Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 24 of 34
Found at i:3698452 original size:24 final size:23
Alignment explanation
Indices: 3698416--3698494 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
3698406 ATTCAAAAAG
* *
3698416 AAAAAACACAAAAATAAGAAACAC
1 AAAAAAAAGAAAAA-AAGAAACAC
**
3698440 AAAAAAAAGAAAAAAAAAGCAAAGGC
1 AAAAAAAAG--AAAAAAAG-AAACAC
* *
3698466 AAAAAATAGAAAAAAAGGAACAAC
1 AAAAAAAAGAAAAAAAGAAAC-AC
3698490 AAAAA
1 AAAAA
3698495 TCAAAAAGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
23 2 0.05
24 21 0.49
25 3 0.07
26 17 0.40
ACGTcount: A:0.77, C:0.10, G:0.10, T:0.03
Consensus pattern (23 bp):
AAAAAAAAGAAAAAAAGAAACAC
Found at i:3698454 original size:26 final size:26
Alignment explanation
Indices: 3698416--3698481 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
3698406 ATTCAAAAAG
* *
3698416 AAAAAACACAAAAATAAG-AAACACAA
1 AAAAAAGA-AAAAAAAAGCAAACACAA
**
3698442 AAAAAAGAAAAAAAAAGCAAAGGCAA
1 AAAAAAGAAAAAAAAAGCAAACACAA
*
3698468 AAAATAGAAAAAAA
1 AAAAAAGAAAAAAA
3698482 GGAACAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 8 0.24
26 26 0.76
ACGTcount: A:0.79, C:0.09, G:0.09, T:0.03
Consensus pattern (26 bp):
AAAAAAGAAAAAAAAAGCAAACACAA
Found at i:3701018 original size:28 final size:27
Alignment explanation
Indices: 3700985--3701057 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
3700975 AATAAAGCCA
* **
3700985 GGGTTGGAGTGTCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCGAGG-AATAACG
* *
3701013 GGGTTGGAGTATCCCCGATGATTAACG
1 GGGTTGGAGTATCCCCGAGGAATAACG
3701040 GGGTTGGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
3701058 TTGTGAAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGGAATAACG
Found at i:3703545 original size:13 final size:13
Alignment explanation
Indices: 3703527--3703552 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3703517 ACAAAGATCC
3703527 ATGTATCGATACA
1 ATGTATCGATACA
3703540 ATGTATCGATACA
1 ATGTATCGATACA
3703553 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3703564 original size:33 final size:33
Alignment explanation
Indices: 3703506--3703572 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
3703496 AAAATTTCCA
*** *
3703506 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCAATAC
*
3703539 AATGTATCGATACACAGAAAAATGTATCAATAC
1 AATGTATCGATACAAAGAAAAATGTATCAATAC
3703572 A
1 A
3703573 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCAATAC
Found at i:3703615 original size:18 final size:18
Alignment explanation
Indices: 3703592--3703653 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
3703582 CAGTAGCTAA
3703592 TTATGTATCGATCAATAC
1 TTATGTATCGATCAATAC
3703610 TTATGTATCG----ATAC
1 TTATGTATCGATCAATAC
* *
3703624 AT-TGTATCGATACAAAAC
1 TTATGTATCGAT-CAATAC
3703642 TTATGTATCGAT
1 TTATGTATCGAT
3703654 ACAAATCGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
13 7 0.20
14 5 0.14
18 14 0.40
19 9 0.26
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (18 bp):
TTATGTATCGATCAATAC
Found at i:3703631 original size:13 final size:13
Alignment explanation
Indices: 3703613--3703637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3703603 TCAATACTTA
3703613 TGTATCGATACAT
1 TGTATCGATACAT
3703626 TGTATCGATACA
1 TGTATCGATACA
3703638 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3703648 original size:32 final size:31
Alignment explanation
Indices: 3703595--3703656 Score: 106
Period size: 32 Copynumber: 2.0 Consensus size: 31
3703585 TAGCTAATTA
*
3703595 TGTATCGATCAATACTTATGTATCGATACAT
1 TGTATCGATCAAAACTTATGTATCGATACAT
3703626 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGAT-CAAAACTTATGTATCGATACA
3703657 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (31 bp):
TGTATCGATCAAAACTTATGTATCGATACAT
Found at i:3703650 original size:19 final size:19
Alignment explanation
Indices: 3703592--3703658 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
3703582 CAGTAGCTAA
*
3703592 TTATGTATCGAT-CAATAC
1 TTATGTATCGATACAAAAC
3703610 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
3703625 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
3703642 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
3703659 TCGTTGAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 13 0.31
19 15 0.36
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:3703720 original size:21 final size:21
Alignment explanation
Indices: 3703694--3703770 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
3703684 GTTGGGACCC
* *
3703694 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
3703715 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
*
3703736 TATATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
3703757 TGTATCGATACATT
1 TGTATCGATACATT
3703771 TGGAAATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:3704523 original size:55 final size:55
Alignment explanation
Indices: 3704439--3706277 Score: 1493
Period size: 55 Copynumber: 31.9 Consensus size: 55
3704429 AAAAAGTGTA
* *
3704439 TCCTGCTCATTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTG-AAAGGCT
1 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
3704494 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGG-T
1 TCCTGCTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
* *
3704548 GTCCTGCTCTTTGAGGATTGGAAAA-TGCCACTAACTTGTGTGGGCTTTG-AAAGG-T
1 -TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
* *
3704603 GTCCTGCTCTTTGAGGATTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGAAGAAGGCG
1 -TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTT----GAA-AAGGCT
* * * * * * *
3704665 TCCTACTCTTTGAGGACTGAAGGTACCACTAACTTTTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
* * * * ** *
3704724 TCATGCTCTTTGGGGACTAGAAAATGCCACTAACTTACGTGGGCTTCGAAAA-G-T
1 TCCTGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
3704778 GTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAGG-T
1 -TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
* *
3704833 ATCCTGCTCTTTGAGGATTGGAAAA-TGCCACCAACTTGTGTAGGCTTTGAAAGAAGAAAGCT
1 -TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTG-AA-AAG---GCT
* * * * * *
3704895 TCATGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTT---ATGGCG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
* * *
3704947 TCCTGCTCTTTGGGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCT
* * * * *
3705008 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
* *
3705067 TCCTGCTCTTTGAGGATTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGAAGAAGGCG
1 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTT----GAA-AAGGCT
* **
3705128 TCGTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGG-T
1 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
*
3705182 ATCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 -TCCTGCTCTTTGAGGACTAA-AAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
*
3705243 TCCTGCTCTTTGGGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAAGG-T
1 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
* * *
3705297 GTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 -TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCT
* * * *
3705359 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
* * * *
3705418 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATG-T
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
* * * *
3705476 GTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGG-T
1 -TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
*
3705530 GTCCTGCTCTCTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAGG-T
1 -TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
* *
3705585 GTTCTGCTCTTTGCGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAGG-T
1 -TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
* *
3705640 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 -TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCT
* * * *
3705702 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGGGTGGGTTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
* * *
3705761 TCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
* * *
3705820 TCCCGCTCTTTGAGGACTGGAAAA-TGCCACCAACCTGTATGGGCTTT-AAAAGG-T
1 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
3705874 GTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAGG-T
1 -TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
* *
3705929 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGCA
1 -TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-G----GCT
* * * *
3705991 TCCTGCTCTTTGAGGAATAAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
* * *
3706050 TCCCGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
* * *
3706109 TCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
* * * * *
3706168 TCCCGCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----GAAAAGGCT
** *
3706227 TCCCACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
1 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAA
3706278 GGAGAAGGCG
Statistics
Matches: 1558, Mismatches: 128, Indels: 195
0.83 0.07 0.10
Matches are distributed among these distances:
52 18 0.01
53 24 0.02
54 42 0.03
55 540 0.35
56 30 0.02
57 7 0.00
58 3 0.00
59 410 0.26
60 295 0.19
61 162 0.10
62 3 0.00
63 1 0.00
64 23 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCT
Found at i:3704626 original size:27 final size:27
Alignment explanation
Indices: 3704541--3704626 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
3704531 TGTGGGCTTT
3704541 GAAAGGTGTCCTGCTCTTTGAGGATTG
1 GAAAGGTGTCCTGCTCTTTGAGGATTG
* * * * *
3704568 GAAA-ATG-CC-ACTAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGCT--CTT-TG-AGGATTG
3704596 GAAAGGTGTCCTGCTCTTTGAGGATTG
1 GAAAGGTGTCCTGCTCTTTGAGGATTG
3704623 GAAA
1 GAAA
3704627 ATGCCACCAA
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
24 2 0.05
25 2 0.05
26 5 0.12
27 14 0.33
28 10 0.24
29 5 0.12
30 2 0.05
31 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.31
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGATTG
Found at i:3705071 original size:59 final size:59
Alignment explanation
Indices: 3704943--3706320 Score: 1646
Period size: 59 Copynumber: 23.6 Consensus size: 59
3704933 TGGGCTTTAT
* **
3704943 GGCGTCCTGCTCTTTGGGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAA
* * * *
3705004 AGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* * ** *
3705063 GGCATCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGAA
1 GGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAA-AA
*
3705124 GGCGTCGTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-----AAAA
1 GGCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
**
3705179 GGTATCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAG--GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* **
3705239 GGCGTCCTGCTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----AAAA
1 GGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* *
3705294 GGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAA
* * *
3705355 AGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
*
3705414 GGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* * *
3705473 TGTGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---A
1 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* * **
3705527 GGTGTCCTGCTCTCTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAA
1 GGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* * * **
3705582 GGTGTTCTGCTCTTTGCGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAA
1 GGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
*
3705637 GGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAA
* * * * *
3705698 AGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGGGTGGGTTTTAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* *
3705757 GGCGTCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* ** * *
3705816 GGCGTCCCGCTCTTTGAGGACTGGAAAATGCCACCAACCTGTATGGGCTTT-----AAAA
1 GGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* **
3705871 GGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAA
1 GGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
*
3705926 GGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAA
1 GGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAA-GAAAA
* * * *
3705988 -GCATCCTGCTCTTTGAGGAATAAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* * *
3706046 GGCATCCCGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* *
3706105 GGCGTCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* *
3706164 GGCGTCCCGCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
** * *
3706223 GGCGTCCCACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAA
1 GGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAA
*
3706284 GGCGTCCTGCTCTTTGCGGACTGGGAA-GTGCCACCAA
1 GGCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAA
3706321 TTCGTCCCCA
Statistics
Matches: 1178, Mismatches: 94, Indels: 90
0.86 0.07 0.07
Matches are distributed among these distances:
52 2 0.00
53 1 0.00
54 23 0.02
55 320 0.27
56 2 0.00
57 3 0.00
58 5 0.00
59 417 0.35
60 230 0.20
61 163 0.14
62 11 0.01
63 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (59 bp):
GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
Found at i:3705076 original size:343 final size:339
Alignment explanation
Indices: 3704443--3706279 Score: 2365
Period size: 343 Copynumber: 5.3 Consensus size: 339
3704433 AGTGTATCCT
* * *
3704443 GCTCATTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCT-TCCTGCTCTTTG
1 GCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGG-TGTCCTGCTCTTTG
*
3704506 AGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGATTGGA
64 AGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGA
* * *
3704570 AAATGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACC
127 AAATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGAGGACT-GAAAGTGCCACC
* * * * *
3704635 AACTTGTGTGGGCTTTG-AAAGAAGAAGGCGTCCTACTCTTTGAGGACTGAAGGTACCACTAACT
190 AACTTGTGTGGGCTTTGAAAAGAA-AAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACT
** ** * * * **
3704699 TTTGTGGGCTTTAAAAGAAAAGGCGTCATGCTCTTTGGGGACTAGAAAATGCCACTAACTTACGT
254 TGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGT
* * *
3704764 GGGC-TT-CGAAAA-GTGTCCT
318 GGGCTTTAAGAAAAGGCGTCCC
*
3704783 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTATCCTGCTCTTTGAG
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAG
* * * *
3704848 GATTGGAAAATGCCACCAACTTGTGTAGGCTTTGAAAGAAGAAAGCTTCATGCTCTTTGAGGACT
66 GACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAG--G--TG--TCCTGCTCTTTGAGGACT
** * * * * *
3704913 -GAAGGTGCCACTAACTTGTGTGGGCTTT-ATGGCGTCCTGCTCTTTGGGGACTAGAAAATGCCA
124 GGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGTGCCA
3704976 CCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAAC
188 CCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAAC
* * * * *
3705041 TCGGGTGGGCTTTAAAAGAAAAGGCATCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTG
253 TTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTG
**
3705106 TGGGCTTTGAAAGAAGAAGGCGTCGT
317 TGGGCTTT--AAGAA-AAGGCGTCCC
* * * *
3705132 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTGAG
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAG
* *
3705197 GACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGGGGACT
66 GACTGAA-AA-TGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACT
*
3705261 GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCC
124 GGAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGAGGACTGAAA-GTGCC
3705326 ACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAA
187 ACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAA
*
3705391 CTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTG
252 CTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTG
* *
3705456 TGGGCTTTAAAAGAAAATGTGTCCC
317 TGGGCTTT--AAGAAAAGGCGTCCC
** *
3705481 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTCTGA
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGA
* *
3705544 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTTCTGCTCTTTGCGGACTGGAAA
65 GGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA
3705609 ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAA
129 ATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAA
*
3705674 CTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGG
192 CTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGG
*
3705739 GTGGGTTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGC
257 GTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGC
3705804 TTTAAAAGAAAAGGCGTCCC
322 TTT--AAGAAAAGGCGTCCC
* * *
3705824 GCTCTTTGAGGACTGGAAAATGCCACCAACCTGTATGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAG
3705889 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAG
66 GACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-
* * *
3705953 GTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGCATCCTGCTCTTTGAGGAAT-AAAGGTGC
129 ATGCCACCAACTTGTGTGGGCTTT--AAAGG---TG--TCCTGCTCTTTGAGGACTGAAA-GTGC
* * * *
3706017 CACCAACTTGGGTGGGCTTT-AAAAGAAAAGGCATCCCGCTCTTTGAGGACTAAAGGTGCCACCA
186 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCA
*
3706081 ACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGT
251 ACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGT
3706146 GTGGGCTTTAAAAGAAAAGGCGTCCC
316 GTGGGCTTT--AAGAAAAGGCGTCCC
* ** * **
3706172 GCTCTTTGAGGA-TTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCACTCT
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCT
*
3706236 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
61 TTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGG
3706280 AGAAGGCGTC
Statistics
Matches: 1352, Mismatches: 99, Indels: 80
0.88 0.06 0.05
Matches are distributed among these distances:
339 1 0.00
340 85 0.06
341 4 0.00
342 5 0.00
343 395 0.29
344 132 0.10
345 33 0.02
346 16 0.01
347 32 0.02
348 234 0.17
349 166 0.12
350 56 0.04
351 136 0.10
352 52 0.04
353 1 0.00
354 4 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (339 bp):
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAG
GACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAAT
GCCACCAACTTGTGTGGGCTTTAAAGGTGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTG
TGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGG
GCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTA
AGAAAAGGCGTCCC
Found at i:3705347 original size:29 final size:29
Alignment explanation
Indices: 3705267--3705348 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 29
3705257 GACTGGAAAA
*
3705267 TGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
** *
3705296 TGTCCTGC-TCTT-TG-GGGAC--TGAAAGG
1 TG-CCACCAACTTGTGTGGG-CTTTGAAAGG
3705322 TGCCACCAACTTGTGTGGGCTTTGAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAA
3705349 AGAAAAAGCA
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
25 3 0.08
26 11 0.28
27 6 0.15
28 6 0.15
29 10 0.26
30 3 0.08
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (29 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:3706677 original size:62 final size:61
Alignment explanation
Indices: 3706553--3707057 Score: 440
Period size: 62 Copynumber: 8.3 Consensus size: 61
3706543 GCAGGACGCG
* * * *
3706553 CCTTTTAGT-CTCCAAAAAGTAGGATGCCTTTTTCTTTTTAAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCT-CAAAGAGCAGGATGCCTTTTCCTTTTT-AAAG-CCATACAAGTTGGTGGCA
* * * * ** *
3706616 TCTTTTAGTCCTTAAAGAACATGACACCTTTTCCTTTTTAAAGCTCGTACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGC-CATACAAGTTGGTGGCA
* * * * * * * *
3706678 CTTTTTAGTCCTCAAGGAGTAGGATGCCATTTCTTTTTTAAAACCCACACAAGTTCGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTT-AAAGCCATACAAGTTGGTGGCA
* * * * *
3706740 CTTTTTAGTCCTC-AAGAGCATGATGCTTTTTCCATTTAAAAG-C---C----TGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCATACAAGTTGGTGGCA
* * * *
3706792 CCTTTTAGTCCTTAAAGAGGAGGACGCC-TTTCCCTTTTAAAGCCACT-CAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCA-TACAAGTTGGTGGCA
* * * * * * *
3706852 CCTTTTAGTCCTCAAAAAACAAGATGTCTTTTCCTCTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAG-CCATACAAGTTGGTGGCA
* * * * *
3706914 CCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTGCTCTTTAAAGCCATACAAGTCGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCATACAAGTTGGTGGCA
* * * *
3706975 CCTTTTAGTCCTCAAAGAGCAGGATGCATTTTCCTCTTTAAAGCCTACACAAGTCGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCC-ATACAAGTTGGTGGCA
* *
3707037 TCTTTTAGTCCTCAGAGAGCA
1 CCTTTTAGTCCTCAAAGAGCA
3707058 TCTTAAAGCT
Statistics
Matches: 356, Mismatches: 70, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
52 30 0.08
53 11 0.03
56 2 0.01
59 1 0.00
60 32 0.09
61 86 0.24
62 161 0.45
63 31 0.09
64 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCATACAAGTTGGTGGCA
Found at i:3707007 original size:123 final size:123
Alignment explanation
Indices: 3706784--3707299 Score: 428
Period size: 123 Copynumber: 4.3 Consensus size: 123
3706774 TTTAAAAGCC
* * * * *
3706784 TGGTGGCACCTTTTAGTCCTTAAAGAGGAGGACGCC-TTTCCCTTTTAAAGCCACT-CAAGTTGG
1 TGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTC-TTTAAAGCCA-TACAAGTCGA
* * * * *
3706847 TGGCACCTTTTAGTCCTCAAAAAACAAG-AT-GTCTTTTCCTCTTTAAAGCCCACATAAGT
64 TGGCACCTTTTAGTCCTCAAAGAGCAGGAATCCT-TTTTCCTCTTTAAAGCCCACACAAGT
* *
3706906 TGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTGCTCTTTAAAGCCATACAAGTCGAT
1 TGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT-CTCTTTAAAGCCATACAAGTCGAT
* * *
3706971 GGCACCTTTTAGTCCTCAAAGAGCAGG-ATGCATTTTCCTCTTTAAAGCCTACACAAGT
65 GGCACCTTTTAGTCCTCAAAGAGCAGGAATCCTTTTTCCTCTTTAAAGCCCACACAAGT
* * * * * *
3707029 CGGTGGCATCTTTTAGTCCTC----AG-A-GA-G-C----ATC-TTAAAGCTGATACTAGTCAAT
1 TGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTCTTTAAAGC-CATACAAGTCGAT
* * *
3707081 GGCACCTTTTAGTCCTCAAAGAGCAAGGCA-CCTTTTTCCTTTTTAAAGCTCACACAAGT
65 GGCACCTTTTAGTCCTCAAAGAGC-AGGAATCCTTTTTCCTCTTTAAAGCCCACACAAGT
* * * *
3707140 CGGTGGCACCTTTTAGCCCTCAAAGAGCAGGACGCATTTTCTTTTTTAAAG-CATACATAAGTCG
1 TGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTC-TCTTTAAAGCCATAC--AAGTCG
* * * * **
3707204 ATGGTACTTTTTAGTCCTCAAAGAGTC-GGATACCTTCCTTTTTCCT-TTTAATGCTCACATGAG
63 ATGGCACCTTTTAGTCCTCAAAGAG-CAGGA-A---TCCTTTTTCCTCTTTAAAGCCCACACAAG
3707267 T
123 T
* *
3707268 TGGTGGCACCTTTTAATCCTCAAAGAGTAGGA
1 TGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA
3707300 TATTTTTCTT
Statistics
Matches: 322, Mismatches: 43, Indels: 52
0.77 0.10 0.12
Matches are distributed among these distances:
109 7 0.02
110 36 0.11
111 46 0.14
112 1 0.00
115 3 0.01
116 2 0.01
117 4 0.01
118 2 0.01
119 2 0.01
122 33 0.10
123 93 0.29
124 5 0.02
125 34 0.11
126 1 0.00
128 43 0.13
129 10 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (123 bp):
TGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTCTTTAAAGCCATACAAGTCGATG
GCACCTTTTAGTCCTCAAAGAGCAGGAATCCTTTTTCCTCTTTAAAGCCCACACAAGT
Found at i:3707161 original size:63 final size:63
Alignment explanation
Indices: 3707080--3707294 Score: 215
Period size: 62 Copynumber: 3.4 Consensus size: 63
3707070 TACTAGTCAA
*
3707080 TGGCACCTTTTAGTCCTCAAAGAGCAAGGCACCTTTTTCCTTTTTAAAGCTCACACAAGTCGG
1 TGGCACCTTTTAGTCCTCAAAGAGCAAGGCACCTTTTTCCTTTTTAAAGCTCACATAAGTCGG
* * * *
3707143 TGGCACCTTTTAGCCCTCAAAGAGC-AGG-ACGCATTTTCTTTTTTAAAGCAT-ACATAAGTCGA
1 TGGCACCTTTTAGTCCTCAAAGAGCAAGGCAC-CTTTTTCCTTTTTAAAGC-TCACATAAGTCGG
* * * * * *
3707205 TGGTACTTTTTAGTCCTCAAAGAGTCGGATA-CCTTCCTTTTTCC-TTTTAATGCTCACATGAGT
1 TGGCACCTTTTAGTCCTCAAAGAG-C--A-AGGC-ACCTTTTTCCTTTTTAAAGCTCACATAAGT
*
3707268 TGG
61 CGG
*
3707271 TGGCACCTTTTAATCCTCAAAGAG
1 TGGCACCTTTTAGTCCTCAAAGAG
3707295 TAGGATATTT
Statistics
Matches: 123, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
61 2 0.02
62 49 0.40
63 26 0.21
65 1 0.01
66 37 0.30
67 7 0.06
68 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
TGGCACCTTTTAGTCCTCAAAGAGCAAGGCACCTTTTTCCTTTTTAAAGCTCACATAAGTCGG
Found at i:3707167 original size:111 final size:109
Alignment explanation
Indices: 3706951--3707168 Score: 305
Period size: 111 Copynumber: 2.0 Consensus size: 109
3706941 CTTTTGCTCT
* *
3706951 TTAAAGCCATACAAGTCGATGGCACCTTTTAGTCCTCAAAGAGCAGGATGCATTTTCCTCTTTAA
1 TTAAAGCCATACAAGTCAATGGCACCTTTTAGTCCTCAAAGAGCAGGATCCATTTTCCTCTTTAA
* * *
3707016 AGCCTACACAAGTCGGTGGCATCTTTTAGTCCTCAGAGAGCATC
66 AGCCTACACAAGTCGGTGGCACCTTTTAGCCCTCAAAGAGCATC
* * * *
3707060 TTAAAGCTGATACTAGTCAATGGCACCTTTTAGTCCTCAAAGAGCAAGGCA-CCTTTTTCCTTTT
1 TTAAAGC-CATACAAGTCAATGGCACCTTTTAGTCCTCAAAGAGC-AGG-ATCCATTTTCCTCTT
3707124 TAAAG-CTCACACAAGTCGGTGGCACCTTTTAGCCCTCAAAGAGCA
63 TAAAGCCT-ACACAAGTCGGTGGCACCTTTTAGCCCTCAAAGAGCA
3707169 GGACGCATTT
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
109 7 0.07
110 36 0.38
111 52 0.54
112 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (109 bp):
TTAAAGCCATACAAGTCAATGGCACCTTTTAGTCCTCAAAGAGCAGGATCCATTTTCCTCTTTAA
AGCCTACACAAGTCGGTGGCACCTTTTAGCCCTCAAAGAGCATC
Found at i:3707179 original size:173 final size:170
Alignment explanation
Indices: 3706909--3707228 Score: 446
Period size: 173 Copynumber: 1.9 Consensus size: 170
3706899 CATAAGTTGG
* *
3706909 TGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTGCTCTTTAAAGCCATACAAGTCGATGGC
1 TGGCACCTTTTAGTCCTCAAAAAGCAGGA-GCCTTTTCCTCTTTAAAGCCACACAAGTCGATGGC
* * * *
3706974 ACCTTTTAGTCCTCAAAGAGCAGGATGCATTTTCCTCTTTAAAGCCTACACAAGTCGGTGGCA-T
65 ACCTTTTAGCCCTCAAAGAGCAGGACGCATTTTCCTCTTTAAAGCATACACAAGTCGATGGCACT
*
3707038 CTTTTAGTCCTCAGAGAGCATCTTAAAGCTGATACTAGTCAA
130 -TTTTAGTCCTCAAAGAGCATCTTAAAGCTGATACTAGTCAA
* * *
3707080 TGGCACCTTTTAGTCCTCAAAGAGCAAGGCA-CCTTTTTCCTTTTTAAAGCTCACACAAGTCGGT
1 TGGCACCTTTTAGTCCTCAAAAAGC-AGG-AGCC-TTTTCCTCTTTAAAGC-CACACAAGTCGAT
* * * *
3707144 GGCACCTTTTAGCCCTCAAAGAGCAGGACGCATTTTCTTTTTTAAAGCATACATAAGTCGATGGT
62 GGCACCTTTTAGCCCTCAAAGAGCAGGACGCATTTTCCTCTTTAAAGCATACACAAGTCGATGGC
3707209 ACTTTTTAGTCCTCAAAGAG
127 ACTTTTTAGTCCTCAAAGAG
3707229 TCGGATACCT
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
171 26 0.20
172 17 0.13
173 86 0.66
174 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (170 bp):
TGGCACCTTTTAGTCCTCAAAAAGCAGGAGCCTTTTCCTCTTTAAAGCCACACAAGTCGATGGCA
CCTTTTAGCCCTCAAAGAGCAGGACGCATTTTCCTCTTTAAAGCATACACAAGTCGATGGCACTT
TTTAGTCCTCAAAGAGCATCTTAAAGCTGATACTAGTCAA
Found at i:3707216 original size:62 final size:63
Alignment explanation
Indices: 3707060--3707228 Score: 200
Period size: 62 Copynumber: 2.7 Consensus size: 63
3707050 AGAGAGCATC
* * * * *
3707060 TTAAAGCTGATACTAGTCAATGGCACCTTTTAGTCCTCAAAGAGCAAGGCACCTTTTTCCTTT
1 TTAAAGCTCACACAAGTCGATGGCACCTTTTAGTCCTCAAAGAGCAAGGCACCATTTTCCTTT
* * *
3707123 TTAAAGCTCACACAAGTCGGTGGCACCTTTTAGCCCTCAAAGAGC-AGG-ACGCATTTTCTTTT
1 TTAAAGCTCACACAAGTCGATGGCACCTTTTAGTCCTCAAAGAGCAAGGCAC-CATTTTCCTTT
* * *
3707185 TTAAAGCAT-ACATAAGTCGATGGTACTTTTTAGTCCTCAAAGAG
1 TTAAAGC-TCACACAAGTCGATGGCACCTTTTAGTCCTCAAAGAG
3707229 TCGGATACCT
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
61 2 0.02
62 49 0.54
63 40 0.44
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (63 bp):
TTAAAGCTCACACAAGTCGATGGCACCTTTTAGTCCTCAAAGAGCAAGGCACCATTTTCCTTT
Found at i:3707466 original size:52 final size:52
Alignment explanation
Indices: 3707382--3707482 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
3707372 CAATTGGTGG
* * *** * * *
3707382 CATCATCTTTAAGTCCAATTTTGCTGGGCTTGAATTAGTATATTGGCATGCT
1 CATCATCTTTAAATCCAATGTTGCTACCCTTGAAGTAGCACATTGGCATGCT
3707434 CATCATCTTTAAATCCAATGTTGCTACCCTTGAAGTAGCACATTGGCAT
1 CATCATCTTTAAATCCAATGTTGCTACCCTTGAAGTAGCACATTGGCAT
3707483 CACACCCTCA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.37
Consensus pattern (52 bp):
CATCATCTTTAAATCCAATGTTGCTACCCTTGAAGTAGCACATTGGCATGCT
Found at i:3708157 original size:21 final size:20
Alignment explanation
Indices: 3708131--3708183 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
3708121 TTCTATAATT
3708131 TGTATCGATACAAATAGCAAA
1 TGTATCGATACAAA-AGCAAA
* *
3708152 TGTATCGATACATAAGTAAA
1 TGTATCGATACAAAAGCAAA
*
3708172 TGTATCAATACA
1 TGTATCGATACA
3708184 TGCCTGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (20 bp):
TGTATCGATACAAAAGCAAA
Found at i:3708174 original size:20 final size:20
Alignment explanation
Indices: 3708131--3708204 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
3708121 TTCTATAATT
* *
3708131 TGTATCGATACAAATAGCAAA
1 TGTATCGATACATA-AGTAAA
3708152 TGTATCGATACATAAGTAAA
1 TGTATCGATACATAAGTAAA
* ***
3708172 TGTATCAATACATGCCTGAAA
1 TGTATCGATACATAAGT-AAA
3708193 TGTATCGATACA
1 TGTATCGATACA
3708205 AAATCACTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 18 0.40
21 27 0.60
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATAAGTAAA
Found at i:3712809 original size:47 final size:47
Alignment explanation
Indices: 3712694--3712942 Score: 266
Period size: 47 Copynumber: 5.3 Consensus size: 47
3712684 TTTATCCATA
* * ** *
3712694 TTTGATTGTATTGGCATTAAGACCTGGTCAAACTCAAATCCATTCTCG
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTC-TTTCCACTCTCG
3712742 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTTCCACTCTCG
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTTCCACTCTCG
* ** * * ** *
3712789 TTTGATTGTATAAGCGTTAGGACCTGGACAAACTCAAATCCACTCTCA
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTC-TTTCCACTCTCG
* * * *
3712837 TTTGACTATATTGGCATTAGG-CAATGGTCAAACTTTTTCCACTCTCA
1 TTTGACTGTATTGGCATTAGGAC-CTGGTCAAACTCTTTCCACTCTCG
* * * *
3712884 TTTGACTGTATTGGCGTTAGGACCTAGTCAAACTCTTTTCACTCTTG
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTTCCACTCTCG
*
3712931 TTTGATTGTATT
1 TTTGACTGTATT
3712943 AGCGTTTTCC
Statistics
Matches: 166, Mismatches: 32, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
47 98 0.59
48 68 0.41
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (47 bp):
TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTTCCACTCTCG
Found at i:3712821 original size:95 final size:95
Alignment explanation
Indices: 3712693--3712918 Score: 319
Period size: 95 Copynumber: 2.4 Consensus size: 95
3712683 TTTTATCCAT
* * * * *
3712693 ATTTGATTGTATTGGCATTAAGACCTGGTCAAACTCAAATCCATTCTCGTTTGACTGTATTGGCA
1 ATTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCAAATCCACTCTCATTTGACTATATTGGCA
*
3712758 TTAGG-ACCTGGTCAAACTCTTTCCACTCTC
66 TTAGGCA-ATGGTCAAACTCTTTCCACTCTC
* ** *
3712788 GTTTGATTGTATAAGCGTTAGGACCTGGACAAACTCAAATCCACTCTCATTTGACTATATTGGCA
1 ATTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCAAATCCACTCTCATTTGACTATATTGGCA
*
3712853 TTAGGCAATGGTCAAACTTTTTCCACTCTC
66 TTAGGCAATGGTCAAACTCTTTCCACTCTC
* *
3712883 ATTTGACTGTATTGGCGTTAGGACCTAGTCAAACTC
1 ATTTGATTGTATTGGCGTTAGGACCTGGTCAAACTC
3712919 TTTTCACTCT
Statistics
Matches: 113, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
95 112 0.99
96 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (95 bp):
ATTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCAAATCCACTCTCATTTGACTATATTGGCA
TTAGGCAATGGTCAAACTCTTTCCACTCTC
Found at i:3712997 original size:76 final size:76
Alignment explanation
Indices: 3712871--3713021 Score: 239
Period size: 76 Copynumber: 2.0 Consensus size: 76
3712861 TGGTCAAACT
* * **
3712871 TTTTCCACTCTCATTTGACTGTATTGGCGTTAGGACCTAGTCAAACTCTTTTCACTCTTGTTTGA
1 TTTTCCACTCTCATTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACTCTCATTTGA
*
3712936 TTGTATTAGCG
66 TTGCATTAGCG
**
3712947 TTTTCCACTCTTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACTCTCATTTGA
1 TTTTCCACTCTCATTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACTCTCATTTGA
3713012 TTGCATTAGC
66 TTGCATTAGC
3713022 TTTAAGACCT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (76 bp):
TTTTCCACTCTCATTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACTCTCATTTGA
TTGCATTAGCG
Found at i:3713031 original size:47 final size:47
Alignment explanation
Indices: 3712948--3713137 Score: 254
Period size: 47 Copynumber: 4.0 Consensus size: 47
3712938 GTATTAGCGT
** * * * *
3712948 TTTCCACTCTTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTC
1 TTTCCACTCTCATTTGACTGCATTAGCTTTAAGACCTAGTCAAACTC
*
3712995 TTTCCACTCTCATTTGATTGCATTAGCTTTAAGACCTAGTCAAACTC
1 TTTCCACTCTCATTTGACTGCATTAGCTTTAAGACCTAGTCAAACTC
*
3713042 TTTCCACTCTCATTTGATTGCATTAGCTTTAAGACCTAGTCAAACTC
1 TTTCCACTCTCATTTGACTGCATTAGCTTTAAGACCTAGTCAAACTC
* * * * * *
3713089 TTTCCACTCTCGTTTCACTGTATTGGCGTTAAGACCTGGTCAAACTC
1 TTTCCACTCTCATTTGACTGCATTAGCTTTAAGACCTAGTCAAACTC
3713136 TT
1 TT
3713138 CTTATCCTCG
Statistics
Matches: 129, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (47 bp):
TTTCCACTCTCATTTGACTGCATTAGCTTTAAGACCTAGTCAAACTC
Found at i:3713050 original size:123 final size:123
Alignment explanation
Indices: 3712827--3713068 Score: 333
Period size: 123 Copynumber: 2.0 Consensus size: 123
3712817 CAAACTCAAA
* *
3712827 TCCACTCTCATTTGACTATATTGGCATTAGGCAATGGTCAAACTTTTTCCACTCTCATTTGACTG
1 TCCACTCTCATTTGACTATATTGGCATTAGGCAATAGTCAAACTCTTTCCACTCTCATTTGACTG
* * * * ** *
3712892 TATTGGCGTTAGGACCTAGTCAAACTCTTTTCACTCTTGTTTGATTGTATTAGCGTTT
66 CATTAGCGTTAAGACCTAGTCAAACTCTTTCCACTCTCATTTGATTGCATTAGCGTTT
** * * *
3712950 TCCACTCTTGTTTGACTGTATTGGCATTAGG-ACCTAGTCAAACTCTTTCCACTCTCATTTGATT
1 TCCACTCTCATTTGACTATATTGGCATTAGGCA-ATAGTCAAACTCTTTCCACTCTCATTTGACT
*
3713014 GCATTAGCTTTAAGACCTAGTCAAACTCTTTCCACTCTCATTTGATTGCATTAGC
65 GCATTAGCGTTAAGACCTAGTCAAACTCTTTCCACTCTCATTTGATTGCATTAGC
3713069 TTTAAGACCT
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
122 1 0.01
123 102 0.99
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (123 bp):
TCCACTCTCATTTGACTATATTGGCATTAGGCAATAGTCAAACTCTTTCCACTCTCATTTGACTG
CATTAGCGTTAAGACCTAGTCAAACTCTTTCCACTCTCATTTGATTGCATTAGCGTTT
Found at i:3713148 original size:47 final size:47
Alignment explanation
Indices: 3712959--3713239 Score: 214
Period size: 47 Copynumber: 6.0 Consensus size: 47
3712949 TTCCACTCTT
* * *
3712959 GTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCA-CTCTC
1 GTTTAACTGTATTGGCATTAAGACCTAGTCAAACTCTTTTCATC-CTC
* * * * * * *
3713006 ATTTGATTGCATTAGCTTTAAGACCTAGTCAAACTCTTTCCA-CTCTC
1 GTTTAACTGTATTGGCATTAAGACCTAGTCAAACTCTTTTCATC-CTC
* * * * * * *
3713053 ATTTGATTGCATTAGCTTTAAGACCTAGTCAAACTCTTTCCA-CTCTC
1 GTTTAACTGTATTGGCATTAAGACCTAGTCAAACTCTTTTCATC-CTC
* * *
3713100 GTTTCACTGTATTGGCGTTAAGACCTGGTCAAACTCTTCTT-ATCCTC
1 GTTTAACTGTATTGGCATTAAGACCTAGTCAAACTCTT-TTCATCCTC
* * * * * *
3713147 GTTTGACTATAGTGGCATTAGGACCTAGTCAAACT-TTTTCCACCCTT
1 GTTTAACTGTATTGGCATTAAGACCTAGTCAAACTCTTTT-CATCCTC
* * *
3713194 GTATAACTGTATTGGCATT-AGTCCTGGTCAAACTCTTTTCATCCTC
1 GTTTAACTGTATTGGCATTAAGACCTAGTCAAACTCTTTTCATCCTC
3713240 ATTCGACGTG
Statistics
Matches: 198, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
45 2 0.01
46 19 0.10
47 175 0.88
48 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (47 bp):
GTTTAACTGTATTGGCATTAAGACCTAGTCAAACTCTTTTCATCCTC
Found at i:3713203 original size:94 final size:93
Alignment explanation
Indices: 3712959--3713239 Score: 305
Period size: 94 Copynumber: 3.0 Consensus size: 93
3712949 TTCCACTCTT
* * * * * *
3712959 GTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACTCTCATTTGATTGCATTAGCTT
1 GTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACTCTCGTTTAACTGTATTGGCAT
* *
3713024 TAAGACCTAGTCAAACTCTTTCCA-CTCTC
66 TAAGACCTGGTCAAACTCTTT-TATC-CTC
* * * * * * * *
3713053 ATTTGATTGCATTAGCTTTAAGACCTAGTCAAACTCTTTCCACTCTCGTTTCACTGTATTGGCGT
1 GTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACTCTCGTTTAACTGTATTGGCAT
3713118 TAAGACCTGGTCAAACTCTTCTTATCCTC
66 TAAGACCTGGTCAAACTCTT-TTATCCTC
* * * * * *
3713147 GTTTGACTATAGTGGCATTAGGACCTAGTCAAACTTTTTCCACCCTTGTATAACTGTATTGGCAT
1 GTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACTCTCGTTTAACTGTATTGGCAT
*
3713212 T-AGTCCTGGTCAAACTCTTTTCATCCTC
66 TAAGACCTGGTCAAACTCTTTT-ATCCTC
3713240 ATTCGACGTG
Statistics
Matches: 155, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
92 2 0.01
93 23 0.15
94 128 0.83
95 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (93 bp):
GTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACTCTCGTTTAACTGTATTGGCAT
TAAGACCTGGTCAAACTCTTTTATCCTC
Found at i:3714859 original size:165 final size:164
Alignment explanation
Indices: 3714640--3715254 Score: 566
Period size: 165 Copynumber: 3.8 Consensus size: 164
3714630 AAATATTTTT
* * * *
3714640 TATTTTCAAATTA-GGAGATTTTCTTCTTCGTAAATTTTTT-TAGGAGGATTTTTCTTGGTTTTT
1 TATTTTCAAAATATGGAG-TTTTCTACTCCGTAAATTTTTTCGAGGA-GATTTTTCTTGGTTTTT
* * *
3714703 AATTTTTGAAATTCATCAAATATTATTATTTAATTTATAGTAAATCATTTTTCAAAAATTCATTC
64 AATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATT-ATTC
* **
3714768 GTTTTCATTCGTTTTTCATTTTTTTTTGAAAATCTCC
128 ATTTTCATGAGTTTTTCATTTTTTTTTGAAAATCTCC
*
3714805 TATTTTCAAAATATGGAGTTTTCTACTCCATAAATTTTTTCGAGGAGATTTTTCTTGGTTTTTAA
1 TATTTTCAAAATATGGAGTTTTCTACTCCGTAAATTTTTTCGAGGAGATTTTTCTTGGTTTTTAA
* * * *
3714870 TTTTTAAAATTCATCAAATATTATTATTTGA-TCACTATTAAAACAGTTTTCAAAAATTATTTAT
66 TTTTTAAAATTCATCAAATATTATTATTTAATTTA-TATTAAATCAGTTTTCAAAAATTATTCAT
* ** * * *
3714934 TTGCATGAGTTTTGAATTTTTTCTTGAAATTCTCT
130 TTTCATGAGTTTTTCATTTTTTTTTGAAAATCTCC
* * * * * * * * *
3714969 TGTTTTCGAAATACGAAATATTCTACTCCGTAAATATTTTCAGGGGAGATTTGTCTTGGTTTTTA
1 TATTTTCAAAATATGGAGTTTTCTACTCCGTAAATTTTTTC-GAGGAGATTTTTCTTGGTTTTTA
* * *
3715034 A-TTTTAAAATTCATCAAATA-T-TT-TTT-ATTTTTATTTAATTAGTTTTCAAAAATTAATTCA
65 ATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATT-ATTCA
* * * *
3715094 TTTTTATGAATTTTTCATTTTTTTCCATG-AAATTTCC
129 TTTTCATGAGTTTTTCATTTTTTT--TTGAAAATCTCC
* * * * ** * * * * **
3715131 TTATTTCCAAAAAATTGAGTTTTCTACTCTGTGGATATTTTTAG-GGGGATTTTTCTCGATTTAA
1 -TATTTTCAAAATATGGAGTTTTCTACTCCGTAAAT-TTTTTCGAGGAGATTTTTCTTGGTTTTT
* * * *** *
3715195 AATTTTTAAAATTCATCTAATATTGTTATTTAACTCCCATTAAATCAGTTTTTAAAAATT
64 AATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATT
3715255 TAATTTATTT
Statistics
Matches: 360, Mismatches: 75, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
160 21 0.06
161 26 0.07
162 23 0.06
163 45 0.12
164 90 0.25
165 123 0.34
166 11 0.03
167 21 0.06
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.50
Consensus pattern (164 bp):
TATTTTCAAAATATGGAGTTTTCTACTCCGTAAATTTTTTCGAGGAGATTTTTCTTGGTTTTTAA
TTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATTATTCATT
TTCATGAGTTTTTCATTTTTTTTTGAAAATCTCC
Found at i:3715426 original size:17 final size:17
Alignment explanation
Indices: 3715406--3715446 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
3715396 TTTCCTTGTC
*
3715406 ATTCCATTTCTAGAAAT
1 ATTCCATTTCTACAAAT
*
3715423 ATTCTATTTCTACAAAT
1 ATTCCATTTCTACAAAT
3715440 -TTCCATT
1 ATTCCATT
3715447 ATTGTAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTCCATTTCTACAAAT
Found at i:3715832 original size:162 final size:157
Alignment explanation
Indices: 3715479--3715879 Score: 622
Period size: 162 Copynumber: 2.5 Consensus size: 157
3715469 AATCATTTTT
* * * * * *
3715479 TCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGAGTTCAAAAATTTTTCGTATCTTTTT
1 TCTTTTATATTCCTATGAGCATCCGTAAGAGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTT
* *
3715544 GGGCTTCTATTAAGGTATGAATTGGTATTTTCAAAAATAAATAAAATTAAATTAACACTTTTGTA
66 GGGCTTCCATTAAGGTATAAATTGGTATTTTCAAAAATAAATAAAATTAAATTAACACTTTTGTA
3715609 ATCCACATAATTAATCATTTTTTCTAA
131 ATCCACATAATTAATCATTTTTTCTAA
* *
3715636 TCTTTTATATTCCTATAAGCATCCGTAAGAGTATAAAAGATTTCAAAAACTTGTCGTATCTTTTT
1 TCTTTTATATTCCTATGAGCATCCGTAAGAGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTT
3715701 GGGCTTCCATTAAGGTATAAATTGGTATTTTCAAAAATAAATAAAATTAAATTAAATTAACACTT
66 GGGCTTCCATTAAGGTATAAATTGGTATTTTCAAAAATAAAT---A--AAATTAAATTAACACTT
*
3715766 TTGTAATCCAGATAATTAATCATTTTTTCTAA
126 TTGTAATCCACATAATTAATCATTTTTTCTAA
* *
3715798 TCTTTTATATTCCTATGAGCATCCGTAAGAGTATAAAGGATTTCAAAAACTTTTCGTATCTTTTC
1 TCTTTTATATTCCTATGAGCATCCGTAAGAGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTT
* *
3715863 GAGTTTCCATTAAGGTA
66 GGGCTTCCATTAAGGTA
3715880 AGAAATGAAT
Statistics
Matches: 222, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
157 97 0.44
160 1 0.00
162 124 0.56
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (157 bp):
TCTTTTATATTCCTATGAGCATCCGTAAGAGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTT
GGGCTTCCATTAAGGTATAAATTGGTATTTTCAAAAATAAATAAAATTAAATTAACACTTTTGTA
ATCCACATAATTAATCATTTTTTCTAA
Found at i:3719421 original size:97 final size:95
Alignment explanation
Indices: 3719202--3719430 Score: 307
Period size: 98 Copynumber: 2.3 Consensus size: 95
3719192 TTGAAAAAAG
* * * *
3719202 GGTTGGAGTATCTCCTCGAAGGAATAGGGTTGGAATGTCCCCGATGATAATAATCCAGGCGAATA
1 GGTTGGAGTATCCCCTCGAA-GAATGGGGTTGGAATGTCCCCGATGATAATAATCCAGACAAATA
*
3719267 AGATTTAAATCTTGACAAGTTTAAGAAAAATAG
65 AGATTTAAATCTTGACAAGTTT-A-AAAAATAA
* * **
3719300 GGTTGGAGTATCCCTTCGGAAGAATGGGGTTGGAATGTCCCTGATGATAATAATTTAGACAAAAA
1 GGTTGGAGTATCCCCTC-GAAGAATGGGGTTGGAATGTCCCCGATGATAATAATCCAGAC--AAA
3719365 TAAGATTTAAATCTTGACAAGTTT-AAAAATAA
63 TAAGATTTAAATCTTGACAAGTTTAAAAAATAA
3719397 GGTTGGAGTATCCCCTCAGAAGAATGGGGTTGGA
1 GGTTGGAGTATCCCCTC-GAAGAATGGGGTTGGA
3719431 GTATCCCCAA
Statistics
Matches: 117, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
97 39 0.33
98 49 0.42
99 3 0.03
100 26 0.22
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (95 bp):
GGTTGGAGTATCCCCTCGAAGAATGGGGTTGGAATGTCCCCGATGATAATAATCCAGACAAATAA
GATTTAAATCTTGACAAGTTTAAAAAATAA
Found at i:3721785 original size:32 final size:32
Alignment explanation
Indices: 3721744--3721805 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
3721734 AGATACATTG
*
3721744 AAGAATGTATAGATACATTTAGGTCAAAAAGT
1 AAGAATGTATACATACATTTAGGTCAAAAAGT
* *
3721776 AAGAATGTATCCATACATTTGGGTCAAAAA
1 AAGAATGTATACATACATTTAGGTCAAAAA
3721806 CCTAAAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (32 bp):
AAGAATGTATACATACATTTAGGTCAAAAAGT
Found at i:3721824 original size:32 final size:32
Alignment explanation
Indices: 3721756--3721824 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
3721746 GAATGTATAG
* * *
3721756 ATACATTTAGGTCAAAAAGTAAGAATGTATCC
1 ATACATTTAGGTCAAAAACTAAGAATGAATCA
*
3721788 ATACATTTGGGTCAAAAACCTAA-AATGAATCA
1 ATACATTTAGGTCAAAAA-CTAAGAATGAATCA
3721820 ATACA
1 ATACA
3721825 ATGAAGAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 29 0.91
33 3 0.09
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.26
Consensus pattern (32 bp):
ATACATTTAGGTCAAAAACTAAGAATGAATCA
Found at i:3721832 original size:52 final size:52
Alignment explanation
Indices: 3721776--3721899 Score: 185
Period size: 52 Copynumber: 2.4 Consensus size: 52
3721766 GTCAAAAAGT
* * *
3721776 AAGAATGTATCCATACATTTGGGTCAAAAACCTAAAATGAATCAATACAATG
1 AAGAATGTATCGATACATTTGAGTCAAAAACATAAAATGAATCAATACAATG
* * *
3721828 AAGAATGTATCGATACATTTGAGTCAAAAACATAGAATGTATCGATACAATG
1 AAGAATGTATCGATACATTTGAGTCAAAAACATAAAATGAATCAATACAATG
*
3721880 AAAAATGTATCGATACATTT
1 AAGAATGTATCGATACATTT
3721900 TCTTTCCAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (52 bp):
AAGAATGTATCGATACATTTGAGTCAAAAACATAAAATGAATCAATACAATG
Found at i:3724839 original size:20 final size:21
Alignment explanation
Indices: 3724814--3724860 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
3724804 TCTTAACATC
3724814 GATACATTCA-CT-TATGTATT
1 GATACATTCATCTAT-TGTATT
*
3724834 GATACATTGATCTATTGTATT
1 GATACATTCATCTATTGTATT
3724855 GATACA
1 GATACA
3724861 AATTATAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 14 0.58
22 1 0.04
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (21 bp):
GATACATTCATCTATTGTATT
Found at i:3727210 original size:10 final size:9
Alignment explanation
Indices: 3727159--3727223 Score: 53
Period size: 10 Copynumber: 7.0 Consensus size: 9
3727149 CCTTTTTTTC
3727159 TTTTTTTGA
1 TTTTTTTGA
*
3727168 CTTTTTTTGG
1 -TTTTTTTGA
*
3727178 TAATTTTT-A
1 T-TTTTTTGA
3727187 TTTTTTT-A
1 TTTTTTTGA
3727195 TTTTTTTGA
1 TTTTTTTGA
*
3727204 TTCTTTTTGT
1 TT-TTTTTGA
3727214 TTGTTTTTGA
1 TT-TTTTTGA
3727224 ACATAAGATG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
8 13 0.29
9 5 0.11
10 27 0.60
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.75
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:3732398 original size:30 final size:31
Alignment explanation
Indices: 3732364--3732440 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
3732354 TACATTTTTC
*
3732364 AATGTATCGATACATTCTGTC-TTTTACCCA
1 AATGTATCGATACATTCTATCTTTTTACCCA
3732394 AATGTATCGATACATTCTATCTTTTTACCCA
1 AATGTATCGATACATTCTATCTTTTTACCCA
* *
3732425 GATGTATCGATCCATT
1 AATGTATCGATACATT
3732441 TTTCACTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
30 20 0.47
31 23 0.53
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.40
Consensus pattern (31 bp):
AATGTATCGATACATTCTATCTTTTTACCCA
Found at i:3741357 original size:27 final size:26
Alignment explanation
Indices: 3741326--3741376 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
3741316 AGATTTTGAA
*
3741326 GAAAAGCGGGGTTGGAGTACTCCCTTG
1 GAAAAACGGGGTTGGAGTA-TCCCTTG
*
3741353 GAAAAATGGGGTTGGAGTATCCCT
1 GAAAAACGGGGTTGGAGTATCCCT
3741377 AACGATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (26 bp):
GAAAAACGGGGTTGGAGTATCCCTTG
Found at i:3746337 original size:58 final size:58
Alignment explanation
Indices: 3746243--3746355 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
3746233 GAAACATTGG
*
3746243 GCTTGAGAAAGAAAATTTGATAAGTGCCAATATGTTGATTCAAGGCCAATGACATCAA
1 GCTTGAGAAAGAAAATTTGACAAGTGCCAATATGTTGATTCAAGGCCAATGACATCAA
** *
3746301 GCTTGAGAAAGAAGGTTTGACAAGTGCCAATGTGTTGATTCAAGGCCAATGACAT
1 GCTTGAGAAAGAAAATTTGACAAGTGCCAATATGTTGATTCAAGGCCAATGACAT
3746356 TGGGGTTAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (58 bp):
GCTTGAGAAAGAAAATTTGACAAGTGCCAATATGTTGATTCAAGGCCAATGACATCAA
Found at i:3746549 original size:30 final size:29
Alignment explanation
Indices: 3746467--3746954 Score: 425
Period size: 30 Copynumber: 16.8 Consensus size: 29
3746457 ACGACTTGTA
* * *
3746467 TGGGCTTTGAAAGGGTTGCCATTGACTTG
1 TGGGCTTTAAAAGGGATGCCACTGACTTG
* * * *
3746496 TAGGCTTTAAAAAAAGAATGCCACTAACTTG
1 TGGGCTTT--AAAAGGGATGCCACTGACTTG
*
3746527 TGGGCTTTGAAAAGGGATGCCACTAACTTG
1 TGGGCTTT-AAAAGGGATGCCACTGACTTG
* ** *
3746557 TAGGCTTTAAAAATG-TGCCACTGACTTT
1 TGGGCTTTAAAAGGGATGCCACTGACTTG
* *
3746585 TGGCCTTTAAAAGGG-TACCACTGACTTG
1 TGGGCTTTAAAAGGGATGCCACTGACTTG
* *
3746613 TGGCCTTTAAAAGGG-TACCACTGACTTG
1 TGGGCTTTAAAAGGGATGCCACTGACTTG
* *
3746641 TGGACTTTAAAAAAAGGATGCCACTGACTTG
1 TGGGCTTT--AAAAGGGATGCCACTGACTTG
*
3746672 TGGACTTTGAAAAGGGATGCCA-TGACTTG
1 TGGGCTTT-AAAAGGGATGCCACTGACTTG
* * *
3746701 TGGGCTTT-AAATGGATGCTATTGACTTG
1 TGGGCTTTAAAAGGGATGCCACTGACTTG
*** * * * *
3746729 TGGGCTTTAAAAAAAATGCTATTAACTTA
1 TGGGCTTTAAAAGGGATGCCACTGACTTG
* * *
3746758 TGGGCTTTAAAAGAG-TGCCGCTGACTTA
1 TGGGCTTTAAAAGGGATGCCACTGACTTG
* * *
3746786 TGGGCTTTGAAAAGGAATGCCACTGATTTA
1 TGGGCTTT-AAAAGGGATGCCACTGACTTG
*
3746816 TGAGCTTTGAAAAGGGATGCCACTGACTTG
1 TGGGCTTT-AAAAGGGATGCCACTGACTTG
* *
3746846 TGAGCTTTGAAAAGGGATGCCATTGACTTG
1 TGGGCTTT-AAAAGGGATGCCACTGACTTG
* * * *
3746876 TAGG-TTTCAAAGGGGTGCCACTTACTTG
1 TGGGCTTTAAAAGGGATGCCACTGACTTG
* **
3746904 TGTGCTTTGAAAAAAGATGCCACTGACTTG
1 TGGGCTTT-AAAAGGGATGCCACTGACTTG
3746934 TGGGCTTTAAAAGGG-TGCCAC
1 TGGGCTTTAAAAGGGATGCCAC
3746955 GGAGTTACGA
Statistics
Matches: 382, Mismatches: 66, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
27 10 0.03
28 125 0.33
29 70 0.18
30 135 0.35
31 42 0.11
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (29 bp):
TGGGCTTTAAAAGGGATGCCACTGACTTG
Found at i:3746592 original size:28 final size:28
Alignment explanation
Indices: 3746514--3747769 Score: 460
Period size: 29 Copynumber: 42.8 Consensus size: 28
3746504 AAAAAAAGAA
* *
3746514 TGCCACTAACTTGTGGGCTTTGAAAAGGG
1 TGCCACTGACTTGTGGACTTT-AAAAGGG
* **
3746543 ATGCCACTAACTTGTAGG-CTTTAAAAATG
1 -TGCCACTGACTTGT-GGACTTTAAAAGGG
* *
3746572 TGCCACTGACTTTTGGCCTTTAAAAGGG
1 TGCCACTGACTTGTGGACTTTAAAAGGG
* *
3746600 TACCACTGACTTGTGGCCTTTAAAAGGG
1 TGCCACTGACTTGTGGACTTTAAAAGGG
* *
3746628 TACCACTGACTTGTGGACTTTAAAAAAAGGA
1 TGCCACTGACTTGTGGACTTT---AAAAGGG
3746659 TGCCACTGACTTGTGGACTTTGAAAAGGG
1 TGCCACTGACTTGTGGACTTT-AAAAGGG
* * *
3746688 ATGCCA-TGACTTGTGGGCTTTAAATGGA
1 -TGCCACTGACTTGTGGACTTTAAAAGGG
* * * ***
3746716 TGCTATTGACTTGTGGGCTTTAAAAAAAA
1 TGCCACTGACTTGTGGACTTT-AAAAGGG
* * * * * *
3746745 TGCTATTAACTTATGGGCTTTAAAAGAG
1 TGCCACTGACTTGTGGACTTTAAAAGGG
* * * *
3746773 TGCCGCTGACTTATGGGCTTTGAAAAGGAA
1 TGCCACTGACTTGTGGACTTT-AAAAGG-G
* *
3746803 TGCCACTGATTTAT-GAGCTTTGAAAAGGG
1 TGCCACTGACTTGTGGA-CTTT-AAAAGGG
3746832 ATGCCACTGACTTGT-GAGCTTTGAAAAGGG
1 -TGCCACTGACTTGTGGA-CTTT-AAAAGGG
* *
3746862 ATGCCATTGACTTGTAGG--TTTCAAAGGGG
1 -TGCCACTGACTTGT-GGACTTT-AAAAGGG
* * *
3746891 TGCCACTTACTTGTGTG-CTTTGAAAAAAGA
1 TGCCACTGACTTGTG-GACTTT--AAAAGGG
*
3746921 TGCCACTGACTTGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGACTTTAAAAGGG
* * **
3746949 TGCCACGGAGTT-ACGACCTTTAAAAACGGG
1 TGCCACTGACTTGTGGA-CTTT-AAAA-GGG
*
3746979 TGCCA-TGGAGTTGTGGACTTTAAAAGGGG
1 TGCCACT-GACTTGTGGACTTTAAAA-GGG
*
3747008 TGCCA-TGGAGTTGTGGA-TTTAAAAAGAGG
1 TGCCACT-GACTTGTGGACTTT-AAAAG-GG
* * * *
3747037 TGCCAC-GAAGTTGTAGACTTAAAAAGGCA
1 TGCCACTG-ACTTGTGGACTTTAAAAGG-G
* * * *
3747066 TGCCA-TAGAGTTATGGAATTTAAAAAGGA
1 TGCCACT-GACTTGTGGACTTT-AAAAGGG
* **
3747095 TGCCACAGTGTTGTGGACTTTTAAAAAGGG
1 TGCCACTGACTTGTGGAC-TTT-AAAAGGG
* *
3747125 TGCCACGGAGTTGTGGACTTTTGAAAA-GG
1 TGCCACTGACTTGTGGAC-TTT-AAAAGGG
* *
3747154 TGCCA-TAGAGTTATGGACTTTTGAAAA-GG
1 TGCCACT-GACTTGTGGAC-TTT-AAAAGGG
* * *
3747183 TGCCACAGAGTTGTGGACTTAAAAAAGAGGG
1 TGCCACTGACTTGTGGACTT--TAAA-AGGG
* * *
3747214 TGCCAC-GTAGTTATGGACTTTAAAAAGGA
1 TGCCACTG-ACTTGTGGACTTT-AAAAGGG
* * *
3747243 TGCCA-TGGAGTTGTGGGCTTTTAAAAAAGG
1 TGCCACT-GACTTGTGGAC-TTT-AAAAGGG
* * * *
3747273 TGTCACGGAGTTGTGGACTTTTAAAAAGG
1 TGCCACTGACTTGTGGAC-TTTAAAAGGG
* * *
3747302 TACCA-TGAAGTTGTGGACTTAAAAAAGAGGG
1 TGCCACTG-ACTTGTGGACTT--TAAA-AGGG
* * *
3747333 TGCCACAGAGTTGTGAACTTTAAAAGGG
1 TGCCACTGACTTGTGGACTTTAAAAGGG
* * * *
3747361 GGCCACGGATTTGTGGACTTAAAAAGGGG
1 TGCCACTGACTTGTGGACTTTAAAA-GGG
** * *
3747390 TGCCACAAAGTTGTCGACTTTTTAAAAAGGG
1 TGCCACTGACTTGTGGAC--TTT-AAAAGGG
* * *
3747421 TGCCACAGAGTTGTGGACTTTTAAAAAGG
1 TGCCACTGACTTGTGGAC-TTTAAAAGGG
* * * **
3747450 TGCCACAGAGTTATGGACATAAAAACAAAGGG
1 TGCCACTGACTTGTGGAC-T--TTA-AAAGGG
* *
3747482 -GCCA-TGGAGTTGTGGACTTTAAAAAGG
1 TGCCACT-GACTTGTGGACTTTAAAAGGG
* * *
3747509 TACCAC-GAAGTTGTGGACTTTTAAAAATGG
1 TGCCACTG-ACTTGTGGAC-TTT-AAAAGGG
* *
3747539 TGCCACGGACTTGTGGACTTTTAAAAAGG
1 TGCCACTGACTTGTGGAC-TTTAAAAGGG
* *
3747568 TGCCA-TGGAGTTGTGGACTTAAAAAAGAGGG
1 TGCCACT-GACTTGTGGACTT--TAAA-AGGG
* ** * * *
3747599 TTCCACAAAGTTATAGACTTTAAAAGGGG
1 TGCCACTGACTTGTGGACTTTAAAA-GGG
* * * *
3747628 TGTCACGGAGTTGTGGACTTTTTAAAAAAGG
1 TGCCACTGACTTGTGGAC--TTT-AAAAGGG
* * *
3747659 TGCCAC-GAAGTTATGGACTTTTGAAAA-AG
1 TGCCACTG-ACTTGTGGAC-TTT-AAAAGGG
* * *
3747688 TGTCACAT-AGTTGTGGACTTAAAAAAAAGGG
1 TGCCAC-TGACTTGTGGACTT---TAAAAGGG
**
3747719 TGCCA-TGGTGTTGTGGACTTTAAAAGGG
1 TGCCACT-GACTTGTGGACTTTAAAAGGG
* *
3747747 TGCCACAGAGTTGTGGACTTTAA
1 TGCCACTGACTTGTGGACTTTAA
3747770 GAAAAAGGTT
Statistics
Matches: 987, Mismatches: 155, Indels: 170
0.75 0.12 0.13
Matches are distributed among these distances:
27 14 0.01
28 222 0.22
29 330 0.33
30 250 0.25
31 156 0.16
32 15 0.02
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTGTGGACTTTAAAAGGG
Found at i:3746709 original size:88 final size:85
Alignment explanation
Indices: 3746514--3747455 Score: 417
Period size: 88 Copynumber: 10.7 Consensus size: 85
3746504 AAAAAAAGAA
* * *
3746514 TGCCACTAACTTGTGGGCTTTGAAAAGGGATGCCACTAACTTGTAGGCTTTAAAAATG-TGCCAC
1 TGCCACTGACTTGTGGGCTTTGAAAAGGG-TGCCACTGACTTGT-GGCTTTAAAAAAGATGCCAC
* *
3746578 TGACTTTTGGCCTTTAAAAGGG
64 TGACTTGTGGACTTTAAAAGGG
* * *
3746600 TACCACTGACTTGTGGCCTTT-AAAAGGGTACCACTGACTTGTGGACTTTAAAAAAAGGATGCCA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGG-CTTT-AAAAAA-GATGCCA
3746664 CTGACTTGTGGACTTTGAAAAGGG
63 CTGACTTGTGGACTTT-AAAAGGG
* * * * * * *
3746688 ATGCCA-TGACTTGTGGGCTTT-AAATGGATGCTATTGACTTGTGGGCTTTAAAAAAAATGCTAT
1 -TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGT-GGCTTTAAAAAAGATGCCAC
* * * *
3746751 TAACTTATGGGCTTTAAAAGAG
64 TGACTTGTGGACTTTAAAAGGG
* * * * * **
3746773 TGCCGCTGACTTATGGGCTTTGAAAAGGAATGCCACTGATTTATGAGCTTTGAAAAGGGATGCCA
1 TGCCACTGACTTGTGGGCTTTGAAAAGG-GTGCCACTGACTTGTG-GCTTT-AAAAAAGATGCCA
3746838 CTGACTTGT-GAGCTTTGAAAAGGG
63 CTGACTTGTGGA-CTTT-AAAAGGG
* * * * *
3746862 ATGCCATTGACTTGTAGG-TTTCAAAGGGGTGCCACTTACTTGTGTGCTTTGAAAAAAGATGCCA
1 -TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTG-GCTTT-AAAAAAGATGCCA
*
3746926 CTGACTTGTGGGCTTTAAAAGGG
63 CTGACTTGTGGACTTTAAAAGGG
* * ** ** * * ** *
3746949 TGCCACGGAGTTACGACCTTTAAAAACGGGTGCCA-TGGAGTTGTGGACTTTAAAAGGGGTGCCA
1 TGCCACTGACTTGTGGGCTTTGAAAA-GGGTGCCACT-GACTTGTGG-CTTTAAAAAAGATGCCA
*
3747013 -TGGAGTTGTGGA-TTTAAAAAGAGG
63 CT-GACTTGTGGACTTT-AAAAG-GG
* * * * * * * * *
3747037 TGCCAC-GAAGTTGTAGAC-TTAAAAAGGCATGCCA-TAGAGTTATGGAATTTAAAAAGGATGCC
1 TGCCACTG-ACTTGTGGGCTTTGAAAAGG-GTGCCACT-GACTTGTGG-CTTTAAAAAAGATGCC
* **
3747099 ACAGTGTTGTGGACTTTTAAAAAGGG
62 ACTGACTTGTGGAC-TTT-AAAAGGG
* * * * * ** *
3747125 TGCCACGGAGTTGTGGACTTTTGAAAA-GGTGCCA-TAGAGTTATGGACTTTTGAAAAGGTGCCA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGGGTGCCACT-GACTTGTGG-CTTTAAAAAAGATGCCA
* * *
3747188 CAGAGTTGTGGACTTAAAAAAGAGGG
63 CTGACTTGTGGACTT--TAAA-AGGG
* * * * * * * *
3747214 TGCCAC-GTAGTTATGGACTTTAAAAAGGATGCCA-TGGAGTTGTGGGCTTTTAAAAAAGGTGTC
1 TGCCACTG-ACTTGTGGGCTTTGAAAAGGGTGCCACT-GACTTGT-GGC-TTTAAAAAAGATGCC
* * *
3747277 ACGGAGTTGTGGACTTTTAAAAAGG
62 ACTGACTTGTGGAC-TTTAAAAGGG
* * * ** * * * * **
3747302 TACCA-TGAAGTTGTGGACTTAAAAAAGAGGGTGCCACAGAGTTGTGAACTTT-AAAAGGGGGCC
1 TGCCACTG-ACTTGTGGGCTT-TGAAA-AGGGTGCCACTGACTTGTG-GCTTTAAAAAAGATGCC
* * *
3747365 ACGGATTTGTGGACTTAAAAAGGGG
62 ACTGACTTGTGGACTTTAAAA-GGG
** * * * * * * * *
3747390 TGCCACAAAGTTGTCGACTTTTTAAAAAGGGTGCCACAGAGTTGTGGACTTTTAAAAAGGTGCCA
1 TGCCACTGACTTGTGGGC--TTTGAAAAGGGTGCCACTGACTTGTGG-CTTTAAAAAAGATGCCA
3747455 C
63 C
3747456 AGAGTTATGG
Statistics
Matches: 682, Mismatches: 124, Indels: 97
0.76 0.14 0.11
Matches are distributed among these distances:
83 2 0.00
84 20 0.03
85 32 0.05
86 57 0.08
87 134 0.20
88 280 0.41
89 91 0.13
90 64 0.09
91 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (85 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGCTTTAAAAAAGATGCCACTG
ACTTGTGGACTTTAAAAGGG
Found at i:3746766 original size:145 final size:145
Alignment explanation
Indices: 3746465--3746876 Score: 433
Period size: 145 Copynumber: 2.8 Consensus size: 145
3746455 CTACGACTTG
* * * *
3746465 TATGGGCTTTGAAAGGGTTGCCATTGACTTGTAGGCTTTAAAAAAAGAATGCCACTAACTTGTGG
1 TATGGGCTTTAAAAGGG-TGCCACTGACTTGT-GGCTTTAAAAAAAGGATGCCACTGACTTGTGG
* * * * *
3746530 GCTTTGAAAAGGGATGCCACTAACTTGTAGGCTTTAAAAAT-G-TGCCACTGACTTTTGGCCTTT
64 ACTTTGAAAAGGGATGCCACTGACTTGTGGGCTTT-AAAATGGATGCCATTGACTTGTGGCCTTT
*** *
3746593 AAAAGGGTACCACTGACT
128 AAAAAAATACCACTAACT
* * *
3746611 TGTGGCCTTTAAAAGGGTACCACTGACTTGTGGACTTTAAAAAAAGGATGCCACTGACTTGTGGA
1 TATGGGCTTTAAAAGGGTGCCACTGACTTGTGG-CTTTAAAAAAAGGATGCCACTGACTTGTGGA
* *
3746676 CTTTGAAAAGGGATGCCA-TGACTTGTGGGCTTT-AAATGGATGCTATTGACTTGTGGGCTTTAA
65 CTTTGAAAAGGGATGCCACTGACTTGTGGGCTTTAAAATGGATGCCATTGACTTGTGGCCTTT-A
* * *
3746739 AAAAAATGCTATTAACT
129 AAAAAATACCACTAACT
* * * * * *
3746756 TATGGGCTTTAAAAGAGTGCCGCTGACTTATGGGCTTT--GAAAAGGAATGCCACTGATTTAT-G
1 TATGGGCTTTAAAAGGGTGCCACTGACTTGT-GGCTTTAAAAAAAGG-ATGCCACTGACTTGTGG
* *
3746818 AGCTTTGAAAAGGGATGCCACTGACTTGTGAGCTTTGAAAAGGGATGCCATTGACTTGT
64 A-CTTTGAAAAGGGATGCCACTGACTTGTGGGCTTT-AAAATGGATGCCATTGACTTGT
3746877 AGGTTTCAAA
Statistics
Matches: 223, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
142 4 0.02
143 9 0.04
144 63 0.28
145 112 0.50
146 16 0.07
147 19 0.09
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (145 bp):
TATGGGCTTTAAAAGGGTGCCACTGACTTGTGGCTTTAAAAAAAGGATGCCACTGACTTGTGGAC
TTTGAAAAGGGATGCCACTGACTTGTGGGCTTTAAAATGGATGCCATTGACTTGTGGCCTTTAAA
AAAATACCACTAACT
Found at i:3746904 original size:58 final size:58
Alignment explanation
Indices: 3746434--3746954 Score: 437
Period size: 58 Copynumber: 8.9 Consensus size: 58
3746424 CACCGACTTG
* * * * * *
3746434 TGTGGGCTTTGAAAAGAGTTACTAC-GACTTGTATGGGCTTTGAAAGGGTTGCCATTGACT
1 TGTGGGCTTTGAAAAGGGATGCCACTGACTTG--TGGGCTTTAAAAGGG-TGCCACTGACT
* * * * * *
3746494 TGTAGGCTTTAAAAAAAGAATGCCACTAACTTGTGGGCTTTGAAAAGGGATGCCACTAACT
1 TGTGGGCTTT-GAAAAGGGATGCCACTGACTTGTGGGCTTT-AAAAGGG-TGCCACTGACT
* ** * * *
3746555 TGTAGGCTTT-AAAAATG-TGCCACTGACTTTTGGCCTTTAAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAAAGGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACT
* * * *
3746611 TGTGGCCTTT-AAAAGGG-TACCACTGACTTGTGGACTTTAAAAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGGATGCCACTGACTTGTGGGCTTT---AAAAGGGTGCCACTGACT
* * * * *
3746670 TGTGGACTTTGAAAAGGGATGCCA-TGACTTGTGGGCTTTAAATGGATGCTATTGACT
1 TGTGGGCTTTGAAAAGGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACT
*** * * * * * *
3746727 TGTGGGCTTT-AAAAAAAATGCTATTAACTTATGGGCTTTAAAAGAGTGCCGCTGACT
1 TGTGGGCTTTGAAAAGGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACT
* * * * *
3746784 TATGGGCTTTGAAAAGGAATGCCACTGATTTATGAGCTTTGAAAAGGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGGATGCCACTGACTTGTGGGCTTT-AAAAGGG-TGCCACTGACT
* * * * *
3746844 TGTGAGCTTTGAAAAGGGATGCCATTGACTTGTAGG-TTTCAAAGGGGTGCCACTTACT
1 TGTGGGCTTTGAAAAGGGATGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACT
* **
3746902 TGTGTGCTTTGAAAAAAGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCAC
1 TGTGGGCTTTGAAAAGGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCAC
3746955 GGAGTTACGA
Statistics
Matches: 373, Mismatches: 75, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
56 49 0.13
57 65 0.17
58 93 0.25
59 48 0.13
60 76 0.20
61 37 0.10
62 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (58 bp):
TGTGGGCTTTGAAAAGGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACT
Found at i:3747013 original size:29 final size:29
Alignment explanation
Indices: 3746921--3747806 Score: 670
Period size: 29 Copynumber: 29.9 Consensus size: 29
3746911 TGAAAAAAGA
* * *
3746921 TGCCACTGACTTGTGGGCTTT-AAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGGG
**
3746949 TGCCACGGAGTT-ACGACCTTTAAAAACGGG
1 TGCCACGGAGTTGTGGA-CTTTAAAAA-GGG
* *
3746979 TGCCATGGAGTTGTGGACTTTAAAAGGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGGG
*
3747008 TGCCATGGAGTTGTGGA-TTTAAAAAGAGG
1 TGCCACGGAGTTGTGGACTTTAAAAAG-GG
* * *
3747037 TGCCACGAAGTTGTAGAC-TTAAAAAGGCA
1 TGCCACGGAGTTGTGGACTTTAAAAAGG-G
** * * *
3747066 TGCCATAGAGTTATGGAATTTAAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAAGGG
* *
3747095 TGCCACAGTGTTGTGGACTTTTAAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTTAAAAAGGG
*
3747125 TGCCACGGAGTTGTGGACTTTTGAAAA-GG
1 TGCCACGGAGTTGTGGAC-TTTAAAAAGGG
** * *
3747154 TGCCATAGAGTTATGGACTTTTGAAAA-GG
1 TGCCACGGAGTTGTGGAC-TTTAAAAAGGG
* *
3747183 TGCCACAGAGTTGTGGACTTAAAAAAGAGGG
1 TGCCACGGAGTTGTGGACTT-TAAAA-AGGG
* * *
3747214 TGCCACGTAGTTATGGACTTTAAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAAGGG
* * *
3747243 TGCCATGGAGTTGTGGGCTTTTAAAAAAGG
1 TGCCACGGAGTTGTGGAC-TTTAAAAAGGG
*
3747273 TGTCACGGAGTTGTGGACTTTTAAAAA-GG
1 TGCCACGGAGTTGTGGAC-TTTAAAAAGGG
* * * *
3747302 TACCATGAAGTTGTGGACTTAAAAAAGAGGG
1 TGCCACGGAGTTGTGGACTT-TAAAA-AGGG
* *
3747333 TGCCACAGAGTTGTGAACTTT-AAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGGG
* *
3747361 GGCCACGGATTTGTGGAC-TTAAAAAGGGG
1 TGCCACGGAGTTGTGGACTTTAAAAA-GGG
** *
3747390 TGCCACAAAGTTGTCGACTTTTTAAAAAGGG
1 TGCCACGGAGTTGTGGAC--TTTAAAAAGGG
*
3747421 TGCCACAGAGTTGTGGACTTTTAAAAA-GG
1 TGCCACGGAGTTGTGGAC-TTTAAAAAGGG
* * **
3747450 TGCCACAGAGTTATGGACATAAAAACAAAGGG
1 TGCCACGGAGTTGTGGAC-T-TTAA-AAAGGG
*
3747482 -GCCATGGAGTTGTGGACTTTAAAAA-GG
1 TGCCACGGAGTTGTGGACTTTAAAAAGGG
* * *
3747509 TACCACGAAGTTGTGGACTTTTAAAAATGG
1 TGCCACGGAGTTGTGGAC-TTTAAAAAGGG
*
3747539 TGCCACGGACTTGTGGACTTTTAAAAA-GG
1 TGCCACGGAGTTGTGGAC-TTTAAAAAGGG
* *
3747568 TGCCATGGAGTTGTGGACTTAAAAAAGAGGG
1 TGCCACGGAGTTGTGGACTT-TAAAA-AGGG
* ** * * *
3747599 TTCCACAAAGTTATAGACTTTAAAAGGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGGG
* *
3747628 TGTCACGGAGTTGTGGACTTTTTAAAAAAGG
1 TGCCACGGAGTTGTGGAC--TTTAAAAAGGG
* *
3747659 TGCCACGAAGTTATGGACTTTTGAAAAA--G
1 TGCCACGGAGTTGTGGAC-TTT-AAAAAGGG
* ** *
3747688 TGTCACATAGTTGTGGACTTAAAAAAAAGGG
1 TGCCACGGAGTTGTGGACTT--TAAAAAGGG
* *
3747719 TGCCATGGTGTTGTGGACTTT-AAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGGG
* *
3747747 TGCCACAGAGTTGTGGACTTTAAGAAAAAGGT
1 TGCCACGGAGTTGTGGACTTT---AAAAAGGG
* * *
3747779 TGCCACTGAGTCGTGGGCTTTGAAAAAG
1 TGCCACGGAGTTGTGGACTTT-AAAAAG
3747807 TTACTTTACT
Statistics
Matches: 691, Mismatches: 126, Indels: 80
0.77 0.14 0.09
Matches are distributed among these distances:
27 5 0.01
28 95 0.14
29 265 0.38
30 158 0.23
31 135 0.20
32 33 0.05
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.26
Consensus pattern (29 bp):
TGCCACGGAGTTGTGGACTTTAAAAAGGG
Found at i:3747280 original size:148 final size:147
Alignment explanation
Indices: 3746938--3747794 Score: 703
Period size: 148 Copynumber: 5.8 Consensus size: 147
3746928 GACTTGTGGG
* * ** * * *
3746938 CTTTAAAAGGGTGCCACGGAGTT-ACGACCTTTAAAAACGGGTGCCATGGAGTTGTGGAC-TTTA
1 CTTTAAAAAGGTGCCACAGAGTTGTGGACTTTTAAAAA-AGGTGCCACGGAGTTGTGGACTTTTA
* ** * *
3747001 AAAGGGGTGCCATGGAGTTGTGGA-TTTAAAAAGAGGTGCCAC-GAAGTTGTAGACTTAAAAAG-
65 AAAAGGGTGCCACAGAGTTATGGACTTTAAAAA-AGGTGCCACAG-AGTTGTGGACTTAAAAAGA
** *
3747063 GCATGCCA-TAGAGTTATGGA
128 GGGTGCCACGA-AGTTATGGA
* * * *
3747083 ATTTAAAAAGGATGCCACAGTGTTGTGGACTTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTTG
1 CTTTAAAAAGG-TGCCACAGAGTTGTGGACTTTTAAAAAAGGTGCCACGGAGTTGTGGACTTTTA
* **
3747148 AAAA-GGTGCCATAGAGTTATGGACTTTTGAAAAGGTGCCACAGAGTTGTGGACTTAAAAAAGAG
65 AAAAGGGTGCCACAGAGTTATGGACTTTAAAAAAGGTGCCACAGAGTTGTGGACTT-AAAAAGAG
*
3747212 GGTGCCACGTAGTTATGGA
129 GGTGCCACGAAGTTATGGA
** * *
3747231 CTTTAAAAAGGATGCCATGGAGTTGTGGGCTTTTAAAAAAGGTGTCACGGAGTTGTGGACTTTTA
1 CTTTAAAAAGG-TGCCACAGAGTTGTGGACTTTTAAAAAAGGTGCCACGGAGTTGTGGACTTTTA
* * * * * *
3747296 AAAA-GGTACCA-TGAAGTTGTGGACTTAAAAAAGAGGGTGCCACAGAGTTGTGAACTTTAAAAG
65 AAAAGGGTGCCACAG-AGTTATGGACTTTAAAAA-A-GGTGCCACAGAGTTGTGGACTTAAAAAG
* * *
3747359 -GGG-GCCACGGATTTGTGGA
127 AGGGTGCCACGAAGTTATGGA
* * * *
3747378 C-TTAAAAAGGGGTGCCACAAAGTTGTCGACTTTTTAAAAAGGGTGCCACAGAGTTGTGGACTTT
1 CTTTAAAAA--GGTGCCACAGAGTTGTGGAC-TTTTAAAAAAGGTGCCACGGAGTTGTGGACTTT
** * ** *
3747442 TAAAAA-GGTGCCACAGAGTTATGGACATAAAAACAAAGGGGCCATGGAGTTGTGGACTTTAAAA
63 TAAAAAGGGTGCCACAGAGTTATGGAC-TTTAAA-AAAGGTGCCACAGAGTTGTGGACTTAAAAA
* *
3747506 -A-GGTACCACGAAGTTGTGGA
126 GAGGGTGCCACGAAGTTATGGA
* * * **
3747526 CTTTTAAAAATGGTGCCACGGACTTGTGGACTTTT-AAAAAGGTGCCATGGAGTTGTGGACTTAA
1 C-TTTAAAAA-GGTGCCACAGAGTTGTGGACTTTTAAAAAAGGTGCCACGGAGTTGTGGACTTTT
* * * ** * *
3747590 AAAAGAGGGTTCCACAAAGTTATAGACTTTAAAAGGGGTGTCACGGAGTTGTGGACTTTTTAAAA
64 AAAA-AGGGTGCCACAGAGTTATGGACTTTAAAAAAGGTGCCACAGAGTTGTGGAC---TTAAAA
3747655 A-A-GGTGCCACGAAGTTATGGA
125 AGAGGGTGCCACGAAGTTATGGA
* * ** * *
3747676 CTTTTGAAAAA-GTGTCACATAGTTGTGGACTTAAAAAAAAGGGTGCCATGGTGTTGTGGAC-TT
1 C-TTT-AAAAAGGTGCCACAGAGTTGTGGACTTTTAAAAAA-GGTGCCACGGAGTTGTGGACTTT
* * *
3747739 T-AAAAGGGTGCCACAGAGTTGTGGACTTTAAGAAAAAGGTTGCCACTGAGTCGTGG
63 TAAAAAGGGTGCCACAGAGTTATGGACTTT-A-AAAAAGG-TGCCACAGAGTTGTGG
3747795 GCTTTGAAAA
Statistics
Matches: 582, Mismatches: 98, Indels: 58
0.79 0.13 0.08
Matches are distributed among these distances:
145 9 0.02
146 74 0.13
147 106 0.18
148 219 0.38
149 67 0.12
150 70 0.12
151 37 0.06
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (147 bp):
CTTTAAAAAGGTGCCACAGAGTTGTGGACTTTTAAAAAAGGTGCCACGGAGTTGTGGACTTTTAA
AAAGGGTGCCACAGAGTTATGGACTTTAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGAGGG
TGCCACGAAGTTATGGA
Found at i:3747321 original size:207 final size:205
Alignment explanation
Indices: 3746921--3747767 Score: 717
Period size: 207 Copynumber: 4.1 Consensus size: 205
3746911 TGAAAAAAGA
* * * * ** *
3746921 TGCCACTGACTTGTGGGC-TTTAAAAGGGTGCCACGGAGTT-ACGACCTTTAAAAACGGGTGCCA
1 TGCCACAGAGTTGTGGACTTTTAAAA-GGTGCCATGGAGTTGTGGACTTTTAAAAA-GGGTGCCA
*** * * * *
3746984 TGGAGTTGTGGACTTTAAAAG-GGGTGCCATGGAGTTGTGGA-TTTAAAAAGAGGTGCCACGAAG
64 CAAAGTTGTAGACTTTAAAAGAGGGTGCCA-CGAGTTGTGGACTTTTAAAA-AGGTGCCACGGAG
* * * ** * * * * *
3747047 TTGTAGAC--TT-AAAAAGGCATGCCATAGAGTTATGGA-ATTTAAAAAGGATGCCA-CAGTGTT
127 TTATGGACTTTTAAAAAAGG--TGTCACGGAGTTGTGGACTTTTAAAAAGG-TACCATGA-AGTT
3747107 GTGGACTTTTAAAAAGGG
188 GTGGACTTTTAAAAAGGG
* * * *
3747125 TGCCACGGAGTTGTGGACTTTTGAAAAGGTGCCATAGAGTTATGGACTTTTGAAAA-GGTGCCAC
1 TGCCACAGAGTTGTGGACTTTT-AAAAGGTGCCATGGAGTTGTGGACTTTTAAAAAGGGTGCCAC
* * * * *
3747189 AGAGTTGTGGACTTAAAAAAGAGGGTGCCACGTAGTTATGGAC-TTTAAAAAGGATGCCATGGAG
65 AAAGTTGTAGACTT-TAAAAGAGGGTGCCACG-AGTTGTGGACTTTTAAAAAGG-TGCCACGGAG
* *
3747253 TTGTGGGCTTTTAAAAAAGGTGTCACGGAGTTGTGGACTTTTAAAAAGGTACCATGAAGTTGTGG
127 TTATGGACTTTTAAAAAAGGTGTCACGGAGTTGTGGACTTTTAAAAAGGTACCATGAAGTTGTGG
**
3747318 ACTTAAAAAAGAGGG
192 ACTTTTAAAA-AGGG
* * * *
3747333 TGCCACAGAGTTGTGAAC-TTTAAAAGGGGGCCACGGATTTGTGGAC--TTAAAAAGGGGTGCCA
1 TGCCACAGAGTTGTGGACTTTTAAAA-GGTGCCATGGAGTTGTGGACTTTTAAAAA-GGGTGCCA
* *
3747395 CAAAGTTGTCGACTTTTTAAAA-AGGGTGCCACAGAGTTGTGGACTTTTAAAAAGGTGCCACAGA
64 CAAAGTTGTAGAC--TTTAAAAGAGGGTGCCAC-GAGTTGTGGACTTTTAAAAAGGTGCCACGGA
* ** * * * *
3747459 GTTATGGACATAAAAACAAAGGGGCCATGGAGTTGTGGAC-TTTAAAAAGGTACCACGAAGTTGT
126 GTTATGGACTTTTAAA-AAAGGTGTCACGGAGTTGTGGACTTTTAAAAAGGTACCATGAAGTTGT
*
3747523 GGACTTTTAAAAATGG
190 GGACTTTTAAAAAGGG
* * ** *
3747539 TGCCACGGACTTGTGGACTTTTAAAAAGGTGCCATGGAGTTGTGGACTTAAAAAAGAGGGTTCCA
1 TGCCACAGAGTTGTGGACTTTT-AAAAGGTGCCATGGAGTTGTGGACTTTTAAAA-AGGGTGCCA
* * *
3747604 CAAAGTTATAGACTTTAAAAG-GGGTGTCACGGAGTTGTGGACTTTTTAAAAAAGGTGCCACGAA
64 CAAAGTTGTAGACTTTAAAAGAGGGTGCCAC-GAGTTGTGGAC-TTTT-AAAAAGGTGCCACGGA
* ** ** * **
3747668 GTTATGGACTTTTGAAAAA-GTGTCACATAGTTGTGGACTTAAAAAAAAGGGTGCCATGGTGTTG
126 GTTATGGACTTTTAAAAAAGGTGTCACGGAGTTGTGGACTT-TTAAAAA-GGTACCATGAAGTTG
3747732 TGGAC-TTT-AAAAGGG
189 TGGACTTTTAAAAAGGG
3747747 TGCCACAGAGTTGTGGACTTT
1 TGCCACAGAGTTGTGGACTTT
3747768 AAGAAAAAGG
Statistics
Matches: 522, Mismatches: 88, Indels: 62
0.78 0.13 0.09
Matches are distributed among these distances:
204 35 0.07
205 30 0.06
206 72 0.14
207 198 0.38
208 105 0.20
209 65 0.12
210 17 0.03
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (205 bp):
TGCCACAGAGTTGTGGACTTTTAAAAGGTGCCATGGAGTTGTGGACTTTTAAAAAGGGTGCCACA
AAGTTGTAGACTTTAAAAGAGGGTGCCACGAGTTGTGGACTTTTAAAAAGGTGCCACGGAGTTAT
GGACTTTTAAAAAAGGTGTCACGGAGTTGTGGACTTTTAAAAAGGTACCATGAAGTTGTGGACTT
TTAAAAAGGG
Found at i:3747646 original size:60 final size:58
Alignment explanation
Indices: 3746942--3747784 Score: 367
Period size: 60 Copynumber: 14.2 Consensus size: 58
3746932 TGTGGGCTTT
* * * ** *
3746942 AAAAGGGTGCCACGGAGTTA-CGACCTTTAAAAACGGGTGCCATGGAGTTGTGGACTT-TA
1 AAAAGGGTGCCACGAAGTTATGGA-CTTT-AAAA-GGGTGTCACAGAGTTGTGGACTTAAA
* * * * * *
3747001 AAAGGGGTGCCATGGAGTTGTGGA-TTTAAAAAGAGGTGCCAC-GAAGTTGTAGACTT--A
1 AAAAGGGTGCCACGAAGTTATGGACTTT-AAAAG-GGTGTCACAG-AGTTGTGGACTTAAA
* * * * * * **
3747058 AAAAGGCATGCCA-TAGAGTTATGGAATTTAAAAAGGATGCCACAGTGTTGTGGACTTTTA
1 AAAAGG-GTGCCACGA-AGTTATGGACTTT-AAAAGGGTGTCACAGAGTTGTGGACTTAAA
* * * * * ***
3747118 AAAAGGGTGCCACGGAGTTGTGGACTTTTGAAAA-GGTGCCATAGAGTTATGGACTTTTG
1 AAAAGGGTGCCACGAAGTTATGGAC-TTT-AAAAGGGTGTCACAGAGTTGTGGACTTAAA
* * * * *
3747177 AAAA-GGTGCCAC-AGAGTTGTGGACTTAAAAAAGAGGGTGCCAC-GTAGTTATGGACTT-TA
1 AAAAGGGTGCCACGA-AGTTATGGACTT--TAAA-AGGGTGTCACAG-AGTTGTGGACTTAAA
* * * * * * * **
3747236 AAAAGGATGCCATGGAGTTGTGGGCTTTTAAAAAAGGTGTCACGGAGTTGTGGACTTTTA
1 AAAAGGGTGCCACGAAGTTATGGAC-TTT-AAAAGGGTGTCACAGAGTTGTGGACTTAAA
* * * * * * *
3747296 AAAA-GGTACCATGAAGTTGTGGACTTAAAAAAGAGGGTGCCACAGAGTTGTGAACTT--T
1 AAAAGGGTGCCACGAAGTTATGGACTT--TAAA-AGGGTGTCACAGAGTTGTGGACTTAAA
* * * * * * * * **
3747354 AAAAGGGGGCCACGGATTTGTGGACTTAAAAAGGGGTGCCACAAAGTTGTCGACTTTTTA
1 AAAAGGGTGCCACGAAGTTATGGACTTTAAAA-GGGTGTCACAGAGTTGTGGAC-TTAAA
* * * * *
3747414 AAAAGGGTGCCAC-AGAGTTGTGGACTTTTAAAAAGGTGCCACAGAGTTATGGACATAAAA
1 AAAAGGGTGCCACGA-AGTTATGGAC-TTTAAAAGGGTGTCACAGAGTTGTGGAC-TTAAA
* * * * ** **
3747474 ACAAAGGG-GCCATGGAGTTGTGGACTTTAAAAAGGTACCAC-GAAGTTGTGGACTTTTA
1 A-AAAGGGTGCCACGAAGTTATGGACTTTAAAAGGGTGTCACAG-AGTTGTGGACTTAAA
* * * * * * **
3747532 AAAATGGTGCCACGGACTTGTGGACTTTTAAAAAGGTGCCATGGAGTTGTGGACTTAAA
1 AAAAGGGTGCCACGAAGTTATGGAC-TTTAAAAGGGTGTCACAGAGTTGTGGACTTAAA
* * * * *
3747591 AAAGAGGGTTCCACAAAGTTATAGACTTTAAAAGGGGTGTCACGGAGTTGTGGACTTTTTAA
1 AAA-AGGGTGCCACGAAGTTATGGACTTTAAAA-GGGTGTCACAGAGTTGTGGAC--TTAAA
* *
3747653 AAAA-GGTGCCACGAAGTTATGGACTTTTGAAAA-AGTGTCACATAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACGAAGTTATGGAC-TTT-AAAAGGGTGTCACAGAGTTGTGGACTT-AAA
* ** * *
3747712 AAAAGGGTGCCATGGTGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAGA
1 AAAAGGGTGCCACGAAGTTATGGACTTTAAAAGGGTGTCACAGAGTTGTGGAC-TTAA-A
*
3747772 AAAAGGTTGCCAC
1 AAAAGGGTGCCAC
3747785 TGAGTCGTGG
Statistics
Matches: 625, Mismatches: 109, Indels: 99
0.75 0.13 0.12
Matches are distributed among these distances:
56 1 0.00
57 37 0.06
58 110 0.18
59 215 0.34
60 233 0.37
61 18 0.03
62 11 0.02
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (58 bp):
AAAAGGGTGCCACGAAGTTATGGACTTTAAAAGGGTGTCACAGAGTTGTGGACTTAAA
Found at i:3750504 original size:19 final size:19
Alignment explanation
Indices: 3750480--3750547 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
3750470 AATTCAACGA
3750480 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3750499 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3750514 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
**
3750531 AGTGTATCGATACATAA
1 TTTGTATCGATACATAA
3750548 TTAGGTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3750518 original size:32 final size:32
Alignment explanation
Indices: 3750482--3750544 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
3750472 TTCAACGATT
**
3750482 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTAGTGTATCGATACAA
3750514 TGTATCGATACATAAGTAGTGTATCGATACA
1 TGTATCGATACATAAGTAGTGTATCGATACA
3750545 TAATTAGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTAGTGTATCGATACAA
Found at i:3750519 original size:13 final size:13
Alignment explanation
Indices: 3750501--3750525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3750491 ACATAAGTTT
3750501 TGTATCGATACAA
1 TGTATCGATACAA
3750514 TGTATCGATACA
1 TGTATCGATACA
3750526 TAAGTAGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3750605 original size:13 final size:13
Alignment explanation
Indices: 3750587--3750612 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3750577 CATTTTTCTG
3750587 TGTATCGATACAT
1 TGTATCGATACAT
3750600 TGTATCGATACAT
1 TGTATCGATACAT
3750613 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3750609 original size:33 final size:33
Alignment explanation
Indices: 3750567--3750633 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3750557 GCCAAGGAAA
***
3750567 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3750600 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3750633 T
1 T
3750634 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3750658 original size:31 final size:31
Alignment explanation
Indices: 3750620--3750696 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
3750610 CATGGATCTT
3750620 TGTATCGATACATTTGGAAATTTTACCCAGA
1 TGTATCGATACATTTGGAAATTTTACCCAGA
3750651 TGTATCGATACATTTGGAAATTTTACCCAGA
1 TGTATCGATACATTTGGAAATTTTACCCAGA
3750682 TGTATCGATACATTT
1 TGTATCGATACATTT
3750697 TACAATGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (31 bp):
TGTATCGATACATTTGGAAATTTTACCCAGA
Found at i:3753192 original size:28 final size:27
Alignment explanation
Indices: 3753126--3753193 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
3753116 TTCACAATCA
*
3753126 GGGATACTCCAACCCCGTTAATCATCG
1 GGGATACTCCAACCCCGTTAATCATAG
* **
3753153 GGGATACTCCAACCCCGTTATTTTTGAG
1 GGGATACTCCAACCCCGTTAATCAT-AG
3753181 GGGATACTCCAAC
1 GGGATACTCCAAC
3753194 TCCGGTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTAATCATAG
Found at i:3753244 original size:52 final size:50
Alignment explanation
Indices: 3753180--3753349 Score: 164
Period size: 52 Copynumber: 3.3 Consensus size: 50
3753170 TTATTTTTGA
*
3753180 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATC-CTAAAACACCAA-TTTTCCACAATC
** * **
3753232 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATCCT-AAAACACCAATTTTCC-ACAATC
* * *
3753284 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAATTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTA--TCCTAAAACACC-AATTTTCCACAATC
*
3753336 GAGGATACTCCAAC
1 GGGGATACTCCAAC
3753350 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
51 10 0.10
52 69 0.72
53 10 0.10
54 7 0.07
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACTCCGGTTTTATCCTAAAACACCAATTTTCCACAATC
Found at i:3753369 original size:28 final size:28
Alignment explanation
Indices: 3753333--3753409 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
3753323 AATTTTCACA
* * *
3753333 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
3753361 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
3753389 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
3753410 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:3753378 original size:212 final size:212
Alignment explanation
Indices: 3753011--3753416 Score: 604
Period size: 212 Copynumber: 1.9 Consensus size: 212
3753001 TTATCAATTC
* *
3753011 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
3753076 TACTCTAACTCCGATTTTATTTCCAAAAAGCACCAATTTCTTCACAATCAGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAGCACCAAATTCTTCACAATCAGGGATACTCCAACCC
* ** * *
3753141 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
3753206 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
3753223 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
3753287 GATACTCCAACTCCGATTTTATTTCCAAAAA-TACCAAATT-TTCACAATC-GAGGATACTCCAA
64 GATACTCCAACTCCGATTTTATTTCCAAAAAGCACCAAATTCTTCACAATCAG-GGATACTCCAA
* *
3753349 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
128 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
3753414 TAT
192 TAT
3753417 TCCCAAAATA
Statistics
Matches: 174, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
210 1 0.01
211 30 0.17
212 103 0.59
213 40 0.23
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAGCACCAAATTCTTCACAATCAGGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:3753512 original size:79 final size:79
Alignment explanation
Indices: 3753363--3753565 Score: 212
Period size: 79 Copynumber: 2.6 Consensus size: 79
3753353 GTTATTTCAT
* * ** *
3753363 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAAGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
3753428 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
3753442 TGGGGATACTCCAACCCCGTTATTTTCGAAAGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAAGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
3753506 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * *
3753521 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAAGG-ATACTCCAACCC
3753566 TGTTATTATC
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 7 0.07
79 95 0.93
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAAGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:3765968 original size:1 final size:1
Alignment explanation
Indices: 3765962--3766024 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
3765952 CCTTCTCTTC
** * * * * * *
3765962 AAAAAAAAAAGCAAAAAAAAAAAAAAACAAAACAAAGAAAAAGAGAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3766025 TCTGCTTAAG
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:3765988 original size:21 final size:20
Alignment explanation
Indices: 3765962--3766024 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 20
3765952 CCTTCTCTTC
*
3765962 AAAAAAAAAAGCAAAAAAAA
1 AAAAAAAAAAACAAAAAAAA
3765982 AAAAAAACAAAACAAAGAAAAA
1 AAAAAAA-AAAACAAA-AAAAA
* *
3766004 GAGAAAAAAAACAAAAAAAA
1 AAAAAAAAAAACAAAAAAAA
3766024 A
1 A
3766025 TCTGCTTAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 12 0.32
21 15 0.41
22 10 0.27
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAACAAAAAAAA
Found at i:3765998 original size:26 final size:26
Alignment explanation
Indices: 3765964--3766023 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
3765954 TTCTCTTCAA
3765964 AAAAAAAAGCAAAAA-AAAAAAAAAAC
1 AAAAAAAAG-AAAAAGAAAAAAAAAAC
* *
3765990 AAAACAAAGAAAAAGAGAAAAAAAAC
1 AAAAAAAAGAAAAAGAAAAAAAAAAC
3766016 AAAAAAAA
1 AAAAAAAA
3766024 ATCTGCTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (26 bp):
AAAAAAAAGAAAAAGAAAAAAAAAAC
Found at i:3767069 original size:26 final size:26
Alignment explanation
Indices: 3767039--3767128 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
3767029 AAGTTGGTGG
*
3767039 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
3767065 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
3767094 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
3767120 CACCTTTCA
1 CACCTTTCA
3767129 AAGCCCACCC
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:3767076 original size:55 final size:55
Alignment explanation
Indices: 3766992--3767400 Score: 545
Period size: 55 Copynumber: 7.3 Consensus size: 55
3766982 TCCGCTTTTT
3766992 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
3767047 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
3767102 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* * **
3767157 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
** *
3767212 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
*
3767273 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* ** * *
3767328 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACATGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
3767383 ACTCCTCAATGAGAAGGA
1 AGTCCTCAAAGAGCAGGA
3767401 TACACTTTAT
Statistics
Matches: 319, Mismatches: 24, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
54 7 0.02
55 252 0.79
56 10 0.03
57 1 0.00
59 1 0.00
60 5 0.02
61 43 0.13
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:3767324 original size:29 final size:28
Alignment explanation
Indices: 3767244--3767326 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 28
3767234 TTTTCTTTTC
3767244 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
* * **
3767272 -CAGTCCC-CA-AAG-AGCAGGACACCTCTT
1 AAAG-CCCACACAAGTTGGTGG-CACCT-TT
3767299 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
3767327 CAGTCCTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
25 3 0.08
26 8 0.20
27 9 0.22
28 9 0.22
29 8 0.20
30 3 0.08
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (28 bp):
AAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:3768243 original size:19 final size:19
Alignment explanation
Indices: 3768219--3768286 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
3768209 AATTCAACGA
3768219 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3768238 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3768253 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
**
3768270 AGTGTATCGATACATAA
1 TTTGTATCGATACATAA
3768287 TTAGGTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3768257 original size:32 final size:32
Alignment explanation
Indices: 3768221--3768283 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
3768211 TTCAACGATT
**
3768221 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTAGTGTATCGATACAA
3768253 TGTATCGATACATAAGTAGTGTATCGATACA
1 TGTATCGATACATAAGTAGTGTATCGATACA
3768284 TAATTAGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTAGTGTATCGATACAA
Found at i:3768258 original size:13 final size:13
Alignment explanation
Indices: 3768240--3768264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3768230 ACATAAGTTT
3768240 TGTATCGATACAA
1 TGTATCGATACAA
3768253 TGTATCGATACA
1 TGTATCGATACA
3768265 TAAGTAGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3768344 original size:13 final size:13
Alignment explanation
Indices: 3768326--3768351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3768316 CATTTTTCTG
3768326 TGTATCGATACAT
1 TGTATCGATACAT
3768339 TGTATCGATACAT
1 TGTATCGATACAT
3768352 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3768348 original size:33 final size:33
Alignment explanation
Indices: 3768306--3768372 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3768296 GCCAAGGAAA
***
3768306 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3768339 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3768372 T
1 T
3768373 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3770969 original size:52 final size:53
Alignment explanation
Indices: 3770884--3771053 Score: 163
Period size: 52 Copynumber: 3.3 Consensus size: 53
3770874 TTATTTTCGA
* * *
3770884 GGGGATACTCCAACTCCGGTTTTA-TCCCTAAAACACTAATTTTTTCACAATC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTTCACAATC
* * * * * *
3770936 GGGGATACTCTAA-TCCTGGTTTTATTTTC-AAAACGCCAATTTTCCTT--TAATC
1 GGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACTAATTTT--TTCACAATC
* *
3770988 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACTAA-ATTTTCACAATC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTTCACAATC
*
3771040 GAGGATACTCCAAC
1 GGGGATACTCCAAC
3771054 CTCGTTATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
50 2 0.02
51 3 0.03
52 76 0.80
53 12 0.13
54 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (53 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTTCACAATC
Found at i:3771073 original size:28 final size:28
Alignment explanation
Indices: 3771037--3771113 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
3771027 AATTTTCACA
* * *
3771037 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
3771065 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
3771093 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
3771114 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:3771084 original size:212 final size:212
Alignment explanation
Indices: 3770717--3771128 Score: 591
Period size: 212 Copynumber: 1.9 Consensus size: 212
3770707 ATCAATTCTC
* *
3770717 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
* *
3770782 CTCTAACTCCGATTTTATTTCCAAAAAGCACCAATTTCTTCACAATCAGGGATACTCCAACCCCG
66 CTCCAACTCCGATTTTATTTCCAAAAAGCACCAAATTCTTCACAATCAGGGATACTCCAACCCCG
* * * *
3770847 TTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGGTTTTA-TCC
131 TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCC
3770911 CTAAAACACTAATTTTTT
196 C-AAAACACTAATTTTTT
* * * * *
3770929 CACAATCGGGGATACTCTAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 CACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGA
* *
3770993 TACTCCAACTCCGATTTTATTTCCAAAAA-TACTAAATT-TTCACAATC-GAGGATACTCCAACC
64 TACTCCAACTCCGATTTTATTTCCAAAAAGCACCAAATTCTTCACAATCAG-GGATACTCCAACC
* *
3771055 TCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA
128 CCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA
3771120 TTCCCAAAA
192 TTCCCAAAA
3771129 TATTGATTTC
Statistics
Matches: 178, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
210 1 0.01
211 30 0.17
212 103 0.58
213 44 0.25
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
CACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAAGCACCAAATTCTTCACAATCAGGGATACTCCAACCCCG
TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCC
CAAAACACTAATTTTTT
Found at i:3771181 original size:79 final size:78
Alignment explanation
Indices: 3771067--3771268 Score: 210
Period size: 78 Copynumber: 2.6 Consensus size: 78
3771057 GTTATTTCAT
* * * *
3771067 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCC-GATTTATTCCC-AAATCA
* * *
3771131 TTGATTTCTCATAAT
64 TCGATTTCTCACAAC
* * * * * ** *
3771146 TGGGGATACTCCAACCCCGTTATTTTCGAAAGGATACTCAAATCCCGATTTTTTTTCTAATCATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAATCATC
3771211 GATTTCTCACAAC
66 GATTTCTCACAAC
* *
3771224 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
3771269 TGTTATTATC
Statistics
Matches: 100, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
77 7 0.07
78 54 0.54
79 39 0.39
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAATCATC
GATTTCTCACAAC
Found at i:3771181 original size:107 final size:107
Alignment explanation
Indices: 3770775--3771184 Score: 261
Period size: 107 Copynumber: 3.8 Consensus size: 107
3770765 TTCTATAATC
* * * * * *
3770775 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAGCACCAATTTCTTCACAATC-AGGGATACTC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAA-TACTAAATT-TTCACAATCGA-GGATACTC
* * * * *
3770839 CAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
63 CAACCCCGTTATTTATCGAGGATACTCCAACCCCGTTACTTCCGA
* ** * * * * * *
3770884 GGGGATACTCCAACTCCGGTTTTA-TCCCTAAAACACTAATTTTTTCACAATCGGGGATACTCTA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACTAA-ATTTTCACAATCGAGGATACTCCA
** * * ** * *
3770948 ATCCTGGTTTTATTT-TC-A--AAACGCCAATTTTCCTTTA-AT-C--
65 A-CCCCG--TTATTTATCGAGGATACTCCAA--CCCCGTTACTTCCGA
* *
3770988 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACTAAATTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACTAAATTTTCACAATCGAGGATACTCCAA
* *
3771053 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGAGGATACTCCAACCCCGTTACTTCCGA
* * ** * * *
3771096 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATA-TTGATTTCTCATAATTGGGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACTAAATTT-TCACAATCGAGGATACTCCA
3771159 ACCCCGTTATTT-TCGAAAGGATACTC
65 ACCCCGTTATTTATCG--AGGATACTC
3771185 AAATCCCGAT
Statistics
Matches: 237, Mismatches: 44, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
101 6 0.03
103 6 0.03
104 50 0.21
105 16 0.07
106 21 0.09
107 71 0.30
108 39 0.16
109 24 0.10
110 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACTAAATTTTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGAGGATACTCCAACCCCGTTACTTCCGA
Found at i:3774365 original size:17 final size:19
Alignment explanation
Indices: 3774345--3774390 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
3774335 CTTAAACTTA
3774345 TTTTTCATTTTT-CATG-T
1 TTTTTCATTTTTCCATGCT
*
3774362 TTTTCCATTTTTCCATGCT
1 TTTTTCATTTTTCCATGCT
*
3774381 ATTTTCATTT
1 TTTTTCATTT
3774391 AATGTTCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.46
18 4 0.17
19 9 0.38
ACGTcount: A:0.13, C:0.17, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTTCATTTTTCCATGCT
Found at i:3775050 original size:165 final size:165
Alignment explanation
Indices: 3774781--3775581 Score: 920
Period size: 166 Copynumber: 4.8 Consensus size: 165
3774771 ATGTTAGATA
* * * * ** * *
3774781 AATTTTAAAAATTTTAAATCGAA-AAAAATCTCCCTAAAAACATTTATAGAATTGAAAGCTCAGT
1 AATTTTAAAAATTATAAA-CCAAGAAAAATC-CCCTAAAAACATTTACAGAGTAAAAAACTCCGT
* * * * * * * *
3774845 -TTTTCAATAATAGGGATATTTTAATGGAAAAATGAAAAACTTATGAAAATAAATGAATTTTTCA
64 ATTTTGAA-AAAAGGAAAATTTCAAAGAAAAAATGAAAAACTTATGAAAATAATTGAATTTTTCA
* * *
3774909 AAACTAATTTAATATGAAT-TAATAATGATATTTGATG
128 AAACTGATTTACTATGAATCAAATAATGATATTTGATG
* * * * *
3774946 AATTTTAAAAATTATAAACCGAGAAAGATATCCCC-AAAAATATTTACGGAGTAGAATACTCCGT
1 AATTTTAAAAATTATAAACCAAGAAA-A-ATCCCCTAAAAACATTTACAGAGTAAAAAACTCCGT
* * * * *
3775010 ATTTTGGAAATAGGAGAATTTCAAAGAAAAAATAAAAAACTTATGAAAATAATTGAATTTTTCTA
64 ATTTTGAAAAAAGGAAAATTTCAAAGAAAAAATGAAAAACTTATGAAAATAATTGAATTTTTCAA
* * * *
3775075 AACTGATTTACTAAGAATCAAATGATAATATGTGATG
129 AACTGATTTACTATGAATCAAATAATGATATTTGATG
* * * *
3775112 AATTTTAAAAATTATAAACCAAGAAAAATCCCCTTAAAAATATTTATAGAG-AAAAAATTTCGTA
1 AATTTTAAAAATTATAAACCAAGAAAAATCCCC-TAAAAACATTTACAGAGTAAAAAACTCCGTA
*
3775176 TTTCGAAAACAAGAGAAAATATT-AAAG-AAAAATGAAAAACTTATGAAAATAATTGAATTTTTC
65 TTTTGAAAA-AAG-GAAAAT-TTCAAAGAAAAAATGAAAAACTTATGAAAATAATTGAATTTTTC
* *
3775239 TAAACTGATTTACTATGAATCAAATTATGATATTTGATG
127 AAAACTGATTTACTATGAATCAAATAATGATATTTGATG
* * *
3775278 AATTTTAAAAATTATAAACCAAGAAAAATCCCCCTAAAAACATTTACAAAGTAGAAAGCTCCGTA
1 AATTTTAAAAATTATAAACCAAGAAAAAT-CCCCTAAAAACATTTACAGAGTAAAAAACTCCGTA
*
3775343 TTTTGAAAATAGGAAAATTTCAAAGAAAAAATGAAAAACTTATGAAAATAATTGAATTTTTCAAA
65 TTTTGAAAAAAGGAAAATTTCAAAGAAAAAATGAAAAACTTATGAAAATAATTGAATTTTTCAAA
* ** *
3775408 ACTGATTTACTATGAATTAAAGGATGATATTTGATA
130 ACTGATTTACTATGAATCAAATAATGATATTTGATG
3775444 AATTTTAAAAATTATAAACCAAGAAAAATCCCTCTAAAAACATTTACAGAGTAAAAAACTCCGTA
1 AATTTTAAAAATTATAAACCAAGAAAAATCCC-CTAAAAACATTTACAGAGTAAAAAACTCCGTA
* * * * * *
3775509 -TTTCAAAAAAGGAAAAATTCAAAGGAAAAATTAAAAA-TTCATGAAATAAAAAT-AATTTTTCA
65 TTTTGAAAAAAGGAAAATTTCAAAGAAAAAATGAAAAACTT-ATGAAA-ATAATTGAATTTTTCA
*
3775571 AAACTAATTTA
128 AAACTGATTTA
3775582 ATGATATTTA
Statistics
Matches: 549, Mismatches: 70, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
164 12 0.02
165 191 0.35
166 311 0.57
167 33 0.06
168 2 0.00
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (165 bp):
AATTTTAAAAATTATAAACCAAGAAAAATCCCCTAAAAACATTTACAGAGTAAAAAACTCCGTAT
TTTGAAAAAAGGAAAATTTCAAAGAAAAAATGAAAAACTTATGAAAATAATTGAATTTTTCAAAA
CTGATTTACTATGAATCAAATAATGATATTTGATG
Found at i:3775371 original size:332 final size:330
Alignment explanation
Indices: 3774777--3775583 Score: 1042
Period size: 332 Copynumber: 2.4 Consensus size: 330
3774767 GACAATGTTA
* * * * ** *
3774777 GATAAATTTTAAAAATTTTAAATCGAA-AAAAATCTCC-CTAAAAACATTTATAGAATTGAAAGC
1 GATAAATTTTAAAAATTATAAA-CCAAGAAAAATC-CCTCTAAAAACATTTACAGAGTAAAAAAC
* * * * * * * *
3774840 TCAGTTTTTCAATAATAGGGATATTTTAATGGAAAAATGAAAAACTTATGAAAATAAATGAATTT
64 TCCGTATTTCAA-AAAAGGAAAAATTCAAAGGAAAAATGAAAAACTTATGAAAATAAATGAATTT
* *
3774905 TTCAAAACTAATTTAATATGAATTAATAATGATATTTGATGAATTTTAAAAATTATAAACCGAGA
128 TTCAAAACTAATTTAATATGAATAAATAATGATATTTGATGAATTTTAAAAATTATAAACCAAGA
* ** * *
3774970 AAGATATCCCCAAAAATATTTACGGAGTAGAATACTCCGTATTTTGGAAATAGGAGAATTTCAAA
193 AAGATATCCCCAAAAACATTTACAAAGTAGAATACTCCGTATTTTGAAAATAGGAAAATTTCAAA
* *
3775035 GAAAAAATAAAAAACTTATGAAAATAATTGAATTTTTCTAAACTGATTTACTAAGAATCAAATGA
258 GAAAAAATAAAAAACTTATGAAAATAATTGAATTTTTCAAAACTGATTTACTAAGAATCAAAGGA
3775100 TAATATGT
323 TAATATGT
* * * *
3775108 GATGAATTTTAAAAATTATAAACCAAGAAAAATCCC-CTTAAAAATATTTATAGAG-AAAAAATT
1 GATAAATTTTAAAAATTATAAACCAAGAAAAATCCCTC-TAAAAACATTTACAGAGTAAAAAACT
* *
3775171 TCGTATTTCGAAAACAAGAGAAAATATT-AAA-GAAAAATGAAAAACTTATGAAAATAATTGAAT
65 CCGTATTTC-AAAA-AAG-GAAAA-ATTCAAAGGAAAAATGAAAAACTTATGAAAATAAATGAAT
* * * *
3775234 TTTTCTAAACTGATTTACTATGAATCAAATTATGATATTTGATGAATTTTAAAAATTATAAACCA
126 TTTTCAAAACTAATTTAATATGAAT-AAATAATGATATTTGATGAATTTTAAAAATTATAAACCA
3775299 AGAAA-A-ATCCCCCTAAAAACATTTACAAAGTAGAA-AGCTCCGTATTTTGAAAATAGGAAAAT
190 AGAAAGATAT-CCCC-AAAAACATTTACAAAGTAGAATA-CTCCGTATTTTGAAAATAGGAAAAT
* * *
3775361 TTCAAAGAAAAAATGAAAAACTTATGAAAATAATTGAATTTTTCAAAACTGATTTACTATGAATT
252 TTCAAAGAAAAAATAAAAAACTTATGAAAATAATTGAATTTTTCAAAACTGATTTACTAAGAATC
* *
3775426 AAAGGATGATATTT
317 AAAGGATAATATGT
3775440 GATAAATTTTAAAAATTATAAACCAAGAAAAATCCCTCTAAAAACATTTACAGAGTAAAAAACTC
1 GATAAATTTTAAAAATTATAAACCAAGAAAAATCCCTCTAAAAACATTTACAGAGTAAAAAACTC
* *
3775505 CGTATTTCAAAAAAGGAAAAATTCAAAGGAAAAATTAAAAA-TTCATGAAATAAAAAT-AATTTT
66 CGTATTTCAAAAAAGGAAAAATTCAAAGGAAAAATGAAAAACTT-ATGAAA-ATAAATGAATTTT
3775568 TCAAAACTAATTTAAT
129 TCAAAACTAATTTAAT
3775584 GATATTTAAA
Statistics
Matches: 413, Mismatches: 47, Indels: 32
0.84 0.10 0.07
Matches are distributed among these distances:
329 3 0.01
330 30 0.07
331 145 0.35
332 217 0.53
333 18 0.04
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (330 bp):
GATAAATTTTAAAAATTATAAACCAAGAAAAATCCCTCTAAAAACATTTACAGAGTAAAAAACTC
CGTATTTCAAAAAAGGAAAAATTCAAAGGAAAAATGAAAAACTTATGAAAATAAATGAATTTTTC
AAAACTAATTTAATATGAATAAATAATGATATTTGATGAATTTTAAAAATTATAAACCAAGAAAG
ATATCCCCAAAAACATTTACAAAGTAGAATACTCCGTATTTTGAAAATAGGAAAATTTCAAAGAA
AAAATAAAAAACTTATGAAAATAATTGAATTTTTCAAAACTGATTTACTAAGAATCAAAGGATAA
TATGT
Found at i:3775534 original size:13 final size:13
Alignment explanation
Indices: 3775516--3775540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3775506 GTATTTCAAA
3775516 AAAGGAAAAATTC
1 AAAGGAAAAATTC
3775529 AAAGGAAAAATT
1 AAAGGAAAAATT
3775541 AAAAATTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAGGAAAAATTC
Found at i:3776851 original size:16 final size:17
Alignment explanation
Indices: 3776832--3776867 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3776822 TCGATACATT
*
3776832 ATGG-TATAAATTTCCA
1 ATGGCTATAAATTTCAA
3776848 ATGGCTATAAATTTCAA
1 ATGGCTATAAATTTCAA
3776865 ATG
1 ATG
3776868 CATTTATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (17 bp):
ATGGCTATAAATTTCAA
Found at i:3780111 original size:52 final size:52
Alignment explanation
Indices: 3780033--3780161 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
3780023 CGAAATATGA
* * *
3780033 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
3780085 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
3780137 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
3780162 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:3780174 original size:52 final size:51
Alignment explanation
Indices: 3780033--3780181 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
3780023 CGAAATATGA
* *
3780033 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
3780085 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
3780137 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3780182 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:3780188 original size:13 final size:13
Alignment explanation
Indices: 3780170--3780194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3780160 CAAAGATCAG
3780170 TGTATCGATACAA
1 TGTATCGATACAA
3780183 TGTATCGATACA
1 TGTATCGATACA
3780195 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3780272 original size:33 final size:33
Alignment explanation
Indices: 3780235--3780301 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3780225 AGTAGCTTAA
3780235 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3780268 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3780301 A
1 A
3780302 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3780275 original size:13 final size:13
Alignment explanation
Indices: 3780257--3780281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3780247 CAAAAAAATA
3780257 TGTATCGATACAT
1 TGTATCGATACAT
3780270 TGTATCGATACA
1 TGTATCGATACA
3780282 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3784851 original size:32 final size:32
Alignment explanation
Indices: 3784786--3784881 Score: 120
Period size: 32 Copynumber: 3.0 Consensus size: 32
3784776 CACACCCAAA
* * *
3784786 TGTATCGATGCATATTGCTTAGTAACGATACAT
1 TGTATCGATACATGTT-CTTAGTATCGATACAT
*
3784819 TGTATCGATACATGTTCTTGGTATCGATACAT
1 TGTATCGATACATGTTCTTAGTATCGATACAT
* * *
3784851 TGTATCCATAAATGTTCTTAGTATCTATACA
1 TGTATCGATACATGTTCTTAGTATCGATACA
3784882 CCTTGAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 41 0.75
33 14 0.25
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTTCTTAGTATCGATACAT
Found at i:3784947 original size:13 final size:13
Alignment explanation
Indices: 3784929--3784955 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3784919 AAAACTCACT
3784929 TTGTATCGATACA
1 TTGTATCGATACA
3784942 TTGTATCGATACA
1 TTGTATCGATACA
3784955 T
1 T
3784956 AATGAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3784993 original size:20 final size:20
Alignment explanation
Indices: 3784941--3784995 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
3784931 GTATCGATAC
3784941 ATTGTATCGATACATAATGA
1 ATTGTATCGATACATAATGA
* * **
3784961 ATTATATCAATACATGGTGA
1 ATTGTATCGATACATAATGA
*
3784981 ATTGTATTGATACAT
1 ATTGTATCGATACAT
3784996 TGAGCCCAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATAATGA
Found at i:3785516 original size:31 final size:33
Alignment explanation
Indices: 3785426--3785516 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 33
3785416 TAAGTGATTT
*
3785426 AGAGGTTTTATCTTAGCTTTGAAAAAGATAGGGAG
1 AGAGGTTTTATCTTAGCCTTGAAAAAGATA-GG-G
* *
3785461 AGAGGTTCTATCTTAGCCCATGAAAAA-ATAGGG
1 AGAGGTTTTATCTTAG-CCTTGAAAAAGATAGGG
*
3785494 AG-GTTTTTATCTTAGCCTTGAAA
1 AGAGGTTTTATCTTAGCCTTGAAA
3785517 GATAGTGTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 7 0.14
32 11 0.22
33 3 0.06
34 2 0.04
35 18 0.37
36 8 0.16
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (33 bp):
AGAGGTTTTATCTTAGCCTTGAAAAAGATAGGG
Found at i:3789897 original size:13 final size:13
Alignment explanation
Indices: 3789879--3789904 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3789869 TACACCAAGT
3789879 ATGTATCGATACA
1 ATGTATCGATACA
3789892 ATGTATCGATACA
1 ATGTATCGATACA
3789905 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3789902 original size:32 final size:33
Alignment explanation
Indices: 3789861--3789924 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3789851 TAGCCAAACT
**
3789861 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
3789893 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
3789925 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:3792152 original size:21 final size:21
Alignment explanation
Indices: 3792119--3792163 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3792109 TTGCAAGTTG
*
3792119 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3792141 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
3792161 AAA
1 AAA
3792164 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3795731 original size:20 final size:20
Alignment explanation
Indices: 3795688--3795733 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3795678 AAATCTTTTG
3795688 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
3795709 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
3795729 CAAAA
1 CAAAA
3795734 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:3798112 original size:13 final size:13
Alignment explanation
Indices: 3798094--3798119 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3798084 TACACCAAGT
3798094 ATGTATCGATACA
1 ATGTATCGATACA
3798107 ATGTATCGATACA
1 ATGTATCGATACA
3798120 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3798116 original size:32 final size:33
Alignment explanation
Indices: 3798075--3798139 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
3798065 CATGAAAAAG
**
3798075 ATGTATCGATACACCAAGTA-TGTATCGATACA
1 ATGTATCGATACACCAAAAATTGTATCGATACA
3798107 ATGTATCGATACACCAAAAATTGTATCGATACA
1 ATGTATCGATACACCAAAAATTGTATCGATACA
3798140 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACACCAAAAATTGTATCGATACA
Found at i:3799019 original size:35 final size:36
Alignment explanation
Indices: 3798973--3799041 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
3798963 GATTTTAATG
* *
3798973 AATGTTTGCCTTGCTAT-TTTTTTATGAATGCAATT
1 AATGTTTGCCTTGATATATCTTTTATGAATGCAATT
3799008 AATGTTTGCCTTGATATCATCTTTTATGAATGCA
1 AATGTTTGCCTTGATAT-ATCTTTTATGAATGCA
3799042 TAGGAAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 16 0.53
37 14 0.47
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (36 bp):
AATGTTTGCCTTGATATATCTTTTATGAATGCAATT
Found at i:3801743 original size:21 final size:20
Alignment explanation
Indices: 3801709--3801749 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
3801699 GAGGTGTTGG
3801709 ACATATTAAAAATGCATGAA
1 ACATATTAAAAATGCATGAA
*
3801729 ACATAGTTTAAAATGCATGAA
1 ACATA-TTAAAAATGCATGAA
3801750 CATGGGGCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (20 bp):
ACATATTAAAAATGCATGAA
Found at i:3803616 original size:42 final size:42
Alignment explanation
Indices: 3803557--3803638 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
3803547 GTATCGATAC
3803557 ATTCTTCATTGTATCGATACATTCTAGGTTTTACCCAGATGT
1 ATTCTTCATTGTATCGATACATTCTAGGTTTTACCCAGATGT
* *
3803599 ATTCTTCATTGTATCGATACATTTTGGGTTTTACCCAGAT
1 ATTCTTCATTGTATCGATACATTCTAGGTTTTACCCAGAT
3803639 ATATCGATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (42 bp):
ATTCTTCATTGTATCGATACATTCTAGGTTTTACCCAGATGT
Found at i:3805335 original size:79 final size:79
Alignment explanation
Indices: 3805037--3805740 Score: 767
Period size: 79 Copynumber: 8.9 Consensus size: 79
3805027 TCATTGATGT
* * * *
3805037 TTTTATTTCTACAACACCAATTTTCCACCATCGGGGATACTCCATCTCCGTTA-TTTCTGAGGGG
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGG
3805101 ATACTCCAACCCCAG
65 ATACTCCAACCCCAG
* * * *
3805116 TTTT-TTTCTGAAATA-CGAATTTTCCACCATCGGGGATACTCCAACCCCATTA-TTTCTAAGGG
1 TTTTATTTCTAAAACACCG-ATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGG
3805178 GATACTCCAACCCCAG
64 GATACTCCAACCCCAG
* * * * *
3805194 TTTT-TTTCTGAAATACGGATTTTCCACCATCGGGGATACTCCAACCCCATTA-TTTCTAAGGGG
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGG
3805257 ATACTCCAACCCCAG
65 ATACTCCAACCCCAG
* * * *
3805272 TTTTATTTCTGAAATACCGATTTTCCACCATCGGTGATACTCCAACCCCATTATTTTCGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
3805337 TACTCCAACCCCAG
66 TACTCCAACCCCAG
* * * * * **
3805351 TTTTATTTCTAAAACACTGATTTTCCACTATCAGGGATACTCCAATCTCGTTATTTTCGAGGACA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* *
3805416 TACTCCAACCTCAT
66 TACTCCAACCCCAG
* * ** * * * *
3805430 TTTTATTTCTAGAACATCGATTTTTTACCATCGAGGATACTCCAACCTCATTATTTTCAAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* *
3805495 TAGTCCAACCTCAG
66 TACTCCAACCCCAG
* * * * *
3805509 TTTTATTTCTAAAACATCGATTTTTCATCATTGGGGATACTCCAACCCTGTTA-TTTCTGAGGGG
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGG
* *
3805573 ATACTCTAACCTC-G
65 ATACTCCAACCCCAG
* * * * * ** **
3805587 ATTTTATTTCTAAAACACTGATTTTTCACCATTGAGGATACTCCAACCTCGTTATTTTTTAGGAA
1 -TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
***
3805652 ATACTCCAACCTTGG
65 ATACTCCAACCCCAG
* * * *
3805667 TTGTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCTCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
3805732 TACTCCAAC
66 TACTCCAAC
3805741 TCTATTTTTA
Statistics
Matches: 545, Mismatches: 72, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
77 1 0.00
78 148 0.27
79 388 0.71
80 8 0.01
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCCAACCCCAG
Found at i:3805516 original size:237 final size:236
Alignment explanation
Indices: 3805037--3805740 Score: 861
Period size: 237 Copynumber: 3.0 Consensus size: 236
3805027 TCATTGATGT
* * *
3805037 TTTTATTTCTACAACACCAATTTTCCACCATCGGGGATACTCCATCTCCGTTATTTCTGAGGGGA
1 TTTTATTTCTA-AACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
* * * * *
3805102 TACTCCAACCCCAGTTTT-TTTCTGAAATAC-GAATTTTCCACCATCGGGGATACTCCAACCCCA
65 TACTCCAACCCCAGTTTTATTTCTAAAACACTG-ATTTTCCACCATCAGGGATACTCCAACCTCG
** * *
3805165 TTA-TTTCTAAGGGGATACTCCAACCCCAGTTTT-TTTCT-GAA-ATACGGATTTTCCACCATCG
129 TTATTTTC-AAGGAAATACTCCAACCTCAGTTTTATTTCTAGAACAT-C-GATTTTTCACCATCG
*
3805226 GGGATACTCCAACCCCATTA-TTTCTAAGGGGATACTCCAACCCCAG
191 GGGATACTCCAACCTCATTATTTTC-AAGGGGATACTCCAACCCCAG
* * *
3805272 TTTTATTTCTGAAATACCGATTTTCCACCATCGGTGATACTCCAACCCCATTATTT-TCGAGGGG
1 TTTTATTTCT-AAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCT-GAGGGG
* *
3805336 ATACTCCAACCCCAGTTTTATTTCTAAAACACTGATTTTCCACTATCAGGGATACTCCAATCTCG
64 ATACTCCAACCCCAGTTTTATTTCTAAAACACTGATTTTCCACCATCAGGGATACTCCAACCTCG
* * * * *
3805401 TTATTTTCGAGGACATACTCCAACCTCATTTTTATTTCTAGAACATCGATTTTTTACCATCGAGG
129 TTATTTTCAAGGAAATACTCCAACCTCAGTTTTATTTCTAGAACATCGATTTTTCACCATCGGGG
* *
3805466 ATACTCCAACCTCATTATTTTCAAGGGGATAGTCCAACCTCAG
194 ATACTCCAACCTCATTATTTTCAAGGGGATACTCCAACCCCAG
* * * * *
3805509 TTTTATTTCTAAAACATCGATTTTTCATCATTGGGGATACTCCAACCCTGTTATTTCTGAGGGGA
1 TTTTATTTCT-AAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
* * * *
3805574 TACTCTAACCTC-GATTTTATTTCTAAAACACTGATTTTTCACCAT-TGAGGATACTCCAACCTC
65 TACTCCAACCCCAG-TTTTATTTCTAAAACACTGATTTTCCACCATCAG-GGATACTCCAACCTC
** ** * *
3805637 GTTATTTTTTAGGAAATACTCCAACCTTGGTTGTATTTCTAAAACATCGATTTTTCACCATCGGG
128 GTTATTTTCAAGGAAATACTCCAACCTCAGTTTTATTTCTAGAACATCGATTTTTCACCATCGGG
* *
3805702 GATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAAC
193 GATACTCCAACCTCATTATTTTCAAGGGGATACTCCAAC
3805741 TCTATTTTTA
Statistics
Matches: 405, Mismatches: 52, Indels: 22
0.85 0.11 0.05
Matches are distributed among these distances:
234 1 0.00
235 73 0.18
236 62 0.15
237 258 0.64
238 9 0.02
239 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (236 bp):
TTTTATTTCTAAACACCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGAT
ACTCCAACCCCAGTTTTATTTCTAAAACACTGATTTTCCACCATCAGGGATACTCCAACCTCGTT
ATTTTCAAGGAAATACTCCAACCTCAGTTTTATTTCTAGAACATCGATTTTTCACCATCGGGGAT
ACTCCAACCTCATTATTTTCAAGGGGATACTCCAACCCCAG
Found at i:3808299 original size:13 final size:13
Alignment explanation
Indices: 3808281--3808312 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
3808271 ATTGATACAT
3808281 GATACATTGTATC
1 GATACATTGTATC
3808294 GATACATTGTATC
1 GATACATTGTATC
3808307 GATACA
1 GATACA
3808313 AGTAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:3810486 original size:32 final size:33
Alignment explanation
Indices: 3810403--3810498 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 33
3810393 TCGAATTGTT
* *
3810403 TATCTTT-AAGGCTAAGGTATAACCT-TACACCCC
1 TATCTTTCAAGGCTAAGATAGAACCTCTACA--CC
3810436 TATCTTTTACAAAGGCTAAGATAGAACCTCTACA-C
1 TATC-TTT-C-AAGGCTAAGATAGAACCTCTACACC
3810471 TATCTTTCAAGGCTAAGATAGAACCTCT
1 TATCTTTCAAGGCTAAGATAGAACCTCT
3810499 CAATCACTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
32 20 0.36
33 5 0.09
34 6 0.11
35 5 0.09
37 16 0.29
38 4 0.07
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (33 bp):
TATCTTTCAAGGCTAAGATAGAACCTCTACACC
Found at i:3810997 original size:10 final size:10
Alignment explanation
Indices: 3810978--3811008 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3810968 GTATCGATAC
3810978 ATGAACAGTG
1 ATGAACAGTG
*
3810988 ATGAATAGTG
1 ATGAACAGTG
3810998 ATGAACAGTG
1 ATGAACAGTG
3811008 A
1 A
3811009 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:3813396 original size:23 final size:24
Alignment explanation
Indices: 3813351--3813397 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
3813341 CAAAGGATTG
* **
3813351 AACACAAATTCAATTTAGCACAAA
1 AACACAAATTCAATTGAAAACAAA
3813375 AACACAAA-TCAATTGAAAACAAA
1 AACACAAATTCAATTGAAAACAAA
3813398 TTTTCAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.60, C:0.19, G:0.04, T:0.17
Consensus pattern (24 bp):
AACACAAATTCAATTGAAAACAAA
Found at i:3814329 original size:21 final size:22
Alignment explanation
Indices: 3814271--3814331 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
3814261 ATTTTTATTA
3814271 GCTAACTCA-TCATTTTCATTTT
1 GCTAACTCATTCATTTTC-TTTT
*
3814293 GC-AACTCTTTTC-TTTTCTTTT
1 GCTAACTC-ATTCATTTTCTTTT
3814314 -CTAACTCATTCATTTTCT
1 GCTAACTCATTCATTTTCT
3814332 CCTATAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 4 0.12
21 20 0.61
22 7 0.21
23 2 0.06
ACGTcount: A:0.18, C:0.25, G:0.03, T:0.54
Consensus pattern (22 bp):
GCTAACTCATTCATTTTCTTTT
Found at i:3815989 original size:24 final size:24
Alignment explanation
Indices: 3815962--3816008 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
3815952 TCTTTCAAGA
3815962 CTAAGATAGAACCTCTCAATCACG
1 CTAAGATAGAACCTCTCAATCACG
3815986 CTAAGATAGAACCTCTCAATCAC
1 CTAAGATAGAACCTCTCAATCAC
3816009 TTGGAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.21
Consensus pattern (24 bp):
CTAAGATAGAACCTCTCAATCACG
Found at i:3823833 original size:16 final size:16
Alignment explanation
Indices: 3823814--3823873 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
3823804 ATTTAAAAAT
3823814 TTTTAAATTTAATTCA
1 TTTTAAATTTAATTCA
** *
3823830 TTTTGGATTAAGATT-A
1 TTTTAAATTTA-ATTCA
3823846 TTTTAAATTTTAA-TCA
1 TTTTAAA-TTTAATTCA
*
3823862 TTTTAATTTTAA
1 TTTTAAATTTAA
3823874 GTTATTTCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
15 6 0.18
16 22 0.65
17 6 0.18
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (16 bp):
TTTTAAATTTAATTCA
Found at i:3823880 original size:16 final size:17
Alignment explanation
Indices: 3823837--3823880 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
3823827 TCATTTTGGA
3823837 TTAAGATTATTTTAAATT
1 TTAAG-TTATTTTAAATT
*
3823855 TTAA-TCATTTT-AATT
1 TTAAGTTATTTTAAATT
3823870 TTAAGTTATTT
1 TTAAGTTATTT
3823881 CAAGTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.35
16 11 0.48
18 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (17 bp):
TTAAGTTATTTTAAATT
Found at i:3824474 original size:36 final size:31
Alignment explanation
Indices: 3824447--3824509 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 31
3824437 TAGTTATAAT
3824447 TTTAATTTATAAATTATAAATTAAATTAAATATA
1 TTTAA-TTAT-AATT-TAAATTAAATTAAATATA
*
3824481 TTTAATTATTATTTAAATTAAATTAAATA
1 TTTAATTATAATTTAAATTAAATTAAATA
3824510 AAAATCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 16 0.57
32 3 0.11
33 4 0.14
34 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
TTTAATTATAATTTAAATTAAATTAAATATA
Found at i:3824655 original size:2 final size:2
Alignment explanation
Indices: 3824648--3824689 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3824638 TTCCTTTGTT
3824648 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3824690 CTCATTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3827305 original size:13 final size:13
Alignment explanation
Indices: 3827289--3827322 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3827279 AATCCTCTTT
3827289 TTTATTTTATTAA
1 TTTATTTTATTAA
*
3827302 TTTAATTTATTAA
1 TTTATTTTATTAA
*
3827315 TTAATTTT
1 TTTATTTT
3827323 TAATGTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATTTTATTAA
Found at i:3827338 original size:26 final size:27
Alignment explanation
Indices: 3827309--3827370 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
3827299 TAATTTAATT
*
3827309 TATTAATTAATTTTTAATGTAA-ATAA
1 TATTAATTAATATTTAATGTAAGATAA
*
3827335 TATTTATTAATATTTAATGTAAGTATAA
1 TATTAATTAATATTTAATGTAAG-ATAA
*
3827363 TTTTAATT
1 TATTAATT
3827371 TTGAATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.67
28 10 0.33
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (27 bp):
TATTAATTAATATTTAATGTAAGATAA
Found at i:3827367 original size:43 final size:42
Alignment explanation
Indices: 3827320--3827428 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 42
3827310 ATTAATTAAT
* *
3827320 TTTTAATGTAAATA-ATATTTATTAATATTTAATGTAAGTATAA
1 TTTTAATGTAAATATATA-TTA-TAATATTTAATATAAATATAA
* * *
3827363 TTTTAATTTTGAATATATATTATATTATTTAATATAAATATAA
1 TTTTAA-TGTAAATATATATTATAATATTTAATATAAATATAA
*
3827406 TTTTAA--T-AATATATATTTTAATA
1 TTTTAATGTAAATATATATTATAATA
3827429 CAAATATAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 14 0.25
40 1 0.02
43 30 0.53
44 9 0.16
45 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (42 bp):
TTTTAATGTAAATATATATTATAATATTTAATATAAATATAA
Found at i:3827408 original size:16 final size:15
Alignment explanation
Indices: 3827384--3827442 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
3827374 AATATATATT
*
3827384 ATATTATTTAATATAA
1 ATATAATTTAATA-AA
*
3827400 ATATAATTTTAATAAT
1 ATATAA-TTTAATAAA
*
3827416 ATATATTTTAATACAA
1 ATATAATTTAATA-AA
3827432 ATATAATTTAA
1 ATATAATTTAA
3827443 AAATTTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 7 0.19
16 22 0.61
17 7 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATAATTTAATAAA
Found at i:3828756 original size:136 final size:136
Alignment explanation
Indices: 3828606--3828872 Score: 437
Period size: 136 Copynumber: 2.0 Consensus size: 136
3828596 AAAGAGAATA
* * *
3828606 AAATAATCTAATCTAGGTGTTGAGTTCCATTGCAATCTTAAAAAAATAAATTTAATTCATTTTTA
1 AAATAATCTAATCTAGGTGTTAAATTCCATTGCAATCTTAAAAAAATAAATTTAATTCAGTTTTA
*
3828671 TTAATTTAAAAATAAAACAAAAGAATTTCACTATCATAATCATTTCAAAAAATAAAAAAAGATTA
66 TTAATTTAAAAATAAAACAAAAAAATTTCACTATCATAATCATTTCAAAAAATAAAAAAAGATTA
3828736 AAAAAT
131 AAAAAT
** *
3828742 AAATAA-CTTAATCTAGGTGTTAAATTTTATTGCAATCTTAAAAAAATAAATTTAGTTCAGTTTT
1 AAATAATC-TAATCTAGGTGTTAAATTCCATTGCAATCTTAAAAAAATAAATTTAATTCAGTTTT
* *
3828806 ATTAATTTAAAAATAAAATAAAAAAATTTCACTATCATAATCATTTCAAGAAATAAAAAAAGATT
65 ATTAATTTAAAAATAAAACAAAAAAATTTCACTATCATAATCATTTCAAAAAATAAAAAAAGATT
3828871 AA
130 AA
3828873 GAGAAAAAAC
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
135 1 0.01
136 120 0.99
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.35
Consensus pattern (136 bp):
AAATAATCTAATCTAGGTGTTAAATTCCATTGCAATCTTAAAAAAATAAATTTAATTCAGTTTTA
TTAATTTAAAAATAAAACAAAAAAATTTCACTATCATAATCATTTCAAAAAATAAAAAAAGATTA
AAAAAT
Found at i:3829199 original size:22 final size:22
Alignment explanation
Indices: 3829174--3829221 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
3829164 AATTATTATA
**
3829174 TAATTTAATTATAAAAAAAAAT
1 TAATTTAAAAATAAAAAAAAAT
**
3829196 TAATTTAAAAATAAGTAAAAAT
1 TAATTTAAAAATAAAAAAAAAT
3829218 TAAT
1 TAAT
3829222 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TAATTTAAAAATAAAAAAAAAT
Done.