Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 15 of 250
Found at i:4357999 original size:15 final size:16
Alignment explanation
Indices: 4357978--4358016 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
4357968 TTATATTATG
*
4357978 TATATTATTTTTTTTA
1 TATATTATATTTTTTA
4357994 -ATATTATATTTTTTA
1 TATATTATATTTTTTA
4358009 TATATTAT
1 TATATTAT
4358017 GTACATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATATTATATTTTTTA
Found at i:4358007 original size:16 final size:15
Alignment explanation
Indices: 4357978--4358016 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
4357968 TTATATTATG
4357978 TATATTATTTTTTT-
1 TATATTATTTTTTTA
4357992 TAATATTATATTTTTTA
1 T-ATATTAT-TTTTTTA
4358009 TATATTAT
1 TATATTAT
4358017 GTACATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.05
15 7 0.32
16 13 0.59
17 1 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATATTATTTTTTTA
Found at i:4358010 original size:29 final size:30
Alignment explanation
Indices: 4357942--4358030 Score: 78
Period size: 32 Copynumber: 3.0 Consensus size: 30
4357932 ATTTCTTCAT
4357942 TTTTTTAT-TTATTATTTTAAATACTTTTATA
1 TTTTTTATATTATTATTTTAAATA--TTTATA
* * * *
4357973 TTATGTATATTATTTTTTTTAATA-TTATA
1 TTTTTTATATTATTATTTTAAATATTTATA
* *
4358002 TTTTTTATA-TATTA-TGTACATATTTATA
1 TTTTTTATATTATTATTTTAAATATTTATA
4358030 T
1 T
4358031 CCTATTATTC
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
27 5 0.11
28 10 0.22
29 12 0.26
31 6 0.13
32 13 0.28
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTTTTATATTATTATTTTAAATATTTATA
Found at i:4359749 original size:3 final size:3
Alignment explanation
Indices: 4359741--4359778 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
4359731 TATCATTGGT
*
4359741 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4359779 CTCGCTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4359966 original size:36 final size:34
Alignment explanation
Indices: 4359905--4359991 Score: 83
Period size: 34 Copynumber: 2.5 Consensus size: 34
4359895 CCATTATTTT
*
4359905 TGTTTTATACTATTATTAT-CGCATATACATTGTTAA-
1 TGTTTTATA-TATTATT-TGCGCATAT--ATTCTTAAC
*
4359941 TGTTTTATATATTATTTGCTTCATATATTCTTAAC
1 TGTTTTATATATTATTTGC-GCATATATTCTTAAC
4359976 T-TTTTAT-TATTATTTG
1 TGTTTTATATATTATTTG
4359992 TCTGTTCCGA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
33 9 0.20
34 14 0.30
35 9 0.20
36 14 0.30
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.57
Consensus pattern (34 bp):
TGTTTTATATATTATTTGCGCATATATTCTTAAC
Found at i:4365099 original size:14 final size:14
Alignment explanation
Indices: 4365065--4365111 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4365055 GTCTGTTACA
*
4365065 TTCTTTTCTTTCTT
1 TTCTTTTATTTCTT
*
4365079 GTT-TTTTTTTTCTT
1 -TTCTTTTATTTCTT
*
4365093 TTCTTTTATTTCCT
1 TTCTTTTATTTCTT
4365107 TTCTT
1 TTCTT
4365112 CTTCTTCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (14 bp):
TTCTTTTATTTCTT
Found at i:4370404 original size:5 final size:5
Alignment explanation
Indices: 4370396--4370421 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4370386 ACTTTACCCA
4370396 TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
4370422 TCACATGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:4370991 original size:17 final size:17
Alignment explanation
Indices: 4370969--4371009 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
4370959 AAAACTACCT
4370969 ACCCAAATA-ACCCCAAA
1 ACCCAAATAGA-CCCAAA
*
4370986 ACCCAATTAGACCCAAA
1 ACCCAAATAGACCCAAA
4371003 ACCCAAA
1 ACCCAAA
4371010 CCTTAGCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.51, C:0.39, G:0.02, T:0.07
Consensus pattern (17 bp):
ACCCAAATAGACCCAAA
Found at i:4372101 original size:22 final size:22
Alignment explanation
Indices: 4372063--4372143 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 22
4372053 ATATTTTTGC
*
4372063 TATTATCTATTATTATCATATT
1 TATTATCTATTATTATCATATA
* *
4372085 TATTAT-TATTTTCTATCCTATA
1 TATTATCTATTAT-TATCATATA
* * *
4372107 TATTTTCTTTTTAGTATCA-ATCA
1 TATTATC-TATTATTATCATAT-A
4372130 TATTAT-TATTATTA
1 TATTATCTATTATTA
4372144 CTTTCCTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
21 11 0.25
22 20 0.45
23 10 0.23
24 3 0.07
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (22 bp):
TATTATCTATTATTATCATATA
Found at i:4372671 original size:21 final size:21
Alignment explanation
Indices: 4372630--4372688 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
4372620 TACCCTCATC
* *
4372630 ACTATTATTATCTA-TACTTT
1 ACTATTGTTATCTATTATTTT
*
4372650 ATTATTGTTA-CTTATTATTTT
1 ACTATTGTTATC-TATTATTTT
4372671 ACTATTGTTATCTATTAT
1 ACTATTGTTATCTATTAT
4372689 ATCATCATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 10 0.31
21 20 0.62
22 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.59
Consensus pattern (21 bp):
ACTATTGTTATCTATTATTTT
Found at i:4372694 original size:65 final size:65
Alignment explanation
Indices: 4372625--4372746 Score: 147
Period size: 65 Copynumber: 1.9 Consensus size: 65
4372615 GTTATTACCC
* * * * *
4372625 TCATCACTATTATTATCTATACTTTATTATTGTTACTTATTATTTTA-CTATTGTTATCTATTAT
1 TCATCACTATCATTATCTATACTTTACTATTGTAACTTAATATATTAGC-ATTGTTATCTATTAT
4372689 A
65 A
* * * *
4372690 TCATCATTATCATTATTTTTATTTTACTATTGTAACTTAATATATTAGCATTGTTAT
1 TCATCACTATCATTATCTATACTTTACTATTGTAACTTAATATATTAGCATTGTTAT
4372747 TTTTATTGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 46 0.98
66 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.04, T:0.56
Consensus pattern (65 bp):
TCATCACTATCATTATCTATACTTTACTATTGTAACTTAATATATTAGCATTGTTATCTATTATA
Found at i:4372760 original size:15 final size:15
Alignment explanation
Indices: 4372739--4372784 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
4372729 ATATATTAGC
*
4372739 ATTGTTATTTTTATT
1 ATTGTTATTATTATT
*
4372754 GTTGTTATTATTATT
1 ATTGTTATTATTATT
*
4372769 ATTGTCATTATTATT
1 ATTGTTATTATTATT
4372784 A
1 A
4372785 CCATCTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.24, C:0.02, G:0.09, T:0.65
Consensus pattern (15 bp):
ATTGTTATTATTATT
Found at i:4372764 original size:18 final size:18
Alignment explanation
Indices: 4372738--4372784 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4372728 AATATATTAG
* *
4372738 CATTGTTATTTTTATTGT
1 CATTATTATTATTATTGT
**
4372756 TGTTATTATTATTATTGT
1 CATTATTATTATTATTGT
4372774 CATTATTATTA
1 CATTATTATTA
4372785 CCATCTTATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.04, G:0.09, T:0.64
Consensus pattern (18 bp):
CATTATTATTATTATTGT
Found at i:4373129 original size:6 final size:6
Alignment explanation
Indices: 4373113--4373164 Score: 52
Period size: 6 Copynumber: 8.2 Consensus size: 6
4373103 TTACAACTAG
*
4373113 TATTCTT TATTTT TATTTT TATTTTT TATATT TATTACTT T-TTTT TATTTT
1 TATT-TT TATTTT TATTTT TA-TTTT TATTTT TATT--TT TATTTT TATTTT
4373164 T
1 T
4373165 TCCAATACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 3 0.08
6 21 0.54
7 12 0.31
8 3 0.08
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:4373129 original size:13 final size:12
Alignment explanation
Indices: 4373113--4373164 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
4373103 TTACAACTAG
4373113 TATTCTTTATTTT
1 TATT-TTTATTTT
4373126 TATTTTTATTTTT
1 TATTTTTA-TTTT
*
4373139 TATATTTATTACTT
1 TATTTTTATT--TT
4373153 T-TTTTTATTTT
1 TATTTTTATTTT
4373164 T
1 T
4373165 TCCAATACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 3 0.09
12 6 0.18
13 22 0.65
14 3 0.09
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (12 bp):
TATTTTTATTTT
Found at i:4373140 original size:19 final size:20
Alignment explanation
Indices: 4373113--4373164 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
4373103 TTACAACTAG
* *
4373113 TATTCTTTATTTTTATT-TT
1 TATTTTTTATTTTTATTACT
*
4373132 TATTTTTTATATTTATTACT
1 TATTTTTTATTTTTATTACT
4373152 T-TTTTTTATTTTT
1 TATTTTTTATTTTT
4373165 TCCAATACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 26 0.93
20 2 0.07
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (20 bp):
TATTTTTTATTTTTATTACT
Found at i:4377782 original size:66 final size:66
Alignment explanation
Indices: 4377712--4377835 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 66
4377702 TATACCTAGT
* * * *
4377712 ATTTTTCACAC-GGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTATGGTCA
1 ATTTTTC-CACTGGCCTAGCACACGAGCATGTGGCTTGACCGTGTGACACAAGTCAGTATGGTCA
4377776 CC
65 CC
* *
4377778 ATTTTTCCCCTGGCCTAGCACACGAGCATGTGGCTTGACCGTGTGACCCAAGTCAGTA
1 ATTTTTCCACTGGCCTAGCACACGAGCATGTGGCTTGACCGTGTGACACAAGTCAGTA
4377836 AACTTACTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
65 2 0.04
66 49 0.96
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (66 bp):
ATTTTTCCACTGGCCTAGCACACGAGCATGTGGCTTGACCGTGTGACACAAGTCAGTATGGTCAC
C
Found at i:4377848 original size:66 final size:66
Alignment explanation
Indices: 4377723--4377848 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 66
4377713 TTTTTCACAC
* * * * ***
4377723 GGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTATGGTCACCATTTTTCCCC
1 GGCCTAGCACACGAGCATGTGGCTTGACCGTGTGACACAAGTCAGTAAACTCACCATTTTTCCCC
4377788 T
66 T
* * *
4377789 GGCCTAGCACACGAGCATGTGGCTTGACCGTGTGACCCAAGTCAGTAAACTTACTATTTT
1 GGCCTAGCACACGAGCATGTGGCTTGACCGTGTGACACAAGTCAGTAAACTCACCATTTT
4377849 GGGCACGGGC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 50 1.00
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.27
Consensus pattern (66 bp):
GGCCTAGCACACGAGCATGTGGCTTGACCGTGTGACACAAGTCAGTAAACTCACCATTTTTCCCC
T
Found at i:4386645 original size:43 final size:43
Alignment explanation
Indices: 4386584--4386729 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
4386574 CCGAGATGTA
*
4386584 ATTACATGTAAGACCATGTCTGGGATATTGGCATTGTATTGTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTG
* *
4386627 ATTACATGTAAGACCATGTCTGGGACATTGGCATCAT-TAAT-CG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGTG
* * * *
4386670 ATTA-AGTGTAAGGCCCTGTCTGGGACAGTGGCATCG-ATATGTG
1 ATTACA-TGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTG
* *
4386713 ATAACATGTAATACCAT
1 ATTACATGTAAGACCAT
4386730 AAATGGGATA
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 75 0.90
44 4 0.05
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTG
Found at i:4395091 original size:27 final size:30
Alignment explanation
Indices: 4395028--4395086 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
4395018 ATCTCAAAAC
*
4395028 TATACATGAATTTTAATTTAATGTGTAATTG
1 TATACATGAATTTTAATTT-AGGTGTAATTG
4395059 TATACATGAACTTTT-ATTT-GGTGTAATT
1 TATACATGAA-TTTTAATTTAGGTGTAATT
4395087 ATACACGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
31 14 0.54
32 4 0.15
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (30 bp):
TATACATGAATTTTAATTTAGGTGTAATTG
Found at i:4395662 original size:31 final size:29
Alignment explanation
Indices: 4395583--4395662 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
4395573 AAATTGTATC
*
4395583 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATC-AAAGTTCATGTATAAAATTGCACA
* * *
4395613 AAATCAAAGTTTACGTATATAATTGCACA
1 AAATCAAAGTTCATGTATAAAATTGCACA
*
4395642 TTAAATCATAGTTCATGTATA
1 --AAATCAAAGTTCATGTATA
4395663 GTTTTGGGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 20 0.49
30 5 0.12
31 16 0.39
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (29 bp):
AAATCAAAGTTCATGTATAAAATTGCACA
Found at i:4396325 original size:70 final size:67
Alignment explanation
Indices: 4396194--4396326 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 67
4396184 ATAAACAATA
* * *
4396194 TAATGATTTTGCCTTTTAACTTAATAAGTAAACATTTATCAAAACAACGTAGATTTGCCTTTTAA
1 TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACATAGATTTGCCTTTTAA
4396259 CT
66 CT
* ** * *
4396261 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATGACATAGTTTTTCCTTT
1 TAATGATTTTGACTTTTAAC-TTA-AAAA-GTAAACATTTATCAAAACAACATAGATTTGCCTTT
4396326 T
63 T
4396327 CTTAATCGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
67 18 0.33
68 3 0.05
69 3 0.05
70 31 0.56
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (67 bp):
TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACATAGATTTGCCTTTTAA
CT
Found at i:4398481 original size:20 final size:20
Alignment explanation
Indices: 4398451--4398499 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
4398441 TCTTCTGTAC
4398451 TATTATATATATA-TTCTAA
1 TATTATATATATATTTCTAA
4398470 TATTACTATATATATTTCTAA
1 TATTA-TATATATATTTCTAA
4398491 TA-TATATAT
1 TATTATATAT
4398500 TAAAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.36
20 10 0.36
21 8 0.29
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTATATATATATTTCTAA
Found at i:4398592 original size:11 final size:11
Alignment explanation
Indices: 4398576--4398606 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4398566 TCTAAATGTA
4398576 TGTATATATTG
1 TGTATATATTG
*
4398587 TGTATATTTTG
1 TGTATATATTG
4398598 TGTATATAT
1 TGTATATAT
4398607 ATTATACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (11 bp):
TGTATATATTG
Found at i:4398687 original size:22 final size:24
Alignment explanation
Indices: 4398636--4398696 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 24
4398626 TTTTGCTATT
*
4398636 TCATATATATTTTTAAATACCATAA
1 TCATTTATATTTTT-AATACCATAA
*
4398661 T-ATTTATATTTTT-ATACCAT-C
1 TCATTTATATTTTTAATACCATAA
4398682 TCATTTATATGTTTT
1 TCATTTATAT-TTTT
4398697 TATGTTATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 1 0.03
22 15 0.47
23 4 0.12
24 11 0.34
25 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (24 bp):
TCATTTATATTTTTAATACCATAA
Found at i:4402700 original size:44 final size:44
Alignment explanation
Indices: 4402637--4402726 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
4402627 AAATTGTACT
* * * * *
4402637 TTAAATTCTAATTATTTTTAAATGTGTAGTTATCACAACTTCTA
1 TTAAATTATAAATATTTTTAAACGTATAATTATCACAACTTCTA
*
4402681 TTAAATTATAAATATTTTTAAACGTATAATTATCGCAACTTCTA
1 TTAAATTATAAATATTTTTAAACGTATAATTATCACAACTTCTA
4402725 TT
1 TT
4402727 TTATTTTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.47
Consensus pattern (44 bp):
TTAAATTATAAATATTTTTAAACGTATAATTATCACAACTTCTA
Found at i:4404277 original size:21 final size:20
Alignment explanation
Indices: 4404248--4404286 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4404238 TTTATAATTG
* *
4404248 TTAATATTTTTTTTATTTTT
1 TTAATATTTATTTGATTTTT
4404268 TTAATAATTTATTTGATTT
1 TTAAT-ATTTATTTGATTT
4404287 GAACCGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTAATATTTATTTGATTTTT
Found at i:4404935 original size:32 final size:32
Alignment explanation
Indices: 4404899--4404963 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4404889 TGTATGCATT
4404899 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
4404931 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
4404963 T
1 T
4404964 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:4409014 original size:17 final size:17
Alignment explanation
Indices: 4408992--4409025 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4408982 ATCCACTAAT
*
4408992 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
4409009 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
4409026 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:4413642 original size:17 final size:17
Alignment explanation
Indices: 4413620--4413653 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4413610 ATCCACTAAT
*
4413620 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
4413637 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
4413654 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:4425700 original size:35 final size:35
Alignment explanation
Indices: 4425632--4425702 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
4425622 CGTCGTGCCC
4425632 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
*
4425667 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
4425702 A
1 A
4425703 AAAGAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.35, G:0.25, T:0.13
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
Found at i:4426476 original size:9 final size:9
Alignment explanation
Indices: 4426436--4426571 Score: 50
Period size: 9 Copynumber: 15.6 Consensus size: 9
4426426 AACTTTTTTA
*
4426436 TTTTTATTT
1 TTTTTCTTT
**
4426445 TTTAACTTT
1 TTTTTCTTT
*
4426454 TTTTTCTCT
1 TTTTTCTTT
*
4426463 CTTTTCTTT
1 TTTTTCTTT
*
4426472 TTTTT-TTC
1 TTTTTCTTT
4426480 TTTTT-TTT
1 TTTTTCTTT
****
4426488 TTCGAATTAT
1 TTTTTCTT-T
* *
4426498 TTCTTCTTC
1 TTTTTCTTT
*
4426507 TTCTTCTTT
1 TTTTTCTTT
*
4426516 TTTTTGTTT
1 TTTTTCTTT
4426525 TTTTT-TGTT
1 TTTTTCT-TT
4426534 TTTTTC--T
1 TTTTTCTTT
* *
4426541 GTTTTC-TG
1 TTTTTCTTT
*
4426549 TTTTACTTT
1 TTTTTCTTT
*
4426558 TTTATCTTT
1 TTTTTCTTT
4426567 TTTTT
1 TTTTT
4426572 GTCTCTTTTT
Statistics
Matches: 92, Mismatches: 29, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
7 6 0.07
8 16 0.17
9 64 0.70
10 6 0.07
ACGTcount: A:0.06, C:0.12, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:4426487 original size:41 final size:41
Alignment explanation
Indices: 4426428--4426530 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 41
4426418 AATCATCAAA
* * *
4426428 CTTTTTTATTTTTATTTTTT-AACTT-TTTTTTCTCTCTT-TT
1 CTTTTTTTTTTTTTTTTTTTCAA-TTATTTCTTCT-TCTTCTT
4426468 CTTTTTTTTTTCTTTTTTTTTTCGAATTATTTCTTCTTCTTCTT
1 C-TTTTTTTTT-TTTTTTTTTTC-AATTATTTCTTCTTCTTCTT
*
4426512 CTTTTTTTTGTTTTTTTTT
1 CTTTTTTTTTTTTTTTTTT
4426531 GTTTTTTTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
40 1 0.02
41 8 0.15
42 18 0.34
43 14 0.26
44 12 0.23
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.79
Consensus pattern (41 bp):
CTTTTTTTTTTTTTTTTTTTCAATTATTTCTTCTTCTTCTT
Found at i:4426585 original size:13 final size:13
Alignment explanation
Indices: 4426562--4426586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4426552 TACTTTTTTA
4426562 TCTTTTTTTTGTC
1 TCTTTTTTTTGTC
4426575 TCTTTTTTTTGT
1 TCTTTTTTTTGT
4426587 GGAACATGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TCTTTTTTTTGTC
Found at i:4433975 original size:35 final size:35
Alignment explanation
Indices: 4433907--4433977 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
4433897 CGTCGTGCCC
4433907 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
*
4433942 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
4433977 A
1 A
4433978 AAAGAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.35, G:0.25, T:0.13
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
Found at i:4436927 original size:19 final size:18
Alignment explanation
Indices: 4436896--4436939 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4436886 GTCAAGTTAT
*
4436896 ATTTTATAAAATT-TTGAA
1 ATTTTTTAAAATTATT-AA
4436914 ATTTTTTAATAATTATTAA
1 ATTTTTTAA-AATTATTAA
4436933 ATTTTTT
1 ATTTTTT
4436940 TGAACTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 13 0.57
20 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTTTTAAAATTATTAA
Found at i:4444809 original size:13 final size:12
Alignment explanation
Indices: 4444791--4444827 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
4444781 ATCGTGTTCT
4444791 TTAGTTAATTTAA
1 TTAGTTAATTT-A
4444804 TTAGTTAATTTA
1 TTAGTTAATTTA
4444816 TTAAGTTAATTT
1 TT-AGTTAATTT
4444828 TAGTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 3 0.13
13 20 0.87
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (12 bp):
TTAGTTAATTTA
Found at i:4445360 original size:28 final size:28
Alignment explanation
Indices: 4445311--4445367 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4445301 ATTATCAACT
4445311 CCATAAGTTATAAAACTCTTCCTATACC
1 CCATAAGTTATAAAACTCTTCCTATACC
* * * *
4445339 CCATAAGTTATGAGATTTTTCCTATACC
1 CCATAAGTTATAAAACTCTTCCTATACC
4445367 C
1 C
4445368 TATTAACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (28 bp):
CCATAAGTTATAAAACTCTTCCTATACC
Found at i:4445532 original size:14 final size:14
Alignment explanation
Indices: 4445492--4445532 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4445482 AAAAAGAAGA
4445492 TACACTCTCTCTTC
1 TACACTCTCTCTTC
4445506 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
4445517 TACACTCTTTCTTC
1 TACACTCTCTCTTC
4445531 TA
1 TA
4445533 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:4451195 original size:6 final size:6
Alignment explanation
Indices: 4451165--4451239 Score: 64
Period size: 6 Copynumber: 12.3 Consensus size: 6
4451155 AAAAAATATT
* * *
4451165 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
4451214 ATCAGA ATCAGG ATCAGA ATTAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT
4451240 TAGGTGACAG
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
5 3 0.05
6 47 0.85
7 3 0.05
8 2 0.04
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:4451215 original size:19 final size:19
Alignment explanation
Indices: 4451191--4451260 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
4451181 AAATGAGAAT
4451191 CAGAATCAGAATCAAGTGA
1 CAGAATCAGAATCAAGTGA
4451210 CAGAATCAGAATC-AG-GA
1 CAGAATCAGAATCAAGTGA
* * *
4451227 TCAGAATTAGAATTAGGTGA
1 -CAGAATCAGAATCAAGTGA
*
4451247 CAGAATTAGAATCA
1 CAGAATCAGAATCA
4451261 GAATGTGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.05
18 13 0.30
19 27 0.61
20 2 0.05
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATCAAGTGA
Found at i:4451215 original size:37 final size:37
Alignment explanation
Indices: 4451174--4451264 Score: 110
Period size: 37 Copynumber: 2.5 Consensus size: 37
4451164 TATCAGAACT
*
4451174 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAAGTGAC
* * * * *
4451211 AGAATCAGAATCAGGATCAGAATTAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAAGTGAC
* *
4451248 AGAATTAGAATCAGAAT
1 AGAATCAAAATCAGAAT
4451265 GTGAATCCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAAGTGAC
Found at i:4451760 original size:22 final size:22
Alignment explanation
Indices: 4451712--4451770 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
4451702 GTAAATACGT
4451712 TTGGCACAAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * * *
4451734 ATGGCACAAATCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
4451756 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
4451771 CAATAATTGG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:4451951 original size:28 final size:28
Alignment explanation
Indices: 4451878--4451967 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
4451868 GAGACAAAGT
* *
4451878 CACCAGATACAGATA-TTGTGGCAGAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
*
4451905 CACTAG-AACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
4451932 CACCAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
4451960 CACCAGAA
1 CACCAGAA
4451968 TGCTTCCTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 7 0.12
27 21 0.37
28 29 0.51
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:4452251 original size:54 final size:54
Alignment explanation
Indices: 4452193--4452308 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
4452183 GGGCAAAATG
* * *
4452193 GTAATTTTACCCCACAAGGGTATCTCGA-AAATTTTACCCTACAGGAGTATTTTA
1 GTAATTCTACCCCACAAGGGTAT-TCGAGAAATTCTACCCTACAGGAGTATTTCA
* * * ** * *
4452247 GTAATTCTATCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCCACAAGGGTATTCGAGAAATTCTACCCTACAGGAGTATTTCA
4452301 GTAATTCT
1 GTAATTCT
4452309 GTAAATCGAG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 49 0.96
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCCACAAGGGTATTCGAGAAATTCTACCCTACAGGAGTATTTCA
Found at i:4452252 original size:27 final size:27
Alignment explanation
Indices: 4452222--4452308 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
4452212 GTATCTCGAA
* *
4452222 AATTTTACCCTACAGGAGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTTAGT
*
4452249 AATTCTATCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTTAGT
*
4452276 AATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTTAGT
4452303 AATTCT
1 AATTCT
4452309 GTAAATCGAG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTTAGT
Found at i:4452321 original size:27 final size:27
Alignment explanation
Indices: 4452299--4452808 Score: 529
Period size: 27 Copynumber: 18.9 Consensus size: 27
4452289 AGGGGTATTT
4452299 CAGTAATTCTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * *
4452326 TAGTAGTTCTGTAAA-CTAAGGGTAAAA
1 CAGTAATTCTGTAAATC-GAGGGTAAAA
* *
4452353 CAGTAATTTTGTAAACCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * * *
4452380 TAGTAATTTTATAAATCGAGGGCAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
** *
4452407 TGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
4452434 -AGATAATTCTGTAAATCGAGGGTAAAA
1 CAG-TAATTCTGTAAATCGAGGGTAAAA
* *
4452461 TAGTAATTCTGTAAATTGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * * *
4452488 CGGTAATTCTGTAAACCAAGGGTAAAC
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * * *
4452515 CAATAATTCTATAAATCGATGATAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * *
4452542 CAATAATTTTATAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
*
4452569 CGGTAATTCTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * * *
4452596 CGGTAATTCTGTAAATCAATGGCAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* *
4452623 TAGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * *
4452650 CGGTAATTCTGTAAATTGAGAGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * * *
4452677 CAGTAATTCTGTAAATCAATGGCAAAG
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* *
4452704 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * * * *
4452731 CGGTAATTTTGTAAATCAATGGCAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * *
4452758 CGGTAATTTTTTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* *
4452785 CGGTAATTCTGTAAATTGAGGGTA
1 CAGTAATTCTGTAAATCGAGGGTA
4452809 CTTTGGTAAT
Statistics
Matches: 404, Mismatches: 75, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.00
27 399 0.99
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
CAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:4455187 original size:22 final size:21
Alignment explanation
Indices: 4455157--4455203 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
4455147 TACAAATTAA
4455157 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
4455179 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
4455200 ATCT
1 ATCT
4455204 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:4455197 original size:16 final size:16
Alignment explanation
Indices: 4455176--4455226 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
4455166 ATTACAAGAT
4455176 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
4455192 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
4455211 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
4455227 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:4455209 original size:19 final size:21
Alignment explanation
Indices: 4455174--4455216 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
4455164 AGATTACAAG
4455174 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
4455195 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
4455214 ATC
1 ATC
4455217 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:4455807 original size:135 final size:134
Alignment explanation
Indices: 4455637--4455986 Score: 416
Period size: 134 Copynumber: 2.6 Consensus size: 134
4455627 AATCATCTTG
* * * * * **
4455637 GATCTGCTTCGA-TGTAAACATATGAAGGTCAGATCTGCTATGTCTTTAATCTACTCCCCATCGA
1 GATCTGCTTC-ACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTACTCCCCATAAA
* * *
4455701 -ATATGGAGATGCCGAATCTACTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGA
65 CATA-GG-GATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAA
4455765 AATATTC
128 AATATTC
* ** **
4455772 GATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAAC
1 GATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTACTCCCCATAAAC
* *
4455837 ATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGTTAAAAT
66 ATAGGGATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAAT
* *
4455902 CTTT
131 ATTC
* * ** **
4455906 GATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAAC
1 GATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTACTCCCCATAAAC
* *
4455971 ACAGGGATGCAAAATC
66 ATAGGGATGCCAAATC
4455987 ATCTTGGATC
Statistics
Matches: 191, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
134 136 0.71
135 52 0.27
136 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (134 bp):
GATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTACTCCCCATAAAC
ATAGGGATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAAT
ATTC
Found at i:4455881 original size:134 final size:134
Alignment explanation
Indices: 4455708--4455986 Score: 468
Period size: 134 Copynumber: 2.1 Consensus size: 134
4455698 CGAATATGGA
* * *
4455708 GATGCCGAATCTACTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATATTCG
1 GATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATATTCG
4455773 ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
66 ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
*
4455838 TAGG
131 CAGG
* * * *
4455842 GATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGTTAAAATCTTTG
1 GATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATATTCG
*
4455907 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
66 ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
4455972 CAGG
131 CAGG
*
4455976 GATGCAAAATC
1 GATGCCAAATC
4455987 ATCTTGGATC
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (134 bp):
GATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATATTCG
ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
CAGG
Found at i:4456199 original size:353 final size:350
Alignment explanation
Indices: 4455620--4456557 Score: 914
Period size: 353 Copynumber: 2.7 Consensus size: 350
4455610 TCAATACCAA
* * *
4455620 GATGCCAAATCATCTTGGATCTGCTTCGATGTAAACATATGAAGGTCAGATCTGCTATGTCTTTA
1 GATGCAAAATCATCTTGGATCTGCTTCAATGTAAACATATGAAGGTCAGATCTGCTATGTCTTCA
*
4455685 ATCTACTCCCCATCGAATATGGAGATGCCGAATCTACTATCTTCAACTTGTTCCCTATAAACACA
66 ATCTACTCCCCATCGAATATGGAGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACA
* * * * *
4455750 GGGATGCCATGCTGAAATATTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGT
131 GAGATGCAATGC---AATATTCGATCTACTTCACTGTAAACACAGGAAGGTCAGATCTGCTATGT
* *
4455815 CTTCGATCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAA
193 CTTCAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAA
* * * * * * *
4455880 CACAGGGATGCCATGTTAAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCT
258 CACAGGGATGCCATGCTAAAATCTTCGATCTG-TTCCCTATAAACACAGGAATGCCAAATCTGCT
* *
4455945 ATGTCTTCGA-TCTGTTCCCTGTAAACACAGG
322 A--TCTTCAACT-TGTTCCCTATAAACACAGG
4455976 GATGCAAAATCATCTTGGATCTGCTTCAATGTGAAA-ATATCCGAAGGTCAGATCTGCTATGTCT
1 GATGCAAAATCATCTTGGATCTGCTTCAATGT-AAACATAT--GAAGGTCAGATCTGCTATGTCT
* * * * * * * * *
4456040 TCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT-GTTTCTTCAATTTGTTCTCTGA-CAA
63 TCAATCTACTCCCCATCGAATATGGAGATGCCAAATCTACTATCTTCAACTTGTTCCCT-ATAAA
* * * * * * **
4456103 TATAGAGTTGCAAAT-C-ATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGCTAT
127 CACAGAGATGC-AATGCAATATTCGATCTACTTCACTGTAAACACAGGAAGGTCAGATCTGCTAT
* * *
4456166 GTCTTTAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCTTATA
191 GTCTTCAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATA
*
4456231 AACACAGGGATGCCATGCTAAAATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
256 AACACAGGGATGCCATGCTAAAATCTTCGATCTGTTCCCTATAAACACAGGAATGCCAAATCTGC
4456296 TATCTTCAACTTGTTCCCTATAAACACAGG
321 TATCTTCAACTTGTTCCCTATAAACACAGG
* ** * * * * *
4456326 GATGCCATGCTAAA--ATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTA--T
1 GATG-CA----AAATCATCTTGGATCTGCTTCAATGTAAACATATGAAGGTCAGATCTGCTATGT
** ** * * * * * *
4456387 CTTCGGTCTGTTCCCTAT-AAACACAGG-GATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
61 CTTCAATCTACTCCCCATCGAATA-TGGAGATGCCAAATCTACTATCTTCAACTTGTTCCCTATA
* * * * * * * * *
4456450 AACACAGGGATGCCACGCTGGAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTG
125 AACACAGAGATG-CA--ATGCAATATTCGATCTACTTCACTGTAAACACAGGAAGGTCAGATCTG
* ** * * * *
4456515 -T-TATCTTTGATCTGTTCCCTATAAACACAAGGATGCCAAATCT
187 CTATGTCTTCAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCT
4456558 TGCTTCTTTG
Statistics
Matches: 478, Mismatches: 84, Indels: 45
0.79 0.14 0.07
Matches are distributed among these distances:
348 16 0.03
349 39 0.08
350 29 0.06
351 55 0.12
352 30 0.06
353 186 0.39
355 3 0.01
356 34 0.07
357 29 0.06
358 57 0.12
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (350 bp):
GATGCAAAATCATCTTGGATCTGCTTCAATGTAAACATATGAAGGTCAGATCTGCTATGTCTTCA
ATCTACTCCCCATCGAATATGGAGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACA
GAGATGCAATGCAATATTCGATCTACTTCACTGTAAACACAGGAAGGTCAGATCTGCTATGTCTT
CAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAACAC
AGGGATGCCATGCTAAAATCTTCGATCTGTTCCCTATAAACACAGGAATGCCAAATCTGCTATCT
TCAACTTGTTCCCTATAAACACAGG
Found at i:4456215 original size:130 final size:132
Alignment explanation
Indices: 4455982--4456224 Score: 302
Period size: 130 Copynumber: 1.9 Consensus size: 132
4455972 CAGGGATGCA
* * * *
4455982 AAATCATCTTGGATCTGCTTCAATGTGAAAATATCCGAAGGTCAGATCTGCTATGTCTTCGATCT
1 AAATCATCTTGGATCTACTTCAATGTGAAAACATCCGAAGGTCAGATCTGCTATGTCTTCAAGCT
** * *
4456047 TCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTGTTCTCTGACAATATAGAGTT
66 TCTCTCCGTAAAATATGGAGATGCCAAATCTGTATCTTCAACTTGTTCTCTGACAATATAGAGTT
4456112 GC
131 GC
* *
4456114 AAATCATCTTGGATCTACTTC-A-GTGTAAACA-CCTGAAGGTCAGATCTGCTATGTCTTTAAGC
1 AAATCATCTTGGATCTACTTCAATGTGAAAACATCC-GAAGGTCAGATCTGCTATGTCTTCAAGC
4456176 TGT-TC-CCTGTAAACATA-GG-GATGCCAAATCTGCTATCTTCAACTTGTTC
65 T-TCTCTCC-GTAAA-ATATGGAGATGCCAAATCTG-TATCTTCAACTTGTTC
4456225 CTTATAAACA
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
129 17 0.18
130 54 0.56
131 5 0.05
132 20 0.21
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (132 bp):
AAATCATCTTGGATCTACTTCAATGTGAAAACATCCGAAGGTCAGATCTGCTATGTCTTCAAGCT
TCTCTCCGTAAAATATGGAGATGCCAAATCTGTATCTTCAACTTGTTCTCTGACAATATAGAGTT
GC
Found at i:4456240 original size:44 final size:45
Alignment explanation
Indices: 4456175--4456464 Score: 285
Period size: 44 Copynumber: 6.6 Consensus size: 45
4456165 TGTCTTTAAG
* * *
4456175 CTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTATCTTCAACT
1 CTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* ** *
4456220 -TGTTCCTTATAAACACAGGGATGCC--ATGCTAAAATCTTCGA-T
1 CTGTTCCCTATAAACACAGGGATGCCAAAT-CTACTATCTTCAACT
*
4456262 CTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACT
1 CTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
** **
4456307 -TGTTCCCTATAAACACAGGGATGCC--ATGCTAAAATCTTTGA-T
1 CTGTTCCCTATAAACACAGGGATGCCAAAT-CTACTATCTTCAACT
* * * * * * **
4456349 CTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTATCTTC-GGT
1 CTG-TTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
*
4456394 CTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACT
1 CTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
*
4456439 -TGTTCCCCATAAACACAGGGATGCCA
1 CTGTTCCCTATAAACACAGGGATGCCA
4456465 CGCTGGAATC
Statistics
Matches: 197, Mismatches: 36, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
42 6 0.03
43 43 0.22
44 130 0.66
45 16 0.08
46 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (45 bp):
CTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
Found at i:4456270 original size:87 final size:87
Alignment explanation
Indices: 4456175--4456420 Score: 359
Period size: 87 Copynumber: 2.8 Consensus size: 87
4456165 TGTCTTTAAG
* *
4456175 CTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCTTATAAACACAGGG
1 CTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGG
4456240 ATGCCATGCTAAAATCTTCGAT
66 ATGCCATGCTAAAATCTTCGAT
*
4456262 CTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGG
1 CTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGG
*
4456327 ATGCCATGCTAAAATCTTTGAT
66 ATGCCATGCTAAAATCTTCGAT
* * * * * * **
4456349 CTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTATCTTC-GGTCTGTTCCCTATAAACACAG
1 CTG-TTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACT-TGTTCCCTATAAACACAG
4456413 GGATGCCA
64 GGATGCCA
4456421 AATCTGCTAT
Statistics
Matches: 144, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
87 87 0.60
88 57 0.40
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (87 bp):
CTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGG
ATGCCATGCTAAAATCTTCGAT
Found at i:4456400 original size:219 final size:219
Alignment explanation
Indices: 4455814--4456552 Score: 644
Period size: 219 Copynumber: 3.4 Consensus size: 219
4455804 ATCTGCTATG
* *
4455814 TCTTCGATCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAA
1 TCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
*
4455879 ACACAGGGATGCCATGTTAAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
66 ACACAGGGATGCCATGCTAAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
* * **
4455944 TATGTCTTCGATCTGTTCCCTGTAAACACAGGGATG-CAAA-AT-C-ATCTTGGA-TCTGCTTCA
131 TA-GTCTTCGGTCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACT-TG-TTC-
* * **
4456004 ATGTGA-AAATATCCGAAGGTCAGAT--C-TGCTATG
192 CT-T-ATAAACA--C--AGG---GATGCCATGCTAAA
* * * * * *
4456037 TCTTCGATCT-TCTCTCC-GTCGAATA-TGGAGATGCCAAATCTG-TTTCTTCAATTTGTTCTCT
1 TCTTCGATCTGT-TC-CCTGT-AAACACAGG-GATGCCAAATCTGCTATCTTCAACTTGTTCCCT
* * * * * * * ** *
4456098 GA-CAATATA--GA-G--TTGC-AAATCATCTTGGATCTACTTCAG-TGTAAACACCTGAAGGTC
62 -ATAAACACAGGGATGCCATGCTAAA--ATCTTTGATCTGCTTC-GCTGTAAGCACAGGAATGTC
** *
4456155 AGATCTGCTATGTCTTTAAG-CTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTATCTTCAAC
123 AGATCTGCTA-GTC-TTCGGTCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAAC
4456219 TTGTTCCTTATAAACACAGGGATGCCATGCTAAAA
186 TTGTTCCTTATAAACACAGGGATGCCATGCT-AAA
*
4456254 TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
*
4456319 ACACAGGGATGCCATGCTAAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTAC
66 ACACAGGGATGCCATGCTAAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
* **
4456384 TA-TCTTCGGTCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCA
131 TAGTCTTCGGTCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCTTA
* *
4456448 TAAACACAGGGATGCCACGCTGGAA
196 TAAACACAGGGATGCCATGCT-AAA
* * * * * * * **
4456473 TCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGTTATCTTTGA-TCTGTTCCCTAT
1 TCTTCGATCTG-TTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACT-TGTTCCCTAT
*
4456537 AAACACAAGGATGCCA
64 AAACACAGGGATGCCA
4456553 AATCTTGCTT
Statistics
Matches: 415, Mismatches: 67, Indels: 71
0.75 0.12 0.13
Matches are distributed among these distances:
213 3 0.01
215 1 0.00
216 26 0.06
217 39 0.09
218 7 0.02
219 153 0.37
220 71 0.17
221 41 0.10
222 8 0.02
223 46 0.11
224 20 0.05
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (219 bp):
TCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTAAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
TAGTCTTCGGTCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCTTA
TAAACACAGGGATGCCATGCTAAA
Found at i:4456415 original size:132 final size:132
Alignment explanation
Indices: 4456253--4456565 Score: 529
Period size: 132 Copynumber: 2.4 Consensus size: 132
4456243 CCATGCTAAA
*
4456253 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
*
4456318 AACACAGGGATGCCATGCTAAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTA
66 AACACAGGGATGCCACGCTAAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTA
4456383 CT
131 CT
*
4456385 ATCTTCGGTCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
1 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
** *
4456450 AACACAGGGATGCCACGCTGGAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTG
66 AACACAGGGATGCCACGCTAAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTA
*
4456515 TT
131 CT
* *
4456517 ATCTTTGATCTGTTCCCTATAAACACAAGGATGCCAAATCTTGCT-TCTT
1 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATC-TGCTATCTT
4456566 TGATCTACAT
Statistics
Matches: 170, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
132 166 0.98
133 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (132 bp):
ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
AACACAGGGATGCCACGCTAAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTA
CT
Found at i:4457515 original size:20 final size:20
Alignment explanation
Indices: 4457469--4457515 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4457459 GGCCTCTCCA
*
4457469 TTTTATTCTTTCTTTTTTCT
1 TTTTTTTCTTTCTTTTTTCT
*
4457489 CTTTTTTCTTT-TTATTTTCT
1 TTTTTTTCTTTCTT-TTTTCT
4457509 TTTTTTT
1 TTTTTTT
4457516 TGAAATAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTTTCTTTCTTTTTTCT
Found at i:4463186 original size:19 final size:19
Alignment explanation
Indices: 4463152--4463249 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
4463142 AGATTACAAG
4463152 ATCATATCTTTAAGATTGCAT
1 ATCATATC--TAAGATTGCAT
4463173 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
4463192 ATCATAACTAAGATTG--T
1 ATCATATCTAAGATTGCAT
4463209 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
4463228 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
4463247 ATC
1 ATC
4463250 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 49 0.67
21 8 0.11
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:4463215 original size:36 final size:37
Alignment explanation
Indices: 4463162--4463249 Score: 142
Period size: 36 Copynumber: 2.4 Consensus size: 37
4463152 ATCATATCTT
4463162 TAAGATTGCATATCATATCTAAGATTGCATATCATAAC
1 TAAGATTG-ATATCATATCTAAGATTGCATATCATAAC
*
4463200 TAAGATTG-TATCATATCTAAGATTGCATATCATATC
1 TAAGATTGATATCATATCTAAGATTGCATATCATAAC
4463236 TAAGATTGCATATC
1 TAAGATTG-ATATC
4463250 CTTAAAGATT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
36 35 0.74
38 12 0.26
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (37 bp):
TAAGATTGATATCATATCTAAGATTGCATATCATAAC
Found at i:4463258 original size:36 final size:35
Alignment explanation
Indices: 4463152--4463259 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
4463142 AGATTACAAG
*
4463152 ATCATATCTTTAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC--TAAGATTGCATATC--CT-TAAGATTGCAT
*
4463192 ATCATAACTAAGATTGTATCATAT-C-TAAGATTGCAT
1 ATCATATCTAAGATTG---CATATCCTTAAGATTGCAT
4463228 ATCATATCTAAGATTGCATATCCTTAAAGATT
1 ATCATATCTAAGATTGCATATCCTT-AAGATT
4463260 ATATTTCCAT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 5 0.08
34 1 0.02
35 1 0.02
36 32 0.54
38 8 0.14
40 7 0.12
41 5 0.08
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (35 bp):
ATCATATCTAAGATTGCATATCCTTAAGATTGCAT
Found at i:4463619 original size:28 final size:28
Alignment explanation
Indices: 4463579--4463641 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
4463569 GTTATTATCA
4463579 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
4463607 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
4463635 ACCCCAT
1 ACCCCAT
4463642 TAATATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:4464652 original size:25 final size:26
Alignment explanation
Indices: 4464618--4464674 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
4464608 GGTCATTTTT
**
4464618 TTAAAAAAATT-AATAGTTTGGTGAC
1 TTAAAAAAATTAAATAGTTCAGTGAC
4464643 TTAAAAAAATTAGAATAGTTCAGTGAC
1 TTAAAAAAATTA-AATAGTTCAGTGAC
4464670 TTAAA
1 TTAAA
4464675 TTAAAACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.39
27 17 0.61
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.33
Consensus pattern (26 bp):
TTAAAAAAATTAAATAGTTCAGTGAC
Found at i:4465706 original size:27 final size:26
Alignment explanation
Indices: 4465669--4465780 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
4465659 AGCATGGCTG
** *
4465669 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
4465695 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
4465723 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
4465750 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
4465777 CCAG
1 CCAG
4465781 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:4465728 original size:54 final size:54
Alignment explanation
Indices: 4465669--4465780 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
4465659 AGCATGGCTG
* *
4465669 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
4465723 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
4465777 CCAG
1 CCAG
4465781 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:4467434 original size:25 final size:25
Alignment explanation
Indices: 4467391--4467521 Score: 205
Period size: 25 Copynumber: 5.2 Consensus size: 25
4467381 CATGAAATTC
*
4467391 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTA
4467417 TTATCATGAACATTTACCTAACC-A
1 TTATCATGAACATTTACCTAACCTA
4467441 TTATCATGGAACATTT-CCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
4467466 TTATC-TGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
4467491 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCTA
4467516 TTATCA
1 TTATCA
4467522 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 0, Indels: 9
0.92 0.00 0.08
Matches are distributed among these distances:
24 25 0.25
25 67 0.66
26 9 0.09
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCTA
Found at i:4467494 original size:50 final size:50
Alignment explanation
Indices: 4467391--4467521 Score: 205
Period size: 49 Copynumber: 2.6 Consensus size: 50
4467381 CATGAAATTC
* *
4467391 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCA
4467441 TTATCATGGAACATTT-CCTAACCTATTATC-TGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTATTATCAT-GAACATTTACCTAACC-A
4467491 TTATCAT-GAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
4467522 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
48 1 0.01
49 37 0.49
50 37 0.49
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (50 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCA
Found at i:4471532 original size:27 final size:26
Alignment explanation
Indices: 4471495--4471606 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
4471485 AGCATGGCTG
** *
4471495 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
4471521 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
4471549 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
4471576 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
4471603 CCAG
1 CCAG
4471607 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:4471554 original size:54 final size:54
Alignment explanation
Indices: 4471495--4471606 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
4471485 AGCATGGCTG
* *
4471495 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
4471549 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
4471603 CCAG
1 CCAG
4471607 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:4473265 original size:26 final size:26
Alignment explanation
Indices: 4473227--4473336 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
4473217 CATGAAATTC
*
4473227 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
4473253 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
4473279 TTACCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4473305 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4473331 TTATCA
1 TTATCA
4473337 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:4474715 original size:21 final size:21
Alignment explanation
Indices: 4474689--4474731 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4474679 TAAAATATAA
4474689 GACTAAGACCTAAGGAGATTT
1 GACTAAGACCTAAGGAGATTT
* * *
4474710 GACTAAGTCTTAGGGAGATTT
1 GACTAAGACCTAAGGAGATTT
4474731 G
1 G
4474732 TTAGCTTCCT
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:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (21 bp):
GACTAAGACCTAAGGAGATTT
Found at i:4477841 original size:30 final size:29
Alignment explanation
Indices: 4477805--4477877 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 29
4477795 TCATCGACGA
* **
4477805 ATGAAAAGGGATGGCTTTGGCTATTGATCT
1 ATGAAAAGGGATGGCTTTGGATATCAAT-T
* *
4477835 ATGAAAATGGATAGCTTTGGATATCAATT
1 ATGAAAAGGGATGGCTTTGGATATCAATT
4477864 ATGAAAAGGGATGG
1 ATGAAAAGGGATGG
4477878 TGACGATCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 13 0.36
30 23 0.64
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (29 bp):
ATGAAAAGGGATGGCTTTGGATATCAATT
Found at i:4478225 original size:30 final size:30
Alignment explanation
Indices: 4478189--4478379 Score: 155
Period size: 30 Copynumber: 6.4 Consensus size: 30
4478179 TCATCGACGA
*
4478189 ATGAAAAGGGATGGCTTCAG-CTATCAATCT
1 ATGAAAAGGGATAGCTTCAGACTATCAAT-T
*
4478219 ATGAAAAGGGATAGCTTC-GGCTATCAATT
1 ATGAAAAGGGATAGCTTCAGACTATCAATT
* * *
4478248 ATGAAAAGGGAT-G-GTGACGACTATCGATT
1 ATGAAAAGGGATAGCTTCA-GACTATCAATT
* *
4478277 ATGAAAAGGGAT-G-ATGACGACTATCAAATT
1 ATGAAAAGGGATAGCTTCA-GACTATC-AATT
* * *
4478307 ATGAAAAAGGAAAGCTTC-GACTATCGAACT
1 ATGAAAAGGGATAGCTTCAGACTATC-AATT
* **
4478337 ATGAAAAGGGATAACTTC-GGTTATCAATTT
1 ATGAAAAGGGATAGCTTCAGACTATCAA-TT
4478367 ATGAAAAGGGATA
1 ATGAAAAGGGATA
4478380 CGCTAACCAT
Statistics
Matches: 135, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 49 0.36
30 82 0.61
31 1 0.01
32 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCAGACTATCAATT
Found at i:4484850 original size:12 final size:12
Alignment explanation
Indices: 4484817--4484850 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4484807 TTCCCTGTAA
*
4484817 AATAGTAAAAAT
1 AATAGTAAAGAT
4484829 AATAGTAAAGAT
1 AATAGTAAAGAT
4484841 AATAGTAAAG
1 AATAGTAAAG
4484851 GGGAAGTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (12 bp):
AATAGTAAAGAT
Found at i:4485753 original size:20 final size:20
Alignment explanation
Indices: 4485728--4485775 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4485718 TAAATTCTAA
* *
4485728 AAAGATAAATACATTTAATT
1 AAAGATAAATAAATATAATT
*
4485748 AAAGATAATTAAATATAATT
1 AAAGATAAATAAATATAATT
4485768 AAA-ATAAA
1 AAAGATAAA
4485776 ATCCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAGATAAATAAATATAATT
Found at i:4485786 original size:19 final size:18
Alignment explanation
Indices: 4485762--4485805 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
4485752 ATAATTAAAT
4485762 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
4485782 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
4485799 ATAATTA
1 ATAATTA
4485806 TCCTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:4485823 original size:15 final size:15
Alignment explanation
Indices: 4485775--4485835 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
4485765 ATTAAAATAA
*
4485775 AATCCTAAAATTTAAAT
1 AATCCTAATA-TT-AAT
4485792 AATCCT-A-A-TAAT
1 AATCCTAATATTAAT
*
4485804 TATCCTAATATTAAT
1 AATCCTAATATTAAT
*
4485819 AATCCTAATATAAAT
1 AATCCTAATATTAAT
4485834 AA
1 AA
4485836 AATGGAGTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 8 0.21
13 2 0.05
14 1 0.03
15 20 0.53
16 1 0.03
17 6 0.16
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (15 bp):
AATCCTAATATTAAT
Found at i:4486568 original size:89 final size:89
Alignment explanation
Indices: 4486471--4486636 Score: 208
Period size: 89 Copynumber: 1.9 Consensus size: 89
4486461 ACGACCATCA
** ** * **
4486471 AATTATGAAAAGGGATGGCTTCGGCTATCATA-CAATGAAAAGGGATGGCTTCGACTATCGATAT
1 AATTATGAAAAGGGAAAGCTTAAGCTAT-AGACCAATGAAAAGGGATAACTTCGACTATCGATAT
*
4486535 ATGAAAAGGGATAGCTTCGGCTATC
65 ATGAAAAAGGATAGCTTCGGCTATC
* ** *
4486560 AATTATGAAAAGGGAAAGCTTAAGCTATAGACCTATGAAAAGGGATAACTTCGGTTATCGATTTA
1 AATTATGAAAAGGGAAAGCTTAAGCTATAGACCAATGAAAAGGGATAACTTCGACTATCGATATA
4486625 TGAAAAAGGATA
66 TGAAAAAGGATA
4486637 CGCTAACCAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
88 2 0.03
89 62 0.97
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (89 bp):
AATTATGAAAAGGGAAAGCTTAAGCTATAGACCAATGAAAAGGGATAACTTCGACTATCGATATA
TGAAAAAGGATAGCTTCGGCTATC
Found at i:4486600 original size:59 final size:59
Alignment explanation
Indices: 4486474--4486630 Score: 172
Period size: 59 Copynumber: 2.6 Consensus size: 59
4486464 ACCATCAAAT
* ** ** * * *
4486474 TATGAAAAGGGATGGCTTCGGCTATCATACAATGAAAAGGGATGGCTTCGACTATCGATA
1 TATGAAAAGGGATAGCTTCGGCTATCA-ATTATGAAAAGGGAAAGCTTAGACTATAGACA
*
4486534 TATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGAAAGCTTA-AGCTATAGACC
1 TATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGAAAGCTTAGA-CTATAGACA
* * *
4486593 TATGAAAAGGGATAACTTCGGTTATCGATTTATGAAAA
1 TATGAAAAGGGATAGCTTCGGCTATC-AATTATGAAAA
4486631 AGGATACGCT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
58 1 0.01
59 46 0.55
60 36 0.43
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (59 bp):
TATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGAAAGCTTAGACTATAGACA
Found at i:4486627 original size:30 final size:30
Alignment explanation
Indices: 4486369--4486636 Score: 177
Period size: 30 Copynumber: 9.0 Consensus size: 30
4486359 AGGGATGGTG
* **
4486369 GCTTCGGCTATCGATCTATGAAAATAGATA
1 GCTTCGGCTATCGATTTATGAAAAGGGATA
* *
4486399 GCTTCGGATATC-AATTATGAAAAGGGATA
1 GCTTCGGCTATCGATTTATGAAAAGGGATA
* * * * * *
4486428 G-TGACGACCATCGAATAATGATAAGGGAT-
1 GCT-TCGGCTATCGATTTATGAAAAGGGATA
* * * * * * *
4486457 GGTGACGACCATCAAATTATGAAAAGGGATG
1 GCT-TCGGCTATCGATTTATGAAAAGGGATA
** *
4486488 GCTTCGGCTATC-ATACAATGAAAAGGGATG
1 GCTTCGGCTATCGAT-TTATGAAAAGGGATA
* *
4486518 GCTTCGACTATCGATATATGAAAAGGGATA
1 GCTTCGGCTATCGATTTATGAAAAGGGATA
* *
4486548 GCTTCGGCTATC-AATTATGAAAAGGGAAA
1 GCTTCGGCTATCGATTTATGAAAAGGGATA
** * **
4486577 GCTTAAGCTATAGACCTATGAAAAGGGATA
1 GCTTCGGCTATCGATTTATGAAAAGGGATA
* * *
4486607 ACTTCGGTTATCGATTTATGAAAAAGGATA
1 GCTTCGGCTATCGATTTATGAAAAGGGATA
4486637 CGCTAACCAT
Statistics
Matches: 188, Mismatches: 43, Indels: 14
0.77 0.18 0.06
Matches are distributed among these distances:
28 1 0.01
29 44 0.23
30 139 0.74
31 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.25
Consensus pattern (30 bp):
GCTTCGGCTATCGATTTATGAAAAGGGATA
Found at i:4488698 original size:24 final size:25
Alignment explanation
Indices: 4488669--4488719 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
4488659 TCCCAAATTT
4488669 TATACTTT-TTTTACATTCC-AAATG
1 TATACTTTATTTTACA-TCCTAAATG
4488693 TATACTTTATTTTACATCCTAAATG
1 TATACTTTATTTTACATCCTAAATG
4488718 TA
1 TA
4488720 CACTAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (25 bp):
TATACTTTATTTTACATCCTAAATG
Found at i:4491316 original size:22 final size:22
Alignment explanation
Indices: 4491291--4491334 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4491281 GTGTCGTAGG
* *
4491291 ACCAATGACCAAATATGTCTTA
1 ACCAATGACCAAAAACGTCTTA
*
4491313 ACCAATGATCAAAAACGTCTTA
1 ACCAATGACCAAAAACGTCTTA
4491335 CTATCCTTTG
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:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (22 bp):
ACCAATGACCAAAAACGTCTTA
Found at i:4496652 original size:13 final size:13
Alignment explanation
Indices: 4496634--4496658 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4496624 ATGAAGTGTT
4496634 GAAGATCAAGCTA
1 GAAGATCAAGCTA
4496647 GAAGATCAAGCT
1 GAAGATCAAGCT
4496659 GCTATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (13 bp):
GAAGATCAAGCTA
Found at i:4496707 original size:49 final size:49
Alignment explanation
Indices: 4496648--4496741 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
4496638 ATCAAGCTAG
* * *
4496648 AAGATCAAGCTGCTATAATATTTCTGGATGAAGTACATGCAGCTGTAAA
1 AAGATCAAGCTACTACAATATTTCTGAATGAAGTACATGCAGCTGTAAA
* **
4496697 AAGATTAAGCTACTACAATATTTCTGAATGAAGTGTATGCAGCTG
1 AAGATCAAGCTACTACAATATTTCTGAATGAAGTACATGCAGCTG
4496742 CTGAAGTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (49 bp):
AAGATCAAGCTACTACAATATTTCTGAATGAAGTACATGCAGCTGTAAA
Found at i:4502153 original size:42 final size:43
Alignment explanation
Indices: 4502081--4502165 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 43
4502071 TTCTACAACT
* *
4502081 TATAAAAGTTTCTTTTTTGGCCTTGGAAATATCATAGTTTGAC
1 TATAAAAGTTTCTTTTTTGGCCTGGGAAATATAATAGTTTGAC
4502124 TATAAAAGTTTC-TTTTTGGCCTGGGAAATATAATAGTTTGAC
1 TATAAAAGTTTCTTTTTTGGCCTGGGAAATATAATAGTTTGAC
4502166 CTGCATGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 28 0.70
43 12 0.30
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (43 bp):
TATAAAAGTTTCTTTTTTGGCCTGGGAAATATAATAGTTTGAC
Found at i:4509569 original size:18 final size:18
Alignment explanation
Indices: 4509527--4509577 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
4509517 TGATGAGCGA
*
4509527 TGTAAGTCCTAGGATCGC
1 TGTAAGTCCAAGGATCGC
* * *
4509545 AGCAAGTCCAAGGATTGC
1 TGTAAGTCCAAGGATCGC
4509563 TGTAAGTCCAAGGAT
1 TGTAAGTCCAAGGAT
4509578 ATCTATAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (18 bp):
TGTAAGTCCAAGGATCGC
Found at i:4515810 original size:12 final size:12
Alignment explanation
Indices: 4515793--4515817 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4515783 TTGTGTGTTC
4515793 TTTATTTTATTT
1 TTTATTTTATTT
4515805 TTTATTTTATTT
1 TTTATTTTATTT
4515817 T
1 T
4515818 ATTTTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:4520238 original size:5 final size:5
Alignment explanation
Indices: 4520228--4520264 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
4520218 TTGTATGTTC
4520228 TTTAT TTTAT TTTA- TTT-T TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
4520265 ACAAAGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 6 0.20
5 24 0.80
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:4520250 original size:13 final size:13
Alignment explanation
Indices: 4520232--4520258 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4520222 ATGTTCTTTA
4520232 TTTTATTTTATTT
1 TTTTATTTTATTT
4520245 TTTTATTTTATTT
1 TTTTATTTTATTT
4520258 T
1 T
4520259 ATTTTAACAA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:4520251 original size:18 final size:18
Alignment explanation
Indices: 4520228--4520263 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4520218 TTGTATGTTC
4520228 TTTATTTTATTTTATTTT
1 TTTATTTTATTTTATTTT
4520246 TTTATTTTATTTTATTTT
1 TTTATTTTATTTTATTTT
4520264 AACAAAGTTT
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTATTTTATTTTATTTT
Found at i:4526459 original size:48 final size:48
Alignment explanation
Indices: 4526382--4526568 Score: 223
Period size: 48 Copynumber: 3.9 Consensus size: 48
4526372 GGGAGTTTCA
* * * * **
4526382 CACCCTAAGTGCCT-ATATCATGGCTCGAAGCCAAATCAATGTAACTCG
1 CACCCGAAGTG-CTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
*
4526430 CACTCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
1 CACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
* * * * * * * *
4526478 TACCCAAAGTGCTAATATTATGGCTCAAATCCAAATCGATATAGTTCG
1 CACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
4526526 CACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATA
1 CACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATA
4526569 TCTTCTAATG
Statistics
Matches: 114, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
47 2 0.02
48 112 0.98
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (48 bp):
CACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
Found at i:4526552 original size:96 final size:96
Alignment explanation
Indices: 4526383--4526568 Score: 275
Period size: 96 Copynumber: 1.9 Consensus size: 96
4526373 GGAGTTTCAC
* * * *
4526383 ACCCTAAGTGCCTATATCATGGCTCGAAGCCAAATCAATGTAACTCGCACTCGAAGTGCTAATAT
1 ACCCAAAGTGCCTATATCATGGCTCAAAGCCAAATCAATATAACTCGCACCCGAAGTGCTAATAT
4526448 CATAGCCCGAAGCCAAATCAATATAGTTCGT
66 CATAGCCCGAAGCCAAATCAATATAGTTCGT
* * * **
4526479 ACCCAAAGTG-CTAATATTATGGCTCAAATCCAAATCGATATAGTTCGCACCCGAAGTGCTAATA
1 ACCCAAAGTGCCT-ATATCATGGCTCAAAGCCAAATCAATATAACTCGCACCCGAAGTGCTAATA
4526543 TCATAGCCCGAAGCCAAATCAATATA
65 TCATAGCCCGAAGCCAAATCAATATA
4526569 TCTTCTAATG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 2 0.03
96 78 0.98
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (96 bp):
ACCCAAAGTGCCTATATCATGGCTCAAAGCCAAATCAATATAACTCGCACCCGAAGTGCTAATAT
CATAGCCCGAAGCCAAATCAATATAGTTCGT
Found at i:4529093 original size:8 final size:9
Alignment explanation
Indices: 4529070--4529096 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4529060 TTACTTGACT
4529070 TTAAAAATA
1 TTAAAAATA
4529079 TTAAAAATA
1 TTAAAAATA
4529088 TTAAAAATA
1 TTAAAAATA
4529097 AGTAGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:4531180 original size:12 final size:12
Alignment explanation
Indices: 4531163--4531195 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4531153 ACTAGGCGAT
4531163 AATTTTTTTAAA
1 AATTTTTTTAAA
*
4531175 AA-TTTTTTAAG
1 AATTTTTTTAAA
4531186 AATTTTTTTA
1 AATTTTTTTA
4531196 GATTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (12 bp):
AATTTTTTTAAA
Found at i:4553309 original size:30 final size:31
Alignment explanation
Indices: 4553249--4553309 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
4553239 ATAATTAATT
* *
4553249 TAAAATATAAGTATAAGAATAATAAGTAAAA
1 TAAAATATAAGTATAAGAATAAAAAATAAAA
*
4553280 TAAAATA-AATTAGTAA-AATAAAAAATAAAA
1 TAAAATATAAGTA-TAAGAATAAAAAATAAAA
4553310 ATATAACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.25
Consensus pattern (31 bp):
TAAAATATAAGTATAAGAATAAAAAATAAAA
Found at i:4553320 original size:15 final size:13
Alignment explanation
Indices: 4553294--4553341 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 13
4553284 ATAAATTAGT
4553294 AAAATAAAAAATA
1 AAAATAAAAAATA
4553307 AAAATATAACAAATA
1 AAAATA-AA-AAATA
*
4553322 ATAATAAATAAAATA
1 AAAAT-AA-AAAATA
4553337 AAAAT
1 AAAAT
4553342 GGGGTGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.21
14 2 0.07
15 19 0.66
16 2 0.07
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:4562157 original size:62 final size:63
Alignment explanation
Indices: 4562031--4562157 Score: 148
Period size: 63 Copynumber: 2.0 Consensus size: 63
4562021 TGTAATATGC
* * *
4562031 TTGTGCGTACTATAGTGCTTGTGTAAAATAAATTGATGTTAAAGGTGTTGATGCAAGGAATGA
1 TTGTGCGTACTATAGTGCTTGTGTAAAATAAACTGATGCTAAAGGTGTTGATACAAGGAATGA
* * * * * * **
4562094 TTGTGCGTGCTATGGTGTTTGTGTAAACTAAACTGA-GCTGAATGTGTTGATACGGGGAATGA
1 TTGTGCGTACTATAGTGCTTGTGTAAAATAAACTGATGCTAAAGGTGTTGATACAAGGAATGA
4562156 TT
1 TT
4562158 ATGCATGTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
62 22 0.42
63 31 0.58
ACGTcount: A:0.28, C:0.08, G:0.29, T:0.35
Consensus pattern (63 bp):
TTGTGCGTACTATAGTGCTTGTGTAAAATAAACTGATGCTAAAGGTGTTGATACAAGGAATGA
Found at i:4563159 original size:21 final size:21
Alignment explanation
Indices: 4563133--4563265 Score: 131
Period size: 21 Copynumber: 6.3 Consensus size: 21
4563123 TTAAAAAAAT
* *
4563133 AATTGAGAACTGAGAATTAAG
1 AATTGAGAATTGAGAATTGAG
* *
4563154 AATTGAGGATTGAGGATTGAG
1 AATTGAGAATTGAGAATTGAG
* * *
4563175 GATTGAGGATTGAGGATTGAG
1 AATTGAGAATTGAGAATTGAG
*
4563196 AATTGAGAATTGAGAAATGAG
1 AATTGAGAATTGAGAATTGAG
* * *
4563217 AAATGAGAAATGAAAATTGAG
1 AATTGAGAATTGAGAATTGAG
* * *
4563238 GATTGAGAATTTAGGATTGAG
1 AATTGAGAATTGAGAATTGAG
*
4563259 GATTGAG
1 AATTGAG
4563266 TTAAAAAGAA
Statistics
Matches: 93, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 93 1.00
ACGTcount: A:0.41, C:0.01, G:0.32, T:0.26
Consensus pattern (21 bp):
AATTGAGAATTGAGAATTGAG
Found at i:4563165 original size:7 final size:7
Alignment explanation
Indices: 4563155--4563265 Score: 114
Period size: 7 Copynumber: 15.9 Consensus size: 7
4563145 AGAATTAAGA
4563155 ATTGAGG
1 ATTGAGG
4563162 ATTGAGG
1 ATTGAGG
4563169 ATTGAGG
1 ATTGAGG
4563176 ATTGAGG
1 ATTGAGG
4563183 ATTGAGG
1 ATTGAGG
*
4563190 ATTGAGA
1 ATTGAGG
*
4563197 ATTGAGA
1 ATTGAGG
*
4563204 ATTGAGA
1 ATTGAGG
* *
4563211 AATGAGA
1 ATTGAGG
* *
4563218 AATGAGA
1 ATTGAGG
* **
4563225 AATGAAA
1 ATTGAGG
4563232 ATTGAGG
1 ATTGAGG
*
4563239 ATTGAGA
1 ATTGAGG
*
4563246 ATTTAGG
1 ATTGAGG
4563253 ATTGAGG
1 ATTGAGG
4563260 ATTGAG
1 ATTGAG
4563266 TTAAAAAGAA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 94 1.00
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.27
Consensus pattern (7 bp):
ATTGAGG
Found at i:4563172 original size:14 final size:14
Alignment explanation
Indices: 4563133--4563265 Score: 122
Period size: 14 Copynumber: 9.5 Consensus size: 14
4563123 TTAAAAAAAT
* *
4563133 AATTGAGAACTGAG
1 AATTGAGGATTGAG
* *
4563147 AATTAAGAATTGAG
1 AATTGAGGATTGAG
*
4563161 GATTGAGGATTGAG
1 AATTGAGGATTGAG
*
4563175 GATTGAGGATTGAG
1 AATTGAGGATTGAG
* *
4563189 GATTGAGAATTGAG
1 AATTGAGGATTGAG
* *
4563203 AATTGAGAAATGAG
1 AATTGAGGATTGAG
* * * *
4563217 AAATGAGAAATGAA
1 AATTGAGGATTGAG
4563231 AATTGAGGATTGAG
1 AATTGAGGATTGAG
*
4563245 AATTTAGGATTGAG
1 AATTGAGGATTGAG
*
4563259 GATTGAG
1 AATTGAG
4563266 TTAAAAAGAA
Statistics
Matches: 102, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 102 1.00
ACGTcount: A:0.41, C:0.01, G:0.32, T:0.26
Consensus pattern (14 bp):
AATTGAGGATTGAG
Found at i:4566888 original size:27 final size:24
Alignment explanation
Indices: 4566838--4566891 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 24
4566828 CTATTGCCCA
*
4566838 TTTTAAATTTTATATATTATTTAT
1 TTTTAAATTTTATATATTACTTAT
4566862 TTTTAAATTATTATTTATATTACTTAT
1 TTTTAAATT-TTA--TATATTACTTAT
4566889 TTT
1 TTT
4566892 GGTCTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 9 0.35
25 3 0.12
27 14 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTAAATTTTATATATTACTTAT
Found at i:4567076 original size:22 final size:22
Alignment explanation
Indices: 4567051--4567098 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4567041 TATCTCAAGA
*
4567051 TATTATATATATATAT-ATATAT
1 TATTATAGAT-TATATCATATAT
* *
4567073 TATTTTAGATTATTTCATATAT
1 TATTATAGATTATATCATATAT
4567095 TATT
1 TATT
4567099 TATTCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTATAGATTATATCATATAT
Found at i:4567098 original size:12 final size:11
Alignment explanation
Indices: 4567053--4567101 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
4567043 TCTCAAGATA
4567053 TTATATATATAT
1 TTATATAT-TAT
*
4567065 ATATATATTAT
1 TTATATATTAT
*
4567076 TT-TAGATTAT
1 TTATATATTAT
4567086 TTCATATATTAT
1 TT-ATATATTAT
4567098 TTAT
1 TTAT
4567102 TCAAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 9 0.29
11 6 0.19
12 16 0.52
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
TTATATATTAT
Found at i:4569356 original size:19 final size:21
Alignment explanation
Indices: 4569309--4569360 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
4569299 ATAACATTTC
4569309 TTATT-TAAAT-TATTAGATA
1 TTATTATAAATATATTAGATA
*
4569328 TAATTA-AAATATATTA-AT-
1 TTATTATAAATATATTAGATA
4569346 TTATTATAAATATAT
1 TTATTATAAATATAT
4569361 ATTTCTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTATTATAAATATATTAGATA
Found at i:4574339 original size:24 final size:24
Alignment explanation
Indices: 4574312--4574363 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4574302 TTAGTAAGTC
*
4574312 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4574336 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4574360 AAAT
1 AAAT
4574364 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4582803 original size:27 final size:27
Alignment explanation
Indices: 4582765--4582818 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
4582755 CCCAAAAAGA
4582765 CTAAAATTATAAGAACTAATACTTATG
1 CTAAAATTATAAGAACTAATACTTATG
*
4582792 CTAAAATTATAAGAACTAATGCTTATG
1 CTAAAATTATAAGAACTAATACTTATG
4582819 GACCCAAAAG
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:0.46, C:0.11, G:0.09, T:0.33
Consensus pattern (27 bp):
CTAAAATTATAAGAACTAATACTTATG
Found at i:4583404 original size:17 final size:17
Alignment explanation
Indices: 4583382--4583416 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4583372 AATGTAGAAG
4583382 TGCCAAATTATCTTAAA
1 TGCCAAATTATCTTAAA
4583399 TGCCAAATTATCTTAAA
1 TGCCAAATTATCTTAAA
4583416 T
1 T
4583417 ATATGTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (17 bp):
TGCCAAATTATCTTAAA
Found at i:4584004 original size:28 final size:28
Alignment explanation
Indices: 4583967--4584021 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
4583957 AATGAATTAT
4583967 TTACTCTTATATGTTGCATTTTTGGTTA
1 TTACTCTTATATGTTGCATTTTTGGTTA
4583995 TTACTCTTATATGTTGCATTTTTGGTT
1 TTACTCTTATATGTTGCATTTTTGGTT
4584022 TCAATAGCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.16, C:0.11, G:0.15, T:0.58
Consensus pattern (28 bp):
TTACTCTTATATGTTGCATTTTTGGTTA
Found at i:4586111 original size:16 final size:15
Alignment explanation
Indices: 4586092--4586154 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 15
4586082 AAAGAATAAA
4586092 AGAAAAGGGAAAAATG
1 AGAAAA-GGAAAAATG
* *
4586108 AGAAAATGAAATAATAAA
1 AGAAAAGGAAA-AAT--G
*
4586126 AGAAAAGGGAAAAACG
1 AGAAAA-GGAAAAATG
4586142 AGAAAAGGAAAAA
1 AGAAAAGGAAAAA
4586155 GGAAATTACA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
15 11 0.29
16 15 0.39
18 8 0.21
19 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.24, T:0.06
Consensus pattern (15 bp):
AGAAAAGGAAAAATG
Found at i:4586125 original size:34 final size:34
Alignment explanation
Indices: 4586080--4586152 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
4586070 AACAAAAATG
*
4586080 GGAAAGAATAAAAGAAAAGGGAAAAATGAGAAAA
1 GGAAAGAATAAAAGAAAAGGGAAAAACGAGAAAA
* *
4586114 TGAAATAATAAAAGAAAAGGGAAAAACGAGAAAA
1 GGAAAGAATAAAAGAAAAGGGAAAAACGAGAAAA
4586148 GGAAA
1 GGAAA
4586153 AAGGAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.67, C:0.01, G:0.25, T:0.07
Consensus pattern (34 bp):
GGAAAGAATAAAAGAAAAGGGAAAAACGAGAAAA
Found at i:4587763 original size:95 final size:96
Alignment explanation
Indices: 4587644--4587838 Score: 367
Period size: 95 Copynumber: 2.0 Consensus size: 96
4587634 AACCAACACA
4587644 CCAATCTCGGGCACTCAAGGCATTCCACACAATGAACAATAAGCAATGATGGGAACCCTTACGC-
1 CCAATCTCGGGCACTCAAGGCATTCCACACAATGAACAATAAGCAATGATGGGAACCCTTACGCT
4587708 CTATGGCATGCCAAGTATATCTAACAAATTT
66 CTATGGCATGCCAAGTATATCTAACAAATTT
4587739 CCAATCTCTGGGCA-TCAAGGCATTCCACACAATGAACAATAAGCAATGATGGGAACCCTTACGC
1 CCAATCTC-GGGCACTCAAGGCATTCCACACAATGAACAATAAGCAATGATGGGAACCCTTACGC
4587803 TCTATGGCATGCCAAGTATATCTAACAAATTT
65 TCTATGGCATGCCAAGTATATCTAACAAATTT
4587835 CCAA
1 CCAA
4587839 CTAGCTTTAC
Statistics
Matches: 98, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
95 58 0.59
96 40 0.41
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (96 bp):
CCAATCTCGGGCACTCAAGGCATTCCACACAATGAACAATAAGCAATGATGGGAACCCTTACGCT
CTATGGCATGCCAAGTATATCTAACAAATTT
Found at i:4599837 original size:6 final size:6
Alignment explanation
Indices: 4599826--4599868 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
4599816 TTTTGAAGAT
* * *
4599826 TTTTTA TTTTTA TCTTTTA CTTTTA TCTTTA TTTATA TTTTTA
1 TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA
4599869 AATTACTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:4601977 original size:48 final size:48
Alignment explanation
Indices: 4601887--4601986 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 48
4601877 CACATGCCCA
** * *
4601887 TGTCTATTTAACAGACTGTAACATGGCCTAAGCCACACCACACAGTCG
1 TGTCTATTTAACAGACCCTAACACGGCCTAAGCCACACCACACAGGCG
* *
4601935 TGTCTATTTAGCAGACCCTAACACGGCCTAAGCCAC-CTCACACGGGCG
1 TGTCTATTTAACAGACCCTAACACGGCCTAAGCCACAC-CACACAGGCG
4601983 TGTC
1 TGTC
4601987 CTTGTTGAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 1 0.02
48 44 0.98
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (48 bp):
TGTCTATTTAACAGACCCTAACACGGCCTAAGCCACACCACACAGGCG
Found at i:4609846 original size:12 final size:12
Alignment explanation
Indices: 4609829--4609858 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4609819 TAGACATACG
4609829 AAATAATAATAA
1 AAATAATAATAA
4609841 AAATAATAATAA
1 AAATAATAATAA
*
4609853 TAATAA
1 AAATAA
4609859 CATCCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:4613419 original size:23 final size:24
Alignment explanation
Indices: 4613379--4613429 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4613369 AGATATAATT
*
4613379 AAAATATATAATAAAA-TTGTTTA
1 AAAATATAAAATAAAATTTGTTTA
*
4613402 AAAATA-AAAATAATAATTTTTTTA
1 AAAATATAAAATAA-AATTTGTTTA
4613426 AAAA
1 AAAA
4613430 ATTATGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
AAAATATAAAATAAAATTTGTTTA
Found at i:4617431 original size:2 final size:2
Alignment explanation
Indices: 4617424--4617450 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4617414 GCGTTATTCA
4617424 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4617451 AAGAAGGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4617889 original size:32 final size:33
Alignment explanation
Indices: 4617815--4617898 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
4617805 TGGAAAAGTT
4617815 AATATTTTCTAGTATTTAGATGAATCTGTGTAA
1 AATATTTTCTAGTATTTAGATGAATCTGTGTAA
* *
4617848 AATAATTTCT-GATATTTAGATTAATCT-TGTAA
1 AATATTTTCTAG-TATTTAGATGAATCTGTGTAA
*
4617880 AATATTTTCTATTATTTAG
1 AATATTTTCTAGTATTTAG
4617899 TAGATTTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
32 22 0.49
33 23 0.51
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.49
Consensus pattern (33 bp):
AATATTTTCTAGTATTTAGATGAATCTGTGTAA
Found at i:4618274 original size:15 final size:15
Alignment explanation
Indices: 4618254--4618305 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
4618244 ACTACAAAAC
4618254 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
4618269 ATTTATAATTATAATAATT
1 ATTTATTA-T-TAAT-A-T
*
4618288 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
4618303 ATT
1 ATT
4618306 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
16 2 0.07
17 7 0.23
18 2 0.07
19 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:4618292 original size:19 final size:20
Alignment explanation
Indices: 4618263--4618303 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
4618253 CATTTATTAT
*
4618263 TAATATATTTATAATTATAA
1 TAATATATTTATAATTAAAA
*
4618283 TAAT-TATTTATTATTAAAA
1 TAATATATTTATAATTAAAA
4618302 TA
1 TA
4618304 TTAATATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATATATTTATAATTAAAA
Done.