Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 72 of 328
Found at i:19699533 original size:35 final size:35
Alignment explanation
Indices: 19699461--19699551 Score: 91
Period size: 35 Copynumber: 2.6 Consensus size: 35
19699451 TGGAATAATT
19699461 AAATGTGGTTGTTTTGTATGTTATAAAGATGTCCC
1 AAATGTGGTTGTTTTGTATGTTATAAAGATGTCCC
* *
19699496 AAATATGGTTGTTTT-TAAATGTTATAATA-TTGT-CC
1 AAATGTGGTTGTTTTGT--ATGTTATAA-AGATGTCCC
* *
19699531 AAATGTGATTG-TTCGTATGTT
1 AAATGTGGTTGTTTTGTATGTT
19699552 TAATTGCATA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
33 5 0.11
34 3 0.06
35 26 0.55
36 12 0.26
37 1 0.02
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (35 bp):
AAATGTGGTTGTTTTGTATGTTATAAAGATGTCCC
Found at i:19701485 original size:13 final size:13
Alignment explanation
Indices: 19701467--19701491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19701457 AGAGGTAGCA
19701467 AAGAGATATTTTG
1 AAGAGATATTTTG
19701480 AAGAGATATTTT
1 AAGAGATATTTT
19701492 CTTCAAGTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
AAGAGATATTTTG
Found at i:19711158 original size:17 final size:17
Alignment explanation
Indices: 19711136--19711172 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
19711126 CGAGGATTAT
19711136 TACCCATGTAATTTAAC
1 TACCCATGTAATTTAAC
19711153 TACCCATGTAATTTAAC
1 TACCCATGTAATTTAAC
19711170 TAC
1 TAC
19711173 TCGTTCTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (17 bp):
TACCCATGTAATTTAAC
Found at i:19713095 original size:16 final size:16
Alignment explanation
Indices: 19713076--19713114 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
19713066 CAAGATTCGT
19713076 CTTAGGTTTCATTCTC
1 CTTAGGTTTCATTCTC
19713092 CTTAGGTTTCATTCTC
1 CTTAGGTTTCATTCTC
19713108 CTTAGGT
1 CTTAGGT
19713115 ATTTAGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.13, C:0.23, G:0.15, T:0.49
Consensus pattern (16 bp):
CTTAGGTTTCATTCTC
Found at i:19726759 original size:28 final size:28
Alignment explanation
Indices: 19726717--19726819 Score: 145
Period size: 28 Copynumber: 3.7 Consensus size: 28
19726707 TGGCCCCTTT
*
19726717 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
19726745 -GAGCCCAATCACATTCATATGGCCCATT
1 AG-GCCCAATCACATTCATATGGCCCATC
* *
19726773 AGGCCCAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
19726801 AGGCCCAATCACACTCATA
1 AGGCCCAATCACATTCATA
19726820 GTCATGCAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.02
28 64 0.97
29 1 0.02
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:19726790 original size:56 final size:57
Alignment explanation
Indices: 19726700--19726819 Score: 163
Period size: 56 Copynumber: 2.1 Consensus size: 57
19726690 ATCCATACTT
* * *
19726700 ATTCATTTGGCCCCTTTAGGCCCAATCTCATTCATATGGCCCATC-GAGCCCAATCAC
1 ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAG-GCCCAATCAC
* *
19726757 ATTCATATGG-CCCATTAGGCCCAATCACTTTCATATGGCCCGTCAGGCCCAATCAC
1 ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAGGCCCAATCAC
*
19726813 ACTCATA
1 ATTCATA
19726820 GTCATGCAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 46 0.82
57 10 0.18
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.27
Consensus pattern (57 bp):
ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAGGCCCAATCAC
Found at i:19727268 original size:21 final size:21
Alignment explanation
Indices: 19727244--19727283 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19727234 ACCAAACAAC
19727244 AAGTGACTCGCAAATCATCTT
1 AAGTGACTCGCAAATCATCTT
* **
19727265 AAGTTACTCTTAAATCATC
1 AAGTGACTCGCAAATCATC
19727284 CATGATCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (21 bp):
AAGTGACTCGCAAATCATCTT
Found at i:19729981 original size:20 final size:21
Alignment explanation
Indices: 19729939--19729981 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19729929 ACTTATTTTG
*
19729939 ATATTTTTATTTTTTACTATT
1 ATATTTTTATTTTTCACTATT
19729960 ATATTTTT-TTTATTCACT-TT
1 ATATTTTTATTT-TTCACTATT
19729980 AT
1 AT
19729982 TTTAATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (21 bp):
ATATTTTTATTTTTCACTATT
Found at i:19732719 original size:39 final size:39
Alignment explanation
Indices: 19732665--19732744 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
19732655 GGTGGAGTCG
* *
19732665 TATATTTATAGCTGTTTTTAAGGAGAGAAGCATCAATCA
1 TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
19732704 TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
1 TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
19732743 TA
1 TA
19732745 GTAGCGTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (39 bp):
TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
Found at i:19739294 original size:30 final size:30
Alignment explanation
Indices: 19739229--19739297 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
19739219 TTGCTATATG
*
19739229 AAATATAAATTTTAAATATTTTTAAGTTAT
1 AAATATAAATTTTAAATAATTTTAAGTTAT
* *
19739259 TAATATAAATTATTTAAA-AATTTTAATTTA-
1 AAATATAAA-T-TTTAAATAATTTTAAGTTAT
19739289 AAATATAAA
1 AAATATAAA
19739298 CTATAGTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 16 0.48
31 11 0.33
32 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (30 bp):
AAATATAAATTTTAAATAATTTTAAGTTAT
Found at i:19740883 original size:2 final size:2
Alignment explanation
Indices: 19740876--19740900 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19740866 ATATTATAGG
19740876 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
19740901 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19751379 original size:48 final size:48
Alignment explanation
Indices: 19751149--19751381 Score: 236
Period size: 48 Copynumber: 4.9 Consensus size: 48
19751139 GAATTTTCGC
* * * *
19751149 TGCCATATTCCAAACATGGTCTTACACTGGCTCACATGTCGA-GCCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC-ATGGCCGA
* * * *
19751197 TGCCATGTCCCAGACATGGTCTTACACTAGCACACATAACAAT-GCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC-ATGGCCGA
* * * * * * * *
19751245 TGCCATGTCCTAGACATGGTCTTACATTGGCTCTCACAACATCGCTGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCATGGCCGA
* * *
19751293 TGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATATCATGGCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCATGGCCGA
* * *
19751341 CGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCA
19751382 CTCAAATGTC
Statistics
Matches: 154, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
47 2 0.01
48 152 0.99
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
TGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCATGGCCGA
Found at i:19765548 original size:8 final size:8
Alignment explanation
Indices: 19765535--19765563 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
19765525 TTATGTTTAG
19765535 TATATTAT
1 TATATTAT
19765543 TATATTAT
1 TATATTAT
19765551 TATATTAT
1 TATATTAT
19765559 TATAT
1 TATAT
19765564 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:19765622 original size:9 final size:9
Alignment explanation
Indices: 19765608--19765637 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
19765598 TATATTATAT
19765608 AAACTAAAG
1 AAACTAAAG
19765617 AAACTAAAG
1 AAACTAAAG
*
19765626 AAACAAAAG
1 AAACTAAAG
19765635 AAA
1 AAA
19765638 GGAAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (9 bp):
AAACTAAAG
Found at i:19767247 original size:45 final size:45
Alignment explanation
Indices: 19767182--19767377 Score: 272
Period size: 45 Copynumber: 4.4 Consensus size: 45
19767172 CTGTTACCGC
* * *
19767182 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACTGATTCGGCACTTTGTGTGTCGAATATTGT
*
19767227 TACTGTTACCGTTACTGATTCGGCACTTTGTGTGTCAAATATTGT
1 TACTGTTACCGTTACTGATTCGGCACTTTGTGTGTCGAATATTGT
*
19767272 TACTATTACCGTTA-TCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACT-GATTCGGCACTTTGTGTGTCGAATATTGT
* * *
19767317 TACTATTACCGTTA-TCGATTCGGCACTTTGTGTGTTGGATATTGT
1 TACTGTTACCGTTACT-GATTCGGCACTTTGTGTGTCGAATATTGT
*
19767362 TACTG-TACTGTTACTG
1 TACTGTTACCGTTACTG
19767378 TTACTATTAC
Statistics
Matches: 139, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
44 9 0.06
45 130 0.94
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:19767378 original size:6 final size:6
Alignment explanation
Indices: 19767359--19767391 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
19767349 TGTTGGATAT
*
19767359 TGTTAC TG-TAC TGTTAC TGTTAC TATTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTT
19767392 CTGGATTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TGTTAC
Found at i:19767588 original size:18 final size:18
Alignment explanation
Indices: 19767567--19767721 Score: 125
Period size: 18 Copynumber: 8.6 Consensus size: 18
19767557 TAACTGATTA
19767567 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
19767585 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
* *
19767603 CTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
19767621 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
19767639 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* ** *
19767657 TTACTGAATAACTGGTTA
1 TTACTGAATAATTGACTG
* * *
19767675 TTATTGAATATTTGATTG
1 TTACTGAATAATTGACTG
* *
19767693 TTACCGAATAACTGACTG
1 TTACTGAATAATTGACTG
19767711 TTACTGAATAA
1 TTACTGAATAA
19767722 ATAATTGTTC
Statistics
Matches: 110, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
17 4 0.04
18 103 0.94
19 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:19767644 original size:36 final size:36
Alignment explanation
Indices: 19767555--19767721 Score: 158
Period size: 36 Copynumber: 4.6 Consensus size: 36
19767545 AAAGGTATAA
*
19767555 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGACTATTACTGAATAATTGACTGTTACCG
* * ** * *
19767591 GATAATTGACTGCTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGACTATTACTGAATAATT-GACTGTTACCG
* * *
19767627 AATAACTGAATATTACTGAATAATTGA-TCATTACTG
1 AATAACTGACTATTACTGAATAATTGACT-GTTACCG
** * * *
19767663 AATAACTGGTTATTATTGAATATTTGATTGTTACCG
1 AATAACTGACTATTACTGAATAATTGACTGTTACCG
*
19767699 AATAACTGACTGTTACTGAATAA
1 AATAACTGACTATTACTGAATAA
19767722 ATAATTGTTC
Statistics
Matches: 102, Mismatches: 25, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
35 4 0.04
36 94 0.92
37 4 0.04
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (36 bp):
AATAACTGACTATTACTGAATAATTGACTGTTACCG
Found at i:19769387 original size:48 final size:48
Alignment explanation
Indices: 19769332--19769627 Score: 228
Period size: 48 Copynumber: 6.0 Consensus size: 48
19769322 AGAGTGAATT
*
19769332 GCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATGTCAAG
1 GCCGATGCCATG-TCCTAAACATGGTCTTACACTGGCTCACATATCAAG
* * * *
19769380 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGGC-CATGTCCTAGACATG
1 GCCGATGCCATGTCCTAAACATGGTCTTACACT-GGCTCA---CATA-TCAAG
* * * *
19769432 GTCTTAC-ACTAGGCCATGTCCTAGACATGGTCTTACACTAGCAT-ATATATCAAT
1 G-C---CGA-T--GCCATGTCCTAAACATGGTCTTACACTGGC-TCACATATCAAG
* **
19769486 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGATCTCACA-A-CATC
1 GCCGATGCCATGTCCTAAACATGGTCTTACACTGG--CTCACATATCAAG
* * *
19769534 GCCGATGCCTTGTTCC-AAACATGGTCTTACACTGGCTCTCATATCATG
1 GCCGATGCCATG-TCCTAAACATGGTCTTACACTGGCTCACATATCAAG
* * *
19769582 GCCGACGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 GCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATATCA
19769628 CCTAAATGTC
Statistics
Matches: 202, Mismatches: 23, Indels: 46
0.75 0.08 0.17
Matches are distributed among these distances:
46 5 0.02
47 7 0.03
48 130 0.64
49 8 0.04
50 5 0.02
51 3 0.01
52 4 0.02
53 2 0.01
54 3 0.01
55 3 0.01
56 2 0.01
57 2 0.01
58 28 0.14
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATATCAAG
Found at i:19769419 original size:29 final size:29
Alignment explanation
Indices: 19769386--19769472 Score: 174
Period size: 29 Copynumber: 3.0 Consensus size: 29
19769376 CAAGGCCGAT
19769386 GCCATGTCCTAGACATGGTCTTACACTAG
1 GCCATGTCCTAGACATGGTCTTACACTAG
19769415 GCCATGTCCTAGACATGGTCTTACACTAG
1 GCCATGTCCTAGACATGGTCTTACACTAG
19769444 GCCATGTCCTAGACATGGTCTTACACTAG
1 GCCATGTCCTAGACATGGTCTTACACTAG
19769473 CATATATATC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (29 bp):
GCCATGTCCTAGACATGGTCTTACACTAG
Found at i:19771806 original size:19 final size:20
Alignment explanation
Indices: 19771768--19771808 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
19771758 AGATACAATC
19771768 ATCAGATCAGAATTTATATAG
1 ATCAGATCAGAA-TTATATAG
19771789 ATCAGATCAGAA-TATATAG
1 ATCAGATCAGAATTATATAG
19771808 A
1 A
19771809 GTCCTACCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
21 12 0.60
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (20 bp):
ATCAGATCAGAATTATATAG
Found at i:19778858 original size:22 final size:22
Alignment explanation
Indices: 19778833--19778879 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
19778823 TTAATTTCCT
19778833 AATTAAATAGTCTTCTCAACCC
1 AATTAAATAGTCTTCTCAACCC
19778855 AATTAAATAGTCTTCTCAACCC
1 AATTAAATAGTCTTCTCAACCC
19778877 AAT
1 AAT
19778880 CCTAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (22 bp):
AATTAAATAGTCTTCTCAACCC
Found at i:19779055 original size:56 final size:58
Alignment explanation
Indices: 19778965--19779077 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 58
19778955 TTTTCAGGTC
* *
19778965 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGTTTC-CATTTCTCCATTTTA
1 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAAAGTTTCTCATTTCTCAATTTTA
* *
19779022 ATTTTCATTTTGGA-AAAATCACATTTATTTCCAAAAGTTTCTCATTTCTCAATTTT
1 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAAAGTTTCTCATTTCTCAATTTT
19779078 CACCATTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 24 0.47
57 27 0.53
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (58 bp):
ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAAAGTTTCTCATTTCTCAATTTTA
Found at i:19781828 original size:24 final size:24
Alignment explanation
Indices: 19781797--19781842 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
19781787 AAGTGAGAGT
19781797 TAGTATGTTAAGTATGGTAGTTAG
1 TAGTATGTTAAGTATGGTAGTTAG
19781821 TAGTATGTTAAGTATGGTAGTT
1 TAGTATGTTAAGTATGGTAGTT
19781843 GTTGTATAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (24 bp):
TAGTATGTTAAGTATGGTAGTTAG
Found at i:19781852 original size:20 final size:22
Alignment explanation
Indices: 19781794--19781855 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 22
19781784 GTGAAGTGAG
*
19781794 AGTTAGTA-TGTTAAGTATGGT
1 AGTTAGTAGTATTAAGTATGGT
19781815 AGTTAGTAGTATGTTAAGTATGGT
1 AGTTAGTAGTA--TTAAGTATGGT
*
19781839 AGTT-GTTGTA-TAAGTAT
1 AGTTAGTAGTATTAAGTAT
19781856 ATATCTGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
20 7 0.19
21 8 0.22
22 1 0.03
23 5 0.14
24 15 0.42
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (22 bp):
AGTTAGTAGTATTAAGTATGGT
Found at i:19782749 original size:40 final size:39
Alignment explanation
Indices: 19782695--19782780 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 39
19782685 TCCCACCCAG
* *
19782695 CACACC-AGATGGGGATAAAATCGA-CCAGCCTAGCCCTA
1 CACACCAAGATGGGGATAAAATCAACCCAGCC-AACCCTA
*
19782733 CACACCAAGTATGGGGATAAAATCAACCCATCCAACCCTA
1 CACACCAAG-ATGGGGATAAAATCAACCCAGCCAACCCTA
19782773 CACACCAA
1 CACACCAA
19782781 ATAGTACCGT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
38 6 0.14
39 2 0.05
40 29 0.69
41 5 0.12
ACGTcount: A:0.38, C:0.34, G:0.15, T:0.13
Consensus pattern (39 bp):
CACACCAAGATGGGGATAAAATCAACCCAGCCAACCCTA
Found at i:19784725 original size:23 final size:23
Alignment explanation
Indices: 19784697--19784740 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
19784687 GACACTGAAA
19784697 CCCATACAGTCTTACTATCTCAC
1 CCCATACAGTCTTACTATCTCAC
19784720 CCCATACAGTCTTACTATCTC
1 CCCATACAGTCTTACTATCTC
19784741 TGAGATGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.39, G:0.05, T:0.32
Consensus pattern (23 bp):
CCCATACAGTCTTACTATCTCAC
Found at i:19798805 original size:25 final size:25
Alignment explanation
Indices: 19798777--19798848 Score: 92
Period size: 24 Copynumber: 2.9 Consensus size: 25
19798767 CCTCTTTTAA
19798777 TAACTGGGGCAAAGCCCTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTTGAT
* * * *
19798802 TAACTGGCGCAAA-ACCTTTTCGGT
1 TAACTGGGGCAAAGCCCTTTTTGAT
*
19798826 AAACTGGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAGCCCTTTTTG
19798849 CGCTTCTTCC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
24 19 0.50
25 19 0.50
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTTGAT
Found at i:19798919 original size:21 final size:21
Alignment explanation
Indices: 19798894--19798944 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
19798884 TATAATGAAT
*
19798894 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
19798915 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
19798936 ATATCATGT
1 ATATCATGT
19798945 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:19800821 original size:19 final size:20
Alignment explanation
Indices: 19800797--19800834 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
19800787 CACAACCAAA
*
19800797 TACCAAATT-TTAAAAATTT
1 TACCAAATTCTCAAAAATTT
19800816 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
19800835 ACAAAAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:19810304 original size:2 final size:2
Alignment explanation
Indices: 19810297--19810334 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
19810287 GTTAAGTTTC
19810297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19810335 ACTTAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19813864 original size:37 final size:37
Alignment explanation
Indices: 19813810--19813909 Score: 114
Period size: 37 Copynumber: 2.7 Consensus size: 37
19813800 TTCTAACCAA
* *
19813810 AACACCCCAAATTCTCATAAGAGCTAATCCACCTGAT
1 AACACACCAAATGCTCATAAGAGCTAATCCACCTGAT
* * * *
19813847 AGCACACCAAATGCTCATAAAAGCCAGTCCACCTGAT
1 AACACACCAAATGCTCATAAGAGCTAATCCACCTGAT
19813884 AACACA-CAAATGGCTCCA-AAGAGCTA
1 AACACACCAAAT-GCT-CATAAGAGCTA
19813910 GTCTAACCGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
36 5 0.10
37 45 0.87
38 2 0.04
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (37 bp):
AACACACCAAATGCTCATAAGAGCTAATCCACCTGAT
Found at i:19816351 original size:35 final size:35
Alignment explanation
Indices: 19816295--19816374 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
19816285 GATTAATGGG
* *
19816295 CCCACATGCCTATGTGTGCTCACATGCCAGTATGA
1 CCCACATGCCTATGTGGGCTCACACGCCAGTATGA
* * * *
19816330 CCCACATGCTTGTGTGGGCTCACACGCCAGTGTGT
1 CCCACATGCCTATGTGGGCTCACACGCCAGTATGA
19816365 CCCACATGCC
1 CCCACATGCC
19816375 CAGATTGGCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.24
Consensus pattern (35 bp):
CCCACATGCCTATGTGGGCTCACACGCCAGTATGA
Found at i:19823741 original size:43 final size:43
Alignment explanation
Indices: 19823621--19823778 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
19823611 AGCTCGTACA
* * *
19823621 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATTG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
19823664 ATGCCACTGTCCCAGGCAGGGTCTTACACG-AAATCAAATA-CG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* * *
19823706 ATGCCGATGTCCCAGATATGGTCTTACACGTAAATCTCAA-ATCA
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATC-AAATATCG
* * *
19823750 ATGCCAACGTCTCAGACGTGGTCTTACAC
1 ATGCC-ATGTCCCAGACATGGTCTTACAC
19823779 AAAATCATAG
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
42 27 0.29
43 40 0.43
44 27 0.29
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:19830490 original size:159 final size:156
Alignment explanation
Indices: 19830288--19830908 Score: 643
Period size: 159 Copynumber: 4.0 Consensus size: 156
19830278 ATTAAATGTG
* * *
19830288 TTACACTTATTCG-CATTTGCAAATTACTCTTGTTTTTCTTTATTGAAGGAAAATAAGATTTTCT
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAA-GAAAATAA-A-TTTCT
* * ** *
19830352 CTAAAAAAATTATACTATAATTAAAACTTTTATTTAAATTGAG-GTCACGAGTCAATCGAACATT
63 CTAAAAAAATTATACTATAATTAAAACTTTTATTTAAATTG-GCATCACAAGTCAATCGAGTATA
*
19830416 AATTCAATTGAAAAATAAATGAAAAAAATA
127 AATTCAATTGAAAAATGAATGAAAAAAATA
* *
19830446 TTACATTTATTGGTCATTTGCACATTAGTCTTGTTTTTCTTTATTTAAGAAAGATAAAATTCTCT
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAAA-AT-AAATT-TCT
* * * * * *
19830511 CTAAAAAAATTATACTGTAAATAAAAATCTTATTTCAATTGGCATCACAAGTCAACCGAGTATAA
63 CTAAAAAAATTATACTATAATTAAAACTTTTATTTAAATTGGCATCACAAGTCAATCGAGTATAA
19830576 ATTCAATTGAAAAATGAATG--AAAAATA
128 ATTCAATTGAAAAATGAATGAAAAAAATA
* * * * * *
19830603 TTACACTTATTGGTCATTTGCACATTACTCTGGTTTTTCCTTATTTAAG-AAATATATATATATA
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAAAATAAATTTCTCTA
* * * * * * * *
19830667 TATATATATATAATGTAATTAAAAC---TCTTTAAATTGGCATCACAAGTAAATCGAGTATCAAT
66 AAAAAAT-TATACTATAATTAAAACTTTTATTTAAATTGGCATCACAAGTCAATCGAGTATAAAT
*
19830729 TCAATTGAAAAATGAACGAAAAAAATA
130 TCAATTGAAAAATGAATGAAAAAAATA
* * *
19830756 TTACA-TTTTTTGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAGAAAAAAATTTCTCT
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGA-AAATAAATTTCTCT
* * * * ** * * *
19830820 AAAAAAAAGTATACTATAGTTAAAATTTTTGA-TTAAGTTAACATCACAAATCAATTGAATACT-
65 -AAAAAAATTATACTATAATTAAAACTTTT-ATTTAAATTGGCATCACAAGTCAATCGAGTA-TA
* *
19830883 AACTCAATTGAAAAATGAACGAAAAA
127 AATTCAATTGAAAAATGAATGAAAAA
19830909 CTATTTTTTT
Statistics
Matches: 384, Mismatches: 63, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
151 49 0.13
152 39 0.10
153 20 0.05
154 39 0.10
155 6 0.02
156 2 0.01
157 100 0.26
158 19 0.05
159 108 0.28
160 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (156 bp):
TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAAAATAAATTTCTCTA
AAAAAATTATACTATAATTAAAACTTTTATTTAAATTGGCATCACAAGTCAATCGAGTATAAATT
CAATTGAAAAATGAATGAAAAAAATA
Found at i:19830661 original size:2 final size:2
Alignment explanation
Indices: 19830654--19830678 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19830644 TATTTAAGAA
19830654 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19830679 ATGTAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19832825 original size:52 final size:52
Alignment explanation
Indices: 19832705--19832845 Score: 169
Period size: 52 Copynumber: 2.7 Consensus size: 52
19832695 CGGATCACAT
* * *
19832705 ATCATACCGATGTCATATCCCAGATATGGTCTTATACAGAATCACATTATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAATCACA-TATCAC
* *
19832758 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACGA-ATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-AGAATCAC-ATATCAC
** *
19832810 ATTGTACCGATGCCATAGCCCGGCTATGGTCTTATA
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATA
19832846 TGAAAGCATA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
52 37 0.48
53 36 0.47
54 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAATCACATATCAC
Found at i:19837568 original size:22 final size:23
Alignment explanation
Indices: 19837534--19837577 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
19837524 AATAAATAGG
19837534 AATAAATAAAAT-AAAATTTTAA
1 AATAAATAAAATAAAAATTTTAA
* *
19837556 AATAATTAGAATAAAAATTTTA
1 AATAAATAAAATAAAAATTTTA
19837578 GGTGAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AATAAATAAAATAAAAATTTTAA
Found at i:19839595 original size:45 final size:45
Alignment explanation
Indices: 19839527--19839624 Score: 178
Period size: 45 Copynumber: 2.2 Consensus size: 45
19839517 GGTTTTACAT
* *
19839527 TTTTCAGTCTTATCTATAGTTTTCACAAAACACTAACGCTAGTTA
1 TTTTCAGTCTTATCTATAATTTTCACAAAACACTAACACTAGTTA
19839572 TTTTCAGTCTTATCTATAATTTTCACAAAACACTAACACTAGTTA
1 TTTTCAGTCTTATCTATAATTTTCACAAAACACTAACACTAGTTA
19839617 TTTTCAGT
1 TTTTCAGT
19839625 ATTTTTAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (45 bp):
TTTTCAGTCTTATCTATAATTTTCACAAAACACTAACACTAGTTA
Found at i:19841582 original size:42 final size:42
Alignment explanation
Indices: 19841523--19841607 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
19841513 CAGTCCCTGT
19841523 GAATGTAAGAGATTGTTTTTTTACTATTTATGCCGTAAAGGA
1 GAATGTAAGAGATTGTTTTTTTACTATTTATGCCGTAAAGGA
* *
19841565 GAATGTAAGGGATTGTTTTTTTACTATTTATGTCGTAAAGGA
1 GAATGTAAGAGATTGTTTTTTTACTATTTATGCCGTAAAGGA
19841607 G
1 G
19841608 TTTGAATGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (42 bp):
GAATGTAAGAGATTGTTTTTTTACTATTTATGCCGTAAAGGA
Found at i:19843731 original size:25 final size:25
Alignment explanation
Indices: 19843701--19843750 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19843691 AAATGGATTA
19843701 AAATGTATACACATTTATATACATT
1 AAATGTATACACATTTATATACATT
19843726 AAATGTATACACATTTATATACATT
1 AAATGTATACACATTTATATACATT
19843751 TACATACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (25 bp):
AAATGTATACACATTTATATACATT
Found at i:19847910 original size:28 final size:26
Alignment explanation
Indices: 19847863--19847916 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
19847853 CATGTAAATA
*
19847863 TAAAAAATTTAAAAAATATATACTTTT
1 TAAAAAAATTAAAAAATATATA-TTTT
*
19847890 TAAAAAAATTAAAAATCTATATATTTT
1 TAAAAAAATTAAAAA-ATATATATTTT
19847917 ATTTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAAAAAATTAAAAAATATATATTTT
Found at i:19848036 original size:16 final size:17
Alignment explanation
Indices: 19848012--19848044 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19848002 TTATGAATTT
*
19848012 TTTATAATTTA-TAAAA
1 TTTAAAATTTATTAAAA
19848028 TTTAAAATTTATTAAAA
1 TTTAAAATTTATTAAAA
19848045 GTTCTCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAAAATTTATTAAAA
Found at i:19852843 original size:30 final size:30
Alignment explanation
Indices: 19852790--19852859 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
19852780 TTAAAAAATA
19852790 TAATTTTT--AAACAATTTTAATAATTTTT
1 TAATTTTTAAAAACAATTTTAATAATTTTT
* *
19852818 TAATTTTTAAAAATAATTTTTATAATTTTT
1 TAATTTTTAAAAACAATTTTAATAATTTTT
*
19852848 TGAAATTTTAAA
1 T-AATTTTTAAA
19852860 TTTTAAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.22
30 19 0.53
31 9 0.25
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (30 bp):
TAATTTTTAAAAACAATTTTAATAATTTTT
Found at i:19854636 original size:18 final size:17
Alignment explanation
Indices: 19854611--19854665 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
19854601 AAAAGTACGT
19854611 TAAA-TTATTAATTAATA
1 TAAATTTATT-ATTAATA
*
19854628 TAAATTTATT-TTATTA
1 TAAATTTATTATTAATA
*
19854644 T-ATTTTATTATTTAATA
1 TAAATTTATTA-TTAATA
19854661 TAAAT
1 TAAAT
19854666 ATTTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 7 0.23
16 6 0.20
17 10 0.33
18 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTTATTATTAATA
Found at i:19858633 original size:14 final size:14
Alignment explanation
Indices: 19858616--19858653 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
19858606 CTTTCGTACG
19858616 ATTTC-TTTCACTTT
1 ATTTCATTTCA-TTT
19858630 ATTTCATTTCATTT
1 ATTTCATTTCATTT
*
19858644 ATTTTATTTC
1 ATTTCATTTC
19858654 TACTGATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTCATTTCATTT
Found at i:19861124 original size:22 final size:22
Alignment explanation
Indices: 19861063--19861130 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
19861053 CCCAAATTGG
* *
19861063 TTGTTTTGCTA-CTATTTCGCTA
1 TTGTTTTGTTATC-ATTTCACTA
* * **
19861085 TTGTTTTATTGTTGTTTCACTA
1 TTGTTTTGTTATCATTTCACTA
19861107 TTGTTTTGTTATCATTTCACTA
1 TTGTTTTGTTATCATTTCACTA
19861129 TT
1 TT
19861131 ATATTGCTAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.15, C:0.13, G:0.12, T:0.60
Consensus pattern (22 bp):
TTGTTTTGTTATCATTTCACTA
Found at i:19861145 original size:22 final size:22
Alignment explanation
Indices: 19861099--19861145 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
19861089 TTTATTGTTG
* * *
19861099 TTTCACTATTGTTTTGTTATCA
1 TTTCACTATTATATTGCTATCA
*
19861121 TTTCACTATTATATTGCTATTA
1 TTTCACTATTATATTGCTATCA
19861143 TTT
1 TTT
19861146 TATTGTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (22 bp):
TTTCACTATTATATTGCTATCA
Found at i:19861630 original size:17 final size:18
Alignment explanation
Indices: 19861600--19861634 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
19861590 TTGTTTTCAT
19861600 TATTTTCTAATTTTCAAA
1 TATTTTCTAATTTTCAAA
*
19861618 TATTTT-TATTTTTCAAA
1 TATTTTCTAATTTTCAAA
19861635 AATTATTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTCTAATTTTCAAA
Found at i:19871284 original size:3 final size:3
Alignment explanation
Indices: 19871276--19871312 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
19871266 AGGAAAAATA
* *
19871276 AAT AAT AAT AGT AAT AAT AAT GAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19871313 TGAAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19871480 original size:3 final size:3
Alignment explanation
Indices: 19871472--19871535 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
19871462 GTAAATAGTG
19871472 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19871520 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
19871536 ATATTATAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19874119 original size:52 final size:52
Alignment explanation
Indices: 19874062--19874188 Score: 254
Period size: 52 Copynumber: 2.4 Consensus size: 52
19874052 CAAATAAAAT
19874062 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
1 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
19874114 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
1 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
19874166 AAGAATCCATTTTTATGTTCTTC
1 AAGAATCCATTTTTATGTTCTTC
19874189 ATTCGTCTAG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (52 bp):
AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
Found at i:19876882 original size:46 final size:44
Alignment explanation
Indices: 19876778--19876885 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
19876768 TGTCTTTGAC
** * * *
19876778 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
19876822 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
19876868 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
19876886 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:19884265 original size:46 final size:44
Alignment explanation
Indices: 19884161--19884268 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
19884151 TGTCTTTGAC
** * * *
19884161 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
19884205 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
19884251 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
19884269 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:19886774 original size:9 final size:9
Alignment explanation
Indices: 19886747--19886782 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
19886737 TGAGGGTCTA
19886747 GCTATACAT
1 GCTATACAT
19886756 GCCATATACAT
1 G-C-TATACAT
19886767 GCTATACAT
1 GCTATACAT
19886776 GCTATAC
1 GCTATAC
19886783 TGTTATACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 15 0.60
10 2 0.08
11 8 0.32
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (9 bp):
GCTATACAT
Found at i:19888045 original size:105 final size:105
Alignment explanation
Indices: 19887919--19888131 Score: 345
Period size: 105 Copynumber: 2.0 Consensus size: 105
19887909 AGAATGCAAG
* *
19887919 ACTGAGTAACACAGCCACTAGAATGAGGCCACGAAGAAATATGGGAAATACGAGTGGTAATCGCA
1 ACTGAGTAACACAGCCACTAGAAGGAGGCCACGAAGAAATATGGGAAATACGAGTGGTAATCACA
* *
19887984 GTACTATGAGAGATTCTATAGTAAGATCCGAGGCTAGAGC
66 GTACAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGC
* * * *
19888024 ACTGAGTAACACAGCCACTAGAGGGAGGCCACGAAGAAATGTGGGAAATGCGAGTGGTAATCACG
1 ACTGAGTAACACAGCCACTAGAAGGAGGCCACGAAGAAATATGGGAAATACGAGTGGTAATCACA
*
19888089 GTTCAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGC
66 GTACAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGC
19888129 ACT
1 ACT
19888132 AATGGGCGTC
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (105 bp):
ACTGAGTAACACAGCCACTAGAAGGAGGCCACGAAGAAATATGGGAAATACGAGTGGTAATCACA
GTACAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGC
Found at i:19889967 original size:18 final size:19
Alignment explanation
Indices: 19889944--19889980 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
19889934 TTTTATTCAT
19889944 TTATTTATGTAC-AGCAAA
1 TTATTTATGTACAAGCAAA
19889962 TTATTTATGTACAAGCAAA
1 TTATTTATGTACAAGCAAA
19889981 CATGTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (19 bp):
TTATTTATGTACAAGCAAA
Found at i:19892881 original size:44 final size:45
Alignment explanation
Indices: 19892791--19892919 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
19892781 GACAGAACGA
*
19892791 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
19892837 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
19892881 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
19892920 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:19898934 original size:44 final size:45
Alignment explanation
Indices: 19898844--19898972 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
19898834 GACAGAACGA
*
19898844 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
19898890 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
19898934 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
19898973 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:19909980 original size:16 final size:16
Alignment explanation
Indices: 19909959--19909991 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19909949 ATTATGTAAC
19909959 GAGGTTAACTATTATT
1 GAGGTTAACTATTATT
19909975 GAGGTTAACTATTATT
1 GAGGTTAACTATTATT
19909991 G
1 G
19909992 TGTCATAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (16 bp):
GAGGTTAACTATTATT
Found at i:19910141 original size:2 final size:2
Alignment explanation
Indices: 19910134--19910184 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
19910124 TTAAGCAAGT
19910134 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
19910176 AA TA TA TA T
1 TA TA TA TA T
19910185 TTAATTTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19912899 original size:2 final size:2
Alignment explanation
Indices: 19912894--19912922 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19912884 AGATACGTAC
19912894 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19912923 AATAATAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19914412 original size:18 final size:18
Alignment explanation
Indices: 19914391--19914434 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
19914381 TTGTATTGGG
* *
19914391 TTTGGGTAATTGGTTGAA
1 TTTGGGTAATGGGTTAAA
*
19914409 TTTGGGTTAGTGGGTTAAA
1 TTTGGG-TAATGGGTTAAA
19914428 TTTGGGT
1 TTTGGGT
19914435 TAGTGGGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (18 bp):
TTTGGGTAATGGGTTAAA
Found at i:19914429 original size:19 final size:19
Alignment explanation
Indices: 19914402--19914443 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
19914392 TTGGGTAATT
*
19914402 GGTTGAATTTGGGTTAGTG
1 GGTTAAATTTGGGTTAGTG
19914421 GGTTAAATTTGGGTTAGTG
1 GGTTAAATTTGGGTTAGTG
19914440 GGTT
1 GGTT
19914444 TAGTTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (19 bp):
GGTTAAATTTGGGTTAGTG
Found at i:19915473 original size:74 final size:73
Alignment explanation
Indices: 19915219--19915737 Score: 589
Period size: 75 Copynumber: 7.0 Consensus size: 73
19915209 AAAGCAGATT
*
19915219 TTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCT
1 TTGAAAATACCTCAG-CATGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-T
*
19915283 TG-AAACATAAA
62 TGAAAACAGAAA
* * * *
19915294 TTGAAAATACCTCGGCATGCCCTGAGGCTCAACTCTCCTCTCACAATATGAGTTGA-TTTTTGAA
1 TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
*
19915358 ACATAGAAA
66 A-ACAGAAA
* * * ** *
19915367 TTGCAATTACCTCAGCGTGTTTTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAC
1 TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-
19915432 AAACAGAAA
65 AAACAGAAA
* * * *
19915441 TTGAAATTACCTCAGTATGTCCTGAAGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA
*
19915506 AAGATAGAAA
65 AA-ACAGAAA
* * *
19915516 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAC
1 TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-
*
19915581 GAACAGAAA
65 AAACAGAAA
* ** *
19915590 TTGAAATTACCTCAGTGTGTCCTGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA
*
19915655 AAGACAAAAA
65 AA-ACAGAAA
* * * * ** *
19915665 TTGAAAATACCTCAACGTCTCTTGAGGCTCAAC-CTATTTCTCGCAATATGAGTTGA-ATTTTGA
1 TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTC-ACCTCTCGCAATATGAGTTGATTTTTTGA
19915728 AAACAGAAA
65 AAACAGAAA
19915737 T
1 T
19915738 AAAAACATCA
Statistics
Matches: 381, Mismatches: 52, Indels: 25
0.83 0.11 0.05
Matches are distributed among these distances:
71 3 0.01
72 12 0.03
73 92 0.24
74 130 0.34
75 143 0.38
76 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (73 bp):
TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
AACAGAAA
Found at i:19915548 original size:75 final size:74
Alignment explanation
Indices: 19915244--19915737 Score: 590
Period size: 74 Copynumber: 6.7 Consensus size: 74
19915234 CATGTGACCC
*
19915244 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTG-AA-ACATAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTGAAAGACAGAAATTGAAAATACCTC
* * *
19915307 GGCATGCCCT
65 AGCGTGTCCT
* * * * * *
19915317 GAGGCTCAACTCTCCTCTCACAATATGAGTTGA-TTTTTGAAACATAGAAATTGCAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
**
19915381 GCGTGTTTT
66 GCGTGTCCT
* *
19915390 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAA-ACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAGACAGAAATTGAAAATACCTC
**
19915454 AGTATGTCCT
65 AGCGTGTCCT
* * *
19915464 GAAGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAGAAATTGAAAATACCTC
* *
19915529 AACGTGTCTT
65 AGCGTGTCCT
* *
19915539 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ACGAACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAG-ACAGAAATTGAAAATACCTC
*
19915603 AGTGTGTCCT
65 AGCGTGTCCT
* *
19915613 GAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAGAAATTGAAAATACCTC
* * *
19915678 AACGTCTCTT
65 AGCGTGTCCT
** *
19915688 GAGGCTCAAC-CTATTTCTCGCAATATGAGTTGA-ATTTTGAAA-ACAGAAAT
1 GAGGCTCAACTC-ACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAAT
19915738 AAAAACATCA
Statistics
Matches: 361, Mismatches: 50, Indels: 21
0.84 0.12 0.05
Matches are distributed among these distances:
71 3 0.01
72 12 0.03
73 92 0.25
74 128 0.35
75 124 0.34
76 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (74 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
GCGTGTCCT
Found at i:19915762 original size:149 final size:149
Alignment explanation
Indices: 19915244--19915737 Score: 714
Period size: 149 Copynumber: 3.3 Consensus size: 149
19915234 CATGTGACCC
* *
19915244 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTG--AAACATAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTGACAAACAGAAATTGAAATTACCTC
* * * * * * *
19915307 GGCATGCCCTGAGGCTCAACTCTCCTCTCACAATATGAGTTGA--TTTTTGAAACATAGAAATTG
65 AGTATGTCCTGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTG
* * * *
19915370 CAATTACCTCAGCGTGTTTT
130 AAAATACCTCAACGTGTCTT
*
19915390 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
*
19915455 GTATGTCCTGAAGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGA
66 GTATGTCCTGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGA
19915520 AAATACCTCAACGTGTCTT
131 AAATACCTCAACGTGTCTT
*
19915539 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACGAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
* * *
19915604 GTGTGTCCTGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGA
66 GTATGTCCTGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGA
*
19915669 AAATACCTCAACGTCTCTT
131 AAATACCTCAACGTGTCTT
** *
19915688 GAGGCTCAAC-CTATTTCTCGCAATATGAGTTGA-ATTTTGA-AAACAGAAAT
1 GAGGCTCAACTC-ACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAAT
19915738 AAAAACATCA
Statistics
Matches: 317, Mismatches: 26, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
145 3 0.01
146 36 0.11
147 65 0.21
148 7 0.02
149 206 0.65
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (149 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
GTATGTCCTGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGA
AAATACCTCAACGTGTCTT
Found at i:19917652 original size:62 final size:62
Alignment explanation
Indices: 19917573--19917704 Score: 212
Period size: 62 Copynumber: 2.1 Consensus size: 62
19917563 CATTTATGAC
* * * *
19917573 ATTTTCGTGCAAAACTAATGCAGTCACTTTCCATTATCTGCCAATAATAA-CAGAGTCTCATA
1 ATTTTCCTACAAAACTAATGCAGTCACTTTCCATCATCAGCCAATAATAATC-GAGTCTCATA
19917635 ATTTTCCTACAAAACTAATGCAGTCACTTTCCATCATCAGCCAATAATAATCGAGTCTCATA
1 ATTTTCCTACAAAACTAATGCAGTCACTTTCCATCATCAGCCAATAATAATCGAGTCTCATA
19917697 ATTTTCCT
1 ATTTTCCT
19917705 GGCCATAGTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
62 64 0.98
63 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (62 bp):
ATTTTCCTACAAAACTAATGCAGTCACTTTCCATCATCAGCCAATAATAATCGAGTCTCATA
Found at i:19927895 original size:20 final size:21
Alignment explanation
Indices: 19927870--19927915 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
19927860 AGAAATATAC
* *
19927870 TATACAT-AATATTTAAAATA
1 TATACATAAATAGTCAAAATA
19927890 TATACATGAAATAGTCAAAATA
1 TATACAT-AAATAGTCAAAATA
19927912 TATA
1 TATA
19927916 TATACTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (21 bp):
TATACATAAATAGTCAAAATA
Found at i:19928899 original size:27 final size:28
Alignment explanation
Indices: 19928841--19928907 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
19928831 TAGATAGCTA
19928841 ATAATATT-AAAACATATACATAATAAT
1 ATAATATTAAAAACATATACATAATAAT
*
19928868 ATAATATTAAAAACATATATAT-AT-AT
1 ATAATATTAAAAACATATACATAATAAT
*
19928894 ATTAATATGAAAAA
1 A-TAATATTAAAAA
19928908 TGCATGCGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 3 0.08
27 21 0.58
28 12 0.33
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (28 bp):
ATAATATTAAAAACATATACATAATAAT
Found at i:19930286 original size:8 final size:8
Alignment explanation
Indices: 19930275--19930323 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
19930265 TGGTTGAATT
19930275 TGGGTTAG
1 TGGGTTAG
19930283 TGGGTTAG
1 TGGGTTAG
* *
19930291 TAGGTTAAATT
1 TGGGTT--A-G
19930302 TGGGTTAG
1 TGGGTTAG
19930310 TGGGTTAG
1 TGGGTTAG
19930318 TGGGTT
1 TGGGTT
19930324 TAGTTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 27 0.79
9 1 0.03
10 1 0.03
11 5 0.15
ACGTcount: A:0.16, C:0.00, G:0.43, T:0.41
Consensus pattern (8 bp):
TGGGTTAG
Found at i:19930301 original size:27 final size:27
Alignment explanation
Indices: 19930266--19930323 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
19930256 TTGGGTAATT
*
19930266 GGTTGAATTTGGGTTAGTGGGTTAGTA
1 GGTTAAATTTGGGTTAGTGGGTTAGTA
*
19930293 GGTTAAATTTGGGTTAGTGGGTTAGTG
1 GGTTAAATTTGGGTTAGTGGGTTAGTA
19930320 GGTT
1 GGTT
19930324 TAGTTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (27 bp):
GGTTAAATTTGGGTTAGTGGGTTAGTA
Found at i:19937837 original size:18 final size:20
Alignment explanation
Indices: 19937816--19937857 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
19937806 TATTATATAC
19937816 TATAAGATTA-T-TTTATCA
1 TATAAGATTATTATTTATCA
**
19937834 TATATTATTATTATTTATCA
1 TATAAGATTATTATTTATCA
19937854 TATA
1 TATA
19937858 TTATTTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 11 0.55
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
TATAAGATTATTATTTATCA
Found at i:19937850 original size:20 final size:21
Alignment explanation
Indices: 19937822--19937862 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
19937812 ATACTATAAG
19937822 ATTATTTTATCATATATTATT
1 ATTATTTTATCATATATTATT
19937843 ATTA-TTTATCATATATTATT
1 ATTATTTTATCATATATTATT
19937863 TTTCACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTATTTTATCATATATTATT
Found at i:19937861 original size:17 final size:17
Alignment explanation
Indices: 19937839--19937893 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 17
19937829 TATCATATAT
19937839 TATTATTATTTATCATA
1 TATTATTATTTATCATA
19937856 TATTATT-TTTCA-CA-A
1 TATTATTATTT-ATCATA
19937871 -ATTATTA-TTATCAT-
1 TATTATTATTTATCATA
*
19937885 TATTTTTAT
1 TATTATTAT
19937894 ATAATATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 13
0.69 0.02 0.29
Matches are distributed among these distances:
13 1 0.03
14 10 0.32
15 7 0.23
16 5 0.16
17 8 0.26
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTATTATTTATCATA
Found at i:19938049 original size:23 final size:23
Alignment explanation
Indices: 19938017--19938072 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
19938007 ATATATTCAA
*
19938017 ATTATATTTTATTATATAACATTT
1 ATTAT-TTTTATTATATAACACTT
* **
19938041 ATTATTTTTATTCTATATTACTT
1 ATTATTTTTATTATATAACACTT
19938064 ATTATTTTT
1 ATTATTTTT
19938073 TATATATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTATTTTTATTATATAACACTT
Found at i:19938110 original size:19 final size:19
Alignment explanation
Indices: 19938086--19938130 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
19938076 ATATGTTATG
19938086 TATATTATATATTA-TCTAT
1 TATATTATATATTATTC-AT
*
19938105 TATATTATTTATTATTCAT
1 TATATTATATATTATTCAT
19938124 TATATTA
1 TATATTA
19938131 CTTAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTATATATTATTCAT
Found at i:19938613 original size:2 final size:2
Alignment explanation
Indices: 19938606--19938642 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
19938596 CAATACATGC
19938606 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19938643 TTTGTATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19940491 original size:21 final size:20
Alignment explanation
Indices: 19940463--19940505 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
19940453 GTTTTTATAT
19940463 TATTTTTTTGAAATTTAAAA
1 TATTTTTTTGAAATTTAAAA
19940483 TATTTTTTTGAAATTTAAAA
1 TATTTTTTTGAAATTTAAAA
19940503 TAT
1 TAT
19940506 GTAAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TATTTTTTTGAAATTTAAAA
Found at i:19940522 original size:18 final size:16
Alignment explanation
Indices: 19940493--19940536 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
19940483 TATTTTTTTG
*
19940493 AAAT-TTAAAATATGT
1 AAATATTAAAATATAT
19940508 AAAATATTCAAAATATAT
1 -AAATATT-AAAATATAT
19940526 AAATATTAAAA
1 AAATATTAAAA
19940537 AAATTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 8 0.32
17 9 0.36
18 8 0.32
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
AAATATTAAAATATAT
Found at i:19940538 original size:18 final size:17
Alignment explanation
Indices: 19940499--19940548 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
19940489 TTTGAAATTT
* *
19940499 AAAATATGTAAAATATTC
1 AAAATATAT-AAATATTA
19940517 AAAATATATAAATATTA
1 AAAATATATAAATATTA
*
19940534 AAAAAATTATAAATA
1 AAAATA-TATAAATA
19940549 CATAGTTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATATATAAATATTA
Found at i:19941163 original size:19 final size:20
Alignment explanation
Indices: 19941121--19941163 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
19941111 TCTCATAAAT
* *
19941121 TTTTGGTATTTCCTCAAAAG
1 TTTTGATATTCCCTCAAAAG
19941141 TTTTGATATTCCCTCAAAA-
1 TTTTGATATTCCCTCAAAAG
19941160 TTTT
1 TTTT
19941164 CGGTACTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.49
Consensus pattern (20 bp):
TTTTGATATTCCCTCAAAAG
Found at i:19947819 original size:21 final size:20
Alignment explanation
Indices: 19947793--19947839 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
19947783 ATAAGTAATA
*
19947793 ATAATATTAGAA-ATATGCAAT
1 ATAATATTA-AAGATATAC-AT
19947814 ATAATATTAAAGATATACAT
1 ATAATATTAAAGATATACAT
19947834 ATAATA
1 ATAATA
19947840 AAATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (20 bp):
ATAATATTAAAGATATACAT
Found at i:19948019 original size:14 final size:14
Alignment explanation
Indices: 19948000--19948026 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19947990 ATACATATTA
19948000 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
19948014 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
19948027 TAATATTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:19948162 original size:3 final size:3
Alignment explanation
Indices: 19948154--19948201 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
19948144 ATGTACTATG
* ** *
19948154 ATA ATA ATA ATG ATA ATA ATA ATA AGG ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19948202 GAAAAATACA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:19948174 original size:15 final size:15
Alignment explanation
Indices: 19948154--19948193 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
19948144 ATGTACTATG
*
19948154 ATAATAATAATGATA
1 ATAATAATAAGGATA
19948169 ATAATAATAAGGATA
1 ATAATAATAAGGATA
19948184 ATAATAATAA
1 ATAATAATAA
19948194 CAATAATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAATAAGGATA
Found at i:19948199 original size:15 final size:15
Alignment explanation
Indices: 19948154--19948201 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
19948144 ATGTACTATG
*
19948154 ATAATAATAATGATA
1 ATAATAATAACGATA
*
19948169 ATAATAATAAGGATA
1 ATAATAATAACGATA
*
19948184 ATAATAATAACAATA
1 ATAATAATAACGATA
19948199 ATA
1 ATA
19948202 GAAAAATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAATAATAACGATA
Found at i:19948292 original size:36 final size:36
Alignment explanation
Indices: 19948244--19948316 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 36
19948234 AAGGTAAGGA
19948244 AAATAAAGTAGTAAATAATAAT-ATATTAAAAATAAT
1 AAATAAAGTAGTAAA-AATAATAATATTAAAAATAAT
*
19948280 AAATATAA-TAGTAAAAATAATAATGTTAAAAATAAT
1 AAATA-AAGTAGTAAAAATAATAATATTAAAAATAAT
19948316 A
1 A
19948317 CCATATGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 6 0.18
36 26 0.76
37 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (36 bp):
AAATAAAGTAGTAAAAATAATAATATTAAAAATAAT
Found at i:19948294 original size:21 final size:18
Alignment explanation
Indices: 19948256--19948302 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
19948246 ATAAAGTAGT
19948256 AAATAAT-AATATATTAA
1 AAATAATAAATATATTAA
19948273 AAATAATAAATATAATAGTAA
1 AAATAATAAATAT-AT--TAA
19948294 AAATAATAA
1 AAATAATAA
19948303 TGTTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.27
18 5 0.19
19 2 0.08
21 12 0.46
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATAATAAATATATTAA
Found at i:19950925 original size:161 final size:160
Alignment explanation
Indices: 19950526--19951000 Score: 758
Period size: 161 Copynumber: 3.0 Consensus size: 160
19950516 ATTTAATAGG
* * * * *
19950526 AATTGAAATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAATTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT
* *
19950591 GAAACATAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
64 GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATGTGAGCTG
19950656 ATTTTCTTGGAAAACATGAATTAAAAAGCAGA
129 ATTTTCTTGGAAAACATGAATTAAAAAGCAGA
* * *
19950688 AATTGAAAATAACTCAGCATGCCCTGAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* *
19950753 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATGTGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATGTGAGCTGAT
19950818 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
131 TTTCTTGGAAAACATGAA-TTAAAAAGCAGA
19950849 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
19950914 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA-GATGAGTTGA
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATG-TGAGCTGA
* *
19950978 -TTT-TTGAAAAACAGGAATTAAAA
130 TTTTCTTGGAAAACATGAATTAAAA
19951001 GGTTCAACTC
Statistics
Matches: 291, Mismatches: 20, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
158 6 0.02
159 12 0.04
160 90 0.31
161 133 0.46
162 50 0.17
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATGTGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGA
Found at i:19950964 original size:71 final size:71
Alignment explanation
Indices: 19950848--19950986 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 71
19950838 TAAAAAGCAG
* * *
19950848 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTG
19950913 AAACAT
66 AAACAT
* * *
19950919 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTG
19950984 AAA
66 AAA
19950987 AACAGGAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTG
AAACAT
Found at i:19951103 original size:127 final size:125
Alignment explanation
Indices: 19950879--19951164 Score: 430
Period size: 127 Copynumber: 2.3 Consensus size: 125
19950869 GCCCTGAGGC
* * * *
19950879 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAACAGAAATTGAAATTACCTCAACGTGTCC
* *
19950944 TGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTGA-AAAACAGGAATTAAAAGGT
66 TGAGGCTCAACTCACCTCTCGCAAGATAAGTTGA-TTTTGATAAAACAGAAATTAAAAGGT
*
19951004 TCAACTCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTCTTG--AAACAGAAATTGAAATTACCTCAACGTGT
* **
19951069 CCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTGATAAAGTAGAAATTAAAAGGT
64 CCTGAGGCTCAACTCACCTCTCGCAAGATAAGTTGATTTTGATAAAACAGAAATTAAAAGGT
* *
19951131 TCAACCCACCTCTCGCAATATGAGTCGATTCTTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTCTTG
19951165 CGTGCGCGGA
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
125 32 0.22
126 6 0.04
127 108 0.74
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (125 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAACAGAAATTGAAATTACCTCAACGTGTCC
TGAGGCTCAACTCACCTCTCGCAAGATAAGTTGATTTTGATAAAACAGAAATTAAAAGGT
Found at i:19964176 original size:31 final size:31
Alignment explanation
Indices: 19964141--19964199 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
19964131 TTTAAAGTTA
*
19964141 AATTTAACCGTCAACATATT-AAAAAGAGCCT
1 AATTTAACCATCAACAT-TTCAAAAAGAGCCT
* *
19964172 AATTTGATCATCAACATTTCAAAAAGAG
1 AATTTAACCATCAACATTTCAAAAAGAG
19964200 TCGTATTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 22 0.92
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (31 bp):
AATTTAACCATCAACATTTCAAAAAGAGCCT
Found at i:19981656 original size:12 final size:12
Alignment explanation
Indices: 19981639--19981671 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
19981629 CGGCCCGTCC
19981639 ATATTAATTTTT
1 ATATTAATTTTT
19981651 ATATT-ATTTTT
1 ATATTAATTTTT
19981662 ATA-TAATTTT
1 ATATTAATTTT
19981672 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:19981853 original size:12 final size:12
Alignment explanation
Indices: 19981833--19981861 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19981823 AAAATATCTT
19981833 TAAAA-TAATAA
1 TAAAATTAATAA
19981844 TAAAATTAATAA
1 TAAAATTAATAA
19981856 TAAAAT
1 TAAAAT
19981862 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:19981910 original size:22 final size:22
Alignment explanation
Indices: 19981885--19981927 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19981875 TATCCAAACA
19981885 ATAACA-ACAAAATAGTAGCAAC
1 ATAACAGA-AAAATAGTAGCAAC
*
19981907 ATAATAGAAAAATAGTAGCAA
1 ATAACAGAAAAATAGTAGCAA
19981928 AATAGGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (22 bp):
ATAACAGAAAAATAGTAGCAAC
Found at i:19981931 original size:11 final size:11
Alignment explanation
Indices: 19981892--19981932 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
19981882 ACAATAACAA
19981892 CAAAATAGTAG
1 CAAAATAGTAG
* *
19981903 CAACATAATAG
1 CAAAATAGTAG
*
19981914 AAAAATAGTAG
1 CAAAATAGTAG
19981925 CAAAATAG
1 CAAAATAG
19981933 GGAAAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.59, C:0.10, G:0.15, T:0.17
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:19982263 original size:20 final size:20
Alignment explanation
Indices: 19982238--19982276 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19982228 TTTGTGTTTT
*
19982238 TGTGTTTTCTTGTCAATCAG
1 TGTGTTTTATTGTCAATCAG
19982258 TGTGTTTTATTGTCAATCA
1 TGTGTTTTATTGTCAATCA
19982277 TTATGTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (20 bp):
TGTGTTTTATTGTCAATCAG
Found at i:19982283 original size:20 final size:20
Alignment explanation
Indices: 19982240--19982283 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
19982230 TGTGTTTTTG
* *
19982240 TGTTTTCTTGTCAATCAGTG
1 TGTTTTATTGTCAATCAGTA
*
19982260 TGTTTTATTGTCAATCATTA
1 TGTTTTATTGTCAATCAGTA
19982280 TGTT
1 TGTT
19982284 CTAATCTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (20 bp):
TGTTTTATTGTCAATCAGTA
Found at i:19983763 original size:22 final size:22
Alignment explanation
Indices: 19983735--19983806 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
19983725 AGCTAAAACA
19983735 TAATTATAAATTATTTGAGCTC
1 TAATTATAAATTATTTGAGCTC
* * * *
19983757 TAATTATATAAGCTA---AAAC-A
1 TAATTATA-AA-TTATTTGAGCTC
19983777 TAATTATAAATTATTTGAGCTC
1 TAATTATAAATTATTTGAGCTC
19983799 TAATTATA
1 TAATTATA
19983807 TATGTTAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 8 0.22
21 4 0.11
22 16 0.44
23 2 0.06
24 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (22 bp):
TAATTATAAATTATTTGAGCTC
Found at i:19983771 original size:42 final size:42
Alignment explanation
Indices: 19983724--19983808 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
19983714 AATAGGCGAA
19983724 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
1 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
19983766 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
1 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
19983808 A
1 A
19983809 TGTTAAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (42 bp):
AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
Found at i:19988047 original size:14 final size:14
Alignment explanation
Indices: 19988030--19988057 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19988020 TCCTCCCCTC
19988030 TCCCCTCTCCTTTT
1 TCCCCTCTCCTTTT
19988044 TCCCCTCTCCTTTT
1 TCCCCTCTCCTTTT
19988058 CTCTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (14 bp):
TCCCCTCTCCTTTT
Found at i:19988639 original size:13 final size:14
Alignment explanation
Indices: 19988615--19988645 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
19988605 ATTATTATTA
19988615 ATATTAATATATGT
1 ATATTAATATATGT
19988629 ATATT-ATATATGT
1 ATATTAATATATGT
19988642 ATAT
1 ATAT
19988646 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:19988868 original size:12 final size:12
Alignment explanation
Indices: 19988847--19988932 Score: 51
Period size: 12 Copynumber: 7.2 Consensus size: 12
19988837 TCCTTAATAT
19988847 TATATT-TTATA
1 TATATTATTATA
19988858 TATATTATTATA
1 TATATTATTATA
19988870 TAT-TT-TT-TA
1 TATATTATTATA
19988879 -ATATTATTAGT-
1 TATATTATTA-TA
* *
19988890 TATATTTTTTTTCA
1 TATA-TTATTAT-A
19988904 TACTATTA-TATA
1 TA-TATTATTATA
19988916 TATATATATGTATA
1 TATAT-TAT-TATA
19988930 TAT
1 TAT
19988933 CTAATATTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 23
0.68 0.05 0.27
Matches are distributed among these distances:
8 2 0.03
9 4 0.07
10 4 0.07
11 11 0.19
12 18 0.31
13 6 0.10
14 11 0.19
15 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (12 bp):
TATATTATTATA
Found at i:19988882 original size:24 final size:22
Alignment explanation
Indices: 19988847--19988920 Score: 78
Period size: 24 Copynumber: 3.2 Consensus size: 22
19988837 TCCTTAATAT
*
19988847 TATATTTTATATA-TATTATTA
1 TATATTTTTTATATTATTATTA
19988868 TATATTTTTTAATATTATTAGTTA
1 TATATTTTTT-ATATTATTA-TTA
* *
19988892 TATTTTTTTTCATACTATTATATA
1 TATATTTTTT-ATATTATTAT-TA
19988916 TATAT
1 TATAT
19988921 ATATGTATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 9 0.20
22 3 0.07
23 6 0.14
24 26 0.59
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (22 bp):
TATATTTTTTATATTATTATTA
Found at i:19988884 original size:20 final size:22
Alignment explanation
Indices: 19988847--19988916 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
19988837 TCCTTAATAT
*
19988847 TATATTTTATATATATTATTA-
1 TATATTTTTTATATATTATTAG
19988868 TATATTTTTTA-ATATTATTAG
1 TATATTTTTTATATATTATTAG
* *
19988889 TTATATTTTTTTTCATACTATTA-
1 -TATATTTTTTAT-ATATTATTAG
19988912 TATAT
1 TATAT
19988917 ATATATATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 9 0.21
21 10 0.24
22 15 0.36
24 8 0.19
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (22 bp):
TATATTTTTTATATATTATTAG
Found at i:19988949 original size:21 final size:21
Alignment explanation
Indices: 19988915--19988974 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
19988905 ACTATTATAT
19988915 ATATATATATGTATATATCTA
1 ATATATATATGTATATATCTA
*
19988936 ATAT-TATATGGTATATTTCTA
1 ATATATATAT-GTATATATCTA
*
19988957 ATACTAT-TATTTATATAT
1 ATA-TATATATGTATATAT
19988975 ATTTATATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.15
21 23 0.70
22 4 0.12
23 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
ATATATATATGTATATATCTA
Found at i:20004266 original size:46 final size:44
Alignment explanation
Indices: 20004162--20004269 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
20004152 TGTCTTTGAC
** * * *
20004162 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
20004206 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
20004252 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
20004270 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:20011650 original size:46 final size:44
Alignment explanation
Indices: 20011546--20011653 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
20011536 TGTCTTTGAC
** * * *
20011546 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
20011590 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
20011636 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
20011654 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:20019038 original size:46 final size:44
Alignment explanation
Indices: 20018934--20019041 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
20018924 TGTCTTTGAC
** * * *
20018934 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
20018978 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
20019024 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
20019042 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:20024755 original size:10 final size:11
Alignment explanation
Indices: 20024732--20024770 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
20024722 CTAATTTAAC
*
20024732 ATAAAATCAAA
1 ATAAAATAAAA
20024743 ATAAAAT-AAA
1 ATAAAATAAAA
20024753 AT-AAATAAAA
1 ATAAAATAAAA
20024763 ATAAAATA
1 ATAAAATA
20024771 TGATCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.15
10 10 0.38
11 12 0.46
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:20024760 original size:4 final size:5
Alignment explanation
Indices: 20024732--20024770 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
20024722 CTAATTTAAC
20024732 ATAAA ATCAAA ATAAA ATAAA AT-AA ATAAAA ATAAA ATA
1 ATAAA AT-AAA ATAAA ATAAA ATAAA AT-AAA ATAAA ATA
20024771 TGATCTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.13
5 18 0.58
6 9 0.29
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:20029099 original size:21 final size:20
Alignment explanation
Indices: 20029075--20029113 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
20029065 GAGTATTTTT
20029075 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
20029096 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
20029114 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:20032374 original size:21 final size:21
Alignment explanation
Indices: 20032320--20032375 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
20032310 GTGAAGGTCA
*
20032320 CACACGCCCGTATGGAGAGGG
1 CACACGCCCGTGTGGAGAGGG
*
20032341 CACACGCCTGTGTGGAGAGGG
1 CACACGCCCGTGTGGAGAGGG
20032362 CACACGCCCGTGTG
1 CACACGCCCGTGTG
20032376 AACAGCCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (21 bp):
CACACGCCCGTGTGGAGAGGG
Found at i:20041166 original size:21 final size:20
Alignment explanation
Indices: 20041142--20041180 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20041132 CGGTAAAACT
20041142 TAAAAATTAACAAAAAAATCA
1 TAAAAATTAA-AAAAAAATCA
* *
20041163 TAAAATTTTAAAAAAAAT
1 TAAAAATTAAAAAAAAAT
20041181 ATATTGCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAAATTAAAAAAAAATCA
Found at i:20041616 original size:20 final size:20
Alignment explanation
Indices: 20041591--20041634 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
20041581 CCTCAACCTT
*
20041591 AAAAAAAC-ACCAAATCAAGA
1 AAAAAAACGA-CAAACCAAGA
20041611 AAAAAAACGACAAACCAAGA
1 AAAAAAACGACAAACCAAGA
20041631 AAAA
1 AAAA
20041635 TAAAGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.18, G:0.07, T:0.02
Consensus pattern (20 bp):
AAAAAAACGACAAACCAAGA
Found at i:20041699 original size:11 final size:11
Alignment explanation
Indices: 20041683--20041731 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
20041673 CTTTTTGATA
20041683 TATAATTTTTT
1 TATAATTTTTT
20041694 TATAATTTTTT
1 TATAATTTTTT
**
20041705 T-T--TTGGATT
1 TATAATT-TTTT
20041714 TATAATTTTTT
1 TATAATTTTTT
20041725 TATAATT
1 TATAATT
20041732 CAGAGAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
8 2 0.07
9 3 0.10
10 2 0.07
11 21 0.70
12 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (11 bp):
TATAATTTTTT
Found at i:20041719 original size:31 final size:30
Alignment explanation
Indices: 20041674--20041731 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
20041664 TCGAGAAAGC
20041674 TTTTTGATATATAATTTTTTTATAATTTTT
1 TTTTTGATATATAATTTTTTTATAATTTTT
*
20041704 TTTTTGGATTTATAATTTTTTTATAATT
1 TTTTT-GATATATAATTTTTTTATAATT
20041732 CAGAGAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (30 bp):
TTTTTGATATATAATTTTTTTATAATTTTT
Found at i:20041797 original size:25 final size:23
Alignment explanation
Indices: 20041754--20041808 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
20041744 ATATATCATG
* **
20041754 TTTATTTTTTGAATTTAATTTAATT
1 TTTATTTTTTAAAAATAATTT-A-T
20041779 TTTATTTTTTAAAAATAATTTAT
1 TTTATTTTTTAAAAATAATTTAT
20041802 TTTATTT
1 TTTATTT
20041809 ATAAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 8 0.30
24 1 0.04
25 18 0.67
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTATTTTTTAAAAATAATTTAT
Found at i:20045843 original size:23 final size:22
Alignment explanation
Indices: 20045816--20045859 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
20045806 CAAGAAGTAA
20045816 TTTTAAAAATATTAAAATTATTT
1 TTTTAAAAATA-TAAAATTATTT
20045839 TTTTAAAAATATAAAATTATT
1 TTTTAAAAATATAAAATTATT
20045860 AAGTGCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTAAAAATATAAAATTATTT
Done.