Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold133
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: 2564099
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17052 characters in sequence are not A, C, G, or T
File 17 of 17
Found at i:2486720 original size:9 final size:9
Alignment explanation
Indices: 2486703--2486736 Score: 54
Period size: 8 Copynumber: 4.0 Consensus size: 9
2486693 TAAATAAAAT
2486703 AAATA-TAA
1 AAATATTAA
2486711 AAATATTAA
1 AAATATTAA
2486720 AAATATT-A
1 AAATATTAA
2486728 AAATATTAA
1 AAATATTAA
2486737 TTAAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 13 0.54
9 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATATTAA
Found at i:2486723 original size:17 final size:17
Alignment explanation
Indices: 2486703--2486736 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2486693 TAAATAAAAT
2486703 AAATATAAAAATATTAA
1 AAATATAAAAATATTAA
*
2486720 AAATATTAAAATATTAA
1 AAATATAAAAATATTAA
2486737 TTAAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATATAAAAATATTAA
Found at i:2486812 original size:38 final size:39
Alignment explanation
Indices: 2486769--2486844 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 39
2486759 AGTCTAATTT
* *
2486769 AATAAAAATATTTTATTTT-TGAATG-AAATTATTAAAAA
1 AATAAAAATA-ATTATTTTATGAATGAAAAATATTAAAAA
*
2486807 AATAAAAATAATTATTTTATGACTGAAAAATATTAAAA
1 AATAAAAATAATTATTTTATGAATGAAAAATATTAAAA
2486845 CATGATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 7 0.21
38 15 0.45
39 11 0.33
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.38
Consensus pattern (39 bp):
AATAAAAATAATTATTTTATGAATGAAAAATATTAAAAA
Found at i:2487300 original size:24 final size:25
Alignment explanation
Indices: 2487273--2487327 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
2487263 ATTAAATTCT
2487273 TTTTTATT-TGTTAA-ATAAATATAA
1 TTTTTATTAT-TTAATATAAATATAA
* *
2487297 TTTTAATTATTTAATATAAATATGA
1 TTTTTATTATTTAATATAAATATAA
2487322 TTTTTA
1 TTTTTA
2487328 ATATAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTTTATTATTTAATATAAATATAA
Found at i:2487314 original size:19 final size:18
Alignment explanation
Indices: 2487290--2487369 Score: 70
Period size: 18 Copynumber: 4.2 Consensus size: 18
2487280 TTGTTAAATA
* *
2487290 AATATAATTTTAATTATTT
1 AATATAAATATAATT-TTT
*
2487309 AATATAAATATGATTTTT
1 AATATAAATATAATTTTT
2487327 AATATAAATATATATTTTATTT
1 AATATAAATATA-A--TT-TTT
**
2487349 TTTATAAATATAATTTTT
1 AATATAAATATAATTTTT
2487367 AAT
1 AAT
2487370 TATTATTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
18 18 0.37
19 15 0.31
21 3 0.06
22 13 0.27
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (18 bp):
AATATAAATATAATTTTT
Found at i:2487348 original size:24 final size:21
Alignment explanation
Indices: 2487287--2487365 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 21
2487277 TATTTGTTAA
* *
2487287 ATAAATATAATTTTAATTATT
1 ATAAATATAATTTTATTTTTT
* *
2487308 -T-AATATAAATATGATTTTTAAT
1 ATAAATAT-AATTTTATTTTT--T
2487330 ATAAATATATATTTTATTTTTT
1 ATAAATATA-ATTTTATTTTTT
2487352 ATAAATATAATTTT
1 ATAAATATAATTTT
2487366 TAATTATTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
19 5 0.11
20 9 0.20
21 5 0.11
22 11 0.24
23 2 0.04
24 14 0.30
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
ATAAATATAATTTTATTTTTT
Found at i:2487355 original size:40 final size:42
Alignment explanation
Indices: 2487278--2487369 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 42
2487268 ATTCTTTTTT
*
2487278 ATTTGTTAA-ATAAATATAATTTTAATTATTTAATATAAATATG
1 ATTT-TTAATATAAATATAATTTTAATTATTT-ATATAAATATA
2487321 ATTTTTAATATAAATATATATTTT-ATT-TTT-TATAAATATA
1 ATTTTTAATATAAATATA-ATTTTAATTATTTATATAAATATA
2487361 ATTTTTAAT
1 ATTTTTAAT
2487370 TATTATTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
40 18 0.39
42 7 0.15
43 16 0.35
44 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (42 bp):
ATTTTTAATATAAATATAATTTTAATTATTTATATAAATATA
Found at i:2487375 original size:22 final size:23
Alignment explanation
Indices: 2487287--2487375 Score: 68
Period size: 22 Copynumber: 4.1 Consensus size: 23
2487277 TATTTGTTAA
2487287 ATAAATAT-A-ATTTTAATTATT
1 ATAAATATAATATTTTAATTATT
*
2487308 -T-AATATAAATATGATTT--TTAAT
1 ATAAATAT-AATAT--TTTAATTATT
* *
2487330 ATAAATAT-ATATTTTATTTTTT
1 ATAAATATAATATTTTAATTATT
2487352 ATAAATATAAT-TTTTAATTATT
1 ATAAATATAATATTTTAATTATT
2487374 AT
1 AT
2487376 TTAACATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 19
0.69 0.06 0.25
Matches are distributed among these distances:
19 5 0.09
20 4 0.08
21 1 0.02
22 32 0.60
23 3 0.06
24 8 0.15
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
ATAAATATAATATTTTAATTATT
Found at i:2487384 original size:29 final size:29
Alignment explanation
Indices: 2487352--2487482 Score: 133
Period size: 29 Copynumber: 4.5 Consensus size: 29
2487342 TTTATTTTTT
2487352 ATAAATATAATTTTTAATTATTATTTAAC
1 ATAAATATAATTTTTAATTATTATTTAAC
**
2487381 ATAAA-ATATATTTTTAATT-TATATTTTATT
1 ATAAATATA-ATTTTTAATTAT-TA-TTTAAC
* * * *
2487411 ATAACTATAA-TTTTAATAATTCCTTTAAT
1 ATAAATATAATTTTTAATTATT-ATTTAAC
* *
2487440 ATAAATATAACTTTTAATTATTATTCAAC
1 ATAAATATAATTTTTAATTATTATTTAAC
2487469 ATAAATATAATTTT
1 ATAAATATAATTTT
2487483 ATTTATATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
28 4 0.05
29 56 0.67
30 20 0.24
31 3 0.04
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (29 bp):
ATAAATATAATTTTTAATTATTATTTAAC
Found at i:2487389 original size:58 final size:58
Alignment explanation
Indices: 2487327--2487449 Score: 135
Period size: 58 Copynumber: 2.1 Consensus size: 58
2487317 TATGATTTTT
*
2487327 AATATAAATATATATTT-TATTTT-TTATAAATATAATTTTTAATTATT-ATTTAACATAA
1 AATATAAATATA-ATTTATATTTTATTATAAATATAA-TTTTAATAATTCATTTAACAT-A
** * * * *
2487385 AATATATTTTTAATTTATATTTTATTATAACTATAATTTTAATAATTCCTTTAATATA
1 AATATAAATATAATTTATATTTTATTATAAATATAATTTTAATAATTCATTTAACATA
2487443 AATATAA
1 AATATAA
2487450 CTTTTAATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
57 4 0.07
58 32 0.59
59 18 0.33
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (58 bp):
AATATAAATATAATTTATATTTTATTATAAATATAATTTTAATAATTCATTTAACATA
Found at i:2487438 original size:59 final size:57
Alignment explanation
Indices: 2487340--2487482 Score: 146
Period size: 59 Copynumber: 2.5 Consensus size: 57
2487330 ATAAATATAT
* *
2487340 ATTTTATTTTTTATAAATATAATTTTTAATTATTATTTAACATAAA-ATATATTTTTA
1 ATTTTATTTTTTATAAATATAATTTTTAATAATTATTTAACATAAATATA-ACTTTTA
* * *
2487397 ATTTATATTTTATTATAACTATAA-TTTTAATAATTCCTTTAATATAAATATAACTTTTA
1 ATTT-TATTTT-TTATAAATATAATTTTTAATAATT-ATTTAACATAAATATAACTTTTA
****
2487456 ATTATTATTCAACATAAATATAATTTT
1 ATT-TTATTTTTTATAAATATAATTTT
2487483 ATTTATATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
57 4 0.06
58 25 0.36
59 37 0.53
60 4 0.06
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (57 bp):
ATTTTATTTTTTATAAATATAATTTTTAATAATTATTTAACATAAATATAACTTTTA
Found at i:2488939 original size:25 final size:25
Alignment explanation
Indices: 2488911--2488961 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
2488901 TATGAATGAT
2488911 TATTA-AATACTCATATATTATAATA
1 TATTAGAATA-TCATATATTATAATA
* *
2488936 TATTAGCATATTATATATTATAATA
1 TATTAGAATATCATATATTATAATA
2488961 T
1 T
2488962 CAATAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (25 bp):
TATTAGAATATCATATATTATAATA
Found at i:2488952 original size:20 final size:22
Alignment explanation
Indices: 2488929--2488976 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
2488919 ACTCATATAT
*
2488929 TATAATATATTAGC-ATA-TTA
1 TATAATATAATAGCAATAGTTA
* *
2488949 TATATTATAATATCAATAGTTA
1 TATAATATAATAGCAATAGTTA
2488971 TATAAT
1 TATAAT
2488977 TATGCAGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 11 0.50
21 3 0.14
22 8 0.36
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (22 bp):
TATAATATAATAGCAATAGTTA
Found at i:2489377 original size:29 final size:29
Alignment explanation
Indices: 2489326--2489392 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
2489316 ATTTTACTCA
* * *
2489326 AAATTTAACATATGTGATCTATA-TGAAT
1 AAATATAAAATATGTGATCTATATTAAAT
2489354 AGAATATAAAATATGATGA-CTATATTAAAT
1 A-AATATAAAATATG-TGATCTATATTAAAT
2489384 AAATATAAA
1 AAATATAAA
2489393 TTATATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 1 0.03
29 24 0.73
30 8 0.24
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.34
Consensus pattern (29 bp):
AAATATAAAATATGTGATCTATATTAAAT
Found at i:2489401 original size:19 final size:20
Alignment explanation
Indices: 2489374--2489411 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
2489364 ATATGATGAC
2489374 TATATTAAATAAA-TATAAAT
1 TATATTAAA-AAATTATAAAT
2489394 TATA-TAAAAAATTATAAA
1 TATATTAAAAAATTATAAA
2489412 AATATGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 10 0.59
20 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TATATTAAAAAATTATAAAT
Found at i:2489786 original size:31 final size:31
Alignment explanation
Indices: 2489748--2489808 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2489738 TAAAATTATT
* *
2489748 ATATATTTAATGTTACGGTATTACTATATAA
1 ATATATTTAACGTTACGATATTACTATATAA
* *
2489779 ATATATTTTACGTTACTATATTACTATATA
1 ATATATTTAACGTTACGATATTACTATATA
2489809 TTTTATGTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.48
Consensus pattern (31 bp):
ATATATTTAACGTTACGATATTACTATATAA
Found at i:2489794 original size:23 final size:25
Alignment explanation
Indices: 2489768--2489813 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2489758 TGTTACGGTA
2489768 TTACTATA-TA-AATATATTTTACG
1 TTACTATATTACAATATATTTTACG
*
2489791 TTACTATATTACTATATATTTTA
1 TTACTATATTACAATATATTTTA
2489814 TGTCATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (25 bp):
TTACTATATTACAATATATTTTACG
Found at i:2489915 original size:22 final size:22
Alignment explanation
Indices: 2489890--2489948 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 22
2489880 CTAACTTAAT
2489890 TTTTTGTATCTTAAAATTGTTA-
1 TTTTT-TATCTTAAAATTGTTAC
*
2489912 TTTTATTATC-T-AAGTTGTTAC
1 TTTT-TTATCTTAAAATTGTTAC
*
2489933 TTTTTATATTTTAAAA
1 TTTTT-TATCTTAAAA
2489949 CTTATTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
20 9 0.31
21 8 0.28
22 9 0.31
23 3 0.10
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTTTTATCTTAAAATTGTTAC
Found at i:2490016 original size:19 final size:20
Alignment explanation
Indices: 2489992--2490030 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
2489982 GAATTAAAAT
2489992 TAATTTGTTATT-AATTTTG
1 TAATTTGTTATTAAATTTTG
* *
2490011 TAATTTTTTTTTAAATTTTG
1 TAATTTGTTATTAAATTTTG
2490031 ACTTACTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TAATTTGTTATTAAATTTTG
Found at i:2498334 original size:23 final size:23
Alignment explanation
Indices: 2498304--2498351 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
2498294 ATAAAAAATG
2498304 AACAACAATGGAGAAAAAGAAGA
1 AACAACAATGGAGAAAAAGAAGA
*
2498327 AACAACAATGGATAAAAAGAAGA
1 AACAACAATGGAGAAAAAGAAGA
2498350 AA
1 AA
2498352 TGAAGAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.67, C:0.08, G:0.19, T:0.06
Consensus pattern (23 bp):
AACAACAATGGAGAAAAAGAAGA
Found at i:2505793 original size:2 final size:2
Alignment explanation
Indices: 2505788--2505822 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2505778 AGTGAAAACA
*
2505788 AT AT AT AT AT AT AT AT CT 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
2505823 AACAAAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2510157 original size:2 final size:2
Alignment explanation
Indices: 2510152--2510184 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2510142 TTTTTTTTAC
2510152 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2510185 CTATTATGTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2512462 original size:13 final size:13
Alignment explanation
Indices: 2512444--2512469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2512434 ACATTTGGTC
2512444 ATGTATCGATACA
1 ATGTATCGATACA
2512457 ATGTATCGATACA
1 ATGTATCGATACA
2512470 TCTTGTATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2512464 original size:33 final size:32
Alignment explanation
Indices: 2512422--2512489 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
2512412 CGTTACAAGC
2512422 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
*
2512455 CAATGTATCGATACATCTTGTATGTATTGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
2512487 CAA
1 CAA
2512490 ACAGTTAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:2512576 original size:13 final size:13
Alignment explanation
Indices: 2512558--2512582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2512548 TACAATGGTC
2512558 ATGTATCGATACA
1 ATGTATCGATACA
2512571 ATGTATCGATAC
1 ATGTATCGATAC
2512583 TGTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2513220 original size:13 final size:13
Alignment explanation
Indices: 2513202--2513227 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2513192 TACACCAAGT
2513202 ATGTATCGATACA
1 ATGTATCGATACA
2513215 ATGTATCGATACA
1 ATGTATCGATACA
2513228 CCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2513246 original size:34 final size:32
Alignment explanation
Indices: 2513184--2513248 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2513174 TAGCCAAACT
**
2513184 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
2513216 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
2513249 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:2514034 original size:19 final size:19
Alignment explanation
Indices: 2514010--2514077 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2514000 AATTCAACAA
2514010 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2514029 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2514044 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2514061 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2514078 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2514049 original size:13 final size:13
Alignment explanation
Indices: 2514031--2514055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2514021 ACATAAGTTT
2514031 TGTATCGATACAA
1 TGTATCGATACAA
2514044 TGTATCGATACA
1 TGTATCGATACA
2514056 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2514053 original size:32 final size:32
Alignment explanation
Indices: 2514012--2514074 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2514002 TTCAACAATT
*
2514012 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2514044 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2514075 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2516642 original size:27 final size:27
Alignment explanation
Indices: 2516612--2516687 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
2516602 TTTCTTCACA
2516612 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
2516639 ATCGGGGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
2516666 TTGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
2516688 GTTTTATTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 26 0.59
28 18 0.41
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:2516717 original size:107 final size:105
Alignment explanation
Indices: 2516563--2516953 Score: 303
Period size: 107 Copynumber: 3.7 Consensus size: 105
2516553 CTATAATCAC
* * *
2516563 GGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAA
1 GGATACTCCAACCCCGGTTTTA-TTCC-AAAAACACCAATTT-TTCACAATCGGGGATACTCCAA
2516628 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTTGAGG
63 CCCCGTTAATCATCGGGGATACTCCAA-CCCGTTATTTTTGAGG
* * *
2516672 GGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTTCACAATCGGGGATACTCCAACC
1 GGATACTCCAACCCCGGTTTTATTCCAAAAACACCAA-TTTTTCACAATCGGGGATACTCCAACC
* * ** * * * *
2516737 CTGGTTTTATTTTC---AAAACGCCAA----TT-TTCCTTTAATCGG
65 C-CG-TTAATCATCGGGGATACTCCAACCCGTTATT--TTTGA--GG
** * * *
2516776 GGATACTCCAACTTCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACC
1 GGATACTCCAACCCCGGTTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
* * * **
2516841 TCGTTATTTCATCGGGGATACTCCAACCTCGTTACTTCCGAGG
65 CCGTTA-ATCATCGGGGATACTCCAACC-CGTTATTTTTGAGG
* * * *** * * *
2516884 GGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCC
1 GGATACTCCAACCCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCC
2516949 CGTTA
66 CGTTA
2516954 TTTTCGAAGG
Statistics
Matches: 216, Mismatches: 48, Indels: 38
0.72 0.16 0.13
Matches are distributed among these distances:
100 2 0.01
101 2 0.01
102 6 0.03
103 4 0.02
104 47 0.22
105 11 0.05
106 14 0.06
107 73 0.34
108 27 0.12
109 25 0.12
110 2 0.01
111 2 0.01
112 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (105 bp):
GGATACTCCAACCCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCGTTATTTTTGAGG
Found at i:2516743 original size:52 final size:51
Alignment explanation
Indices: 2516670--2516840 Score: 161
Period size: 52 Copynumber: 3.3 Consensus size: 51
2516660 TTATTTTTGA
* *
2516670 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTTCACAATC
1 GGGGATACTCCAACCCTGGTTTTATT-CTAAAACACCAATTTTTTCACAATC
* * *
2516722 GGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTT--TAATC
1 GGGGATACTCCAACCCTGGTTTTATTCT-AAAACACCAATTTT--TTCACAATC
* * * *
2516774 GGGGATACTCCAA-CTTCGATTTTATTTCCAAAAATACCAA-TTTTTCACAATC
1 GGGGATACTCCAACCCT-GGTTTTA-TT-CTAAAACACCAATTTTTTCACAATC
*
2516826 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2516841 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 13, Indels: 17
0.76 0.10 0.13
Matches are distributed among these distances:
50 2 0.02
51 3 0.03
52 79 0.81
53 11 0.11
54 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCTGGTTTTATTCTAAAACACCAATTTTTTCACAATC
Found at i:2516859 original size:28 final size:28
Alignment explanation
Indices: 2516823--2516896 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
2516813 ATTTTTCACA
* *
2516823 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
2516851 ATCGGGGATACTCCAACCTCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
***
2516879 CGAGGGGATACTCCAACC
1 ATCGGGGATACTCCAACC
2516897 CCGGCTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:2516886 original size:212 final size:210
Alignment explanation
Indices: 2516498--2516948 Score: 591
Period size: 212 Copynumber: 2.1 Consensus size: 210
2516488 AGTTTCTCAA
* * *
2516498 TTCTCCACAATCGGGGATATTACAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCAC
1 TTCT-CACAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAACACCAATTTTCTATAATCAC
* *
2516563 GGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAA
64 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
* ** *
2516628 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGGTTTT
129 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
* *
2516693 ATTGCTAAAACACTAATT
194 ATTCCCAAAACACTAA-T
* * * * **
2516711 TTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGG
1 TTCTCACAATCGGGGATACTCCAACCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCAC
* *
2516776 GGATACTCCAACTTCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAA
64 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
* * *
2516839 CCTCGTTATTTCATCGGGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
129 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
* * *
2516904 TATTCCCAAAATATTGAT
193 TATTCCCAAAACACTAAT
* *
2516922 TTCTCATAATTGGGGATACTCCAACCC
1 TTCTCACAATCGGGGATACTCCAACCC
2516949 CGTTATTTTC
Statistics
Matches: 207, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
211 55 0.27
212 117 0.57
213 35 0.17
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (210 bp):
TTCTCACAATCGGGGATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCACGG
ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
CCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
TCCCAAAACACTAAT
Found at i:2517002 original size:79 final size:79
Alignment explanation
Indices: 2516853--2517055 Score: 203
Period size: 79 Copynumber: 2.6 Consensus size: 79
2516843 GTTATTTCAT
* * * * *
2516853 CGGGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
2516918 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
2516932 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
2516996 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
2517011 CGGGGATACTCCAGCCCTGTTATTTT-TAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
2517056 TGTTATTATC
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
78 8 0.08
79 93 0.92
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:2529466 original size:1 final size:1
Alignment explanation
Indices: 2529455--2529512 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
2529445 CCTTCTCTTC
* * * * * * *
2529455 AAAAAAGAAAAAAAAAACAAAAAAACAAAAAAACAAAACAAAGAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2529513 TCTGCTTAAG
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:2529511 original size:8 final size:8
Alignment explanation
Indices: 2529465--2529504 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
2529455 AAAAAAGAAA
2529465 AAAAAAAC
1 AAAAAAAC
2529473 AAAAAAAC
1 AAAAAAAC
2529481 AAAAAAAC
1 AAAAAAAC
*
2529489 AAAACAAAG
1 AAAA-AAAC
2529498 AAAAAAA
1 AAAAAAA
2529505 AAGAAAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 23 0.77
9 7 0.23
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2530438 original size:59 final size:58
Alignment explanation
Indices: 2530341--2531557 Score: 1383
Period size: 55 Copynumber: 21.4 Consensus size: 58
2530331 TCTCCTTCCG
*
2530341 CTTTCCAGTCCTCAAAGAGCGGGAC-CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
2530400 CTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2530459 CCTTCAGTCCTCAAAGAGCAGGACACCTTTC----AAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
2530513 TTTTCCAGTCCTCAAAGAGCATGACACCTTTC----AAAGCCCACACAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2530568 TTTTCCAGTCCTCAAAGAGCAGGACACC--TC--TTAAAGCCCACACAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
2530623 CCTTCAGTCCTCAAAGAGCAGGAC-AC---CTTTTAAAGCCCACACAGGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2530677 TTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2530737 CCTTCAGTCCTCAAAGAGCGGGAC-CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2530795 CTTTCAATCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2530854 CCTTCAGTCCTCAAAGAGCAGGACACCTTTC----AAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2530908 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTC----AAAGCCCACACAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
2530963 TTTTCCAGTCCTCAAAGAGCAAGAC-AC---CTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
2531018 CCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
2531077 CCTTCAGTCCTCAAAGAACGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
2531136 CCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGTTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
2531195 CTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTAGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
2531254 CCTTCTGTCCTCAAAGAGTATGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGC-CTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA
* ** *
2531314 CCTTTCAGTCCCCAAAGAGCAGGAC-CC---CTTTCGAAGCCCACACAAGTTGGTGTCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2531369 TTTTTCAGTCCTCAAAGAGCAGGAC-AC---CTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2531424 TTTTTCAGTCCTCAAAGAGCAGGACACC--TC--TTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
2531479 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC----AAAGCCCACACGAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
2531534 CTTTTTACTCCTCAATGAGCAGGA
1 C-TTTCAGTCCTCAAAGAGCAGGA
2531558 TACACTTTAT
Statistics
Matches: 1047, Mismatches: 80, Indels: 66
0.88 0.07 0.06
Matches are distributed among these distances:
51 1 0.00
52 1 0.00
53 3 0.00
54 115 0.11
55 405 0.39
56 6 0.01
57 3 0.00
58 84 0.08
59 361 0.34
60 50 0.05
61 18 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (58 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:2531400 original size:27 final size:27
Alignment explanation
Indices: 2531370--2531509 Score: 63
Period size: 27 Copynumber: 5.1 Consensus size: 27
2531360 TTGGTGTCAT
2531370 TTTTCAGTCCTCAAAGAGCAGGACACC
1 TTTTCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
2531397 TTTTAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTT-CAGTCCTCA-AAG-AGCAGGACACC
2531425 TTTTCAGTCCTCAAAGAGCAGGACACC
1 TTTTCAGTCCTCAAAGAGCAGGACACC
** * * * **
2531452 TCTTAAAGCCCACACAAGTTGGTGG-CACC
1 T-TTTCAGTCCTCA-AAG-AGCAGGACACC
*
2531481 -TTTCAGTCCTCAAAGAGCAGGACGCC
1 TTTTCAGTCCTCAAAGAGCAGGACACC
2531507 TTT
1 TTT
2531510 CAAAGCCCAC
Statistics
Matches: 74, Mismatches: 29, Indels: 20
0.60 0.24 0.16
Matches are distributed among these distances:
25 6 0.08
26 11 0.15
27 21 0.28
28 18 0.24
29 12 0.16
30 6 0.08
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (27 bp):
TTTTCAGTCCTCAAAGAGCAGGACACC
Found at i:2531400 original size:28 final size:28
Alignment explanation
Indices: 2531369--2531452 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 28
2531359 GTTGGTGTCA
2531369 TTTTTCAGTCCTCAAAGAGCAGGACACC
1 TTTTTCAGTCCTCAAAGAGCAGGACACC
** * * * **
2531397 TTTTAAAGCCCACACAAGTTGGTGG-CA--
1 TTTTTCAGTCCTCA-AAG-AGCAGGACACC
2531424 TTTTTCAGTCCTCAAAGAGCAGGACACC
1 TTTTTCAGTCCTCAAAGAGCAGGACACC
2531452 T
1 T
2531453 CTTAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 10 0.27
28 11 0.30
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (28 bp):
TTTTTCAGTCCTCAAAGAGCAGGACACC
Found at i:2532734 original size:21 final size:21
Alignment explanation
Indices: 2532708--2532764 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2532698 AAAATATCCA
2532708 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2532729 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
2532750 AATGTATCGATACAT
1 AATGTATCGATACAT
2532765 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2532845 original size:19 final size:19
Alignment explanation
Indices: 2532821--2532888 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2532811 AATTCAACAA
2532821 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2532840 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2532855 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2532872 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2532889 TTAACTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2532860 original size:13 final size:13
Alignment explanation
Indices: 2532842--2532866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2532832 ACATAAGTTT
2532842 TGTATCGATACAA
1 TGTATCGATACAA
2532855 TGTATCGATACA
1 TGTATCGATACA
2532867 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2532864 original size:32 final size:32
Alignment explanation
Indices: 2532823--2532885 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2532813 TTCAACAATT
*
2532823 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2532855 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2532886 TAATTAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2535547 original size:52 final size:51
Alignment explanation
Indices: 2535454--2535624 Score: 177
Period size: 52 Copynumber: 3.3 Consensus size: 51
2535444 TTATTTCTAA
* *
2535454 GGGGATACTCCAACCCCGGTTTTATTGCTC-AAACACTAATTTTTCCACAATC
1 GGGGATACTCCAA-CCCGGTTTTATT-TTCAAAACACCAATTTTTCCACAATC
* **
2535506 GGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACCC-GGTTTTATTTTCAAAACACCAATTTTTCC-ACAATC
* * *
2535558 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCGGTTTTATTTTC-AAAACACCAATTTTTCCACAATC
* *
2535610 GAGGATACTCTAACC
1 GGGGATACTCCAACC
2535625 TCGTTATTTC
Statistics
Matches: 100, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
51 12 0.12
52 73 0.73
53 11 0.11
54 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTTCCACAATC
Found at i:2535651 original size:184 final size:182
Alignment explanation
Indices: 2535315--2535652 Score: 495
Period size: 184 Copynumber: 1.8 Consensus size: 182
2535305 TTCTCAATTC
*
2535315 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAATTTTCTATAATCAGGGATAC
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACAATTTTCTATAATCAGGGATAC
* * *
2535380 TCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATTCTCCAACCCCGT
66 TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGT
2535445 TATTTCTAAGGGGATACTCCAACCCCGGTTTTATTGCTCAAACACTAATTTT
131 TATTTCTAAGGGGATACTCCAACCCCGGTTTTATTGCTCAAACACTAATTTT
* * *
2535497 TCCACAATCGGGGATACTCCAAC-CCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAA---CAATTTT-CTATAATCAGG
* *
2535561 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCTAAC
61 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
2535624 CTCGTTATTTCATCA-GGGATACTCCAACC
126 CCCGTTATTTC-TAAGGGGATACTCCAACC
2535653 TCGTTACTTC
Statistics
Matches: 139, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
181 2 0.01
182 37 0.27
184 44 0.32
185 22 0.16
186 34 0.24
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (182 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACAATTTTCTATAATCAGGGATAC
TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGT
TATTTCTAAGGGGATACTCCAACCCCGGTTTTATTGCTCAAACACTAATTTT
Found at i:2535670 original size:28 final size:27
Alignment explanation
Indices: 2535612--2535680 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
2535602 TCACAATCGA
* *
2535612 GGATACTCTAACCTCGTTATTTCATCAG
1 GGATACTCCAACCTCGTTACTTCA-CAG
2535640 GGATACTCCAACCTCGTTACTTC-CGAGG
1 GGATACTCCAACCTCGTTACTTCAC-A-G
2535668 GGATACTCCAACC
1 GGATACTCCAACC
2535681 CCGGCTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 35 0.95
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (27 bp):
GGATACTCCAACCTCGTTACTTCACAG
Found at i:2535749 original size:107 final size:107
Alignment explanation
Indices: 2535558--2535757 Score: 242
Period size: 107 Copynumber: 1.9 Consensus size: 107
2535548 TCCTTTAATC
* * * *
2535558 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCTAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
2535623 CCTCGTTATTTCATCAGGGATACTCCAACCTCGTTACTTCCGA
66 CCCCGTTATTTCA-CAGGGATACTCCAACCTCGTTACTTCCGA
* * *** * * *
2535666 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
2535730 CCCCGTTATTTTCGA-AGGGATACTCCAA
66 CCCCGTTA-TTTC-ACAGGGATACTCCAA
2535758 TCCCGATTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
107 51 0.66
108 25 0.32
109 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTCACAGGGATACTCCAACCTCGTTACTTCCGA
Found at i:2535856 original size:78 final size:78
Alignment explanation
Indices: 2535639--2535856 Score: 194
Period size: 78 Copynumber: 2.8 Consensus size: 78
2535629 TATTTCATCA
* * * * * * **
2535639 GGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT-TCCCAAAAT-AT
1 GGGATACTCCAACCCCGTTATTTTCGAAGGGACACTCCAATCCCGATTTTATCT-CC--AATCAT
* * **
2535702 TGATTTCTCATAATTG
63 GGATTTCTCACAACCG
* * * *
2535718 GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTCTAATCATGGA
1 GGGATACTCCAACCCCGTTATTTTCGAAGGGACACTCCAATCCCGATTTTATCTCCAATCATGGA
2535783 TTTCTCACAACCG
66 TTTCTCACAACCG
*
2535796 GGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAA-CCCTG-TTATTATCTCCAATCA
1 GGGATACTCCAACCCCGTTATTTTCGAAGGG-ACACTCCAATCCC-GATT-TTATCTCCAATCA
2535857 AGTCTCAACA
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
77 13 0.11
78 57 0.49
79 45 0.39
80 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (78 bp):
GGGATACTCCAACCCCGTTATTTTCGAAGGGACACTCCAATCCCGATTTTATCTCCAATCATGGA
TTTCTCACAACCG
Found at i:2540223 original size:15 final size:15
Alignment explanation
Indices: 2540203--2540233 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2540193 TAAAAATGTC
*
2540203 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2540218 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2540233 C
1 C
2540234 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2542350 original size:26 final size:26
Alignment explanation
Indices: 2542314--2542377 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
2542304 CATTTTTCTT
2542314 TGTATCGATACATTGTATCGATACAG
1 TGTATCGATACATTGTATCGATACAG
2542340 TGTATCGATACATTGTATCGATACAG
1 TGTATCGATACATTGTATCGATACAG
2542366 TGTATCGATACA
1 TGTATCGATACA
2542378 GGGGGATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (26 bp):
TGTATCGATACATTGTATCGATACAG
Found at i:2542378 original size:13 final size:13
Alignment explanation
Indices: 2542314--2542378 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
2542304 CATTTTTCTT
*
2542314 TGTATCGATACAT
1 TGTATCGATACAG
2542327 TGTATCGATACAG
1 TGTATCGATACAG
*
2542340 TGTATCGATACAT
1 TGTATCGATACAG
2542353 TGTATCGATACAG
1 TGTATCGATACAG
2542366 TGTATCGATACAG
1 TGTATCGATACAG
2542379 GGGGATTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2542545 original size:21 final size:21
Alignment explanation
Indices: 2542499--2542545 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
2542489 AAATCTTTTG
2542499 CAAAA-TACTTGTTTTTCACTT
1 CAAAATTACTTGTTTTTCAC-T
2542520 C-AAATTACTTTGTTTTTCA-T
1 CAAAATTAC-TTGTTTTTCACT
2542540 CAAAAT
1 CAAAAT
2542546 CAGCCTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 5 0.22
21 8 0.35
22 10 0.43
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (21 bp):
CAAAATTACTTGTTTTTCACT
Found at i:2548018 original size:13 final size:13
Alignment explanation
Indices: 2548000--2548063 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
2547990 ATAAACCCTT
*
2548000 TGTATCGATACAC
1 TGTATCGATACAA
*
2548013 TGTATCGATATAA
1 TGTATCGATACAA
*
2548026 TGTATCGATACAC
1 TGTATCGATACAA
2548039 TGTATCGATACAA
1 TGTATCGATACAA
2548052 TGTATCGATACA
1 TGTATCGATACA
2548064 GAGAATGCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2548029 original size:26 final size:26
Alignment explanation
Indices: 2548000--2548063 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
2547990 ATAAACCCTT
*
2548000 TGTATCGATACACTGTATCGATATAA
1 TGTATCGATACACTGTATCGATACAA
2548026 TGTATCGATACACTGTATCGATACAA
1 TGTATCGATACACTGTATCGATACAA
2548052 TGTATCGATACA
1 TGTATCGATACA
2548064 GAGAATGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (26 bp):
TGTATCGATACACTGTATCGATACAA
Found at i:2548395 original size:79 final size:78
Alignment explanation
Indices: 2548264--2548654 Score: 345
Period size: 79 Copynumber: 4.9 Consensus size: 78
2548254 TCAACATCAA
* * * * *
2548264 AAATAACGGGGTTAGAGTATCCCTGATTGTGAAAAATTGGTGTTTTCGAAATAAAACCAAGGTTG
1 AAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTG
* **
2548329 GAATATCTCTTGGG
66 GAGTATC-CTTCAG
* * *
2548343 AAATAACGGGATTAGAGTATCCCCAATTATGAAAAATCGATGTTTTGGAAATAAAAACTAAGGTT
1 AAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAAT-AAAACCAAGGTT
*
2548408 GGAGTATCCTCTCAA
65 GGAGTATCCT-TCAG
* * * ** * * *
2548423 AAATAACGGGATTGGAGCATCCTCGATGGTGAAAAATTGGTGTTTTGAAAATAAAACCGAGGTTG
1 AAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTG
2548488 GAGTAATTCC-TCAG
66 GAGT-A-TCCTTCAG
* * * * * * * * **
2548502 AAATAACAGCG-TCAGAATATCCCCAATAATGAAAAATTGAAGTTTTGGTAATAAAATCGGGGTT
1 AAATAAC-GGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTT
*
2548566 AGAGTATCCTTTCAG
65 GGAGTATCC-TTCAG
* * ** * * * *
2548581 AAATAACGGGGTTGGAGTATCCTTGATTATGAAAAATTGATGTTTTGAAAAGAAAAATCGAGGTT
1 AAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAA-TAAAACCAAGGTT
2548646 GGAGTATCC
65 GGAGTATCC
2548655 CCTCGAAAAT
Statistics
Matches: 249, Mismatches: 54, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
77 3 0.01
78 3 0.01
79 156 0.63
80 84 0.34
81 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (78 bp):
AAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTG
GAGTATCCTTCAG
Found at i:2548668 original size:159 final size:160
Alignment explanation
Indices: 2548260--2548669 Score: 481
Period size: 159 Copynumber: 2.6 Consensus size: 160
2548250 AATTTCAACA
* * *
2548260 TCAAAAATAACGGGGTTAGAGTATCCCTGATTGTGAAAAATTGGTGTTTTCG-AAATAAAACCAA
1 TCAAAAATAACGGGGTTGGAGTATCCTTGATTGTGAAAAATTGGTGTTTT-GAAAATAAAACCGA
* * * * * * * * *
2548324 GGTTGGAATATCTCTTGGGAAATAAC-GGGATTAGAGTATCCCCAATTATGAAAAATCGATGTTT
65 GGTTGGAGTATCTCCTCGAAAATAACAGCGATCAGAATATCCCCAATAATGAAAAATCGAAGTTT
*
2548388 TGGAAATAAAAACTAAGGTTGGAGTATCCTC
130 TGGAAATAAAAACTAAGGTTAGAGTATCCTC
* * * *
2548419 TCAAAAATAACGGGATTGGAGCATCCTCGATGGTGAAAAATTGGTGTTTTGAAAATAAAACCGAG
1 TCAAAAATAACGGGGTTGGAGTATCCTTGATTGTGAAAAATTGGTGTTTTGAAAATAAAACCGAG
*
2548484 GTTGGAGTAAT-TCCTC-AGAAATAACAGCG-TCAGAATATCCCCAATAATGAAAAATTGAAGTT
66 GTTGGAGT-ATCTCCTCGA-AAATAACAGCGATCAGAATATCCCCAATAATGAAAAATCGAAGTT
* * ** *
2548546 TTGGTAATAAAATC-GGGGTTAGAGTATCCTT
129 TTGGAAATAAAAACTAAGGTTAGAGTATCCTC
* * * * *
2548577 TCAGAAATAACGGGGTTGGAGTATCCTTGATTATGAAAAATTGATGTTTTGAAAAGAAAAATCGA
1 TCAAAAATAACGGGGTTGGAGTATCCTTGATTGTGAAAAATTGGTGTTTTGAAAA-TAAAACCGA
*
2548642 GGTTGGAGTATCCCCTCGAAAATAACAG
65 GGTTGGAGTATCTCCTCGAAAATAACAG
2548670 GGTTGGAGTA
Statistics
Matches: 211, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
158 64 0.30
159 142 0.67
160 5 0.02
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (160 bp):
TCAAAAATAACGGGGTTGGAGTATCCTTGATTGTGAAAAATTGGTGTTTTGAAAATAAAACCGAG
GTTGGAGTATCTCCTCGAAAATAACAGCGATCAGAATATCCCCAATAATGAAAAATCGAAGTTTT
GGAAATAAAAACTAAGGTTAGAGTATCCTC
Found at i:2548697 original size:80 final size:79
Alignment explanation
Indices: 2548264--2548718 Score: 296
Period size: 79 Copynumber: 5.7 Consensus size: 79
2548254 TCAACATCAA
* * * * * * *
2548264 AAATAACGGGGTTAGAGTATCC-CTGATTGTGAAAAATTGGTGTTTTCG-AAATAAAACCAAGGT
1 AAATAACAGGGTTGGAGTATCCTC-GATGGTGAAAAATTGATGTTTT-GAAAAAAAAATCGAGGT
* * * **
2548327 TGGAATATCTCTTGGG
64 TGGAGTATCCCCTCAG
* * * ** * * *
2548343 AAATAAC-GGGATTAGAGTATCCCCAATTATGAAAAATCGATGTTTTGGAAATAAAAA-CTAAGG
1 AAATAACAGGG-TTGGAGTATCCTCGATGGTGAAAAATTGATGTTTT-GAAAAAAAAATC-GAGG
* *
2548406 TTGGAGTATCCTCTCAA
63 TTGGAGTATCCCCTCAG
* * * *
2548423 AAATAAC-GGGATTGGAGCATCCTCGATGGTGAAAAATTGGTGTTTTGAAAATAAAACCGAGGTT
1 AAATAACAGGG-TTGGAGTATCCTCGATGGTGAAAAATTGATGTTTTGAAAAAAAAATCGAGGTT
*
2548487 GGAGTAAT-TCCTCAG
65 GGAGT-ATCCCCTCAG
* ** * * * ** * ** * * *
2548502 AAATAACAGCGTCAGAATATCCCCAATAATGAAAAATTGAAGTTTTGGTAATAAAATCGGGGTTA
1 AAATAACAGGGTTGGAGTATCCTCGATGGTGAAAAATTGATGTTTTGAAAAAAAAATCGAGGTTG
**
2548567 GAGTATCCTTTCAG
66 GAGTATCCCCTCAG
* * **
2548581 AAATAACGGGGTTGGAGTATCCTTGATTATGAAAAATTGATGTTTTGAAAAGAAAAATCGAGGTT
1 AAATAACAGGGTTGGAGTATCCTCGATGGTGAAAAATTGATGTTTTGAAAA-AAAAATCGAGGTT
2548646 GGAGTATCCCCTC-G
65 GGAGTATCCCCTCAG
* * * *
2548660 AAAATAACAGGGTTGGAGTATCTTCGATGGT-AGAAAATGGGTGTTTTAAAAATAAAAAT
1 -AAATAACAGGGTTGGAGTATCCTCGATGGTGA-AAAATTGATGTTTTGAAAA-AAAAAT
2548719 ATGAATGAAA
Statistics
Matches: 292, Mismatches: 73, Indels: 21
0.76 0.19 0.05
Matches are distributed among these distances:
78 5 0.02
79 155 0.53
80 132 0.45
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
AAATAACAGGGTTGGAGTATCCTCGATGGTGAAAAATTGATGTTTTGAAAAAAAAATCGAGGTTG
GAGTATCCCCTCAG
Found at i:2551164 original size:50 final size:50
Alignment explanation
Indices: 2551089--2551252 Score: 202
Period size: 50 Copynumber: 3.3 Consensus size: 50
2551079 TACATTGAGA
*
2551089 AATGTATCGATACATTTGGGTAAAACTCAGAATGTATTGATATAATAAAT
1 AATGTATCGATACATTTGGGTAAAACCCAGAATGTATTGATATAATAAAT
* * * * * **
2551139 AATGTATCGATATATCTGGGTAAAACCCAAAATATATCGATATAATGGAT
1 AATGTATCGATACATTTGGGTAAAACCCAGAATGTATTGATATAATAAAT
* * * * *
2551189 AATGTATTGATACATTTAGGTAAAACCCAGAATGTATTAATACAATAAAG
1 AATGTATCGATACATTTGGGTAAAACCCAGAATGTATTGATATAATAAAT
*
2551239 AATGTATTGATACA
1 AATGTATCGATACA
2551253 AATTGTGAAA
Statistics
Matches: 94, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 94 1.00
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (50 bp):
AATGTATCGATACATTTGGGTAAAACCCAGAATGTATTGATATAATAAAT
Found at i:2551243 original size:100 final size:100
Alignment explanation
Indices: 2551069--2551250 Score: 267
Period size: 100 Copynumber: 1.8 Consensus size: 100
2551059 AAAATGCTTG
* * * * *
2551069 AATATATCGATACATTGAGAAATGTATCGATACATTTGGGTAAAACTCAGAATGTATTGATATAA
1 AATATATCGATACAATGAGAAATGTATCGATACATTTAGGTAAAACCCAGAATGTATTAATACAA
*
2551134 TAAATAATGTATCGATATATCTGGGTAAAACCCAA
66 TAAAGAATGTATCGATATATCTGGGTAAAACCCAA
* *
2551169 AATATATCGATATAATG-GATAATGTATTGATACATTTAGGTAAAACCCAGAATGTATTAATACA
1 AATATATCGATACAATGAGA-AATGTATCGATACATTTAGGTAAAACCCAGAATGTATTAATACA
*
2551233 ATAAAGAATGTATTGATA
65 ATAAAGAATGTATCGATA
2551251 CAAATTGTGA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 2 0.03
100 70 0.97
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.32
Consensus pattern (100 bp):
AATATATCGATACAATGAGAAATGTATCGATACATTTAGGTAAAACCCAGAATGTATTAATACAA
TAAAGAATGTATCGATATATCTGGGTAAAACCCAA
Found at i:2556460 original size:146 final size:146
Alignment explanation
Indices: 2556167--2556452 Score: 396
Period size: 146 Copynumber: 1.9 Consensus size: 146
2556157 AGTCACCAAG
* * * *** *
2556167 CTATTGCAATGTGGCCCGACTTTTAAGAACTTTGGACGATTTGAAGGGCCAAAGCGCGCTTGACT
1 CTATCGCAATGTGGCCCGACTTTTAAGAACTTCGGACAATCCAAAGGGCCAAAGCGCGCTCGACT
* * *
2556232 TAAAATAAAAGATAATGATTGTCAATATGAAGGGGTGAAAGACTATCGGACGAATCGCTCATCCT
66 TAAAATAAAAG--AATGATGGTCAATATGAAGGGGTAAAAGACTATCGAACGAATCGCTCATCCT
2556297 ACTAGTCTCGAATGGTCA
129 ACTAGTCTCGAATGGTCA
* *
2556315 CTATCGCAATGTGGCCTTGACTTTTAAGTACTTCGGACAATCCAAAGGGCCAAAGCGCGCTCGAC
1 CTATCGCAATGTGGCC-CGACTTTTAAGAACTTCGGACAATCCAAAGGGCCAAAGCGCGCTCGAC
* *
2556380 TTAAAATAAAAG-ATGATGGTCAATATGCAGGGGTAAAAGACTATCGAATGAATCGCTCATCCTA
65 TTAAAATAAAAGAATGATGGTCAATATGAAGGGGTAAAAGACTATCGAACGAATCGCTCATCCTA
2556444 -TGAGTCTCG
130 CT-AGTCTCG
2556453 GGTGGTCATT
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
145 1 0.01
146 54 0.44
148 15 0.12
149 52 0.43
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (146 bp):
CTATCGCAATGTGGCCCGACTTTTAAGAACTTCGGACAATCCAAAGGGCCAAAGCGCGCTCGACT
TAAAATAAAAGAATGATGGTCAATATGAAGGGGTAAAAGACTATCGAACGAATCGCTCATCCTAC
TAGTCTCGAATGGTCA
Found at i:2557426 original size:79 final size:79
Alignment explanation
Indices: 2557252--2557996 Score: 655
Period size: 79 Copynumber: 9.4 Consensus size: 79
2557242 ATTCCCAATG
* * * * *
2557252 GTGAAAAATTAATGTTTTGGAAATAAAAC-CAGAGTTGGAGTATCCCCTCAGAAATGA-TGGGTT
1 GTGAAAAATTGATGTTTTGAAAATAAAACATAG-GTTGGAGTATCCCCTCAGAAATAACGGGGTT
2557315 GGAGTATCCCCGATT
65 GGAGTATCCCCGATT
* ** *
2557330 GTGAAAAATTGGTGTTTTGAAAATAAAACATAGGTTGGAGTATCCATTCAGAAATAACGGGGTTA
1 GTGAAAAATTGATGTTTTGAAAATAAAACATAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
2557395 GAGTATCCCCGATT
66 GAGTATCCCCGATT
* * * ** *
2557409 GTGAAAAATTGATGTTTTGAAAATAAAAC-TAGGGTTGGAGTATGCGCTCGGAAATAGTGAGGTT
1 GTGAAAAATTGATGTTTTGAAAATAAAACATA-GGTTGGAGTATCCCCTCAGAAATAACGGGGTT
* *
2557473 GGAGTATCCTCAATT
65 GGAGTATCCCCGATT
* * * * *
2557488 ATGAAAAATTGGTGTTTTGGAAATAAAA-ATTGGGGTTGGAGTATCCCTTCAGAAATAACGGGGT
1 GTGAAAAATTGATGTTTTGAAAATAAAACA-T-AGGTTGGAGTATCCCCTCAGAAATAACGGGGT
* * *
2557552 TGAAGCATCCCCGATG
64 TGGAGTATCCCCGATT
* * * * ** * * * * *
2557568 GTGAAAAA-TCAGTATTTTGGACATAAAACCGAGGTTGAAGTATCCCGTCAAAAATAATGGGGTC
1 GTGAAAAATTGA-TGTTTTGAAAATAAAACATAGGTTGGAGTATCCCCTCAGAAATAACGGGGTT
**
2557632 GGAGTATCTTCGATT
65 GGAGTATCCCCGATT
* * * * * * * *
2557647 GTGAAAAATCGGTGTTTTGAAAATAAAA-TTGGGACTGGAGTATCCCCTTAGAAATAACGAGGTC
1 GTGAAAAATTGATGTTTTGAAAATAAAACATAGG-TTGGAGTATCCCCTCAGAAATAACGGGGTT
* * *
2557711 AGAGAATCCCAGATT
65 GGAGTATCCCCGATT
** * *** *
2557726 GT-AGAAAATCAATTTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGTGTT
1 GTGA-AAAATTGATGTTTTGAAAATAAAACATAGGTTGGAGTATCCCCTCAGAAATAACGGGGTT
* *
2557790 GGAGTATCTCCGACT
65 GGAGTATCCCCGATT
* * * ** * *
2557805 GTGGAAAATCGATGTTTTGGAAATAAAATC-GGGGTTGCAGTATCTCCTCAGAAATAACGGGGTT
1 GTGAAAAATTGATGTTTTGAAAATAAAA-CATAGGTTGGAGTATCCCCTCAGAAATAACGGGGTT
2557869 GGAGTATCCCCGATT
65 GGAGTATCCCCGATT
* * *
2557884 GTGAAAAATTGGTGTTTTGAAAATAAAA-ATCAAGGTTGGAGTATCTCCTCAAAAATAACGGGGT
1 GTGAAAAATTGATGTTTTGAAAATAAAACAT--AGGTTGGAGTATCCCCTCAGAAATAACGGGGT
* *
2557948 TGGAATATTCCCGATT
64 TGGAGTATCCCCGATT
* * *
2557964 GTGGAAAATCGGTGTTTT-AGAAATGAAAACATA
1 GTGAAAAATTGATGTTTTGA-AAAT-AAAACATA
2557997 CATGAAATTT
Statistics
Matches: 536, Mismatches: 111, Indels: 38
0.78 0.16 0.06
Matches are distributed among these distances:
78 52 0.10
79 353 0.66
80 125 0.23
81 4 0.01
82 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
GTGAAAAATTGATGTTTTGAAAATAAAACATAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
GAGTATCCCCGATT
Found at i:2557762 original size:158 final size:158
Alignment explanation
Indices: 2557252--2557986 Score: 786
Period size: 158 Copynumber: 4.6 Consensus size: 158
2557242 ATTCCCAATG
* * *
2557252 GTGAAAAATTAATGTTTTGGAAATAAAACCAGAGTTGGAGTATCCCCTCAGAAATGAT-GGGTTG
1 GTGAAAAATTAATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTG
* * * * *
2557316 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACAT-AGGTTGGAGTATCCATTCA
66 GAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAA-TTGGGGTTGGAGTATCCCTTCA
2557380 GAAATAACGGGGTTAGAGTATCCCCGATT
130 GAAATAACGGGGTTAGAGTATCCCCGATT
* * * * * * *
2557409 GTGAAAAATTGATGTTTTGAAAATAAAACTAGGGTTGGAGTATGCGCTCGGAAATAGTGAGGTTG
1 GTGAAAAATTAATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTG
* * * *
2557474 GAGTATC-CTCAATTATGAAAAATTGGTGTTTTGGAAATAAAAATTGGGGTTGGAGTATCCCTTC
66 GAGTATCTC-CGATTGTGAAAAATCGGTGTTTTGAAAAT-AAAATTGGGGTTGGAGTATCCCTTC
* *
2557538 AGAAATAACGGGGTT-GAAGCATCCCCGATG
129 AGAAATAACGGGGTTAG-AGTATCCCCGATT
* * * * * * * * *
2557568 GTGAAAAATCAGTATTTTGGACATAAAACC-GAGGTTGAAGTATCCCGTCAAAAATAATGGGGTC
1 GTGAAAAATTAATGTTTTGAAAATAAAACCAG-GGTTGGAGTATCCCCTCAGAAATAATGGGGTT
* **
2557632 GGAGTATCTTCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATTGGGACTGGAGTATCCCCTT-
65 GGAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATTGGGGTTGGAGTAT-CCCTTC
* * * *
2557696 AGAAATAACGAGGTCAGAGAATCCCAGATT
129 AGAAATAACGGGGTTAGAGTATCCCCGATT
* * * * *
2557726 GT-AGAAAATCAATTTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGTGTT
1 GTGA-AAAATTAATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTT
* * * * * *
2557790 GGAGTATCTCCGACTGTGGAAAATCGATGTTTTGGAAATAAAATCGGGGTTGCAGTATCTCC-TC
65 GGAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATTGGGGTTGGAGTATC-CCTTC
*
2557854 AGAAATAACGGGGTTGGAGTATCCCCGATT
129 AGAAATAACGGGGTTAGAGTATCCCCGATT
** * * * * *
2557884 GTGAAAAATTGGTGTTTTGAAAATAAAAATCAAGGTTGGAGTATCTCCTCAAAAATAACGGGGTT
1 GTGAAAAATTAATGTTTTGAAAAT-AAAACCAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTT
* *
2557949 GGAATAT-TCCCGATTGTGGAAAATCGGTGTTTTAGAAA
65 GGAGTATCT-CCGATTGTGAAAAATCGGTGTTTT-GAAA
2557987 TGAAAACATA
Statistics
Matches: 477, Mismatches: 84, Indels: 31
0.81 0.14 0.05
Matches are distributed among these distances:
157 53 0.11
158 226 0.47
159 195 0.41
160 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (158 bp):
GTGAAAAATTAATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTG
GAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATTGGGGTTGGAGTATCCCTTCAG
AAATAACGGGGTTAGAGTATCCCCGATT
Found at i:2557885 original size:237 final size:233
Alignment explanation
Indices: 2557253--2557943 Score: 742
Period size: 238 Copynumber: 2.9 Consensus size: 233
2557243 TTCCCAATGG
* * * *
2557253 TGAAAAATTAATGTTTTGGAAATAAAACCAGAGTTGGAGTATCCCCTCAGAAATGATGGGTTGGA
1 TGAAAAATTAATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGTTGGA
* * * * * *
2557318 GTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACATAGGTTGGAGTATCCATTCAGAA
66 GTATCCCCGA-TGTGAAAAATCGATGTTTTGGAAATAAAAC-GAGGTTGAAGTATCC-CTCAGAA
* * *
2557383 ATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAACTAGGGTTGGA
128 ATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACTAGGGCTGGA
* * * ** ** *
2557448 GTATGCGCTCGGAAATAGTGAGGTTGGAGTATCCTCAATTA
193 GTATCCCCTCAGAAATAACGAGGTCAGAGAATCCTCAATTA
** ** *
2557489 TGAAAAATTGGTGTTTTGGAAATAAAAATTGGGGTTGGAGTATCCCTTCAGAAATAACGGGGTTG
1 TGAAAAATTAATGTTTTGGAAAT-AAAACCGGGGTTGGAGTATCCCCTCAGAAATAAC-GGGTTG
* * * *
2557554 AAGCATCCCCGATGGTGAAAAATC-AGTATTTTGGACATAAAACCGAGGTTGAAGTATCCCGTCA
64 GAGTATCCCCGAT-GTGAAAAATCGA-TGTTTTGGAAATAAAA-CGAGGTTGAAGTATCCC-TCA
* * * ** * *
2557618 AAAATAATGGGGTCGGAGTATCTTCGATTGTGAAAAATCGGTGTTTTGAAAATAAAA-TTGGGAC
125 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACTAGGG-C
* *
2557682 TGGAGTATCCCCTTAGAAATAACGAGGTCAGAGAATCC-CAGATTG
189 TGGAGTATCCCCTCAGAAATAACGAGGTCAGAGAATCCTCA-ATTA
* * *
2557727 T-AGAAAATCAATTTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGTGTTG
1 TGA-AAAATTAATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGG-GTTG
* * * *
2557791 GAGTATCTCCGACTGTGGAAAATCGATGTTTTGGAAATAAAATCGGGGTTGCAGTATCTCCTCAG
64 GAGTATCCCCGA-TGTGAAAAATCGATGTTTTGGAAATAAAA-CGAGGTTGAAGTATC-CCTCAG
* * *
2557856 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAAATCAAGGTT
126 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACT-AGGGCT
* *
2557921 GGAGTATCTCCTCAAAAATAACG
190 GGAGTATCCCCTCAGAAATAACG
2557944 GGGTTGGAAT
Statistics
Matches: 372, Mismatches: 68, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
236 23 0.06
237 169 0.45
238 177 0.48
239 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (233 bp):
TGAAAAATTAATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGTTGGA
GTATCCCCGATGTGAAAAATCGATGTTTTGGAAATAAAACGAGGTTGAAGTATCCCTCAGAAATA
ACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACTAGGGCTGGAGTA
TCCCCTCAGAAATAACGAGGTCAGAGAATCCTCAATTA
Found at i:2557938 original size:317 final size:315
Alignment explanation
Indices: 2557249--2557996 Score: 859
Period size: 317 Copynumber: 2.4 Consensus size: 315
2557239 TACATTCCCA
* * * *
2557249 ATGGTGAAAAATTAATGTTTTGGAAATAAAACCAGAGTTGGAGTATCCCCTCAGAAATGAT-GGG
1 ATGGTGAAAAATTAGTGTTTTGGAAATAAAACAAG-GTTGGAGTAT-CCCTCAAAAATAATGGGG
* * *
2557313 TTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACATAGGTTGGAGTATCCATT
64 TTGGAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAACATAGGCTGGAGTATCCATT
* * * * ** *
2557378 CAGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAACTAGGG
129 CAGAAATAACGAGGTCAGAGAATCCCAGATTGTGAAAAATCAATGTTTTGAAAATAAAACCAGGG
* * * ** * * *
2557443 TTGGAGTATGCGCTCGGAAATAGTGAGGTTGGAGTATCCTCAATTATGAAAAATTGGTGTTTTGG
194 TTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCTCAACTATGAAAAATCGATGTTTTGG
* *
2557508 AAATAAAAATTGGGGTTGGAGTATCCCTTCAGAAATAACGGGGTTGAAGCATCCCCG
259 AAATAAAAATCGGGGTTGCAGTATCCCTTCAGAAATAACGGGGTTGAAGCATCCCCG
* * * * *
2557565 ATGGTGAAAAATCAGTATTTTGGACATAAAACCGAGGTTGAAGTATCCCGTCAAAAATAATGGGG
1 ATGGTGAAAAATTAGTGTTTTGGAAATAAAA-CAAGGTTGGAGTATCCC-TCAAAAATAATGGGG
* * * * *
2557630 TCGGAGTATCTTCGATTGTGAAAAATCGGTGTTTTGAAAATAAAA-TTGGGACTGGAGTATCCCC
64 TTGGAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAACATAGG-CTGGAGTAT-CCA
* *
2557694 TT-AGAAATAACGAGGTCAGAGAATCCCAGATTGT-AGAAAATCAATTTTTTGAAAATAAAACCG
127 TTCAGAAATAACGAGGTCAGAGAATCCCAGATTGTGA-AAAATCAATGTTTTGAAAATAAAACCA
* * *
2557757 GGGTTGGAGTATCCCCTCAGAAATAACG-GTGTTGGAGTAT-CTCCGACTGTGGAAAATCGATGT
191 GGGTTGGAGTATCCCCTCAGAAATAACGAG-GTTGGAGTATCCT-CAACTATGAAAAATCGATGT
* *
2557820 TTTGGAAAT-AAAATCGGGGTTGCAGTATCTCC-TCAGAAATAACGGGGTTGGAGTATCCCCG
254 TTTGGAAATAAAAATCGGGGTTGCAGTATC-CCTTCAGAAATAACGGGGTTGAAGCATCCCCG
* * * *
2557881 ATTGTGAAAAATTGGTGTTTTGAAAATAAAAATCAAGGTTGGAGTATCTCCTCAAAAATAACGGG
1 ATGGTGAAAAATTAGTGTTTTGGAAAT-AAAA-CAAGGTTGGAGTATC-CCTCAAAAATAATGGG
* *
2557946 GTTGGAATAT-TCCCGATTGTGGAAAATCGGTGTTTT-AGAAATGAAAACATA
63 GTTGGAGTATCT-CCGATTGTGAAAAATCGGTGTTTTGA-AAAT-AAAACATA
2557997 CATGAAATTT
Statistics
Matches: 361, Mismatches: 56, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
315 3 0.01
316 120 0.33
317 227 0.63
318 10 0.03
319 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (315 bp):
ATGGTGAAAAATTAGTGTTTTGGAAATAAAACAAGGTTGGAGTATCCCTCAAAAATAATGGGGTT
GGAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAACATAGGCTGGAGTATCCATTCA
GAAATAACGAGGTCAGAGAATCCCAGATTGTGAAAAATCAATGTTTTGAAAATAAAACCAGGGTT
GGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCTCAACTATGAAAAATCGATGTTTTGGAA
ATAAAAATCGGGGTTGCAGTATCCCTTCAGAAATAACGGGGTTGAAGCATCCCCG
Found at i:2559775 original size:183 final size:183
Alignment explanation
Indices: 2559467--2559833 Score: 707
Period size: 183 Copynumber: 2.0 Consensus size: 183
2559457 ATGGTGATGA
2559467 AGATGCAAACAACATGAAAGTATCAAGGAAACATCAAAATCCTAAACTACCACAAACAAAACAAC
1 AGATGCAAACAACATGAAAGTATCAAGGAAACATCAAAATCCTAAACTACCACAAACAAAACAAC
2559532 AAGAATGCATAGAAGTCCTAAGGTGTTTATGAGCATAGCAAGGGACTTCTAAGATGACATTAATG
66 AAGAATGCATAGAAGTCCTAAGGTGTTTATGAGCATAGCAAGGGACTTCTAAGATGACATTAATG
*
2559597 GCCAAAATAGAAACCAAAAGGATTAAGGTAGAGAGGATATACCAAAGAGCTTG
131 GCCAAAACAGAAACCAAAAGGATTAAGGTAGAGAGGATATACCAAAGAGCTTG
* *
2559650 AGATGCAAACAACATGAAAGTATCAAGGAAACATCAAAATCCTAAACTACCATAGACAAAACAAC
1 AGATGCAAACAACATGAAAGTATCAAGGAAACATCAAAATCCTAAACTACCACAAACAAAACAAC
2559715 AAGAATGCATAGAAGTCCTAAGGTGTTTATGAGCATAGCAAGGGACTTCTAAGATGACATTAATG
66 AAGAATGCATAGAAGTCCTAAGGTGTTTATGAGCATAGCAAGGGACTTCTAAGATGACATTAATG
2559780 GCCAAAACAGAAACCAAAAGGATTAAGGTAGAGAGGATATACCAAAGAGCTTG
131 GCCAAAACAGAAACCAAAAGGATTAAGGTAGAGAGGATATACCAAAGAGCTTG
2559833 A
1 A
2559834 ATTTCCCTTG
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 181 1.00
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.18
Consensus pattern (183 bp):
AGATGCAAACAACATGAAAGTATCAAGGAAACATCAAAATCCTAAACTACCACAAACAAAACAAC
AAGAATGCATAGAAGTCCTAAGGTGTTTATGAGCATAGCAAGGGACTTCTAAGATGACATTAATG
GCCAAAACAGAAACCAAAAGGATTAAGGTAGAGAGGATATACCAAAGAGCTTG
Found at i:2560598 original size:50 final size:49
Alignment explanation
Indices: 2560515--2560648 Score: 169
Period size: 50 Copynumber: 2.7 Consensus size: 49
2560505 AAATGGTCCT
* * * * *
2560515 GAATGTATCGATACATTGAGAAATATATTGATACATCTAGGTAAAACCTA
1 GAATGTATCGATACAATGA-AAATGTATCGATACATATAGGTAAAACCCA
*
2560565 GAATGTATCGATACAATGAATAATGTATCGATACATATGGGTAAAACCCA
1 GAATGTATCGATACAATGAA-AATGTATCGATACATATAGGTAAAACCCA
* *
2560615 AAATGTATCGATACAATTAAGAATGTATCGATAC
1 GAATGTATCGATACAATGAA-AATGTATCGATAC
2560649 GAATTGTGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 1 0.01
50 73 0.99
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (49 bp):
GAATGTATCGATACAATGAAAATGTATCGATACATATAGGTAAAACCCA
Found at i:2562708 original size:21 final size:22
Alignment explanation
Indices: 2562683--2562729 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
2562673 GAAAGTCATA
*
2562683 ATATG-AGGATAAAAAATAATT
1 ATATGTAGAATAAAAAATAATT
*
2562704 ATATGTTGAATAAAAAATAATT
1 ATATGTAGAATAAAAAATAATT
2562726 ATAT
1 ATAT
2562730 ATGTTGAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (22 bp):
ATATGTAGAATAAAAAATAATT
Done.