Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 227 of 344
Found at i:75264858 original size:20 final size:20
Alignment explanation
Indices: 75264833--75264882 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
75264823 AAATTTTAGG
* * *
75264833 ATTTATTTTTATTTATCTTT
1 ATTTATCTTTAATTATCTGT
*
75264853 ATTTATCTTTAATTATTTGT
1 ATTTATCTTTAATTATCTGT
75264873 ATTTATCTTT
1 ATTTATCTTT
75264883 TGGAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTATCTTTAATTATCTGT
Found at i:75265687 original size:38 final size:39
Alignment explanation
Indices: 75265609--75265690 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
75265599 ATCTTTGAAA
*
75265609 TTCCA-ATCAAAACTTTTAATTCTGTTTTTATTTTATTT
1 TTCCAGATCAAAACTTTTAATTCTGTTTTTATTTTACTT
*
75265647 TTCCAGATCAAAACTTTTAATTTTGTTCTTT-TTTT-CTT
1 TTCCAGATCAAAACTTTTAATTCTGTT-TTTATTTTACTT
75265685 TTCCAG
1 TTCCAG
75265691 GTACGCAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
38 13 0.32
39 24 0.60
40 3 0.08
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (39 bp):
TTCCAGATCAAAACTTTTAATTCTGTTTTTATTTTACTT
Found at i:75282203 original size:28 final size:28
Alignment explanation
Indices: 75282170--75282223 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
75282160 TATTTTAAAC
75282170 TTATTCAACTAA-AGCATATTTACACAAT
1 TTATTCAACTAATA-CATATTTACACAAT
*
75282198 TTATTCAACTAATATATATTTACACA
1 TTATTCAACTAATACATATTTACACA
75282224 CATACAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.39
Consensus pattern (28 bp):
TTATTCAACTAATACATATTTACACAAT
Found at i:75282452 original size:20 final size:22
Alignment explanation
Indices: 75282413--75282452 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
75282403 GCACTATTAA
75282413 ACAGAGAGCACTAAAGTGTGAT
1 ACAGAGAGCACTAAAGTGTGAT
75282435 ACAGAGAGCAC-AAA-TGTG
1 ACAGAGAGCACTAAAGTGTG
75282453 CTAATAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 11 0.61
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (22 bp):
ACAGAGAGCACTAAAGTGTGAT
Found at i:75286033 original size:18 final size:18
Alignment explanation
Indices: 75285995--75286035 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
75285985 TTAGCAATAC
* *
75285995 TTTTATCTCAAAAGTATT
1 TTTTATCGCAAAAGTACT
*
75286013 TTTTATCGCAAAAGTGCT
1 TTTTATCGCAAAAGTACT
75286031 TTTTA
1 TTTTA
75286036 AAAACAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (18 bp):
TTTTATCGCAAAAGTACT
Found at i:75287814 original size:24 final size:25
Alignment explanation
Indices: 75287786--75287834 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
75287776 CTTTTTTTAT
*
75287786 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
75287810 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
75287835 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:75287827 original size:25 final size:23
Alignment explanation
Indices: 75287798--75287862 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
75287788 AATAAAAAAC
*
75287798 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
75287823 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
75287844 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
75287863 AAAATGGGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:75287861 original size:19 final size:20
Alignment explanation
Indices: 75287824--75287862 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
75287814 TCAAATACAT
75287824 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
75287844 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
75287863 AAAATGGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:75288099 original size:17 final size:17
Alignment explanation
Indices: 75288054--75288101 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
75288044 TACTAAAGTT
*
75288054 ATTTAAAATTAAAAATA
1 ATTTAATATTAAAAATA
*** *
75288071 AAAAAATTTTAAAAATA
1 ATTTAATATTAAAAATA
75288088 ATTTAATATTAAAA
1 ATTTAATATTAAAA
75288102 TCGGGCCGGG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAATATTAAAAATA
Found at i:75288548 original size:45 final size:45
Alignment explanation
Indices: 75288448--75288619 Score: 185
Period size: 45 Copynumber: 3.9 Consensus size: 45
75288438 TCCCCAAAAG
* * *
75288448 ATGTCATATTATCTTTCAACTAT--TGTTTTTCATTTTCG-ATTTA
1 ATGTCATAGTATCTTTCAACTATGGTCTTTTTC-TTTTCGAATATA
* *
75288491 ATG-CTATAGTATCTTTCAACTATGGTCTTTTT-TATTAT-TATTATA
1 ATGTC-ATAGTATCTTTCAACTATGGTCTTTTTCT-TT-TCGAATATA
* *
75288536 ATGTCATTGTATCTTTCAACTATGGACTTTTTCTTTTCGAATATA
1 ATGTCATAGTATCTTTCAACTATGGTCTTTTTCTTTTCGAATATA
* *
75288581 ATGTCATAGTATCTTTCAACTATGATCTTTTACTTTTCG
1 ATGTCATAGTATCTTTCAACTATGGTCTTTTTCTTTTCG
75288620 TTTATATCAT
Statistics
Matches: 107, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
42 1 0.01
43 21 0.20
44 3 0.03
45 80 0.75
46 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (45 bp):
ATGTCATAGTATCTTTCAACTATGGTCTTTTTCTTTTCGAATATA
Found at i:75288601 original size:90 final size:88
Alignment explanation
Indices: 75288448--75288611 Score: 235
Period size: 90 Copynumber: 1.8 Consensus size: 88
75288438 TCCCCAAAAG
* *
75288448 ATGTCATATTATCTTTCAACTATTGTTTTTCATTTTCGATTTAATGCTATAGTATCTTTCAACTA
1 ATGTCATATTATCTTTCAACTATGGTTTTTCATTTTCGATATAATGCTATAGTATCTTTCAACTA
*
75288513 TGGTCTTTTTTATTATTATTATA
66 TGATCTTTTTTATTATTATTATA
75288536 ATGTCAT-TGTATCTTTCAACTATGGACTTTTTC-TTTTCGAATATAATG-TCATAGTATCTTTC
1 ATGTCATAT-TATCTTTCAACTATGG--TTTTTCATTTTCG-ATATAATGCT-ATAGTATCTTTC
75288598 AACTATGATCTTTT
61 AACTATGATCTTTT
75288612 ACTTTTCGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
87 1 0.01
88 22 0.32
89 7 0.10
90 38 0.56
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.52
Consensus pattern (88 bp):
ATGTCATATTATCTTTCAACTATGGTTTTTCATTTTCGATATAATGCTATAGTATCTTTCAACTA
TGATCTTTTTTATTATTATTATA
Found at i:75292109 original size:25 final size:25
Alignment explanation
Indices: 75292080--75292127 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
75292070 AAAAAAAATT
75292080 AAAT-ATCTCAAACAGATTAAATTTA
1 AAATAATCTCAAACAGA-TAAATTTA
75292105 AAATAATCTCAAACAGATAAATT
1 AAATAATCTCAAACAGATAAATT
75292128 AATAGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.29
Consensus pattern (25 bp):
AAATAATCTCAAACAGATAAATTTA
Found at i:75292129 original size:24 final size:24
Alignment explanation
Indices: 75292075--75292129 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 24
75292065 TTTAAAAAAA
75292075 AAATT-AAATATCTCAAACAGATT
1 AAATTAAAATATCTCAAACAGATT
75292098 AAATTTAAAATAATCTCAAACAGA-T
1 AAA-TTAAAAT-ATCTCAAACAGATT
75292123 AAATTAA
1 AAATTAA
75292130 TAGTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.10
24 6 0.21
25 8 0.28
26 12 0.41
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (24 bp):
AAATTAAAATATCTCAAACAGATT
Found at i:75312110 original size:20 final size:19
Alignment explanation
Indices: 75312083--75312120 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
75312073 ATTTAAAGTC
75312083 ATTAAAAAATAAATAAAAA
1 ATTAAAAAATAAATAAAAA
*
75312102 ATTACAAAAATATATAAAA
1 ATTA-AAAAATAAATAAAA
75312121 GTGTAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
ATTAAAAAATAAATAAAAA
Found at i:75312368 original size:8 final size:9
Alignment explanation
Indices: 75312346--75312531 Score: 56
Period size: 9 Copynumber: 18.8 Consensus size: 9
75312336 AATTAAATCA
75312346 ATTTTTAAT
1 ATTTTTAAT
75312355 ATTTTTAAT
1 ATTTTTAAT
75312364 ATTTTTAAAT
1 ATTTTT-AAT
75312374 ATCTTTCATTAAT
1 A--TTT--TTAAT
*
75312387 AATTGGTTTTTAT
1 -A-T--TTTTAAT
*
75312400 GATTTTTATT
1 -ATTTTTAAT
*
75312410 TTTTTAATAAT
1 ATTTT--TAAT
75312421 ATTTTTAAT
1 ATTTTTAAT
75312430 ATTTTTAA-
1 ATTTTTAAT
*
75312438 ATTAACTTAAT
1 ATT--TTTAAT
**
75312449 -TTTAAAAT
1 ATTTTTAAT
75312457 ATTTTTAAT
1 ATTTTTAAT
*
75312466 AATTTCCT-AT
1 -ATTT-TTAAT
75312476 ATTTTTAAT
1 ATTTTTAAT
*
75312485 ATATTTTCAT
1 AT-TTTTAAT
*
75312495 AAATTTTACA-
1 -ATTTTTA-AT
*
75312505 ATTTTTCAT
1 ATTTTTAAT
*
75312514 AATTATATAAT
1 -ATT-TTTAAT
75312525 ATTTTTA
1 ATTTTTA
75312532 TAGTTTATAT
Statistics
Matches: 130, Mismatches: 24, Indels: 46
0.65 0.12 0.23
Matches are distributed among these distances:
8 8 0.06
9 53 0.41
10 37 0.28
11 14 0.11
12 4 0.03
13 9 0.07
14 3 0.02
15 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:75312500 original size:21 final size:19
Alignment explanation
Indices: 75312457--75312501 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
75312447 ATTTTAAAAT
* *
75312457 ATTTTTAATAATTTCCTAT
1 ATTTTTAATAATTTCATAA
75312476 ATTTTTAATATATTTTCATAA
1 ATTTTTAATA-A-TTTCATAA
75312497 ATTTT
1 ATTTT
75312502 ACAATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
21 11 0.50
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTAATAATTTCATAA
Found at i:75312530 original size:20 final size:20
Alignment explanation
Indices: 75312505--75312543 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
75312495 AAATTTTACA
75312505 ATTTTTCATA-ATTATATAAT
1 ATTTTT-ATAGATTATATAAT
*
75312525 ATTTTTATAGTTTATATAA
1 ATTTTTATAGATTATATAA
75312544 ATTAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTTTTATAGATTATATAAT
Found at i:75312596 original size:20 final size:19
Alignment explanation
Indices: 75312552--75312603 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
75312542 AAATTAAACA
*
75312552 AATAGTTTTTATAATTTAT
1 AATATTTTTTATAATTTAT
*
75312571 -ATATTTTTTAGTCATTTAT
1 AATATTTTTTA-TAATTTAT
75312590 AATATTTTTTATAA
1 AATATTTTTTATAA
75312604 GTTTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 9 0.32
19 9 0.32
20 10 0.36
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
AATATTTTTTATAATTTAT
Found at i:75312674 original size:10 final size:9
Alignment explanation
Indices: 75312557--75312679 Score: 56
Period size: 9 Copynumber: 13.4 Consensus size: 9
75312547 AAACAAATAG
75312557 TTTTTATAA
1 TTTTTATAA
* *
75312566 TTTATATAT
1 TTTTTATAA
*
75312575 TTTTTAGTCA
1 TTTTTA-TAA
* *
75312585 TTTATAATAT
1 TTT-TTATAA
75312595 TTTTTATAA
1 TTTTTATAA
75312604 GTTTTT-TAA
1 -TTTTTATAA
75312613 TTTTTAT--
1 TTTTTATAA
**
75312620 TTTGTT-GCA
1 TTT-TTATAA
* * *
75312629 CTTATATAT
1 TTTTTATAA
75312638 TTTTTATAA
1 TTTTTATAA
* *
75312647 TCTTTAAATA
1 TTTTTATA-A
75312657 TTTTTATAA
1 TTTTTATAA
75312666 TTTTCTATAA
1 TTTT-TATAA
75312676 TTTT
1 TTTT
75312680 AAACATTTTT
Statistics
Matches: 81, Mismatches: 23, Indels: 19
0.66 0.19 0.15
Matches are distributed among these distances:
7 3 0.04
8 8 0.10
9 39 0.48
10 29 0.36
11 2 0.02
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:75312692 original size:29 final size:30
Alignment explanation
Indices: 75312630--75312689 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
75312620 TTTGTTGCAC
* *
75312630 TTATATATTTTTTATAATCTTTAAATATTT
1 TTATATATTTTCTATAATCTTTAAACATTT
75312660 TTATA-ATTTTCTATAAT-TTTAAACATTT
1 TTATATATTTTCTATAATCTTTAAACATTT
75312688 TT
1 TT
75312690 TATTAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 12 0.43
29 11 0.39
30 5 0.18
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (30 bp):
TTATATATTTTCTATAATCTTTAAACATTT
Found at i:75315369 original size:32 final size:31
Alignment explanation
Indices: 75315296--75315371 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 31
75315286 AGTACAAGAA
*
75315296 TAGTCACCCAACTATTAAGTTTGTTCTATTT
1 TAGTCACTCAACTATTAAGTTTGTTCTATTT
* *
75315327 TGGTCACTCAACTATT-AGTTT-TTTTATTTATT
1 TAGTCACTCAACTATTAAGTTTGTTCTA--T-TT
75315359 TAGTCACTCAACT
1 TAGTCACTCAACT
75315372 TTTTAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
29 4 0.11
30 5 0.13
31 15 0.39
32 14 0.37
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.47
Consensus pattern (31 bp):
TAGTCACTCAACTATTAAGTTTGTTCTATTT
Found at i:75317295 original size:3 final size:3
Alignment explanation
Indices: 75317287--75317318 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
75317277 AACAAATAGG
75317287 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
75317319 GGACTAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:75319132 original size:44 final size:44
Alignment explanation
Indices: 75319060--75319590 Score: 238
Period size: 44 Copynumber: 11.8 Consensus size: 44
75319050 ATCTGATGTG
* *
75319060 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGAT-CTGTTATTTTA
* * ** * *
75319104 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTA-TTTTA
* * * * *** *
75319148 ATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTATTTTA
* * ** *
75319192 ATCTGCTCCACTGTAACATCAGGGAGATAAGATCTGAAATTTTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTA-TTTT-A
* * * * *
75319238 GTCTGTTCCACTGCAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTG
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGA--TCT-G-TT--AT-T--T-TA
* *
75319292 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGAT-CTGTTATTTTA
* * ** * *
75319336 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTA-TTTTA
* * * *** *
75319380 ATCTACTCCGCTGTAA-TCTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGATCTGTTATTTTA
* * ** *
75319424 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTATT-TT-A
* * * * * * * ***
75319470 GTCTACTCCCCTGTAACCTCAGGGTGATAAGACCTG--A-TGCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTATTTTA
* **
75319511 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGAT-CTGTTATTTTA
* *
75319555 ATCTGCTCCACTGTAA-TCTCAGGGAGATAGGATCTG
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGATCTG
75319591 AAATTCTTTG
Statistics
Matches: 367, Mismatches: 89, Indels: 62
0.71 0.17 0.12
Matches are distributed among these distances:
41 27 0.07
42 4 0.01
43 10 0.03
44 219 0.60
45 6 0.02
46 58 0.16
47 1 0.00
48 5 0.01
49 1 0.00
50 2 0.01
51 1 0.00
52 3 0.01
53 2 0.01
54 26 0.07
55 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTATTTTA
Found at i:75319412 original size:232 final size:231
Alignment explanation
Indices: 75319000--75319587 Score: 925
Period size: 232 Copynumber: 2.6 Consensus size: 231
75318990 GAAATTTATG
*
75319000 TTTTCAGTCTGTTCCACTGCAACATCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
1 TTTTCGGTCTGTTCCACTGCAAC-TCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
75319065 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
65 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
*
75319130 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATC
130 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATC
75319195 TGCTCCACTGTAACATCAGGGAGATAAGATCTGAAAT
195 TGCTCCACTGTAACATCAGGGAGATAAGATCTGAAAT
75319232 TTTTCGGTCTGTTCCACTGCAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
1 TTTTCGGTCTGTTCCACTGCAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
75319297 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
65 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
75319362 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATC
130 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATC
*
75319427 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
195 TGCTCCACTGTAACATCAGGGAGATAAGATCTGAAAT
* ** * * * *
75319464 TCTTCGGTCTACTCCCCTGTAACCTCAGGGTGATAAGA----------C---CTGATGCGATCTA
1 TTTTCGGTCTGTTCCACTGCAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
* * *
75319516 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAA-TCTCAGGGA
65 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGAGA
75319580 GATAGGAT
129 GATAGGAT
75319588 CTGAAATTCT
Statistics
Matches: 340, Mismatches: 14, Indels: 17
0.92 0.04 0.05
Matches are distributed among these distances:
218 1 0.00
219 79 0.23
222 1 0.00
232 258 0.76
233 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (231 bp):
TTTTCGGTCTGTTCCACTGCAACTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTAC
TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGA
TAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCT
GCTCCACTGTAACATCAGGGAGATAAGATCTGAAAT
Found at i:75319491 original size:46 final size:46
Alignment explanation
Indices: 75319425--75319678 Score: 218
Period size: 46 Copynumber: 5.7 Consensus size: 46
75319415 CTGGCTTCAA
75319425 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
* * * * * *
75319471 TCTACTCCCCTGTAACCTCAGGGTGATAAGACCTG--A---TGCGA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
* ** * * ** **
75319512 TCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TTATT-TT-AA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGG
* * *
75319556 TCTGCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTTGG
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
* * * * *
75319602 TCTGTTCCACTATAATCTCAGGGAGATAGGATCTGAAATTCTTTGG
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
* *
75319648 TCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGA
75319679 CCTGTATAAT
Statistics
Matches: 171, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
41 29 0.17
42 2 0.01
43 3 0.02
44 30 0.18
45 3 0.02
46 104 0.61
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (46 bp):
TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
Found at i:75319622 original size:131 final size:131
Alignment explanation
Indices: 75319380--75319629 Score: 342
Period size: 131 Copynumber: 1.9 Consensus size: 131
75319370 ACTAGCTTCA
*
75319380 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAACCTCA
* * *
75319445 GGGAGATAAGATCTGAAATTCTTCGGTCTACTCCCCTGTAACCTCAGGGTGATAAGACCTGATGC
66 GGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGATGC
75319510 G
131 G
* * * * *
75319511 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATC-CTTTATTTTAATCTGCTCCACTGTAATCT
1 ATCTACTCCGCTGTAATC-TCAGAGAGATAAGATCTC-TGACTTCAATCTGCTCCACTGTAACCT
* * ** *
75319574 CAGGGAGATAGGATCTGAAATTCTTTGGTCTGTTCCACTATAATCTCAGGGAGATA
64 CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATA
75319630 GGATCTGAAA
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
130 2 0.02
131 101 0.98
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (131 bp):
ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGATGC
G
Found at i:75331586 original size:6 final size:6
Alignment explanation
Indices: 75331575--75331704 Score: 55
Period size: 5 Copynumber: 21.8 Consensus size: 6
75331565 ATCATAATAC
* * * *
75331575 AATAAA AATAAAAA AATACAC AATAAA AATAAA AA-AGCA ACTACAA CATAATA
1 AATAAA AAT--AAA AATA-AA AATAAA AATAAA AATA-AA AATA-AA AATAA-A
*
75331628 AAATAAC AATAATA AA-AAA AATAAA TAA-AAA AA-AAA AA-AAA AA-AAA
1 -AATAAA AATAA-A AATAAA AATAAA -AATAAA AATAAA AATAAA AATAAA
*
75331674 AA-AAA AA-AAA AA-AAA AA-AAA AAAAAA AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAA
75331705 TTACAAAATA
Statistics
Matches: 101, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
5 41 0.41
6 36 0.36
7 14 0.14
8 10 0.10
ACGTcount: A:0.83, C:0.05, G:0.01, T:0.11
Consensus pattern (6 bp):
AATAAA
Found at i:75331594 original size:19 final size:19
Alignment explanation
Indices: 75331570--75331703 Score: 77
Period size: 19 Copynumber: 7.2 Consensus size: 19
75331560 GTAAAATCAT
75331570 AATACAATAAAAATAAAAA
1 AATACAATAAAAATAAAAA
75331589 AATACACAATAAAAAT-AAAA
1 AAT--ACAATAAAAATAAAAA
* * *
75331609 AA-GCAACTACAACATAATAA
1 AATACAA-TA-AAAATAAAAA
*
75331629 AATAACAAT-AATA-AAAAA
1 AAT-ACAATAAAAATAAAAA
75331647 AATA-AATAAAAA-AAAAA
1 AATACAATAAAAATAAAAA
* *
75331664 AA-A-AAAAAAAAAAAAAA
1 AATACAATAAAAATAAAAA
* * * *
75331681 AAAAAAAAAAAAAAAAAAA
1 AATACAATAAAAATAAAAA
75331700 AATA
1 AATA
75331704 ATTACAAAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 22
0.75 0.07 0.17
Matches are distributed among these distances:
16 11 0.12
17 21 0.22
18 10 0.11
19 27 0.28
20 11 0.12
21 12 0.13
22 3 0.03
ACGTcount: A:0.82, C:0.06, G:0.01, T:0.11
Consensus pattern (19 bp):
AATACAATAAAAATAAAAA
Found at i:75331647 original size:1 final size:1
Alignment explanation
Indices: 75331641--75331701 Score: 104
Period size: 1 Copynumber: 61.0 Consensus size: 1
75331631 TAACAATAAT
* *
75331641 AAAAAAAATAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
75331702 TAATTACAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.97, C:0.00, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:75331650 original size:9 final size:9
Alignment explanation
Indices: 75331627--75331704 Score: 88
Period size: 9 Copynumber: 8.8 Consensus size: 9
75331617 ACAACATAAT
*
75331627 AAAATAACA
1 AAAATAAAA
*
75331636 ATAATAAAA
1 AAAATAAAA
75331645 AAAATAAATA
1 AAAATAAA-A
75331655 AAAA-AAAA
1 AAAATAAAA
75331663 AAAA-AAAA
1 AAAATAAAA
*
75331671 AAAAAAAAA
1 AAAATAAAA
*
75331680 AAAAAAAAA
1 AAAATAAAA
*
75331689 AAAAAAAAA
1 AAAATAAAA
75331698 AAAATAA
1 AAAATAA
75331705 TTACAAAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
8 13 0.21
9 45 0.71
10 5 0.08
ACGTcount: A:0.91, C:0.01, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAATAAAA
Found at i:75331947 original size:3 final size:3
Alignment explanation
Indices: 75331939--75331977 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
75331929 AAAAACAATT
*
75331939 ATA ATA ATA ATA ATA A-C ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
75331978 AATGCAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 32 0.97
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:75331961 original size:17 final size:17
Alignment explanation
Indices: 75331939--75331971 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
75331929 AAAAACAATT
75331939 ATAATAATAATAATAAC
1 ATAATAATAATAATAAC
75331956 ATAATAATAATAATAA
1 ATAATAATAATAATAA
75331972 TAATAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAATAATAATAATAAC
Found at i:75343042 original size:16 final size:16
Alignment explanation
Indices: 75343021--75343064 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
75343011 ATTTACTCCC
75343021 TATTTTTTAATTTGAT-
1 TATTTTTTAATTT-ATG
*
75343037 TA-TTTTTAATTTTTG
1 TATTTTTTAATTTATG
75343052 TATTTTTTAATTT
1 TATTTTTTAATTT
75343065 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 12 0.48
16 12 0.48
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (16 bp):
TATTTTTTAATTTATG
Found at i:75343065 original size:16 final size:15
Alignment explanation
Indices: 75343021--75343066 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
75343011 ATTTACTCCC
*
75343021 TATTTTTTAATTTGAT
1 TATTTTTTAATTT-TT
75343037 TA-TTTTTAATTTTT
1 TATTTTTTAATTTTT
75343051 GTATTTTTTAATTTTT
1 -TATTTTTTAATTTTT
75343067 AAATTTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 12 0.44
16 14 0.52
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (15 bp):
TATTTTTTAATTTTT
Found at i:75343072 original size:16 final size:16
Alignment explanation
Indices: 75343039--75343073 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
75343029 AATTTGATTA
**
75343039 TTTTTAATTTTTGTAT
1 TTTTTAATTTTTAAAT
75343055 TTTTTAATTTTTAAAT
1 TTTTTAATTTTTAAAT
75343071 TTT
1 TTT
75343074 AGTCTCGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTAATTTTTAAAT
Found at i:75355311 original size:21 final size:21
Alignment explanation
Indices: 75355270--75355311 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
75355260 TTATGTTTTT
**
75355270 TTTTTATTTTTTTACTTTTGA
1 TTTTTATTTTTTTACAATTGA
75355291 TTTTTATTGTTTTTA-AATTGA
1 TTTTTATT-TTTTTACAATTGA
75355312 AAATTACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTTATTTTTTTACAATTGA
Found at i:75357055 original size:29 final size:28
Alignment explanation
Indices: 75357023--75357217 Score: 116
Period size: 28 Copynumber: 6.8 Consensus size: 28
75357013 TAAAAATTAT
75357023 TTAAATTAGGGTTTATGATTTTAAATGAATTA
1 TTAAATTAGGGTTTATG-TTTTAAAT-AA--A
* * * *
75357055 ATAAATTAAGGTTTAAAGGTTTAAATAAA
1 TTAAATTAGGGTTT-ATGTTTTAAATAAA
*
75357084 TAAAATTA-GG-----GTTTTAAATAAA
1 TTAAATTAGGGTTTATGTTTTAAATAAA
* * *
75357106 TTAAACTAAGATTTATGGTGTTTAAATAAATAAA
1 TTAAATTAGGGTTTA---TGTTT---TAAATAAA
*
75357140 TTAAATTAGGGTTCTAGTGTTTTAAATAAT
1 TTAAATTAGGGTT-TA-TGTTTTAAATAAA
* * *
75357170 TTAAATTAGGGTTTATGGTTAAAATTAA
1 TTAAATTAGGGTTTATGTTTTAAATAAA
75357198 TTAAATTAGGGTTTA-GTTTT
1 TTAAATTAGGGTTTATGTTTT
75357218 TTTTAAAAAT
Statistics
Matches: 129, Mismatches: 20, Indels: 33
0.71 0.11 0.18
Matches are distributed among these distances:
22 17 0.13
23 1 0.01
27 3 0.02
28 26 0.20
29 9 0.07
30 20 0.16
31 6 0.05
32 19 0.15
33 8 0.06
34 18 0.14
35 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.15, T:0.43
Consensus pattern (28 bp):
TTAAATTAGGGTTTATGTTTTAAATAAA
Found at i:75357167 original size:30 final size:29
Alignment explanation
Indices: 75357089--75357219 Score: 120
Period size: 28 Copynumber: 4.3 Consensus size: 29
75357079 ATAAATAAAA
* * * *
75357089 TTAGGGTTTTAAATAAATTAAACTAAGAT
1 TTAGTGTTTTAAATAAATTAAATTAGGGT
75357118 TTATGGTGTTTAAATAAATAAATTAAATTAGGGT
1 TTA--GTGTTT---TAAATAAATTAAATTAGGGT
*
75357152 TCTAGTGTTTTAAATAATTTAAATTAGGGT
1 T-TAGTGTTTTAAATAAATTAAATTAGGGT
* * *
75357182 TTA-TGGTTAAAATTAATTAAATTAGGGT
1 TTAGTGTTTTAAATAAATTAAATTAGGGT
*
75357210 TTAGTTTTTT
1 TTAGTGTTTT
75357220 TTAAAAATAA
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
28 24 0.29
29 8 0.10
30 20 0.24
31 5 0.06
33 6 0.07
34 18 0.22
35 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (29 bp):
TTAGTGTTTTAAATAAATTAAATTAGGGT
Found at i:75357554 original size:126 final size:127
Alignment explanation
Indices: 75357272--75357649 Score: 636
Period size: 126 Copynumber: 3.0 Consensus size: 127
75357262 ATTTAGACAT
* * * *
75357272 TGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTAAAAAATACTTCAAGAATGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGC
* * *
75357337 ACTGTCAGCAAAATTAT-AGAAAAAAATCTCCCACGTGGACGCTCTTTTTCTATAGTAGTTCC
66 ACTGTCAGCAAAATT-TCTGAAAAAAAGCTCCCACGTGGACGCCCTTTTTCTATAGTAGTTCC
*
75357399 TAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGC
75357464 ACTGTCAGCAAAATTTCTGAAAAAAA-CTCCCACGTGGACGCCCTTTTTCTATAGTAGTTCC
66 ACTGTCAGCAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCCCTTTTTCTATAGTAGTTCC
* *
75357525 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGAATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGC
75357590 ACTGTCAGCAAAATTTCT-AAAAAAAGCTCCCACGTGGACGCCCTTTTTCTATAGTAGTTC
66 ACTGTCAGCAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCCCTTTTTCTATAGTAGTTC
75357650 ATGCTTGGCC
Statistics
Matches: 239, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
125 7 0.03
126 149 0.62
127 83 0.35
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (127 bp):
TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGC
ACTGTCAGCAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCCCTTTTTCTATAGTAGTTCC
Found at i:75358790 original size:18 final size:18
Alignment explanation
Indices: 75358767--75358833 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
75358757 GAATGATTAT
*
75358767 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAG
* *
75358785 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAG
* *
75358803 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAG
75358821 TTATTCAGTAACA
1 TTATTCAGTAACA
75358834 GTCGATCTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:75359014 original size:53 final size:53
Alignment explanation
Indices: 75358955--75359074 Score: 186
Period size: 53 Copynumber: 2.3 Consensus size: 53
75358945 CCGAAACAGT
* * * *
75358955 AACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCAGAACAAATTCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAA
* *
75359008 AACAGTAACAGTAACATTACGGTACACAGAGTACCTCATCGGAACAAATCCAA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAA
75359061 AACAGTAACAGTAA
1 AACAGTAACAGTAA
75359075 TGGTAACAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAA
Found at i:75359081 original size:59 final size:57
Alignment explanation
Indices: 75358948--75359085 Score: 158
Period size: 53 Copynumber: 2.4 Consensus size: 57
75358938 GCCGAAGCCG
* * * *
75358948 AAACAGTAACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCAGAACAAATTCG
1 AAACAGTAACAGT-A-AGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCA
* *
75359007 AAACAGTAAC----AGTAACATTACGGTACACAGAGTACCTCATCGGAACAAATCCA
1 AAACAGTAACAGTAAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCA
75359060 AAACAGTAACAGTAATGGTAACAGTA
1 AAACAGTAACAGTAA--GTAACAGTA
75359086 ACAATATCCG
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
53 47 0.71
57 1 0.02
59 18 0.27
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (57 bp):
AAACAGTAACAGTAAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCA
Found at i:75360786 original size:10 final size:11
Alignment explanation
Indices: 75360761--75360786 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
75360751 CTATCTTTTA
75360761 TTTTTCATTTG
1 TTTTTCATTTG
75360772 TTTTTCATTTG
1 TTTTTCATTTG
75360783 TTTT
1 TTTT
75360787 ACTTTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTTCATTTG
Found at i:75360951 original size:31 final size:32
Alignment explanation
Indices: 75360895--75360957 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
75360885 CACACTTGTC
*
75360895 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
75360927 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
75360958 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:75365292 original size:46 final size:46
Alignment explanation
Indices: 75365225--75365316 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
75365215 CCCTTGTAAT
75365225 ACCCCTACCAGTATTCATTGCCAGAATAGGGTACGAGGCATTACCG
1 ACCCCTACCAGTATTCATTGCCAGAATAGGGTACGAGGCATTACCG
* *
75365271 ACCCCTACCCGTATTCATTGCCGGAATAGGGTACGAGGCATTACCG
1 ACCCCTACCAGTATTCATTGCCAGAATAGGGTACGAGGCATTACCG
75365317 GAGTTTACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (46 bp):
ACCCCTACCAGTATTCATTGCCAGAATAGGGTACGAGGCATTACCG
Found at i:75373136 original size:22 final size:23
Alignment explanation
Indices: 75373111--75373156 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
75373101 CAACCAAATC
75373111 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
75373133 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
75373156 A
1 A
75373157 GGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:75373162 original size:23 final size:23
Alignment explanation
Indices: 75373118--75373162 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
75373108 ATCAATTCAA
*
75373118 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
75373141 CATATTTAT-AAGATAAGGTCAT
1 CATATTT-TCAAGATAAAGTCAT
75373163 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:75378537 original size:46 final size:46
Alignment explanation
Indices: 75378431--75378693 Score: 384
Period size: 46 Copynumber: 5.6 Consensus size: 46
75378421 TTTGACATGA
* * * *
75378431 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
75378481 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * *
75378527 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
75378573 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * *
75378619 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
75378665 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
75378694 CACATTTCAT
Statistics
Matches: 199, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 5 0.03
46 169 0.85
47 1 0.01
49 1 0.01
50 23 0.12
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:75378645 original size:138 final size:141
Alignment explanation
Indices: 75378431--75378708 Score: 429
Period size: 138 Copynumber: 2.0 Consensus size: 141
75378421 TTTGACATGA
* * *
75378431 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
1 TGCCATAGTATCTTTCAACCATGGTCTTA-TCATTCATTTTCTGTCACGTTGCCATGGTATCTTT
* * * **
75378496 CAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCAT
65 CAACCATGGTCTTATTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACAT
75378561 TTCATATCAGGT
130 TTCATATCAGGT
*
75378573 TGCCATGGTATCTTTCAACCATGGTC-T-T-ATTC-TTTTCATGTCACGTTGCCATGGTATCTTT
1 TGCCATAGTATCTTTCAACCATGGTCTTATCATTCATTTTC-TGTCACGTTGCCATGGTATCTTT
75378634 CAACCATGGTCTTATTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACAT
65 CAACCATGGTCTTATTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACAT
75378699 TTCATATCAG
130 TTCATATCAG
75378709 AGAGCAAACT
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
137 5 0.04
138 96 0.76
139 1 0.01
141 1 0.01
142 23 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (141 bp):
TGCCATAGTATCTTTCAACCATGGTCTTATCATTCATTTTCTGTCACGTTGCCATGGTATCTTTC
AACCATGGTCTTATTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATT
TCATATCAGGT
Found at i:75378700 original size:46 final size:46
Alignment explanation
Indices: 75378479--75378707 Score: 386
Period size: 46 Copynumber: 5.0 Consensus size: 46
75378469 TTTCTGTCAT
* *
75378479 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
*
75378525 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
* *
75378571 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
75378617 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
* **
75378663 ATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
75378708 GAGAGCAAAC
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 172 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
Found at i:75380757 original size:16 final size:16
Alignment explanation
Indices: 75380732--75380763 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
75380722 AATCCCAATT
75380732 TTTCTCTTTTTCCTTC
1 TTTCTCTTTTTCCTTC
*
75380748 TTTCTTTTTTTCCTTC
1 TTTCTCTTTTTCCTTC
75380764 CCCCTGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTCTCTTTTTCCTTC
Found at i:75380823 original size:16 final size:18
Alignment explanation
Indices: 75380794--75380834 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
75380784 TCATCCTTTC
75380794 TTTCTTTTTCTATT-CTT
1 TTTCTTTTTCTATTCCTT
75380811 TTTCTTTTT-TATTCCTT
1 TTTCTTTTTCTATTCCTT
*
75380828 TTACTTT
1 TTTCTTT
75380835 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTTCTATTCCTT
Found at i:75381901 original size:30 final size:30
Alignment explanation
Indices: 75381846--75381931 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 30
75381836 GGCATTGGAT
** *
75381846 CCGGTGATTGTGTGGGTACTGTTGATAGGC
1 CCGGTGATTGTGTGGGCGCTATTGATAGGC
*
75381876 CCGGTGATTGTGTGGGCGCTATTGATGGGC
1 CCGGTGATTGTGTGGGCGCTATTGATAGGC
* * *
75381906 TCGATAATTGTGTGGGCGCTATTGAT
1 CCGGTGATTGTGTGGGCGCTATTGAT
75381932 GGGCTCGTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.14, C:0.14, G:0.38, T:0.34
Consensus pattern (30 bp):
CCGGTGATTGTGTGGGCGCTATTGATAGGC
Found at i:75381932 original size:30 final size:30
Alignment explanation
Indices: 75381882--75381938 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
75381872 AGGCCCGGTG
75381882 ATTGTGTGGGCGCTATTGATGGGCTCGATA
1 ATTGTGTGGGCGCTATTGATGGGCTCGATA
75381912 ATTGTGTGGGCGCTATTGATGGGCTCG
1 ATTGTGTGGGCGCTATTGATGGGCTCG
75381939 TCCCATCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.14, C:0.14, G:0.39, T:0.33
Consensus pattern (30 bp):
ATTGTGTGGGCGCTATTGATGGGCTCGATA
Found at i:75382682 original size:85 final size:85
Alignment explanation
Indices: 75382577--75382746 Score: 295
Period size: 85 Copynumber: 2.0 Consensus size: 85
75382567 TAACTTGCCG
* **
75382577 GATGGTTCCACTTAATTAAATAAATTTTCAGCATACAATTTTATTTTATATCTATGGAATAATTG
1 GATGGTTCCACTTAATTAAATAAATTTTCAGCATACAATTTTATTTTAAATCTATACAATAATTG
*
75382642 TAAAATCAAATAAAATTTTT
66 TAAAATCAAATAAAAATTTT
*
75382662 GATGGTTCCACTTAATTAAATAAATTTTCAGCATATAATTTTATTTTAAATCTATACAATAATTG
1 GATGGTTCCACTTAATTAAATAAATTTTCAGCATACAATTTTATTTTAAATCTATACAATAATTG
75382727 TAAAATCAAATAAAAATTTT
66 TAAAATCAAATAAAAATTTT
75382747 ACCTCGTTAT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (85 bp):
GATGGTTCCACTTAATTAAATAAATTTTCAGCATACAATTTTATTTTAAATCTATACAATAATTG
TAAAATCAAATAAAAATTTT
Found at i:75383520 original size:24 final size:26
Alignment explanation
Indices: 75383479--75383574 Score: 94
Period size: 26 Copynumber: 3.7 Consensus size: 26
75383469 AAAAAATATA
*
75383479 AAAT-AAAAATTAATTAAAATTACAT
1 AAATGAAAAAATAATTAAAATTACAT
* *
75383504 AAATGAAAAAA-AA-TAAAATAAAATTT
1 AAATGAAAAAATAATTAAAATTACA--T
75383530 AAAT-AATAAAATTAATTAAAATTACAT
1 AAATGAA-AAAA-TAATTAAAATTACAT
75383557 AAATGAAAAAAT-ATTAAA
1 AAATGAAAAAATAATTAAA
75383575 TAATTTTTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
24 8 0.14
25 14 0.24
26 15 0.26
27 9 0.16
28 4 0.07
29 8 0.14
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (26 bp):
AAATGAAAAAATAATTAAAATTACAT
Found at i:75383525 original size:29 final size:29
Alignment explanation
Indices: 75383483--75383577 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 29
75383473 AATATAAAAT
*
75383483 AAAAATTAATTAAAATTACATAAATGAAA
1 AAAAATTAAATAAAATTACATAAATGAAA
*
75383512 AAAAATAAAATAAAATT---TAAAT--AA
1 AAAAATTAAATAAAATTACATAAATGAAA
* *
75383536 TAAAATTAATTAAAATTACATAAATGAAA
1 AAAAATTAAATAAAATTACATAAATGAAA
*
75383565 AAATATTAAATAA
1 AAAAATTAAATAA
75383578 TTTTTAACAT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
24 16 0.30
26 5 0.09
27 5 0.09
29 27 0.51
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (29 bp):
AAAAATTAAATAAAATTACATAAATGAAA
Found at i:75383560 original size:19 final size:19
Alignment explanation
Indices: 75383485--75383560 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 19
75383475 TATAAAATAA
75383485 AAATTAATTAAAATTACAT
1 AAATTAATTAAAATTACAT
* ** * *
75383504 AAATGAAAAAAAATAAAAT
1 AAATTAATTAAAATTACAT
*
75383523 -AA--AATTTAAA-TA-AT
1 AAATTAATTAAAATTACAT
75383537 AAAATTAATTAAAATTACAT
1 -AAATTAATTAAAATTACAT
75383557 AAAT
1 AAAT
75383561 GAAAAAATAT
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
14 2 0.05
15 1 0.02
16 7 0.17
18 9 0.22
19 20 0.49
20 2 0.05
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (19 bp):
AAATTAATTAAAATTACAT
Found at i:75383575 original size:24 final size:24
Alignment explanation
Indices: 75383495--75383575 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
75383485 AAATTAATTA
* *
75383495 AAATTACATAAATGAAAAAAAATA
1 AAATTACATAAATGAAAAAATATT
* *
75383519 AAATAAAATTTAAAT-AATAAAATTAATT
1 AAATTACA--TAAATGAA-AAAA-T-ATT
75383547 AAAATTACATAAATGAAAAAATATT
1 -AAATTACATAAATGAAAAAATATT
75383572 AAAT
1 AAAT
75383576 AATTTTTAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
24 10 0.23
25 5 0.11
26 10 0.23
27 9 0.20
28 4 0.09
29 6 0.14
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAATTACATAAATGAAAAAATATT
Found at i:75391429 original size:5 final size:5
Alignment explanation
Indices: 75391415--75391451 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
75391405 TTTTTTAAAT
*
75391415 TTATA ATATA TTATA TTATA TTATA TT-TA -TATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT
75391452 GTAATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
3 1 0.04
4 4 0.14
5 23 0.82
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:75391597 original size:25 final size:26
Alignment explanation
Indices: 75391540--75391597 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
75391530 AGATGACAAT
75391540 ATAAA-AAAATTTAATAAATAGAAAA
1 ATAAATAAAATTTAATAAATAGAAAA
* * *
75391565 ATATATAAAA-TTATTAAATATAAAA
1 ATAAATAAAATTTAATAAATAGAAAA
*
75391590 TTAAATAA
1 ATAAATAA
75391598 TATAAATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
ATAAATAAAATTTAATAAATAGAAAA
Found at i:75391599 original size:15 final size:15
Alignment explanation
Indices: 75391563--75391603 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
75391553 ATAAATAGAA
75391563 AAAT-ATATAAAATT
1 AAATAATATAAAATT
*
75391577 -ATTAAATATAAAATT
1 AAAT-AATATAAAATT
75391592 AAATAATATAAA
1 AAATAATATAAA
75391604 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATAATATAAAATT
Found at i:75394238 original size:23 final size:23
Alignment explanation
Indices: 75394212--75394258 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
75394202 TTCTATAAAG
75394212 GATTTCTACAGTAATACTTTATA
1 GATTTCTACAGTAATACTTTATA
75394235 GATTTCTACAGTAATACTTTATA
1 GATTTCTACAGTAATACTTTATA
75394258 G
1 G
75394259 GATAATCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (23 bp):
GATTTCTACAGTAATACTTTATA
Found at i:75394273 original size:23 final size:23
Alignment explanation
Indices: 75394216--75394267 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
75394206 ATAAAGGATT
*
75394216 TCTACAGTAATACTTTATAGATT
1 TCTACAGTAATACTTTATAGATA
75394239 TCTACAGTAATACTTTATAGGATAA
1 TCTACAGTAATACTTTATA-GAT-A
75394264 TCTA
1 TCTA
75394268 ATAATATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 19 0.73
24 3 0.12
25 4 0.15
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (23 bp):
TCTACAGTAATACTTTATAGATA
Found at i:75397472 original size:42 final size:42
Alignment explanation
Indices: 75397340--75397482 Score: 135
Period size: 42 Copynumber: 3.4 Consensus size: 42
75397330 ATGCCAATAG
* *
75397340 CCCAGCTATGGTCTTACATGAAATCGCATGCCGATGTCATAT
1 CCCAGATATGGTCTTACATGAAATCGCATGCCGATATCATAT
* * * * * ** * *
75397382 CCCAGATATGGCCTTATACGAAGTCTCATTTTCGA-AGCCATGT
1 CCCAGATATGGTCTTACATGAAATCGCA-TGCCGATA-TCATAT
** *
75397425 CCCAGACGTGGTCTTACATTAAATCGCATGCCGATATCATAT
1 CCCAGATATGGTCTTACATGAAATCGCATGCCGATATCATAT
75397467 CCCAGATATGGTCTTA
1 CCCAGATATGGTCTTA
75397483 TACAGAATCT
Statistics
Matches: 73, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
42 44 0.60
43 29 0.40
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (42 bp):
CCCAGATATGGTCTTACATGAAATCGCATGCCGATATCATAT
Found at i:75403749 original size:11 final size:11
Alignment explanation
Indices: 75403721--75403762 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
75403711 GTCTTATCAC
*
75403721 AATTCTCTCTA
1 AATTCTTTCTA
75403732 AATTCTTTCTA
1 AATTCTTTCTA
75403743 AATTCTTTC-A
1 AATTCTTTCTA
75403753 AATTTCTTTC
1 AA-TTCTTTC
75403763 AATTTTTGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 3 0.10
11 26 0.90
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTCTTTCTA
Found at i:75404374 original size:11 final size:11
Alignment explanation
Indices: 75404360--75404400 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
75404350 TGTTTTCTCC
75404360 CTATTTTGCTA
1 CTATTTTGCTA
*
75404371 CTATTTTACTA
1 CTATTTTGCTA
* *
75404382 TTATGTTGCTA
1 CTATTTTGCTA
75404393 CTATTTTG
1 CTATTTTG
75404401 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:75406187 original size:18 final size:18
Alignment explanation
Indices: 75406151--75406188 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
75406141 TGCCAGGTAC
*
75406151 GTATCCTAGCCCTTATAT
1 GTATCCTACCCCTTATAT
75406169 GTATCCTAACCCCTT-TAT
1 GTATCCT-ACCCCTTATAT
75406187 GT
1 GT
75406189 TTTCTTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTACCCCTTATAT
Found at i:75406888 original size:129 final size:128
Alignment explanation
Indices: 75406591--75406966 Score: 594
Period size: 128 Copynumber: 2.9 Consensus size: 128
75406581 TGTAGAAACT
* *
75406591 TTTTTTATATAG-TTTCATATAATAAAATAAAAGTCGTTTTTAATATTTTAATTGTACTTTACTT
1 TTTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
* *
75406655 TTTTTAATTTTATTAAAATAAATATTCTTTTAAATTAGCCAATATTTTTAGTATTTTATATTTA
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTATATTTA
* *
75406719 TTTTTTATATAGTTTTAATTAACAAAATAAAAGTTATTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* *
75406784 TTTTAATTTTATTAAAATAAATGTTCTTTGAAATTATCCAATATTTTTATTATTTTTATATTTA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA-TTTTATATTTA
*
75406848 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGAACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC-TT
* *
75406913 TTTTTAATTTTA-AAACAATAAATGTTCTTTTAAGTTAGCCAATAATTTTTATTA
65 TTTTTAATTTTATTAA-AATAAATGTTCTTTTAAATTAGCCAAT-ATTTTTATTA
75406967 AAATAAATGT
Statistics
Matches: 228, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
128 103 0.45
129 77 0.34
130 38 0.17
131 10 0.04
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (128 bp):
TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTATATTTA
Found at i:75407011 original size:10 final size:9
Alignment explanation
Indices: 75406991--75407023 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
75406981 TTGAATACGG
75406991 TAATATTTT
1 TAATATTTT
75407000 TAATATTTTT
1 TAATA-TTTT
75407010 TAATATTTT
1 TAATATTTT
75407019 TAATA
1 TAATA
75407024 AAATATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TAATATTTT
Found at i:75410280 original size:126 final size:126
Alignment explanation
Indices: 75410037--75410312 Score: 421
Period size: 126 Copynumber: 2.2 Consensus size: 126
75410027 TCTAAGCCCA
* * *
75410037 TTTT-AGATACTACTGTAG-AAAAGAGTGTCCATATGGGAGCTTTTTTCCATAATTTTGCTGACA
1 TTTTCAGATACTACTATAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCCATAATTTTGCTGACA
*
75410100 GTGTATCCTTCTTGAAGCGTTTTTGACACTATTAGCTCAGAAACATCTTCTCAAAATTATT
66 GTGCATCCTTCTTGAAGCGTTTTTGACACTATTAGCTCAGAAACATCTTCTCAAAATTATT
* *
75410161 TTTTCAGATACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGACA
1 TTTTCAGATACTACTATAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCCATAATTTTGCTGACA
* * * * * * *
75410226 GTGCATCTTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAACCGTTTTCTCAAAATTATT
66 GTGCATCCTTCTTGAAGCGTTTTTGACACTATTAGCTCAGAAACATCTTCTCAAAATTATT
75410287 TTTTCAGATACTACTATAGCAAAAGA
1 TTTTCAGATACTACTATAGCAAAAGA
75410313 TTAACCCTAA
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
124 4 0.03
125 13 0.09
126 120 0.88
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTTCAGATACTACTATAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCCATAATTTTGCTGACA
GTGCATCCTTCTTGAAGCGTTTTTGACACTATTAGCTCAGAAACATCTTCTCAAAATTATT
Found at i:75411746 original size:11 final size:10
Alignment explanation
Indices: 75411732--75411783 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
75411722 TTTTTTAAAA
75411732 TTATAACTTTT
1 TTATAA-TTTT
75411743 TTATATATTTT
1 TTATA-ATTTT
*
75411754 TTAGAATTTT
1 TTATAATTTT
**
75411764 TT-TAAAATT
1 TTATAATTTT
75411773 TTATAATTTT
1 TTATAATTTT
75411783 T
1 T
75411784 CTTAAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
9 6 0.18
10 13 0.39
11 13 0.39
12 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATAATTTT
Found at i:75413167 original size:28 final size:27
Alignment explanation
Indices: 75413121--75413188 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
75413111 TTTAAAATGT
* *
75413121 CATAAAGAGAATTTAGAATAAATATTA
1 CATAAAAAGAATTTAGAATAAATAATA
*
75413148 CATAAAAAGTAATTTGGAATAAATAATA
1 CATAAAAAG-AATTTAGAATAAATAATA
*
75413176 CATATATAAGAAT
1 CATA-AAAAGAAT
75413189 ACATAACAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.23
28 23 0.66
29 4 0.11
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.29
Consensus pattern (27 bp):
CATAAAAAGAATTTAGAATAAATAATA
Found at i:75420960 original size:5 final size:5
Alignment explanation
Indices: 75420939--75420980 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
75420929 CTGTGTGTTC
75420939 TTTAT TTT-T TATT-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
75420981 CACAAATGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:75426147 original size:16 final size:16
Alignment explanation
Indices: 75426111--75426150 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
75426101 TGAATTACTA
* * *
75426111 ATTAAAGCTTTATTCT
1 ATTACAGCTCTATTCC
75426127 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
75426143 ATTACAGC
1 ATTACAGC
75426151 GAACCAAACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:75426250 original size:16 final size:16
Alignment explanation
Indices: 75426229--75426268 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
75426219 TGAATTATTG
* *
75426229 ATTACAGCTTTATTCT
1 ATTACAGCTCTATTCC
*
75426245 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
75426261 ATTACAGC
1 ATTACAGC
75426269 GAACCAAACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:75426256 original size:118 final size:118
Alignment explanation
Indices: 75426045--75426401 Score: 581
Period size: 118 Copynumber: 3.0 Consensus size: 118
75426035 TCATTTCATT
*
75426045 CAACCAAACATAAGAATATCATTACAATTCTATTCCATTCCATTCAACTAAACAATTGAATTACT
1 CAACCAAACATAAGAATATCATTACAATTCTATTCCATTCCATTCAACCAAACAATTGAATTACT
* *
75426110 AATTAAAGCTTTATTCTATTACAGCTCTATTCCATTACAGCGAACCAAACGTG
66 GATTAAAGCTTTATTCTATTACAACTCTATTCCATTACAGCGAACCAAACGTG
* * * * * *
75426163 CAACCAAACATAAGAATATCATTACAGTTCTATTCGATTTCATCCAACCAAATAATTGAATTATT
1 CAACCAAACATAAGAATATCATTACAATTCTATTCCATTCCATTCAACCAAACAATTGAATTACT
*
75426228 GATTACAGCTTTATTCTATTACAACTCTATTCCATTACAGCGAACCAAACGTG
66 GATTAAAGCTTTATTCTATTACAACTCTATTCCATTACAGCGAACCAAACGTG
75426281 CAACCAAACATAAGAATATCATTACAATTCTATTCCATTCCATTCAACCAAACAATTGAATTACT
1 CAACCAAACATAAGAATATCATTACAATTCTATTCCATTCCATTCAACCAAACAATTGAATTACT
* * *
75426346 GATTATAA-CTTTATTCCATTATAACTCTAATCCATTACAGCGAACCAAACGTG
66 GATTA-AAGCTTTATTCTATTACAACTCTATTCCATTACAGCGAACCAAACGTG
75426399 CAA
1 CAA
75426402 GTGTTTTCTT
Statistics
Matches: 218, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
118 217 1.00
119 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (118 bp):
CAACCAAACATAAGAATATCATTACAATTCTATTCCATTCCATTCAACCAAACAATTGAATTACT
GATTAAAGCTTTATTCTATTACAACTCTATTCCATTACAGCGAACCAAACGTG
Found at i:75426368 original size:16 final size:16
Alignment explanation
Indices: 75426347--75426382 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
75426337 TGAATTACTG
* *
75426347 ATTATAACTTTATTCC
1 ATTATAACTCTAATCC
75426363 ATTATAACTCTAATCC
1 ATTATAACTCTAATCC
75426379 ATTA
1 ATTA
75426383 CAGCGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTATAACTCTAATCC
Found at i:75430992 original size:21 final size:22
Alignment explanation
Indices: 75430959--75430999 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
75430949 CATTATTATA
*
75430959 AAGTTGATCAACTAACGATGCC
1 AAGTCGATCAACTAACGATGCC
75430981 AAGTCGAT-AACTAACGATG
1 AAGTCGATCAACTAACGATG
75431000 ACAAAATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (22 bp):
AAGTCGATCAACTAACGATGCC
Found at i:75443949 original size:39 final size:38
Alignment explanation
Indices: 75443890--75443963 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
75443880 GTTACCAAAC
* *
75443890 ATTTGCCATATTAACTCATTTGATCATGATTTAATTAAT
1 ATTTACCATATTAACACATTT-ATCATGATTTAATTAAT
*
75443929 ATTTACCATATTAACACATTTATCTTGATTTAATT
1 ATTTACCATATTAACACATTTATCATGATTTAATT
75443964 CCTTTCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 13 0.41
39 19 0.59
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.47
Consensus pattern (38 bp):
ATTTACCATATTAACACATTTATCATGATTTAATTAAT
Found at i:75445013 original size:22 final size:21
Alignment explanation
Indices: 75444981--75445036 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
75444971 TTTAAACATT
75444981 AAAATAGAAAGGAAACCTTAA
1 AAAATAGAAAGGAAACCTTAA
**
75445002 AAAACTAGAAAGGAAAGGTTAAA
1 AAAA-TAGAAAGGAAACCTT-AA
75445025 AAAATAGAAAGG
1 AAAATAGAAAGG
75445037 GTTGCGTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 4 0.13
22 21 0.68
23 6 0.19
ACGTcount: A:0.62, C:0.05, G:0.20, T:0.12
Consensus pattern (21 bp):
AAAATAGAAAGGAAACCTTAA
Found at i:75451222 original size:45 final size:45
Alignment explanation
Indices: 75451158--75451246 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
75451148 TGCATGGTAG
75451158 AACTTATTCCTGGTATGTATTCTCCCATGTTCTGTCCCATGTTAC
1 AACTTATTCCTGGTATGTATTCTCCCATGTTCTGTCCCATGTTAC
*
75451203 AACTTATTCCT-GTCATGTATTCTCCCATGTTCTGTCCTATGTTA
1 AACTTATTCCTGGT-ATGTATTCTCCCATGTTCTGTCCCATGTTA
75451247 AGTGGTTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 2 0.05
45 40 0.95
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.44
Consensus pattern (45 bp):
AACTTATTCCTGGTATGTATTCTCCCATGTTCTGTCCCATGTTAC
Found at i:75454701 original size:4 final size:4
Alignment explanation
Indices: 75454694--75454728 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
75454684 TACATACAGA
75454694 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAG
1 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAG
75454729 AGAATGATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:75459748 original size:21 final size:21
Alignment explanation
Indices: 75459722--75459761 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
75459712 CCCCCATTGG
*
75459722 TACAAATCTATAAT-AAAATAA
1 TACAAA-CTAAAATGAAAATAA
75459743 TACAAACTAAAATGAAAAT
1 TACAAACTAAAATGAAAAT
75459762 TGATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (21 bp):
TACAAACTAAAATGAAAATAA
Found at i:75460019 original size:36 final size:35
Alignment explanation
Indices: 75459972--75460039 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
75459962 AAACCTTTAA
*
75459972 TAATTTAATTTAATGTAAAATTTTAAAAAATAACAG
1 TAATTTAATTTAATGTAAAA-TTAAAAAAATAACAG
* *
75460008 TAATTTAATTTAGTTTAAAATTAAAAAAATAA
1 TAATTTAATTTAATGTAAAATTAAAAAAATAA
75460040 GTAACCTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 11 0.38
36 18 0.62
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (35 bp):
TAATTTAATTTAATGTAAAATTAAAAAAATAACAG
Found at i:75462556 original size:51 final size:51
Alignment explanation
Indices: 75462485--75462652 Score: 210
Period size: 51 Copynumber: 3.2 Consensus size: 51
75462475 CTGATCACAT
* *
75462485 TTATCACTTGTCAGTGATCAGATAAGTGTAGCTAAATCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
75462536 TTATCACTTGTCACTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * *
75462587 TTGCCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TT---A----TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
75462645 TTGTCACT
1 TTATCACT
75462653 GATCAGAAGT
Statistics
Matches: 102, Mismatches: 8, Indels: 14
0.82 0.06 0.11
Matches are distributed among these distances:
51 55 0.54
54 1 0.01
58 46 0.45
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:75462588 original size:58 final size:58
Alignment explanation
Indices: 75462526--75462657 Score: 192
Period size: 58 Copynumber: 2.3 Consensus size: 58
75462516 CTAAATCTAC
* * *
75462526 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGTTAAAGCTACCACTTAT
1 CACTTGTCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* * * *
75462584 CACTTGCCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
1 CACTTGTCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
*
75462642 CACTTGTCACTGATCA
1 CACTTGTCACTTATCA
75462658 GAAGTACTCA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 64 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (58 bp):
CACTTGTCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:75465439 original size:21 final size:21
Alignment explanation
Indices: 75465410--75465451 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
75465400 ATCAAAACAA
* *
75465410 AATAGTTTTACCTTTTAACTT
1 AATAATTTTAACTTTTAACTT
75465431 AATAATTTTAACTTTTAACTT
1 AATAATTTTAACTTTTAACTT
75465452 TAGAAAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.52
Consensus pattern (21 bp):
AATAATTTTAACTTTTAACTT
Found at i:75465811 original size:19 final size:19
Alignment explanation
Indices: 75465750--75465826 Score: 77
Period size: 19 Copynumber: 4.1 Consensus size: 19
75465740 CAAAATTATT
**
75465750 ATTTTATAAAATTTTTAAA
1 ATTTTATAATTTTTTTAAA
* *
75465769 A-TTTA-ACTTTTTTTATAT
1 ATTTTATAATTTTTTTA-AA
*
75465787 ATTTTTTAGATTTTTTTAAA
1 ATTTTATA-ATTTTTTTAAA
75465807 ATTTTATAATTTTTTTAAA
1 ATTTTATAATTTTTTTAAA
75465826 A
1 A
75465827 ATACAAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
17 7 0.15
18 6 0.13
19 16 0.35
20 9 0.20
21 8 0.17
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (19 bp):
ATTTTATAATTTTTTTAAA
Found at i:75470214 original size:18 final size:18
Alignment explanation
Indices: 75470187--75470227 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
75470177 GTTTTTGTAG
75470187 TTCT-TTCACTAGTTATT
1 TTCTATTCACTAGTTATT
75470204 TTCTATTCACTAGTTATT
1 TTCTATTCACTAGTTATT
75470222 TTCTAT
1 TTCTAT
75470228 GTACCTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.59
Consensus pattern (18 bp):
TTCTATTCACTAGTTATT
Found at i:75474853 original size:11 final size:11
Alignment explanation
Indices: 75474837--75474865 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
75474827 GTTTAAGTAA
75474837 ATATATATTAT
1 ATATATATTAT
75474848 ATATATATTAT
1 ATATATATTAT
75474859 AT-TATAT
1 ATATATAT
75474866 AATAAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATATATTAT
Found at i:75480671 original size:27 final size:27
Alignment explanation
Indices: 75480641--75480780 Score: 139
Period size: 27 Copynumber: 5.2 Consensus size: 27
75480631 TGACGAAGTT
*
75480641 ACCAGATACAGATATTGTGCCAGTGCC
1 ACCAGATACAGATATTGTGGCAGTGCC
* *
75480668 ACCAGA-ACAGATATATGTAGCAGAGCC
1 ACCAGATACAGATAT-TGTGGCAGTGCC
*
75480695 ACCAGAT-CAGATAATCGTGGCA-TAGCC
1 ACCAGATACAGAT-ATTGTGGCAGT-GCC
*
75480722 ACCAGA-ACAGATATATGTGGCAGAGCC
1 ACCAGATACAGATAT-TGTGGCAGTGCC
75480749 ACCAGAT-CAGATAATTGTGGCA-TAGCC
1 ACCAGATACAGAT-ATTGTGGCAGT-GCC
75480776 ACCAG
1 ACCAG
75480781 GACGCTTCCT
Statistics
Matches: 94, Mismatches: 9, Indels: 20
0.76 0.07 0.16
Matches are distributed among these distances:
26 10 0.11
27 80 0.85
28 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (27 bp):
ACCAGATACAGATATTGTGGCAGTGCC
Found at i:75480724 original size:54 final size:54
Alignment explanation
Indices: 75480665--75480780 Score: 214
Period size: 54 Copynumber: 2.1 Consensus size: 54
75480655 TTGTGCCAGT
75480665 GCCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCGTGGCATA
1 GCCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCGTGGCATA
* *
75480719 GCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATA
1 GCCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCGTGGCATA
75480773 GCCACCAG
1 GCCACCAG
75480781 GACGCTTCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.16
Consensus pattern (54 bp):
GCCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCGTGGCATA
Found at i:75482431 original size:26 final size:26
Alignment explanation
Indices: 75482400--75482507 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
75482390 TGAGATGCCC
*
75482400 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
75482426 ATCATGGAACATTTGCCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
75482452 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
75482478 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75482504 ATCA
1 ATCA
75482508 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:75487813 original size:27 final size:27
Alignment explanation
Indices: 75487765--75487923 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
75487755 ACGAGGCTAC
* *
75487765 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
75487792 CAGATATTGTGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAGAGCCACCAGATA
75487818 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
75487845 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
75487872 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
75487899 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
75487924 GATGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 11 0.10
27 98 0.85
28 6 0.05
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:75487923 original size:54 final size:54
Alignment explanation
Indices: 75487783--75487923 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
75487773 GTGACGAAGT
* *
75487783 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAAAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
75487837 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
75487891 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
75487924 GATGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:75488100 original size:28 final size:26
Alignment explanation
Indices: 75488029--75488102 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
75488019 AAATTAACCC
* * *
75488029 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTCCACA
* *
75488055 TAGGGGTATAACAATAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
*
75488083 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
75488103 AGCTACTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 19 0.50
28 19 0.50
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:75488361 original size:16 final size:15
Alignment explanation
Indices: 75488340--75488369 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
75488330 AAAATACCGA
75488340 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
75488356 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
75488370 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:75489575 original size:26 final size:26
Alignment explanation
Indices: 75489544--75489651 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
75489534 TGAAATACCC
75489544 ATCATGGAACATTTACCTTAA-CCATT
1 ATCATGGAACATTTACC-TAACCCATT
75489570 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
75489596 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
75489622 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75489648 ATCA
1 ATCA
75489652 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:75490114 original size:21 final size:21
Alignment explanation
Indices: 75490088--75490128 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
75490078 TGGACCAGGT
75490088 CAGTATATGTATACGTGTAAG
1 CAGTATATGTATACGTGTAAG
*
75490109 CAGTATATGTATATGTGTAA
1 CAGTATATGTATACGTGTAA
75490129 TACCGTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (21 bp):
CAGTATATGTATACGTGTAAG
Found at i:75490697 original size:5 final size:6
Alignment explanation
Indices: 75490622--75490701 Score: 54
Period size: 6 Copynumber: 12.0 Consensus size: 6
75490612 TAAACAAAAT
*
75490622 AAAGAA AAA-AA GAATAGAA AAAGAA ATAAGAA GAATGAA TAAAGAAGA
1 AAAGAA AAAGAA -AA-AGAA AAAGAA A-AAGAA -AAAGAA -AAAG-A-A
*
75490670 AAAGGGAG AAAGAA AAAGAA AAAGAA AAAGAA
1 AAA--GAA AAAGAA AAAGAA AAAGAA AAAGAA
75490702 GGAGAAAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
5 2 0.03
6 30 0.50
7 15 0.25
8 10 0.17
9 2 0.03
10 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:75491886 original size:21 final size:21
Alignment explanation
Indices: 75491837--75491893 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
75491827 AGTGTACGGC
75491837 CTGTAG-CTGTCCTGTATAAGG
1 CTGTAGCCT-TCCTGTATAAGG
75491858 CTGTAGCCTTCCTGTATAAGG
1 CTGTAGCCTTCCTGTATAAGG
* *
75491879 CTTTAGCCTTTCTGT
1 CTGTAGCCTTCCTGT
75491894 GATACTTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (21 bp):
CTGTAGCCTTCCTGTATAAGG
Found at i:75500023 original size:19 final size:19
Alignment explanation
Indices: 75500001--75500068 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
75499991 AAGTGAAGGA
75500001 TTAAATAAGCAATTAATCC
1 TTAAATAAGCAATTAATCC
* ***
75500020 TTAAATAA-CAAAAAGTGAAGGA
1 TTAAATAAGC---AA-TTAATCC
75500042 TTAAATAAGCAATTAATCC
1 TTAAATAAGCAATTAATCC
75500061 TTAAATAA
1 TTAAATAA
75500069 CAAGTGTGCG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 2 0.06
21 2 0.06
22 11 0.31
23 1 0.03
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.28
Consensus pattern (19 bp):
TTAAATAAGCAATTAATCC
Found at i:75500038 original size:41 final size:41
Alignment explanation
Indices: 75499988--75500071 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
75499978 TTGATTAAAG
75499988 AAAAAGTGAAGGATTAAATAAGCAATTAATCCTTAAATAAC
1 AAAAAGTGAAGGATTAAATAAGCAATTAATCCTTAAATAAC
75500029 AAAAAGTGAAGGATTAAATAAGCAATTAATCCTTAAATAAC
1 AAAAAGTGAAGGATTAAATAAGCAATTAATCCTTAAATAAC
75500070 AA
1 AA
75500072 GTGTGCGGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.24
Consensus pattern (41 bp):
AAAAAGTGAAGGATTAAATAAGCAATTAATCCTTAAATAAC
Found at i:75500384 original size:48 final size:48
Alignment explanation
Indices: 75500313--75500408 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
75500303 ACTTTTGTCG
75500313 CCGGAATAGGGTTACAAGGTATTACCGATTAAAATATAACTCAGATCA
1 CCGGAATAGGGTTACAAGGTATTACCGATTAAAATATAACTCAGATCA
75500361 CCGGAAGT-GGGTTACAAGGTATTACCGATTAAAATATAACTCAGATCA
1 CCGGAA-TAGGGTTACAAGGTATTACCGATTAAAATATAACTCAGATCA
75500409 AATTCGATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (48 bp):
CCGGAATAGGGTTACAAGGTATTACCGATTAAAATATAACTCAGATCA
Found at i:75507041 original size:24 final size:24
Alignment explanation
Indices: 75507013--75507058 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
75507003 TTTGACACTC
75507013 TAATCACAAACTCAGTAGACTCTT
1 TAATCACAAACTCAGTAGACTCTT
75507037 TAATCACAAACTCAGTAGACTC
1 TAATCACAAACTCAGTAGACTC
75507059 AACAGGTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (24 bp):
TAATCACAAACTCAGTAGACTCTT
Found at i:75515509 original size:26 final size:27
Alignment explanation
Indices: 75515480--75515533 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
75515470 TTGAGTTAAT
*
75515480 AAATTCTC-TGAGGTTTTCTTTT-CAAG
1 AAATTCTCTTGA-GTTTTATTTTACAAG
*
75515506 AAATTTTCTTGAGTTTTATTTTACAAG
1 AAATTCTCTTGAGTTTTATTTTACAAG
75515533 A
1 A
75515534 GTTTTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (27 bp):
AAATTCTCTTGAGTTTTATTTTACAAG
Found at i:75516740 original size:39 final size:39
Alignment explanation
Indices: 75516685--75516763 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
75516675 AATATTGTTG
*
75516685 TTAGGTCAAAGTTACTGGTAATTGCTGCTCTGTATGATC
1 TTAGGTCAAAGCTACTGGTAATTGCTGCTCTGTATGATC
*
75516724 TTAGGTCAAAGCTACTGGTAATTGCTGCTTTGTATGATC
1 TTAGGTCAAAGCTACTGGTAATTGCTGCTCTGTATGATC
75516763 T
1 T
75516764 AACCCTTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (39 bp):
TTAGGTCAAAGCTACTGGTAATTGCTGCTCTGTATGATC
Found at i:75520795 original size:55 final size:54
Alignment explanation
Indices: 75520679--75520867 Score: 200
Period size: 55 Copynumber: 3.5 Consensus size: 54
75520669 GTTTAAGGAT
* * * *
75520679 ACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTCTACAAGGCAAAGAA
1 ACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAAGAA
* * * * *
75520733 ATCATGTAAGACCATGTCAAGACATGGCATTGATAAATTACTATAAGGCAAAGAG
1 ACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGCAAAGAA
* * * * * *
75520788 CCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAGGAT
1 ACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAAGAA
* * *
75520841 ACCACGTAAGACCATGTCAAAACATGG
1 ACCATGTAAGACCATGCCAAGACATGG
75520868 AACTTGTAAG
Statistics
Matches: 110, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 33 0.30
54 33 0.30
55 44 0.40
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.19
Consensus pattern (54 bp):
ACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAAGAA
Found at i:75522181 original size:45 final size:45
Alignment explanation
Indices: 75522117--75522207 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
75522107 ATTTTTTATG
75522117 CTCTGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTCGACTC
1 CTCTGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTCGACTC
75522162 CTCTGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTCGACTC
1 CTCTGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTCGACTC
75522207 C
1 C
75522208 GGCAACGGTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (45 bp):
CTCTGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTCGACTC
Found at i:75523639 original size:19 final size:20
Alignment explanation
Indices: 75523596--75523639 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
75523586 TAAAAACAAA
*
75523596 ATAATTAGGATTAATTAATC
1 ATAATTAGGATTAATTAAAC
* *
75523616 CTAATTA-GTTTAATTAAAC
1 ATAATTAGGATTAATTAAAC
75523635 ATAAT
1 ATAAT
75523640 GAAGAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
ATAATTAGGATTAATTAAAC
Found at i:75534786 original size:40 final size:40
Alignment explanation
Indices: 75534645--75534782 Score: 242
Period size: 40 Copynumber: 3.5 Consensus size: 40
75534635 AACCCAAGTA
*
75534645 CCTTCGGGAATTAG-CCGGATATAGCAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAATTG
*
75534684 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAATTG
*
75534724 CCTTCGGGACTTAGCCCGGTTATAGCAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAATTG
75534764 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
75534783 TTATCATCCG
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 13 0.14
40 81 0.86
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAATTG
Found at i:75536311 original size:13 final size:13
Alignment explanation
Indices: 75536293--75536318 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75536283 ATTTTTATTT
75536293 TTAACATAAAATA
1 TTAACATAAAATA
75536306 TTAACATAAAATA
1 TTAACATAAAATA
75536319 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:75556276 original size:11 final size:11
Alignment explanation
Indices: 75556260--75556285 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
75556250 GATATTAATT
75556260 ATATTATAAAA
1 ATATTATAAAA
75556271 ATATTATAAAA
1 ATATTATAAAA
75556282 ATAT
1 ATAT
75556286 AAAGGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATTATAAAA
Found at i:75556533 original size:13 final size:13
Alignment explanation
Indices: 75556515--75556539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75556505 GAATCTCAAA
75556515 AAAAAATAAAAAT
1 AAAAAATAAAAAT
75556528 AAAAAATAAAAA
1 AAAAAATAAAAA
75556540 CAGAAATGAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:75567266 original size:29 final size:27
Alignment explanation
Indices: 75567217--75567270 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
75567207 AAGTATACTC
* *
75567217 TTTTTTTTTCATTTTGTTACCTAAACT
1 TTTTTTTTTCATATTGATACCTAAACT
75567244 TTTTTTTTGTCCATATTGATACCTAAA
1 TTTTTTTT-T-CATATTGATACCTAAA
75567271 GTATGCATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
28 1 0.04
29 14 0.61
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57
Consensus pattern (27 bp):
TTTTTTTTTCATATTGATACCTAAACT
Found at i:75571019 original size:10 final size:10
Alignment explanation
Indices: 75571004--75571040 Score: 74
Period size: 10 Copynumber: 3.7 Consensus size: 10
75570994 GCAACCTATT
75571004 AGCCAATATA
1 AGCCAATATA
75571014 AGCCAATATA
1 AGCCAATATA
75571024 AGCCAATATA
1 AGCCAATATA
75571034 AGCCAAT
1 AGCCAAT
75571041 TTATATGGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCCAATATA
Found at i:75572215 original size:20 final size:20
Alignment explanation
Indices: 75572190--75572227 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
75572180 GTCACATATA
75572190 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
75572210 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
75572228 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:75572354 original size:25 final size:25
Alignment explanation
Indices: 75572326--75572374 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
75572316 CTAGAGAACC
*
75572326 AATCACATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
75572351 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
75572375 AATAATAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:75576741 original size:37 final size:37
Alignment explanation
Indices: 75576667--75576741 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
75576657 TCACTCATGT
* ** * *
75576667 TCACCCATGTTCATCTTTGTCTTTGTTTTATACGGAA
1 TCACCCATGTTCATCTTGGTCTTTACTTTACAAGGAA
* *
75576704 TCACCCCTGTTCATCTTGGTCTTTACTTTGCAAGGAA
1 TCACCCATGTTCATCTTGGTCTTTACTTTACAAGGAA
75576741 T
1 T
75576742 TCTCTAAAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (37 bp):
TCACCCATGTTCATCTTGGTCTTTACTTTACAAGGAA
Done.