Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 61 of 199
Found at i:17550710 original size:33 final size:33
Alignment explanation
Indices: 17550668--17550743 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
17550658 GATTAGCTAT
17550668 TACACCTCTAAT-CCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCCAATACACCTCTAAT-CCAA
*
17550701 TACACCTCTAATCCCAATACATCTCTAATCCAA
1 TACACCTCTAATCCCAATACACCTCTAATCCAA
*
17550734 TACATCTCTA
1 TACACCTCTA
17550744 TTCTGCAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 25 0.62
34 15 0.38
ACGTcount: A:0.36, C:0.37, G:0.00, T:0.28
Consensus pattern (33 bp):
TACACCTCTAATCCCAATACACCTCTAATCCAA
Found at i:17555581 original size:20 final size:20
Alignment explanation
Indices: 17555535--17555574 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17555525 TAAAAGTTTG
* *
17555535 TATTTTATTAATTTTTAATA
1 TATTTTATTAATTTTCAAAA
17555555 TATTTTATTAATTTTCAAAA
1 TATTTTATTAATTTTCAAAA
17555575 GTTTTTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTATTAATTTTCAAAA
Found at i:17560151 original size:16 final size:16
Alignment explanation
Indices: 17560130--17560163 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
17560120 ATCAAATTGA
*
17560130 TTTTAATTAATTAATT
1 TTTTAATTAAATAATT
17560146 TTTTAATTAAATAATT
1 TTTTAATTAAATAATT
17560162 TT
1 TT
17560164 CTCTACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTAATTAAATAATT
Found at i:17560792 original size:24 final size:21
Alignment explanation
Indices: 17560741--17560796 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
17560731 TTTTGCTAGT
**
17560741 TTTTGTTGTTGTTTGATGTTA
1 TTTTGTTGTTGTTTGATGCCA
17560762 TTTTGTTGTTGTTTGATGCCA
1 TTTTGTTGTTGTTTGATGCCA
*
17560783 TTTTGATGTTGTTT
1 TTTTGTTGTTGTTT
17560797 TGTTTCCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.09, C:0.04, G:0.23, T:0.64
Consensus pattern (21 bp):
TTTTGTTGTTGTTTGATGCCA
Found at i:17562733 original size:76 final size:76
Alignment explanation
Indices: 17562649--17562824 Score: 255
Period size: 76 Copynumber: 2.3 Consensus size: 76
17562639 TGCATATAAA
** * ** * *
17562649 GGGGTTGCTGTGTGCTGATTCCCCTATTCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 GGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
*
17562713 TAAATCTGAAAG
66 GAAATCTG-AAG
17562725 GGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
1 GGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
*
17562790 GAAATGTGAAG
66 GAAATCTGAAG
17562801 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
17562825 CAAGGGGTTG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
76 52 0.58
77 38 0.42
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.32
Consensus pattern (76 bp):
GGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
GAAATCTGAAG
Found at i:17565602 original size:27 final size:27
Alignment explanation
Indices: 17565572--17565630 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
17565562 GTAATCACAA
* *
17565572 GGTAGTCTACCGGGATAGTAAACACGG
1 GGTAGTCTACCAGGATAATAAACACGG
* **
17565599 GGTAGTTTGTCAGGATAATAAACACGG
1 GGTAGTCTACCAGGATAATAAACACGG
17565626 GGTAG
1 GGTAG
17565631 CTCGTCAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.22
Consensus pattern (27 bp):
GGTAGTCTACCAGGATAATAAACACGG
Found at i:17565637 original size:27 final size:27
Alignment explanation
Indices: 17565584--17565637 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
17565574 TAGTCTACCG
* * *
17565584 GGATAGTAAACACGGGGTAGTTTGTCA
1 GGATAATAAACACGGGGTAGCTCGTCA
17565611 GGATAATAAACACGGGGTAGCTCGTCA
1 GGATAATAAACACGGGGTAGCTCGTCA
17565638 AGACATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.22
Consensus pattern (27 bp):
GGATAATAAACACGGGGTAGCTCGTCA
Found at i:17565647 original size:27 final size:27
Alignment explanation
Indices: 17565590--17565649 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
17565580 ACCGGGATAG
* * * *
17565590 TAAACACGGGGTAGTTTGTCAGGATAA
1 TAAACACGGGGTAGCTCGTCAAGACAA
*
17565617 TAAACACGGGGTAGCTCGTCAAGACAT
1 TAAACACGGGGTAGCTCGTCAAGACAA
17565644 TAAACA
1 TAAACA
17565650 TTAGGTTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (27 bp):
TAAACACGGGGTAGCTCGTCAAGACAA
Found at i:17567771 original size:28 final size:28
Alignment explanation
Indices: 17567740--17567800 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
17567730 ATTTTCCTCT
*
17567740 ACTCTCATCATAGCAGTCATTCTCCTTC
1 ACTCTCATCACAGCAGTCATTCTCCTTC
* *
17567768 ACTCTCTTCACAGCAGTCGTTCTCCTTC
1 ACTCTCATCACAGCAGTCATTCTCCTTC
17567796 -CTCTC
1 ACTCTC
17567801 TGTCCATCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.16, C:0.39, G:0.08, T:0.36
Consensus pattern (28 bp):
ACTCTCATCACAGCAGTCATTCTCCTTC
Found at i:17570694 original size:21 final size:21
Alignment explanation
Indices: 17570670--17570709 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17570660 GCCTAAGATG
*
17570670 TGAATTGGATTGAATTGAGTA
1 TGAATTGGATTAAATTGAGTA
*
17570691 TGAATTGTATTAAATTGAG
1 TGAATTGGATTAAATTGAG
17570710 CTAAATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (21 bp):
TGAATTGGATTAAATTGAGTA
Found at i:17570879 original size:21 final size:21
Alignment explanation
Indices: 17570838--17570879 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
17570828 TAAATTATGT
*
17570838 ATGTTTATATGTTTAAATTTA
1 ATGTTTATATGTTGAAATTTA
*
17570859 ATGTTGTATATG-TGAATTTTA
1 ATGTT-TATATGTTGAAATTTA
17570880 TGAATGCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (21 bp):
ATGTTTATATGTTGAAATTTA
Found at i:17571582 original size:24 final size:25
Alignment explanation
Indices: 17571529--17571576 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17571519 TTGGCCCTCT
* *
17571529 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
17571554 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
17571577 CGGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:17571930 original size:27 final size:24
Alignment explanation
Indices: 17571883--17571946 Score: 56
Period size: 27 Copynumber: 2.5 Consensus size: 24
17571873 TGGCTCATAT
* *
17571883 GAGCTTCCCGTTTTATGGCTCGAGAG
1 GAGCTTCCCG-ATAATGGCTCGA-AG
*
17571909 AGAGCTTCCCGATAATGTGCTCTAAG
1 -GAGCTTCCCGATAATG-GCTCGAAG
17571935 GAGCTCTCCCGA
1 GAGCT-TCCCGA
17571947 ATATGAATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 5 0.16
26 12 0.38
27 15 0.47
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (24 bp):
GAGCTTCCCGATAATGGCTCGAAG
Found at i:17575474 original size:23 final size:25
Alignment explanation
Indices: 17575440--17575493 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
17575430 GAAAATGACT
17575440 AAAT-TGAAAAG-T-TGAAATAATA
1 AAATATGAAAAGTTATGAAATAATA
* *
17575462 AAATATGACAAGTTAATTAAATAATA
1 AAATATGAAAAGTT-ATGAAATAATA
17575488 AAATAT
1 AAATAT
17575494 CATCTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 4 0.15
23 6 0.23
24 1 0.04
26 15 0.58
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (25 bp):
AAATATGAAAAGTTATGAAATAATA
Found at i:17576330 original size:17 final size:17
Alignment explanation
Indices: 17576310--17576342 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17576300 GTTGTGGTCA
17576310 TGCTTATGTTGCGGACC
1 TGCTTATGTTGCGGACC
*
17576327 TGCTTATGTTGTGGAC
1 TGCTTATGTTGCGGAC
17576343 ACACCATAGC
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:0.12, C:0.18, G:0.30, T:0.39
Consensus pattern (17 bp):
TGCTTATGTTGCGGACC
Found at i:17585008 original size:7 final size:6
Alignment explanation
Indices: 17584983--17585018 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
17584973 AATACCCTCC
17584983 TTTTCT TTTTCT TTTTCT TTTATCT TTTATCT TTTT
1 TTTTCT TTTTCT TTTTCT TTT-TCT TTT-TCT TTTT
17585019 TTCTCTCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:17585997 original size:29 final size:27
Alignment explanation
Indices: 17585958--17586014 Score: 62
Period size: 29 Copynumber: 2.0 Consensus size: 27
17585948 GAGAAATTAA
*
17585958 AAATAATAATA-ATATTATGTTTTAAAT
1 AAATAATAATACA-ATTATATTTTAAAT
*
17585985 AAATAAATAAATACAATTTTATTTTAAAT
1 AAAT-AAT-AATACAATTATATTTTAAAT
17586014 A
1 A
17586015 TGATATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 4 0.16
28 3 0.12
29 17 0.68
30 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
AAATAATAATACAATTATATTTTAAAT
Found at i:17594103 original size:28 final size:27
Alignment explanation
Indices: 17594046--17594104 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
17594036 GATTTCGCGG
*
17594046 AAAATGGACCATTCCGGTAAATAATTAA
1 AAAATGGACCATTCCGGTAAATAA-AAA
* * * *
17594074 AAATTGGCCCATTTCGGTAATTAAAAA
1 AAAATGGACCATTCCGGTAAATAAAAA
17594101 AAAA
1 AAAA
17594105 AGACTTTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (27 bp):
AAAATGGACCATTCCGGTAAATAAAAA
Found at i:17595075 original size:11 final size:11
Alignment explanation
Indices: 17595055--17595084 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
17595045 ATAATAAATA
17595055 AAAAAGTATTTT
1 AAAAA-TATTTT
17595067 AAAAATATTTT
1 AAAAATATTTT
17595078 AAAAATA
1 AAAAATA
17595085 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:17597044 original size:22 final size:20
Alignment explanation
Indices: 17597006--17597045 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
17596996 TGATAATCTA
17597006 GATTTTAGAGAGATTTAAGT
1 GATTTTAGAGAGATTTAAGT
*
17597026 GATTTATAGATGATATTTAA
1 GATTT-TAGA-GAGATTTAA
17597046 AGAGAGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
GATTTTAGAGAGATTTAAGT
Found at i:17602224 original size:16 final size:18
Alignment explanation
Indices: 17602180--17602219 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
17602170 CTAAAGTTTA
*
17602180 TTGATAATTATTATATAGT
1 TTGATAAATA-TATATAGT
17602199 TTGATAAATATATATA-T
1 TTGATAAATATATATAGT
17602216 TTGA
1 TTGA
17602220 GAATACTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (18 bp):
TTGATAAATATATATAGT
Found at i:17605756 original size:14 final size:14
Alignment explanation
Indices: 17605718--17605760 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
17605708 CAAAATGTAC
17605718 AATATAATTAAA-T
1 AATATAATTAAATT
17605731 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
17605746 AA-ATAATTTAATT
1 AATATAATTAAATT
17605759 AA
1 AA
17605761 CTATTTACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:17608593 original size:54 final size:54
Alignment explanation
Indices: 17608501--17608668 Score: 309
Period size: 54 Copynumber: 3.1 Consensus size: 54
17608491 CTAATATGAG
17608501 TTTATAAATATTTGGGTCAATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
1 TTTATAAATATTTGGGTC-ATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
*
17608556 TTTATAAATATTTGGGTCATGCAAGATTTTTCTTTAAATTTTTGGGCTCTTTCA
1 TTTATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
*
17608610 TTTATAAATATTTGGGTCATGCAATATTCTTCTTTAAATTTTTGGGCTCTTTCA
1 TTTATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
17608664 TTTAT
1 TTTAT
17608669 TGTTTCTAAA
Statistics
Matches: 110, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 92 0.84
55 18 0.16
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (54 bp):
TTTATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
Found at i:17608827 original size:24 final size:23
Alignment explanation
Indices: 17608800--17608875 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 23
17608790 TTCATTGGAA
17608800 ATTTAACTATAAAGTACATGTCAT
1 ATTTAACTATAAAGTACAT-TCAT
* * * *
17608824 ATTTAACTATAAATTTCATTGGAA
1 ATTTAACTATAAAGTACATT-CAT
*
17608848 ATTTAACTATAAAGTACATTTAT
1 ATTTAACTATAAAGTACATTCAT
17608871 ATTTA
1 ATTTA
17608876 CTCAAGGGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
23 7 0.16
24 36 0.84
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (23 bp):
ATTTAACTATAAAGTACATTCAT
Found at i:17612503 original size:49 final size:49
Alignment explanation
Indices: 17612424--17612551 Score: 127
Period size: 49 Copynumber: 2.6 Consensus size: 49
17612414 TACATATGCA
* * * *
17612424 TATTTTTATAATTTATCTATATATAC-ATATATGTGCCTATATACAT-TTT
1 TATTTTCATAA-TTATATATATAT-CTATATATATGCCTATAAACATATTT
* **
17612473 TATATTTCATAATTATATATATATCTATATATATGTCTATAAATGTATTT
1 TAT-TTTCATAATTATATATATATCTATATATATGCCTATAAACATATTT
* *
17612523 TATTTTCATAAATATATATAT-TCTTTATA
1 TATTTTCATAATTATATATATATCTATATA
17612552 CTTTTTAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 8 0.12
49 46 0.69
50 13 0.19
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (49 bp):
TATTTTCATAATTATATATATATCTATATATATGCCTATAAACATATTT
Found at i:17612549 original size:25 final size:25
Alignment explanation
Indices: 17612462--17612584 Score: 80
Period size: 25 Copynumber: 5.0 Consensus size: 25
17612452 ATATGTGCCT
* *
17612462 ATATACATT-TTTATATTTCATAATT
1 ATATATATTCTTTATATTTCATAA-A
* *
17612487 ATATATATATCTATATATATGTC-TATA
1 ATATATAT-TCT-T-TATATTTCATAAA
*
17612514 A-ATGTA-T-TTTAT-TTTCATAAA
1 ATATATATTCTTTATATTTCATAAA
*
17612535 TATATATATTCTTTATACTTT-TTAAA
1 -ATATATATTCTTTATA-TTTCATAAA
*
17612561 ATGTATATTCTTTATATTTCATAA
1 ATATATATTCTTTATATTTCATAA
17612585 TTCGTATATA
Statistics
Matches: 75, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
20 3 0.04
21 6 0.08
22 2 0.03
23 5 0.07
24 5 0.07
25 30 0.40
26 9 0.12
27 5 0.07
28 3 0.04
29 7 0.09
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (25 bp):
ATATATATTCTTTATATTTCATAAA
Found at i:17612713 original size:19 final size:19
Alignment explanation
Indices: 17612691--17612732 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17612681 TAATCGTAAA
*
17612691 ATATGTGAATATATTTTTC
1 ATATGTCAATATATTTTTC
* *
17612710 ATATTTCTATATATTTTTC
1 ATATGTCAATATATTTTTC
17612729 ATAT
1 ATAT
17612733 TTCCATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (19 bp):
ATATGTCAATATATTTTTC
Found at i:17612733 original size:19 final size:19
Alignment explanation
Indices: 17612699--17612744 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
17612689 AAATATGTGA
*
17612699 ATATATTTTTCATATTTCT
1 ATATATTTTTCATATTTCC
17612718 ATATATTTTTCATATTTCC
1 ATATATTTTTCATATTTCC
17612737 ATA-ATTTT
1 ATATATTTT
17612745 ATACACATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATATTTTTCATATTTCC
Found at i:17613913 original size:12 final size:12
Alignment explanation
Indices: 17613892--17613920 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17613882 GAACCACACA
17613892 TTTT-ATTTAAC
1 TTTTCATTTAAC
17613903 TTTTCATTTAAC
1 TTTTCATTTAAC
17613915 TTTTCA
1 TTTTCA
17613921 ACTTTTTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTCATTTAAC
Found at i:17616362 original size:14 final size:14
Alignment explanation
Indices: 17616343--17616372 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17616333 TAAAACCGAA
*
17616343 TATACATATGTATT
1 TATACATATGCATT
17616357 TATACATATGCATT
1 TATACATATGCATT
17616371 TA
1 TA
17616373 AATGTCAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (14 bp):
TATACATATGCATT
Found at i:17617029 original size:41 final size:41
Alignment explanation
Indices: 17616984--17617079 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
17616974 ACCGACAATT
** * *
17616984 AGCCTGCTAGACTTAAAGTCCGAATTATTTCACTGGTATTA
1 AGCCTGCTAGACTTAAAGTCCGAATTACATCACCGGCATTA
* * * *
17617025 AGCCTGCTGGACATAAAGTCTGAATTACATCACCGGCCTTA
1 AGCCTGCTAGACTTAAAGTCCGAATTACATCACCGGCATTA
17617066 AGCCTGCTAGACTT
1 AGCCTGCTAGACTT
17617080 TAAGCCTGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCCGAATTACATCACCGGCATTA
Found at i:17618744 original size:13 final size:13
Alignment explanation
Indices: 17618726--17618750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17618716 TCAAACGATC
17618726 AAATTTTCACACG
1 AAATTTTCACACG
17618739 AAATTTTCACAC
1 AAATTTTCACAC
17618751 ATATAACTTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:17620529 original size:22 final size:22
Alignment explanation
Indices: 17620504--17620556 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
17620494 TTTTTTAAAT
* *
17620504 AATAATTACTCTAATT-AAGTGA
1 AATAATTAAT-TAATTAAAATGA
*
17620526 AATATTTAATTAATTAAAATGA
1 AATAATTAATTAATTAAAATGA
17620548 AATAATTAA
1 AATAATTAA
17620557 ATGGGTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (22 bp):
AATAATTAATTAATTAAAATGA
Found at i:17624520 original size:15 final size:15
Alignment explanation
Indices: 17624497--17624553 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
17624487 TTATACTACA
*
17624497 AAAACATTTATTATT
1 AAAATATTTATTATT
*
17624512 AAAATATTTATAATTGT
1 AAAATATTTATTA-T-T
17624529 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
17624546 AAAATATT
1 AAAATATT
17624554 AATATTGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
15 18 0.51
16 2 0.06
17 2 0.06
18 2 0.06
19 11 0.31
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:17624551 original size:19 final size:19
Alignment explanation
Indices: 17624513--17624551 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17624503 TTTATTATTA
**
17624513 AAATATTTATAATTGTAAT
1 AAATATTTATAATTAAAAT
*
17624532 AAATATTTATTATTAAAAT
1 AAATATTTATAATTAAAAT
17624551 A
1 A
17624552 TTAATATTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AAATATTTATAATTAAAAT
Found at i:17624774 original size:6 final size:6
Alignment explanation
Indices: 17624763--17624792 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
17624753 TAATATTTTA
17624763 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
17624793 TATTATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:17626555 original size:30 final size:32
Alignment explanation
Indices: 17626521--17626581 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
17626511 AAAAGTTACA
* * *
17626521 ATTT-AGTTATTAAATTATTCGAAAG-TTTTC
1 ATTTAAGTCATTAAACTATTCAAAAGCTTTTC
17626551 ATTTAAGTCATTAAACTATTCAAAAGCTTTT
1 ATTTAAGTCATTAAACTATTCAAAAGCTTTT
17626582 ATCTAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 18 0.69
32 4 0.15
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (32 bp):
ATTTAAGTCATTAAACTATTCAAAAGCTTTTC
Found at i:17628880 original size:13 final size:13
Alignment explanation
Indices: 17628862--17628940 Score: 71
Period size: 13 Copynumber: 6.5 Consensus size: 13
17628852 AATTTTGACT
17628862 TATTTAGTGATAA
1 TATTTAGTGATAA
*
17628875 TATTTA--GA-AT
1 TATTTAGTGATAA
17628885 TATTTAGTGATAA
1 TATTTAGTGATAA
* *
17628898 TATTTAATAATAA
1 TATTTAGTGATAA
*
17628911 TATTTA--GA-AT
1 TATTTAGTGATAA
*
17628921 TATTTAATGATAA
1 TATTTAGTGATAA
17628934 TATTTAG
1 TATTTAG
17628941 GAAAATCTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
10 14 0.27
11 3 0.06
12 4 0.08
13 31 0.60
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:17628903 original size:36 final size:36
Alignment explanation
Indices: 17628862--17628940 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
17628852 AATTTTGACT
* *
17628862 TATTTAGTGATAATATTTAGAATTATTTAGTGATAA
1 TATTTAGTAATAATATTTAGAATTATTTAATGATAA
*
17628898 TATTTAATAATAATATTTAGAATTATTTAATGATAA
1 TATTTAGTAATAATATTTAGAATTATTTAATGATAA
17628934 TATTTAG
1 TATTTAG
17628941 GAAAATCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (36 bp):
TATTTAGTAATAATATTTAGAATTATTTAATGATAA
Found at i:17629670 original size:7 final size:7
Alignment explanation
Indices: 17629652--17629693 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
17629642 TTCCAAGGCC
17629652 CTTTCC-
1 CTTTCCA
17629658 CTTTCCA
1 CTTTCCA
17629665 CTTTCCA
1 CTTTCCA
17629672 CTTTCCA
1 CTTTCCA
17629679 CTTTCCA
1 CTTTCCA
17629686 CTTTCCA
1 CTTTCCA
17629693 C
1 C
17629694 AATTTCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.12, C:0.45, G:0.00, T:0.43
Consensus pattern (7 bp):
CTTTCCA
Found at i:17630602 original size:95 final size:95
Alignment explanation
Indices: 17630470--17630657 Score: 349
Period size: 95 Copynumber: 2.0 Consensus size: 95
17630460 GTTTGGATGG
*
17630470 GCGATTGGGTGCGGTACGGTGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTACCGCTACAGTA
1 GCGATTGGGTGCGGTACGATGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTACCGCTACAGTA
*
17630535 TCTAATCTCACTGCCACCGCTGTTTTTATA
66 TCTAATCTCACCGCCACCGCTGTTTTTATA
17630565 GCGATTGGGTGCGGTACGATGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTACCGCTACAGTA
1 GCGATTGGGTGCGGTACGATGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTACCGCTACAGTA
*
17630630 TCTAATCTCACCGCCATCGCTGTTTTTA
66 TCTAATCTCACCGCCACCGCTGTTTTTA
17630658 CACTAACCAC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.35
Consensus pattern (95 bp):
GCGATTGGGTGCGGTACGATGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTACCGCTACAGTA
TCTAATCTCACCGCCACCGCTGTTTTTATA
Found at i:17638784 original size:18 final size:18
Alignment explanation
Indices: 17638758--17638792 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17638748 ACTCAACGTC
17638758 GTGACGAATACGGAAGAT
1 GTGACGAATACGGAAGAT
*
17638776 GTGATGAATACGGAAGA
1 GTGACGAATACGGAAGA
17638793 GCATTCACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.09, G:0.34, T:0.17
Consensus pattern (18 bp):
GTGACGAATACGGAAGAT
Found at i:17639671 original size:13 final size:13
Alignment explanation
Indices: 17639637--17639688 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
17639627 AGGAGAGTCC
17639637 ATTAGATTAATTTA
1 ATTAG-TTAATTTA
*
17639651 GGTTAGTTAATTTA
1 -ATTAGTTAATTTA
*
17639665 ATTAGTTAATTAA
1 ATTAGTTAATTTA
*
17639678 AATA-TTAATTT
1 ATTAGTTAATTT
17639689 GGATTCACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
12 6 0.19
13 14 0.44
14 8 0.25
15 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
ATTAGTTAATTTA
Found at i:17640118 original size:31 final size:31
Alignment explanation
Indices: 17640047--17640118 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
17640037 TATAAAGTTT
* * *
17640047 TGGACAAGTTCAGGTACCAACTAGGTACTTT
1 TGGACAAGTTCAAGTACCAACTAAGTACTTC
** *
17640078 TGGGTAAGTTCAAGTACTAACTAAGTACTTC
1 TGGACAAGTTCAAGTACCAACTAAGTACTTC
17640109 TGGACAAGTT
1 TGGACAAGTT
17640119 AAAAGGGCAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (31 bp):
TGGACAAGTTCAAGTACCAACTAAGTACTTC
Found at i:17643565 original size:20 final size:20
Alignment explanation
Indices: 17643540--17643579 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17643530 CGATGCCAGC
17643540 CATACATGTATTATACGCAT
1 CATACATGTATTATACGCAT
17643560 CATACATGTATTATACGCAT
1 CATACATGTATTATACGCAT
17643580 ATTTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
CATACATGTATTATACGCAT
Found at i:17661065 original size:24 final size:24
Alignment explanation
Indices: 17660985--17661066 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
17660975 AGCTCGAAAG
17660985 AGCATCCCGTT-ATAAGCTCTCTC-A
1 AGCATCCCGTTAAT-AGCTCT-TCGA
* * * *
17661009 AGCTTCCCATTATATGGTTCTT-GA
1 AGCATCCCGTTA-ATAGCTCTTCGA
*
17661033 GAGCTTCCCGTTAATAGCTCTTCGA
1 -AGCATCCCGTTAATAGCTCTTCGA
17661058 AGCATCCCG
1 AGCATCCCG
17661067 ATCGGTCGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
24 26 0.58
25 17 0.38
26 2 0.04
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (24 bp):
AGCATCCCGTTAATAGCTCTTCGA
Found at i:17661378 original size:25 final size:25
Alignment explanation
Indices: 17661308--17661380 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 25
17661298 TATGGCTCTT
** ***
17661308 ATGAGCTTCCCATTATACAGCTCGG
1 ATGAGCTTCCCATTATATGGCTTAC
* * **
17661333 ATAAGCTTCCTATTACGTGGCTTAC
1 ATGAGCTTCCCATTATATGGCTTAC
17661358 ATGAGCTTCCCATTATATGGCTT
1 ATGAGCTTCCCATTATATGGCTT
17661381 CAGGGAGAGT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATGGCTTAC
Found at i:17679515 original size:24 final size:24
Alignment explanation
Indices: 17679488--17679534 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17679478 TTTTTATAAT
* *
17679488 TTTTTTAGATTTTAAATATTTTTA
1 TTTTCTAGATTTTAAAAATTTTTA
*
17679512 TTTTCTATATTTTAAAAATTTTT
1 TTTTCTAGATTTTAAAAATTTTT
17679535 CATTGACATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTCTAGATTTTAAAAATTTTTA
Found at i:17684575 original size:17 final size:17
Alignment explanation
Indices: 17684545--17684578 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17684535 AAAAAATAAA
*
17684545 AATAAAATATTTATATT
1 AATAAAATAATTATATT
*
17684562 AATAAGATAATTATATT
1 AATAAAATAATTATATT
17684579 TGAAACTCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AATAAAATAATTATATT
Found at i:17687091 original size:35 final size:33
Alignment explanation
Indices: 17686994--17687106 Score: 101
Period size: 35 Copynumber: 3.5 Consensus size: 33
17686984 TAGATGTGTA
*
17686994 TATATATACTAT-AAAA-A-GTATGTATATA--
1 TATATATATTATAAAAATATGTATGTATATATG
* * **
17687022 TATAAATGAGTTATAAAAATATGTACGTGCATATG
1 TATATAT-A-TTATAAAAATATGTATGTATATATG
17687057 TATATATATTATAAAAATGTATGTATGTATATATG
1 TATATATATTATAAAAA--TATGTATGTATATATG
*
17687092 TATATAAATTATAAA
1 TATATATATTATAAA
17687107 GTATAAAAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
28 6 0.09
29 1 0.02
30 3 0.05
31 4 0.06
32 1 0.02
33 17 0.26
34 1 0.02
35 33 0.50
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.40
Consensus pattern (33 bp):
TATATATATTATAAAAATATGTATGTATATATG
Found at i:17687110 original size:16 final size:17
Alignment explanation
Indices: 17687084--17687127 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
17687074 TGTATGTATG
*
17687084 TATATATGTATATAAA-T
1 TATATAAGTATA-AAAGT
17687101 TATA-AAGTATAAAAGT
1 TATATAAGTATAAAAGT
17687117 TATATAAGTAT
1 TATATAAGTAT
17687128 GTATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 11 0.46
17 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
TATATAAGTATAAAAGT
Found at i:17687227 original size:3 final size:3
Alignment explanation
Indices: 17687213--17687331 Score: 59
Period size: 3 Copynumber: 38.7 Consensus size: 3
17687203 TAAATGGGTA
* * *
17687213 AAT AAA AAT AAT AAT AGT AAGGT AAGT AAGT AAT AAT AA- ATAC AAT
1 AAT AAT AAT AAT AAT AAT AA--T AA-T AA-T AAT AAT AAT A-AT AAT
* * *
17687259 AAT AAT GAT AAT AAT AAT AA- ATAT AAT AAT GAT AA- AACT AATT AGT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA-T AA-T AAT
* *
17687305 -TT GAT AAT AAT AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17687332 CGGGACTAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
2 7 0.08
3 68 0.74
4 14 0.15
5 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17687274 original size:24 final size:24
Alignment explanation
Indices: 17687243--17687293 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
17687233 GGTAAGTAAG
*
17687243 TAATAATAAATACA-ATAATAATGA
1 TAATAAT-AATAAATATAATAATGA
17687267 TAATAATAATAAATATAATAATGA
1 TAATAATAATAAATATAATAATGA
17687291 TAA
1 TAA
17687294 AACTAATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (24 bp):
TAATAATAATAAATATAATAATGA
Found at i:17689049 original size:44 final size:44
Alignment explanation
Indices: 17688945--17689443 Score: 211
Period size: 44 Copynumber: 11.7 Consensus size: 44
17688935 TAGTAGCTTC
* * * ***
17688945 AGTCTGCTCCACTGCAACTTCAGGGAGATAA-AACTG-GATGCG
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTT
* * *
17688987 A-TCTACTCTACTGCAACTTCAGAGG-GATAAGATCTGTGGTTTT
1 AGTCTGCTCCACTACAACTTCAG-GGAGATAAGATCTGTGGTTTT
* *
17689030 AGTCCGCTCCACTACAACTTCAGGGAGATAGGAT-TGAT--TTCTT
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTG-TGGTT-TT
* * ** * ***
17689073 CTGTATGCTCCACTACTGCTT-AGGGAGATAAGA-CT-TGATGCG
1 -AGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTT
* * ** *
17689115 A-TCTGCTCTACTGCAACTTCAGAAAGATAAGATTTGTGGTTTT
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTT
* *
17689158 AGT-TCGCTACACTACAACTTCAGGGAGATAGGAT-TGAT--TTCTT
1 AGTCT-GCTCCACTACAACTTCAGGGAGATAAGATCTG-TGGTT-TT
* * * * ***
17689201 CTGTCTGCTCCACTAGAGCTT-AGGGAGATAAGA-CT-TGATGCG
1 -AGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTT
* * *
17689243 A-TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTT
* * * *
17689286 AGTCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TG-GTTTCTT
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTT-TT
* * * *** * ***
17689329 CTGTCCGCTCAACTATTTCTT-AGGGAGATAAGA-CT-TGATGCG
1 -AGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTT
* * * *
17689371 A-TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTT
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTT
* * * *
17689414 AATCCGTTCCACTGCAACTTCAGGGAGATA
1 AGTCTGCTCCACTACAACTTCAGGGAGATA
17689444 GGATTGTAGC
Statistics
Matches: 332, Mismatches: 90, Indels: 68
0.68 0.18 0.14
Matches are distributed among these distances:
40 39 0.12
41 58 0.17
42 19 0.06
43 70 0.21
44 145 0.44
45 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (44 bp):
AGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTT
Found at i:17689144 original size:128 final size:128
Alignment explanation
Indices: 17688916--17689449 Score: 791
Period size: 128 Copynumber: 4.2 Consensus size: 128
17688906 ATTCCACTGT
* ** * * * *
17688916 AACTTCAGGAAGATAGGATT-AGTAGCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACT
1 AACTTCAGGGAGATAGGATTGA-TTTCTTCTGTCTGCTCCACTACAGCTT-AGGGAGATAAGACT
* * *
17688980 GGATGCGATCTACTCTACTGCAACTTCAGAGGGATAAGATCTGTGGTTTTAGTCCGCTCCACTAC
64 TGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAGTCCGCTCCACTAC
* *
17689045 AACTTCAGGGAGATAGGATTGATTTCTTCTGTATGCTCCACTACTGCTTAGGGAGATAAGACTTG
1 AACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACAGCTTAGGGAGATAAGACTTG
* * * *
17689110 ATGCGATCTGCTCTACTGCAACTTCAGAAAGATAAGATTTGTGGTTTTAGTTCGCTACACTAC
66 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAGTCCGCTCCACTAC
*
17689173 AACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTAGAGCTTAGGGAGATAAGACTTG
1 AACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACAGCTTAGGGAGATAAGACTTG
*
17689238 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAGTCCGCTCCACTGC
66 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAGTCCGCTCCACTAC
* * * ***
17689301 AACTTCAGGGAGATAGGATTGGTTTCTTCTGTCCGCTCAACTATTTCTTAGGGAGATAAGACTTG
1 AACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACAGCTTAGGGAGATAAGACTTG
* * * *
17689366 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGTTCCACTGC
66 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAGTCCGCTCCACTAC
17689429 AACTTCAGGGAGATAGGATTG
1 AACTTCAGGGAGATAGGATTG
17689450 TAGCTTTACT
Statistics
Matches: 371, Mismatches: 33, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
128 331 0.89
129 39 0.11
130 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (128 bp):
AACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACAGCTTAGGGAGATAAGACTTG
ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAGTCCGCTCCACTAC
Found at i:17695710 original size:4 final size:4
Alignment explanation
Indices: 17695703--17695757 Score: 101
Period size: 4 Copynumber: 13.8 Consensus size: 4
17695693 TATTGTAAAA
17695703 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
17695751 ATAT ATG
1 ATGT ATG
17695758 AGTTTTTGAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:17695851 original size:37 final size:36
Alignment explanation
Indices: 17695800--17695891 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 36
17695790 ATTATAAAAA
* *
17695800 GTACGTATATATATAAATGAGTTATAAAAA-TATGTAC
1 GTACATATGTATATAAAT-A-TTATAAAAAGTATGTAC
* * *
17695837 GTGCATATGTATATATATATTATAAAAATGTATGTAT
1 GTACATATGTATATAAATATTATAAAAA-GTATGTAC
*
17695874 GTATATATGTATATAAAT
1 GTACATATGTATATAAAT
17695892 TATAAAGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
35 9 0.20
36 1 0.02
37 35 0.78
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.40
Consensus pattern (36 bp):
GTACATATGTATATAAATATTATAAAAAGTATGTAC
Found at i:17695901 original size:16 final size:17
Alignment explanation
Indices: 17695875--17695918 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
17695865 TGTATGTATG
*
17695875 TATATATGTATATAAA-T
1 TATATAAGTATA-AAAGT
17695892 TATA-AAGTATAAAAGT
1 TATATAAGTATAAAAGT
17695908 TATATAAGTAT
1 TATATAAGTAT
17695919 GTATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 11 0.46
17 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
TATATAAGTATAAAAGT
Found at i:17697509 original size:18 final size:18
Alignment explanation
Indices: 17697459--17697511 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
17697449 CAACAATAAC
17697459 TAAATAAATA-ATTAAAAA
1 TAAA-AAATATATTAAAAA
17697477 TCATAAAAAT-T-TTAAAAA
1 T-A-AAAAATATATTAAAAA
17697495 TAAAAAATATATTAAAA
1 TAAAAAATATATTAAAA
17697512 TGATTCAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
16 6 0.20
17 2 0.07
18 15 0.50
19 5 0.17
20 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAAATATATTAAAAA
Found at i:17698333 original size:25 final size:26
Alignment explanation
Indices: 17698281--17698333 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
17698271 AAACTCTTCT
* *
17698281 AAAAGAAACTCAAGAGAAATTCTTTA
1 AAAAAAAACTCAAGAGAAATTCTATA
17698307 AAAAAAAACTCAA-AGATAATT-TATA
1 AAAAAAAACTCAAGAGA-AATTCTATA
17698332 AA
1 AA
17698334 CTCAAAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.60, C:0.09, G:0.08, T:0.23
Consensus pattern (26 bp):
AAAAAAAACTCAAGAGAAATTCTATA
Found at i:17700061 original size:34 final size:35
Alignment explanation
Indices: 17700017--17700083 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
17700007 CAGTAAAATG
17700017 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
17700051 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
17700084 CTAGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:17701578 original size:18 final size:18
Alignment explanation
Indices: 17701555--17701592 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
17701545 TCAATTGAAA
17701555 AAATGCACAACTTTAAAC
1 AAATGCACAACTTTAAAC
17701573 AAATGCACAACTTTAAAC
1 AAATGCACAACTTTAAAC
17701591 AA
1 AA
17701593 CAGCAGATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATGCACAACTTTAAAC
Found at i:17703800 original size:54 final size:53
Alignment explanation
Indices: 17703707--17703996 Score: 223
Period size: 54 Copynumber: 5.4 Consensus size: 53
17703697 GCAACCCTAT
* **
17703707 ACTTACAAGATTTTTTAGAATCTTCGGGTTTGTTGATTTACAATCACAACCTTGC
1 ACTTTCAAGA-TTTTTAGAATCTTC-GGTTTGCCGATTTACAATCACAACCTTGC
* * ** * **
17703762 AGTTTCAAGATTTTTAGAATCTTACGGTTTGCCAATTTACAATTGCAACCCTAT
1 ACTTTCAAGATTTTTAGAATCTT-CGGTTTGCCGATTTACAATCACAACCTTGC
* * * * **
17703816 ACTTACACGATTTTTAGAAACTTCTGTTT---TTTTTACAATCACAACCTTGC
1 ACTTTCAAGATTTTTAGAATCTTCGGTTTGCCGATTTACAATCACAACCTTGC
** *
17703866 ACTTT-AATGATTTTTAGAATCTTGCGGTTCACCGATTTACAATCGCAACCTTGC
1 ACTTTCAA-GATTTTTAGAATCTT-CGGTTTGCCGATTTACAATCACAACCTTGC
** * **
17703920 AC-TTCTAAGATTTTTAGAATCTTGCGGTTCACTGATTTA-AGATCGTAACCTTGC
1 ACTTTC-AAGATTTTTAGAATCTT-CGGTTTGCCGATTTACA-ATCACAACCTTGC
* * *
17703974 ACTTCCAAAATTATTAGAATCTT
1 ACTTTCAAGATTTTTAGAATCTT
17703997 GTGATTCCTT
Statistics
Matches: 190, Mismatches: 35, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
49 1 0.01
50 32 0.17
51 4 0.02
53 8 0.04
54 132 0.69
55 13 0.07
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (53 bp):
ACTTTCAAGATTTTTAGAATCTTCGGTTTGCCGATTTACAATCACAACCTTGC
Found at i:17703904 original size:104 final size:108
Alignment explanation
Indices: 17703685--17703915 Score: 319
Period size: 104 Copynumber: 2.2 Consensus size: 108
17703675 TACGGTTTGT
* *
17703685 CGATTTACGATTGCAACCCTATACTTACAAGATTTTTTAGAATCTTCGGGTTTGTTGATTTACAA
1 CGATTTACAATTGCAACCCTATACTTACAAGATTTTTTAGAAACTTCGGGTTTGTT-ATTTACAA
* **
17703750 TCACAACCTTGCAGTTTCAAGATTTTTAGAATCTTACGGTTTGC
65 TCACAACCTTGCACTTTCAAGATTTTTAGAATCTTACGGTTCAC
* * *
17703794 CAATTTACAATTGCAACCCTATACTTACACGA-TTTTTAGAAACTTC-TGTTT-TT-TTTACAAT
1 CGATTTACAATTGCAACCCTATACTTACAAGATTTTTTAGAAACTTCGGGTTTGTTATTTACAAT
*
17703855 CACAACCTTGCACTTT-AATGATTTTTAGAATCTTGCGGTTCAC
66 CACAACCTTGCACTTTCAA-GATTTTTAGAATCTTACGGTTCAC
*
17703898 CGATTTACAATCGCAACC
1 CGATTTACAATTGCAACC
17703916 TTGCACTTCT
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
103 2 0.02
104 60 0.55
106 2 0.02
107 4 0.04
108 13 0.12
109 29 0.26
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (108 bp):
CGATTTACAATTGCAACCCTATACTTACAAGATTTTTTAGAAACTTCGGGTTTGTTATTTACAAT
CACAACCTTGCACTTTCAAGATTTTTAGAATCTTACGGTTCAC
Found at i:17703997 original size:54 final size:52
Alignment explanation
Indices: 17703858--17704067 Score: 201
Period size: 54 Copynumber: 3.9 Consensus size: 52
17703848 TTACAATCAC
* * *
17703858 AACCTTGCACTT-TAATGATTTTTAGAATCTTGCGGTTCACCGATTTACAATCGC
1 AACCTTGCACTTCCAA-GA-TTTTAGAATCTTGCGGTTCACTGATTTA-AATCGT
*
17703912 AACCTTGCACTTCTAAGATTTTTAGAATCTTGCGGTTCACTGATTTAAGATCGT
1 AACCTTGCACTTCCAAGA-TTTTAGAATCTTGCGGTTCACTGATTTAA-ATCGT
* * * *
17703966 AACCTTGCACTTCCAAAATTATTAGAATCTTGTGATTC-CTTGAGTTAATATCGT
1 AACCTTGCACTTCCAAGATT-TTAGAATCTTGCGGTTCAC-TGATTTAA-ATCGT
* * * *
17704020 AACCTTGTACTTACAAGATTTTCATAATCTTGTGG-TCTACTGATTTAA
1 AACCTTGCACTTCCAAGATTTT-AGAATCTTGCGGTTC-ACTGATTTAA
17704068 CATTACAACT
Statistics
Matches: 135, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
53 8 0.06
54 123 0.91
55 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (52 bp):
AACCTTGCACTTCCAAGATTTTAGAATCTTGCGGTTCACTGATTTAAATCGT
Found at i:17707959 original size:19 final size:19
Alignment explanation
Indices: 17707935--17707978 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
17707925 TTTATAGTTT
*
17707935 TAAAAAA-CATTGGTTATTG
1 TAAAAAATCATTAG-TATTG
*
17707954 TAAAAAATTATTAGTATTG
1 TAAAAAATCATTAGTATTG
17707973 TAAAAA
1 TAAAAA
17707979 TAATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAAAAATCATTAGTATTG
Found at i:17708841 original size:21 final size:22
Alignment explanation
Indices: 17708799--17708845 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
17708789 AAAAGTTATG
*
17708799 ATAAAAAACTATAATATTTTTT
1 ATAAAAAACTATAATATATTTT
17708821 ATAAATAAA-TAT-ATATATTTT
1 ATAAA-AAACTATAATATATTTT
17708842 ATAA
1 ATAA
17708846 TATATAGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 12 0.52
22 8 0.35
23 3 0.13
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAAAAACTATAATATATTTT
Found at i:17712913 original size:26 final size:26
Alignment explanation
Indices: 17712849--17712901 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17712839 TTTATAGCAC
*
17712849 AAATCAGTCATTTACCCTCGAGGGGCA
1 AAAT-AGTCATTTACCCTCGAAGGGCA
* *
17712876 AAATATTCATTTACCCTCTAAGGGCA
1 AAATAGTCATTTACCCTCGAAGGGCA
17712902 TTATGGTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (26 bp):
AAATAGTCATTTACCCTCGAAGGGCA
Found at i:17716457 original size:21 final size:21
Alignment explanation
Indices: 17716431--17716478 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
17716421 ATGAAGAAGA
17716431 AAGAAATAAAAAAGATTAAAG
1 AAGAAATAAAAAAGATTAAAG
17716452 AAGAAATAAAAAAGATTAAAG
1 AAGAAATAAAAAAGATTAAAG
17716473 AAGAAA
1 AAGAAA
17716479 GAACTAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (21 bp):
AAGAAATAAAAAAGATTAAAG
Found at i:17718066 original size:76 final size:76
Alignment explanation
Indices: 17717940--17718092 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
17717930 TTAGGAGTTC
17717940 GAGACTTTACCTGAACAAAGGATTTATTTTTACTACTTGTGCCGTGTGAGTGTTGTAGGTTGACC
1 GAGACTTTACCTGAACAAAGGATTTATTTTTACTACTTGTGCCGTGTGAGTGTTGTAGGTTGACC
17718005 AAAATGCTGTA
66 AAAATGCTGTA
*
17718016 GAGACTTTACGTGAACAAAGGATTTATTTTTACTACTTGTGCCGTGTGAGTGTTGTAGGTTGACC
1 GAGACTTTACCTGAACAAAGGATTTATTTTTACTACTTGTGCCGTGTGAGTGTTGTAGGTTGACC
17718081 AAAATGCTGTA
66 AAAATGCTGTA
17718092 G
1 G
17718093 TGTTTGAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (76 bp):
GAGACTTTACCTGAACAAAGGATTTATTTTTACTACTTGTGCCGTGTGAGTGTTGTAGGTTGACC
AAAATGCTGTA
Found at i:17719156 original size:17 final size:17
Alignment explanation
Indices: 17719134--17719168 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17719124 CATTTTGGGC
*
17719134 CGTGTGGGCCACACGGG
1 CGTGTGGGCCACAAGGG
17719151 CGTGTGGGCCACAAGGG
1 CGTGTGGGCCACAAGGG
17719168 C
1 C
17719169 ATGCAACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.29, G:0.46, T:0.11
Consensus pattern (17 bp):
CGTGTGGGCCACAAGGG
Found at i:17728058 original size:20 final size:19
Alignment explanation
Indices: 17728033--17728072 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
17728023 AAATATTTTC
17728033 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCC-GAAA
*
17728053 AGTAAATTATTTTCCGAAA
1 AGTAAATCATTTTCCGAAA
17728072 A
1 A
17728073 TCATTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (19 bp):
AGTAAATCATTTTCCGAAA
Found at i:17730711 original size:14 final size:14
Alignment explanation
Indices: 17730683--17730711 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17730673 TTACAAAATG
17730683 AAAATGAAAAGAAA
1 AAAATGAAAAGAAA
17730697 AAAAT-AAAAGAAA
1 AAAATGAAAAGAAA
17730710 AA
1 AA
17730712 TGCTCACTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (14 bp):
AAAATGAAAAGAAA
Found at i:17731548 original size:6 final size:6
Alignment explanation
Indices: 17731538--17731575 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
17731528 CCTTAAAACG
*
17731538 TTTATG TTTATT TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
17731576 CTCAAGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:17733009 original size:20 final size:21
Alignment explanation
Indices: 17732984--17733031 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
17732974 TTTTGAATCA
17732984 AATTTTAATCAAGTTAAAA-T
1 AATTTTAATCAAGTTAAAACT
**
17733004 AATTTTAATTGAGTTAAAACT
1 AATTTTAATCAAGTTAAAACT
17733025 -ATTTTAA
1 AATTTTAA
17733032 AACAAGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (21 bp):
AATTTTAATCAAGTTAAAACT
Found at i:17735730 original size:15 final size:15
Alignment explanation
Indices: 17735707--17735737 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17735697 ATTAATTTTT
17735707 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
17735722 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
17735737 T
1 T
17735738 TCTAAAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:17736272 original size:11 final size:11
Alignment explanation
Indices: 17736258--17736283 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17736248 TTTTTAATAA
17736258 TTTTTACAATT
1 TTTTTACAATT
17736269 TTTTTACAATT
1 TTTTTACAATT
17736280 TTTT
1 TTTT
17736284 CTAATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTACAATT
Found at i:17736362 original size:17 final size:17
Alignment explanation
Indices: 17736340--17736394 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 17
17736330 TTTTTGTAAA
17736340 TTTTTTATAATTTATAT
1 TTTTTTATAATTTATAT
*
17736357 TTTTTTCTAGATTATATAT
1 TTTTTTATA-ATT-TATAT
*
17736376 ATTTTTATGAATTTTATAT
1 TTTTTTAT-AA-TTTATAT
17736395 ATTTATTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 8 0.26
18 3 0.10
19 17 0.55
20 3 0.10
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTTTTATAATTTATAT
Found at i:17736374 original size:19 final size:18
Alignment explanation
Indices: 17736339--17736398 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 18
17736329 TTTTTTGTAA
17736339 ATTTTTTATAATTTATAT
1 ATTTTTTATAATTTATAT
*
17736357 -TTTTTTCTAGA-TTATAT
1 ATTTTTTATA-ATTTATAT
17736374 ATATTTTTATGAATTTTATAT
1 AT-TTTTTAT-AA-TTTATAT
17736395 ATTT
1 ATTT
17736399 ATTTCTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
17 14 0.41
18 2 0.06
19 7 0.21
20 3 0.09
21 8 0.24
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTTTATAATTTATAT
Found at i:17737678 original size:3 final size:3
Alignment explanation
Indices: 17737658--17737698 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
17737648 ATTTCAATAG
*
17737658 TAT TAT CAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17737699 TCTATACATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17739797 original size:182 final size:182
Alignment explanation
Indices: 17739479--17739830 Score: 686
Period size: 182 Copynumber: 1.9 Consensus size: 182
17739469 TATCCTCGAG
17739479 AATTCAAGAATGTCGGGTCCTAACTTACTGGTCATGACATTTATTATCTCGAAATAAGGATTTCA
1 AATTCAAGAATGTCGGGTCCTAACTTACTGGTCATGACATTTATTATCTCGAAATAAGGATTTCA
* *
17739544 AAAACAAATGGCAATATTCGGTATTTTGAAGATTTAAAAATATTGTGCCCTAACTTACTGGGTGT
66 AAAACAAATGGCAATATTCGGTATTTTGAAGATTTAAAAATATTGTGCCCTAACTTACTCGGTGC
17739609 GATGTTTTATTTCTTTGAAATAAGAGTATTTTATTATTTTAAAATCTTTTCA
131 GATGTTTTATTTCTTTGAAATAAGAGTATTTTATTATTTTAAAATCTTTTCA
17739661 AATTCAAGAATGTCGGGTCCTAACTTACTGGTCATGACATTTATTATCTCGAAATAAGGATTTCA
1 AATTCAAGAATGTCGGGTCCTAACTTACTGGTCATGACATTTATTATCTCGAAATAAGGATTTCA
17739726 AAAACAAATGGCAATATTCGGTATTTTGAAGATTTAAAAATATTGTGCCCTAACTTACTCGGTGC
66 AAAACAAATGGCAATATTCGGTATTTTGAAGATTTAAAAATATTGTGCCCTAACTTACTCGGTGC
17739791 GATGTTTTATTTCTTTGAAATAAGAGTATTTTATTATTTT
131 GATGTTTTATTTCTTTGAAATAAGAGTATTTTATTATTTT
17739831 GATTCATTTG
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 168 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (182 bp):
AATTCAAGAATGTCGGGTCCTAACTTACTGGTCATGACATTTATTATCTCGAAATAAGGATTTCA
AAAACAAATGGCAATATTCGGTATTTTGAAGATTTAAAAATATTGTGCCCTAACTTACTCGGTGC
GATGTTTTATTTCTTTGAAATAAGAGTATTTTATTATTTTAAAATCTTTTCA
Found at i:17740681 original size:16 final size:16
Alignment explanation
Indices: 17740660--17740691 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17740650 GGTTTATTTT
*
17740660 GTTTTGACTGCATGGC
1 GTTTTGACTACATGGC
17740676 GTTTTGACTACATGGC
1 GTTTTGACTACATGGC
17740692 ATTTCATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.38
Consensus pattern (16 bp):
GTTTTGACTACATGGC
Found at i:17741182 original size:19 final size:20
Alignment explanation
Indices: 17741142--17741185 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
17741132 GTCTCTTTAG
* *
17741142 GCATT-CATTTCATGCATTT
1 GCATTACATTACATGCATAT
17741161 GCATTACATTACAT-CATAT
1 GCATTACATTACATGCATAT
17741180 GCATTA
1 GCATTA
17741186 AACACCGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (20 bp):
GCATTACATTACATGCATAT
Found at i:17744087 original size:21 final size:20
Alignment explanation
Indices: 17744050--17744097 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
17744040 ATGAAATGAA
* *
17744050 AAAAATGAAAAGTGAAAAGG
1 AAAAATGAAAAATGAAAAAG
17744070 AAAAATGAAAAATGGAAAAAG
1 AAAAATGAAAAAT-GAAAAAG
*
17744091 TAAAATG
1 AAAAATG
17744098 GAGAGGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (20 bp):
AAAAATGAAAAATGAAAAAG
Found at i:17744095 original size:14 final size:14
Alignment explanation
Indices: 17744057--17744099 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
17744047 GAAAAAAATG
17744057 AAAAGTGAAAA-GGA
1 AAAAGT-AAAATGGA
*
17744071 AAAATGAAAAATGGA
1 AAAA-GTAAAATGGA
17744086 AAAAGTAAAATGGA
1 AAAAGTAAAATGGA
17744100 GAGGCTAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (14 bp):
AAAAGTAAAATGGA
Found at i:17745462 original size:45 final size:44
Alignment explanation
Indices: 17745374--17745551 Score: 161
Period size: 44 Copynumber: 4.0 Consensus size: 44
17745364 GCTAAAAAGC
* * *
17745374 AGCAGATCTTGTCTT-CAT-GTATTGGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCATACTAGT-G-GTGAAGTAGATCGAAGAT
17745418 AGCAGATCTTGTCTTCCCATACTAGTGGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTT-CCATACTAGTGGTGAAGTAGATCGAAGAT
*** * * *
17745463 AATGGATCTTGTCTT-CAT-GTATTGACATGAAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCCATACTAGTG--GTGAAGTAGATCGA-AGAT
*
17745507 AGCAGATCGTGTCTTTCCATACTAGT-GTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTC-TTCCATACTAGTGGTGAAGTAGATCGAAGAT
17745551 A
1 A
17745552 CAAGTCTTAC
Statistics
Matches: 108, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 4 0.04
43 4 0.04
44 55 0.51
45 32 0.30
46 7 0.06
47 6 0.06
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCCATACTAGTGGTGAAGTAGATCGAAGAT
Found at i:17745482 original size:89 final size:88
Alignment explanation
Indices: 17745378--17745551 Score: 294
Period size: 89 Copynumber: 2.0 Consensus size: 88
17745368 AAAAGCAGCA
* * *
17745378 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTAG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCGTGTCTTCCCATACTAG
17745443 TGGTGAAGTAGATCGAAGATAATG
66 T-GTGAAGTAGATCGAAGATAATG
* *
17745467 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCGTGTCTTTCCATACTAG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCGTGTCTTCCCATACTAG
17745532 TGTGAAGTAGATCGAAGATA
66 TGTGAAGTAGATCGAAGATA
17745552 CAAGTCTTAC
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
88 19 0.24
89 61 0.76
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (88 bp):
GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCGTGTCTTCCCATACTAG
TGTGAAGTAGATCGAAGATAATG
Found at i:17747778 original size:182 final size:182
Alignment explanation
Indices: 17747471--17747822 Score: 677
Period size: 182 Copynumber: 1.9 Consensus size: 182
17747461 TATTCTCGAG
*
17747471 AATTCAAGAATTTCGGGTCCTAACTTACTGGTCATGACATTTATTATCTCGAAATAAGGATTTCA
1 AATTCAAGAATGTCGGGTCCTAACTTACTGGTCATGACATTTATTATCTCGAAATAAGGATTTCA
17747536 AAAACAAAAGGCAATATTCGGTATTTTGAAGATTTAAAAATATTGTGCCCTAACTTACTGGGTGT
66 AAAACAAAAGGCAATATTCGGTATTTTGAAGATTTAAAAATATTGTGCCCTAACTTACTGGGTGT
* *
17747601 GATGTTTTATTTCTTTGAAATAAGATTATTTTATTATTTTAAAATCTTTTCA
131 GATGTTTTATTTCTCTGAAATAAGAGTATTTTATTATTTTAAAATCTTTTCA
17747653 AATTCAAGAATGTCGGGTCCTAACTTACTGGTCATGACATTTATTATCTCGAAATAAGGATTTCA
1 AATTCAAGAATGTCGGGTCCTAACTTACTGGTCATGACATTTATTATCTCGAAATAAGGATTTCA
17747718 AAAACAAAAGGCAATATTCGGTATTTTGAAGATTTAAAAATATTGTGCCCTAACTTACTGGGTGT
66 AAAACAAAAGGCAATATTCGGTATTTTGAAGATTTAAAAATATTGTGCCCTAACTTACTGGGTGT
17747783 GATGTTTTATTTCTCTGAAATAAGAGTATTTTATTATTTT
131 GATGTTTTATTTCTCTGAAATAAGAGTATTTTATTATTTT
17747823 GATTCGTTTG
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 167 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (182 bp):
AATTCAAGAATGTCGGGTCCTAACTTACTGGTCATGACATTTATTATCTCGAAATAAGGATTTCA
AAAACAAAAGGCAATATTCGGTATTTTGAAGATTTAAAAATATTGTGCCCTAACTTACTGGGTGT
GATGTTTTATTTCTCTGAAATAAGAGTATTTTATTATTTTAAAATCTTTTCA
Found at i:17751936 original size:12 final size:12
Alignment explanation
Indices: 17751906--17751938 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
17751896 AGAAATAATA
17751906 AGTT-AAAATCG
1 AGTTAAAAATCG
17751917 AGTGTAAAAATCG
1 AGT-TAAAAATCG
17751930 AGTTAAAAA
1 AGTTAAAAA
17751939 GGAACAGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 7 0.35
13 10 0.50
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (12 bp):
AGTTAAAAATCG
Found at i:17752584 original size:21 final size:21
Alignment explanation
Indices: 17752546--17752585 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17752536 ATGCTTGAGT
*
17752546 TATATAGTTTTGGTCATGATA
1 TATATAGTTTTGGACATGATA
17752567 TATATATGTTTT-GACATGA
1 TATATA-GTTTTGGACATGA
17752586 ATTAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.47
Consensus pattern (21 bp):
TATATAGTTTTGGACATGATA
Found at i:17759056 original size:47 final size:47
Alignment explanation
Indices: 17759004--17759650 Score: 1010
Period size: 47 Copynumber: 13.6 Consensus size: 47
17758994 GATAATTGTG
* * *
17759004 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17759051 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17759098 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17759147 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17759196 ATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
17759243 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17759292 ATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
17759339 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17759386 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17759435 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17759484 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
17759531 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
17759578 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT-A
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17759624 GATGTGAAAGTGTATAAATGTGATAAG
1 -ATGTGAAAGTGTATATATGTGATAAG
17759651 TCCCGCAGGG
Statistics
Matches: 563, Mismatches: 28, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
46 3 0.01
47 327 0.58
49 231 0.41
50 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:17759111 original size:96 final size:94
Alignment explanation
Indices: 17759004--17759650 Score: 1010
Period size: 96 Copynumber: 6.8 Consensus size: 94
17758994 GATAATTGTG
* * *
17759004 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
17759069 GTGATAAGGCCGAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
17759098 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
17759163 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
17759196 ATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG--TATA
17759260 TATGTGATAAGGCCTAATGGCCGATGTGATGA
63 TATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17759292 ATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
17759357 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
17759386 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
17759451 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17759484 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
17759549 GTGATGAGGCCTAATGGTCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
17759578 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT-AGATGTGAAAGTGTATAAA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA-ATGTGAAAGTGTATATA
17759642 TGTGATAAG
65 TGTGATAAG
17759651 TCCCGCAGGG
Statistics
Matches: 519, Mismatches: 23, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
93 1 0.00
94 150 0.29
95 2 0.00
96 273 0.53
97 2 0.00
98 91 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:17759721 original size:38 final size:38
Alignment explanation
Indices: 17759671--17759751 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
17759661 CAATTGTGTC
17759671 AGGC-TTATGCGAGAGTATTATCCTGATTAATGTCCGT
1 AGGCTTTATGCGAGAGTATTATCCTGATTAATGTCCGT
17759708 AGGCTTTATGCGAGAGTATTATCCTGATTAATGTCCGT
1 AGGCTTTATGCGAGAGTATTATCCTGATTAATGTCCGT
17759746 AGGCTT
1 AGGCTT
17759752 CGTGCTCGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (38 bp):
AGGCTTTATGCGAGAGTATTATCCTGATTAATGTCCGT
Found at i:17766237 original size:45 final size:45
Alignment explanation
Indices: 17766173--17766561 Score: 329
Period size: 45 Copynumber: 8.7 Consensus size: 45
17766163 GTTAATACAT
*
17766173 GAAGACAAGA-CTTGCTATCTTTGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATC-TGGTATCTTTGATCTACTTCGCCACCAGTATGG
* ** * * *
17766218 GAAGGCAAGATCTACTATCTTTAATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
* * * * * * ** * ***
17766263 GGAGACAATATCTGTTGTATTTGATCTACTTCACGTCGA-TACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
* * * * *
17766307 GAAGACAAGATTTGTTTTCTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
* * ***
17766352 GAAGACAAGATCTGGTATCTTTGATCTACTTC-ACACTAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
* * * *
17766396 GAAGACAAGATCT-ATTTTTTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTT-GATCTACTTCGCCACCAGTATGG
* * * ***
17766441 AAAGACAAGATCTGGTATCTTTGATCTACTTC-ACGCCAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
* * * * *
17766485 AAAGATAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
17766530 GAAGACAAGATCTGGTATCTTTGATCTACTTC
1 GAAGACAAGATCTGGTATCTTTGATCTACTTC
17766562 ACGCCAGTAC
Statistics
Matches: 261, Mismatches: 77, Indels: 12
0.75 0.22 0.03
Matches are distributed among these distances:
43 5 0.02
44 94 0.36
45 156 0.60
46 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
Found at i:17766317 original size:89 final size:89
Alignment explanation
Indices: 17766173--17766597 Score: 512
Period size: 89 Copynumber: 4.8 Consensus size: 89
17766163 GTTAATACAT
* * * *** * * *
17766173 GAAGACAAGA-CTTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTACTATC
1 GAAGACAAGATC-TGGTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTATTTTC
** * *
17766237 TTTAATCTACTCCACCACCAGTATGG
64 TTCGATCTACTTCGCCACCAGTATGG
* * * * * * * *
17766263 GGAGACAATATCTGTTGTATTTGATCTACTTCACGTC-GATACATGAAGACAAGATTTGTTTTCT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTATTTTCT
*
17766327 TCGATCTGCTTCGCCACCAGTATGG
65 TCGATCTACTTCGCCACCAGTATGG
* * *
17766352 GAAGACAAGATCTGGTATCTTTGATCTACTTCACACTAGTACATGAAGACAAGATCTATTTTTTT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTT
*
17766417 CGATCTGCTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * * *
17766441 AAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATAAAGATAAGATCTGTTTTCTT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTT
17766506 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* **
17766530 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCTT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTT
17766595 CGA
66 CGA
17766598 CCGATTCCAC
Statistics
Matches: 289, Mismatches: 43, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
88 1 0.00
89 261 0.90
90 26 0.09
91 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (89 bp):
GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:17766333 original size:44 final size:45
Alignment explanation
Indices: 17766146--17766597 Score: 283
Period size: 45 Copynumber: 10.2 Consensus size: 45
17766136 AAGACTTGTA
*** * * *
17766146 TCTTCGATCTACTTCA-CGTTAATACATGAAGACAAGA-CTTGCTA
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATC-TGGTT
* * *** * ** *
17766190 TCTTTGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTACTA
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
** * *** * *
17766235 TCTTTAATCTACTCCACCACCAGTATGGGGAGACAATATCT-GTT
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* * ** * * *
17766279 GTATTTGATCTACTTCACGTCGA-TACATGAAGACAAGATTTGTTT
1 -TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* * *** *
17766324 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTA
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* * **
17766369 TCTTTGATCTACTTCA-CACTAGTACATGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* * * *
17766413 TTTTCGATCTGCTTCGCCACCAGT--ATGGAAAGACAAGATCTGGTA
1 TCTTCGATCTACTTCACCACCAGTACAT-G-AAGACAAGATCTGGTT
* * * * *
17766458 TCTTTGATCTACTTCA-CGCCAGTACATAAAGATAAGATCTGTTT
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* *** *
17766502 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTA
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* * * *
17766547 TCTTTGATCTACTTCA-CGCCAGTACATGAAGATAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
17766591 TCTTCGA
1 TCTTCGA
17766598 CCGATTCCAC
Statistics
Matches: 305, Mismatches: 92, Indels: 22
0.73 0.22 0.05
Matches are distributed among these distances:
43 2 0.01
44 136 0.45
45 164 0.54
46 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
Found at i:17766467 original size:134 final size:133
Alignment explanation
Indices: 17766171--17766594 Score: 311
Period size: 134 Copynumber: 3.2 Consensus size: 133
17766161 ACGTTAATAC
*
17766171 ATGAAGACAAGA-CTTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTACTA
1 ATGAAGACAAGATC-TGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTA
** * * * **
17766235 TCTTTAATCTACTCCACCACCAGTATGGGGAGACAATATCTGTTGTATTTGATCTACTTCACGTC
65 TCTTTAATCTACTCCACCACCAGTACAGGAAGACAAGATCTATTGTATTTGATCTACTTCACCAC
*
17766300 GATA
130 CATA
* * * * * **
17766304 CATGAAGACAAGATTTGTTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTA
1 -ATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTA
* * * * * * *
17766369 TCTTTGATCTACTTCA-CACTAGTACATGAAGACAAGATCTATT-TTTTTCGATCTGCTTCGCCA
65 TCTTTAATCTACTCCACCACCAGTACAGGAAGACAAGATCTATTGTATTT-GATCTACTTCACCA
17766432 CCAGT-
129 CCA-TA
* * * **** * **
17766437 ATGGAAAGACAAGATCTGGTATCTTTGATCTACTTC-ACGCCAGTACATAAAGATAAGATCTGTT
1 AT-G-AAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACT
* ** * * ** ** * * *
17766501 TTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCA-CG
64 ATCTTTAATCTACTCCACCACCAGTACAGGAAGACAAGATCTATTGTATTTGATCTACTTCACCA
17766565 CCAGTA
129 CCA-TA
* *
17766571 CATGAAGATAAGATCTGCTTTCTT
1 -ATGAAGACAAGATCTGCTATCTT
17766595 CGACCGATTC
Statistics
Matches: 229, Mismatches: 52, Indels: 19
0.76 0.17 0.06
Matches are distributed among these distances:
132 6 0.03
133 90 0.39
134 127 0.55
135 6 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (133 bp):
ATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTAT
CTTTAATCTACTCCACCACCAGTACAGGAAGACAAGATCTATTGTATTTGATCTACTTCACCACC
ATA
Found at i:17766719 original size:44 final size:44
Alignment explanation
Indices: 17766658--17767020 Score: 172
Period size: 44 Copynumber: 8.2 Consensus size: 44
17766648 TACTGCAACT
* * ** *
17766658 TCAGGGACG-TAAAATCTGCCATCTTTGATCTGCTCCACTACTGC
1 TCAGGGA-GATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
* * * * *
17766702 TTAGGGAGATAAGATCTGTAATCCTCAATCTATTCCACTGCTGC
1 TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
* * * * * **
17766746 CCAGGGAGATAGAGTTACTG---GCTTCAATATACTCCACTGCAACC
1 TCAGGGAGATA-AGAT-CTGTCATCTTCAATCTACTCCACTAC-TGC
* * ** *
17766790 TCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTACTGC
1 TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
* * * * * *
17766834 TTAGGGAGATAAGATCTGTTATCTTTAATCTATTCAACTGCTG-
1 TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
* *
17766877 TCCAGGGAGAT-AGAATTACTG---GCTTCAATATACTCCACTGTAAC--C
1 T-CAGGGAGATAAG-A-T-CTGTCATCTTCAATCTACTCCAC--T-ACTGC
* * * ** *
17766922 TCTGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTACTGC
1 TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
* * * * *
17766966 TTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGC
1 TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
*
17767010 CCAGGGAGATA
1 TCAGGGAGATA
17767021 GAATTATTGG
Statistics
Matches: 232, Mismatches: 66, Indels: 42
0.68 0.19 0.12
Matches are distributed among these distances:
42 8 0.03
43 36 0.16
44 148 0.64
45 33 0.14
46 7 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
Found at i:17766776 original size:132 final size:132
Alignment explanation
Indices: 17766601--17767126 Score: 820
Period size: 132 Copynumber: 4.0 Consensus size: 132
17766591 TCTTCGACCG
* * * * * *
17766601 ATTCCACTGCCGACCAGGGAAATAGAATTACTGGCTTCAATATACTCTACTGCAACTTCAGGGAC
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
*
17766666 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCCTCAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
17766731 CT
131 CT
*
17766733 ATTCCACTGCTGCCCAGGGAGATAGAGTTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
* * *
17766798 GTAAAATCTGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
17766863 CT
131 CT
* * * *
17766865 ATTCAACTGCTGTCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCTGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
* * *
17766930 GTAAAATCTGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
17766995 CT
131 CT
* * *
17766997 ATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
* * *
17767062 GTAAAAT-TCACCATCTTTGATCTGCTCCTCTACTGCTTAGGGAGACAAGATCTGTAATCTTCAA
66 GTAAAATCT-GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
17767126 T
130 T
17767127 TTGTTCAACT
Statistics
Matches: 366, Mismatches: 27, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 365 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (132 bp):
ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
CT
Found at i:17767247 original size:50 final size:50
Alignment explanation
Indices: 17767193--17767449 Score: 205
Period size: 50 Copynumber: 5.2 Consensus size: 50
17767183 CACCGTACCG
* *
17767193 TCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATA
1 TCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
*** * * * * ** *
17767243 TCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTATTCCACTGCACT-
1 TCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
* * *
17767292 GCTAAGGAAGTAAG-TCCGCCGTTGTGGCTTCAATCTTTTTAAGTGCAATA
1 TC-AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
*** * * * * ** *
17767342 TCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACT-
1 TCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
* * * * *
17767391 GCTAAGGAAGTAGGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATA
1 TC-AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
17767442 TCAGGGAA
1 TCAGGGAA
17767450 ACCAAATCCG
Statistics
Matches: 147, Mismatches: 55, Indels: 10
0.69 0.26 0.05
Matches are distributed among these distances:
49 36 0.24
50 110 0.75
51 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
TCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
Found at i:17767268 original size:100 final size:100
Alignment explanation
Indices: 17767146--17767508 Score: 570
Period size: 100 Copynumber: 3.6 Consensus size: 100
17767136 TACAATGTCG
* ** * * * *
17767146 GGGAAACTAGATCCACCGTCGTAGCTTCAATCTGTTCCACCGTACCG-TCAGGGAAGTAAGATCT
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTAAGATCT
17767210 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
* *
17767246 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTATTCCACTGCACTGCTAAGGAAGTAAG-TCCG
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCTG
*
17767310 CCGTTGTGGCTTCAATCTTTTTAAGTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
*
17767345 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAGGAT-TC
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCT-
17767409 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
* *
17767445 GGGAAACCAAATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAAATCT
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCT
17767509 ATGGTTTCAC
Statistics
Matches: 242, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
99 95 0.39
100 145 0.60
101 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (100 bp):
GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCTG
CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
Found at i:17767472 original size:50 final size:50
Alignment explanation
Indices: 17767219--17767477 Score: 211
Period size: 50 Copynumber: 5.2 Consensus size: 50
17767209 TGCCGTTGTG
*
17767219 GCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
1 GCTTCAATCTTTTTAACTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
* ** * * * *** * * *
17767269 GCTTCAATCTATTCCACTGCACT-GCTAAGGAAGTAAG-TCCGCCGTTGTG
1 GCTTCAATCTTTTTAACTGCAATATC-AGGGAAACCAGATCCGTCGTCGTA
*
17767318 GCTTCAATCTTTTTAAGTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
1 GCTTCAATCTTTTTAACTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
* ** * * * ** * * * *
17767368 GCTTCAATCTGTTCCACTGCACT-GCTAAGG-AAGTAGGATTCGCCGTTGTG
1 GCTTCAATCTTTTTAACTGCAATATC-AGGGAAACCA-GATCCGTCGTCGTA
* *
17767418 GCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAAATCCGTCGTCGTA
1 GCTTCAATCTTTTTAACTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
17767468 GCTTCAATCT
1 GCTTCAATCT
17767478 GTTCCACTGC
Statistics
Matches: 149, Mismatches: 53, Indels: 14
0.69 0.25 0.06
Matches are distributed among these distances:
49 39 0.26
50 106 0.71
51 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (50 bp):
GCTTCAATCTTTTTAACTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
Found at i:17767507 original size:50 final size:50
Alignment explanation
Indices: 17767256--17767507 Score: 177
Period size: 50 Copynumber: 5.1 Consensus size: 50
17767246 GGGAAACCAG
*
17767256 ATCCGTCGTCGTAGCTTCAATCTATTCCACTGCACTGCTAAGGAAGT-AA
1 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAA
* * * * * ** * * * * *** *
17767305 GTCCGCCGTTGTGGCTTCAATCTTTTTAAGTGCAAT-ATCAGGGAAACCAG
1 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTAAA
**
17767355 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAGG
1 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAA
* * * * * ** * * * * ***
17767405 ATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCAGGGAAACCAA
1 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTAAA
17767455 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAA
1 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAA
17767505 ATC
1 ATC
17767508 TATGGTTTCA
Statistics
Matches: 139, Mismatches: 59, Indels: 9
0.67 0.29 0.04
Matches are distributed among these distances:
48 1 0.01
49 33 0.24
50 103 0.74
51 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (50 bp):
ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAA
Found at i:17768746 original size:7 final size:7
Alignment explanation
Indices: 17768729--17768769 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
17768719 AGCCTCTCCA
17768729 TTTTC-T
1 TTTTCAT
17768735 TTTTCAT
1 TTTTCAT
17768742 TTTTCA-
1 TTTTCAT
17768748 TTTTCAT
1 TTTTCAT
17768755 CTTTTCAT
1 -TTTTCAT
17768763 TTTTCAT
1 TTTTCAT
17768770 ATCACTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 11 0.34
7 14 0.44
8 7 0.22
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:17768759 original size:14 final size:13
Alignment explanation
Indices: 17768729--17768765 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
17768719 AGCCTCTCCA
*
17768729 TTTTCTTTTTCAT
1 TTTTCATTTTCAT
17768742 TTTTCATTTTCAT
1 TTTTCATTTTCAT
17768755 CTTTTCATTTT
1 -TTTTCATTTT
17768766 TCATATCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTCAT
Found at i:17768778 original size:21 final size:21
Alignment explanation
Indices: 17768735--17768780 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17768725 TCCATTTTCT
*
17768735 TTTTCATTTTTCATTTTCATC
1 TTTTCATTTTTCATTATCATC
17768756 TTTTCATTTTTCA-TATCACTC
1 TTTTCATTTTTCATTATCA-TC
17768777 TTTT
1 TTTT
17768781 TTTTTGGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTCATTTTTCATTATCATC
Found at i:17771140 original size:17 final size:18
Alignment explanation
Indices: 17771100--17771142 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
17771090 CAGAGTGTTT
*
17771100 AATGCATATGATTAATGA
1 AATGCATATGATAAATGA
17771118 AATGCA-ATGCATAAATG-
1 AATGCATATG-ATAAATGA
17771135 AATGCATA
1 AATGCATA
17771143 AAGACATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (18 bp):
AATGCATATGATAAATGA
Found at i:17774761 original size:45 final size:45
Alignment explanation
Indices: 17774697--17775085 Score: 329
Period size: 45 Copynumber: 8.7 Consensus size: 45
17774687 GTTAATACAT
*
17774697 GAAGACAAGA-CTTGCTATCTTTGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATC-TGGTATCTTTGATCTACTTCGCCACCAGTATGG
* ** * * *
17774742 GAAGGCAAGATCTACTATCTTTAATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
* * * * * * ** * ***
17774787 GGAGACAATATCTGTTGTATTTGATCTACTTCACGTCGA-TACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
* * * * *
17774831 GAAGACAAGATTTGTTTTCTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
* * ***
17774876 GAAGACAAGATCTGGTATCTTTGATCTACTTC-ACACTAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
* * * *
17774920 GAAGACAAGATCT-ATTTTTTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTT-GATCTACTTCGCCACCAGTATGG
* * * ***
17774965 AAAGACAAGATCTGGTATCTTTGATCTACTTC-ACGCCAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
* * * * *
17775009 AAAGATAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
17775054 GAAGACAAGATCTGGTATCTTTGATCTACTTC
1 GAAGACAAGATCTGGTATCTTTGATCTACTTC
17775086 ACGCCAGTAC
Statistics
Matches: 261, Mismatches: 77, Indels: 12
0.75 0.22 0.03
Matches are distributed among these distances:
43 5 0.02
44 94 0.36
45 156 0.60
46 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
GAAGACAAGATCTGGTATCTTTGATCTACTTCGCCACCAGTATGG
Found at i:17774841 original size:89 final size:89
Alignment explanation
Indices: 17774697--17775121 Score: 512
Period size: 89 Copynumber: 4.8 Consensus size: 89
17774687 GTTAATACAT
* * * *** * * *
17774697 GAAGACAAGA-CTTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTACTATC
1 GAAGACAAGATC-TGGTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTATTTTC
** * *
17774761 TTTAATCTACTCCACCACCAGTATGG
64 TTCGATCTACTTCGCCACCAGTATGG
* * * * * * * *
17774787 GGAGACAATATCTGTTGTATTTGATCTACTTCACGTC-GATACATGAAGACAAGATTTGTTTTCT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTATTTTCT
*
17774851 TCGATCTGCTTCGCCACCAGTATGG
65 TCGATCTACTTCGCCACCAGTATGG
* * *
17774876 GAAGACAAGATCTGGTATCTTTGATCTACTTCACACTAGTACATGAAGACAAGATCTATTTTTTT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTT
*
17774941 CGATCTGCTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * * *
17774965 AAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATAAAGATAAGATCTGTTTTCTT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTT
17775030 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* **
17775054 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCTT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTT
17775119 CGA
66 CGA
17775122 CCGATTCCAC
Statistics
Matches: 289, Mismatches: 43, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
88 1 0.00
89 261 0.90
90 26 0.09
91 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (89 bp):
GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:17774857 original size:44 final size:45
Alignment explanation
Indices: 17774670--17775121 Score: 283
Period size: 45 Copynumber: 10.2 Consensus size: 45
17774660 AAGACTTGTA
*** * * *
17774670 TCTTCGATCTACTTCA-CGTTAATACATGAAGACAAGA-CTTGCTA
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATC-TGGTT
* * *** * ** *
17774714 TCTTTGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTACTA
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
** * *** * *
17774759 TCTTTAATCTACTCCACCACCAGTATGGGGAGACAATATCT-GTT
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* * ** * * *
17774803 GTATTTGATCTACTTCACGTCGA-TACATGAAGACAAGATTTGTTT
1 -TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* * *** *
17774848 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTA
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* * **
17774893 TCTTTGATCTACTTCA-CACTAGTACATGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* * * *
17774937 TTTTCGATCTGCTTCGCCACCAGT--ATGGAAAGACAAGATCTGGTA
1 TCTTCGATCTACTTCACCACCAGTACAT-G-AAGACAAGATCTGGTT
* * * * *
17774982 TCTTTGATCTACTTCA-CGCCAGTACATAAAGATAAGATCTGTTT
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* *** *
17775026 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTA
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
* * * *
17775071 TCTTTGATCTACTTCA-CGCCAGTACATGAAGATAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
17775115 TCTTCGA
1 TCTTCGA
17775122 CCGATTCCAC
Statistics
Matches: 305, Mismatches: 92, Indels: 22
0.73 0.22 0.05
Matches are distributed among these distances:
43 2 0.01
44 136 0.45
45 164 0.54
46 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAGTACATGAAGACAAGATCTGGTT
Found at i:17774991 original size:134 final size:133
Alignment explanation
Indices: 17774695--17775118 Score: 311
Period size: 134 Copynumber: 3.2 Consensus size: 133
17774685 ACGTTAATAC
*
17774695 ATGAAGACAAGA-CTTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTACTA
1 ATGAAGACAAGATC-TGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTA
** * * * **
17774759 TCTTTAATCTACTCCACCACCAGTATGGGGAGACAATATCTGTTGTATTTGATCTACTTCACGTC
65 TCTTTAATCTACTCCACCACCAGTACAGGAAGACAAGATCTATTGTATTTGATCTACTTCACCAC
*
17774824 GATA
130 CATA
* * * * * **
17774828 CATGAAGACAAGATTTGTTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTA
1 -ATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTA
* * * * * * *
17774893 TCTTTGATCTACTTCA-CACTAGTACATGAAGACAAGATCTATT-TTTTTCGATCTGCTTCGCCA
65 TCTTTAATCTACTCCACCACCAGTACAGGAAGACAAGATCTATTGTATTT-GATCTACTTCACCA
17774956 CCAGT-
129 CCA-TA
* * * **** * **
17774961 ATGGAAAGACAAGATCTGGTATCTTTGATCTACTTC-ACGCCAGTACATAAAGATAAGATCTGTT
1 AT-G-AAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACT
* ** * * ** ** * * *
17775025 TTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCA-CG
64 ATCTTTAATCTACTCCACCACCAGTACAGGAAGACAAGATCTATTGTATTTGATCTACTTCACCA
17775089 CCAGTA
129 CCA-TA
* *
17775095 CATGAAGATAAGATCTGCTTTCTT
1 -ATGAAGACAAGATCTGCTATCTT
17775119 CGACCGATTC
Statistics
Matches: 229, Mismatches: 52, Indels: 19
0.76 0.17 0.06
Matches are distributed among these distances:
132 6 0.03
133 90 0.39
134 127 0.55
135 6 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (133 bp):
ATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTAT
CTTTAATCTACTCCACCACCAGTACAGGAAGACAAGATCTATTGTATTTGATCTACTTCACCACC
ATA
Found at i:17775243 original size:44 final size:44
Alignment explanation
Indices: 17775182--17775544 Score: 172
Period size: 44 Copynumber: 8.2 Consensus size: 44
17775172 TACTGCAACT
* * ** *
17775182 TCAGGGACG-TAAAATCTGCCATCTTTGATCTGCTCCACTACTGC
1 TCAGGGA-GATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
* * * * *
17775226 TTAGGGAGATAAGATCTGTAATCCTCAATCTATTCCACTGCTGC
1 TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
* * * * * **
17775270 CCAGGGAGATAGAGTTACTG---GCTTCAATATACTCCACTGCAACC
1 TCAGGGAGATA-AGAT-CTGTCATCTTCAATCTACTCCACTAC-TGC
* * ** *
17775314 TCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTACTGC
1 TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
* * * * * *
17775358 TTAGGGAGATAAGATCTGTTATCTTTAATCTATTCAACTGCTG-
1 TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
* *
17775401 TCCAGGGAGAT-AGAATTACTG---GCTTCAATATACTCCACTGTAAC--C
1 T-CAGGGAGATAAG-A-T-CTGTCATCTTCAATCTACTCCAC--T-ACTGC
* * * ** *
17775446 TCTGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTACTGC
1 TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
* * * * *
17775490 TTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGC
1 TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
*
17775534 CCAGGGAGATA
1 TCAGGGAGATA
17775545 GAATTATTGG
Statistics
Matches: 232, Mismatches: 66, Indels: 42
0.68 0.19 0.12
Matches are distributed among these distances:
42 8 0.03
43 36 0.16
44 148 0.64
45 33 0.14
46 7 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
TCAGGGAGATAAGATCTGTCATCTTCAATCTACTCCACTACTGC
Found at i:17775300 original size:132 final size:132
Alignment explanation
Indices: 17775125--17775650 Score: 820
Period size: 132 Copynumber: 4.0 Consensus size: 132
17775115 TCTTCGACCG
* * * * * *
17775125 ATTCCACTGCCGACCAGGGAAATAGAATTACTGGCTTCAATATACTCTACTGCAACTTCAGGGAC
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
*
17775190 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCCTCAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
17775255 CT
131 CT
*
17775257 ATTCCACTGCTGCCCAGGGAGATAGAGTTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
* * *
17775322 GTAAAATCTGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
17775387 CT
131 CT
* * * *
17775389 ATTCAACTGCTGTCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCTGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
* * *
17775454 GTAAAATCTGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
17775519 CT
131 CT
* * *
17775521 ATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
* * *
17775586 GTAAAAT-TCACCATCTTTGATCTGCTCCTCTACTGCTTAGGGAGACAAGATCTGTAATCTTCAA
66 GTAAAATCT-GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
17775650 T
130 T
17775651 TTGTTCAACT
Statistics
Matches: 366, Mismatches: 27, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 365 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (132 bp):
ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
CT
Found at i:17775771 original size:50 final size:50
Alignment explanation
Indices: 17775717--17775973 Score: 205
Period size: 50 Copynumber: 5.2 Consensus size: 50
17775707 CACCGTACCG
* *
17775717 TCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATA
1 TCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
*** * * * * ** *
17775767 TCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTATTCCACTGCACT-
1 TCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
* * *
17775816 GCTAAGGAAGTAAG-TCCGCCGTTGTGGCTTCAATCTTTTTAAGTGCAATA
1 TC-AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
*** * * * * ** *
17775866 TCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACT-
1 TCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
* * * * *
17775915 GCTAAGGAAGTAGGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATA
1 TC-AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
17775966 TCAGGGAA
1 TCAGGGAA
17775974 ACCAAATCCG
Statistics
Matches: 147, Mismatches: 55, Indels: 10
0.69 0.26 0.05
Matches are distributed among these distances:
49 36 0.24
50 110 0.75
51 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
TCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATA
Found at i:17775792 original size:100 final size:100
Alignment explanation
Indices: 17775670--17776032 Score: 570
Period size: 100 Copynumber: 3.6 Consensus size: 100
17775660 TACAATGTCG
* ** * * * *
17775670 GGGAAACTAGATCCACCGTCGTAGCTTCAATCTGTTCCACCGTACCG-TCAGGGAAGTAAGATCT
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTAAGATCT
17775734 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
* *
17775770 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTATTCCACTGCACTGCTAAGGAAGTAAG-TCCG
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCTG
*
17775834 CCGTTGTGGCTTCAATCTTTTTAAGTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
*
17775869 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAGGAT-TC
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCT-
17775933 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
* *
17775969 GGGAAACCAAATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAAATCT
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCT
17776033 ATGGTTTCAC
Statistics
Matches: 242, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
99 95 0.39
100 145 0.60
101 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (100 bp):
GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCTG
CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
Found at i:17775996 original size:50 final size:50
Alignment explanation
Indices: 17775743--17776001 Score: 211
Period size: 50 Copynumber: 5.2 Consensus size: 50
17775733 TGCCGTTGTG
*
17775743 GCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
1 GCTTCAATCTTTTTAACTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
* ** * * * *** * * *
17775793 GCTTCAATCTATTCCACTGCACT-GCTAAGGAAGTAAG-TCCGCCGTTGTG
1 GCTTCAATCTTTTTAACTGCAATATC-AGGGAAACCAGATCCGTCGTCGTA
*
17775842 GCTTCAATCTTTTTAAGTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
1 GCTTCAATCTTTTTAACTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
* ** * * * ** * * * *
17775892 GCTTCAATCTGTTCCACTGCACT-GCTAAGG-AAGTAGGATTCGCCGTTGTG
1 GCTTCAATCTTTTTAACTGCAATATC-AGGGAAACCA-GATCCGTCGTCGTA
* *
17775942 GCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAAATCCGTCGTCGTA
1 GCTTCAATCTTTTTAACTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
17775992 GCTTCAATCT
1 GCTTCAATCT
17776002 GTTCCACTGC
Statistics
Matches: 149, Mismatches: 53, Indels: 14
0.69 0.25 0.06
Matches are distributed among these distances:
49 39 0.26
50 106 0.71
51 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (50 bp):
GCTTCAATCTTTTTAACTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
Found at i:17776031 original size:50 final size:50
Alignment explanation
Indices: 17775780--17776031 Score: 177
Period size: 50 Copynumber: 5.1 Consensus size: 50
17775770 GGGAAACCAG
*
17775780 ATCCGTCGTCGTAGCTTCAATCTATTCCACTGCACTGCTAAGGAAGT-AA
1 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAA
* * * * * ** * * * * *** *
17775829 GTCCGCCGTTGTGGCTTCAATCTTTTTAAGTGCAAT-ATCAGGGAAACCAG
1 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTAAA
**
17775879 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAGG
1 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAA
* * * * * ** * * * * ***
17775929 ATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCAGGGAAACCAA
1 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTAAA
17775979 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAA
1 ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAA
17776029 ATC
1 ATC
17776032 TATGGTTTCA
Statistics
Matches: 139, Mismatches: 59, Indels: 9
0.67 0.29 0.04
Matches are distributed among these distances:
48 1 0.01
49 33 0.24
50 103 0.74
51 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (50 bp):
ATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAA
Found at i:17777275 original size:7 final size:7
Alignment explanation
Indices: 17777259--17777300 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
17777249 AGCCTCTCCA
*
17777259 TTTTCTT
1 TTTTCAT
17777266 TTTTCAT
1 TTTTCAT
17777273 TTTTCA-
1 TTTTCAT
17777279 TTTTCAT
1 TTTTCAT
17777286 CTTTTCAT
1 -TTTTCAT
17777294 TTTTCAT
1 TTTTCAT
17777301 ATCACTCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.19
7 19 0.59
8 7 0.22
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:17777292 original size:21 final size:20
Alignment explanation
Indices: 17777257--17777300 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
17777247 TTAGCCTCTC
*
17777257 CATTTTCTTTTTTCATTTTT
1 CATTTTCTCTTTTCATTTTT
17777277 CATTTTCATCTTTTCATTTTT
1 CATTTTC-TCTTTTCATTTTT
17777298 CAT
1 CAT
17777301 ATCACTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTCTCTTTTCATTTTT
Found at i:17777309 original size:21 final size:21
Alignment explanation
Indices: 17777266--17777311 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17777256 CCATTTTCTT
*
17777266 TTTTCATTTTTCATTTTCATC
1 TTTTCATTTTTCATTATCATC
17777287 TTTTCATTTTTCA-TATCACTC
1 TTTTCATTTTTCATTATCA-TC
17777308 TTTT
1 TTTT
17777312 TTTTTTGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTCATTTTTCATTATCATC
Done.