Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008312.1 Hibiscus syriacus cultivar Beakdansim tig00111005_pilon, 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: 1258310
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:653613 original size:13 final size:11
Alignment explanation
Indices: 653597--653696 Score: 69
Period size: 12 Copynumber: 8.7 Consensus size: 11
653587 TCTCTCATTT
653597 TTTTCTCTTTCTC
1 TTTT-TCTTT-TC
653610 TTTTTCTTTTC
1 TTTTTCTTTTC
*
653621 TTTCTCATTTTC
1 TTTTTC-TTTTC
*
653633 ATTTT-TTTTC
1 TTTTTCTTTTC
*
653643 TTCTTCGTTTTC
1 TTTTTC-TTTTC
*
653655 ATTTTCTTTTTC
1 TTTTTC-TTTTC
*
653667 TATTT-TTTTC
1 TTTTTCTTTTC
* *
653677 TTCTTCTGTTTT
1 TTTTTCT-TTTC
653689 TTTTTCTT
1 TTTTTCTT
653697 CTTATAATAT
Statistics
Matches: 68, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
10 16 0.24
11 9 0.13
12 39 0.57
13 4 0.06
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:653619 original size:22 final size:22
Alignment explanation
Indices: 653594--653665 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 22
653584 TCATCTCTCA
*
653594 TTTTTTTCTC-TTTCTCTTTTTC
1 TTTTTTTCTCATTT-TCATTTTC
653616 TTTTCTTTCTCATTTTCATTTT-
1 TTTT-TTTCTCATTTTCATTTTC
* *
653638 TTTTCTTCTTCGTTTTCATTTTC
1 TTTTTTTC-TCATTTTCATTTTC
653661 TTTTT
1 TTTTT
653666 CTATTTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.07
22 20 0.48
23 16 0.38
24 3 0.07
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.75
Consensus pattern (22 bp):
TTTTTTTCTCATTTTCATTTTC
Found at i:653627 original size:34 final size:32
Alignment explanation
Indices: 653576--653696 Score: 89
Period size: 34 Copynumber: 3.4 Consensus size: 32
653566 AAGTGAAATA
*
653576 TTTTTTTTTCATCTCTCATTTTTTTCTCTTTCTC
1 TTTTTTTTTC-TTTCTCATTTTTTTCT-TTTCTC
*
653610 TTTTTCTTTTCTTTCTCATTTTCATTTTTTTTCTTC
1 TTTTT-TTTTCTTTCTCATTTT--TTTCTTTTC-TC
* *
653646 TTCGTTTTCATTTTCTTTTTCTATTTTTTTCTTCTTCTG
1 -T--TTTT--TTTTCTTTCTC-ATTTTTTTCTT-TTCTC
653685 TTTTTTTTTCTT
1 TTTTTTTTTCTT
653697 CTTATAATAT
Statistics
Matches: 71, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
34 22 0.31
35 9 0.13
36 10 0.14
37 1 0.01
38 1 0.01
39 10 0.14
40 13 0.18
41 5 0.07
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (32 bp):
TTTTTTTTTCTTTCTCATTTTTTTCTTTTCTC
Found at i:653632 original size:17 final size:17
Alignment explanation
Indices: 653575--653643 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
653565 CAAGTGAAAT
* *
653575 ATTTTTTTTTCATCTCTC
1 ATTTTCTTTTC-TTTCTC
653593 ATTTT-TTTCTCTTTCTC
1 ATTTTCTTT-TCTTTCTC
*
653610 TTTTTCTTTTCTTTCTC
1 ATTTTCTTTTCTTTCTC
*
653627 ATTTTCATTTTTTTTCT
1 ATTTTC-TTTTCTTTCT
653644 TCTTCGTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
17 25 0.57
18 19 0.43
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTCTTTTCTTTCTC
Found at i:653634 original size:6 final size:5
Alignment explanation
Indices: 653611--653683 Score: 51
Period size: 6 Copynumber: 13.2 Consensus size: 5
653601 CTCTTTCTCT
653611 TTTTC TTTTC TTTCTC ATTTTC ATTTT- TTTTC TTCTTC GTTTTC ATTTTC
1 TTTTC TTTTC TTT-TC -TTTTC -TTTTC TTTTC TT-TTC -TTTTC -TTTTC
653661 TTTTTC TATTT- TTTTC TTCTTC T
1 -TTTTC T-TTTC TTTTC TT-TTC T
653684 GTTTTTTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
4 7 0.12
5 14 0.24
6 32 0.55
7 5 0.09
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:653635 original size:40 final size:41
Alignment explanation
Indices: 653591--653672 Score: 107
Period size: 40 Copynumber: 2.0 Consensus size: 41
653581 TTTTCATCTC
*
653591 TCATTTTTTTCTCTT-TCTCTTTTTC-TTTTCTTTCTC-ATTT
1 TCATTTTTTT-TCTTCT-TCGTTTTCATTTTCTTTCTCTATTT
*
653631 TCATTTTTTTTCTTCTTCGTTTTCATTTTCTTTTTCTATTT
1 TCATTTTTTTTCTTCTTCGTTTTCATTTTCTTTCTCTATTT
653672 T
1 T
653673 TTTCTTCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
39 11 0.30
40 21 0.57
41 5 0.14
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.73
Consensus pattern (41 bp):
TCATTTTTTTTCTTCTTCGTTTTCATTTTCTTTCTCTATTT
Found at i:653659 original size:18 final size:16
Alignment explanation
Indices: 653634--653699 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 16
653624 CTCATTTTCA
653634 TTTTTTTTCTTCTTCG
1 TTTTTTTTCTTCTTCG
*
653650 TTTTCATTTTCTTTTTC-
1 TTTT--TTTTCTTCTTCG
653667 TATTTTTTTCTTCTTCTG
1 T-TTTTTTTCTTCTTC-G
653685 TTTTTTTTTCTTCTT
1 -TTTTTTTTCTTCTT
653700 ATAATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
16 14 0.33
17 1 0.02
18 26 0.62
19 1 0.02
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTTTTCTTCTTCG
Found at i:653695 original size:15 final size:16
Alignment explanation
Indices: 653635--653698 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
653625 TCATTTTCAT
653635 TTTTTTTCTTCTTCGT-
1 TTTTTTTCTTCTTC-TA
*
653651 TTTCATTTTCTTTTTCTA
1 TTT--TTTTCTTCTTCTA
*
653669 TTTTTTTCTTCTTCTG
1 TTTTTTTCTTCTTCTA
653685 TTTTTTT-TTCTTCT
1 TTTTTTTCTTCTTCT
653699 TATAATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
15 7 0.17
16 21 0.50
17 1 0.02
18 13 0.31
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTTTCTTCTTCTA
Found at i:653708 original size:37 final size:34
Alignment explanation
Indices: 653635--653712 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
653625 TCATTTTCAT
*
653635 TTTTTTTCTTCTTCGTTTTCATTTTCTTTTTCTA
1 TTTTTTTCTTCTTCGTTTTCATTTTCTTTTTATA
*
653669 TTTTTTTCTTCTTCTGTTTT-TTTTTCTTCTTATAATA
1 TTTTTTTCTTCTTC-GTTTTCATTTTCTT-TT-T-ATA
653706 TTTTTTT
1 TTTTTTT
653713 AGCTCTTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
34 21 0.55
35 7 0.18
36 1 0.03
37 9 0.24
ACGTcount: A:0.08, C:0.14, G:0.03, T:0.76
Consensus pattern (34 bp):
TTTTTTTCTTCTTCGTTTTCATTTTCTTTTTATA
Found at i:654799 original size:6 final size:6
Alignment explanation
Indices: 654788--654822 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
654778 ATCATAATCG
654788 TGACCA TGACCA TGACCA TGACCA TGACCA TGACC
1 TGACCA TGACCA TGACCA TGACCA TGACCA TGACC
654823 TATGGGTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.17
Consensus pattern (6 bp):
TGACCA
Found at i:656831 original size:40 final size:40
Alignment explanation
Indices: 656787--656908 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
656777 ACCGTAGTGC
656787 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
656827 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAC
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
656867 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
656907 TA
1 TA
656909 TAAACCTGCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:660109 original size:23 final size:23
Alignment explanation
Indices: 660082--660130 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
660072 TGGTGGTTGG
660082 TTTAATGG-ATATTTTAACTTTAT
1 TTTAATGGTATA-TTTAACTTTAT
*
660105 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
660128 TTT
1 TTT
660131 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:669518 original size:27 final size:28
Alignment explanation
Indices: 669487--669539 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
669477 GGTTGATTTT
669487 GGTCGAATGGAATG-TGTAT-ATTTTTCA
1 GGTCGAAT-GAATGATGTATAATTTTTCA
*
669514 GGTCGGATGAATGATGTATAATTTTT
1 GGTCGAATGAATGATGTATAATTTTT
669540 AGACTAGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 12 0.52
28 6 0.26
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (28 bp):
GGTCGAATGAATGATGTATAATTTTTCA
Found at i:672786 original size:20 final size:20
Alignment explanation
Indices: 672761--672799 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
672751 GTACTATCGC
* *
672761 AACGCGATTTTCGTTTTCGA
1 AACGCGAATTTCATTTTCGA
672781 AACGCGAATTTCATTTTCG
1 AACGCGAATTTCATTTTCG
672800 CAATGCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (20 bp):
AACGCGAATTTCATTTTCGA
Found at i:672894 original size:20 final size:20
Alignment explanation
Indices: 672865--672936 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
672855 GGAGAATTTG
*
672865 CGTTGTGATTTACATATTAT
1 CGTTGCGATTTACATATTAT
* **
672885 CGTTGCGATTTACCTATTCG
1 CGTTGCGATTTACATATTAT
*
672905 CGTTGCGAATTACATATTAT
1 CGTTGCGATTTACATATTAT
672925 CGTTGCGATTTA
1 CGTTGCGATTTA
672937 ACTGTTCGCG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTACATATTAT
Found at i:672918 original size:40 final size:40
Alignment explanation
Indices: 672864--672955 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
672854 TGGAGAATTT
* *
672864 GCGTTGTGATTTACATATTATCGTTGCGATTTACCTATTC
1 GCGTTGTGAATTACATATTATCGTTGCGATTTAACTATTC
* *
672904 GCGTTGCGAATTACATATTATCGTTGCGATTTAACTGTTC
1 GCGTTGTGAATTACATATTATCGTTGCGATTTAACTATTC
672944 GCGTTGTGAATT
1 GCGTTGTGAATT
672956 TGACTTTCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (40 bp):
GCGTTGTGAATTACATATTATCGTTGCGATTTAACTATTC
Found at i:672948 original size:20 final size:20
Alignment explanation
Indices: 672885--672972 Score: 72
Period size: 20 Copynumber: 4.4 Consensus size: 20
672875 TACATATTAT
*
672885 CGTTGCGATTTACCTATTCG
1 CGTTGCGATTTAACTATTCG
* **
672905 CGTTGCGAATT-ACATATTAT
1 CGTTGCGATTTAAC-TATTCG
*
672925 CGTTGCGATTTAACTGTTCG
1 CGTTGCGATTTAACTATTCG
* * *
672945 CGTTGTGAATTTGACT-TTCA
1 CGTTGCG-ATTTAACTATTCG
672965 CGTTGCGA
1 CGTTGCGA
672973 ATTTGAAAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
19 2 0.04
20 42 0.79
21 9 0.17
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTAACTATTCG
Found at i:672974 original size:20 final size:21
Alignment explanation
Indices: 672925--672978 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
672915 TACATATTAT
* *
672925 CGTTGCG-ATTTAACTGTTCG
1 CGTTGCGAATTTGACTGTTCA
*
672945 CGTTGTGAATTTGACT-TTCA
1 CGTTGCGAATTTGACTGTTCA
672965 CGTTGCGAATTTGA
1 CGTTGCGAATTTGA
672979 AAAATCACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.41
Consensus pattern (21 bp):
CGTTGCGAATTTGACTGTTCA
Found at i:673011 original size:20 final size:20
Alignment explanation
Indices: 672986--673057 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
672976 TGAAAAATCA
672986 CAACGCGAATTTCATTTTCG
1 CAACGCGAATTTCATTTTCG
***
673006 CAACGCG-ATTCTCTAAAATCG
1 CAACGCGAATT-TC-ATTTTCG
*
673027 CAACTCGAATTTCATTTTCG
1 CAACGCGAATTTCATTTTCG
*
673047 CAACGCCAATT
1 CAACGCGAATT
673058 ACCGATATAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
19 3 0.08
20 22 0.55
21 12 0.30
22 3 0.08
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (20 bp):
CAACGCGAATTTCATTTTCG
Found at i:673189 original size:20 final size:20
Alignment explanation
Indices: 673163--673215 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
673153 TGGAGAATTC
673163 GCGTTGCAATTTACATATTAT
1 GCGTTGCAATTTACATATT-T
* *
673184 -CGTTGCGATTTACCTATTT
1 GCGTTGCAATTTACATATTT
673203 GCGTTGCGAATTT
1 GCGTTGC-AATTT
673216 GGAAAATCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.81
21 4 0.15
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (20 bp):
GCGTTGCAATTTACATATTT
Found at i:673339 original size:20 final size:19
Alignment explanation
Indices: 673305--673379 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 19
673295 AATTTGGAGA
*
673305 ATTTGCGTTGTGATTTACAT
1 ATTTGCGTTGCGATTTAC-T
673325 ATTAT-CGTTGCGATTTACT
1 ATT-TGCGTTGCGATTTACT
*
673344 ATTTGCGATGCGATTTTGACT
1 ATTTGCGTTGCGA-TTT-ACT
*
673365 -TTCGCGTTGCGATTT
1 ATTTGCGTTGCGATTT
673380 TGGAACCTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.02
19 14 0.30
20 28 0.60
21 4 0.09
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (19 bp):
ATTTGCGTTGCGATTTACT
Found at i:673628 original size:60 final size:60
Alignment explanation
Indices: 673560--673686 Score: 191
Period size: 60 Copynumber: 2.1 Consensus size: 60
673550 ATTCACATTA
* *
673560 CGATTTACATATTATCGTTGCAATTTACCTAGTCGCGTTGCGATTTACATATTATCGTTG
1 CGATTTACATATTAGCGTTGCAATTTACATAGTCGCGTTGCGATTTACATATTATCGTTG
* * * **
673620 CGATTTACATTTTCGCGTTGCGATTTACATTTTCGCGTTGCGATTTACATATTATCGTTG
1 CGATTTACATATTAGCGTTGCAATTTACATAGTCGCGTTGCGATTTACATATTATCGTTG
673680 CGATTTA
1 CGATTTA
673687 ACTATTCGTG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.43
Consensus pattern (60 bp):
CGATTTACATATTAGCGTTGCAATTTACATAGTCGCGTTGCGATTTACATATTATCGTTG
Found at i:673699 original size:20 final size:20
Alignment explanation
Indices: 673560--673702 Score: 162
Period size: 20 Copynumber: 7.2 Consensus size: 20
673550 ATTCACATTA
**
673560 CGATTTACATATTATCGTTG
1 CGATTTACATATTCGCGTTG
* * *
673580 CAATTTACCTAGTCGCGTTG
1 CGATTTACATATTCGCGTTG
**
673600 CGATTTACATATTATCGTTG
1 CGATTTACATATTCGCGTTG
*
673620 CGATTTACATTTTCGCGTTG
1 CGATTTACATATTCGCGTTG
*
673640 CGATTTACATTTTCGCGTTG
1 CGATTTACATATTCGCGTTG
**
673660 CGATTTACATATTATCGTTG
1 CGATTTACATATTCGCGTTG
*
673680 CGATTTA-ACTATTCGTGTTG
1 CGATTTACA-TATTCGCGTTG
673700 CGA
1 CGA
673703 ATTTGGAACC
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
19 1 0.01
20 102 0.99
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (20 bp):
CGATTTACATATTCGCGTTG
Found at i:673717 original size:20 final size:20
Alignment explanation
Indices: 673692--673747 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
673682 ATTTAACTAT
673692 TCGTGTTGCGAATTTGGAACC
1 TCGTGTTGCGAATTTGG-ACC
* *
673713 T-GTGTTGCGAAATTGGACT
1 TCGTGTTGCGAATTTGGACC
*
673732 TCGCGTTGCGAATTTG
1 TCGTGTTGCGAATTTG
673748 AGATCACGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 26 0.87
21 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (20 bp):
TCGTGTTGCGAATTTGGACC
Found at i:674416 original size:30 final size:30
Alignment explanation
Indices: 674382--674440 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
674372 ACATTGATTT
674382 TATTTTAAAATATAAGAA-CCTCTTATACAA
1 TATTTTAAAATATAA-AATCCTCTTATACAA
* *
674412 TATTTTTAATTATAAAATCCTCTTATACA
1 TATTTTAAAATATAAAATCCTCTTATACA
674441 TTTTTGCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (30 bp):
TATTTTAAAATATAAAATCCTCTTATACAA
Found at i:680635 original size:20 final size:20
Alignment explanation
Indices: 680612--680659 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
680602 TTTAAGTTAA
680612 TTAAAATACGTTTAAAG-TGT
1 TTAAAATACGTTTAAAGCT-T
* *
680632 TTAAAACATGTTTAAAGCTT
1 TTAAAATACGTTTAAAGCTT
680652 TTAAAATA
1 TTAAAATA
680660 TGAAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (20 bp):
TTAAAATACGTTTAAAGCTT
Found at i:680862 original size:33 final size:35
Alignment explanation
Indices: 680825--680915 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 35
680815 AACTTTCATC
680825 AAAGTTTTGAAACTTTAAAAAATAGTGTGTTTAAAAGTTG
1 AAAGTTTTGAAACTTTAAAAAATAGTGTGTTT--AA---G
*
680865 AAAGTTTTGAAACTCTAAAAAATAGTGTGTTT-A-
1 AAAGTTTTGAAACTTTAAAAAATAGTGTGTTTAAG
* *
680898 AAAGTTTCGATACTTTAA
1 AAAGTTTTGAAACTTTAA
680916 CAATAGTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
33 15 0.32
37 1 0.02
40 31 0.66
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.37
Consensus pattern (35 bp):
AAAGTTTTGAAACTTTAAAAAATAGTGTGTTTAAG
Found at i:680869 original size:40 final size:40
Alignment explanation
Indices: 680825--680903 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
680815 AACTTTCATC
*
680825 AAAGTTTTGAAACTTTAAAAAATAGTGTGTTTAAAAGTTG
1 AAAGTTTTGAAACTCTAAAAAATAGTGTGTTTAAAAGTTG
680865 AAAGTTTTGAAACTCTAAAAAATAGTGTGTTTAAAAGTT
1 AAAGTTTTGAAACTCTAAAAAATAGTGTGTTTAAAAGTT
680904 TCGATACTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (40 bp):
AAAGTTTTGAAACTCTAAAAAATAGTGTGTTTAAAAGTTG
Found at i:680943 original size:20 final size:20
Alignment explanation
Indices: 680920--680972 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
680910 CTTTAACAAT
*
680920 AGTTTTGAAACTTGCAT-CAA
1 AGTTTTGAAACTTAC-TCCAA
*
680940 AGTTTCGAAACTTACTCCAA
1 AGTTTTGAAACTTACTCCAA
*
680960 AGTTTTTAAACTT
1 AGTTTTGAAACTT
680973 CATGTGCAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (20 bp):
AGTTTTGAAACTTACTCCAA
Found at i:682244 original size:18 final size:17
Alignment explanation
Indices: 682207--682251 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
682197 AAAATTGAAT
682207 TTTGAAAATCAAAATAAAA
1 TTTGAAAA--AAAATAAAA
*
682226 TTTTAAAAAAAAGTAAAA
1 TTTGAAAAAAAA-TAAAA
682244 TTTGAAAA
1 TTTGAAAA
682252 TTTTGAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 12 0.52
19 7 0.30
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (17 bp):
TTTGAAAAAAAATAAAA
Found at i:683134 original size:25 final size:25
Alignment explanation
Indices: 683106--683154 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
683096 TATGTTATCA
* *
683106 TGTTTAAAATTATACATAATATTTT
1 TGTTAAAAATTATAAATAATATTTT
683131 TGTTAAAAATTATAAATAATATTT
1 TGTTAAAAATTATAAATAATATTT
683155 GAAAATAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (25 bp):
TGTTAAAAATTATAAATAATATTTT
Found at i:684442 original size:7 final size:7
Alignment explanation
Indices: 684430--684481 Score: 104
Period size: 7 Copynumber: 7.4 Consensus size: 7
684420 GATGACACTT
684430 CAAATCA
1 CAAATCA
684437 CAAATCA
1 CAAATCA
684444 CAAATCA
1 CAAATCA
684451 CAAATCA
1 CAAATCA
684458 CAAATCA
1 CAAATCA
684465 CAAATCA
1 CAAATCA
684472 CAAATCA
1 CAAATCA
684479 CAA
1 CAA
684482 TAGGTTCATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.58, C:0.29, G:0.00, T:0.13
Consensus pattern (7 bp):
CAAATCA
Found at i:691623 original size:28 final size:28
Alignment explanation
Indices: 691559--691623 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
691549 TCTTATTAGC
* * * *
691559 TTGTTTAACGTAAATTATTCGAGCTCGT
1 TTGTTTAATGTAAATTATTCAAACTCAT
691587 TTGTTTAATGTAAATTATTCAAACTCAT
1 TTGTTTAATGTAAATTATTCAAACTCAT
691615 TTGTTTAAT
1 TTGTTTAAT
691624 CGAGAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (28 bp):
TTGTTTAATGTAAATTATTCAAACTCAT
Found at i:691723 original size:14 final size:15
Alignment explanation
Indices: 691695--691738 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
691685 GTTCATAAAT
691695 TAATATTAGGATTTA
1 TAATATTAGGATTTA
*
691710 TAAT-TTAGGGTTTA
1 TAATATTAGGATTTA
* *
691724 TAATCTTAAGATTTA
1 TAATATTAGGATTTA
691739 GAGATTGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (15 bp):
TAATATTAGGATTTA
Found at i:692972 original size:26 final size:27
Alignment explanation
Indices: 692921--692972 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
692911 CTAACTGCTT
* *
692921 AATACATGTGCATATTTCTTTAACAGC
1 AATACACGTGCATAGTTCTTTAACAGC
692948 AATACACGTGCAT-GTTCTTTAACAG
1 AATACACGTGCATAGTTCTTTAACAG
692973 TTAACATTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (27 bp):
AATACACGTGCATAGTTCTTTAACAGC
Found at i:693068 original size:36 final size:36
Alignment explanation
Indices: 693021--693233 Score: 331
Period size: 36 Copynumber: 5.9 Consensus size: 36
693011 AGATGAACAA
* *
693021 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
*
693057 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
* *
693092 CTTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACT
1 -TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
*
693129 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
693164 CTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
1 -TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
*
693201 TTGAATCGAAAGTGCTGATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
693234 TTCTTATTCA
Statistics
Matches: 162, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
35 2 0.01
36 158 0.98
37 2 0.01
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (36 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
Found at i:693138 original size:72 final size:72
Alignment explanation
Indices: 693021--693238 Score: 409
Period size: 72 Copynumber: 3.0 Consensus size: 72
693011 AGATGAACAA
693021 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
693086 GTTCTTC
66 GTTCTTC
693093 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
693158 GTTCTTC
66 GTTCTTC
* * *
693165 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACTTTGAATCGAAAGTGCTGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
693230 GTTCTTC
66 GTTCTTC
693237 TT
1 TT
693239 ATTCACCTTC
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 143 1.00
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (72 bp):
TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
GTTCTTC
Found at i:694877 original size:26 final size:27
Alignment explanation
Indices: 694826--694877 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
694816 CTAACTGTTT
* *
694826 AATACATGTGCATATTTCTTTAACAGC
1 AATACACGTGCATAGTTCTTTAACAGC
694853 AATACACGTGCAT-GTTCTTTAACAG
1 AATACACGTGCATAGTTCTTTAACAG
694878 TCTAACACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (27 bp):
AATACACGTGCATAGTTCTTTAACAGC
Found at i:694885 original size:26 final size:26
Alignment explanation
Indices: 694841--694890 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
694831 ATGTGCATAT
*
694841 TTCTTTAACAGCAATACACGTGCATG
1 TTCTTTAACAGCAATACACATGCATG
*
694867 TTCTTTAACAGTCTA-ACACATGCA
1 TTCTTTAACAG-CAATACACATGCA
694891 ATGCAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (26 bp):
TTCTTTAACAGCAATACACATGCATG
Found at i:695415 original size:22 final size:22
Alignment explanation
Indices: 695390--695433 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
695380 TCACTCGTTA
* * *
695390 TACTTTATATTCGTTGAATTTC
1 TACTTTAAATCCGTTCAATTTC
695412 TACTTTAAATCCGTTCAATTTC
1 TACTTTAAATCCGTTCAATTTC
695434 ACGGAGGACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (22 bp):
TACTTTAAATCCGTTCAATTTC
Found at i:701050 original size:9 final size:9
Alignment explanation
Indices: 701036--701069 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
701026 TAAGTAAAAT
701036 ATTAAATAA
1 ATTAAATAA
701045 ATTAAAT-A
1 ATTAAATAA
*
701053 CTTAAATAA
1 ATTAAATAA
701062 ATTAAATA
1 ATTAAATA
701070 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:701051 original size:16 final size:16
Alignment explanation
Indices: 701016--701069 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
701006 ATCTGCAAAA
* * *
701016 AAATATTATATAAGTA
1 AAATATTAAATAAATT
701032 AAATATTAAATAAATT
1 AAATATTAAATAAATT
701048 AAATACTTAAATAAATT
1 AAATA-TTAAATAAATT
701065 AAATA
1 AAATA
701070 CAAAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 18 0.53
17 16 0.47
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATATTAAATAAATT
Found at i:701068 original size:17 final size:17
Alignment explanation
Indices: 701032--701070 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
701022 TATATAAGTA
701032 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
701048 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
701065 AAATAC
1 AAATAC
701071 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:706989 original size:18 final size:18
Alignment explanation
Indices: 706956--706991 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
706946 ACTCAGTTTC
706956 TGCAAAAAAGACAGTACT
1 TGCAAAAAAGACAGTACT
706974 TGCAAAAAAGACAGTACT
1 TGCAAAAAAGACAGTACT
706992 ATTCAAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
TGCAAAAAAGACAGTACT
Found at i:711297 original size:20 final size:20
Alignment explanation
Indices: 711272--711312 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
711262 TCGAGCCAAC
711272 CTTTAGATATTCATATCAAT
1 CTTTAGATATTCATATCAAT
* *
711292 CTTTAGATTTTTATATCAAT
1 CTTTAGATATTCATATCAAT
711312 C
1 C
711313 GTTGTCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.49
Consensus pattern (20 bp):
CTTTAGATATTCATATCAAT
Found at i:714875 original size:18 final size:20
Alignment explanation
Indices: 714830--714878 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
714820 AAATTGATTG
714830 TGAAATAA-TATATTTAATA
1 TGAAATAATTATATTTAATA
*
714849 TTAAA-AATTA-ATTTAA-A
1 TGAAATAATTATATTTAATA
714866 TGAAATAATTATA
1 TGAAATAATTATA
714879 ACCATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 5 0.20
18 13 0.52
19 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
TGAAATAATTATATTTAATA
Found at i:720685 original size:14 final size:15
Alignment explanation
Indices: 720660--720689 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
720650 AATATTAATC
720660 ATATATAAAAACATT
1 ATATATAAAAACATT
720675 ATATA-AAAAACATT
1 ATATATAAAAACATT
720689 A
1 A
720690 AAATATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
ATATATAAAAACATT
Found at i:721399 original size:27 final size:27
Alignment explanation
Indices: 721369--721422 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
721359 TCATTTTCTC
*
721369 CTAAAATTTTAAAGGCTCATCCAAGGA
1 CTAAAATTTCAAAGGCTCATCCAAGGA
721396 CTAAAATTTCAAAGGCTCATCCAAGGA
1 CTAAAATTTCAAAGGCTCATCCAAGGA
721423 TGAACCGAGT
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:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (27 bp):
CTAAAATTTCAAAGGCTCATCCAAGGA
Found at i:725484 original size:21 final size:21
Alignment explanation
Indices: 725460--725501 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
725450 ACTGTAGATC
*
725460 GTCATGTCAGTACCGTGAACT
1 GTCACGTCAGTACCGTGAACT
*
725481 GTCACGTCAGTATCGTGAACT
1 GTCACGTCAGTACCGTGAACT
725502 ACCACATCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
GTCACGTCAGTACCGTGAACT
Found at i:725511 original size:21 final size:21
Alignment explanation
Indices: 725466--725517 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
725456 GATCGTCATG
** *
725466 TCAGTACCGTGAACTGTCACG
1 TCAGTACCGTGAACTACCACA
*
725487 TCAGTATCGTGAACTACCACA
1 TCAGTACCGTGAACTACCACA
*
725508 TCAGCACCGT
1 TCAGTACCGT
725518 AATATTCAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (21 bp):
TCAGTACCGTGAACTACCACA
Found at i:729266 original size:20 final size:19
Alignment explanation
Indices: 729241--729278 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
729231 GTTAAAAAGG
*
729241 ACTTTGAATTATTTTTGAAA
1 ACTTTGAAAT-TTTTTGAAA
729261 ACTTTGAAATTTTTTGAA
1 ACTTTGAAATTTTTTGAA
729279 TAAATTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (19 bp):
ACTTTGAAATTTTTTGAAA
Found at i:730617 original size:2 final size:2
Alignment explanation
Indices: 730610--730649 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
730600 AACAGCGCAC
730610 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
730650 CATTAATCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:731293 original size:21 final size:21
Alignment explanation
Indices: 731267--731309 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
731257 AAAAATATTA
*
731267 AAAAATATTAATATTTTAAAT
1 AAAAATAATAATATTTTAAAT
731288 AAAAATAATAATATTTTAAAT
1 AAAAATAATAATATTTTAAAT
731309 A
1 A
731310 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATAATAATATTTTAAAT
Found at i:731844 original size:29 final size:29
Alignment explanation
Indices: 731788--731849 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
731778 ATCATTTAAT
* * *
731788 TATTAAAAGTTATAAAATAGTCATTCGAC
1 TATTAAAAGTTACAAAATAGACACTCGAC
* *
731817 TATTAAAAGTTACAAGATAGACACTCGAT
1 TATTAAAAGTTACAAAATAGACACTCGAC
731846 TATT
1 TATT
731850 CATTATATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (29 bp):
TATTAAAAGTTACAAAATAGACACTCGAC
Found at i:732976 original size:2 final size:2
Alignment explanation
Indices: 732971--733035 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
732961 TGTGTGTAGA
732971 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
733013 AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
733036 GTAATAAAGT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:733086 original size:14 final size:15
Alignment explanation
Indices: 733050--733113 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 15
733040 TAAAGTAAAA
733050 ATAATAAAATATATAC
1 ATAA-AAAATATATAC
*
733066 AT-AAAAATAT-TAG
1 ATAAAAAATATATAC
*
733079 ATAAAAAAAATAATA-
1 ATAAAAAATAT-ATAC
733094 ATAAAATAAATATATAC
1 AT-AAA-AAATATATAC
733111 ATA
1 ATA
733114 CTAACTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
13 4 0.10
14 14 0.36
15 3 0.08
16 11 0.28
17 7 0.18
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (15 bp):
ATAAAAAATATATAC
Found at i:733097 original size:15 final size:16
Alignment explanation
Indices: 733068--733105 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
733058 ATATATACAT
*
733068 AAAAATATTAGATAAA
1 AAAAATAATAGATAAA
733084 AAAAATAATA-ATAAA
1 AAAAATAATAGATAAA
*
733099 ATAAATA
1 AAAAATA
733106 TATACATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAATAATAGATAAA
Found at i:735008 original size:106 final size:106
Alignment explanation
Indices: 734823--735496 Score: 1057
Period size: 106 Copynumber: 6.4 Consensus size: 106
734813 GTATTGTTCC
* *** * * * * * * * *
734823 GAGTCCAATATCCTCCACCGTGGAGTTGATATTGGTTCTGGAACTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGCTTATTGACAA
*
734888 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
734929 GAGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAGTTGCTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGCTTATTGACAA
*
734994 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
735035 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTACTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGCTTATTGACAA
*
735100 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
735141 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGAGAAGTTGCTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGCTTATTGACAA
735206 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
735247 GAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATAT--TTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT-TGCTTATTGACA
735310 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
735352 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGCTTATTGACAA
*
735416 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
735457 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
735497 GGTAAATCCT
Statistics
Matches: 533, Mismatches: 32, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
103 1 0.00
105 189 0.35
106 342 0.64
107 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGCTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:736354 original size:57 final size:57
Alignment explanation
Indices: 736267--736376 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
736257 TTTTCTCTTC
* *
736267 TTTTTTCTTTTTCTTTTTTCAATTTAGGACGCCCTTTCGGGTTTTCACCCTAAACGT
1 TTTTTTCTTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGT
* * *
736324 TTTTTTTTTTTTTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTTCTTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
736377 GCGAAGTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.14, C:0.22, G:0.12, T:0.53
Consensus pattern (57 bp):
TTTTTTCTTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGT
Found at i:746835 original size:2 final size:2
Alignment explanation
Indices: 746830--746884 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
746820 TGTGTGTAGA
746830 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
746871 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
746885 GTAATAAAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:750138 original size:105 final size:103
Alignment explanation
Indices: 749896--750141 Score: 268
Period size: 105 Copynumber: 2.4 Consensus size: 103
749886 AAGTTTACGT
* ** * *
749896 TATG-TTTTGAAAAAAAA-T-AAAGTTTATGTACTAAAATGGATCAAAATTGATAGTTTAGGTAG
1 TATGATTTT-AAAAAAAATTAAAAGTTTAAGTACTAAAACAGACCAAAATTGATAGTTTAGATAG
**
749958 TAAACGCATTAAATTTTAAATGGCGGGGTACTAAATGTTAGG
65 TAAACGCATTAAATTTTAAAT---GGGGTACTAAACATTAGG
* * * * *
750000 TAT-AATTTAAAAAAAATGAAAAATTTAAATACTAAAACAGACCAAAATTGATAGTTTAGATATT
1 TATGATTTTAAAAAAAATTAAAAGTTTAAGTACTAAAACAGACCAAAATTGATAGTTTAGATAGT
*
750064 AAATGCATTAAATTTTTACAAT-GGGTACTAAACATTAGG
66 AAACGCATTAAA-TTTTA-AATGGGGTACTAAACATTAGG
*
750103 TATGATTTTAAAAAAAAATTAAAAGTTTAGGTACTAAAA
1 TATGATTTT-AAAAAAAATTAAAAGTTTAAGTACTAAAA
750142 TACATAATTT
Statistics
Matches: 117, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
103 26 0.22
104 10 0.09
105 73 0.62
106 5 0.04
107 3 0.03
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (103 bp):
TATGATTTTAAAAAAAATTAAAAGTTTAAGTACTAAAACAGACCAAAATTGATAGTTTAGATAGT
AAACGCATTAAATTTTAAATGGGGTACTAAACATTAGG
Found at i:752258 original size:16 final size:16
Alignment explanation
Indices: 752237--752273 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
752227 TCATACATAA
752237 TATTTAGTTTTTGTTT
1 TATTTAGTTTTTGTTT
752253 TATTTAGTTTTTGTTT
1 TATTTAGTTTTTGTTT
752269 TATTT
1 TATTT
752274 TTAGTCCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.76
Consensus pattern (16 bp):
TATTTAGTTTTTGTTT
Found at i:753498 original size:10 final size:11
Alignment explanation
Indices: 753477--753559 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 11
753467 TTATTTTATA
753477 ATAATATATTT
1 ATAATATATTT
753488 ATAAT-TATTT
1 ATAATATATTT
*
753498 ATTATAT-TTT
1 ATAATATATTT
*
753508 A-AAT-TATTAAA
1 ATAATATATT--T
753519 ATAATATATTAT
1 ATAATATATT-T
753531 ATAATA-ATTT
1 ATAATATATTT
* *
753541 -TTATATTTTT
1 ATAATATATTT
753551 AATAATATA
1 -ATAATATA
753560 AAAATAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
8 1 0.02
9 8 0.15
10 17 0.31
11 10 0.18
12 15 0.27
13 4 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATAATATATTT
Found at i:756951 original size:13 final size:13
Alignment explanation
Indices: 756933--756959 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
756923 CACAGTTGAA
756933 CAGTCTTCATATG
1 CAGTCTTCATATG
756946 CAGTCTTCATATG
1 CAGTCTTCATATG
756959 C
1 C
756960 GCGTCTGTAA
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:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:759540 original size:26 final size:26
Alignment explanation
Indices: 759511--759564 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
759501 CCGAGTAGTT
*
759511 TTCAGATTATTGTAGTAGTAAGTTAC
1 TTCAGATTATTGTAATAGTAAGTTAC
*
759537 TTCAGCTTATTGTAATAGTAAGTTAC
1 TTCAGATTATTGTAATAGTAAGTTAC
759563 TT
1 TT
759565 TAAGTGTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (26 bp):
TTCAGATTATTGTAATAGTAAGTTAC
Found at i:763008 original size:29 final size:29
Alignment explanation
Indices: 762966--763025 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
762956 CATCGATACG
*
762966 AGCATTGATACAGCCATGAAGACTTCTCA
1 AGCATCGATACAGCCATGAAGACTTCTCA
*
762995 AGCATCGATACAGCCGTGAAGACTTCTCA
1 AGCATCGATACAGCCATGAAGACTTCTCA
763024 AG
1 AG
763026 AATTTTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (29 bp):
AGCATCGATACAGCCATGAAGACTTCTCA
Found at i:765966 original size:50 final size:50
Alignment explanation
Indices: 765844--765966 Score: 123
Period size: 48 Copynumber: 2.5 Consensus size: 50
765834 GTAGCAGTAA
* * *
765844 AGCGC-CCCCCTGAAT-CGCGCTATACGCTGATTTGGCACCATGTGGGTAT
1 AGCGCGCCCCCTG-ATCCGCGCTATACGCTGATATGGCACCACGTGGATAT
* * *
765893 A--GCGCCCCCTG-CCCTGCGATATACGGTGATATGG-AGCCACGTGGATAT
1 AGCGCGCCCCCTGATCC-GCGCTATACGCTGATATGGCA-CCACGTGGATAT
765941 AGCGCGCCCCCTGATCCGCGCTATAC
1 AGCGCGCCCCCTGATCCGCGCTATAC
765967 CTGGTATCTG
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
47 4 0.07
48 34 0.58
49 1 0.02
50 18 0.31
51 2 0.03
ACGTcount: A:0.19, C:0.33, G:0.27, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGATCCGCGCTATACGCTGATATGGCACCACGTGGATAT
Found at i:769001 original size:51 final size:51
Alignment explanation
Indices: 768937--769057 Score: 127
Period size: 51 Copynumber: 2.4 Consensus size: 51
768927 TGTGGTGTAC
** * * * *
768937 AGCGCGG-AGCAGGGGGCGCGCTATACCCCATGTGTAACCCAATCAGCATAT
1 AGCGCGGTA-CAGGGGGCAAGCTATACCCCACGCGGAACCAAATCAGCATAT
* * **
768988 AGCGCGGTACAGGGAGCAAGCTATACTCCACGCGGCGCCAAATCAGCATAT
1 AGCGCGGTACAGGGGGCAAGCTATACCCCACGCGGAACCAAATCAGCATAT
*
769039 AGCGCGGTTCAGGGGGCAA
1 AGCGCGGTACAGGGGGCAA
769058 ACTTTACTGC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.31, T:0.14
Consensus pattern (51 bp):
AGCGCGGTACAGGGGGCAAGCTATACCCCACGCGGAACCAAATCAGCATAT
Found at i:782003 original size:68 final size:68
Alignment explanation
Indices: 781894--782029 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
781884 TGCGTCCTGA
*
781894 GAAAGGATTCGTCCTTTACCCCTTCGTAAACTTGCAGACGAAGGTTTTGAGTTTTTTTAAAAACT
1 GAAAGGATTCGTCCTTTACCCCTTCGTAAACTTGCAGACGAAGGTTTTGAGTTTATTTAAAAACT
781959 TTT
66 TTT
781962 GAAAGGATTCGTCCTTTACCCCTTCGTAAACTTGCAGACGAAGGTTTTGAGTTTATTTAAAAACT
1 GAAAGGATTCGTCCTTTACCCCTTCGTAAACTTGCAGACGAAGGTTTTGAGTTTATTTAAAAACT
782027 TTT
66 TTT
782030 TCCCTACTCG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (68 bp):
GAAAGGATTCGTCCTTTACCCCTTCGTAAACTTGCAGACGAAGGTTTTGAGTTTATTTAAAAACT
TTT
Found at i:782390 original size:25 final size:22
Alignment explanation
Indices: 782361--782406 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
782351 AATTGGGGCA
782361 TTTTTGAAAATATAATATTTTAAAG
1 TTTTT-AAAA-ATAA-ATTTTAAAG
*
782386 TTTTTATAAATAAATTTTAAA
1 TTTTTAAAAATAAATTTTAAA
782407 ATTACTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 4 0.20
24 3 0.15
25 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
TTTTTAAAAATAAATTTTAAAG
Found at i:782618 original size:36 final size:36
Alignment explanation
Indices: 782573--782644 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
782563 TATTTTATAC
782573 TTAAACCTTTATTTTTATATATAAATATTTATTTGA
1 TTAAACCTTTATTTTTATATATAAATATTTATTTGA
782609 TTAAACCTTTATTTTTATATATAAATATTTATTTGA
1 TTAAACCTTTATTTTTATATATAAATATTTATTTGA
782645 ATTATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (36 bp):
TTAAACCTTTATTTTTATATATAAATATTTATTTGA
Found at i:782639 original size:20 final size:19
Alignment explanation
Indices: 782558--782642 Score: 70
Period size: 20 Copynumber: 4.5 Consensus size: 19
782548 TATAATTTAG
782558 ATATTTA-TTTTATACTTAA
1 ATATTTATTTTTATA-TTAA
**
782577 ACCTTTATTTTTATATATAA
1 ATATTTATTTTTATAT-TAA
*
782597 ATATTTA--TTT-GATTAA
1 ATATTTATTTTTATATTAA
**
782613 ACCTTTATTTTTATATATAA
1 ATATTTATTTTTATAT-TAA
782633 ATATTTATTT
1 ATATTTATTT
782643 GAATTATTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
16 8 0.16
17 2 0.04
18 6 0.12
19 8 0.16
20 26 0.52
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (19 bp):
ATATTTATTTTTATATTAA
Found at i:783288 original size:47 final size:46
Alignment explanation
Indices: 783192--783312 Score: 118
Period size: 47 Copynumber: 2.5 Consensus size: 46
783182 CACGTAGGGG
* ** * *
783192 TATAGCGCGGGGCATGGACTACGCCTTACCTTTAATTCTGATTTATA
1 TATAGCGCGGGGCAGGGACCGCGCCATACCTTTAA-TCTGATTAATA
*
783239 TATAGCGCGGGGCAGGGGCCGCGCCATACCTTTAA-CTGATATAATTA
1 TATAGCGCGGGGCAGGGACCGCGCCATACCTTTAATCTGAT-TAA-TA
* *
783286 TATAAGGCGCGGTGCAGGTACCGCGCC
1 TAT-A-GCGCGGGGCAGGGACCGCGCC
783313 TTGTAACTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
45 5 0.08
46 2 0.03
47 35 0.57
48 1 0.02
49 18 0.30
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (46 bp):
TATAGCGCGGGGCAGGGACCGCGCCATACCTTTAATCTGATTAATA
Found at i:786963 original size:35 final size:34
Alignment explanation
Indices: 786878--786964 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
786868 AAAATAATTT
* *
786878 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGA
* *
786912 TAAATGATAACCAAATTACAATAACTGATATTAAATGA
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGA
786950 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
786965 ACTGAAATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 4 0.09
38 10 0.23
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGA
Found at i:789307 original size:9 final size:9
Alignment explanation
Indices: 789295--789327 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
789285 AAGTAAAATT
789295 TTAAATAAA
1 TTAAATAAA
*
789304 TTAAAT-AC
1 TTAAATAAA
789312 TTAAATAAA
1 TTAAATAAA
789321 TTAAATA
1 TTAAATA
789328 CAAAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
TTAAATAAA
Found at i:789326 original size:17 final size:17
Alignment explanation
Indices: 789295--789328 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
789285 AAGTAAAATT
789295 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
789312 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
789329 AAAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:790079 original size:23 final size:23
Alignment explanation
Indices: 790053--790107 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
790043 TTGTCTTCTA
*
790053 TTGTTTTTCTAAATTAATTTTGT
1 TTGTTTCTCTAAATTAATTTTGT
790076 TTGTTTCTCTAAATTAATTTTGT
1 TTGTTTCTCTAAATTAATTTTGT
790099 TTGTTTCTC
1 TTGTTTCTC
790108 ATTAAGAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (23 bp):
TTGTTTCTCTAAATTAATTTTGT
Found at i:790784 original size:34 final size:35
Alignment explanation
Indices: 790717--790785 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
790707 TTTTTAATAG
* *
790717 AAATTAAACTGAACAAATAAAAATAGACATAAACT
1 AAATTAAACTGAAAAAATAAAAATAGAAATAAACT
790752 AAATTAAA-TGAAAAAATAAAAATA-AAATTAAACT
1 AAATTAAACTGAAAAAATAAAAATAGAAA-TAAACT
790786 TATTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 2 0.06
34 21 0.68
35 8 0.26
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (35 bp):
AAATTAAACTGAAAAAATAAAAATAGAAATAAACT
Found at i:801932 original size:12 final size:12
Alignment explanation
Indices: 801915--801945 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
801905 CATTATACCG
801915 GATTCAGGAAGA
1 GATTCAGGAAGA
*
801927 GATTCATGAAGA
1 GATTCAGGAAGA
801939 GATTCAG
1 GATTCAG
801946 TCCTTATCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.23
Consensus pattern (12 bp):
GATTCAGGAAGA
Found at i:803742 original size:201 final size:201
Alignment explanation
Indices: 803215--804042 Score: 920
Period size: 201 Copynumber: 4.1 Consensus size: 201
803205 TAATTTTAAA
* * * *
803215 AAGTATCGACACTAATTTAA-AAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACTGG
1 AAGTATCGACAC-AAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCAAAAAACCGG
*
803279 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATATTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * * * **
803344 AGGATCGACACTTTTTCTAAATGTATCGACAC-TTTTTCGTGAACTT-GTTTCGAAAATTTATTA
130 GGGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGAACTTGGTTT-GGAAATACATTA
803407 TGGACATA-
194 TGGACA-AC
* * * ** *
803415 AAGTGTCGACACAAATGTATAAAGTGTCGATACATTATGTATACCT-TTTT-TTTAATAACCGGT
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCAAAAAACCGGT
* * * * * * * *
803478 ATATTTAGACCGATTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTG
66 AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTG
* *
803543 GGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGCACTTGGTTTGGAAATACATTCTG
131 GGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGAACTTGGTTTGGAAATACATTATG
803608 GACAAC
196 GACAAC
* *
803614 ATGTATCGACACAAATGAATAAAGTGTCGATACA-TATTGTAGACCTATTTTCTCAAAAAACCAG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTA-TGTAGACCTATTTTCTCAAAAAACCGG
* *
803678 TAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * * *
803743 GGGATTGACACTTGATATAAATGTATCGACACTTATTT-GTGAACTTGTTTTGGTTGGAAAATAC
130 GGGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGAACTTG----GTTTGG-AAATAC
803807 ATTATGGAC-AC
190 ATTATGGACAAC
* * * * * * *
803818 AAAGTATCGACACAAATGTATAAAGTGTTGATACTTTATGTATACATCTTTTCTC-ATAAACCGG
1 -AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCAAAAAACCGG
* * * ** * * ** *
803882 TATATTTAGACCGGTTACATTGTTATTTTACTTATTACATTATAATTATTGGTCTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * * * * * * *
803947 GGGATCGATACTTTTTATAAATGTATGGAAACTTTGTTCGTGCATTTGGTTTGGAAATACATTCT
130 GGGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGAACTTGGTTTGGAAATACATTAT
*
804012 GGACTAC
195 GGACAAC
* * *
804019 ATGTATCAACACGAATGAATAAAG
1 AAGTATCGACACAAATGAATAAAG
804043 CAAATTCATT
Statistics
Matches: 524, Mismatches: 88, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
198 95 0.18
199 74 0.14
200 86 0.16
201 105 0.20
204 97 0.19
205 65 0.12
206 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (201 bp):
AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCAAAAAACCGGT
AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTG
GGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGAACTTGGTTTGGAAATACATTATG
GACAAC
Found at i:804038 original size:405 final size:399
Alignment explanation
Indices: 803235--804042 Score: 1199
Period size: 405 Copynumber: 2.0 Consensus size: 399
803225 ACTAATTTAA
* ** *
803235 AAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACTGGTAAATTTAAACCGGTTACATT
1 AAAGTGTCGATACATTATGTAGACCTATTTTCTCAAAAAACCAGTAAATTTAAACCAGTTACATT
** *
803300 GTAAAGTGACCTATTACATTATAATTACGGGTTTCGATATTTTTAGGATCGACACTTTTTCTAAA
66 GTAAAGTGACCTATTACATTATAATTACGGGTTTCGATATTTTTAGGATCGACACTTGATATAAA
** * *
803365 TGTATCGACACTTTTTCGTGAACTTGTTTCGAAAATTTATTATGGACATAAAGTGTCGACACAAA
131 TGTATCGACACTTTTTCGTGAACTTGTTTCGAAAATACATTATGGACACAAAGTATCGACACAAA
* * *
803430 TGTATAAAGTGTCGATACATTATGTATACCTTTTTTTTAATAACCGGTATATTTAGACCGATTAC
196 TGTATAAAGTGTCGATACATTATGTATACATCTTTTCTAATAACCGGTATATTTAGACCGATTAC
*
803495 ATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTAT
261 ATTGTTATGTTACCTATTACATTATAATTATGTGTCTCGATGTTTTTGGGATCGACACTTGTTAT
* * *
803560 AAATGTATCGACACTTTTTTCGTGCACTTGGTTTGGAAATACATTCTGGACAACATGTATCGACA
326 AAATGTATCGAAACTTTGTTCGTGCACTTGGTTTGGAAATACATTCTGGACAACATGTATCAACA
803625 CAAATGAAT
391 CAAATGAAT
803634 AAAGTGTCGATACA-TATTGTAGACCTATTTTCTCAAAAAACCAGTAAATTTAAACCAGTTACAT
1 AAAGTGTCGATACATTA-TGTAGACCTATTTTCTCAAAAAACCAGTAAATTTAAACCAGTTACAT
* * * *
803698 TGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGGATTGACACTTGATATAA
65 TGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATATTTTTAGGATCGACACTTGATATAA
*
803763 ATGTATCGACACTTATTT-GTGAACTTGTTTTGGTTGGAAAATACATTATGGACACAAAGTATCG
130 ATGTATCGACACTT-TTTCGTGAACTTG---T--TTCGAAAATACATTATGGACACAAAGTATCG
* * *
803827 ACACAAATGTATAAAGTGTTGATACTTTATGTATACATCTTTTCTCATAAACCGGTATATTTAGA
189 ACACAAATGTATAAAGTGTCGATACATTATGTATACATCTTTTCTAAT-AACCGGTATATTTAGA
* * * *
803892 CCGGTTACATTGTTATTTTACTTATTACATTATAATTAT-TGGTCTCGATGTTTTTGGGATCGAT
253 CCGATTACATTGTTATGTTACCTATTACATTATAATTATGT-GTCTCGATGTTTTTGGGATCGAC
* * * *
803956 ACTTTTTATAAATGTATGGAAACTTTGTTCGTGCATTTGGTTTGGAAATACATTCTGGACTACAT
317 ACTTGTTATAAATGTATCGAAACTTTGTTCGTGCACTTGGTTTGGAAATACATTCTGGACAACAT
*
804021 GTATCAACACGAATGAAT
382 GTATCAACACAAATGAAT
804039 AAAG
1 AAAG
804043 CAAATTCATT
Statistics
Matches: 365, Mismatches: 35, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
398 2 0.01
399 138 0.38
400 3 0.01
402 1 0.00
404 69 0.19
405 152 0.42
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.38
Consensus pattern (399 bp):
AAAGTGTCGATACATTATGTAGACCTATTTTCTCAAAAAACCAGTAAATTTAAACCAGTTACATT
GTAAAGTGACCTATTACATTATAATTACGGGTTTCGATATTTTTAGGATCGACACTTGATATAAA
TGTATCGACACTTTTTCGTGAACTTGTTTCGAAAATACATTATGGACACAAAGTATCGACACAAA
TGTATAAAGTGTCGATACATTATGTATACATCTTTTCTAATAACCGGTATATTTAGACCGATTAC
ATTGTTATGTTACCTATTACATTATAATTATGTGTCTCGATGTTTTTGGGATCGACACTTGTTAT
AAATGTATCGAAACTTTGTTCGTGCACTTGGTTTGGAAATACATTCTGGACAACATGTATCAACA
CAAATGAAT
Found at i:806488 original size:2 final size:2
Alignment explanation
Indices: 806481--806510 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
806471 GTCTCTGGAG
806481 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
806511 CCTTCCCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:806835 original size:15 final size:15
Alignment explanation
Indices: 806815--806852 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
806805 TGATTTCCTC
806815 AGAAGAGCTGGGTTG
1 AGAAGAGCTGGGTTG
*
806830 AGAAGAGATGGGTTG
1 AGAAGAGCTGGGTTG
806845 AGAAGAGC
1 AGAAGAGC
806853 CCCGATTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.45, T:0.16
Consensus pattern (15 bp):
AGAAGAGCTGGGTTG
Found at i:807529 original size:198 final size:198
Alignment explanation
Indices: 807325--808290 Score: 1679
Period size: 198 Copynumber: 4.9 Consensus size: 198
807315 TGACCATTTA
* *
807325 CATTCTGGACA-AAACGTATCGACACAAGTTCAA-AGAGTGTCGATACTTTATGTACACGTGTTT
1 CATTCTGGACACAAA-GTATCGACACAAATTCAATA-AGTGTCGATACTTTATGTACACCTGTTT
*
807388 TCTCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGA
64 TCTCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGG
* *
807453 TCTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACATTTCCATGT-ACTTGGTAA
129 TCTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCAT-TCACTTGGTAA
807517 GGAAAT
193 GGAAAT
* * * *
807523 CATTCTGGACACAAAGTATTGACACAAATTCAACAAGTGTCGATACTTTATGCACACCTATTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTCAATAAGTGTCGATACTTTATGTACACCTGTTTTC
* ** *
807588 TCAT-AGCCGGTGTATTTAGACCGACTAGATTAATAATTTACCTATTACATTATAATTATGGGTC
66 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
807652 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATTCACTTGGTAAGGA
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATTCACTTGGTAAGGA
807717 AAT
196 AAT
807720 CATTCTGGACACAAAGTATCGACACAAATTCAATAAGTGTCGATACTTTATGTACACCTGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTCAATAAGTGTCGATACTTTATGTACACCTGTTTTC
807785 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
66 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
*
807850 TCGATGCTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATTCACTTGGTAAGGA
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATTCACTTGGTAAGGA
807915 AAT
196 AAT
* *
807918 CATTATGGACACAAAGTATCGACACAAATTCAATAAGTGTCGATACTTTATGTACACATGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTCAATAAGTGTCGATACTTTATGTACACCTGTTTTC
*
807983 TCATAAACAGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
66 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
* *
808048 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACATATTTCCATGCACTTGGTAAGGA
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATTCACTTGGTAAGGA
808113 AAT
196 AAT
* *
808116 CATTCTGGACACAAAGTATCGACACAAATTCAATAAGTGTCAATACTTTATGTACACTTGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTCAATAAGTGTCGATACTTTATGTACACCTGTTTTC
808181 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
66 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
*
808246 TCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGACACAT
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACAT
808291 ATGTTTACCA
Statistics
Matches: 731, Mismatches: 33, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
196 1 0.00
197 184 0.25
198 542 0.74
199 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (198 bp):
CATTCTGGACACAAAGTATCGACACAAATTCAATAAGTGTCGATACTTTATGTACACCTGTTTTC
TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATTCACTTGGTAAGGA
AAT
Found at i:808646 original size:19 final size:19
Alignment explanation
Indices: 808622--808672 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
808612 ATTACATTCA
*
808622 TATACAAAATTATAAATCG
1 TATACAAAATTAAAAATCG
*
808641 TATACAAAATTAAAAATCT
1 TATACAAAATTAAAAATCG
808660 TATACAAAATTAA
1 TATACAAAATTAA
808673 CCCTACATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
TATACAAAATTAAAAATCG
Found at i:809841 original size:17 final size:17
Alignment explanation
Indices: 809819--809871 Score: 97
Period size: 17 Copynumber: 3.1 Consensus size: 17
809809 GAATCATTAG
809819 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
*
809836 GATTAATATTTTTTCAT
1 GATTAATATCTTTTCAT
809853 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
809870 GA
1 GA
809872 AATATTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (17 bp):
GATTAATATCTTTTCAT
Found at i:810884 original size:22 final size:22
Alignment explanation
Indices: 810856--810911 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
810846 AACCTGAATT
810856 TATAATAAAATTA-ATCATTTTA
1 TATAATAAAA-TACATCATTTTA
*
810878 TATAATAACGATACCATCATTTTA
1 TATAATAA-AATA-CATCATTTTA
*
810902 TATAAAAAAA
1 TATAATAAAA
810912 CAAAAACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 10 0.36
23 2 0.07
24 16 0.57
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (22 bp):
TATAATAAAATACATCATTTTA
Found at i:812836 original size:20 final size:20
Alignment explanation
Indices: 812790--812836 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
812780 ACCGGTAGCG
*
812790 CTTTACTGGTTTTGTCATTT
1 CTTTACCGGTTTTGTCATTT
**
812810 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTGTCAT-TT
812831 -TTTACC
1 CTTTACC
812837 TATTATATTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.51
Consensus pattern (20 bp):
CTTTACCGGTTTTGTCATTT
Found at i:813078 original size:166 final size:166
Alignment explanation
Indices: 812784--813287 Score: 595
Period size: 166 Copynumber: 2.9 Consensus size: 166
812774 AACATAACCG
* * * * *
812784 GTAGCGCTTTACTGGTTTTGTCATTTCGATACCGGTTTTGTCATATTTTTACCTATTATATTGTT
1 GTAGCTCTTTACCGGTTTTATCATTTCGAGACC-GTTTTGTCATA-TTTTACCTGTTATATTGTT
* *
812849 ATGGATCGATACATTTTCATAAAGTATCGACATTTTTTAGGCGCTATAACTTCTTCTCTTTTAAA
64 ATGGATCGATACATTTT-ATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAA
* *
812914 TTACGAAAGTGTCGATACTTATATTAA-TTT-ATCGA-C-
128 TT-CAAAAGTGTCGATACTTATATTAACTTTAATAGACCT
* * *
812950 GTAGCTTTTTACCGGTTTTATCATTTCGAGACTTGTTTTGTCATATTCTTACCTGTTATATTGCT
1 GTAGCTCTTTACCGGTTTTATCATTTCGAGAC-CGTTTTGTCATATT-TTACCTGTTATATTGTT
813015 ATGGATCGATACATTTGTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAA
64 ATGGATCGATACATTT-TATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAA
*
813080 TTCAAAATGTGTCGATACTTATATTAACGTATCGACACTTTCAATATATCCT
128 TTCAAAA-GTGTCGATAC-T-TA-T-A--T-T--A-ACTTT-AATAGA-CCT
* *
813132 GTAGCTCTTTACCGGTTTTATCATTTCGTGACCGATTTTGTCATACTTATACCTGTTATATTGTT
1 GTAGCTCTTTACCGGTTTTATCATTTCGAGACCG-TTTTGTCATA-TTTTACCTGTTATATTGTT
* * *
813197 ATGGATCGATACGTTTTTATAAAGTATCGACACTTTATAGGCGTTATTACTTCTTCTCTTTTAAA
64 ATGGATCGATAC-ATTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAA
813262 TTCTAAAAGTGTCGATACTTAT-TTAA
128 TTC-AAAAGTGTCGATACTTATATTAA
813288 ATCTAATCGA
Statistics
Matches: 293, Mismatches: 21, Indels: 43
0.82 0.06 0.12
Matches are distributed among these distances:
165 6 0.02
166 126 0.43
167 2 0.01
168 2 0.01
169 1 0.00
170 1 0.00
171 1 0.00
172 2 0.01
173 1 0.00
174 1 0.00
175 2 0.01
176 1 0.00
177 3 0.01
179 4 0.01
180 2 0.01
181 3 0.01
182 126 0.43
183 9 0.03
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (166 bp):
GTAGCTCTTTACCGGTTTTATCATTTCGAGACCGTTTTGTCATATTTTACCTGTTATATTGTTAT
GGATCGATACATTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTC
AAAAGTGTCGATACTTATATTAACTTTAATAGACCT
Found at i:813264 original size:182 final size:181
Alignment explanation
Indices: 812950--813397 Score: 600
Period size: 182 Copynumber: 2.4 Consensus size: 181
812940 ATTTATCGAC
* *
812950 GTAGCTTTTTACCGGTTTTATCATTTCGAGACTTGTTTTGTCATATTCTTACCTGTTATATTGCT
1 GTAGCTCTTTACCGGTTTTATCATTTCGAGAC-CGTTTTGTCATATT-TTACCTGTTATATTGCT
*
813015 ATGGATCGATACATTTGTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAA
64 ATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAA
*
813080 TTC-AAAATGTGTCGATACTTATATT-AA-CGT-ATCGACACTTTCAATATATCCT
129 TTCTAAAA-GTGTCGATACTTAT-TTAAATC-TAATCGACACTTTCAATATATCCA
* * *
813132 GTAGCTCTTTACCGGTTTTATCATTTCGTGACCGATTTTGTCATACTTATACCTGTTATATTGTT
1 GTAGCTCTTTACCGGTTTTATCATTTCGAGACCG-TTTTGTCATA-TTTTACCTGTTATATTGCT
* * *
813197 ATGGATCGATACGTTTTTATAAAGTATCGACACTTTATAGGCGTTATTACTTCTTCTCTTTTAAA
64 ATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAA
* * *
813262 TTCTAAAAGTGTCGATACTTATTTAAATCTAATCGATATTTTCGATATATCCA
129 TTCTAAAAGTGTCGATACTTATTTAAATCTAATCGACACTTTCAATATATCCA
** * * *
813315 GTAGCAGTTTACCGGTTTTATCATAAT-GAAACCGGTTTTATCATATTTTTACCTGTTATATTGC
1 GTAGCTCTTTACCGGTTTTATCAT-TTCGAGACC-GTTTTGTCATA-TTTTACCTGTTATATTGC
*
813379 TATGGAGCGATACATTTTT
63 TATGGATCGATACATTTTT
813398 CATTTGTATC
Statistics
Matches: 234, Mismatches: 24, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
181 3 0.01
182 136 0.58
183 93 0.40
184 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (181 bp):
GTAGCTCTTTACCGGTTTTATCATTTCGAGACCGTTTTGTCATATTTTACCTGTTATATTGCTAT
GGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATT
CTAAAAGTGTCGATACTTATTTAAATCTAATCGACACTTTCAATATATCCA
Found at i:815711 original size:2 final size:2
Alignment explanation
Indices: 815704--815742 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
815694 TTATTTCAAT
815704 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
815743 ATAAGAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:816494 original size:21 final size:21
Alignment explanation
Indices: 816452--816494 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
816442 GTGTACTGTT
*
816452 ACATTAATACCGTGGACAACC
1 ACATTAATACCGTGAACAACC
* *
816473 ACATTAATATCGTGAACTACC
1 ACATTAATACCGTGAACAACC
816494 A
1 A
816495 TGTTAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.23
Consensus pattern (21 bp):
ACATTAATACCGTGAACAACC
Found at i:820403 original size:28 final size:28
Alignment explanation
Indices: 820371--820427 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
820361 TGATAGTTTA
820371 CTGTCAATCCCTTTGTTACCAGTTTCAG
1 CTGTCAATCCCTTTGTTACCAGTTTCAG
820399 CTGTCAATCCCTTTGTTACCAGTTTCAG
1 CTGTCAATCCCTTTGTTACCAGTTTCAG
820427 C
1 C
820428 CGTGTCATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.30, G:0.14, T:0.39
Consensus pattern (28 bp):
CTGTCAATCCCTTTGTTACCAGTTTCAG
Found at i:824839 original size:21 final size:21
Alignment explanation
Indices: 824815--824875 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
824805 AAATACTCTT
*
824815 ATATTCTATTTTA-ACTATTTA
1 ATATTATATTTTATA-TATTTA
824836 ATA-TATATTTTATTATATTTA
1 ATATTATATTTTA-TATATTTA
*
824857 ATATTTTATTTT-TA-ATTTA
1 ATATTATATTTTATATATTTA
824876 TTTAAGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 5 0.14
20 10 0.29
21 12 0.34
22 8 0.23
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATTATATTTTATATATTTA
Found at i:824887 original size:23 final size:21
Alignment explanation
Indices: 824830--824911 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 21
824820 CTATTTTAAC
*
824830 TATTTAATATATATTTTATTA
1 TATTTAATATTTATTTTATTA
824851 TATTTAATATTTTATTTTTAATT-
1 TATTTAATA-TTTA-TTTT-ATTA
824874 TATTTAAGTATTTAAATTTT-TTAA
1 TATTTAA-TATTT--ATTTTATT-A
824898 TATTT--TATTTATTT
1 TATTTAATATTTATTT
824912 AATTTTTTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 18
0.73 0.01 0.25
Matches are distributed among these distances:
19 4 0.08
21 14 0.27
22 5 0.10
23 14 0.27
24 14 0.27
25 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (21 bp):
TATTTAATATTTATTTTATTA
Found at i:824893 original size:24 final size:23
Alignment explanation
Indices: 824830--824902 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 23
824820 CTATTTTAAC
*
824830 TATTTAATA--TATATTTTATTA
1 TATTTAATATTTAAATTTTATTA
* *
824851 TATTTAATATTTTATTTTTAATT-
1 TATTTAATATTTAAATTTT-ATTA
824874 TATTTAAGTATTTAAATTTT-TTAA
1 TATTTAA-TATTTAAATTTTATT-A
824898 TATTT
1 TATTT
824903 TATTTATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 9 0.22
22 2 0.05
23 12 0.29
24 18 0.44
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (23 bp):
TATTTAATATTTAAATTTTATTA
Found at i:824896 original size:17 final size:17
Alignment explanation
Indices: 824870--824914 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
824860 TTTTATTTTT
824870 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
824888 AATTT-TTTAATATTT-
1 AATTTATTTAATATTTA
*
824903 TATTTATTTAAT
1 AATTTATTTAAT
824915 TTTTTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 4 0.16
16 11 0.44
17 5 0.20
18 5 0.20
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:824903 original size:8 final size:8
Alignment explanation
Indices: 824821--824904 Score: 55
Period size: 9 Copynumber: 9.9 Consensus size: 8
824811 TCTTATATTC
824821 TATTTTAA
1 TATTTTAA
824829 CTATTTAATATA
1 -TATTT--TA-A
*
824841 TATTTTAT
1 TATTTTAA
824849 TATATTTAA
1 TAT-TTTAA
824858 TATTTT-A
1 TATTTTAA
824865 T-TTTTAA
1 TATTTTAA
*
824872 TTTATTTAA
1 TAT-TTTAA
*
824881 GTATTTAAA
1 -TATTTTAA
*
824890 TTTTTTAA
1 TATTTTAA
824898 TATTTTA
1 TATTTTA
824905 TTTATTTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
6 4 0.07
7 4 0.07
8 19 0.32
9 23 0.38
10 2 0.03
11 7 0.12
12 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:824908 original size:33 final size:31
Alignment explanation
Indices: 824851--824913 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 31
824841 TATTTTATTA
824851 TATTTAATATTTTATTTTTAATTTATTTAAG
1 TATTTAATATTTTATTTTTAATTTATTTAAG
*
824882 TATTTAAATTTTTTAATATTTT-ATTTATTTAA
1 TATTT-AATATTTT-AT-TTTTAATTTATTTAA
824914 TTTTTTTGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 5 0.18
32 7 0.25
33 12 0.43
34 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (31 bp):
TATTTAATATTTTATTTTTAATTTATTTAAG
Found at i:828141 original size:21 final size:21
Alignment explanation
Indices: 828116--828160 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
828106 AGTTTACGGG
* * *
828116 GAGAGGGTTATTTATAGTCGA
1 GAGAGGATGATTTAAAGTCGA
*
828137 GAGAGGATGCTTTAAAGTCGA
1 GAGAGGATGATTTAAAGTCGA
828158 GAG
1 GAG
828161 GTCTGGGTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.36, T:0.27
Consensus pattern (21 bp):
GAGAGGATGATTTAAAGTCGA
Found at i:830626 original size:17 final size:17
Alignment explanation
Indices: 830604--830642 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
830594 AAGTGACTTA
830604 ATGGAATATGAAGGTTT
1 ATGGAATATGAAGGTTT
830621 ATGGAATATGAAGGTTT
1 ATGGAATATGAAGGTTT
830638 ATGGA
1 ATGGA
830643 TGAGTTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (17 bp):
ATGGAATATGAAGGTTT
Found at i:831406 original size:59 final size:58
Alignment explanation
Indices: 831340--831797 Score: 517
Period size: 59 Copynumber: 7.8 Consensus size: 58
831330 TGGCACTATT
*
831340 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGAATTTCCATATGGAGCA-TGAG
* *
831399 TGTGCTAAAATGATAAGGAAACCATATTGAGTGTATGAATTTCCATATAGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGAATTTCCATATGGAGCA-TGAG
* * * * *
831458 TGTACTAAAAAGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACAGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGAATTTCCATATGGAGCA-TGAG
* * * * * *
831517 TGTTCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCCATATAGG-GTATTATA
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGAATTTCCATAT-GGAGCATGA-G
* *
831576 TGTGCTAATATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCATCGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGAATTTCCATATGGAGCAT-GAG
* * * * * *
831635 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG-GCATTATA
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGAATTTCCATAT-GGAGCATGA-G
* * * * * * *
831694 TGTGCTAATATGATAAGGAAATCATATTGAATATATAAATTTCCAGATAGG-GCATTATA
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGAATTTCCATAT-GGAGCATGA-G
* * *
831753 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGGATTTCCA
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGAATTTCCA
831798 GAAAAAGCAC
Statistics
Matches: 349, Mismatches: 44, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
58 4 0.01
59 340 0.97
60 5 0.01
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (58 bp):
TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGAATTTCCATATGGAGCATGAG
Found at i:831798 original size:59 final size:59
Alignment explanation
Indices: 831331--831880 Score: 508
Period size: 59 Copynumber: 9.3 Consensus size: 59
831321 GTATAGTGAT
* * * *
831331 GGCACTATTTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCATAT-G
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAG
* * * *
831389 GAGCACTGA-GTGTGCTAAAATGATAAGGAAACCATATTGAGTGTATGAATTTCCATATAG
1 G-GCA-TTATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAG
* * * * * *
831449 AGCACTGA-GTGTACTAAAAAGATAAGGAAATCATACTGAGTGTATGGATTTCCATAT-G
1 GGCA-TTATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAG
* * * * * *
831507 GAGCA-CAGAGTGTTCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCCATATAG
1 G-GCATTATA-TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAG
* *
831567 GGTATTATATGTGCTAATATGATAAGGAAATCATATTGAGTGTATGGATTTCCATAT-G
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAG
* * * * *
831625 GAGCATCGA-GTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
1 G-GCAT-TATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAG
* * * ** *
831685 GGCATTATATGTGCTAATATGATAAGGAAATCATATTGAATATATAAATTTCCAGATAG
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAG
* * * * *
831744 GGCATTATATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGGATTTCCAGAAAA
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAG
* * * * * * * * * *
831803 AGCACTA-AGGGTGATACAAGGATAAGGAAATCATACT-AATAGTATGGATTTTCACATAG
1 GGCATTATA-TGTGCTAAAATGATAAGGAAATCATATTGAGT-GTATGGATTTCCATATAG
831862 GGCACTT-TATGTGCTAAAA
1 GGCA-TTATATGTGCTAAAA
831881 ATGGTAAAGG
Statistics
Matches: 410, Mismatches: 66, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
57 1 0.00
58 8 0.02
59 390 0.95
60 11 0.03
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (59 bp):
GGCATTATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAG
Found at i:831875 original size:177 final size:178
Alignment explanation
Indices: 831331--831880 Score: 656
Period size: 177 Copynumber: 3.1 Consensus size: 178
831321 GTATAGTGAT
* * *
831331 GGCACTATT-TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCATAT-GGAGCA
1 GGCACT-TTATGTGCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCCATATAGG-GCA
* * * *
831394 CTGA-GTGTGCTAAAATGATAAGGAAACCATATTGAGTGTATGAATTTCCATATAGAGCACTGAG
64 -TTATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAGAGCACTGAG
*
831458 TGT-ACTAAAAAGATAAGGAAATCATACTGAGT-GTATGGA-TTTC-CATATG
128 TGTGA-TAAAAAGATAAGGAAATCATACTGAATAGTATGGATTTTCACATA-G
** * *
831507 GAGCAC-AGAGTGTTCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCCATATAGGGTA
1 G-GCACTTTA-TGTGCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCCATATAGGGCA
* *
831571 TTATATGTGCTAATATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCA-TCGAG
64 TTATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAGAGCACT-GAG
* * * * *
831635 TGTGCTAAAATGATAAGGAAATCATATTGAATA-TATGGATTTCCAGATAG
128 TGTGATAAAAAGATAAGGAAATCATACTGAATAGTATGGATTTTCACATAG
* * *
831685 GGCA-TTATATGTGCTAATATGATAAGGAAATCATATTGAATATATAAATTTCCAGATAGGGCAT
1 GGCACTT-TATGTGCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCCATATAGGGCAT
* * * * * * *
831749 TATATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGGATTTCCAGAAAAAGCACTAAGGG
65 TATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAGAGCACTGAGTG
* *
831814 TGATACAAGGATAAGGAAATCATACT-AATAGTATGGATTTTCACATAG
130 TGATAAAAAGATAAGGAAATCATACTGAATAGTATGGATTTTCACATAG
831862 GGCACTTTATGTGCTAAAA
1 GGCACTTTATGTGCTAAAA
831881 ATGGTAAAGG
Statistics
Matches: 317, Mismatches: 42, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
176 8 0.03
177 295 0.93
178 11 0.03
179 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (178 bp):
GGCACTTTATGTGCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCCATATAGGGCATT
ATATGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATAGAGCACTGAGTGT
GATAAAAAGATAAGGAAATCATACTGAATAGTATGGATTTTCACATAG
Found at i:831908 original size:60 final size:61
Alignment explanation
Indices: 831826--831940 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 61
831816 ATACAAGGAT
* * *
831826 AAGGAAATCATACTAATAGTATGGATTTTCACATAGGGCACTTTATGTGCTAAAAATGGTA
1 AAGGAAATCACACTAATAGTATGGATTATCACATAGGGCACTTCATGTGCTAAAAATGGTA
* * *
831887 AAGG-AATCACACTAATGGTATGGATTATCGCATAGGGCACTTCGTGTGCTAAAA
1 AAGGAAATCACACTAATAGTATGGATTATCACATAGGGCACTTCATGTGCTAAAA
831941 TAAGGAGGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 44 0.92
61 4 0.08
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (61 bp):
AAGGAAATCACACTAATAGTATGGATTATCACATAGGGCACTTCATGTGCTAAAAATGGTA
Found at i:832207 original size:45 final size:45
Alignment explanation
Indices: 832101--832246 Score: 188
Period size: 45 Copynumber: 3.3 Consensus size: 45
832091 GTAAATTATA
* *
832101 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGA-ATAATG
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATAGATTTAATG
* *
832145 GTAAGTATATTGATAAAATAAGCTTACAAGCTTAGT-GATTTAATG
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTA-TAGATTTAATG
* * *
832190 GTAAGTATATTGGTAAAATAAACATACGAGCTTATAGATTAAATG
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATAGATTTAATG
* *
832235 ATATGTATATTG
1 GTAAGTATATTG
832247 ATAAGAAATC
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
44 35 0.39
45 54 0.61
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.34
Consensus pattern (45 bp):
GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATAGATTTAATG
Found at i:835527 original size:27 final size:27
Alignment explanation
Indices: 835497--835562 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
835487 AAAATTACTC
835497 CAACTAAAATATCTCGTGTTATTTGAT
1 CAACTAAAATATCTCGTGTTATTTGAT
835524 CAACTAAAATATCTCGTGTTATTTGAT
1 CAACTAAAATATCTCGTGTTATTTGAT
835551 CAACTAAAATAT
1 CAACTAAAATAT
835563 TAAATAGTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (27 bp):
CAACTAAAATATCTCGTGTTATTTGAT
Found at i:835677 original size:9 final size:8
Alignment explanation
Indices: 835656--835694 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
835646 AGTGTTCAAC
835656 ATTTTTAT
1 ATTTTTAT
835664 ATTTTTAT
1 ATTTTTAT
835672 ATTTTTAT
1 ATTTTTAT
835680 CATTTTTAT
1 -ATTTTTAT
835689 -TTTTTA
1 ATTTTTA
835695 ATAATGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 6 0.20
8 16 0.53
9 8 0.27
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTAT
Found at i:836153 original size:23 final size:22
Alignment explanation
Indices: 836127--836172 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
836117 AAAAACATAG
836127 TTTTTTGTAAAA-AAATAATTTTA
1 TTTTTT-TAAAATAAA-AATTTTA
836150 TTTTTTTAAAATAAAAATTTTA
1 TTTTTTTAAAATAAAAATTTTA
836172 T
1 T
836173 ATGACTCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTTTTTAAAATAAAAATTTTA
Found at i:840373 original size:17 final size:17
Alignment explanation
Indices: 840351--840383 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
840341 TTGAAGCTCA
*
840351 ATTCAAGCTCGAACTCG
1 ATTCAAACTCGAACTCG
840368 ATTCAAACTCGAACTC
1 ATTCAAACTCGAACTC
840384 AAACTCGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.24
Consensus pattern (17 bp):
ATTCAAACTCGAACTCG
Found at i:840579 original size:32 final size:32
Alignment explanation
Indices: 840543--840618 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
840533 TCGCGAGCTT
840543 TTCGAGTCGAGTATTAAGTAGCTCATTAAGAA
1 TTCGAGTCGAGTATTAAGTAGCTCATTAAGAA
*
840575 TTCGAATCGAGTATTAAGTAGCTCATTAAGAA
1 TTCGAGTCGAGTATTAAGTAGCTCATTAAGAA
840607 TTCGAGTCGAGT
1 TTCGAGTCGAGT
840619 TCATTCGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (32 bp):
TTCGAGTCGAGTATTAAGTAGCTCATTAAGAA
Found at i:845902 original size:2 final size:2
Alignment explanation
Indices: 845895--845972 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
845885 AAAAATTATG
845895 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
845937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
845973 CTTATATGGT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:846489 original size:24 final size:23
Alignment explanation
Indices: 846431--846521 Score: 103
Period size: 23 Copynumber: 3.8 Consensus size: 23
846421 AATGGATGTA
846431 AACGAACATAAACGAACACAATA-
1 AACGAACATAAACGAACACAA-AC
**
846454 AACGAATGTAAACGAACACAAAC
1 AACGAACATAAACGAACACAAAC
846477 AAGCGAACATAAACGAACACAAAAC
1 AA-CGAACATAAACGAACAC-AAAC
* *
846502 GAACAAACGTAAACGAACAC
1 -AACGAACATAAACGAACAC
846522 GAACGAATGT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.02
23 21 0.36
24 15 0.26
25 19 0.33
26 2 0.03
ACGTcount: A:0.58, C:0.23, G:0.12, T:0.07
Consensus pattern (23 bp):
AACGAACATAAACGAACACAAAC
Found at i:846525 original size:20 final size:20
Alignment explanation
Indices: 846500--846541 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
846490 CGAACACAAA
846500 ACGAACAAACGTAAACGAAC
1 ACGAACAAACGTAAACGAAC
* *
846520 ACGAACGAATGTAAACGAAC
1 ACGAACAAACGTAAACGAAC
846540 AC
1 AC
846542 AATAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.24, G:0.17, T:0.07
Consensus pattern (20 bp):
ACGAACAAACGTAAACGAAC
Found at i:846762 original size:14 final size:14
Alignment explanation
Indices: 846745--846775 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
846735 AACACGCATA
846745 AACGAACATAAACG
1 AACGAACATAAACG
*
846759 AACGGACATAAACG
1 AACGAACATAAACG
846773 AAC
1 AAC
846776 ATAAATGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.23, G:0.16, T:0.06
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:846786 original size:24 final size:23
Alignment explanation
Indices: 846725--846786 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
846715 GATTGATATA
*
846725 AACATAAATGAACACGCATAAACG
1 AACATAAATGAAC-GGCATAAACG
*
846749 AACATAAACGAACGGACATAAACG
1 AACATAAATGAACGG-CATAAACG
846773 AACATAAATGAACG
1 AACATAAATGAACG
846787 TTTATGAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 1 0.03
24 33 0.97
ACGTcount: A:0.55, C:0.19, G:0.15, T:0.11
Consensus pattern (23 bp):
AACATAAATGAACGGCATAAACG
Found at i:855619 original size:4 final size:4
Alignment explanation
Indices: 855610--855640 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
855600 TCATGCATTA
855610 AATT AATT AATT AATT AATT AATT AAGTT AA
1 AATT AATT AATT AATT AATT AATT AA-TT AA
855641 AACGTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (4 bp):
AATT
Found at i:855775 original size:20 final size:20
Alignment explanation
Indices: 855737--855775 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
855727 CAAAAAAATT
*
855737 AATTAAATAAAATATTAAAC
1 AATTAAATAAAATACTAAAC
*
855757 AATTAAATAAATTACTAAA
1 AATTAAATAAAATACTAAA
855776 AATACTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
AATTAAATAAAATACTAAAC
Found at i:859091 original size:15 final size:16
Alignment explanation
Indices: 859053--859093 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
859043 ACAGAACCTC
*
859053 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
859069 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
859085 T-AATCATTC
1 TGAATCATTC
859094 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:860300 original size:19 final size:19
Alignment explanation
Indices: 860276--860340 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
860266 ATTTCAGAAT
*
860276 TTATTTTCTGAATCAAAAC
1 TTATTTTCTAAATCAAAAC
*
860295 TTA-TTTCTAAATTCAGAAC
1 TTATTTTCTAAA-TCAAAAC
* *
860314 TTA-TTTCCAAATTAATAAC
1 TTATTTTCTAAATCAA-AAC
860333 TTATTTTC
1 TTATTTTC
860341 AGACTCATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.24
19 25 0.66
20 4 0.11
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.46
Consensus pattern (19 bp):
TTATTTTCTAAATCAAAAC
Done.