Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 32 of 125
Found at i:9102564 original size:29 final size:30
Alignment explanation
Indices: 9102502--9102566 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
9102492 AATTTATTAG
* * * *
9102502 AATTTTTTATATTGTTTATAAGTTTTTATG
1 AATTTTTTATAATGTTTATAAGTATATATC
9102532 AATTTTTTATAAT-TTTATAAGTATATATC
1 AATTTTTTATAATGTTTATAAGTATATATC
9102561 AATTTT
1 AATTTT
9102567 AATATTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (30 bp):
AATTTTTTATAATGTTTATAAGTATATATC
Found at i:9102843 original size:9 final size:9
Alignment explanation
Indices: 9102829--9102914 Score: 50
Period size: 9 Copynumber: 9.3 Consensus size: 9
9102819 TCATTGGAAT
9102829 TTTTATAAA
1 TTTTATAAA
9102838 TTTTAT-AA
1 TTTTATAAA
*
9102846 TATTTATAAGT
1 T-TTTATAA-A
* *
9102857 TTTTATGAT
1 TTTTATAAA
* *
9102866 TTTTTTAAT
1 TTTTATAAA
*
9102875 TTTTATAAG
1 TTTTATAAA
*
9102884 TTTATATAGA
1 TTT-TATAAA
*
9102894 TTTTA-ATA
1 TTTTATAAA
9102902 TTTTAATAAA
1 TTTT-ATAAA
9102912 TTT
1 TTT
9102915 AATGATTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
8 9 0.15
9 32 0.52
10 19 0.31
11 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTATAAA
Found at i:9102859 original size:28 final size:28
Alignment explanation
Indices: 9102828--9102898 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
9102818 TTCATTGGAA
9102828 TTTTTATAAATTTTATAATATTTATAAG
1 TTTTTATAAATTTTATAATATTTATAAG
* * * *
9102856 TTTTTATGATTTTTTTAATTTTTATAAG
1 TTTTTATAAATTTTATAATATTTATAAG
* *
9102884 TTTATATAGATTTTA
1 TTTTTATAAATTTTA
9102899 ATATTTTAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (28 bp):
TTTTTATAAATTTTATAATATTTATAAG
Found at i:9102862 original size:19 final size:18
Alignment explanation
Indices: 9102830--9102882 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
9102820 CATTGGAATT
*
9102830 TTTATAAATTTTATAATA
1 TTTATAATTTTTATAATA
* *
9102848 TTTATAAGTTTTTATGATT
1 TTTATAA-TTTTTATAATA
*
9102867 TTTTTAATTTTTATAA
1 TTTATAATTTTTATAA
9102883 GTTTATATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTATAATTTTTATAATA
Found at i:9102868 original size:37 final size:37
Alignment explanation
Indices: 9102827--9102914 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 37
9102817 ATTCATTGGA
*
9102827 ATTTTTATAAATTTTATAATATTTATA-AG-TTTTTAT
1 ATTTTTATAAATTTTATAA-ATTTATATAGATTTTAAT
* * *
9102863 GATTTTTTTAATTTTTATAAGTTTATATAGATTTTAAT
1 -ATTTTTATAAATTTTATAAATTTATATAGATTTTAAT
*
9102901 ATTTTAATAAATTT
1 ATTTTTATAAATTT
9102915 AATGATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
36 6 0.14
37 30 0.71
38 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (37 bp):
ATTTTTATAAATTTTATAAATTTATATAGATTTTAAT
Found at i:9102904 original size:28 final size:28
Alignment explanation
Indices: 9102837--9102923 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 28
9102827 ATTTTTATAA
* *
9102837 ATTTT-ATAATATTTATAAGTTTTTATG
1 ATTTTAATAATTTTTATAAGTTTATATG
**
9102864 ATTTTTTTAATTTTTATAAGTTTATATAG
1 ATTTTAATAATTTTTATAAGTTTATAT-G
* *
9102893 ATTTTAAT-ATTTTAATAAATTTA-ATG
1 ATTTTAATAATTTTTATAAGTTTATATG
9102919 ATTTT
1 ATTTT
9102924 TTATGAGAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.12
27 7 0.14
28 31 0.61
29 7 0.14
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (28 bp):
ATTTTAATAATTTTTATAAGTTTATATG
Found at i:9107032 original size:15 final size:14
Alignment explanation
Indices: 9107017--9107086 Score: 58
Period size: 15 Copynumber: 5.1 Consensus size: 14
9107007 GATGTTTTGC
9107017 TCTGTTTTGTTATG
1 TCTGTTTTGTTATG
*
9107031 CTCTGTTTTGGT-T-
1 -TCTGTTTTGTTATG
9107044 TC--TTTTGTTATG
1 TCTGTTTTGTTATG
* *
9107056 TTCGGTTTTGTTTTG
1 -TCTGTTTTGTTATG
9107071 TCTAGTTTTGTTATG
1 TCT-GTTTTGTTATG
9107086 T
1 T
9107087 TGTACTTCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
10 6 0.14
11 1 0.02
12 2 0.05
13 2 0.05
14 3 0.07
15 30 0.68
ACGTcount: A:0.06, C:0.09, G:0.21, T:0.64
Consensus pattern (14 bp):
TCTGTTTTGTTATG
Found at i:9107037 original size:25 final size:25
Alignment explanation
Indices: 9107009--9107065 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
9106999 TTTTCTATGA
*
9107009 TGTTTTGCTCTGTTTTGTTATGCTC
1 TGTTTTGCTCTCTTTTGTTATGCTC
* * *
9107034 TGTTTTGGTTTCTTTTGTTATGTTC
1 TGTTTTGCTCTCTTTTGTTATGCTC
*
9107059 GGTTTTG
1 TGTTTTG
9107066 TTTTGTCTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.04, C:0.11, G:0.23, T:0.63
Consensus pattern (25 bp):
TGTTTTGCTCTCTTTTGTTATGCTC
Found at i:9109323 original size:18 final size:18
Alignment explanation
Indices: 9109300--9109335 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9109290 GTCAATGGAA
*
9109300 ACATTCCCTGTAGGACGT
1 ACATTCCCTGTAAGACGT
9109318 ACATTCCCTGTAAGACGT
1 ACATTCCCTGTAAGACGT
9109336 GTTTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (18 bp):
ACATTCCCTGTAAGACGT
Found at i:9109529 original size:19 final size:18
Alignment explanation
Indices: 9109505--9109540 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9109495 TAATAAATTA
*
9109505 TTTAATATTACAATTTTAT
1 TTTAATAATA-AATTTTAT
9109524 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
9109541 ACAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:9109538 original size:13 final size:14
Alignment explanation
Indices: 9109522--9109576 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
9109512 TTACAATTTT
9109522 ATTTT-AATAATAA
1 ATTTTAAATAATAA
9109535 ATTTTAACAATAAT-A
1 ATTTT-A-AATAATAA
**
9109550 ATTTTAAATTTTAA
1 ATTTTAAATAATAA
9109564 ATTTTAAATAATA
1 ATTTTAAATAATA
9109577 TTCTTATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 9 0.26
14 13 0.38
15 6 0.18
16 6 0.18
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:9109554 original size:15 final size:16
Alignment explanation
Indices: 9109527--9109556 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9109517 ATTTTATTTT
9109527 AATAATAAATTTTAAC
1 AATAATAAATTTTAAC
9109543 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
9109557 ATTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAC
Found at i:9109597 original size:24 final size:23
Alignment explanation
Indices: 9109560--9109623 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 23
9109550 ATTTTAAATT
9109560 TTAA-ATTTTAAATAATATTCT-TA
1 TTAATATTTT-AATAATATT-TATA
9109583 TT-ATATTATTGAATAATATTTATA
1 TTAATATT-TT-AATAATATTTATA
9109607 TTAATATTTTAATAATA
1 TTAATATTTTAATAATA
9109624 AATATTACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 1 0.03
23 13 0.36
24 17 0.47
25 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATATTTTAATAATATTTATA
Found at i:9109627 original size:15 final size:15
Alignment explanation
Indices: 9109609--9109662 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9109599 TATTTATATT
9109609 AATATTTTAATAATA
1 AATATTTTAATAATA
** *
9109624 AATATTACAATTTATA
1 AATATTTTAA-TAATA
*
9109640 AGTA-TTTAATAATA
1 AATATTTTAATAATA
9109654 AATATTTTA
1 AATATTTTA
9109663 TAGTATAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
14 7 0.24
15 15 0.52
16 7 0.24
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:9109639 original size:33 final size:30
Alignment explanation
Indices: 9109600--9109659 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
9109590 ATTGAATAAT
9109600 ATTTATATTAATATTTTAATAATAAATATTACA
1 ATTTATA--AATA-TTTAATAATAAATATTACA
*
9109633 ATTTATAAGTATTTAATAATAAATATT
1 ATTTATAAATATTTAATAATAAATATT
9109660 TTATAGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 16 0.62
31 3 0.12
33 7 0.27
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (30 bp):
ATTTATAAATATTTAATAATAAATATTACA
Found at i:9109684 original size:23 final size:23
Alignment explanation
Indices: 9109604--9109706 Score: 90
Period size: 23 Copynumber: 4.5 Consensus size: 23
9109594 AATAATATTT
*
9109604 ATATTAATATTTTAA-TA-ATAA
1 ATATAAATATTTTAAGTATATAA
* *
9109625 ATATTACAAT-TTATAAGTAT-TTA
1 ATA-TA-AATATTTTAAGTATATAA
9109648 ATAATAAATATTTTATAGTATA-AA
1 AT-ATAAATATTTTA-AGTATATAA
* *
9109672 ATATGAATATTTTAATTATATAA
1 ATATAAATATTTTAAGTATATAA
9109695 ATATAAATATTT
1 ATATAAATATTT
9109707 GTTGAAATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
21 3 0.05
22 14 0.22
23 39 0.60
24 9 0.14
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (23 bp):
ATATAAATATTTTAAGTATATAA
Found at i:9117002 original size:158 final size:158
Alignment explanation
Indices: 9116714--9117015 Score: 381
Period size: 158 Copynumber: 1.9 Consensus size: 158
9116704 ACCATATATG
* * * *
9116714 CTCACACAAGCTGTGGGTCGAGATGTGGGGCTACACAATGCTACTTACACGAGCTGTAGAGAATT
1 CTCACACAAGCTGTGGGTCGAGATGTGAGGCTACACAATGCTACTCACAAGAGCTGTAGAGAATC
* * ** *
9116779 CGCAATAAATGTCGAACCTCAGCCATCGGTAAGACATCTAGGACCATCACTCATATAACCTGTAA
66 CGCAACAAATGTCGAACCTCAACCATCGACAAGACATCTAGGACCAGCACTCATATAACCTGTAA
9116844 TGCTCACACGAGCTATGAAATGGGCCTA
131 TGCTCACACGAGCTATGAAATGGGCCTA
* * * *** * *
9116872 CTCACACGAGCTGTGGGTTGAGATGTTAGGCTACGTGATGCTTCTCACAAGAGCTGTGGAGAATC
1 CTCACACAAGCTGTGGGTCGAGATGTGAGGCTACACAATGCTACTCACAAGAGCTGTAGAGAATC
* * * * *
9116937 CGCAACCAATG-CAGGACCTCAACCATCGACAGGACATCTAGGATCAGCACTCATATAACTTGTA
66 CGCAACAAATGTC-GAACCTCAACCATCGACAAGACATCTAGGACCAGCACTCATATAACCTGTA
*
9117001 ATGCTCACATGAGCT
130 ATGCTCACACGAGCT
9117016 GTAACTGTAA
Statistics
Matches: 120, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
157 1 0.01
158 119 0.99
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (158 bp):
CTCACACAAGCTGTGGGTCGAGATGTGAGGCTACACAATGCTACTCACAAGAGCTGTAGAGAATC
CGCAACAAATGTCGAACCTCAACCATCGACAAGACATCTAGGACCAGCACTCATATAACCTGTAA
TGCTCACACGAGCTATGAAATGGGCCTA
Found at i:9120442 original size:21 final size:21
Alignment explanation
Indices: 9120418--9120472 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
9120408 TGAATAAATT
9120418 CTACCGATACAACCCTACGTA
1 CTACCGATACAACCCTACGTA
*
9120439 CTACCGATACAACCCTGCGTA
1 CTACCGATACAACCCTACGTA
9120460 CTACCGATACAAC
1 CTACCGATACAAC
9120473 ATAAGCAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.38, G:0.11, T:0.18
Consensus pattern (21 bp):
CTACCGATACAACCCTACGTA
Found at i:9121318 original size:41 final size:41
Alignment explanation
Indices: 9121243--9121721 Score: 502
Period size: 41 Copynumber: 11.7 Consensus size: 41
9121233 AATGGTAAAG
* *
9121243 CATTAGCGGCGCTTAATC-CAAGCGCCGCTAAAGGTCGGGT
1 CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGT
* * * * *
9121283 CATTAGTGGCGCTTAATCACAAGCGCCGCTAAAGGTCAGGT
1 CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGT
*** * **
9121324 CATTAGCGGCGCTTGTGGGTGAAGCGCCGCTAAAGGTATGGT
1 CATTAGCGGCGCTT-TACCTCAAGCGCCGCTAAAGGTCGGGT
* * *
9121366 AATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
1 CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGT
* * * *
9121407 AATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTAGGAT
1 CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGT
* ** *
9121448 CATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTAAGAT
1 CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGT
* ** *
9121489 CATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTAAGAT
1 CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGT
9121530 CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGT
1 CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGT
* *
9121571 CATTAGCGGCGCTTT-CCTTTAAGCGCCACTAAAGGTCGGGT
1 CATTAGCGGCGCTTTACC-TCAAGCGCCGCTAAAGGTCGGGT
* ** * *
9121612 CATTAGCAGCGCTTTATATATAAGCGCCGCTAAAGGTCGAGT
1 CATTAGCGGCGCTTTACCT-CAAGCGCCGCTAAAGGTCGGGT
* * * *
9121654 CATTAGCGGCGCTTT-TCTAGTAAGCGTCGCTAAAGGT-GTG-
1 CATTAGCGGCGCTTTACCT--CAAGCGCCGCTAAAGGTCGGGT
*
9121694 CATTAGCGGCGCTTTCCCAT-AAGCGCCG
1 CATTAGCGGCGCTTTACC-TCAAGCGCCG
9121722 TTAATTTATT
Statistics
Matches: 389, Mismatches: 42, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.02
40 34 0.09
41 265 0.68
42 83 0.21
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (41 bp):
CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGT
Found at i:9123785 original size:18 final size:18
Alignment explanation
Indices: 9123762--9123801 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9123752 CATTTATCAA
*
9123762 ATATATGTATACAAATAT
1 ATATATATATACAAATAT
* *
9123780 ATATATATATATAAATGT
1 ATATATATATACAAATAT
9123798 ATAT
1 ATAT
9123802 TTCCTTGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
ATATATATATACAAATAT
Found at i:9125602 original size:15 final size:15
Alignment explanation
Indices: 9125582--9125612 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9125572 CAATACACAT
9125582 ACCTAACCAGCCTGA
1 ACCTAACCAGCCTGA
9125597 ACCTAACCAGCCTGA
1 ACCTAACCAGCCTGA
9125612 A
1 A
9125613 AGAAAAAGTA
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:0.35, C:0.39, G:0.13, T:0.13
Consensus pattern (15 bp):
ACCTAACCAGCCTGA
Found at i:9127183 original size:10 final size:9
Alignment explanation
Indices: 9127140--9127313 Score: 51
Period size: 8 Copynumber: 18.9 Consensus size: 9
9127130 TTTAATAGGT
9127140 TTAATTAT-
1 TTAATTATA
9127148 TTAATTATA
1 TTAATTATA
*
9127157 TTAAACTA-A
1 TT-AATTATA
*
9127166 ATAATTATA
1 TTAATTATA
9127175 TTAAATTAT-
1 TT-AATTATA
*
9127184 TTAATTATGT
1 TTAATTAT-A
9127194 TTAATTATGTA
1 TTAATTA--TA
9127205 TTTAATTATA
1 -TTAATTATA
* * *
9127215 -AACAGTACCAA
1 TTA-ATTA--TA
9127226 TTAATTA-A
1 TTAATTATA
* *
9127234 ATATTTA-A
1 TTAATTATA
* *
9127242 TTAAATAGA
1 TTAATTATA
9127251 TTTAATTAT-
1 -TTAATTATA
9127260 TTAATTATA
1 TTAATTATA
*
9127269 TTAAACTA-A
1 TT-AATTATA
*
9127278 ATAATTATA
1 TTAATTATA
9127287 TTAAATTAT-
1 TT-AATTATA
*
9127296 TTAATTATGT
1 TTAATTAT-A
9127306 TTAATTAT
1 TTAATTAT
9127314 GTATTAAATT
Statistics
Matches: 124, Mismatches: 21, Indels: 40
0.67 0.11 0.22
Matches are distributed among these distances:
8 48 0.39
9 20 0.16
10 43 0.35
11 4 0.03
12 9 0.07
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (9 bp):
TTAATTATA
Found at i:9127255 original size:14 final size:12
Alignment explanation
Indices: 9127226--9127302 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 12
9127216 ACAGTACCAA
9127226 TTAATTAAATAT
1 TTAATTAAATAT
9127238 TTAATTAAATA-
1 TTAATTAAATAT
* * *
9127249 -GATTTAATTAT
1 TTAATTAAATAT
9127260 TTAATT--ATAT
1 TTAATTAAATAT
* * *
9127270 TAAACTAAATAA
1 TTAATTAAATAT
9127282 TTATATTAAATTAT
1 TTA-ATTAAA-TAT
9127296 TTAATTA
1 TTAATTA
9127303 TGTTTAATTA
Statistics
Matches: 47, Mismatches: 12, Indels: 11
0.67 0.17 0.16
Matches are distributed among these distances:
10 14 0.30
12 19 0.40
13 9 0.19
14 5 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
TTAATTAAATAT
Found at i:9127255 original size:112 final size:111
Alignment explanation
Indices: 9127083--9127680 Score: 953
Period size: 112 Copynumber: 5.3 Consensus size: 111
9127073 AATAATTAAA
* * * * *
9127083 TAATTATATATTTAATTATAAACAGTACCAATTAATTAAATATTTAATTTAATAGGTTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAA-TTAAAAGATTTAATTAT
*
9127148 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTT
65 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* *
9127195 TAATTATGTATTTAATTATAAACAGTACCAATTAATTAAATATTTAATTAAATAGATTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTAAA-AGATTTAATTAT
*
9127260 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTT
65 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* *
9127307 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAATATTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAA-TTAAAAGATTTAATTAT
* * *
9127372 TTAATTATATTAAAGTAAATGATTATATTAAATCAATTAATTATGTT
65 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
*
9127419 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAA-TTAAAAGATTTAATTAT
* *
9127484 TTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATGTT
65 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* *
9127531 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTAAAAGATTTAAATATT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTAAAAGATTTAATTATT
9127596 TAATTTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
66 TAA-TTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* * *
9127643 TAATTATGTATTTAATTGTAAACAATATCAATTAATTA
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTA
9127681 TTTAATTATA
Statistics
Matches: 463, Mismatches: 20, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
111 24 0.05
112 434 0.94
113 5 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (111 bp):
TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTAAAAGATTTAATTATT
TAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
Found at i:9127699 original size:22 final size:22
Alignment explanation
Indices: 9127672--9127800 Score: 68
Period size: 22 Copynumber: 6.3 Consensus size: 22
9127662 AAACAATATC
9127672 AATTAATTATTTAATTATATTT
1 AATTAATTATTTAATTATATTT
*
9127694 AATTAAATATTTAATT-TA---
1 AATTAATTATTTAATTATATTT
* * * *
9127712 AAAT-ATT-TTCCTAAATAAATAT
1 AATTAATTATT--TAATTATATTT
9127734 -ATATAATTATTT-A--AT-TTT
1 AAT-TAATTATTTAATTATATTT
* *
9127752 AATTAATTATTTAATTATACTA
1 AATTAATTATTTAATTATATTT
*
9127774 AATTAAATATTTAA-T-TATTT
1 AATTAATTATTTAATTATATTT
9127794 AATTAAT
1 AATTAAT
9127801 AAAAACAACC
Statistics
Matches: 79, Mismatches: 14, Indels: 30
0.64 0.11 0.24
Matches are distributed among these distances:
16 2 0.03
17 2 0.03
18 18 0.23
19 5 0.06
20 9 0.11
21 7 0.09
22 31 0.39
23 3 0.04
24 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTAATTATTTAATTATATTT
Found at i:9127715 original size:14 final size:12
Alignment explanation
Indices: 9127562--9127790 Score: 84
Period size: 12 Copynumber: 18.6 Consensus size: 12
9127552 ACAGTATCAA
9127562 TTAATTAAATAT
1 TTAATTAAATAT
9127574 TTAATTAAA-A-
1 TTAATTAAATAT
* *
9127584 -GATTTAAATAT
1 TTAATTAAATAT
*
9127595 TTAATT-TATAT
1 TTAATTAAATAT
* * *
9127606 TAAAGTAAATAA
1 TTAATTAAATAT
9127618 TTATATTAAATTAT
1 TTA-ATTAAA-TAT
*
9127632 TTAATT--ATGT
1 TTAATTAAATAT
**
9127642 TTAATTATGTAT
1 TTAATTAAATAT
*
9127654 TTAATTGTAAACAAT
1 TTAA-T-TAAA-TAT
* *
9127669 ATCAATTAATTAT
1 -TTAATTAAATAT
9127682 TTAATT--ATAT
1 TTAATTAAATAT
9127692 TTAATTAAATAT
1 TTAATTAAATAT
9127704 TTAATTTAAAATATTT
1 TTAA-TT-AAATA--T
*
9127720 TCCTAAATAAATAT
1 T--TAATTAAATAT
9127734 ATATAATTATTTAAT-T
1 -T-TAATTA---AATAT
*
9127750 TTAATTAATTAT
1 TTAATTAAATAT
*
9127762 TTAATT--ATAC
1 TTAATTAAATAT
*
9127772 TAAATTAAATAT
1 TTAATTAAATAT
9127784 TTAATTA
1 TTAATTA
9127791 TTTAATTAAT
Statistics
Matches: 158, Mismatches: 32, Indels: 54
0.65 0.13 0.22
Matches are distributed among these distances:
9 6 0.04
10 25 0.16
11 12 0.08
12 52 0.33
13 13 0.08
14 27 0.17
15 5 0.03
16 11 0.07
17 4 0.03
18 3 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (12 bp):
TTAATTAAATAT
Found at i:9127742 original size:112 final size:110
Alignment explanation
Indices: 9127083--9127749 Score: 700
Period size: 112 Copynumber: 6.0 Consensus size: 110
9127073 AATAATTAAA
* * * * * * ** *
9127083 TAATTATATATTTAATTATAAACAGTACCAATTAATTAAATATTTAATTTAATAGGTTTAATTAT
1 TAATTATGTATTAAATTGTAAACAATATCAATTAATT--ATATTTAA-TTAAAAGAATTAAATAT
*
9127148 TTAA-TTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTT
63 TTAATTTATATTAAACTAAATAAATATATTAAATTATTTAATTATGTT
* * * * * *
9127195 TAATTATGTATTTAATTATAAACAGTACCAATTAATTAAATATTTAATTAAATAGATTTAATTAT
1 TAATTATGTATTAAATTGTAAACAATATCAATTAATT--ATATTTAATTAAA-AGAATTAAATAT
*
9127260 TTAA-TTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTT
63 TTAATTTATATTAAACTAAATAAATATATTAAATTATTTAATTATGTT
* * * * * *
9127307 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAATATTTAATTAT
1 TAATTATGTATTAAATTGTAAACAATATCAATTAATT--ATATTTAA-TTAAAAGAATTAAATAT
* * * * *
9127372 TTAA-TTATATTAAAGTAAATGATTATATTAAATCAATTAATTATGTT
63 TTAATTTATATTAAACTAAATAAATATATTAAATTATTTAATTATGTT
* * *
9127419 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
1 TAATTATGTATTAAATTGTAAACAATATCAATTAATT--ATATTTAA-TTAAAAGAATTAAATAT
* * * *
9127484 TTAA-TTATATTAAAGTAAATAATTATATTAAATCAATTAATTATGTT
63 TTAATTTATATTAAACTAAATAAATATATTAAATTATTTAATTATGTT
* *
9127531 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTAAAAGATTTAAATATT
1 TAATTATGTATTAAATTGTAAACAATATCAATTAATT--ATATTTAATTAAAAGAATTAAATATT
* *
9127596 TAATTTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
64 TAATTTATATTAAACTAAATAAATATATTAAATTATTTAATTATGTT
* ***
9127643 TAATTATGTATTTAATTGTAAACAATATCAATTAA-T-TATTTAATTATATTTAATTAAATATTT
1 TAATTATGTATTAAATTGTAAACAATATCAATTAATTATATTTAATTA-AAAGAATTAAATATTT
***
9127706 AATTTAAAATATTTTCCTAAATAAATATA-TATAATTATTTAATT
65 AATTT---ATATTAAACTAAATAAATATATTA-AATTATTTAATT
9127750 TTAATTAATT
Statistics
Matches: 518, Mismatches: 29, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
108 10 0.02
109 17 0.03
111 27 0.05
112 459 0.89
113 5 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (110 bp):
TAATTATGTATTAAATTGTAAACAATATCAATTAATTATATTTAATTAAAAGAATTAAATATTTA
ATTTATATTAAACTAAATAAATATATTAAATTATTTAATTATGTT
Found at i:9127761 original size:224 final size:224
Alignment explanation
Indices: 9127083--9127749 Score: 874
Period size: 224 Copynumber: 3.0 Consensus size: 224
9127073 AATAATTAAA
* * * * * * *
9127083 TAATTATATATTTAATTATAAACAGTACCAATTAATTAAATATTTAATTTAATAGGTTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAAGATTTAAATAT
* *
9127148 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTA
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTG
*
9127213 TAAACAGTACCAATT-A--ATTAA--ATATTTAATTAAATAGATTTAATTATTTAATTATATTAA
131 TAAACAGTATCAATTAATTATTAATTATATTTAATTAAAT--ATTT-A--ATTTAATTATATTAA
9127273 ACTAAATAATTATATTAAATTATTTAATTATGTT
191 ACTAAATAATTATATTAAATTATTTAATTATGTT
* *
9127307 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAATATTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAAGATTTAAATAT
* * * *
9127372 TTAATTATATTAAAGTAAATGATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTG
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTG
*
9127437 TAAACAGTATCAATT-A--ATTAA--ATATTTAATTTAAAAGATTTAATTATTTAATTATATTAA
131 TAAACAGTATCAATTAATTATTAATTATATTTAA-TT-AAATATTT-A--ATTTAATTATATTAA
* * *
9127497 AGTAAATAATTATATTAAATCAATTAATTATGTT
191 ACTAAATAATTATATTAAATTATTTAATTATGTT
* *
9127531 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAA-TTAAAAGATTTAAATAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAAGATTTAAATAT
9127595 TTAATTTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATT
66 TTAA-TTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATT
* * ***
9127660 GTAAACAATATCAATTAATTATTTAATTATATTTAATTAAATATTTAATTTAA-AATATTTTCCT
130 GTAAACAGTATCAATTAATTA-TTAATTATATTTAATTAAATATTTAATTTAATTATATTAAACT
*
9127724 AAATAAATATA-TATAATTATTTAATT
194 AAATAATTATATTA-AATTATTTAATT
9127750 TTAATTAATT
Statistics
Matches: 397, Mismatches: 36, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
223 21 0.05
224 341 0.86
225 9 0.02
226 3 0.01
227 2 0.01
228 11 0.03
229 2 0.01
230 8 0.02
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (224 bp):
TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAAGATTTAAATAT
TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTG
TAAACAGTATCAATTAATTATTAATTATATTTAATTAAATATTTAATTTAATTATATTAAACTAA
ATAATTATATTAAATTATTTAATTATGTT
Found at i:9133311 original size:66 final size:66
Alignment explanation
Indices: 9133205--9133361 Score: 233
Period size: 66 Copynumber: 2.4 Consensus size: 66
9133195 CAAATTGCTC
* * * *
9133205 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGATGGACTCCATCTA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
9133270 A
66 A
* *
9133271 AACTTAAAGAGGAGGCTGCAGTGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACCTA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
*
9133336 C
66 A
* *
9133337 AACTTAAAGTGGAGGCAGCAGCGAG
1 AACTTAAAGAGGAGGCTGCAGCGAG
9133362 GCAAGCGGAG
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 81 1.00
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
A
Found at i:9133364 original size:11 final size:11
Alignment explanation
Indices: 9133348--9133385 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
9133338 ACTTAAAGTG
9133348 GAGGCAGCAGC
1 GAGGCAGCAGC
9133359 GAGGCA--AGC
1 GAGGCAGCAGC
9133368 GGAGGCAGCAGC
1 -GAGGCAGCAGC
9133380 GAGGCA
1 GAGGCA
9133386 AGCGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.12
10 6 0.25
11 12 0.50
12 3 0.12
ACGTcount: A:0.29, C:0.24, G:0.47, T:0.00
Consensus pattern (11 bp):
GAGGCAGCAGC
Found at i:9133373 original size:21 final size:21
Alignment explanation
Indices: 9133347--9133389 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9133337 AACTTAAAGT
9133347 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAGCGAGGCAAGC
9133368 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAGCGAGGCAAGC
9133389 G
1 G
9133390 AAAGAAGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.49, T:0.00
Consensus pattern (21 bp):
GGAGGCAGCAGCGAGGCAAGC
Found at i:9133398 original size:21 final size:21
Alignment explanation
Indices: 9133353--9133399 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9133343 AAGTGGAGGC
* * *
9133353 AGCAGCGAGGCAAGCGGAGGC
1 AGCAGCGAGGCAAGCGAAAGA
9133374 AGCAGCGAGGCAAGCGAAAGA
1 AGCAGCGAGGCAAGCGAAAGA
9133395 AGCAG
1 AGCAG
9133400 AGACTACAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.43, T:0.00
Consensus pattern (21 bp):
AGCAGCGAGGCAAGCGAAAGA
Found at i:9133620 original size:15 final size:15
Alignment explanation
Indices: 9133600--9133628 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9133590 ATTTGAAGTT
9133600 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
9133615 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
9133629 AATTTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Found at i:9134008 original size:2 final size:2
Alignment explanation
Indices: 9133996--9134031 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
9133986 ATTCAATAGT
*
9133996 TA TA TA AA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9134032 CGTAACAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9137435 original size:21 final size:20
Alignment explanation
Indices: 9137411--9137451 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9137401 AAATAAAAAT
9137411 AATTAAGATAAAAATATTAAA
1 AATTAA-ATAAAAATATTAAA
* *
9137432 AATTAATTTAAAATATTAAA
1 AATTAAATAAAAATATTAAA
9137452 TATTGCACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AATTAAATAAAAATATTAAA
Found at i:9139312 original size:98 final size:98
Alignment explanation
Indices: 9139143--9139610 Score: 633
Period size: 98 Copynumber: 4.8 Consensus size: 98
9139133 TTTCAAGTTC
** ** *
9139143 GGAATGATGTTCCATATACCAATATGGAGGTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA
1 GGAATGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA
9139208 TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
66 TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
* * *
9139241 GGAATGATACTCCGTATGTCAATATGGAGCTACTACTGCAAATTTCAGTTGAAGCTAGCAAACTA
1 GGAATGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA
9139306 TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
66 TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
* *
9139339 GGAATGATACTCCATACGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGTAAACTA
1 GGAATGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA
* *
9139404 TTTTTAACTTCAAGTATTTCATGTTCAAAACCTA
66 -TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
* * *
9139438 TGAATGATATTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCA----AAGCTCA-TAAACT
1 GGAATGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCT-AGCAAACT
9139498 ATTTTAACTTCAAGTATTTTTCAAGTTCAAAACCGA
65 ATTTTAACTTCAAGTA--TTTCAAGTTCAAAACCGA
* * * * * * *
9139534 -GAAAGAATGCTCCCTATGTCAATATGGAACTGCTATTGTAAATTTCAGTTGAAGCTAGAAAAGT
1 GGAATG-ATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACT
* *
9139598 ATTTCAAGTTCAA
65 ATTTTAACTTCAA
9139611 AACCGAGGAC
Statistics
Matches: 330, Mismatches: 30, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
94 15 0.05
95 16 0.05
96 53 0.16
98 150 0.45
99 76 0.23
100 20 0.06
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (98 bp):
GGAATGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA
TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
Found at i:9139636 original size:29 final size:29
Alignment explanation
Indices: 9139603--9139667 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
9139593 AAAGTATTTC
* *
9139603 AAGTTCAAAACCGAGGACTGATGTTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
*
9139632 AAGTTCAAAACCAAGGAGTGATATTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
9139661 AA-TTCAA
1 AAGTTCAA
9139668 TATGGAGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGTTCAAAACCAAGGACTGATATTCCAT
Found at i:9142852 original size:21 final size:21
Alignment explanation
Indices: 9142811--9142885 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
9142801 AGAGTTTTTA
* *
9142811 GTATCGATAGAAGC-ATGACTT
1 GTATCGGTAGAA-CTATCACTT
* *
9142832 GTTTCGGTAGAAGTGA-CACTT
1 GTATCGGTAGAACT-ATCACTT
*
9142853 ATATCGGTAGAACTATCACTT
1 GTATCGGTAGAACTATCACTT
9142874 GTATCGGTAGAA
1 GTATCGGTAGAA
9142886 ATCTGAATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAACTATCACTT
Found at i:9148600 original size:7 final size:7
Alignment explanation
Indices: 9148578--9148612 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
9148568 TTGAGGTTTT
9148578 GAGAGAA
1 GAGAGAA
9148585 GA-AGAAA
1 GAGAG-AA
9148592 GAGAGAA
1 GAGAGAA
9148599 GAGAGAA
1 GAGAGAA
9148606 GAGAGAA
1 GAGAGAA
9148613 ACATATTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 2 0.08
7 22 0.85
8 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (7 bp):
GAGAGAA
Found at i:9149711 original size:20 final size:20
Alignment explanation
Indices: 9149660--9149721 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
9149650 AATTTTAATA
*
9149660 TTTTA-ATATTTTAAATG-AT
1 TTTTATATATTTTTAA-GAAT
9149679 TTTTATA-AGTTTTTAAGAAT
1 TTTTATATA-TTTTTAAGAAT
9149699 TTTTATATATTTTATAA-AAT
1 TTTTATATATTTT-TAAGAAT
9149719 TTT
1 TTT
9149722 AAATATTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
19 7 0.19
20 26 0.70
21 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTATATATTTTTAAGAAT
Found at i:9149711 original size:29 final size:29
Alignment explanation
Indices: 9149642--9149751 Score: 79
Period size: 29 Copynumber: 3.8 Consensus size: 29
9149632 TTTTTGTAAG
9149642 TTTATATTAA-TTT-TAA-TATTTT-AATA
1 TTTATATTAATTTTATAAGT-TTTTAAATA
* * *
9149668 TTTTAAATGATTTTTATAAGTTTTTAAGA-A
1 -TTTATATTAATTTTATAAGTTTTTAA-ATA
* **
9149698 TTTTTA-TATATTTTATAAAATTTTAAATA
1 TTTATATTA-ATTTTATAAGTTTTTAAATA
9149727 TTTATATTAATTTTATAAAGTTTTT
1 TTTATATTAATTTTAT-AAGTTTTT
9149752 CATAAGTTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
27 7 0.11
28 5 0.08
29 38 0.61
30 11 0.18
31 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (29 bp):
TTTATATTAATTTTATAAGTTTTTAAATA
Found at i:9150442 original size:9 final size:8
Alignment explanation
Indices: 9150423--9150485 Score: 58
Period size: 8 Copynumber: 7.9 Consensus size: 8
9150413 ATTATTTTGT
9150423 TTTTTATA
1 TTTTTATA
9150431 TTTTTATGA
1 TTTTTAT-A
*
9150440 TTTTTATT
1 TTTTTATA
9150448 TTTTTGATA
1 TTTTT-ATA
9150457 TTTTTA-A
1 TTTTTATA
**
9150464 AATTTA-A
1 TTTTTATA
*
9150471 TTTTTTTA
1 TTTTTATA
9150479 TTTTTAT
1 TTTTTAT
9150486 TGACATGTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
7 9 0.20
8 20 0.45
9 15 0.34
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (8 bp):
TTTTTATA
Found at i:9150445 original size:17 final size:17
Alignment explanation
Indices: 9150423--9150462 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9150413 ATTATTTTGT
9150423 TTTTTATATTTTT-ATGA
1 TTTTTATATTTTTGAT-A
*
9150440 TTTTTATTTTTTTGATA
1 TTTTTATATTTTTGATA
9150457 TTTTTA
1 TTTTTA
9150463 AAATTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (17 bp):
TTTTTATATTTTTGATA
Found at i:9150468 original size:26 final size:24
Alignment explanation
Indices: 9150422--9150483 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
9150412 AATTATTTTG
* * *
9150422 TTTTTTATATTTTTATGATTTTTAT
1 TTTTTTATATTTTTA-AAATTTAAT
9150447 TTTTTTGATATTTTTAAAATTTAAT
1 TTTTTT-ATATTTTTAAAATTTAAT
9150472 TTTTTTAT-TTTT
1 TTTTTTATATTTT
9150484 ATTGACATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.12
24 2 0.06
25 18 0.55
26 9 0.27
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (24 bp):
TTTTTTATATTTTTAAAATTTAAT
Found at i:9171292 original size:48 final size:48
Alignment explanation
Indices: 9171248--9171339 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
9171238 CTGCTGCAGT
*
9171248 ACCTGGCACACCAATAGGAGCACCACCTTCTGATGCACCCGCTGCAAC
1 ACCTGGCACACCAATAGGAGCACCACCTCCTGATGCACCCGCTGCAAC
* * *
9171296 ACCTGGCACTCCAATAGGAGCAGCAGCTCCTGATGCACCCGCTG
1 ACCTGGCACACCAATAGGAGCACCACCTCCTGATGCACCCGCTG
9171340 TGGCAGCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.25, C:0.38, G:0.22, T:0.15
Consensus pattern (48 bp):
ACCTGGCACACCAATAGGAGCACCACCTCCTGATGCACCCGCTGCAAC
Found at i:9181993 original size:16 final size:16
Alignment explanation
Indices: 9181962--9181995 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9181952 AAAGAAAGAA
*
9181962 TATATATATATATATG
1 TATATATATACATATG
*
9181978 TATATATATACGTATG
1 TATATATATACATATG
9181994 TA
1 TA
9181996 AATTTGGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (16 bp):
TATATATATACATATG
Found at i:9184879 original size:38 final size:38
Alignment explanation
Indices: 9184808--9184912 Score: 122
Period size: 38 Copynumber: 2.8 Consensus size: 38
9184798 GCGAACCATG
* * * * *
9184808 AAAATGACAGGCACGATCTTAA-ATCGAGCGAATCGTA
1 AAAATGACAGCCACGATATGAATATCGAGTGAATCATA
*
9184845 AAAATGACAGCCGCGATATGAATATCGAGTGAATCATA
1 AAAATGACAGCCACGATATGAATATCGAGTGAATCATA
* * *
9184883 AACATGACAGTCACAATATGAATATCGAGT
1 AAAATGACAGCCACGATATGAATATCGAGT
9184913 AATTTGTTAG
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
37 18 0.32
38 39 0.68
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (38 bp):
AAAATGACAGCCACGATATGAATATCGAGTGAATCATA
Found at i:9186046 original size:21 final size:21
Alignment explanation
Indices: 9186013--9186070 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9186003 TAGTACAGAT
* *
9186013 TTCTATTGGTACAAGTGA-TAG
1 TTCTACTGATACAAGTGACT-G
*
9186034 TTCTACTGATACAAGTGACTT
1 TTCTACTGATACAAGTGACTG
*
9186055 TTCTACCGATACAAGT
1 TTCTACTGATACAAGT
9186071 TTTACCTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (21 bp):
TTCTACTGATACAAGTGACTG
Found at i:9190349 original size:7 final size:7
Alignment explanation
Indices: 9190337--9190368 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
9190327 ATTTATATGT
9190337 ATATATA
1 ATATATA
9190344 ATATATA
1 ATATATA
9190351 ATATATA
1 ATATATA
9190358 ATATATA
1 ATATATA
9190365 ATAT
1 ATAT
9190369 GCTTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATATA
Found at i:9192349 original size:24 final size:24
Alignment explanation
Indices: 9192321--9192372 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
9192311 TTCGTAAGTC
*
9192321 AAATAAATAATACTAATAAATGCA
1 AAATAAATAATACTAATAAATACA
*
9192345 AAATATATAATACTAATAAATACA
1 AAATAAATAATACTAATAAATACA
9192369 AAAT
1 AAAT
9192373 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (24 bp):
AAATAAATAATACTAATAAATACA
Found at i:9200275 original size:27 final size:27
Alignment explanation
Indices: 9200212--9200329 Score: 191
Period size: 27 Copynumber: 4.2 Consensus size: 27
9200202 ATTATTCATT
*
9200212 AACATTGTTCGTGAACATGTTCAATTAAATG
1 AACA-TGTTCGTGAACA--TT-AAATAAATG
9200243 AACATGTTCGTGAACATTAAATAAATG
1 AACATGTTCGTGAACATTAAATAAATG
9200270 AACATGTTCGTGAACATTAAATAAATG
1 AACATGTTCGTGAACATTAAATAAATG
9200297 AACATGTTCGTGAACATTAAATAAATG
1 AACATGTTCGTGAACATTAAATAAATG
9200324 AACATG
1 AACATG
9200330 AAGACAGATA
Statistics
Matches: 86, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
27 68 0.79
28 2 0.02
30 12 0.14
31 4 0.05
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (27 bp):
AACATGTTCGTGAACATTAAATAAATG
Found at i:9200991 original size:11 final size:12
Alignment explanation
Indices: 9200967--9200996 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
9200957 CAATCCAAAT
9200967 TTTATTATTTTA
1 TTTATTATTTTA
9200979 TTTATTA-TTTA
1 TTTATTATTTTA
9200990 TTTATTA
1 TTTATTA
9200997 AATAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:9202281 original size:30 final size:30
Alignment explanation
Indices: 9202241--9202377 Score: 163
Period size: 30 Copynumber: 4.6 Consensus size: 30
9202231 GATTTATTTT
* *
9202241 AAAA-TCAAATTTGACCCCTGAATTTTCCA
1 AAAATTCAAATTTAACCCCTAAATTTTCCA
*
9202270 AAAATTCAAATTTCAA-CCTTAAATTTTCCA
1 AAAATTCAAATTT-AACCCCTAAATTTTCCA
* * *
9202300 AAAATTCAAATCTAACCCTTAAATTCTCCA
1 AAAATTCAAATTTAACCCCTAAATTTTCCA
9202330 AAAATTCAAATTTAACCCCTAAAGTTTT-CA
1 AAAATTCAAATTTAACCCCTAAA-TTTTCCA
* *
9202360 AAAATTAAAATTTGACCC
1 AAAATTCAAATTTAACCC
9202378 ATTTTAATGT
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.06
30 84 0.89
31 4 0.04
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAATTCAAATTTAACCCCTAAATTTTCCA
Found at i:9214086 original size:50 final size:50
Alignment explanation
Indices: 9214004--9214130 Score: 168
Period size: 50 Copynumber: 2.6 Consensus size: 50
9213994 ATATTTTACC
* * * *
9214004 CCTAAAGCTATGGAGGTGCAGATTGAAACCGCAATGGCAAATCTCA-TACA
1 CCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGCAAATCTCATTA-A
*
9214054 CCTAAAGCTGTAGAGGGGCAGAATGAAGCCGCAATGGCAAATCTCATTAA
1 CCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGCAAATCTCATTAA
* *
9214104 CTTAAAGCTGTA-AAGGGCAGATTGAAG
1 CCTAAAGCTGTAGAGGGGCAGATTGAAG
9214131 TCACAAGGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 13 0.19
50 53 0.78
51 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (50 bp):
CCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGCAAATCTCATTAA
Found at i:9214146 original size:49 final size:50
Alignment explanation
Indices: 9214004--9214162 Score: 137
Period size: 50 Copynumber: 3.2 Consensus size: 50
9213994 ATATTTTACC
* * * * *
9214004 CCTAAAGCTAT-GGAGGTGCAGATTGAAACCGCAATGGCAAATCTCATACA
1 CCTAAAGCTGTAGAAGG-GCAGAATGAAGCCACAATGGCAAATCTCATACA
* *
9214054 CCTAAAGCTGTAGAGGGGCAGAATGAAGCCGCAATGGCAAATCTCATTA-A
1 CCTAAAGCTGTAGAAGGGCAGAATGAAGCCACAATGGCAAATCTCA-TACA
* * * * * *
9214104 CTTAAAGCTGTA-AAGGGCAGATTGAAGTCACAA-GGACGAATCTTATACT
1 CCTAAAGCTGTAGAAGGGCAGAATGAAGCCACAATGG-CAAATCTCATACA
*
9214153 CCTGAAGCTG
1 CCTAAAGCTG
9214163 AAATGGAGTG
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
48 4 0.04
49 32 0.36
50 49 0.54
51 5 0.06
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (50 bp):
CCTAAAGCTGTAGAAGGGCAGAATGAAGCCACAATGGCAAATCTCATACA
Found at i:9214232 original size:40 final size:40
Alignment explanation
Indices: 9214187--9214502 Score: 270
Period size: 40 Copynumber: 8.0 Consensus size: 40
9214177 TACAACCTCT
* *
9214187 AATCTCTTACCCCAACCAGAGAGCAGATTGAAGACCATCC
1 AATCTCTTACCCCAACCAGAGGGCAGATTGAAGACAATCC
* * ** * * **
9214227 GATCTCTTACCCCGATTATG-GGGCAGATTAAAAATTATCC
1 AATCTCTTACCCCAACCA-GAGGGCAGATTGAAGACAATCC
* * * * * *
9214267 AATCTTTTACCCTAATCAGAGGACAGATTAAAGACCATCC
1 AATCTCTTACCCCAACCAGAGGGCAGATTGAAGACAATCC
* * * ** * *
9214307 AATATTTTACCCTAATTAAAGGGCAGATTGGAGACAATCC
1 AATCTCTTACCCCAACCAGAGGGCAGATTGAAGACAATCC
9214347 AATCTCTTACCCCAACCATG-GGGCAGATTGAA-ACAATCC
1 AATCTCTTACCCCAACCA-GAGGGCAGATTGAAGACAATCC
* *
9214386 AATCTTTTACCCTAACCAGAGGGCAGATTGAAG-CAATCC
1 AATCTCTTACCCCAACCAGAGGGCAGATTGAAGACAATCC
* * *
9214425 AATCTTTTACCCTAACCTA-AGGGCAGATTGAAGACCAT-C
1 AATCTCTTACCCCAACC-AGAGGGCAGATTGAAGACAATCC
*
9214464 AGATCTCTTACCCCAACCATG-GGGCAGATT-AAAACAATC
1 A-ATCTCTTACCCCAACCA-GAGGGCAGATTGAAGACAATC
9214503 TAATGTTTTA
Statistics
Matches: 226, Mismatches: 39, Indels: 22
0.79 0.14 0.08
Matches are distributed among these distances:
38 1 0.00
39 82 0.36
40 142 0.63
41 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
AATCTCTTACCCCAACCAGAGGGCAGATTGAAGACAATCC
Found at i:9214470 original size:118 final size:118
Alignment explanation
Indices: 9214187--9214516 Score: 407
Period size: 118 Copynumber: 2.8 Consensus size: 118
9214177 TACAACCTCT
* * * * * **
9214187 AATCTCTTACCCCAACC-AGAGAGCAGATTGAAGACCATCCGATCTCTTACCCCGATTATGGGGC
1 AATCTTTTACCCTAACCTA-AGGGCAGATTGAAGACCATCAGATCTCTTACCCCAACCATGGGGC
* * *
9214251 AGATTAAAAATTATCCAATCTTTTACCCTAATCAGAGGACAGATTAAAGACCATCC
65 AGATTAAACA--ATCCAATCTTTTACCCTAACCAGAGGACAGATTAAAGACAATCC
* * * *
9214307 AATATTTTACCCTAA-TTAAAGGGCAGATTGGAGACAATCCA-ATCTCTTACCCCAACCATGGGG
1 AATCTTTTACCCTAACCT-AAGGGCAGATTGAAGACCAT-CAGATCTCTTACCCCAACCATGGGG
* *
9214370 CAGATTGAAACAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAG-CAATCC
64 CAGATT-AAACAATCCAATCTTTTACCCTAACCAGAGGACAGATTAAAGACAATCC
9214425 AATCTTTTACCCTAACCTAAGGGCAGATTGAAGACCATCAGATCTCTTACCCCAACCATGGGGCA
1 AATCTTTTACCCTAACCTAAGGGCAGATTGAAGACCATCAGATCTCTTACCCCAACCATGGGGCA
* *
9214490 GATTAAAACAATCTAATGTTTTACCCT
66 GATT-AAACAATCCAATCTTTTACCCT
9214517 TAAAGTTATA
Statistics
Matches: 181, Mismatches: 23, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
117 2 0.01
118 85 0.47
119 35 0.19
120 53 0.29
121 6 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (118 bp):
AATCTTTTACCCTAACCTAAGGGCAGATTGAAGACCATCAGATCTCTTACCCCAACCATGGGGCA
GATTAAACAATCCAATCTTTTACCCTAACCAGAGGACAGATTAAAGACAATCC
Found at i:9216848 original size:2 final size:2
Alignment explanation
Indices: 9216801--9216833 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9216791 TAAAAAGATG
*
9216801 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9216834 GTACGTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9217578 original size:7 final size:6
Alignment explanation
Indices: 9217556--9217613 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
9217546 TTAGAATAAT
* * * **
9217556 TTTAAA TTTAAA TTTAAA TTTTAA --CAAA TTCAAA TTTAAA AATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
9217602 TTTAAA TTTAAA
1 TTTAAA TTTAAA
9217614 ATAAATCCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
4 2 0.05
6 40 0.95
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:9217608 original size:18 final size:17
Alignment explanation
Indices: 9217564--9217619 Score: 69
Period size: 18 Copynumber: 3.3 Consensus size: 17
9217554 ATTTTAAATT
*
9217564 TAAATTTAAATTT-TAA
1 TAAATTTAAATTTAAAA
* *
9217580 CAAATTCAAATTTAAAAA
1 TAAATTTAAATTT-AAAA
9217598 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
9217615 TAAAT
1 TAAAT
9217620 CCAAAATGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 11 0.33
17 9 0.27
18 13 0.39
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:9218037 original size:11 final size:12
Alignment explanation
Indices: 9218013--9218042 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
9218003 CAATTCAAAT
9218013 TTTATTATTTTA
1 TTTATTATTTTA
9218025 TTTATTA-TTTA
1 TTTATTATTTTA
9218036 TTTATTA
1 TTTATTA
9218043 AATAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:9218969 original size:26 final size:28
Alignment explanation
Indices: 9218938--9218994 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
9218928 TTTTAAAATT
9218938 AAAGAATGGGTT-T-TATCTTTTAATGG
1 AAAGAATGGGTTGTGTATCTTTTAATGG
* *
9218964 AAAGAATGGGTTGTGTTTTTTTTAATGG
1 AAAGAATGGGTTGTGTATCTTTTAATGG
9218992 AAA
1 AAA
9218995 TAATCGAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 12 0.44
27 1 0.04
28 14 0.52
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.42
Consensus pattern (28 bp):
AAAGAATGGGTTGTGTATCTTTTAATGG
Found at i:9219315 original size:30 final size:30
Alignment explanation
Indices: 9219275--9219411 Score: 129
Period size: 30 Copynumber: 4.6 Consensus size: 30
9219265 GATTTATTTT
* * *
9219275 AAAA-TCAAATTTGACCCTCGAATTTTCTA
1 AAAATTCAAATTTAACCCTCAAATTTTCCA
* *
9219304 AAAATTCAAATTTCACCCTAAAATTTTCCA
1 AAAATTCAAATTTAACCCTCAAATTTTCCA
* * *
9219334 AAAATTCAAATCTAAATCCT-AAATTCTCCA
1 AAAATTCAAAT-TTAACCCTCAAATTTTCCA
*
9219364 AAAATTCAAATTTAACCC-CTAAAGTTT-CA
1 AAAATTCAAATTTAACCCTC-AAATTTTCCA
* *
9219393 AAAATTAAAATTTGACCCT
1 AAAATTCAAATTTAACCCT
9219412 TTTTAATGTG
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
29 27 0.30
30 57 0.64
31 5 0.06
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAATTCAAATTTAACCCTCAAATTTTCCA
Found at i:9219343 original size:60 final size:58
Alignment explanation
Indices: 9219275--9219411 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 58
9219265 GATTTATTTT
* * * * *
9219275 AAAA-TCAAATTTGACCCTCGAATTTTCTAAAAATTCAAATTTCA-CCCTAAAATTTTCCA
1 AAAATTCAAATTTGACCCT-AAATTCTCCAAAAATTCAAATTTAACCCCT-AAAGTTT-CA
** *
9219334 AAAATTCAAATCTAAATCCTAAATTCTCCAAAAATTCAAATTTAACCCCTAAAGTTTCA
1 AAAATTCAAAT-TTGACCCTAAATTCTCCAAAAATTCAAATTTAACCCCTAAAGTTTCA
*
9219393 AAAATTAAAATTTGACCCT
1 AAAATTCAAATTTGACCCT
9219412 TTTTAATGTG
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
58 5 0.08
59 16 0.25
60 33 0.52
61 9 0.14
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.32
Consensus pattern (58 bp):
AAAATTCAAATTTGACCCTAAATTCTCCAAAAATTCAAATTTAACCCCTAAAGTTTCA
Found at i:9222133 original size:6 final size:6
Alignment explanation
Indices: 9222122--9222169 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
9222112 TTATTTATAT
* *
9222122 GTTGAA GTTGAA GTTGAA GTTGAA GTTGAA GTTGAA GCTGAA GCTGAA
1 GTTGAA GTTGAA GTTGAA GTTGAA GTTGAA GTTGAA GTTGAA GTTGAA
9222170 AACATGAGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.33, C:0.04, G:0.33, T:0.29
Consensus pattern (6 bp):
GTTGAA
Found at i:9222405 original size:4 final size:4
Alignment explanation
Indices: 9222396--9222427 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
9222386 TGTTGTATCC
*
9222396 ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9222428 GTGAAGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:9225039 original size:46 final size:46
Alignment explanation
Indices: 9224967--9225061 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 46
9224957 GACGACAACA
* * *
9224967 ATTAGAGTTTTAGTTTTATTTGTTTTCTTTATTATATCAAGTTTTT
1 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAAGTTTTT
* *
9225013 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTTT
1 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAAGTTTTT
9225059 ATT
1 ATT
9225062 TCCTTCCTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (46 bp):
ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAAGTTTTT
Found at i:9226560 original size:45 final size:47
Alignment explanation
Indices: 9226492--9226582 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 47
9226482 GACGACAACA
* *
9226492 ATTAGAGTTTTAGTTTTATTTATTTT-TTTATTATATCA-GATTTTT
1 ATTAGAGTTTTAGTTTTACTTATTTTCTATATTATATCAGGATTTTT
*
9226537 ATTAGAGTTTTAGTTTTACTTATTTTCTATATTATATTAGGATTTT
1 ATTAGAGTTTTAGTTTTACTTATTTTCTATATTATATCAGGATTTT
9226583 ATCTCCTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 25 0.61
46 10 0.24
47 6 0.15
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (47 bp):
ATTAGAGTTTTAGTTTTACTTATTTTCTATATTATATCAGGATTTTT
Found at i:9227619 original size:7 final size:7
Alignment explanation
Indices: 9227609--9227642 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
9227599 TTTGTGATTT
9227609 CAAATTC
1 CAAATTC
9227616 CAAATTC
1 CAAATTC
9227623 CAAATTC
1 CAAATTC
9227630 CAAATTC
1 CAAATTC
9227637 CAAATT
1 CAAATT
9227643 TAATGATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (7 bp):
CAAATTC
Found at i:9246032 original size:9 final size:9
Alignment explanation
Indices: 9246018--9246044 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9246008 GGGGGGATTT
9246018 GAGAGAAAA
1 GAGAGAAAA
9246027 GAGAGAAAA
1 GAGAGAAAA
9246036 GAGAGAAAA
1 GAGAGAAAA
9246045 AAGGAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (9 bp):
GAGAGAAAA
Found at i:9246558 original size:59 final size:59
Alignment explanation
Indices: 9246423--9246567 Score: 139
Period size: 59 Copynumber: 2.4 Consensus size: 59
9246413 CCCTATTTTA
* * * *
9246423 TTCCAAAATTACATTTTGACCCCCAAACTATCCCAACATCACGTTTTAACCTCTAAACCT
1 TTCCAAAATTACATTTTGA-CCCTAAAATATCCCAAAATCACATTTTAACCTCTAAACCT
* * * * * * * **
9246483 TTCAAAAATCATATTTTGACCCTAAAATTTCCTAAAATTACATTTTAACC-CTTGAATTT
1 TTCCAAAATTACATTTTGACCCTAAAATATCCCAAAATCACATTTTAACCTC-TAAACCT
*
9246542 TTCCAAAATTACATTTTGACCTTAAA
1 TTCCAAAATTACATTTTGACCCTAAA
9246568 TTCTTCGAAA
Statistics
Matches: 67, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
58 1 0.01
59 50 0.75
60 16 0.24
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (59 bp):
TTCCAAAATTACATTTTGACCCTAAAATATCCCAAAATCACATTTTAACCTCTAAACCT
Found at i:9246564 original size:29 final size:30
Alignment explanation
Indices: 9246423--9246586 Score: 86
Period size: 30 Copynumber: 5.6 Consensus size: 30
9246413 CCCTATTTTA
* ** * *
9246423 TTCCAAAATTACATTTTGACCCCCAAACTA
1 TTCCAAAATTACATTTTAACCCTTAAATTT
* * * * **
9246453 TCCCAACATCACGTTTTAA-CCTCTAAACCT
1 TTCCAAAATTACATTTTAACCCT-TAAATTT
* * * * *
9246483 TTCAAAAATCATATTTTGACCC-TAAA-AT
1 TTCCAAAATTACATTTTAACCCTTAAATTT
*
9246511 TTCCTAAAATTACATTTTAACCCTTGAATTT
1 TTCC-AAAATTACATTTTAACCCTTAAATTT
* *
9246542 TTCCAAAATTACATTTTGA-CCTTAAATTC
1 TTCCAAAATTACATTTTAACCCTTAAATTT
* *
9246571 TTCGAAACTT-CATTTT
1 TTCCAAAATTACATTTT
9246587 TCGACCCTTT
Statistics
Matches: 102, Mismatches: 27, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
28 10 0.10
29 37 0.36
30 48 0.47
31 7 0.07
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (30 bp):
TTCCAAAATTACATTTTAACCCTTAAATTT
Found at i:9257646 original size:48 final size:47
Alignment explanation
Indices: 9257522--9257654 Score: 167
Period size: 48 Copynumber: 2.8 Consensus size: 47
9257512 CCCATCTTTT
* * *
9257522 TGATGAGATACAGAGAAGTGAGTCAAAGCAATAAAACGGTCATCTTCC
1 TGATGAGATACAGAGAAGTGA-TCAAATCAATGAAGCGGTCATCTTCC
* *
9257570 TGATGAGATACAGAAAAGTGGATTAAATCAATGAAGCGGTCATCTTCC
1 TGATGAGATACAGAGAAGT-GATCAAATCAATGAAGCGGTCATCTTCC
* * *
9257618 TGATGAGATATAGAGAATTAGACCAAATCAATGAAGC
1 TGATGAGATACAGAGAAGT-GATCAAATCAATGAAGC
9257655 AAAGCTCAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 71 0.97
49 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (47 bp):
TGATGAGATACAGAGAAGTGATCAAATCAATGAAGCGGTCATCTTCC
Found at i:9257730 original size:37 final size:37
Alignment explanation
Indices: 9257689--9257759 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
9257679 AAACCCCCAT
*
9257689 CTTCCTGATGAGATACAGAGAAGTAGATCAAATTCGC
1 CTTCCTAATGAGATACAGAGAAGTAGATCAAATTCGC
* *
9257726 CTTCCTAATGAGATACAGAGAAGTGGATTAAATT
1 CTTCCTAATGAGATACAGAGAAGTAGATCAAATT
9257760 AATGAAGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (37 bp):
CTTCCTAATGAGATACAGAGAAGTAGATCAAATTCGC
Found at i:9257837 original size:161 final size:166
Alignment explanation
Indices: 9257493--9258040 Score: 741
Period size: 172 Copynumber: 3.3 Consensus size: 166
9257483 ATCATAAAGA
* ** *
9257493 TGAGTGGAAACTTCAAATCCCCATCTTTTTGATGAGATACAGAGAAGTGAGTCAAAGCAATAAAA
1 TGAGT-GAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAA--G-GT-TAAG-AAT-AAA
* * *
9257558 CG-GTCATCTTCCTGATGAGATACAGAAAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGAT
59 -GTGTCACCTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCGGTCATCTTCCTGAT
*
9257622 GAGATATAGAGAATTAGACCAAATCAATGAAGCAAAGCTCAATG
123 GAGATATAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATG
*
9257666 TGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAA-G-T-AG-ATCAAA-T-TCG
1 TGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGGTTAAGAAT-AAAGTGTCA
* * *
9257725 CCTTCCTAATGAGATACAGAGAAGTGGATTAAATTAATGAAGCAGTTATCTTCCTGATGAGATAT
65 CCTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCGGTCATCTTCCTGATGAGATAT
9257790 AGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATG
130 AGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATG
*
9257827 TGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAAAGAAGTCGGTTAAAGCAATAAAGT
1 TGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAA---GGTT-AAG-AATAAAGT
* * *
9257892 GGTCATCTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGTGGTCATCTTCCTGATAA
61 -GTCACCTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCGGTCATCTTCCTGATGA
* *
9257957 GGTACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATG
125 GATATAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATG
*
9257999 TGAGTGAAACTTCAAACCTCCATCTTCCTGATGAGATACAGA
1 TGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGA
9258041 AGAGTGAGTC
Statistics
Matches: 337, Mismatches: 25, Indels: 27
0.87 0.06 0.07
Matches are distributed among these distances:
161 141 0.42
163 5 0.01
165 3 0.01
166 1 0.00
168 3 0.01
169 3 0.01
170 3 0.01
172 173 0.51
173 5 0.01
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.24
Consensus pattern (166 bp):
TGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGGTTAAGAATAAAGTGTCAC
CTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCGGTCATCTTCCTGATGAGATATA
GAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATG
Found at i:9257984 original size:48 final size:48
Alignment explanation
Indices: 9257847--9257986 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
9257837 TTCAAACCCC
* * * * *
9257847 CATCTTCCTGATGAGATACAAAGAAGTCGGTTAAAGCAATAAAGTGGT
1 CATCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGTGGT
* *
9257895 CATCTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGTGGT
1 CATCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGTGGT
* * **
9257943 CATCTTCCTGATAAGGTACAGAGAAGTAGACCAAATCAATGAAG
1 CATCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAG
9257987 CAAAGCTCAA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGTGGT
Found at i:9258024 original size:172 final size:172
Alignment explanation
Indices: 9257726--9258096 Score: 566
Period size: 172 Copynumber: 2.2 Consensus size: 172
9257716 TCAAATTCGC
* * * *
9257726 CTTCCTAATGAGATACAGAGAAGTGGATTAAATTAATGAAGCAGTTATCTTCCTGATGAGATATA
1 CTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCAGTCATCTTCCTGATAAGATACA
9257791 GAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCT
66 GAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCT
* * *
9257856 GATGAGATACA-AAGAAGTCG-GTTAAAGCAATAAAGTGGTCAT
131 GATGAGATACAGAAG-AGT-GAGTCAAAGCAATAAAGCGATCAT
** *
9257898 CTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGTGGTCATCTTCCTGATAAGGTACA
1 CTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCAGTCATCTTCCTGATAAGATACA
*
9257963 GAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCTCCATCTTCCT
66 GAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCT
* *
9258028 GATGAGATACAGAAGAGTGAGTCAAAGCAATGAAGCGATCCT
131 GATGAGATACAGAAGAGTGAGTCAAAGCAATAAAGCGATCAT
* * *
9258070 CTTCTTGATGAGATATAGAGAACTGGA
1 CTTCCTGATGAGATACAGAGAAGTGGA
9258097 ACAAATTCAT
Statistics
Matches: 181, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
171 1 0.01
172 177 0.98
173 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (172 bp):
CTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCAGTCATCTTCCTGATAAGATACA
GAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCT
GATGAGATACAGAAGAGTGAGTCAAAGCAATAAAGCGATCAT
Found at i:9258260 original size:76 final size:76
Alignment explanation
Indices: 9258152--9258410 Score: 256
Period size: 76 Copynumber: 3.3 Consensus size: 76
9258142 ATGAAGCGGT
*
9258152 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAA
1 CATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAA
9258217 CTTCAAACCCC
66 CTTCAAACCCC
* * * * **
9258228 CATCTTCTTGATGAGATACAGATAAGTGGACCAAATCCACCTTCCTGATGAG-ATACAG-AGAA-
1 CATCTTCCTGATGAGATACAGAAAAGTAGACCAAAT-CA-----ATGA--AGCA-A-AGCTCAAT
* * ***
9258290 GTGGAGT-AAATCAATGAAACAAT
56 GT-GAGTGAAA-C-TTCAAACCCC
9258313 CATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAA
1 CATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAA
9258378 CTTCAAACCCC
66 CTTCAAACCCC
*
9258389 CATCTTCCTTATGAGATACAGA
1 CATCTTCCTGATGAGATACAGA
9258411 GGAGTGGGTC
Statistics
Matches: 143, Mismatches: 23, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
76 61 0.43
77 12 0.08
78 6 0.04
79 3 0.02
82 3 0.02
83 6 0.04
84 12 0.08
85 40 0.28
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (76 bp):
CATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAA
CTTCAAACCCC
Found at i:9258282 original size:161 final size:161
Alignment explanation
Indices: 9258069--9258411 Score: 546
Period size: 161 Copynumber: 2.1 Consensus size: 161
9258059 GAAGCGATCC
* *
9258069 TCTTCTTGATGAGATATAGAGAACTGGAACAAATTCATCCTTCTAATGAGATACAGAGAAGTGGA
1 TCTTCTTGATGAGATACAGAGAACTGGAACAAATCCATCCTTCTAATGAGATACAGAGAAGTGGA
* * * ** *
9258134 TTAAATTAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAA
66 GTAAATCAATGAAACAATCATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAA
9258199 AGCTCAATGTGAGTGAAACTTCAAACCCCCA
131 AGCTCAATGTGAGTGAAACTTCAAACCCCCA
* * * *
9258230 TCTTCTTGATGAGATACAGATAAGTGGACCAAATCCA-CCTTCCTGATGAGATACAGAGAAGTGG
1 TCTTCTTGATGAGATACAGAGAACTGGAACAAATCCATCCTT-CTAATGAGATACAGAGAAGTGG
9258294 AGTAAATCAATGAAACAATCATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCA
65 AGTAAATCAATGAAACAATCATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCA
9258359 AAGCTCAATGTGAGTGAAACTTCAAACCCCCA
130 AAGCTCAATGTGAGTGAAACTTCAAACCCCCA
9258391 TCTTCCTT-ATGAGATACAGAG
1 TCTT-CTTGATGAGATACAGAG
9258412 GAGTGGGTCA
Statistics
Matches: 167, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
160 4 0.02
161 160 0.96
162 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (161 bp):
TCTTCTTGATGAGATACAGAGAACTGGAACAAATCCATCCTTCTAATGAGATACAGAGAAGTGGA
GTAAATCAATGAAACAATCATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAA
AGCTCAATGTGAGTGAAACTTCAAACCCCCA
Found at i:9258329 original size:209 final size:211
Alignment explanation
Indices: 9257849--9258357 Score: 587
Period size: 209 Copynumber: 2.4 Consensus size: 211
9257839 CAAACCCCCA
* * **
9257849 TCTTCCTGATGAGATACAAAGAAGTCGGTTAAAGCAATAAAGTGGTCATCTTCCTGATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGT-GGGTAAA-CAATAAA--CATCATCTTCCTGATGAGATAC
* *
9257914 AGAGAAGTGGATTAAATTAATGAAGTGGTCATCTTCCTGATAAGGTACAGAGAAGTAGACCAAAT
62 AGAGAAGTGGATTAAATTAATGAAGCGGTCATCTTCCTGATAAGATACAGAGAAGTAGACCAAAT
*
9257979 CAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCTCCATCTTCCTGATGAGATACAGAAGA
127 CAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAAGA
*
9258044 GTGAGTCAAAGCAATGAAGCGATCC
192 GTGAG---AAGCAA-GAAGCCA-CC
* * * ** *
9258069 TCTTCTTGATGAGATATAGAGAACT-GG--AACAA-ATTCATC--CTT-CTAATGAGATACAGAG
1 TCTTCCTGATGAGATACAGAGAAGTGGGTAAACAATAAACATCATCTTCCTGATGAGATACAGAG
*
9258127 AAGTGGATTAAATTAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAAT
66 AAGTGGATTAAATTAATGAAGCGGTCATCTTCCTGATAAGATACAGAGAAGTAGACCAAATCAAT
*
9258192 GAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCTTGATGAGATACAGATA-AGTG
131 GAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGA-AGAGTG
* *
9258256 -G-A-CCA-AATCCA-C
195 AGAAGCAAGAAGCCACC
9258268 -CTTCCTGATGAGATACAGAGAAGTGGAGTAAATCAATGAAACAATCATCTTCCTGATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGG-GTAAA-CAAT-AAAC-ATCATCTTCCTGATGAGATAC
* * ** *
9258332 AGAAAAGTAGACCAAATCAATGAAGC
62 AGAGAAGTGGATTAAATTAATGAAGC
9258358 AAAGCTCAAT
Statistics
Matches: 248, Mismatches: 29, Indels: 35
0.79 0.09 0.11
Matches are distributed among these distances:
198 21 0.08
199 2 0.01
200 1 0.00
201 4 0.02
202 2 0.01
203 5 0.02
204 1 0.00
205 2 0.01
206 3 0.01
208 4 0.02
209 169 0.68
210 4 0.02
212 2 0.01
214 1 0.00
215 3 0.01
216 2 0.01
218 1 0.00
220 21 0.08
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (211 bp):
TCTTCCTGATGAGATACAGAGAAGTGGGTAAACAATAAACATCATCTTCCTGATGAGATACAGAG
AAGTGGATTAAATTAATGAAGCGGTCATCTTCCTGATAAGATACAGAGAAGTAGACCAAATCAAT
GAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAAGAGTGA
GAAGCAAGAAGCCACC
Found at i:9258564 original size:208 final size:204
Alignment explanation
Indices: 9258228--9258821 Score: 710
Period size: 208 Copynumber: 2.9 Consensus size: 204
9258218 TTCAAACCCC
* *
9258228 CATCTTCTTGATGAGATACAGATAAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAAGTG
1 CATCTTCTTGATGAGATACAGAAAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
* * * *
9258293 GAGTAAATCAATGAAACAATCATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGC
66 GA-TAAATCAATGAAGCAGTCATCTTCCTGATGAGATACAG-AAAG-AAACTAAAT-AATGAAGC
* * * *
9258358 AAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTTATGAGATACAGAGGAGTGGGTCAA
127 GAAGCTCAATGTGAGTGAAACTTCAAA-CCCCATCTTCCTAATGAGATACAAAGAAGTGGGTCAA
9258423 AGCAATAAAGCGGT
191 AGCAATAAAGCGGT
* * * * * *
9258437 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAATTCGTCTTCCTGAT-AAATACAGAGAAGTG
1 CATCTTCTTGATGAGATACAGAAAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
* ** * * * * *
9258501 GATCAAAACAATGAAGTGGTCATCTTCTTAATGAGATACAGAGAAGCAAATTAAGTAAATGAAGT
66 GAT-AAATCAATGAAGCAGTCATCTTCCTGATGAGATACAGA-AAG-AAACTAAAT-AATGAAGC
* * * * *
9258566 GAAGCTCAATGTAAGTGAAACTTTAAATTCTCATCTTCCTGATGAGATACAAAGAAGTGGGTCAA
127 GAAGCTCAATGTGAGTGAAACTTCAAA-CCCCATCTTCCTAATGAGATACAAAGAAGTGGGTCAA
*
9258631 AGCAATAAAGTGGT
191 AGCAATAAAGCGGT
* * * * *
9258645 CATCTTCTTAATGAGATATAGAAAAGTGGACCAAATCCTTCTTCTTGATGAGATACAGAGAATTG
1 CATCTTCTTGATGAGATACAGAAAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
* *
9258710 GATTAAATCAATGAAGCAGTCATCTTCCTGATGAGATAC--AAAG-AAGTAGACTAATGAAGCGA
66 GA-TAAATCAATGAAGCAGTCATCTTCCTGATGAGATACAGAAAGAAACTA-AATAATGAAGCGA
*
9258772 AGCTAAATGTGAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAAA
129 AGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAAA
9258822 TGAATGGAGC
Statistics
Matches: 325, Mismatches: 55, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
203 22 0.07
204 35 0.11
205 2 0.01
206 3 0.01
207 3 0.01
208 171 0.53
209 88 0.27
210 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (204 bp):
CATCTTCTTGATGAGATACAGAAAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
GATAAATCAATGAAGCAGTCATCTTCCTGATGAGATACAGAAAGAAACTAAATAATGAAGCGAAG
CTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAAAGAAGTGGGTCAAAGCAA
TAAAGCGGT
Found at i:9260790 original size:29 final size:28
Alignment explanation
Indices: 9260700--9260852 Score: 146
Period size: 30 Copynumber: 5.2 Consensus size: 28
9260690 GTTTTATTCT
* *
9260700 AAAATTACATTTTAACCCTCAAACTTTCCC
1 AAAATCACATTTTGACCCT-AAACTTT-CC
*
9260730 AAAATCACATTTTGACCTCTAAACTCTCCC
1 AAAATCACATTTTGACC-CTAAACT-TTCC
*
9260760 AAAATCACATTTTGACTCTAAACCTTTCC
1 AAAATCACATTTTGACCCTAAA-CTTTCC
* *
9260789 AAAATCATATTTTGACCCCAAACTTTCC
1 AAAATCACATTTTGACCCTAAACTTTCC
* *
9260817 TAAAAAT-ACATTTTAACCCCTAAATTTTTCC
1 --AAAATCACATTTTGA-CCCTAAA-CTTTCC
9260848 AAAAT
1 AAAAT
9260853 TATATTTTAA
Statistics
Matches: 104, Mismatches: 12, Indels: 15
0.79 0.09 0.11
Matches are distributed among these distances:
28 6 0.06
29 39 0.38
30 51 0.49
31 8 0.08
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAATCACATTTTGACCCTAAACTTTCC
Found at i:9260805 original size:59 final size:58
Alignment explanation
Indices: 9260698--9260869 Score: 179
Period size: 59 Copynumber: 2.9 Consensus size: 58
9260688 CTGTTTTATT
* *
9260698 CTAAAATTACATTTTAACCCTCAAACTTTCCCAAAATCACATTTTGACCTCTAAACTCTC
1 CTAAAAATACATTTTAACCCT-AAACTTT-CCAAAATCATATTTTGACCTCTAAACTCTC
* * * * *
9260758 C-CAAAATCACATTTTGACTCTAAACCTTTCCAAAATCATATTTTGACC-CCAAACTTTC
1 CTAAAAAT-ACATTTTAACCCTAAA-CTTTCCAAAATCATATTTTGACCTCTAAACTCTC
* * *
9260816 CTAAAAATACATTTTAACCCCTAAATTTTTCCAAAATTATATTTTAACCT-TAAA
1 CTAAAAATACATTTTAA-CCCTAAA-CTTTCCAAAATCATATTTTGACCTCTAAA
9260870 TTCTTCGAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
58 17 0.18
59 59 0.64
60 16 0.17
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (58 bp):
CTAAAAATACATTTTAACCCTAAACTTTCCAAAATCATATTTTGACCTCTAAACTCTC
Found at i:9260869 original size:29 final size:29
Alignment explanation
Indices: 9260700--9260871 Score: 103
Period size: 30 Copynumber: 5.8 Consensus size: 29
9260690 GTTTTATTCT
* * *
9260700 AAAATTACATTTTAACCCTCAAACTTTCCC
1 AAAATTATATTTTAACCCT-AAATTTTTCC
* * * * * *
9260730 AAAATCACATTTTGACCTCTAAACTCTCCC
1 AAAATTATATTTTAACC-CTAAATTTTTCC
* * * * **
9260760 AAAATCACATTTTGACTCTAAACCTTTCC
1 AAAATTATATTTTAACCCTAAATTTTTCC
* * * *
9260789 AAAATCATATTTTGACCCCAAA-CTTTCC
1 AAAATTATATTTTAACCCTAAATTTTTCC
* *
9260817 TAAAAATACATTTTAACCCCTAAATTTTTCC
1 -AAAATTATATTTTAA-CCCTAAATTTTTCC
*
9260848 AAAATTATATTTTAACCTTAAATT
1 AAAATTATATTTTAACCCTAAATT
9260872 CTTCGAAACT
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
28 6 0.05
29 47 0.39
30 59 0.50
31 7 0.06
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATTATATTTTAACCCTAAATTTTTCC
Found at i:9263190 original size:29 final size:30
Alignment explanation
Indices: 9263158--9263216 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
9263148 TATGGTTTAA
9263158 TGTGTAATTATATATAT-AAATGTTGATTT
1 TGTGTAATTATATATATAAAATGTTGATTT
* *
9263187 TGTGTAATTTTATATATAAAATTTTGATTT
1 TGTGTAATTATATATATAAAATGTTGATTT
9263217 GATTCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTGTAATTATATATATAAAATGTTGATTT
Found at i:9263203 original size:31 final size:28
Alignment explanation
Indices: 9263158--9263216 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
9263148 TATGGTTTAA
9263158 TGTGTAATTATATATATAAATGTTGATTT
1 TGTGTAATTATATATA-AAATGTTGATTT
*
9263187 TGTGTAATTTTATATATAAAATTTTGATTT
1 TGTGTAA--TTATATATAAAATGTTGATTT
9263217 GATTCAATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.26
30 11 0.41
31 9 0.33
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (28 bp):
TGTGTAATTATATATAAAATGTTGATTT
Found at i:9263788 original size:29 final size:30
Alignment explanation
Indices: 9263751--9263815 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
9263741 TTACTCAACA
* * *
9263751 ATATGTATAATT-ATATTAAATTAAAATTT
1 ATATATATAATTAACATTAAATCAAAATTT
*
9263780 ATATATATAATTACACATTAAATCAAAGTTT
1 ATATATATAATTA-ACATTAAATCAAAATTT
9263811 ATATA
1 ATATA
9263816 ATTTTCAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 11 0.37
31 19 0.63
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (30 bp):
ATATATATAATTAACATTAAATCAAAATTT
Found at i:9264166 original size:16 final size:16
Alignment explanation
Indices: 9264145--9264175 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9264135 TAAATAATTT
9264145 TTTTCAAGTTTTAAAA
1 TTTTCAAGTTTTAAAA
*
9264161 TTTTCAATTTTTAAA
1 TTTTCAAGTTTTAAA
9264176 GAGTTGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTTCAAGTTTTAAAA
Found at i:9264189 original size:29 final size:28
Alignment explanation
Indices: 9264157--9264244 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
9264147 TTCAAGTTTT
9264157 AAAATTTTCAATTTTTAAAGAGTTGAAAA
1 AAAATTTTCAATTTTTAAAGAGTT-AAAA
* * **
9264186 AAAATTTTATCGACTTTTAAATG-GTTTTAA
1 AAAA-TTT-TCAATTTTTAAA-GAGTTAAAA
*
9264216 AAAATTTTCTAATTTTTAAAGATTTAAAA
1 AAAATTTTC-AATTTTTAAAGAGTTAAAA
9264245 TTTTAATATA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
28 3 0.07
29 19 0.42
30 9 0.20
31 13 0.29
32 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (28 bp):
AAAATTTTCAATTTTTAAAGAGTTAAAA
Found at i:9266776 original size:146 final size:146
Alignment explanation
Indices: 9266547--9266831 Score: 425
Period size: 146 Copynumber: 2.0 Consensus size: 146
9266537 TTCTCATTGC
* *
9266547 ATGAATATAAAAATTCACATTTCTCAAATGTCCATAGCTCCTTGAATGTAAACTCAAAACTTAAC
1 ATGAATATAAAAATCCACATTTCTCAAATGTCCATAGCTCCTTGAATGTAAAATCAAAACTTAAC
* *
9266612 AGTGAAGTTTGATCAGCTAGCCA-CAAGACTTTTAAGTTCAATATCCAAGAAATTTTCAATTCTC
66 AGTGAAGTTTGAGCAGCTAGCCACCAACAC--TTAAGTTCAATATCCAAGAAATTTTCAATTCTC
9266676 AGATAAGTTTCATATTCT
129 AGATAAGTTTCATATTCT
* **
9266694 ATGAATAT-AAAATCCATATCTT-TCAAATGTCTTTAGCTCCTTGAATGTAAATATC-AAACTTA
1 ATGAATATAAAAATCCACAT-TTCTCAAATGTCCATAGCTCCTTGAATGTAAA-ATCAAAACTTA
* *
9266756 ACAGTGAAGTTTGAGCAGCTAGCCACCAACACTTAAGTTCAATATCCCAGAAATTTTCAATTTTC
64 ACAGTGAAGTTTGAGCAGCTAGCCACCAACACTTAAGTTCAATATCCAAGAAATTTTCAATTCTC
9266821 AGATAAGTTTC
129 AGATAAGTTTC
9266832 TATGTTTACA
Statistics
Matches: 126, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
145 42 0.33
146 67 0.53
147 17 0.13
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (146 bp):
ATGAATATAAAAATCCACATTTCTCAAATGTCCATAGCTCCTTGAATGTAAAATCAAAACTTAAC
AGTGAAGTTTGAGCAGCTAGCCACCAACACTTAAGTTCAATATCCAAGAAATTTTCAATTCTCAG
ATAAGTTTCATATTCT
Found at i:9269298 original size:23 final size:22
Alignment explanation
Indices: 9269270--9269382 Score: 77
Period size: 23 Copynumber: 4.9 Consensus size: 22
9269260 TAGAAAAATT
9269270 AAAATTAAATTATAATTTTACAA
1 AAAATTAAATTATAATTTTA-AA
*
9269293 AAAATTATAATT-TAATCATTTTAA
1 AAAATTA-AATTATAAT--TTTAAA
* * * *
9269317 TAAATTATATTTTTTAATTTT-TA
1 AAAATTA-A-ATTATAATTTTAAA
* *
9269340 AAAATTAAATCAAAACTTTTAAA
1 AAAATTAAATTATAA-TTTTAAA
*
9269363 AAAATTAAAATATAATTTTA
1 AAAATTAAATTATAATTTTA
9269383 CCTAAAATTT
Statistics
Matches: 70, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
21 3 0.04
22 10 0.14
23 31 0.44
24 17 0.24
25 5 0.07
26 4 0.06
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATTAAATTATAATTTTAAA
Found at i:9273822 original size:550 final size:550
Alignment explanation
Indices: 9272782--9273883 Score: 2168
Period size: 550 Copynumber: 2.0 Consensus size: 550
9272772 CGTTGCTAGG
9272782 GATGACGTTTGTTTGATATTTATTTTTGTAGTTGCAATTATTCTGTATTTACTGACTTTTATTTG
1 GATGACGTTTGTTTGATATTTATTTTTGTAGTTGCAATTATTCTGTATTTACTGACTTTTATTTG
9272847 TTACTAATCTGTTTAATTTTGTTAATTCTTTTCAACTCTCTTTTAGGTATTATATGAACACGAGG
66 TTACTAATCTGTTTAATTTTGTTAATTCTTTTCAACTCTCTTTTAGGTATTATATGAACACGAGG
9272912 AGAAATCCTAACAATATTGTTGGCTTAGACCCAGAAATCAAAATAACCATTAAAAGGAGGAGACA
131 AGAAATCCTAACAATATTGTTGGCTTAGACCCAGAAATCAAAATAACCATTAAAAGGAGGAGACA
9272977 AAAGCAAAGAAATATGGCTTTACTTGAAAATAATGATATACCACAGTTGTCGCCACAAAATTATA
196 AAAGCAAAGAAATATGGCTTTACTTGAAAATAATGATATACCACAGTTGTCGCCACAAAATTATA
**
9273042 TCCCTTTAATACAGTTACAAAATTTCAACAATGCACCGCTGCCACAAGAAGAACAAATACAGAAT
261 TCCCTCCAATACAGTTACAAAATTTCAACAATGCACCGCTGCCACAAGAAGAACAAATACAGAAT
9273107 AGAACAATCAGATATTTTGTTGTTCCTGTGTTAGATAACTTGCAGCCAGGGGTTGAGACCAACGA
326 AGAACAATCAGATATTTTGTTGTTCCTGTGTTAGATAACTTGCAGCCAGGGGTTGAGACCAACGA
*
9273172 TCCAAGTTGGAAATTTTGAATTAAAACCGGTGATGTTTCAGAAGTTGAACTCAAATGGGCAATAT
391 TCCAAGTTGGAAATTTTGAATTAAAACCGATGATGTTTCAGAAGTTGAACTCAAATGGGCAATAT
9273237 GCTGGTTTGCCTCATGAAGATGTGAAGGAGAATCTTAAATCTTTTCTACTAATATGTGCTTCTTT
456 GCTGGTTTGCCTCATGAAGATGTGAAGGAGAATCTTAAATCTTTTCTACTAATATGTGCTTCTTT
9273302 TAGTCAGCATGGTGTTCCTGATAATGCCTT
521 TAGTCAGCATGGTGTTCCTGATAATGCCTT
9273332 GATGACGTTTGTTTGATATTTATTTTTGTAGTTGCAATTATTCTGTATTTACTGACTTTTATTTG
1 GATGACGTTTGTTTGATATTTATTTTTGTAGTTGCAATTATTCTGTATTTACTGACTTTTATTTG
9273397 TTACTAATCTGTTTAATTTTGTTAATTCTTTTCAACTCTCTTTTAGGTATTATATGAACACGAGG
66 TTACTAATCTGTTTAATTTTGTTAATTCTTTTCAACTCTCTTTTAGGTATTATATGAACACGAGG
*
9273462 AGAAATCCTAACAATATTGTTGGCTTAGACCCAGAAATCGAAATAACCATTAAAAGGAGGAGACA
131 AGAAATCCTAACAATATTGTTGGCTTAGACCCAGAAATCAAAATAACCATTAAAAGGAGGAGACA
9273527 AAAGCAAAGAAATATGGCTTTACTTGAAAATAATGATATACCACAGTTGTCGCCACAAAATTATA
196 AAAGCAAAGAAATATGGCTTTACTTGAAAATAATGATATACCACAGTTGTCGCCACAAAATTATA
9273592 TCCCTCCAATACAGTTACAAAATTTCAACAATGCACCGCTGCCACAAGAAGAACAAATACAGAAT
261 TCCCTCCAATACAGTTACAAAATTTCAACAATGCACCGCTGCCACAAGAAGAACAAATACAGAAT
9273657 AGAACAATCAGATATTTTGTTGTTCCTGTGTTAGATAACTTGCAGCCAGGGGTTGAGACCAACGA
326 AGAACAATCAGATATTTTGTTGTTCCTGTGTTAGATAACTTGCAGCCAGGGGTTGAGACCAACGA
9273722 TCCAAGTTGGAAATTTTGAATTAAAACCGATGATGTTTCAGAAGTTGAACTCAAATGGGCAATAT
391 TCCAAGTTGGAAATTTTGAATTAAAACCGATGATGTTTCAGAAGTTGAACTCAAATGGGCAATAT
9273787 GCTGGTTTGCCTCATGAAGATGTGAAGGAGAATCTTAAATCTTTTCTACTAATATGTGCTTCTTT
456 GCTGGTTTGCCTCATGAAGATGTGAAGGAGAATCTTAAATCTTTTCTACTAATATGTGCTTCTTT
9273852 TAGTCAGCATGGTGTTCCTGATAATGCCTT
521 TAGTCAGCATGGTGTTCCTGATAATGCCTT
9273882 GA
1 GA
9273884 AGATGCATCT
Statistics
Matches: 548, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
550 548 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (550 bp):
GATGACGTTTGTTTGATATTTATTTTTGTAGTTGCAATTATTCTGTATTTACTGACTTTTATTTG
TTACTAATCTGTTTAATTTTGTTAATTCTTTTCAACTCTCTTTTAGGTATTATATGAACACGAGG
AGAAATCCTAACAATATTGTTGGCTTAGACCCAGAAATCAAAATAACCATTAAAAGGAGGAGACA
AAAGCAAAGAAATATGGCTTTACTTGAAAATAATGATATACCACAGTTGTCGCCACAAAATTATA
TCCCTCCAATACAGTTACAAAATTTCAACAATGCACCGCTGCCACAAGAAGAACAAATACAGAAT
AGAACAATCAGATATTTTGTTGTTCCTGTGTTAGATAACTTGCAGCCAGGGGTTGAGACCAACGA
TCCAAGTTGGAAATTTTGAATTAAAACCGATGATGTTTCAGAAGTTGAACTCAAATGGGCAATAT
GCTGGTTTGCCTCATGAAGATGTGAAGGAGAATCTTAAATCTTTTCTACTAATATGTGCTTCTTT
TAGTCAGCATGGTGTTCCTGATAATGCCTT
Found at i:9274763 original size:18 final size:18
Alignment explanation
Indices: 9274718--9274764 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
9274708 TCATGATAAA
9274718 ATGCAGTCACATACTCAG
1 ATGCAGTCACATACTCAG
* * *
9274736 ATGTAATCACATGCTC-G
1 ATGCAGTCACATACTCAG
9274753 TATGCAGTCACA
1 -ATGCAGTCACA
9274765 GTAGGCTGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (18 bp):
ATGCAGTCACATACTCAG
Found at i:9286074 original size:13 final size:14
Alignment explanation
Indices: 9286058--9286094 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
9286048 TTTATTATGC
9286058 TTAATTTTTATA-T
1 TTAATTTTTATACT
*
9286071 TTAATATTTATACT
1 TTAATTTTTATACT
9286085 TTAATTTTTA
1 TTAATTTTTA
9286095 ACATAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTAATTTTTATACT
Found at i:9287593 original size:11 final size:11
Alignment explanation
Indices: 9287577--9287615 Score: 78
Period size: 11 Copynumber: 3.5 Consensus size: 11
9287567 TTTGATAAGA
9287577 CACACATCTTG
1 CACACATCTTG
9287588 CACACATCTTG
1 CACACATCTTG
9287599 CACACATCTTG
1 CACACATCTTG
9287610 CACACA
1 CACACA
9287616 CAGGTGCTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (11 bp):
CACACATCTTG
Found at i:9291043 original size:3 final size:3
Alignment explanation
Indices: 9291035--9291070 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
9291025 CTTTCTGATG
*
9291035 TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT TAA TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9291071 TTTTATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9291059 original size:17 final size:17
Alignment explanation
Indices: 9291037--9291076 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
9291027 TTCTGATGTA
*
9291037 TTATTATTATTATTATT
1 TTATTATTATTAATATT
9291054 TTATTATTATTAATATT
1 TTATTATTATTAATATT
9291071 TT-TTAT
1 TTATTAT
9291077 AAAAGAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTATTATTAATATT
Found at i:9291348 original size:19 final size:21
Alignment explanation
Indices: 9291317--9291358 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
9291307 ATTAATTGAA
9291317 TTAATTAAAATTTTT-AATTT
1 TTAATTAAAATTTTTAAATTT
9291337 TTAATT-AAATTTTTAAATTT
1 TTAATTAAAATTTTTAAATTT
9291357 TT
1 TT
9291359 TTTAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAATTAAAATTTTTAAATTT
Found at i:9291379 original size:23 final size:23
Alignment explanation
Indices: 9291315--9291388 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
9291305 ATATTAATTG
*
9291315 AATT-AATTAAAATTTTTAATTTTT
1 AATTAAATTAAAATATTT--TTTTT
**
9291339 AATTAAATTTTTAA-ATTTTTTTT
1 AATTAAA-TTAAAATATTTTTTTT
**
9291362 AATTAAATTAAAATATTTCATTT
1 AATTAAATTAAAATATTTTTTTT
9291385 AATT
1 AATT
9291389 CGGTTGGTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 4 0.10
23 23 0.57
24 4 0.10
25 5 0.12
26 4 0.10
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTAAATTAAAATATTTTTTTT
Found at i:9295466 original size:2 final size:2
Alignment explanation
Indices: 9295455--9295492 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
9295445 TGAGACCCAT
9295455 TA TA -A 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 TA T
9295493 TTGTGTGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9298546 original size:9 final size:9
Alignment explanation
Indices: 9298534--9298559 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9298524 TCGAATTATT
9298534 CGAATAAAC
1 CGAATAAAC
9298543 CGAATAAAC
1 CGAATAAAC
9298552 CGAATAAA
1 CGAATAAA
9298560 ACTATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.19, G:0.12, T:0.12
Consensus pattern (9 bp):
CGAATAAAC
Found at i:9299470 original size:5 final size:5
Alignment explanation
Indices: 9299460--9299496 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
9299450 AAAAATTTTC
*
9299460 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCA ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AT
9299497 CGAATGCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:9301314 original size:20 final size:20
Alignment explanation
Indices: 9301277--9301315 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9301267 AGGATTATAT
*
9301277 AAAATCTTTAACTCAACAAA
1 AAAATCTTTAACTAAACAAA
* *
9301297 AAAATCTTTCAGTAAACAA
1 AAAATCTTTAACTAAACAA
9301316 TCATATGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.18, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAATCTTTAACTAAACAAA
Found at i:9301379 original size:24 final size:24
Alignment explanation
Indices: 9301352--9301400 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9301342 AACCCAAAAC
9301352 TTTTCTCTATTATTGAGTTTTGAA
1 TTTTCTCTATTATTGAGTTTTGAA
9301376 TTTTCTCTATTATTGAGTTTTGAA
1 TTTTCTCTATTATTGAGTTTTGAA
9301400 T
1 T
9301401 CTAGATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.12, T:0.59
Consensus pattern (24 bp):
TTTTCTCTATTATTGAGTTTTGAA
Found at i:9303460 original size:58 final size:58
Alignment explanation
Indices: 9303390--9303504 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
9303380 AATGATAAGT
9303390 ATGACAACCTGAACATCGTCAAAAGTGATAGCAAGAACTGAGTTAGAATTCAATTCCC
1 ATGACAACCTGAACATCGTCAAAAGTGATAGCAAGAACTGAGTTAGAATTCAATTCCC
*
9303448 ATGACAATCTGAACATCGTCAAAAGTGATAGCAAGAACTGAGTTAGAATTCAATTCC
1 ATGACAACCTGAACATCGTCAAAAGTGATAGCAAGAACTGAGTTAGAATTCAATTCC
9303505 TCCTCAAAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.23
Consensus pattern (58 bp):
ATGACAACCTGAACATCGTCAAAAGTGATAGCAAGAACTGAGTTAGAATTCAATTCCC
Found at i:9307163 original size:34 final size:34
Alignment explanation
Indices: 9307120--9307195 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
9307110 CATAAATCAA
* * *
9307120 ACCCAAATATTTTTAATTTTTTACCTTTTATCTT
1 ACCCAAATATTTCTAATATTTTACCTTTTACCTT
*
9307154 ACCCAAATATTTCTAATATTTTATCTTTTACCTT
1 ACCCAAATATTTCTAATATTTTACCTTTTACCTT
9307188 ACCCAAAT
1 ACCCAAAT
9307196 TTTGTTTACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (34 bp):
ACCCAAATATTTCTAATATTTTACCTTTTACCTT
Found at i:9318714 original size:17 final size:17
Alignment explanation
Indices: 9318689--9318726 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9318679 AGAAGCAAGT
* *
9318689 AAAAGGAAGGGCAAAGC
1 AAAAAGAAGGGCAAAAC
9318706 AAAAAGAAGGGCAAAAC
1 AAAAAGAAGGGCAAAAC
9318723 AAAA
1 AAAA
9318727 GCAGAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGGGCAAAAC
Found at i:9329343 original size:15 final size:15
Alignment explanation
Indices: 9329325--9329371 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
9329315 TAAATTCTTC
9329325 AAATTTTAATTTAAT
1 AAATTTTAATTTAAT
9329340 AAATTTTAATTTAAT
1 AAATTTTAATTTAAT
* *
9329355 AAATTGTAATTAAAT
1 AAATTTTAATTTAAT
9329370 AA
1 AA
9329372 TTGATGTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AAATTTTAATTTAAT
Found at i:9335027 original size:20 final size:20
Alignment explanation
Indices: 9334999--9335055 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
9334989 CCACGAAAAC
*
9334999 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
9335019 AAATTATTTTGAAGAA-TA-TA
1 AAATTATTTT-AA-AATTATTA
9335039 AAATTA--TTAAAATTATT
1 AAATTATTTTAAAATTATT
9335056 TTTTTTGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 2 0.06
17 4 0.12
18 3 0.09
20 17 0.53
21 4 0.12
22 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:9335088 original size:29 final size:30
Alignment explanation
Indices: 9335008--9335088 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 30
9334998 CAAATGATTT
9335008 TAAAATTATT-AA-AATTATTTTGAAGAATA
1 TAAAATTATTAAATAATT-TTTTGAAGAATA
*
9335037 TAAAATTATTAAAATTATTTTTTTTG-A-AATAA
1 TAAAATTATT-AAA-TA-ATTTTTTGAAGAAT-A
9335069 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATAATTTT
9335089 ATTTTTTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
29 14 0.32
30 2 0.05
31 8 0.18
32 12 0.27
33 6 0.14
34 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (30 bp):
TAAAATTATTAAATAATTTTTTGAAGAATA
Found at i:9336097 original size:9 final size:9
Alignment explanation
Indices: 9336067--9336109 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
9336057 TTTGTTAGTG
9336067 TTTAATTTGT
1 TTTAA-TTGT
9336077 TTTAATT-T
1 TTTAATTGT
*
9336085 TTTAATTGA
1 TTTAATTGT
9336094 TTTAATTGT
1 TTTAATTGT
*
9336103 GTTAATT
1 TTTAATT
9336110 ATGAGTCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 8 0.28
9 16 0.55
10 5 0.17
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (9 bp):
TTTAATTGT
Found at i:9336099 original size:17 final size:18
Alignment explanation
Indices: 9336067--9336100 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9336057 TTTGTTAGTG
*
9336067 TTTAATTTGTTTTAATTT
1 TTTAATTTGATTTAATTT
9336085 TTTAA-TTGATTTAATT
1 TTTAATTTGATTTAATT
9336101 GTGTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTAATTTGATTTAATTT
Found at i:9342687 original size:97 final size:97
Alignment explanation
Indices: 9342510--9342695 Score: 223
Period size: 97 Copynumber: 1.9 Consensus size: 97
9342500 AAAAGGATGC
* * *
9342510 TCGATTATCTCGATTCGAATAAAAGTCGCACCTAGTAAGTTAAGGCATAAACTTTCAGAATCAGA
1 TCGATTATCTCGATTCGAAGAAAAATCGCACCTAGTAAGTTAAGGCATAAACTTTCAAAATCAGA
* * *
9342575 GATAAAGAAACATTGCCTCGATTTAAGGGTAT
66 AACAAAGAAACATTGCCTCAATTTAAGGGTAT
* * * * * *
9342607 TCGATTATTTCGATTTGAAGAAAAATCGCGCCTAGTACGTTAAGGCATAAATTTTTAAAACTC-G
1 TCGATTATCTCGATTCGAAGAAAAATCGCACCTAGTAAGTTAAGGCATAAACTTTCAAAA-TCAG
*
9342671 AAACAAATG-AATATTGCCTCAATTT
65 AAACAAA-GAAACATTGCCTCAATTT
9342696 TAAAGGTTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
97 71 0.96
98 3 0.04
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (97 bp):
TCGATTATCTCGATTCGAAGAAAAATCGCACCTAGTAAGTTAAGGCATAAACTTTCAAAATCAGA
AACAAAGAAACATTGCCTCAATTTAAGGGTAT
Found at i:9343034 original size:59 final size:60
Alignment explanation
Indices: 9342941--9343402 Score: 398
Period size: 58 Copynumber: 7.9 Consensus size: 60
9342931 TTTTGGAAAC
* *** * * **
9342941 TCGA-GGTCAAAATGGCAATTTTTGGAAGGTTCGGGGTCAAAAAAGAAATTTTTAGTCA-T
1 TCGAGGGT-AAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAAAGGAATTTTTAGAAAGT
* * * * * * *
9343000 CCAAGGGTAAAATGGTAATTTTTGAAAAAATCGGGGTTAAAAATA-GACTTTTTGGAAA-T
1 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAA-AGGAATTTTTAGAAAGT
* * *
9343059 TTGAGAGTAAAATGGTAATTTTTGGAAAAATCGAGGT-AAAAAATGGAA-TTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAAA-GGAATTTTTAGAAAGT
* * *
9343118 TCGAGGGTAAAAT-GTAATTTTTGGAGAAATCGAGGTCAAAAATGGAA-TTTTAAAAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAAAGGAATTTTTAGAAAGT
* * *
9343176 TCGAGGGTAAAATGGTAA-TTTTGGAAAAATTGAGGTCAAAAATGGAGTTTTTAG-AAGT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAAAGGAATTTTTAGAAAGT
* ** * *
9343234 TCGAGGGTAAAATGGTAATTTTTGGAGAAATAAAGGTTAAAAATA-GAA-TTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAA-AGGAATTTTTAGAAAGT
* * * ** * * *
9343293 TTGGGGGTAAAAAT-GTAATTTTTGGAGAAATAAAGGT-TAAAATGGAA-TTTTGGAAAGT
1 TCGAGGGT-AAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAAAGGAATTTTTAGAAAGT
* * *
9343351 TTGGGGGTAAAATGGTAATTTTTGGAGAAATCGAGGT-AAAAAATGGAATTTT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAAA-GGAATTTT
9343403 GGAAGTTTGG
Statistics
Matches: 342, Mismatches: 45, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
57 6 0.02
58 166 0.49
59 158 0.46
60 12 0.04
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (60 bp):
TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAAAGGAATTTTTAGAAAGT
Found at i:9343036 original size:29 final size:30
Alignment explanation
Indices: 9343003--9343391 Score: 228
Period size: 29 Copynumber: 13.3 Consensus size: 30
9342993 TAGTCATCCA
*
9343003 AGGGTAAAATGGTAATTTTTGAAAAAATCG
1 AGGGTAAAATGGTAATTTTTGGAAAAATCG
* * * *
9343033 -GGGTTAAAAATAG-ACTTTTTGG-AAATTTG
1 AGGG-T-AAAATGGTAATTTTTGGAAAAATCG
*
9343062 AGAGTAAAATGGTAATTTTTGGAAAAATCG
1 AGGGTAAAATGGTAATTTTTGGAAAAATCG
**
9343092 A-GGTAAAAAATGG-AA-TTTTGGAAAGTTCG
1 AGGGT--AAAATGGTAATTTTTGGAAAAATCG
*
9343121 AGGGTAAAAT-GTAATTTTTGGAGAAATCG
1 AGGGTAAAATGGTAATTTTTGGAAAAATCG
9343150 A-GGTCAAAAATGG-AA-TTTT--AAAAAGTTCG
1 AGGGT--AAAATGGTAATTTTTGGAAAAA--TCG
*
9343179 AGGGTAAAATGGTAA-TTTTGGAAAAATTG
1 AGGGTAAAATGGTAATTTTTGGAAAAATCG
* * **
9343208 A-GGTCAAAAATGG-AGTTTTTAG-AAGTTCG
1 AGGGT--AAAATGGTAATTTTTGGAAAAATCG
* **
9343237 AGGGTAAAATGGTAATTTTTGGAGAAATAA
1 AGGGTAAAATGGTAATTTTTGGAAAAATCG
* * ** *
9343267 AGGTTAAAAATAG-AA-TTTTGGAAAGTTTG
1 AGGGT-AAAATGGTAATTTTTGGAAAAATCG
* * **
9343296 GGGGTAAAAAT-GTAATTTTTGGAGAAATAA
1 AGGGT-AAAATGGTAATTTTTGGAAAAATCG
* ** *
9343326 AGGTTAAAATGG-AA-TTTTGGAAAGTTTG
1 AGGGTAAAATGGTAATTTTTGGAAAAATCG
* *
9343354 GGGGTAAAATGGTAATTTTTGGAGAAATCG
1 AGGGTAAAATGGTAATTTTTGGAAAAATCG
9343384 A-GGTAAAA
1 AGGGTAAAA
9343392 AATGGAATTT
Statistics
Matches: 270, Mismatches: 58, Indels: 63
0.69 0.15 0.16
Matches are distributed among these distances:
27 5 0.02
28 53 0.20
29 110 0.41
30 77 0.29
31 25 0.09
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (30 bp):
AGGGTAAAATGGTAATTTTTGGAAAAATCG
Found at i:9343135 original size:58 final size:59
Alignment explanation
Indices: 9343003--9343430 Score: 501
Period size: 58 Copynumber: 7.3 Consensus size: 59
9342993 TAGTCATCCA
* * * * * *
9343003 AGGGTAAAATGGTAATTTTTGAAAAAATCGGGGTTAAAAATAGACTTTTTGGAAA-TTTG
1 AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTAAAAAATGGA-ATTTTGGAAAGTTTG
* * *
9343062 AGAGTAAAATGGTAATTTTTGGAAAAATCGAGGTAAAAAATGGAATTTTGGAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTAAAAAATGGAATTTTGGAAAGTTTG
* ** *
9343121 AGGGTAAAAT-GTAATTTTTGGAGAAATCGAGGTCAAAAATGGAATTTTAAAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTAAAAAATGGAATTTTGGAAAGTTTG
* * * * * *
9343179 AGGGTAAAATGGTAA-TTTTGGAAAAATTGAGGTCAAAAATGGAGTTTT-TAGAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTAAAAAATGGAATTTTGGA-AAGTTTG
** * *
9343237 AGGGTAAAATGGTAATTTTTGGAGAAATAAAGGTTAAAAATAGAATTTTGGAAAGTTTG
1 AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTAAAAAATGGAATTTTGGAAAGTTTG
* ** *
9343296 GGGGTAAAAAT-GTAATTTTTGGAGAAATAAAGGT-TAAAATGGAATTTTGGAAAGTTTG
1 AGGGT-AAAATGGTAATTTTTGGAGAAATCGAGGTAAAAAATGGAATTTTGGAAAGTTTG
*
9343354 GGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTAAAAAATGGAATTTTGG-AAGTTTG
1 AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTAAAAAATGGAATTTTGGAAAGTTTG
* **
9343412 GGGGTAAAAAAGTAATTTT
1 AGGGTAAAATGGTAATTTT
9343431 GGATAGTTTA
Statistics
Matches: 329, Mismatches: 32, Indels: 17
0.87 0.08 0.04
Matches are distributed among these distances:
57 6 0.02
58 187 0.57
59 130 0.40
60 6 0.02
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.31
Consensus pattern (59 bp):
AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTAAAAAATGGAATTTTGGAAAGTTTG
Found at i:9343191 original size:117 final size:117
Alignment explanation
Indices: 9343003--9343430 Score: 526
Period size: 117 Copynumber: 3.7 Consensus size: 117
9342993 TAGTCATCCA
* * * * *
9343003 AGGGTAAAATGGTAATTTTTGAAAAAATCGGGGTTAAAAATAGACTTTTTGGAAA-TTTGAGAGT
1 AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTTAAAAATAGA-ATTTTGGAAAGTTTGAGGGT
*
9343067 AAAATGGTAATTTTTGGAAAAATCGAGGTAAAAAATGGAATTTTGGAAAGTTCG
65 AAAATGGTAATTTTTGGAAAAATAGAGGT-AAAAATGGAATTTTGGAAAGTTCG
* * ** *
9343121 AGGGTAAAAT-GTAATTTTTGGAGAAATCGAGGTCAAAAATGGAATTTTAAAAAGTTCGAGGGTA
1 AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTTGAGGGTA
* * *
9343185 AAATGGTAA-TTTTGGAAAAATTGAGGTCAAAAATGGAGTTTT-TAGAAGTTCG
66 AAATGGTAATTTTTGGAAAAATAGAGGT-AAAAATGGAATTTTGGA-AAGTTCG
** *
9343237 AGGGTAAAATGGTAATTTTTGGAGAAATAAAGGTTAAAAATAGAATTTTGGAAAGTTTGGGGGTA
1 AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTTGAGGGT-
* * * *
9343302 AAAAT-GTAATTTTTGGAGAAATAAAGGTTAAAATGGAATTTTGGAAAGTTTG
65 AAAATGGTAATTTTTGGAAAAATAGAGGTAAAAATGGAATTTTGGAAAGTTCG
* * * *
9343354 GGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTAAAAAATGGAATTTTGG-AAGTTTGGGGGTA
1 AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTTGAGGGTA
**
9343418 AAAAAGTAATTTT
66 AAATGGTAATTTT
9343431 GGATAGTTTA
Statistics
Matches: 268, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
115 5 0.02
116 74 0.28
117 158 0.59
118 31 0.12
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.31
Consensus pattern (117 bp):
AGGGTAAAATGGTAATTTTTGGAGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTTGAGGGTA
AAATGGTAATTTTTGGAAAAATAGAGGTAAAAATGGAATTTTGGAAAGTTCG
Found at i:9343417 original size:29 final size:29
Alignment explanation
Indices: 9343331--9343439 Score: 100
Period size: 29 Copynumber: 3.7 Consensus size: 29
9343321 AATAAAGGTT
9343331 AAAATGGAATTTTGGAAAGTTTGGGGGT--
1 AAAATGGAATTTTGG-AAGTTTGGGGGTAA
** * *
9343359 AAAATGGTAATTTTTGG-AGAAATCGAGGTAA
1 AAAATGG-AA-TTTTGGAAG-TTTGGGGGTAA
9343390 AAAATGGAATTTTGGAAGTTTGGGGGTAA
1 AAAATGGAATTTTGGAAGTTTGGGGGTAA
*
9343419 AAAA-GTAATTTTGGATAGTTT
1 AAAATGGAATTTTGGA-AGTTT
9343440 AGGGACCTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
28 19 0.29
29 29 0.45
30 10 0.15
31 7 0.11
ACGTcount: A:0.37, C:0.01, G:0.29, T:0.33
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAGTTTGGGGGTAA
Found at i:9345141 original size:17 final size:17
Alignment explanation
Indices: 9345121--9345158 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9345111 AAATGGATTC
*
9345121 AAATTTAATATAAACTT
1 AAATTTAAAATAAACTT
*
9345138 AAATTTAAAATAAATTT
1 AAATTTAAAATAAACTT
9345155 AAAT
1 AAAT
9345159 CTATTGGGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTAAAATAAACTT
Found at i:9345668 original size:39 final size:39
Alignment explanation
Indices: 9345538--9345674 Score: 121
Period size: 39 Copynumber: 3.5 Consensus size: 39
9345528 TAACTACAAG
* * **
9345538 CTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTGAT
1 CTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACAGTGAT
* ** ** * * *
9345577 CTACCCCAATATCGGGGTAAGAGATTGAATGGCTGTAAT
1 CTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACAGTGAT
* ** *
9345616 TTGCCCCTGGCTCGGGGTAAGAGATTGGTTGACACTGAT
1 CTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACAGTGAT
*
9345655 CTGCCCCAAGCTCGAGGTAA
1 CTGCCCCAAGCTCGGGGTAA
9345675 AATATCAAAT
Statistics
Matches: 71, Mismatches: 27, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (39 bp):
CTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACAGTGAT
Done.