Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 140 of 190
Found at i:22794539 original size:20 final size:21
Alignment explanation
Indices: 22794514--22794561 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
22794504 ACTATTAATA
*
22794514 AAAAAATTC-AAAATTTTTTT
1 AAAAAATTCTAAAATATTTTT
22794534 AAAAAA-TCTAAAATATTTTT
1 AAAAAATTCTAAAATATTTTT
22794554 AAAAAATT
1 AAAAAATT
22794562 ATAAGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.88
21 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATTCTAAAATATTTTT
Found at i:22794741 original size:23 final size:25
Alignment explanation
Indices: 22794697--22794751 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
22794687 AAAATTTTAA
**
22794697 TAAAAATAAAAAATTC-TTAAAA-T
1 TAAAAATAAAAAATTCACAAAAACT
22794720 TAAAAA-AAAAAGATTCACAAAAACT
1 TAAAAATAAAAA-ATTCACAAAAACT
22794745 TAAAAAT
1 TAAAAAT
22794752 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 10 0.38
24 4 0.15
25 7 0.27
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (25 bp):
TAAAAATAAAAAATTCACAAAAACT
Found at i:22794927 original size:22 final size:21
Alignment explanation
Indices: 22794902--22794944 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
22794892 GAAAATTATA
*
22794902 AAAAATAAAAAATTCTAAAATT
1 AAAAATAAAAAAGT-TAAAATT
22794924 AAAAATAAAAAAGTTAAAATT
1 AAAAATAAAAAAGTTAAAATT
22794945 TTAATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAAATAAAAAAGTTAAAATT
Found at i:22795075 original size:10 final size:11
Alignment explanation
Indices: 22795025--22795075 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 11
22795015 AAAAAAAATG
22795025 AAAATTTTT-C
1 AAAATTTTTAC
*
22795035 ATAATTTTTAC
1 AAAATTTTTAC
*
22795046 AAAATTTTTTAT
1 AAAA-TTTTTAC
22795058 AAAA-TTTTA-
1 AAAATTTTTAC
22795067 AAAATTTTT
1 AAAATTTTT
22795076 TGGATTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
9 4 0.11
10 17 0.49
11 4 0.11
12 10 0.29
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (11 bp):
AAAATTTTTAC
Found at i:22795076 original size:21 final size:21
Alignment explanation
Indices: 22795025--22795076 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
22795015 AAAAAAAATG
* *
22795025 AAAATTTTTCATAATTTTTAC
1 AAAATTTTTTATAAATTTTAC
22795046 AAAATTTTTTATAAAATTTTA-
1 AAAATTTTTTAT-AAATTTTAC
22795067 AAAATTTTTT
1 AAAATTTTTT
22795077 GGATTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
AAAATTTTTTATAAATTTTAC
Found at i:22795160 original size:17 final size:17
Alignment explanation
Indices: 22795134--22795177 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
22795124 TTATGATTTT
*
22795134 TTTTAATTTTAAGAAAA
1 TTTTATTTTTAAGAAAA
**
22795151 TTTTATTTTTATTAAAA
1 TTTTATTTTTAAGAAAA
22795168 TTTTATTTTT
1 TTTTATTTTT
22795178 TTGAACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTATTTTTAAGAAAA
Found at i:22795165 original size:20 final size:18
Alignment explanation
Indices: 22795140--22795191 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 18
22795130 TTTTTTTTAA
22795140 TTTTAAGAAAATTTTATTT
1 TTTTAA-AAAATTTTATTT
22795159 TTATT--AAAATTTTATTT
1 TT-TTAAAAAATTTTATTT
22795176 TTTTGAACAAAATTTT
1 TTTT-AA-AAAATTTT
22795192 TTTGGATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.07
17 14 0.50
19 2 0.07
20 10 0.36
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (18 bp):
TTTTAAAAAATTTTATTT
Found at i:22796191 original size:21 final size:22
Alignment explanation
Indices: 22796153--22796205 Score: 90
Period size: 21 Copynumber: 2.4 Consensus size: 22
22796143 CTCGAAATTA
22796153 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
22796175 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
22796196 ATAAATATAT
1 ATAAA-ATAT
22796206 AAATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:22800072 original size:60 final size:59
Alignment explanation
Indices: 22800008--22800121 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
22799998 GGGTTTGGGG
* * *
22800008 TTTTGATTTT-AGAATTT-TAAGGATTTAGGGTTTTGATTTTAGGGTCTTTAGGGTTCAAGA
1 TTTTGATTTTAAG-ATTTGAAAGG-TTTAGGG-TTTAATTTTAAGGTCTTTAGGGTTCAAGA
* *
22800068 TTTTGATTTTAAGGTTTGAAAGGTTTAGGGTTTAATTTTAAGGTTTTTAGGGTT
1 TTTTGATTTTAAGATTTGAAAGGTTTAGGGTTTAATTTTAAGGTCTTTAGGGTT
22800122 TAGGGTTTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 21 0.45
60 20 0.43
61 6 0.13
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.50
Consensus pattern (59 bp):
TTTTGATTTTAAGATTTGAAAGGTTTAGGGTTTAATTTTAAGGTCTTTAGGGTTCAAGA
Found at i:22800077 original size:81 final size:82
Alignment explanation
Indices: 22799881--22800085 Score: 211
Period size: 82 Copynumber: 2.5 Consensus size: 82
22799871 TGTGTCCTAA
** * * *
22799881 ATTTAGGGTTTAAAAGGTTTAAGGTTTTGATTTTAGGATTTGGGGTTTAGGATTTTAGAGTTTTA
1 ATTTAGGGTTTGGAGGGTTTAAGGTTTTGATTTTAGGGTTTGGGGTTTAGGATTTTAGAATTTTA
*
22799946 GATTTATAGTTTGGAGT
66 GATTTAGAGTTTGGAGT
* ** *
22799963 ATTTAGGGTTTGGATGGTTTAAGGTTTCAATTTTAGGGTTTGGGGTTT-TGATTTTAGAATTTTA
1 ATTTAGGGTTTGGAGGGTTTAAGGTTTTGATTTTAGGGTTTGGGGTTTAGGATTTTAGAATTTT-
* *
22800027 AGGATTTAGGGTTTTGA-T
65 A-GATTTAGAGTTTGGAGT
* * * *
22800045 -TTTAGGGTCTT-TAGGGTTCAAGATTTTGATTTTAAGGTTTG
1 ATTTAGGGT-TTGGAGGGTTTAAGGTTTTGATTTTAGGGTTTG
22800086 AAAGGTTTAG
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
81 44 0.43
82 46 0.45
83 12 0.12
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.48
Consensus pattern (82 bp):
ATTTAGGGTTTGGAGGGTTTAAGGTTTTGATTTTAGGGTTTGGGGTTTAGGATTTTAGAATTTTA
GATTTAGAGTTTGGAGT
Found at i:22800121 original size:29 final size:29
Alignment explanation
Indices: 22799993--22800142 Score: 124
Period size: 30 Copynumber: 5.1 Consensus size: 29
22799983 AAGGTTTCAA
* *
22799993 TTTTAGGGTTTGGGGTTTTGATTTT-AGAAT
1 TTTTAGGGTTTAGGG-TTTGATTTTAAG-GT
* * *
22800023 TTTAAGGATTTAGGGTTTTGATTTTAGGGT
1 TTTTAGGGTTTAGGG-TTTGATTTTAAGGT
* * **
22800053 CTTTAGGGTTCAAGATTTTGATTTTAAGGT
1 TTTTAGGGTT-TAGGGTTTGATTTTAAGGT
** * *
22800083 TTGAAAGGTTTAGGGTTTAATTTTAAGGT
1 TTTTAGGGTTTAGGGTTTGATTTTAAGGT
22800112 TTTTAGGGTTTAGGGTTT-AGTTTTAAGGT
1 TTTTAGGGTTTAGGGTTTGA-TTTTAAGGT
22800141 TT
1 TT
22800143 ATTTTTTTTT
Statistics
Matches: 94, Mismatches: 23, Indels: 7
0.76 0.19 0.06
Matches are distributed among these distances:
28 1 0.01
29 41 0.44
30 49 0.52
31 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (29 bp):
TTTTAGGGTTTAGGGTTTGATTTTAAGGT
Found at i:22800555 original size:3 final size:3
Alignment explanation
Indices: 22800530--22800583 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
22800520 AAGTTTTGAA
* * * *
22800530 ATT ATT TTT ATT ATT GTT GTT ATT ATT ATT ATT ATT ATT ATT AATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
22800576 ATT ATT AT
1 ATT ATT AT
22800584 GAAACAACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:22802378 original size:23 final size:23
Alignment explanation
Indices: 22802348--22802395 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
22802338 TAAAGGCCTT
22802348 GAAAATTATACCCA-AAGTTCTTA
1 GAAAATTATACCCATAAG-TCTTA
*
22802371 GAAAATTATGCCCATAAGTCTTA
1 GAAAATTATACCCATAAGTCTTA
22802394 GA
1 GA
22802396 GATTGTGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (23 bp):
GAAAATTATACCCATAAGTCTTA
Found at i:22802442 original size:22 final size:21
Alignment explanation
Indices: 22802327--22802442 Score: 83
Period size: 22 Copynumber: 5.2 Consensus size: 21
22802317 ACCATAAGTC
* *
22802327 AAAATTATGCCTAAAGGCCTT
1 AAAATTATGCCCAAAGGTCTT
* *
22802348 GAAAATTATACCCAAAGTTCTT
1 -AAAATTATGCCCAAAGGTCTT
22802370 AGAAAATTATGCCCATAA-GTCTT
1 --AAAATTATGCCCA-AAGGTCTT
* * *
22802393 AGAGATTGTG-CCAGGAGGTCTT
1 A-AAATTATGCCCA-AAGGTCTT
22802415 GAAAATTATGCCCAAAGGTCTT
1 -AAAATTATGCCCAAAGGTCTT
22802437 ACAAAT
1 A-AAAT
22802443 CTTAGAAATC
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
21 6 0.08
22 45 0.61
23 21 0.28
24 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
AAAATTATGCCCAAAGGTCTT
Found at i:22802668 original size:22 final size:20
Alignment explanation
Indices: 22802639--22802709 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 20
22802629 ATCGTAAGTC
22802639 AAAATTATGTCTGGAGGTCTT
1 AAAATTATG-CTGGAGGTCTT
22802660 AGAAATTATGCTCGGAGGTCTT
1 A-AAATTATGCT-GGAGGTCTT
*
22802682 AAAGATTATGCCCGGAGGTCTT
1 AAA-ATTATG-CTGGAGGTCTT
22802704 ACAAAT
1 A-AAAT
22802710 CTTAAAATCT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
21 5 0.11
22 36 0.82
23 3 0.07
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (20 bp):
AAAATTATGCTGGAGGTCTT
Found at i:22803206 original size:6 final size:6
Alignment explanation
Indices: 22803195--22803233 Score: 51
Period size: 6 Copynumber: 6.0 Consensus size: 6
22803185 ATATTTTATA
22803195 CAAATG CAAATG CAAATG CAAGTGATG CAAATG CAAATG
1 CAAATG CAAATG CAAATG CAA---ATG CAAATG CAAATG
22803234 TCTTTCTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 24 0.80
9 6 0.20
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
CAAATG
Found at i:22804776 original size:25 final size:25
Alignment explanation
Indices: 22804735--22804797 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
22804725 GATAAAAGAG
22804735 ATCTTTTTATTTATTTTTATTT-TTT
1 ATCTTTTTATTTATTTTT-TTTGTTT
*
22804760 ATCTTTTTGCTTT-TTTTTTTTGTTT
1 ATCTTTTT-ATTTATTTTTTTTGTTT
22804785 -TCTTTCTT-TTTAT
1 ATCTTT-TTATTTAT
22804798 GCCCCATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
23 3 0.09
24 9 0.27
25 18 0.55
26 3 0.09
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (25 bp):
ATCTTTTTATTTATTTTTTTTGTTT
Found at i:22811522 original size:14 final size:14
Alignment explanation
Indices: 22811472--22811584 Score: 88
Period size: 14 Copynumber: 7.8 Consensus size: 14
22811462 GGATTTAGGG
22811472 TTTTAGGGTTTTAGA
1 TTTTAGGGTTTT-GA
* * *
22811487 -TTTACGATTTGGA
1 TTTTAGGGTTTTGA
22811500 GTATTTAGGGTTTTGA
1 -T-TTTAGGGTTTTGA
22811516 TTTTAGGG-TTTGAA
1 TTTTAGGGTTTTG-A
* *
22811530 GGGTTTAGTGTTTTGA
1 --TTTTAGGGTTTTGA
22811546 TTTTAGGG-TTTGA
1 TTTTAGGGTTTTGA
*
22811559 GGTTTAGGGTTTTGA
1 -TTTTAGGGTTTTGA
22811574 TTTTAGGGTTT
1 TTTTAGGGTTT
22811585 GAAGGGTTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
13 11 0.14
14 39 0.51
15 6 0.08
16 17 0.22
17 4 0.05
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.51
Consensus pattern (14 bp):
TTTTAGGGTTTTGA
Found at i:22811537 original size:30 final size:30
Alignment explanation
Indices: 22811421--22811600 Score: 177
Period size: 30 Copynumber: 5.9 Consensus size: 30
22811411 GTGTGCTAAA
* * * *
22811421 TTTAAGGTTTAAAAGGTTTAGGATTTTGAT
1 TTTAGGGTTTGAAGGGTTTAGGGTTTTGAT
*
22811451 TTTAGGATTTGGGATTTAGGGTTTTAGGGTTTTAGA-
1 TTTAGGGTTT--GA---AGGG-TTTAGGGTTTT-GAT
* * * **
22811487 TTTACGATTTGGAGTATTTAGGGTTTTGAT
1 TTTAGGGTTTGAAGGGTTTAGGGTTTTGAT
*
22811517 TTTAGGGTTTGAAGGGTTTAGTGTTTTGAT
1 TTTAGGGTTTGAAGGGTTTAGGGTTTTGAT
22811547 TTTAGGGTTTG-A-GGTTTAGGGTTTTGAT
1 TTTAGGGTTTGAAGGGTTTAGGGTTTTGAT
22811575 TTTAGGGTTTGAAGGGTTTAGGGTTT
1 TTTAGGGTTTGAAGGGTTTAGGGTTT
22811601 GGAAGGTTTA
Statistics
Matches: 124, Mismatches: 16, Indels: 20
0.77 0.10 0.12
Matches are distributed among these distances:
28 26 0.21
29 4 0.03
30 66 0.53
31 2 0.02
32 1 0.01
34 1 0.01
35 3 0.02
36 19 0.15
37 2 0.02
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (30 bp):
TTTAGGGTTTGAAGGGTTTAGGGTTTTGAT
Found at i:22811569 original size:7 final size:7
Alignment explanation
Indices: 22811503--22811629 Score: 60
Period size: 7 Copynumber: 17.4 Consensus size: 7
22811493 ATTTGGAGTA
22811503 TTTAGGG
1 TTTAGGG
* **
22811510 TTTTGAT
1 TTTAGGG
22811517 TTTAGGG
1 TTTAGGG
22811524 TTTGAAGGG
1 TTT--AGGG
*
22811533 TTTAGTG
1 TTTAGGG
* **
22811540 TTTTGAT
1 TTTAGGG
22811547 TTTAGGG
1 TTTAGGG
22811554 TTT-GAGG
1 TTTAG-GG
22811561 TTTAGGG
1 TTTAGGG
* **
22811568 TTTTGAT
1 TTTAGGG
22811575 TTTAGGG
1 TTTAGGG
22811582 TTTGAAGGG
1 TTT--AGGG
22811591 TTTAGGG
1 TTTAGGG
*
22811598 TTTGGAAGG
1 TTT--AGGG
*
22811607 TTTAAGG
1 TTTAGGG
*
22811614 TTTA-GT
1 TTTAGGG
22811620 TTTAGGG
1 TTTAGGG
22811627 TTT
1 TTT
22811630 GGAAAGTTTA
Statistics
Matches: 89, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
6 6 0.07
7 62 0.70
8 1 0.01
9 20 0.22
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:22811596 original size:16 final size:14
Alignment explanation
Indices: 22811503--22811688 Score: 96
Period size: 16 Copynumber: 12.7 Consensus size: 14
22811493 ATTTGGAGTA
*
22811503 TTTAGGGTTTTGA-T
1 TTTAGGG-TTTGAGG
22811517 TTTAGGGTTTGAAGGG
1 TTTAGGGTTTG-A-GG
* *
22811533 TTTAGTGTTTTGA-T
1 TTTAG-GGTTTGAGG
22811547 TTTAGGGTTTGAGG
1 TTTAGGGTTTGAGG
*
22811561 TTTAGGGTTTTGA-T
1 TTTAGGG-TTTGAGG
22811575 TTTAGGGTTTGAAGGG
1 TTTAGGGTTTG-A-GG
22811591 TTTAGGGTTTGGAAGG
1 TTTAGGGTTT-G-AGG
* *
22811607 TTTAAGGTTT-AGT
1 TTTAGGGTTTGAGG
*
22811620 TTTAGGGTTTGGAAAG
1 TTTAGGGTTT-G-AGG
* *
22811636 TTTAGGTTTTTGA-T
1 TTTAGG-GTTTGAGG
*
22811650 TTTAGGTTTTGGAAGG
1 TTTAGGGTTT-G-AGG
* *
22811666 TTTAGGATTT-AGT
1 TTTAGGGTTTGAGG
22811679 TTTAGGGTTT
1 TTTAGGGTTT
22811689 AGTGGACTTA
Statistics
Matches: 137, Mismatches: 18, Indels: 35
0.72 0.09 0.18
Matches are distributed among these distances:
13 40 0.29
14 35 0.26
15 7 0.05
16 44 0.32
17 11 0.08
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTGAGG
Found at i:22811624 original size:29 final size:29
Alignment explanation
Indices: 22811591--22811688 Score: 135
Period size: 29 Copynumber: 3.3 Consensus size: 29
22811581 GTTTGAAGGG
22811591 TTTAGGGTTTGGAAGGTTTAAGG-TTTAGT
1 TTTAGGGTTTGGAAGGTTT-AGGATTTAGT
* * *
22811620 TTTAGGGTTTGGAAAGTTTAGGTTTTTGAT
1 TTTAGGGTTTGGAAGGTTTAGGATTTAG-T
*
22811650 TTTAGGTTTTGGAAGGTTTAGGATTTAGT
1 TTTAGGGTTTGGAAGGTTTAGGATTTAGT
22811679 TTTAGGGTTT
1 TTTAGGGTTT
22811689 AGTGGACTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
28 3 0.05
29 32 0.53
30 25 0.42
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (29 bp):
TTTAGGGTTTGGAAGGTTTAGGATTTAGT
Found at i:22811639 original size:45 final size:44
Alignment explanation
Indices: 22811547--22811641 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 44
22811537 GTGTTTTGAT
* * *
22811547 TTTAGGGTTTGAGGTTTAGGGTTTTGATTTTAGGGTTTGAAGGG
1 TTTAGGGTTTGAGGTTTAAGGTTTAGATTTTAGGGTTTGAAGAG
22811591 TTTAGGGTTTGGAAGGTTTAAGGTTTAG-TTTTAGGGTTTGGAA-AG
1 TTTAGGGTTT-G-AGGTTTAAGGTTTAGATTTTAGGGTTT-GAAGAG
22811636 TTTAGG
1 TTTAGG
22811642 TTTTTGATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
44 10 0.22
45 19 0.42
46 16 0.36
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (44 bp):
TTTAGGGTTTGAGGTTTAAGGTTTAGATTTTAGGGTTTGAAGAG
Found at i:22811653 original size:75 final size:74
Alignment explanation
Indices: 22811517--22811671 Score: 201
Period size: 75 Copynumber: 2.1 Consensus size: 74
22811507 GGGTTTTGAT
* *
22811517 TTTAGGGTTTGAAGGGTTTAGTGTTTTGATTTTAGGGTTTGAGGTTTAGGGTTTTGATTTTAGGG
1 TTTAGGGTTTGAAGGGTTTAGTGTTTAGATTTTAGGGTTTGAAGTTTAGGGTTTTGATTTTAGGG
22811582 TTT-GAAGGG
66 TTTGGAA-GG
*
22811591 TTTAGGGTTTGGAA-GGTTTAAG-GTTTAG-TTTTAGGGTTTGGAAAGTTTAGGTTTTTGATTTT
1 TTTAGGGTTT-GAAGGGTTT-AGTGTTTAGATTTTAGGGTTT-G-AAGTTTAGGGTTTTGATTTT
*
22811653 AGGTTTTGGAAGG
62 AGGGTTTGGAAGG
22811666 TTTAGG
1 TTTAGG
22811672 ATTTAGTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
73 11 0.15
74 21 0.29
75 37 0.51
76 3 0.04
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (74 bp):
TTTAGGGTTTGAAGGGTTTAGTGTTTAGATTTTAGGGTTTGAAGTTTAGGGTTTTGATTTTAGGG
TTTGGAAGG
Found at i:22812187 original size:3 final size:3
Alignment explanation
Indices: 22812181--22812225 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
22812171 ATTGTTGTTC
* *
22812181 TTA TTA TTA TTA TTA TTA TTAA TCA TTA TTA TTGA TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TT-A TTA TTA TTA T
22812226 GAAACAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 32 0.89
4 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:22812210 original size:13 final size:12
Alignment explanation
Indices: 22812181--22812225 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 12
22812171 ATTGTTGTTC
*
22812181 TTATTATTATTA
1 TTATTATTATCA
22812193 TTATTATTAATCA
1 TTATTATT-ATCA
22812206 TTATTATTGATCA
1 TTATTATT-ATCA
22812219 TTATTAT
1 TTATTAT
22812226 GAAACAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 8 0.27
13 22 0.73
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATTATTATCA
Found at i:22812225 original size:16 final size:16
Alignment explanation
Indices: 22812181--22812213 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22812171 ATTGTTGTTC
22812181 TTATT-ATTATTATTA
1 TTATTAATTATTATTA
*
22812196 TTATTAATCATTATTA
1 TTATTAATTATTATTA
22812212 TT
1 TT
22812214 GATCATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTAATTATTATTA
Found at i:22813178 original size:5 final size:6
Alignment explanation
Indices: 22813167--22813242 Score: 106
Period size: 6 Copynumber: 13.2 Consensus size: 6
22813157 AAGAAAATCA
*
22813167 AAAAAT -AAAAT -AAAAT -AAAAT AAAAAT AAAGAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
22813212 AAAAAT AAAAAT AAAAAT -AAAAT AAGAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT A
22813243 CTAAATAATT
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
5 20 0.31
6 40 0.62
7 5 0.08
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:22813203 original size:12 final size:11
Alignment explanation
Indices: 22813167--22813327 Score: 110
Period size: 12 Copynumber: 13.7 Consensus size: 11
22813157 AAGAAAATCA
22813167 AAAAATAAAAT
1 AAAAATAAAAT
22813178 -AAAATAAAAT
1 AAAAATAAAAT
22813188 AAAAATAAAGAT
1 AAAAATAAA-AT
22813200 AAAAATAAAAAT
1 AAAAAT-AAAAT
22813212 AAAAATAAAAAT
1 AAAAAT-AAAAT
22813224 AAAAATAAAAT
1 AAAAATAAAAT
22813235 AAGAAATACTAAAT
1 AA-AAATA--AAAT
*** **
22813249 AATTCTAATCT
1 AAAAATAAAAT
22813260 AATAAAT-AAAT
1 AA-AAATAAAAT
* *
22813271 AATAATAATACT
1 AAAAATAA-AAT
*
22813283 AATAATAATAAT
1 AAAAATAA-AAT
* *
22813295 AATAATAAAAG
1 AAAAATAAAAT
22813306 AAATAATAATAAT
1 AAA-AATAA-AAT
22813319 AATAAATAA
1 AA-AAATAA
22813328 GAAAAAAAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
10 13 0.11
11 28 0.23
12 60 0.49
13 14 0.11
14 7 0.06
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:22813276 original size:3 final size:3
Alignment explanation
Indices: 22813268--22813323 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
22813258 CTAATAAATA
* *
22813268 AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT AA- AAGA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
22813313 AAT AAT AAT AA
1 AAT AAT AAT AA
22813324 ATAAGAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.92
4 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:22813285 original size:9 final size:9
Alignment explanation
Indices: 22813170--22813323 Score: 88
Period size: 9 Copynumber: 17.2 Consensus size: 9
22813160 AAAATCAAAA
22813170 AATAA-AAT
1 AATAATAAT
22813178 AA-AATAA-
1 AATAATAAT
*
22813185 AATAAAAAT
1 AATAATAAT
*
22813194 AA-AGATAAA
1 AATA-ATAAT
*
22813203 AATAAAAAT
1 AATAATAAT
* *
22813212 AAAAATAAA
1 AATAATAAT
*
22813221 AATAAAAAT
1 AATAATAAT
*
22813230 AA-AATAAGA
1 AATAATAA-T
*
22813239 AATACTAAAT
1 AATAAT-AAT
**
22813249 AATTCTAAT
1 AATAATAAT
*
22813258 -CTAATAAAT
1 AATAAT-AAT
22813267 AAATAATAAT
1 -AATAATAAT
*
22813277 AATACTAAT
1 AATAATAAT
22813286 AATAATAAT
1 AATAATAAT
22813295 AATAATAA-
1 AATAATAAT
*
22813303 AAGAAATAAT
1 AA-TAATAAT
22813313 AATAATAAT
1 AATAATAAT
22813322 AA
1 AA
22813324 ATAAGAAAAA
Statistics
Matches: 109, Mismatches: 24, Indels: 25
0.69 0.15 0.16
Matches are distributed among these distances:
7 4 0.04
8 17 0.16
9 69 0.63
10 13 0.12
11 6 0.06
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.25
Consensus pattern (9 bp):
AATAATAAT
Found at i:22813323 original size:21 final size:20
Alignment explanation
Indices: 22813166--22813324 Score: 93
Period size: 21 Copynumber: 8.1 Consensus size: 20
22813156 AAAGAAAATC
22813166 AAAAAATAA-AATAA-AATA
1 AAAAAATAATAATAATAATA
*
22813184 AAATAAA-AATAA-AGATAAAA
1 AAA-AAATAATAATA-ATAATA
* *
22813204 ATAAAAATAAAAATAAAAATA
1 A-AAAAATAATAATAATAATA
* *
22813225 AAAATAA-AATAAGAAATACT-
1 AAAA-AATAATAA-TAATAATA
* ** *
22813245 AAATAATTCTAAT-CTAATA
1 AAAAAATAATAATAATAATA
* *
22813264 AATAAATAATAATAATACT-
1 AAAAAATAATAATAATAATA
*
22813283 -AATAATAATAATAATAATA
1 AAAAAATAATAATAATAATA
22813302 AAAGAAATAATAATAATAATA
1 AAA-AAATAATAATAATAATA
22813323 AA
1 AA
22813325 TAAGAAAAAA
Statistics
Matches: 102, Mismatches: 24, Indels: 27
0.67 0.16 0.18
Matches are distributed among these distances:
18 24 0.24
19 17 0.17
20 25 0.25
21 35 0.34
22 1 0.01
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAATAATAATAATAATA
Found at i:22813605 original size:15 final size:15
Alignment explanation
Indices: 22813585--22813619 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
22813575 GATGCGCCTT
22813585 CCCCTTCTTTCTCTG
1 CCCCTTCTTTCTCTG
22813600 CCCCTTCTTTCTCTG
1 CCCCTTCTTTCTCTG
22813615 CCCCT
1 CCCCT
22813620 CAGCTTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.51, G:0.06, T:0.43
Consensus pattern (15 bp):
CCCCTTCTTTCTCTG
Found at i:22813628 original size:17 final size:15
Alignment explanation
Indices: 22813585--22813629 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
22813575 GATGCGCCTT
*
22813585 CCCCTTCTTTCTCTG
1 CCCCTGCTTTCTCTG
*
22813600 CCCCTTCTTTCTCTG
1 CCCCTGCTTTCTCTG
22813615 CCCCTCAGCTTTCTC
1 CCCCT--GCTTTCTC
22813630 CTCCTTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 20 0.74
17 7 0.26
ACGTcount: A:0.02, C:0.49, G:0.07, T:0.42
Consensus pattern (15 bp):
CCCCTGCTTTCTCTG
Found at i:22820024 original size:17 final size:16
Alignment explanation
Indices: 22819999--22820061 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
22819989 TATTTAAAGA
22819999 AAATCAAAAAATAAAAT
1 AAAT-AAAAAATAAAAT
*
22820016 CAAATAAAACA-AAAAT
1 -AAATAAAAAATAAAAT
*
22820032 AAAGATAAAAATAAAAT
1 AAATA-AAAAATAAAAT
22820049 AAAATAAAAAATA
1 -AAATAAAAAATA
22820062 CTAAATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 4 0.11
16 9 0.24
17 17 0.45
18 8 0.21
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.16
Consensus pattern (16 bp):
AAATAAAAAATAAAAT
Found at i:22820058 original size:6 final size:5
Alignment explanation
Indices: 22820006--22820057 Score: 59
Period size: 5 Copynumber: 9.8 Consensus size: 5
22819996 AGAAAATCAA
* *
22820006 AAAAT AAAAT CAAAT AAAACA AAAAT AAAGAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT AAA-AT -AAAAT AAAAT AAAAT
22820054 AAAA
1 AAAA
22820058 AATACTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 29 0.73
6 8 0.20
7 3 0.08
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:22820094 original size:3 final size:3
Alignment explanation
Indices: 22820086--22820158 Score: 105
Period size: 3 Copynumber: 24.7 Consensus size: 3
22820076 TTAATCAATA
*
22820086 AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
22820134 AA- AAG AA- ATAT AAT AAT AAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT AA
22820159 ATAAGAAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 3 0.05
3 61 0.94
4 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:22820102 original size:9 final size:9
Alignment explanation
Indices: 22820058--22820131 Score: 66
Period size: 9 Copynumber: 8.4 Consensus size: 9
22820048 TAAAATAAAA
22820058 AATACTAAAT
1 AATACT-AAT
*
22820068 AATTCTAATT
1 AATACTAA-T
22820078 AAT-C-AAT
1 AATACTAAT
22820085 AA-A-TAAT
1 AATACTAAT
22820092 AATACTAAT
1 AATACTAAT
*
22820101 AATAATAAT
1 AATACTAAT
*
22820110 AATAATAAT
1 AATACTAAT
*
22820119 AATAATAAT
1 AATACTAAT
22820128 AATA
1 AATA
22820132 ATAAAAGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
7 8 0.14
8 3 0.05
9 37 0.65
10 9 0.16
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (9 bp):
AATACTAAT
Found at i:22823221 original size:20 final size:19
Alignment explanation
Indices: 22823196--22823255 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
22823186 TAAATTATAT
22823196 ACATATTCAAAATATAATAA
1 ACATA-TCAAAATATAATAA
*
22823216 ACATATAAATAATATAATTAA
1 ACATATCAA-AATATAA-TAA
22823237 A-ATATC-AAATCATAATAA
1 ACATATCAAAAT-ATAATAA
22823255 A
1 A
22823256 AATAATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 16 0.46
21 4 0.11
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (19 bp):
ACATATCAAAATATAATAA
Found at i:22831299 original size:22 final size:22
Alignment explanation
Indices: 22831273--22831316 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22831263 TAAAAAAGAA
22831273 AGAAAAATATTTCCTTCAACTT
1 AGAAAAATATTTCCTTCAACTT
22831295 AGAAAAATATTTCCTTCAACTT
1 AGAAAAATATTTCCTTCAACTT
22831317 GCTTGCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (22 bp):
AGAAAAATATTTCCTTCAACTT
Found at i:22831779 original size:22 final size:22
Alignment explanation
Indices: 22831753--22831812 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
22831743 TTAACTAACC
* *
22831753 TTTCATCCATTAACGGCCCAAA
1 TTTCAGCCATTAACGGCCAAAA
* *
22831775 TTTCAGCCATTGATGGCCAAAA
1 TTTCAGCCATTAACGGCCAAAA
* *
22831797 TTTCAGTCATTGACGG
1 TTTCAGCCATTAACGG
22831813 AGACACTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (22 bp):
TTTCAGCCATTAACGGCCAAAA
Found at i:22833569 original size:27 final size:27
Alignment explanation
Indices: 22833533--22833586 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
22833523 AATTTTTTTA
*
22833533 ATTATTTATTTAATTTTATATTTATAT
1 ATTATATATTTAATTTTATATTTATAT
22833560 ATTATATATTTAATTTTATATTTATAT
1 ATTATATATTTAATTTTATATTTATAT
22833587 TAAAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTATATATTTAATTTTATATTTATAT
Found at i:22833585 original size:20 final size:19
Alignment explanation
Indices: 22833528--22833587 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 19
22833518 TATAAAATTT
22833528 TTTTAATTATT-TATTTA-A
1 TTTTAATT-TTATATTTATA
22833546 TTTT-ATATTTATATATTATA
1 TTTTAAT-TTTATAT-TTATA
22833566 TATTTAATTTTATATTTATA
1 T-TTTAATTTTATATTTATA
22833586 TT
1 TT
22833588 AAAAAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.11
18 8 0.22
19 4 0.11
20 8 0.22
21 10 0.28
22 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTATATTTATA
Found at i:22834923 original size:16 final size:15
Alignment explanation
Indices: 22834904--22834933 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
22834894 TTTTTTCTCA
22834904 AAAATATTTTTTTTTG
1 AAAAT-TTTTTTTTTG
22834920 AAAATTTTTTTTTT
1 AAAATTTTTTTTTT
22834934 CAAGGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
AAAATTTTTTTTTTG
Found at i:22835013 original size:122 final size:120
Alignment explanation
Indices: 22834749--22835057 Score: 363
Period size: 122 Copynumber: 2.5 Consensus size: 120
22834739 TGCTTTTATA
* *
22834749 TAAGAAAAATTGATACTTTCAATTTTTT-TTAAAAAATCTTTTTTTGAAATTGTTATTTTTTATT
1 TAAG-AAAATTGATACTTTCAATTTTTTCTTAAAAAATATTTTTTTGAAA--ATT-TTTTTTATT
* * *
22834813 TAAAAAAAATTGATATTTTCAACTTTTTTTCAAAAATACTTTTTTAAAAATTTTATTTT
62 CAAAAAAAATTGACATTTTCAACTTTTTTTCAAAAATACTTTTTTAAAAATTTTATTTC
* * *
22834872 TAAAGAAAATTAATACTTTCAATTTTTTCTCAAAAATATTTTTTTTTGAAAATTTTTTTT-TTCA
1 T-AAGAAAATTGATACTTTCAATTTTTTCTTAAAAA-ATATTTTTTTGAAAATTTTTTTTATTCA
** * *
22834936 AGGAAAATTGACATTTTCAACTTTTTCTT-AAAAATATTTTTTTTGAAAATTTTATTTC
64 AAAAAAATTGACATTTTCAACTTTTT-TTCAAAAATA-CTTTTTTAAAAATTTTATTTC
* * *
22834994 TAAGTAAAATTGATACTTTCAACTTTTTCTTAAAAAATATATTTTTAAAAATTTTATTATTATT
1 TAAG-AAAATTGATACTTTCAATTTTTTCTTAAAAAATATTTTTTTGAAAATTTT-TT-TTATT
22835058 ATTTTTTAAA
Statistics
Matches: 160, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
121 52 0.32
122 57 0.36
123 27 0.17
124 11 0.07
125 13 0.08
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (120 bp):
TAAGAAAATTGATACTTTCAATTTTTTCTTAAAAAATATTTTTTTGAAAATTTTTTTTATTCAAA
AAAAATTGACATTTTCAACTTTTTTTCAAAAATACTTTTTTAAAAATTTTATTTC
Found at i:22835014 original size:60 final size:60
Alignment explanation
Indices: 22834754--22835051 Score: 295
Period size: 60 Copynumber: 4.9 Consensus size: 60
22834744 TTATATAAGA
* *
22834754 AAAATTGATACTTTCAA-TTTTTTTTAAAAA-ATCTTTTTTT-GAAATTGTTATTTTTTATTTAA
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATAT-TTTTTTTAAAAATT-TTA----TT-TTTAA
*
22834816 AA
59 AG
* *
22834818 AAAATTGATATTTTCAACTTTTT-TTCAAAAATA-CTTTTTTAAAAATTTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTTCTT-AAAAATATTTTTTTTAAAAATTTTATTTTTAAAG
* * * * * *
22834877 AAAATTAATACTTTCAATTTTTTCTCAAAAATATTTTTTTTTGAAAATTTTTTTTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATA-TTTTTTTTAAAAATTTTATTTTT-AAAG
* * * *
22834939 AAAATTGACATTTTCAACTTTTTCTTAAAAATATTTTTTTTGAAAATTTTATTTCT-AAG
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAAAAATTTTATTTTTAAAG
*
22834998 TAAAATTGATACTTTCAACTTTTTCTTAAAAA-ATATATTTTTAAAAATTTTATT
1 -AAAATTGATACTTTCAACTTTTTCTTAAAAATAT-TTTTTTTAAAAATTTTATT
22835052 ATTATTATTT
Statistics
Matches: 200, Mismatches: 24, Indels: 24
0.81 0.10 0.10
Matches are distributed among these distances:
59 37 0.19
60 49 0.25
61 40 0.20
62 31 0.16
64 27 0.14
65 15 0.08
66 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAAAAATTTTATTTTTAAAG
Found at i:22835032 original size:61 final size:60
Alignment explanation
Indices: 22834754--22835051 Score: 293
Period size: 61 Copynumber: 4.9 Consensus size: 60
22834744 TTATATAAGA
* * * *
22834754 AAAATTGATACTTTCAA-TTTTTTTTAAAAAATCTTTTTTT-GAAATTGTTATTTTTTATTTAAA
1 AAAATTGATACTTTCAACTTTTTCTTCAAAAATATTTTTTTAAAAATT-TTA----TT-TTTAAA
*
22834817 A
60 G
* *
22834818 AAAATTGATATTTTCAACTTTTT-TTCAAAAATACTTTTTTAAAAATTTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTTCTTCAAAAATATTTTTTTAAAAATTTTATTTTTAAAG
* * * * *
22834877 AAAATTAATACTTTCAATTTTTTC-TCAAAAATATTTTTTTTTGAAAATTTTTTTTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCTTCAAAAATA--TTTTTTTAAAAATTTTATTTTT-AAAG
* * * *
22834939 AAAATTGACATTTTCAACTTTTTCTT-AAAAATATTTTTTTTGAAAATTTTATTTCT-AAG
1 AAAATTGATACTTTCAACTTTTTCTTCAAAAATA-TTTTTTTAAAAATTTTATTTTTAAAG
* *
22834998 TAAAATTGATACTTTCAACTTTTTCTTAAAAAATATATTTTTAAAAATTTTATT
1 -AAAATTGATACTTTCAACTTTTTCTTCAAAAATATTTTTTTAAAAATTTTATT
22835052 ATTATTATTT
Statistics
Matches: 201, Mismatches: 24, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
59 37 0.18
60 43 0.21
61 47 0.23
62 30 0.15
63 1 0.00
64 33 0.16
65 10 0.05
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTTCTTCAAAAATATTTTTTTAAAAATTTTATTTTTAAAG
Found at i:22835087 original size:84 final size:85
Alignment explanation
Indices: 22834970--22835136 Score: 241
Period size: 84 Copynumber: 2.0 Consensus size: 85
22834960 TTCTTAAAAA
* * *
22834970 TATTTTTTTTGAAAATTTTATTTCTAAGTAAAATTGATACTTTCAACTTTTTCTTAAAAAATA-T
1 TATTTTTTTTAAAAATTTTATTTCTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAATATT
22835034 ATTTTTAAAAATTTTATTAT
66 ATTTTTAAAAATTTTATTAT
*
22835054 TATTATTTTTTAAAAA-TTTATTT-TCAAGAAAAATTGATACTTTCAACTTTTTCTCAACAAATA
1 TATT-TTTTTTAAAAATTTTATTTCT-AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAATA
* *
22835117 TTTTTTTTGAAAATTTTATT
64 TTATTTTTAAAAATTTTATT
22835137 TTAAGAGAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
83 1 0.01
84 46 0.62
85 27 0.36
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.53
Consensus pattern (85 bp):
TATTTTTTTTAAAAATTTTATTTCTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAATATT
ATTTTTAAAAATTTTATTAT
Found at i:22835809 original size:21 final size:22
Alignment explanation
Indices: 22835783--22835832 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
22835773 ACCTTTTACT
*
22835783 AAAAAAATCTT-G-AAAATTTCC
1 AAAAAAA-CTTAGAAAAATCTCC
22835804 -AAAAAACTTAGAAAAATCTCC
1 AAAAAAACTTAGAAAAATCTCC
22835825 AAAAAAAC
1 AAAAAAAC
22835833 AATTAATGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 7 0.28
21 8 0.32
22 7 0.28
ACGTcount: A:0.60, C:0.16, G:0.04, T:0.20
Consensus pattern (22 bp):
AAAAAAACTTAGAAAAATCTCC
Found at i:22835810 original size:85 final size:85
Alignment explanation
Indices: 22835710--22835880 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
22835700 AAATTTTCAA
*
22835710 AAAATTTCCAAAAAACTTAGAAAAATCTCCAATAAAACAATTAATGCCATGAATTCCCAAAGAAC
1 AAAATTTCCAAAAAACTTAGAAAAATCTCCAAAAAAACAATTAATGCCATGAATTCCCAAAGAAC
* *
22835775 CTTTTACTAAAAAAATCTTG
66 CTTTAACCAAAAAAATCTTG
*
22835795 AAAATTTCCAAAAAACTTAGAAAAATCTCCAAAAAAACAATTAATGCCATGAATTCCCAAGGAAC
1 AAAATTTCCAAAAAACTTAGAAAAATCTCCAAAAAAACAATTAATGCCATGAATTCCCAAAGAAC
22835860 CTTTAACCAAAAAAATCTTG
66 CTTTAACCAAAAAAATCTTG
22835880 A
1 A
22835881 TTATGATTCT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.24
Consensus pattern (85 bp):
AAAATTTCCAAAAAACTTAGAAAAATCTCCAAAAAAACAATTAATGCCATGAATTCCCAAAGAAC
CTTTAACCAAAAAAATCTTG
Found at i:22836644 original size:86 final size:86
Alignment explanation
Indices: 22836480--22836902 Score: 225
Period size: 86 Copynumber: 5.1 Consensus size: 86
22836470 AGTATGAAAC
* *
22836480 GAATAATCTAGGCTAAACCAAAGAAGGATCTGACATAGGTCAAAATCCATAACAAAATGACCTAG
1 GAATAATCTAGGCTAAACCAAAGAAGGATCTGACATAGGCCAAAATCCAAAACAAAATGACCTAG
22836545 ACTGAACCTGAAGTCTAGAAT
66 ACTGAACCTGAAGTCTAGAAT
* * *
22836566 GAATAATCT-GGACTAAACCAAATAAGGATCT-AGCATAGGCCAAAATCCAAAAACAAGATGACT
1 GAATAATCTAGG-CTAAACCAAAGAAGGATCTGA-CATAGGCCAAAATCC-AAAACAAAATGACC
*
22836629 TAGA-TGAA-ATCGAAGTCTA-AA-
63 TAGACTGAACCT-GAAGTCTAGAAT
* ** * * *
22836650 G--TGAA---A-G-----CCAAAGAAAGATCTGATGTAAGTCAAAATTCGAAAACAAAATGACCT
1 GAAT-AATCTAGGCTAAACCAAAGAAGGATCTGACATAGGCCAAAA-TCCAAAACAAAATGACCT
* * *
22836704 GGATTGAACCT-AAGTCT-GAAAC
64 AGACTGAACCTGAAGTCTAG-AAT
* * * * * * *** *
22836726 GAGT-A-CTTGGACTAAGTCGAAA-AAAGATTTGACATAAATCAAAATCTAAAAACAAAATGACC
1 GAATAATCTAGG-CTAA-ACCAAAGAAGGATCTGACATAGGCCAAAATC-CAAAACAAAATGACC
**
22836788 TAGA-TGAAATTGAAGTCT-GAAAT
63 TAGACTGAACCTGAAGTCTAG-AAT
* ** * * *
22836811 GAATAAT-TTGGACTAAGTCAAAGGAGGATCTGACATAAGTCAAAATCCAAAAACAAAATGACCT
1 GAATAATCTAGG-CTAAACCAAAGAAGGATCTGACATAGGCCAAAATCC-AAAACAAAATGACCT
*
22836875 AGATTGAACC-GAAGTCT-GAAAT
64 AGACTGAACCTGAAGTCTAG-AAT
22836897 GAATAA
1 GAATAA
22836903 CTTAGACTAG
Statistics
Matches: 266, Mismatches: 39, Indels: 64
0.72 0.11 0.17
Matches are distributed among these distances:
74 41 0.15
75 9 0.03
76 3 0.01
78 1 0.00
79 1 0.00
80 1 0.00
82 1 0.00
83 2 0.01
84 8 0.03
85 57 0.21
86 123 0.46
87 19 0.07
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (86 bp):
GAATAATCTAGGCTAAACCAAAGAAGGATCTGACATAGGCCAAAATCCAAAACAAAATGACCTAG
ACTGAACCTGAAGTCTAGAAT
Found at i:22836911 original size:86 final size:86
Alignment explanation
Indices: 22836658--22837071 Score: 408
Period size: 86 Copynumber: 4.8 Consensus size: 86
22836648 AAGTGAAAGC
** * * * * *
22836658 CAAAGAAAGATCTGATGTAAGTCAAAATTCGAAAACAAAATGACCTGGATTGAACCTAAGTCTGA
1 CAAAGAAAGATCTGACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAATCAAAGTCTGA
* *
22836723 AACGAGT-ACTTGGACTAAGT
66 AATGAATAACTTGGACTAAGT
* * * **
22836743 CGAAA-AAAGATTTGACATAAATCAAAATCTAAAAACAAAATGACCTAGA-TGAAATTGAAGTCT
1 C-AAAGAAAGATCTGACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTG-AATCAAAGTCT
*
22836806 GAAATGAATAATTTGGACTAAGT
64 GAAATGAATAACTTGGACTAAGT
* * * *
22836829 CAAAGGAGGATCTGACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAACCGAAGTCTGA
1 CAAAGAAAGATCTGACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAATCAAAGTCTGA
* *
22836894 AATGAATAACTTAGACTAGGT
66 AATGAATAACTTGGACTAAGT
* * * * * * *
22836915 CAAAGAAAGAT-TTAGTATATG-CAAAAATTCAAAAACAGAATGACCCAGATTAAATCAAAGTCT
1 CAAAGAAAGATCTGA-CATAAGTC-AAAATCCAAAAACAAAATGACCTAGATTGAATCAAAGTCT
* * * *
22836978 AAAACGAATAGCTTGGACTAAAT
64 GAAATGAATAACTTGGACTAAGT
* * * * *
22837001 CGAAGAAGGATTTGACATAAGTCGAAAA-CCAAAAACAAAATGACCTAGATGGAATTAAAGTCTG
1 CAAAGAAAGATCTGACATAAGTC-AAAATCCAAAAACAAAATGACCTAGATTGAATCAAAGTCTG
22837065 AAATGAA
65 AAATGAA
22837072 AATGAATAAC
Statistics
Matches: 265, Mismatches: 55, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
84 2 0.01
85 58 0.22
86 196 0.74
87 9 0.03
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.21
Consensus pattern (86 bp):
CAAAGAAAGATCTGACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAATCAAAGTCTGA
AATGAATAACTTGGACTAAGT
Found at i:22837035 original size:172 final size:171
Alignment explanation
Indices: 22836658--22837071 Score: 469
Period size: 172 Copynumber: 2.4 Consensus size: 171
22836648 AAGTGAAAGC
* ** * * * *
22836658 CAAAGAAAGATCTGATGTAAGTCAAAATTCGAAAACAAAATGACCTGGATTGAACCTAAGTCTGA
1 CAAAGAAGGATCTGACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAACCAAAGTCTGA
* * *
22836723 AACGAGTACTTGGACTAAGTCGAAAAAAGATTTGACATAAATCAAAATCTAAAAACAAAATGACC
66 AATGAATACTTAGACTAAGTCGAAAAAAGATTTGACATAAATCAAAATCTAAAAACAAAATGACC
* ** * * * *
22836788 TAGATGAAATTGAAGTCTGAAATGAATAATTTGGACTAAGT
131 CAGATGAAATCAAAGTCTAAAACGAATAACTTGGACTAAAT
* *
22836829 CAAAGGAGGATCTGACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAACCGAAGTCTGA
1 CAAAGAAGGATCTGACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAACCAAAGTCTGA
* * * *
22836894 AATGAATAACTTAGACTAGGTC-AAAGAAAGATTT-A-GTATATGCAAAAAT-TCAAAAACAGAA
66 AATGAAT-ACTTAGACTAAGTCGAAA-AAAGATTTGACATAAAT-C-AAAATCT-AAAAACAAAA
* *
22836955 TGACCCAGATTAAATCAAAGTCTAAAACGAATAGCTTGGACTAAAT
126 TGACCCAGATGAAATCAAAGTCTAAAACGAATAACTTGGACTAAAT
* * * **
22837001 CGAAGAAGGATTTGACATAAGTCGAAAA-CCAAAAACAAAATGACCTAGATGGAATTAAAGTCTG
1 CAAAGAAGGATCTGACATAAGTC-AAAATCCAAAAACAAAATGACCTAGATTGAACCAAAGTCTG
22837065 AAATGAA
65 AAATGAA
22837072 AATGAATAAC
Statistics
Matches: 206, Mismatches: 31, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
170 4 0.02
171 68 0.33
172 130 0.63
173 4 0.02
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.21
Consensus pattern (171 bp):
CAAAGAAGGATCTGACATAAGTCAAAATCCAAAAACAAAATGACCTAGATTGAACCAAAGTCTGA
AATGAATACTTAGACTAAGTCGAAAAAAGATTTGACATAAATCAAAATCTAAAAACAAAATGACC
CAGATGAAATCAAAGTCTAAAACGAATAACTTGGACTAAAT
Found at i:22838145 original size:64 final size:66
Alignment explanation
Indices: 22837985--22838146 Score: 188
Period size: 63 Copynumber: 2.5 Consensus size: 66
22837975 TCAAACCGCT
* * * *
22837985 CTTTATAGGTTTTCAATTTGAGCTTTTTTTTTTCTTTTTTTGCTTTTTTTTTTAAACTCAGACTG
1 CTTTACAGGTTTTCAATTTGAGCTTTTTTTTTTCTTTTTATGC-TTTTTTTTTAAACTCAAACTA
22838050 CC
65 CC
* * * *
22838052 TTTTATAGGTTTTCAATTTGAGCCTTTTTTCTT-TTTTTATG-TTTTTTTTT-AACTCAAA-TCA
1 CTTTACAGGTTTTCAATTTGAGCTTTTTTTTTTCTTTTTATGCTTTTTTTTTAAACTCAAACT-A
22838113 CC
65 CC
* *
22838115 CTTTACGGGTTTTCAAATTGAGCTTTTTTTTT
1 CTTTACAGGTTTTCAATTTGAGCTTTTTTTTT
22838147 GTTAAAAAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
62 1 0.01
63 35 0.43
64 9 0.11
66 7 0.09
67 30 0.37
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.59
Consensus pattern (66 bp):
CTTTACAGGTTTTCAATTTGAGCTTTTTTTTTTCTTTTTATGCTTTTTTTTTAAACTCAAACTAC
C
Found at i:22848239 original size:23 final size:22
Alignment explanation
Indices: 22848197--22848239 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
22848187 TTTGTTGTTT
*
22848197 TATAAAAAAATTCATGCTTTTA
1 TATAAAAAAATTCATACTTTTA
*
22848219 TATAAGAAAAATTTATACTTT
1 TATAA-AAAAATTCATACTTT
22848240 CAACTTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (22 bp):
TATAAAAAAATTCATACTTTTA
Found at i:22848458 original size:15 final size:15
Alignment explanation
Indices: 22848440--22848513 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
22848430 TTTTCCTTAT
*
22848440 AAATTTTTTTTTTAA
1 AAATTTTATTTTTAA
22848455 AAATTTTATTTTTAAGA
1 AAATTTTATTTTT-A-A
* * * *
22848472 AAAATTGATATCTT-C
1 AAATTTTAT-TTTTAA
*
22848487 AAATTTT-TTTTTGA
1 AAATTTTATTTTTAA
22848501 AAATTTTATTTTT
1 AAATTTTATTTTT
22848514 CAAGGAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
13 3 0.07
14 8 0.18
15 22 0.49
16 1 0.02
17 8 0.18
18 3 0.07
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (15 bp):
AAATTTTATTTTTAA
Found at i:22848488 original size:60 final size:58
Alignment explanation
Indices: 22848278--22848480 Score: 289
Period size: 59 Copynumber: 3.4 Consensus size: 58
22848268 AATCTTTATT
* * * *
22848278 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATGCTTTTTTTTTTAAA
1 TTTTATTTTCAAGAAAAATTGATGCTTTCAACTTTTCCTT-AAAAT--TTTTTTTTTAAAA
*
22848339 TTTTATTTTCAAGAAAAATTGATGCTTTCAACTTTTCCTTAAAATATTTTTTTTGAAAA
1 TTTTATTTTCAAGAAAAATTGATGCTTTCAACTTTTCCTTAAAAT-TTTTTTTTTAAAA
*
22848398 TTTTATTTTCAAGGAAAATTGATGCTTTCAACTTTTCCTTATAAATTTTTTTTTTAAAAA
1 TTTTATTTTCAAGAAAAATTGATGCTTTCAACTTTTCCTTA-AAATTTTTTTTTT-AAAA
*
22848458 TTTTATTTTTAAGAAAAATTGAT
1 TTTTATTTTCAAGAAAAATTGAT
22848481 ATCTTCAAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
59 59 0.45
60 34 0.26
61 37 0.28
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (58 bp):
TTTTATTTTCAAGAAAAATTGATGCTTTCAACTTTTCCTTAAAATTTTTTTTTTAAAA
Found at i:22848524 original size:107 final size:103
Alignment explanation
Indices: 22848380--22848708 Score: 331
Period size: 107 Copynumber: 3.1 Consensus size: 103
22848370 CTTTTCCTTA
*
22848380 AAATATTTTTTTTGAAAATTTTATTTTCAAGGAAAATTGATGCTTTCAACTTTTCCTTATAAATT
1 AAAT-TTTTTTTTGAAAATTTTATTTTCAAGGAAAATTGAT-TTTTCAACTTTTCCTTA-AAA-T
* *
22848445 TTTTTTTTAAAAATTTTATTTTTAAGAAAAATTGATATCTTC
62 TTTTTTTTGAAAATTTTATTTTCAAGAAAAATTGATATCTTC
*
22848487 AAATTTTTTTTTGAAAATTTTATTTTTCAAGGAAAATTGACATTTTTC-ACTTTTCCTTAAAA-A
1 AAATTTTTTTTTGAAAATTTTA-TTTTCAAGGAAAATTG--ATTTTTCAACTTTTCCTTAAAATT
* * * * *
22848550 TGTTTTTGAGAATTTTATTTTCAAGAAAAATTGACATTTTTTTTA
63 TTTTTTTGAAAATTTTATTTTCAAGAAAAATTG--A--TATCTTC
* * * * **
22848595 AAAATATTTTTTGAAAATTTTATTTCCAAAGAAAATTGATATTTTCAACTTTTTCTCAAAAAATA
1 AAATTTTTTTTTGAAAATTTTATTTTCAAGGAAAATTGAT-TTTTCAAC-TTTTC-CTTAAAAT-
* *
22848660 TTTTTTTTGAAAATTTTATTTTCAA-AGAAAATTAATACCTTC
62 TTTTTTTTGAAAATTTTATTTTCAAGA-AAAATTGATATCTTC
*
22848702 AACTTTT
1 AAATTTT
22848709 CCTCCAAAAG
Statistics
Matches: 182, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
104 29 0.16
105 2 0.01
106 27 0.15
107 54 0.30
108 33 0.18
109 8 0.04
110 1 0.01
111 28 0.15
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (103 bp):
AAATTTTTTTTTGAAAATTTTATTTTCAAGGAAAATTGATTTTTCAACTTTTCCTTAAAATTTTT
TTTTGAAAATTTTATTTTCAAGAAAAATTGATATCTTC
Found at i:22848550 original size:46 final size:45
Alignment explanation
Indices: 22848451--22848550 Score: 103
Period size: 46 Copynumber: 2.2 Consensus size: 45
22848441 AATTTTTTTT
* * **
22848451 TTAAAAATTTTATTTTTAAGAAAAATTGATATCTTCAAATTTTTTT
1 TTAAAAATTTTATTTTTAAGAAAAATTGACATCTTC-AACTTTTCC
* * *
22848497 TTGAAAATTTTATTTTTCAAGGAAAATTGACATTTTTC-ACTTTTCC
1 TTAAAAATTTTATTTTT-AAGAAAAATTGACA-TCTTCAACTTTTCC
22848543 TTAAAAAT
1 TTAAAAAT
22848551 GTTTTTGAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
46 28 0.64
47 12 0.27
48 4 0.09
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (45 bp):
TTAAAAATTTTATTTTTAAGAAAAATTGACATCTTCAACTTTTCC
Found at i:22848556 original size:61 final size:59
Alignment explanation
Indices: 22848487--22848739 Score: 226
Period size: 61 Copynumber: 4.4 Consensus size: 59
22848477 TGATATCTTC
*
22848487 AAATTTTTTTTTGAAAATTTTATTTTTCAAGGAAAATTGACATTTTTC-ACTTTTCCTTAA
1 AAATTTTTTTTTGAAAATTTTA-TTTTCAAAGAAAATTGACA-TTTTCAACTTTTCCTTAA
* *
22848547 AAA--TGTTTTTGAGAATTTTATTTTC-AAGAAAAATTGACA--TT----TTTT--TTAA
1 AAATTTTTTTTTGAAAATTTTATTTTCAAAG-AAAATTGACATTTTCAACTTTTCCTTAA
* * * * *
22848596 AAA-TATTTTTTGAAAATTTTATTTCCAAAGAAAATTGATATTTTCAACTTTTTCTCAAA
1 AAATTTTTTTTTGAAAATTTTATTTTCAAAGAAAATTGACATTTTCAACTTTTCCT-TAA
* * ** *
22848655 AAATATTTTTTTTGAAAATTTTATTTTCAAAGAAAATTAATACCTTCAACTTTTCCTCCAA
1 AAAT-TTTTTTTTGAAAATTTTATTTTCAAAGAAAATTGACATTTTCAACTTTTCCT-TAA
* *
22848716 AAGTATTTTTTTGAAAATTTTATT
1 AAATTTTTTTTTGAAAATTTTATT
22848740 ATTATTATTT
Statistics
Matches: 161, Mismatches: 18, Indels: 28
0.78 0.09 0.14
Matches are distributed among these distances:
49 7 0.04
50 27 0.17
51 7 0.04
52 2 0.01
54 2 0.01
56 6 0.04
57 15 0.09
58 16 0.10
59 5 0.03
60 22 0.14
61 52 0.32
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (59 bp):
AAATTTTTTTTTGAAAATTTTATTTTCAAAGAAAATTGACATTTTCAACTTTTCCTTAA
Found at i:22848615 original size:50 final size:49
Alignment explanation
Indices: 22848446--22848639 Score: 153
Period size: 50 Copynumber: 3.8 Consensus size: 49
22848436 TTATAAATTT
* * * * * **
22848446 TTTTTTTAAAAATTTTATTTTTAAGAAAAATTG--A-TATCTTCAAATT
1 TTTTTTTGAAAATTTTATTTTCAAGAAAAATTGACATTTTTTTTAAAAA
*
22848492 TTTTTTTGAAAATTTTATTTTTCAAGGAAAATTGACATTTTTCACTTTTCCTTAAAAA
1 TTTTTTTGAAAATTTTA-TTTTCAAGAAAAATTGACA---TT---TTTT--TTAAAAA
* *
22848550 TGTTTTTGAGAATTTTATTTTCAAGAAAAATTGACATTTTTTTTAAAAA
1 TTTTTTTGAAAATTTTATTTTCAAGAAAAATTGACATTTTTTTTAAAAA
* *
22848599 TATTTTTTGAAAATTTTATTTCCAA-AGAAAATTGATATTTT
1 T-TTTTTTGAAAATTTTATTTTCAAGA-AAAATTGACATTTT
22848640 CAACTTTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 24
0.75 0.09 0.15
Matches are distributed among these distances:
46 16 0.13
47 14 0.12
49 10 0.08
50 33 0.28
51 4 0.03
53 1 0.01
54 2 0.02
56 2 0.02
57 18 0.15
58 19 0.16
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (49 bp):
TTTTTTTGAAAATTTTATTTTCAAGAAAAATTGACATTTTTTTTAAAAA
Found at i:22848772 original size:84 final size:85
Alignment explanation
Indices: 22848658--22848824 Score: 248
Period size: 84 Copynumber: 2.0 Consensus size: 85
22848648 TCTCAAAAAA
* * * *
22848658 TATTTTTTTTGAAAATTTTATTTTCAAAGAAAATTAATACCTTCAACTTTTCCTCCAAAAGTA-T
1 TATTTTTTTTGAAAAATTTATTTTAAAAGAAAATTAATACCTTCAACTTTTCCTCAAAAAATATT
22848722 TTTTTTGAAAATTTTATTAT
66 TTTTTTGAAAATTTTATTAT
* *
22848742 TATTATTTTTT-AAAAATTTATTTTAAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAAATAT
1 TATT-TTTTTTGAAAAATTTATTTTAAAAGAAAATTAATACCTTCAACTTTTCCTCAAAAAATAT
*
22848806 TTTTTTTGAAATTTTTATT
65 TTTTTTTGAAAATTTTATT
22848825 TTAAGAGAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 50 0.68
85 24 0.32
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (85 bp):
TATTTTTTTTGAAAAATTTATTTTAAAAGAAAATTAATACCTTCAACTTTTCCTCAAAAAATATT
TTTTTTGAAAATTTTATTAT
Found at i:22850476 original size:7 final size:7
Alignment explanation
Indices: 22850448--22850652 Score: 61
Period size: 7 Copynumber: 28.3 Consensus size: 7
22850438 TATTTAATTG
22850448 AATATTA
1 AATATTA
*
22850455 AATTATAA
1 AA-TATTA
*
22850463 TAATATTG
1 -AATATTA
22850471 AATATTA
1 AATATTA
**
22850478 AATAGAA
1 AATATTA
22850485 AATCA-TA
1 AAT-ATTA
22850492 AATATTA
1 AATATTA
*
22850499 CAT-TATA
1 AATAT-TA
22850506 TAATATTA
1 -AATATTA
22850514 AATATTA
1 AATATTA
22850521 AATA-T-
1 AATATTA
22850526 AATATTA
1 AATATTA
*
22850533 TATATT-
1 AATATTA
*
22850539 -ATATAA
1 AATATTA
*
22850545 AATTTTA
1 AATATTA
*
22850552 TAT-TTGA
1 AATATT-A
*
22850559 AATTTTATA
1 AA-TAT-TA
22850568 TAATATTA
1 -AATATTA
*
22850576 AATATTT
1 AATATTA
*
22850583 TATATTTAA
1 AATA-TT-A
22850592 TAATATCTA
1 -AATAT-TA
*
22850601 AGTATTA
1 AATATTA
22850608 AATAGTT-
1 AATA-TTA
22850615 AATATT-
1 AATATTA
*
22850621 -ATATAA
1 AATATTA
22850627 AATTTAATTA
1 AA--T-ATTA
22850637 AATATTA
1 AATATTA
22850644 AATATTA
1 AATATTA
22850651 AA
1 AA
22850653 CAATATAATA
Statistics
Matches: 148, Mismatches: 24, Indels: 52
0.66 0.11 0.23
Matches are distributed among these distances:
5 12 0.08
6 8 0.05
7 82 0.55
8 24 0.16
9 10 0.07
10 12 0.08
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (7 bp):
AATATTA
Found at i:22850516 original size:29 final size:30
Alignment explanation
Indices: 22850490--22850545 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 30
22850480 TAGAAAATCA
*
22850490 TAAATATTACATTATATAATAT-TAAATAT
1 TAAATATAACATTATATAATATATAAATAT
* *
22850519 TAAATATAATATTATATATTATATAAA
1 TAAATATAACATTATATAATATATAAA
22850546 ATTTTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (30 bp):
TAAATATAACATTATATAATATATAAATAT
Found at i:22850666 original size:34 final size:36
Alignment explanation
Indices: 22850603--22850672 Score: 99
Period size: 34 Copynumber: 2.0 Consensus size: 36
22850593 AATATCTAAG
**
22850603 TATTAAATAGTTAATATTATATAAAATTTAATTAAA
1 TATTAAATAGTTAATACAATATAAAATTTAATTAAA
*
22850639 TATTAAATA-TTAA-ACAATATAATATTTAATTAAA
1 TATTAAATAGTTAATACAATATAAAATTTAATTAAA
22850673 ATTTATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 18 0.58
35 4 0.13
36 9 0.29
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (36 bp):
TATTAAATAGTTAATACAATATAAAATTTAATTAAA
Found at i:22857292 original size:73 final size:74
Alignment explanation
Indices: 22857158--22857299 Score: 207
Period size: 73 Copynumber: 1.9 Consensus size: 74
22857148 GGATCGGATC
* * *
22857158 GATTGGTTTTCCATCCAGTAGCCAAATTAAGTAGAAAACTTTGAAGAATTGATCGACCCCCT-TG
1 GATTGGTTTTCCATCCAATAGCCAAATTAAGTAGAAAACATTGAAGAACTGATCGACCCCCTATG
22857222 GACCAAATT
66 GACCAAATT
* * *
22857231 GATTGGTTTTCCATCTAATAGCCAAATTAAGT-GAAAACATTGAAGAACTGATTGATTCCCCTAT
1 GATTGGTTTTCCATCCAATAGCCAAATTAAGTAGAAAACATTGAAGAACTGATCGA-CCCCCTAT
22857295 GGACC
65 GGACC
22857300 TAATCGATCG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 20 0.33
73 35 0.57
74 6 0.10
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (74 bp):
GATTGGTTTTCCATCCAATAGCCAAATTAAGTAGAAAACATTGAAGAACTGATCGACCCCCTATG
GACCAAATT
Found at i:22859371 original size:38 final size:41
Alignment explanation
Indices: 22859294--22859372 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 41
22859284 AGAGGACATG
*
22859294 GTATGAAAAATTCTTATTTGATTGATGATCTTGATATTGATA
1 GTATGAAAAATTCTTATTTGATTGATGA-CTTGACATTGATA
*
22859336 GTATGAAAATTTCTTATTTGA-TGAT-A-TTGACATTGAT
1 GTATGAAAAATTCTTATTTGATTGATGACTTGACATTGAT
22859373 GATTATATCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 10 0.29
40 1 0.03
41 4 0.11
42 20 0.57
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.46
Consensus pattern (41 bp):
GTATGAAAAATTCTTATTTGATTGATGACTTGACATTGATA
Found at i:22861896 original size:2 final size:2
Alignment explanation
Indices: 22861879--22861926 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
22861869 TTTGTGGTGA
* * *
22861879 AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22861921 AT AT AT
1 AT AT AT
22861927 TTTGATGGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:22870361 original size:27 final size:27
Alignment explanation
Indices: 22870323--22870430 Score: 89
Period size: 27 Copynumber: 4.0 Consensus size: 27
22870313 TATATATTTA
22870323 AAATATAA-ATTTTTTATTAAATAATAT
1 AAAT-TAATATTTTTTATTAAATAATAT
* *
22870350 AAATTATTATTTTATATTAAAT--TA-
1 AAATTAATATTTTTTATTAAATAATAT
*
22870374 AAATTAATATATTTTTATTGAAAAAATAT
1 AAATTAATAT-TTTTTATT-AAATAATAT
* * * *
22870403 ATATTAATATATATTTATAAAAAAATAT
1 AAATTAATAT-TTTTTATTAAATAATAT
22870431 TTAAATATAC
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
24 9 0.13
25 9 0.13
26 5 0.07
27 17 0.25
28 11 0.16
29 16 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (27 bp):
AAATTAATATTTTTTATTAAATAATAT
Found at i:22870408 original size:29 final size:28
Alignment explanation
Indices: 22870376--22870430 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
22870366 TTAAATTAAA
* *
22870376 ATTAATATATTTTTATTGAAAAAATATAT
1 ATTAATATATATTTA-TAAAAAAATATAT
22870405 ATTAATATATATTTATAAAAAAATAT
1 ATTAATATATATTTATAAAAAAATAT
22870431 TTAAATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (28 bp):
ATTAATATATATTTATAAAAAAATATAT
Found at i:22871048 original size:18 final size:18
Alignment explanation
Indices: 22871025--22871061 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
22871015 GTATTTTATA
22871025 GTGGGTATTGTTTGAAAT
1 GTGGGTATTGTTTGAAAT
*
22871043 GTGGGTATTTTTTGAAAT
1 GTGGGTATTGTTTGAAAT
22871061 G
1 G
22871062 ATTGTAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (18 bp):
GTGGGTATTGTTTGAAAT
Found at i:22871554 original size:22 final size:22
Alignment explanation
Indices: 22871523--22871618 Score: 87
Period size: 22 Copynumber: 4.6 Consensus size: 22
22871513 TATAATTATT
*
22871523 ATTATGTACATATCATATAATC
1 ATTATATACATATCATATAATC
*
22871545 ATTATATACATATTATATAA--
1 ATTATATACATATCATATAATC
*
22871565 A-GAT-T--ATATCATATAATC
1 ATTATATACATATCATATAATC
* **
22871583 ATTATACACATATCATATAAAG
1 ATTATATACATATCATATAATC
*
22871605 ATTATGTACATATC
1 ATTATATACATATC
22871619 CTAGAAGTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
16 10 0.17
18 2 0.03
19 4 0.07
20 1 0.02
22 41 0.71
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (22 bp):
ATTATATACATATCATATAATC
Found at i:22871559 original size:11 final size:11
Alignment explanation
Indices: 22871522--22871578 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
22871512 TTATAATTAT
*
22871522 TATTATGTACA
1 TATTATATACA
*
22871533 TATCATATA-A
1 TATTATATACA
22871543 TCATTATATACA
1 T-ATTATATACA
*
22871555 TATTATATAAA
1 TATTATATACA
*
22871566 GATTATAT-CA
1 TATTATATACA
22871576 TAT
1 TAT
22871579 AATCATTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
10 5 0.14
11 30 0.81
12 2 0.05
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (11 bp):
TATTATATACA
Found at i:22871575 original size:38 final size:38
Alignment explanation
Indices: 22871532--22871609 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
22871522 TATTATGTAC
* *
22871532 ATATCATATAATCATTATATACATATTATATAAAGATT
1 ATATCATATAATCATTATACACATATCATATAAAGATT
22871570 ATATCATATAATCATTATACACATATCATATAAAGATT
1 ATATCATATAATCATTATACACATATCATATAAAGATT
22871608 AT
1 AT
22871610 GTACATATCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (38 bp):
ATATCATATAATCATTATACACATATCATATAAAGATT
Found at i:22871586 original size:16 final size:16
Alignment explanation
Indices: 22871532--22871588 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
22871522 TATTATGTAC
22871532 ATATCATATAATCATT
1 ATATCATATAATCATT
*
22871548 ATATACATATTATATAAAGATT
1 ATAT-CATA-TA-AT---CATT
22871570 ATATCATATAATCATT
1 ATATCATATAATCATT
22871586 ATA
1 ATA
22871589 CACATATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 10 0.30
17 4 0.12
18 2 0.06
19 4 0.12
20 2 0.06
21 4 0.12
22 7 0.21
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (16 bp):
ATATCATATAATCATT
Found at i:22872735 original size:12 final size:11
Alignment explanation
Indices: 22872704--22872773 Score: 56
Period size: 11 Copynumber: 6.3 Consensus size: 11
22872694 AAAAATAACA
22872704 AAAATAAAAT-
1 AAAATAAAATG
22872714 AAAATCAAAATG
1 AAAAT-AAAATG
22872726 AAAATGAAAATG
1 AAAAT-AAAATG
* *
22872738 AAATCAAAAAATA
1 AAA--ATAAAATG
*
22872751 AAAATAAAAGG
1 AAAATAAAATG
22872762 AAAA-AAAA-G
1 AAAATAAAATG
22872771 AAA
1 AAA
22872774 TCTTACTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
9 4 0.08
10 9 0.18
11 14 0.28
12 14 0.28
13 8 0.16
14 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.13
Consensus pattern (11 bp):
AAAATAAAATG
Found at i:22873335 original size:274 final size:272
Alignment explanation
Indices: 22872848--22873391 Score: 964
Period size: 274 Copynumber: 2.0 Consensus size: 272
22872838 CAAAGACTCT
22872848 TAAAACAACATCATTTTGTGGGGCCTATAAAAGGTAATTTTTTAATTTTTAATTTATTTTTTCTC
1 TAAAACAACATCATTTTGTGGGGCCTATAAAAGGTAATTTTTTAATTTTTAATTTATTTTTTCTC
*
22872913 TCTCTACCCTAGAGCCTCTCTCTCTAAACCCAAATTCCCTCTCGCTGATAGCTATAACTACCCAA
66 TCTCTACCCTAGAGCCTCTCTCTCTAAACCCAAATTCCCTCTCGCTGATAGCCATAACTACCCAA
* *
22872978 ATTCTAACCAGCTGCCACCATGCCGTCTTAGAAAAATTCAATTTACATTTGAAAACATAAAATTT
131 ATTCTAACCAGCTGCCACCATGCCGTCTTAGAAAAATTCAATTTACATTGGAAAACACAAAATTT
22873043 TTGCAGATTTTGTCCCATTTCCCAAATTTCGATGACTAAAAATTCAATCGATCGCTAAAAAATTC
196 TTGCAGATTTTGTCCCATTTCCCAAATTTCGATGACTAAAAATTCAATCGATCGCTAAAAAATTC
22873108 ATATTTCCCAAA
261 ATATTTCCCAAA
22873120 TAAAACAACATCATTTTGTGGGGCCTATAAAAGGTAATTTTTTTAATTTTTAATTTATTTTTTTC
1 TAAAACAACATCATTTTGTGGGGCCTATAAAAGGTAA-TTTTTTAATTTTTAATTTA-TTTTTTC
* *
22873185 TCTCTCTACCCTAGAGCCTCTCTCTCTAAACCCAAATTCCCTTTCGCTGATAGCCATAACTATCC
64 TCTCTCTACCCTAGAGCCTCTCTCTCTAAACCCAAATTCCCTCTCGCTGATAGCCATAACTACCC
* * * *
22873250 AAATTCTGACCAGCTGCCACCATGTCGT-TGTGGAAAAATTCAATTTGCATTGGAAAACACAAAA
129 AAATTCTAACCAGCTGCCACCATGCCGTCT-TAGAAAAATTCAATTTACATTGGAAAACACAAAA
*
22873314 TTTTTGCAGATTTTGTCCCATTTCCCAAATTTCGATGACTAAAAATTCAATCGATCGCTAGAAAA
193 TTTTTGCAGATTTTGTCCCATTTCCCAAATTTCGATGACTAAAAATTCAATCGATCGCTAAAAAA
22873379 TTCATATTTCCCA
258 TTCATATTTCCCA
22873392 GATTTCGACA
Statistics
Matches: 259, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
272 37 0.14
273 20 0.08
274 202 0.78
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (272 bp):
TAAAACAACATCATTTTGTGGGGCCTATAAAAGGTAATTTTTTAATTTTTAATTTATTTTTTCTC
TCTCTACCCTAGAGCCTCTCTCTCTAAACCCAAATTCCCTCTCGCTGATAGCCATAACTACCCAA
ATTCTAACCAGCTGCCACCATGCCGTCTTAGAAAAATTCAATTTACATTGGAAAACACAAAATTT
TTGCAGATTTTGTCCCATTTCCCAAATTTCGATGACTAAAAATTCAATCGATCGCTAAAAAATTC
ATATTTCCCAAA
Found at i:22874605 original size:43 final size:42
Alignment explanation
Indices: 22874488--22874592 Score: 147
Period size: 43 Copynumber: 2.5 Consensus size: 42
22874478 TCTAAGCATA
* * * *
22874488 ACTTTTGAAAATTTGAAAAGCTCCTCTAAATAGATGCTCGACG
1 ACTTTTAAAAATTT-AAAAGCTCCTCTAAGTAAAGGCTCGACG
*
22874531 ACTTTTAAAAATTTAAAAAGCTCCTCTAAGTAAAGGCTCGATG
1 ACTTTTAAAAATTT-AAAAGCTCCTCTAAGTAAAGGCTCGACG
22874574 ACTTTTAAAAATTTAAAAG
1 ACTTTTAAAAATTTAAAAG
22874593 GTTCATCTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
42 5 0.09
43 51 0.91
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (42 bp):
ACTTTTAAAAATTTAAAAGCTCCTCTAAGTAAAGGCTCGACG
Found at i:22874621 original size:43 final size:42
Alignment explanation
Indices: 22874488--22874616 Score: 116
Period size: 43 Copynumber: 3.0 Consensus size: 42
22874478 TCTAAGCATA
* * * * * * * *
22874488 ACTTTTGAAAATTTGAAAAGCTCCTCTAAATAGATGCTCGACG
1 ACTTTTAAAAATTTAAAAAGCTCATCTAAGTAAAGGATC-ATG
* *
22874531 ACTTTTAAAAATTTAAAAAGCTCCTCTAAGTAAAGGCTCGATG
1 ACTTTTAAAAATTTAAAAAGCTCATCTAAGTAAAGGATC-ATG
* * *
22874574 ACTTTTAAAAATTTAAAAGGTTCATCTAAGTAGAGGAT-ATG
1 ACTTTTAAAAATTTAAAAAGCTCATCTAAGTAAAGGATCATG
22874615 AC
1 AC
22874617 ACTTTAAAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
41 5 0.07
43 70 0.93
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (42 bp):
ACTTTTAAAAATTTAAAAAGCTCATCTAAGTAAAGGATCATG
Found at i:22874805 original size:33 final size:34
Alignment explanation
Indices: 22874762--22874825 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
22874752 CTTTAAAGAG
*
22874762 AGCTCATCTAACCAAAGG-AATGAAACTTTAAAT
1 AGCTCATCTAACCAAAGGTAATAAAACTTTAAAT
* * *
22874795 AGCTCCTCTAACTAGAGGTAATAAAACTTTA
1 AGCTCATCTAACCAAAGGTAATAAAACTTTA
22874826 TATTAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 15 0.58
34 11 0.42
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (34 bp):
AGCTCATCTAACCAAAGGTAATAAAACTTTAAAT
Found at i:22886732 original size:13 final size:14
Alignment explanation
Indices: 22886714--22886746 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22886704 CTCATTTTGA
22886714 TATTTTTT-GTTAT
1 TATTTTTTAGTTAT
*
22886727 TATTTTTTATTTAT
1 TATTTTTTAGTTAT
22886741 TATTTT
1 TATTTT
22886747 CATATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (14 bp):
TATTTTTTAGTTAT
Found at i:22886758 original size:11 final size:11
Alignment explanation
Indices: 22886738--22886767 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
22886728 ATTTTTTATT
22886738 TATTATTTTCA
1 TATTATTTTCA
22886749 TATTATTTTCA
1 TATTATTTTCA
22886760 TATTATTT
1 TATTATTT
22886768 AAATAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTATTTTCA
Found at i:22887356 original size:18 final size:18
Alignment explanation
Indices: 22887335--22887392 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
22887325 AAATATATAT
*
22887335 TTAAAAATATAACA-AAAA
1 TTAAAAA-ATAAAATAAAA
22887353 TTAAAAAAATTAAAATAAAA
1 TT-AAAAAA-TAAAATAAAA
22887373 TTAAAAAATAATAATAAAA
1 TTAAAAAATAA-AATAAAA
22887392 T
1 T
22887393 GGAAAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 6 0.17
19 23 0.66
20 6 0.17
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
TTAAAAAATAAAATAAAA
Found at i:22887362 original size:9 final size:9
Alignment explanation
Indices: 22887337--22887380 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 9
22887327 ATATATATTT
22887337 AAAAATATAA
1 AAAAAT-TAA
22887347 CAAAAATTAA
1 -AAAAATTAA
22887357 AAAAATTAAA
1 AAAAATT-AA
22887367 ATAAAATTAA
1 A-AAAATTAA
22887377 AAAA
1 AAAA
22887381 TAATAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 10 0.32
10 9 0.29
11 12 0.39
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAATTAA
Found at i:22887378 original size:19 final size:20
Alignment explanation
Indices: 22887349--22887392 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
22887339 AAATATAACA
22887349 AAAATTAAAAAAATTAA-AAT
1 AAAATTAAAAAAA-TAATAAT
22887369 AAAATT-AAAAAATAATAAT
1 AAAATTAAAAAAATAATAAT
22887388 AAAAT
1 AAAAT
22887393 GGAAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 6 0.26
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATTAAAAAAATAATAAT
Found at i:22887398 original size:19 final size:19
Alignment explanation
Indices: 22887356--22887399 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
22887346 ACAAAAATTA
*
22887356 AAAAAATTAAAATAAAATT
1 AAAAAATTAAAATAAAATG
22887375 AAAAAA-TAATAATAAAATG
1 AAAAAATTAA-AATAAAATG
*
22887394 GAAAAA
1 AAAAAA
22887400 GAAAACTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAAAATTAAAATAAAATG
Found at i:22891950 original size:29 final size:30
Alignment explanation
Indices: 22891890--22891964 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
22891880 GTATTAAAAG
*
22891890 AAAATTTTTAAAAAA-ATTTAAAGTTTTAA
1 AAAATTTTTAAAAAATATTGAAAGTTTTAA
*
22891919 AAAATTTTTAAAAAATA-TGAAA-TATTTTA
1 AAAATTTTTAAAAAATATTGAAAGT-TTTAA
* *
22891948 AAAAGTTATAAAAAATA
1 AAAATTTTTAAAAAATA
22891965 AAAAAAAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 38 0.95
30 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (30 bp):
AAAATTTTTAAAAAATATTGAAAGTTTTAA
Found at i:22892410 original size:22 final size:22
Alignment explanation
Indices: 22892385--22892440 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
22892375 TTTGTTACAA
22892385 TTTTTTTTCCAAAATTCTAGAT
1 TTTTTTTTCCAAAATTCTAGAT
****
22892407 TTTTTTGAAAAAAATTCTAGAT
1 TTTTTTTTCCAAAATTCTAGAT
22892429 TTTTTATTTCCA
1 TTTTT-TTTCCA
22892441 TTTTTCTTAA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.54
Consensus pattern (22 bp):
TTTTTTTTCCAAAATTCTAGAT
Found at i:22892594 original size:37 final size:37
Alignment explanation
Indices: 22892526--22892622 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
22892516 TTTGATGGCA
* *
22892526 TTTTAGATTTTTTATTAAATTTTTAAAGTTTTCATATTT
1 TTTTAGATTTTTTA-TAAATATTTAAAGTTTT-AAATTT
* * *
22892565 TTTTA-ATTTCTTATAAATATTTCATGTTTTAAATTT
1 TTTTAGATTTTTTATAAATATTTAAAGTTTTAAATTT
*
22892601 TTTTATATTTTTTA-AAATATTT
1 TTTTAGATTTTTTATAAATATTT
22892623 TAGATTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
36 18 0.35
37 21 0.41
38 7 0.14
39 5 0.10
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (37 bp):
TTTTAGATTTTTTATAAATATTTAAAGTTTTAAATTT
Found at i:22892615 original size:19 final size:19
Alignment explanation
Indices: 22892591--22892653 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
22892581 ATATTTCATG
* * *
22892591 TTTTAAATTTTTTTATATT
1 TTTTAAAATATTTTAGATT
22892610 TTTTAAAATATTTTAGATT
1 TTTTAAAATATTTTAGATT
* *
22892629 TTTTAAAAAATTTTAAAATT
1 TTTTAAAATATTTT-AGATT
22892649 TTTTA
1 TTTTA
22892654 GAGTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
19 29 0.76
20 9 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTAAAATATTTTAGATT
Found at i:22892653 original size:10 final size:10
Alignment explanation
Indices: 22892591--22892653 Score: 58
Period size: 10 Copynumber: 6.5 Consensus size: 10
22892581 ATATTTCATG
22892591 TTTT-AAATT
1 TTTTAAAATT
* *
22892600 TTTTTATATT
1 TTTTAAAATT
*
22892610 TTTTAAAATA
1 TTTTAAAATT
*
22892620 TTTT-AGATT
1 TTTTAAAATT
**
22892629 TTTTAAAAAA
1 TTTTAAAATT
22892639 TTTTAAAATT
1 TTTTAAAATT
22892649 TTTTA
1 TTTTA
22892654 GAGTTTTTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
9 11 0.27
10 30 0.73
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:22894249 original size:73 final size:74
Alignment explanation
Indices: 22894127--22894274 Score: 244
Period size: 73 Copynumber: 2.0 Consensus size: 74
22894117 GGGCTTAAGG
* * *
22894127 ATCATACATATTTTTCATAAAAAGGATTGCATTGATGATCTTTTTGAGGTCCAATCAAGTATCAA
1 ATCATACATATTTTTCATAAAAAGGACTGCATCGATGATCCTTTTGAGGTCCAATCAAGTATCAA
22894192 GATCTTTGA
66 GATCTTTGA
* *
22894201 ATCATACATATTTTTCA-ATAAAGGACTGTATCGATGATCCTTTTGAGGTCCAATCAAGTATCAA
1 ATCATACATATTTTTCATAAAAAGGACTGCATCGATGATCCTTTTGAGGTCCAATCAAGTATCAA
22894265 GATCTTTGA
66 GATCTTTGA
22894274 A
1 A
22894275 ACAAATTCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 52 0.75
74 17 0.25
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (74 bp):
ATCATACATATTTTTCATAAAAAGGACTGCATCGATGATCCTTTTGAGGTCCAATCAAGTATCAA
GATCTTTGA
Found at i:22896988 original size:22 final size:22
Alignment explanation
Indices: 22896962--22897009 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
22896952 TTTCTTTTGT
*
22896962 TTAATCTTATTATTATTATGGG
1 TTAATCTAATTATTATTATGGG
*
22896984 TTAATCTAATTATTATTTTGGG
1 TTAATCTAATTATTATTATGGG
22897006 TTAA
1 TTAA
22897010 GGACTTATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.54
Consensus pattern (22 bp):
TTAATCTAATTATTATTATGGG
Found at i:22899741 original size:27 final size:26
Alignment explanation
Indices: 22899710--22899774 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
22899700 TTGAACTTTG
22899710 GTTTTATTTTTCTTGA-ATTGTTTTTA
1 GTTTTATTTTTCTT-ATATTGTTTTTA
* * *
22899736 GATTTT-TTTAGTCTTATTTTGTTTTTT
1 G-TTTTATTT-TTCTTATATTGTTTTTA
22899763 GTTTTATTTTTC
1 GTTTTATTTTTC
22899775 AAATTTTGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.12, C:0.05, G:0.11, T:0.72
Consensus pattern (26 bp):
GTTTTATTTTTCTTATATTGTTTTTA
Found at i:22899769 original size:17 final size:18
Alignment explanation
Indices: 22899739--22899772 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22899729 GTTTTTAGAT
22899739 TTTTTTAGTCTTATTTTG
1 TTTTTTAGTCTTATTTTG
*
22899757 TTTTTT-GTTTTATTTT
1 TTTTTTAGTCTTATTTT
22899773 TCAAATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.79
Consensus pattern (18 bp):
TTTTTTAGTCTTATTTTG
Found at i:22899937 original size:46 final size:46
Alignment explanation
Indices: 22899855--22899992 Score: 143
Period size: 46 Copynumber: 2.9 Consensus size: 46
22899845 ACTCAATGAC
* * * **
22899855 TTTAAAAACTCCTTTAAGCAAAGGCCCAACTTCTTTTGAAAAT-AAA
1 TTTAAAAACTCCTTTAAGTAAAAGCTCAACAACTTTT-AAAATCAAA
* **
22899901 TTTAAAAACTCCTTTAAGTAAATGCTCAACAACTTTTAAAATCTCA
1 TTTAAAAACTCCTTTAAGTAAAAGCTCAACAACTTTTAAAATCAAA
* *
22899947 TCTTAAAAAAGCTCCTTTAAATAAAAGCTCAACAACTTTAAAAATC
1 T-TT-AAAAA-CTCCTTTAAGTAAAAGCTCAACAACTTTTAAAATC
22899993 TCATTATGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
45 5 0.06
46 34 0.44
47 2 0.03
48 5 0.06
49 32 0.41
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (46 bp):
TTTAAAAACTCCTTTAAGTAAAAGCTCAACAACTTTTAAAATCAAA
Found at i:22900084 original size:48 final size:48
Alignment explanation
Indices: 22899904--22900085 Score: 199
Period size: 48 Copynumber: 3.8 Consensus size: 48
22899894 AAATAAATTT
* * * *
22899904 AAAAACTCCTTTAAGTAAATGCTCAACAACTTTTAAAATCTCATCTTA
1 AAAAACTCCTTTAAATAAAAGCTCAACAACTTTAAAAATCTCATCTTG
22899952 AAAAAGCTCCTTTAAATAAAAGCTCAACAACTTTAAAAATCTCAT-TATG
1 AAAAA-CTCCTTTAAATAAAAGCTCAACAACTTTAAAAATCTCATCT-TG
* * * * *
22900001 AAAAACTCTTTTAGAA-AAACGTTCGAC-AGTATTAAAAATCTCATCTTG
1 AAAAACTCCTTTA-AATAAAAGCTCAACAACT-TTAAAAATCTCATCTTG
* * *
22900049 AAATACTCCTTTAAACAAAAGCTTAACAACTTTAAAA
1 AAAAACTCCTTTAAATAAAAGCTCAACAACTTTAAAA
22900086 TGCAAACATT
Statistics
Matches: 111, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
47 4 0.04
48 60 0.54
49 47 0.42
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (48 bp):
AAAAACTCCTTTAAATAAAAGCTCAACAACTTTAAAAATCTCATCTTG
Found at i:22900912 original size:60 final size:60
Alignment explanation
Indices: 22900843--22901005 Score: 173
Period size: 60 Copynumber: 2.7 Consensus size: 60
22900833 ATACCAACTC
* *
22900843 AATTGGGCTTAAAATTTGAATGCCAGTTAGACTAAGCTTAAATCTCATTAGTGCTAGTTA
1 AATTGGGCTTAAAATTTGAATGCCAGCTAGACTAAGCTTAAATCTCATTAGTGCTAGCTA
* * * * * * * * *
22900903 AATTGGGCTTAAAATTTTAGTACCAGCTAAATTGAGTTTAAATTTTATTAGTGCTAGCTA
1 AATTGGGCTTAAAATTTGAATGCCAGCTAGACTAAGCTTAAATCTCATTAGTGCTAGCTA
** * * * *
22900963 AGCTGAGCTTAAAATTTGGATGCCAACTCGACTAAGCTTAAAT
1 AATTGGGCTTAAAATTTGAATGCCAGCTAGACTAAGCTTAAAT
22901006 TTGATCGATG
Statistics
Matches: 79, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
60 79 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (60 bp):
AATTGGGCTTAAAATTTGAATGCCAGCTAGACTAAGCTTAAATCTCATTAGTGCTAGCTA
Found at i:22900962 original size:31 final size:31
Alignment explanation
Indices: 22900877--22900975 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 31
22900867 AGTTAGACTA
* * *
22900877 AGCTTAAATCTCATTAGTGCTAGTTAAATTG
1 AGCTTAAATATTATTAGTGCTAGCTAAATTG
* * *
22900908 GGCTTAAA-ATT-TTAGTACCAGCTAAATTG
1 AGCTTAAATATTATTAGTGCTAGCTAAATTG
* * **
22900937 AGTTTAAATTTTATTAGTGCTAGCTAAGCTG
1 AGCTTAAATATTATTAGTGCTAGCTAAATTG
22900968 AGCTTAAA
1 AGCTTAAA
22900976 ATTTGGATGC
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
29 21 0.40
30 3 0.06
31 28 0.54
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.37
Consensus pattern (31 bp):
AGCTTAAATATTATTAGTGCTAGCTAAATTG
Found at i:22901368 original size:14 final size:14
Alignment explanation
Indices: 22901350--22901388 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
22901340 CCATTGATAA
**
22901350 TTTTTTTTTCTTTTC
1 TTTTTTTTT-TTGCC
22901365 TTTTTTTTTTTGCC
1 TTTTTTTTTTTGCC
22901379 TTTTTTTTTT
1 TTTTTTTTTT
22901389 CAAAACTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTTTGCC
Found at i:22901372 original size:19 final size:18
Alignment explanation
Indices: 22901350--22901388 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
22901340 CCATTGATAA
22901350 TTTTTTTTT--CTTTTCTT
1 TTTTTTTTTGCCTTTT-TT
22901367 TTTTTTTTTGCCTTTTTT
1 TTTTTTTTTGCCTTTTTT
22901385 TTTT
1 TTTT
22901389 CAAAACTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTGCCTTTTTT
Found at i:22906125 original size:14 final size:15
Alignment explanation
Indices: 22906099--22906127 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22906089 ATTTCATGTC
22906099 AAAAGATATTTTATT
1 AAAAGATATTTTATT
22906114 AAAAGA-ATTTTATT
1 AAAAGATATTTTATT
22906128 TTTTAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
AAAAGATATTTTATT
Found at i:22906637 original size:141 final size:138
Alignment explanation
Indices: 22906465--22906744 Score: 515
Period size: 139 Copynumber: 2.0 Consensus size: 138
22906455 ATAATGTAGC
*
22906465 TACTTTACTTTCTCTTCATAAGGATGGAGTCCAAGAATAGAGCTTTTATACATGCAAATGAATAT
1 TACTTTACTTTCTCTTCATAAGGATGAAGTCCAAGAATAGAGC--TTATACATGCAAATGAATAT
*
22906530 ATAAAGTGCGTGGGGGAAATATAGCAATTGAAATAATATAAGTAAAGAAAAATAAATGACAAAAT
64 ACAAAGTGCGTGGGGGAAATATAGCAATTGAAATAATATAAGTAAA-AAAAATAAATGACAAAAT
22906595 CAAAGTATGGA
128 CAAAGTATGGA
22906606 TACTTTACTTTCTCTTCATAAGGATGAAGTCCAAGAATAGAGCTTATACATGCAAATGAATATAC
1 TACTTTACTTTCTCTTCATAAGGATGAAGTCCAAGAATAGAGCTTATACATGCAAATGAATATAC
22906671 AAAGTGCGTGGGGGAAATATAGCAATTGAAATAATATAAGTAAAAAAAATAAATGACAAAATCAA
66 AAAGTGCGTGGGGGAAATATAGCAATTGAAATAATATAAGTAAAAAAAATAAATGACAAAATCAA
22906736 AGTATGGA
131 AGTATGGA
22906744 T
1 T
22906745 GTAACTAATA
Statistics
Matches: 137, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
138 30 0.22
139 65 0.47
141 42 0.31
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (138 bp):
TACTTTACTTTCTCTTCATAAGGATGAAGTCCAAGAATAGAGCTTATACATGCAAATGAATATAC
AAAGTGCGTGGGGGAAATATAGCAATTGAAATAATATAAGTAAAAAAAATAAATGACAAAATCAA
AGTATGGA
Found at i:22909596 original size:134 final size:134
Alignment explanation
Indices: 22909436--22909702 Score: 464
Period size: 134 Copynumber: 2.0 Consensus size: 134
22909426 GTGTTCGACC
*
22909436 TTTTGGTGGTGGTGGGTAATTTAGGATGTGTTTCTATTAAGGTGTTTTTCTTTCTGATGGTGCCA
1 TTTTGGTGGTGGTGGGTAATTTAGGATGGGTTTCTATTAAGGTGTTTTTCTTTCTGATGGTGCCA
*
22909501 ATAGGGATAAGGGGGATGTTGGTGAGAGCAAGGCTATAATGGTGTGTAAAGGCTAGTGC-TGGTA
66 ATAGGGATAAGGGGGACGTTGGTGAGAGCAAGGCTATAATGGTGTGTAAAGGCTAGTGCAT-GTA
22909565 GGGGT
130 GGGGT
* *
22909570 TTTTGGTGGTGGTGGGTAATTTAGGATGGGTTTCTATTAAGGTGTTTTTCTTTCTGGTGGTGCCG
1 TTTTGGTGGTGGTGGGTAATTTAGGATGGGTTTCTATTAAGGTGTTTTTCTTTCTGATGGTGCCA
* *
22909635 ATAGGGATAAGGGGGACGTTGGTGAGAGCAATGCTATAATGGTGTGTAGAGGCTAGTGCATGTAG
66 ATAGGGATAAGGGGGACGTTGGTGAGAGCAAGGCTATAATGGTGTGTAAAGGCTAGTGCATGTAG
22909700 GGG
131 GGG
22909703 CTTGATACGT
Statistics
Matches: 126, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
134 125 0.99
135 1 0.01
ACGTcount: A:0.19, C:0.07, G:0.38, T:0.35
Consensus pattern (134 bp):
TTTTGGTGGTGGTGGGTAATTTAGGATGGGTTTCTATTAAGGTGTTTTTCTTTCTGATGGTGCCA
ATAGGGATAAGGGGGACGTTGGTGAGAGCAAGGCTATAATGGTGTGTAAAGGCTAGTGCATGTAG
GGGT
Found at i:22911885 original size:10 final size:10
Alignment explanation
Indices: 22911870--22911902 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
22911860 AAAGGTTGGC
*
22911870 AAAAAATATT
1 AAAAAATAAT
22911880 AAAAAATAAT
1 AAAAAATAAT
22911890 AAAAAATAAT
1 AAAAAATAAT
22911900 AAA
1 AAA
22911903 CTTTGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:22913906 original size:21 final size:21
Alignment explanation
Indices: 22913880--22913936 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
22913870 TCTGGTAAGG
*
22913880 AGGGGATTGATCCCTCCCCTT
1 AGGGGATCGATCCCTCCCCTT
* *
22913901 AGGGGATCGATCCTTTCCCTT
1 AGGGGATCGATCCCTCCCCTT
22913922 AGGGGATCGATCCCT
1 AGGGGATCGATCCCT
22913937 TTTATCCACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (21 bp):
AGGGGATCGATCCCTCCCCTT
Found at i:22924100 original size:21 final size:17
Alignment explanation
Indices: 22924073--22924128 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
22924063 GGAATTAAAC
*
22924073 AAAAAATTAAAAATAAT
1 AAAAAAATAAAAATAAT
22924090 AAAAGGTAAAT--AAATAAT
1 AAAA---AAATAAAAATAAT
22924108 AAAAAAATAAAAATAAT
1 AAAAAAATAAAAATAAT
22924125 AAAA
1 AAAA
22924129 TTTTAATGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
15 4 0.12
17 15 0.45
18 11 0.33
20 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.20
Consensus pattern (17 bp):
AAAAAAATAAAAATAAT
Found at i:22924128 original size:14 final size:15
Alignment explanation
Indices: 22924083--22924157 Score: 55
Period size: 15 Copynumber: 4.7 Consensus size: 15
22924073 AAAAAATTAA
22924083 AAATAATAAAAGGTAAAT
1 AAATAATAAAA---AAAT
22924101 AAATAATAAAAAAAT
1 AAATAATAAAAAAAT
*
22924116 AAA-AATAATAAAAT
1 AAATAATAAAAAAAT
**
22924130 -TTTAATGAAAAAAAT
1 AAATAAT-AAAAAAAT
22924145 AAAATATATAAAA
1 -AAATA-ATAAAA
22924158 CTATAAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
14 13 0.28
15 14 0.30
17 6 0.13
18 13 0.28
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (15 bp):
AAATAATAAAAAAAT
Found at i:22924129 original size:29 final size:29
Alignment explanation
Indices: 22924097--22924157 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
22924087 AATAAAAGGT
22924097 AAATAAATAAT-AAAAAAATAAAA-ATAATA
1 AAAT-AATAATGAAAAAAATAAAATAT-ATA
**
22924126 AAATTTTAATGAAAAAAATAAAATATATA
1 AAATAATAATGAAAAAAATAAAATATATA
22924155 AAA
1 AAA
22924158 CTATAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 4 0.14
29 22 0.79
30 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (29 bp):
AAATAATAATGAAAAAAATAAAATATATA
Found at i:22924297 original size:19 final size:20
Alignment explanation
Indices: 22924275--22924360 Score: 81
Period size: 19 Copynumber: 4.5 Consensus size: 20
22924265 AATGAAATTC
*
22924275 GAAACCCTAGGTGAAA-CCT
1 GAAACCCTAAGTGAAACCCT
22924294 GAAACCCTAAGTGAAACCCT
1 GAAACCCTAAGTGAAACCCT
* * * * *
22924314 -AAATCTTATGTCAAA-CTT
1 GAAACCCTAAGTGAAACCCT
*
22924332 GAAACCCTAAATGAAACCCT
1 GAAACCCTAAGTGAAACCCT
22924352 -AAACCCTAA
1 GAAACCCTAA
22924361 ACAAAACCAT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
18 2 0.04
19 45 0.87
20 5 0.10
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.20
Consensus pattern (20 bp):
GAAACCCTAAGTGAAACCCT
Found at i:22926152 original size:3 final size:3
Alignment explanation
Indices: 22926132--22926194 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
22926122 ACATGAAAGT
*
22926132 TAA TAA AAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22926179 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
22926195 CATGATATTA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:22929435 original size:16 final size:15
Alignment explanation
Indices: 22929405--22929569 Score: 72
Period size: 15 Copynumber: 10.6 Consensus size: 15
22929395 GAATCCACTC
22929405 AAAG-AAAA-AAAAA
1 AAAGAAAAAGAAAAA
22929418 AAAGAAAAAGATAAAA
1 AAAGAAAAAGA-AAAA
22929434 AAAGGGAAAAAGTGAAAAA
1 AAA--GAAAAA--GAAAAA
*
22929453 GTGAAAGAAAAAAGAAAAG
1 ---AAAG-AAAAAGAAAAA
22929472 AAAGAAAAAGAAAAA
1 AAAGAAAAAGAAAAA
*
22929487 CAAAGAATGAA-AAAAA
1 -AAAGAA-AAAGAAAAA
** ***
22929503 AAATTAGGTGAAAAA
1 AAAGAAAAAGAAAAA
22929518 AAA-AAAAGAGAAAAA
1 AAAGAAAA-AGAAAAA
* **
22929533 AAGGAAAAAG-TGAA
1 AAAGAAAAAGAAAAA
* *
22929547 AGA-AAAAAGAAAAG
1 AAAGAAAAAGAAAAA
22929561 AAAGAAAAA
1 AAAGAAAAA
22929570 AACATAAATG
Statistics
Matches: 114, Mismatches: 20, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
13 10 0.09
14 12 0.11
15 38 0.33
16 26 0.23
17 2 0.02
18 6 0.05
19 9 0.08
20 3 0.03
21 5 0.04
22 3 0.03
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.05
Consensus pattern (15 bp):
AAAGAAAAAGAAAAA
Found at i:22929478 original size:20 final size:19
Alignment explanation
Indices: 22929455--22929505 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
22929445 GTGAAAAAGT
22929455 GAAAGAAAAAAGA-AAAGAAA
1 GAAA-AAAAAA-ACAAAGAAA
*
22929475 GAAAAAGAAAAACAAAGAAT
1 GAAAAA-AAAAACAAAGAAA
22929495 GAAAAAAAAAA
1 GAAAAAAAAAA
22929506 TTAGGTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (19 bp):
GAAAAAAAAAACAAAGAAA
Found at i:22929570 original size:16 final size:16
Alignment explanation
Indices: 22929455--22929570 Score: 62
Period size: 16 Copynumber: 6.7 Consensus size: 16
22929445 GTGAAAAAGT
22929455 GAAAGAAAAAAGAAAA
1 GAAAGAAAAAAGAAAA
22929471 GAAAG-AAAAAGAAAAA
1 GAAAGAAAAAAG-AAAA
*
22929487 CAAAGAATGAAAA-AAAA
1 GAAAGAA--AAAAGAAAA
22929504 -AATTAGGTGAAAAAA-AAAA
1 GAA--A---GAAAAAAGAAAA
22929523 -AAGAGAAAAAAAGGAAAAA
1 GAA-AG-AAAAAA-G-AAAA
22929542 GTGAAAGAAAAAAGAAAA
1 --GAAAGAAAAAAGAAAA
22929560 GAAAGAAAAAA
1 GAAAGAAAAAA
22929571 ACATAAATGA
Statistics
Matches: 82, Mismatches: 2, Indels: 32
0.71 0.02 0.28
Matches are distributed among these distances:
15 7 0.09
16 32 0.39
17 5 0.06
18 6 0.07
19 19 0.23
20 6 0.07
21 5 0.06
22 2 0.02
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (16 bp):
GAAAGAAAAAAGAAAA
Found at i:22929930 original size:12 final size:11
Alignment explanation
Indices: 22929911--22929980 Score: 77
Period size: 12 Copynumber: 6.1 Consensus size: 11
22929901 ATCAACAAAA
*
22929911 AAAAAAAGATG
1 AAAAAAAGAAG
22929922 AACAAAAAGAAG
1 AA-AAAAAGAAG
*
22929934 AAAAAAAATAAG
1 -AAAAAAAGAAG
*
22929946 AAAAAAATAAG
1 AAAAAAAGAAG
22929957 AAAAAGAAGAAG
1 AAAAA-AAGAAG
*
22929969 AAAAAAATAAG
1 AAAAAAAGAAG
22929980 A
1 A
22929981 TGAAAAGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
11 24 0.46
12 26 0.50
13 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.14, T:0.06
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:22929951 original size:23 final size:23
Alignment explanation
Indices: 22929910--22929980 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
22929900 AATCAACAAA
* *
22929910 AAAAAAAAGATGAACAAAAAGAAG
1 AAAAAAAAGAAGAA-AAAAATAAG
*
22929934 AAAAAAAATAAGAAAAAAATAAG
1 AAAAAAAAGAAGAAAAAAATAAG
*
22929957 AAAAAGAAGAAGAAAAAAATAAG
1 AAAAAAAAGAAGAAAAAAATAAG
22929980 A
1 A
22929981 TGAAAAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 30 0.71
24 12 0.29
ACGTcount: A:0.79, C:0.01, G:0.14, T:0.06
Consensus pattern (23 bp):
AAAAAAAAGAAGAAAAAAATAAG
Found at i:22929980 original size:14 final size:14
Alignment explanation
Indices: 22929908--22929992 Score: 53
Period size: 15 Copynumber: 5.6 Consensus size: 14
22929898 ATAATCAACA
* *
22929908 AAAAAAAAAAGATG
1 AAAAAAAGAAGAAG
*
22929922 AACAAAAAGAAGAAA
1 AA-AAAAAGAAGAAG
* *
22929937 AAAAATAAGAAAAAAAT
1 AAAAA-AAG--AAGAAG
22929954 AAGAAAAAGAAGAAG
1 AA-AAAAAGAAGAAG
* *
22929969 AAAAAAATAAGATG
1 AAAAAAAGAAGAAG
22929983 AAAAGAAAGA
1 AAAA-AAAGA
22929993 GATAAATATG
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
14 19 0.35
15 24 0.44
17 9 0.16
18 3 0.05
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (14 bp):
AAAAAAAGAAGAAG
Found at i:22929992 original size:23 final size:23
Alignment explanation
Indices: 22929910--22929989 Score: 88
Period size: 23 Copynumber: 3.3 Consensus size: 23
22929900 AATCAACAAA
* * *
22929910 AAAAAAAAGATGAACAAAAAGAAG
1 AAAAAGAAGAAGAA-AAAAATAAG
* *
22929934 AAAAAAAATAAGAAAAAAATAAG
1 AAAAAGAAGAAGAAAAAAATAAG
22929957 AAAAAGAAGAAGAAAAAAATAAG
1 AAAAAGAAGAAGAAAAAAATAAG
22929980 ATGAAAAGAA
1 A--AAAAGAA
22929990 AGAGATAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 30 0.61
24 12 0.24
25 7 0.14
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (23 bp):
AAAAAGAAGAAGAAAAAAATAAG
Found at i:22931440 original size:22 final size:23
Alignment explanation
Indices: 22931415--22931461 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
22931405 AGATAAGAAG
* *
22931415 TTTT-AAACAAATAGTGAACATT
1 TTTTGAAACAAAAAGTGAAAATT
*
22931437 TTTTGAAATAAAAAGTGAAAATT
1 TTTTGAAACAAAAAGTGAAAATT
22931460 TT
1 TT
22931462 GAAGTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (23 bp):
TTTTGAAACAAAAAGTGAAAATT
Found at i:22931626 original size:39 final size:40
Alignment explanation
Indices: 22931582--22931780 Score: 169
Period size: 40 Copynumber: 5.0 Consensus size: 40
22931572 AAGACCTTCG
22931582 GCAAAATTCTAAATCTTTGAATGA-TTTCAAAACCTCTAA
1 GCAAAATTCTAAATCTTTGAATGATTTTCAAAACCTCTAA
* * * * *
22931621 CCAAAATTTTAGATTTTTGAACT-ATTTTCAAGACCTCTGAA
1 GCAAAATTCTAAATCTTTGAA-TGATTTTCAAAACCTCT-AA
* *
22931662 -CAAAACTT-TAAATTTTTAAATGATTTTCAAATACCTCTAA
1 GCAAAA-TTCTAAATCTTTGAATGATTTTCAAA-ACCTCTAA
* * * *
22931702 GC-AAA-TCTTAAATCTTTGAATGATCTCCAAGACCTCCAA
1 GCAAAATTC-TAAATCTTTGAATGATTTTCAAAACCTCTAA
* *
22931741 GCAAAATTTTAAAT-TTTCGAAAGATTTTCAAAGACCTCTA
1 GCAAAATTCTAAATCTTT-GAATGATTTTCAAA-ACCTCTA
22931781 GGTGAAATTT
Statistics
Matches: 127, Mismatches: 20, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
38 1 0.01
39 31 0.24
40 77 0.61
41 18 0.14
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (40 bp):
GCAAAATTCTAAATCTTTGAATGATTTTCAAAACCTCTAA
Done.