Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168496.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_93, 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: 94084
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
File 2 of 2
Found at i:36198 original size:22 final size:22
Alignment explanation
Indices: 36158--36258 Score: 64
Period size: 22 Copynumber: 4.5 Consensus size: 22
36148 TATAATTTAG
* *
36158 TTATGTTAATATATTATTAATAA
1 TTAT-TTATTATATAATTAATAA
*
36181 TTATTTATTATATAATTAAATCA
1 TTATTTATTATATAATT-AATAA
* *
36204 -CAGTTATTATATAA-TAACT-A
1 TTATTTATTATATAATTAA-TAA
* *
36224 TAATTTATAATAATAATTAATAA
1 TTATTTATTAT-ATAATTAATAA
*
36247 TTTATATATTAT
1 -TTATTTATTAT
36259 TTAAAATTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
20 3 0.05
21 9 0.15
22 28 0.47
23 12 0.20
24 8 0.13
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATTTATTATATAATTAATAA
Found at i:36287 original size:22 final size:22
Alignment explanation
Indices: 36224--36287 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
36214 ATAATAACTA
36224 TAATTTATA-ATAATAATT-AA-
1 TAATTTATATA-AATAATTAAAT
* *
36244 TAATTTATAT-ATTATTTAAAAT
1 TAATTTATATAAATAATT-AAAT
36266 TAATTTATATAAATAATTAAAT
1 TAATTTATATAAATAATTAAAT
36288 AGTATATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 5 0.14
20 9 0.26
21 2 0.06
22 14 0.40
23 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATTTATATAAATAATTAAAT
Found at i:36394 original size:16 final size:15
Alignment explanation
Indices: 36345--36440 Score: 64
Period size: 16 Copynumber: 6.7 Consensus size: 15
36335 ATTAATTATA
*
36345 TATAA-ATAATAAAT
1 TATAATATAATAATT
36359 T-TAAT-T-ATAATT
1 TATAATATAATAATT
36371 TA-AATATAATAAGTT
1 TATAATATAATAA-TT
*
36386 TATAATATATTAATAT
1 TATAATATAATAAT-T
36402 TATAATATAAGT-A-T
1 TATAATATAA-TAATT
*
36416 TATTAT-TAAATAATT
1 TATAATAT-AATAATT
*
36431 TATCATATAA
1 TATAATATAA
36441 CTTTAACTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 23
0.70 0.05 0.25
Matches are distributed among these distances:
12 9 0.14
13 7 0.11
14 14 0.22
15 13 0.20
16 21 0.32
17 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (15 bp):
TATAATATAATAATT
Found at i:36409 original size:32 final size:29
Alignment explanation
Indices: 36331--36411 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 29
36321 GTTAAATATA
36331 AATTATTAATTATATATAA-ATAATAAATTT
1 AATTATTAA-TAT-TATAATATAATAAATTT
*
36361 AATTA-TAAT-TTA-AATATAATAAGTTTAT
1 AATTATTAATATTATAATATAATAA-ATT-T
36389 AATATATTAATATTATAATATAA
1 AAT-TATTAATATTATAATATAA
36412 GTATTATTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
25 2 0.05
26 9 0.21
27 3 0.07
28 5 0.12
29 5 0.12
30 9 0.21
31 3 0.07
32 7 0.16
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
AATTATTAATATTATAATATAATAAATTT
Found at i:36648 original size:16 final size:17
Alignment explanation
Indices: 36629--36675 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
36619 TTATTCATAA
36629 AACTAATTA-TAATTAT
1 AACTAATTATTAATTAT
36645 AACTAATTATTAATTA-
1 AACTAATTATTAATTAT
36661 AA-T-ATT-TTAATTAT
1 AACTAATTATTAATTAT
36675 A
1 A
36676 TTATTAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.24
14 4 0.14
15 1 0.03
16 11 0.38
17 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
AACTAATTATTAATTAT
Found at i:38311 original size:18 final size:15
Alignment explanation
Indices: 38275--38312 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
38265 ATAAATTACA
38275 AATTAATTATAAAAT
1 AATTAATTATAAAAT
*
38290 -ATTAATTA-ATAAT
1 AATTAATTATAAAAT
38303 AATTAATTAT
1 AATTAATTAT
38313 TATCATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAATTATAAAAT
Found at i:38398 original size:27 final size:26
Alignment explanation
Indices: 38359--38409 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
38349 AATTGTTACT
38359 TATAATTTATATTAAACTATAAATTA
1 TATAATTTATATTAAACTATAAATTA
* *
38385 TATAATATTATATTATACTGTAAAT
1 TATAAT-TTATATTAAACTATAAAT
38410 CAAATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
TATAATTTATATTAAACTATAAATTA
Found at i:38589 original size:24 final size:26
Alignment explanation
Indices: 38552--38600 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
38542 ATTACTATAT
38552 AATATAAATATATTAGTAACAAATAA
1 AATATAAATATATTAGTAACAAATAA
* *
38578 AATAT-AAT-TATTATTAATAAATA
1 AATATAAATATATTAGTAACAAATA
38601 TTATTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 3 0.14
26 5 0.24
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AATATAAATATATTAGTAACAAATAA
Found at i:38601 original size:19 final size:18
Alignment explanation
Indices: 38577--38644 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
38567 GTAACAAATA
38577 AAATATAATTATTATTAAT
1 AAATAT-ATTATTATTAAT
*
38596 AAATATTATTAATAAATTAAT
1 AAATA-TATT-AT-TATTAAT
38617 AAA-ATATTATT-TT-AT
1 AAATATATTATTATTAAT
38632 AAAGTAGTATTAT
1 AAA-TA-TATTAT
38645 CGATTATTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
15 5 0.12
16 2 0.05
17 1 0.02
18 8 0.20
19 12 0.29
20 4 0.10
21 9 0.22
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
AAATATATTATTATTAAT
Found at i:38602 original size:13 final size:13
Alignment explanation
Indices: 38581--38612 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
38571 CAAATAAAAT
*
38581 ATAATTATTATTA
1 ATAAATATTATTA
38594 ATAAATATTATTA
1 ATAAATATTATTA
38607 ATAAAT
1 ATAAAT
38613 TAATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAAATATTATTA
Found at i:38650 original size:25 final size:25
Alignment explanation
Indices: 38622--38676 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
38612 TTAATAAAAT
38622 ATTATT-TTA-TAAAGTAGTATTATCG
1 ATTATTATTATTAAA-TAGT-TTATCG
38647 ATTATTACTTATTAAATAGTTTATCG
1 ATTATTA-TTATTAAATAGTTTATCG
38673 -TTAT
1 ATTAT
38677 CGAAATTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
25 10 0.37
26 6 0.22
27 7 0.26
28 4 0.15
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (25 bp):
ATTATTATTATTAAATAGTTTATCG
Found at i:38742 original size:26 final size:24
Alignment explanation
Indices: 38711--38760 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
38701 AATCATGTGA
38711 AATAT-TTA-TATTAATAGATATAAT
1 AATATATTAGTATTAATA-AT-TAAT
38735 AATATATTAGTATTAATAATTAAT
1 AATATATTAGTATTAATAATTAAT
38759 AA
1 AA
38761 AAAAGTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 11 0.46
25 5 0.21
26 8 0.33
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
AATATATTAGTATTAATAATTAAT
Found at i:38874 original size:14 final size:14
Alignment explanation
Indices: 38831--38878 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
38821 ATAAATATAT
*
38831 ATTATAATTATAAGTA
1 ATTATAAAT-TAA-TA
*
38847 ATTAT-AAGTAATA
1 ATTATAAATTAATA
38860 ATTATAAATTAATA
1 ATTATAAATTAATA
38874 ATTAT
1 ATTAT
38879 TACTATACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 7 0.25
14 15 0.54
15 1 0.04
16 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
ATTATAAATTAATA
Found at i:39117 original size:19 final size:18
Alignment explanation
Indices: 39089--39130 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
39079 TTATTTGGAT
*
39089 ATTATTATTAATTAGTATA
1 ATTATAATTAATTA-TATA
39108 ATTATAATTAATTATATA
1 ATTATAATTAATTATATA
39126 ATTAT
1 ATTAT
39131 TTAAATCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTATAATTAATTATATA
Found at i:39134 original size:16 final size:16
Alignment explanation
Indices: 39087--39134 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
39077 ATTTATTTGG
*
39087 ATATTATTA-TTAATT
1 ATATAATTATTTAATT
39102 AGTATAATTATAATTAATT
1 A-TATAATTAT--TTAATT
39121 ATATAATTATTTAA
1 ATATAATTATTTAA
39135 ATCATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.04
16 11 0.39
18 9 0.32
19 7 0.25
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATAATTATTTAATT
Found at i:39240 original size:13 final size:14
Alignment explanation
Indices: 39211--39240 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
39201 AATACTAATA
39211 AATTTATAAACTTT
1 AATTTATAAACTTT
39225 AATTTATAAA-TTT
1 AATTTATAAACTTT
39238 AAT
1 AAT
39241 ATAATTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTATAAACTTT
Found at i:39286 original size:26 final size:26
Alignment explanation
Indices: 39242--39325 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
39232 AAATTTAATA
*
39242 TAATTGATAGTTA-ATTAAT-TATAAAAT
1 TAATT-ATA-TTATATTAATGTAT-AAAC
39269 TAATTATATTATATTAATGTATAAAC
1 TAATTATATTATATTAATGTATAAAC
* *
39295 TAATTATTTTATATATTAT-TATTAAAC
1 TAATTATATTATAT-TAATGTA-TAAAC
39322 TAAT
1 TAAT
39326 ATCTAATTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
25 3 0.06
26 27 0.54
27 20 0.40
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (26 bp):
TAATTATATTATATTAATGTATAAAC
Found at i:39357 original size:46 final size:46
Alignment explanation
Indices: 39301--39393 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
39291 AAACTAATTA
* *
39301 TTTTATATATTATTATTAAACTAATATCTAATTAATTATTATTAAG
1 TTTTATATATTATTACTAAACTAATATCTAATTAACTATTATTAAG
39347 TTTTATATATTATTACTAAACTAATATCTAATTAACTATTATTAAG
1 TTTTATATATTATTACTAAACTAATATCTAATTAACTATTATTAAG
39393 T
1 T
39394 ATTGTTAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (46 bp):
TTTTATATATTATTACTAAACTAATATCTAATTAACTATTATTAAG
Found at i:39648 original size:22 final size:26
Alignment explanation
Indices: 39623--39673 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 26
39613 ATATTGAATA
39623 TATTTA-AATAAA-TA-TTAAT-ATT
1 TATTTATAATAAATTATTTAATAATT
39645 TATTTATAATAAATTATTTAATAATT
1 TATTTATAATAAATTATTTAATAATT
39671 TAT
1 TAT
39674 ATTCTAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 6 0.24
24 2 0.08
25 5 0.20
26 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TATTTATAATAAATTATTTAATAATT
Found at i:39676 original size:28 final size:23
Alignment explanation
Indices: 39621--39676 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
39611 TAATATTGAA
39621 TATATTTAAATAAATATTAATAT
1 TATATTTAAATAAATATTAATAT
39644 T-TATTTATAATAAATTATTTAATAATT
1 TATATTTA-AATAAA-TA-TTAAT-A-T
39671 TATATT
1 TATATT
39677 CTAACATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 6 0.22
23 7 0.26
24 2 0.07
25 5 0.19
26 1 0.04
27 2 0.07
28 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TATATTTAAATAAATATTAATAT
Found at i:39873 original size:12 final size:12
Alignment explanation
Indices: 39831--39874 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
39821 ATTTTAATAC
*
39831 ATATATAATAAT
1 ATATATTATAAT
*
39843 ATATAATATAAT
1 ATATATTATAAT
* *
39855 ATTTATTATATT
1 ATATATTATAAT
39867 ATATATTA
1 ATATATTA
39875 ATTAACTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATATTATAAT
Found at i:40055 original size:15 final size:14
Alignment explanation
Indices: 40026--40061 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
40016 TATATAATTA
*
40026 TAATTACTTTAAAT
1 TAATTATTTTAAAT
40040 TAATTATTTATAAAT
1 TAATTATTT-TAAAT
40055 TAATTAT
1 TAATTAT
40062 AATAATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTATTTTAAAT
Found at i:41910 original size:180 final size:177
Alignment explanation
Indices: 41529--41911 Score: 407
Period size: 177 Copynumber: 2.1 Consensus size: 177
41519 TTATATTCAT
* * *
41529 ACCAATTCTAATAATTATGACTATTTGAACAATTATCCATTTCAAATCATTATGACTTTTTGTTT
1 ACCAATTCAAATAGTTATGACTATTTGAACAATTATCCATTTCAAATCATTATGACTTTTTGTTC
* * * * **
41594 TGTCATAAAACAAATGTTTTAGTTCATATAAGTTTGTTTGGAATAAAATAATACTAATCTATTAA
66 TATCATAAAACAAATGTTTTAGTTCATACAAGCTTATTCAGAATAAAATAATACTAATCTATTAA
* * * * *
41659 TATTTCAAAAATTACTAAGAGATTTAAAAAATAAATCTTTTTATCAA
131 TATTTCAAAAATAACTAAAAAATTTAAAAAATAAATATGTTTATCAA
** ** * *
41706 ACCAATTCAAATAGTTATGACTATTTGAGTAATTATTTATTTCAAATCGTTATTACTTTTTGTTC
1 ACCAATTCAAATAGTTATGACTATTTGAACAATTATCCATTTCAAATCATTATGACTTTTTGTTC
* * * *
41771 TATTAT-AAAC-AATAGTTTCTA-TTCATACAAGCTTATTCAGATTAACATAATACTAATTTATT
66 TATCATAAAACAAAT-GTTT-TAGTTCATACAAGCTTATTCAGAATAAAATAATACTAATCTATT
* * *
41833 AATATTTTGACAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTA-CTAA
129 AATA-TTT--CAA-AAATAACTAAAAAATTTAAAAAATAAATATGTTTATC-AA
*
41886 ACTAGA-TCAAATAGTTATGACTATTT
1 ACCA-ATTCAAATAGTTATGACTATTT
41912 ATTTTCAAAT
Statistics
Matches: 170, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
175 3 0.02
176 45 0.26
177 65 0.38
179 4 0.02
180 52 0.31
181 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (177 bp):
ACCAATTCAAATAGTTATGACTATTTGAACAATTATCCATTTCAAATCATTATGACTTTTTGTTC
TATCATAAAACAAATGTTTTAGTTCATACAAGCTTATTCAGAATAAAATAATACTAATCTATTAA
TATTTCAAAAATAACTAAAAAATTTAAAAAATAAATATGTTTATCAA
Found at i:42228 original size:20 final size:19
Alignment explanation
Indices: 42181--42234 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
42171 TAATTAATAA
42181 CAATTATTAAT-TATTATT
1 CAATTATTAATATATTATT
*
42199 --ATTATAAATATATTATT
1 CAATTATTAATATATTATT
*
42216 CAATATATTAATAAATTAT
1 CAAT-TATTAATATATTAT
42235 ATACTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 8 0.28
17 7 0.24
19 2 0.07
20 12 0.41
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (19 bp):
CAATTATTAATATATTATT
Found at i:42247 original size:23 final size:23
Alignment explanation
Indices: 42196--42248 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
42186 ATTAATTATT
42196 ATTATT-ATAAATATATTATTCA
1 ATTATTAATAAATATATTATTCA
42218 ATATATTAATAAAT-TATATACTT-A
1 AT-TATTAATAAATATAT-TA-TTCA
42242 ATTATTA
1 ATTATTA
42249 TTTAGTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 2 0.07
23 12 0.44
24 11 0.41
25 2 0.07
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATTAATAAATATATTATTCA
Found at i:42422 original size:29 final size:29
Alignment explanation
Indices: 42361--42422 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
42351 AATAAATTCA
*
42361 TAATT-TTATAATTATAATAATATTAAAT
1 TAATTATTATAATTATAATAATAATAAAT
*
42389 T-ATTATTATAACTTATAATAA-AATAACT
1 TAATTATTATAA-TTATAATAATAATAAAT
42417 TAATTA
1 TAATTA
42423 CTGTTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 3 0.10
28 13 0.45
29 13 0.45
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
TAATTATTATAATTATAATAATAATAAAT
Found at i:42511 original size:7 final size:7
Alignment explanation
Indices: 42494--42531 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
42484 TAATTAATTA
42494 TAATA-T
1 TAATAGT
42500 TAATAGT
1 TAATAGT
42507 TAATAGT
1 TAATAGT
42514 TAATAGT
1 TAATAGT
*
42521 TATTA-T
1 TAATAGT
42527 TAATA
1 TAATA
42532 TTTTATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 10 0.34
7 19 0.66
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (7 bp):
TAATAGT
Found at i:42539 original size:11 final size:13
Alignment explanation
Indices: 42497--42541 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
42487 TTAATTATAA
*
42497 TATTAATAGTTAA
1 TATTAATAGTTAT
42510 TAGTTAATAGTTAT
1 TA-TTAATAGTTAT
42524 TATTAATA-TT-T
1 TATTAATAGTTAT
42535 TATTAAT
1 TATTAAT
42542 TATTATTGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 8 0.27
14 12 0.40
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (13 bp):
TATTAATAGTTAT
Found at i:42624 original size:18 final size:18
Alignment explanation
Indices: 42601--42635 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42591 GTCAAATTAA
42601 ATTATATAATAAATAATT
1 ATTATATAATAAATAATT
*
42619 ATTATATAATATATAAT
1 ATTATATAATAAATAAT
42636 ATAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATATAATAAATAATT
Found at i:42636 original size:25 final size:25
Alignment explanation
Indices: 42603--42668 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
42593 CAAATTAAAT
*
42603 TATATAATAAATAATTATTATATA-A
1 TATATAATAAATAATTATAAT-TACA
42628 TATATAATATAA-AATTATAATTACA
1 TATATAATA-AATAATTATAATTACA
*
42653 TATTATAATAATTAAT
1 TA-TATAATAAATAAT
42669 ATGATTCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 2 0.06
25 21 0.60
26 12 0.34
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TATATAATAAATAATTATAATTACA
Found at i:42648 original size:13 final size:13
Alignment explanation
Indices: 42605--42662 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
42595 AATTAAATTA
42605 TATAATA-AATAAT
1 TATAATATAA-AAT
* *
42618 TATTATATAATA-
1 TATAATATAAAAT
42630 TATAATATAAAAT
1 TATAATATAAAAT
*
42643 TATAAT-TACATAT
1 TATAATATA-AAAT
42656 TATAATA
1 TATAATA
42663 ATTAATATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
12 12 0.33
13 22 0.61
14 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
TATAATATAAAAT
Found at i:42775 original size:18 final size:19
Alignment explanation
Indices: 42752--42787 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
42742 AATTATTATA
42752 ATAAATAGTAA-TAATATT
1 ATAAATAGTAACTAATATT
*
42770 ATAAATATTAACTAATAT
1 ATAAATAGTAACTAATAT
42788 ATGACTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAAATAGTAACTAATATT
Found at i:42832 original size:18 final size:18
Alignment explanation
Indices: 42684--42834 Score: 53
Period size: 18 Copynumber: 8.1 Consensus size: 18
42674 TCATAAATAT
*
42684 TATTAATAATATTTAATTA
1 TATTAAT-ATATTAAATTA
* *
42703 TAATAATGTATTAAATTA
1 TATTAATATATTAAATTA
* *
42721 TTACATGATACTATATAAATTA
1 -TA-TTAATA-TAT-TAAATTA
* *
42743 -ATTATTATAATAAA-TA
1 TATTAATATATTAAATTA
* *
42759 GTAATAATATTATAAATATTA
1 -TATTAATA-TATTAA-ATTA
* * *
42780 -ACTAATATATGACTATTA
1 TATTAATATATTA-AATTA
42798 GT-TTAA-A-ATTGAAATTA
1 -TATTAATATATT-AAATTA
42815 TATTAATATATTAAATTA
1 TATTAATATATTAAATTA
42833 TA
1 TA
42835 ATAGCCAAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 33
0.65 0.13 0.22
Matches are distributed among these distances:
16 3 0.03
17 14 0.14
18 35 0.36
19 27 0.28
20 6 0.06
21 5 0.05
22 7 0.07
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (18 bp):
TATTAATATATTAAATTA
Found at i:43953 original size:23 final size:24
Alignment explanation
Indices: 43913--43960 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
43903 ATTAAAATAA
43913 ATAATTATAAATTAAATTAATTAT
1 ATAATTATAAATTAAATTAATTAT
*
43937 ATAATTAT-AATTCAATTAATTAT
1 ATAATTATAAATTAAATTAATTAT
43960 A
1 A
43961 ATTAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAATTATAAATTAAATTAATTAT
Found at i:44439 original size:14 final size:14
Alignment explanation
Indices: 44417--44446 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44407 ATAAAACTAA
*
44417 ATAATTATATTATT
1 ATAAATATATTATT
44431 ATAAATATATTATT
1 ATAAATATATTATT
44445 AT
1 AT
44447 CTTAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATAAATATATTATT
Found at i:44605 original size:21 final size:20
Alignment explanation
Indices: 44558--44605 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 20
44548 CATAATACTA
*
44558 ATTTTAATCTATTATAATTT
1 ATTTTAATCAATTATAATTT
44578 A-TTTAAT-AATTATAATTAAT
1 ATTTTAATCAATTATAATT--T
44598 ATTTTAAT
1 ATTTTAAT
44606 TTTTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 3 0.12
21 6 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTAATCAATTATAATTT
Found at i:45131 original size:10 final size:10
Alignment explanation
Indices: 45116--45162 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
45106 TTCAATTCAG
45116 TTAATTTTAA
1 TTAATTTTAA
45126 TTAATTTTAA
1 TTAATTTTAA
*
45136 TT-A-TATAA
1 TTAATTTTAA
*
45144 ATAATTTTAA
1 TTAATTTTAA
45154 TT-ATTTTAA
1 TTAATTTTAA
45163 AATAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
8 5 0.16
9 9 0.29
10 17 0.55
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:45198 original size:21 final size:23
Alignment explanation
Indices: 45163--45211 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
45153 ATTATTTTAA
45163 AATAATTTAAAAGAATTAAAT-T
1 AATAATTTAAAAGAATTAAATAT
* *
45185 AATACTTT-AAAGAATTATATAT
1 AATAATTTAAAAGAATTAAATAT
45207 AATAA
1 AATAA
45212 AATTAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (23 bp):
AATAATTTAAAAGAATTAAATAT
Found at i:46198 original size:182 final size:180
Alignment explanation
Indices: 45481--46509 Score: 661
Period size: 176 Copynumber: 5.7 Consensus size: 180
45471 TTTAAATCTC
* * * * *
45481 TTAATTTTTAAAATATTAAGAAAAGTAGTATTATTTTATTTTGGATAAACTTTTGTGAACTAAAA
1 TTAATTTTTAAAATATTAA-TAAATTAGTATTATTTTATTTTAGATAATCTTTTATGAACTAAAA
* * ** *
45546 CAATTGTTTTATGACAAAACAAAAAT-TCACAATGATTTTAAATAGATAATTGTTTAAATAGTCA
65 CAATTATTTTATGACAAAAC-AAAATGTCAAAACAATTTGAAATAGATAATTGTTTAAATAGTCA
* * * * ** * *
45610 TAACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCCAATATCCTGCTTA
129 TAACTATTTGAA-TTGCTCGATAAACAGATTTA-TTTTTTAAATCTCTTGCTTA
* * * * * *
45664 TTAATCTTTCAAAA-GTTAATAAATTAGTATTATTTT-CTTTCGAATAAGCTTGTATGAACTAAA
1 TTAAT-TTTTAAAATATTAATAAATTAGTATTATTTTATTTTAG-ATAATCTTTTATGAACTAAA
* ** * * * * * *
45727 ATAATTATTTTATGATTAAACAAAATGTTAGAACAATTTGAAATAGATAATT-ATTCAATAATCT
64 ACAATTATTTTATGACAAAACAAAATGTCAAAACAATTTGAAATAGATAATTGTTTAAATAGTCA
* * * *
45791 TAACTATTTGAACTGATCGACAAACACATTTATTTTTTAAA--TC-T-CTTA
129 TAACTATTTGAATTGCTCGATAAACAGATTTATTTTTTAAATCTCTTGCTTA
* * * * * **
45839 TTAATTTTTAAAATATTATTAAAATTAGTATTATTTTTATCTGA-ATTAGCTTATGTGAT-AAAA
1 TTAATTTTTAAAATATTAAT-AAATTAGTATTA-TTTTATTTTAGATAATCTT-T-T-ATGAACT
* * * *
45902 AAAACAATTATTTTATGACAAAAC-AAA-GATCATAACAATTTGATATTA-ATATTTGTTCAAAT
61 AAAACAATTATTTTATGACAAAACAAAATG-TCAAAACAATTTGA-AATAGATAATTGTTTAAAT
* * * * * * *
45964 AGTCATTACTATTAGAATTGCTTTGAAAAATAGCTTTAGTTTTTAAATCTCTTGCTTA
124 AGTCATAACTATTTGAATTGC-TCGATAAACAGATTTATTTTTTAAATCTCTTGCTTA
* * * * *
46022 ATAATTTTTGAAATATTAATAAAGTAGTATTATTTTATTTTAGATAATTTTTTATTAACTAAAAC
1 TTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTTAGATAATCTTTTATGAACTAAAAC
* * *
46087 AATTGTTTTATGACAAAACAAAATGTCAAAATAATTTTAAATAGATAATTGTTTAAATAGTCATA
66 AATTATTTTATGACAAAACAAAATGTCAAAACAATTTGAAATAGATAATTGTTTAAATAGTCATA
* *
46152 TCTATTTGAAAATGCTC-AGTAAACAGATTTATTTTTTTAAATCTCTTGC-T-
131 ACTATTTG-AATTGCTCGA-TAAACAGATTTA-TTTTTTAAATCTCTTGCTTA
*** * * * * * * *
46202 TTAATTTTCCGAATGTTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACGAAAAT
1 TTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTTAGATAATCTTTTATGAACTAAAAC
** * * * ** * * ** *
46267 AATT-CCTTATGACTAAACAAAAGGAT-AGAATGATTTGAAATAGATAATTATTCT-GATAACCT
66 AATTATTTTATGACAAAACAAAATG-TCAAAACAATTTGAAATAGATAATTGTT-TAAATAGTCA
* * * * *
46329 TAACTATTTGAACTAGTTCAACT-AACATATTTATTTTGTAAA--TC-T-CTTA
129 TAACTATTTGAA-TTGCTCGA-TAAACAGATTTATTTTTTAAATCTCTTGCTTA
* * * * ** * * * ***
46378 TTAATTTTTGAAATATTATTAAATTAGTATCATTTTAATCCAAATAAACTTGTATGAAAGGAAAC
1 TTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTTAGATAATCTTTTATGAACTAAAAC
* * * ** ** * *
46443 AATTGTTGTATGACAAAA-TAAA-GATCATTATGATTTGAGATAGATAATTGTTCAAATAGTCAT
66 AATTATTTTATGACAAAACAAAATG-TCAAAACAATTTGAAATAGATAATTGTTTAAATAGTCAT
46506 AACT
130 AACT
46510 TATATTAATA
Statistics
Matches: 662, Mismatches: 149, Indels: 77
0.75 0.17 0.09
Matches are distributed among these distances:
174 8 0.01
175 18 0.03
176 114 0.17
177 35 0.05
178 57 0.09
179 93 0.14
180 103 0.16
181 89 0.13
182 108 0.16
183 30 0.05
184 7 0.01
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (180 bp):
TTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTTAGATAATCTTTTATGAACTAAAAC
AATTATTTTATGACAAAACAAAATGTCAAAACAATTTGAAATAGATAATTGTTTAAATAGTCATA
ACTATTTGAATTGCTCGATAAACAGATTTATTTTTTAAATCTCTTGCTTA
Found at i:46338 original size:179 final size:178
Alignment explanation
Indices: 45452--46460 Score: 666
Period size: 182 Copynumber: 5.7 Consensus size: 178
45442 ATAAACTAAG
* * * *
45452 TCAG-TAAACTGATTTATTTTTTAAATCTC---TTAATTTTTAAAATATTAAGAAAAGTAGTATT
1 TCAGATAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTGAAATATTAA-TAAATTAGTATT
*** * * * * *
45513 ATTTTATTTTGGATAAACTTTTGTGAACTAAAACAATTGTTTTATGACAAAACAAAA--ATTCAC
65 ATTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTATTTTATGACAAAACAAAATGA-TCAG
** * * ** *
45576 AATGATTTTAAATAGATAATTGTT-TAAATAGTCATAACTATTTGAACTTG-
129 AACAATTTGAAATAGATAATTATTCT-AATAACCTTAACTATTTGAAC-TGC
** * * * * *
45626 TTTGGTAAACAAATTTAGTTTTTCCAATATCCTGCTTATTAATCTTTCAAA-AGTTAATAAATTA
1 TCAGATAAACAGATTTA-TTTTT-TAA-AT-CT-CTTATTAATTTTTGAAATA-TTAATAAATTA
* * * **
45690 GTATTATTTTCTTTCGAATAAGCTTGTATGAACTAAAATAATTATTTTATGATTAAACAAAATG-
60 GTATTATTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTATTTTATGACAAAACAAAATGA
* * *
45754 TTAGAACAATTTGAAATAGATAATTATTC-AATAATCTTAACTATTTGAACTGA
125 TCAGAACAATTTGAAATAGATAATTATTCTAATAACCTTAACTATTTGAACTGC
* * * *
45807 TC-GACAAACACATTTATTTTTTAAATCTCTTATTAATTTTTAAAATATTATTAAAATTAGTATT
1 TCAGATAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTGAAATATTAAT-AAATTAGTATT
* * * **
45871 ATTTT-TATCTGAATTAGCTTATGTGAT-AAAAAAAACAATTATTTTATGACAAAAC-AAA-GAT
65 ATTTTATTTC-AAATAAGC-T-TGT-ATGAACTAAAACAATTATTTTATGACAAAACAAAATGAT
* * * * * * * * *
45932 CATAACAATTTGATATTA-ATATTTGTTCAAATAGTCATT-ACTATTAGAATTGC
126 CAGAACAATTTGA-AATAGATAATTATTCTAATA-ACCTTAACTATTTGAACTGC
** * * * * * *
45985 TTTGAAAAATAGCTTTAGTTTTTAAATCTCTTGCTTAATAATTTTTGAAATATTAATAAAGTAGT
1 TCAGATAAACAGATTTATTTTTTAAA--TC-T-CTTATTAATTTTTGAAATATTAATAAATTAGT
* * ** * * *
46050 ATTATTTTATTTTAGATAATTTTTTATTAACTAAAACAATTGTTTTATGACAAAACAAAATG-TC
62 ATTATTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTATTTTATGACAAAACAAAATGATC
* * * * ** * * *
46114 AAAATAATTTTAAATAGATAATTGTT-TAAATAGTCATATCTATTTGAAAATGC
127 AGAACAATTTGAAATAGATAATTATTCT-AATAACCTTAACTATTTG-AACTGC
* * *
46167 TCAG-TAAACAGATTTATTTTTTTAAATCTCTTGCTTTAATTTTCCG-AATGTTAATAAATTAGT
1 TCAGATAAACAGATTTA-TTTTTTAAATCTCTT--ATTAATTTT-TGAAATATTAATAAATTAGT
* * ** * *
46230 ATTATTTTATTTCAAATAAGCTTGTATGAACGAAAATAATT-CCTTATGACTAAACAAAAGGAT-
62 ATTATTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTATTTTATGACAAAACAAAATGATC
** * *
46293 AGAATGATTTGAAATAGATAATTATTCTGATAACCTTAACTATTTGAACTAGT
127 AGAACAATTTGAAATAGATAATTATTCTAATAACCTTAACTATTTGAACT-GC
* * * *
46346 TCA-ACT-AACATATTTATTTTGTAAATCTCTTATTAATTTTTGAAATATTATTAAATTAGTATC
1 TCAGA-TAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTGAAATATTAATAAATTAGTATT
* * * *** * *
46409 ATTTTAATCCAAATAAACTTGTATGAAAGGAAACAATTGTTGTATGACAAAA
65 ATTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTATTTTATGACAAAA
46461 TAAAGATCAT
Statistics
Matches: 649, Mismatches: 138, Indels: 93
0.74 0.16 0.11
Matches are distributed among these distances:
174 2 0.00
175 33 0.05
176 89 0.14
177 37 0.06
178 69 0.11
179 96 0.15
180 105 0.16
181 65 0.10
182 115 0.18
183 38 0.06
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (178 bp):
TCAGATAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTGAAATATTAATAAATTAGTATTA
TTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTATTTTATGACAAAACAAAATGATCAGAA
CAATTTGAAATAGATAATTATTCTAATAACCTTAACTATTTGAACTGC
Found at i:46685 original size:35 final size:33
Alignment explanation
Indices: 46591--46685 Score: 81
Period size: 35 Copynumber: 2.8 Consensus size: 33
46581 ATTAAGATTT
*
46591 TAATAATGATTA-TTAGTA-TTATAT-TTATATTA
1 TAATAAT-ATTATTTA-TATTTAAATATTATATTA
* *
46623 TAATACTATTATTCA-ATTTATATATATTATAATTA
1 TAATAATATTATTTATATTTA-A-ATATTAT-ATTA
46658 TAATAATATTATTTATTATTTAAATATT
1 TAATAATATTATTTA-TATTTAAATATT
46686 TAAATATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
30 1 0.02
31 7 0.14
32 8 0.16
33 2 0.04
34 4 0.08
35 22 0.44
36 1 0.02
37 5 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (33 bp):
TAATAATATTATTTATATTTAAATATTATATTA
Found at i:46687 original size:8 final size:8
Alignment explanation
Indices: 46674--46703 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
46664 TATTATTTAT
46674 TATTTAAA
1 TATTTAAA
46682 TATTTAAA
1 TATTTAAA
46690 TATTTAAA
1 TATTTAAA
46698 TATTTA
1 TATTTA
46704 TTAATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TATTTAAA
Found at i:46715 original size:20 final size:20
Alignment explanation
Indices: 46671--46727 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
46661 TAATATTATT
46671 TATTATTTAAATATTTA--AA
1 TATT-TTTAAATATTTATTAA
46690 TA--TTTAAATATTTATTAA
1 TATTTTTAAATATTTATTAA
* *
46708 TATTTTTAATTATATATTAA
1 TATTTTTAAATATTTATTAA
46728 ATTAAATTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 12 0.38
18 4 0.12
19 2 0.06
20 14 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTTTAAATATTTATTAA
Found at i:47977 original size:67 final size:67
Alignment explanation
Indices: 47846--47983 Score: 168
Period size: 67 Copynumber: 2.1 Consensus size: 67
47836 TATCTATTTC
* * * **
47846 AAATTGTTATTACCTTTCATTTTGTCATAAAATAATTATTTTTTAACATACAAGCTTATTTGAAA
1 AAATTGTTAGTACCTTTCATTTTGTCATAAAACAATTATTTTTGAACATACAAGCTTACCTGAAA
47911 TA
66 TA
* ** ** * *
47913 AAATTGTTAGTACTTTTTGTTTTGTCATAAAACAATTATTTTTGAATGTATAAGTTTACCTGAAA
1 AAATTGTTAGTACCTTTCATTTTGTCATAAAACAATTATTTTTGAACATACAAGCTTACCTGAAA
47978 TA
66 TA
47980 AAAT
1 AAAT
47984 AATACTAATT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (67 bp):
AAATTGTTAGTACCTTTCATTTTGTCATAAAACAATTATTTTTGAACATACAAGCTTACCTGAAA
TA
Found at i:48309 original size:180 final size:181
Alignment explanation
Indices: 47913--48482 Score: 482
Period size: 180 Copynumber: 3.2 Consensus size: 181
47903 ATTTGAAATA
* * ** ** * * * *
47913 AAATTGTTAGT-ACTTTTTGTTTTGTCATAAAACAATTATTTTTGAATGTATAAGTTTACCTGAA
1 AAATTGTTA-TAACCTTTTATTTTGTCATAAAACAATTATTTCAGCGTATACAAGCTTATC-GAA
* * * * * * *
47977 ATAAAATAATACTAATTTATTAATATTTGAAGAATT-AGT-AC---GAGATTCAAAAAATAAATC
64 AAAAAATAAAACTAAATTAATAATATTTGAAAAATTCA-TAACTAAGAGATTTAAAAAATAAATT
** ** * * *
48037 TATTTACCGAATAAG-TTCAAATAATTATGATTATTTGAACAATTATCTATTTC
128 TATTTATTGAACCAGTTTCAAATAATTATAACTATATGAACAATTATCTATTTC
** * ** *
48090 AAATTGTTATAATATTTTATTTTGTCATAAAATAATTATTTTTGTTCGTATA-AA-TTTATTC-A
1 AAATTGTTATAACCTTTTATTTTGTCATAAAACAATTATTTCAG--CGTATACAAGCTTA-TCGA
* * *
48152 AAAAAAATAATACTAAATTAATAATATTCT-AGAAATTCATAACTAAGAGATTTAAAAAGTAAAT
63 AAAAAAATAAAACTAAATTAATAATATT-TGAAAAATTCATAACTAAGAGATTTAAAAAATAAAT
* * * * *
48216 TTGTTTGTTGAACCAGTTT-AAATAGTTA-AGACTATATGAATAATTATCTATTTT
127 TTATTTATTGAACCAGTTTCAAATAATTATA-ACTATATGAACAATTATCTATTTC
* * * * * *
48270 AAATTGTTATGACCTTTTGTTTTGTTATAAAACAATTATTTCAGCTTATACAAGCTTATCGTAAT
1 AAATTGTTATAACCTTTTATTTTGTCATAAAACAATTATTTCAGCGTATACAAGCTTATCGAAAA
* * * ** *
48335 AAAATAAAACTAATTTATTAATATTTGAAAAATTTATATGTAAGAGATTTAAAAAATAATTTTAT
66 AAAATAAAACTAAATTAATAATATTTGAAAAATTCATAACTAAGAGATTTAAAAAATAAATTTAT
** * *
48400 TTATTGAATTAGTTTCAAATAATTATAACTATTTGAACAATTATATATTTC
131 TTATTGAACCAGTTTCAAATAATTATAACTATATGAACAATTATCTATTTC
*
48451 AATTTGTTATAACCTTTTATTTTGTCATAAAA
1 AAATTGTTATAACCTTTTATTTTGTCATAAAA
48483 TAATACTAAT
Statistics
Matches: 313, Mismatches: 62, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
176 33 0.11
177 46 0.15
178 8 0.03
179 8 0.03
180 159 0.51
181 58 0.19
182 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.43
Consensus pattern (181 bp):
AAATTGTTATAACCTTTTATTTTGTCATAAAACAATTATTTCAGCGTATACAAGCTTATCGAAAA
AAAATAAAACTAAATTAATAATATTTGAAAAATTCATAACTAAGAGATTTAAAAAATAAATTTAT
TTATTGAACCAGTTTCAAATAATTATAACTATATGAACAATTATCTATTTC
Found at i:48746 original size:324 final size:325
Alignment explanation
Indices: 48155--48774 Score: 733
Period size: 324 Copynumber: 1.9 Consensus size: 325
48145 TTATTCAAAA
* * *
48155 AAAATAATACTAAATTAATAATATTCTAGAAATTCATAACTAAGAGATTTAAAAAGTAAATTTGT
1 AAAATAATACTAAATAAATAATATTCTAGAAATTAATAACTAAGAGAATTAAAAAGTAAATTTGT
*** * * * * * *** *
48220 TTGTTGAACCAGTTTAAATAGTTAAGACTATATGAATAATTATCTATTTTAAATTGTTATGACCT
66 TTGCCAAACCACTTCAAATAGTTAAGACTATATAAAAAATTATCTATTTCAAAAACTTATGACAT
* * * *
48285 TTTGTTTTGTTATAAAACAATTATTTCAGCTTATACAAGCTTATCGTAATAAAATAAAACTAATT
131 TTTATTTTATTATAAAACAATTATTTCAGCTTATACAAGCTTATAGTAATAAAATAAAACTAATG
* * * * ** *
48350 TATTAATATTTGAAAAATTTATATGTAAGAGATTTAAAAAATAATTTTATTTATTGAATTAGTTT
196 TATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAATTTTAGTTACCGAAGTAGTTT
48415 CAAATAATTAT-AACTATTTGAACAA-TTATATATTTCAATTTGTTATAACCTTTTATTTTGTCA
261 CAAATAATTATGAA-TATTTGAACAATTTATATATTTCAATTTGTTATAACCTTTTATTTTGTCA
48478 T
325 T
* *
48479 AAAATAATACT-AATCAAATAATATT-TTGACAATTAATAACTAAGAGAATTAAAAATTAAATTT
1 AAAATAATACTAAAT-AAATAATATTCTAGA-AATTAATAACTAAGAGAATTAAAAAGTAAATTT
* * *
48542 GTTTGCCAAACCACTTCAAATGGTTAAGGCTATATAAAAAATTTTCTATTTCAAAAACTTATGAC
64 GTTTGCCAAACCACTTCAAATAGTTAAGACTATATAAAAAATTATCTATTTCAAAAACTTATGAC
* * *
48607 ATTTTATTTTATTGA-AAAGCAATTTTTTTAGCTCT-TACTAA-CTTATTTAG-AATAAAAT-AA
129 ATTTTATTTTATT-ATAAAACAATTATTTCAGCT-TATAC-AAGCTTA--TAGTAATAAAATAAA
*
48667 ATTAACTGTATTAATATTTCAAAAATTAATAAGTAAGAGA-TTAAAAATATAATTTT-GTTAGCC
189 ACTAA-TGTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAA-ATAATTTTAGTTA-CC
*
48730 GAAGTAGTTT-AAATAATTATGAATATTTGAACAATTTATCTATTT
251 GAAGTAGTTTCAAATAATTATGAATATTTGAACAATTTATATATTT
48775 TAAATCACTA
Statistics
Matches: 248, Mismatches: 36, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
323 6 0.02
324 170 0.69
325 70 0.28
326 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (325 bp):
AAAATAATACTAAATAAATAATATTCTAGAAATTAATAACTAAGAGAATTAAAAAGTAAATTTGT
TTGCCAAACCACTTCAAATAGTTAAGACTATATAAAAAATTATCTATTTCAAAAACTTATGACAT
TTTATTTTATTATAAAACAATTATTTCAGCTTATACAAGCTTATAGTAATAAAATAAAACTAATG
TATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAATTTTAGTTACCGAAGTAGTTT
CAAATAATTATGAATATTTGAACAATTTATATATTTCAATTTGTTATAACCTTTTATTTTGTCAT
Found at i:49393 original size:120 final size:120
Alignment explanation
Indices: 49224--49461 Score: 293
Period size: 120 Copynumber: 2.0 Consensus size: 120
49214 TTTAAAAAAT
* * ** *
49224 AAATTTATTTACTGAACAAGTTCAAATAATTATGGTTATTTGAATAATTATCTATTTCAAAT-AG
1 AAATCTATTTACCGAACAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCA-
*
49288 CTATGACCTTATGTTTTGTTATAAAACAATT-TTTTCTATTCATACAAA-CTTATTTC
65 CTATGACCTTATGTTTTGTCATAAAACAATTATTTT-TATTCATA-AAAGCTTATTTC
* * * * * *
49344 AAATCTATTTACCGAATAAGTTTAAATAGTTATTACTATTTGAACAATTATTTATTTCAAATCAT
1 AAATCTATTTACCGAACAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCAC
* * *
49409 TATGACCTTTTGTTTTGTCATAAAATAATTATTTTTGTTCATAAAAGCTTATT
66 TATGACCTTATGTTTTGTCATAAAACAATTATTTTTATTCATAAAAGCTTATT
49462 CAGATTAAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 92 0.92
121 5 0.05
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.46
Consensus pattern (120 bp):
AAATCTATTTACCGAACAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCAC
TATGACCTTATGTTTTGTCATAAAACAATTATTTTTATTCATAAAAGCTTATTTC
Found at i:49699 original size:180 final size:178
Alignment explanation
Indices: 49344--50308 Score: 721
Period size: 180 Copynumber: 5.3 Consensus size: 178
49334 AACTTATTTC
* * * * * * * * **
49344 AAATCTATTTACCGAATAAGTTTAAATAGTTATTACTATTTGAACAATTATTTATTTCAAATCAT
1 AAATATATTTATCAAATAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATTGT
* * * * *** * * * *
49409 TATGACCTTTTGTTTTGTCATAAAATAATTATTTTTGTTCATAAAAGCTTA-TTCAGATTAAAAT
66 TTTAACCTTTTG-TTTGTCATAAAACAATTGTTTCAATTCATACAGGCTTATTTGA-AATAAAAT
* * *
49473 AATATTAATTTATTAATATTTCCATAATTAATAAGTAAAAGATTTAAAAAAT
129 AATACTAATTTATTAATA-TTCAAAAATTAATAAGT-AAAGATTTAAAAAAT
* * * *
49525 AAATATGTTTATCAAATAAATTCAAATAGTAATAACTATTTAAATAATTATCTATTTCAAATTGT
1 AAATATATTTATCAAATAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATTGT
* * * * * *
49590 TTTAATCTTTTGTTTCGTTATAAAA-AATTGTATCAATTTATATAGGCTTATTTGAAATAAAACA
66 TTTAACCTTTTGTTT-GTCATAAAACAATTGTTTCAATTCATACAGGCTTATTTGAAATAAAATA
* *
49654 ATACTAACTTATTAATATTCAAACAATTAATGAGTAAGAGATTTAAAAAAT
130 ATACTAATTTATTAATATTCAAA-AATTAATAAGTAA-AGATTTAAAAAAT
* * * * * * *
49705 AAATCTATTTA-CTGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTTATA-TC
1 AAATATATTTATC-AAATAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATTG
* * * * * * **
49768 ATTAAGACCTTTTATTTTGTCATAAAATAATTGTTT-ACGTTTATACAAACTTATTTCG-AATAA
65 TTTTA-ACCTTTT-GTTTGTCATAAAACAATTGTTTCA-ATTCATACAGGCTTATTT-GAAATAA
* * * *
49831 AATAATA-TAAATTTGTTAATATTCTAAGAATTAATAAGTAAAAATTTTAAAAAT
126 AATAATACT-AATTTATTAATATTC-AAAAATTAATAAGTAAAGATTTAAAAAAT
* * * * * * *
49885 AAATCTATTT-TCTAAACACGTTCTAATAGTTATGATTATTTAAACAATTATCTATTTCAAATCG
1 AAATATATTTATC-AAATAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATTG
* * * * * * * * *
49949 TTATGACCTTTT-TTTGTCATACACCAATTATTTCTATTCATAAAAGGTTTA-TTCAGAATAAAA
65 TTTTAACCTTTTGTTTGTCATAAAACAATTGTTTCAATTCAT-ACAGGCTTATTTGA-AATAAAA
* *
50012 TAATATTAATTTATTAA-ATTTCAAAAAATTAATAACTTAAAGATTTAAAAAAT
128 TAATACTAATTTATTAATA-TTC-AAAAATTAATAA-GTAAAGATTTAAAAAAT
* * * * * * *
50065 AAATTTATTTATCGAATAAATTCAAATAGTTATGACTATTTATATAATTATTTTATTTCAAGTTA
1 AAATATATTTATCAAATAAGTTCAAATAGTTATGACTATTTAAATAATTA-TCTATTTCAAATTG
* * ** * * ** * ** *
50130 TTGTGATATTTTGATTTTTCATAAAACAATAGTTTTTATTCATACAGGTTTATTCAAAATAAGAT
65 TTTTAACCTTTTG-TTTGTCATAAAACAATTGTTTCAATTCATACAGGCTTATTTGAAATAAAAT
* *
50195 AATACTAATTTATTAATATTCTAAAAATTAATAAGTTAGAGATTTAAATAAT
129 AATACTAATTTATTAATATTC-AAAAATTAATAAG-TAAAGATTTAAAAAAT
* * * * * *
50247 AAATATATTTATCAAACAAGTTCAAATAATCAT-ATCAATTTAAATTATTATATATTTCAAAT
1 AAATATATTTATCAAATAAGTTCAAATAGTTATGA-CTATTTAAATAATTATCTATTTCAAAT
50309 CGTTAAGAGA
Statistics
Matches: 620, Mismatches: 135, Indels: 58
0.76 0.17 0.07
Matches are distributed among these distances:
178 24 0.04
179 51 0.08
180 253 0.41
181 165 0.27
182 101 0.16
183 26 0.04
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (178 bp):
AAATATATTTATCAAATAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATTGT
TTTAACCTTTTGTTTGTCATAAAACAATTGTTTCAATTCATACAGGCTTATTTGAAATAAAATAA
TACTAATTTATTAATATTCAAAAATTAATAAGTAAAGATTTAAAAAAT
Found at i:50103 original size:360 final size:360
Alignment explanation
Indices: 49344--50313 Score: 973
Period size: 361 Copynumber: 2.7 Consensus size: 360
49334 AACTTATTTC
* * *
49344 AAATCTATTTACCGAATAAGTTTAAATAGTTATTACTATTTGAACAATTATTTATTTCAAATCAT
1 AAATCTATTTA-CGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCAT
* * ** *
49409 TATGACCTTTTGTTTTGTCATAAAATAATTATTTTTGTTCATAAAAGCTTATTCAGATTAAAATA
65 TAAGACCTTTTATTTTGTCATAAAATAATTATTTACGTTCATAAAAGCTTATTCAGAATAAAATA
* * * *
49474 ATATTAATTTATTAATATTTCCATAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTATCA
130 ATATAAATTTATTAATATTTCAAGAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTATCA
* * * * *
49539 AATAAATTCAAATAGTAATAACTATTTAAATAATTATCTATTTCAAATTGTTTTAATCTTTTGTT
195 AACAAATTCAAATAGTAATAACTATTTAAACAATTATCTATTTCAAATCGTTATAACCTTTTGTT
* * * * *
49604 TCGTTATAAAAAATTGTATCAATTTATATAGGCTTATTTGAAATAAAACAATACTAACTTATTAA
260 TCGTCATAAAAAATTATATCAATTCATAAAGGCTTATTAGAAATAAAACAATACTAACTTATTAA
* *
49669 TATTCAAACAATTAATGAGTAAGAGATTTAAAAAAT
325 TATTCAAAAAATTAATAAGTAAGAGATTTAAAAAAT
* *
49705 AAATCTATTTACTGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTTATATCAT
1 AAATCTATTTAC-GAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCAT
* *
49770 TAAGACCTTTTATTTTGTCATAAAATAATTGTTTACGTTTATACAAA-CTTATTTC-GAATAAAA
65 TAAGACCTTTTATTTTGTCATAAAATAATTATTTACGTTCATA-AAAGCTTA-TTCAGAATAAAA
* * *
49833 TAATATAAATTTGTTAATA-TTCTAAGAATTAATAAGTAAAA-ATTTTAAAAATAAATCTATTT-
128 TAATATAAATTTATTAATATTTC-AAGAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTA
** * * * * *
49895 TCTAAACACGTTCTAATAGTTATGATTATTTAAACAATTATCTATTTCAAATCGTTATGACCTTT
192 TC-AAACAAATTCAAATAGTAATAACTATTTAAACAATTATCTATTTCAAATCGTTATAACCTTT
** * * * * * *
49960 T-TTT-GTCATACACCAATTATTTCTATTCATAAAAGGTTTATTCAG-AATAAAATAATATTAAT
256 TGTTTCGTCATA-AAAAATTATATCAATTCAT-AAAGGCTTATT-AGAAATAAAACAATACTAAC
*
50022 TTATTAA-ATTTCAAAAAATTAATAACTTAA-AGATTTAAAAAAT
318 TTATTAATA-TTCAAAAAATTAATAA-GTAAGAGATTTAAAAAAT
* * * * * *
50065 AAATTTATTTATCGAATAAATTCAAATAGTTATGACTATTT-ATATAATTATTTTATTTCAAGTT
1 AAATCTATTTA-CGAATAAGTTCAAATAGTTATGACTATTTGA-ACAATTA-TCTATTTCAAATC
** ** * * * * * *
50129 ATTGTGATATTTTGATTTT-TCATAAAACAATAGTTTTTA--TTCATACAGGTTTATTCAAAATA
63 ATTAAGACCTTTT-ATTTTGTCATAAAATAAT--TATTTACGTTCATAAAAGCTTATTCAGAATA
* * * * *
50191 AGATAATACT-AATTTATTAATA-TTCTAAAAATTAATAAGTTAGAGATTTAAATAATAAATATA
125 AAATAATA-TAAATTTATTAATATTTC-AAGAATTAATAAGTAAAAGATTTAAAAAATAAATATA
* * * * * ** *
50254 TTTATCAAACAAGTTCAAATAATCATATCAATTTAAATTATTATATATTTCAAATCGTTA
188 TTTATCAAACAAATTCAAATAGTAATAACTATTTAAACAATTATCTATTTCAAATCGTTA
50314 AGAGATTTTA
Statistics
Matches: 503, Mismatches: 85, Indels: 41
0.80 0.14 0.07
Matches are distributed among these distances:
358 5 0.01
359 20 0.04
360 177 0.35
361 221 0.44
362 73 0.15
363 7 0.01
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (360 bp):
AAATCTATTTACGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATT
AAGACCTTTTATTTTGTCATAAAATAATTATTTACGTTCATAAAAGCTTATTCAGAATAAAATAA
TATAAATTTATTAATATTTCAAGAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTATCAA
ACAAATTCAAATAGTAATAACTATTTAAACAATTATCTATTTCAAATCGTTATAACCTTTTGTTT
CGTCATAAAAAATTATATCAATTCATAAAGGCTTATTAGAAATAAAACAATACTAACTTATTAAT
ATTCAAAAAATTAATAAGTAAGAGATTTAAAAAAT
Found at i:50349 original size:20 final size:20
Alignment explanation
Indices: 50324--50364 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
50314 AGAGATTTTA
50324 TTTTA-TCATAAAATAATTAT
1 TTTTATTCATAAAA-AATTAT
*
50344 TTTTATTCATACAAAATTAT
1 TTTTATTCATAAAAAATTAT
50364 T
1 T
50365 CAAAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTATTCATAAAAAATTAT
Found at i:50809 original size:132 final size:128
Alignment explanation
Indices: 50549--50934 Score: 647
Period size: 132 Copynumber: 3.0 Consensus size: 128
50539 ACAGCCAAAA
* *
50549 ACAGAAAATCAAAAAACCAAGCCAGCAAAGCCAAAAAAAAAGAAAAATGCAAACAACCACAGTCC
1 ACAGAAAATAAAAAAACCAAGCCAGCAAAGCC--AAAAAAA-AAAAATGCAAACAACGACAGTCC
50614 TCTATTGAGGAATCCATCA-G---AAAAAAAAA-AAAGAGAAAAGGGCCCGTTGAGGACGAAAAG
63 TCTATTGAGGAATCCATCAGGAAAAAAAAAAAAGAAAGAGAAAAGGGCCCGTTGAGGACGAAAAG
50674 G
128 G
50675 ACAGAAAATAAAAAAACCAAGCCAGCAAAGCCAAAAAAAAAAAATGCAAACAACGACAGTCCTCT
1 ACAGAAAATAAAAAAACCAAGCCAGCAAAGCCAAAAAAAAAAAATGCAAACAACGACAGTCCTCT
50740 ATTGAGGAATCCATCAGGAAAAAAAAAAAAAAAAGAAAGAGAAAAGGGCCCGTTGAGGACGAAAA
66 ATTGAGGAATCCATCAGG----AAAAAAAAAAAAGAAAGAGAAAAGGGCCCGTTGAGGACGAAAA
50805 GG
127 GG
50807 ACAGAAAATAAAAAAACCAAGCCAGCAAAGCCAAAAAAAAAAAATGCAAACAACGACAGTCCTCT
1 ACAGAAAATAAAAAAACCAAGCCAGCAAAGCCAAAAAAAAAAAATGCAAACAACGACAGTCCTCT
*
50872 ATTGAGGAATCCATCAGGAAAAAAAAAAAAGAAAGAGAAAAGGGCCCGTTGAGGACGACAAGG
66 ATTGAGGAATCCATCAGGAAAAAAAAAAAAGAAAGAGAAAAGGGCCCGTTGAGGACGAAAAGG
50935 GCTTTCGGTC
Statistics
Matches: 248, Mismatches: 3, Indels: 16
0.93 0.01 0.06
Matches are distributed among these distances:
123 41 0.17
124 8 0.03
126 31 0.12
128 44 0.18
131 9 0.04
132 115 0.46
ACGTcount: A:0.55, C:0.18, G:0.19, T:0.09
Consensus pattern (128 bp):
ACAGAAAATAAAAAAACCAAGCCAGCAAAGCCAAAAAAAAAAAATGCAAACAACGACAGTCCTCT
ATTGAGGAATCCATCAGGAAAAAAAAAAAAGAAAGAGAAAAGGGCCCGTTGAGGACGAAAAGG
Found at i:81810 original size:26 final size:26
Alignment explanation
Indices: 81781--81830 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
81771 TTCATAAAAA
*
81781 AATCCAAATATCAAGATCATTCACGC
1 AATCCAAATATCAAGAGCATTCACGC
* *
81807 AATCCCAATATCAGGAGCATTCAC
1 AATCCAAATATCAAGAGCATTCAC
81831 ATATAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (26 bp):
AATCCAAATATCAAGAGCATTCACGC
Found at i:82229 original size:524 final size:525
Alignment explanation
Indices: 80303--82668 Score: 3224
Period size: 524 Copynumber: 4.5 Consensus size: 525
80293 AATCCCACAT
* * * * * * *
80303 AAGCAAATAAGCATGAAACACAACGAAAAAGTAAAACTGCAG-GAGTGGTTTCCATATCACAGTC
1 AAGCAAATAAGCACGAAACATAATGAAAAATTAAAACTG-TGCGAATGGTTTCCATATCACAGTT
* * **
80367 TGAAATTATGCATAATGGTTTTTTTCATGCAGAAAGCTGTTCGGAAACAAAATTTTGATATTTTA
65 TGAAATTGTGCAGAATGGTTTTTTTCATGCCCAAAGCTGTTCGGAAAC-AAATTTTGATATTTTA
* * ** *
80432 AGCTCTAAAATCCTTTACAACTTGCACTCAACACAATGAAAAATTAAAACCAATGCAAGTTATAT
129 AGCTCCAAAATCCTTTACAACATGCACTCAACACTGTGAAAAATTAAAA-CAATCCAAGTTATAT
* * *
80497 CATGTTTCTTTCCTTCAGCAAGTTTAAAGCATTGGATTCAGGATATTCAAATTCATTTCCTTTCA
193 CATGTTTCTTTGCTTGAGCAAGTTTAAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTCA
* * * * *
80562 AAAACCTGCAAAAACAAGGTTTCATATTTTAAAGCTTGGCTCCAGCAAAAGTCATTTTCAAAGCA
258 AAAACTTGCGAAAACAGGGTTTCATATTTTAAAGCATGACTCCAGCAAAAGTCATTTTCAAAGCA
* * * * * *
80627 AAACAACGAAATTTCAAAGCTTTGAGTGCTTCCCCCCAACTTTATGCTTTAAATATAAAAACAAG
323 AAACAGCAAAATTTCAAAGCTTTGAGTGCTTCCCCCTAAGTTTGTGC-ATAAATATAAAAACAAG
* *
80692 TTAGCACACAATTAATCACATCAAGCACCGATAACAGTTTCACAAATAATGTTCAATTATCAAGA
387 TTAGCACACAATTAATCACATCAAGCACCGATAACAGTTTCACAAATAAAGTCCAATTATCAAGA
* * * **
80757 TCATTCATGCAATCCCAATATCAAGAGCATTCGCATGTAACAATCTTAGATGAATTCTCCTAAAA
452 TCATTCACGCAATCCCAATATCAAGAGCATTCACATATAACAATCCCAGATGAATTCTCCTAAAA
*
80822 ATATATCTA
517 ATGTATCTA
*
80831 AAGCAAATAAGCACGAAACATAATGAAAAATTAAAACTGTACGAATGGTTTCCATATCACAGTTT
1 AAGCAAATAAGCACGAAACATAATGAAAAATTAAAACTGTGCGAATGGTTTCCATATCACAGTTT
* * * *
80896 GAAATTGTGTAAAATGGTTTTTTTCATGCCCAAAGCTGTTCGGAAATAAATTTTGATATTTTAAT
66 GAAATTGTGCAGAATGGTTTTTTTCATGCCCAAAGCTGTTCGGAAACAAATTTTGATATTTTAAG
* * * * * *
80961 CTCCAAAA-CACTTTACAACTTCCACTCAACACTGTGAAAAATTAAAACCAGCGGAAGTTAAATC
131 CTCCAAAATC-CTTTACAACATGCACTCAACACTGTGAAAAATTAAAACAATC-CAAGTTATATC
* *
81025 ATGTTTCTTTGCTTGAGCAAATTTAAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTAAA
194 ATGTTTCTTTGCTTGAGCAAGTTTAAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTCAA
* * * *
81090 AAACTTGGGAAAACAGGGTTTCATATTTTAAA-AATTCACTCCAGGAAAAGTCATTTTCAAAGCA
259 AAACTTGCGAAAACAGGGTTTCATATTTTAAAGCA-TGACTCCAGCAAAAGTCATTTTCAAAGCA
* * * *
81154 AAACAGCAAAATTTCAAAGCTTTGAGTG-ATCCCCCTATGTTTGTGTATAAATATAAAAATAAG-
323 AAACAGCAAAATTTCAAAGCTTTGAGTGCTTCCCCCTAAGTTTGTGCATAAATATAAAAACAAGT
* * *
81217 TAGCACACAATTAATCACTTCAAGCACCGATAACAGTTTCACAAATAATGTCCAATTATGAAGAT
388 TAGCACACAATTAATCACATCAAGCACCGATAACAGTTTCACAAATAAAGTCCAATTATCAAGAT
* *
81282 CATTCATGCAATCCCAATATCAAGAGCATTCACATATAACAATCACAGATGAATTCTCCTAAAAA
453 CATTCACGCAATCCCAATATCAAGAGCATTCACATATAACAATCCCAGATGAATTCTCCTAAAAA
81347 TGTATCTA
518 TGTATCTA
* * *
81355 ACGCAAATAAGCACGAAACA-CA-GAAAAATTAAAACTGTGCAAATGGTTTCCATATCACAGTTT
1 AAGCAAATAAGCACGAAACATAATGAAAAATTAAAACTGTGCGAATGGTTTCCATATCACAGTTT
* * *
81418 GAAATTGTGCAGAATGGTTTTTTTCATG-CC----CTATTCAGAAACAAAATTTGATATTTTAAG
66 GAAATTGTGCAGAATGGTTTTTTTCATGCCCAAAGCTGTTCGGAAACAAATTTTGATATTTTAAG
* * * * *
81478 CT-GAAAATCCTTTAGAACGTGAACTCAAAACTGTGAAAAATTAAAACGAA-CGCAAGTTATATC
131 CTCCAAAATCCTTTACAACATGCACTCAACACTGTGAAAAATTAAAAC-AATC-CAAGTTATATC
* * *
81541 ATGTTTCTTT-CTTTGAGCAAGATTAAAGCATTGGATTGAAGATATTCAAATTCATTTCCATT-A
194 ATGTTTCTTTGC-TTGAGCAAGTTTAAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTCA
* * * *
81604 AAAACTTGTGAAAACAGGGTTTCATATTTTAAAGCATAACTCCAGCCAAAGTCATTTTCAAAGAA
258 AAAACTTGCGAAAACAGGGTTTCATATTTTAAAGCATGACTCCAGCAAAAGTCATTTTCAAAGCA
*
81669 AAATAGCAAAATTTCAAAGCTTTGAGTGCTTCCCCCTAAGTTTGTGCATAAATATTAAAAA-AAG
323 AAACAGCAAAATTTCAAAGCTTTGAGTGCTTCCCCCTAAGTTTGTGCATAAATA-TAAAAACAAG
* * * * *
81733 TTAGCACACAATTAATAACATCAAGTACCGATAACAGTTTCATAAA-AAAATCCAAATATCAAGA
387 TTAGCACACAATTAATCACATCAAGCACCGATAACAGTTTCACAAATAAAGTCCAATTATCAAGA
* * * *
81797 TCATTCACGCAATCCCAATATCAGGAGCATTCACATATAACAATCCCACATGGATTCTCCTGAAA
452 TCATTCACGCAATCCCAATATCAAGAGCATTCACATATAACAATCCCAGATGAATTCTCCTAAAA
81862 ATGTATCTA
517 ATGTATCTA
* ** * * *
81871 AAGCAAACAAATATGAAATATAATGAAAAATTAAAACTGTGCGAATGGTTTCCATATCATAGTTT
1 AAGCAAATAAGCACGAAACATAATGAAAAATTAAAACTGTGCGAATGGTTTCCATATCACAGTTT
* * *
81936 GAAATTGTGCAGAATGGTTTTCTTCATGCCCAAAGCTGTTCGGAAACAAATCTTAATATTTTAAG
66 GAAATTGTGCAGAATGGTTTTTTTCATGCCCAAAGCTGTTCGGAAACAAATTTTGATATTTTAAG
*
82001 CTCCAAAATCCTTTACAACATGCACTCAACACTGTGAAAAAATAAAATCAATCCAAGTTATATCA
131 CTCCAAAATCCTTTACAACATGCACTCAACACTGTGAAAAATTAAAA-CAATCCAAGTTATATCA
* * *
82066 TGTTTCTTTGTTTGAGTAAGTTGAAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTCAAA
195 TGTTTCTTTGCTTGAGCAAGTTTAAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTCAAA
* * *
82131 AACTTGCGAAAATAGGGTTTCATATTTTAAAGCATGGCTCCAGCAAAAGTCATTCTCAAAGCAAA
260 AACTTGCGAAAACAGGGTTTCATATTTTAAAGCATGACTCCAGCAAAAGTCATTTTCAAAGCAAA
* * *
82196 ACAGCAAAATTTCAAAGCTTTGTGTGC-TCCCCCTAAGTTTGTGCATAAGTATAAAAAGAAGTTA
325 ACAGCAAAATTTCAAAGCTTTGAGTGCTTCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTA
* * *
82260 GCACACAATTAATCACATCAAGCACCGATAATAGTTTCACAAATAAATTCCAATTATTAAGATCA
390 GCACACAATTAATCACATCAAGCACCGATAACAGTTTCACAAATAAAGTCCAATTATCAAGATCA
* * * * * * *
82325 TTCACGCATTCCCAATATGAAAAGCATTCACATGTAACAATCCCATAGGAATTCTCCTGAAAATG
455 TTCACGCAATCCCAATATCAAGAGCATTCACATATAACAATCCCAGATGAATTCTCCTAAAAATG
82390 TATCTA
520 TATCTA
* * * * * * *
82396 AAGAAAATAAGCATGAAACACAACGAAAAATTAAAAACTGCGTGAATGGTTTCGATATCACAGTT
1 AAGCAAATAAGCACGAAACATAATGAAAAATT-AAAACTGTGCGAATGGTTTCCATATCACAGTT
82461 TGAAATTGTGCAGAATGGTTTTTTTCATGCCCAAAGCTGTTCGGAAACAAATTTTGATATTTTAA
65 TGAAATTGTGCAGAATGGTTTTTTTCATGCCCAAAGCTGTTCGGAAACAAATTTTGATATTTTAA
* * * *
82526 GCTCCAAAATCCTTTACTACATGCACTCGACACTGTGAAAAATAAAAATCAATGCAAGTTATATC
130 GCTCCAAAATCCTTTACAACATGCACTCAACACTGTGAAAAATTAAAA-CAATCCAAGTTATATC
* * * *
82591 ATGTTTCTATG-ATGAAGCAAGTTTAAAAGCATTGGATTCAGGATATTAAAATTCATTTCCTTTC
194 ATGTTTCTTTGCTTG-AGCAAGTTT-AAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTC
82655 AAAAACTTGCGAAA
257 AAAAACTTGCGAAA
82669 CAGTTAATCA
Statistics
Matches: 1629, Mismatches: 181, Indels: 57
0.87 0.10 0.03
Matches are distributed among these distances:
515 86 0.05
516 226 0.14
517 77 0.05
518 66 0.04
519 2 0.00
521 2 0.00
522 65 0.04
523 34 0.02
524 323 0.20
525 211 0.13
526 182 0.11
527 258 0.16
528 97 0.06
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (525 bp):
AAGCAAATAAGCACGAAACATAATGAAAAATTAAAACTGTGCGAATGGTTTCCATATCACAGTTT
GAAATTGTGCAGAATGGTTTTTTTCATGCCCAAAGCTGTTCGGAAACAAATTTTGATATTTTAAG
CTCCAAAATCCTTTACAACATGCACTCAACACTGTGAAAAATTAAAACAATCCAAGTTATATCAT
GTTTCTTTGCTTGAGCAAGTTTAAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTCAAAA
ACTTGCGAAAACAGGGTTTCATATTTTAAAGCATGACTCCAGCAAAAGTCATTTTCAAAGCAAAA
CAGCAAAATTTCAAAGCTTTGAGTGCTTCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAG
CACACAATTAATCACATCAAGCACCGATAACAGTTTCACAAATAAAGTCCAATTATCAAGATCAT
TCACGCAATCCCAATATCAAGAGCATTCACATATAACAATCCCAGATGAATTCTCCTAAAAATGT
ATCTA
Found at i:83031 original size:404 final size:404
Alignment explanation
Indices: 82268--83068 Score: 1117
Period size: 404 Copynumber: 2.0 Consensus size: 404
82258 TAGCACACAA
* * *
82268 TTAATCACATCAAGCACCGATAATAGTTTCACAAATAAATTCCAATTATTAAGATCATTCACGCA
1 TTAATCACATCAAGCACCGATAACAGTTTCACAAATAAATTCCAATTATCAAGATCATTCACACA
* * * **
82333 TTCCCAATATGAAAAGCATTCACATGTAACAATCCCATAGGAATTCTCCTGAAAATGTATCTAAA
66 ATCCCAATATCAAAAGCATTCACATGTAACAATCCCACAGGAATTCTCCTGAAAACATATCTAAA
* * * * * * *
82398 GAAAATAAGCATGAAACACAACGAAAAATTAAAAACTGCGTGAATGGTTTCGATATCACAGTTTG
131 GAAAATAAGCACGAAACACAACAAAAAAGTAAAAACTGCATGAATGGTTTCCATATCACAGGTCG
* * * * *
82463 AAATTGTGCAGAATGGTTTTTTTCATGCCCAAAGCTGTTCGGAAACAAATTTTGATATTTTAAGC
196 AAATTATGCAGAATGGTTTTTTTCATGCACAAAGCTGTTCGAAAACAAAATTTGATATTTTAACC
* * * *
82528 TCCAAAATCCTTTACTACATGCACTCGACACTGTGAAAAATAAAAATCAATGCAAGTTATATCAT
261 TCCAAAATCCTTTACAACATGCACTCAACACTCTGAAAAATAAAAACCAATGCAAGTTATATCAT
*
82593 GTTTCTATGATGAAGCAAGTTTAAAAGCATTGGATTCAGGATATTAAAATTCATTTCCTTTCAAA
326 GTTTCTATGATGAAGCAAGTTTAAAAGCATTGGATTCAGGATATTAAAATTCATTTCCATTCAAA
82658 AACTTGCGAAACAG
391 AACTTGCGAAACAG
82672 TTAATCACATCAAGCACCGATAACAGTTTCACAAAT-AATGTCCAATTATCAAGATCATTCACAC
1 TTAATCACATCAAGCACCGATAACAGTTTCACAAATAAAT-TCCAATTATCAAGATCATTCACAC
* * * *
82736 AATCCTAATATCAAGAGCATTCACATGTAACAATCCCACATGAATTCTGCTGAAAACATATCTAA
65 AATCCCAATATCAAAAGCATTCACATGTAACAATCCCACAGGAATTCTCCTGAAAACATATCTAA
** ** *
82801 ATCAAATAATTACGAAACACAACAAAAAAGT-AAAATTGCATGAATGGTTTCCATATCACAGGTC
130 AGAAAATAAGCACGAAACACAACAAAAAAGTAAAAACTGCATGAATGGTTTCCATATCACAGGTC
* * * *
82865 GATATTATGC-GTAATGGTTTTTTTTTCTTGCAGAAAGCTGTTTGAAAACAAAATTTGATATTTT
195 GAAATTATGCAG-AATGG--TTTTTTTCATGCACAAAGCTGTTCGAAAACAAAATTTGATATTTT
* *
82929 AACCTCCAAAATCCTTTACAACTTGCACTCAACACTCTGAAAAATTAAAACCAATGCAAGTTATA
257 AACCTCCAAAATCCTTTACAACATGCACTCAACACTCTGAAAAATAAAAACCAATGCAAGTTATA
* * * *
82994 TCATGTTTCTTTG-TGCGAGCAAGTTTAAATG-ATTGGATTCAGGATATTCAAATTCATTTCCAT
322 TCATGTTTCTATGATG-AAGCAAGTTTAAAAGCATTGGATTCAGGATATTAAAATTCATTTCCAT
*
83057 TCCAAAACTTGC
386 TCAAAAACTTGC
83069 AAAAACAGGT
Statistics
Matches: 347, Mismatches: 45, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
402 1 0.00
403 44 0.13
404 180 0.52
405 122 0.35
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (404 bp):
TTAATCACATCAAGCACCGATAACAGTTTCACAAATAAATTCCAATTATCAAGATCATTCACACA
ATCCCAATATCAAAAGCATTCACATGTAACAATCCCACAGGAATTCTCCTGAAAACATATCTAAA
GAAAATAAGCACGAAACACAACAAAAAAGTAAAAACTGCATGAATGGTTTCCATATCACAGGTCG
AAATTATGCAGAATGGTTTTTTTCATGCACAAAGCTGTTCGAAAACAAAATTTGATATTTTAACC
TCCAAAATCCTTTACAACATGCACTCAACACTCTGAAAAATAAAAACCAATGCAAGTTATATCAT
GTTTCTATGATGAAGCAAGTTTAAAAGCATTGGATTCAGGATATTAAAATTCATTTCCATTCAAA
AACTTGCGAAACAG
Found at i:83436 original size:390 final size:390
Alignment explanation
Indices: 82884--83640 Score: 1180
Period size: 390 Copynumber: 1.9 Consensus size: 390
82874 CGTAATGGTT
* *
82884 TTTTTTTCTTGCAGAAAGCTGTTTGAAAACAAAATTTGATATTTTAACCTCCAAAATCCTTTACA
1 TTTTTTTCATGCAGAAAGCTGTTTGAAAACAAAATTTGATATTTTAAACTCCAAAATCCTTTACA
* * * *
82949 ACTTGCACTCAACACTCTGAAAAATTAAAACCAATGCAAGTTATATCATGTTTCTTTGTGCGAGC
66 ACTTGCACTCAACACTCTAAAAAATTAAAACAAATGCAAGTTAAATCATGTTTCGTTGTGCGAGC
* * * * * * *
83014 AAGTTTAAATGATTGGATTCAGGATATTCAAATTCATTTCCATTCCAAAACTTGCAAAAACAGGT
131 AACTTTAAATGATTGAACTCAGGATATTCAAATGCATTTCAATTCAAAAACTTGCAAAAACAGGG
*
83079 TTTCATATTTTAAAGCTTGGCTCTAGAAAAAGTCATTTTCAAAGCAAAAAAGCAAAATTTCAAAG
196 TTTCATATTTTAAAGCTTGGCTCCAGAAAAAGTCATTTTCAAAGCAAAAAAGCAAAATTTCAAAG
83144 CTTCGAGTGCT-CCCCCCAAGTTTATGCATAAATATAAAAACAAGTTAGCACACAATTAATCACA
261 CTTCGAGTGCTCCCCCCCAAGTTTATGCATAAATATAAAAACAAGTTAGCACACAATTAATCACA
** * * *
83208 TCAAGTATCGATAACAGTTTCACAAATAATGTCCAATTATCATAGTTTGAAATTGTGCAGAATGG
326 TCAAACAGCGATAACAGTCTCACAAATAATGTCAAATTATCATAGTTTGAAATTGTGCAGAATGG
* *
83273 TTTTTTTCATGC-GCAAAGCTGTTTGGAAACAAATTTTGATATTTTAAAACTCCAAAATCCTTTA
1 TTTTTTTCATGCAG-AAAGCTGTTTGAAAACAAAATTTGATATTTT-AAACTCCAAAATCCTTTA
* * *
83337 CAACTTGCACTCGACACTGTAAAAAATTAAAACAAATGCAAGTTAAATCATGTTTCGTTGCT-TG
64 CAACTTGCACTCAACACTCTAAAAAATTAAAACAAATGCAAGTTAAATCATGTTTCGTTG-TGCG
* *
83401 AGCAACTTTAAA-GCATTGAACTCAGGATATTCAAATGCATTTCAATTTAAAAACTTGCGAAAAC
128 AGCAACTTTAAATG-ATTGAACTCAGGATATTCAAATGCATTTCAATTCAAAAACTTGCAAAAAC
* *
83465 AGGGTTTCATATTTTAAATCTTGGCTCCAGAAAAAGTCATTTTCAAAGCAAAACAGCAAAATTTC
192 AGGGTTTCATATTTTAAAGCTTGGCTCCAGAAAAAGTCATTTTCAAAGCAAAAAAGCAAAATTTC
* *
83530 AAAGCTTTGAGTGCTCCCCCCCAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAAT
257 AAAGCTTCGAGTGCTCCCCCCCAAGTTTATGCATAAATATAAAAACAAGTTAGCACACAATTAAT
83595 CACATCAAACAGCGATAACAGTCTCACAAATAATGTCAAATTATCA
322 CACATCAAACAGCGATAACAGTCTCACAAATAATGTCAAATTATCA
83641 AGATCATTCA
Statistics
Matches: 333, Mismatches: 30, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
388 1 0.00
389 41 0.12
390 201 0.60
391 90 0.27
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (390 bp):
TTTTTTTCATGCAGAAAGCTGTTTGAAAACAAAATTTGATATTTTAAACTCCAAAATCCTTTACA
ACTTGCACTCAACACTCTAAAAAATTAAAACAAATGCAAGTTAAATCATGTTTCGTTGTGCGAGC
AACTTTAAATGATTGAACTCAGGATATTCAAATGCATTTCAATTCAAAAACTTGCAAAAACAGGG
TTTCATATTTTAAAGCTTGGCTCCAGAAAAAGTCATTTTCAAAGCAAAAAAGCAAAATTTCAAAG
CTTCGAGTGCTCCCCCCCAAGTTTATGCATAAATATAAAAACAAGTTAGCACACAATTAATCACA
TCAAACAGCGATAACAGTCTCACAAATAATGTCAAATTATCATAGTTTGAAATTGTGCAGAATGG
Found at i:84347 original size:527 final size:526
Alignment explanation
Indices: 83263--84655 Score: 2079
Period size: 527 Copynumber: 2.6 Consensus size: 526
83253 TTTGAAATTG
* *
83263 TGCAGAATGGTTTTTTTCATGCGCAAAGCTGTTTGGAAACAAATTTTGATATTTTAAAACTCCAA
1 TGCAGAATGGTTTTTTTCATGCACAAAGCTGTTCGGAAACAAATTTTGATATTTT-AAACTCCAA
* * * *
83328 AATCCTTTACAACTTGCACTCGACACTGTAAAAAATTAAAACAAATGCAAGTTAAATCATGTTTC
65 AATCCTTTACAACTTGCACTCAACACTGTGAAAAATTAAAACCAATGCAAGTTATATCATGTTTC
* * * *
83393 GTTGCTTGAGCAACTTTAAAGCATTGAAC-TCAGGATATTCAAA-TGCATTTCAATTTAAAAACT
130 -TTGCTTGAGCAAGTTTAAAGCATTG-GCTTCAGGATATTCAAACT-CATTTCCATTAAAAAACT
* *
83456 TGCGAAAACAGGGTTTCATATTTTAAA-TCTTGGCTCCAGAAAAAGTCATTTTCAAAGCAAAACA
192 TGCGAAAACAGGGTTTCATATTTTAAAGCCTT-GCTCCAGCAAAAGTCATTTTCAAAGCAAAACA
*
83520 GCAAAATTTCAAAGCTTTGAGTGCT-CCCCCCCAAGTTTGTGCATAAATATAAAAACAAGTTAGC
256 GCAAAATTTCAAAGCTTTGAGTGCTGCCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGC
*
83584 ACACAATTAATCACATCAAACAGCGATAACAGTCTCACAAATAATGTCAAATTATCAAGATCATT
321 ACACAATTAATCACATCAAACAGCGATAACAGTCTCACAAATAATGCCAAATTATCAAGATCATT
* *
83649 CATGCAATCCCAATATCAAGAGCATTCACATGTAACAATCACACATGAATTCTCCTGAGAATATA
386 CATGCAATCCCAATATCAAGAGCATTCACATGTAACAATCACACACGAATTCTCCTGAAAATATA
83714 TCTAAAGCAAATAAGCACAAAACACAACGAAAAATTAAAACTGTGCGAATGGTTTCCATATCACA
451 TCTAAAGCAAATAAGCACAAAACACAACGAAAAATTAAAACTGTGCGAATGGTTTCCATATCACA
** **
83779 GTTTGAAATTG
516 GTCCGAAATAA
* * * * *
83790 TGTAGAATGGTTTTCTTCATGCAGAAAGCTGTTCGAAAACAAATTTTGATATTCTAAACTCCAAA
1 TGCAGAATGGTTTTTTTCATGCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAACTCCAAA
* *
83855 ATCATTTTACAACTTGCACTCAACACTGTGAAAAATTAAAACCAATGCAAGTTATGTCATGTTTC
66 ATC-CTTTACAACTTGCACTCAACACTGTGAAAAATTAAAACCAATGCAAGTTATATCATGTTTC
83920 TCTGCTTGAGCAAGTTTAAAGCATTGGCTTCAGGATATTCAAACTCATTTCCATTAAAAAACTTG
130 T-TGCTTGAGCAAGTTTAAAGCATTGGCTTCAGGATATTCAAACTCATTTCCATTAAAAAACTTG
* * *
83985 CGAAAATAGCGTTTCATATTTTAAAGCCTTGCTCCAGCAGAAGTCATTTTTCAAAGCAAAACAGC
194 CGAAAACAGGGTTTCATATTTTAAAGCCTTGCTCCAGCAAAAGTCA-TTTTCAAAGCAAAACAGC
*
84050 AAAATTTCAAAGCTTTGAGTGCTGCCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGTAC
258 AAAATTTCAAAGCTTTGAGTGCTGCCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCAC
* *
84115 ACAATTAATCACATCAAGCAGCGATAACAGTTTCACAAATAATGCCCAAA-TATCAAGATCATTC
323 ACAATTAATCACATCAAACAGCGATAACAGTCTCACAAATAATG-CCAAATTATCAAGATCATTC
* * * * * *** * *
84179 ATGTACT-CTAATATGAAGAGCATTCATATGTTGTAATCTCACACGAATTCTCCTGAAAATGTAT
387 ATGCAATCCCAATATCAAGAGCATTCACATGTAACAATCACACACGAATTCTCCTGAAAATATAT
* * * *
84243 CTAAAGCAAATAAGTA-AGAAACACAACGAAAAATTAAAATTGTGTGAATGGTTTCC-TATTACA
452 CTAAAGCAAATAAGCACA-AAACACAACGAAAAATTAAAACTGTGCGAATGGTTTCCATATCACA
84306 GTCCGAAATAA
516 GTCCGAAATAA
* * *
84317 TGCATAATGATTTTTTTCACGCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAACTCCAAA
1 TGCAGAATGGTTTTTTTCATGCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAACTCCAAA
*
84382 ATCCTTTACAACTTGCACTCAACACTGTGAAAAATTAAAACCAACGCAAGTTATATCATGTTTCT
66 ATCCTTTACAACTTGCACTCAACACTGTGAAAAATTAAAACCAATGCAAGTTATATCATGTTTCT
* * ** *
84447 GTGCTTGAGCAAGTTTAAAAGCATTGGATTCAGGATATTAAAACTCATTTCCGCTCAAAAACTTG
131 -TGCTTGAGCAAGTTT-AAAGCATTGGCTTCAGGATATTCAAACTCATTTCCATTAAAAAACTTG
*
84512 CGAAAACAGGGTTTCATATTTTAAAGCCTTGGTCCAGCAAAAGTCATTTTCAAAGCAAAACAGCA
194 CGAAAACAGGGTTTCATATTTTAAAGCCTTGCTCCAGCAAAAGTCATTTTCAAAGCAAAACAGCA
*
84577 AAATTTTAAAGCTTTGA--G-TGCCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACA
259 AAATTTCAAAGCTTTGAGTGCTGCCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACA
84639 CAATTAATCACATCAAA
324 CAATTAATCACATCAAA
84656 GTTTGAAACA
Statistics
Matches: 785, Mismatches: 71, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
523 59 0.08
524 1 0.00
526 124 0.16
527 354 0.45
528 143 0.18
529 100 0.13
530 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (526 bp):
TGCAGAATGGTTTTTTTCATGCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAACTCCAAA
ATCCTTTACAACTTGCACTCAACACTGTGAAAAATTAAAACCAATGCAAGTTATATCATGTTTCT
TGCTTGAGCAAGTTTAAAGCATTGGCTTCAGGATATTCAAACTCATTTCCATTAAAAAACTTGCG
AAAACAGGGTTTCATATTTTAAAGCCTTGCTCCAGCAAAAGTCATTTTCAAAGCAAAACAGCAAA
ATTTCAAAGCTTTGAGTGCTGCCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACA
ATTAATCACATCAAACAGCGATAACAGTCTCACAAATAATGCCAAATTATCAAGATCATTCATGC
AATCCCAATATCAAGAGCATTCACATGTAACAATCACACACGAATTCTCCTGAAAATATATCTAA
AGCAAATAAGCACAAAACACAACGAAAAATTAAAACTGTGCGAATGGTTTCCATATCACAGTCCG
AAATAA
Found at i:84941 original size:932 final size:931
Alignment explanation
Indices: 83733--85589 Score: 2610
Period size: 932 Copynumber: 2.0 Consensus size: 931
83723 AATAAGCACA
*** *
83733 AAACACAACGAAAAATTAAAACTGTGCGAATGGTTTCCATATCACAGTTTGAAATTGTGTAGAAT
1 AAACACAACGAAAAATTAAAACTACACGAATGGTTTCCATATCACAGTTTGAAATTGTGCAGAAT
*
83798 GGTTTTCTTCATGCAGAAAGCTGTTCGAAAACAAATTTTGATATTCTAAACTCCAAAATCATTTT
66 GGTTTTCTTCATGCAGAAAGCTGTTCGAAAACAAATTTTGATATTCTAAACTCCAAAATCACTTT
* * * ** *
83863 ACAACTTGCACTCAACACTGTGAAAAATTAAAACCAATGCAAGTTATGTCATGTTTCTCTGCTTG
131 ACAACTTGCACTCAACACTGTGAAAAACTAAAACAAACGCAAGTTAAATCATGTTTCTCTGCTTA
* *
83928 AGCAAGTTTAAAGCATTGGCTTCAGGATATTCAAACTCATTTCCATTAAAAAACTTGCGAAAATA
196 AGCAAGTTTAAAGCATTGACTTCAGGATATTCAAACTCATTTCCATTAAAAAACTTGCAAAAATA
*
83993 GCGTTTCATATTTTAAAGCCTTG-CTCCAG-CAGAAGTCATTTTTCAAAGC-AAA-ACAGCAAAA
261 GCGTTTCATATTTTAAAG-CTTGACTCCAGCCA-AAGTCA-TTTTCAAAGCTAAACAAAG-AAAA
* * * * * ** *
84054 TTTCAAAGCTTTGAGTGCTGCCCCCCTAAGTTTGTGCATAA-ATATAAAAACAAGTTAGTACACA
322 ATTCAAAGCTTTGAGTGCT-CCCCCCCAAGTTCGCGCATAATATA-AAAAAAAAGTTAACACAAA
* * * *
84118 ATTAATCACATCAAGCAGCGATAACAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGT
385 ACTAATCAAATCAAGCACCGATAACAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGC
* * * * *** * * *
84183 ACT-CTAATATGAAGAGCATTCATATGTTGTAATCTCACACGAATTCTCCTGAAAATGTATCTAA
450 ACTCCCAATATGAAGAACATTCAGAGGTAACAATCCCACACGAATACTCCTAAAAATGTATCTAA
* *** *
84247 AGCAAATAAGTAAGAAACACAACGAAAAATTAAAATTGTGTGAATGGTTTCC-TATTACAGTCCG
515 AGCAAATAAGGAAGAAACACAACGAAAAATTAAAATTGCACGAATGGTTTCCATATCACAGTCCG
84311 AAATAATGCATAATGATTTTTTTCACGCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAAC
580 AAATAATGCATAATGATTTTTTTCACGCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAAC
* *
84376 TCCAAAATCCTTTACAACTTGCACTCAACACTGTGAAAAATTAAAACCAACGCAAGTTATATCAT
645 TCCAAAATCCTTTAAAACTTGCACTCAACACTGTGAAAAATTAAAACCAAAGCAAGTTATATCAT
* *
84441 GTTTCTGTGCTTGAGCAAGTTTAAAAGCATTGGATTCAGGATATTAAAACTCATTTCCGCTCAAA
710 GTTTCTGTGCTTGAGAAAGTTT-AAAGCATTGGATTCAGGATATTAAAACTCATTTCCACTCAAA
*
84506 AACTTGCGAAAACAGGGTTTC-ATATTTTAAAGCCTTG-GTCCAGCAAAAGTCATTTTC-AAAGC
774 AACTTGCGAAAACAGGG-TTCAATATTTTAAAG-CTTGACTCCAGCAAAAGTCATTTTCAAAAGC
* ** * *
84568 AAAACAGCAAAATTTTAAAGCTTTGA-GT-GCCCCCCTAAGTTTGTGCATAAATATAAAAACAAG
837 AAAACAGCAAAATTTCAAAGCTTTGAGGTCGCCCCCCTAAGGCTGTGCATAAAAATAAAAACAAA
84631 TTAGCACACAATTAATCACATCAAAGTTTG
902 TTAGCACACAATTAATCACATCAAAGTTTG
* * *
84661 AAACACAACGAAATATTAAAACTACACGAATGGTTTCCATATCAGAGTTTGAAATTGTGCATAAT
1 AAACACAACGAAAAATTAAAACTACACGAATGGTTTCCATATCACAGTTTGAAATTGTGCAGAAT
* * * * *
84726 GGTTTTTTTTTTCTTGC-GCAAAGCTGTTTGGAAACAAATTTTGATATTTTAAACTCCAAAATC-
66 GG---TTTTCTTCATGCAG-AAAGCTGTTCGAAAACAAATTTTGATATTCTAAACTCCAAAATCA
* *
84789 CTTTACAACTTGCACTCAACATTGTGAAAAACTAAAACAAACGCAAGTTAAAAATCATGTTTCTT
127 CTTTACAACTTGCACTCAACACTGTGAAAAACTAAAACAAACGCAAGTT--AAATCATGTTTCTC
* * * *
84854 TGCTTAAGCAAGTTTAAAGCATTGAAC-TCAGGATATTCAAATTCATTTCCTTTCAAAAGCTTGC
190 TGCTTAAGCAAGTTTAAAGCATTG-ACTTCAGGATATTCAAACTCATTTCCATTAAAAAACTTGC
*
84918 AAAAATAGGGTTTCATATTTTAAAGCTTGACTCCAGCCAAAGTCATTTTCAAAGCTAAACAAAGA
254 AAAAATAGCGTTTCATATTTTAAAGCTTGACTCCAGCCAAAGTCATTTTCAAAGCTAAACAAAGA
* * *
84983 AAAATTCTAAGCTTTGAGTGCTCCCCCCCAAGTTCGCGCGTAATATAAAAAAAAAGTTAACGCAA
319 AAAATTCAAAGCTTTGAGTGCTCCCCCCCAAGTTCGCGCATAATATAAAAAAAAAGTTAACACAA
* *
85048 AACTAATTAAATCAAGCACCGATAACAGTTTCACAAATAATGTCCAAATATCAAGATCATTCATG
384 AACTAATCAAATCAAGCACCGATAACAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATG
*
85113 CACTCCCAATATGAAGAACATTCAGAGGTAACAATCCCACATGAATACTCCTAAAAATGTATCTA
449 CACTCCCAATATGAAGAACATTCAGAGGTAACAATCCCACACGAATACTCCTAAAAATGTATCTA
* **
85178 AAGCAAATAAGGAAGAAACACAATGAAAAATTAAAATTGCACGAATGGTTTCCATATCACAGTTT
514 AAGCAAATAAGGAAGAAACACAACGAAAAATTAAAATTGCACGAATGGTTTCCATATCACAGTCC
* * * * *
85243 GAAATTATTCATAATGATTTTTTTCATGTACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAG
579 GAAATAATGCATAATGATTTTTTTCACGCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAA
* * * * *
85308 CTCCATAATCCTTTAAAACTTGTACTCAATACTGTGAAAACTTAAAACCAAATCAAGTTATATCA
644 CTCCAAAATCCTTTAAAACTTGCACTCAACACTGTGAAAAATTAAAACCAAAGCAAGTTATATCA
* * * *
85373 TGTTTCTTTGCTTGAGAAAGTTTAAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTCAAA
709 TGTTTCTGTGCTTGAGAAAGTTTAAAGCATTGGATTCAGGATATTAAAACTCATTTCCACTCAAA
* * *
85438 AAGTTGCGAAAACAGGGTTCAATATTTTAAAGTTTGACTCTAGCAAAAGTCATTTTCAAAAGCAA
774 AACTTGCGAAAACAGGGTTCAATATTTTAAAGCTTGACTCCAGCAAAAGTCATTTTCAAAAGCAA
* *
85503 AACAGCAAAATTTCAAAGCTTTGAGGTCTCCCCCCTAAGGCTGTGCCTAAAAATAAAAACAAATT
839 AACAGCAAAATTTCAAAGCTTTGAGGTCGCCCCCCTAAGGCTGTGCATAAAAATAAAAACAAATT
*
85568 AGCGCACAATTAATCACATCAA
904 AGCACACAATTAATCACATCAA
85590 GCACTGATAA
Statistics
Matches: 815, Mismatches: 95, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
928 60 0.07
930 45 0.06
931 164 0.20
932 309 0.38
933 183 0.22
934 2 0.00
935 52 0.06
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (931 bp):
AAACACAACGAAAAATTAAAACTACACGAATGGTTTCCATATCACAGTTTGAAATTGTGCAGAAT
GGTTTTCTTCATGCAGAAAGCTGTTCGAAAACAAATTTTGATATTCTAAACTCCAAAATCACTTT
ACAACTTGCACTCAACACTGTGAAAAACTAAAACAAACGCAAGTTAAATCATGTTTCTCTGCTTA
AGCAAGTTTAAAGCATTGACTTCAGGATATTCAAACTCATTTCCATTAAAAAACTTGCAAAAATA
GCGTTTCATATTTTAAAGCTTGACTCCAGCCAAAGTCATTTTCAAAGCTAAACAAAGAAAAATTC
AAAGCTTTGAGTGCTCCCCCCCAAGTTCGCGCATAATATAAAAAAAAAGTTAACACAAAACTAAT
CAAATCAAGCACCGATAACAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGCACTCCC
AATATGAAGAACATTCAGAGGTAACAATCCCACACGAATACTCCTAAAAATGTATCTAAAGCAAA
TAAGGAAGAAACACAACGAAAAATTAAAATTGCACGAATGGTTTCCATATCACAGTCCGAAATAA
TGCATAATGATTTTTTTCACGCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAACTCCAAA
ATCCTTTAAAACTTGCACTCAACACTGTGAAAAATTAAAACCAAAGCAAGTTATATCATGTTTCT
GTGCTTGAGAAAGTTTAAAGCATTGGATTCAGGATATTAAAACTCATTTCCACTCAAAAACTTGC
GAAAACAGGGTTCAATATTTTAAAGCTTGACTCCAGCAAAAGTCATTTTCAAAAGCAAAACAGCA
AAATTTCAAAGCTTTGAGGTCGCCCCCCTAAGGCTGTGCATAAAAATAAAAACAAATTAGCACAC
AATTAATCACATCAAAGTTTG
Found at i:85760 original size:527 final size:528
Alignment explanation
Indices: 84660--85863 Score: 1462
Period size: 527 Copynumber: 2.3 Consensus size: 528
84650 ATCAAAGTTT
* * * * *
84660 GAAACACAACGAAATATTAAAACTACACGAATGGTTTCCATATCAGAGTTTGAAATTGTGCATAA
1 GAAACACAACGAAAAATTAAAACTGCACGAACGGCTTCCATATCACAGTTTGAAATTGTGCATAA
* ** * *
84725 TGGTTTTTTTTTTCTTGCGCAAAGCTGTTTGGAAACAAATTTTGATATTTTAAACTCCAAAATCC
66 T-G--TTTTTTTTCATGTACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAGCTCCAAAATCC
* *
84790 TTTACAACTTGCACTCAACATTGTGAAAAACTAAAACAAACGCAAGTTAAAAATCATGTTTCTTT
128 TTTAAAACTTGCACTCAACACTGTGAAAAACTAAAACAAACGCAAGTT-AAAATCATGTTTCTTT
* *
84855 GCTTAAGCAAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTCCTTTCAAAAGCTTGCAA
192 GCTTAAGAAAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTCCATTCAAAAGCTTGCAA
* *
84920 AAATAGGGTTTCATATTTTAAAGCTTGACTCCAGCCAAAGTCATTTTCAAAGCTAAACAAAGAAA
257 AAACAGGGTTTCATATTTTAAAGCTTGACTCCAGCAAAAGTCATTTTCAAAGCTAAACAAAGAAA
* * * *
84985 AATTCTAAGCTTTGAGTGCTCCCCCCCAAGTTCGCGCGTAATATAAAAAAAAAGTTAACGCAAAA
322 AATTCAAAGCTTTGAGTGCTCCCCCCCAAGCTCGCGCCTAAAATAAAAAAAAAGTTAACGCAAAA
* *
85050 CTAATTAAATCAAGCACCGATAACAGTTTCACAAATAATGTCCAAATATCAAGATCATTCATGCA
387 CTAATCAAATCAAGCACCGATAACAGTTTCACAAACAATGTCCAAATATCAAGATCATTCATGCA
* * * *
85115 CTCCCAATATGAAGAACATTCAGAGGTAACAATCCCACATGAATACTCCTAAAAATGTATCTAAA
452 ATCCCAATATCAAGAACATTCACAGGTAAAAATCCCACATGAATACTCCTAAAAATGTATCTAAA
* *
85180 GCAAATAAGGAA
517 GAAAATAAGCAA
* * * * * *
85192 GAAACACAATGAAAAATTAAAATTGCACGAATGGTTTCCATATCACAGTTTGAAATTATTCATAA
1 GAAACACAACGAAAAATTAAAACTGCACGAACGGCTTCCATATCACAGTTTGAAATTGTGCATAA
* *
85257 TGATTTTTTTCATGTACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAGCTCCATAATCCTTT
66 TGTTTTTTTTCATGTACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAGCTCCAAAATCCTTT
* * * *
85322 AAAACTTGTACTCAATACTGTG-AAAACTTAAAACCAAA-TCAAGTT-ATATCATGTTTCTTTGC
131 AAAACTTGCACTCAACACTGTGAAAAAC-TAAAA-CAAACGCAAGTTAAAATCATGTTTCTTTGC
* * * *
85384 TTGAGAAAGTTTAAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTCAAAAAG-TTGCGAA
194 TTAAGAAAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTCCATTC-AAAAGCTTGCAAA
* * *
85448 AACAGGG-TTCAATATTTTAAAGTTTGACTCTAGCAAAAGTCATTTTCAAAAGC-AAA-ACAGCA
258 AACAGGGTTTC-ATATTTTAAAGCTTGACTCCAGCAAAAGTCATTTTC-AAAGCTAAACAAAG-A
* * * * *
85510 AAATTTCAAAGCTTTGAG-GTCTCCCCCCTAAGGCT-GTGCCTAAAAATAAAAACAAA-TTAGCG
320 AAAATTCAAAGCTTTGAGTG-CTCCCCCCCAA-GCTCGCGCCT-AAAATAAAAAAAAAGTTAACG
* * * * * *
85572 CACAATTAATCACATCAAGCACTGATAACAGTTTCACAAACAATGTCCAAATATTATGATCATTC
382 CAAAACTAATCAAATCAAGCACCGATAACAGTTTCACAAACAATGTCCAAATATCAAGATCATTC
* * * ** * * * *
85637 ATGCAATCCCAATATCCAGAGCATTCACATGTAAGAAAT-TGACCTGAATTCTCCTGAAATTGTA
447 ATGCAATCCCAATATCAAGAACATTCACAGGTAA-AAATCCCACATGAATACTCCTAAAAATGTA
85701 TCTAAAGAAAATAAGCATA
511 TCTAAAGAAAATAAGCA-A
** * *
85720 -AAATGCAACGAAAATTTAAAACTGCGA-GAACGGCTTCCATATCACAATTTGAAATTGTGCATA
1 GAAACACAACGAAAAATTAAAACTGC-ACGAACGGCTTCCATATCACAGTTTGAAATTGTGCATA
* * * * *
85783 ACGTTTTTTTTCATATCCAAAGCTGTTCGGATACAAGTTTTGATATTTTAAGCTCCAAAATCCTT
65 ATGTTTTTTTTCATGTACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAGCTCCAAAATCCTT
* **
85848 TACAGGTTGCACTCAA
130 TAAAACTTGCACTCAA
85864 TGCTCCACCC
Statistics
Matches: 576, Mismatches: 84, Indels: 29
0.84 0.12 0.04
Matches are distributed among these distances:
526 7 0.01
527 386 0.67
528 34 0.06
529 85 0.15
530 4 0.01
531 1 0.00
532 59 0.10
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (528 bp):
GAAACACAACGAAAAATTAAAACTGCACGAACGGCTTCCATATCACAGTTTGAAATTGTGCATAA
TGTTTTTTTTCATGTACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAGCTCCAAAATCCTTT
AAAACTTGCACTCAACACTGTGAAAAACTAAAACAAACGCAAGTTAAAATCATGTTTCTTTGCTT
AAGAAAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTCCATTCAAAAGCTTGCAAAAAC
AGGGTTTCATATTTTAAAGCTTGACTCCAGCAAAAGTCATTTTCAAAGCTAAACAAAGAAAAATT
CAAAGCTTTGAGTGCTCCCCCCCAAGCTCGCGCCTAAAATAAAAAAAAAGTTAACGCAAAACTAA
TCAAATCAAGCACCGATAACAGTTTCACAAACAATGTCCAAATATCAAGATCATTCATGCAATCC
CAATATCAAGAACATTCACAGGTAAAAATCCCACATGAATACTCCTAAAAATGTATCTAAAGAAA
ATAAGCAA
Found at i:86593 original size:862 final size:864
Alignment explanation
Indices: 85058--86714 Score: 2301
Period size: 862 Copynumber: 1.9 Consensus size: 864
85048 AACTAATTAA
* * *
85058 ATCAAGCACCGATAACAGTTTCACAAATAATGTCCAAATATCAAGATCATTCATGCACTCCCAAT
1 ATCAAGCACAGATAACAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGCAATCCCAAT
* *
85123 ATGAAGAACATTCAGAGGTAACAATCCCACATGAATACTCCTAAAAATGTATCTAAAGCAAATAA
66 ATCAAGAACATTCACAGGTAACAATCCCACATGAATACTCCTAAAAATGTATCTAAAGCAAATAA
* ** * *
85188 GGAAGAAACACAATGAAAAATTAAAATTGCACGAATGGTTTCCATATCACAGTTTGAAATTATTC
131 GCAAGAAACACAATGAAAAATTAAAACCGCACGAATGGTTTCAATATCACAGTTTGAAATTATGC
* * *
85253 ATAATGATTTTTTTCATGTACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAGCTCCATAATC
196 ATAATGATTTTTTTCATGCACAAAGCTGTTCGGAAACAAAATTTGATATTTTAAACTCCATAATC
* * ** * *
85318 CTTTAAAACTTGTACTCAATACTGTGAAAACTTAAAACCAAATCAAGTTATATCATGTTTCTTTG
261 CTTTAAAACTTG-ACACAACACTGTGAAAAAGTAAAAACAAAACAAGTTATATCATGTTTCTTTG
* * * * *
85383 CTTGAGAAAGTTTAAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTCAAAAAGTTGCGAA
325 CTTAAGAAAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTACATTCAAAAAGTTGCAAA
* * * *
85448 AACAGGGTTCAATATTTTAAAGTTTGACTCTAGCAAAAGTCATTTTCAAAAGCAAAACAGCAAAA
390 AACAGGGTTCAATATTTTAAAGCTCGACTCCAGCAAAAGTCACTTTCAAAAGCAAAACAGCAAAA
* *
85513 TTTCAAAGCTTTGAGGTCTCCCCCCTAAGGCTGTGCCTAAAAATAAAAACAAATTAGCGCACAAT
455 TTTCAAAGCTTTGAGGTCTCCCCCCTAAGGCTGTGCATAAAAATAAAAACAAATTAGCACACAAT
* * * * *
85578 TAATCACATCAAGCACTGATAACAGTTTCACAAACAATGTCCAAATATTATGATCATTCATGCAA
520 TAATCACATCAAGCACTGAAAAAAGTTTCACAAACAATGTCCAAATATGAAGATCATTCACGCAA
* ** *
85643 TCCCAATATCCAGAGCATTCACATGTAAGAAATTGACCTGAATTCTCCTGAAATTGTATCTAAAG
585 TCCCAATATCAAGAGCATTCACATGTAAGAAATCCACCTGAATTCTCCTGAAAATGTATCTAAAG
* ** * *
85708 AAAATAAGCATAAAATGCAACGAAAATTTAAAACTGCGAGAACGGCTTCCATATCACAATTTGAA
650 AAAATAAGAATAAAACACAACGAAAAATTAAAACTGCGAGAACGGCTTCCATATCACAATTGGAA
* * * * * * *
85773 ATTGTGCATAA-CGTTTTTTTTCATATC-CAAAGCTGTTCGGATACAAGTTTTGATATTTTAAGC
715 ATTGTGCAGAATCGTTTTTCTTCAT-GCGCAAAGCTGTTCGAAAACAAATTTTGATATTTTAAAC
85836 TCC-AAAATCCTTTACAGGTTGCACTCAATGCTCCACCCCTAAGTTTGTGCATAAATATAAAAAC
779 -CCTAAAATCCTTTACAGGTTGCACTCAATGCTCCACCCCTAAGTTTGTGCATAAATATAAAAAC
85900 TAGTTAGCACACAATTAATCAC
843 TAGTTAGCACACAATTAATCAC
* *
85922 ATCAAGCACAGATAATAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGCAATCCTAAT
1 ATCAAGCACAGATAACAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGCAATCCCAAT
* * * * *
85987 ATCAAGAGCATTCACATGTAACAATCCCACATGAATTCTTCTGAAAATGTATCTAAAGCAAATAA
66 ATCAAGAACATTCACAGGTAACAATCCCACATGAATACTCCTAAAAATGTATCTAAAGCAAATAA
* * * *
86052 GCACGAAACACAATGAAATATTAAAACCGCGCGAATGGTTTCAATATCACAGTTTGAAATTGTGC
131 GCAAGAAACACAATGAAAAATTAAAACCGCACGAATGGTTTCAATATCACAGTTTGAAATTATGC
* * *
86117 A-AATGGTTTTTTTTTCATGCGCAAAGCTGTTTGGAAACAAAATTTGATATTTTAAACTCCATAA
196 ATAAT-G-ATTTTTTTCATGCACAAAGCTGTTCGGAAACAAAATTTGATATTTTAAACTCCATAA
*
86181 TCCTTTACAACTTG-CAC-ACACTGTGAAAAAGTAAAAACAAACACAAGTTATATCATGTTTCTT
259 TCCTTTAAAACTTGACACAACACTGTGAAAAAGTAAAAACAAA-ACAAGTTATATCATGTTTCTT
* ** * *
86244 TGCTTAAGCAAGTTTAAAGGTTTGAACTCAGGATATTTAAATTCATTTACATTCAAAAATTTGCA
323 TGCTTAAGAAAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTACATTCAAAAAGTTGCA
* * *
86309 AAAACAGGTTTTC-ATATTTTAAAGCTCGACTCCAGCCAAAGTCACTTTC-AAAGCAAACCAGCA
388 AAAACAGG-GTTCAATATTTTAAAGCTCGACTCCAGCAAAAGTCACTTTCAAAAGCAAAACAGCA
* ** * *
86372 AAATTTCAAAGCTTTGA-GTGCTCCCCCCTATGTTTGTGCATAAATATAAAAACAAGTTAGCACA
452 AAATTTCAAAGCTTTGAGGT-CTCCCCCCTAAGGCTGTGCATAAAAATAAAAACAAATTAGCACA
* *
86436 CAATTAATCACATCAAGCAGC-GAAAAAAGTTTCACAAATAATGTGCAAATATGAAGATCATTCA
516 CAATTAATCACATCAAGCA-CTGAAAAAAGTTTCACAAACAATGTCCAAATATGAAGATCATTCA
* * *
86500 CGCAATCCCAATATCAAGAGCATTCATATGTAA-CAATCCCACTTGAATTCTCCTGAAAATGTAT
580 CGCAATCCCAATATCAAGAGCATTCACATGTAAGAAAT-CCACCTGAATTCTCCTGAAAATGTAT
* ** * * * *
86564 CTAAAGCAAATAAGAATGGAACACAACGAAAAATTAAAACTGCGTGAATGGTTTCCATATCACAG
644 CTAAAGAAAATAAGAATAAAACACAACGAAAAATTAAAACTGCGAGAACGGCTTCCATATCACAA
* **
86629 TTGGAAATTGTGTAGAATCGTTTTTCTTCATGCGTGAAGCTGTTCGAAAACAAATTTTGATATTT
709 TTGGAAATTGTGCAGAATCGTTTTTCTTCATGCGCAAAGCTGTTCGAAAACAAATTTTGATATTT
86694 TAAACCCTAAAATCCTTTACA
774 TAAACCCTAAAATCCTTTACA
86715 ACTTGTATTC
Statistics
Matches: 689, Mismatches: 94, Indels: 21
0.86 0.12 0.03
Matches are distributed among these distances:
861 5 0.01
862 266 0.39
863 175 0.25
864 179 0.26
865 64 0.09
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (864 bp):
ATCAAGCACAGATAACAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGCAATCCCAAT
ATCAAGAACATTCACAGGTAACAATCCCACATGAATACTCCTAAAAATGTATCTAAAGCAAATAA
GCAAGAAACACAATGAAAAATTAAAACCGCACGAATGGTTTCAATATCACAGTTTGAAATTATGC
ATAATGATTTTTTTCATGCACAAAGCTGTTCGGAAACAAAATTTGATATTTTAAACTCCATAATC
CTTTAAAACTTGACACAACACTGTGAAAAAGTAAAAACAAAACAAGTTATATCATGTTTCTTTGC
TTAAGAAAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTACATTCAAAAAGTTGCAAAA
ACAGGGTTCAATATTTTAAAGCTCGACTCCAGCAAAAGTCACTTTCAAAAGCAAAACAGCAAAAT
TTCAAAGCTTTGAGGTCTCCCCCCTAAGGCTGTGCATAAAAATAAAAACAAATTAGCACACAATT
AATCACATCAAGCACTGAAAAAAGTTTCACAAACAATGTCCAAATATGAAGATCATTCACGCAAT
CCCAATATCAAGAGCATTCACATGTAAGAAATCCACCTGAATTCTCCTGAAAATGTATCTAAAGA
AAATAAGAATAAAACACAACGAAAAATTAAAACTGCGAGAACGGCTTCCATATCACAATTGGAAA
TTGTGCAGAATCGTTTTTCTTCATGCGCAAAGCTGTTCGAAAACAAATTTTGATATTTTAAACCC
TAAAATCCTTTACAGGTTGCACTCAATGCTCCACCCCTAAGTTTGTGCATAAATATAAAAACTAG
TTAGCACACAATTAATCAC
Found at i:87235 original size:527 final size:526
Alignment explanation
Indices: 85862--87390 Score: 2210
Period size: 527 Copynumber: 2.9 Consensus size: 526
85852 GGTTGCACTC
*
85862 AATGCTCCACCCCTAAGTTTGTGCATAAATATAAAAACTAGTTAGCACACAATTAATCACATCAA
1 AATGCTCC-CCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAATCACATCAA
*
85927 GCACAGATAATAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGCAATCCTAATATCAA
65 GCACCGATAATAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGCAATCCTAATATCAA
*
85992 GAGCATTCACATGTAACAATCCCACATGAATTCT-TCTGAAAATGTATCTAAAGCAAATAAGCAC
130 GAGCATTCACATGTAACAATCCCACATGAATTCTCT-TGAAAATGTATCTAAAGCAAATAAGCAA
* * * *
86056 GAAACACAATGAAATATTAAAACCGCGCGAATGGTTTCAATATCACAGTTTGAAATTGTGCA-AA
194 GAAACACAATAAAATATTAAAACTGCGTGAATGGTTTCCATATCACAGTTTGAAATTGTGCAGAA
* * *
86120 TGGTTTTTTTTTCATGCGCAAAGCTGTTTGGAAACAAAATTTGATATTTTAAACTCCATAATCCT
259 TGG--TTTTTTTCATGCGCAAAGCTGTTTGGAAACAAATTTTGATATTTTAAACTCTAAAATCCT
* *
86185 TTACAACTTGCA-C-ACACTGTGAAAAAGTAAAAACAAACACAAGTTATATCATGTTTCTTTGCT
322 TTACAACTTGCATCAACACTGTGAAAAA-TTAAAACAAATACAAGTTATATCATGTTTCTTTGCT
** * * * *
86248 TAAGCAAGTTTAAAGGTTTGAACTCAGGATATTTAAATTCATTTACATTCAAAAATTTGCAAAAA
386 TAAGCAAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTCCATTCAAAAACTTGCGAAAA
* * * * *
86313 CAGGTTTTCATATTTTAAAGC-TCGACTCCAGCCAAAGTCACTTTCAAAGCAAACCAGCAAAATT
451 CAGGGTTTCATATTTTAAAGCTTTGACTCCAACAAAAGTCACTTTCAAAGCAAAACAGCAAAATT
86377 TCAAAGCTTTG
516 TCAAAGCTTTG
* *
86388 AGTGCTCCCCCCTATGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAATCACATCAAG
1 AATGCTCCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAATCACATCAAG
* * * ** * * *
86453 CAGCGAAAAAAGTTTCACAAATAATGTGCAAATATGAAGATCATTCACGCAATCCCAATATCAAG
66 CACCGATAATAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGCAATCCTAATATCAAG
* * *
86518 AGCATTCATATGTAACAATCCCACTTGAATTCTCCTGAAAATGTATCTAAAGCAAATAAG-AATG
131 AGCATTCACATGTAACAATCCCACATGAATTCTCTTGAAAATGTATCTAAAGCAAATAAGCAA-G
* * * *
86582 GAACACAACGAAAA-ATTAAAACTGCGTGAATGGTTTCCATATCACAGTTGGAAATTGTGTAGAA
195 AAACACAA-TAAAATATTAAAACTGCGTGAATGGTTTCCATATCACAGTTTGAAATTGTGCAGAA
* ** * * *
86646 TCGTTTTTCTTCATGCGTGAAGCTGTTCGAAAACAAATTTTGATATTTTAAACCCTAAAATCCTT
259 TGGTTTTT-TTCATGCGCAAAGCTGTTTGGAAACAAATTTTGATATTTTAAACTCTAAAATCCTT
* * * *
86711 TACAACTTGTATTCAACACTGTCAAAAATTAAAACCAATGCAAGTTATATCATGTTTCTTTGCTT
323 TACAACTTGCA-TCAACACTGTGAAAAATTAAAACAAATACAAGTTATATCATGTTTCTTTGCTT
* * * * *
86776 GAGCAAGTTTCAAGCATTGGATTCAGGATATTCAAATTCATTTCCATTCAAAAACTTGCGAAAAT
387 AAGCAAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTCCATTCAAAAACTTGCGAAAAC
*
86841 AGGGTTTCATATTTTAAAGCTTTG-CTCCAACAAAAGTCATTTTCAAAGCAAAACAGCAAAATTT
452 AGGGTTTCATATTTTAAAGCTTTGACTCCAACAAAAGTCACTTTCAAAGCAAAACAGCAAAATTT
86905 CAAAGCTTTG
517 CAAAGCTTTG
* *
86915 AATGCTGCCCGCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAAACACATCAA
1 AATGCT-CCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAATCACATCAA
* * *
86980 GCACCGATAATAGTTTCGCAAATAATGCCCAAATATCAAGATCGTTGATGCAATCCTAATATCAA
65 GCACCGATAATAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGCAATCCTAATATCAA
* **
87045 GAGCATTCACATGTAACATTCCCACATGAATTCTCTTGAAAATGTATCTAAAGTGAATAAGCAAG
130 GAGCATTCACATGTAACAATCCCACATGAATTCTCTTGAAAATGTATCTAAAGCAAATAAGCAAG
** * *
87110 AAACACAATAAAATATTAAAACTAAGTGAAAGGTTTCCATATCATAGTTTGAAATTGTGCAGAAT
195 AAACACAATAAAATATTAAAACTGCGTGAATGGTTTCCATATCACAGTTTGAAATTGTGCAGAAT
87175 GGTTTTTTTCATGCGCAAAGCTGTTTGGAAACAAATTTTGATATTTTAAACTCTAAAATCCTTTA
260 GGTTTTTTTCATGCGCAAAGCTGTTTGGAAACAAATTTTGATATTTTAAACTCTAAAATCCTTTA
* * * * *
87240 CAACTTGCACTCAATACAGTGAAAAATTAAAACAAATTCAAGTTAAATCATGTTTCGTTGCTTAA
325 CAACTTGCA-TCAACACTGTGAAAAATTAAAACAAATACAAGTTATATCATGTTTCTTTGCTTAA
* * *
87305 GAAACTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTCAATTCAAAAACTTGCGAAAACAG
389 GCAAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTCCATTCAAAAACTTGCGAAAACAG
*
87370 GGTTTCATATTTTAATGCTTT
454 GGTTTCATATTTTAAAGCTTT
87391 TTTTTATCTC
Statistics
Matches: 882, Mismatches: 109, Indels: 23
0.87 0.11 0.02
Matches are distributed among these distances:
524 6 0.01
525 275 0.31
526 14 0.02
527 348 0.39
528 237 0.27
529 2 0.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (526 bp):
AATGCTCCCCCCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAATCACATCAAG
CACCGATAATAGTTTCACAAATAATGCCCAAATATCAAGATCATTCATGCAATCCTAATATCAAG
AGCATTCACATGTAACAATCCCACATGAATTCTCTTGAAAATGTATCTAAAGCAAATAAGCAAGA
AACACAATAAAATATTAAAACTGCGTGAATGGTTTCCATATCACAGTTTGAAATTGTGCAGAATG
GTTTTTTTCATGCGCAAAGCTGTTTGGAAACAAATTTTGATATTTTAAACTCTAAAATCCTTTAC
AACTTGCATCAACACTGTGAAAAATTAAAACAAATACAAGTTATATCATGTTTCTTTGCTTAAGC
AAGTTTAAAGCATTGAACTCAGGATATTCAAATTCATTTCCATTCAAAAACTTGCGAAAACAGGG
TTTCATATTTTAAAGCTTTGACTCCAACAAAAGTCACTTTCAAAGCAAAACAGCAAAATTTCAAA
GCTTTG
Found at i:87832 original size:478 final size:477
Alignment explanation
Indices: 86926--87861 Score: 1274
Period size: 478 Copynumber: 2.0 Consensus size: 477
86916 ATGCTGCCCG
*
86926 CCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAAACACATCAAGCACCGATAAT
1 CCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAAACACATCAAGCACCGATAAC
* * * * *
86991 AGTTTCGCAAATAATGCCCAAATATCAAGATCGTTGATGCAATCCTAATATCAAGAGCATTCACA
66 AGTTTCACAAATAATACCCAAATATCAAGATCATTCACGCAATCCTAATATCAAGAGCATTCACA
* * * ** *
87056 TGTAACATTCCCACATGAATTCTCTTGAAAATGTATCTAAAGTGAATAAGCAAGAAACACAATAA
131 TGTAACAATCCCACATGAATTCTCCTGAAAATGTATCAAAAGCAAATAAGCAAGAAACACAAGAA
*
87121 AATATTAAAACTAAGTGAAAGGTTTCCATATCATAGTTTGAAATTGTGCAGAATGGTTTTTTTCA
196 AATATTAAAACT-AGTGAAAGGTTTCCATATCACAGTTTGAAATTGTGCAGAATGGTTTTTTTCA
* * * *
87186 TGCGCAAAGCTGTTTGGAAACAAATTTTGATATTTTAAACTCTAAAATCCTTTACAACTTGCACT
260 TGCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAACTCCAAAAACCTTTACAACTTGCACT
* * * *
87251 CAATACAGTGAAAAATTAAAACAAATTCAAGTTAAATCATGTTTCGTTGCTTAAGAAACTTTAAA
325 CAACACAGTGAAAAATTAAAACAAACTCAAGTTAAAGCATGTTTCGTTGCTGAAGAAACTTTAAA
* *
87316 GCATTGAACTCAGGATATTCAAATTCATTTCAATTCAAAAACTTGCGAAAACAGGGTTTCATATT
390 GCATTGAACTCAGGATATTAAAATTCATTTCAATTCAAAAACTTGCGAAAACAGGGTATCATATT
87381 TTAATGCTTTTTTTTATCTCCCT
455 TTAATGCTTTTTTTTATCTCCCT
* *
87404 CCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAATCACATTAAGCACCGATAAC
1 CCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAAACACATCAAGCACCGATAAC
*
87469 AGTTTCACAAATAATATCCAAATATCAAGATCATTCACGCAATCAC-AATATCAAGAGCATTCAC
66 AGTTTCACAAATAATACCCAAATATCAAGATCATTCACGCAATC-CTAATATCAAGAGCATTCAC
* *
87533 ATGTAACAATCTCACATGGATTCTCCTG-AAATGGTATCAAAAGCAAATAAG-AATGAAACACAA
130 ATGTAACAATCCCACATGAATTCTCCTGAAAAT-GTATCAAAAGCAAATAAGCAA-GAAACACAA
* * ** *
87596 CGAAAA-ATTACAACT-GTGCAAATTGTTTGTATATCACAGTTTGAAATTGTGCAGAATGTTTTT
193 -GAAAATATTAAAACTAGTG-AAA-GGTTTCCATATCACAGTTTGAAATTGTGCAGAATGGTTTT
* * * *
87659 TTTCATGCACAAAGCTGTTCGGAAGCAAATTTTGGTATTTTAAGCTCCAAAAACTTTTACAACTT
255 TTTCATGCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAACTCCAAAAACCTTTACAACTT
* * ** * ** * * * *
87724 GTAGTCAACATTGTGAAAAATTAAAACCAACTCAAGTTCTAGCTTGTTTCTTTGCCTGAA-CAAG
320 GCACTCAACACAGTGAAAAATTAAAACAAACTCAAGTTAAAGCATGTTTCGTTG-CTGAAGAAAC
* * * *
87788 TTTAAAGGATTGGATTCAGGATATTAAAATTCGTTTGC-ATTCAAAAACTTGCGAAAACAGGGTA
384 TTTAAAGCATTGAACTCAGGATATTAAAATTCATTT-CAATTCAAAAACTTGCGAAAACAGGGTA
87852 TCATATTTTA
448 TCATATTTTA
87862 GAGTTTGGCT
Statistics
Matches: 398, Mismatches: 52, Indels: 16
0.85 0.11 0.03
Matches are distributed among these distances:
476 3 0.01
477 9 0.02
478 376 0.94
479 10 0.03
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (477 bp):
CCTAAGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAAACACATCAAGCACCGATAAC
AGTTTCACAAATAATACCCAAATATCAAGATCATTCACGCAATCCTAATATCAAGAGCATTCACA
TGTAACAATCCCACATGAATTCTCCTGAAAATGTATCAAAAGCAAATAAGCAAGAAACACAAGAA
AATATTAAAACTAGTGAAAGGTTTCCATATCACAGTTTGAAATTGTGCAGAATGGTTTTTTTCAT
GCACAAAGCTGTTCGGAAACAAATTTTGATATTTTAAACTCCAAAAACCTTTACAACTTGCACTC
AACACAGTGAAAAATTAAAACAAACTCAAGTTAAAGCATGTTTCGTTGCTGAAGAAACTTTAAAG
CATTGAACTCAGGATATTAAAATTCATTTCAATTCAAAAACTTGCGAAAACAGGGTATCATATTT
TAATGCTTTTTTTTATCTCCCT
Found at i:88886 original size:225 final size:224
Alignment explanation
Indices: 88474--88928 Score: 655
Period size: 225 Copynumber: 2.0 Consensus size: 224
88464 CCCCCCCCTA
* * * *
88474 AGTTTGTCCATAAATATAAAATAAGTTAGCACACAATTAATCACATCAGGCTCCAATACCAGTTT
1 AGTTTGTCCATAAATATAAAACAAGTTAGCACACAATTAATCACATCAAGCACCAATAACAGTTT
88539 CACAAATAATGTCCAAATATCAAGATCATCAAGCAATCCCAATATCAAGAGCATTCACATGTAAC
66 CACAAATAATGTCCAAATATCAAGATCATCAAGCAATCCCAATATCAAGAGCATTCACATGTAAC
* ** * *
88604 AATCCCACATGAATTCTGGTGAAAATATATCTAAAGTAAATAAGCACGTGACACAACAAAAAATT
131 AATCCCACATAAATTCTCCTGAAAATATATCTAAAGCAAATAAGCACGTAACACAACAAAAAATT
* * *
88669 -AAAACTG-GATGATTGGTTTCCATATTAC
196 AAAAACTGAG-CGAATGGTTTCCATATCAC
* * **
88697 AGTTTGTGCATAAATATAAAAACAAGTTAGCACACAATTAATCAGATCAAGCACTGATAACAGTT
1 AGTTTGTCCATAAATAT-AAAACAAGTTAGCACACAATTAATCACATCAAGCACCAATAACAGTT
* *
88762 TCACAAATAATGTCCAAATATCAAGATCATTCATGCAATCGCAATATCAAGAGCATTCACATGTA
65 TCACAAATAATGTCCAAATATCAAGATCA-TCAAGCAATCCCAATATCAAGAGCATTCACATGTA
* * *
88827 ACATTCCCACATAAATTCTCCTGAACATGTATCTAAAGCAAATAAGCAC-TAAACACAACAAAAA
129 ACAATCCCACATAAATTCTCCTGAAAATATATCTAAAGCAAATAAGCACGT-AACACAACAAAAA
88891 ATTAAAAACTGAGCGAATGGTTTCCATATCAC
193 ATTAAAAACTGAGCGAATGGTTTCCATATCAC
*
88923 AATTTG
1 AGTTTG
88929 AAATTGTGTC
Statistics
Matches: 205, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
223 16 0.08
224 70 0.34
225 90 0.44
226 28 0.14
227 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (224 bp):
AGTTTGTCCATAAATATAAAACAAGTTAGCACACAATTAATCACATCAAGCACCAATAACAGTTT
CACAAATAATGTCCAAATATCAAGATCATCAAGCAATCCCAATATCAAGAGCATTCACATGTAAC
AATCCCACATAAATTCTCCTGAAAATATATCTAAAGCAAATAAGCACGTAACACAACAAAAAATT
AAAAACTGAGCGAATGGTTTCCATATCAC
Found at i:91328 original size:365 final size:366
Alignment explanation
Indices: 90632--91348 Score: 1066
Period size: 365 Copynumber: 2.0 Consensus size: 366
90622 AGTGCTCTCT
* * *
90632 CCTAAGTTTTGGCATAAAATGTAAAAACAAGTTAGCACACAATTAATCACATCAAGCACCGATAA
1 CCTAAGTTTTGGCATAAAATATAAAAACAAGTGAGCACACAATTAATCACATCAAGCACCAATAA
* * * *
90697 CAGTTTCACAAATAATGTCCAAATATCAAGATCATTCACGCAATCCCAATATCAAGAGCATTCCC
66 CAGTTTCACAAATAATGTCCAAATATCAAAATCATTAACACAACCCCAATATCAAGAGCATTCCC
* * **
90762 CTGTAACAATCCCACATGAATTCTCCTAACAATGTATCTAAAGAAAATAAGCATGAAACACAATT
131 ATGTAACAATCACACATGAATTCTCCTAACAATGTATCTAAAGAAAATAAGCATGAAACACAACG
* *
90827 AAAAATTAAAACGGCACGAATGGTTTCCATATCACGGTTTGAAATTGTGCAAAATGGATTTTTTT
196 AAAAATTAAAACGGCACAAATGGTTTCCATATCACAGTTTGAAATTGTGCAAAATGGATTTTTTT
** * ** *
90892 CATGCCTGAAGATGTTCGGAAATAAAATTTGGTATTTTAAGCTCCAAAATCCTTTACAGCTTGCA
261 CATGCCCAAAGATGTTCGGAAAGAAAATTTAATATTTTAAGCTACAAAATCCTTTACAGCTTGCA
*
90957 CTCAACACCGTTG-AAAATTAAAACCAATTTTCTGCTGCAAC
326 CTCAACACC-ATGAAAAATTAAAACCAATTTTCTGCTGCAAC
90998 CCTAAG-TTTGTGCAT-AAATATAAAAACAAGTGAGCACACAATTAATCACATCAAGCACCAATA
1 CCTAAGTTTTG-GCATAAAATATAAAAACAAGTGAGCACACAATTAATCACATCAAGCACCAATA
* * **
91061 ACAGTTTCACAAATAATGTCCAAATATCAAAATCGTTAACACAACCCCAATATCAAGAGCCTTTG
65 ACAGTTTCACAAATAATGTCCAAATATCAAAATCATTAACACAACCCCAATATCAAGAGCATTCC
*
91126 CATGTAACAATCACACATGAATTCTCCTGAA-AATGTATCTACAGAAAATAAGCATGAAACACAA
130 CATGTAACAATCACACATGAATTCTCCT-AACAATGTATCTAAAGAAAATAAGCATGAAACACAA
* * * *
91190 CGAAATATTAGAACGGCACAAATGGTTTCCTTATCACAGTTTGAAATTGTGCAGAATGGATTTTT
194 CGAAAAATTAAAACGGCACAAATGGTTTCCATATCACAGTTTGAAATTGTGCAAAATGGATTTTT
* * *
91255 TTCATGCCCAAAGCTGTTC-GAAAGGAAATTTTAATATTTTAAGCTACAAAATCCTTTGCAGCTT
259 TTCATGCCCAAAGATGTTCGGAAA-GAAAATTTAATATTTTAAGCTACAAAATCCTTTACAGCTT
*
91319 GCCCTCAACACCATGAAAAATTAAAACCAA
323 GCACTCAACACCATGAAAAATTAAAACCAA
91349 CGCAAGTTAT
Statistics
Matches: 314, Mismatches: 33, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
364 6 0.02
365 296 0.94
366 12 0.04
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.27
Consensus pattern (366 bp):
CCTAAGTTTTGGCATAAAATATAAAAACAAGTGAGCACACAATTAATCACATCAAGCACCAATAA
CAGTTTCACAAATAATGTCCAAATATCAAAATCATTAACACAACCCCAATATCAAGAGCATTCCC
ATGTAACAATCACACATGAATTCTCCTAACAATGTATCTAAAGAAAATAAGCATGAAACACAACG
AAAAATTAAAACGGCACAAATGGTTTCCATATCACAGTTTGAAATTGTGCAAAATGGATTTTTTT
CATGCCCAAAGATGTTCGGAAAGAAAATTTAATATTTTAAGCTACAAAATCCTTTACAGCTTGCA
CTCAACACCATGAAAAATTAAAACCAATTTTCTGCTGCAAC
Found at i:93699 original size:485 final size:485
Alignment explanation
Indices: 92764--93741 Score: 1493
Period size: 485 Copynumber: 2.0 Consensus size: 485
92754 TGATATTTCG
92764 ATTACATGAATGATCTTGATATTTGGACATTATTTGTGAAACTGTTATCCATGCTTGATGTGATA
1 ATTACATGAATGATCTTGATATTTGGACATTATTTGTGAAACTGTTATCCATGCTTGATGTGATA
*
92829 AATTGTGTGCTAACTTGTTTTTTTATTTATGCACAAAATTAGGGGGGGAACACTCAAAGCTTTGA
66 AATTGTGTGCTAACTTGTTTTTATATTTATGCACAAAATTAGGGGGGGAACACTCAAAGCTTTGA
* *
92894 AATTTTGAGGTTTTGCTTTTGAAAATAACTTTTGTTGTAGTCAAGCTTTAAAATATGAAACCCTA
131 AATTCTGAGGTTTTGCTTTTGAAAATAACTTTTGTTGTAGTCAAGCTTTAAAATATAAAACCCTA
* *
92959 TTTTCAAAAGTTTTTGAATGGAAATGAATTTTAATATCCTGAATCCAATGCTTTAAACTTGCTGA
196 TTTTCAAAAGTTTTTGAATGGAAATGAATTTGAATATCCTCAATCCAATGCTTTAAACTTGCTGA
*
93024 AGCAAAGAAACACGATATAACTTACGTTGGTTTTAATTTTCCACGGTGTTAAGTGCAAGCTATAA
261 AGCAAAGAAACACGATATAACTTACATTGGTTTTAATTTTCCACGGTGTTAAGTGCAAGCTATAA
* * * *
93089 AGGCTTTTGGAGCTTAAAGTATCAAAATTTGTTTCCAAATAGCTTTCGGCTTGAAAAAAGCCATT
326 AGGATTTT-GAGCTTAAAGTATCAAAATTTGTTTCCAAACACCTTTCGGCGTGAAAAAAGCCATT
* * * *
93154 CTGCACAATTTTCAAACTGTGATATGGAAACCATTCGAGCAGTTTTAGTTTTTCTTGTGTTTCGT
390 CTGCACAATTTTCAAACTGTGACAAGGAAACCATTCGAGCAGTTTTAATTTTTCTTGTGTTTCAT
*
93219 GTTTATTTGCTTT-GCAGACATTTTCAGGAGA
455 GCTTATTTGCTTTAG-AGACATTTTCAGGAGA
* * *
93250 ATTACGTGAATGATCTTGATATTTGGACATTATTTGTGAAACTGTTATCCGTGCTTGATGTGATT
1 ATTACATGAATGATCTTGATATTTGGACATTATTTGTGAAACTGTTATCCATGCTTGATGTGATA
* *
93315 AATTGTGTGCTAACTTGTTTTTATATTTATGCAC-AAATTTGGTGGGGAGA-ACTCAAAGCTTTG
66 AATTGTGTGCTAACTTGTTTTTATATTTATGCACAAAATTAGGGGGGGA-ACACTCAAAGCTTTG
* *
93378 AAATTCTGCGGTTTTGCTTTTGAAAATAACTTTTGTTGTGGTCAAGCTTTAAAATATAAAACCCT
130 AAATTCTGAGGTTTTGCTTTTGAAAATAACTTTTGTTGTAGTCAAGCTTTAAAATATAAAACCCT
*
93443 ATTTTCGAAAGTTTTTGAATGGAAATGAATTTGAATATCCTCAATCCAATGCTTTAAACTTGCTG
195 ATTTTCAAAAGTTTTTGAATGGAAATGAATTTGAATATCCTCAATCCAATGCTTTAAACTTGCTG
* * * * * *
93508 AAGCGAAGAAACATGATATAACTTGCATTGGTTTTAATTTTTCACGGTGTTGAGTGCAAGCTGTA
260 AAGCAAAGAAACACGATATAACTTACATTGGTTTTAATTTTCCACGGTGTTAAGTGCAAGCTATA
* * * * * * *
93573 AAGGATTTT-ATGCTTAAATTATTATAATTTGTTTTCGAACACCTTTGGGCGTGAAAAAAATCCA
325 AAGGATTTTGA-GCTTAAAGTATCAAAATTTGTTTCCAAACACCTTTCGGCGTG-AAAAAAGCCA
*
93637 TTCTGCACAA-TTTCAAACTGTGACAAGGAAACCATTCGCA-CCGTTTTAATTTTTCATTGTGTT
388 TTCTGCACAATTTTCAAACTGTGACAAGGAAACCATTCG-AGCAGTTTTAATTTTTC-TTGTGTT
* *
93700 TCATGCTTATTTGCTTTAGATACATTTTTAGGAGA
451 TCATGCTTATTTGCTTTAGAGACATTTTCAGGAGA
93735 ATT-CATG
1 ATTACATG
93742 TGAGATTGGG
Statistics
Matches: 446, Mismatches: 40, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
483 1 0.00
484 75 0.17
485 273 0.61
486 97 0.22
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (485 bp):
ATTACATGAATGATCTTGATATTTGGACATTATTTGTGAAACTGTTATCCATGCTTGATGTGATA
AATTGTGTGCTAACTTGTTTTTATATTTATGCACAAAATTAGGGGGGGAACACTCAAAGCTTTGA
AATTCTGAGGTTTTGCTTTTGAAAATAACTTTTGTTGTAGTCAAGCTTTAAAATATAAAACCCTA
TTTTCAAAAGTTTTTGAATGGAAATGAATTTGAATATCCTCAATCCAATGCTTTAAACTTGCTGA
AGCAAAGAAACACGATATAACTTACATTGGTTTTAATTTTCCACGGTGTTAAGTGCAAGCTATAA
AGGATTTTGAGCTTAAAGTATCAAAATTTGTTTCCAAACACCTTTCGGCGTGAAAAAAGCCATTC
TGCACAATTTTCAAACTGTGACAAGGAAACCATTCGAGCAGTTTTAATTTTTCTTGTGTTTCATG
CTTATTTGCTTTAGAGACATTTTCAGGAGA
Found at i:94010 original size:479 final size:469
Alignment explanation
Indices: 92764--94010 Score: 1345
Period size: 485 Copynumber: 2.6 Consensus size: 469
92754 TGATATTTCG
* *
92764 ATTACATGAATGATCTTGATATTTGGACATTATTTGTGAAACTGTTATCCATGCTTGATGTGATA
1 ATTACGTGAATGATCTTGATATTTGGACATTATTTGTG-AAC--TTATCCATGCTTGATGTGATT
* * * *
92829 AATTGTGTGCTAACTTGTTTTTTTATTTATGCACAAAAT-TAGGGGGGGAACACTCAAAGCTTTG
63 AATTCTGTGCGAACTTGTTTTTATATTTATGCAC-AAATCT----GTGG---A-T---A--TTTG
* *
92893 AAATTTTGAGGTTTTGCTTTTGAAAATAACTTTTGTTGTAGTCAAGCTTTAAAATATGAAACCCT
114 AAATTTTGCGGTTTTGCTTTTGAAAATAACTTTTGTTGGAGTCAAGCTTTAAAATATGAAACCCT
* * *
92958 ATTTTCAAAAGTTTTTGAATGGAAATGAATTTTAATATCCTGAATCCAATGCTTTAAACTTGCTG
179 ATTTTCGAAAGTTTTTGAATGGAAATGAATTTAAATATCCTAAATCCAATGCTTTAAACTTGCTG
* *
93023 AAGCAAAGAAACACGATATAACTTACGTTGGTTTTAATTTTCCACGGTGTTAAGTGCAAGCTATA
244 AAGCAAAGAAACATGATATAACTTACATTGGTTTTAATTTTCCACGGTGTTAAGTGCAAGCTATA
* * * *
93088 AAGGCTTTTGGAGCTTAAAGTATCAAAATTTGTTTCCAAATAGCTTTCGGCTTGAAAAAAGCCAT
309 AAGGATTTT-GAGCTTAAAGTATCAAAATTTGTTTCCAAACACCTTTCGGCGTGAAAAAAGCCAT
* * * *
93153 TCTGCACAATTTTCAAACTGTGATATGGAAACCATTCGAGCAGTTTTAGTTTTTCTTGTGTTTCG
373 TCTGCACAATTTTCAAACTGTGACAAGGAAACCATTCGAGCAGTTTTAATTTTTCTTGTGTTTCA
*
93218 TGTTTATTTGCTTTGCAGACATTTTCAGGAGA
438 TGCTTATTTGCTTTGCAGACATTTTCAGGAGA
*
93250 ATTACGTGAATGATCTTGATATTTGGACATTATTTGTGAAACTGTTATCCGTGCTTGATGTGATT
1 ATTACGTGAATGATCTTGATATTTGGACATTATTTGTG-AAC--TTATCCATGCTTGATGTGATT
* * *
93315 AATTGTGTGCTAACTTGTTTTTATATTTATGCACAAATTTGGTGGGGAGAACTCAAAGCTTTGAA
63 AATTCTGTGCGAACTTGTTTTTATATTTATGCACAAATCT-GT---G-G-A-T---A--TTTGAA
* *
93380 ATTCTGCGGTTTTGCTTTTGAAAATAACTTTTGTTGTG-GTCAAGCTTTAAAATATAAAACCCTA
116 ATTTTGCGGTTTTGCTTTTGAAAATAACTTTTGTTG-GAGTCAAGCTTTAAAATATGAAACCCTA
* *
93444 TTTTCGAAAGTTTTTGAATGGAAATGAATTTGAATATCCTCAATCCAATGCTTTAAACTTGCTGA
180 TTTTCGAAAGTTTTTGAATGGAAATGAATTTAAATATCCTAAATCCAATGCTTTAAACTTGCTGA
* * * * *
93509 AGCGAAGAAACATGATATAACTTGCATTGGTTTTAATTTTTCACGGTGTTGAGTGCAAGCTGTAA
245 AGCAAAGAAACATGATATAACTTACATTGGTTTTAATTTTCCACGGTGTTAAGTGCAAGCTATAA
* * * * * * *
93574 AGGATTTT-ATGCTTAAATTATTATAATTTGTTTTCGAACACCTTTGGGCGTGAAAAAAATCCAT
310 AGGATTTTGA-GCTTAAAGTATCAAAATTTGTTTCCAAACACCTTTCGGCGTG-AAAAAAGCCAT
*
93638 TCTGCACAA-TTTCAAACTGTGACAAGGAAACCATTCGCA-CCGTTTTAATTTTTCATTGTGTTT
373 TCTGCACAATTTTCAAACTGTGACAAGGAAACCATTCG-AGCAGTTTTAATTTTTC-TTGTGTTT
* *
93701 CATGCTTATTTGCTTTAG-ATACATTTTTAGGAGAATTCATGTGA
436 CATGCTTATTTGCTTT-GCAGACATTTTCA-G-G-----A---GA
* *
93745 GATTGGGATTCTGTGAATGATCTTGATATTTGGATATTATTTGTG-A-TTATTCATGCTTGATGT
1 -ATT---A--C-GTGAATGATCTTGATATTTGGACATTATTTGTGAACTTATCCATGCTTGATGT
* *
93808 GATTAATTCTGTGCGAACTTGTTTTTATA-TTCTGCACAAA-CT-T-G-T-TTTGAAATTTTGCT
59 GATTAATTCTGTGCGAACTTGTTTTTATATTTATGCACAAATCTGTGGATATTTGAAATTTTGCG
* * ** * * *
93867 GTTTTGATCTTG-AAATAGACTTTTGCCGGAGTAAAGCTTTAAAATATGAAACCCCATTTTCGCA
124 GTTTTGCTTTTGAAAATA-ACTTTTGTTGGAGTCAAGCTTTAAAATATGAAACCCTATTTTCGAA
* * *
93931 AGTTTTTGAATGGAAATGAATTTAAAAATCCTAAATCCATTGCTTTAAACTTGCTCAAGCAAAGA
188 AGTTTTTGAATGGAAATGAATTTAAATATCCTAAATCCAATGCTTTAAACTTGCTGAAGCAAAGA
93996 AACATGATATAACTT
253 AACATGATATAACTT
94011 TTGTTGTGCC
Statistics
Matches: 669, Mismatches: 62, Indels: 67
0.84 0.08 0.08
Matches are distributed among these distances:
478 6 0.01
479 134 0.20
483 3 0.00
484 72 0.11
485 257 0.38
486 99 0.15
487 2 0.00
488 1 0.00
492 1 0.00
493 1 0.00
495 3 0.00
496 13 0.02
497 42 0.06
499 1 0.00
500 1 0.00
501 1 0.00
502 32 0.05
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (469 bp):
ATTACGTGAATGATCTTGATATTTGGACATTATTTGTGAACTTATCCATGCTTGATGTGATTAAT
TCTGTGCGAACTTGTTTTTATATTTATGCACAAATCTGTGGATATTTGAAATTTTGCGGTTTTGC
TTTTGAAAATAACTTTTGTTGGAGTCAAGCTTTAAAATATGAAACCCTATTTTCGAAAGTTTTTG
AATGGAAATGAATTTAAATATCCTAAATCCAATGCTTTAAACTTGCTGAAGCAAAGAAACATGAT
ATAACTTACATTGGTTTTAATTTTCCACGGTGTTAAGTGCAAGCTATAAAGGATTTTGAGCTTAA
AGTATCAAAATTTGTTTCCAAACACCTTTCGGCGTGAAAAAAGCCATTCTGCACAATTTTCAAAC
TGTGACAAGGAAACCATTCGAGCAGTTTTAATTTTTCTTGTGTTTCATGCTTATTTGCTTTGCAG
ACATTTTCAGGAGA
Done.