATTCAGAATAAAATAATA
127 AAC-TTTTGTTTTATCATAAAATAATTTTTTCAGTTCATACTAACTTATTCAGAATAAAATAATA
* * * * * * * *
157779 -AAAATTATTAATGTTTCACAAATTAATCAA-TAAGAGATTTAATAAATAATTTTGTTT-GCTAA
191 CTAATTTATTAATATTTCAAAAATTAA-CAAGTAAGAGATTTAAAAAATAAATTTGTTTATC-GA
* * *
157841 ACCAGTTGAAATAATTATGACTATTTGAATAATTA
254 ACCAATTCAAATAGTTATGACTATTTG-ATAATTA
157876 AAATAAATTA
Statistics
Matches: 792, Mismatches: 153, Indels: 106
0.75 0.15 0.10
Matches are distributed among these distances:
347 2 0.00
348 30 0.04
349 1 0.00
350 20 0.03
351 277 0.35
352 74 0.09
353 36 0.05
354 3 0.00
355 2 0.00
356 8 0.01
357 69 0.09
358 72 0.09
359 3 0.00
361 46 0.06
362 69 0.09
363 74 0.09
364 6 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (355 bp):
AATAAAATAATACTAATGTAATAATATTTTAAAAATTAATAAGATAAATATTTAAAAAATAAATT
TGTTTGCTAATCAGTTCAAATAGTTAAGGCTATAGAACAATTATCTATTTCAAATCATTATAACT
TTTGTTTTATCATAAAATAATTTTTTCAGTTCATACTAACTTATTCAGAATAAAATAATACTAAT
TTATTAATATTTCAAAAATTAACAAGTAAGAGATTTAAAAAATAAATTTGTTTATCGAACCAATT
CAAATAGTTATGACTATTTGATAATTATCAATCTATCAGTATAACCTTTTGTTTTATCATAAAAC
AATTGTTTTAGATCACAAAAGCTTATCCCA
Found at i:161203 original size:14 final size:15
Alignment explanation
Indices: 161184--161216 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
161174 TAAATTTAAT
161184 TAAAAT-TATAATAC
1 TAAAATATATAATAC
*
161198 TAAAATATTTAATAC
1 TAAAATATATAATAC
161213 TAAA
1 TAAA
161217 TCTTGTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAATATATAATAC
Found at i:161702 original size:21 final size:20
Alignment explanation
Indices: 161678--161742 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 20
161668 AATGATAAAC
161678 ATTTACTTATTAATTATTATA
1 ATTTACTTATT-ATTATTATA
161699 ATTTAAC-TATTA-TATT-TA
1 ATTT-ACTTATTATTATTATA
*
161717 ATTTA-TTAACTATTATTAT-
1 ATTTACTT-ATTATTATTATA
161736 ATTTACT
1 ATTTACT
161743 AATATTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
17 2 0.05
18 9 0.24
19 13 0.35
20 3 0.08
21 8 0.22
22 2 0.05
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTACTTATTATTATTATA
Found at i:161723 original size:14 final size:14
Alignment explanation
Indices: 161687--161724 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
161677 CATTTACTTA
161687 TTAATTATTATAAT
1 TTAATTATTATAAT
*
161701 TTAACTATTAT-AT
1 TTAATTATTATAAT
161714 TTAATTTATTA
1 TTAA-TTATTA
161725 ACTATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAATTATTATAAT
Found at i:162704 original size:180 final size:181
Alignment explanation
Indices: 162398--162727 Score: 443
Period size: 180 Copynumber: 1.8 Consensus size: 181
162388 AAACACGTTT
* *
162398 AAATAGTTATGACTATTTAAACAATTATCATTTTAAAATCATTATGACCTTTTGTTTTATCATAA
1 AAATAGTTATGACCATTTAAACAATTATCATTTTAAAATCATTATGAACTTTTGTTTTATCATAA
* * * *
162463 AACAATTGTTTTATTTCGTAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATATTTCAA
66 AACAATTGTTTTATATCATAAAAGCTAATCCAAAATAAAATAATACTACTTTATTAATATTTCAA
*
162528 AAATTAAGAAGTTGGAGATTTAAAACATAAATCATTTTATTGAATCAATTC
131 AAATTAAGAAGTAGGAGATTTAAAACATAAATCATTTTATTGAATCAATTC
* * * *
162579 AAATAGTTATGGCCATTTGAACAATTATC-TATTTCAAATCATTTTGAACTTTTGTTTT-TCATA
1 AAATAGTTATGACCATTTAAACAATTATCAT-TTTAAAATCATTATGAACTTTTGTTTTATCATA
* * * ** *
162642 AAAGAATTGTTTT-TCATCATACAAGCCTAAT-TATTATAAAATAATACTAGTTTATTAATATTT
65 AAACAATTGTTTTAT-ATCATAAAAG-CTAATCCAAAATAAAATAATACTACTTTATTAATATTT
*
162705 CAAAAATTAATAAGTAGGAGATT
128 CAAAAATTAAGAAGTAGGAGATT
162728 ATCTGTTTAC
Statistics
Matches: 128, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
179 1 0.01
180 73 0.57
181 54 0.42
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (181 bp):
AAATAGTTATGACCATTTAAACAATTATCATTTTAAAATCATTATGAACTTTTGTTTTATCATAA
AACAATTGTTTTATATCATAAAAGCTAATCCAAAATAAAATAATACTACTTTATTAATATTTCAA
AAATTAAGAAGTAGGAGATTTAAAACATAAATCATTTTATTGAATCAATTC
Found at i:163396 original size:30 final size:30
Alignment explanation
Indices: 163361--163422 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
163351 ATAAATGGTA
* * *
163361 ATTAATTACTTATTTAATTA-TATTATAATT
1 ATTAATTACATATTAAATAACTATT-TAATT
163391 ATTAATTACATATTAAATAACTATTTAATT
1 ATTAATTACATATTAAATAACTATTTAATT
163421 AT
1 AT
163423 AAAATTAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTAATTACATATTAAATAACTATTTAATT
Found at i:163463 original size:14 final size:15
Alignment explanation
Indices: 163423--163471 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
163413 ATTTAATTAT
*
163423 AAAATTAGTAAT-TA
1 AAAATTACTAATATA
*
163437 AATATTACTAATATA
1 AAAATTACTAATATA
163452 AAAATTA-TAATATTA
1 AAAATTACTAATA-TA
163467 AAAAT
1 AAAAT
163472 AAATAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 15 0.50
15 15 0.50
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
AAAATTACTAATATA
Found at i:164078 original size:18 final size:20
Alignment explanation
Indices: 164055--164093 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
164045 TAATTCTAAT
*
164055 TTAAT-AGT-ATTTCAAAAA
1 TTAATAAGTGATTTAAAAAA
164073 TTAATAAGTGATTTAAAAAA
1 TTAATAAGTGATTTAAAAAA
164093 T
1 T
164094 AAATGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (20 bp):
TTAATAAGTGATTTAAAAAA
Found at i:164157 original size:19 final size:18
Alignment explanation
Indices: 164133--164185 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
164123 TTCAGACTAT
*
164133 TATAATAATTATATATTTC
1 TATAATAATTACA-ATTTC
* *
164152 TATAATTATTACAATTTT
1 TATAATAATTACAATTTC
164170 TATTAATAATTA-AATT
1 TA-TAATAATTACAATT
164186 ATTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 10 0.34
19 19 0.66
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TATAATAATTACAATTTC
Found at i:164198 original size:21 final size:21
Alignment explanation
Indices: 164172--164213 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
164162 ACAATTTTTA
164172 TTAATAATTAAATTATTAAAT
1 TTAATAATTAAATTATTAAAT
* *
164193 TTAATAATTTATTTATTAAAT
1 TTAATAATTAAATTATTAAAT
164214 AAATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATAATTAAATTATTAAAT
Found at i:164222 original size:21 final size:21
Alignment explanation
Indices: 164174--164224 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
164164 AATTTTTATT
* * *
164174 AATAATTAAATTATTAAATTT
1 AATAATTTATTTATTAAATTA
164195 AATAATTTATTTATTAAA-TA
1 AATAATTTATTTATTAAATTA
164215 AATAAATTTA
1 AAT-AATTTA
164225 ATATTCCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAATTTATTTATTAAATTA
Found at i:164270 original size:41 final size:36
Alignment explanation
Indices: 164196--164270 Score: 87
Period size: 41 Copynumber: 1.9 Consensus size: 36
164186 ATTAAATTTA
*
164196 ATAATTTATTTATTAAATAAATAAATTTAATATTCC
1 ATAATTTATTTATTAAATAAATAAATTAAATATTCC
*
164232 ATAATTTATATTATGTTAATAAAGTTATAATTAAATATT
1 ATAATTTAT-TTAT-TAAATAAA--TA-AATTAAATATT
164271 AAAATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 9 0.28
37 4 0.12
38 7 0.22
40 2 0.06
41 10 0.31
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (36 bp):
ATAATTTATTTATTAAATAAATAAATTAAATATTCC
Found at i:164316 original size:14 final size:15
Alignment explanation
Indices: 164297--164386 Score: 75
Period size: 14 Copynumber: 6.3 Consensus size: 15
164287 TTTAATTTGA
164297 AATTATAA-ATAAAT
1 AATTATAATATAAAT
*
164311 AATTATAATAT-ATT
1 AATTATAATATAAAT
*
164325 AATTATAATATATAT
1 AATTATAATATAAAT
* * *
164340 CTATTATAAGATATAT
1 -AATTATAATATAAAT
*
164356 -ATTATAATATTAAT
1 AATTATAATATAAAT
164370 AATT-T-AT-TAAAT
1 AATTATAATATAAAT
164382 AATTA
1 AATTA
164387 AAAGTATCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
12 8 0.13
13 2 0.03
14 33 0.53
15 6 0.10
16 13 0.21
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (15 bp):
AATTATAATATAAAT
Found at i:164552 original size:36 final size:35
Alignment explanation
Indices: 164481--164554 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
164471 TTTATTATAA
* * *
164481 TATAATTATAATAAATATAATATTATAATACTATT
1 TATAATTATAATAAATATAATAATATAAAAATATT
*
164516 TATAATTATTATTCAAAT-TAATAATATAAAAATATT
1 TATAATTA-TAAT-AAATATAATAATATAAAAATATT
164552 TAT
1 TAT
164555 TATATGAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 8 0.24
36 21 0.64
37 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (35 bp):
TATAATTATAATAAATATAATAATATAAAAATATT
Found at i:165382 original size:10 final size:9
Alignment explanation
Indices: 165353--165401 Score: 52
Period size: 8 Copynumber: 5.8 Consensus size: 9
165343 AATTTAATAC
165353 TTATAATTA
1 TTATAATTA
*
165362 ATATTAATTA
1 TTA-TAATTA
165372 TTATAA--A
1 TTATAATTA
165379 TTATAA-TA
1 TTATAATTA
165387 TTAT-ATTA
1 TTATAATTA
165395 TTATAAT
1 TTATAAT
165402 GTTAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
7 8 0.24
8 11 0.32
9 7 0.21
10 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTATAATTA
Found at i:165518 original size:14 final size:14
Alignment explanation
Indices: 165494--165542 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
165484 ATTTATTAAA
*
165494 ATATTAATAATTAT
1 ATATTATTAATTAT
*
165508 ATATTTTTAATTATT
1 ATATTATTAATTA-T
*
165523 ATATTATAAATTAT
1 ATATTATTAATTAT
*
165537 TTATTA
1 ATATTA
165543 CCAAATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATTATTAATTAT
Found at i:165645 original size:23 final size:22
Alignment explanation
Indices: 165601--165678 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 22
165591 ATATAAACTT
165601 ATTTATATAATTAATTATAATA
1 ATTTATATAATTAATTATAATA
*
165623 ATTTAATATAATATTATTA-AATAA
1 ATTT-ATATAAT-TAATTATAAT-A
* * *
165647 AATTATAAAATTAA-TATATTA
1 ATTTATATAATTAATTATAATA
*
165668 ATTGAT-TAATT
1 ATTTATATAATT
165679 TAATATTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
20 4 0.09
21 7 0.16
22 8 0.18
23 16 0.36
24 9 0.20
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (22 bp):
ATTTATATAATTAATTATAATA
Found at i:165873 original size:8 final size:8
Alignment explanation
Indices: 165824--165882 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
165814 TTATATTCAT
165824 TAATTATA
1 TAATTATA
165832 TATATTA-A
1 TA-ATTATA
165840 TAATTAT-
1 TAATTATA
*
165847 TAA-GATTA
1 TAATTA-TA
165855 TAATATATA
1 TAAT-TATA
165864 TAATTATA
1 TAATTATA
*
165872 TAATAATA
1 TAATTATA
165880 TAA
1 TAA
165883 GATTATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
6 1 0.02
7 8 0.19
8 22 0.52
9 10 0.24
10 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (8 bp):
TAATTATA
Found at i:165887 original size:18 final size:18
Alignment explanation
Indices: 165832--165888 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
165822 ATTAATTATA
165832 TATATTAATAATTATTAAGA-
1 TATA-TAATAA-TA-TAAGAT
165852 T-TATAAT-ATATATA-AT
1 TATATAATAATATA-AGAT
165868 TATATAATAATATAAGAT
1 TATATAATAATATAAGAT
165886 TAT
1 TAT
165889 TAAATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
15 3 0.09
16 4 0.12
17 8 0.25
18 14 0.44
19 2 0.06
20 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (18 bp):
TATATAATAATATAAGAT
Found at i:167275 original size:473 final size:474
Alignment explanation
Indices: 166260--167551 Score: 1727
Period size: 473 Copynumber: 2.7 Consensus size: 474
166250 AAGTAAGAAG
* * * *
166260 AAAAATAAAGTCT-ATTGTTTTAAGCTCCAAAAACCTTTATAACTTACACTTAAAACTGTGAAAA
1 AAAAACAAAGTCTGA-TGTTTTAAGCTCCAAAATCCTTTACAACTTACACTTAACACTGTGAAAA
* * * *
166324 ATCAAAACAAACGCAAGTTTTACTATGTTTCTTT-TTCGAGCATGTTTAAAACATTGGATTTTAA
65 ATTAAAACAAACGCAAGTTTTACTATATTTCTTTGTTCGAGCAAGTTTAAAACATTGGATTTCAA
* * *
166388 GATATTCAAATTCTTTTTACATTTAAAAACCTGCTAAAACAATGCTTTCATATTTTAAAGCTCGA
130 GATATTCAAATTC-ATTTCCATTTAAAAACCTGCTAAAACAATGCTTTCATATTTTAAAGCTTGA
* * * *
166453 CTCCGATGAAAATCATTTTCAAAGTAAAACATAAAATTTCAAAAGTATTACGCTCCAACTGCTAT
194 CTCAG-TGAAAATCATTTTCAAAGCAAAACATAAAATTTCAAAAGTATTACGCTTCGACTGCTA-
*
166518 CCC-TATAAAACTGTTAAAACAAGTTAGCACATAATTTATAACATCAAGCGCCAATAACAACTTC
257 CCCTTAT-AAACTGTTAAAACAAGTTAGCACAAAATTTATAACATCAAGCGCCAATAACAACTTC
* * *
166582 ACAAATAATAT-ACAAATATCTATATCTTTCATATGTAATCCCATAAGTTGCTTAGAGCACTTAA
321 ACAAATAATATCA-AAATATCTAGATCTTTCATATGTAATCCCATAAGTTCCTTAGAGCACCTAA
*
166646 AAATGTATCTAAAAGAAAATAAATATGAAACACACTGAAAAATTAAAATCGTGCAAAAATTGCGT
385 AAATGTATCTAAAAGAAAATAAATATGAAACACACTGAAAAATTAAAATCGTGCAAAAATTGCGC
166711 GAGTAGTTTTTATGCCAAATTGTTC
450 GAGTAGTTTTTATGCCAAATTGTTC
**
166736 AAAAACAACTTCTGATGTTTTAAGCTCCAAAATCCTTTACAACTTACACTTAACACTGTGAAAAA
1 AAAAACAAAGTCTGATGTTTTAAGCTCCAAAATCCTTTACAACTTACACTTAACACTGTGAAAAA
* * *
166801 TTAAAATAAACGCAAGTTTTACTAT-TTTCTTTGTTCGAGCACGTTTAAAACATTGGATTTGAAG
66 TTAAAACAAACGCAAGTTTTACTATATTTCTTTGTTCGAGCAAGTTTAAAACATTGGATTTCAAG
*
166865 ATATTCAAA-TCATTTCCATTTAAAAACCTGTTAAAACAATGCTTTCATATTTTAAAGCTTGACT
131 ATATTCAAATTCATTTCCATTTAAAAACCTGCTAAAACAATGCTTTCATATTTTAAAGCTTGACT
* * * * * *
166929 CAAGTAAAAATAATTTTCAAAACAAAACATAAAATTTTAAAAATATTACACTTCGACTGCTACCC
196 C-AGTGAAAATCATTTTCAAAGCAAAACATAAAATTTCAAAAGTATTACGCTTCGACTGCTACCC
* * *
166994 TTATAAATTGTTAAAACAAGTTAGCACAAAATTTATAACATCAAGCGCTAATAACAACTTCATAA
260 TTATAAACTGTTAAAACAAGTTAGCACAAAATTTATAACATCAAGCGCCAATAACAACTTCACAA
*
167059 ATAATATCAAAATATCTAGATCTTTCATATGTAATCCCATAAGTTCCTTATAGCACCT-AAAATG
325 ATAATATCAAAATATCTAGATCTTTCATATGTAATCCCATAAGTTCCTTAGAGCACCTAAAAATG
* * * *
167123 TATCTAAAAGTAAATAAGTATGAAACACATTGAAAAATTAAAATCGTGCAAAAATTGTGCGAGT-
390 TATCTAAAAGAAAATAAATATGAAACACACTGAAAAATTAAAATCGTGCAAAAATTGCGCGAGTA
*
167187 GTTTTTTATGCCAGATTGTTC
455 G-TTTTTATGCCAAATTGTTC
*
167208 AAAAACAAAGT-TGATGTTTTAAGCTTCAAAATCCTTTACAACTTACACTTAACACTTGTGAAAA
1 AAAAACAAAGTCTGATGTTTTAAGCTCCAAAATCCTTTACAACTTACACTTAACAC-TGTG-AAA
* * * *
167272 AATT-AAACCAACGCAAGTTTTACCATATTTCTTTGTTTGAGCAAGTTTAAAA-ACTTGGA-TAC
64 AATTAAAACAAACGCAAGTTTTACTATATTTCTTTGTTCGAGCAAGTTTAAAACA-TTGGATTTC
* *
167334 AA-ATATGCAAATTCATATCCATTTAGAAAACCTGCTAAAACAA-GCTTTACATATTTTAAAGCT
128 AAGATATTCAAATTCATTTCCATTTA-AAAACCTGCTAAAACAATGCTTT-CATATTTTAAAGCT
* * * * * * *
167397 TGACTTTAGCGACAATCATTTTCAAAGCAAAACATAAAATCTCGAAAGCATTAGGC-TCGA-TGC
191 TGAC-TCAGTGAAAATCATTTTCAAAGCAAAACATAAAATTTCAAAAGTATTACGCTTCGACTGC
* * * * * * * *
167460 T-CCCTCTATAAACTGCTAAAATAAGTTTAGCACACAATTAATCACATCAAACACCAATAGCAAC
255 TACCCT-TATAAACTGTTAAAACAAG-TTAGCACAAAATTTATAACATCAAGCGCCAATAACAAC
* * *
167524 ATCACAAATAATATCCAAATATCAAGAT
318 TTCACAAATAATATCAAAATATCTAGAT
167552 TAATAATATG
Statistics
Matches: 722, Mismatches: 78, Indels: 36
0.86 0.09 0.04
Matches are distributed among these distances:
470 4 0.01
471 72 0.10
472 195 0.27
473 218 0.30
474 104 0.14
475 10 0.01
476 118 0.16
477 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (474 bp):
AAAAACAAAGTCTGATGTTTTAAGCTCCAAAATCCTTTACAACTTACACTTAACACTGTGAAAAA
TTAAAACAAACGCAAGTTTTACTATATTTCTTTGTTCGAGCAAGTTTAAAACATTGGATTTCAAG
ATATTCAAATTCATTTCCATTTAAAAACCTGCTAAAACAATGCTTTCATATTTTAAAGCTTGACT
CAGTGAAAATCATTTTCAAAGCAAAACATAAAATTTCAAAAGTATTACGCTTCGACTGCTACCCT
TATAAACTGTTAAAACAAGTTAGCACAAAATTTATAACATCAAGCGCCAATAACAACTTCACAAA
TAATATCAAAATATCTAGATCTTTCATATGTAATCCCATAAGTTCCTTAGAGCACCTAAAAATGT
ATCTAAAAGAAAATAAATATGAAACACACTGAAAAATTAAAATCGTGCAAAAATTGCGCGAGTAG
TTTTTATGCCAAATTGTTC
Found at i:167892 original size:350 final size:348
Alignment explanation
Indices: 167242--167916 Score: 875
Period size: 350 Copynumber: 1.9 Consensus size: 348
167232 TTCAAAATCC
* * *
167242 TTTACAACTTACACTTAACACTTGTGAAAAAATTAAACCAACGCAAGTTTTACCATATTTCTTTG
1 TTTACAACTTACACTGAACACTTGTGAAAAAATTAAACCAACACAAGATTTACCATATTTCTTTG
*
167307 TTTGAGCAAGTTTAAAAACTTGGATACAAATATGCAAATTCATATCCATTTAGAAAACCTGCTAA
66 TTTGAGCAAGTTTAAAAACTTGGATACAAAAATGCAAATTCATATCCATTTAGAAAACCTGCTAA
** *
167372 AACAAGCTTTACATATTTTAAAGCTTGACTTTAGCGACAATCATTTTCAAAGCAAAACATAAAAT
131 AACAAGCTTTACATATTTTAAAGC-TGACTCAAGCGAAAATCATTTTCAAAGCAAAACATAAAAT
* * * * *
167437 CTCGAAAGCATTAGGCTCGATGCTCCCTCTATAAACTGCTAAAATAAGTTTAGCACACAATTAAT
195 CTCAAAAGCATTAGACTCGATGCT-CCTCTATAAACTGCTAAAACAAGTTAAACACACAATTAAT
* * *
167502 CACATCAAACACCAATAGCAACATCACAAATAATATCCAAATATCAAGATTAATAATATGTAATC
259 CACATCAAACACCAATAGCAACATCACAAAAAAAATCCAAATATCAAGATCAATAATATGTAATC
167567 TCACAACTTCCTTAACACTAAAATA
324 TCACAACTTCCTTAACACTAAAATA
* * *
167592 TTTATAACTTACACTGAACAC-TGTG-AAAAATTAAAACCAACACAAGATTTACCATGTTTTTTT
1 TTTACAACTTACACTGAACACTTGTGAAAAAATT-AAACCAACACAAGATTTACCATATTTCTTT
* * **
167655 GTTTGAGCAAGTTT-AAAACATTGGATTCAAAAATTTCAAATTCAT-TGTATTTA-AAAACCTGC
65 GTTTGAGCAAGTTTAAAAAC-TTGGATACAAAAA-TGCAAATTCATATCCATTTAGAAAACCTGC
167717 TAAAACAATGCTTT-CATATTTTAAAATGC-GACTACAATG-GAAAATTCATTTTCAAAGCAAAA
128 TAAAACAA-GCTTTACATATTTT-AAA-GCTGACT-CAA-GCGAAAA-TCATTTTCAAAGCAAAA
*
167779 CATAAAAT-TGCAAAAGCATTAGACTTGAGTGCT-CTCGTATAAACTGCTAAAACAAGTTAAACA
187 CATAAAATCT-CAAAAGCATTAGACTCGA-TGCTCCTC-TATAAACTGCTAAAACAAGTTAAACA
* *** * * * *
167842 CACAATTAATCACTTCAAGTGCCAATATCAACTTCACAAAAAAAATCCAAATATCAAGATCATTC
249 CACAATTAATCACATCAAACACCAATAGCAACATCACAAAAAAAATCCAAATATCAAGATCAATA
167907 ATATGTAATC
314 ATATGTAATC
167917 CCACGAGTCT
Statistics
Matches: 282, Mismatches: 31, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
348 41 0.15
349 78 0.28
350 159 0.56
351 4 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (348 bp):
TTTACAACTTACACTGAACACTTGTGAAAAAATTAAACCAACACAAGATTTACCATATTTCTTTG
TTTGAGCAAGTTTAAAAACTTGGATACAAAAATGCAAATTCATATCCATTTAGAAAACCTGCTAA
AACAAGCTTTACATATTTTAAAGCTGACTCAAGCGAAAATCATTTTCAAAGCAAAACATAAAATC
TCAAAAGCATTAGACTCGATGCTCCTCTATAAACTGCTAAAACAAGTTAAACACACAATTAATCA
CATCAAACACCAATAGCAACATCACAAAAAAAATCCAAATATCAAGATCAATAATATGTAATCTC
ACAACTTCCTTAACACTAAAATA
Found at i:169580 original size:13 final size:13
Alignment explanation
Indices: 169560--169638 Score: 61
Period size: 13 Copynumber: 5.7 Consensus size: 13
169550 AATTTTTATT
169560 TAATTATTACTAA
1 TAATTATTACTAA
* *
169573 TTATTATTGATATAA
1 TAATTATT-A-CTAA
* *
169588 TATATTAATACTACC
1 TA-ATTATTACTA-A
169603 TAATTAATTA-TAA
1 TAATT-ATTACTAA
169616 TAATTAGTTACTAA
1 TAATTA-TTACTAA
169630 TAATTATTA
1 TAATTATTA
169639 AATTATTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
12 1 0.02
13 18 0.35
14 17 0.33
15 10 0.20
16 5 0.10
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (13 bp):
TAATTATTACTAA
Found at i:169865 original size:13 final size:13
Alignment explanation
Indices: 169847--169881 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
169837 TAATAAGTTA
*
169847 ATAATTTATATAT
1 ATAATTAATATAT
169860 ATAATTAATATAT
1 ATAATTAATATAT
169873 ATTAATTAA
1 A-TAATTAA
169882 ACAATTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATAATTAATATAT
Found at i:169867 original size:20 final size:18
Alignment explanation
Indices: 169830--169869 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
169820 AAATAATTCT
*
169830 TAATTTATAATAAGTTAA
1 TAATTTATAATAAATTAA
169848 TAATTTATATATATAATTAA
1 TAATTTATA-ATA-AATTAA
169868 TA
1 TA
169870 TATATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATTTATAATAAATTAA
Found at i:170026 original size:23 final size:22
Alignment explanation
Indices: 169998--170067 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
169988 ATTTACTATA
*
169998 ATATATTATCTATATATATAATT
1 ATATATTATATATATA-ATAATT
*
170021 ATATATTATATAAATAATTAATT
1 ATATATTATATATATAA-TAATT
170044 ATTATATT-TAT-TA-AATAATT
1 A-TATATTATATATATAATAATT
170064 ATAT
1 ATAT
170068 TATAATATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.07
20 6 0.14
21 2 0.05
22 2 0.05
23 23 0.55
24 6 0.14
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATATTATATATATAATAATT
Found at i:170032 original size:19 final size:20
Alignment explanation
Indices: 169994--170050 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
169984 ATTTATTTAC
169994 TATAA-TATATTATCTATATA
1 TATAATTATATTAT-TATATA
170014 TATAATTATA-TATTATATA
1 TATAATTATATTATTATATA
*
170033 AATAATTA-ATTATTATAT
1 TATAATTATATTATTATAT
170051 TTATTAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 21 0.62
20 8 0.24
21 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATTATATTATTATATA
Found at i:170058 original size:24 final size:26
Alignment explanation
Indices: 170012--170076 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
170002 ATTATCTATA
*
170012 TATATAATTATATATTATATAAATAAT
1 TATATTATTATAT-TTATATAAATAAT
170039 TA-ATTATTATATTTAT-TAAATAAT
1 TATATTATTATATTTATATAAATAAT
*
170063 TATATTATAATATT
1 TATATTATTATATT
170077 ATTTTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 10 0.29
25 14 0.40
26 9 0.26
27 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATATTATTATATTTATATAAATAAT
Found at i:170077 original size:13 final size:13
Alignment explanation
Indices: 169999--170078 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 13
169989 TTTACTATAA
*
169999 TATATTATCTATAT
1 TATATTAT-AATAT
170013 ATATAATTAT-ATAT
1 -TAT-ATTATAATAT
170027 TATA-TA-AATAAT
1 TATATTATAAT-AT
*
170039 TA-ATTATTATAT
1 TATATTATAATAT
170051 T-TATTA-AATAAT
1 TATATTATAAT-AT
170063 TATATTATAATAT
1 TATATTATAATAT
170076 TAT
1 TAT
170079 TTTTTAAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
11 7 0.13
12 17 0.31
13 15 0.28
14 7 0.13
15 3 0.06
16 5 0.09
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (13 bp):
TATATTATAATAT
Found at i:170078 original size:24 final size:22
Alignment explanation
Indices: 169998--170079 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 22
169988 ATTTACTATA
*
169998 ATATATTATCTATAT-ATATAATT
1 ATATATTAT-TAAATAAT-TAATT
170021 ATATATTATATAAATAATTAATT
1 ATATATTAT-TAAATAATTAATT
170044 ATTATATTTATTAAATAATTATATT
1 A-TATA-TTATTAAATAATTA-ATT
170069 ATAATATTATT
1 AT-ATATTATT
170080 TTTTAAATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
23 19 0.37
24 22 0.42
25 11 0.21
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATATTATTAAATAATTAATT
Found at i:170079 original size:28 final size:28
Alignment explanation
Indices: 170008--170088 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 28
169998 ATATATTATC
170008 TATATATATAAT-TATATATTATATAAATAAT
1 TATAT-TATAATAT-TAT-TTAT-TAAATAAT
170039 TA-ATTAT--TA-TATTTATTAAATAAT
1 TATATTATAATATTATTTATTAAATAAT
*
170063 TATATTATAATATTATTTTTTAAATA
1 TATATTATAATATTATTTATTAAATA
170089 TTTTTTGTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
24 10 0.23
25 9 0.20
26 3 0.07
27 3 0.07
28 12 0.27
29 3 0.07
30 2 0.05
31 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATTATAATATTATTTATTAAATAAT
Found at i:170700 original size:30 final size:28
Alignment explanation
Indices: 170666--170722 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
170656 ATTAACATTT
170666 ATTAAT-TAGTAAATTAATAATATATAATTA
1 ATTAATATA-TAAATTAAT-ATA-ATAATTA
*
170696 ATTAATATATAATTTAATATAATAATT
1 ATTAATATATAAATTAATATAATAATT
170723 TTAATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 6 0.24
29 3 0.12
30 14 0.56
31 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
ATTAATATATAAATTAATATAATAATTA
Found at i:170701 original size:15 final size:15
Alignment explanation
Indices: 170677--170719 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
170667 TTAATTAGTA
170677 AATTAA-TAATATAT
1 AATTAATTAATATAT
170691 AATTAATTAATATAT
1 AATTAATTAATATAT
170706 AATTTAATATAATA
1 AA-TTAAT-TAATA
170720 ATTTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.23
15 10 0.38
16 5 0.19
17 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAATTAATATAT
Found at i:170720 original size:13 final size:13
Alignment explanation
Indices: 170687--170723 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
170677 AATTAATAAT
170687 ATATAATTAA-TTA
1 ATATAA-TAATTTA
170700 ATAT-ATAATTTA
1 ATATAATAATTTA
170712 ATATAATAATTT
1 ATATAATAATTT
170724 TAATTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.14
12 8 0.36
13 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATATAATAATTTA
Found at i:170986 original size:23 final size:22
Alignment explanation
Indices: 170947--171012 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
170937 AAATATTTAA
*
170947 ATAATTAATAAATTATTTATTT
1 ATAATTAATAAATTATTAATTT
170969 ATAATTAAATATAA-TATTAATTT
1 ATAATT-AATA-AATTATTAATTT
*
170992 ATAA-AATATAAATTATGTAAT
1 ATAATTA-ATAAATTAT-TAAT
171013 GAATTATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 3 0.08
22 12 0.32
23 20 0.54
24 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAATTAATAAATTATTAATTT
Found at i:171093 original size:27 final size:26
Alignment explanation
Indices: 171043--171105 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
171033 ATTGTATATT
* * *
171043 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
171070 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
171096 TATAATAATT
1 T-TAATAATT
171106 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:171101 original size:16 final size:15
Alignment explanation
Indices: 171080--171114 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
171070 TTAATAATTT
171080 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
171096 TATAATAATTAAATG
1 TATAATAATCAAATG
171111 TATA
1 TATA
171115 TGTGAATAGT
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:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:171200 original size:8 final size:7
Alignment explanation
Indices: 171186--171219 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
171176 TAAATATTTT
171186 AATTTAA
1 AATTTAA
171193 ATATTTAA
1 A-ATTTAA
171201 AATTTAAA
1 AATTT-AA
171209 AATTTAA
1 AATTTAA
171216 AATT
1 AATT
171220 ATTAACATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:171206 original size:15 final size:15
Alignment explanation
Indices: 171169--171219 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
171159 AATTAAATAA
*
171169 TAAAAATTAAATATT
1 TAAAATTTAAATATT
*
171184 T-TAATTTAAATATT
1 TAAAATTTAAATATT
*
171198 TAAAATTTAAAAATT
1 TAAAATTTAAATATT
171213 TAAAATT
1 TAAAATT
171220 ATTAACATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAATTTAAATATT
Found at i:171214 original size:28 final size:28
Alignment explanation
Indices: 171161--171215 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
171151 ATATCGATAA
*
171161 TTAAATAATAAAAATTAAATATTTTAAT
1 TTAAATAATAAAAATTAAATAATTTAAT
* *
171189 TTAAATATTTAAAATTTAAA-AATTTAA
1 TTAAATA-ATAAAAATTAAATAATTTAA
171216 AATTATTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TTAAATAATAAAAATTAAATAATTTAAT
Found at i:171775 original size:18 final size:19
Alignment explanation
Indices: 171752--171798 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
171742 GAATATCTAA
171752 ATATATTATAAAATAAT-T
1 ATATATTATAAAATAATGT
* * *
171770 ATATATAATATATTAATGT
1 ATATATTATAAAATAATGT
171789 ATA-ATTATAA
1 ATATATTATAA
171799 TTATATAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATATATTATAAAATAATGT
Found at i:171797 original size:21 final size:21
Alignment explanation
Indices: 171773--171813 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
171763 AATAATTATA
171773 TATAA-TATATTAATGTATAAT
1 TATAATTATA-TAATGTATAAT
*
171794 TATAATTATATAATTTATAA
1 TATAATTATATAATGTATAA
171814 GAATAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TATAATTATATAATGTATAAT
Found at i:172079 original size:14 final size:14
Alignment explanation
Indices: 172060--172087 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
172050 ATAAACTTAT
172060 TGATCAAATTATTG
1 TGATCAAATTATTG
172074 TGATCAAATTATTG
1 TGATCAAATTATTG
172088 CTAAATACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TGATCAAATTATTG
Found at i:172380 original size:16 final size:15
Alignment explanation
Indices: 172334--172380 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
172324 TGTATATTAA
*
172334 TATATAAATTATTAAT
1 TATATAAATTA-CAAT
172350 TATAT-AATT-CAAT
1 TATATAAATTACAAT
172363 TATATAAATTAACAAT
1 TATATAAATT-ACAAT
172379 TA
1 TA
172381 GAATATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 4 0.15
16 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATAAATTACAAT
Found at i:172725 original size:26 final size:25
Alignment explanation
Indices: 172670--172725 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
172660 CAAATAAATA
* *
172670 TTATTTTATTAACAATAATTATAGT
1 TTATATTATTAACAATAATTATAAT
*
172695 ATATATTATT-ACTAATGAATTATAAT
1 TTATATTATTAAC-AAT-AATTATAAT
172721 TTATA
1 TTATA
172726 AATTTGTGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 11 0.44
26 12 0.48
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (25 bp):
TTATATTATTAACAATAATTATAAT
Found at i:173142 original size:25 final size:24
Alignment explanation
Indices: 173114--173173 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
173104 ATTTAAATAA
*
173114 TTATTAATTATTA-ATAATAATTACT
1 TTATTAAAT-TTAGATAATAATTA-T
*
173139 TTATTAAATTTAGATAATACTTAT
1 TTATTAAATTTAGATAATAATTAT
173163 TTATTATAATT
1 TTATTA-AATT
173174 ATAACATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 21 0.68
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (24 bp):
TTATTAAATTTAGATAATAATTAT
Found at i:173167 original size:42 final size:42
Alignment explanation
Indices: 173104--173187 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
173094 TGTTAAGTTT
*
173104 ATTTAAATAATTATTAATTATTAATAATAATTAC-TTTATTAA
1 ATTTAAATAATTATTAATTATT-ATAATAATAACATTTATTAA
* * *
173146 ATTTAGATAA-TACTTATTTATTATAATTATAACATTTATTAA
1 ATTTAAATAATTA-TTAATTATTATAATAATAACATTTATTAA
173188 TTAATATAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 11 0.31
42 25 0.69
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (42 bp):
ATTTAAATAATTATTAATTATTATAATAATAACATTTATTAA
Found at i:173600 original size:17 final size:17
Alignment explanation
Indices: 173536--173601 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 17
173526 TATTAATAAA
173536 ATTATAATACTATAATTA-T
1 ATTATAATA--AT-ATTATT
173555 ATTATAAGTAA-ACTTATAT
1 ATTATAA-TAATA-TTAT-T
173574 ATTAATAATAATATTATT
1 ATT-ATAATAATATTATT
173592 ATTATAATAA
1 ATTATAATAA
173602 ATTTATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
16 1 0.02
17 10 0.24
18 5 0.12
19 18 0.44
20 7 0.17
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTATAATAATATTATT
Found at i:173607 original size:17 final size:18
Alignment explanation
Indices: 173552--173613 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 18
173542 ATACTATAAT
*
173552 TATATTATAAGTAAACTTA
1 TATATTATAA-TAAATTTA
173571 TATATTAATAAT-AATATTA
1 TATATT-ATAATAAAT-TTA
173590 T-TATTATAATAAATTTA
1 TATATTATAATAAATTTA
173607 TAT-TTAT
1 TATATTAT
173614 TTATGATTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 13 0.34
18 10 0.26
19 11 0.29
20 4 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TATATTATAATAAATTTA
Found at i:174528 original size:15 final size:16
Alignment explanation
Indices: 174507--174546 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
174497 TCTAGATATA
*
174507 ATATATTATAATTCAT
1 ATATATTATAATTAAT
174523 -TATATTGATAATTAAT
1 ATATATT-ATAATTAAT
174539 ATATATTA
1 ATATATTA
174547 ATGATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
ATATATTATAATTAAT
Found at i:175339 original size:27 final size:27
Alignment explanation
Indices: 175307--175359 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
175297 TTTCTTAATT
*
175307 ATATTA-TACTTAAATTATTATTAAATC
1 ATATTATTACTTAAATTAAT-TTAAATC
*
175334 ATATTATTATTTAAATTAATTTAAAT
1 ATATTATTACTTAAATTAATTTAAAT
175360 AAAGATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (27 bp):
ATATTATTACTTAAATTAATTTAAATC
Found at i:175432 original size:12 final size:12
Alignment explanation
Indices: 175412--175451 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
175402 ATGTTACTCA
*
175412 TAAAATATTAAT
1 TAAACTATTAAT
175424 TAAACTATTTAAT
1 TAAACTA-TTAAT
*
175437 TAAACTACTAAT
1 TAAACTATTAAT
175449 TAA
1 TAA
175452 TAATAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAACTATTAAT
Found at i:175437 original size:13 final size:13
Alignment explanation
Indices: 175419--175443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
175409 TCATAAAATA
175419 TTAATTAAACTAT
1 TTAATTAAACTAT
175432 TTAATTAAACTA
1 TTAATTAAACTA
175444 CTAATTAATA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAATTAAACTAT
Found at i:175586 original size:27 final size:25
Alignment explanation
Indices: 175556--175611 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
175546 TTATTTTATC
*
175556 AAATAATTATATTAATG-TATATATATT
1 AAATAAATATATT-ATGTTA-ATA-ATT
175583 AAATAAATATATTATGTTAATAATT
1 AAATAAATATATTATGTTAATAATT
175608 AAAT
1 AAAT
175612 TTTTGCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 7 0.26
26 6 0.22
27 14 0.52
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
AAATAAATATATTATGTTAATAATT
Found at i:176192 original size:21 final size:19
Alignment explanation
Indices: 176154--176194 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
176144 TTATTATATA
176154 ATTAAATTATATAATATTT
1 ATTAAATTATATAATATTT
*
176173 ATTATATTATAATAAATATTT
1 ATTAAATTAT-AT-AATATTT
176194 A
1 A
176195 ATTTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 2 0.11
21 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTAAATTATATAATATTT
Found at i:176292 original size:14 final size:13
Alignment explanation
Indices: 176270--176340 Score: 50
Period size: 14 Copynumber: 5.9 Consensus size: 13
176260 CATTTACTTA
*
176270 TTAATTATTATAAT
1 TTAACTATTAT-AT
176284 TTAACTATTATAT
1 TTAACTATTATAT
176297 TT-A--ATT-TA-
1 TTAACTATTATAT
176305 TTAACTATTATAT
1 TTAACTATTATAT
*
176318 ATTTACTA--ATAT
1 -TTAACTATTATAT
176330 TTAA-TATTATA
1 TTAACTATTATA
176341 GATTGTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 18
0.69 0.04 0.27
Matches are distributed among these distances:
8 2 0.04
9 3 0.07
10 5 0.11
11 6 0.13
12 10 0.22
13 4 0.09
14 16 0.35
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAACTATTATAT
Found at i:176306 original size:35 final size:34
Alignment explanation
Indices: 176267--176339 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
176257 AAACATTTAC
*
176267 TTATTAATTATTATA-ATTTAACTATTATATTTAAT-
1 TTATTAACTATTATATATTT-ACTA--ATATTTAATA
176302 TTATTAACTATTATATATTTACTAATATTTAATA
1 TTATTAACTATTATATATTTACTAATATTTAATA
176336 TTAT
1 TTAT
176340 AGATTGTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
33 9 0.26
34 4 0.11
35 18 0.51
36 4 0.11
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (34 bp):
TTATTAACTATTATATATTTACTAATATTTAATA
Found at i:176831 original size:175 final size:173
Alignment explanation
Indices: 176487--176821 Score: 412
Period size: 175 Copynumber: 1.9 Consensus size: 173
176477 TAAGTACAAG
* *
176487 ATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTGTTTTACCATAAAACAATTATTTATGT
1 ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTGTTTTACCATAAAACAATTATTTATAT
* *
176552 TCATACAAGCTTATTCAAAATAATATAAATTTACTAATATTCCAAAGATTAATAAGTAAAAATAT
66 TCATAAAAGCTTATTCAAAATAATATAAATTTACTAATATTCCAAAAATTAATAAGTAAAAATAT
* *
176617 ATAAAATAAATTTGTTTTTGAACACGTTCAAAATAATTATGAAC
131 ATAAAATAAATTTGTTTTTCAACAC-TGCAAAATAATTATGAAC
** * * *
176661 ATTTGAACAATTAATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCA-AAACCAATTGTTTTT
1 ATTTGAACAATT-ATCTATTTCAAATCGTTATGACC-TTTGTTTTACCATAAAACAATTATTTAT
* *
176725 ATTCATAAAAGCTTATTCAAAATAAAATAATACTAATTTATTAA-ATTTCAAAAATTAATAAGT-
64 ATTCATAAAAGCTTATTCAAAAT--AAT-ATA--AATTTACTAATATTCCAAAAATTAATAAGTA
* * *
176788 AAAATATTTAAAA-GAA-TTGTTTTTCATCA-TGCAA
124 AAAATATATAAAATAAATTTGTTTTTCAACACTGCAA
176822 GCCTAATTAT
Statistics
Matches: 138, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
174 16 0.12
175 55 0.40
176 21 0.15
177 5 0.04
178 15 0.11
179 17 0.12
180 9 0.07
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (173 bp):
ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTGTTTTACCATAAAACAATTATTTATAT
TCATAAAAGCTTATTCAAAATAATATAAATTTACTAATATTCCAAAAATTAATAAGTAAAAATAT
ATAAAATAAATTTGTTTTTCAACACTGCAAAATAATTATGAAC
Found at i:178023 original size:14 final size:12
Alignment explanation
Indices: 178002--178083 Score: 53
Period size: 14 Copynumber: 6.5 Consensus size: 12
177992 TATTTAATTA
178002 TAAAATTAGTAAT
1 TAAAATTA-TAAT
178015 TAAATATTACTAAT
1 TAAA-ATTA-TAAT
178029 ATAAAATTATAATAT
1 -TAAAATTAT-A-AT
*
178044 TAAAAATA-AAT
1 TAAAATTATAAT
178055 TAATAATTA-AA-
1 TAA-AATTATAAT
* *
178066 TAATATTAAAAT
1 TAAAATTATAAT
178078 TAAAAT
1 TAAAAT
178084 CCTTATAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
10 4 0.07
11 10 0.18
12 12 0.21
13 5 0.09
14 20 0.35
15 6 0.11
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (12 bp):
TAAAATTATAAT
Found at i:178068 original size:16 final size:16
Alignment explanation
Indices: 178047--178081 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
178037 ATAATATTAA
178047 AAATAA-ATTAATAATT
1 AAATAATATTAA-AATT
178063 AAATAATATTAAAATT
1 AAATAATATTAAAATT
178079 AAA
1 AAA
178082 ATCCTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATAATATTAAAATT
Found at i:178657 original size:18 final size:20
Alignment explanation
Indices: 178634--178672 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
178624 TAATTCTAAT
*
178634 TTAAT-AGT-ATTTCAAAAA
1 TTAATAAGTGATTTAAAAAA
178652 TTAATAAGTGATTTAAAAAA
1 TTAATAAGTGATTTAAAAAA
178672 T
1 T
178673 AAATGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (20 bp):
TTAATAAGTGATTTAAAAAA
Found at i:178736 original size:19 final size:18
Alignment explanation
Indices: 178712--178764 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
178702 TTCAGACTAT
*
178712 TATAATAATTATATATTTC
1 TATAATAATTACA-ATTTC
* *
178731 TATAATTATTACAATTTT
1 TATAATAATTACAATTTC
178749 TATTAATAATTA-AATT
1 TA-TAATAATTACAATT
178765 ATTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 10 0.34
19 19 0.66
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TATAATAATTACAATTTC
Found at i:178777 original size:21 final size:21
Alignment explanation
Indices: 178751--178792 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
178741 ACAATTTTTA
178751 TTAATAATTAAATTATTAAAT
1 TTAATAATTAAATTATTAAAT
* *
178772 TTAATAATTTATTTATTAAAT
1 TTAATAATTAAATTATTAAAT
178793 AAATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATAATTAAATTATTAAAT
Found at i:178801 original size:21 final size:21
Alignment explanation
Indices: 178753--178803 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
178743 AATTTTTATT
* * *
178753 AATAATTAAATTATTAAATTT
1 AATAATTTATTTATTAAATTA
178774 AATAATTTATTTATTAAA-TA
1 AATAATTTATTTATTAAATTA
178794 AATAAATTTA
1 AAT-AATTTA
178804 ATATTCCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAATTTATTTATTAAATTA
Found at i:178849 original size:41 final size:36
Alignment explanation
Indices: 178775--178849 Score: 87
Period size: 41 Copynumber: 1.9 Consensus size: 36
178765 ATTAAATTTA
*
178775 ATAATTTATTTATTAAATAAATAAATTTAATATTCC
1 ATAATTTATTTATTAAATAAATAAATTAAATATTCC
*
178811 ATAATTTATATTATGTTAATAAAGTTATAATTAAATATT
1 ATAATTTAT-TTAT-TAAATAAA--TA-AATTAAATATT
178850 AAAATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 9 0.28
37 4 0.12
38 7 0.22
40 2 0.06
41 10 0.31
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (36 bp):
ATAATTTATTTATTAAATAAATAAATTAAATATTCC
Found at i:178915 original size:16 final size:15
Alignment explanation
Indices: 178875--178941 Score: 70
Period size: 14 Copynumber: 4.7 Consensus size: 15
178865 TTAATTTGAA
*
178875 ATTATAA-ATA-AAT
1 ATTATAATATATATT
*
178888 ATTATAATATAT-TA
1 ATTATAATATATATT
178902 ATTATAATATATATCT
1 ATTATAATATATAT-T
*
178918 ATTATAAGATATA-T
1 ATTATAATATATATT
178932 ATTATAATAT
1 ATTATAATAT
178942 TAATAATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 7 0.16
14 25 0.56
15 1 0.02
16 12 0.27
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTATAATATATATT
Found at i:179128 original size:36 final size:35
Alignment explanation
Indices: 179057--179130 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
179047 TTTATTATAA
* * *
179057 TATAATTATAATAAATATAATATTATAATACTATT
1 TATAATTATAATAAATATAATAATATAAAAATATT
*
179092 TATAATTATTATTCAAAT-TAATAATATAAAAATATT
1 TATAATTA-TAAT-AAATATAATAATATAAAAATATT
179128 TAT
1 TAT
179131 TATATGAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 8 0.24
36 21 0.64
37 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (35 bp):
TATAATTATAATAAATATAATAATATAAAAATATT
Found at i:179957 original size:10 final size:9
Alignment explanation
Indices: 179928--179976 Score: 52
Period size: 8 Copynumber: 5.8 Consensus size: 9
179918 AATTTAATAC
179928 TTATAATTA
1 TTATAATTA
*
179937 ATATTAATTA
1 TTA-TAATTA
179947 TTATAA--A
1 TTATAATTA
179954 TTATAA-TA
1 TTATAATTA
179962 TTAT-ATTA
1 TTATAATTA
179970 TTATAAT
1 TTATAAT
179977 GTTAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
7 8 0.24
8 11 0.32
9 7 0.21
10 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTATAATTA
Found at i:180092 original size:14 final size:14
Alignment explanation
Indices: 180068--180116 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
180058 ATTTATTAAA
*
180068 ATATTAATAATTAT
1 ATATTATTAATTAT
*
180082 ATATTTTTAATTATT
1 ATATTATTAATTA-T
*
180097 ATATTATAAATTAT
1 ATATTATTAATTAT
*
180111 TTATTA
1 ATATTA
180117 CCAAATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATTATTAATTAT
Done.