Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 12 of 125
Found at i:3984399 original size:24 final size:22
Alignment explanation
Indices: 3984347--3984406 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 22
3984337 TCTAAATCTT
3984347 AATAATTTTATTTAATTAATAATTA
1 AATAATTTTA-TT--TTAATAATTA
3984372 AATATTATTTTATTTTAATATATT-
1 AATA--ATTTTATTTTAATA-ATTA
3984396 AATAATTTTAT
1 AATAATTTTAT
3984407 ATATTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
22 7 0.22
24 10 0.31
25 7 0.22
26 2 0.06
27 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATAATTTTATTTTAATAATTA
Found at i:3984419 original size:16 final size:16
Alignment explanation
Indices: 3984373--3984432 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 16
3984363 TAATAATTAA
3984373 ATATTATTTTATTTTAAT
1 ATATT-TTTTATTTT-AT
** *
3984391 ATATTAATAATTTTAT
1 ATATTTTTTATTTTAT
3984407 ATATTTTTTA-TTTAT
1 ATATTTTTTATTTTAT
3984422 -TAATTTTTTAT
1 AT-ATTTTTTAT
3984433 ATAATTATCT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 1 0.03
15 13 0.38
16 9 0.26
17 6 0.18
18 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATTTTTTATTTTAT
Found at i:3986139 original size:18 final size:17
Alignment explanation
Indices: 3986118--3986160 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
3986108 GGATGAGAGA
3986118 AAAATAAAGAGGAAAATG
1 AAAATAAA-AGGAAAATG
*
3986136 AAAATGAAAATGAAAATG
1 AAAAT-AAAAGGAAAATG
3986154 AAAATAA
1 AAAATAA
3986161 TGAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 18 0.78
19 3 0.13
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (17 bp):
AAAATAAAAGGAAAATG
Found at i:3986177 original size:6 final size:6
Alignment explanation
Indices: 3986129--3986158 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
3986119 AAATAAAGAG
3986129 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
3986159 AATGAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
GAAAAT
Found at i:3986485 original size:31 final size:34
Alignment explanation
Indices: 3986431--3986493 Score: 96
Period size: 31 Copynumber: 1.9 Consensus size: 34
3986421 ATTACACCGT
*
3986431 TAACGGCAATTAACGTTCAGTGACTAAAATATTA
1 TAACGGCAATTAACGTTAAGTGACTAAAATATTA
3986465 TAAC-GCAA-TAACG-TAAGTGACTAAAATAT
1 TAACGGCAATTAACGTTAAGTGACTAAAATAT
3986494 AACATTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 15 0.54
32 5 0.18
33 4 0.14
34 4 0.14
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (34 bp):
TAACGGCAATTAACGTTAAGTGACTAAAATATTA
Found at i:3988485 original size:17 final size:16
Alignment explanation
Indices: 3988464--3988530 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
3988454 TAAGATAATT
3988464 ATTAAATTAATATTAA
1 ATTAAATTAATATTAA
*
3988480 ATTTAATATAATACTT--
1 ATTAAAT-TAATA-TTAA
* *
3988496 ATTAAGATAAATATTAG
1 ATTAA-ATTAATATTAA
3988513 ATTAAATTTAATATTAA
1 ATTAAA-TTAATATTAA
3988530 A
1 A
3988531 CTTTATTAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
15 2 0.05
16 15 0.38
17 21 0.52
18 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTAAATTAATATTAA
Found at i:3988525 original size:33 final size:32
Alignment explanation
Indices: 3988462--3988525 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
3988452 ATTAAGATAA
* *
3988462 TTATTAAATTAATATTAAATTTAATATAATAC
1 TTATTAAATAAATATTAAATTAAATATAATAC
* *
3988494 TTATTAAGATAAATATTAGATTAAATTTAATA
1 TTATTAA-ATAAATATTAAATTAAATATAATA
3988526 TTAAACTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (32 bp):
TTATTAAATAAATATTAAATTAAATATAATAC
Found at i:3988602 original size:20 final size:21
Alignment explanation
Indices: 3988577--3988615 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
3988567 AACATTAAAT
3988577 TAAATTTAA-TATTAAATTAA
1 TAAATTTAATTATTAAATTAA
3988597 TAAATTTAATTATTAAATT
1 TAAATTTAATTATTAAATT
3988616 TAATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAATTTAATTATTAAATTAA
Found at i:3988613 original size:13 final size:13
Alignment explanation
Indices: 3988570--3988635 Score: 55
Period size: 13 Copynumber: 5.0 Consensus size: 13
3988560 CAAAATAAAC
*
3988570 ATTAAA-TTAAAT
1 ATTAAATTTAATT
*
3988582 -TTAATATTAAATT
1 ATTAA-ATTTAATT
*
3988595 AATAAATTTAATT
1 ATTAAATTTAATT
3988608 ATTAAATTTAATTT
1 ATTAAATTTAA-TT
*
3988622 TTATAAATTTAATT
1 AT-TAAATTTAATT
3988636 TTTTAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
11 4 0.09
12 1 0.02
13 21 0.49
14 8 0.19
15 9 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTAAATTTAATT
Found at i:3988630 original size:15 final size:14
Alignment explanation
Indices: 3988597--3988643 Score: 69
Period size: 15 Copynumber: 3.4 Consensus size: 14
3988587 ATTAAATTAA
*
3988597 TAAATTTAA-TTAT
1 TAAATTTAATTTTT
3988610 TAAATTTAATTTTT
1 TAAATTTAATTTTT
3988624 ATAAATTTAATTTTT
1 -TAAATTTAATTTTT
3988639 TAAAT
1 TAAAT
3988644 ATACTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
13 9 0.29
14 8 0.26
15 14 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAAATTTAATTTTT
Found at i:3988654 original size:29 final size:28
Alignment explanation
Indices: 3988596--3988655 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
3988586 TATTAAATTA
* *
3988596 ATAAATTTAATTATTAAATTTAATTTTT
1 ATAAATTTAATTATTAAATATAATTATT
* *
3988624 ATAAATTTAATTTTTTAAATATACTTATT
1 ATAAATTTAA-TTATTAAATATAATTATT
3988653 ATA
1 ATA
3988656 TTATGCGGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
ATAAATTTAATTATTAAATATAATTATT
Found at i:3989228 original size:21 final size:20
Alignment explanation
Indices: 3989193--3989232 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3989183 AATAATAAAA
3989193 ATAAATTTAAAATAAAATAT
1 ATAAATTTAAAATAAAATAT
*
3989213 ATAAATATTAATATAAAATA
1 ATAAAT-TTAAAATAAAATA
3989233 CTATTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAAATTTAAAATAAAATAT
Found at i:3989229 original size:26 final size:25
Alignment explanation
Indices: 3989183--3989232 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
3989173 TTACTATCTT
*
3989183 AATAATAAAAATAAATTTAAAATAA
1 AATAATAAAAATAAATATAAAATAA
* *
3989208 AATATATAAATATTAATATAAAATA
1 AATA-ATAAAAATAAATATAAAATA
3989233 CTATTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
AATAATAAAAATAAATATAAAATAA
Found at i:3994089 original size:78 final size:78
Alignment explanation
Indices: 3993956--3994106 Score: 185
Period size: 78 Copynumber: 1.9 Consensus size: 78
3993946 CAGTCCCAAG
* * *
3993956 AGGAAGCGAACGGCAGCGGAGACTCCACAGATTAACTCACAAAGAATCCGAAGTAGGCCGGTTGT
1 AGGAAGCGAAAGGCAGCAGAGACTCCACAGATTAACTCACAAAGAATACGAAGTAGGCCGGTTGT
3994021 GAATGCCACTTCT
66 GAATGCCACTTCT
* * * ** ** * *
3994034 AGGAAGCGAAAGGCGGTAGAGACTCCACAGATTAGCTCGGAAAGTGTACGCAGTAGGCCTGTTGT
1 AGGAAGCGAAAGGCAGCAGAGACTCCACAGATTAACTCACAAAGAATACGAAGTAGGCCGGTTGT
*
3994099 GAGTGCCA
66 GAATGCCA
3994107 TTTTCAGAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.17
Consensus pattern (78 bp):
AGGAAGCGAAAGGCAGCAGAGACTCCACAGATTAACTCACAAAGAATACGAAGTAGGCCGGTTGT
GAATGCCACTTCT
Found at i:3994702 original size:15 final size:15
Alignment explanation
Indices: 3994684--3994717 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3994674 TTTTATTATT
3994684 TTTTAA-AACATTAAA
1 TTTTAATAA-ATTAAA
3994699 TTTTAATAAATTAAA
1 TTTTAATAAATTAAA
3994714 TTTT
1 TTTT
3994718 GACTTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAATAAATTAAA
Found at i:4008017 original size:29 final size:30
Alignment explanation
Indices: 4007970--4008049 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 30
4007960 CCCTTCAATT
4007970 TTTTTGTAAATTCTCATTAAGC-C-TCTAAAA
1 TTTTTG-AAATTCTCATTAAGCTCGTC-AAAA
* *
4008000 -TTTTGAAAGTTCTAATTATGCTCGTCAAAA
1 TTTTTGAAA-TTCTCATTAAGCTCGTCAAAA
4008030 TTTTTGAAAATTCTCATTAA
1 TTTTTG-AAATTCTCATTAA
4008050 ATCCCCCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
28 3 0.07
29 15 0.37
30 5 0.12
31 15 0.37
32 3 0.07
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.44
Consensus pattern (30 bp):
TTTTTGAAATTCTCATTAAGCTCGTCAAAA
Found at i:4012394 original size:2 final size:2
Alignment explanation
Indices: 4012387--4012415 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4012377 TTAAATCTTT
4012387 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 T
4012416 TAATGCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4012679 original size:28 final size:30
Alignment explanation
Indices: 4012648--4012713 Score: 93
Period size: 28 Copynumber: 2.2 Consensus size: 30
4012638 AAATTTTAAA
4012648 TTAATAAA-AATAAAATTT-ATTTAATT-TT
1 TTAA-AAATAATAAAATTTCATTTAATTCTT
4012676 TTAAAAATAATAAAATTTCGATTTAATTCTT
1 TTAAAAATAATAAAATTTC-ATTTAATTCTT
4012707 TTAAAAA
1 TTAAAAA
4012714 GTATAAAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 3 0.09
28 14 0.41
30 8 0.24
31 9 0.26
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (30 bp):
TTAAAAATAATAAAATTTCATTTAATTCTT
Found at i:4015517 original size:26 final size:28
Alignment explanation
Indices: 4015470--4015532 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
4015460 TCAAGTCTAT
* *
4015470 ATATATTATGATTAATTAA-TTTCAAATA
1 ATATATT-TAATTAATTAATTTTAAAATA
*
4015498 ATATATTTAATT-ATTTATTTTAAAATA
1 ATATATTTAATTAATTAATTTTAAAATA
4015525 A-ATATTTA
1 ATATATTTA
4015533 TATTTTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 11 0.35
27 13 0.42
28 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (28 bp):
ATATATTTAATTAATTAATTTTAAAATA
Found at i:4029958 original size:25 final size:25
Alignment explanation
Indices: 4029925--4029976 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
4029915 GGGGTCTAAA
** *
4029925 TTAAATTTTAATTTTTACGTGAATT
1 TTAAATTTTAAAGTATACGTGAATT
*
4029950 TTAATTTTTAAAGTATACGTGAATT
1 TTAAATTTTAAAGTATACGTGAATT
4029975 TT
1 TT
4029977 CATAAGTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (25 bp):
TTAAATTTTAAAGTATACGTGAATT
Found at i:4032979 original size:26 final size:25
Alignment explanation
Indices: 4032940--4032997 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
4032930 TCAAAATATT
** *
4032940 ATTTTTTAGTTTTTAATGTGCCCAAA
1 ATTTTTTAACTTTTAA-GGGCCCAAA
*
4032966 ATTTTTTAACTTTTAAGGGCTCAAA
1 ATTTTTTAACTTTTAAGGGCCCAAA
4032991 ATTTTTT
1 ATTTTTT
4032998 TTATCAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (25 bp):
ATTTTTTAACTTTTAAGGGCCCAAA
Found at i:4042913 original size:3 final size:3
Alignment explanation
Indices: 4042905--4042939 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4042895 AAAATAGAGC
4042905 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4042940 ACCTTCTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4044326 original size:19 final size:20
Alignment explanation
Indices: 4044304--4044346 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
4044294 TTTCTCAACA
*
4044304 AATTACAAAAAATTCAAA-T
1 AATTACAAAAAAGTCAAAGT
**
4044323 AATTTTAAAAAAGTCAAAGT
1 AATTACAAAAAAGTCAAAGT
4044343 AATT
1 AATT
4044347 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (20 bp):
AATTACAAAAAAGTCAAAGT
Found at i:4044345 original size:20 final size:20
Alignment explanation
Indices: 4044310--4044353 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
4044300 AACAAATTAC
*
4044310 AAAAAATTCAAATAA-TTTT
1 AAAAAAGTCAAATAATTTTT
4044329 AAAAAAGTCAAAGTAATTTTT
1 AAAAAAGTCAAA-TAATTTTT
4044350 AAAA
1 AAAA
4044354 TTTAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 3 0.14
21 8 0.36
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAAAAGTCAAATAATTTTT
Found at i:4044370 original size:18 final size:17
Alignment explanation
Indices: 4044343--4044426 Score: 53
Period size: 19 Copynumber: 4.6 Consensus size: 17
4044333 AAGTCAAAGT
*
4044343 AATTTTTAAAATTTAAA
1 AATTTATAAAATTTAAA
*
4044360 ATATTTATAAAAATTTCAA
1 A-ATTTAT-AAAATTTAAA
**
4044379 AATTTAT-ATTTTTAGAA
1 AATTTATAAAATTTA-AA
* *
4044396 AAATTCTAAACATTCTAAAA
1 AATTTATAAA-ATT-T-AAA
4044416 AATTTATAAAA
1 AATTTATAAAA
4044427 AAGTTAAAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
16 4 0.08
17 8 0.16
18 12 0.24
19 13 0.27
20 11 0.22
21 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (17 bp):
AATTTATAAAATTTAAA
Found at i:4044372 original size:19 final size:18
Alignment explanation
Indices: 4044350--4044386 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
4044340 AGTAATTTTT
4044350 AAAATTTAAAATATTTATA
1 AAAATTTAAAA-ATTTATA
*
4044369 AAAATTTCAAAATTTATA
1 AAAATTTAAAAATTTATA
4044387 TTTTTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTTAAAAATTTATA
Found at i:4044445 original size:17 final size:18
Alignment explanation
Indices: 4044414--4044448 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
4044404 AACATTCTAA
4044414 AAAATTTATAAAAAAGTT
1 AAAATTTATAAAAAAGTT
4044432 AAAATTTA-AAAAAAGTT
1 AAAATTTATAAAAAAGTT
4044449 CTAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAAATTTATAAAAAAGTT
Found at i:4047821 original size:24 final size:23
Alignment explanation
Indices: 4047770--4047822 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
4047760 TACTCGAACT
***
4047770 AAATTATTATAATTGAATTATTC
1 AAATTATTATAATTGAATTAAAA
*
4047793 GAATTATTATGAATTGAATTAAAA
1 AAATTATTAT-AATTGAATTAAAA
4047817 AAATTA
1 AAATTA
4047823 AAATTTTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.42
Consensus pattern (23 bp):
AAATTATTATAATTGAATTAAAA
Found at i:4051698 original size:17 final size:17
Alignment explanation
Indices: 4051667--4051699 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4051657 TATATTTTAA
4051667 TATTTATATTATAGTAG
1 TATTTATATTATAGTAG
4051684 TATTATATATT-TAGTA
1 TATT-TATATTATAGTA
4051700 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TATTTATATTATAGTAG
Found at i:4053213 original size:16 final size:17
Alignment explanation
Indices: 4053194--4053238 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
4053184 ATCTAATTCT
4053194 AAATAAAAATTA-TAAA
1 AAATAAAAATTATTAAA
* *
4053210 AAATCAAAATTATTTAA
1 AAATAAAAATTATTAAA
4053227 AAATAGAAAATT
1 AAATA-AAAATT
4053239 CTAGGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
17 7 0.29
18 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
AAATAAAAATTATTAAA
Found at i:4054857 original size:18 final size:18
Alignment explanation
Indices: 4054836--4054881 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
4054826 AATCTATCCC
4054836 ATATATTAAATAAATTAT
1 ATATATTAAATAAATTAT
* * *
4054854 ATATATCACATATATTAT
1 ATATATTAAATAAATTAT
4054872 AT-TA-TAAATA
1 ATATATTAAATA
4054882 TATATAAGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
16 4 0.17
17 2 0.09
18 17 0.74
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATATTAAATAAATTAT
Found at i:4054860 original size:27 final size:28
Alignment explanation
Indices: 4054830--4054887 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
4054820 ACAAGAAATC
*
4054830 TATCCCATATATTA-A-ATAAATTATATA
1 TATCACATATATTATATATAAA-TATATA
4054857 TATCACATATATTATATTATAAATATATA
1 TATCACATATATTATA-TATAAATATATA
4054886 TA
1 TA
4054888 AGTTATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 13 0.48
28 1 0.04
29 8 0.30
30 5 0.19
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (28 bp):
TATCACATATATTATATATAAATATATA
Found at i:4054933 original size:21 final size:21
Alignment explanation
Indices: 4054909--4054950 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4054899 AATTCAATTT
* *
4054909 ATTATATCTTAATTTTAATAC
1 ATTATATCTAAATATTAATAC
*
4054930 ATTATATGTAAATATTAATAC
1 ATTATATCTAAATATTAATAC
4054951 GTTTATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTATATCTAAATATTAATAC
Found at i:4055004 original size:15 final size:15
Alignment explanation
Indices: 4054984--4055028 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
4054974 ATTTTTTCTA
4054984 TTATATCATGTAATT
1 TTATATCATGTAATT
* *
4054999 TTATATTAT-TCATAT
1 TTATATCATGTAAT-T
4055014 TTATATCATGTAATT
1 TTATATCATGTAATT
4055029 ATATTGTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (15 bp):
TTATATCATGTAATT
Found at i:4055095 original size:26 final size:27
Alignment explanation
Indices: 4055058--4055111 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4055048 AAAAGTCTAA
4055058 TTGTTATAAAAAAATAGGGTAAATTAT
1 TTGTTATAAAAAAATAGGGTAAATTAT
4055085 TTGTTATAAAAAAATAGGGTAAATTAT
1 TTGTTATAAAAAAATAGGGTAAATTAT
4055112 ACCAACAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (27 bp):
TTGTTATAAAAAAATAGGGTAAATTAT
Found at i:4055177 original size:51 final size:51
Alignment explanation
Indices: 4055117--4055293 Score: 228
Period size: 51 Copynumber: 3.6 Consensus size: 51
4055107 ATTATACCAA
* * *
4055117 CAGTCACTCAATTTTAATAAGGGGAAACAAATAATCACTTGGTTTACATTT
1 CAGTCACTCAATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACATTT
4055168 CAGTCACTCAATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTAC---T
1 CAGTCACTCAATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACATTT
* *
4055216 --G--A--AAATTTTGATAAGGGAAAATAAATAGTCACTTGGTTTACATTT
1 CAGTCACTCAATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACATTT
* *
4055261 CAGTCACTCAATTTTGATAAGGAAAAACTAATA
1 CAGTCACTCAATTTTGATAAGGGAAAACAAATA
4055294 TTTGATAAGG
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 37 0.34
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
51 65 0.60
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (51 bp):
CAGTCACTCAATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACATTT
Found at i:4055236 original size:42 final size:42
Alignment explanation
Indices: 4055177--4055256 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
4055167 TCAGTCACTC
4055177 AATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACTGAA
1 AATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACTGAA
*
4055219 AATTTTGATAAGGGAAAATAAATAGTCACTTGGTTTAC
1 AATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTAC
4055257 ATTTCAGTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (42 bp):
AATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACTGAA
Found at i:4055309 original size:21 final size:21
Alignment explanation
Indices: 4055273--4055314 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4055263 GTCACTCAAT
*
4055273 TTTGATAAGGAAAAACTAATA
1 TTTGATAAGGAAAAACAAATA
**
4055294 TTTGATAAGGGGAAACAAATA
1 TTTGATAAGGAAAAACAAATA
4055315 GTCACTTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (21 bp):
TTTGATAAGGAAAAACAAATA
Found at i:4055314 original size:72 final size:72
Alignment explanation
Indices: 4055218--4055365 Score: 235
Period size: 72 Copynumber: 2.1 Consensus size: 72
4055208 GGTTTACTGA
* *
4055218 AAAT-TTTGATAAGGGAAAATAAATAGTCACTTGGTTTACATTTCAGTCACTCAATTTTGATAAG
1 AAATATTTGATAAGGGAAAACAAATAGTCACTTGATTTACATTTCAGTCACTCAATTTTGATAAG
4055282 GAAAAAC
66 GAAAAAC
* * *
4055289 TAATATTTGATAAGGGGAAACAAATAGTCACTTGATTTACATTTCAGTCGCTCAATTTTGATAAG
1 AAATATTTGATAAGGGAAAACAAATAGTCACTTGATTTACATTTCAGTCACTCAATTTTGATAAG
*
4055354 GGAAAAC
66 GAAAAAC
4055361 AAATA
1 AAATA
4055366 GTCATTTGGT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 3 0.04
72 66 0.96
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (72 bp):
AAATATTTGATAAGGGAAAACAAATAGTCACTTGATTTACATTTCAGTCACTCAATTTTGATAAG
GAAAAAC
Found at i:4055352 original size:51 final size:51
Alignment explanation
Indices: 4055294--4055529 Score: 301
Period size: 51 Copynumber: 4.8 Consensus size: 51
4055284 AAAACTAATA
* *
4055294 TTTGATAAGGGGAAACAAATAGTCACTTGATTTACATTTCAGTCGCTCAAT
1 TTTGATAAGGGGAAACAAATAGTCACTTGGTTTACATTTCAGTCACTCAAT
* * *
4055345 TTTGATAAGGGAAAACAAATAGTCATTTGGTTTAC---T--G--A--AAAT
1 TTTGATAAGGGGAAACAAATAGTCACTTGGTTTACATTTCAGTCACTCAAT
* *
4055387 TTTGATAAGGGGGAACAAATAGTCACTTGGTTTACATTTCAGTCACTTAAT
1 TTTGATAAGGGGAAACAAATAGTCACTTGGTTTACATTTCAGTCACTCAAT
* *
4055438 TTTGATAAGGAGAAACAAATAGTCACTTGGATTACATTTCAGTCACTCAAT
1 TTTGATAAGGGGAAACAAATAGTCACTTGGTTTACATTTCAGTCACTCAAT
* * *
4055489 TTTGATAAGAGAAAACAAATGGTCACTTGGTTTACATTTCA
1 TTTGATAAGGGGAAACAAATAGTCACTTGGTTTACATTTCA
4055530 ATCATTTTTT
Statistics
Matches: 158, Mismatches: 18, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
42 35 0.22
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
51 118 0.75
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (51 bp):
TTTGATAAGGGGAAACAAATAGTCACTTGGTTTACATTTCAGTCACTCAAT
Found at i:4055389 original size:42 final size:42
Alignment explanation
Indices: 4055342--4055421 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
4055332 TCAGTCGCTC
*
4055342 AATTTTGATAAGGGAAAACAAATAGTCATTTGGTTTACTGAA
1 AATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACTGAA
**
4055384 AATTTTGATAAGGGGGAACAAATAGTCACTTGGTTTAC
1 AATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTAC
4055422 ATTTCAGTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.33
Consensus pattern (42 bp):
AATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACTGAA
Found at i:4055409 original size:165 final size:165
Alignment explanation
Indices: 4055133--4055458 Score: 562
Period size: 165 Copynumber: 2.0 Consensus size: 165
4055123 CTCAATTTTA
*
4055133 ATAAGGGGAAACAAATAATCACTTGGTTTACATTTCAGTCACTCAATTTTGATAAGGGAAAACAA
1 ATAAGGGGAAACAAATAATCACTTGATTTACATTTCAGTCACTCAATTTTGATAAGGGAAAACAA
*
4055198 ATAGTCACTTGGTTTACTGAAAATTTTGATAAGGGAAAATAAATAGTCACTTGGTTTACATTTCA
66 ATAGTCACTTGGTTTACTGAAAATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACATTTCA
*
4055263 GTCACTCAATTTTGATAAGGAAAAACTAATATTTG
131 GTCACTCAATTTTGATAAGGAAAAACAAATATTTG
* *
4055298 ATAAGGGGAAACAAATAGTCACTTGATTTACATTTCAGTCGCTCAATTTTGATAAGGGAAAACAA
1 ATAAGGGGAAACAAATAATCACTTGATTTACATTTCAGTCACTCAATTTTGATAAGGGAAAACAA
* **
4055363 ATAGTCATTTGGTTTACTGAAAATTTTGATAAGGGGGAACAAATAGTCACTTGGTTTACATTTCA
66 ATAGTCACTTGGTTTACTGAAAATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACATTTCA
* *
4055428 GTCACTTAATTTTGATAAGGAGAAACAAATA
131 GTCACTCAATTTTGATAAGGAAAAACAAATA
4055459 GTCACTTGGA
Statistics
Matches: 151, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
165 151 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (165 bp):
ATAAGGGGAAACAAATAATCACTTGATTTACATTTCAGTCACTCAATTTTGATAAGGGAAAACAA
ATAGTCACTTGGTTTACTGAAAATTTTGATAAGGGAAAACAAATAGTCACTTGGTTTACATTTCA
GTCACTCAATTTTGATAAGGAAAAACAAATATTTG
Found at i:4055454 original size:93 final size:93
Alignment explanation
Indices: 4055294--4055472 Score: 288
Period size: 93 Copynumber: 1.9 Consensus size: 93
4055284 AAAACTAATA
*
4055294 TTTGATAAGGGGAAACAAATAGTCACTTGATTTACATTTCAGTCGCTCAATTTTGATAAGGGAAA
1 TTTGATAAGGGGAAACAAATAGTCACTTGATTTACATTTCAGTCACTCAATTTTGATAAGGGAAA
* *
4055359 ACAAATAGTCATTTGGTTTACTGAAAAT
66 ACAAATAGTCACTTGGATTACTGAAAAT
* * *
4055387 TTTGATAAGGGGGAACAAATAGTCACTTGGTTTACATTTCAGTCACTTAATTTTGATAA-GGAGA
1 TTTGATAAGGGGAAACAAATAGTCACTTGATTTACATTTCAGTCACTCAATTTTGATAAGGGA-A
4055451 AACAAATAGTCACTTGGATTAC
65 AACAAATAGTCACTTGGATTAC
4055473 ATTTCAGTCA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 3 0.04
93 76 0.96
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (93 bp):
TTTGATAAGGGGAAACAAATAGTCACTTGATTTACATTTCAGTCACTCAATTTTGATAAGGGAAA
ACAAATAGTCACTTGGATTACTGAAAAT
Found at i:4055671 original size:30 final size:31
Alignment explanation
Indices: 4055637--4055707 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 31
4055627 CATTTAACAC
4055637 AACAGTCACTCAAC-TT-T-AAAAATGTGACAA
1 AACAGTCACT-AACGTTGTCAAAAA-GTGACAA
*
4055667 AACAGTCACTAACGTTGTCGAAAAGTGACAA
1 AACAGTCACTAACGTTGTCAAAAAGTGACAA
4055698 AACAGTCACT
1 AACAGTCACT
4055708 GATTAACAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 3 0.08
30 12 0.32
31 18 0.49
32 4 0.11
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (31 bp):
AACAGTCACTAACGTTGTCAAAAAGTGACAA
Found at i:4055767 original size:14 final size:14
Alignment explanation
Indices: 4055748--4055777 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4055738 GAACAATGAC
*
4055748 GTTAACTAAAATAT
1 GTTAACCAAAATAT
4055762 GTTAACCAAAATAT
1 GTTAACCAAAATAT
4055776 GT
1 GT
4055778 GAATAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (14 bp):
GTTAACCAAAATAT
Found at i:4055918 original size:47 final size:46
Alignment explanation
Indices: 4055829--4055956 Score: 116
Period size: 47 Copynumber: 2.8 Consensus size: 46
4055819 AAATAGTAGC
* * * * *
4055829 AATCAAAATCCAATTAAAATCGAAATAATCCTAAATCGAAAATAAA
1 AATCAAAATCAAATCAAAATCGAAATAAACCCAAATCAAAAATAAA
* *
4055875 AATCAAAATTCAAATCAAAATCG-AATAAACCCAAAGTCAAAAATCAC
1 AATCAAAA-TCAAATCAAAATCGAAATAAACCCAAA-TCAAAAATAAA
* * * *
4055922 AATCAATATCGACATCAAATTC-AAATAAACACAAA
1 AATCAAAATC-AAATCAAAATCGAAATAAACCCAAA
4055957 ATAACCCTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
46 20 0.30
47 47 0.70
ACGTcount: A:0.58, C:0.19, G:0.04, T:0.20
Consensus pattern (46 bp):
AATCAAAATCAAATCAAAATCGAAATAAACCCAAATCAAAAATAAA
Found at i:4056323 original size:30 final size:30
Alignment explanation
Indices: 4056256--4056326 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 30
4056246 ATTTGATTTC
4056256 AGTGACTGTTTTGTCACTTTTCGCTAAAGTT
1 AGTGACTGTTTTGTCACTTTTC-CTAAAGTT
4056287 AGTGACTGTTTTGTCACATTTT-C-AAAGTT
1 AGTGACTGTTTTGTCAC-TTTTCCTAAAGTT
4056316 GAGTGACTGTT
1 -AGTGACTGTT
4056327 GTGTTAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
29 6 0.16
30 11 0.29
31 17 0.45
32 4 0.11
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (30 bp):
AGTGACTGTTTTGTCACTTTTCCTAAAGTT
Found at i:4059697 original size:11 final size:11
Alignment explanation
Indices: 4059677--4059751 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
4059667 AAGCCTCTCA
*
4059677 TCTTTCCTTTC
1 TCTTTTCTTTC
*
4059688 TCTTTTCTTTT
1 TCTTTTCTTTC
*
4059699 TCTCATTCATTTC
1 TCT-TTTC-TTTC
4059712 T-TATTTCTTTC
1 TCT-TTTCTTTC
4059723 TCTTTTCTTTTC
1 TCTTTTC-TTTC
* *
4059735 TATTTTCTTCC
1 TCTTTTCTTTC
4059746 TCTTTT
1 TCTTTT
4059752 AATCACACTT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
11 29 0.57
12 18 0.35
13 4 0.08
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.69
Consensus pattern (11 bp):
TCTTTTCTTTC
Found at i:4059738 original size:22 final size:22
Alignment explanation
Indices: 4059684--4059748 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
4059674 TCATCTTTCC
*
4059684 TTTCTCTTTTCTTTTTCTCATTCA
1 TTTCT-TTTTCTTTCTCTC-TTCA
* *
4059708 TTTCTTATTTCTTTCTCTTTTCT
1 TTTCTT-TTTCTTTCTCTCTTCA
*
4059731 TTTCTATTTTCTTCCTCT
1 TTTCT-TTTTCTTTCTCT
4059749 TTTAATCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 19 0.54
24 16 0.46
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCTTTTTCTTTCTCTCTTCA
Found at i:4060155 original size:21 final size:21
Alignment explanation
Indices: 4060121--4060188 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
4060111 ACCCATTAAG
*
4060121 CCCAAATCCTATTTAAACCAAA
1 CCCAAATTC-ATTTAAACCAAA
*
4060143 CCCACATTCATTTAAACCAAA
1 CCCAAATTCATTTAAACCAAA
4060164 CCCAAATTCATTTAAACCAAA
1 CCCAAATTCATTTAAACCAAA
4060185 CCCA
1 CCCA
4060189 TTTGAACCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
21 36 0.84
22 7 0.16
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCAAATTCATTTAAACCAAA
Found at i:4060190 original size:15 final size:15
Alignment explanation
Indices: 4060172--4060201 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4060162 AACCCAAATT
4060172 CATTTAAACCAAACC
1 CATTTAAACCAAACC
*
4060187 CATTTGAACCAAACC
1 CATTTAAACCAAACC
4060202 AAATGAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
CATTTAAACCAAACC
Found at i:4060291 original size:21 final size:20
Alignment explanation
Indices: 4060238--4060292 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
4060228 AGTCAAACCA
* *
4060238 TTGACCGATGTTGACTGGCG
1 TTGACCGATGTTGACCGCCG
*
4060258 TTGACCGACGTTGACCGACCG
1 TTGACCGATGTTGACCG-CCG
*
4060279 TTGACCGGTGTTGA
1 TTGACCGATGTTGA
4060293 TTAATCATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.16, C:0.24, G:0.33, T:0.27
Consensus pattern (20 bp):
TTGACCGATGTTGACCGCCG
Found at i:4060292 original size:10 final size:10
Alignment explanation
Indices: 4060238--4060285 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
4060228 AGTCAAACCA
*
4060238 TTGACCGATG
1 TTGACCGACG
* *
4060248 TTGACTGGCG
1 TTGACCGACG
4060258 TTGACCGACG
1 TTGACCGACG
4060268 TTGACCGACCG
1 TTGACCGA-CG
4060279 TTGACCG
1 TTGACCG
4060286 GTGTTGATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (10 bp):
TTGACCGACG
Found at i:4061395 original size:3 final size:3
Alignment explanation
Indices: 4061383--4061433 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
4061373 TATTCTATTC
4061383 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4061430 TAT T
1 TAT T
4061434 TTGGGATGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:4069278 original size:18 final size:18
Alignment explanation
Indices: 4069255--4069295 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4069245 AATCTATGGG
4069255 TTGGATTTT-GATGGAATA
1 TTGGATTTTGGA-GGAATA
*
4069273 TTGGATTTTGGAGGAATC
1 TTGGATTTTGGAGGAATA
4069291 TTGGA
1 TTGGA
4069296 GGGAGCTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.24, C:0.02, G:0.32, T:0.41
Consensus pattern (18 bp):
TTGGATTTTGGAGGAATA
Found at i:4078627 original size:27 final size:29
Alignment explanation
Indices: 4078577--4078635 Score: 104
Period size: 27 Copynumber: 2.1 Consensus size: 29
4078567 CCTAATTTAG
4078577 TACCTAAATTTCTTTTTGACCCAATTTGA
1 TACCTAAATTTCTTTTTGACCCAATTTGA
4078606 TACCTAAA-TT-TTTTTGACCCAATTTGA
1 TACCTAAATTTCTTTTTGACCCAATTTGA
4078633 TAC
1 TAC
4078636 ATGAACTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 20 0.67
28 2 0.07
29 8 0.27
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (29 bp):
TACCTAAATTTCTTTTTGACCCAATTTGA
Found at i:4078965 original size:30 final size:29
Alignment explanation
Indices: 4078901--4079009 Score: 100
Period size: 28 Copynumber: 3.8 Consensus size: 29
4078891 AACTTCAAAA
* * * *
4078901 AATTTAAGTAACAACTT-AAAAAAATGTC
1 AATTTAAATATCAAATTAAAAAAAATATC
4078929 AATTTAAATATCAAATTAAAAAAAATATC
1 AATTTAAATATCAAATTAAAAAAAATATC
* * *
4078958 AAGTTTAAGTACCAAATTGAACAAAAA-A--
1 AA-TTTAAATATCAAATT-AAAAAAAATATC
*
4078986 AATTTAATTATCAAATTAAAAAAA
1 AATTTAAATATCAAATTAAAAAAA
4079010 TGATTCAAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.09
27 13 0.19
28 16 0.24
29 12 0.18
30 14 0.21
31 7 0.10
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (29 bp):
AATTTAAATATCAAATTAAAAAAAATATC
Found at i:4079005 original size:85 final size:86
Alignment explanation
Indices: 4078855--4079011 Score: 219
Period size: 85 Copynumber: 1.8 Consensus size: 86
4078845 ATTACATGCT
** *
4078855 AAATTAAGAAAAAAAATCAAGTTCAATACCAAATTAAACTTCAAAAAATTTAAGTAACAACTTAA
1 AAATTAAGAAAAAAAATCAAGTTCAATACCAAATTAAACTAAAAAAAATTTAAGTAACAAATTAA
4078920 AAAAATGTCAATTTAAATATC
66 AAAAATGTCAATTTAAATATC
* * * * *
4078941 AAATTAA-AAAAAATATCAAGTTTAAGTACCAAATTGAAC-AAAAAAAATTTAATTATCAAATTA
1 AAATTAAGAAAAAAAATCAAGTTCAA-TACCAAATTAAACTAAAAAAAATTTAAGTAACAAATTA
4079004 AAAAAATG
65 AAAAAATG
4079012 ATTCAAGTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 43 0.69
86 19 0.31
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (86 bp):
AAATTAAGAAAAAAAATCAAGTTCAATACCAAATTAAACTAAAAAAAATTTAAGTAACAAATTAA
AAAAATGTCAATTTAAATATC
Found at i:4079025 original size:25 final size:27
Alignment explanation
Indices: 4078964--4079026 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
4078954 TATCAAGTTT
*
4078964 AAGTACCAAATTGAACAAAAAAAATTT
1 AAGTACCAAATTGAACAAAAAAAATTC
* * **
4078991 AATTATCAAATT-AA-AAAAATGATTC
1 AAGTACCAAATTGAACAAAAAAAATTC
4079016 AAGTACCAAAT
1 AAGTACCAAAT
4079027 GTTATATTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
25 17 0.59
26 2 0.07
27 10 0.34
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.25
Consensus pattern (27 bp):
AAGTACCAAATTGAACAAAAAAAATTC
Found at i:4082480 original size:6 final size:6
Alignment explanation
Indices: 4082464--4082500 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
4082454 TAAATAATAG
*
4082464 TTATAT ATATAT TTATAT TTATAT TTATAT TTATAT T
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT T
4082501 AAAGCACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TTATAT
Found at i:4082683 original size:39 final size:40
Alignment explanation
Indices: 4082602--4082692 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
4082592 AAATATTATA
* * * * *
4082602 TTTAATATAATAAAATATTTATTATATTTATTTGTGT-GTT
1 TTTAATATAA-AAAACATTTATTATATGTATTAGTATATTT
4082642 TTTAATATAAAAAACATTTATTATATGTA-TAGTAATATTT
1 TTTAATATAAAAAACATTTATTATATGTATTAGT-ATATTT
4082682 TTTAATATAAA
1 TTTAATATAAA
4082693 TACATTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
38 3 0.07
39 18 0.41
40 23 0.52
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (40 bp):
TTTAATATAAAAAACATTTATTATATGTATTAGTATATTT
Found at i:4084512 original size:20 final size:21
Alignment explanation
Indices: 4084468--4084515 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4084458 GATTTGATAT
* *
4084468 ATAAAAATAAATATTTTACAT
1 ATAAAATTAAATATTTTACAA
*
4084489 ATAAAATTAATTATTTTA-AA
1 ATAAAATTAAATATTTTACAA
4084509 ATAAAAT
1 ATAAAAT
4084516 ATTTAACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAAATTAAATATTTTACAA
Found at i:4088078 original size:24 final size:23
Alignment explanation
Indices: 4088015--4088079 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
4088005 TGTTAATATT
* *
4088015 TTAATTATATAAAAT-ATTAATT
1 TTAATTATTTAAAATAATTAATA
* *
4088037 TTAAATATTTCTAAATAATTAATA
1 TTAATTATTT-AAAATAATTAATA
4088061 TTAATTATTTAAATATAAT
1 TTAATTATTTAAA-ATAAT
4088080 CATTAAACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 8 0.24
23 6 0.18
24 20 0.59
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAATTATTTAAAATAATTAATA
Found at i:4092910 original size:27 final size:28
Alignment explanation
Indices: 4092862--4092915 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
4092852 TATAATATAA
4092862 TTATAATTCTAGTTCTTAATATTTTTTT
1 TTATAATTCTAGTTCTTAATATTTTTTT
*
4092890 TTATCAATT-TAG-TCTTTATATTTTTT
1 TTAT-AATTCTAGTTCTTAATATTTTTT
4092916 AGTTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 13 0.54
28 7 0.29
29 4 0.17
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (28 bp):
TTATAATTCTAGTTCTTAATATTTTTTT
Found at i:4102927 original size:6 final size:6
Alignment explanation
Indices: 4102889--4102996 Score: 80
Period size: 6 Copynumber: 18.0 Consensus size: 6
4102879 TTAAATTGAT
* * * *
4102889 TTTAAA TTT--A TTTAAA TTCAGA TTT-AT TTTAAA TTTAAAA TTAAATA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAA-A
* ** *
4102936 TTTAAA TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
4102984 TTTAACA TTTAAA
1 TTTAA-A TTTAAA
4102997 AGTCCAAATG
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 48 0.59
7 21 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:4102954 original size:11 final size:11
Alignment explanation
Indices: 4102879--4102965 Score: 52
Period size: 11 Copynumber: 7.5 Consensus size: 11
4102869 GACTTTTGAG
* *
4102879 TTAAATTGATT
1 TTAAATTTAAT
4102890 TTAAATTT-AT
1 TTAAATTTAAT
*
4102900 TTAAATTCAGAT
1 TTAAATTTA-AT
*
4102912 TT-ATTTTAAAT
1 TTAAATTT-AAT
*
4102923 TTAAAATTAAATAT
1 TT-AAATT-TA-AT
4102937 TTAAATTTAAT
1 TTAAATTTAAT
*
4102948 TTGAATTTAAAT
1 TTAAATTT-AAT
4102960 TTAAAT
1 TTAAAT
4102966 AAAAATTAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
10 8 0.14
11 23 0.40
12 14 0.24
13 9 0.16
14 4 0.07
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:4102986 original size:31 final size:30
Alignment explanation
Indices: 4102916--4102996 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
4102906 TCAGATTTAT
* * *
4102916 TTTAAATTTAAAATTAAATATTTAAATTTAA
1 TTTAAATTTAAATTTAAATA-TAAAATTAAA
*
4102947 TTTGAATTTAAATTTAAATA-AAAATTAAAA
1 TTTAAATTTAAATTTAAATATAAAATT-AAA
4102977 TATTAAATTTAACATTTAAA
1 T-TTAAATTTAA-ATTTAAA
4102997 AGTCCAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 5 0.12
30 3 0.07
31 27 0.64
32 7 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (30 bp):
TTTAAATTTAAATTTAAATATAAAATTAAA
Found at i:4103044 original size:14 final size:14
Alignment explanation
Indices: 4103025--4103058 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4103015 CATGGCCCAC
*
4103025 GGCCCAATTACAAT
1 GGCCCAATTACAAA
4103039 GGCCCAATTACAAA
1 GGCCCAATTACAAA
4103053 GGCCCA
1 GGCCCA
4103059 TTTTTTCGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:4104633 original size:161 final size:161
Alignment explanation
Indices: 4104466--4104778 Score: 450
Period size: 162 Copynumber: 1.9 Consensus size: 161
4104456 CTTTTCAATT
* * *
4104466 TAGTCCTTTGACTGTTTGACTGTACCATAGGCTACCACGTGTTA-CTTTTGGGATTATTTATGCA
1 TAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATCTTTTGGGATTATTTATGCA
* * *
4104530 TTTAGTCCTTTTTATTTTTTATTTGTTTTAATTTAATCC-CAAATCAACTTTATTTTAATTACGA
66 TTTAGTCCTTTTTATTTTTAATTTGCTTTAATTTAATCCTCAAATCAACTTTA-TTTAATTACAA
4104594 AATTGGCCCAATAATTTTTCAAGGTTTATAAAC
130 AATTGGCCCAA-AATTTTTCAAGGTTTATAAAC
* * * *
4104627 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATCTTTTTGGATTATTTCTGCA
1 TAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATCTTTTGGGATTATTTATGCA
* * **
4104692 TTTAGTCCTTTTTATTTTTAATTTGCTTTAATTTAATCCTTCAATTGATTTTTATTTAATTACAA
66 TTTAGTCCTTTTTATTTTTAATTTGCTTTAATTTAATCC-TCAAATCAACTTTATTTAATTACAA
*
4104757 AATTGGTCCAAAATTTTTCAAG
130 AATTGGCCCAAAATTTTTCAAG
4104779 ATTTTCAAAT
Statistics
Matches: 134, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
161 39 0.29
162 66 0.49
163 20 0.15
164 9 0.07
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.47
Consensus pattern (161 bp):
TAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATCTTTTGGGATTATTTATGCA
TTTAGTCCTTTTTATTTTTAATTTGCTTTAATTTAATCCTCAAATCAACTTTATTTAATTACAAA
ATTGGCCCAAAATTTTTCAAGGTTTATAAAC
Found at i:4104941 original size:30 final size:30
Alignment explanation
Indices: 4104871--4105065 Score: 286
Period size: 30 Copynumber: 6.5 Consensus size: 30
4104861 CCCCAAACAA
*
4104871 TCCAGAAATTATATTTTGACCCTAAAACTTT
1 TCCA-AAATTATATTTTGACCCCAAAACTTT
*
4104902 TCC-AAATTATATTTTGACCCCGAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
4104931 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
4104961 TCCAAAATTATATTTTGACCCCGAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* * *
4104991 TCCAAAATTACATTTTTACACCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
4105021 TCCAAAATTATATTTTGATCCCAAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
4105050 TCAAAAATTATCATTT
1 TCCAAAATTAT-ATTT
4105066 CCCCCCCGAA
Statistics
Matches: 149, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
29 39 0.26
30 107 0.72
31 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:4105117 original size:30 final size:30
Alignment explanation
Indices: 4105081--4105357 Score: 220
Period size: 30 Copynumber: 9.5 Consensus size: 30
4105071 CCGAATCTTT
4105081 TAAAATT-CCATTTTTAACCCCGATTACATC
1 TAAAATTACCATTTTTAACCCCGATT-CATC
* * * *
4105111 GAAAATTACCA-TTTTACCCCCGAATC-TT
1 TAAAATTACCATTTTTAACCCCGATTCATC
4105139 TAAAATT-CCATTTTTAACCCCGATTACATC
1 TAAAATTACCATTTTTAACCCCGATT-CATC
* * * *
4105169 GAAAATTACCA-TTTTACCCCCGAATC-TT
1 TAAAATTACCATTTTTAACCCCGATTCATC
**
4105197 TAAAATT-CTGTTTTTAACCCCGATTTCATC
1 TAAAATTACCATTTTTAACCCCGA-TTCATC
* * * *
4105227 GAAAATTACCA-TTTTACCCCCGAATC-TT
1 TAAAATTACCATTTTTAACCCCGATTCATC
* *
4105255 TAAAATT-CCGTTTTTAACCCCGATTTCACC
1 TAAAATTACCATTTTTAACCCCGA-TTCATC
* * * * *
4105285 AAAAATTACCA-TTTTACCCCCGAATCTTT
1 TAAAATTACCATTTTTAACCCCGATTCATC
4105314 TAAAATT-CCATTTTTAACCCCGATTTCA-C
1 TAAAATTACCATTTTTAACCCCGA-TTCATC
*
4105343 CAAAATTACCATTTT
1 TAAAATTACCATTTT
4105358 GCCCCTGGGT
Statistics
Matches: 188, Mismatches: 43, Indels: 32
0.71 0.16 0.12
Matches are distributed among these distances:
27 6 0.03
28 58 0.31
29 34 0.18
30 81 0.43
31 9 0.05
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (30 bp):
TAAAATTACCATTTTTAACCCCGATTCATC
Found at i:4105143 original size:58 final size:58
Alignment explanation
Indices: 4105053--4105362 Score: 487
Period size: 58 Copynumber: 5.3 Consensus size: 58
4105043 AAAACTTTCA
* ** *
4105053 AAAATTATCATTTCCCCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACATCG
1 AAAATTACCATTTTACCCCCGAATC-TTTAAAATTCCATTTTTAACCCCGATTTCATCG
*
4105112 AAAATTACCATTTTACCCCCGAATCTTTAAAATTCCATTTTTAACCCCGATTACATCG
1 AAAATTACCATTTTACCCCCGAATCTTTAAAATTCCATTTTTAACCCCGATTTCATCG
**
4105170 AAAATTACCATTTTACCCCCGAATCTTTAAAATTCTGTTTTTAACCCCGATTTCATCG
1 AAAATTACCATTTTACCCCCGAATCTTTAAAATTCCATTTTTAACCCCGATTTCATCG
* * *
4105228 AAAATTACCATTTTACCCCCGAATCTTTAAAATTCCGTTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAATCTTTAAAATTCCATTTTTAACCCCGATTTCATCG
*
4105286 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA-CC
1 AAAATTACCATTTTACCCCCGAATC-TTTAAAATTCCATTTTTAACCCCGATTTCATCG
*
4105344 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
4105363 TGGGTATCCA
Statistics
Matches: 238, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
58 187 0.79
59 51 0.21
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAATCTTTAAAATTCCATTTTTAACCCCGATTTCATCG
Found at i:4105392 original size:58 final size:59
Alignment explanation
Indices: 4105051--4105399 Score: 350
Period size: 58 Copynumber: 6.0 Consensus size: 59
4105041 CCAAAACTTT
* ** ** * * * *
4105051 CAAAAATTATCATTTCCCCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACAT
1 CAAAAATTACCATTTTACCCCCGAATCTCATAAAATCCCGTTTTTAACCCCGATTTCAC
* * * * * *
4105110 CGAAAATTACCATTTTACCCCCGAATCT-TTAAAATTCCATTTTTAACCCCGATTACAT
1 CAAAAATTACCATTTTACCCCCGAATCTCATAAAATCCCGTTTTTAACCCCGATTTCAC
* * * * *
4105168 CGAAAATTACCATTTTACCCCCGAATCT-TTAAAATTCTGTTTTTAACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCCGAATCTCATAAAATCCCGTTTTTAACCCCGATTTCAC
* * *
4105226 CGAAAATTACCATTTTACCCCCGAATCT-TTAAAATTCCGTTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAATCTCATAAAATCCCGTTTTTAACCCCGATTTCAC
** * *
4105284 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAATCTCATAAAATCCCGTTTTTAACCCCGATTTCAC
* * * * *
4105343 C-AAAATTACCATTTTGCCCCTGGGTATC-CAT-AAGTCCCGTTTTTCACCCCGATTTCA
1 CAAAAATTACCATTTTACCCC--CGAATCTCATAAAATCCCGTTTTTAACCCCGATTTCA
4105400 TCATTTATCA
Statistics
Matches: 267, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
58 208 0.78
59 55 0.21
60 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.35
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCGAATCTCATAAAATCCCGTTTTTAACCCCGATTTCAC
Found at i:4117262 original size:31 final size:31
Alignment explanation
Indices: 4117224--4117678 Score: 109
Period size: 37 Copynumber: 13.4 Consensus size: 31
4117214 TCTTCATCTC
*
4117224 TGAAATTGAAGTAAGAGCAATGTCACCCTCT
1 TGAAATTGAAGTAAGAGCAACGTCACCCTCT
* *
4117255 TGAAATTGAAGTAGAGAGGATAACACGTCTTCACCTC-
1 TGAAATTGAAGTA-AGA-G--CA-ACGTC-AC-CCTCT
*
4117292 TGAAATTGAAGTAAGAGCAACGTCATTCC-CT
1 TGAAATTGAAGTAAGAGCAACGTCA-CCCTCT
** ** *
4117323 TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCACCCTCT
* *
4117359 CTGAAATTGAAGTAAGAAGCAACATCATTCC-CT
1 -TGAAATTGAAGTAAG-AGCAACGTCA-CCCTCT
* ** ** *
4117392 TGAAATTAAAGTAGAGTGGATAACACGTCTTCATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCACCCTCT
*
4117428 CTGAAATTGAAGTAAGAGCAACGTCATTCC-CT
1 -TGAAATTGAAGTAAGAGCAACGTCA-CCCTCT
**
4117460 TGAAATTGAAGTAGAGTGGATAACACGTCTACACCTC-
1 TGAAATTGAAGTA-A---GAGCA-ACGTC-AC-CCTCT
* *
4117497 TGAAATTGAAGTAAGAAGCAACATCATTCC-CT
1 TGAAATTGAAGTAAG-AGCAACGTCA-CCCTCT
** *
4117529 TGAAATTGAAGTAGAGTGGATAACACGTCTTCACCTC-
1 TGAAATTGAAGTA-A---GAGCA-ACGTC-AC-CCTCT
* *
4117566 TGAAATTGAAGTAAGAAGCAACATCATTCC-CT
1 TGAAATTGAAGTAAG-AGCAACGTCA-CCCTCT
* ** ** *
4117598 TGAAATTAAAGTAGAGTGGATAACACGTCTTCATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCACCCTCT
*
4117634 CTGAAATTGAAGTAAGAGCAACGTCATTCC-CT
1 -TGAAATTGAAGTAAGAGCAACGTCA-CCCTCT
4117666 TGAAATTGAAGTA
1 TGAAATTGAAGTA
4117679 GAGTGGATAA
Statistics
Matches: 314, Mismatches: 54, Indels: 112
0.65 0.11 0.23
Matches are distributed among these distances:
30 1 0.00
31 56 0.18
32 66 0.21
33 32 0.10
34 8 0.03
35 20 0.06
36 43 0.14
37 82 0.26
38 6 0.02
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAACGTCACCCTCT
Found at i:4117455 original size:137 final size:137
Alignment explanation
Indices: 4117210--4118157 Score: 1591
Period size: 137 Copynumber: 6.9 Consensus size: 137
4117200 TGCAGGTCTC
** * *
4117210 CACGTCTTCATCTCTGAAATTGAAGTAAG-AGCAATGTCA-CCCTCTTGAAATTGAAGTAGAGAG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCC-CTTGAAATTGAAGTAGAGTG
4117273 GATAACACGTCTTCACCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGA
65 GATAACACGTCTTCACCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGA
4117338 GTGGATAA
130 GTGGATAA
*
4117346 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGTAGAGTGG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGG
*
4117411 ATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAG
66 ATAACACGTCTTCACCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAG
4117476 TGGATAA
131 TGGATAA
* *
4117483 CACGTCTACACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGG
* *
4117548 ATAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGTAGA
66 ATAACACGTCTTCACCTCTGAAATTGAAGTAAG-AGCAACGTCATTCCCTTGAAATTGAAGTAGA
4117613 GTGGATAA
130 GTGGATAA
*
4117621 CACGTCTTCATCTCTGAAATTGAAGTAAG-AGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGG
*
4117685 ATAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGA
66 ATAACACGTCTTCACCTCTGAAATTGAAGTAAG-AGCAACGTCATTCCCTTGAAATTGAAGTAGA
4117750 GTGGATAA
130 GTGGATAA
*
4117758 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGTAGAGTGG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGG
* *
4117823 ATAACACGTCTTCATCTCTAAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAG
66 ATAACACGTCTTCACCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAG
4117888 TGGATAA
131 TGGATAA
*
4117895 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGTAGAGTGG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGG
* * *
4117960 ATAACACGTCTTCATCTCTGAAATTGAAGTAAGAACAACGTCATCCCCTTGAAATTGAAGTAGAG
66 ATAACACGTCTTCACCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAG
4118025 TGGATAA
131 TGGATAA
* * **
4118032 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACGTCATCCCCTCAAAATTGAAGTAGAGTGG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGG
* *
4118097 ATAACACATCTTTACCTCTGAAATTGAAGTAAGAGCAACGTCA-TCCTCTT-AGAATTGAAGT
66 ATAACACGTCTTCACCTCTGAAATTGAAGTAAGAGCAACGTCATTCC-CTTGA-AATTGAAGT
4118158 GAAGTTGGAC
Statistics
Matches: 772, Mismatches: 34, Indels: 11
0.94 0.04 0.01
Matches are distributed among these distances:
136 32 0.04
137 610 0.79
138 130 0.17
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (137 bp):
CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGG
ATAACACGTCTTCACCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAG
TGGATAA
Found at i:4117607 original size:206 final size:206
Alignment explanation
Indices: 4117210--4118157 Score: 1656
Period size: 206 Copynumber: 4.6 Consensus size: 206
4117200 TGCAGGTCTC
* * *
4117210 CACGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCA-CCCTCTTGAAATTGAAGTAGAGAGG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCC-CTTGAAATTGAAGTAGAGTGG
*
4117274 ATAACACGTCTTCACCTCTGAAATTGAAGTAAG-AGCAACGTCATTCCCTTGAAATTGAAGTAGA
65 ATAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGA
4117338 GTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAG
130 GTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAG
4117403 TAGAGTGGATAA
195 TAGAGTGGATAA
4117415 CACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGA
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGA
*
4117480 TAACACGTCTACACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAG
66 TAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAG
*
4117545 TGGATAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGT
131 TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGT
4117610 AGAGTGGATAA
196 AGAGTGGATAA
4117621 CACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGA
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGA
4117686 TAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAG
66 TAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAG
4117751 TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGT
131 TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGT
4117816 AGAGTGGATAA
196 AGAGTGGATAA
*
4117827 CACGTCTTCATCTCTAAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGA
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGA
* *
4117892 TAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGTAGAG
66 TAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAG
* * *
4117957 TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAA-CAACGTCATCCCCTTGAAATTGAAGT
131 TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGT
4118021 AGAGTGGATAA
196 AGAGTGGATAA
* **
4118032 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACGTCATCCCCTCAAAATTGAAGTAGAGTGG
1 CACGTCTTCATCTCTGAAATTGAAGTAAG-AGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGG
* * *
4118097 ATAACACATCTTTACCTCTGAAATTGAAGTAAG-AGCAACGTCA-TCCTCTT-AGAATTGAAGT
65 ATAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCC-CTTGA-AATTGAAGT
4118158 GAAGTTGGAC
Statistics
Matches: 715, Mismatches: 23, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
204 4 0.01
205 172 0.24
206 539 0.75
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (206 bp):
CACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGA
TAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGTAGAG
TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGT
AGAGTGGATAA
Found at i:4117879 original size:343 final size:343
Alignment explanation
Indices: 4117210--4118140 Score: 1607
Period size: 343 Copynumber: 2.7 Consensus size: 343
4117200 TGCAGGTCTC
** * * *
4117210 CACGTCTTCATCTCTGAAATTGAAGTAAG-AGCAATGTCA-CCCTCTTGAAATTGAAGTAGAGAG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCC-CTTGAAATTAAAGTAGAGTG
*
4117273 GATAACACGTCTTCACCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGA
65 GATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGA
*
4117338 GTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAG
130 GTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAG
*
4117403 TAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTG
195 TAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTA
*
4117468 AAGTAGAGTGGATAACACGTCTACACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAA
260 AAGTAGAGTGGATAACACGTCTACACCTCTAAAATTGAAGTAAGAAGCAACATCATTCCCTTGAA
4117533 ATTGAAGTAGAGTGGATAA
325 ATTGAAGTAGAGTGGATAA
*
4117552 CACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGTAGAGTGG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGTAGAGTGG
4117617 ATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAG
66 ATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAG
*
4117682 TGGATAACACGTCTTCACCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGT
131 TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGT
*
4117747 AGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTA
196 AGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG-AGCAACGTCATTCCCTTGAAATTA
* * *
4117812 AAGTAGAGTGGATAACACGTCTTCATCTCTAAAATTGAAGTAAG-AGCAACGTCATTCCCTTGAA
260 AAGTAGAGTGGATAACACGTCTACACCTCTAAAATTGAAGTAAGAAGCAACATCATTCCCTTGAA
4117876 ATTGAAGTAGAGTGGATAA
325 ATTGAAGTAGAGTGGATAA
4117895 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGTAGAGTGG
1 CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGTAGAGTGG
* *
4117960 ATAACACGTCTTCATCTCTGAAATTGAAGTAAGAACAACGTCATCCCCTTGAAATTGAAGTAGAG
66 ATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAG
* * **
4118025 TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACGTCATCCCCTCAAAATTGAAGT
131 TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGT
* * *
4118090 AGAGTGGATAACACATCTTTACCTCTGAAATTGAAGTAAGAGCAACGTCAT
196 AGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
4118141 CCTCTTAGAA
Statistics
Matches: 559, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
342 38 0.07
343 456 0.82
344 65 0.12
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (343 bp):
CACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTAAAGTAGAGTGG
ATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAG
TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAATTGAAGT
AGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATTCCCTTGAAATTAA
AGTAGAGTGGATAACACGTCTACACCTCTAAAATTGAAGTAAGAAGCAACATCATTCCCTTGAAA
TTGAAGTAGAGTGGATAA
Found at i:4118521 original size:5 final size:6
Alignment explanation
Indices: 4118462--4118569 Score: 80
Period size: 6 Copynumber: 18.0 Consensus size: 6
4118452 TTAAATTGAT
* * * *
4118462 TTTAAA TTT--A TTTAAA TTCAGA TTT-AT TTTAAA TTTAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** *
4118507 TGTTTAAA TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA
1 --TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
4118557 TTTAACA TTTAAA
1 TTTAA-A TTTAAA
4118570 AGTCCAAATG
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 53 0.65
7 11 0.14
8 5 0.06
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:4120244 original size:161 final size:161
Alignment explanation
Indices: 4120043--4120355 Score: 459
Period size: 162 Copynumber: 1.9 Consensus size: 161
4120033 CTTTTCAATT
* *
4120043 TAGTCCTTTGACTGTTTGACTGTACCATAGGCTACCACGTGTCA-CTTTTGGGATTATTTATGCA
1 TAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATCTTTTGGGATTATTTATGCA
* * *
4120107 TTTAGTCCTTTTTATTTTTTATTTGTTTTAATTTAATCC-CAAATCAACTTTATTTTAATTACGA
66 TTTAGTCCTTTTTATTTTTAATTTGCTTTAATTTAATCCTCAAATCAACTTTA-TTTAATTACAA
4120171 AATTGGCCCAATAATTTTTCAAGGTTTATAAAC
130 AATTGGCCCAA-AATTTTTCAAGGTTTATAAAC
* * * *
4120204 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATCTTTTTGGATTATTTCTGCA
1 TAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATCTTTTGGGATTATTTATGCA
* * **
4120269 TTTAGTCCTTTTTATTTTTAATTTGCTTTAATTTAATCCTTCAATTGATTTTTATTTAATTACAA
66 TTTAGTCCTTTTTATTTTTAATTTGCTTTAATTTAATCC-TCAAATCAACTTTATTTAATTACAA
*
4120334 AATTGGTCCAAAATTTTTCAAG
130 AATTGGCCCAAAATTTTTCAAG
4120356 ATTTTCAAAT
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
161 40 0.30
162 66 0.49
163 20 0.15
164 9 0.07
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (161 bp):
TAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATCTTTTGGGATTATTTATGCA
TTTAGTCCTTTTTATTTTTAATTTGCTTTAATTTAATCCTCAAATCAACTTTATTTAATTACAAA
ATTGGCCCAAAATTTTTCAAGGTTTATAAAC
Found at i:4120518 original size:30 final size:30
Alignment explanation
Indices: 4120448--4120642 Score: 286
Period size: 30 Copynumber: 6.5 Consensus size: 30
4120438 CCCCAAACAA
4120448 TCCAGAAATTATATTTTGACCCCAAAACTTT
1 TCCA-AAATTATATTTTGACCCCAAAACTTT
*
4120479 TCC-AAATTATATTTTGACCCTAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
4120508 TCCAAAATTATATTTTGACCCCGAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
4120538 TCCAAAATTATATTTTAACCCCGAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* * *
4120568 TCCAAAACTACATTTTTACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
4120598 TCCAAAATTATATTTTGACCCCAAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
4120627 TCAAAAATTATCATTT
1 TCCAAAATTAT-ATTT
4120643 CCCCCACGAA
Statistics
Matches: 150, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
29 40 0.27
30 107 0.71
31 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:4120693 original size:30 final size:30
Alignment explanation
Indices: 4120659--4120876 Score: 143
Period size: 30 Copynumber: 7.5 Consensus size: 30
4120649 CGAATCTTTT
4120659 AAAATT-CCATTTTTAACCTCGATTACATCG
1 AAAATTACCATTTTTAACCTCGATT-CATCG
* * **
4120689 AAAATTACCA-TTTTACCCTCGAATC-TTT
1 AAAATTACCATTTTTAACCTCGATTCATCG
* *
4120717 AAAATT-CCGTTTTTAACCCCGATTACATCG
1 AAAATTACCATTTTTAACCTCGATT-CATCG
* * **
4120747 AAAATTACCA-TTTTACCCTCGAATC-TTT
1 AAAATTACCATTTTTAACCTCGATTCATCG
* *
4120775 AAAATT-CCATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTTAACCTCGA-TTCATCG
* * * **
4120805 AAAATTACCA-TTTT-ACCCCTGAATCTTTT
1 AAAATTACCATTTTTAACCTC-GATTCATCG
* *
4120834 AAAATT-CCATTTTTAACCCCGATTTCA-CC
1 AAAATTACCATTTTTAACCTCGA-TTCATCG
4120863 AAAATTACCATTTT
1 AAAATTACCATTTT
4120877 GCCCCCGGGT
Statistics
Matches: 143, Mismatches: 31, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
27 5 0.03
28 38 0.27
29 30 0.21
30 62 0.43
31 8 0.06
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (30 bp):
AAAATTACCATTTTTAACCTCGATTCATCG
Found at i:4120720 original size:58 final size:59
Alignment explanation
Indices: 4120630--4120876 Score: 367
Period size: 58 Copynumber: 4.2 Consensus size: 59
4120620 AAAACTTTCA
* ** * *
4120630 AAAATTATCATTTCCCCCACGAATCTTTTAAAATTCCATTTTTAACCTCGATTACATCG
1 AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACATCG
*
4120689 AAAATTACCATTTTACCCTCGAATC-TTTAAAATTCCGTTTTTAACCCCGATTACATCG
1 AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACATCG
* *
4120747 AAAATTACCATTTTACCCTCGAATC-TTTAAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACATCG
* *
4120805 AAAATTACCATTTTACCC-CTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA-CC
1 AAAATTACCATTTTACCCTC-GAATCTTTTAAAATTCCATTTTTAACCCCGATTACATCG
4120863 AAAATTACCATTTT
1 AAAATTACCATTTT
4120877 GCCCCCGGGT
Statistics
Matches: 176, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
57 1 0.01
58 124 0.70
59 51 0.29
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (59 bp):
AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACATCG
Found at i:4120882 original size:29 final size:29
Alignment explanation
Indices: 4120727--4120883 Score: 99
Period size: 29 Copynumber: 5.4 Consensus size: 29
4120717 AAAATTCCGT
* * *
4120727 TTTTAACCCCGATTACATCGAAAATTACCA
1 TTTTACCCCCGATTTCA-CCAAAATTACCA
* * ***
4120757 TTTTACCCTCGA-ATCTTTAAAATT-CCA
1 TTTTACCCCCGATTTCACCAAAATTACCA
*
4120784 TTTTTAACCCCGATTTCACCGAAAATTACCA
1 -TTTTACCCCCGATTTCACC-AAAATTACCA
* **
4120815 TTTTACCCCTGAATCTT--TTAAAATT-CCA
1 TTTTACCCCCG-AT-TTCACCAAAATTACCA
*
4120843 TTTTTAACCCCGATTTCACCAAAATTACCA
1 -TTTTACCCCCGATTTCACCAAAATTACCA
*
4120873 TTTTGCCCCCG
1 TTTTACCCCCG
4120884 GGTATCCATA
Statistics
Matches: 94, Mismatches: 23, Indels: 21
0.68 0.17 0.15
Matches are distributed among these distances:
27 5 0.05
28 21 0.22
29 33 0.35
30 28 0.30
31 5 0.05
32 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.36
Consensus pattern (29 bp):
TTTTACCCCCGATTTCACCAAAATTACCA
Found at i:4120902 original size:58 final size:59
Alignment explanation
Indices: 4120658--4120918 Score: 266
Period size: 58 Copynumber: 4.5 Consensus size: 59
4120648 ACGAATCTTT
* * * * *
4120658 TAAAATTCCATTTTTAACCTCGATTACATCGAAAATTACCATTTTACCCTC-GAATCT-T
1 TAAAATCCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCC-CGGAATCTCA
* * * * *
4120716 TAAAATTCCGTTTTTAACCCCGATTACATCGAAAATTACCATTTTACCCTC-GAATCT-T
1 TAAAATCCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCC-CGGAATCTCA
* * **
4120774 TAAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCTGAATCTTT
1 TAAAATCCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCGGAATCTCA
* * *
4120833 TAAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTGCCCCCGGGTATC-CA
1 TAAAATCCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTT-ACCCC-GGAATCTCA
* *
4120892 T-AAGTCCCATTTTTCACCCCGATTTCA
1 TAAAATCCCATTTTTAACCCCGATTTCA
4120919 TCATTTATCA
Statistics
Matches: 186, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
57 1 0.01
58 145 0.78
59 36 0.19
60 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.36
Consensus pattern (59 bp):
TAAAATCCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCGGAATCTCA
Found at i:4124442 original size:21 final size:21
Alignment explanation
Indices: 4124418--4124460 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4124408 AAAATAGATA
4124418 AAAAAAATTAGTTA-TTTTATT
1 AAAAAAATTA-TTATTTTTATT
**
4124439 AAAAATTTTATTATTTTTATT
1 AAAAAAATTATTATTTTTATT
4124460 A
1 A
4124461 TTAAAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
AAAAAAATTATTATTTTTATT
Found at i:4124541 original size:19 final size:20
Alignment explanation
Indices: 4124505--4124546 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
4124495 TACATAGCAT
*
4124505 GTCACGATAATTTTTTTATTA
1 GTCACGATAA-TTTTTTAATA
4124526 GTCACGATAA-TTTTTAATA
1 GTCACGATAATTTTTTAATA
4124545 GT
1 GT
4124547 AAAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.48
Consensus pattern (20 bp):
GTCACGATAATTTTTTAATA
Found at i:4126153 original size:6 final size:6
Alignment explanation
Indices: 4126142--4126175 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
4126132 TCGAGGATCA
4126142 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
4126176 AAGTGTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:4133871 original size:15 final size:15
Alignment explanation
Indices: 4133851--4133897 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
4133841 TTATTTTAAA
4133851 TTATATTTTAATTAT
1 TTATATTTTAATTAT
* *
4133866 TTATATTTAAAATA-
1 TTATATTTTAATTAT
*
4133880 TTATATTTTACTTAT
1 TTATATTTTAATTAT
4133895 TTA
1 TTA
4133898 CTTTATCGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:4133895 original size:14 final size:14
Alignment explanation
Indices: 4133842--4133895 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
4133832 CTTTTTTTTT
4133842 TATTTTAA--ATTA
1 TATTTTAATTATTA
4133854 TATTTTAATTATTTA
1 TATTTTAATTA-TTA
* *
4133869 TATTTAAAATATTA
1 TATTTTAATTATTA
*
4133883 TATTTTACTTATT
1 TATTTTAATTATT
4133896 TACTTTATCG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
12 8 0.24
14 14 0.41
15 12 0.35
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTTAATTATTA
Found at i:4135924 original size:40 final size:40
Alignment explanation
Indices: 4135880--4135960 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
4135870 TGATTATAAC
* *
4135880 ATGGAAAAAAGATGCCAACACTAAGTAAAATAACCAAAAA
1 ATGGAAAAAAGATACAAACACTAAGTAAAATAACCAAAAA
4135920 ATGGAAAAAAGATACAAACACTAAGTAAAATAACCAAAAA
1 ATGGAAAAAAGATACAAACACTAAGTAAAATAACCAAAAA
4135960 A
1 A
4135961 ATAAAGTACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.63, C:0.14, G:0.11, T:0.12
Consensus pattern (40 bp):
ATGGAAAAAAGATACAAACACTAAGTAAAATAACCAAAAA
Found at i:4144002 original size:18 final size:19
Alignment explanation
Indices: 4143974--4144009 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
4143964 AATTTTACAT
4143974 TTTAGATAATTTGAATAAC
1 TTTAGATAATTTGAATAAC
4143993 TTTA-ATAATTTGAATAA
1 TTTAGATAATTTGAATAA
4144010 AATAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (19 bp):
TTTAGATAATTTGAATAAC
Found at i:4144140 original size:24 final size:25
Alignment explanation
Indices: 4144104--4144153 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
4144094 AAGATTCAAA
4144104 ATATTTATAAAAATTCT-AAAATTT
1 ATATTTATAAAAATTCTAAAAATTT
* * *
4144128 ATATTTTTGAAAATTTTAAAAATTT
1 ATATTTATAAAAATTCTAAAAATTT
4144153 A
1 A
4144154 AAGAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATTTATAAAAATTCTAAAAATTT
Found at i:4145260 original size:16 final size:15
Alignment explanation
Indices: 4145182--4145261 Score: 54
Period size: 15 Copynumber: 5.2 Consensus size: 15
4145172 AGATCTTACC
4145182 AACTAATGAGTGATG
1 AACTAATGAGTGATG
* **
4145197 AATTAGCGAGTGATG
1 AACTAATGAGTGATG
* * *
4145212 AGCTAATAAAGTGAGG
1 AACTAAT-GAGTGATG
* *
4145228 ATCTAATGAG-AAGTG
1 AACTAATGAGTGA-TG
4145243 AACTAACTGAGTGATG
1 AACTAA-TGAGTGATG
4145259 AAC
1 AAC
4145262 GAATTGGATT
Statistics
Matches: 46, Mismatches: 15, Indels: 7
0.68 0.22 0.10
Matches are distributed among these distances:
14 1 0.02
15 23 0.50
16 21 0.46
17 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.24
Consensus pattern (15 bp):
AACTAATGAGTGATG
Found at i:4162837 original size:22 final size:22
Alignment explanation
Indices: 4162806--4162848 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4162796 GTTTTTGTAT
4162806 TCTTTATAAATTT-AGAATTTTG
1 TCTTTATAAATTTCA-AATTTTG
*
4162828 TCTTTTTAAATTTCAAATTTT
1 TCTTTATAAATTTCAAATTTT
4162849 AGATCTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (22 bp):
TCTTTATAAATTTCAAATTTTG
Found at i:4172715 original size:20 final size:19
Alignment explanation
Indices: 4172677--4172716 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
4172667 ATAAAAAATA
* *
4172677 TATTTTTAATAATATAATT
1 TATTTTTAAAAAAATAATT
4172696 TATTTTGTAAAAAAATAATT
1 TATTTT-TAAAAAAATAATT
4172716 T
1 T
4172717 TTTAATTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TATTTTTAAAAAAATAATT
Found at i:4180897 original size:48 final size:49
Alignment explanation
Indices: 4180808--4180902 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 49
4180798 GAAATCCCAG
*
4180808 CAATTTCCATATGCTAATAAAAAGACTTTAATTTACATGACAATCGCAA
1 CAATTTCCATATGCTAATAAAAAGACTGTAATTTACATGACAATCGCAA
4180857 CAATTTCCATATGCTAAT-AAAAGACTGTAATTTACATGACAATCGC
1 CAATTTCCATATGCTAATAAAAAGACTGTAATTTACATGACAATCGC
4180903 TATGCCAACG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 27 0.60
49 18 0.40
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (49 bp):
CAATTTCCATATGCTAATAAAAAGACTGTAATTTACATGACAATCGCAA
Found at i:4187481 original size:28 final size:28
Alignment explanation
Indices: 4187440--4187515 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
4187430 GTGGTCCAAC
** *
4187440 TCAACGGTTGTATTGTAACGGTCAAATT
1 TCAACGGTCATATTATAACGGTCAAATT
* *
4187468 TCAACGGTCATATTATAACAGTCAGATT
1 TCAACGGTCATATTATAACGGTCAAATT
* * *
4187496 CCAATGGTCAAATTATAACG
1 TCAACGGTCATATTATAACG
4187516 ATCAGATTCT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (28 bp):
TCAACGGTCATATTATAACGGTCAAATT
Found at i:4187520 original size:28 final size:28
Alignment explanation
Indices: 4187455--4187529 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
4187445 GGTTGTATTG
* * * * *
4187455 TAACGGTCAAATTTCAACGGTCATATTA
1 TAACGATCAGATTCCAATGGTCAAATTA
4187483 TAAC-AGTCAGATTCCAATGGTCAAATTA
1 TAACGA-TCAGATTCCAATGGTCAAATTA
*
4187511 TAACGATCAGATTCTAATG
1 TAACGATCAGATTCCAATG
4187530 ACCATATTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (28 bp):
TAACGATCAGATTCCAATGGTCAAATTA
Found at i:4187542 original size:28 final size:29
Alignment explanation
Indices: 4187476--4187551 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
4187466 TTTCAACGGT
**
4187476 CATATTATAAC-AGTCAGATTCCAATGGT
1 CATATTATAACGAGTCAGATTCCAATGAC
* *
4187504 CAAATTATAACGA-TCAGATTCTAATGAC
1 CATATTATAACGAGTCAGATTCCAATGAC
* *
4187532 CATATTGTAACG-GTTAGATT
1 CATATTATAACGAGTCAGATT
4187552 TTTGCAAAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (29 bp):
CATATTATAACGAGTCAGATTCCAATGAC
Found at i:4190694 original size:18 final size:18
Alignment explanation
Indices: 4190671--4190705 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4190661 TGACACGTGT
*
4190671 GTATTTTTTTTAAATACG
1 GTATTTTCTTTAAATACG
*
4190689 GTATTTTCTTTATATAC
1 GTATTTTCTTTAAATAC
4190706 AAAAATACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (18 bp):
GTATTTTCTTTAAATACG
Found at i:4190928 original size:83 final size:83
Alignment explanation
Indices: 4190852--4191306 Score: 657
Period size: 83 Copynumber: 5.5 Consensus size: 83
4190842 TAAATATAAA
* * *
4190852 ATATAATAAAAATTGTAATATAATAAAAAATTTTATTTAAAGATAAAAAATTAATAAATATTGTA
1 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATATTGTA
*
4190917 TTGTCAAATAAACACATT
66 TTGTCAAATCAACACATT
4190935 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATATTGTA
1 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATATTGTA
4191000 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
* **
4191018 ATATGATAAAAATTGTAATATAATAAAATTTTTTATTTAAAGATATAAAATTAATAAATATTGTA
1 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATATTGTA
4191083 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
*
4191101 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATATTCTA
1 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATATTGTA
* *
4191166 TTGTCAAATCAATATATT
66 TTGTCAAATCAACACATT
* * * * *
4191184 ATATGATAAAAATTATAATATAAT-AATAATTTGTACTTCAA-ATATGAAAATTTGATAAATAAT
1 ATATGATAAAAATTATAATATAATAAAAAATTT-TATTTAAAGATAT-AAAA-TTAATAAATATT
* * *
4191247 GTATTGTCAAATTAATACAAT
63 GTATTGTCAAATCAACACATT
* * * *
4191268 ATTTGATATAAATTGTAATATAAT-AAATATTTT-TTTAAA
1 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAA
4191307 TAATGTTAAA
Statistics
Matches: 340, Mismatches: 29, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
82 15 0.04
83 271 0.80
84 54 0.16
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (83 bp):
ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATATTGTA
TTGTCAAATCAACACATT
Found at i:4191031 original size:45 final size:46
Alignment explanation
Indices: 4190976--4191115 Score: 113
Period size: 45 Copynumber: 3.3 Consensus size: 46
4190966 TTTATTTAAA
4190976 GATATAAAATTAATAAATATTGTATTGTCAAATCAACACATTATAT
1 GATATAAAATTAATAAATATTGTATTGTCAAATCAACACATTATAT
* * * ***** *
4191022 GATA-AAAATT-GT-AATA---TA--ATAAAAT-TTTTTATT-TAAA
1 GATATAAAATTAATAAATATTGTATTGTCAAATCAACACATTAT-AT
4191059 GATATAAAATTAATAAATATTGTATTGTCAAATCAACACATTATAT
1 GATATAAAATTAATAAATATTGTATTGTCAAATCAACACATTATAT
4191105 GATA-AAAATTA
1 GATATAAAATTA
4191116 TAATATAATA
Statistics
Matches: 65, Mismatches: 18, Indels: 23
0.61 0.17 0.22
Matches are distributed among these distances:
36 1 0.02
37 8 0.12
38 11 0.17
39 1 0.02
40 6 0.09
43 6 0.09
44 1 0.02
45 18 0.28
46 12 0.18
47 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (46 bp):
GATATAAAATTAATAAATATTGTATTGTCAAATCAACACATTATAT
Found at i:4191439 original size:12 final size:12
Alignment explanation
Indices: 4191422--4191469 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
4191412 AAAAATGTTC
4191422 ATTAATTTCCAA
1 ATTAATTTCCAA
4191434 ATTAATTTCAACTTAA
1 ATTAATTTC--C--AA
*
4191450 ATTAATTTTCAA
1 ATTAATTTCCAA
4191462 ATTAATTT
1 ATTAATTT
4191470 TTACACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAATTTCCAA
Found at i:4191468 original size:16 final size:16
Alignment explanation
Indices: 4191432--4191466 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4191422 ATTAATTTCC
*
4191432 AAATTAATTTCAACTT
1 AAATTAATTTCAAATT
4191448 AAATTAATTTTCAAATT
1 AAATTAA-TTTCAAATT
4191465 AA
1 AA
4191467 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTCAAATT
Found at i:4191479 original size:28 final size:28
Alignment explanation
Indices: 4191422--4191479 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
4191412 AAAAATGTTC
**
4191422 ATTAATTTCCAAATTAATTTCAACTTAA
1 ATTAATTTCCAAATTAATTTCAACACAA
* **
4191450 ATTAATTTTCAAATTAATTTTTACACAA
1 ATTAATTTCCAAATTAATTTCAACACAA
4191478 AT
1 AT
4191480 ATACTTCGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTAATTTCCAAATTAATTTCAACACAA
Found at i:4195422 original size:103 final size:101
Alignment explanation
Indices: 4195251--4195535 Score: 335
Period size: 99 Copynumber: 2.8 Consensus size: 101
4195241 TTAATCCGAG
* * *
4195251 GAAAATGGCCAACACCAAAAAAATTTAAAATTTTTTTCTCGAGAACAGGAGGTGTCGGCCATTTG
1 GAAAATGGCCAACACCAAAAAAAATT-AAATTTTTTT-TCGAGAATAGGGGGTGTCGGCCATTTG
* *
4195316 ATGGCCAACACAAAAAAAAATTTGAATTTTTTTTCTCGA
64 ATGGCCAACAC-AAAAAAAATTTAAAATTTTTTTCTCGA
*
4195355 GAATAGA-GGCCAACACCAAAAAAAATTAAATTTTTTTTGGAGAATAGGGGGTGTCGGCCATTTG
1 GAA-A-ATGGCCAACACCAAAAAAAATTAAATTTTTTTTCGAGAATAGGGGGTGTCGGCCATTTG
* * *
4195419 ATGGCCGACACCAAAAAAATTTAAAATTTTTTTCTTGA
64 ATGGCCAACACAAAAAAAATTTAAAATTTTTTTCTCGA
* * * * ***
4195457 GAAAATGGCCAACACC-CAAAAAA-TACAATTTTTTTTTGA-AATAAGGGATGTCGGCCATGCAA
1 GAAAATGGCCAACACCAAAAAAAATTA-AATTTTTTTTCGAGAATAGGGGGTGTCGGCCATTTGA
*
4195519 TGGCCAACACCAAAAAA
65 TGGCCAACACAAAAAAA
4195536 TGTAATTTTT
Statistics
Matches: 160, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
99 36 0.22
100 19 0.12
101 11 0.07
102 26 0.16
103 34 0.21
104 13 0.08
105 20 0.12
106 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (101 bp):
GAAAATGGCCAACACCAAAAAAAATTAAATTTTTTTTCGAGAATAGGGGGTGTCGGCCATTTGAT
GGCCAACACAAAAAAAATTTAAAATTTTTTTCTCGA
Found at i:4195548 original size:99 final size:102
Alignment explanation
Indices: 4195257--4195549 Score: 285
Period size: 103 Copynumber: 2.9 Consensus size: 102
4195247 CGAGGAAAAT
* * * * ***
4195257 GGCCAACACCAAAAAAATTTAAAATTTTTTTCTCGAGAA-CAGGAGGTGTCGGCCATTTGATGGC
1 GGCCAACACCAAAAAAAATT-AAATTTTTTT-TGGAGAATAAGG-GATGTCGGCCATGCAATGGC
* * *
4195321 CAACACAAAAAAAAATTTGAATTTTTTTTCTCGAGAATAGA
63 CAACAC-CAAAAAAATGTAAATTTTTTTTCTCGAGAATAGA
* * *** *
4195362 GGCCAACACCAAAAAAAATTAAATTTTTTTTGGAGAATAGGGGGTGTCGGCCATTTGATGGCCGA
1 GGCCAACACCAAAAAAAATTAAATTTTTTTTGGAGAATAAGGGATGTCGGCCATGCAATGGCCAA
* * *
4195427 CACCAAAAAAATTTAAAATTTTTTTCTTGAGAA-A-A
66 CACCAAAAAAATGTAAATTTTTTTTCTCGAGAATAGA
* *
4195462 TGGCCAACACC-CAAAAAA-TACAATTTTTTTTTGA-AATAAGGGATGTCGGCCATGCAATGGCC
1 -GGCCAACACCAAAAAAAATTA-AATTTTTTTTGGAGAATAAGGGATGTCGGCCATGCAATGGCC
*
4195524 AACACC-AAAAAATGTAATTTTTTTTT
64 AACACCAAAAAAATGTAAATTTTTTTT
4195550 GAAATAAGGG
Statistics
Matches: 165, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
98 17 0.10
99 30 0.18
100 19 0.12
101 11 0.07
102 26 0.16
103 31 0.19
104 12 0.07
105 19 0.12
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (102 bp):
GGCCAACACCAAAAAAAATTAAATTTTTTTTGGAGAATAAGGGATGTCGGCCATGCAATGGCCAA
CACCAAAAAAATGTAAATTTTTTTTCTCGAGAATAGA
Found at i:4195555 original size:56 final size:56
Alignment explanation
Indices: 4195460--4195592 Score: 212
Period size: 56 Copynumber: 2.4 Consensus size: 56
4195450 TTCTTGAGAA
4195460 AATGGCCAACACCCAAAAAATACAATTTTTTTTTGAAATAAGGGATGTCGGCCATGC
1 AATGGCCAACA-CCAAAAAATACAATTTTTTTTTGAAATAAGGGATGTCGGCCATGC
** *
4195517 AATGGCCAACACCAAAAAATGTAATTTTTTTTTGAAATAAGGGGTGTCGGCCATGC
1 AATGGCCAACACCAAAAAATACAATTTTTTTTTGAAATAAGGGATGTCGGCCATGC
* *
4195573 AATGACCAACACCTAAAAAT
1 AATGGCCAACACCAAAAAAT
4195593 TTTAAAATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
56 60 0.85
57 11 0.15
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (56 bp):
AATGGCCAACACCAAAAAATACAATTTTTTTTTGAAATAAGGGATGTCGGCCATGC
Found at i:4203033 original size:21 final size:21
Alignment explanation
Indices: 4203007--4203048 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4202997 CATTCTCTGT
4203007 TTACGAGTGGGAAGTACATCG
1 TTACGAGTGGGAAGTACATCG
4203028 TTACGAGTGGGAAGTACATCG
1 TTACGAGTGGGAAGTACATCG
4203049 AGTGGATCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (21 bp):
TTACGAGTGGGAAGTACATCG
Found at i:4204315 original size:20 final size:21
Alignment explanation
Indices: 4204270--4204309 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4204260 TATGCCATAG
*
4204270 ATAATTTTTTTTAGGTCTAATT
1 ATAATTTTTTTTAGCTCTAA-T
4204292 ATAATTTTTTTTA-CTCTA
1 ATAATTTTTTTTAGCTCTA
4204310 CAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (21 bp):
ATAATTTTTTTTAGCTCTAAT
Found at i:4208589 original size:16 final size:18
Alignment explanation
Indices: 4208554--4208592 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
4208544 AAAAAAAATT
4208554 ATTTTAATTATTCATTTA
1 ATTTTAATTATTCATTTA
*
4208572 ATTTT-ATTTTTC-TTTA
1 ATTTTAATTATTCATTTA
4208588 ATTTT
1 ATTTT
4208593 TAAATTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 6 0.30
18 5 0.25
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTAATTATTCATTTA
Found at i:4210792 original size:55 final size:56
Alignment explanation
Indices: 4210713--4210825 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 56
4210703 AAAAGATCAA
4210713 TTCATCCTCCTAATTC-TTTTTTTTTTGAATCAATATTTCCTAATTCTTATAAAAG
1 TTCATCCTCCTAATTCTTTTTTTTTTTGAATCAATATTTCCTAATTCTTATAAAAG
*
4210768 TTCATTCTCCTAATTCTTTTTTTTTTTTTGAATCAATATTTCCTAATTCTTATAAAAG
1 TTCATCCTCCTAATTC--TTTTTTTTTTTGAATCAATATTTCCTAATTCTTATAAAAG
4210826 GCATAATAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
55 15 0.28
58 39 0.72
ACGTcount: A:0.27, C:0.17, G:0.04, T:0.53
Consensus pattern (56 bp):
TTCATCCTCCTAATTCTTTTTTTTTTTGAATCAATATTTCCTAATTCTTATAAAAG
Found at i:4211653 original size:7 final size:7
Alignment explanation
Indices: 4211641--4211672 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
4211631 TAGGATATGG
4211641 ATGGCAA
1 ATGGCAA
4211648 ATGGCAA
1 ATGGCAA
4211655 ATGGCAA
1 ATGGCAA
4211662 ATGGC-A
1 ATGGCAA
4211668 ATGGC
1 ATGGC
4211673 GTTTTTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.38, C:0.16, G:0.31, T:0.16
Consensus pattern (7 bp):
ATGGCAA
Found at i:4212460 original size:25 final size:24
Alignment explanation
Indices: 4212424--4212473 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
4212414 AAAAATATAA
*
4212424 TTTTATCATTTTAATAAT-TTAAAT
1 TTTTATAATTTTAA-AATATTAAAT
4212448 TTTTATAATTTTTAAAATATTAAAT
1 TTTTATAA-TTTTAAAATATTAAAT
4212473 T
1 T
4212474 AAATTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTATAATTTTAAAATATTAAAT
Found at i:4212551 original size:81 final size:84
Alignment explanation
Indices: 4212415--4212569 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 84
4212405 TGGAGTAATA
* * * ** *
4212415 AAAATATAATTTTATCATTTTAATAATTTAAATTTTTATAATTTTTAAAATATTAAATT-AA-AT
1 AAAATATAATTTTAT-ATATTAATAATTTAAAATTTTATAAATTAAAAAAAATTAAATTAAATAT
4212478 TTATCATTTATAAATGGGTT
65 TTATCATTTATAAATGGGTT
*
4212498 AAAATATAATTTTAT-TATTATTAATTTAAAATTTTATAAATTAAAAAAAATTAAATTAAATATT
1 AAAATATAATTTTATATATTAATAATTTAAAATTTTATAAATTAAAAAAAATTAAATTAAATATT
4212562 TATCATTT
66 TATCATTT
4212570 TACGAGACAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
81 35 0.56
82 2 0.03
83 26 0.41
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (84 bp):
AAAATATAATTTTATATATTAATAATTTAAAATTTTATAAATTAAAAAAAATTAAATTAAATATT
TATCATTTATAAATGGGTT
Found at i:4238164 original size:24 final size:24
Alignment explanation
Indices: 4238132--4238184 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4238122 ATATATTTTT
*
4238132 TATAA-ATATTTAATATTTATTAG
1 TATAATATATTTAATATTTATTAA
**
4238155 TATAATATATTTTGTATTTATTAA
1 TATAATATATTTAATATTTATTAA
4238179 TATAAT
1 TATAAT
4238185 TTGTTTGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
TATAATATATTTAATATTTATTAA
Found at i:4242829 original size:20 final size:20
Alignment explanation
Indices: 4242804--4242841 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4242794 ACAAACTCCC
4242804 AAATAAAAAAAATACAATAA
1 AAATAAAAAAAATACAATAA
**
4242824 AAATAATTAAAATACAAT
1 AAATAAAAAAAATACAAT
4242842 CCAAAAAATC
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:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAAAAAAAATACAATAA
Found at i:4245335 original size:59 final size:59
Alignment explanation
Indices: 4245236--4245348 Score: 190
Period size: 60 Copynumber: 1.9 Consensus size: 59
4245226 ATATGGTACT
* * *
4245236 TGAACTTGATATTTTTTTTAATTTGGTATCTAAACTTTTTTTGGACCCAATTTAATACG
1 TGAACTTGACATTTTTCTTAATTTGGTACCTAAACTTTTTTTGGACCCAATTTAATACG
4245295 TGAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGACCCAATTT
1 TGAACTTGACA-TTTTTCTTAATTTGGTACCTAAACTTTTTTTGGACCCAATTT
4245349 GGTACCTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
59 10 0.20
60 40 0.80
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.48
Consensus pattern (59 bp):
TGAACTTGACATTTTTCTTAATTTGGTACCTAAACTTTTTTTGGACCCAATTTAATACG
Found at i:4252394 original size:12 final size:12
Alignment explanation
Indices: 4252375--4252413 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
4252365 TTATTTTAAT
4252375 ATATTTAATATTA
1 ATATTTAAT-TTA
4252388 A-ATTTAATTTA
1 ATATTTAATTTA
*
4252399 ATATTTATTTTA
1 ATATTTAATTTA
4252411 ATA
1 ATA
4252414 ATATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 4 0.17
12 19 0.79
13 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATTTAATTTA
Found at i:4252407 original size:54 final size:49
Alignment explanation
Indices: 4252331--4252455 Score: 124
Period size: 49 Copynumber: 2.4 Consensus size: 49
4252321 TCTATTAGGG
* *
4252331 AATTAAATTTCAAATTAATTATTAAAAAATAATATTATTTTAATATATTTAATATTA
1 AATTAAATTT--AA-TAATTATT--AAAATAATA-TATTTTAA-AAATAT-ATATTA
* * **
4252388 AATTTAATTTAATATTTATTTTAATAATATATTTTAAAAATATATATTA
1 AATTAAATTTAATAATTATTAAAATAATATATTTTAAAAATATATATTA
4252437 AATTAAATTTAATAATTAT
1 AATTAAATTTAATAATTAT
4252456 CTTATAGATA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
49 23 0.38
50 4 0.07
51 8 0.13
52 7 0.12
54 7 0.12
55 2 0.03
57 9 0.15
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (49 bp):
AATTAAATTTAATAATTATTAAAATAATATATTTTAAAAATATATATTA
Done.