Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3
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: 6198200
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 200361 characters in sequence are not A, C, G, or T
File 1 of 32
Found at i:1347 original size:19 final size:19
Alignment explanation
Indices: 1300--1351 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
1290 ATATGATCTG
1300 AATTAAATTATTATTTATTT
1 AATTAAATTA-TATTTATTT
*
1320 AATAAAAATTAT-TTTATTT
1 AAT-TAAATTATATTTATTT
1339 AAATTAAATTATA
1 -AATTAAATTATA
1352 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 14 0.52
20 7 0.26
21 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTAAATTATATTTATTT
Found at i:2169 original size:20 final size:20
Alignment explanation
Indices: 2111--2169 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
2101 TGATATATTT
2111 TAATAA-TTAAATT-TTAAA
1 TAATAATTTAAATTATTAAA
* * * * *
2129 AAAAATATTTTATTTAATAAA
1 TAATA-ATTTAAATTATTAAA
2150 TAATAATTTAAATTATTAAA
1 TAATAATTTAAATTATTAAA
2170 ATTTAAATTC
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
18 3 0.11
19 1 0.04
20 17 0.61
21 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATAATTTAAATTATTAAA
Found at i:6008 original size:21 final size:21
Alignment explanation
Indices: 5937--6008 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
5927 AAATATGAGT
*
5937 ATATTTAAATA-TGGATATAA
1 ATATTTAAATATTGAATATAA
* *
5957 AT-TTTATATATATTTAA-AAAA
1 ATATTTA-A-ATATTGAATATAA
*
5978 ATTATATAAATATTGAATATAA
1 A-TATTTAAATATTGAATATAA
6000 ATATTTAAA
1 ATATTTAAA
6009 AAATAAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
19 4 0.10
20 3 0.08
21 21 0.54
22 8 0.21
23 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATTTAAATATTGAATATAA
Found at i:7315 original size:218 final size:217
Alignment explanation
Indices: 7048--7482 Score: 687
Period size: 218 Copynumber: 2.0 Consensus size: 217
7038 GCGGGGCAGG
* *
7048 ACAATTCTTTTCTTGCTCCTATCTTTATATATATTTATTTAAATTTATTTTACACTTGATTTTAA
1 ACAATTCTTTTCTTGCTCCGATCTTTATATATATTTATTCAAATTTATTTTACACTTGATTTTAA
* * * * *
7113 TAAAAAATTTAATCAATGACATTGATTTCGAAATGAAAATGAAACCTTCGACCTTAAATCGTTTA
66 TAAAAAATTTAATCAACGACATTGATCTCGAAATAAAAATGAAACCTTCGACCTTAAATCGCTCA
*
7178 ATATTAAATTTATATTTAATACTTTATATT-ATTAATTTTTATTTGATTAAATTAAATAAGTGTG
131 ATATTAAATTTATATTTAATACTTTATATTAATTAATTTGTATTTGATT--A--AAATAAGTGTG
7242 ATAAAATTTTATAAAAAATAAAAAAT
192 ATAAAATTTTATAAAAAATAAAAAAT
* * *
7268 ACAATTTTTTTCTTGCTTCGATC-TT-TATATATTTATTCAAATTTATTTTACGCTTGATTTTAA
1 ACAATTCTTTTCTTGCTCCGATCTTTATATATATTTATTCAAATTTATTTTACACTTGATTTTAA
*
7331 TAAAAAATTTAATCAACGACCTTGATCTCGAAATAAAAATGAAACCTTCGACCTTAAATCGCTCA
66 TAAAAAATTTAATCAACGACATTGATCTCGAAATAAAAATGAAACCTTCGACCTTAAATCGCTCA
7396 ATATTAAATTTATATTTAATACTTTATATTAAATTAATTTGTATTTGATTAAAATAAGTGTGATA
131 ATATTAAATTTATATTTAATACTTTATATT-AATTAATTTGTATTTGATTAAAATAAGTGTGATA
*
7461 AAATTTTATAAAAATTAAAAAA
195 AAATTTTATAAAAAATAAAAAA
7483 ATTTAATTAA
Statistics
Matches: 200, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
216 35 0.17
218 126 0.63
219 2 0.01
220 37 0.19
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (217 bp):
ACAATTCTTTTCTTGCTCCGATCTTTATATATATTTATTCAAATTTATTTTACACTTGATTTTAA
TAAAAAATTTAATCAACGACATTGATCTCGAAATAAAAATGAAACCTTCGACCTTAAATCGCTCA
ATATTAAATTTATATTTAATACTTTATATTAATTAATTTGTATTTGATTAAAATAAGTGTGATAA
AATTTTATAAAAAATAAAAAAT
Found at i:7500 original size:21 final size:20
Alignment explanation
Indices: 7460--7520 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
7450 TAAGTGTGAT
*
7460 AAAATTTTATAAAAATTAAA
1 AAAATTTAATAAAAATTAAA
*
7480 AAAATTTAATTAAAATATAAA
1 AAAATTTAATAAAAAT-TAAA
*
7501 AAATAATT-AT-AAAATTAAA
1 AAA-ATTTAATAAAAATTAAA
7520 A
1 A
7521 GAAGGATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.14
20 19 0.53
21 9 0.25
22 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTTAATAAAAATTAAA
Found at i:7857 original size:16 final size:15
Alignment explanation
Indices: 7837--7897 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
7827 TATGATAGTG
7837 ATTTATATTATTTAT
1 ATTTATATTATTTAT
* *
7852 ATTTTAAAATATTTAT
1 A-TTTATATTATTTAT
*
7868 ATTTATATTTATATTTT
1 ATTTATA-TTAT-TTAT
7885 ATTTATATTATTT
1 ATTTATATTATTT
7898 TTAAATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 8 0.21
16 20 0.53
17 10 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTATATTATTTAT
Found at i:7869 original size:6 final size:6
Alignment explanation
Indices: 7860--7893 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
7850 ATATTTTAAA
7860 ATATTT ATATTT ATATTT ATATTT -TATTT ATATT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATT
7894 ATTTTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATATTT
Found at i:7873 original size:22 final size:22
Alignment explanation
Indices: 7845--7902 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
7835 TGATTTATAT
7845 TATTTATATTTTAAAATATTTA
1 TATTTATATTTTAAAATATTTA
***
7867 TATTTATATTTATATTTTATTTA
1 TATTTATATTT-TAAAATATTTA
7890 TA-TTAT-TTTTAAA
1 TATTTATATTTTAAA
7903 TAATAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.07
21 3 0.10
22 15 0.50
23 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTATATTTTAAAATATTTA
Found at i:7900 original size:28 final size:28
Alignment explanation
Indices: 7797--7885 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 28
7787 AATAATTATA
*
7797 TTAAAATATTTATATTTATA--TAAATT
1 TTAAAATATTTATATTTATATTTATATT
* *
7823 TTAATATGATAGTGAT-TTATATTATTTATATT
1 TTAA-A--ATATTTATATT-TA-TATTTATATT
7855 TTAAAATATTTATATTTATATTTATATT
1 TTAAAATATTTATATTTATATTTATATT
7883 TTA
1 TTA
7886 TTTATATTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
26 4 0.08
27 1 0.02
28 15 0.30
29 16 0.32
30 4 0.08
31 1 0.02
32 9 0.18
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
TTAAAATATTTATATTTATATTTATATT
Found at i:21088 original size:20 final size:21
Alignment explanation
Indices: 21065--21124 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 21
21055 ACATACTTGC
21065 ATATGTTTATAATAAAATA-T-
1 ATAT-TTTATAATAAAATATTG
* * *
21085 ATATATATATAGTAAAACATTG
1 ATAT-TTTATAATAAAATATTG
21107 ATATTCTTATAATAAAAT
1 ATATT-TTATAATAAAAT
21125 GTACAGGGCT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 15 0.50
21 2 0.07
22 13 0.43
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
ATATTTTATAATAAAATATTG
Found at i:22215 original size:28 final size:27
Alignment explanation
Indices: 22171--22235 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
22161 TATAAAATAT
*
22171 ATTAAAATATTAAAAAAATATT-TTTATA
1 ATTAAAAT-TAAAAAAAATATTATTT-TA
22199 ATTAAAATTAAATAAAAATATTATTTTA
1 ATTAAAATTAAA-AAAAATATTATTTTA
22227 A-T-AAATTAA
1 ATTAAAATTAA
22236 TAATGATTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
26 7 0.21
27 4 0.12
28 20 0.59
29 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTAAAATTAAAAAAAATATTATTTTA
Found at i:23053 original size:30 final size:30
Alignment explanation
Indices: 23019--23079 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
23009 TGACACTCAA
*
23019 TTTAATTTTTATCTAAATAAATCTTTAATT
1 TTTAATTTATATCTAAATAAATCTTTAATT
23049 TTTAATTTATATCTAAATAAATCTTTAATT
1 TTTAATTTATATCTAAATAAATCTTTAATT
23079 T
1 T
23080 AAATTAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTAATTTATATCTAAATAAATCTTTAATT
Found at i:23096 original size:17 final size:17
Alignment explanation
Indices: 23062--23104 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
23052 AATTTATATC
23062 TAAATAAATCTTTAATT
1 TAAATAAATCTTTAATT
* * *
23079 TAAATTAATTTTTTATT
1 TAAATAAATCTTTAATT
23096 TAATATAAA
1 TAA-ATAAA
23105 AAGTTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAATAAATCTTTAATT
Found at i:23164 original size:28 final size:30
Alignment explanation
Indices: 23097--23180 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 30
23087 TTTTTTATTT
*
23097 AATATAAAAAGTTATTTAAATACAAATTAA
1 AATATAAAAAGTTATTTAAATACAAATAAA
* *
23127 AACATAAAAA-TTATTTAAATA-TAATAAA
1 AATATAAAAAGTTATTTAAATACAAATAAA
* *
23155 AATATAAAAATTTACTTAAATA-AAAT
1 AATATAAAAAGTTATTTAAATACAAAT
23181 TATAAAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 14 0.30
29 24 0.51
30 9 0.19
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (30 bp):
AATATAAAAAGTTATTTAAATACAAATAAA
Found at i:23392 original size:8 final size:8
Alignment explanation
Indices: 23381--23472 Score: 57
Period size: 8 Copynumber: 11.1 Consensus size: 8
23371 ATTTTAAATG
23381 TTATATAA
1 TTATATAA
23389 TTATATAA
1 TTATATAA
*
23397 -TATAAAAA
1 TTAT-ATAA
23405 TTAATATAA
1 TT-ATATAA
*
23414 ATATATAAA
1 TTATAT-AA
23423 TGTATATAA
1 T-TATATAA
23432 -TATA-AA
1 TTATATAA
23438 TTAT-TAA
1 TTATATAA
23445 TATATTAATAA
1 T-TA-T-ATAA
*
23456 TTAAATAA
1 TTATATAA
*
23464 ATATATAA
1 TTATATAA
23472 T
1 T
23473 ATTTTAAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
6 2 0.03
7 13 0.20
8 27 0.42
9 10 0.15
10 9 0.14
11 4 0.06
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (8 bp):
TTATATAA
Found at i:23420 original size:33 final size:36
Alignment explanation
Indices: 23382--23448 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
23372 TTTTAAATGT
23382 TATAT-AAT-TATATAATATAAA-AATTAATATAAA
1 TATATAAATGTATATAATATAAATAATTAATATAAA
*
23415 TATATAAATGTATATAATATAAATTATTAATATA
1 TATATAAATGTATATAATATAAATAATTAATATA
23449 TTAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 5 0.17
34 3 0.10
35 13 0.43
36 9 0.30
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (36 bp):
TATATAAATGTATATAATATAAATAATTAATATAAA
Found at i:23436 original size:15 final size:13
Alignment explanation
Indices: 23416--23474 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 13
23406 TAATATAAAT
23416 ATATAAATGTATATA
1 ATATAAAT-TAT-TA
23431 ATATAAATTATTA
1 ATATAAATTATTA
*
23444 ATATATTAATAATTA
1 ATATA--AATTATTA
23459 A-ATAAA-TATATA
1 ATATAAATTAT-TA
23471 ATAT
1 ATAT
23475 TTTAAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 2 0.05
12 5 0.13
13 9 0.24
14 6 0.16
15 16 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
ATATAAATTATTA
Found at i:23466 original size:20 final size:19
Alignment explanation
Indices: 23385--23506 Score: 67
Period size: 18 Copynumber: 7.0 Consensus size: 19
23375 TAAATGTTAT
*
23385 ATAATTATAT-AATATA-A
1 ATAATTAAATAAATATATA
23402 A-AATTAATATAAATATAT-
1 ATAATTAA-ATAAATATATA
*
23420 A-AATGTATAT-AATATA-A
1 ATAAT-TAAATAAATATATA
*
23437 ATTATT-AAT--ATAT-TA
1 ATAATTAAATAAATATATA
23452 ATAATTAAATAAATATATA
1 ATAATTAAATAAATATATA
*
23471 ATATTTTAAATATAAT-TATA
1 ATA-ATTAAATA-AATATATA
23491 ATAA--AAA-AAATATATA
1 ATAATTAAATAAATATATA
23507 TATATATATA
Statistics
Matches: 84, Mismatches: 7, Indels: 29
0.70 0.06 0.24
Matches are distributed among these distances:
15 13 0.15
16 15 0.18
17 14 0.17
18 18 0.21
19 7 0.08
20 14 0.17
21 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (19 bp):
ATAATTAAATAAATATATA
Found at i:23483 original size:36 final size:36
Alignment explanation
Indices: 23431--23529 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 36
23421 AATGTATATA
* *
23431 ATATAA-ATTATTAATAT-ATTAATAATTAAATAAAT
1 ATATAATATTATTAATATAATT-ATAATAAAAAAAAT
23466 ATATAATATT-TTAAATATAATTATAATAAAAAAAAT
1 ATATAATATTATT-AATATAATTATAATAAAAAAAAT
23502 ATATATATATATATATATATATATATTA
1 ATATA-ATAT-TAT-TA-ATATA-ATTA
23530 CTGAATCTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
35 8 0.15
36 25 0.47
37 7 0.13
38 1 0.02
39 2 0.04
40 6 0.11
41 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (36 bp):
ATATAATATTATTAATATAATTATAATAAAAAAAAT
Found at i:23505 original size:2 final size:2
Alignment explanation
Indices: 23500--23527 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23490 AATAAAAAAA
23500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23528 TACTGAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24721 original size:26 final size:25
Alignment explanation
Indices: 24675--24748 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 25
24665 ATTTAAAAAA
**
24675 TTTAATAAATAATAATGTATTAATTATTT
1 TTTAATAAA-AATAA--TATTAATTA-AG
24704 TTTAATAAAAATAATATTAATTAAG
1 TTTAATAAAAATAATATTAATTAAG
*
24729 TTTAA-AAAAATTATATTAAT
1 TTTAATAAAAATAATATTAAT
24749 AAATTAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 14 0.33
25 5 0.12
26 9 0.21
28 5 0.12
29 9 0.21
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (25 bp):
TTTAATAAAAATAATATTAATTAAG
Found at i:24755 original size:22 final size:24
Alignment explanation
Indices: 24705--24756 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
24695 TAATTATTTT
*
24705 TTAATAAAAATAATATTAATTAAGT
1 TTAA-AAAAATAATATTAATTAAGA
*
24730 TTAAAAAAATTATATTAA-TAA-A
1 TTAAAAAAATAATATTAATTAAGA
24752 TTAAA
1 TTAAA
24757 TATTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 3 0.12
24 13 0.52
25 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TTAAAAAAATAATATTAATTAAGA
Found at i:24768 original size:63 final size:60
Alignment explanation
Indices: 24651--24776 Score: 141
Period size: 63 Copynumber: 2.0 Consensus size: 60
24641 TTATTTTTTT
* *
24651 AATAAATTAATTAAATTTAAAAAATTTAATAAATAATAATGTATTAATTATTTTTTAATAAA
1 AATAAATTAATTAAATTTAAAAAAATTAATAAATAATAATATATTAA-TATTTTTTAA-AAA
* *
24713 AATAATATTAATTAAGTTTAAAAAAATTATATTAATAAATTAA-ATATT-A-ATTTTTTAAAAA
1 AATAA-ATTAATTAAATTTAAAAAAATTA-ATAAAT-AA-TAATATATTAATATTTTTTAAAAA
24774 AAT
1 AAT
24777 TTAAATAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
61 6 0.11
62 14 0.25
63 21 0.38
64 6 0.11
65 6 0.11
66 3 0.05
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (60 bp):
AATAAATTAATTAAATTTAAAAAAATTAATAAATAATAATATATTAATATTTTTTAAAAA
Found at i:24777 original size:110 final size:108
Alignment explanation
Indices: 24710--25074 Score: 250
Period size: 109 Copynumber: 3.3 Consensus size: 108
24700 ATTTTTTAAT
* *
24710 AAAAATAATA-TTAATTAAGTTTAAAAAAATTATATTAATAAATT-AAATATTAATTTTTTAAAA
1 AAAAATAATATTTAATTAAGTTT-AAAAAATTACATTAACAAATTAAAATATTAATTTTTTAAAA
**
24773 AAATTTAAATAAAAATAAAAAGGGTTATTATTTTTTTAATAAAATA
65 AAATTTAAATAAAAATAAAAAGAATTATTATTTTTTT-AT-AAATA
* * **
24819 AAAAATAATATTTAATTAAGTTTTAAAAATTACATTAACAAATTAAAATATTAA-TTATT--ATG
1 AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTTTTTAAAAA
** ** * *
24881 TTTTATAAAATAAAAA-ATTTAAG-TTTTTTATTCTAATTTTTAATAAAATAA
66 AATT-T-AAATAAAAATA-AAAAGAATTATTA-T-T--TTTTT-AT-AAAT-A
* *
24932 AAAAATAATATTTGATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAA-TTATT---A
1 AAAAATAATATTTAATTAAGTTTAAAAAA-TTACATTAACAAATTAAAATATTAATTTTTTAAAA
* * **
24993 TATTTTTTA-AAAAATAAAAAGTATTTATTATTATTATTTTTTAATAAAATA
65 AAATTTAAATAAAAATAAAAAG-A---ATTATTA-T-TTTTTT-AT-AAATA
* *
25044 AAAAATCATATTTAATTAAATTTAAAAAATT
1 AAAAATAATATTTAATTAAGTTTAAAAAATT
25075 TTGCTTTAAC
Statistics
Matches: 212, Mismatches: 27, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
107 3 0.01
108 7 0.03
109 45 0.21
110 30 0.14
111 4 0.02
112 41 0.19
113 44 0.21
114 30 0.14
115 8 0.04
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.43
Consensus pattern (108 bp):
AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTTTTTAAAAA
AATTTAAATAAAAATAAAAAGAATTATTATTTTTTTATAAATA
Found at i:24960 original size:113 final size:111
Alignment explanation
Indices: 24710--25074 Score: 385
Period size: 113 Copynumber: 3.3 Consensus size: 111
24700 ATTTTTTAAT
* * *
24710 AAAAATAATA-TTAATTAAGTTTAAAAAAATTATATTAATAAATT-AAATATTAATTTTTTAAAA
1 AAAAATAATATTTAATTAAGTTT-AAAAAATTACATTAACAAATTAAAATATTAA-TTATT---A
* * **
24773 AAATTTA-AATAAAAATAAAAAG-GGTTATTA-T--T--TTTTTAATAAAATA
61 TATTTTATAA-AAAAA-AAAAAGTATTTATTATTACTAATTTTTAATAAAATA
* *
24819 AAAAATAATATTTAATTAAGTTTTAAAAATTACATTAACAAATTAAAATATTAATTATTATGTTT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTATATTT
24884 TATAAAATAAAAAATTTAAGT-TTT-TTATT-CTAATTTTTAATAAAATAA
66 TATAAAA-AAAAAA---AAGTATTTATTATTACTAATTTTTAATAAAAT-A
*
24932 AAAAATAATATTTGATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATT
1 AAAAATAATATTTAATTAAGTTTAAAAAA-TTACATTAACAAATTAAAATATTAATTATTATATT
* * * *
24997 TTTTAAAAAATAAAAAGTATTTATTATTATTATTTTTTAATAAAATA
65 TTATAAAAAAAAAAAAGTATTTATTATTACTAATTTTTAATAAAATA
* *
25044 AAAAATCATATTTAATTAAATTTAAAAAATT
1 AAAAATAATATTTAATTAAGTTTAAAAAATT
25075 TTGCTTTAAC
Statistics
Matches: 221, Mismatches: 18, Indels: 32
0.82 0.07 0.12
Matches are distributed among these distances:
106 10 0.05
107 5 0.02
108 3 0.01
109 38 0.17
110 26 0.12
111 5 0.02
112 45 0.20
113 48 0.22
114 41 0.19
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.43
Consensus pattern (111 bp):
AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTATATTT
TATAAAAAAAAAAAAGTATTTATTATTACTAATTTTTAATAAAATA
Found at i:24985 original size:114 final size:112
Alignment explanation
Indices: 24710--25075 Score: 389
Period size: 112 Copynumber: 3.3 Consensus size: 112
24700 ATTTTTTAAT
* * * *
24710 AAAAATAATA-TTAATTAAGTTTAAAAAAATTATATTAATAAATT-AAATATTAATTTTTTAAAA
1 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAA-TTATT---A
* * **
24773 AAATTTA-AATAAAAATAAAAAG-GGTTATTA-T--T--TTTTTAATAAAATA
62 TATTTTATAA-AAAAA-AAAAAGTATTTATTATTACTAATTTTTAATAAAATA
* *
24819 AAAAATAATATTTAATTAAGTTTTAAAAA-TTACATTAACAAATTAAAATATTAATTATTATGTT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATT
24883 TTATAAAATAAAAAATTTAAGT-TTT-TTATT-CTAATTTTTAATAAAATAA
66 TTATAAAA-AAAAAA---AAGTATTTATTATTACTAATTTTTAATAAAAT-A
*
24932 AAAAATAATATTTGATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATT
* * * *
24997 TTTTAAAAAATAAAAAGTATTTATTATTATTATTTTTTAATAAAATA
66 TTATAAAAAAAAAAAAGTATTTATTATTACTAATTTTTAATAAAATA
* *
25044 AAAAATCATATTTAATTAAATTTAAAAAATTT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTT
25076 TGCTTTAACA
Statistics
Matches: 222, Mismatches: 18, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
106 10 0.05
107 5 0.02
108 3 0.01
109 33 0.15
110 31 0.14
111 3 0.01
112 48 0.22
113 48 0.22
114 41 0.18
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.43
Consensus pattern (112 bp):
AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATT
TTATAAAAAAAAAAAAGTATTTATTATTACTAATTTTTAATAAAATA
Found at i:25025 original size:33 final size:33
Alignment explanation
Indices: 24967--25047 Score: 110
Period size: 32 Copynumber: 2.4 Consensus size: 33
24957 AAAATTTACA
* *
24967 TTAACAAATTAAAATATTAATTATTA-TATTTT
1 TTAAAAAATAAAAATATTAATTATTATTATTTT
*
24999 TTAAAAAATAAAAAGTATTTATTATTATTATTTT
1 TTAAAAAATAAAAA-TATTAATTATTATTATTTT
25033 TTAATAAAATAAAAA
1 TTAA-AAAATAAAAA
25048 ATCATATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.28
33 11 0.26
34 10 0.23
35 10 0.23
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (33 bp):
TTAAAAAATAAAAATATTAATTATTATTATTTT
Found at i:25068 original size:112 final size:112
Alignment explanation
Indices: 24797--25075 Score: 395
Period size: 113 Copynumber: 2.5 Consensus size: 112
24787 ATAAAAAGGG
*
24797 TTATTATTTTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTTAAAAA-TTACATTAACAAA
1 TTATTA-TTTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAA
*
24861 TTAAAATATTAATTATTATGTTTTATAAAATAAAAAATTTAAGTTTTTTA
65 TTAAAATATTAATTATTATATTTTATAAAATAAAAAA--TAAGTTTTTTA
* * *
24911 TT-CTAATTTTTAATAAAATAAAAAAATAATATTTGATTAAGTTTAAAAAATTTACATTAACAAA
1 TTATTATTTTTTAATAAAAT-AAAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAA
* *
24975 TTAAAATATTAATTATTATATTTTTTAAAA-AATAAA-AAGTATTTATTA
65 TTAAAATATTAATTATTATATTTTATAAAATAAAAAATAAGT-TTT-TTA
* *
25023 TTATTATTTTTTAATAAAATAAAAAATCATATTTAATTAAATTTAAAAAATTT
1 TTATTATTTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTAAAAAATTT
25076 TGCTTTAACA
Statistics
Matches: 148, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
110 4 0.03
111 3 0.02
112 48 0.32
113 50 0.34
114 43 0.29
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (112 bp):
TTATTATTTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAAT
TAAAATATTAATTATTATATTTTATAAAATAAAAAATAAGTTTTTTA
Found at i:29873 original size:69 final size:68
Alignment explanation
Indices: 29763--29896 Score: 207
Period size: 69 Copynumber: 2.0 Consensus size: 68
29753 ACTCAATCAA
*
29763 TTTTTTTAATAAAAAAGAATTCGATTTCAGATATAATTCATGCATTAATCTAATCCTTACAGTCT
1 TTTTTTTAATAAAAAAGAATCCGATTTCAGATATAATTCATGCATTAATCTAATCCTTACAGTCT
29828 TTC
66 TTC
* * *
29831 TTTTTTCT-ATAAAAAGGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTATAGT
1 TTTTTT-TAATAAAAAAGAATCCGATT-TCAGATATAATTCATGCATTAATCTAATCCTTACAGT
29895 CT
64 CT
29897 GACATTACAA
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.37
69 38 0.63
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.42
Consensus pattern (68 bp):
TTTTTTTAATAAAAAAGAATCCGATTTCAGATATAATTCATGCATTAATCTAATCCTTACAGTCT
TTC
Found at i:29980 original size:153 final size:153
Alignment explanation
Indices: 29678--29970 Score: 446
Period size: 153 Copynumber: 1.9 Consensus size: 153
29668 TTTCTTTTTT
* * * *
29678 TTTTTTCTATAAAAAAGAATCTGATTCTCTGATAGAATTCATGCATTAGTCTAATCCTTGCAATT
1 TTTTTTCTATAAAAAAGAATCCGATTCTCAGATAGAATTCATGCATTAGTCTAATCCTTACAATC
* *
29743 TAACATTTACACTCAATCAATTTTTTTAATAAAAAAGAATTCGATTTCAGATATAATTCATGCAT
66 TAACATTTACAATCAATCAATTTTTTTAATAAAAAAGAATTCGATTTCAAATATAATTCATGCAT
29808 TAATCTAATCCTTACAGTCTTTC
131 TAATCTAATCCTTACAGTCTTTC
* * * *
29831 TTTTTTCTATAAAAAGGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTATAGTC
1 TTTTTTCTATAAAAAAGAATCCGATTCTCAGATAGAATTCATGCATTAGTCTAATCCTTACAATC
* *
29896 TGACA-TTACAATCAATCAATTTTTTCT-ATAAAAAAGAATTCGATTCTTAAATATAATTCATGC
66 TAACATTTACAATCAATCAATTTTTT-TAATAAAAAAGAATTCGATT-TCAAATATAATTCATGC
29959 ATTAATCTAATC
129 ATTAATCTAATC
29971 TTTGTAGTCT
Statistics
Matches: 126, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
152 37 0.29
153 89 0.71
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (153 bp):
TTTTTTCTATAAAAAAGAATCCGATTCTCAGATAGAATTCATGCATTAGTCTAATCCTTACAATC
TAACATTTACAATCAATCAATTTTTTTAATAAAAAAGAATTCGATTTCAAATATAATTCATGCAT
TAATCTAATCCTTACAGTCTTTC
Found at i:30046 original size:85 final size:85
Alignment explanation
Indices: 29831--30149 Score: 347
Period size: 85 Copynumber: 3.7 Consensus size: 85
29821 ACAGTCTTTC
* * * * *
29831 TTTTTTCTATAAAAAGGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTATAGTC
1 TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAATCTAATCATTGTAGTC
* *
29896 TGACA-TTACAATCAATCAA
66 TGACATTTATACTCAATCAA
* * *
29915 TTTTTTCTATAAAAAAGAAT-TCGATTCTTAAATATAATTCATGCATTAATCTAATCTTTGTAGT
1 TTTTTTCTATAAAAAAGAATCT-GATTCTCAGATATAATTCATGCATTAATCTAATCATTGTAGT
*
29979 CTGACATTTATACTTAATCAA
65 CTGACATTTATACTCAATCAA
* * * *
30000 TTTTTTTTATAAAAAAGAATCTGATTATCTA-ATATAATTCATGCATTAGTCTAATCATTGTAAT
1 TTTTTTCTATAAAAAAGAATCTGATTCTC-AGATATAATTCATGCATTAATCTAATCATTGTAGT
* *
30064 ATAACATTTATACTCAATCAA
65 CTGACATTTATACTCAATCAA
* *
30085 CTTTTCTTTTTTTTTCTATAAAAAAGAATCTGATTTTCAGGTATAATTCATGCATTAATCTAATC
1 ---------TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAATCTAATC
30150 CTTATAATAT
Statistics
Matches: 198, Mismatches: 23, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
84 62 0.31
85 83 0.42
86 2 0.01
93 1 0.01
94 50 0.25
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (85 bp):
TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAATCTAATCATTGTAGTC
TGACATTTATACTCAATCAA
Found at i:31368 original size:35 final size:36
Alignment explanation
Indices: 31329--31405 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
31319 TATATAAAAA
* *
31329 TAAAAAATATTTTATATTAAATCTC-AAATATTTTT
1 TAAAAAATATTTTATATTAAATCACGAAATATTATT
*
31364 TAAAAAATATTTTATATTAAATCACGAATTATTATT
1 TAAAAAATATTTTATATTAAATCACGAAATATTATT
31400 TAAAAA
1 TAAAAA
31406 TTTATAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 24 0.63
36 14 0.37
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (36 bp):
TAAAAAATATTTTATATTAAATCACGAAATATTATT
Found at i:31692 original size:50 final size:50
Alignment explanation
Indices: 31617--31900 Score: 240
Period size: 50 Copynumber: 5.5 Consensus size: 50
31607 AATTATATAT
* * *
31617 TAAAAGTACTCTTT-AAAATAATAAAAGATTAAAATATTTTATATTAAATT
1 TAAAATTA-TCTTTAAAAATAATAAAAAATTAAAATATTTTATATTAAATC
* *
31667 TTAAATTATCTTTAAAAATAAT-AAAAATAAAAAATATTTTATATTAAATC
1 TAAAATTATCTTTAAAAATAATAAAAAAT-TAAAATATTTTATATTAAATC
* * *
31717 TTAAATTATTATTTAAAAATAATAAAAAAAATTACAAAATATTTTGTATTAAATC
1 TAAAATTA-TCTTTAAAAATAAT--AAAAAATT--AAAATATTTTATATTAAATC
** * *
31772 TTGAACAATTAT-TTT-AAAA-AATAAAAGTTTAAGA-ATTTTATTTTAAATC
1 -T-AA-AATTATCTTTAAAAATAATAAAAAATTAAAATATTTTATATTAAATC
* *
31821 TAAAATTATTATTTAAAAATAATAACAAAATAAAAAATAATTTTATATTAAATCC
1 TAAAATTA-TCTTTAAAAATAATAA-AAAAT-TAAAAT-ATTTTATATTAAAT-C
31876 TAAAATTA-CAATTTAAAAATAATAA
1 TAAAATTATC--TTTAAAAATAATAA
31901 TTTTTTAATA
Statistics
Matches: 192, Mismatches: 20, Indels: 39
0.76 0.08 0.16
Matches are distributed among these distances:
46 5 0.03
47 3 0.02
48 4 0.02
49 27 0.14
50 49 0.26
51 16 0.08
52 9 0.05
54 22 0.11
55 46 0.24
56 4 0.02
57 2 0.01
58 5 0.03
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (50 bp):
TAAAATTATCTTTAAAAATAATAAAAAATTAAAATATTTTATATTAAATC
Found at i:31769 original size:55 final size:53
Alignment explanation
Indices: 31631--31900 Score: 261
Period size: 55 Copynumber: 5.2 Consensus size: 53
31621 AGTACTCTTT
* * * *
31631 AAAATAAT-AAAAGAT-TAAAATATTTTATATTAAATTTTAAATTA-TCTTTA
1 AAAATAATAAAAAAATAAAAAATATTTTATATTAAATCTTAAATTATTATTTA
31681 AAAATAAT--AAAAATAAAAAATATTTTATATTAAATCTTAAATTATTATTTA
1 AAAATAATAAAAAAATAAAAAATATTTTATATTAAATCTTAAATTATTATTTA
* * * ** *
31732 AAAATAATAAAAAAAATTACAAAATATTTTGTATTAAATCTTGAACAATTATTTT
1 AAAATAAT-AAAAAAA-TAAAAAATATTTTATATTAAATCTTAAATTATTATTTA
* ** * * *
31787 AAAA-AAT--AAAAGTTTAAGA-ATTTTATTTTAAATCTAAAATTATTATTTA
1 AAAATAATAAAAAAATAAAAAATATTTTATATTAAATCTTAAATTATTATTTA
* * **
31836 AAAATAATAACAAAATAAAAAATAATTTTATATTAAATCCTAAAATTACAATTTA
1 AAAATAATAAAAAAATAAAAAAT-ATTTTATATTAAAT-CTTAAATTATTATTTA
31891 AAAATAATAA
1 AAAATAATAA
31901 TTTTTTAATA
Statistics
Matches: 179, Mismatches: 29, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
49 32 0.18
50 42 0.23
51 17 0.09
52 7 0.04
54 21 0.12
55 60 0.34
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (53 bp):
AAAATAATAAAAAAATAAAAAATATTTTATATTAAATCTTAAATTATTATTTA
Found at i:32018 original size:18 final size:18
Alignment explanation
Indices: 31967--32019 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
31957 AATGTTATTT
31967 TTTA-TAAAAATTA-AT-
1 TTTATTAAAAATTATATA
*
31982 TTAATT-AAAATCATATATA
1 TTTATTAAAAAT--TATATA
32001 TTTATTAAAAATTATATA
1 TTTATTAAAAATTATATA
32019 T
1 T
32020 ACATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
15 8 0.27
16 1 0.03
17 2 0.07
18 9 0.30
19 5 0.17
20 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATTAAAAATTATATA
Found at i:32026 original size:20 final size:20
Alignment explanation
Indices: 31988--32027 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31978 TAATTTAATT
**
31988 AAAATCATATATATTTATTA
1 AAAATCATATATACATATTA
*
32008 AAAATTATATATACATATTA
1 AAAATCATATATACATATTA
32028 TTATCATCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATCATATATACATATTA
Found at i:32476 original size:40 final size:37
Alignment explanation
Indices: 32425--32502 Score: 93
Period size: 40 Copynumber: 2.0 Consensus size: 37
32415 ATTATAATTT
* * * *
32425 TTTTAAAAATTTAATATTATTTTAAATTATAAAATAAA
1 TTTTAAAAATTTAACATAAATTTAAA-TAAAAAATAAA
32463 TTTTAAATTAATTTAACATAAATTTAAATAAAAAATAAA
1 TTTTAAA--AATTTAACATAAATTTAAATAAAAAATAAA
32502 T
1 T
32503 AAATTCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 7 0.21
39 11 0.32
40 16 0.47
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (37 bp):
TTTTAAAAATTTAACATAAATTTAAATAAAAAATAAA
Found at i:32486 original size:22 final size:22
Alignment explanation
Indices: 32449--32491 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32439 TATTATTTTA
32449 AATTATAAAATAAATTTTAAATT
1 AATTATAAAATAAA-TTTAAATT
*
32472 AATT-TAACATAAATTTAAAT
1 AATTATAAAATAAATTTAAAT
32492 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTATAAAATAAATTTAAATT
Found at i:32493 original size:10 final size:10
Alignment explanation
Indices: 32456--32494 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
32446 TTAAATTATA
32456 AAATAAATTTT
1 AAATAAA-TTT
*
32467 AAATTAATTT
1 AAATAAATTT
32477 AACATAAATTT
1 AA-ATAAATTT
32488 AAATAAA
1 AAATAAA
32495 AAATAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATAAATTT
Found at i:33307 original size:24 final size:24
Alignment explanation
Indices: 33279--33337 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
33269 TTAAATACCG
* *
33279 TTTATTTTATATTTATTACTTAAT
1 TTTATTTTATATTTATTAATTAAA
*
33303 TTTATTTTTATATTTTTTAATTAAA
1 TTTA-TTTTATATTTATTAATTAAA
*
33328 TTAATTTTAT
1 TTTATTTTAT
33338 TTAAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTATTTTATATTTATTAATTAAA
Found at i:33313 original size:30 final size:30
Alignment explanation
Indices: 33298--33355 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 30
33288 TATTTATTAC
33298 TTAATTTTATTTTTATATTTTTTAATTAAA
1 TTAATTTTATTTTTATATTTTTTAATTAAA
*
33328 TTAATTTTA--TTTA-AATTTTTAATTAAA
1 TTAATTTTATTTTTATATTTTTTAATTAAA
33355 T
1 T
33356 ATTATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 14 0.52
28 4 0.15
30 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TTAATTTTATTTTTATATTTTTTAATTAAA
Found at i:33335 original size:15 final size:13
Alignment explanation
Indices: 33314--33355 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
33304 TTATTTTTAT
33314 ATTTTTTAATTAA
1 ATTTTTTAATTAA
*
33327 ATTAATTTTATTTAA
1 ATT--TTTTAATTAA
33342 A-TTTTTAATTAA
1 ATTTTTTAATTAA
33354 AT
1 AT
33356 ATTATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 10 0.42
13 3 0.12
14 1 0.04
15 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTTAATTAA
Found at i:37363 original size:29 final size:30
Alignment explanation
Indices: 37317--37373 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
37307 AATTAATACA
*
37317 AAATTAAAATATATTTTTATGATTAAATTT
1 AAATAAAAATATATTTTTATGATTAAATTT
*
37347 AAATAAAAATATA-TTTTATTATTAAAT
1 AAATAAAAATATATTTTTATGATTAAAT
37374 ATAATTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
AAATAAAAATATATTTTTATGATTAAATTT
Found at i:42904 original size:20 final size:19
Alignment explanation
Indices: 42872--42946 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
42862 AAAAAGACAT
*
42872 AATGTATCAATACATTATA
1 AATGTATCGATACATTATA
*
42891 GAATATATCGATACATTCATA
1 -AATGTATCGATACATT-ATA
* * *
42912 CATGTATCGATATATTAAAA
1 AATGTATCGATACATT-ATA
42932 AATGTATCGATACAT
1 AATGTATCGATACAT
42947 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 42 0.93
21 3 0.07
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACATTATA
Found at i:42917 original size:40 final size:39
Alignment explanation
Indices: 42869--42946 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
42859 GGTAAAAAGA
* *
42869 CATAATGTATCAATACATTATAGAATATATCGATACATT
1 CATAATGTATCAATACATTAAAAAATATATCGATACATT
* * *
42908 CATACATGTATCGATATATTAAAAAATGTATCGATACAT
1 CATA-ATGTATCAATACATTAAAAAATATATCGATACAT
42947 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.35
Consensus pattern (39 bp):
CATAATGTATCAATACATTAAAAAATATATCGATACATT
Found at i:43364 original size:1 final size:1
Alignment explanation
Indices: 43360--43384 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
43350 GAGTTTTTTT
43360 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
43385 TTAGCCGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:43913 original size:2 final size:2
Alignment explanation
Indices: 43908--43948 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
43898 CTACAGATTC
43908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43949 CACACACTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51916 original size:19 final size:20
Alignment explanation
Indices: 51892--51946 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
51882 TCAAGTTCGG
51892 ATATATATTA-ATTA-ATTTT
1 ATATAT-TTATATTATATTTT
51911 ATATATTTATATTATATTTGT
1 ATATATTTATATTATATTT-T
*
51932 AT-TTTTTATA-TATAT
1 ATATATTTATATTATAT
51947 AATTAACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.09
19 15 0.47
20 11 0.34
21 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
ATATATTTATATTATATTTT
Found at i:54236 original size:21 final size:22
Alignment explanation
Indices: 54202--54242 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
54192 AAAAATAGTT
*
54202 AAATTCAAGATAATTTAAATAA
1 AAATTCAAGATAATTGAAATAA
*
54224 AAATTTAA-ATAATTGAAAT
1 AAATTCAAGATAATTGAAAT
54243 CTAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (22 bp):
AAATTCAAGATAATTGAAATAA
Found at i:55315 original size:28 final size:26
Alignment explanation
Indices: 55283--55343 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
55273 CGATTAATGT
*
55283 ATATATATATATATATTAAAAATATAAA
1 ATATATA-AAATATATTAAAAA-ATAAA
*
55311 ATATATAAAATATTTTAAAAAAT-AA
1 ATATATAAAATATATTAAAAAATAAA
55336 ATA-ATAAA
1 ATATATAAA
55344 TTTGAAAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 5 0.16
25 5 0.16
26 2 0.06
27 12 0.39
28 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
ATATATAAAATATATTAAAAAATAAA
Found at i:55330 original size:26 final size:26
Alignment explanation
Indices: 55283--55343 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
55273 CGATTAATGT
* *
55283 ATATATATATATATATTAAAAATATAAA
1 ATATATA-AAATATATTAAAAAAAT-AA
*
55311 ATATATAAAATAT-TTTAAAAAATAA
1 ATATATAAAATATATTAAAAAAATAA
55336 ATA-ATAAA
1 ATATATAAA
55344 TTTGAAAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 5 0.17
25 5 0.17
26 8 0.27
27 5 0.17
28 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
ATATATAAAATATATTAAAAAAATAA
Found at i:56880 original size:2 final size:2
Alignment explanation
Indices: 56873--56902 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
56863 AACTCTTCTT
*
56873 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56903 ATTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64050 original size:3 final size:3
Alignment explanation
Indices: 64044--64073 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
64034 GTTGTTGTTG
64044 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64074 ATGTTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:66064 original size:28 final size:28
Alignment explanation
Indices: 66033--66090 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
66023 TGTTTTTTTT
*
66033 ATTTTGCTGTGGTTTATATGTCAGGTTG
1 ATTTTGCTGTGGTTTATATCTCAGGTTG
66061 ATTTTGCTGTGGTTTATATCTCAGGTTG
1 ATTTTGCTGTGGTTTATATCTCAGGTTG
66089 AT
1 AT
66091 ACTGCTGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.16, C:0.09, G:0.26, T:0.50
Consensus pattern (28 bp):
ATTTTGCTGTGGTTTATATCTCAGGTTG
Found at i:66096 original size:28 final size:28
Alignment explanation
Indices: 66037--66097 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
66027 TTTTTTATTT
* **
66037 TGCTGTGGTTTATATGTCAGGTTGATTT
1 TGCTGTGGTTTATATCTCAGGTTGATAC
66065 TGCTGTGGTTTATATCTCAGGTTGATAC
1 TGCTGTGGTTTATATCTCAGGTTGATAC
66093 TGCTG
1 TGCTG
66098 GTTGGTTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.15, C:0.11, G:0.28, T:0.46
Consensus pattern (28 bp):
TGCTGTGGTTTATATCTCAGGTTGATAC
Found at i:67647 original size:14 final size:14
Alignment explanation
Indices: 67628--67657 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
67618 TGATGTGCTT
67628 TTTATCCATGTTAC
1 TTTATCCATGTTAC
*
67642 TTTATCTATGTTAC
1 TTTATCCATGTTAC
67656 TT
1 TT
67658 GGACTCAGAT
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:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTATCCATGTTAC
Found at i:69063 original size:16 final size:16
Alignment explanation
Indices: 69038--69087 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
69028 TTATGTTCGG
*
69038 TAGAATGAAAGAAAAA
1 TAGAAAGAAAGAAAAA
69054 TAGAAAGAAAGAAAAAA
1 TAGAAAGAAAG-AAAAA
* *
69071 TAGGAA-AAAGGAAAA
1 TAGAAAGAAAGAAAAA
69086 TA
1 TA
69088 AAAAATAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.20
16 14 0.47
17 10 0.33
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (16 bp):
TAGAAAGAAAGAAAAA
Found at i:69446 original size:15 final size:16
Alignment explanation
Indices: 69426--69456 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
69416 AAATAGACGA
69426 TAAAATTAATT-TTAT
1 TAAAATTAATTATTAT
69441 TAAAATTAATTATTAT
1 TAAAATTAATTATTAT
69457 AATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAAATTAATTATTAT
Found at i:69801 original size:18 final size:17
Alignment explanation
Indices: 69727--69801 Score: 53
Period size: 17 Copynumber: 4.3 Consensus size: 17
69717 AAAATTTGCG
*
69727 AATATTAATAAAAAATA
1 AATATCAATAAAAAATA
* **
69744 CATAAAAATAAAAAA-A
1 AATATCAATAAAAAATA
* *
69760 AATCAACAATATAAAACTA
1 AAT-ATCAATA-AAAAATA
*
69779 TATATCAATAAAAAATTA
1 AATATCAATAAAAAA-TA
69797 AATAT
1 AATAT
69802 TTATAAAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
16 3 0.07
17 22 0.50
18 16 0.36
19 3 0.07
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (17 bp):
AATATCAATAAAAAATA
Found at i:76522 original size:24 final size:25
Alignment explanation
Indices: 76461--76527 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 25
76451 TTTTCATATT
76461 AATTATATAAATATAA-ATATA--AA
1 AATTAT-TAAATATAATATATATTAA
76484 AATTATT--ATAT-ATATATATTAA
1 AATTATTAAATATAATATATATTAA
76506 AATT-TTAAATATAATATATATT
1 AATTATTAAATATAATATATATT
76528 TTAAATATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.03
20 9 0.24
21 2 0.05
22 7 0.18
23 10 0.26
24 9 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTATTAAATATAATATATATTAA
Found at i:76568 original size:19 final size:18
Alignment explanation
Indices: 76534--76573 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
76524 TATTTTAAAT
76534 ATTATATTAATCATATTA
1 ATTATATTAATCATATTA
76552 ATTATATTTAAAT-ATATTA
1 ATTATA-TT-AATCATATTA
76571 ATT
1 ATT
76574 TTATGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 11 0.55
20 3 0.15
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATATTAATCATATTA
Found at i:77390 original size:16 final size:16
Alignment explanation
Indices: 77356--77402 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
77346 AATAATTTTA
77356 TTAATTATTTA-TTATAT
1 TTAA-TATTTATTTA-AT
77373 TTAATATTTATTTAAT
1 TTAATATTTATTTAAT
*
77389 TTAA-AATTATTTAA
1 TTAATATTTATTTAA
77403 AAAAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 9 0.32
16 12 0.43
17 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTAATATTTATTTAAT
Found at i:77448 original size:13 final size:13
Alignment explanation
Indices: 77432--77456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77422 AATTCATTTA
77432 ATTAATTAAATCG
1 ATTAATTAAATCG
77445 ATTAATTAAATC
1 ATTAATTAAATC
77457 AAAATACTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
ATTAATTAAATCG
Found at i:78938 original size:2 final size:2
Alignment explanation
Indices: 78913--78959 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
78903 GTTAATCTAA
*
78913 AT AT AT A- AT AT AC AT A- AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78952 AT AT AT AT
1 AT AT AT AT
78960 TTCCGTGATC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:79435 original size:23 final size:23
Alignment explanation
Indices: 79409--79454 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
79399 TAAATTTTTT
*
79409 AAAATTAATAAAAA-ATATAGTTA
1 AAAATT-ATAAAAATAGATAGTTA
*
79432 AAAATTTTAAAAATAGATAGTTA
1 AAAATTATAAAAATAGATAGTTA
79455 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (23 bp):
AAAATTATAAAAATAGATAGTTA
Found at i:79652 original size:8 final size:8
Alignment explanation
Indices: 79622--79652 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
79612 ATGAGCGAGC
79622 AATTTTTA
1 AATTTTTA
*
79630 AAATTTTA
1 AATTTTTA
79638 AATTTTTA
1 AATTTTTA
79646 AATTTTT
1 AATTTTT
79653 TTTAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
AATTTTTA
Found at i:79652 original size:16 final size:16
Alignment explanation
Indices: 79622--79651 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
79612 ATGAGCGAGC
79622 AATTTTTAAAATTTTA
1 AATTTTTAAAATTTTA
79638 AATTTTT-AAATTTT
1 AATTTTTAAAATTTT
79652 TTTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTTTAAAATTTTA
Found at i:82080 original size:15 final size:15
Alignment explanation
Indices: 82031--82080 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
82021 AATATCAAAT
82031 ATAATA-AATTTTTA
1 ATAATATAATTTTTA
82045 A-AATATATATTTAATTAA
1 ATAATATA-ATTT--TT-A
82063 ATAATATAATTTTTA
1 ATAATATAATTTTTA
82078 ATA
1 ATA
82081 TGAATTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
13 4 0.13
14 2 0.07
15 8 0.27
16 2 0.07
17 2 0.07
18 6 0.20
19 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAATATAATTTTTA
Found at i:84872 original size:19 final size:19
Alignment explanation
Indices: 84836--84871 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
84826 AATTCAACTT
84836 AAAAAAATAATTATAAAAC
1 AAAAAAATAATTATAAAAC
*
84855 AAAAACATAATT-TAAAA
1 AAAAAAATAATTATAAAA
84872 AATAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAAATAATTATAAAAC
Found at i:85360 original size:13 final size:12
Alignment explanation
Indices: 85326--85392 Score: 55
Period size: 13 Copynumber: 5.3 Consensus size: 12
85316 ATTAAATTTT
85326 TATATATTTAAAA
1 TATATATTT-AAA
*
85339 AATTATATTTAATA
1 TA-TATATTTAA-A
*
85353 TCTATATTTAAA
1 TATATATTTAAA
*
85365 TATATA-TTAGA
1 TATATATTTAAA
*
85376 TATAAATATTAAA
1 TATATAT-TTAAA
85389 TATA
1 TATA
85393 AATATTTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 9 0.21
12 6 0.14
13 20 0.47
14 8 0.19
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (12 bp):
TATATATTTAAA
Found at i:85378 original size:25 final size:22
Alignment explanation
Indices: 85342--85392 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
85332 TTTAAAAAAT
**
85342 TATATTTAATATCTATATTTAAA
1 TATATTTAATATAAATA-TTAAA
85365 TATATATTAGATATAAATATTAAA
1 TATAT-TTA-ATATAAATATTAAA
85389 TATA
1 TATA
85393 AATATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 12 0.50
25 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TATATTTAATATAAATATTAAA
Found at i:85393 original size:13 final size:13
Alignment explanation
Indices: 85360--85398 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
85350 ATATCTATAT
85360 TTAAATAT--ATA
1 TTAAATATAAATA
*
85371 TTAGATATAAATA
1 TTAAATATAAATA
85384 TTAAATATAAATA
1 TTAAATATAAATA
85397 TT
1 TT
85399 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 7 0.29
13 17 0.71
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:86250 original size:15 final size:16
Alignment explanation
Indices: 86230--86271 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
86220 CAAGCTCGAG
86230 TTAAATTATTTTAAA-
1 TTAAATTATTTTAAAT
86245 TTAAATTA-TTTAAAT
1 TTAAATTATTTTAAAT
*
86260 TTAATTTATTTT
1 TTAAATTATTTT
86272 TGAGTTCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 15 0.62
16 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTAAATTATTTTAAAT
Found at i:87840 original size:19 final size:18
Alignment explanation
Indices: 87805--87841 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
87795 AATACTAATG
*
87805 AAATAAAAAATTTATTAA
1 AAATAAAAAATTAATTAA
87823 AAATAAAAAATTAAATTAA
1 AAATAAAAAATT-AATTAA
87842 TTATTCAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAAAAAATTAATTAA
Found at i:89582 original size:13 final size:13
Alignment explanation
Indices: 89564--89588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89554 ACCAAATAAA
89564 TTTATTTTTTATT
1 TTTATTTTTTATT
89577 TTTATTTTTTAT
1 TTTATTTTTTAT
89589 AATAACTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:93249 original size:2 final size:2
Alignment explanation
Indices: 93242--93266 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93232 TGTGATAGAA
93242 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
93267 AAATGGATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94273 original size:23 final size:22
Alignment explanation
Indices: 94222--94286 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
94212 ATCCGAATTC
* *
94222 ATTTAA-ATAATAATTTATTTAA
1 ATTTAATATAA-AATATATATAA
94244 ATTTAATTATAAAA-ATATATAA
1 ATTTAA-TATAAAATATATATAA
94266 ATATTAATATAAAATATATAT
1 AT-TTAATATAAAATATATAT
94287 GTTTTAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 21 0.57
23 12 0.32
24 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTAATATAAAATATATATAA
Found at i:94293 original size:21 final size:22
Alignment explanation
Indices: 94241--94296 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
94231 ATAATTTATT
94241 TAAA-TTTAATTATAAAAATATA
1 TAAATTTTAA-TATAAAAATATA
*
94263 TAAATATTAATAT-AAAATATA
1 TAAATTTTAATATAAAAATATA
**
94284 TATGTTTTAATAT
1 TAAATTTTAATAT
94297 TTTAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 18 0.62
22 7 0.24
23 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAATTTTAATATAAAAATATA
Found at i:94844 original size:27 final size:27
Alignment explanation
Indices: 94788--94844 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
94778 ATATTTAAGT
* * *
94788 ATTTTATTTAAATTTATACTGAGTTGA
1 ATTTTATTTAAATTTATAATAAGTTAA
*
94815 ATTTATATTTAAATTT-TAATAATTTAA
1 ATTT-TATTTAAATTTATAATAAGTTAA
94842 ATT
1 ATT
94845 GAGTTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (27 bp):
ATTTTATTTAAATTTATAATAAGTTAA
Found at i:100051 original size:16 final size:16
Alignment explanation
Indices: 100030--100082 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
100020 TCTCATGCAC
100030 ATTTAATTTAACATAT-
1 ATTTAATTTAA-ATATA
*
100046 ATTTAAATTAGAATATA
1 ATTTAATTTA-AATATA
*
100063 ATTTAATTTAAAAATA
1 ATTTAATTTAAATATA
100079 ATTT
1 ATTT
100083 TAAGATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 22 0.69
17 10 0.31
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
ATTTAATTTAAATATA
Found at i:101364 original size:19 final size:19
Alignment explanation
Indices: 101324--101364 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
101314 ATTAGTTTAT
*
101324 TTTAATATATTATTTTAAA
1 TTTAATATATTATTTAAAA
101343 TTTAATATATT-TTTAAATA
1 TTTAATATATTATTTAAA-A
101362 TTT
1 TTT
101365 TTTACACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATATATTATTTAAAA
Found at i:101509 original size:16 final size:16
Alignment explanation
Indices: 101473--101511 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
101463 CAAATAGAAA
101473 TTTTAAAATTATAAAT
1 TTTTAAAATTATAAAT
*
101489 ATTTAAAATT-TAAAAT
1 TTTTAAAATTAT-AAAT
101505 TTTTAAA
1 TTTTAAA
101512 CATCAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAAAATTATAAAT
Found at i:101894 original size:14 final size:14
Alignment explanation
Indices: 101875--101906 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
101865 ATATACAACT
101875 ATAATACAATTATG
1 ATAATACAATTATG
101889 ATAATACAATTATG
1 ATAATACAATTATG
101903 ATAA
1 ATAA
101907 GAAGAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (14 bp):
ATAATACAATTATG
Found at i:102641 original size:123 final size:125
Alignment explanation
Indices: 102497--102737 Score: 319
Period size: 123 Copynumber: 1.9 Consensus size: 125
102487 TAAGATAAAG
* * *
102497 TAATTTTATATAAAATTTTAATTTTTTTATTTATTA-TCAATTAAATCTATTTA-A-AAA-TATT
1 TAATTTCATATAAAATTTTAATTTTTTTATTTATTATTAAATT-AATCTATCTAGAGAAAGTATT
* **
102558 TTAATAAAATTAAACTTTTTACTTATAAATTAGATAGCTCTTATTAATAATAAAATAAAATT
65 TTAATAAAATTAAACTTTTTACTTAT-AATTAAATAAATCTTATTAATAATAAAATAAAATT
* * *
102620 TAATTTCATATAAACTTTTAATTTTTTTGTTTATTATTAAATTAATCTATCTAGAGAAAGTGTTT
1 TAATTTCATATAAAATTTTAATTTTTTTATTTATTATTAAATTAATCTATCTAGAGAAAGTATTT
* * * *
102685 TAATGAAATTAAATTTTTTATTTATAATTAAATAAATCTTTTTAATAATAAAA
66 TAATAAAATTAAACTTTTTACTTATAATTAAATAAATCTTATTAATAATAAAA
102738 ATTTTATAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
123 42 0.42
124 6 0.06
125 27 0.27
126 26 0.26
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (125 bp):
TAATTTCATATAAAATTTTAATTTTTTTATTTATTATTAAATTAATCTATCTAGAGAAAGTATTT
TAATAAAATTAAACTTTTTACTTATAATTAAATAAATCTTATTAATAATAAAATAAAATT
Found at i:102735 original size:24 final size:24
Alignment explanation
Indices: 102685--102735 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
102675 GAAAGTGTTT
* *
102685 TAATGAAATTAAATTTTTTATTTA
1 TAATGAAATTAAATTTTTTAATAA
*
102709 TAATTAAA-TAAATCTTTTTAATAA
1 TAATGAAATTAAAT-TTTTTAATAA
102733 TAA
1 TAA
102736 AAATTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
TAATGAAATTAAATTTTTTAATAA
Found at i:103276 original size:13 final size:13
Alignment explanation
Indices: 103258--103282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103248 TTTCAATAGA
103258 TTATAAATATAAT
1 TTATAAATATAAT
103271 TTATAAATATAA
1 TTATAAATATAA
103283 AACAACTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTATAAATATAAT
Found at i:103965 original size:20 final size:22
Alignment explanation
Indices: 103940--103997 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
103930 TTGAAATATA
103940 TTATA-TAATATTATAA-T-TTT
1 TTATATTAATATT-TAAGTATTT
103960 TTATATTAATATTTAAGTATTT
1 TTATATTAATATTTAAGTATTT
103982 TTATAATTAA-ATTTAA
1 TTAT-ATTAATATTTAA
103998 ATAAATATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.24
21 8 0.24
22 13 0.38
23 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATATTAATATTTAAGTATTT
Found at i:105491 original size:23 final size:24
Alignment explanation
Indices: 105446--105490 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
105436 ATTTTGTATT
105446 TTATAAAAAATATAAACTTAAAAG
1 TTATAAAAAATATAAACTTAAAAG
*
105470 TTAT-AAAAGTATAAA-TTAAAA
1 TTATAAAAAATATAAACTTAAAA
105491 ATAATTCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 10 0.50
24 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (24 bp):
TTATAAAAAATATAAACTTAAAAG
Found at i:105638 original size:24 final size:23
Alignment explanation
Indices: 105611--105674 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 23
105601 TAAAGATATG
105611 ATATAAATATAATATATTTAATAA
1 ATATAAA-ATAATATATTTAATAA
105635 ATATTAAAATAATA-A---AATAA
1 ATA-TAAAATAATATATTTAATAA
*
105655 ATATAACATAATATATTTAA
1 ATATAAAATAATATATTTAA
105675 AATAAATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
19 9 0.26
20 9 0.26
23 3 0.09
24 9 0.26
25 4 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATAAAATAATATATTTAATAA
Found at i:115684 original size:107 final size:107
Alignment explanation
Indices: 115490--115692 Score: 241
Period size: 107 Copynumber: 1.9 Consensus size: 107
115480 CAAATCAAAG
* * * * *
115490 TCTTTTGAACCAAAAGAAAAAGCACTCTATGAACATCTTGTAAAGTATTTGCATAGTAAATTCTA
1 TCTTTTGAACCAAAAGAAAAAGCACACTATAAACATCTTCTAAAGAATTTGCACAGTAAATTCTA
* * *
115555 CATCTAAATTAAGAGCTGTCTATGAA-GACAACCTATGTTAC
66 CATCTAAATTAACAACTATCTATGAATGACAACCTATGTTAC
* * *
115596 TCTTTCTGAACCAAAAG-AAAAGCACACTATAAACATCTTACTAAGGAATTTTTC-CAGTAGATT
1 TCTTT-TGAACCAAAAGAAAAAGCACACTATAAACATCTT-CTAAAGAA-TTTGCACAGTAAATT
* *
115659 CTGCATCTATATTAACAACTATCTATGAATGACA
63 CTACATCTAAATTAACAACTATCTATGAATGACA
115693 TACTATTTTA
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
106 25 0.31
107 47 0.59
108 8 0.10
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (107 bp):
TCTTTTGAACCAAAAGAAAAAGCACACTATAAACATCTTCTAAAGAATTTGCACAGTAAATTCTA
CATCTAAATTAACAACTATCTATGAATGACAACCTATGTTAC
Found at i:115994 original size:2 final size:2
Alignment explanation
Indices: 115987--116021 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
115977 TATTAAGTTA
115987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116022 AAGCCTTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117025 original size:2 final size:2
Alignment explanation
Indices: 117020--117052 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
117010 TTTTTTTCCC
117020 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
117053 CCCCGCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:120869 original size:7 final size:7
Alignment explanation
Indices: 120825--120866 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
120815 TTATATTATA
120825 TGGCACT
1 TGGCACT
120832 TGGCACT
1 TGGCACT
120839 TGGCACT
1 TGGCACT
120846 TGGCACT
1 TGGCACT
*
120853 TGGACACG
1 TGG-CACT
120861 TGGCAC
1 TGGCAC
120867 GTGCAGGTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.24
Consensus pattern (7 bp):
TGGCACT
Found at i:125526 original size:18 final size:19
Alignment explanation
Indices: 125503--125541 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
125493 AAAATTAAAT
125503 TAATTTTATACACT-TTTA
1 TAATTTTATACACTATTTA
*
125521 TAATTTTATATACTATTTA
1 TAATTTTATACACTATTTA
125540 TA
1 TA
125542 TTTGTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATTTTATACACTATTTA
Found at i:128486 original size:17 final size:17
Alignment explanation
Indices: 128466--128505 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
128456 ATCGATTCAA
128466 AAAAAAAATAAATAAAT
1 AAAAAAAATAAATAAAT
128483 AAAAAAAATAAATAAAT
1 AAAAAAAATAAATAAAT
128500 AAAAAA
1 AAAAAA
128506 CCTGCAAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAAAATAAATAAAT
Found at i:128491 original size:13 final size:13
Alignment explanation
Indices: 128469--128504 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 13
128459 GATTCAAAAA
128469 AAAAATAAATAAAT
1 AAAAA-AAATAAAT
128483 AAAAAAAATAAAT
1 AAAAAAAATAAAT
128496 AAATAAAAA
1 AAA-AAAAA
128505 ACCTGCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAAAATAAAT
Found at i:128556 original size:26 final size:26
Alignment explanation
Indices: 128524--128592 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
128514 CGTGAAAACT
* *
128524 TACAGCATGGGAAAGGAAATAGAAAA
1 TACAGCATGGGAAAGCAAATAAAAAA
*
128550 TGCAGCATGGGAAAGCAAATAAAAAA
1 TACAGCATGGGAAAGCAAATAAAAAA
128576 TACAGCATGGGAAAGCA
1 TACAGCATGGGAAAGCA
128593 TAAAAATTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.51, C:0.12, G:0.26, T:0.12
Consensus pattern (26 bp):
TACAGCATGGGAAAGCAAATAAAAAA
Found at i:128642 original size:50 final size:50
Alignment explanation
Indices: 128580--128682 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
128570 AAAAAATACA
128580 GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATACAGAGGCAT
1 GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATACAGAGGCAT
*
128630 GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCAT
1 GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATACAGAGGCAT
128680 GCA
1 GCA
128683 AGAGAATGGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.16
Consensus pattern (50 bp):
GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATACAGAGGCAT
Found at i:128988 original size:18 final size:18
Alignment explanation
Indices: 128963--129147 Score: 97
Period size: 18 Copynumber: 9.8 Consensus size: 18
128953 AACACGCAAA
128963 AGCAGCTCCAGCAGCAGC
1 AGCAGCTCCAGCAGCAGC
* * * *
128981 ACCAGCTCTAGCGGCGGC
1 AGCAGCTCCAGCAGCAGC
* * * *
128999 AACAGTTCTAGCACGCAAC
1 AGCAGCTCCAGCA-GCAGC
*
129018 AGCAGCTCCAACAGCAGC
1 AGCAGCTCCAGCAGCAGC
* *
129036 AGCAACTCCAGCAAC-GAC
1 AGCAGCTCCAGCAGCAG-C
*
129054 TGCAGCTCCAGCACGCAACAGC
1 AGCAGCTCCAGCA-G---CAGC
129076 AGCAGCAACTCCAGCAGC-GAC
1 AGCAG---CTCCAGCAGCAG-C
* * *
129097 TGTAGCTCCAGCACGCAAC
1 AGCAGCTCCAGCA-GCAGC
129116 AGCAGCTCCAGCGAG-AGC
1 AGCAGCTCCAGC-AGCAGC
*
129134 AGCAACTCCAGCAG
1 AGCAGCTCCAGCAG
129148 GTAGCAATTT
Statistics
Matches: 125, Mismatches: 28, Indels: 29
0.69 0.15 0.16
Matches are distributed among these distances:
17 3 0.02
18 73 0.58
19 26 0.21
20 2 0.02
21 5 0.04
22 6 0.05
23 1 0.01
24 1 0.01
25 8 0.06
ACGTcount: A:0.30, C:0.37, G:0.24, T:0.09
Consensus pattern (18 bp):
AGCAGCTCCAGCAGCAGC
Found at i:129067 original size:55 final size:55
Alignment explanation
Indices: 128949--129147 Score: 163
Period size: 55 Copynumber: 3.8 Consensus size: 55
128939 TAGCCAACGA
* * * * * * * * **
128949 CTCCAACACGCAAAAGCAGCTCCAGCAGCAGCACCAGCTCTAGCGGCGGCAACAG
1 CTCCAGCACGCAACAGCAGCTCCAACAGCAGCAGCAACTCCAGCAGCGACTGCAG
* * *
129004 TTCTAGCACGCAACAGCAGCTCCAACAGCAGCAGCAACTCCAGCAACGACTGCAG
1 CTCCAGCACGCAACAGCAGCTCCAACAGCAGCAGCAACTCCAGCAGCGACTGCAG
*
129059 CT-C--CA-G---CA-C-G---CAACAGCAGCAGCAACTCCAGCAGCGACTGTAG
1 CTCCAGCACGCAACAGCAGCTCCAACAGCAGCAGCAACTCCAGCAGCGACTGCAG
*
129102 CTCCAGCACGCAACAGCAGCTCCAGCGAG-AGCAGCAACTCCAGCAG
1 CTCCAGCACGCAACAGCAGCTCCAAC-AGCAGCAGCAACTCCAGCAG
129148 GTAGCAATTT
Statistics
Matches: 113, Mismatches: 18, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
43 33 0.29
44 1 0.01
46 3 0.03
47 2 0.02
48 2 0.02
50 2 0.02
51 2 0.02
52 3 0.03
55 63 0.56
56 2 0.02
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.09
Consensus pattern (55 bp):
CTCCAGCACGCAACAGCAGCTCCAACAGCAGCAGCAACTCCAGCAGCGACTGCAG
Found at i:129074 original size:43 final size:43
Alignment explanation
Indices: 129026--129121 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
129016 ACAGCAGCTC
129026 CAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCCAGCACG
1 CAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCCAGCACG
* *
129069 CAACAGCAGCAGCAACTCCAGCAGCGACTGTAGCTCCAGCACG
1 CAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCCAGCACG
129112 CAACAGCAGC
1 CAACAGCAGC
129122 TCCAGCGAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.32, C:0.39, G:0.22, T:0.07
Consensus pattern (43 bp):
CAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCCAGCACG
Found at i:129135 original size:43 final size:43
Alignment explanation
Indices: 129026--129145 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 43
129016 ACAGCAGCTC
* ** *
129026 CAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCCAGCACG
1 CAACAGCAGCACCAACGACAGCAGCGACTGCAGCTCCAGCACG
* ** *
129069 CAACAGCAGCAGCAACTCCAGCAGCGACTGTAGCTCCAGCACG
1 CAACAGCAGCACCAACGACAGCAGCGACTGCAGCTCCAGCACG
* * * * *
129112 CAACAGCAGCTCCAGCGAGAGCAGCAACTCCAGC
1 CAACAGCAGCACCAACGACAGCAGCGACTGCAGC
129146 AGGTAGCAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.32, C:0.38, G:0.23, T:0.07
Consensus pattern (43 bp):
CAACAGCAGCACCAACGACAGCAGCGACTGCAGCTCCAGCACG
Found at i:130321 original size:79 final size:79
Alignment explanation
Indices: 130125--130749 Score: 955
Period size: 79 Copynumber: 7.9 Consensus size: 79
130115 TTTCCTTTAA
* * *
130125 CCGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTC
1 CCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTC
*
130190 CAACCCTGTTATTT
66 CAACCCCGTTATTT
* *
130204 TCG-GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 CCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTC
*
130268 CAACCCCATTATTT
66 CAACCCCGTTATTT
* *
130282 CCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 CCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTC
* *
130347 CAACCCCATTATTC
66 CAACCCCGTTATTT
* *
130361 CCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 CCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTC
* *
130426 CAACCCCATTATTC
66 CAACCCCGTTATTT
* *
130440 CCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 CCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTC
*
130505 CAACCCTGTTATTT
66 CAACCCCGTTATTT
* * *
130519 TCGAGGGGATACTCCAACCCCGGTTTTATCTCTAAGACATTAATTTTTCACAATCGGGGATACTC
1 CCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTC
130584 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* * ** *
130598 CCGAGGGAATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTC
1 CCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTC
*
130663 CAACCTCGTTATTT
66 CAACCCCGTTATTT
* * * *
130677 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTC
1 CCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTC
*
130742 TAACCCCG
66 CAACCCCG
130750 ATTTTATTTT
Statistics
Matches: 510, Mismatches: 35, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
78 71 0.14
79 439 0.86
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
CCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTT
Found at i:130747 original size:51 final size:51
Alignment explanation
Indices: 130682--130827 Score: 145
Period size: 52 Copynumber: 2.8 Consensus size: 51
130672 TATTTTCGAG
*
130682 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTT-CATAATC-
1 GGGATACTCTAACCCCGGTTTTATTTCTAAAACA-CAATTTTTCCATAATCA
* * * **
130732 GAGGATACTCTAACCCCGATTTTATTTTTTAGAACACCGTTTTTCCATAATCA
1 G-GGATACTCTAACCCCGGTTTTA-TTTCTAAAACACAATTTTTCCATAATCA
* * *
130785 GGGATACTCTAGCCCC-GTTGTTATCTCTAAAATACTAATTTTT
1 GGGATACTCTAACCCCGGTT-TTATTTCTAAAACAC-AATTTTT
130828 TCTCGTCAAG
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
50 1 0.01
51 36 0.47
52 38 0.50
53 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (51 bp):
GGGATACTCTAACCCCGGTTTTATTTCTAAAACACAATTTTTCCATAATCA
Found at i:137026 original size:55 final size:55
Alignment explanation
Indices: 136905--137035 Score: 176
Period size: 55 Copynumber: 2.4 Consensus size: 55
136895 CCTCTTTTAG
* *
136905 ACCTT-CAGTCCTCAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTCCAGTCCTCAAAGAGCAAGACTCCTTTCAAAACCCACACAAGTTGGTGGC
* * * * *
136959 ACCTTTCGGTCCTCAAAAAGCAAGACTCCTTTTAAAACCCACACATGTTGGTGGC
1 ACCTTCCAGTCCTCAAAGAGCAAGACTCCTTTCAAAACCCACACAAGTTGGTGGC
137014 A-CTTCCTAGTCCTCAAAGAGCA
1 ACCTTCC-AGTCCTCAAAGAGCA
137036 GGACGCTCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
54 9 0.14
55 57 0.86
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (55 bp):
ACCTTCCAGTCCTCAAAGAGCAAGACTCCTTTCAAAACCCACACAAGTTGGTGGC
Found at i:137145 original size:55 final size:55
Alignment explanation
Indices: 137059--137250 Score: 289
Period size: 55 Copynumber: 3.4 Consensus size: 55
137049 TTTCACCCTT
*
137059 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCC
137114 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCC
*
137169 -AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACTTCC
137229 TAGTCCTCAAAGAGCAGGACGC
1 TAGTCCTCAAAGAGCAGGACGC
137251 TCTCTCCTTT
Statistics
Matches: 125, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
54 21 0.17
55 53 0.42
56 4 0.03
59 3 0.02
60 24 0.19
61 20 0.16
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (55 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCC
Found at i:137266 original size:209 final size:203
Alignment explanation
Indices: 136911--138514 Score: 1644
Period size: 209 Copynumber: 7.6 Consensus size: 203
136901 TTAGACCTTC
* *
136911 AGTCCTCAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCGGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAA
* * * *
136976 AAGCAAGACTCCTTTTAAAACCCACACATGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
65 GAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
137041 CTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTG
130 CTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTG
137106 GCACTTCCT
195 GCACTTCCT
137115 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
137180 AGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
66 AGCAGG--A-C---TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
*
137245 GGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCAC
125 GGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCAC
*
137310 ACAAGTTGGTGGCACCTTTC-
184 ACAAGTTGGTGGCA-CTTCCT
* * * *
137330 AGTCCTCAAAGAGCAGGACTCATTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTTAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAA
* * *
137394 AGAGCAGGA-TACTCTCTT----CTCTCAC----------C-CTT-C-AGTCCTCAAAGAGCAGG
64 AGAGCAGGACT-C-CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGG
** * *
137441 ACGC-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCAGTCCTCAA-AGAGCAGGACG
127 ACGCTC-TCCCCTTTC--A---C-C-C---TT--T---A-GTCC--T-C-AAAGA--GCAGGACG
*
137504 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-
169 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCT
* *
137538 AGTCCTCAAAGAGCAGGACACCTTTTCCATTTCAAAGCCCACACAAGTTGGTGGCACCTTTCGGT
1 AGTCCTCAAAGAGCAGG--A-C---GCC-TTTCAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
*
137603 CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACATGTTGGTGGCACTTCCTAGTCCTCAAAGAG
58 CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAG
*
137668 CAGGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCTCACACAA
123 CAGGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAA
137733 GTTGGTGGCACTTCCT
188 GTTGGTGGCACTTCCT
*
137749 AGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
*
137814 AGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGC
66 AGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG-
* * *
137879 CTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTT
130 C--TC----TCC-C-C---TT--T--CACCCTTTAGTCCTCAAAGAGCAGGA---C---GCCTTT
137943 TAAAGCCCACACAAGTTGGTGGCACTTCCT
174 TAAAGCCCACACAAGTTGGTGGCACTTCCT
* *
137973 AGTCCTCAAAGAGCAGGACG-C--TC----TCC-C-C---TT--T--CACCCTTTAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAA
* *
138022 GAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACG
65 GAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
* *
138087 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAG
130 -C-TCT-----CC-C-C---TT--T--CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAG
138151 CCCACACAAGTTGGTGGCACTTCCT
179 CCCACACAAGTTGGTGGCACTTCCT
138176 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
138241 AGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
66 AGCAGGA---C---TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
138306 GGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGT
125 GGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGT
138371 TGGTGGCACTTCCT
190 TGGTGGCACTTCCT
* *
138385 AGTCCTCAAAGAGCAGAACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAA
* *
138449 AGAGCAGGA-TGCCTTTCAAAGCCCACACAAGTCGGTGGCACCTT-C-AGTCCTCAAAGAGCAGG
64 AGAGCAGGACT-CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGG
138511 ACGC
127 ACGC
138515 CTTTTCCTTT
Statistics
Matches: 1216, Mismatches: 58, Indels: 253
0.80 0.04 0.17
Matches are distributed among these distances:
193 1 0.00
194 29 0.02
195 1 0.00
196 4 0.00
197 1 0.00
199 1 0.00
200 1 0.00
201 1 0.00
203 169 0.14
204 111 0.09
205 6 0.00
206 7 0.01
207 5 0.00
208 28 0.02
209 358 0.29
210 65 0.05
211 25 0.02
212 9 0.01
213 3 0.00
214 12 0.01
215 136 0.11
216 26 0.02
217 8 0.01
218 49 0.04
219 5 0.00
221 6 0.00
222 2 0.00
223 2 0.00
224 108 0.09
225 1 0.00
226 1 0.00
228 1 0.00
229 4 0.00
230 1 0.00
231 28 0.02
232 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (203 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
AGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGC
TCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
CACTTCCT
Found at i:137342 original size:100 final size:100
Alignment explanation
Indices: 137164--137348 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 100
137154 GTTGGTGGCA
*
137164 CCTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CCTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
137229 TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
66 TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
* * *
137264 CCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
137329 C-AGTCCTCAAAGAGCAGGAC
65 CTAGTCCTCAAAGAGCAGGAC
137349 TCATTTTAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 76 0.95
101 4 0.05
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (100 bp):
CCTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
Found at i:137363 original size:55 final size:55
Alignment explanation
Indices: 137297--137402 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 55
137287 CGCCTTCTCC
*
137297 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACTCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACTCA
*
137352 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTTAAAGAGCAGGA
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
137403 TACTCTCTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
54 4 0.08
55 44 0.92
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (55 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACTCA
Found at i:137396 original size:155 final size:152
Alignment explanation
Indices: 137114--137558 Score: 650
Period size: 155 Copynumber: 2.9 Consensus size: 152
137104 TGGCACTTCC
137114 TAGTCCTCAAAGAGCAGGACGCCTTT-C---AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 TAGTCCTCAAAGAGCAGGACGCCTTTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
137175 CAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
66 CAAAGAGCAGG--A-C---TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
* *
137240 GAGCAGGACGCTCTCTCCTTTCACCCTT
125 GAGCAGGACACTCTCTCCTCTCACCCTT
137268 TAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 TAGTCCTCAAAGAGCAGGACGCCTT-TCC-TTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* *
137333 CCTCAAAGAGCAGGACTCATTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTTAAAGAG
63 CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAG
* *
137398 CAGGATACTCTCTTCTCTCACCCTT
128 CAGGACACTCTCTCCTCTCACCCTT
* *
137423 CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCAGTC
1 TAGTCCTCAAAGAGCAGGACGCC-TTTCCTTT-AAAGCCCACACAAGTTGGTGGCACCTTCAGTC
* *
137488 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAG
64 CTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAG
137551 CAGGACAC
128 CAGGACAC
137559 CTTTTCCATT
Statistics
Matches: 268, Mismatches: 13, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
153 19 0.07
154 77 0.29
155 122 0.46
156 3 0.01
158 1 0.00
159 1 0.00
160 25 0.09
161 20 0.07
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (152 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
CAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAG
GACACTCTCTCCTCTCACCCTT
Found at i:137439 original size:94 final size:95
Alignment explanation
Indices: 137322--137501 Score: 256
Period size: 100 Copynumber: 1.9 Consensus size: 95
137312 AAGTTGGTGG
* * *
137322 CACCTTTCAGTCCTCAAAGAGCAGGA-C-TCATTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 CACCCTTCAGTCCTCAAAGAGCAGGACCTTCATTTCAAAGCCCACACAAGTTGGTGGCACCTCC-
*
137385 AGTCCTTAAAGAGCAGGATACTCTCTTCTCT
65 AGTCCTCAAAGAGCAGGATACTCTCTTCTCT
*
137416 CACCCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 CACCCTTCAGTCCTCAAAGAGCAGGA--CC--TTCATTTCAAAGCCCACACAAGTTGGTGGCACC
137481 TCCAGTCCTCAAAGAGCAGGA
62 TCCAGTCCTCAAAGAGCAGGA
137502 CGCCTTTCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
94 25 0.33
97 1 0.01
99 17 0.23
100 32 0.43
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (95 bp):
CACCCTTCAGTCCTCAAAGAGCAGGACCTTCATTTCAAAGCCCACACAAGTTGGTGGCACCTCCA
GTCCTCAAAGAGCAGGATACTCTCTTCTCT
Found at i:137532 original size:54 final size:54
Alignment explanation
Indices: 137423--137675 Score: 299
Period size: 54 Copynumber: 4.4 Consensus size: 54
137413 TCTCACCCTT
137423 CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTC
1 CAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCACCTC
*
137483 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTC
* *
137537 CAGTCCTCAAAGAGCAGGACACCTTTTCCATTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 CAGTCCTCAAAGAGCAGG--A-C---GCC-TTTCAAAGCCCACACAAGTTGGTGGCACC-TC
* * * * *
137599 CGGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACATGTTGGTGGCACTTC
1 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTC
137653 CTAGTCCTCAAAGAGCAGGACGC
1 C-AGTCCTCAAAGAGCAGGACGC
137676 TCTCCCCTTT
Statistics
Matches: 175, Mismatches: 9, Indels: 23
0.85 0.04 0.11
Matches are distributed among these distances:
54 52 0.30
55 45 0.26
56 4 0.02
57 1 0.01
59 1 0.01
60 24 0.14
61 29 0.17
62 19 0.11
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.21
Consensus pattern (54 bp):
CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTC
Found at i:137634 original size:116 final size:114
Alignment explanation
Indices: 137419--137673 Score: 413
Period size: 116 Copynumber: 2.2 Consensus size: 114
137409 CTTCTCTCAC
*
137419 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCC
1 CCTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCC
137484 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
66 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
137533 CCTTCAGTCCTCAAAGAGCAGGACACCTTTTCCATTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTCAGTCCTCAAAGAGCAGGACACCTTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACC-T
* * * * *
137598 TCGGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACATGTTGGTGGCA
64 CCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
137649 -CTTCCTAGTCCTCAAAGAGCAGGAC
1 CCTT-C-AGTCCTCAAAGAGCAGGAC
137674 GCTCTCCCCT
Statistics
Matches: 131, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
114 32 0.24
115 32 0.24
116 48 0.37
117 19 0.15
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.22
Consensus pattern (114 bp):
CCTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCC
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:137660 original size:55 final size:55
Alignment explanation
Indices: 137449--137673 Score: 312
Period size: 54 Copynumber: 4.0 Consensus size: 55
137439 GGACGCCTTT
137449 TCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TCCAGTCCTCAAAGAGCAGGAC
1 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAC
*
137503 GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACACC
1 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGG--A-C
* *
137560 TTTTCCATTTCAAAGCCCACACAAGTTGGTGGCACCTTTCGGTCCTCAAAGAGCAGGAC
1 ---TCC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAC
* *
137619 TCCTTTTAAAGCCCACACATGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGAC
1 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGAC
137674 GCTCTCCCCT
Statistics
Matches: 154, Mismatches: 7, Indels: 19
0.86 0.04 0.11
Matches are distributed among these distances:
54 53 0.34
55 44 0.29
56 4 0.03
57 1 0.01
59 1 0.01
60 3 0.02
61 31 0.20
62 17 0.11
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (55 bp):
TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAC
Found at i:137833 original size:54 final size:55
Alignment explanation
Indices: 137693--137993 Score: 457
Period size: 55 Copynumber: 5.4 Consensus size: 55
137683 TTTCACCCTT
*
137693 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCTCACACAAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
* *
137748 TAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
137803 -AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
*
137857 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
*
137912 -AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
137972 TAGTCCTCAAAGAGCAGGACGC
1 TAGTCCTCAAAGAGCAGGACGC
137994 TCTCCCCTTT
Statistics
Matches: 225, Mismatches: 9, Indels: 24
0.87 0.03 0.09
Matches are distributed among these distances:
53 3 0.01
54 66 0.29
55 98 0.44
56 6 0.03
57 1 0.00
58 1 0.00
59 3 0.01
60 29 0.13
61 18 0.08
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (55 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
Found at i:137885 original size:109 final size:109
Alignment explanation
Indices: 137689--137993 Score: 520
Period size: 109 Copynumber: 2.7 Consensus size: 109
137679 CCCCTTTCAC
* *
137689 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCTCACACAAGTTGGTGGCACTTCCTAGTCC
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
*
137754 TCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
66 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
137798 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
137863 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
66 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
137907 CCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CCTTCAGTCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
137972 TAGTCCTCAAAGAGCAGGACGC
60 TAGTCCTCAAAGAGCAGGACGC
137994 TCTCCCCTTT
Statistics
Matches: 186, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
109 129 0.69
112 1 0.01
115 56 0.30
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (109 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:138028 original size:318 final size:317
Alignment explanation
Indices: 137450--139282 Score: 2011
Period size: 318 Copynumber: 5.7 Consensus size: 317
137440 GACGCCTTTT
* *
137450 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
*
137515 CCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTCCATTTCAAAGCCCAC
66 CCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGG--A-C---GCC-TTTCAAAGCCCAC
* *
137580 ACAAGTTGGTGGCACCTTTCGGTCCTCAAAGAGCAGGA---C---TCCTTTTAAAGCCCACACAT
124 ACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAA
137639 GTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAA
188 GTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAA
* *
137704 GAGCAGGACGCCTTTTAAAGCTCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAGGACG
253 GAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
137769 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
137834 CCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAG
66 CCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAG
137898 TTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGT
129 TTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGT
137963 GGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAG
194 GGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAG
*
138028 GACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACG
259 GACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
*
138087 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
138152 CCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAG
66 CCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAG
138216 TTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGT
129 TTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGT
138281 GGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAG
194 GGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAG
*
138346 GACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGAACG
259 GACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
* * *
138405 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGATGCCTTTCAAA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGACGCCTTTTAAA
*
138469 GCCCACACAAGTCGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCA
64 GCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCA
* *
138534 CACAAGTTAGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGATGCTCTCCCCTTTCACCCTTT--AG
123 CACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGATGC-CT----TTT--CCTTTTAAAG
* * * ** * * ** * ** **
138596 TCCTCA-AAG-AGCAGG-AC-GCCT--T--TTAAAGCCCA-CACAAG-T-T--GGTGGCA--CTT
179 CCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAC--GCTCTCCCCTTTCACCCTT
* *
138646 CCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCTT
242 --TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCT
138709 CAAAGAGCAGGACG
304 CAAAGAGCAGGACG
*
138723 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACG-C---T---
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGACGCCTTTTAAA
* * * *
138780 -CTCTC-C---TT--T--CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAA
64 GCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAA
*
138836 GTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTT
128 GTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTT
* **
138894 GGTGGCACCTT-C-AGTCCTCAAAGAGCAGGACGCCTTTCAAAACCCACACGAGTTGGTGGCATT
191 GGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACG-C--TC----TCC-C-C---TT--T--CACC
* *
138957 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTT-
239 CTT-TAGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
*
139021 -TAGTCTTCAAAGAGCAGGACGCTTTTG
296 CTAGTCCTCAAAGAGCAGGA--C----G
*
139048 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCAC--CTTCAGTCCTCAAAGAGCAGGACGCC-----TT
* *
139113 TTCAAAGCCCACACGAGTTGGTGGCACCTTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCC
59 TT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCC
* * * * *
139178 ACACAAGTTGGTGGCACTTTTTCAATCCTCAAATAACAGGACGCCTTTT-CTTTTCAAAGCCCAC
122 ACACAAGTTGGTGGCAC--CTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCAC
* * *
139242 ACGAGTTGGTGGCACCTTTC-AGTTCTCAAAGAGCAGGACGC
184 ACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGC
139283 CTTCCAAAGC
Statistics
Matches: 1326, Mismatches: 73, Indels: 194
0.83 0.05 0.12
Matches are distributed among these distances:
286 6 0.00
287 3 0.00
288 4 0.00
289 1 0.00
290 2 0.00
291 4 0.00
292 1 0.00
293 7 0.01
294 2 0.00
296 2 0.00
297 48 0.04
302 5 0.00
303 26 0.02
304 1 0.00
306 1 0.00
308 1 0.00
309 1 0.00
310 3 0.00
312 22 0.02
313 51 0.04
314 4 0.00
315 1 0.00
317 8 0.01
318 589 0.44
319 234 0.18
320 24 0.02
321 4 0.00
322 8 0.01
323 4 0.00
324 24 0.02
325 50 0.04
326 25 0.02
327 4 0.00
328 5 0.00
329 3 0.00
330 9 0.01
332 5 0.00
335 1 0.00
340 3 0.00
341 1 0.00
344 2 0.00
346 1 0.00
347 2 0.00
348 51 0.04
349 19 0.01
350 5 0.00
351 2 0.00
355 27 0.02
356 20 0.02
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.23
Consensus pattern (317 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
CCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTT
GGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
CACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCCCCTTTCACCCTTTAGTCCTCAAAGAGCAGGA
CGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
Found at i:138115 original size:264 final size:256
Alignment explanation
Indices: 137484--139043 Score: 1462
Period size: 264 Copynumber: 6.0 Consensus size: 256
137474 TGGCACCTCC
137484 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTT-AGTCCTCAAA
* * *
137548 GAGCAGGACACCTTTTCCATTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-GGTCCTCAAAGA
65 GAGCAGGACGCC---T---TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGA
* * *
137612 GCAGGACTCCTTTTAAAGCCCACACATGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCT
122 GCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGACGC-
** ** * * * ** * * *** ** *
137677 CTCCCCTTTCACCCTTTAGTCCTCA-AAG-AGCAGGACGCCTTTTAAAGCTCACACA-AGTTGGT
185 CTTTCCTTT-----TAAAGCCCACACAAGTTGGTGG-CACCTTCTAGTCCTCA-A-AGAGCAGGA
* *
137739 GGCAC--TT-CC--T
242 CGCTCTTTTCCCTTT
*
137749 AGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTT-AGTCCTCAAA
137813 GAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
65 GAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
*
137878 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTT
130 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGACGCC-TTTCCTT
137942 TTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCTCTCCCCTTTCA
193 TTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCTCT----TTT--
138006 CCCTTT
251 CCCTTT
* *
138012 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC-CCTTAGTCCTCAAA
138077 GAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGAC
65 GAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGAC
*
138140 GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTT-C--
129 GCCTTTCAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGACGCCTTTCCTT
* *
138202 --AAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGATGC-CTTTTCCTTTT
193 TTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTTTTCCCTTT
* * * ** * ** * ** **
138262 AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAC--GCTCTCCCCTTTCAC
1 --AGTCCTCA-AAG-AGCAGG-AC-GCCT--T--TCAAAGCCCA-CACAAG-T-T--GGTGGCAC
138325 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
51 CC-TTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
* *
138390 TCAAAGAGCAGAACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
115 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGCA
* *
138455 GGATGCCTTT-C----AAAGCCCACACAAGTCGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACG
179 GGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
*
138514 C-CTTTTCCTTTT
244 CTCTTTTCCCTTT
* * * * ** ** * ** **
138526 AAAGCCCACACAAGTTAG-TGGCACTTCCTAGTCCTCAAAGAGCA-GGATGCTCTCCCCTTTCAC
1 --AGTCCTCA-AAG--AGCAGG-AC-GCCT--T--TCAAAGCCCACACAAG-T-T--GGTGGCAC
138589 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
51 CC-TTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
*
138654 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCTTCAAAGAGCA
115 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCA
138718 GGACG-----CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGAC
179 GGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGAC
138777 GCTCTCTCCTTTCACCCTTT
243 G--CTCT--TTT--CCCTTT
*
138797 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC-TAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC--CCTTAGTCCTCAA
*
138861 AGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGA
64 AGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGA
* * *
138924 CGCCTTTCAAAACCCACACGAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
128 CGCCTTTCAAAGCCCACACAAGTTGGTGGCA--CTTCTAGTCCTCAAAGAGCAGGACGCC-TTTC
* *
138989 CTTTTAAAGCCCACACAAGCTGGTGGCACCTT-TAGTCTTCAAAGAGCAGGACGCT
190 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCT
139044 TTTGCCTTTC
Statistics
Matches: 1137, Mismatches: 84, Indels: 151
0.83 0.06 0.11
Matches are distributed among these distances:
250 5 0.00
251 1 0.00
252 27 0.02
253 13 0.01
254 6 0.01
255 2 0.00
256 6 0.01
257 97 0.09
258 153 0.13
259 33 0.03
260 11 0.01
261 13 0.01
262 16 0.01
263 198 0.17
264 411 0.36
265 116 0.10
266 8 0.01
267 4 0.00
268 3 0.00
269 9 0.01
271 5 0.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (256 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTAGTCCTCAAAG
AGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGC
CTTTCAAAGCCCACACAAGTTGGTGGCACTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTA
AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTTTTCCCTTT
Found at i:138149 original size:54 final size:54
Alignment explanation
Indices: 138011--138311 Score: 471
Period size: 55 Copynumber: 5.4 Consensus size: 54
138001 TTTCACCCTT
138011 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
138065 TTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 -TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
138121 -AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-C
*
138175 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
*
138230 -AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-C
138290 TAGTCCTCAAAGAGCAGGACGC
1 TAGTCCTCAAAGAGCAGGACGC
138312 TCTCCCCTTT
Statistics
Matches: 230, Mismatches: 4, Indels: 24
0.89 0.02 0.09
Matches are distributed among these distances:
53 3 0.01
54 68 0.30
55 100 0.43
56 7 0.03
57 1 0.00
58 1 0.00
59 3 0.01
60 29 0.13
61 18 0.08
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (54 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
Found at i:138206 original size:109 final size:109
Alignment explanation
Indices: 138007--138311 Score: 520
Period size: 109 Copynumber: 2.7 Consensus size: 109
137997 CCCCTTTCAC
* *
138007 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCC
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
*
138072 TCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
138116 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
138181 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
66 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
138225 CCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CCTTCAGTCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
138290 TAGTCCTCAAAGAGCAGGACGC
60 TAGTCCTCAAAGAGCAGGACGC
138312 TCTCCCCTTT
Statistics
Matches: 186, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
109 129 0.69
112 1 0.01
115 56 0.30
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (109 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Done.