Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 200 of 313
Found at i:61339457 original size:79 final size:80
Alignment explanation
Indices: 61339342--61339495 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 80
61339332 GCCCGGTTAC
* * *
61339342 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCGG
1 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTCGG
61339406 G-CTTAGCCCGAAATT
65 GACTTAGCCCGAAATT
** * *
61339421 AGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGG
1 AGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
61339485 GACTTAGCCCG
65 GACTTAGCCCG
61339496 GACATCATTC
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
78 3 0.05
79 49 0.75
80 13 0.20
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGG
ACTTAGCCCGAAATT
Found at i:61341752 original size:35 final size:30
Alignment explanation
Indices: 61341687--61341746 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
61341677 CACAATATCG
*
61341687 TTTAATTTAATCAACATTATACAGAATTCA
1 TTTAATTTAATCAACATTATAAAGAATTCA
61341717 TTTAATTTAATCAACATTATAAAGAATTCA
1 TTTAATTTAATCAACATTATAAAGAATTCA
61341747 GTTCATACGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (30 bp):
TTTAATTTAATCAACATTATAAAGAATTCA
Found at i:61356489 original size:27 final size:27
Alignment explanation
Indices: 61356428--61356489 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
61356418 AGTGTTCCAA
* *
61356428 CGGACTATCCCGTGTTTATTATCTCAT
1 CGGACTATCCCGTGCTTATTATCCCAT
* *
61356455 CAGG-CTATCCCGTGCTTATTGTCCCGT
1 C-GGACTATCCCGTGCTTATTATCCCAT
61356482 CGGACTAT
1 CGGACTAT
61356490 TTATGATGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.35
Consensus pattern (27 bp):
CGGACTATCCCGTGCTTATTATCCCAT
Found at i:61360702 original size:25 final size:26
Alignment explanation
Indices: 61360665--61360722 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
61360655 TTAATTAGTA
* *
61360665 TAAAATATT-AATAATTCAAT-AAAT
1 TAAAATTTTAAATAATTAAATAAAAT
*
61360689 TGAAATTTTAAATAATTAAATAAAAT
1 TAAAATTTTAAATAATTAAATAAAAT
61360715 TAAAATTT
1 TAAAATTT
61360723 AGTAGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 7 0.25
25 10 0.36
26 11 0.39
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
TAAAATTTTAAATAATTAAATAAAAT
Found at i:61360723 original size:25 final size:24
Alignment explanation
Indices: 61360665--61360723 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
61360655 TTAATTAGTA
*
61360665 TAAAATATT-AATAATTCAATAAAT
1 TAAAAT-TTAAATAATTAAATAAAT
*
61360689 TGAAATTTTAAATAATTAAATAAAAT
1 T-AAAATTTAAATAATTAAAT-AAAT
61360715 TAAAATTTA
1 TAAAATTTA
61360724 GTAGAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 3 0.10
25 21 0.72
26 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
TAAAATTTAAATAATTAAATAAAT
Found at i:61361473 original size:30 final size:30
Alignment explanation
Indices: 61361418--61361474 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
61361408 CTTTTGAAAA
* *
61361418 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACACCAAATTTTTAG
61361448 TATTTACAAAAAGAG-CAACCAAATTTT
1 TATTTACAAAAAGAGAC-ACCAAATTTT
61361475 GAAAATAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGACACCAAATTTTTAG
Found at i:61369109 original size:10 final size:10
Alignment explanation
Indices: 61369087--61369133 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
61369077 AAATCTGTCG
61369087 AAAA-TAATT
1 AAAATTAATT
*
61369096 AAAATTAATC
1 AAAATTAATT
*
61369106 AAAATTTGATAT
1 AAAA-TTAAT-T
61369118 AAAATTAATT
1 AAAATTAATT
61369128 AAAATT
1 AAAATT
61369134 GAACATGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 4 0.13
10 15 0.48
11 8 0.26
12 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAATTAATT
Found at i:61370263 original size:25 final size:25
Alignment explanation
Indices: 61370230--61370367 Score: 124
Period size: 25 Copynumber: 5.5 Consensus size: 25
61370220 AATTCTTTGG
*
61370230 AAAGTCTTTGTGGCTAATCTTGTGA
1 AAAGCCTTTGTGGCTAATCTTGTGA
* *
61370255 AAAGCCTTTATAGCGTATTATC-TG-G-
1 AAAGCCTTTGTGGC-TA--ATCTTGTGA
*
61370280 AAAGCTTTTGTGGCTAATCTTGTGA
1 AAAGCCTTTGTGGCTAATCTTGTGA
* *
61370305 AAAGCCTTTGTGGCCT-AT-TATCTAA
1 AAAGCCTTTGTGG-CTAATCT-TGTGA
* *
61370330 AAAGCCTTTGTGTCTAATCTTGTAA
1 AAAGCCTTTGTGGCTAATCTTGTGA
61370355 AAAGCCTTTGTGG
1 AAAGCCTTTGTGG
61370368 AGTATTATCT
Statistics
Matches: 91, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
22 3 0.03
23 2 0.02
24 6 0.07
25 69 0.76
26 6 0.07
27 2 0.02
28 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (25 bp):
AAAGCCTTTGTGGCTAATCTTGTGA
Found at i:61370302 original size:50 final size:50
Alignment explanation
Indices: 61370227--61370383 Score: 217
Period size: 50 Copynumber: 3.1 Consensus size: 50
61370217 GAGAATTCTT
* *
61370227 TGGAAAG-TCTTTGTGGCTAATCTTGTGAAAAGCCTTTATAGCGTATTATC
1 TGGAAAGCT-TTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTATTATC
*
61370277 TGGAAAGCTTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCCTATTATC
1 TGGAAAGCTTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTATTATC
** * * * *
61370327 TAAAAAGCCTTTGTGTCTAATCTTGTAAAAAGCCTTTGTGGAGTATTATC
1 TGGAAAGCTTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTATTATC
61370377 TGGAAAG
1 TGGAAAG
61370384 ACTGTGTGCC
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 93 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (50 bp):
TGGAAAGCTTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTATTATC
Found at i:61370403 original size:50 final size:49
Alignment explanation
Indices: 61370227--61370404 Score: 194
Period size: 50 Copynumber: 3.6 Consensus size: 49
61370217 GAGAATTCTT
* * * *
61370227 TGGAAAGTCTTTGTGGCTAATCTTGTGAAAAGCCTTTATAGCGTATTATC
1 TGGAAAG-CTTTGTGCCTAATCTTGTAAAAAGCCTTTGTGGCGTATTATC
* * *
61370277 TGGAAAGCTTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCCTATTATC
1 TGGAAAGC-TTTGTGCCTAATCTTGTAAAAAGCCTTTGTGGCGTATTATC
** * *
61370327 TAAAAAGCCTTTGTGTCTAATCTTGTAAAAAGCCTTTGTGGAGTATTATC
1 TGGAAAG-CTTTGTGCCTAATCTTGTAAAAAGCCTTTGTGGCGTATTATC
* * *
61370377 TGGAAAGACTGTGTGCCGAATTTTGTAA
1 TGGAAAG-CTTTGTGCCTAATCTTGTAA
61370405 CGCTTAAATG
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 108 0.98
51 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.37
Consensus pattern (49 bp):
TGGAAAGCTTTGTGCCTAATCTTGTAAAAAGCCTTTGTGGCGTATTATC
Found at i:61372224 original size:16 final size:17
Alignment explanation
Indices: 61372203--61372248 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
61372193 TTTTTATGTA
61372203 TTTTTATATTT-TATAT
1 TTTTTATATTTATATAT
*
61372219 TTTTTATAATTTATGTAT
1 TTTTTAT-ATTTATATAT
61372237 TTTTTA-ATTTAT
1 TTTTTATATTTAT
61372249 TATCTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 13 0.48
17 4 0.15
18 10 0.37
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTTATATTTATATAT
Found at i:61373384 original size:5 final size:5
Alignment explanation
Indices: 61373369--61373399 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
61373359 TGCAATTTAA
61373369 ATTTCC ATTTC ATTTC ATTTC ATTTC ATTTC
1 ATTT-C ATTTC ATTTC ATTTC ATTTC ATTTC
61373400 CACAACCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTC
Found at i:61374777 original size:5 final size:5
Alignment explanation
Indices: 61374767--61374792 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61374757 TATGCATCTC
61374767 CAAAA CAAAA CAAAA CAAAA CAAAA C
1 CAAAA CAAAA CAAAA CAAAA CAAAA C
61374793 CCCATATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:61379448 original size:30 final size:30
Alignment explanation
Indices: 61379412--61379470 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61379402 TACGAGGACA
61379412 TTTAGGAACTT-GAGAAGAC-CTGATATCTCG
1 TTTAGGAACTTAG-GAAGACTC-GATATCTCG
*
61379442 TTTAGGAGCTTAGGAAGACTCGATATCTC
1 TTTAGGAACTTAGGAAGACTCGATATCTC
61379471 ATTCAAGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (30 bp):
TTTAGGAACTTAGGAAGACTCGATATCTCG
Found at i:61380591 original size:13 final size:13
Alignment explanation
Indices: 61380573--61380602 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61380563 ATTATATAAT
*
61380573 AATAAAACAAAGA
1 AATAAAAAAAAGA
61380586 AATAAAAAAAAGA
1 AATAAAAAAAAGA
61380599 AATA
1 AATA
61380603 GAGACAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (13 bp):
AATAAAAAAAAGA
Found at i:61383552 original size:14 final size:15
Alignment explanation
Indices: 61383533--61383565 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
61383523 AGTGTTTATT
61383533 TTTAATATA-ATATG
1 TTTAATATATATATG
*
61383547 TTTAATATATATATT
1 TTTAATATATATATG
61383562 TTTA
1 TTTA
61383566 TTACACATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTAATATATATATG
Found at i:61385470 original size:71 final size:72
Alignment explanation
Indices: 61385384--61385540 Score: 181
Period size: 71 Copynumber: 2.2 Consensus size: 72
61385374 CTTCAGACCT
* * * * * *
61385384 AAAGGGAGAACATTCAGCCATCAATATTGCGATAACAACCACTTAATGTCGCGACAAC-AAATTT
1 AAAGGGAG--CATTCAGCCATCAATATCGCAACAACAACCACTCAATGTCACAACAACAAAATTT
61385448 CAAACCTAG
64 CAAACCTAG
* * **
61385457 AAAGGGAGCATTCAGCCTTCAATGTCGCAACAACAACCACTCAATGTCACAACAACAAAATTTGT
1 AAAGGGAGCATTCAGCCATCAATATCGCAACAACAACCACTCAATGTCACAACAACAAAATTTCA
*
61385522 AACCTAT
66 AACCTAG
*
61385529 AAAAGGAGCATT
1 AAAGGGAGCATT
61385541 TAGTCATCGA
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
71 40 0.56
72 23 0.32
73 8 0.11
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (72 bp):
AAAGGGAGCATTCAGCCATCAATATCGCAACAACAACCACTCAATGTCACAACAACAAAATTTCA
AACCTAG
Found at i:61389369 original size:20 final size:20
Alignment explanation
Indices: 61389341--61389407 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 20
61389331 ACATGCCACT
*
61389341 ATCGTACTTTGGTACCCCTG
1 ATCGCACTTTGGTACCCCTG
** *
61389361 ATCGCACTTACGTGCCCCTG
1 ATCGCACTTTGGTACCCCTG
* *
61389381 -TCGTACTTTGGTA-CCTTG
1 ATCGCACTTTGGTACCCCTG
61389399 ATCGCACTT
1 ATCGCACTT
61389408 ACGTGCCTCT
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
18 4 0.11
19 16 0.44
20 16 0.44
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.34
Consensus pattern (20 bp):
ATCGCACTTTGGTACCCCTG
Found at i:61389371 original size:39 final size:39
Alignment explanation
Indices: 61389317--61389492 Score: 178
Period size: 39 Copynumber: 4.5 Consensus size: 39
61389307 ATAATTATAT
* *
61389317 CCCTGATCGCACTTACATGCCACTATCGTACTTTGGTAC
1 CCCTGATCGCACTTACGTGCCACTGTCGTACTTTGGTAC
*
61389356 CCCTGATCGCACTTACGTGCCCCTGTCGTACTTTGGTA-
1 CCCTGATCGCACTTACGTGCCACTGTCGTACTTTGGTAC
* * * * *
61389394 CCTTGATCGCACTTACGTGCCTCTGTCATACTTCGGCAC
1 CCCTGATCGCACTTACGTGCCACTGTCGTACTTTGGTAC
* * *
61389433 CTCTGATTGCACTTATGTGCC-CT-TGCTGTACTTTGGTAC
1 CCCTGATCGCACTTACGTGCCACTGT-C-GTACTTTGGTAC
* * * *
61389472 TCTTGATAGCACTTTCGTGCC
1 CCCTGATCGCACTTACGTGCC
61389493 GTGGTAATGT
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 36 0.32
39 76 0.67
ACGTcount: A:0.15, C:0.32, G:0.19, T:0.34
Consensus pattern (39 bp):
CCCTGATCGCACTTACGTGCCACTGTCGTACTTTGGTAC
Found at i:61389447 original size:77 final size:78
Alignment explanation
Indices: 61389320--61389492 Score: 215
Period size: 77 Copynumber: 2.2 Consensus size: 78
61389310 ATTATATCCC
* * * *
61389320 TGATCGCACTTACATGCCACTATCGTACTTTGGTACCCCTGATCGCACTTACGTGCCCCTG-TCG
1 TGATCGCACTTACGTGCCACTATCATACTTCGGCACCCCTGATCGCACTTACGTGCCCCTGCT-G
61389384 TACTTTGGTAC-CT
65 TACTTTGGTACTCT
* * * * * *
61389397 TGATCGCACTTACGTGCCTCTGTCATACTTCGGCACCTCTGATTGCACTTATGTGCCCTTGCTGT
1 TGATCGCACTTACGTGCCACTATCATACTTCGGCACCCCTGATCGCACTTACGTGCCCCTGCTGT
61389462 ACTTTGGTACTCT
66 ACTTTGGTACTCT
* *
61389475 TGATAGCACTTTCGTGCC
1 TGATCGCACTTACGTGCC
61389493 GTGGTAATGT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
77 63 0.77
78 19 0.23
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.35
Consensus pattern (78 bp):
TGATCGCACTTACGTGCCACTATCATACTTCGGCACCCCTGATCGCACTTACGTGCCCCTGCTGT
ACTTTGGTACTCT
Found at i:61389643 original size:39 final size:39
Alignment explanation
Indices: 61389589--61389757 Score: 205
Period size: 39 Copynumber: 4.4 Consensus size: 39
61389579 TATATCCATT
* *
61389589 ATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTG
1 ATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCCCTG
* *
61389628 ATCGCACTTACGTGCCCCTGTTGTACTTTGGTA-CCCTG
1 ATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCCCTG
* **
61389666 ATCGCACTTACGTGCCCCTGTCGTACTTCGGAACATCTG
1 ATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCCCTG
* * * * *
61389705 ATTGCACTTACGTGCCCTTGTTGTACTTCGGTACTCTTG
1 ATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCCCTG
* *
61389744 ATAGCACTTTCGTG
1 ATCGCACTTACGTG
61389758 TCGTGGTTAT
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
38 35 0.32
39 76 0.68
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (39 bp):
ATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCCCTG
Found at i:61389693 original size:19 final size:19
Alignment explanation
Indices: 61389594--61389693 Score: 78
Period size: 19 Copynumber: 5.2 Consensus size: 19
61389584 CCATTATCGC
* *
61389594 ACTTACGTGCCACTATCGT
1 ACTTACGTGCCCCTGTCGT
* *
61389613 ACTT-CGGTACCCCTGATCGC
1 ACTTAC-GTGCCCCTG-TCGT
*
61389633 ACTTACGTGCCCCTGTTGT
1 ACTTACGTGCCCCTGTCGT
** * *
61389652 ACTTTGGT-ACCCTGATCGC
1 ACTTACGTGCCCCTG-TCGT
61389671 ACTTACGTGCCCCTGTCGT
1 ACTTACGTGCCCCTGTCGT
61389690 ACTT
1 ACTT
61389694 CGGAACATCT
Statistics
Matches: 60, Mismatches: 16, Indels: 10
0.70 0.19 0.12
Matches are distributed among these distances:
18 6 0.10
19 33 0.55
20 20 0.33
21 1 0.02
ACGTcount: A:0.15, C:0.34, G:0.19, T:0.32
Consensus pattern (19 bp):
ACTTACGTGCCCCTGTCGT
Found at i:61389716 original size:77 final size:78
Alignment explanation
Indices: 61389589--61389757 Score: 232
Period size: 77 Copynumber: 2.2 Consensus size: 78
61389579 TATATCCATT
* *
61389589 ATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTTGTAC
1 ATCGCACTTACGTGCCACTATCGTACTTCGGAACACCTGATCGCACTTACGTGCCCCTGTTGTAC
*
61389654 TTTGGTAC-CCTG
66 TTCGGTACTCCTG
* * * * *
61389666 ATCGCACTTACGTGCCCCTGTCGTACTTCGGAACATCTGATTGCACTTACGTGCCCTTGTTGTAC
1 ATCGCACTTACGTGCCACTATCGTACTTCGGAACACCTGATCGCACTTACGTGCCCCTGTTGTAC
*
61389731 TTCGGTACTCTTG
66 TTCGGTACTCCTG
* *
61389744 ATAGCACTTTCGTG
1 ATCGCACTTACGTG
61389758 TCGTGGTTAT
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 65 0.81
78 15 0.19
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (78 bp):
ATCGCACTTACGTGCCACTATCGTACTTCGGAACACCTGATCGCACTTACGTGCCCCTGTTGTAC
TTCGGTACTCCTG
Found at i:61389740 original size:267 final size:267
Alignment explanation
Indices: 61389256--61389787 Score: 920
Period size: 267 Copynumber: 2.0 Consensus size: 267
61389246 AAATTATATC
*
61389256 ATTTAATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCCT
1 ATTTAATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
*
61389321 GATCGCACTTACATGCCACTATCGTACTTTGGTACCCCTGATCGCACTTACGTGCCCCTGTCGTA
66 GATCGCACTTACATGCCACTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTCGTA
* * * * *
61389386 CTTTGGTACCTTGATCGCACTTACGTGCCTCTGTCATACTTCGGCACCTCTGATTGCACTTATGT
131 CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCATACTTCGGAACATCTGATTGCACTTACGT
*
61389451 GCCCTTGCTGTACTTTGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCGGTAACATTT
196 GCCCTTGCTGTACTTCGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCGGTAACATTT
61389516 ATTAATT
261 ATTAATT
*
61389523 ATTTTATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
1 ATTTAATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
* * *
61389588 TATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTTGTA
66 GATCGCACTTACATGCCACTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTCGTA
*
61389653 CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCGTACTTCGGAACATCTGATTGCACTTACGT
131 CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCATACTTCGGAACATCTGATTGCACTTACGT
* * *
61389718 GCCCTTGTTGTACTTCGGTACTCTTGATAGCACTTTCGTGTCGTGGTTATGTTTCGGTAACATTT
196 GCCCTTGCTGTACTTCGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCGGTAACATTT
61389783 ATTAA
261 ATTAA
61389788 GAAAAATAAT
Statistics
Matches: 249, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
267 249 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (267 bp):
ATTTAATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
GATCGCACTTACATGCCACTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTCGTA
CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCATACTTCGGAACATCTGATTGCACTTACGT
GCCCTTGCTGTACTTCGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCGGTAACATTT
ATTAATT
Found at i:61402617 original size:28 final size:28
Alignment explanation
Indices: 61402585--61402643 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
61402575 AGGAAGAAGA
61402585 GTAGTCGAGGGGATTATCCAAGACCATT
1 GTAGTCGAGGGGATTATCCAAGACCATT
*
61402613 GTAGTCGAGGGGGTTATCCAAGACCATT
1 GTAGTCGAGGGGATTATCCAAGACCATT
61402641 GTA
1 GTA
61402644 AAATATGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
GTAGTCGAGGGGATTATCCAAGACCATT
Found at i:61413508 original size:38 final size:38
Alignment explanation
Indices: 61413464--61413536 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
61413454 TAAAATTGTG
* *
61413464 AAAATCACTTGAAGTAACTAGAGCCTTATCTTTAAAGA
1 AAAATCACTTAAAGTAACTAGAGCCTTATCATTAAAGA
*
61413502 AAAATCACTTAAAGTGACTAGAGCCTTATCATTAA
1 AAAATCACTTAAAGTAACTAGAGCCTTATCATTAA
61413537 GGCGGTAGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.29
Consensus pattern (38 bp):
AAAATCACTTAAAGTAACTAGAGCCTTATCATTAAAGA
Found at i:61415801 original size:27 final size:27
Alignment explanation
Indices: 61415784--61416089 Score: 269
Period size: 27 Copynumber: 11.3 Consensus size: 27
61415774 GTATAACAAC
*
61415784 CATTTTACCCTATAGGGGTATTTCTGT
1 CATTTTACCCTATAGGGGTATTTCAGT
61415811 CATTTTACCCTAT-GAGGGTATTTCAGT
1 CATTTTACCCTATAG-GGGTATTTCAGT
* *
61415838 CATTTTACCTTATAGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
* * * *
61415865 CACTTTACCATAT-GCAGGTATTTCGGT
1 CATTTTACCCTATAG-GGGTATTTCAGT
* * * *
61415892 CACTTTACCTTATGGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
*** * **
61415919 CGCGTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
*
61415946 TATTTTACCCTAT-GAGGGTATTTCAGT
1 CATTTTACCCTATAG-GGGTATTTCAGT
* * *
61415973 TATTTTACCCTATAAGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
** * *
61416000 CATTTTATACTATGGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
**
61416027 CATTTTACCCTATAGGGGTATTTTGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
** * *
61416054 CATTTTACTTTATGGGGGTA-TTCTGGT
1 CATTTTACCCTATAGGGGTATTTC-AGT
61416081 CATTTTACC
1 CATTTTACC
61416090 TGTTTTGGGG
Statistics
Matches: 238, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.02
27 231 0.97
28 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
CATTTTACCCTATAGGGGTATTTCAGT
Found at i:61415842 original size:54 final size:54
Alignment explanation
Indices: 61415784--61416089 Score: 348
Period size: 54 Copynumber: 5.7 Consensus size: 54
61415774 GTATAACAAC
* * *
61415784 CATTTTACCCTATAGGGGTATTTCTGTCATTTTACCCTATGAGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGT
* * * *
61415838 CATTTTACCTTATAGGGGTATTTCGGTCACTTTACCATATGCA-GGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG-AGGGTATTTCGGT
* * *** * *
61415892 CACTTTACCTTATGGGGGTATTTCGGTCGCGTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGT
* * * * *
61415946 TATTTTACCCTATGAGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGT
** *
61416000 CATTTTATACTATGGGGGTATTTCGGTCATTTTACCCTAT-AGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGA-GGGTATTTCGGT
**
61416054 CATTTTACTTTATGGGGGTA-TTCTGGTCATTTTACC
1 CATTTTACCCTATGGGGGTATTTC-GGTCATTTTACC
61416090 TGTTTTGGGG
Statistics
Matches: 214, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
53 4 0.02
54 209 0.98
55 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (54 bp):
CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGT
Found at i:61415911 original size:81 final size:80
Alignment explanation
Indices: 61415784--61416090 Score: 330
Period size: 81 Copynumber: 3.8 Consensus size: 80
61415774 GTATAACAAC
* * *
61415784 CATTTTACCCTATAGGGGTATTTCTGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCTT
1 CATTTTACCCTAT-GAGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCTT
*
61415849 ATAGGGGTATTTCGGT
65 ATGGGGGTATTTCGGT
* * * * * *** *
61415865 CACTTTACCATATGCAGGTATTTCGGTCACTTTACCTTATGGGGGTATTTCGGTCGCGTTACCCT
1 CATTTTACCCTATG-AGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCTT
*
61415930 ATGGGGGTATTTTGGT
65 ATGGGGGTATTTCGGT
* * * * *
61415946 TATTTTACCCTATGAGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGGTCATTTTATAC-
1 CATTTTACCCTATGA-GGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTA-CCT
61416010 TATGGGGGTATTTCGGT
64 TATGGGGGTATTTCGGT
* * ** *
61416027 CATTTTACCCTATAGGGGTATTTTGGTCATTTTACTTTATGGGGGTA-TTCTGGTCATTTTACCT
1 CATTTTACCCTAT-GAGGTATTTCGGTCATTTTACCCTATGAGGGTATTTC-GGTCATTTTACCT
61416091 GTTTTGGGGT
Statistics
Matches: 182, Mismatches: 38, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
80 6 0.03
81 174 0.96
82 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (80 bp):
CATTTTACCCTATGAGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCTTA
TGGGGGTATTTCGGT
Found at i:61419083 original size:27 final size:26
Alignment explanation
Indices: 61419053--61419414 Score: 295
Period size: 27 Copynumber: 13.5 Consensus size: 26
61419043 GGGATATAAT
*
61419053 AGTCATTTTACCCTATGGGGTTATGTC
1 AGTCATTTTACCCTATGGGG-TATTTC
**
61419080 AGTCATTTTACATTATGAGGGTATTTC
1 AGTCATTTTACCCTATG-GGGTATTTC
* * *
61419107 -GATCATTCTACCTTATGGGGGTATTTT
1 AG-TCATTTTACCCTAT-GGGGTATTTC
* *
61419134 ATTCATTTAACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTAT-GGGGTATTTC
61419161 -GATCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTAT-GGGGTATTTC
* * * *
61419188 GGTCACTTTACCCTATGGCGATATTTT
1 AGTCATTTTACCCTATGG-GGTATTTC
* *
61419215 GGTCACTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTATG-GGGTATTTC
*
61419242 AGTCATTTTA-CCTATAAGGGTATTTC
1 AGTCATTTTACCCTAT-GGGGTATTTC
61419268 -GATCATTTTACCCTATGGGAGTATTTC
1 AG-TCATTTTACCCTATGGG-GTATTTC
* * * *
61419295 GGTCATTTTACCCTATGAAGTTATTTT
1 AGTCATTTTACCCTATG-GGGTATTTC
* * *
61419322 AATCATTTTACCCTATGGGGGTGTTCC
1 AGTCATTTTACCCTAT-GGGGTATTTC
*
61419349 GGTCATTTTACCCTATGAGGGTATTTTC
1 AGTCATTTTACCCTATG-GGGTA-TTTC
* *
61419377 -GTCATTTTACTCTATAGGGGTATTCTT
1 AGTCATTTTACCCTAT-GGGGTATT-TC
61419404 A-TCATTTTACC
1 AGTCATTTTACC
61419415 TATTTTAAGG
Statistics
Matches: 276, Mismatches: 39, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.00
26 30 0.11
27 232 0.84
28 13 0.05
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (26 bp):
AGTCATTTTACCCTATGGGGTATTTC
Found at i:61419140 original size:54 final size:54
Alignment explanation
Indices: 61419055--61419414 Score: 395
Period size: 54 Copynumber: 6.7 Consensus size: 54
61419045 GATATAATAG
* * **
61419055 TCATTTTACCCTATGGGGTTATGTCAGTCATTTTACATTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGA
* * * * * *
61419109 TCATTCTACCTTATGGGGGTATTTTATTCATTTAACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGA
* * * * *
61419163 TCATTTTACCCTATGGGGGTATTTCGGTCACTTTACCCTATG-GCGATATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAG-GGTATTTCGA
* * *
61419217 TCACTTTACCCTATGAGGGTATTTCAGTCATTTTA-CCTATAAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGA
* * * * **
61419270 TCATTTTACCCTATGGGAGTATTTCGGTCATTTTACCCTATGAAGTTATTTTAA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGA
* * *
61419324 TCATTTTACCCTATGGGGGTGTTCCGGTCATTTTACCCTATGAGGGTATTTTCG-
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTA-TTTCGA
* * *
61419378 TCATTTTACTCTATAGGGGTATTCTTA-TCATTTTACC
1 TCATTTTACCCTATGGGGGTATT-TCAGTCATTTTACC
61419415 TATTTTAAGG
Statistics
Matches: 251, Mismatches: 50, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
53 44 0.18
54 204 0.81
55 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGA
Found at i:61419152 original size:81 final size:81
Alignment explanation
Indices: 61419054--61419414 Score: 381
Period size: 81 Copynumber: 4.5 Consensus size: 81
61419044 GGATATAATA
* ** *
61419054 GTCATTTTACCCTATGGGGTTATGTCAGTCATTTTACATTATGAGGGTATTTCGATCATTCTACC
1 GTCATTTTACCCTATGGGGTTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
* *
61419119 TTATGGGGGTATTTTA
66 CTATGGGGGTATTTTG
* * * * * *
61419135 TTCATTTAACCCTATGGGGGTATTTC-GATCATTTTACCCTATGGGGGTATTTCGGTCACTTTAC
1 GTCATTTTACCCTATGGGGTTATTTCAG-TCATTTTACCCTATGAGGGTATTTCGATCATTTTAC
* *
61419199 CCTATGGCGATATTTTG
65 CCTATGGGGGTATTTTG
* *
61419216 GTCACTTTACCCTATGAGGG-TATTTCAGTCATTTTA-CCTATAAGGGTATTTCGATCATTTTAC
1 GTCATTTTACCCTATG-GGGTTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAC
* *
61419279 CCTATGGGAGTATTTCG
65 CCTATGGGGGTATTTTG
** * * * * * *
61419296 GTCATTTTACCCTATGAAGTTATTTTAATCATTTTACCCTATGGGGGTGTTCCGGTCATTTTACC
1 GTCATTTTACCCTATGGGGTTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
* *
61419361 CTATGAGGGTATTTTC
66 CTATGGGGGTATTTTG
* *
61419377 GTCATTTTACTCTATAGGGG-TATTCTTA-TCATTTTACC
1 GTCATTTTACCCTAT-GGGGTTATT-TCAGTCATTTTACC
61419415 TATTTTAAGG
Statistics
Matches: 231, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
79 1 0.00
80 66 0.29
81 155 0.67
82 9 0.04
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGTTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
CTATGGGGGTATTTTG
Found at i:61419855 original size:27 final size:27
Alignment explanation
Indices: 61419825--61420209 Score: 468
Period size: 27 Copynumber: 14.3 Consensus size: 27
61419815 TATAATAGTT
* *
61419825 ATTTTACCCTATGGGGATATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
61419852 ATTTTACCCTATTGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
**
61419879 ATTTTACCCTATGGGGGTATTTCATTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
61419906 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
61419933 ATTTTACCTTATGAGAGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
61419960 ATTTTACCCTATGGGGGAATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
61419987 ACTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
61420014 ACTTTACCCTATGGGAGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
** * * *
61420041 ACCTTACGCTATGGGGGTATTTTGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
61420068 ATTTTATCCTATGGGGGTATTTTGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
61420095 ATTTTACCCTATGTGGGTATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
61420122 ATTTTACCCTGTAGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
61420149 ATTTTATCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
**
61420175 ATTTTACTTTATGGGGGTATTAT-GGTC
1 ATTTTACCCTATGGGGGTATT-TCGGTC
61420202 ATTTTACC
1 ATTTTACC
61420210 TATTTTGGGG
Statistics
Matches: 309, Mismatches: 47, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.07
27 286 0.93
28 1 0.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:61420534 original size:54 final size:53
Alignment explanation
Indices: 61420471--61420572 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
61420461 CACACGGCCC
* *
61420471 ATTTCGGTCATTTTATCCTATGTGGGTATTTCAGTCATTTTATCCTATGGGGCT
1 ATTTCGGTCATTTTATCCTACG-GGGTATTTCAGTCATTTTACCCTATGGGGCT
**
61420525 ATTTCGGTCATTTTATCCTACGGGGTATTTTGGTCATTTTACCCTATG
1 ATTTCGGTCATTTTATCCTACGGGGTATTTCAGTCATTTTACCCTATG
61420573 CAGGAGCTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 23 0.52
54 21 0.48
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.46
Consensus pattern (53 bp):
ATTTCGGTCATTTTATCCTACGGGGTATTTCAGTCATTTTACCCTATGGGGCT
Found at i:61420560 original size:26 final size:26
Alignment explanation
Indices: 61420471--61420572 Score: 150
Period size: 27 Copynumber: 3.8 Consensus size: 26
61420461 CACACGGCCC
61420471 ATTTCGGTCATTTTATCCTATGTGGGT
1 ATTTCGGTCATTTTATCCTATG-GGGT
*
61420498 ATTTCAGTCATTTTATCCTATGGGGCT
1 ATTTCGGTCATTTTATCCTATGGGG-T
*
61420525 ATTTCGGTCATTTTATCCTACGGGGT
1 ATTTCGGTCATTTTATCCTATGGGGT
* *
61420551 ATTTTGGTCATTTTACCCTATG
1 ATTTCGGTCATTTTATCCTATG
61420573 CAGGAGCTGG
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 23 0.34
27 45 0.66
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.46
Consensus pattern (26 bp):
ATTTCGGTCATTTTATCCTATGGGGT
Found at i:61420634 original size:46 final size:46
Alignment explanation
Indices: 61420584--61420671 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 46
61420574 AGGAGCTGGG
* * *
61420584 AACCTAAACATGTATTCTCAAGTCTGCAACACATGTAGGAGCCCTA
1 AACCTAAACATGTAATCTCAAGTCCGCAACACATGCAGGAGCCCTA
** * * *
61420630 AACCTATTCCTGTAATCTCGAGTCCGCAACATATGCAGGAGC
1 AACCTAAACATGTAATCTCAAGTCCGCAACACATGCAGGAGC
61420672 TCAGAACTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 34 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (46 bp):
AACCTAAACATGTAATCTCAAGTCCGCAACACATGCAGGAGCCCTA
Found at i:61421710 original size:38 final size:40
Alignment explanation
Indices: 61421623--61421711 Score: 96
Period size: 38 Copynumber: 2.3 Consensus size: 40
61421613 CATCGGAACA
* *
61421623 GACCAGTTTTTTTTGTAGATTTTTCAGCAACTGAAAGACT
1 GACCAGATTTTTTTATAGATTTTTCAGCAACTGAAAGACT
* *
61421663 GACTC-GATTTTTTTATAGA-TTTTCAGCGA-T-AGAAGATT
1 GAC-CAGATTTTTTTATAGATTTTTCAGCAACTGA-AAGACT
61421701 GACCAGATTTT
1 GACCAGATTTT
61421712 CAAAAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
37 2 0.05
38 15 0.36
39 9 0.21
40 15 0.36
41 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (40 bp):
GACCAGATTTTTTTATAGATTTTTCAGCAACTGAAAGACT
Found at i:61423035 original size:17 final size:17
Alignment explanation
Indices: 61423013--61423049 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
61423003 TATGAGATGG
61423013 ATGTTT-AATTCATATAT
1 ATGTTTCAATT-ATATAT
61423030 ATGTTTCAATTATATAT
1 ATGTTTCAATTATATAT
61423047 ATG
1 ATG
61423050 CATGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (17 bp):
ATGTTTCAATTATATAT
Found at i:61429083 original size:347 final size:348
Alignment explanation
Indices: 61428447--61429145 Score: 1303
Period size: 347 Copynumber: 2.0 Consensus size: 348
61428437 ATTTATAACC
61428447 ATTAGCCCAACTTATTCAAAAGCTACCAAAATAGTCAATGGATAGTGTGGTTGTGCTTCGATGAA
1 ATTAGCCCAACTTATTCAAAAGCTACCAAAATAGTCAATGGATAGTGTGGTTGTGCTTCGATGAA
*
61428512 GATTCCAACCGATTGAGCCTTCCGATGATCTACAAAACAAGGAAAACAACTATATAAGAAACTAG
66 GATTCCAACCGATCGAGCCTTCCGATGATCTACAAAACAAGGAAAACAACTATATAAGAAACTAG
*
61428577 TGCTTAGTAAGGTAGTATAAAGGAAACTTAAACTTACCGAACATATTAAATTAAACAACAAACAT
131 TGCTTAGTAAGGTAGTATAAAGGAAACTTAAACTTACCGAAAATATTAAATTAAACAACAAACAT
61428642 ACTTTCATCATGTCATATGCCAAACTTCCTTTCCTATACACACCACCTCATAAGGTTAGTAAGTA
196 ACTTTCATCATGTCATATGCCAAACTTCCTTTCCTATACACACCACCTCATAAGGTTAGTAAGTA
*
61428707 TAACATTACATATAAGTTTCAAGTAAATCATGACATACATGTAATAAGGATTTAAGCTTTATATA
261 TAACATTACATATAAGTTTCAAGTAAATCATGACATACACGTAATAAGGATTTAAGCTTTATATA
61428772 TCATCCATCACATATATATATCA
326 TCATCCATCACATATATATATCA
61428795 ATTAGCCCAACTTATTCAAAAGCTACCAAAATAGTCAATGGATAGTGTGGTTGTGC-TCTGATGA
1 ATTAGCCCAACTTATTCAAAAGCTACCAAAATAGTCAATGGATAGTGTGGTTGTGCTTC-GATGA
* * *
61428859 AGATTCCAACCGATCGAGCCTT-TGATGATCTACAAAATAAGGAAAATAACTATATAAGAAACTA
65 AGATTCCAACCGATCGAGCCTTCCGATGATCTACAAAACAAGGAAAACAACTATATAAGAAACTA
61428923 GTGCTTAGTAAGGTAGTATAAAGGAAACTTAAACTTACCGAAAATATTAAATTAAACAACAAACA
130 GTGCTTAGTAAGGTAGTATAAAGGAAACTTAAACTTACCGAAAATATTAAATTAAACAACAAACA
*
61428988 TACTTTCATCATGTCATATGCCAAACTTCTTTTCCTATACACACCACCTCATAAGGTTAGTAAGT
195 TACTTTCATCATGTCATATGCCAAACTTCCTTTCCTATACACACCACCTCATAAGGTTAGTAAGT
61429053 ATAACATTACATATAAGTTTCAAGTAAATCATGACATACACGTAATAAGGATTTAAGCTTTATAT
260 ATAACATTACATATAAGTTTCAAGTAAATCATGACATACACGTAATAAGGATTTAAGCTTTATAT
*
61429118 ATCATCCATCACATATATATATCC
325 ATCATCCATCACATATATATATCA
61429142 ATTA
1 ATTA
61429146 CACATTCTTC
Statistics
Matches: 342, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
347 260 0.76
348 82 0.24
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (348 bp):
ATTAGCCCAACTTATTCAAAAGCTACCAAAATAGTCAATGGATAGTGTGGTTGTGCTTCGATGAA
GATTCCAACCGATCGAGCCTTCCGATGATCTACAAAACAAGGAAAACAACTATATAAGAAACTAG
TGCTTAGTAAGGTAGTATAAAGGAAACTTAAACTTACCGAAAATATTAAATTAAACAACAAACAT
ACTTTCATCATGTCATATGCCAAACTTCCTTTCCTATACACACCACCTCATAAGGTTAGTAAGTA
TAACATTACATATAAGTTTCAAGTAAATCATGACATACACGTAATAAGGATTTAAGCTTTATATA
TCATCCATCACATATATATATCA
Found at i:61431525 original size:26 final size:26
Alignment explanation
Indices: 61431495--61431820 Score: 391
Period size: 26 Copynumber: 12.5 Consensus size: 26
61431485 GCTGGTATGG
* *
61431495 TTACCGAAATACCATCGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
*
61431521 TTACCAAAATACCCTCAATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* *
61431547 TTATCGAAATACCCTCGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* *
61431573 TTACTAAAATACCCTCGATGGATAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* *
61431599 TTACTAAAATACCCTCAATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* * * *
61431625 CTACCGAACTACCCTCGATGGGAAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* * * *
61431651 TCATCGAGATACCCTCGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
*
61431677 TTACCAAAATACCCTTGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* * * *
61431703 TTATCGAAATACACTCGACGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* **
61431729 TTTCCAAAATACCCTTAATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
*
61431755 TTACCAAAATACCCTGGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* *
61431781 TTACCGAAATTCCCTCGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
*
61431807 TTACTAAAATACCC
1 TTACCAAAATACCC
61431821 CGAGAAGGGT
Statistics
Matches: 250, Mismatches: 50, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 250 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (26 bp):
TTACCAAAATACCCTCGATGGGTAAA
Found at i:61438975 original size:26 final size:26
Alignment explanation
Indices: 61438939--61439056 Score: 191
Period size: 26 Copynumber: 4.5 Consensus size: 26
61438929 GCTCGCGTGG
* *
61438939 TTATTGAAATACCCTCAATGGGTAAA
1 TTATCGAAATACCCTCGATGGGTAAA
61438965 TTATCGAAATACCCTCGATGGGTAAA
1 TTATCGAAATACCCTCGATGGGTAAA
61438991 TTATCGAAATACCCTCGATGGGTAAA
1 TTATCGAAATACCCTCGATGGGTAAA
* *
61439017 TTACCGAATTACCCTCGATGGGTAAA
1 TTATCGAAATACCCTCGATGGGTAAA
*
61439043 TTATTGAAATACCC
1 TTATCGAAATACCC
61439057 CAGAATGATA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 85 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (26 bp):
TTATCGAAATACCCTCGATGGGTAAA
Found at i:61439258 original size:27 final size:26
Alignment explanation
Indices: 61439214--61439269 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
61439204 GAGGAAATAT
61439214 TGTTTCTGTGGCTCTGCCACA-ATTAC
1 TGTTTCTGTGGCTCTGCCACATATT-C
*
61439240 TGTTTCTGGTGGCTTTGCCACATATTC
1 TGTTTCT-GTGGCTCTGCCACATATTC
61439267 TGT
1 TGT
61439270 ACTGGCAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.26
27 17 0.63
28 3 0.11
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.43
Consensus pattern (26 bp):
TGTTTCTGTGGCTCTGCCACATATTC
Found at i:61452140 original size:107 final size:107
Alignment explanation
Indices: 61451935--61452144 Score: 330
Period size: 107 Copynumber: 2.0 Consensus size: 107
61451925 AATCAATACA
* * *
61451935 AAAATAGAAGTGGATAAGGACCACAATCCGATTTCTATAACCCTTCATGGGGAAACCATCCAAAC
1 AAAATAGAAGTGGACAAGGACCACAATCCAATTTCTATAACCCTTCATGGGGAAACCATCCAAAA
** * *
61452000 TTTTCTTGGAATAATCAAGGAAATAAACCGAACAACAACACG
66 TTTTCTTAAAATAACCAAGAAAATAAACCGAACAACAACACG
*
61452042 AAAATAGAAGTGGACAAGGACCACAGTCCAATTTCTATAACCCTTCATGGGGAAACCATCCAAAA
1 AAAATAGAAGTGGACAAGGACCACAATCCAATTTCTATAACCCTTCATGGGGAAACCATCCAAAA
* *
61452107 TTTTCTTAAAATAACCAAGAAAATGAACTGAACAACAA
66 TTTTCTTAAAATAACCAAGAAAATAAACCGAACAACAA
61452145 TTACATGCAA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 93 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (107 bp):
AAAATAGAAGTGGACAAGGACCACAATCCAATTTCTATAACCCTTCATGGGGAAACCATCCAAAA
TTTTCTTAAAATAACCAAGAAAATAAACCGAACAACAACACG
Found at i:61472637 original size:17 final size:17
Alignment explanation
Indices: 61472615--61472649 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
61472605 AATGATAGAC
61472615 TGATTAGAAATTAGGGT
1 TGATTAGAAATTAGGGT
* *
61472632 TGATTATATATTAGGGT
1 TGATTAGAAATTAGGGT
61472649 T
1 T
61472650 ATGGTTCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (17 bp):
TGATTAGAAATTAGGGT
Found at i:61475402 original size:54 final size:54
Alignment explanation
Indices: 61475320--61475430 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
61475310 CAGTCTGACC
* *
61475320 CTAAGCTAGCTAGCCCAGTATTTACTTACCCCAAGCTTTAAATCAAAGACAGCT
1 CTAAGCTAGCTAGCCCACTATTTACTTACCCCAAGCTTTAAATCAAAGACAACT
*
61475374 CTAAGCTAGCTAGCTCACTATTTACTTACCCCAAGCTTTAAATCAAAGACAACT
1 CTAAGCTAGCTAGCCCACTATTTACTTACCCCAAGCTTTAAATCAAAGACAACT
61475428 CTA
1 CTA
61475431 GCTCTATCCC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (54 bp):
CTAAGCTAGCTAGCCCACTATTTACTTACCCCAAGCTTTAAATCAAAGACAACT
Found at i:61476390 original size:43 final size:44
Alignment explanation
Indices: 61476334--61476553 Score: 190
Period size: 43 Copynumber: 5.2 Consensus size: 44
61476324 ATATATGTGA
61476334 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCG-TTTCTCAC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
* * **
61476377 AAAAACGCTGCTATAGAAGATGACCTTTAATGGCGCTTTGC-CTAC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTT-CTC-AC
* * * *
61476422 --AGACGCCACTATAGAACATGACCTTTAGCGACGCTTT-TCCC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
* * * ** *
61476463 ACAAACGCCGCTAAAGAACATGACCTTCAGTAGCGCTTTC-CCC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
* * * *
61476506 ACAAA---CGCTAAAAAACATGACCTTTAGCGGCGCTTTTTCA-
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
61476546 AAAAACGC
1 AAAAACGC
61476554 TTATAACTCC
Statistics
Matches: 140, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
40 31 0.22
41 2 0.01
42 1 0.01
43 99 0.71
44 4 0.03
45 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
Found at i:61476440 original size:86 final size:85
Alignment explanation
Indices: 61476336--61476554 Score: 248
Period size: 86 Copynumber: 2.6 Consensus size: 85
61476326 ATATGTGAAA
* *
61476336 AAACGCCGCTATAGAACATGACCTTTAGCGGCG-TTTCTCACAAAAACGCTGCTATAGAAGATGA
1 AAACGCC-CTATAGAACATGACCTTTAGCGGCGCTTT-TCACAAAAACGCTGCTAAAGAACATGA
* * * *
61476400 CCTTTAATGGCGCTTTGCCTAC
64 CCTTCAATAGCGCTTTCCCCAC
* * * * *
61476422 AGACGCCACTATAGAACATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAACATGAC
1 AAACGCC-CTATAGAACATGACCTTTAGCGGCGCTTTTCACAAAAACGCTGCTAAAGAACATGAC
*
61476487 CTTCAGTAGCGCTTTCCCCAC
65 CTTCAATAGCGCTTTCCCCAC
* *
61476508 AAACG--CTAAAAAACATGACCTTTAGCGGCGCTTTTTCA-AAAAACGCT
1 AAACGCCCTATAGAACATGACCTTTAGCGGCGC-TTTTCACAAAAACGCT
61476555 TATAACTCCC
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
83 30 0.27
84 5 0.05
86 73 0.66
87 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (85 bp):
AAACGCCCTATAGAACATGACCTTTAGCGGCGCTTTTCACAAAAACGCTGCTAAAGAACATGACC
TTCAATAGCGCTTTCCCCAC
Found at i:61476552 original size:40 final size:40
Alignment explanation
Indices: 61476436--61476554 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
61476426 GCCACTATAG
* ** *
61476436 AACATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAG
1 AACATGACCTTTAGCGGCGCTTTT-CCA-AAA-AACGCTAAAA
* ** * * *
61476479 AACATGACCTTCAGTAGCGCTTTCCCCACAAACGCTAAAA
1 AACATGACCTTTAGCGGCGCTTTTCCAAAAAACGCTAAAA
*
61476519 AACATGACCTTTAGCGGCGCTTTTTCAAAAAACGCT
1 AACATGACCTTTAGCGGCGCTTTTCCAAAAAACGCT
61476555 TATAACTCCC
Statistics
Matches: 59, Mismatches: 17, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
40 36 0.61
41 2 0.03
42 2 0.03
43 19 0.32
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (40 bp):
AACATGACCTTTAGCGGCGCTTTTCCAAAAAACGCTAAAA
Found at i:61477561 original size:15 final size:15
Alignment explanation
Indices: 61477541--61477571 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61477531 CAAAGGTAAG
61477541 TATGTAGGCTAGCAT
1 TATGTAGGCTAGCAT
61477556 TATGTAGGCTAGCAT
1 TATGTAGGCTAGCAT
61477571 T
1 T
61477572 CTAAAGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (15 bp):
TATGTAGGCTAGCAT
Found at i:61478541 original size:26 final size:26
Alignment explanation
Indices: 61478511--61478560 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
61478501 AAGTATACTA
*
61478511 TACTGGAAACTTTGTTGCGATACTGT
1 TACTGGAAACTTTGCTGCGATACTGT
* **
61478537 TACTGGCAGTTTTGCTGCGATACT
1 TACTGGAAACTTTGCTGCGATACT
61478561 ATTATTGACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (26 bp):
TACTGGAAACTTTGCTGCGATACTGT
Found at i:61478576 original size:26 final size:26
Alignment explanation
Indices: 61478520--61478584 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
61478510 ATACTGGAAA
* * *
61478520 CTTTGTTGCGATACTGTTACTGGCAG
1 CTTTGCTGCGATACTATTACTGACAG
* *
61478546 TTTTGCTGCGATACTATTATTGACAG
1 CTTTGCTGCGATACTATTACTGACAG
*
61478572 CTTTGCTACGATA
1 CTTTGCTGCGATA
61478585 TTGGTGTGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (26 bp):
CTTTGCTGCGATACTATTACTGACAG
Found at i:61478738 original size:33 final size:33
Alignment explanation
Indices: 61478681--61478744 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
61478671 TGCATTATTG
* * *
61478681 CACTGTACTGATATTGTATTGGGCTAAGGCCCA
1 CACTGTACTGATACTGAATAGGGCTAAGGCCCA
* *
61478714 CACTGTACTGTTACTGAATAGGGCTCAGGCC
1 CACTGTACTGATACTGAATAGGGCTAAGGCC
61478745 AGACTATTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (33 bp):
CACTGTACTGATACTGAATAGGGCTAAGGCCCA
Found at i:61485326 original size:9 final size:9
Alignment explanation
Indices: 61485314--61485443 Score: 86
Period size: 9 Copynumber: 14.6 Consensus size: 9
61485304 TGATATATAT
61485314 TTATGTAAG
1 TTATGTAAG
*
61485323 TTATATAAG
1 TTATGTAAG
*
61485332 TTATGATATG
1 TTATG-TAAG
* ** *
61485342 ATACAT-AT
1 TTATGTAAG
61485350 TTATGTAAG
1 TTATGTAAG
61485359 TTATGTAAG
1 TTATGTAAG
** *
61485368 TTACATAAT
1 TTATGTAAG
*
61485377 TTATGATATG
1 TTATG-TAAG
* * *
61485387 ATATAT-AT
1 TTATGTAAG
61485395 TTATGTAA-
1 TTATGTAAG
61485403 TTATGTAAG
1 TTATGTAAG
*
61485412 TTATATAAG
1 TTATGTAAG
*
61485421 TTATATAAG
1 TTATGTAAG
61485430 TTATGTAAG
1 TTATGTAAG
61485439 TTATG
1 TTATG
61485444 ATCCAAAGTT
Statistics
Matches: 89, Mismatches: 27, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
8 15 0.17
9 64 0.72
10 10 0.11
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:61485333 original size:36 final size:36
Alignment explanation
Indices: 61485287--61485442 Score: 145
Period size: 36 Copynumber: 4.1 Consensus size: 36
61485277 ATCCAAAGTT
*
61485287 TTATGTAAGTTATGATATGATATATATTTATGTAAG
1 TTATATAAGTTATGATATGATATATATTTATGTAAG
61485323 TTATATAAGTTATGATATGATACATATTTATGTAAGTTATGTAAG
1 TTATATAAGTTATGATATGAT--ATA--TA--T---TTATGTAAG
* *
61485368 TTACATAATTTATGATATGATATATATTTATGTAA-
1 TTATATAAGTTATGATATGATATATATTTATGTAAG
* * * *
61485403 TTATGTAAGTTAT-ATAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATGATATGATATAT-ATTTATGTAAG
61485439 TTAT
1 TTAT
61485443 GATCCAAAGT
Statistics
Matches: 100, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
34 9 0.09
35 19 0.19
36 32 0.32
38 3 0.03
39 1 0.01
40 2 0.02
41 2 0.02
42 1 0.01
43 3 0.03
45 28 0.28
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (36 bp):
TTATATAAGTTATGATATGATATATATTTATGTAAG
Found at i:61485340 original size:27 final size:26
Alignment explanation
Indices: 61485286--61485442 Score: 84
Period size: 27 Copynumber: 5.9 Consensus size: 26
61485276 GATCCAAAGT
* * *
61485286 TTTATGTAAGTTATGATATGATATATA
1 TTTATATAAGTTAT-ATAAGTTATATA
*
61485313 TTTATGTAAGTTATATAAGTTATGATA
1 TTTATATAAGTTATATAAGTTAT-ATA
* * * * *
61485340 -TGATACATATTTATGTAAGTTATGTAA
1 TTTATATA-AGTTATATAAGTTATAT-A
* * * * *
61485367 GTTACATAATTTATGATATGATATATA
1 TTTATATAAGTTAT-ATAAGTTATATA
* *
61485394 TTTATGTAA-TTATGTAAGTTATATAA
1 TTTATATAAGTTATATAAGTTATAT-A
* *
61485420 GTTATATAAGTTATGTAAGTTAT
1 TTTATATAAGTTATATAAGTTAT
61485443 GATCCAAAGT
Statistics
Matches: 100, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
25 8 0.08
26 24 0.24
27 57 0.57
28 11 0.11
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (26 bp):
TTTATATAAGTTATATAAGTTATATA
Found at i:61485363 original size:45 final size:44
Alignment explanation
Indices: 61485314--61485424 Score: 186
Period size: 45 Copynumber: 2.5 Consensus size: 44
61485304 TGATATATAT
61485314 TTATGTAAGTTATATAAGTTATGATATGATACATATTTATGTAA
1 TTATGTAAGTTATATAAGTTATGATATGATACATATTTATGTAA
* * *
61485358 GTTATGTAAGTTACATAATTTATGATATGATATATATTTATGTAA
1 -TTATGTAAGTTATATAAGTTATGATATGATACATATTTATGTAA
61485403 TTATGTAAGTTATATAAGTTAT
1 TTATGTAAGTTATATAAGTTAT
61485425 ATAAGTTATG
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
44 20 0.33
45 41 0.67
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.47
Consensus pattern (44 bp):
TTATGTAAGTTATATAAGTTATGATATGATACATATTTATGTAA
Found at i:61486805 original size:27 final size:28
Alignment explanation
Indices: 61486775--61486830 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
61486765 TGTAATATAA
*
61486775 TAAAAAAAATTACATTAGATATA-ATTT
1 TAAAAAAAATTACATTAAATATATATTT
61486802 TAAAAAAAATTACATTAAATATATATTT
1 TAAAAAAAATTACATTAAATATATATTT
61486830 T
1 T
61486831 TTACTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (28 bp):
TAAAAAAAATTACATTAAATATATATTT
Found at i:61489503 original size:18 final size:18
Alignment explanation
Indices: 61489480--61489522 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
61489470 ATAGACAGTT
61489480 GAATAAGT-TGACTATTAA
1 GAATAAGTAT-ACTATTAA
*
61489498 GAATAAGTATCCTATTAA
1 GAATAAGTATACTATTAA
61489516 GAATAAG
1 GAATAAG
61489523 AGAAAATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (18 bp):
GAATAAGTATACTATTAA
Found at i:61506070 original size:31 final size:32
Alignment explanation
Indices: 61506013--61506072 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
61506003 ATATATAAAA
**
61506013 AAAAGAATGAAAGAACAAAGGTAAGTTTGTTC
1 AAAAGAATGAAAGAACAAAGAAAAGTTTGTTC
61506045 AAAAGAAT-AAA-AAGCAAAGAAAAGTTTG
1 AAAAGAATGAAAGAA-CAAAGAAAAGTTTG
61506073 CCCAAAGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 15 0.60
32 8 0.32
ACGTcount: A:0.57, C:0.05, G:0.20, T:0.18
Consensus pattern (32 bp):
AAAAGAATGAAAGAACAAAGAAAAGTTTGTTC
Found at i:61522819 original size:66 final size:66
Alignment explanation
Indices: 61522721--61522846 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
61522711 GCTGTAGCTA
* * * * ** * *
61522721 GAGTTCGTCATATTTTCGGTTTGCCTTTTCTTTCCTCGTTGCTGCCTCCGCTTTAAGTTGTAGCG
1 GAGTTCATCATATTTTCGCTTAGCCTCTTCTTTCCTCAATGATGCCTCCACTTTAAGTTGTAGCG
61522786 G
66 G
* *
61522787 GAGTTCATCATATTTTC-CTTGAGCCTCTTCTTTTCTCAATGATGCTTCCACTTTAAGTTG
1 GAGTTCATCATATTTTCGCTT-AGCCTCTTCTTTCCTCAATGATGCCTCCACTTTAAGTTG
61522847 AGCAATTTCC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
65 2 0.04
66 47 0.96
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.44
Consensus pattern (66 bp):
GAGTTCATCATATTTTCGCTTAGCCTCTTCTTTCCTCAATGATGCCTCCACTTTAAGTTGTAGCG
G
Found at i:61531314 original size:61 final size:61
Alignment explanation
Indices: 61531249--61531439 Score: 214
Period size: 61 Copynumber: 3.2 Consensus size: 61
61531239 ATTTTATAGT
61531249 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
* ** * * * * * * *
61531310 ATTATATATTTTTG-TTAAATTATATTTA-ATAATAATTATTTTAA-A-TTA-TATTTTA-TAGT
1 ATTATATA-TTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATACTAAGAATTTTATTA-A
61531369 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
61531430 ATTATATATT
1 ATTATATATT
61531440 TTTGTTAAAT
Statistics
Matches: 100, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
58 11 0.11
59 26 0.26
60 16 0.16
61 36 0.36
62 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
Found at i:61531340 original size:120 final size:120
Alignment explanation
Indices: 61531199--61531520 Score: 617
Period size: 120 Copynumber: 2.7 Consensus size: 120
61531189 ATACTAAGAA
*
61531199 TTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
61531264 TTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
*
61531319 TTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
61531384 TTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
*
61531439 TTTTGTTAAATTATATTTAATAATTATTATTTTAAGTTATATTTTATAGTATTATATATTATGAT
1 TTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
61531504 TTTAGTAAATTCATATA
66 TTTAGTAAATTCATATA
61531521 TTTTATTAAA
Statistics
Matches: 198, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 198 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (120 bp):
TTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
Found at i:61531442 original size:18 final size:17
Alignment explanation
Indices: 61531420--61531554 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
61531410 AATACTAAGA
61531420 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
61531437 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
*
61531453 A-TTTAAT-AATTAT-T
1 ATTTTATTAAATTATAT
* *
61531467 ATTTTAAGTTATATTTTAT
1 ATTTT-A-TTAAATTATAT
* * *
61531486 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
*
61531502 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
61531520 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
61531537 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
61531555 TTAATAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.08
15 8 0.09
16 11 0.12
17 17 0.18
18 41 0.45
19 3 0.03
20 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.58
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:61531493 original size:15 final size:14
Alignment explanation
Indices: 61531448--61531504 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 14
61531438 TTTTTGTTAA
*
61531448 ATTATATTTAATA-
1 ATTATATTTTATAG
61531461 ATTATTATTTTA-AG
1 ATTA-TATTTTATAG
61531475 -TTATATTTTATAG
1 ATTATATTTTATAG
*
61531488 TATTATATATTAT-G
1 -ATTATATTTTATAG
61531502 ATT
1 ATT
61531505 TTAGTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.19
13 13 0.35
14 7 0.19
15 10 0.27
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
ATTATATTTTATAG
Found at i:61531779 original size:44 final size:46
Alignment explanation
Indices: 61531709--61531800 Score: 134
Period size: 44 Copynumber: 2.0 Consensus size: 46
61531699 TTATTACACA
* * *
61531709 TCTATTCCATTCAACCGAACACAAGAA-TACC-ATTACGCCTCTAT
1 TCTATTCCATTCAACCAAACAAAAGAATTACCTATCACGCCTCTAT
*
61531753 TCTATTCCATTCAACCAAACAAAAGAATTACCTATCACGCTTCTAT
1 TCTATTCCATTCAACCAAACAAAAGAATTACCTATCACGCCTCTAT
61531799 TC
1 TC
61531801 CATTACACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 25 0.60
45 4 0.10
46 13 0.31
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.29
Consensus pattern (46 bp):
TCTATTCCATTCAACCAAACAAAAGAATTACCTATCACGCCTCTAT
Found at i:61533166 original size:72 final size:71
Alignment explanation
Indices: 61533089--61533311 Score: 205
Period size: 72 Copynumber: 3.1 Consensus size: 71
61533079 AATAAAGGAT
* ** * * *
61533089 TTTACTTAATATCAAAACTCAATAAATCAAATTAATTTAATC-TTCTCAAAACATATAACTTGAA
1 TTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACACATAA-TTGAA
61533153 TAAACGG
65 TAAACGG
* * ** * *
61533160 CTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTTTAAAAACACATAATTGAA
1 -TTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACACATAATTGAA
61533225 TAAACGG
65 TAAACGG
* ** * * * **
61533232 TTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAACTTTTTTAAAAACTTATAATTGAA
1 TT-TACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACACATAATTGAA
* *
61533297 CAAGCGG
65 TAAACGG
61533304 TTTTACTT
1 -TTTACTT
61533312 TGTATAACAG
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
71 2 0.02
72 109 0.87
73 15 0.12
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (71 bp):
TTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACACATAATTGAAT
AAACGG
Found at i:61533407 original size:99 final size:99
Alignment explanation
Indices: 61533222--61533410 Score: 263
Period size: 99 Copynumber: 1.9 Consensus size: 99
61533212 ACACATAATT
* * * * *
61533222 GAATAAACGGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAACTTTTTTAAAAACT
1 GAATAAACGGTGCCACTTAATATCAAAACTCAATAAATAGAACTAAATTAACCTTTTTAAAAACT
* * * *
61533287 TATAATTGAACAAGCGGTTTTACTTTGTATAACA
66 CATAATTAAACAAACGATTTTACTTTGTATAACA
*
61533321 GAATAAATGGTGCCACTTAATATCAAAACTCAATAAATAGAACTAAATTAACCTTTTTAAAAA-T
1 GAATAAACGGTGCCACTTAATATCAAAACTCAATAAATAGAACTAAATTAACCTTTTTAAAAACT
*
61533385 ACATAATTAAATAAACGATTTTACTT
66 -CATAATTAAACAAACGATTTTACTT
61533411 GATAATTAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 1 0.01
99 77 0.99
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (99 bp):
GAATAAACGGTGCCACTTAATATCAAAACTCAATAAATAGAACTAAATTAACCTTTTTAAAAACT
CATAATTAAACAAACGATTTTACTTTGTATAACA
Found at i:61535611 original size:37 final size:37
Alignment explanation
Indices: 61535561--61535644 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 37
61535551 TGTATCAAAT
* *
61535561 AAAAGGGAATTGGGAAAAATGGCACCGTTTGCGGAAG
1 AAAAGGGAATTGGGAAAAACGGCACCGTTTGCGAAAG
*
61535598 AAAAGGGAATTGGGAAAAACGGCATCGTTTGCGAAAG
1 AAAAGGGAATTGGGAAAAACGGCACCGTTTGCGAAAG
61535635 AAAAGGGAAT
1 AAAAGGGAAT
61535645 CAGTTTGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.42, C:0.10, G:0.33, T:0.15
Consensus pattern (37 bp):
AAAAGGGAATTGGGAAAAACGGCACCGTTTGCGAAAG
Found at i:61543844 original size:17 final size:18
Alignment explanation
Indices: 61543808--61543862 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 18
61543798 ATTATAAAAA
**
61543808 AAATT-ATAAATAATAAT
1 AAATTAATAAATTTTAAT
*
61543825 AAA-TAATAAATTTTATT
1 AAATTAATAAATTTTAAT
*
61543842 AAATTATTAAATTTTAAT
1 AAATTAATAAATTTTAAT
61543860 AAA
1 AAA
61543863 AATTTTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 1 0.03
17 15 0.48
18 15 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTAATAAATTTTAAT
Found at i:61543867 original size:12 final size:12
Alignment explanation
Indices: 61543850--61543879 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
61543840 TTAAATTATT
61543850 AAATTTTAATAA
1 AAATTTTAATAA
*
61543862 AAATTTTATTAA
1 AAATTTTAATAA
61543874 AAATTT
1 AAATTT
61543880 GAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATTTTAATAA
Found at i:61547121 original size:12 final size:12
Alignment explanation
Indices: 61547106--61547131 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61547096 GAAGATAATT
61547106 GAGAAGAAAACA
1 GAGAAGAAAACA
61547118 GAGAAGAAAACA
1 GAGAAGAAAACA
61547130 GA
1 GA
61547132 TAGAATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.08, G:0.27, T:0.00
Consensus pattern (12 bp):
GAGAAGAAAACA
Found at i:61550498 original size:40 final size:40
Alignment explanation
Indices: 61550439--61550706 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
61550429 GAGCATTGGA
*
61550439 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
61550479 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
61550519 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
61550559 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
61550599 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
61550639 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
61550679 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
61550707 ATGTGTTTGC
Statistics
Matches: 221, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:61558968 original size:40 final size:40
Alignment explanation
Indices: 61558924--61559147 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
61558914 AAGTGAATAT
* * * * **
61558924 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
61558964 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
61559004 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
61559044 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
61559084 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
61559123 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
61559148 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:61559022 original size:80 final size:80
Alignment explanation
Indices: 61558885--61559147 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
61558875 TTGAATGCTG
* * * * *
61558885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
61558947 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
61558965 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
61559030 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
61559045 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
61559109 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
61559124 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
61559148 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:61559099 original size:120 final size:120
Alignment explanation
Indices: 61558885--61559147 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
61558875 TTGAATGCTG
* * *
61558885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
61558949 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
61559005 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
61559067 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
61559124 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
61559148 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:61561307 original size:10 final size:10
Alignment explanation
Indices: 61561292--61561316 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
61561282 TTAGAAAAAT
61561292 TATAACTATA
1 TATAACTATA
61561302 TATAACTATA
1 TATAACTATA
61561312 TATAA
1 TATAA
61561317 GCAGCTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
TATAACTATA
Found at i:61572457 original size:25 final size:25
Alignment explanation
Indices: 61572421--61572485 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
61572411 GTCATTAGGG
* *
61572421 TTACTGAT-TTCAGCTCTTATGAGC
1 TTACCGATATTCAGCTCGTATGAGC
61572445 TTACCGATATTCAGCTCGTATGAGC
1 TTACCGATATTCAGCTCGTATGAGC
* *
61572470 TTACCGTTATTTAGCT
1 TTACCGATATTCAGCT
61572486 GGGGGAGCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 7 0.19
25 29 0.81
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (25 bp):
TTACCGATATTCAGCTCGTATGAGC
Found at i:61576042 original size:27 final size:27
Alignment explanation
Indices: 61575985--61576227 Score: 309
Period size: 27 Copynumber: 9.1 Consensus size: 27
61575975 GGGTATAATA
* *
61575985 GTCATTTTAACCTAT-AGGGTATTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
* * *
61576011 ATCATTTTACCCTATGAAGGTATTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
61576038 GTCATTCTACCCTATGAGGGTATTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
*
61576065 GTCATTCTACCATATG-GGGTATTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
*
61576091 GTCATTTTACCCTAT-AGAGGTATTTCG
1 GTCATTCTACCCTATGAG-GGTATTTCG
* *
61576118 ATCATTTTACCCTATTG-GGGTATTTCG
1 GTCATTCTACCCTA-TGAGGGTATTTCG
61576145 GTCATTCTACCCTATG-GGAGTATTTCG
1 GTCATTCTACCCTATGAGG-GTATTTCG
61576172 GTCATTCTACCCTATG-GAGGTATTTCG
1 GTCATTCTACCCTATGAG-GGTATTTCG
* *
61576199 GTCATTCTACCCTATGGGGGTGTTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
61576226 GT
1 GT
61576228 GTAGATATCG
Statistics
Matches: 196, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
26 41 0.21
27 151 0.77
28 4 0.02
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (27 bp):
GTCATTCTACCCTATGAGGGTATTTCG
Found at i:61576112 original size:80 final size:78
Alignment explanation
Indices: 61576001--61576227 Score: 337
Period size: 80 Copynumber: 2.8 Consensus size: 78
61575991 TTAACCTATA
*
61576001 GGGTATTTCGATCATTTTACCCTATGAAGGTATTTCGGTCATTCTACCCTATGAGGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCTATG-AGGTATTTCGGTCATTCTACCCTATG-GGGTATTTCGG
61576066 TCATTCTACCATATG
64 TCATTCTACCATATG
* *
61576081 GGGTATTTCGGTCATTTTACCCTATAGAGGTATTTCGATCATTTTACCCTATTGGGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCTAT-GAGGTATTTCGGTCATTCTACCCTA-TGGGGTATTTCGG
*
61576146 TCATTCTACCCTATG
64 TCATTCTACCATATG
* *
61576161 GGAGTATTTCGGTCATTCTACCCTATGGAGGTATTTCGGTCATTCTACCCTATGGGGGTGTTTCG
1 GG-GTATTTCGGTCATTTTACCCTAT-GAGGTATTTCGGTCATTCTACCCTAT-GGGGTATTTCG
61576226 GT
63 GT
61576228 GTAGATATCG
Statistics
Matches: 134, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
80 74 0.55
81 60 0.45
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (78 bp):
GGGTATTTCGGTCATTTTACCCTATGAGGTATTTCGGTCATTCTACCCTATGGGGTATTTCGGTC
ATTCTACCATATG
Found at i:61580981 original size:28 final size:29
Alignment explanation
Indices: 61580950--61581007 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
61580940 TTGGATATCA
*
61580950 CTTACTGATCACAC-TTTTGGTAGATACC
1 CTTACTGATCAAACTTTTTGGTAGATACC
*
61580978 CTTACTGATCAAACTTTTTGGTGGATACC
1 CTTACTGATCAAACTTTTTGGTAGATACC
61581007 C
1 C
61581008 GTGATCTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (29 bp):
CTTACTGATCAAACTTTTTGGTAGATACC
Found at i:61582818 original size:16 final size:15
Alignment explanation
Indices: 61582799--61582828 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
61582789 TTCATTTCAT
61582799 TTGCATTTAGGTTAAC
1 TTGCATTTA-GTTAAC
61582815 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
61582829 TTAACTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:61586659 original size:22 final size:22
Alignment explanation
Indices: 61586551--61586699 Score: 112
Period size: 22 Copynumber: 7.0 Consensus size: 22
61586541 TAACAGAATG
* *
61586551 CCACAAAGGCAATATAAAAATA
1 CCACAAAGGCCATATCAAAATA
* * * * *
61586573 CCATAGAGG-C-TAACAGAATG
1 CCACAAAGGCCATATCAAAATA
*
61586593 CCACAAAGGCTATATCAAAATA
1 CCACAAAGGCCATATCAAAATA
* * * *
61586615 CCATAGAGGCTA-AT-AGAATA
1 CCACAAAGGCCATATCAAAATA
61586635 CCACAAAGGCCATATCAAAATA
1 CCACAAAGGCCATATCAAAATA
* *
61586657 CCACAAAGGCTA-AT-AAAATG
1 CCACAAAGGCCATATCAAAATA
* *
61586677 TCATAAAGGCCATATCAAAATA
1 CCACAAAGGCCATATCAAAATA
61586699 C
1 C
61586700 GACATAAAGG
Statistics
Matches: 94, Mismatches: 27, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
20 41 0.44
21 8 0.09
22 45 0.48
ACGTcount: A:0.49, C:0.21, G:0.13, T:0.17
Consensus pattern (22 bp):
CCACAAAGGCCATATCAAAATA
Found at i:61586667 original size:42 final size:42
Alignment explanation
Indices: 61586489--61586699 Score: 244
Period size: 42 Copynumber: 5.0 Consensus size: 42
61586479 ATAGACAACG
* * * * *
61586489 CCACAAAGGCTAGTAGAATGCCACCCAA-GCCATATTAGAATA
1 CCACAGAGGCTAATAGAATGCCA-CAAAGGCCATATCAAAATA
* * * *
61586531 CCACAGAGACTAACAGAATGCCACAAAGGCAATATAAAAATA
1 CCACAGAGGCTAATAGAATGCCACAAAGGCCATATCAAAATA
* * *
61586573 CCATAGAGGCTAACAGAATGCCACAAAGGCTATATCAAAATA
1 CCACAGAGGCTAATAGAATGCCACAAAGGCCATATCAAAATA
* *
61586615 CCATAGAGGCTAATAGAATACCACAAAGGCCATATCAAAATA
1 CCACAGAGGCTAATAGAATGCCACAAAGGCCATATCAAAATA
* * * *
61586657 CCACAAAGGCTAATAAAATGTCATAAAGGCCATATCAAAATA
1 CCACAGAGGCTAATAGAATGCCACAAAGGCCATATCAAAATA
61586699 C
1 C
61586700 GACATAAAGG
Statistics
Matches: 147, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
41 3 0.02
42 144 0.98
ACGTcount: A:0.47, C:0.22, G:0.15, T:0.16
Consensus pattern (42 bp):
CCACAGAGGCTAATAGAATGCCACAAAGGCCATATCAAAATA
Found at i:61586717 original size:24 final size:24
Alignment explanation
Indices: 61586690--61586741 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
61586680 TAAAGGCCAT
61586690 ATCAAAATACGAC-ATAAAGGTTAG
1 ATCAAAATACG-CTATAAAGGTTAG
* * *
61586714 ATCAGAGTATGCTATAAAGGTTAG
1 ATCAAAATACGCTATAAAGGTTAG
61586738 ATCA
1 ATCA
61586742 GAGTACACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (24 bp):
ATCAAAATACGCTATAAAGGTTAG
Found at i:61586754 original size:24 final size:24
Alignment explanation
Indices: 61586702--61586757 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
61586692 CAAAATACGA
**
61586702 CATAAAGGTTAGATCAGAGTATGC
1 CATAAAGGTTAGATCAGAGTACAC
*
61586726 TATAAAGGTTAGATCAGAGTACAC
1 CATAAAGGTTAGATCAGAGTACAC
61586750 CATAAAGG
1 CATAAAGG
61586758 ATAGTAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.23
Consensus pattern (24 bp):
CATAAAGGTTAGATCAGAGTACAC
Found at i:61589743 original size:25 final size:25
Alignment explanation
Indices: 61589706--61589759 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
61589696 TCTAGTGGCA
61589706 AGGTGGCGACACA-TGTGTGGCAAGG
1 AGGTGGCGACACAGT-TGTGGCAAGG
* *
61589731 AGGTGGCGTCACAGTTTTGGCAAGG
1 AGGTGGCGACACAGTTGTGGCAAGG
61589756 AGGT
1 AGGT
61589760 CAGAGGTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.22, C:0.15, G:0.43, T:0.20
Consensus pattern (25 bp):
AGGTGGCGACACAGTTGTGGCAAGG
Found at i:61604685 original size:40 final size:40
Alignment explanation
Indices: 61604641--61604902 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
61604631 GCTCCTCGTT
* *
61604641 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
61604681 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61604721 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61604760 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61604799 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
61604838 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
61604879 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61604903 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:61613347 original size:17 final size:17
Alignment explanation
Indices: 61613322--61613364 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
61613312 ATAAATGGAT
*
61613322 CTTTGTAGCTTGCATAC
1 CTTTCTAGCTTGCATAC
61613339 CTTTCTAGCTTGCATAC
1 CTTTCTAGCTTGCATAC
61613356 CTTTCTAGC
1 CTTTCTAGC
61613365 ATCCTTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.28, G:0.14, T:0.42
Consensus pattern (17 bp):
CTTTCTAGCTTGCATAC
Found at i:61616852 original size:12 final size:13
Alignment explanation
Indices: 61616835--61616863 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
61616825 CTCATACATA
61616835 AATAAATAAA-GC
1 AATAAATAAATGC
61616847 AATAAATAAATGC
1 AATAAATAAATGC
61616860 AATA
1 AATA
61616864 GTTATAGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:61619598 original size:49 final size:47
Alignment explanation
Indices: 61619330--61619682 Score: 553
Period size: 47 Copynumber: 7.4 Consensus size: 47
61619320 CCCTTCGGGA
* * * * * *
61619330 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61619377 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61619424 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61619471 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61619518 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61619565 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
61619614 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61619663 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
61619683 GTACATCAAT
Statistics
Matches: 289, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 197 0.68
49 92 0.32
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61620712 original size:85 final size:85
Alignment explanation
Indices: 61620583--61620761 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
61620573 TATTTTATTG
*
61620583 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
61620648 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
61620668 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
61620733 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
61620753 CCCATGCTC
1 CCCATGCTC
61620762 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:61624932 original size:37 final size:38
Alignment explanation
Indices: 61624891--61624973 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
61624881 CTCCTATACC
61624891 TCAAATTTTAAAATTTTTACAAAATAGTCCCTAAAAT-
1 TCAAATTTTAAAATTTTTACAAAATAGTCCCTAAAATA
* ** ** *
61624928 TCAAATTTTACAATTTTTATGATTTAGTCCTTAAAATA
1 TCAAATTTTAAAATTTTTACAAAATAGTCCCTAAAATA
61624966 TCAAATTT
1 TCAAATTT
61624974 ACACAATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 31 0.79
38 8 0.21
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (38 bp):
TCAAATTTTAAAATTTTTACAAAATAGTCCCTAAAATA
Found at i:61625557 original size:61 final size:61
Alignment explanation
Indices: 61625480--61625600 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
61625470 TCAATTAGAA
*
61625480 CATAGAAAATAGTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAAAC
1 CATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAAAC
61625541 CATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAAA
1 CATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAAA
61625601 TAAACATAAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (61 bp):
CATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAAAC
Found at i:61636774 original size:25 final size:25
Alignment explanation
Indices: 61636745--61636795 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
61636735 ATAGCGGAGT
61636745 TTGCCTACAATAATAGCTTCCAGTC
1 TTGCCTACAATAATAGCTTCCAGTC
61636770 TTGCCTACAATAATAGCTTCCAGTC
1 TTGCCTACAATAATAGCTTCCAGTC
61636795 T
1 T
61636796 AACATCCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (25 bp):
TTGCCTACAATAATAGCTTCCAGTC
Found at i:61640776 original size:50 final size:50
Alignment explanation
Indices: 61640694--61640885 Score: 174
Period size: 50 Copynumber: 3.9 Consensus size: 50
61640684 CATTTGGGTA
* * * *
61640694 AAGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGAT
* ** *
61640744 AAGAGGTCCCATGTAAGACCATATCTGAGACATGGTGTTAGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGAT
* * * * * *
61640794 GAGAGGTCTCC-CGTAAGATCATGTCT-GGACATGACATGGGCACCGATG-T
1 AAGAGGTC-CCATGTAAGACCATATCTGGGACATGGCATTGGCACCGA-GAT
* ** * *
61640843 GAGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
61640886 GTACAAAAAA
Statistics
Matches: 113, Mismatches: 25, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 33 0.29
50 77 0.68
51 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGAT
Found at i:61647375 original size:50 final size:50
Alignment explanation
Indices: 61647300--61647490 Score: 215
Period size: 50 Copynumber: 3.8 Consensus size: 50
61647290 ATTTGGGTAA
*
61647300 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
61647350 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * **
61647400 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** *
61647449 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
61647491 TGTTATTATC
Statistics
Matches: 119, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.32
50 80 0.67
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:61660826 original size:40 final size:40
Alignment explanation
Indices: 61660771--61660948 Score: 320
Period size: 40 Copynumber: 4.5 Consensus size: 40
61660761 NNNNNNNNNN
61660771 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* *
61660811 TTAGCCCGGATATATCAACTGGCACAAATGCCTTAGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
*
61660851 TTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
*
61660891 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTT
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
61660931 TTAGCCCGGATATATCAA
1 TTAGCCCGGATATATCAA
61660949 TTGCTCATGC
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:61669054 original size:27 final size:27
Alignment explanation
Indices: 61669024--61669201 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61669014 ATATTGAGTC
* * * *
61669024 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61669051 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61669078 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61669106 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61669133 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61669160 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61669187 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61669202 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61669163 original size:82 final size:81
Alignment explanation
Indices: 61669045--61669200 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61669035 TGCTATATAA
* *
61669045 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61669110 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61669127 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61669191 CACTTAGTGC
65 CACTTAGTGC
61669201 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61672833 original size:14 final size:14
Alignment explanation
Indices: 61672814--61672843 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
61672804 TGGAGGAAGA
61672814 TTGAGAGGTTCCAT
1 TTGAGAGGTTCCAT
61672828 TTGAGAGGTTCCAT
1 TTGAGAGGTTCCAT
61672842 TT
1 TT
61672844 ATTTTTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (14 bp):
TTGAGAGGTTCCAT
Found at i:61675272 original size:68 final size:68
Alignment explanation
Indices: 61675159--61675299 Score: 246
Period size: 68 Copynumber: 2.1 Consensus size: 68
61675149 TAATTTATGT
*
61675159 ATGATTTTGTAGCTACCTAATTATGATTTCGAAAGTTTCCATTTAGAACTAGCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATCTCGAAAGTTTCCATTTAGAACTAGCAATATTAGAGAT
61675224 GAA
66 GAA
* * *
61675227 ATGATTTTGTAGCTATCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATCTCGAAAGTTTCCATTTAGAACTAGCAATATTAGAGAT
61675292 GAA
66 GAA
61675295 ATGAT
1 ATGAT
61675300 ACATCATATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (68 bp):
ATGATTTTGTAGCTACCTAATTATGATCTCGAAAGTTTCCATTTAGAACTAGCAATATTAGAGAT
GAA
Found at i:61679912 original size:68 final size:68
Alignment explanation
Indices: 61679803--61679943 Score: 246
Period size: 68 Copynumber: 2.1 Consensus size: 68
61679793 TAATTTATGT
* * *
61679803 ATGATTTTGTAGCTGCCTAATTATGATTTTGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
61679868 GAA
66 GAA
*
61679871 ATGATTTTGTAGCTATCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
61679936 GAA
66 GAA
61679939 ATGAT
1 ATGAT
61679944 ACATCATATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (68 bp):
ATGATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
GAA
Found at i:61681602 original size:19 final size:19
Alignment explanation
Indices: 61681578--61681657 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
61681568 TATTAAGAAT
61681578 TTTATTAAATTATATATTA
1 TTTATTAAATTATATATTA
61681597 TTTATTAAATTATAT-TTA
1 TTTATTAAATTATATATTA
* * * * *
61681615 ATAATTATTATTTTAAATTA
1 TTTATTA-AATTATATATTA
*
61681635 -TTATTAAATTATTTATTA
1 TTTATTAAATTATATATTA
61681653 TTTAT
1 TTTAT
61681658 ATTAATAATC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
18 16 0.33
19 29 0.60
20 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATTAAATTATATATTA
Found at i:61681608 original size:24 final size:23
Alignment explanation
Indices: 61681585--61681652 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 23
61681575 AATTTTATTA
61681585 AATTATATATTATTTATTAAATT
1 AATTATATATTATTTATTAAATT
*
61681608 ATATT-TAATAATTATTATTTTAAATT
1 A-ATTAT-AT-ATTATT-TATTAAATT
*
61681634 -ATTATTAAATTATTTATTA
1 AATTA-TATATTATTTATTA
61681653 TTTATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
23 6 0.17
24 14 0.39
25 7 0.19
26 9 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTATATATTATTTATTAAATT
Found at i:61681633 original size:13 final size:13
Alignment explanation
Indices: 61681601--61681647 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
61681591 ATATTATTTA
61681601 TTAAATTA-TATT
1 TTAAATTATTATT
*
61681613 TAATAATTATTATT
1 TTA-AATTATTATT
61681627 TTAAATTATTA--
1 TTAAATTATTATT
61681638 TTAAATTATT
1 TTAAATTATT
61681648 TATTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 10 0.32
12 2 0.06
13 13 0.42
14 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTAAATTATTATT
Found at i:61681864 original size:16 final size:16
Alignment explanation
Indices: 61681843--61681881 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
61681833 AATTGAATTA
*
61681843 CTATTATGCCTCTATT
1 CTATTACGCCTCTATT
61681859 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
61681875 CTATTAC
1 CTATTAC
61681882 AGCGAACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.28, G:0.05, T:0.46
Consensus pattern (16 bp):
CTATTACGCCTCTATT
Found at i:61691775 original size:59 final size:57
Alignment explanation
Indices: 61691712--61691897 Score: 153
Period size: 59 Copynumber: 3.1 Consensus size: 57
61691702 TTGACTGATA
61691712 TATATATATATATCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATATATAT-TCAGTAAATTAATATAAGAATATTAATTATTAA-AATTTTATTAAAT
* * * * * * * * * *
61691771 TATATAT-T-TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTA-CAGTAT
1 TATATATATATTCAGTAAATTA-ATATAAGAAT-ATTA-ATT-ATTAAAATTTTATTA-AAT
*
61691830 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAACATTTTATTAAAT
1 TATATA-TAT-A-TTCAGTAAATTAATATAAGAATATTAATTATTAAA-ATTTTATTAAAT
61691891 TATATAT
1 TATATAT
61691898 TTTAATTAAA
Statistics
Matches: 93, Mismatches: 22, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
56 8 0.09
57 9 0.10
58 6 0.06
59 22 0.24
60 10 0.11
61 16 0.17
62 5 0.05
63 8 0.09
64 9 0.10
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (57 bp):
TATATATATATTCAGTAAATTAATATAAGAATATTAATTATTAAAATTTTATTAAAT
Found at i:61691787 original size:18 final size:17
Alignment explanation
Indices: 61691759--61691793 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
61691749 ATTATTAAGA
*
61691759 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
61691776 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
61691794 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:61691859 original size:120 final size:120
Alignment explanation
Indices: 61691711--61691930 Score: 390
Period size: 120 Copynumber: 1.8 Consensus size: 120
61691701 ATTGACTGAT
61691711 ATATATATATATATCAGTAAATTAATATAAGAATATTAATTATTAAGA-ATTTTATTAAATTATA
1 ATATATATATATATCAGTAAATTAATATAAGAATATTAATTATTAA-ACATTTTATTAAATTATA
*
61691775 TATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
65 TATTTTAATTAAAATATATTCAATAATAATTATGTTAATTTATATTTTACAGTATC
*
61691831 ATATAT-TATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAACATTTTATTAAATTATA
1 ATATATATAT-ATATCAGTAAATTAATATAAGAATATTAATTATTAAACATTTTATTAAATTATA
61691895 TATTTTAATTAAAATATATTCAATAATAATTATGTT
65 TATTTTAATTAAAATATATTCAATAATAATTATGTT
61691931 TAAATATGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
119 4 0.04
120 92 0.96
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (120 bp):
ATATATATATATATCAGTAAATTAATATAAGAATATTAATTATTAAACATTTTATTAAATTATAT
ATTTTAATTAAAATATATTCAATAATAATTATGTTAATTTATATTTTACAGTATC
Found at i:61691907 original size:18 final size:17
Alignment explanation
Indices: 61691879--61691913 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
61691869 ATTATTAAAC
*
61691879 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
61691896 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
61691914 TCAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:61692127 original size:44 final size:45
Alignment explanation
Indices: 61692078--61692168 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
61692068 ACCTCTATTC
* * *
61692078 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
61692122 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
61692167 CA
1 CA
61692169 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:61692170 original size:16 final size:16
Alignment explanation
Indices: 61692149--61692217 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
61692139 GATTAGCTAT
61692149 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
61692165 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
61692182 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
61692198 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
61692214 TACA
1 TACA
61692218 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:61692191 original size:33 final size:32
Alignment explanation
Indices: 61692149--61692217 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
61692139 GATTAGCTAT
61692149 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
61692182 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
61692214 TACA
1 TACA
61692218 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:61707619 original size:23 final size:23
Alignment explanation
Indices: 61707571--61707621 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
61707561 CCACTACCTA
**
61707571 AAGCCTAGGTGCCCCAAATTCTT
1 AAGCCTAGGTGCCCCAAATTAGT
*
61707594 AAGCCTAGGTGCCCCAACTTAGT
1 AAGCCTAGGTGCCCCAAATTAGT
61707617 AAGCC
1 AAGCC
61707622 CATTTCCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (23 bp):
AAGCCTAGGTGCCCCAAATTAGT
Found at i:61718539 original size:14 final size:14
Alignment explanation
Indices: 61718520--61718551 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
61718510 GAGTAGGTAT
61718520 GTACTCTGAGGATC
1 GTACTCTGAGGATC
61718534 GTACTCTGAGGATC
1 GTACTCTGAGGATC
61718548 GTAC
1 GTAC
61718552 CCAAGGGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (14 bp):
GTACTCTGAGGATC
Found at i:61723984 original size:25 final size:25
Alignment explanation
Indices: 61723967--61724124 Score: 128
Period size: 25 Copynumber: 6.3 Consensus size: 25
61723957 TGGCGTATCA
**
61723967 TTTGGAAATACTTTGTGGCGAATTC
1 TTTGGAAAGCCTTTGTGGCGAATTC
**
61723992 TTTGGAAAGCCCTTT-TGGCCTA-TC
1 TTTGGAAAG-CCTTTGTGGCGAATTC
*
61724016 ATTTGGAAAGCCTATGTGGCGAATTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* *
61724042 TCTGGAAAGCCTTTGTGGTGAATTC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* *
61724067 TATGGAAA-ACTTCTGTGGC--ATATC
1 TTTGGAAAGCCTT-TGTGGCGAAT-TC
* *
61724091 ATTTGGAAAGCCTTTGTGGAGAATTA
1 -TTTGGAAAGCCTTTGTGGCGAATTC
*
61724117 TCTGGAAA
1 TTTGGAAA
61724125 TTCTTTATGG
Statistics
Matches: 105, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
23 2 0.02
24 11 0.10
25 80 0.76
26 10 0.10
27 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
TTTGGAAAGCCTTTGTGGCGAATTC
Found at i:61724016 original size:50 final size:50
Alignment explanation
Indices: 61723957--61724052 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
61723947 AAATCCCTCG
* * * *
61723957 TGGCGTATCATTTGGAAATACTTTGTGGCGAATTCTTTGGAAAGCCCTTT
1 TGGCCTATCATTTGGAAAGACTATGTGGCGAATTCTCTGGAAAGCCCTTT
*
61724007 TGGCCTATCATTTGGAAAGCCTATGTGGCGAATTCTCTGGAAAGCC
1 TGGCCTATCATTTGGAAAGACTATGTGGCGAATTCTCTGGAAAGCC
61724053 TTTGTGGTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (50 bp):
TGGCCTATCATTTGGAAAGACTATGTGGCGAATTCTCTGGAAAGCCCTTT
Found at i:61724035 original size:75 final size:75
Alignment explanation
Indices: 61723969--61724124 Score: 199
Period size: 75 Copynumber: 2.1 Consensus size: 75
61723959 GCGTATCATT
* * * *
61723969 TGGAAATACTTTGTGGCGAATTCTTTGGAAAGCCCTT-T-TGGCCTATCATTTGGAAAGCCTATG
1 TGGAAAGACTTTGTGGCGAATTCTATGGAAA--ACTTCTGTGGCATATCATTTGGAAAGCCTATG
61724032 TGGCGAATTCTC
64 TGGCGAATTCTC
* * *
61724044 TGGAAAGCCTTTGTGGTGAATTCTATGGAAAACTTCTGTGGCATATCATTTGGAAAGCCTTTGTG
1 TGGAAAGACTTTGTGGCGAATTCTATGGAAAACTTCTGTGGCATATCATTTGGAAAGCCTATGTG
* *
61724109 GAGAATTATC
66 GCGAATTCTC
61724119 TGGAAA
1 TGGAAA
61724125 TTCTTTATGG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
73 3 0.04
74 1 0.01
75 66 0.94
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (75 bp):
TGGAAAGACTTTGTGGCGAATTCTATGGAAAACTTCTGTGGCATATCATTTGGAAAGCCTATGTG
GCGAATTCTC
Found at i:61739651 original size:10 final size:10
Alignment explanation
Indices: 61739636--61739675 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
61739626 TCGAAAATAA
61739636 AAAATTAATT
1 AAAATTAATT
61739646 AAAATTAATTAT
1 AAAATTAA-T-T
61739658 AAAATTAATT
1 AAAATTAATT
*
61739668 AATATTAA
1 AAAATTAA
61739676 ACATGTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 16 0.59
11 2 0.07
12 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATTAATT
Found at i:61739660 original size:12 final size:12
Alignment explanation
Indices: 61739636--61739668 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
61739626 TCGAAAATAA
61739636 AAAATTAA-T-T
1 AAAATTAATTAT
61739646 AAAATTAATTAT
1 AAAATTAATTAT
61739658 AAAATTAATTA
1 AAAATTAATTA
61739669 ATATTAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.38
11 1 0.05
12 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATTAATTAT
Done.