Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 140 of 226
Found at i:46721664 original size:24 final size:25
Alignment explanation
Indices: 46721594--46721677 Score: 81
Period size: 24 Copynumber: 3.6 Consensus size: 25
46721584 AATTTATTTC
46721594 TTAATATAATAT-TTATA-ATATAA
1 TTAATATAATATATTATATATATAA
* *
46721617 TTAATTTAATA-A-TATACTTTATAA
1 TTAATATAATATATTATA-TATATAA
*
46721641 TTAAT-TAATATATTATATAAATAA
1 TTAATATAATATATTATATATATAA
*
46721665 ATAATATAA-ATAT
1 TTAATATAATATAT
46721678 CTAAGATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
22 4 0.08
23 15 0.30
24 24 0.48
25 7 0.14
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAATATAATATATTATATATATAA
Found at i:46730554 original size:3 final size:3
Alignment explanation
Indices: 46730546--46730585 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
46730536 ATATGTAGGT
*
46730546 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
46730586 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46730569 original size:15 final size:12
Alignment explanation
Indices: 46730548--46730599 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
46730538 ATGTAGGTAT
46730548 AATAATAATATATA
1 AATAATAATA-A-A
46730562 ATATAATAATAAA
1 A-ATAATAATAAA
46730575 AATAATAATAACA
1 AATAATAATAA-A
*
46730588 AA-ATTAATAAA
1 AATAATAATAAA
46730599 A
1 A
46730600 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:46731129 original size:21 final size:21
Alignment explanation
Indices: 46731103--46731152 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
46731093 AATCATATCT
*
46731103 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
46731124 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
46731145 TCTAAGAT
1 TCTAAGAT
46731153 CTAAGATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:46731678 original size:132 final size:132
Alignment explanation
Indices: 46731439--46732355 Score: 1457
Period size: 132 Copynumber: 7.0 Consensus size: 132
46731429 ACTGCCACTT
* * *
46731439 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCTACTACTG
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATTTGCTCCACTACTG
* *
46731504 CTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGGTCAGGGAGACAAGGCTTGGT
66 CTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
46731569 GG
131 GG
* * * * *
46731571 ATTAAATCTGCATCCCACTATCTTGGAAAGATAAGATTTACCGTCTTTGATTTGCTCCATTACTG
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATTTGCTCCACTACTG
*
46731636 CTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCATGGAGACAAGGCTTGGT
66 CTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
46731701 GG
131 GG
* * *
46731703 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTG-TTCTGCTCCACTGCT
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATT-TGCTCCACTACT
46731767 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGG
65 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGG
46731832 TGG
130 TGG
* * *
46731835 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTG
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATTTGCTCCACTACTG
* * *
46731900 TTTAGGTAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTTAGGGAGACAAGGCTTGGT
66 CTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
46731965 GG
131 GG
*
46731967 CTT-AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTT-CTCCACTACT
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGAT-TTGCTCCACTACT
46732030 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGG
65 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGG
46732095 T-G
130 TGG
* * ** *
46732097 CTTAAATCTACTTCCCACTCTCTTGGAAAGATAAGATTTTTCGTCTTCAATCTT-CTCCACTACT
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGAT-TTGCTCCACTACT
* *
46732161 ACTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGTTTGG
65 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGG
46732226 TGG
130 TGG
* * *
46732229 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCCACTACTG
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATTTGCTCCACTACTG
* * * *
46732294 CTTAGGGAGAAAAGATCTACGATCCTCAACCTACTCCGCTGTTGCTCAGGGAGACAAGGCTT
66 CTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTT
46732356 AGTGTTTCAC
Statistics
Matches: 729, Mismatches: 50, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
130 4 0.01
131 239 0.33
132 485 0.67
133 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATTTGCTCCACTACTG
CTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
GG
Found at i:46732043 original size:44 final size:44
Alignment explanation
Indices: 46731467--46732309 Score: 189
Period size: 44 Copynumber: 19.2 Consensus size: 44
46731457 TATCTTGGAA
** * * *
46731467 AGATAAGATTTGTCGTCTTCGATCTGCTCTACTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** * * * *
46731511 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGGTCAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** *** ** * * *
46731555 AGACAAGGCTTGGTGGATTAAATCTGCATCCCACTA-T-CTT-GGAA
1 AGATAAGATTTACCGTCTTCAATCTAC-T-CCACTACTGCTTAGG-G
** * * *
46731599 AGATAAGATTTACCGTCTTTGATTTGCTCCATTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** * * * * *
46731643 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCATGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** *** * * * *
46731687 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTACCGTCTTCAATCTAC-T-CCACTACTGCTTAGG-G
* * *** * *
46731731 AGATAAGATTTGCCATCTTTGTTCTGCTCCACTGCTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** * * * *
46731775 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** *** * * * *
46731819 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTACCGTCTTCAATCTAC-T-CCACTACTGCTTAGG-G
* * ** * * *
46731863 AGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGTTTAGGT
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** * * *
46731907 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** *** * * *
46731951 AGACAAGGCTTGGTGGCTT-AATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTACCGTCTTCAATCTAC-T-CCACTACTGCTTAGG-G
* *
46731994 AGATAAGATTTACCGTCTTCGATCTTCTCCACTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** * * * *
46732038 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** * * *
46732082 AGACAAGGCTT--GGTGCTTAAATCTACTTCCCACT-CT-CTT-GGAA
1 AGATAAGATTTACCGT-CTTCAATCTAC-T-CCACTACTGCTTAGG-G
** * *
46732125 AGATAAGATTTTTCGTCTTCAATCTTCTCCACTACTACTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** * * * *
46732169 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
* * *** * * * *
46732213 AGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTACCGTCTTCAATCTAC-T-CCACTACTGCTTAGG-G
** *
46732257 AGATAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
*
46732301 AGAAAAGAT
1 AGATAAGAT
46732310 CTACGATCCT
Statistics
Matches: 539, Mismatches: 220, Indels: 80
0.64 0.26 0.10
Matches are distributed among these distances:
42 38 0.07
43 59 0.11
44 395 0.73
45 30 0.06
46 17 0.03
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTACCGTCTTCAATCTACTCCACTACTGCTTAGGG
Found at i:46740026 original size:3 final size:3
Alignment explanation
Indices: 46740018--46740057 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
46740008 ATATGTAGGT
*
46740018 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
46740058 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46740041 original size:15 final size:12
Alignment explanation
Indices: 46740020--46740071 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
46740010 ATGTAGGTAT
46740020 AATAATAATATATA
1 AATAATAATA-A-A
46740034 ATATAATAATAAA
1 A-ATAATAATAAA
46740047 AATAATAATAACA
1 AATAATAATAA-A
*
46740060 AA-ATTAATAAA
1 AATAATAATAAA
46740071 A
1 A
46740072 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:46740442 original size:53 final size:55
Alignment explanation
Indices: 46740340--46740443 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
46740330 CCACCTTTAA
*
46740340 AAAACTGCCAACCGTTCTCCCTTTTTTATTGATTCCTTTTTTTTCTTTTTTTTTT
1 AAAACTGCCAACCGTTCTCCCTTTTTTATTGACTCCTTTTTTTTCTTTTTTTTTT
* * * *
46740395 AAAACTGCCAATCGTTCT-CTTTTTTTATT-CCTCCTTTTCTTT-TTTTTTT
1 AAAACTGCCAACCGTTCTCCCTTTTTTATTGACTCCTTTTTTTTCTTTTTTT
46740444 CTAACAATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
52 7 0.16
53 10 0.23
54 10 0.23
55 17 0.39
ACGTcount: A:0.14, C:0.22, G:0.05, T:0.59
Consensus pattern (55 bp):
AAAACTGCCAACCGTTCTCCCTTTTTTATTGACTCCTTTTTTTTCTTTTTTTTTT
Found at i:46740601 original size:21 final size:21
Alignment explanation
Indices: 46740575--46740624 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
46740565 AATCATATCT
*
46740575 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
46740596 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
46740617 TCTAAGAT
1 TCTAAGAT
46740625 CTAAGATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:46747238 original size:26 final size:26
Alignment explanation
Indices: 46747196--46747257 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
46747186 TCTAGTAATT
46747196 AAAATT-AATG-T-TAATTAAACTGA
1 AAAATTGAATGTTCTAATTAAACTGA
*
46747219 AATATTGAATGTTCTAATTAAACTGA
1 AAAATTGAATGTTCTAATTAAACTGA
46747245 AAAATTGAATGTT
1 AAAATTGAATGTT
46747258 TTCTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 5 0.15
24 4 0.12
25 1 0.03
26 24 0.71
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (26 bp):
AAAATTGAATGTTCTAATTAAACTGA
Found at i:46749357 original size:26 final size:26
Alignment explanation
Indices: 46749327--46749378 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46749317 AAAATTAATG
46749327 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46749353 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46749379 TTCTTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46751521 original size:26 final size:26
Alignment explanation
Indices: 46751491--46751542 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46751481 AAAATTAATG
46751491 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46751517 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46751543 TTCTTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46753625 original size:26 final size:26
Alignment explanation
Indices: 46753596--46753649 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
46753586 AATATTAATG
46753596 TGCGTCCTTGAATTAATATTTAGATT
1 TGCGTCCTTGAATTAATATTTAGATT
46753622 TGCGTCCTTGAATTAATATTTAGATT
1 TGCGTCCTTGAATTAATATTTAGATT
46753648 TG
1 TG
46753650 TAGTAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (26 bp):
TGCGTCCTTGAATTAATATTTAGATT
Found at i:46755699 original size:26 final size:26
Alignment explanation
Indices: 46755657--46755718 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
46755647 TCTAGTAATT
46755657 AAAATT-AATG-T-TAATTAAACTGA
1 AAAATTGAATGTTCTAATTAAACTGA
*
46755680 AATATTGAATGTTCTAATTAAACTGA
1 AAAATTGAATGTTCTAATTAAACTGA
46755706 AAAATTGAATGTT
1 AAAATTGAATGTT
46755719 TTCTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 5 0.15
24 4 0.12
25 1 0.03
26 24 0.71
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (26 bp):
AAAATTGAATGTTCTAATTAAACTGA
Found at i:46757821 original size:26 final size:26
Alignment explanation
Indices: 46757779--46757840 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
46757769 TCTAGTAATT
46757779 AAAATT-AATG-T-TAATTAAACTGA
1 AAAATTGAATGTTCTAATTAAACTGA
*
46757802 AATATTGAATGTTCTAATTAAACTGA
1 AAAATTGAATGTTCTAATTAAACTGA
46757828 AAAATTGAATGTT
1 AAAATTGAATGTT
46757841 TTCTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 5 0.15
24 4 0.12
25 1 0.03
26 24 0.71
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (26 bp):
AAAATTGAATGTTCTAATTAAACTGA
Found at i:46759947 original size:26 final size:26
Alignment explanation
Indices: 46759911--46759961 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
46759901 AAATTAATAT
*
46759911 TAATTAAACTGAAATATTGAATGTTC
1 TAATTAAACTGAAAAATTGAATGTTC
46759937 TAATTAAACTGAAAAATTGAATGTT
1 TAATTAAACTGAAAAATTGAATGTT
46759962 TTCTTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (26 bp):
TAATTAAACTGAAAAATTGAATGTTC
Found at i:46770600 original size:26 final size:26
Alignment explanation
Indices: 46770570--46770621 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46770560 AAAATTAATG
*
46770570 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
46770596 CTAATTAAACTAAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
46770622 TTCTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTAAAATATTGAATGTT
Found at i:46771308 original size:22 final size:22
Alignment explanation
Indices: 46771280--46771343 Score: 119
Period size: 22 Copynumber: 2.9 Consensus size: 22
46771270 TGTTGATAGT
*
46771280 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
46771302 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
46771324 ACGTACTAAGCTCTCATGTT
1 ACGTACTAAGCTCTCATGTT
46771344 CATCTCAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:46776904 original size:26 final size:26
Alignment explanation
Indices: 46776874--46776925 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46776864 TAAATTAATG
46776874 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46776900 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46776926 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46779026 original size:26 final size:26
Alignment explanation
Indices: 46778996--46779047 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46778986 TAAATTAATG
46778996 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46779022 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46779048 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46781147 original size:26 final size:26
Alignment explanation
Indices: 46781117--46781168 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46781107 TAAATTAATG
46781117 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46781143 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46781169 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46789719 original size:26 final size:26
Alignment explanation
Indices: 46789689--46789740 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46789679 AAAATTAATG
*
46789689 CTAATTAAACTGAAATATTGAATGTT
1 CTAATAAAACTGAAATATTGAATGTT
46789715 CTAATAAAACTGAAATATTGAATGTT
1 CTAATAAAACTGAAATATTGAATGTT
46789741 TTCTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.37
Consensus pattern (26 bp):
CTAATAAAACTGAAATATTGAATGTT
Found at i:46796030 original size:26 final size:26
Alignment explanation
Indices: 46796000--46796051 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46795990 TAAATTAATG
46796000 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46796026 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46796052 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46800244 original size:26 final size:26
Alignment explanation
Indices: 46800215--46800264 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
46800205 AATTAATGCT
46800215 AATTAAACTGAAATATTGAATGTTCG
1 AATTAAACTGAAATATTGAATGTTCG
46800241 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
46800265 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCG
Found at i:46802365 original size:26 final size:26
Alignment explanation
Indices: 46802336--46802385 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
46802326 AATTAATGCT
46802336 AATTAAACTGAAATATTGAATGTTCG
1 AATTAAACTGAAATATTGAATGTTCG
46802362 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
46802386 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCG
Found at i:46804484 original size:26 final size:26
Alignment explanation
Indices: 46804455--46804504 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
46804445 AATTAATGCT
46804455 AATTAAACTGAAATATTGAATGTTCG
1 AATTAAACTGAAATATTGAATGTTCG
46804481 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
46804505 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCG
Found at i:46806601 original size:26 final size:26
Alignment explanation
Indices: 46806571--46806622 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46806561 AAAATTAATG
46806571 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46806597 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46806623 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46808805 original size:26 final size:26
Alignment explanation
Indices: 46808775--46808826 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46808765 AAAATTAATG
46808775 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46808801 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46808827 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46810936 original size:26 final size:26
Alignment explanation
Indices: 46810906--46810957 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46810896 AAAATTAATG
46810906 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46810932 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46810958 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46815176 original size:26 final size:26
Alignment explanation
Indices: 46815146--46815197 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46815136 AAAATTAATG
46815146 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46815172 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46815198 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46817247 original size:26 final size:26
Alignment explanation
Indices: 46817217--46817268 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46817207 AAAATTAATG
*
46817217 CTAATTAAACTGACATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46817243 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46817269 TTCTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46838030 original size:145 final size:145
Alignment explanation
Indices: 46837800--46838060 Score: 436
Period size: 145 Copynumber: 1.8 Consensus size: 145
46837790 TATAATTGCC
* *
46837800 ATTATTTTTAACTTTATAGCATTAGAACTCGGTAACCATCTCAAATTGAGCACTAGATACTGTTT
1 ATTATTTTTAACTTTAAAGCATTAGAACTCGGTAACCATCTCAAATCGAGCACTAGATACTGTTT
*
46837865 CACATTGTTTACACTGACACACAA-ATCATTATT-TAAAACATTAAGTTCATTAAAGCATTAGAA
66 CACATTGTTTAAACTGACACA-AATATCATTATTAT-AAACATTAAGTTCATTAAAGCATTAGAA
46837928 CTCGGTAACCATCTCAA
129 CTCGGTAACCATCTCAA
* *
46837945 ATTATTTTTATCTTTAAAGCATTAGAACTCGGTAACCATCTCAAATCGAGCACTAGATATTGTTT
1 ATTATTTTTAACTTTAAAGCATTAGAACTCGGTAACCATCTCAAATCGAGCACTAGATACTGTTT
*
46838010 CACATTGTTTAAATTGACACAAATATCATTATTATAAACATTAAGTTCATT
66 CACATTGTTTAAACTGACACAAATATCATTATTATAAACATTAAGTTCATT
46838061 TCAATAATGT
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
144 2 0.02
145 105 0.97
146 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (145 bp):
ATTATTTTTAACTTTAAAGCATTAGAACTCGGTAACCATCTCAAATCGAGCACTAGATACTGTTT
CACATTGTTTAAACTGACACAAATATCATTATTATAAACATTAAGTTCATTAAAGCATTAGAACT
CGGTAACCATCTCAA
Found at i:46843562 original size:26 final size:26
Alignment explanation
Indices: 46843532--46843583 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46843522 AAAATTAATG
46843532 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46843558 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46843584 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46845682 original size:26 final size:26
Alignment explanation
Indices: 46845653--46845703 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
46845643 AAATTAATGA
46845653 TAATTAAACTGAAATATTGAATGTTC
1 TAATTAAACTGAAATATTGAATGTTC
46845679 TAATTAAACTGAAATATTGAATGTT
1 TAATTAAACTGAAATATTGAATGTT
46845704 TTCTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAACTGAAATATTGAATGTTC
Found at i:46849750 original size:26 final size:26
Alignment explanation
Indices: 46849720--46849771 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
46849710 AAAATTAATG
* *
46849720 CTAATTAAACTGAAATGTTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
46849746 CTAATTAAACTAAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
46849772 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTAAAATATTGAATGTT
Found at i:46851676 original size:645 final size:641
Alignment explanation
Indices: 46850430--46851724 Score: 2277
Period size: 645 Copynumber: 2.0 Consensus size: 641
46850420 AGATATTGTT
46850430 TTTAACTCTATAGCATTAGAACTCAGCAACCATCTCAAATCGAGCACTAGATATTGTTTCACATT
1 TTTAACTCTATAGCATTAGAACTCAGCAACCATCTCAAATCGAGCACTAGATATTGTTTCACATT
* * *
46850495 GTTTAAATTGACACAAAAATCATTATTATAAACCTTAAGTTCATTTCAATACTATGGAATTAGAA
66 GTTTAAATTGACACAAAAATCATTATTATAAACATTAAGTTCATTTCAATAATATGGAAATAGAA
46850560 TGTTCTAGCGTGGTGTGGAATTGAAACAATCTCAATTCCTTGAAAGTCTTTATACAATTTAAATT
131 TGTTCTAGCGTGGTGTGGAATTGAAACAATCTCAATTCCTTGAAAGTCTTTATACAATTTAAATT
46850625 CACATTGGCTTTAAGGGAAAAAACCTTGACTTCTTGAAGTTGTGAAAAGACACATATCGTGCCAG
196 CACATTGGCTTTAAGGGAAAAAACCTTGACTTCTTGAAGTTGTGAAAAGACACATATCGTGCCAG
46850690 GAAATATCCTCCAAGGGACATGCACTATAATTTGTAATAGTTCATTGCCTATGGACACCTTTGTT
261 GAAATATCCTCCAAGGGACATGCACTATAATTTGTAATAGTTCATTGCCTATGGACACCTTTGTT
* **
46850755 TCATTTTCCATTTTCACTCCTTCGATACTTATCTAATTGGTACGACCTCTTTCTTTTCCATAGAG
326 TCATTTTCCATTTTCACTCCTTCGATACCTATCTAACAGGTACGACCTCTTTCTTTTCCATAGAG
* * *
46850820 GAGAGCAATCTTGAAATCCTCGTCGAAAGTGATGGAACGCTTCAAAGTCTGAACTTGGTTTCCTT
391 GAGAGCAATCTTGAAATCCTCGTCGAAAGTGATAGAACGCTTCAAAGTCTGAAATTGATTTCCTT
*
46850885 ATTCTTCTTTCTTTAGATCACAAATTTTTATCAAGATCAAGAATGAAACTCCAACTATGTCGGCG
456 ATTCTTCTTTCTTTAGATCACAAATTTTTATCAAGATCAAGAATGAAACTCCAAATATGTCGGCG
46850950 ACGTACGTCCCACATTCTCACTATTAAAAAAGGTTCAAATTATATAAAAACAAAATCCTATCCAC
521 ACGTACGTCCCACATTCTCACTATTAAAAAAGGTTCAAATTATATAAAAACAAAATCCTATCCAC
46851015 TATTTGGGCAATACCTACGAGAGTTATACAAATGTAACATCATTTGTTGTTTCCAA
586 TATTTGGGCAATACCTACGAGAGTTATACAAATGTAACATCATTTGTTGTTTCCAA
* * * * *
46851071 TTTAACTTTATAGCGTTGGAACTCGGTAACCATCTCAAATCGAGCACTAGATATTGTTTCACATT
1 TTTAACTCTATAGCATTAGAACTCAGCAACCATCTCAAATCGAGCACTAGATATTGTTTCACATT
* *
46851136 GTTTAAATTGACACAAAAATCATTATTATAAACATTAAGTTCATTTCAATAATGTGGAAATGGAA
66 GTTTAAATTGACACAAAAATCATTATTATAAACATTAAGTTCATTTCAATAATATGGAAATAGAA
46851201 TGTTCTAGCGTGGTGTGGAATTGAAACAATCTCAATTCCTTGAAAGTCTTTATACAATTTAAATT
131 TGTTCTAGCGTGGTGTGGAATTGAAACAATCTCAATTCCTTGAAAGTCTTTATACAATTTAAATT
46851266 CACATTGGCTTTAAGGGAAAAAAAACCTTGACTTCTTCGAAGTTGTGAAAAGACACATATCGTGC
196 CACATTGGCTTTAAGGG--AAAAAACCTTGACTTCTT-GAAGTTGTGAAAAGACACATATCGTGC
46851331 CAGGAAATATCCTCCAAGGGACATGCACTATAATTTGTAATAGTTCATTGCCTATGGACACCTTT
258 CAGGAAATATCCTCCAAGGGACATGCACTATAATTTGTAATAGTTCATTGCCTATGGACACCTTT
* * *
46851396 GTTTCATTTTCCATTTTCACTGCTTCGATACCTATCTAACAGTTACGACCTCTTTCTTTTCCGTA
323 GTTTCATTTTCCATTTTCACTCCTTCGATACCTATCTAACAGGTACGACCTCTTTCTTTTCCATA
*
46851461 GAGGAGAGGCAATCTTGAAATGCTCGTCGAAAGTGATAGAACGCTTCAAAGTCTGAAATTGATTT
388 GAGGAGA-GCAATCTTGAAATCCTCGTCGAAAGTGATAGAACGCTTCAAAGTCTGAAATTGATTT
* * * **
46851526 CCTTATTCTT-TTCTCTTTAGATTACTATTTTTTATCAAGATTGAGAATGAAACTCCAAATATGT
452 CCTTATTCTTCTT-TCTTTAGATCACAAATTTTTATCAAGATCAAGAATGAAACTCCAAATATGT
* *
46851590 CGGCGACGTACGTCCCACATTCTCCCTATTAAAAAAGGTTCAATTTATATAAAAACAAAATCCTA
516 CGGCGACGTACGTCCCACATTCTCACTATTAAAAAAGGTTCAAATTATATAAAAACAAAATCCTA
*
46851655 TCCATTATTTGGGCAATACCTACGAGAGTTATACAAATGTAACATCATTTGTTGTTTCCAA
581 TCCACTATTTGGGCAATACCTACGAGAGTTATACAAATGTAACATCATTTGTTGTTTCCAA
46851716 TTTAACTCT
1 TTTAACTCT
46851725 CTAAGAGAAT
Statistics
Matches: 619, Mismatches: 30, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
641 202 0.33
643 18 0.03
644 160 0.26
645 239 0.39
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (641 bp):
TTTAACTCTATAGCATTAGAACTCAGCAACCATCTCAAATCGAGCACTAGATATTGTTTCACATT
GTTTAAATTGACACAAAAATCATTATTATAAACATTAAGTTCATTTCAATAATATGGAAATAGAA
TGTTCTAGCGTGGTGTGGAATTGAAACAATCTCAATTCCTTGAAAGTCTTTATACAATTTAAATT
CACATTGGCTTTAAGGGAAAAAACCTTGACTTCTTGAAGTTGTGAAAAGACACATATCGTGCCAG
GAAATATCCTCCAAGGGACATGCACTATAATTTGTAATAGTTCATTGCCTATGGACACCTTTGTT
TCATTTTCCATTTTCACTCCTTCGATACCTATCTAACAGGTACGACCTCTTTCTTTTCCATAGAG
GAGAGCAATCTTGAAATCCTCGTCGAAAGTGATAGAACGCTTCAAAGTCTGAAATTGATTTCCTT
ATTCTTCTTTCTTTAGATCACAAATTTTTATCAAGATCAAGAATGAAACTCCAAATATGTCGGCG
ACGTACGTCCCACATTCTCACTATTAAAAAAGGTTCAAATTATATAAAAACAAAATCCTATCCAC
TATTTGGGCAATACCTACGAGAGTTATACAAATGTAACATCATTTGTTGTTTCCAA
Found at i:46852433 original size:21 final size:23
Alignment explanation
Indices: 46852407--46852468 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 23
46852397 TTGTAGTAAT
46852407 TAAAATT-AATG-CTAATTAAAC
1 TAAAATTGAATGTCTAATTAAAC
46852428 TAAAATATTGAATGTTCTAATTAAAC
1 T-AAA-ATTGAATG-TCTAATTAAAC
46852454 TAAAATATTGAATGT
1 T-AAA-ATTGAATGT
46852469 TTTCTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.03
22 3 0.08
23 3 0.08
24 4 0.11
25 1 0.03
26 24 0.67
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (23 bp):
TAAAATTGAATGTCTAATTAAAC
Found at i:46852448 original size:26 final size:26
Alignment explanation
Indices: 46852418--46852469 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46852408 AAAATTAATG
46852418 CTAATTAAACTAAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
46852444 CTAATTAAACTAAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
46852470 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTAAAATATTGAATGTT
Found at i:46854541 original size:26 final size:26
Alignment explanation
Indices: 46854511--46854562 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46854501 AAAATTAATG
46854511 CTAATTAAACGGAAATATTGAATGTT
1 CTAATTAAACGGAAATATTGAATGTT
*
46854537 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACGGAAATATTGAATGTT
46854563 TTCTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (26 bp):
CTAATTAAACGGAAATATTGAATGTT
Found at i:46854898 original size:26 final size:26
Alignment explanation
Indices: 46854868--46854928 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
46854858 AAAATTAATG
46854868 CTAATTAAACTAAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
*
46854894 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
46854920 CTAATTAAA
1 CTAATTAAA
46854929 TTTAAGCCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTAAAATATTGAATGTT
Found at i:46862849 original size:26 final size:26
Alignment explanation
Indices: 46862819--46862870 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
46862809 AAAATTAATG
*
46862819 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATGGAATGTT
*
46862845 CTAATTCAACTGAAATATGGAATGTT
1 CTAATTAAACTGAAATATGGAATGTT
46862871 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (26 bp):
CTAATTAAACTGAAATATGGAATGTT
Found at i:46868243 original size:26 final size:26
Alignment explanation
Indices: 46868213--46868264 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46868203 AAAATTAATG
46868213 CTAATTAAACTCAAATATTGAATGTT
1 CTAATTAAACTCAAATATTGAATGTT
*
46868239 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTCAAATATTGAATGTT
46868265 TTCTTTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTCAAATATTGAATGTT
Found at i:46872430 original size:24 final size:24
Alignment explanation
Indices: 46872389--46872472 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 24
46872379 ATGAAGCTTA
* *
46872389 AAAATATACAT-ATGATTTACATAT
1 AAAATATATATAAT-ATTTATATAT
46872413 AAAATATATATAATATTTATATTAT
1 AAAATATATATAATATTTATA-TAT
* *
46872438 CAAAATAAATAAAATATGTGTATATAT
1 -AAAATATATATAATAT-T-TATATAT
46872465 ATAAATAT
1 A-AAATAT
46872473 GTGCAAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
24 16 0.33
25 5 0.10
26 15 0.31
27 9 0.18
28 4 0.08
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
AAAATATATATAATATTTATATAT
Found at i:46872484 original size:18 final size:18
Alignment explanation
Indices: 46872444--46872485 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
46872434 TTATCAAAAT
* *
46872444 AAATA-AAATATGTGTAT
1 AAATATAAATATGTGCAA
*
46872461 ATATATAAATATGTGCAA
1 AAATATAAATATGTGCAA
46872479 AAATATA
1 AAATATA
46872486 TATGTATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (18 bp):
AAATATAAATATGTGCAA
Found at i:46874142 original size:89 final size:87
Alignment explanation
Indices: 46874045--46874383 Score: 279
Period size: 89 Copynumber: 3.9 Consensus size: 87
46874035 TCAGTTTTAA
* *
46874045 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGCTTCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-TCTT-AGTCTGCTCCACTGCAACTTCA
46874110 G-GAAGATAAGACTTGCTTACTTAG
64 GAG-AGATAAGACTTGCTTACTTAG
* * * * * * * *
46874134 TCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGC-GA-TCTGCT-CTCTGCAACTTCAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTTCTTAGTCTGCTCCACTGCAACTTCAGA
** * *
46874196 GAGATAAGATCCAAGGTT--TTAA
66 GAGATAAGA--CTTGCTTACTTAG
* * *
46874218 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC-TC-TAATCTGCTCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-T--GCTTCTTAGTCTGCTCCACTGCAACTTC
*
46874281 AGAGAGATAAGATTTGC-TATCTTCAG
63 AGAGAGATAAGACTTGCTTA-CTT-AG
* *
46874307 TCTGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTGCTTAGTCTGCTCCACTGCAACTTC
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTGCTT-CTTAGTCTGCTCCACTGCAACTTC
*
46874370 A-AGGGGATAAGACT
63 AGA-GAGATAAGACT
46874384 AAATGCGATC
Statistics
Matches: 197, Mismatches: 35, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
84 52 0.26
85 8 0.04
86 10 0.05
87 8 0.04
88 33 0.17
89 86 0.44
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (87 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTTCTTAGTCTGCTCCACTGCAACTTCAGA
GAGATAAGACTTGCTTACTTAG
Found at i:46874290 original size:217 final size:217
Alignment explanation
Indices: 46873913--46874468 Score: 914
Period size: 217 Copynumber: 2.6 Consensus size: 217
46873903 ATCTACTCCA
* *
46873913 TTAGTCTGTTCCACTGCAACTTCAAGGAGATAACACTAGATGCGATCTGCTCTCTGCAACTTCAG
1 TTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
* * * *
46873978 AGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGTAGATAGGATTATCAGTTTT
66 AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTCT
* * *
46874043 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGCTTCACTGCAACTT
131 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCCTCACTGCAACTT
46874108 CAGGAAGATAAGACTTGCTTAC
196 CAGGAAGATAAGACTTGCTTAC
*
46874130 TTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
1 TTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
*
46874195 AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCT
66 AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTCT
46874260 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCCTCACTGCAACTT
131 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCCTCACTGCAACTT
* * *
46874325 TAGGAGGATAAGACTTGCTTGC
196 CAGGAAGATAAGACTTGCTTAC
* * * *
46874347 TTAGTCTGCTCCACTGCAACTTCAAGGGGATAAGACTAAATGCGATCTGCTCTCTGCAAATTCAA
1 TTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
* * * *
46874412 AGAGATAAGATCCATGATTTTAATCCACTCCACTGCCACTTCAGGGAGATAGGATTA
66 AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTA
46874469 CTGGCTACCG
Statistics
Matches: 316, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 316 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (217 bp):
TTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTCT
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCCTCACTGCAACTT
CAGGAAGATAAGACTTGCTTAC
Found at i:46874368 original size:44 final size:44
Alignment explanation
Indices: 46873913--46874383 Score: 281
Period size: 44 Copynumber: 10.9 Consensus size: 44
46873903 ATCTACTCCA
* * * * * *
46873913 TTAGTCTGTTCCACTGCAACTTCAAG-GAGATAACACTAGATGC
1 TTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTC
* * * *
46873956 -GA-TCTGCT-CTCTGCAACTTCA-GAGAGATAAGATCTAAGGTT-
1 TTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTC
* * * * *
46873997 TTAATCCGCTCCACTGCAACTTCAGG-TAGATAGGA-TTATCAGTT-
1 TTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTT-GC--TTC
* * *
46874041 TTAATCTGCTCCACTGCAACTTTAGG-GAGATAAGATTTGCTATC
1 TTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCT-TC
*
46874085 TTCAGTCTGCTTCACTGCAACTTCAGGA-AGATAAGACTTGCTTAC
1 TT-AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTT-C
* * * * *
46874130 TTAGTCTACTCCACTGCAACTTCAAG-GAGATAAGACTAGATGC
1 TTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTC
* * ** *
46874173 -GA-TCTGCT-CTCTGCAACTTCA-GAGAGATAAGATCCAAGGTT-
1 TTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGA--CTTGCTTC
* * * *
46874214 TTAATCCGCTCCACTGCAACTTCAGG-GAGATAGGATTATCGGC-TC
1 TTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACT-T--GCTTC
* *
46874259 -TAATCTGCTCCACTGCAACTTCA-GAGAGATAAGATTTGCTATC
1 TTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCT-TC
*
46874302 TTCAGTCTGC-CTCACTGCAACTTTAGGAG-GATAAGACTTGCTTGC
1 TT-AGTCTGCTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-C
46874347 TTAGTCTGCTCCACTGCAACTTCAAGG-G-GATAAGACT
1 TTAGTCTGCTCCACTGCAACTTC-AGGAGAGATAAGACT
46874384 AAATGCGATC
Statistics
Matches: 341, Mismatches: 49, Indels: 75
0.73 0.11 0.16
Matches are distributed among these distances:
39 2 0.01
40 41 0.12
41 14 0.04
42 13 0.04
43 16 0.05
44 173 0.51
45 79 0.23
46 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTC
Found at i:46886269 original size:15 final size:15
Alignment explanation
Indices: 46886233--46886271 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
46886223 GCAAATATCG
*
46886233 TGATAACAAATACAA
1 TGATAATAAATACAA
46886248 T-AGTAATAAATACAA
1 TGA-TAATAAATACAA
46886263 TGATAATAA
1 TGATAATAA
46886272 TTTTAACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (15 bp):
TGATAATAAATACAA
Found at i:46888774 original size:26 final size:26
Alignment explanation
Indices: 46888744--46888795 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46888734 AAAATTAATG
46888744 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46888770 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
46888796 TTCTTTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:46889957 original size:29 final size:29
Alignment explanation
Indices: 46889924--46889985 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
46889914 TGATGGAACG
46889924 CTTCAAAGTCTTAACTTGATTTCCTTATT
1 CTTCAAAGTCTTAACTTGATTTCCTTATT
46889953 CTTCAAAGTCTTAACTTGATTTCCTTATT
1 CTTCAAAGTCTTAACTTGATTTCCTTATT
46889982 CTTC
1 CTTC
46889986 TTTCTTTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.48
Consensus pattern (29 bp):
CTTCAAAGTCTTAACTTGATTTCCTTATT
Found at i:46890915 original size:26 final size:26
Alignment explanation
Indices: 46890879--46890932 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
46890869 TTACAATTAA
46890879 TTCTAATTAAACTGAAATATTGAATG
1 TTCTAATTAAACTGAAATATTGAATG
46890905 TTCTAATTAAACTGAAATATTGAATG
1 TTCTAATTAAACTGAAATATTGAATG
46890931 TT
1 TT
46890933 TTCTTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (26 bp):
TTCTAATTAAACTGAAATATTGAATG
Found at i:46893234 original size:3 final size:3
Alignment explanation
Indices: 46893220--46893260 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
46893210 AATATTTTAA
* *
46893220 AAT AAC AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46893261 GATCGAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:46894704 original size:15 final size:14
Alignment explanation
Indices: 46894683--46894718 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
46894673 ATAATCCTTA
*
46894683 ATAATTATCTTAAT
1 ATAATTATCCTAAT
46894697 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
46894712 ATAATTA
1 ATAATTA
46894719 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:46899705 original size:24 final size:24
Alignment explanation
Indices: 46899678--46899731 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
46899668 GCCTATAACA
46899678 GGTAGCTCCGTAGAGCAATTAATG
1 GGTAGCTCCGTAGAGCAATTAATG
*
46899702 GGTAGCTCCGTAGAGTAATTAATG
1 GGTAGCTCCGTAGAGCAATTAATG
46899726 GGTAGC
1 GGTAGC
46899732 ACCGGATAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (24 bp):
GGTAGCTCCGTAGAGCAATTAATG
Found at i:46899811 original size:26 final size:26
Alignment explanation
Indices: 46899769--46899834 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
46899759 AAGCGAGAAC
* *
46899769 TAACGAGAAGCTCACAAAGAGCC-TT
1 TAACGGGAAGCTCACAAAGAGCCATA
46899794 TAATCGGGAAGCTCACAAAGAGCCATA
1 TAA-CGGGAAGCTCACAAAGAGCCATA
*
46899821 TAACGGGACGCTCA
1 TAACGGGAAGCTCA
46899835 TAAGAGCTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.08
26 29 0.81
27 4 0.11
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (26 bp):
TAACGGGAAGCTCACAAAGAGCCATA
Found at i:46905634 original size:5 final size:5
Alignment explanation
Indices: 46905624--46905662 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
46905614 ACGCATATCT
*
46905624 TTTTC TTTTC TTTTC TTTTC TTTTA TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
46905663 TGAAATTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:46912830 original size:2 final size:2
Alignment explanation
Indices: 46912823--46912848 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46912813 GTGAAAAATA
46912823 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
46912849 CTCAAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46929385 original size:80 final size:79
Alignment explanation
Indices: 46929252--46929405 Score: 245
Period size: 80 Copynumber: 1.9 Consensus size: 79
46929242 ATTATTATAT
* ** * *
46929252 ATTCCTACAACTTGAATTTCCATTCTTGTATAAAAAATGAATGAAATGGATTTCTTATTAACTTC
1 ATTCCTACAACTTGAATTTCCATTCTTGTATAAAAAATAAATGAAATAAATTTC-CATTAACTAC
46929317 AATTATGTTACATAC
65 AATTATGTTACATAC
*
46929332 ATTCCTACAACTTGAATTTCCATTCTTGTATAAGAAATAAATGAAATAAATTTCCATTAACTACA
1 ATTCCTACAACTTGAATTTCCATTCTTGTATAAAAAATAAATGAAATAAATTTCCATTAACTACA
46929397 ATTATGTTA
66 ATTATGTTA
46929406 GGGCTATTTG
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 18 0.26
80 50 0.74
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (79 bp):
ATTCCTACAACTTGAATTTCCATTCTTGTATAAAAAATAAATGAAATAAATTTCCATTAACTACA
ATTATGTTACATAC
Found at i:46932329 original size:6 final size:6
Alignment explanation
Indices: 46932318--46932343 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
46932308 ATCATGAAAA
46932318 TAATAT TAATAT TAATAT TAATAT TA
1 TAATAT TAATAT TAATAT TAATAT TA
46932344 TAAACAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:46939392 original size:13 final size:13
Alignment explanation
Indices: 46939374--46939402 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46939364 ATCATATTTA
46939374 TAGACAAAGAGTT
1 TAGACAAAGAGTT
46939387 TAGACAAAGAGTT
1 TAGACAAAGAGTT
46939400 TAG
1 TAG
46939403 GCTGTGTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.24
Consensus pattern (13 bp):
TAGACAAAGAGTT
Found at i:46939891 original size:19 final size:19
Alignment explanation
Indices: 46939861--46939962 Score: 64
Period size: 19 Copynumber: 5.2 Consensus size: 19
46939851 ATACTAATCC
46939861 GAGAGAATACCAAAAAATAT
1 GAGAG-ATACCAAAAAATAT
46939881 GAGAGATACC-AAAAATGAT
1 GAGAGATACCAAAAAAT-AT
* **
46939900 GAGGGAATATTAAAAAAATAT
1 GAGAG-ATA-CCAAAAAATAT
* * *
46939921 GAAGAAATACC-AAAATTAA
1 G-AGAGATACCAAAAAATAT
* *
46939940 GAGGAAATACCAAAAAACAT
1 GA-GAGATACCAAAAAATAT
46939960 GAG
1 GAG
46939963 GGGATGTCAA
Statistics
Matches: 63, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
18 7 0.11
19 27 0.43
20 15 0.24
21 6 0.10
22 8 0.13
ACGTcount: A:0.58, C:0.09, G:0.18, T:0.16
Consensus pattern (19 bp):
GAGAGATACCAAAAAATAT
Found at i:46939955 original size:40 final size:40
Alignment explanation
Indices: 46939866--46939956 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
46939856 AATCCGAGAG
* * *
46939866 AATACC-AAAAAATATGAGAGATACCAAAAATGATGAGGG
1 AATACCAAAAAAATATGAGAAATACCAAAAATGAAGAGGA
** *
46939905 AATATTAAAAAAATATGAAGAAATACC-AAAATTAAGAGGA
1 AATACCAAAAAAATATG-AGAAATACCAAAAATGAAGAGGA
46939945 AATACCAAAAAA
1 AATACCAAAAAA
46939957 CATGAGGGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.10
40 30 0.71
41 8 0.19
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.16
Consensus pattern (40 bp):
AATACCAAAAAAATATGAGAAATACCAAAAATGAAGAGGA
Found at i:46940209 original size:22 final size:22
Alignment explanation
Indices: 46940181--46940254 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
46940171 TATTTACTCC
*
46940181 AAAAATATGAAGAAATTTAAAA
1 AAAAATATGAAGAAATATAAAA
* * *
46940203 AAAAATATGAGGGAATATCAAA
1 AAAAATATGAAGAAATATAAAA
**
46940225 AAAAAT-TG-AGAAAGTA-CCAA
1 AAAAATATGAAGAAA-TATAAAA
46940245 AAAAATATGA
1 AAAAATATGA
46940255 GGATGTGCCA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 12 0.29
21 6 0.14
22 24 0.57
ACGTcount: A:0.64, C:0.04, G:0.14, T:0.19
Consensus pattern (22 bp):
AAAAATATGAAGAAATATAAAA
Found at i:46940225 original size:21 final size:22
Alignment explanation
Indices: 46940201--46940257 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
46940191 AGAAATTTAA
* *
46940201 AAAAAAATATGAGGGAA-TATC
1 AAAAAAATATGAGGAAAGTACC
46940222 AAAAAAA-ATTGA-GAAAGTACC
1 AAAAAAATA-TGAGGAAAGTACC
46940243 AAAAAAATATGAGGA
1 AAAAAAATATGAGGA
46940258 TGTGCCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 4 0.13
21 23 0.77
22 3 0.10
ACGTcount: A:0.61, C:0.05, G:0.18, T:0.16
Consensus pattern (22 bp):
AAAAAAATATGAGGAAAGTACC
Found at i:46940265 original size:21 final size:20
Alignment explanation
Indices: 46940201--46940268 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
46940191 AGAAATTTAA
* *
46940201 AAAAAAATATGAGGGAATATCA
1 AAAAAAATATGA-GG-ATGTCC
* *
46940223 AAAAAAAT-TGAGAAAGTACC
1 AAAAAAATATGAGGATGT-CC
46940243 AAAAAAATATGAGGATGTGCC
1 AAAAAAATATGAGGATGT-CC
46940264 AAAAA
1 AAAAA
46940269 TTATGAGCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.05
20 10 0.27
21 17 0.46
22 8 0.22
ACGTcount: A:0.59, C:0.07, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAAAAATATGAGGATGTCC
Found at i:46946157 original size:15 final size:15
Alignment explanation
Indices: 46946139--46946168 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46946129 ATTTTTTTTT
*
46946139 AAAAAGAGAGAAAAA
1 AAAAAGAAAGAAAAA
46946154 AAAAAGAAAGAAAAA
1 AAAAAGAAAGAAAAA
46946169 TGGGTGTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAAA
Found at i:46951311 original size:25 final size:25
Alignment explanation
Indices: 46951283--46951341 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
46951273 TGAATTGGAT
*
46951283 TGAATTGATATATGTATAAATATTA
1 TGAATTGATATATGTATAAATATGA
*
46951308 TGAA-T-ATATATGTGTAAATATGA
1 TGAATTGATATATGTATAAATATGA
46951331 T-AATTGGATAT
1 TGAATT-GATAT
46951342 TGGTTGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 2 0.07
23 18 0.62
24 1 0.03
25 8 0.28
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (25 bp):
TGAATTGATATATGTATAAATATGA
Found at i:46951513 original size:37 final size:38
Alignment explanation
Indices: 46951461--46951555 Score: 111
Period size: 41 Copynumber: 2.4 Consensus size: 38
46951451 GTCGATGATG
* *
46951461 CACTAGGTGCCAATTTACTTCGG-TTTAACCAATGAGA
1 CACTGGGTGTCAATTTACTTCGGATTTAACCAATGAGA
** *
46951498 CACTGGGTGTCAATTTATTACTTCGGATTTATTCGATGAGA
1 CACTGGGTGTCAA--T-TTACTTCGGATTTAACCAATGAGA
46951539 CACTGGGTGTCAATTTA
1 CACTGGGTGTCAATTTA
46951556 TTACTTCGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
37 11 0.22
38 3 0.06
39 2 0.04
40 9 0.18
41 24 0.49
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (38 bp):
CACTGGGTGTCAATTTACTTCGGATTTAACCAATGAGA
Found at i:46951541 original size:41 final size:41
Alignment explanation
Indices: 46951475--46951577 Score: 156
Period size: 41 Copynumber: 2.6 Consensus size: 41
46951465 AGGTGCCAAT
** *
46951475 TTACTTCGG-TTTAACCAATGAGACACTGGGTGTCAATTTA
1 TTACTTCGGATTTATTCGATGAGACACTGGGTGTCAATTTA
46951515 TTACTTCGGATTTATTCGATGAGACACTGGGTGTCAATTTA
1 TTACTTCGGATTTATTCGATGAGACACTGGGTGTCAATTTA
*
46951556 TTACTTC-GAATTATTCGATGAG
1 TTACTTCGGATTTATTCGATGAG
46951578 GCAATAGGTG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 23 0.40
41 35 0.60
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (41 bp):
TTACTTCGGATTTATTCGATGAGACACTGGGTGTCAATTTA
Found at i:46952321 original size:13 final size:13
Alignment explanation
Indices: 46952303--46952330 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46952293 GACTTGAATA
46952303 ATGTTTTGATGAT
1 ATGTTTTGATGAT
46952316 ATGTTTTGATGAT
1 ATGTTTTGATGAT
46952329 AT
1 AT
46952331 AAATGTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (13 bp):
ATGTTTTGATGAT
Found at i:46963559 original size:45 final size:45
Alignment explanation
Indices: 46963482--46963583 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 45
46963472 ACGATAGCAA
* * * **
46963482 TAACAGTAAGAGTAACAGTATTCAACACACAAAGTGTTGAATTTG
1 TAACAGTAACAGCAACAGTATTCAACACACAAAGTATTGAATCAG
* *
46963527 TAACTGTAACAGCAACAGTATTCGACACACAAAGTATTGAATCAG
1 TAACAGTAACAGCAACAGTATTCAACACACAAAGTATTGAATCAG
46963572 TAACAGTAACAG
1 TAACAGTAACAG
46963584 TAGTCGGCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (45 bp):
TAACAGTAACAGCAACAGTATTCAACACACAAAGTATTGAATCAG
Found at i:46964833 original size:5 final size:5
Alignment explanation
Indices: 46964825--46964856 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
46964815 ATTTTACATA
46964825 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
46964857 CTTTTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:46970667 original size:19 final size:21
Alignment explanation
Indices: 46970615--46970668 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
46970605 TTTTTTTTGC
46970615 AAAATCAAAA-TTTTCTTTTAA
1 AAAATCAAAACTTTTC-TTTAA
**
46970636 AAAATCACTACTTTTC-TT-A
1 AAAATCAAAACTTTTCTTTAA
46970655 AAAATCAAAACTTT
1 AAAATCAAAACTTT
46970669 ATATCGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.46
20 2 0.07
21 8 0.29
22 5 0.18
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATCAAAACTTTTCTTTAA
Found at i:46970768 original size:136 final size:136
Alignment explanation
Indices: 46970628--46970891 Score: 370
Period size: 136 Copynumber: 1.9 Consensus size: 136
46970618 ATCAAAATTT
*
46970628 TCTTTT-AAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATATCGAAATAGTTGAAAAAAAT
1 TCTTTTAAAAAAAACACTA-TTTTCTTAAAAATCAAAACTTTATATCGAAATAGTTGAAAAAAAT
* * *
46970692 CAGAACTTTGTTTTAAAAATTTAAACTTTTTCTTTAAAATGACTAGAA-ACATATTTTTTATTTT
65 CAAAACTTTGTTTTAAAAATTTAAAC-TTTCCTTTAAAATGACTAAAATACATATTTTTTATTTT
46970756 AAACTTTC
129 AAACTTTC
** * * * * *
46970764 TCTTTTAAAAAAAACACTATTTTCTTAAATTTCAAAATTTTATTTTGAAATAGTTGAGAAAAGTC
1 TCTTTTAAAAAAAACACTATTTTCTTAAAAATCAAAACTTTATATCGAAATAGTTGAAAAAAATC
* * *
46970829 AAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGATTAAAATATATATTTTTTATTTT
66 AAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAATACATATTTTTTATTTT
46970892 TAAAATCTAA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
135 18 0.16
136 83 0.74
137 11 0.10
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (136 bp):
TCTTTTAAAAAAAACACTATTTTCTTAAAAATCAAAACTTTATATCGAAATAGTTGAAAAAAATC
AAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAATACATATTTTTTATTTTAA
ACTTTC
Found at i:46971214 original size:2 final size:2
Alignment explanation
Indices: 46971207--46971245 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
46971197 TCATTTCATG
46971207 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46971246 TTAATCTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46971311 original size:3 final size:3
Alignment explanation
Indices: 46971272--46971300 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
46971262 GTAAAAAGTT
46971272 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
46971301 GTTTAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:46972618 original size:1 final size:1
Alignment explanation
Indices: 46972612--46972636 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
46972602 TCTGTTCATC
46972612 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
46972637 ACTTTCCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:46977853 original size:17 final size:18
Alignment explanation
Indices: 46977816--46977853 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
46977806 TGTGAGCCAA
* *
46977816 TTATATTAGTGTACTATG
1 TTATATTAGTGAACCATG
46977834 TTATATT-GTGAACCATG
1 TTATATTAGTGAACCATG
46977851 TTA
1 TTA
46977854 AATGTAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (18 bp):
TTATATTAGTGAACCATG
Found at i:46978531 original size:22 final size:22
Alignment explanation
Indices: 46978518--46978591 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
46978508 TATTAGAGGT
46978518 TATCATATCTCATATCAGAATA
1 TATCATATCTCATATCAGAATA
* * **
46978540 TATCATGTCTCATATCATAGCA
1 TATCATATCTCATATCAGAATA
* * *
46978562 TATCATATTTCATATCAAAACA
1 TATCATATCTCATATCAGAATA
46978584 TATCATAT
1 TATCATAT
46978592 AGCACATCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.38
Consensus pattern (22 bp):
TATCATATCTCATATCAGAATA
Found at i:46978600 original size:22 final size:22
Alignment explanation
Indices: 46978560--46978609 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
46978550 CATATCATAG
** *
46978560 CATATCATATTTCATATCAAAA
1 CATATCATATAGCACATCAAAA
* *
46978582 CATATCATATAGCACATCATAG
1 CATATCATATAGCACATCAAAA
46978604 CATATC
1 CATATC
46978610 CTACCCTCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.32
Consensus pattern (22 bp):
CATATCATATAGCACATCAAAA
Found at i:46978601 original size:44 final size:44
Alignment explanation
Indices: 46978518--46978609 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
46978508 TATTAGAGGT
* * * ** *
46978518 TATCATATCTCATATCAGAATATATCATGTCTCATATCATAGCA
1 TATCATATCTCATATCAAAACATATCATATAGCACATCATAGCA
*
46978562 TATCATATTTCATATCAAAACATATCATATAGCACATCATAGCA
1 TATCATATCTCATATCAAAACATATCATATAGCACATCATAGCA
46978606 TATC
1 TATC
46978610 CTACCCTCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (44 bp):
TATCATATCTCATATCAAAACATATCATATAGCACATCATAGCA
Found at i:46982596 original size:25 final size:25
Alignment explanation
Indices: 46982546--46982624 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
46982536 TGCTCTTACA
* * *
46982546 AGCTATGAATCGGTATGTTC-TCATG
1 AGCTGTGAATCGGTAAGCTCAT-ATG
46982571 AGCTGTGAATCGGTAAGCTCATATG
1 AGCTGTGAATCGGTAAGCTCATATG
* *
46982596 AGCTG-AATATCGGTAAGCTCATATT
1 AGCTGTGA-ATCGGTAAGCTCATATG
46982621 AGCT
1 AGCT
46982625 AAAAATTGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.02
25 45 0.96
26 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (25 bp):
AGCTGTGAATCGGTAAGCTCATATG
Found at i:46982635 original size:25 final size:25
Alignment explanation
Indices: 46982578--46982636 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
46982568 ATGAGCTGTG
*
46982578 AATCGGTAAGCTCATATGAGCTGAA
1 AATCGGTAAGCTCATATGAGCTAAA
* *
46982603 TATCGGTAAGCTCATATTAGCTAAA
1 AATCGGTAAGCTCATATGAGCTAAA
*
46982628 AATTGGTAA
1 AATCGGTAA
46982637 CCCTAATGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (25 bp):
AATCGGTAAGCTCATATGAGCTAAA
Found at i:46996228 original size:16 final size:16
Alignment explanation
Indices: 46996207--46996259 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
46996197 TTACAACATT
46996207 CTTTTCATTTGTTATC
1 CTTTTCATTTGTTATC
* *
46996223 CTTTTCGGA-TAG-CATC
1 CTTTTC--ATTTGTTATC
46996239 CTTTTCATTTGTTATC
1 CTTTTCATTTGTTATC
46996255 CTTTT
1 CTTTT
46996260 TGGATAGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 1 0.03
15 2 0.07
16 23 0.79
17 2 0.07
18 1 0.03
ACGTcount: A:0.13, C:0.21, G:0.09, T:0.57
Consensus pattern (16 bp):
CTTTTCATTTGTTATC
Found at i:46996248 original size:32 final size:32
Alignment explanation
Indices: 46996207--46996277 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
46996197 TTACAACATT
46996207 CTTTTCATTTGTTATCCTTTTCGGATAGCATC
1 CTTTTCATTTGTTATCCTTTTCGGATAGCATC
*
46996239 CTTTTCATTTGTTATCCTTTTTGGATAGCATC
1 CTTTTCATTTGTTATCCTTTTCGGATAGCATC
46996271 CTTTTCA
1 CTTTTCA
46996278 ACATTTTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.15, C:0.21, G:0.11, T:0.52
Consensus pattern (32 bp):
CTTTTCATTTGTTATCCTTTTCGGATAGCATC
Found at i:46996297 original size:41 final size:41
Alignment explanation
Indices: 46996240--46996329 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
46996230 GATAGCATCC
* * *
46996240 TTTTCATTTGTTATCCTTTTTGGATAGCATCCTTTTCAACA
1 TTTTCATTTGATATCCTGTTTGGATAACATCCTTTTCAACA
*
46996281 TTTTCATTTGATATCCTGTTTGGATAACATCCTTTTCAACC
1 TTTTCATTTGATATCCTGTTTGGATAACATCCTTTTCAACA
46996322 TTTTCATT
1 TTTTCATT
46996330 GATTCGGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.51
Consensus pattern (41 bp):
TTTTCATTTGATATCCTGTTTGGATAACATCCTTTTCAACA
Found at i:46997300 original size:6 final size:6
Alignment explanation
Indices: 46997292--46997348 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
46997282 CTTTCATTAT
* * *
46997292 CATTTT CATTTC CATTTC CACTTC CATTTC CATTTC CATTTT CATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
46997340 CATTTC CAT
1 CATTTC CAT
46997349 GTTGAGAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.51
Consensus pattern (6 bp):
CATTTC
Found at i:46997307 original size:12 final size:12
Alignment explanation
Indices: 46997283--46997344 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
46997273 TAACTGAATC
46997283 TTTCATTAT-CAT
1 TTTCATT-TCCAT
46997295 TTTCATTTCCAT
1 TTTCATTTCCAT
* *
46997307 TTCCACTTCCAT
1 TTTCATTTCCAT
*
46997319 TTCCATTTCCAT
1 TTTCATTTCCAT
46997331 TTTCATTTCCAT
1 TTTCATTTCCAT
46997343 TT
1 TT
46997345 CCATGTTGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
11 1 0.02
12 44 0.98
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTCATTTCCAT
Found at i:46997348 original size:18 final size:18
Alignment explanation
Indices: 46997292--46997348 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
46997282 CTTTCATTAT
46997292 CATTTTCATTTCCATTTC
1 CATTTTCATTTCCATTTC
* *
46997310 CACTTCCATTTCCATTTC
1 CATTTTCATTTCCATTTC
46997328 CATTTTCATTTCCATTTC
1 CATTTTCATTTCCATTTC
46997346 CAT
1 CAT
46997349 GTTGAGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.51
Consensus pattern (18 bp):
CATTTTCATTTCCATTTC
Found at i:47001406 original size:39 final size:39
Alignment explanation
Indices: 47001363--47001538 Score: 149
Period size: 39 Copynumber: 4.5 Consensus size: 39
47001353 AGAGTCCTCT
* * *
47001363 GATTTTCTCTTTGGCCCTGATAAATTACAGGAATCTTCA
1 GATTTTCTCTTTGCCCCTGAGAAATCACAGGAATCTTCA
** * * * *
47001402 GATTTTCTCTTTGGTCCTGAGGAATTAGAGGAATCTCCA
1 GATTTTCTCTTTGCCCCTGAGAAATCACAGGAATCTTCA
* * * *
47001441 TATTTTCTCTTTGCCCCTGAGACATCACAAGAATCTTCT
1 GATTTTCTCTTTGCCCCTGAGAAATCACAGGAATCTTCA
* * * *
47001480 GGTTTTCGCTTTGCCCCAGA-AATATCATAGGAATCTTC-
1 GATTTTCTCTTTGCCCCTGAGAA-ATCACAGGAATCTTCA
* *
47001518 TATTTTCCTCTTTGCTCCTGA
1 GATTTT-CTCTTTGCCCCTGA
47001539 AATAGCAAAA
Statistics
Matches: 108, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
38 5 0.05
39 103 0.95
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (39 bp):
GATTTTCTCTTTGCCCCTGAGAAATCACAGGAATCTTCA
Found at i:47003034 original size:40 final size:40
Alignment explanation
Indices: 47002979--47003060 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
47002969 CATCTAATTG
47002979 AGAATATTATTATTTAACTTGTAAGTCTTAAATTAAACTT
1 AGAATATTATTATTTAACTTGTAAGTCTTAAATTAAACTT
47003019 AGAATATTATTATTTAACTTGTAAGTCTTAAATTAAACTT
1 AGAATATTATTATTTAACTTGTAAGTCTTAAATTAAACTT
47003059 AG
1 AG
47003061 GATCTAGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (40 bp):
AGAATATTATTATTTAACTTGTAAGTCTTAAATTAAACTT
Found at i:47003037 original size:20 final size:20
Alignment explanation
Indices: 47002979--47003038 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
47002969 CATCTAATTG
47002979 AGAATATTATTATTTAACTT
1 AGAATATTATTATTTAACTT
* * *
47002999 -GTAAGTCTTA-AATTAAACTT
1 AG-AA-TATTATTATTTAACTT
47003019 AGAATATTATTATTTAACTT
1 AGAATATTATTATTTAACTT
47003039 GTAAGTCTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
19 5 0.17
20 20 0.67
21 5 0.17
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (20 bp):
AGAATATTATTATTTAACTT
Found at i:47003057 original size:20 final size:20
Alignment explanation
Indices: 47002994--47003058 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
47002984 ATTATTATTT
47002994 AACTTGTAAGTCTTAAATTA
1 AACTTGTAAGTCTTAAATTA
* * *
47003014 AACTTAG-AA-TATTATTATTT
1 AACTT-GTAAGTCTTA-AATTA
47003034 AACTTGTAAGTCTTAAATTA
1 AACTTGTAAGTCTTAAATTA
47003054 AACTT
1 AACTT
47003059 AGGATCTAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 5 0.14
20 25 0.71
21 5 0.14
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (20 bp):
AACTTGTAAGTCTTAAATTA
Found at i:47004186 original size:28 final size:28
Alignment explanation
Indices: 47004146--47004201 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
47004136 GGGAACGCCA
47004146 AAGTTCACATTTTTTATCACATACGAAT
1 AAGTTCACATTTTTTATCACATACGAAT
47004174 AAGTTCACATTTTTTATCACATACGAAT
1 AAGTTCACATTTTTTATCACATACGAAT
47004202 GGCGATTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (28 bp):
AAGTTCACATTTTTTATCACATACGAAT
Found at i:47009034 original size:18 final size:18
Alignment explanation
Indices: 47009011--47009056 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
47009001 TTGAAATTTA
47009011 TTTTATAATAAAATAATG
1 TTTTATAATAAAATAATG
47009029 TTTTATAAT-AAATAATG
1 TTTTATAATAAAATAATG
*
47009046 TATTAT-ATAAA
1 TTTTATAATAAA
47009057 CTTAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 2 0.08
17 15 0.58
18 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (18 bp):
TTTTATAATAAAATAATG
Found at i:47009275 original size:19 final size:20
Alignment explanation
Indices: 47009238--47009276 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
47009228 TTATTACTAA
*
47009238 ATATTTATAAATTGTAATAT
1 ATATTTATAAATTGAAATAT
*
47009258 ATATTTAT-TATTGAAATAT
1 ATATTTATAAATTGAAATAT
47009277 TAATATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
ATATTTATAAATTGAAATAT
Found at i:47009507 original size:23 final size:23
Alignment explanation
Indices: 47009481--47009533 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
47009471 ATTAATGTTC
47009481 TTTAATTATT-TTTAAATTTTTAT
1 TTTAATT-TTATTTAAATTTTTAT
*
47009504 TTT-ATTTTAATTTAATTTTTTAT
1 TTTAATTTT-ATTTAAATTTTTAT
47009527 TCTTAAT
1 T-TTAAT
47009534 ATAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.08
22 3 0.12
23 16 0.64
24 2 0.08
25 2 0.08
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTAATTTTATTTAAATTTTTAT
Found at i:47009538 original size:19 final size:18
Alignment explanation
Indices: 47009503--47009538 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
47009493 TAAATTTTTA
*
47009503 TTTTATTTTAATTTAATT
1 TTTTATTTTAATATAATT
47009521 TTTTATTCTTAATATAAT
1 TTTTATT-TTAATATAAT
47009539 AATATTTGAC
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:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTTTAATATAATT
Found at i:47011222 original size:156 final size:156
Alignment explanation
Indices: 47010938--47011251 Score: 574
Period size: 156 Copynumber: 2.0 Consensus size: 156
47010928 TTTAACCAGT
* *
47010938 ATGGAGGAAATAAGTCCAACTACACCATGCAGTTATTGTACAGAGTGGGAGAATGATAACAAATT
1 ATGGAGGAAATAAGACCAACTACACCATGCAGTTATTGTACAGAGTGGGAGAATGAGAACAAATT
* *
47011003 TCAGGAAGGTGGAAGGTATGGCAGGTCGAAGGGCTTCTAATCACCAACAAAAAAGAACTATCCCT
66 TCAGGAAGGAGGAAGGTATGGCAGGTCGAAGGGCATCTAATCACCAACAAAAAAGAACTATCCCT
*
47011068 TTCCAAGTTCACATTTGAGGACCATA
131 TTCCAAGTTCAAATTTGAGGACCATA
*
47011094 ATGGAGGAAATAAGACCAACTACACCATGCAGTTATTGTAGAGAGTGGGAGAATGAGAACAAATT
1 ATGGAGGAAATAAGACCAACTACACCATGCAGTTATTGTACAGAGTGGGAGAATGAGAACAAATT
47011159 TCAGGAAGGAGGAAGGTATGGCAGGTCGAAGGGCATCTAATCACCAACAAAAAAGAACTATCCCT
66 TCAGGAAGGAGGAAGGTATGGCAGGTCGAAGGGCATCTAATCACCAACAAAAAAGAACTATCCCT
47011224 TTCCAAGTTCAAATTTGAGGACCATA
131 TTCCAAGTTCAAATTTGAGGACCATA
47011250 AT
1 AT
47011252 ATCGATATCT
Statistics
Matches: 152, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 152 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (156 bp):
ATGGAGGAAATAAGACCAACTACACCATGCAGTTATTGTACAGAGTGGGAGAATGAGAACAAATT
TCAGGAAGGAGGAAGGTATGGCAGGTCGAAGGGCATCTAATCACCAACAAAAAAGAACTATCCCT
TTCCAAGTTCAAATTTGAGGACCATA
Found at i:47011584 original size:65 final size:64
Alignment explanation
Indices: 47011482--47011624 Score: 198
Period size: 65 Copynumber: 2.2 Consensus size: 64
47011472 TATTAATGTT
* * * *
47011482 TTTAAATA-TTTCTCATATATATTTATAATCTAATTTTTAGTTTCTTGATAAATTATATACACA
1 TTTAAATATTTTCACATATATATTTATAATCTAATTTTTAATTTCTTAATAAATTATATAAACA
*
47011545 TTTAAATATTTTTCACATATATATTTATAGTCTAATTTTTAATTTCTTAATAAATTATATAAACA
1 TTTAAATA-TTTTCACATATATATTTATAATCTAATTTTTAATTTCTTAATAAATTATATAAACA
**
47011610 TGCAAATATATTTCA
1 TTTAAATAT-TTTCA
47011625 ATTACATTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
63 8 0.11
64 1 0.01
65 61 0.87
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (64 bp):
TTTAAATATTTTCACATATATATTTATAATCTAATTTTTAATTTCTTAATAAATTATATAAACA
Found at i:47014050 original size:12 final size:12
Alignment explanation
Indices: 47014033--47014069 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
47014023 ATGTAAGTTG
47014033 AACTTCTTTAAA
1 AACTTCTTTAAA
47014045 AACTTCTTTAAA
1 AACTTCTTTAAA
47014057 AACTTCTTTAAA
1 AACTTCTTTAAA
47014069 A
1 A
47014070 TAAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (12 bp):
AACTTCTTTAAA
Found at i:47016260 original size:24 final size:25
Alignment explanation
Indices: 47016224--47016270 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
47016214 ATTAATACCA
47016224 ATATTTTTATAAATA-TAATAAACT
1 ATATTTTTATAAATATTAATAAACT
47016248 ATATTTATT-TAAATATTAATAAA
1 ATATTT-TTATAAATATTAATAAA
47016271 TTAAGTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTTTATAAATATTAATAAACT
Found at i:47017503 original size:26 final size:26
Alignment explanation
Indices: 47017467--47017526 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
47017457 CCAAACAATT
47017467 TGGCTAAACTTAAAATTGAATAAAAA
1 TGGCTAAACTTAAAATTGAATAAAAA
*
47017493 TGGCTAAACTTGAAATTGAATAAAAA
1 TGGCTAAACTTAAAATTGAATAAAAA
*
47017519 TGGTTAAA
1 TGGCTAAA
47017527 TCGCATGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (26 bp):
TGGCTAAACTTAAAATTGAATAAAAA
Found at i:47017961 original size:38 final size:38
Alignment explanation
Indices: 47017911--47018000 Score: 91
Period size: 38 Copynumber: 2.4 Consensus size: 38
47017901 GGCATAAAGT
47017911 GTAAA-AT-TATTATATATAT-TATTA-ATAA-ATTAAA
1 GTAAATATATATTATA-ATATGTATTACATAATATTAAA
* * *
47017945 GTTAAAATATATATTATAATATGTTTTACTTAATATTTAA
1 G-T-AAATATATATTATAATATGTATTACATAATATTAAA
47017985 GTAAATATATATTATA
1 GTAAATATATATTATA
47018001 GTAATAAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
34 1 0.02
35 1 0.02
36 3 0.07
37 6 0.13
38 25 0.54
39 4 0.09
40 6 0.13
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (38 bp):
GTAAATATATATTATAATATGTATTACATAATATTAAA
Found at i:47018512 original size:19 final size:20
Alignment explanation
Indices: 47018488--47018528 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
47018478 GAATTTAGGT
*
47018488 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
47018507 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
47018527 AA
1 AA
47018529 TAGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:47020348 original size:114 final size:114
Alignment explanation
Indices: 47020129--47020352 Score: 349
Period size: 114 Copynumber: 2.0 Consensus size: 114
47020119 TATGCCTTAA
* *
47020129 TTGTATAATGTTTGGATTATATTGGTGTGTGTAATTGAAAATGAAATTAATGAACTAACATAACA
1 TTGTATAATGTTTGGATTATATTGATGTGTGTAATTGAAAATGAAAATAATGAACTAACATAACA
* * * *
47020194 TTGATCATTGATTGAGTTATTCTGGACCATTACTGTAAATCAGTCTTGT
66 TCGATCATTGATTGAGCTATTCTAGACCATTACTGGAAATCAGTCTTGT
* *
47020243 TTGTATAATGTTTGGATTATATTGATGTGTGTAATTGAAAATGAAAATAATGAATTAACATAACG
1 TTGTATAATGTTTGGATTATATTGATGTGTGTAATTGAAAATGAAAATAATGAACTAACATAACA
* * *
47020308 TCGATCATTGATTGAGCTATTCTAGATCGTTATTGGAAATCAGTC
66 TCGATCATTGATTGAGCTATTCTAGACCATTACTGGAAATCAGTC
47020353 CTGTAAGTTT
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (114 bp):
TTGTATAATGTTTGGATTATATTGATGTGTGTAATTGAAAATGAAAATAATGAACTAACATAACA
TCGATCATTGATTGAGCTATTCTAGACCATTACTGGAAATCAGTCTTGT
Found at i:47022442 original size:22 final size:22
Alignment explanation
Indices: 47022414--47022457 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
47022404 ACGCTTCCTG
47022414 TACTATAATAATTCAATCCAAA
1 TACTATAATAATTCAATCCAAA
47022436 TACTATAATAATTCAATCCAAA
1 TACTATAATAATTCAATCCAAA
47022458 CTCATTCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (22 bp):
TACTATAATAATTCAATCCAAA
Found at i:47022751 original size:20 final size:20
Alignment explanation
Indices: 47022674--47022814 Score: 92
Period size: 20 Copynumber: 7.0 Consensus size: 20
47022664 TACATCACCC
* *
47022674 CAGAGGCATCATAGATGCATAA
1 CAGAGGCACCAAAG-TGCA-AA
* **
47022696 CAG-GAGCACCGAAGTGCTGA
1 CAGAG-GCACCAAAGTGCAAA
47022716 CA-AGGCA-CAAATGTGCAAA
1 CAGAGGCACCAAA-GTGCAAA
* * *
47022735 CAGGGGCACCATAGTGCGAA
1 CAGAGGCACCAAAGTGCAAA
* * *
47022755 CAG-GGACACTAAAGTGTATA
1 CAGAGG-CACCAAAGTGCAAA
*
47022775 CAGAGGCACTAAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
*
47022795 CAGAGGCACCGAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
47022815 TCTCGTACAA
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
18 3 0.03
19 12 0.13
20 59 0.64
21 9 0.10
22 9 0.10
ACGTcount: A:0.39, C:0.21, G:0.28, T:0.12
Consensus pattern (20 bp):
CAGAGGCACCAAAGTGCAAA
Found at i:47026595 original size:21 final size:21
Alignment explanation
Indices: 47026569--47026608 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47026559 AGAGGAGTAT
47026569 CATATTTGAAAATGGTTGAAA
1 CATATTTGAAAATGGTTGAAA
*
47026590 CATATTTGAAAATGTTTGA
1 CATATTTGAAAATGGTTGA
47026609 CTCAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (21 bp):
CATATTTGAAAATGGTTGAAA
Found at i:47030026 original size:40 final size:43
Alignment explanation
Indices: 47029981--47030065 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 43
47029971 ATAAAATATC
*
47029981 CATTAATAAATTTCACAAA-AAAA-ATT-TTATTTAATAAATT
1 CATTAATAAACTTCACAAATAAAATATTATTATTTAATAAATT
*
47030021 CATTAATAAACTTCACAAATAAAATTTTATTATTTAATAAATT
1 CATTAATAAACTTCACAAATAAAATATTATTATTTAATAAATT
47030064 CA
1 CA
47030066 AAATTAACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
40 18 0.45
41 4 0.10
42 2 0.05
43 16 0.40
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (43 bp):
CATTAATAAACTTCACAAATAAAATATTATTATTTAATAAATT
Found at i:47030730 original size:24 final size:22
Alignment explanation
Indices: 47030703--47030759 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
47030693 CTAGAGAAAT
*
47030703 GAAAGAAATAAGAAGGAAGCAGAA
1 GAAA-AAATAAGAAGGAA-AAGAA
*
47030727 GAAAAAA-AGGAAGGAAAAGAA
1 GAAAAAATAAGAAGGAAAAGAA
47030748 GAAAAAAATAAG
1 G-AAAAAATAAG
47030760 GTATTTTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.18
22 14 0.50
23 5 0.18
24 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.26, T:0.04
Consensus pattern (22 bp):
GAAAAAATAAGAAGGAAAAGAA
Found at i:47030738 original size:18 final size:18
Alignment explanation
Indices: 47030704--47030753 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
47030694 TAGAGAAATG
47030704 AAAGAAATAAGAAGGAAGCA
1 AAAGAAA-AA-AAGGAAGCA
* *
47030724 GAAGAAAAAAAGGAAGGA
1 AAAGAAAAAAAGGAAGCA
47030742 AAAGAAGAAAAA
1 AAAGAA-AAAAA
47030754 AATAAGGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 13 0.50
19 7 0.27
20 6 0.23
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.02
Consensus pattern (18 bp):
AAAGAAAAAAAGGAAGCA
Found at i:47030749 original size:21 final size:22
Alignment explanation
Indices: 47030714--47030755 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
47030704 AAAGAAATAA
*
47030714 GAAGGAAGCAGAAGAAAAAAAG
1 GAAGGAAGAAGAAGAAAAAAAG
47030736 GAAGGAA-AAGAAGAAAAAAA
1 GAAGGAAGAAGAAGAAAAAAA
47030756 TAAGGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (22 bp):
GAAGGAAGAAGAAGAAAAAAAG
Found at i:47030760 original size:24 final size:22
Alignment explanation
Indices: 47030703--47030760 Score: 57
Period size: 24 Copynumber: 2.6 Consensus size: 22
47030693 CTAGAGAAAT
* *
47030703 GAAAGAAATAA-GAAGGAAGCA
1 GAAAAAAATAAGGAAGGAAGAA
47030724 GAAGAAAAA-AAGGAAGGAAAAGAA
1 GAA-AAAAATAAGGAAGG--AAGAA
47030748 GAAAAAAATAAGG
1 GAAAAAAATAAGG
47030761 TATTTTGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 5 0.17
22 9 0.30
23 5 0.17
24 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.03
Consensus pattern (22 bp):
GAAAAAAATAAGGAAGGAAGAA
Found at i:47033755 original size:27 final size:27
Alignment explanation
Indices: 47033725--47033791 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 27
47033715 TGCAAAATAA
47033725 AAAAAAACATTATAAATTTATTTACAT
1 AAAAAAACATTATAAATTTATTTACAT
* *
47033752 AAAAAACCATTATAATTTTATTTACAT
1 AAAAAAACATTATAAATTTATTTACAT
47033779 AAAAAAATCATTA
1 AAAAAAA-CATTA
47033792 CATAAATATG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 31 0.86
28 5 0.14
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (27 bp):
AAAAAAACATTATAAATTTATTTACAT
Found at i:47035810 original size:16 final size:15
Alignment explanation
Indices: 47035779--47035822 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
47035769 ACAAAATCAA
47035779 ATAAAATTAAATTAT
1 ATAAAATTAAATTAT
*
47035794 ATAAAAGTTACATTAT
1 ATAAAA-TTAAATTAT
47035810 ATAAAAATTAAAT
1 AT-AAAATTAAAT
47035823 GAGTTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
ATAAAATTAAATTAT
Found at i:47036132 original size:27 final size:25
Alignment explanation
Indices: 47036096--47036234 Score: 118
Period size: 27 Copynumber: 5.8 Consensus size: 25
47036086 ATATCCCGAC
47036096 ATTACAATATTCATATAAAATTACAAT
1 ATTACAATATTCATATAAAA-TA-AAT
**
47036123 ATTACAATATTCAT-GCAAA-AAA-
1 ATTACAATATTCATATAAAATAAAT
*
47036145 ATTGCAATATTCATATAAAATGATAAT
1 ATTACAATATTCATATAAAAT-A-AAT
*
47036172 ATTACAATATTCATA-CAAA-AAA-
1 ATTACAATATTCATATAAAATAAAT
*
47036194 ATTACAATATTC--ATACAA-AAA-
1 ATTACAATATTCATATAAAATAAAT
*
47036215 ATTACAATATTCATACAAAA
1 ATTACAATATTCATATAAAA
47036235 CGCTAATCCA
Statistics
Matches: 93, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
20 1 0.01
21 17 0.18
22 25 0.27
23 11 0.12
24 2 0.02
25 1 0.01
26 8 0.09
27 28 0.30
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (25 bp):
ATTACAATATTCATATAAAATAAAT
Found at i:47036173 original size:49 final size:49
Alignment explanation
Indices: 47036096--47036234 Score: 191
Period size: 49 Copynumber: 3.0 Consensus size: 49
47036086 ATATCCCGAC
* *
47036096 ATTACAATATTCATATAAAATTACAATATTACAATATTCATGCAAAAAA
1 ATTACAATATTCATATAAAATGACAATATTACAATATTCATACAAAAAA
* *
47036145 ATTGCAATATTCATATAAAATGATAATATTACAATATTCATACAAAAAA
1 ATTACAATATTCATATAAAATGACAATATTACAATATTCATACAAAAAA
*
47036194 ATTACAATATTC--ATACAA--A-AA-ATTACAATATTCATACAAAA
1 ATTACAATATTCATATAAAATGACAATATTACAATATTCATACAAAA
47036235 CGCTAATCCA
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
43 20 0.24
44 2 0.02
45 1 0.01
47 5 0.06
49 56 0.67
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (49 bp):
ATTACAATATTCATATAAAATGACAATATTACAATATTCATACAAAAAA
Found at i:47036197 original size:22 final size:22
Alignment explanation
Indices: 47036172--47036234 Score: 119
Period size: 21 Copynumber: 2.9 Consensus size: 22
47036162 AAATGATAAT
47036172 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
47036194 ATTACAATATTCATAC-AAAAA
1 ATTACAATATTCATACAAAAAA
47036215 ATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
47036235 CGCTAATCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 21 0.52
22 19 0.47
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Done.