Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 91
Found at i:7081616 original size:16 final size:17
Alignment explanation
Indices: 7081595--7081627 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7081585 GCAAAAAAAG
7081595 TCTAG-TCACATGCTTT
1 TCTAGTTCACATGCTTT
*
7081611 TCTAGTTCTCATGCTTT
1 TCTAGTTCACATGCTTT
7081628 CATTAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.15, C:0.24, G:0.12, T:0.48
Consensus pattern (17 bp):
TCTAGTTCACATGCTTT
Found at i:7082533 original size:23 final size:24
Alignment explanation
Indices: 7082491--7082535 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7082481 AAAATGACTT
7082491 AAAATAATTTTAAAAGATAAATAA
1 AAAATAATTTTAAAAGATAAATAA
* *
7082515 AAAATCATTTTTAAA-ATAAAT
1 AAAATAATTTTAAAAGATAAAT
7082536 TGATCTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATAATTTTAAAAGATAAATAA
Found at i:7085039 original size:3 final size:3
Alignment explanation
Indices: 7085031--7085088 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
7085021 CATCTCAAAA
7085031 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7085079 AAT AAT AAT A
1 AAT AAT AAT A
7085089 GAAAAAGGTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7085487 original size:23 final size:23
Alignment explanation
Indices: 7085461--7085510 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
7085451 AACATCTCTA
*
7085461 TTCATGAAAAATAGTTAAATCTT
1 TTCATGAAAAATAGTTAAATCAT
*
7085484 TTCATGAAAAATAGTTAATTCAT
1 TTCATGAAAAATAGTTAAATCAT
7085507 TTCA
1 TTCA
7085511 CCCAAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (23 bp):
TTCATGAAAAATAGTTAAATCAT
Found at i:7085517 original size:24 final size:23
Alignment explanation
Indices: 7085467--7085518 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
7085457 TCTATTCATG
* **
7085467 AAAAATAGTTAAATCTTTTCATG
1 AAAAATAGTTAAATCATTTCACC
*
7085490 AAAAATAGTTAATTCATTTCACCC
1 AAAAATAGTTAAATCATTTCA-CC
7085514 AAAAA
1 AAAAA
7085519 GTCTAGTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (23 bp):
AAAAATAGTTAAATCATTTCACC
Found at i:7085690 original size:14 final size:15
Alignment explanation
Indices: 7085671--7085699 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7085661 ACAACTTTTC
7085671 ATATTTT-CTTTCAA
1 ATATTTTCCTTTCAA
7085685 ATATTTTCCTTTCAA
1 ATATTTTCCTTTCAA
7085700 TTCTCTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTTTCCTTTCAA
Found at i:7086373 original size:24 final size:24
Alignment explanation
Indices: 7086346--7086394 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7086336 ATTTTTTAAA
7086346 GATGATCCTCCTATTATTAGAGAG
1 GATGATCCTCCTATTATTAGAGAG
7086370 GATGATCCTCCTATTATTAGAGAG
1 GATGATCCTCCTATTATTAGAGAG
7086394 G
1 G
7086395 GTGAAGTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (24 bp):
GATGATCCTCCTATTATTAGAGAG
Found at i:7090602 original size:23 final size:23
Alignment explanation
Indices: 7090576--7090649 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 23
7090566 AACATCTCTA
7090576 TTCATGAAAAATAGTTAAGTCTT
1 TTCATGAAAAATAGTTAAGTCTT
* *
7090599 TTCATGAAAAATAGTTAATTCAT
1 TTCATGAAAAATAGTTAAGTCTT
***
7090622 TTCACCCAAAA-AGTTAAGTCTT
1 TTCATGAAAAATAGTTAAGTCTT
7090644 TTCATG
1 TTCATG
7090650 TTAACCTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 13 0.31
23 29 0.69
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (23 bp):
TTCATGAAAAATAGTTAAGTCTT
Found at i:7107004 original size:95 final size:91
Alignment explanation
Indices: 7106791--7107007 Score: 220
Period size: 91 Copynumber: 2.3 Consensus size: 91
7106781 GTACTGATAA
* ** * * * * *
7106791 AGTAATATCGATATTATGGTAAGGGTATCGATACCAGGTAACATTGAACCTAATTTTGGTATCGA
1 AGTAGTATCGATACCATGGTAGGGGTATCGACACCAAGCAACATCGAACCTAATTTTGGTATCGA
* * * *
7106856 TACCGGAGGGGGTAATGCCATAATAT
66 TACCGCAGGGAGTAATACCATAATAG
* * * *
7106882 AGTAGTATCGATACCATGAT-GAAGGTATCGACACCAAGCCACATCGAAGCTAATTTTGGTATCG
1 AGTAGTATCGATACCATGGTAG-GGGTATCGACACCAAGCAACATCGAACCTAATTTTGGTATCG
*
7106946 ATACCGACAGGGAGTATCGATACCATAGTAG
65 ATACCG-CAGGGAGTA---ATACCATAATAG
*
7106977 GGTAGTATCGATACCATGGTAGGGGTATCGA
1 AGTAGTATCGATACCATGGTAGGGGTATCGA
7107008 TACTGAAGAG
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
91 57 0.57
92 7 0.07
95 35 0.35
96 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (91 bp):
AGTAGTATCGATACCATGGTAGGGGTATCGACACCAAGCAACATCGAACCTAATTTTGGTATCGA
TACCGCAGGGAGTAATACCATAATAG
Found at i:7107006 original size:20 final size:21
Alignment explanation
Indices: 7106954--7107010 Score: 89
Period size: 22 Copynumber: 2.7 Consensus size: 21
7106944 CGATACCGAC
7106954 AGGGAGTATCGATACCATAGT
1 AGGGAGTATCGATACCATAGT
*
7106975 AGGGTAGTATCGATACCATGGT
1 AGGG-AGTATCGATACCATAGT
7106997 AGGG-GTATCGATAC
1 AGGGAGTATCGATAC
7107011 TGAAGAGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 10 0.29
21 4 0.12
22 20 0.59
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.25
Consensus pattern (21 bp):
AGGGAGTATCGATACCATAGT
Found at i:7107408 original size:59 final size:59
Alignment explanation
Indices: 7107334--7107722 Score: 566
Period size: 59 Copynumber: 6.6 Consensus size: 59
7107324 TACCAAATGC
**
7107334 TAAGGAATTCATACTAAGTGTATGAATTTTGGTATAGGGCACTTCGTGTGCTAACATGA
1 TAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAACATGA
*
7107393 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAACATGA
1 TAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAACATGA
* *
7107452 TACGGAATTCATACTAAGTGTATAAATTTCCGTATAGGGCACTTCGTGTGCTAACATGA
1 TAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAACATGA
* * * *
7107511 TAAGGAATTCATATTAAGTGTGTGAATTTCCATATAGGGCCCTTCGTGTGCTAACATGA
1 TAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAACATGA
** *
7107570 TAAGGAATTCATACTAAGTGTATGAATTTCCACATAGGGCACTTCGTGTACTAACATGA
1 TAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAACATGA
* * * * *
7107629 TAAGGAATTCATACTAAGTG-ATTGAATTTTCATATTGGGCAACTT-GTGTGTTAAAATGA
1 TAAGGAATTCATACTAAGTGTA-TGAATTTCCGTATAGGGC-ACTTCGTGTGCTAACATGA
* * *
7107688 TAAGAAATTCATACTAAGTTTATGAATTTCGGTAT
1 TAAGGAATTCATACTAAGTGTATGAATTTCCGTAT
7107723 GGGAAATGTA
Statistics
Matches: 299, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
58 1 0.00
59 293 0.98
60 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (59 bp):
TAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAACATGA
Found at i:7113033 original size:2 final size:2
Alignment explanation
Indices: 7113028--7113059 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7113018 ATCTCAAGTA
7113028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7113060 TTGATATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7114090 original size:2 final size:2
Alignment explanation
Indices: 7114083--7114121 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7114073 GCGTAACGAA
7114083 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7114122 CATGATATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7130855 original size:138 final size:138
Alignment explanation
Indices: 7130603--7130857 Score: 354
Period size: 138 Copynumber: 1.8 Consensus size: 138
7130593 CCTAAGTGTC
**
7130603 GAAATGGAAATTCACAAACTCATTATGAATTCCATGGATACACATATAGTGCTGAAAGTACATAT
1 GAAATGGAAATTCACAAACTCATTATGAACACCATGGATACACATATAGTGCTGAAAGTACATAT
*
7130668 AATATTGATACGAAAATGAACCACTATGCATTACACAAAATAGACCGATAACTTTTATACATAAT
66 AATACTGATACGAAAATGAACCACTATGCATTACACAAAATAGACCGATAACTTTTATACATAAT
7130733 TGTATGTT
131 TGTATGTT
* * * *
7130741 GAAATGGTAATTCATAAACTCATTATGAACACCAT-GATTGCACATCTAGTG-TCGAAAGTACAT
1 GAAATGGAAATTCACAAACTCATTATGAACACCATGGA-TACACATATAGTGCT-GAAAGTACAT
* * * * *
7130804 GTAGTACTGATACGAAAAT-AGACCATTATGCATTACACAAAATGGATCGATAAC
64 ATAATACTGATACGAAAATGA-ACCACTATGCATTACACAAAATAGACCGATAAC
7130858 CATTACATAC
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
137 4 0.04
138 98 0.96
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (138 bp):
GAAATGGAAATTCACAAACTCATTATGAACACCATGGATACACATATAGTGCTGAAAGTACATAT
AATACTGATACGAAAATGAACCACTATGCATTACACAAAATAGACCGATAACTTTTATACATAAT
TGTATGTT
Found at i:7134956 original size:39 final size:42
Alignment explanation
Indices: 7134913--7135000 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
7134903 ACATAAACTG
7134913 AAAGAT-AATAAAGCCA-ATA-TAATGTAATTATTATTATTA
1 AAAGATCAATAAAGCCATATATTAATGTAATTATTATTATTA
** * *
7134952 AAAGATCCTTAGATCCATATATTAATGTAATTATTATTATTA
1 AAAGATCAATAAAGCCATATATTAATGTAATTATTATTATTA
7134994 AAAGATC
1 AAAGATC
7135001 CTTAGTCAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 6 0.14
40 6 0.14
41 3 0.07
42 27 0.64
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (42 bp):
AAAGATCAATAAAGCCATATATTAATGTAATTATTATTATTA
Found at i:7139603 original size:2 final size:2
Alignment explanation
Indices: 7139596--7139707 Score: 224
Period size: 2 Copynumber: 56.0 Consensus size: 2
7139586 ACTTGAATTC
7139596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7139638 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7139680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7139708 CCTCGTAAAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 110 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7147001 original size:17 final size:18
Alignment explanation
Indices: 7146967--7147009 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
7146957 TTCTGTACTG
*
7146967 TTGC-TTTATTTTACTTA
1 TTGCTTTTATTATACTTA
7146984 TTGCTTTTATTATA-TTA
1 TTGCTTTTATTATACTTA
*
7147001 TTTCTTTTA
1 TTGCTTTTA
7147010 CTGTACTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (18 bp):
TTGCTTTTATTATACTTA
Found at i:7152694 original size:34 final size:34
Alignment explanation
Indices: 7152628--7152692 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
7152618 GGTTGTTACA
* *
7152628 TATACTGTTTCTTTTACTGTATTGATTATTTTAT
1 TATACTATTTCATTTACTGTATTGATTATTTTAT
7152662 TATACTATTTCATTTACTGTATTG-TTATTTT
1 TATACTATTTCATTTACTGTATTGATTATTTT
7152693 TACTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 7 0.24
34 22 0.76
ACGTcount: A:0.22, C:0.09, G:0.08, T:0.62
Consensus pattern (34 bp):
TATACTATTTCATTTACTGTATTGATTATTTTAT
Found at i:7152850 original size:25 final size:25
Alignment explanation
Indices: 7152822--7152971 Score: 167
Period size: 25 Copynumber: 6.0 Consensus size: 25
7152812 GTGTGCTATA
* *
7152822 TGCACTCGAAAGTGCCTCGTGGATT
1 TGCACTCGAAAGTGCCTCGTAGAAT
*
7152847 TGCACTCAAAAGT-CCTCGTAGAAT
1 TGCACTCGAAAGTGCCTCGTAGAAT
*
7152871 TGCACTCGAAAGTGCCTCGTATAAT
1 TGCACTCGAAAGTGCCTCGTAGAAT
* *
7152896 TACACTCGAAAGTGCCTCGTATAAT
1 TGCACTCGAAAGTGCCTCGTAGAAT
* * * *
7152921 TACACTCGAAAATGTCTCATAGAAT
1 TGCACTCGAAAGTGCCTCGTAGAAT
* * * *
7152946 TTCACTTGAAAGTGTCTCATAGAAT
1 TGCACTCGAAAGTGCCTCGTAGAAT
7152971 T
1 T
7152972 ACACCATAAG
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
24 21 0.19
25 90 0.81
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (25 bp):
TGCACTCGAAAGTGCCTCGTAGAAT
Found at i:7153713 original size:17 final size:17
Alignment explanation
Indices: 7153691--7153729 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7153681 CAAGTCCCTT
7153691 TTATAA-TAAATTTATTA
1 TTATAATTAAATTT-TTA
*
7153708 TTATAATTCAATTTTTA
1 TTATAATTAAATTTTTA
7153725 TTATA
1 TTATA
7153730 CTTCACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATAATTAAATTTTTA
Found at i:7153734 original size:17 final size:18
Alignment explanation
Indices: 7153699--7153734 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7153689 TTTTATAATA
7153699 AATTTATTATTATAATTC
1 AATTTATTATTATAATTC
*
7153717 AATTT-TTATTATACTTC
1 AATTTATTATTATAATTC
7153734 A
1 A
7153735 CTTAAACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTATTATTATAATTC
Found at i:7160568 original size:35 final size:35
Alignment explanation
Indices: 7160529--7160636 Score: 117
Period size: 35 Copynumber: 3.1 Consensus size: 35
7160519 TCTCTGCAGC
7160529 TTCAGCTCGATCAAACTGGTAATTCCTTATATAGG
1 TTCAGCTCGATCAAACTGGTAATTCCTTATATAGG
* * * * * * *
7160564 TTCAGATGGATCGAACTGGTAATTTCTTACGACAGT
1 TTCAGCTCGATCAAACTGGTAATTCCTTA-TATAGG
* * *
7160600 TTCAGCTTGGTAAAACTGGTAATTCCTTATATAGG
1 TTCAGCTCGATCAAACTGGTAATTCCTTATATAGG
7160635 TT
1 TT
7160637 TAGAGTGATT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
35 30 0.54
36 26 0.46
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (35 bp):
TTCAGCTCGATCAAACTGGTAATTCCTTATATAGG
Found at i:7164522 original size:71 final size:71
Alignment explanation
Indices: 7164434--7164575 Score: 198
Period size: 71 Copynumber: 2.0 Consensus size: 71
7164424 AAGTATCTGT
* * *
7164434 AGGTTCAACTCGATCAAACTTGTAATTTCTTATATAGGTTCAGA-TGAATCGAAATGGTAATTCC
1 AGGTTCAACTCGATCAAACTCGTAATTCCTTATATAGGTTCAGACCG-ATCGAAATGGTAATTCC
7164498 TTACGGA
65 TTACGGA
* * *
7164505 AGGTTCAGCTC-AGTCAAACTCGTAATTCCTTATATAGGTTCATACCGATCGAGATGGTAATTCC
1 AGGTTCAACTCGA-TCAAACTCGTAATTCCTTATATAGGTTCAGACCGATCGAAATGGTAATTCC
7164569 TTACGGA
65 TTACGGA
7164576 TCTAAGGTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
70 1 0.02
71 61 0.97
72 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (71 bp):
AGGTTCAACTCGATCAAACTCGTAATTCCTTATATAGGTTCAGACCGATCGAAATGGTAATTCCT
TACGGA
Found at i:7172366 original size:27 final size:27
Alignment explanation
Indices: 7172335--7172386 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
7172325 CCTATAACCA
7172335 AATTAACTGGTTAAGCCATCTAAACTG
1 AATTAACTGGTTAAGCCATCTAAACTG
7172362 AATTAACTGGTTAAGCCATCTAAAC
1 AATTAACTGGTTAAGCCATCTAAAC
7172387 CGAGTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (27 bp):
AATTAACTGGTTAAGCCATCTAAACTG
Found at i:7173780 original size:76 final size:71
Alignment explanation
Indices: 7173689--7173911 Score: 231
Period size: 67 Copynumber: 3.1 Consensus size: 71
7173679 TTAAACTCAA
*
7173689 ATTTAGGATAATATTTTAAACATTATATTTTACCTTTGTATTTTAGTTTAAATAGGTTTTTAGTA
1 ATTTAGGATATTATTTT--A-ATTATATTTTA-CTTTGTATTTTAGTTTAAATA-GTTTTTAGTA
7173754 TTTTAATTAAG
61 TTTTAATTAAG
* *
7173765 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAAATA-TGTTTTAGTA
1 ATTTAGGATATTA-TTTTA-ATTATAT-TTTA-CTTTGTATTTTAGTTTAAATAGT-TTTTAGTA
*
7173829 TTTTAATTAGG
61 TTTTAATTAAG
* * * * *
7173840 ATTTAGAATATTATATT-ATTAT-TTTT--TTGGTATTTTAGTTTAAATAGTTTTAAGTGTTTTA
1 ATTTAGGATATTATTTTAATTATATTTTACTTTGTATTTTAGTTTAAATAGTTTTTAGTATTTTA
*
7173901 ATTAGG
66 ATTAAG
7173907 ATTTA
1 ATTTA
7173912 AGATGTTTTA
Statistics
Matches: 130, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
67 41 0.32
68 1 0.01
70 3 0.02
71 1 0.01
72 4 0.03
74 4 0.03
75 36 0.28
76 36 0.28
77 4 0.03
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (71 bp):
ATTTAGGATATTATTTTAATTATATTTTACTTTGTATTTTAGTTTAAATAGTTTTTAGTATTTTA
ATTAAG
Found at i:7174595 original size:16 final size:15
Alignment explanation
Indices: 7174574--7174612 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
7174564 TCCCCCTTTT
7174574 ATATTTATTACTATTA
1 ATATTTATTACTA-TA
*
7174590 ATATTTATTATTATA
1 ATATTTATTACTATA
*
7174605 TTATTTAT
1 ATATTTAT
7174613 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTATTACTATA
Found at i:7181358 original size:74 final size:75
Alignment explanation
Indices: 7181234--7181396 Score: 222
Period size: 73 Copynumber: 2.2 Consensus size: 75
7181224 TTAAACTCAA
* * *
7181234 ATTTAGGATAATATTTTAAATATTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTA
1 ATTTAGGATATTATTTTAAATATTATATTCTATCTTTATATTTTAGTTTAAATAGG-TTTTAGTA
*
7181299 TTTTACTTAAG
65 TTTTAATTAAG
* * *
7181310 TTTTAGGATATTATTTT-TATATTTTA-TCTATCTTTATATTTTAGTTTAAATAGGTTTTAGTAT
1 ATTTAGGATATTATTTTAAATATTATATTCTATCTTTATATTTTAGTTTAAATAGGTTTTAGTAT
*
7181373 TTTAATTAGG
66 TTTAATTAAG
*
7181383 ATTTAGAATATTAT
1 ATTTAGGATATTAT
7181397 ATTATTTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
73 29 0.38
74 26 0.34
75 7 0.09
76 15 0.19
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (75 bp):
ATTTAGGATATTATTTTAAATATTATATTCTATCTTTATATTTTAGTTTAAATAGGTTTTAGTAT
TTTAATTAAG
Found at i:7181382 original size:19 final size:19
Alignment explanation
Indices: 7181354--7181416 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
7181344 TATATTTTAG
*
7181354 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
7181373 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
7181392 ATTATATTATTTTTTAGGTAT
1 TTTA-ATTAGGTTTTA-GTAT
7181413 TTTA
1 TTTA
7181417 GTTTAAATAG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 8 0.24
21 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:7181429 original size:73 final size:74
Alignment explanation
Indices: 7181264--7181416 Score: 186
Period size: 73 Copynumber: 2.1 Consensus size: 74
7181254 TATTATATTT
* * * * * *
7181264 TATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTACTTAAGTTTTAGGATATTATTTTTA
1 TATCTTTATATTATAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTATTATTA
*
7181329 TATTTTATC
66 TATTTTAGC
* *
7181338 TATCTTTATATTTTAGTTTAAATAGG-TTTTAGTATTTTAATTAGGATTTAGAATATTA-TATTA
1 TATCTTTATATTATAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTATTATTA
* *
7181401 TTTTTTAGG
66 TATTTTAGC
7181410 TAT-TTTA
1 TATCTTTA
7181417 GTTTAAATAG
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
71 4 0.06
72 13 0.19
73 28 0.40
74 25 0.36
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (74 bp):
TATCTTTATATTATAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTATTATTA
TATTTTAGC
Found at i:7182069 original size:21 final size:22
Alignment explanation
Indices: 7182044--7182084 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7182034 CTTTAATTTG
7182044 TTTATTTAATTATT-TTTTTCT
1 TTTATTTAATTATTATTTTTCT
*
7182065 TTTATTTAATTCTTATTTTT
1 TTTATTTAATTATTATTTTT
7182085 TATTTTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTAATTATTATTTTTCT
Found at i:7183187 original size:13 final size:13
Alignment explanation
Indices: 7183171--7183231 Score: 88
Period size: 13 Copynumber: 4.7 Consensus size: 13
7183161 CGCAATGAGC
7183171 GTCATAAATGCGT
1 GTCATAAATGCGT
7183184 GTCATAAATGC-T
1 GTCATAAATGCGT
7183196 CGTCATAAATGCGT
1 -GTCATAAATGCGT
*
7183210 GTCATAAATGCGC
1 GTCATAAATGCGT
*
7183223 ATCATAAAT
1 GTCATAAAT
7183232 TTATGACGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
12 1 0.02
13 42 0.95
14 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (13 bp):
GTCATAAATGCGT
Found at i:7183193 original size:26 final size:26
Alignment explanation
Indices: 7183164--7183231 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
7183154 AATGATGCGC
*
7183164 AATGAGCGTCATAAATGCGTGTCATA
1 AATGCGCGTCATAAATGCGTGTCATA
*
7183190 AATGCTCGTCATAAATGCGTGTCATA
1 AATGCGCGTCATAAATGCGTGTCATA
*
7183216 AATGCGCATCATAAAT
1 AATGCGCGTCATAAAT
7183232 TTATGACGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (26 bp):
AATGCGCGTCATAAATGCGTGTCATA
Found at i:7183942 original size:30 final size:30
Alignment explanation
Indices: 7183907--7183964 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7183897 ACATTTATAT
* *
7183907 TTTATCTAAAACTTAAGGGTTAAATTAATA
1 TTTATCTAAAACTTAAGGATCAAATTAATA
**
7183937 TTTATCTAAAGTTTAAGGATCAAATTAA
1 TTTATCTAAAACTTAAGGATCAAATTAA
7183965 AAATTAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (30 bp):
TTTATCTAAAACTTAAGGATCAAATTAATA
Found at i:7184457 original size:80 final size:81
Alignment explanation
Indices: 7184353--7184501 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 81
7184343 GTAGAAAAAT
* * *
7184353 AACATTTTAAGTAGCGCTCAATATTAACATTTTCGGTA-GAAAAAAATAAC-GTTTTAGGTAGTA
1 AACATTTTAAGTAGCGCTCAATATTAACATTTTCGATAGGAAAAAAAT-ACTATTTTAGGTAGCA
7184416 CTTTACCAGAAATGTTA
65 CTTTACCAGAAATGTTA
* *
7184433 AACATTTT-AGATAGTGCTCAATATTAATATTTTCGATAGGAAAAAAATACTATTTTAGGTAGCA
1 AACATTTTAAG-TAGCGCTCAATATTAACATTTTCGATAGGAAAAAAATACTATTTTAGGTAGCA
7184497 CTTTA
65 CTTTA
7184502 TTCAAAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
79 2 0.03
80 34 0.56
81 25 0.41
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (81 bp):
AACATTTTAAGTAGCGCTCAATATTAACATTTTCGATAGGAAAAAAATACTATTTTAGGTAGCAC
TTTACCAGAAATGTTA
Found at i:7185911 original size:20 final size:20
Alignment explanation
Indices: 7185883--7185924 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7185873 TCGATATTGG
*
7185883 TACTGACCCCTGAGTATCGA
1 TACTCACCCCTGAGTATCGA
* *
7185903 TACTCACCCTTTAGTATCGA
1 TACTCACCCCTGAGTATCGA
7185923 TA
1 TA
7185925 TTGAAACAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (20 bp):
TACTCACCCCTGAGTATCGA
Found at i:7186189 original size:21 final size:21
Alignment explanation
Indices: 7186165--7186223 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
7186155 ACATATATTT
* **
7186165 AGTATCGATACTTTACCCCTG
1 AGTATTGATACTGCACCCCTG
7186186 AGTATTGATACTGCACCCCTG
1 AGTATTGATACTGCACCCCTG
7186207 AGTATTGATACTGCACC
1 AGTATTGATACTGCACC
7186224 TATAGTATCG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (21 bp):
AGTATTGATACTGCACCCCTG
Found at i:7186236 original size:20 final size:21
Alignment explanation
Indices: 7186165--7186237 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
7186155 ACATATATTT
* ** *
7186165 AGTATCGATACTTTACCCCTG
1 AGTATTGATACTGCACCCATG
*
7186186 AGTATTGATACTGCACCCCTG
1 AGTATTGATACTGCACCCATG
*
7186207 AGTATTGATACTGCACCTAT-
1 AGTATTGATACTGCACCCATG
*
7186227 AGTATCGATAC
1 AGTATTGATAC
7186238 CCAATGAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 10 0.22
21 36 0.78
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (21 bp):
AGTATTGATACTGCACCCATG
Found at i:7187046 original size:16 final size:16
Alignment explanation
Indices: 7187025--7187078 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
7187015 GGGATGGAAT
*
7187025 TTGAGAGAGTTGAGAG
1 TTGAGAGAGATGAGAG
7187041 TTGAGAGAGATGAGAG
1 TTGAGAGAGATGAGAG
*
7187057 TTAAGAGAGATGAGAG
1 TTGAGAGAGATGAGAG
7187073 TTGAGA
1 TTGAGA
7187079 AAATAAAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (16 bp):
TTGAGAGAGATGAGAG
Found at i:7187694 original size:17 final size:17
Alignment explanation
Indices: 7187672--7187711 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
7187662 CCAACCGCAC
7187672 AGGGCCCAATTTTTGTA
1 AGGGCCCAATTTTTGTA
7187689 AGGGCCCAATTTTTGTA
1 AGGGCCCAATTTTTGTA
7187706 AGGGCC
1 AGGGCC
7187712 TCTAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (17 bp):
AGGGCCCAATTTTTGTA
Found at i:7196052 original size:16 final size:17
Alignment explanation
Indices: 7196031--7196066 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7196021 TAAAGAAACG
7196031 AAAAGA-AAAAAAAAAT
1 AAAAGACAAAAAAAAAT
*
7196047 AAAAGACATAAAAAAAT
1 AAAAGACAAAAAAAAAT
7196064 AAA
1 AAA
7196067 GTCCATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.08
Consensus pattern (17 bp):
AAAAGACAAAAAAAAAT
Found at i:7196260 original size:2 final size:2
Alignment explanation
Indices: 7196255--7196283 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7196245 AAAATAGTAA
7196255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7196284 AATTAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7197550 original size:33 final size:34
Alignment explanation
Indices: 7197480--7197562 Score: 150
Period size: 34 Copynumber: 2.5 Consensus size: 34
7197470 CGAGGGTTTG
*
7197480 GTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
7197514 GTGTTTCAAGAGAAACAATTTCAAAGG-TTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
7197547 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
7197563 TGTATTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 22 0.46
34 26 0.54
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (34 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:7197571 original size:34 final size:33
Alignment explanation
Indices: 7197480--7197573 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 33
7197470 CGAGGGTTTG
7197480 GTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTT
1 GTGTTTCAAGAGAAAC-TTTTCAAAGGTTTTTTT
*
7197514 GTGTTTCAAGAGAAACAATTTCAAAGG-TTTTTT
1 GTGTTTCAAGAGAAAC-TTTTCAAAGGTTTTTTT
7197547 GTGTTTCAAGAGAAACTGTATTCAAAG
1 GTGTTTCAAGAGAAACT-T-TTCAAAG
7197574 ATTGAAGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
33 23 0.41
34 33 0.59
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (33 bp):
GTGTTTCAAGAGAAACTTTTCAAAGGTTTTTTT
Found at i:7197641 original size:36 final size:36
Alignment explanation
Indices: 7197580--7197678 Score: 94
Period size: 36 Copynumber: 2.8 Consensus size: 36
7197570 AAAGATTGAA
* * * *
7197580 GTTTCAAGGGAAACTGTCTTAAGAGAGGCAAAATTT
1 GTTTAAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* **
7197616 GTTTAAAGAGAAATTGTCTCAAGAGAGACAAAAACT
1 GTTTAAAGAGAAACTGTCTCAAGAGAGACAAAATTT
** *
7197652 -TCCAAA-AGAAACTGTCTCAAGGGAGAC
1 GTTTAAAGAGAAACTGTCTCAAGAGAGAC
7197679 GAGATTGTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
34 19 0.37
35 4 0.08
36 29 0.56
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (36 bp):
GTTTAAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:7197750 original size:30 final size:30
Alignment explanation
Indices: 7197702--7197758 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7197692 GTAAAACATA
*
7197702 TTCAAAGATTTTGTTTCAA-AGGAAACTATT
1 TTCAAAGATTTTGCTTCAAGA-GAAACTATT
7197732 TTCAAAG-TTTATGCTTCAAGAGAAACT
1 TTCAAAGATTT-TGCTTCAAGAGAAACT
7197759 GTCTCAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 20 0.83
31 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (30 bp):
TTCAAAGATTTTGCTTCAAGAGAAACTATT
Found at i:7197793 original size:36 final size:36
Alignment explanation
Indices: 7197746--7197828 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
7197736 AAGTTTATGC
* * * **
7197746 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
* *
7197782 TTCAAGGGAAACTATCTCATGAGTGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
*
7197818 TTAAAGGGAAA
1 TTCAAGGGAAA
7197829 TGGTTTCAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.25
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
Found at i:7198075 original size:65 final size:65
Alignment explanation
Indices: 7197999--7198120 Score: 158
Period size: 65 Copynumber: 1.9 Consensus size: 65
7197989 ACGAACTTTG
* *
7197999 TTTCAAGGGAAACAG-ATTCAAAGATT-TTGTTTCAAGAGAAACTATCTTAAGAGAGACAAAATT
1 TTTCAAGGGAAA-AGTATTCAAAG-TTCATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
7198062 AA
64 AA
* * * *
7198064 TTTCAAGGGAAATGTTTTCAATGTTCATGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTTCAAGGGAAAAGTATTCAAAGTTCATGTTTCAAGAGAAACTATCTCAAGAGAGAC
7198121 GAAACTTAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
64 3 0.06
65 46 0.94
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (65 bp):
TTTCAAGGGAAAAGTATTCAAAGTTCATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTAA
Found at i:7198103 original size:167 final size:159
Alignment explanation
Indices: 7197901--7198205 Score: 441
Period size: 167 Copynumber: 1.9 Consensus size: 159
7197891 GAACCTATTG
* * *
7197901 AAGGGACATGTTTTTAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGTTC
1 AAGGGAAATGTTTTCAATGTTCATGTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGTTC
*
7197966 CAAAAGAAAATGTCTCAAGGGAGAC-GAACTTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTT
66 CAAAAGAAAAAGTCTCAAGGGAGACGGAA-TTTGTTTCAA---AAA-AGA--CAAA-A-TTTGTT
*
7198030 TCAAGAGAAACTATCTTAAGAGAGACAAAATTAATTTC
122 TCAAGAGAAACAATCTTAAGAGAGACAAAATTAATTTC
* * *
7198068 AAGGGAAATGTTTTCAATGTTCATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAACTTAGTTC
1 AAGGGAAATGTTTTCAATGTTCATGTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGTTC
*
7198133 TAAAAGAAAAAGTCTCAAGGGAGACGGAATTTGTTTCAAAAAAGACAAAATTTGTTTCAAGAGAA
66 CAAAAGAAAAAGTCTCAAGGGAGACGGAATTTGTTTCAAAAAAGACAAAATTTGTTTCAAGAGAA
7198198 ACAATCTT
131 ACAATCTT
7198206 GACTGAAATA
Statistics
Matches: 128, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
159 22 0.17
160 1 0.01
161 4 0.03
163 3 0.02
164 3 0.02
167 92 0.72
168 3 0.02
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (159 bp):
AAGGGAAATGTTTTCAATGTTCATGTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGTTC
CAAAAGAAAAAGTCTCAAGGGAGACGGAATTTGTTTCAAAAAAGACAAAATTTGTTTCAAGAGAA
ACAATCTTAAGAGAGACAAAATTAATTTC
Found at i:7198427 original size:72 final size:71
Alignment explanation
Indices: 7198175--7198419 Score: 271
Period size: 72 Copynumber: 3.4 Consensus size: 71
7198165 GTTTCAAAAA
* * * * * *
7198175 AGACAAAATTTGTTTCAAGAGAAACAATCTTGACTGAAATAAATCTTCTTTTGAGTGAAAAC-GA
1 AGACAAAGTATGTTTTAAGA-AAAAAATCTTGAGTGAAATAAATCTTCTTTCGAGT-AAAACAG-
* *
7198239 TCCCAAGAG
63 TCTCAAGTG
* *
7198248 AGACAAA-TATGGTTTTAAGAAAATAATCTTGAGTGGAATAAATCTTCTTTCGAGTAAAACAGTC
1 AGACAAAGTAT-GTTTTAAGAAAAAAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTC
*
7198312 TCAGGTG
65 TCAAGTG
* * *
7198319 AGACAAAGTCTGTTTTAA-ACAAAGAAAACTTGAGTGAAATAAATATTCTTTCGAGTAAAACAGT
1 AGACAAAGTATGTTTTAAGA-AAA-AAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGT
7198383 CTCAAGTG
64 CTCAAGTG
*
7198391 AGACAAAGTATGCTTTAAGAAAAACAATC
1 AGACAAAGTATGTTTTAAGAAAAA-AATC
7198420 ACAAGTGAGA
Statistics
Matches: 147, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
70 1 0.01
71 29 0.20
72 101 0.69
73 16 0.11
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (71 bp):
AGACAAAGTATGTTTTAAGAAAAAAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCT
CAAGTG
Found at i:7198734 original size:12 final size:12
Alignment explanation
Indices: 7198717--7198742 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7198707 TGCGTCATGT
7198717 ATGTATATGTTG
1 ATGTATATGTTG
7198729 ATGTATATGTTG
1 ATGTATATGTTG
7198741 AT
1 AT
7198743 ATGTGAGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (12 bp):
ATGTATATGTTG
Found at i:7199906 original size:195 final size:195
Alignment explanation
Indices: 7199574--7199939 Score: 633
Period size: 195 Copynumber: 1.9 Consensus size: 195
7199564 ATCAGGTTTA
* * *
7199574 ACTGAAGAGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACTGAATT
1 ACTGAAGAGTTCATCTCATCACAAAGTCTTTGGCATGACAAAAGCAATGGAGCAAACACCGAATT
*
7199639 GCCAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCAAGTT
66 GCCAAGTGTCCAAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCAAGTT
*
7199704 TCCTCTATAACTAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAACTTAGTATTATAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAACTTAGTATTATAATC
* * *
7199769 ACTGAAGGGTTCGTCTCATCATAAAGTCTTTGGCATGACAAAAGCAATGGAGCAAACACCGAATT
1 ACTGAAGAGTTCATCTCATCACAAAGTCTTTGGCATGACAAAAGCAATGGAGCAAACACCGAATT
* * *
7199834 TCCAAGTGTCCAAGCAATGTCATGGTTTGAATGTAATTTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCAAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCAAGTT
7199899 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
7199940 TGGATTTAAT
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
195 160 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (195 bp):
ACTGAAGAGTTCATCTCATCACAAAGTCTTTGGCATGACAAAAGCAATGGAGCAAACACCGAATT
GCCAAGTGTCCAAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCAAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAACTTAGTATTATAATC
Found at i:7203994 original size:27 final size:30
Alignment explanation
Indices: 7203956--7204024 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
7203946 CATAAAAGAA
7203956 AATGAAATAAATAA-A-ATAC-TAGAAAAT
1 AATGAAATAAATAATATATACATAGAAAAT
*
7203983 AATGTAAA-AAATAATATATACATAGTAAAT
1 AATG-AAATAAATAATATATACATAGAAAAT
7204013 AAAT-AAATAAAT
1 -AATGAAATAAAT
7204025 GCAAGAGGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 10 0.29
28 4 0.11
29 7 0.20
30 11 0.31
31 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (30 bp):
AATGAAATAAATAATATATACATAGAAAAT
Found at i:7204086 original size:25 final size:24
Alignment explanation
Indices: 7204056--7204120 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 24
7204046 ATAAAATTAA
7204056 ATAAATAAAATAGATATGATATG-AT
1 ATAAATAAAATAGATA--ATATGTAT
*
7204081 ATAAATGAAAT-GATAATATGTAT
1 ATAAATAAAATAGATAATATGTAT
* *
7204104 ATATATAAAATAAATAA
1 ATAAATAAAATAGATAA
7204121 AAACATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.15
23 11 0.32
24 8 0.24
25 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (24 bp):
ATAAATAAAATAGATAATATGTAT
Found at i:7205927 original size:44 final size:44
Alignment explanation
Indices: 7205864--7205951 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
7205854 TTGGCACCAA
* *
7205864 AATGAATTATAACAAGACCATTCAGCCAAGGGAGATGTTCATCC
1 AATGAATCATAACAAGACCATTCAGCCAAGGGAGATATTCATCC
* **
7205908 AATGAATCATGACAAGACCATTTGGCCAAGGGAGATATTCATCC
1 AATGAATCATAACAAGACCATTCAGCCAAGGGAGATATTCATCC
7205952 CTTCTAGCTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (44 bp):
AATGAATCATAACAAGACCATTCAGCCAAGGGAGATATTCATCC
Found at i:7206801 original size:17 final size:18
Alignment explanation
Indices: 7206762--7206802 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
7206752 TCAAAACAAA
7206762 AAAGAAAAGCACAAAAAG
1 AAAGAAAAGCACAAAAAG
* *
7206780 -TAGAAAATC-CAAAAAG
1 AAAGAAAAGCACAAAAAG
7206796 AAAGAAA
1 AAAGAAA
7206803 TTTCCAGCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAGAAAAGCACAAAAAG
Found at i:7214358 original size:4 final size:4
Alignment explanation
Indices: 7214349--7214375 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7214339 TCTATACTAC
7214349 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
7214376 GAGAATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:7217096 original size:5 final size:5
Alignment explanation
Indices: 7217075--7217142 Score: 88
Period size: 5 Copynumber: 14.0 Consensus size: 5
7217065 GAGGTAACCC
7217075 ATTTT ATTATT -TTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT
1 ATTTT ATT-TT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
* *
7217124 ATGTT ATTGT A-TTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT
7217143 TCTTTATGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
4 9 0.16
5 44 0.80
6 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:7217148 original size:10 final size:9
Alignment explanation
Indices: 7217076--7217155 Score: 70
Period size: 10 Copynumber: 8.2 Consensus size: 9
7217066 AGGTAACCCA
7217076 TTTTATTATT
1 TTTTATT-TT
7217086 TTTTATTTT
1 TTTTATTTT
7217095 ATTTTATTTT
1 -TTTTATTTT
7217105 ATTTTATTTT
1 -TTTTATTTT
*
7217115 ATTTATTTT
1 TTTTATTTT
* *
7217124 ATGTTATTGT
1 -TTTTATTTT
*
7217134 ATTTATTTT
1 TTTTATTTT
7217143 TCTTTATGTTT
1 T-TTTAT-TTT
7217154 TT
1 TT
7217156 ATGTACACCA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
9 16 0.28
10 38 0.66
11 4 0.07
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.78
Consensus pattern (9 bp):
TTTTATTTT
Found at i:7217148 original size:24 final size:24
Alignment explanation
Indices: 7217086--7217152 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
7217076 TTTTATTATT
* *
7217086 TTTTATTTTATTTTATTTTATTTTA
1 TTTTATTTT-TTTTATGTTATTGTA
*
7217111 TTTTATTTATTTTATGTTATTGTA
1 TTTTATTTTTTTTATGTTATTGTA
7217135 -TTTATTTTTCTTTATGTT
1 TTTTATTTTT-TTTATGTT
7217153 TTTATGTACA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 8 0.22
24 21 0.57
25 8 0.22
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTATTTTTTTTATGTTATTGTA
Found at i:7217149 original size:19 final size:19
Alignment explanation
Indices: 7217077--7217142 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
7217067 GGTAACCCAT
7217077 TTTATTATT-TTTTATTTTA
1 TTTATT-TTATTTTATTTTA
7217096 TTTTATTTTATTTTATTTTA
1 -TTTATTTTATTTTATTTTA
* *
7217116 TTTATTTTATGTTATTGTA
1 TTTATTTTATTTTATTTTA
7217135 TTTATTTT
1 TTTATTTT
7217143 TCTTTATGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
19 27 0.63
20 16 0.37
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (19 bp):
TTTATTTTATTTTATTTTA
Found at i:7217507 original size:13 final size:13
Alignment explanation
Indices: 7217489--7217516 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7217479 TTGACTTGAG
7217489 TTGATGAAAGAAT
1 TTGATGAAAGAAT
7217502 TTGATGAAAGAAT
1 TTGATGAAAGAAT
7217515 TT
1 TT
7217517 AACCTCATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (13 bp):
TTGATGAAAGAAT
Found at i:7221517 original size:22 final size:20
Alignment explanation
Indices: 7221490--7221545 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
7221480 GATACTTAAG
7221490 AAAGTATCAATAC-CACATACCT
1 AAAGTATCAATACTCA-A-A-CT
* *
7221512 AGAGTATCGATACTCAAACT
1 AAAGTATCAATACTCAAACT
7221532 AAAGTATCAATACT
1 AAAGTATCAATACT
7221546 ATCCTTTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 14 0.48
21 1 0.03
22 12 0.41
23 2 0.07
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (20 bp):
AAAGTATCAATACTCAAACT
Found at i:7224676 original size:15 final size:15
Alignment explanation
Indices: 7224652--7224685 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7224642 CATTGCTCAT
* *
7224652 ATATGTTATTATATG
1 ATATGATATTATATC
7224667 ATATGATATTATATC
1 ATATGATATTATATC
7224682 ATAT
1 ATAT
7224686 ATAGGATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (15 bp):
ATATGATATTATATC
Found at i:7225229 original size:34 final size:34
Alignment explanation
Indices: 7225180--7225275 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 34
7225170 ATTCATTGTG
* *
7225180 AAAGGACATGATGCTTCATCAAAGGGACACTACT
1 AAAGGTCATGTTGCTTCATCAAAGGGACACTACT
* * ** *
7225214 AAAGGTCATGTTGCTTCACCAAAGGATGCCTTTTCT
1 AAAGGTCATGTTGCTTCATCAAAGG--GACACTACT
*
7225250 AAAAGTCATGTTGCTTCATCAAAGGG
1 AAAGGTCATGTTGCTTCATCAAAGGG
7225276 TGTCTCCAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
34 23 0.45
36 28 0.55
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (34 bp):
AAAGGTCATGTTGCTTCATCAAAGGGACACTACT
Found at i:7225325 original size:33 final size:34
Alignment explanation
Indices: 7225264--7225390 Score: 123
Period size: 35 Copynumber: 3.7 Consensus size: 34
7225254 GTCATGTTGC
* * *
7225264 TTCAT-CAAAGGGTGTCTCCAAAAATCATATCTT
1 TTCATCCAAAAGGTGCCTCCAAAAGTCATATCTT
*
7225297 TTCA-CCAAAAGGTGCCTCTAAAAGTCATATCTT
1 TTCATCCAAAAGGTGCCTCCAAAAGTCATATCTT
** * *
7225330 TTCACTCCAAAATATGCCTCCAAAAGACATATATT
1 TTCA-TCCAAAAGGTGCCTCCAAAAGTCATATCTT
* * *
7225365 TCCATCTCAAAAGGTGCTTTCAAAAG
1 TTCATC-CAAAAGGTGCCTCCAAAAG
7225391 GTCACAATAT
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
33 32 0.42
34 2 0.03
35 42 0.55
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (34 bp):
TTCATCCAAAAGGTGCCTCCAAAAGTCATATCTT
Found at i:7226791 original size:15 final size:15
Alignment explanation
Indices: 7226773--7226811 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
7226763 GGATTTAGAG
7226773 TTTTAGGATTTTGGA
1 TTTTAGGATTTTGGA
*
7226788 TTTTAGG-GTTTGGA
1 TTTTAGGATTTTGGA
*
7226802 ATTTAGGATT
1 TTTTAGGATT
7226812 GAGGTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (15 bp):
TTTTAGGATTTTGGA
Found at i:7232762 original size:13 final size:13
Alignment explanation
Indices: 7232746--7232793 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 13
7232736 CCCCATGCGA
*
7232746 GGTGGCCATACGG
1 GGTGGACATACGG
7232759 GGT-GACATAC-G
1 GGTGGACATACGG
*
7232770 GGTTGACATACGG
1 GGTGGACATACGG
7232783 GGT-GACATACG
1 GGTGGACATACG
7232794 AGCCATACGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 4 0.12
12 21 0.66
13 7 0.22
ACGTcount: A:0.23, C:0.19, G:0.40, T:0.19
Consensus pattern (13 bp):
GGTGGACATACGG
Found at i:7232769 original size:12 final size:12
Alignment explanation
Indices: 7232752--7232793 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
7232742 GCGAGGTGGC
7232752 CATACGGGGTGA
1 CATACGGGGTGA
*
7232764 CATACGGGTTGA
1 CATACGGGGTGA
7232776 CATACGGGGTGA
1 CATACGGGGTGA
7232788 CATACG
1 CATACG
7232794 AGCCATACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.26, C:0.19, G:0.36, T:0.19
Consensus pattern (12 bp):
CATACGGGGTGA
Found at i:7232828 original size:35 final size:35
Alignment explanation
Indices: 7232788--7232875 Score: 167
Period size: 35 Copynumber: 2.5 Consensus size: 35
7232778 TACGGGGTGA
7232788 CATACGAGCCATACGAGCCAATGGTTCTCCCCATG
1 CATACGAGCCATACGAGCCAATGGTTCTCCCCATG
7232823 CATACGAGCCATACGAGCCAATGGTTCTCCCCATG
1 CATACGAGCCATACGAGCCAATGGTTCTCCCCATG
*
7232858 CATAGGAGCCATACGAGC
1 CATACGAGCCATACGAGC
7232876 GTTCTCCCCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.27, C:0.33, G:0.22, T:0.18
Consensus pattern (35 bp):
CATACGAGCCATACGAGCCAATGGTTCTCCCCATG
Found at i:7232902 original size:35 final size:35
Alignment explanation
Indices: 7232858--7232926 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
7232848 TCTCCCCATG
*
7232858 CATAGGAGCCATACGAGCGTTCTCCCCATGCGAGC
1 CATACGAGCCATACGAGCGTTCTCCCCATGCGAGC
7232893 CATACGAGCCATACGAGCGTTCTCCCCATGCGAG
1 CATACGAGCCATACGAGCGTTCTCCCCATGCGAG
7232927 GTGGCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (35 bp):
CATACGAGCCATACGAGCGTTCTCCCCATGCGAGC
Found at i:7232999 original size:29 final size:29
Alignment explanation
Indices: 7232949--7233083 Score: 218
Period size: 29 Copynumber: 4.7 Consensus size: 29
7232939 TGGAATAGAG
* *
7232949 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
*
7232978 AGGTCGCCATGTGGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
*
7233007 AGGTCGCCATGTGGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
7233036 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
7233065 AGGTCGCCATGTAGTCCCG
1 AGGTCGCCATGTAGTCCCG
7233084 ACGCCATTCC
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 99 0.98
30 2 0.02
ACGTcount: A:0.13, C:0.31, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:7233105 original size:13 final size:13
Alignment explanation
Indices: 7233087--7233118 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
7233077 AGTCCCGACG
7233087 CCATTCCCATCAT
1 CCATTCCCATCAT
7233100 CCATTCCCATCAT
1 CCATTCCCATCAT
7233113 CCATTC
1 CCATTC
7233119 ACATGCAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.22, C:0.47, G:0.00, T:0.31
Consensus pattern (13 bp):
CCATTCCCATCAT
Found at i:7233319 original size:25 final size:25
Alignment explanation
Indices: 7233290--7233348 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
7233280 TGTACAATTA
7233290 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTGAGGCAGCCGG
7233315 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTGAGGCAGCCGG
7233340 TTGGT-AAAT
1 TTGGTGAAAT
7233349 TAGTTAGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.29, C:0.10, G:0.34, T:0.27
Consensus pattern (25 bp):
TTGGTGAAATAATTGAGGCAGCCGG
Found at i:7234206 original size:17 final size:17
Alignment explanation
Indices: 7234184--7234216 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7234174 CAATGATTTT
*
7234184 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
7234201 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
7234217 AATATTTAGT
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:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:7234233 original size:24 final size:22
Alignment explanation
Indices: 7234201--7234269 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
7234191 AAATCATTAC
7234201 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
7234223 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
7234248 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
7234270 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:7234455 original size:12 final size:13
Alignment explanation
Indices: 7234418--7235421 Score: 382
Period size: 12 Copynumber: 72.8 Consensus size: 13
7234408 AAATAATAAC
*
7234418 TAAATAATTATTA
1 TAAATCATTATTA
7234431 TAAAATCATTATTA
1 T-AAATCATTATTA
*
7234445 T-AATGATTATTA
1 TAAATCATTATTA
7234457 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
*
7234476 TCAAATCATTAAATATT
1 T-AAATCATT--AT-TA
7234493 TAAATCATTA-T-
1 TAAATCATTATTA
*
7234504 TAAATCATTTTTA
1 TAAATCATTATTA
*
7234517 T-AATGATTATTA
1 TAAATCATTATTA
7234529 CTAAATCATTATTA
1 -TAAATCATTATTA
*
7234543 T-AATGATTATTA
1 TAAATCATTATTA
*
7234555 TCAAATCATTACTA
1 T-AAATCATTATTA
*
7234569 T-AATGATTATTA
1 TAAATCATTATTA
7234581 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
*
7234600 TCAAATCATTAAATATT
1 T-AAATCATT--AT-TA
7234617 TAAATCATTA-T-
1 TAAATCATTATTA
7234628 TAAATCATTATTA
1 TAAATCATTATTA
*
7234641 TCAAATCATTACTA
1 T-AAATCATTATTA
*
7234655 T-AATGATTATTA
1 TAAATCATTATTA
7234667 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
*
7234686 TCAAATCATTAAATATT
1 T-AAATCATT--AT-TA
7234703 TAAATCATTA-T-
1 TAAATCATTATTA
*
7234714 TAAATAAATT-TTA
1 TAAAT-CATTATTA
* *
7234727 T-AATGATTATTTC
1 TAAATCATTA-TTA
7234740 TAAATCATTATTA
1 TAAATCATTATTA
*
7234753 T-AATGATTATTA
1 TAAATCATTATTA
*
7234765 TCAAATCATTACTA
1 T-AAATCATTATTA
*
7234779 T-AATGATTATTA
1 TAAATCATTATTA
7234791 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
7234810 TCAAATCATTAAAAATT-
1 T-AAATCATT----ATTA
7234827 TAAATCATTA-T-
1 TAAATCATTATTA
*
7234838 TAAATCATTTTTA
1 TAAATCATTATTA
*
7234851 T-AATGATTATTA
1 TAAATCATTATTA
7234863 CTAAATCATTATTA
1 -TAAATCATTATTA
*
7234877 T-AATGATTATTA
1 TAAATCATTATTA
*
7234889 TCAAATCATTACTA
1 T-AAATCATTATTA
*
7234903 T-AATGATTATTA
1 TAAATCATTATTA
7234915 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
*
7234934 TCAAATCATTAAATATT
1 T-AAATCATT--AT-TA
7234951 TAAATCATTA-T-
1 TAAATCATTATTA
*
7234962 TAAATCATTTTTA
1 TAAATCATTATTA
*
7234975 T-AATGATTATTA
1 TAAATCATTATTA
*
7234987 CTAAATCATTAATA
1 -TAAATCATTATTA
*
7235001 T-AATGATTATTA
1 TAAATCATTATTA
*
7235013 TCAAATCATTACTA
1 T-AAATCATTATTA
*
7235027 T-AATGATTATTA
1 TAAATCATTATTA
7235039 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
*
7235058 TCAAATCATTAAATATT
1 T-AAATCATT--AT-TA
7235075 TAAATCATTA-T-
1 TAAATCATTATTA
*
7235086 TAAATCATTTTTA
1 TAAATCATTATTA
*
7235099 T-AATGATTATTA
1 TAAATCATTATTA
7235111 CTAAATCATTATTA
1 -TAAATCATTATTA
*
7235125 T-AATGATTATTA
1 TAAATCATTATTA
*
7235137 TCAAATCATTACTA
1 T-AAATCATTATTA
*
7235151 T-AATGATTATTA
1 TAAATCATTATTA
7235163 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
7235182 TCAAATCATTAAAAATT-
1 T-AAATCATT----ATTA
7235199 TAAATCATTA-T-
1 TAAATCATTATTA
*
7235210 TAAATCATTTTTA
1 TAAATCATTATTA
*
7235223 T-AATGATTATTA
1 TAAATCATTATTA
7235235 CTAAATCATTATTA
1 -TAAATCATTATTA
*
7235249 T-AATGATTATTA
1 TAAATCATTATTA
*
7235261 TCAAATCATTACTA
1 T-AAATCATTATTA
*
7235275 T-AATGATTATTA
1 TAAATCATTATTA
7235287 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
*
7235306 TCAAATCATTAAATATT
1 T-AAATCATT--AT-TA
7235323 TAAATCATTA-T-
1 TAAATCATTATTA
* *
7235334 TAAATTATTTTTA
1 TAAATCATTATTA
*
7235347 T-AATGATTATTA
1 TAAATCATTATTA
7235359 CTAAATCATTATTA
1 -TAAATCATTATTA
*
7235373 T-AATGATTATTA
1 TAAATCATTATTA
*
7235385 TCAAATCATTACTA
1 T-AAATCATTATTA
*
7235399 T-AATGATTATTA
1 TAAATCATTATTA
7235411 TCAAATCATTA
1 T-AAATCATTA
7235422 CTAAATCATC
Statistics
Matches: 778, Mismatches: 87, Indels: 251
0.70 0.08 0.22
Matches are distributed among these distances:
11 73 0.09
12 243 0.31
13 27 0.03
14 229 0.29
15 8 0.01
16 64 0.08
17 8 0.01
18 20 0.03
19 90 0.12
20 6 0.01
21 6 0.01
22 2 0.00
23 2 0.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (13 bp):
TAAATCATTATTA
Found at i:7234571 original size:124 final size:125
Alignment explanation
Indices: 7234416--7235479 Score: 1171
Period size: 124 Copynumber: 8.7 Consensus size: 125
7234406 CTAAATAATA
* * * * * *
7234416 ACTA-AATAATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAA
1 ACTATAATGATTATTATCAAATCATTACTA-AATCATAATCATCAAATCATTA-TAAATCAT-AA
* *
7234480 ATCATTAAAT-A-TTTA-AATCATTA-T-TAAATCATTTTTATAATGATTATTA-CTAAATCATT
63 AT-ATTAAATCATTTTATAATGATTATTATAAATCATTATTATAATGATTATTATC-AAATCATT
* * * *
7234539 ATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCA-T-T--A-C-TAAAT
1 ACTATAATGATTATTATCAAATCATTACTA-AATCATAATCATCAAATCATTATAAATCATAAAT
* *
7234598 CATCAAATCA---T-TAA--A-TATT-TAAATCATTATTA-AATCATTATTATCAAATCATT
65 -ATTAAATCATTTTATAATGATTATTATAAATCATTATTATAATGATTATTATCAAATCATT
*
7234651 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAAT-ATT-TAAATCAT---
1 ACTATAATGATTATTATCAAATCATTACTAAATCAT--AATCATCAAATCATTATAAATCATAAA
* *
7234711 TATTAAATAAATTTTATAATGATTATTTCTAAATCATTATTATAATGATTATTATCAAATCATT
64 TATTAAAT-CATTTTATAATGATTA-TTATAAATCATTATTATAATGATTATTATCAAATCATT
* *
7234775 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA-AATT-TAAATCAT---
1 ACTATAATGATTATTATCAAATCATTACTAAATCAT--AATCATCAAATCATTATAAATCATAAA
7234835 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
64 TATTAAATCA-TTTTATAATGATTATTA-TAAATCATTATTATAATGATTATTATCAAATCATT
*
7234899 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAAT-ATT-TAAATCAT---
1 ACTATAATGATTATTATCAAATCATTACTAAATCAT--AATCATCAAATCATTATAAATCATAAA
*
7234959 TATTAAATCATTTTTATAATGATTATTACTAAATCATTAATATAATGATTATTATCAAATCATT
64 TATTAAATCA-TTTTATAATGATTATTA-TAAATCATTATTATAATGATTATTATCAAATCATT
*
7235023 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAAT-ATT-TAAATCAT---
1 ACTATAATGATTATTATCAAATCATTACTAAATCAT--AATCATCAAATCATTATAAATCATAAA
7235083 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
64 TATTAAATCA-TTTTATAATGATTATTA-TAAATCATTATTATAATGATTATTATCAAATCATT
* *
7235147 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA-AATT-TAAATCAT---
1 ACTATAATGATTATTATCAAATCATTACTAAATCAT--AATCATCAAATCATTATAAATCATAAA
7235207 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
64 TATTAAATCA-TTTTATAATGATTATTA-TAAATCATTATTATAATGATTATTATCAAATCATT
*
7235271 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAAT-ATT-TAAATCAT---
1 ACTATAATGATTATTATCAAATCATTACTAAATCAT--AATCATCAAATCATTATAAATCATAAA
*
7235331 TATTAAATTATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
64 TATTAAATCA-TTTTATAATGATTATTA-TAAATCATTATTATAATGATTATTATCAAATCATT
*
7235395 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAAT-ATT-TAAATCAT---
1 ACTATAATGATTATTATCAAATCATTACTAAATCAT--AATCATCAAATCATTATAAATCATAAA
*
7235455 TATCAAATCATTTTTATAATGATTA
64 TATTAAATCA-TTTTATAATGATTA
7235480 ATAAATACAT
Statistics
Matches: 890, Mismatches: 22, Indels: 57
0.92 0.02 0.06
Matches are distributed among these distances:
111 5 0.01
112 50 0.06
113 31 0.03
114 2 0.00
115 4 0.00
116 12 0.01
117 4 0.00
118 4 0.00
119 1 0.00
120 1 0.00
121 3 0.00
122 2 0.00
123 20 0.02
124 751 0.84
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (125 bp):
ACTATAATGATTATTATCAAATCATTACTAAATCATAATCATCAAATCATTATAAATCATAAATA
TTAAATCATTTTATAATGATTATTATAAATCATTATTATAATGATTATTATCAAATCATT
Found at i:7234671 original size:210 final size:207
Alignment explanation
Indices: 7234418--7235026 Score: 818
Period size: 210 Copynumber: 2.8 Consensus size: 207
7234408 AAATAATAAC
* *
7234418 TAAATAATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
1 TAAATCATTATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
7234483 ATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATG
66 ATTAAATATTTAAATCATTATTAAAT-A-TTTTATAATGATTATT-CTAAATCATTATTATAATG
7234548 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
128 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
*
7234613 TATTTAAATCATTAT
193 AATTTAAATCATTAT
*
7234628 TAAATCATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
1 TAAATCATTATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
7234693 ATTAAATATTTAAATCATTATTAAATAAATTTTATAATGATTATTTCTAAATCATTATTATAATG
66 ATTAAATATTTAAATCATTATTAAAT--ATTTTATAATGATTA-TTCTAAATCATTATTATAATG
7234758 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
128 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
7234823 AATTTAAATCATTAT
193 AATTTAAATCATTAT
7234838 TAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTA
1 TAAATC------AT--T-ATTA-T-C-AAATCATTATTATAATGATTATTATCAAATCATTACTA
* * * * *
7234903 TAATGAT--TATTATCAAATCATTACTAAATCATCAAATCATTAAATA-TTTA-AATCATTA-T-
54 -AATCATCAAATCATTAAAT-ATT--TAAATCAT----T-ATTAAATATTTTATAATGATTATTC
* *
7234962 TAAATCATTTTTATAATGATTATTA-CTAAATCATTAATATAATGATTATTATCAAATCATTACT
110 TAAATCATTATTATAATGATTATTATC-AAATCATTACTATAATGATTATTATCAAATCATTACT
7235026 A
174 A
7235027 TAATGATTAT
Statistics
Matches: 362, Mismatches: 13, Indels: 36
0.88 0.03 0.09
Matches are distributed among these distances:
210 206 0.57
211 3 0.01
216 2 0.01
218 1 0.00
219 4 0.01
220 1 0.00
221 10 0.03
222 101 0.28
223 6 0.02
224 8 0.02
225 7 0.02
226 4 0.01
227 1 0.00
228 1 0.00
229 7 0.02
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (207 bp):
TAAATCATTATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
ATTAAATATTTAAATCATTATTAAATATTTTATAATGATTATTCTAAATCATTATTATAATGATT
ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAAAAT
TTAAATCATTAT
Found at i:7234735 original size:23 final size:23
Alignment explanation
Indices: 7234695--7234764 Score: 63
Period size: 26 Copynumber: 2.9 Consensus size: 23
7234685 ATCAAATCAT
*
7234695 TAAATATTTA-AATCATTATTAAA
1 TAAAT-TTTATAATGATTATTAAA
7234718 TAAATTTTATAATGATTATTTCTAAA
1 TAAATTTTATAATGATTA--T-TAAA
*
7234744 T-CATTATTATAATGATTATTA
1 TAAATT-TTATAATGATTATTA
7234765 TCAAATCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
22 4 0.10
23 14 0.35
24 1 0.03
25 4 0.10
26 17 0.43
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (23 bp):
TAAATTTTATAATGATTATTAAA
Found at i:7234750 original size:86 final size:86
Alignment explanation
Indices: 7234530--7235125 Score: 383
Period size: 86 Copynumber: 6.6 Consensus size: 86
7234520 TGATTATTAC
* *
7234530 TAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTA
1 TAAATCATTATTA-AATAATTATTATCAAATCATTACTATAATCATTATTATCAAATCATTACTA
7234595 AATCATCAAATCATTAAATATT
65 AATCATCAAATCATTAAATATT
* *
7234617 TAAATCATTATTAAATCATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
1 TAAATCATTATTAAATAATTATTATCAAATCATTACTATAATCATTATTATCAAATCATTACTAA
7234682 ATCATCAAATCATTAAATATT
66 ATCATCAAATCATTAAATATT
* * *
7234703 TAAATCATTATTAAATAAATT-TTAT-AATGATTATTTCTA-AATCATTATTAT-AATGATTATT
1 TAAATCATTATTAAAT-AATTATTATCAA--ATCATTACTATAATCATTATTATCAA--ATCATT
* *
7234764 A-TCAAATCATTACTATAATGATT-ATTA-T
61 ACT-AAATCA-T-C-A-AATCATTAAATATT
* * * * * *
7234792 CAAATCATTACTAAATCATCAAATCATTAAAAATTTAAATCATTATTA-AATCATTTTTAT-AAT
1 TAAATCATTA-TTAA--AT--AATTATT----A-TCAAATCATTACTATAATCATTATTATCAA-
* * * * * *
7234855 GATTATTACTAAATCATTATTAT-AATGATTATT
55 -ATCATTACTAAATCATCA-AATCATTAAATATT
* * * *
7234888 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTA
1 -T-AAATCATTATTA-AATAATTATTATCAAATCATTAC----T-AT--AATCATT-ATTA-TCA
* * * * *
7234953 AATCATTATTAAATCATTTTTATAATGATT-ATTA-C
54 AATCATTACTAAATCA---TCA-AATCATTAAATATT
* * *
7234988 TAAATCATTAATATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTA
1 TAAATCATTATTA-AATAATTATTATCAAATCATTACTATAATCATTATTATCAAATCATTACTA
7235053 AATCATCAAATCATTAAATATT
65 AATCATCAAATCATTAAATATT
* * *
7235075 TAAATCATTATTAAATCATTTTTAT-AATGATTATTACTA-AATCATTATTAT
1 TAAATCATTATTAAATAATTATTATCAA--ATCATTACTATAATCATTATTAT
7235126 AATGATTATT
Statistics
Matches: 417, Mismatches: 46, Indels: 93
0.75 0.08 0.17
Matches are distributed among these distances:
85 12 0.03
86 130 0.31
87 57 0.14
88 1 0.00
89 38 0.09
90 11 0.03
91 12 0.03
92 2 0.00
93 7 0.02
94 11 0.03
95 8 0.02
96 3 0.01
97 9 0.02
98 96 0.23
99 4 0.01
100 4 0.01
101 10 0.02
102 2 0.00
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (86 bp):
TAAATCATTATTAAATAATTATTATCAAATCATTACTATAATCATTATTATCAAATCATTACTAA
ATCATCAAATCATTAAATATT
Found at i:7234814 original size:19 final size:18
Alignment explanation
Indices: 7234790--7234845 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
7234780 AATGATTATT
7234790 ATCAAATCATTACTAAATC
1 ATCAAATCATTA-TAAATC
*
7234809 ATCAAATCATTAAAAAT-
1 ATCAAATCATTATAAATC
*
7234826 -TTAAATCATTATTAAATC
1 ATCAAATCATTA-TAAATC
7234844 AT
1 AT
7234846 TTTTATAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 10 0.32
17 4 0.13
18 4 0.13
19 13 0.42
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (18 bp):
ATCAAATCATTATAAATC
Found at i:7235100 original size:372 final size:372
Alignment explanation
Indices: 7234500--7235479 Score: 1631
Period size: 372 Copynumber: 2.7 Consensus size: 372
7234490 ATTTAAATCA
7234500 TTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
1 TTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
7234565 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTA
66 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTA
*
7234630 AATC------AT--T-ATTA-T-C-AAATCATTACTATAATGATTATTATC-AA--A-T-C----
131 AATCATTTTTATAATGATTATTACTAAATCATTAATATAATGATTATTATCAAATCATTACTATA
* *
7234674 ------ATTA-----------CTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATAAA
196 ATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCAT
*
7234722 TTTTATAATGATTATTTCTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATT
261 TTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATT
7234787 ATTATCAAATCATTACTAAATCATCAAATCATTAAAAATTTAAATCA
326 ATTATCAAATCATTACTAAATCATCAAATCATTAAAAATTTAAATCA
7234834 TTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
1 TTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
7234899 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTA
66 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTA
7234964 AATCATTTTTATAATGATTATTACTAAATCATTAATATAATGATTATTATCAAATCATTACTATA
131 AATCATTTTTATAATGATTATTACTAAATCATTAATATAATGATTATTATCAAATCATTACTATA
7235029 ATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCAT
196 ATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCAT
7235094 TTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATT
261 TTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATT
7235159 ATTATCAAATCATTACTAAATCATCAAATCATTAAAAATTTAAATCA
326 ATTATCAAATCATTACTAAATCATCAAATCATTAAAAATTTAAATCA
7235206 TTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
1 TTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
7235271 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTA
66 ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTA
* *
7235336 AATTATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATA
131 AATCATTTTTATAATGATTATTACTAAATCATTAATATAATGATTATTATCAAATCATTACTATA
*
7235401 ATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATCAAATCAT
196 ATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCAT
7235466 TTTTATAATGATTA
261 TTTTATAATGATTA
7235480 ATAAATACAT
Statistics
Matches: 601, Mismatches: 7, Indels: 38
0.93 0.01 0.06
Matches are distributed among these distances:
334 134 0.22
340 2 0.00
342 1 0.00
343 4 0.01
344 1 0.00
345 1 0.00
346 25 0.04
347 2 0.00
349 1 0.00
350 1 0.00
351 1 0.00
361 4 0.01
372 424 0.71
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (372 bp):
TTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
ACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTA
AATCATTTTTATAATGATTATTACTAAATCATTAATATAATGATTATTATCAAATCATTACTATA
ATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCAT
TTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATT
ATTATCAAATCATTACTAAATCATCAAATCATTAAAAATTTAAATCA
Found at i:7235186 original size:19 final size:18
Alignment explanation
Indices: 7235162--7235217 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
7235152 AATGATTATT
7235162 ATCAAATCATTACTAAATC
1 ATCAAATCATTA-TAAATC
*
7235181 ATCAAATCATTAAAAAT-
1 ATCAAATCATTATAAATC
*
7235198 -TTAAATCATTATTAAATC
1 ATCAAATCATTA-TAAATC
7235216 AT
1 AT
7235218 TTTTATAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 10 0.32
17 4 0.13
18 4 0.13
19 13 0.42
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (18 bp):
ATCAAATCATTATAAATC
Found at i:7235384 original size:150 final size:145
Alignment explanation
Indices: 7234416--7235300 Score: 482
Period size: 150 Copynumber: 6.0 Consensus size: 145
7234406 CTAAATAATA
* * * * * *
7234416 ACTA-AATAATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAA
1 ACTATAATGATTATTATCAAATCATTACTATAATCATAATCATCAAATCATTA-TAAATCAT---
* *
7234480 ATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATA
62 ATCATTAAAAATTTAAATCATTATTAAATCATTATTATAATGATTATTA-TAAATCATTATTATA
7234545 ATGATTATTATCAAATCATT
126 ATGATTATTATCAAATCATT
*
7234565 ACTATAATGATTATTATCAAATCATTACTA-AATCATCAAATCATTAAAT-ATT-TAAATCAT-T
1 ACTATAATGATTATTATCAAATCATTACTATAATCAT--AATCATCAAATCATTATAAATCATAT
* * * * *
7234626 -ATT--AAA--T-CATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTA-AAT
64 CATTAAAAATTTAAATCATTATTAAATCATTATTATAATGATTATTAT-AAATCATTATTATAAT
* * * *
7234684 CATCAAATCATTAAAT-ATT
128 GAT--TATTATCAAATCATT
* * * * *
7234703 --TA-AATCATTATTAAAT-AAAT--TT--TATAATGATTAT-TTCTAAATCATTATTATAATGA
1 ACTATAATGATTATT--ATCAAATCATTACTATAATCATAATCATC-AAATCATTA-TA-AATCA
* * * * * * * * * * *
7234759 TTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTA-AATCATCA-AATCATTAA
61 -TATCATTAAA-AATT--TA-AATCATTA-T-T-AAATCATTATTATAATGATTATTATAAATCA
** * *
7234822 AAATT-TAA--ATCATTATTAAATCATT
118 TTATTATAATGATTATTATCAAATCATT
** * * * * *
7234847 TTTATAATGATTATTA-CTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATT
1 ACTATAATGATTATTATC-AAATCATTACTATAATCATAATCATCAAATCATTA-TA-AATCA-T
* * * *
7234911 ATTATCAAATCATTACTAAATCATCAAATCATTAAAT-A-T-TTA-AATCATTA-T-TAAATCAT
62 ATCATTAAA-AATT--TAAATCAT----T-ATTAAATCATTATTATAATGATTATTATAAATCAT
*
7234970 TTTTATAATGATTATTA-CTAAATCATT
119 TATTATAATGATTATTATC-AAATCATT
* * * *
7234997 AATATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAA
1 ACTATAATGATTATTATCAAATCATTACTATAATCATAATCATCAAATCATTA-TAAATCAT---
* *
7235062 ATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATA
62 ATCATTAAAAATTTAAATCATTATTAAATCATTATTATAATGATTATTA-TAAATCATTATTATA
7235127 ATGATTATTATCAAATCATT
126 ATGATTATTATCAAATCATT
* *
7235147 ACTATAATGATTATTATCAAATCATTACTA-AATCATCAAATCATTAAA-AATT-TAAATCAT-T
1 ACTATAATGATTATTATCAAATCATTACTATAATCAT--AATCATCAAATCATTATAAATCATAT
* *
7235208 -ATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
64 CATTAAA--A-ATTTA-AATCATTA-T--TAAATCATTATTATAATGATTATTAT-AAATCATTA
*
7235272 CTATAATGATTATTATCAAATCATT
121 TTATAATGATTATTATCAAATCATT
7235297 ACTA
1 ACTA
7235301 AATCATCAAA
Statistics
Matches: 589, Mismatches: 75, Indels: 143
0.73 0.09 0.18
Matches are distributed among these distances:
130 1 0.00
131 6 0.01
132 5 0.01
133 5 0.01
134 4 0.01
135 13 0.02
136 7 0.01
137 9 0.02
138 45 0.08
139 9 0.02
140 1 0.00
141 3 0.01
143 25 0.04
144 7 0.01
145 5 0.01
146 13 0.02
147 42 0.07
148 44 0.07
149 31 0.05
150 280 0.48
151 30 0.05
152 1 0.00
153 2 0.00
154 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (145 bp):
ACTATAATGATTATTATCAAATCATTACTATAATCATAATCATCAAATCATTATAAATCATATCA
TTAAAAATTTAAATCATTATTAAATCATTATTATAATGATTATTATAAATCATTATTATAATGAT
TATTATCAAATCATT
Found at i:7235391 original size:150 final size:146
Alignment explanation
Indices: 7235081--7235424 Score: 405
Period size: 150 Copynumber: 2.3 Consensus size: 146
7235071 TATTTAAATC
* * *
7235081 ATTATTAAATCATTTTTATAATGATTATTA-CTAAATCATTATTATAATGATTATTATCAAATCA
1 ATTATCAAATCATTATTATAATGATTATTATC-AAATCATTACTATAATGATTATTATCAAATCA
* * *
7235145 TTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAAAATTTAAATCATTAT
65 TTACTATAATCATAATCATCAAATCATTA-TAAATCAT---ATCATTAAAAATTTAAATCATTAT
*
7235210 TAAATCATTTTTATAATGATT
126 TAAATCATTATTATAATGATT
7235231 ATTA-CTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCA
1 ATTATC-AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCA
* * *
7235295 TTACTA-AATCATCAAATCATTAAAT-ATT-TAAATCAT-T-ATTAAATTATTTTTATAATGATT
65 TTACTATAATCAT--AATCATCAAATCATTATAAATCATATCATTAAA--A-ATTTA-AATCATT
7235355 ATTACTAAATCATTATTATAATGATT
124 A-T--TAAATCATTATTATAATGATT
*
7235381 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTA
1 ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTA
7235425 AATCATCAAA
Statistics
Matches: 171, Mismatches: 11, Indels: 24
0.83 0.05 0.12
Matches are distributed among these distances:
143 6 0.04
144 1 0.01
145 1 0.01
146 4 0.02
147 7 0.04
148 9 0.05
149 5 0.03
150 128 0.75
151 10 0.06
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (146 bp):
ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTATAATCATAATCATCAAATCATTATAAATCATATCATTAAAAATTTAAATCATTATTAAAT
CATTATTATAATGATT
Found at i:7235399 original size:248 final size:248
Alignment explanation
Indices: 7234499--7235479 Score: 1650
Period size: 248 Copynumber: 4.0 Consensus size: 248
7234489 TATTTAAATC
* * *
7234499 ATTATTAAATCATTTTTATAATGATTATTA-CTAAATCATTATTATAATGATTATTATCAAATCA
1 ATTACTAAATCATTATTATAATGATTATTATC-AAATCATTACTATAATGATTATTATCAAATCA
* * * * * * *
7234563 TTAC----T-AT--AATGATT-ATTA-TCAAATCATTACTAAATCA---TCA-AATCATTAAATA
65 TTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT-ATTA
* *
7234615 TTTAAATCATTATTA-AATCATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTAC
129 -CTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTAC
* *
7234679 TAAATCATCAAATCATTAAATATTTAAATCATTATTAAATAAATTTTATAATGATT
193 TAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
*
7234735 ATTTCTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
*
7234800 TACTAAATCATCAAATCATTAAAAATTTAAATCATTATTAAATCATTTTTATAATGATTATTACT
66 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACT
7234865 AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
131 AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
7234930 ATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
196 ATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
*
7234983 ATTACTAAATCATTAATATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
7235048 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACT
66 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACT
7235113 AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
131 AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
*
7235178 ATCATCAAATCATTAAAAATTTAAATCATTATTAAATCATTTTTATAATGATT
196 ATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
7235231 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
*
7235296 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATTATTTTTATAATGATTATTACT
66 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACT
7235361 AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
131 AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
*
7235426 ATCATCAAATCATTAAATATTTAAATCATTATCAAATCATTTTTATAATGATT
196 ATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
7235479 A
1 A
7235480 ATAAATACAT
Statistics
Matches: 706, Mismatches: 24, Indels: 18
0.94 0.03 0.02
Matches are distributed among these distances:
236 62 0.09
237 1 0.00
240 1 0.00
241 2 0.00
243 6 0.01
244 2 0.00
245 17 0.02
247 13 0.02
248 596 0.84
249 6 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (248 bp):
ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACT
AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAA
ATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
Found at i:7235422 original size:26 final size:26
Alignment explanation
Indices: 7235345--7235424 Score: 135
Period size: 26 Copynumber: 3.1 Consensus size: 26
7235335 AAATTATTTT
*
7235345 TATAATGATTATTA-CTAAATCATTAT
1 TATAATGATTATTATC-AAATCATTAC
7235371 TATAATGATTATTATCAAATCATTAC
1 TATAATGATTATTATCAAATCATTAC
7235397 TATAATGATTATTATCAAATCATTAC
1 TATAATGATTATTATCAAATCATTAC
7235423 TA
1 TA
7235425 AATCATCAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
26 51 0.98
27 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (26 bp):
TATAATGATTATTATCAAATCATTAC
Found at i:7238361 original size:26 final size:24
Alignment explanation
Indices: 7238303--7238361 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
7238293 CTAATAAACC
*
7238303 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
7238327 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
7238355 TAATAAT
1 TAATAAT
7238362 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:7239151 original size:49 final size:50
Alignment explanation
Indices: 7239104--7239200 Score: 116
Period size: 49 Copynumber: 2.0 Consensus size: 50
7239094 AGACACTAAC
*
7239104 AAATTAATTAATATTTTT-TAT-AT-T-TAATAACTTAAACTAAGAAACT-
1 AAATTAACTAAT-TTTTTATATAATATATAATAACTTAAACTAAGAAACTA
*
7239150 -AATTAACTAATTTTTTATATAATATAATAATAACTTAAACTAATAAACTA
1 AAATTAACTAATTTTTTATATAATAT-ATAATAACTTAAACTAAGAAACTA
7239200 A
1 A
7239201 TATAATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
44 5 0.12
45 13 0.31
46 2 0.05
47 1 0.02
49 21 0.50
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (50 bp):
AAATTAACTAATTTTTTATATAATATATAATAACTTAAACTAAGAAACTA
Found at i:7239216 original size:28 final size:29
Alignment explanation
Indices: 7239169--7239230 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 29
7239159 ATTTTTTATA
*
7239169 TAATATAATAATAACTTAAACTAATAAAC
1 TAATATAATAATAACTTAAACTAACAAAC
7239198 TAATATAAT-ATAACTTAAACTAACAAAC
1 TAATATAATAATAACTTAAACTAACAAAC
7239226 TAATA
1 TAATA
7239231 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 23 0.72
29 9 0.28
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (29 bp):
TAATATAATAATAACTTAAACTAACAAAC
Found at i:7239240 original size:21 final size:21
Alignment explanation
Indices: 7239207--7239255 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7239197 CTAATATAAT
7239207 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
7239228 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
7239249 ATTAACT
1 A-TAACT
7239256 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:7239838 original size:15 final size:15
Alignment explanation
Indices: 7239818--7239881 Score: 83
Period size: 15 Copynumber: 4.1 Consensus size: 15
7239808 CCATCCCCTC
7239818 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
7239833 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
* *
7239848 CGTCCCATGCATCCCCTC
1 C--CCCATGCATTCCC-A
7239866 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
7239881 C
1 C
7239882 GTCCCATGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
15 17 0.40
16 12 0.29
17 12 0.29
18 1 0.02
ACGTcount: A:0.17, C:0.55, G:0.08, T:0.20
Consensus pattern (15 bp):
CCCCATGCATTCCCA
Found at i:7239856 original size:17 final size:16
Alignment explanation
Indices: 7239819--7239889 Score: 90
Period size: 17 Copynumber: 4.4 Consensus size: 16
7239809 CATCCCCTCC
7239819 CCCATGCATTCCCAC-
1 CCCATGCATTCCCACT
7239834 CCCATGCATTCCCACGT
1 CCCATGCATTCCCAC-T
* * *
7239851 CCCATGCATCCCCTCC
1 CCCATGCATTCCCACT
7239867 CCCATGCATTCCCACGT
1 CCCATGCATTCCCAC-T
7239884 CCCATG
1 CCCATG
7239890 TTGATTGCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
15 15 0.32
16 13 0.28
17 19 0.40
ACGTcount: A:0.17, C:0.52, G:0.10, T:0.21
Consensus pattern (16 bp):
CCCATGCATTCCCACT
Found at i:7239870 original size:16 final size:16
Alignment explanation
Indices: 7239809--7239875 Score: 73
Period size: 16 Copynumber: 4.2 Consensus size: 16
7239799 TCCAATGCAC
7239809 CATCCCCTCCCCCATG
1 CATCCCCTCCCCCATG
* *
7239825 CATTCCC-ACCCCATG
1 CATCCCCTCCCCCATG
* * *
7239840 CATTCCCACGTCCCATG
1 CATCCCCTC-CCCCATG
7239857 CATCCCCTCCCCCATG
1 CATCCCCTCCCCCATG
7239873 CAT
1 CAT
7239876 TCCCACGTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
15 14 0.33
16 15 0.36
17 13 0.31
ACGTcount: A:0.16, C:0.55, G:0.07, T:0.21
Consensus pattern (16 bp):
CATCCCCTCCCCCATG
Found at i:7239874 original size:33 final size:32
Alignment explanation
Indices: 7239819--7239889 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 32
7239809 CATCCCCTCC
*
7239819 CCCATGCATTCCCACCCCATGCATTCCCACGT
1 CCCATGCATCCCCACCCCATGCATTCCCACGT
*
7239851 CCCATGCATCCCCTCCCCCATGCATTCCCACGT
1 CCCATGCATCCCC-ACCCCATGCATTCCCACGT
7239884 CCCATG
1 CCCATG
7239890 TTGATTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 12 0.33
33 24 0.67
ACGTcount: A:0.17, C:0.52, G:0.10, T:0.21
Consensus pattern (32 bp):
CCCATGCATCCCCACCCCATGCATTCCCACGT
Found at i:7239971 original size:29 final size:29
Alignment explanation
Indices: 7239929--7239988 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
7239919 AAATACACAC
7239929 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
7239958 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
7239987 AG
1 AG
7239989 ACCACTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.37, G:0.32, T:0.13
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:7240118 original size:6 final size:7
Alignment explanation
Indices: 7240101--7240126 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7240091 CTAGTAGTAA
7240101 AAAAAAC
1 AAAAAAC
7240108 AAAAAAC
1 AAAAAAC
7240115 AAAAAAC
1 AAAAAAC
7240122 AAAAA
1 AAAAA
7240127 GAACACTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:7240911 original size:15 final size:15
Alignment explanation
Indices: 7240891--7240919 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7240881 TCAAACCGAC
7240891 ACAAATGCAATCATA
1 ACAAATGCAATCATA
7240906 ACAAATGCAATCAT
1 ACAAATGCAATCAT
7240920 GTTAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (15 bp):
ACAAATGCAATCATA
Found at i:7244652 original size:22 final size:23
Alignment explanation
Indices: 7244627--7244674 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
7244617 AGGATATATT
7244627 TTTAATTTAATT-ATTTTTTTAA
1 TTTAATTTAATTAATTTTTTTAA
**
7244649 TTT-ATTTTTTTAATTTTTTTAA
1 TTTAATTTAATTAATTTTTTTAA
7244671 TTTA
1 TTTA
7244675 CAATTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTAATTTAATTAATTTTTTTAA
Found at i:7244655 original size:13 final size:13
Alignment explanation
Indices: 7244632--7244668 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
7244622 ATATTTTTAA
7244632 TTTAA-TTATTTT
1 TTTAATTTATTTT
7244644 TTTAATTTATTTT
1 TTTAATTTATTTT
7244657 TTTAATTT-TTTT
1 TTTAATTTATTTT
7244669 AATTTACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTAATTTATTTT
Found at i:7244681 original size:22 final size:22
Alignment explanation
Indices: 7244639--7244681 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7244629 TAATTTAATT
***
7244639 ATTTTTTTAATTTATTTTTTTA
1 ATTTTTTTAATTTACAATTTTA
7244661 ATTTTTTTAATTTACAATTTT
1 ATTTTTTTAATTTACAATTTT
7244682 TAGGATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
ATTTTTTTAATTTACAATTTTA
Found at i:7246630 original size:22 final size:24
Alignment explanation
Indices: 7246575--7246631 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
7246565 TGAAAAATAC
7246575 TACTCCCCCTTACTTTAACACTTT
1 TACTCCCCCTTACTTTAACACTTT
*
7246599 TATTCCCCCTTACTTTAACAC-TT
1 TACTCCCCCTTACTTTAACACTTT
7246622 T-CTCCCCCTT
1 TACTCCCCCTT
7246632 TTTGTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 8 0.26
23 3 0.10
24 20 0.65
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (24 bp):
TACTCCCCCTTACTTTAACACTTT
Found at i:7254219 original size:20 final size:20
Alignment explanation
Indices: 7254171--7254220 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
7254161 CAACAAATTT
7254171 GGGTATCGATACTCATGGGA
1 GGGTATCGATACTCATGGGA
* *
7254191 --GTATTGATACTGA-GGGAA
1 GGGTATCGATACTCATGGG-A
7254209 GGGTATCGATAC
1 GGGTATCGATAC
7254221 CATCAGTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
20 9 0.38
ACGTcount: A:0.28, C:0.12, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGTATCGATACTCATGGGA
Found at i:7254432 original size:126 final size:126
Alignment explanation
Indices: 7254207--7254472 Score: 424
Period size: 126 Copynumber: 2.1 Consensus size: 126
7254197 ATACTGAGGG
* * * * *
7254207 AAGGGTATCGATACCATCAGTAGGGGTATTGATACTGAGACACTTTTCAAATTACCGAAGCCATT
1 AAGGGTATCGATACCATCAGTAGGGCTATTAATACTAAGACACTTTTCAAAATACCAAAGCCATT
* *
7254272 TTTAGTATCAATACTCAAGTTTGTATTGATAACCTATTTCAGAAGTATCGACACAACATCC
66 TTTAGTATCAATACTCAAGTTTGTATTGATAACCTATTTCAGAAGTATCAACACAACAACC
* * *
7254333 AAGGGTATTGATACCATCAGTAGGGCTATTAATACTAAGACATTTTTCAAAATACCAAATCCATT
1 AAGGGTATCGATACCATCAGTAGGGCTATTAATACTAAGACACTTTTCAAAATACCAAAGCCATT
* *
7254398 TTTAGTATCTATACTCAAGTTTGTATTGATAACCTATTTCAGAAGTATCAACACATCAACC
66 TTTAGTATCAATACTCAAGTTTGTATTGATAACCTATTTCAGAAGTATCAACACAACAACC
7254459 AAGGGTATCGATAC
1 AAGGGTATCGATAC
7254473 TACCCCATGC
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (126 bp):
AAGGGTATCGATACCATCAGTAGGGCTATTAATACTAAGACACTTTTCAAAATACCAAAGCCATT
TTTAGTATCAATACTCAAGTTTGTATTGATAACCTATTTCAGAAGTATCAACACAACAACC
Found at i:7261156 original size:23 final size:22
Alignment explanation
Indices: 7261130--7261205 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 22
7261120 CGACGAGTGT
7261130 ATCGATGCACATTTAAGGTGTGC
1 ATCGATGCACATTTAAGG-GTGC
* * * * *
7261153 ATCGGTGCAC-CTTCATGGTGA
1 ATCGATGCACATTTAAGGGTGC
* *
7261174 ATCGATACACATTCAAGGGATGC
1 ATCGATGCACATTTAAGGG-TGC
7261197 ATCGATGCA
1 ATCGATGCA
7261206 AAGAGCCAAT
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
21 11 0.29
22 8 0.21
23 19 0.50
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (22 bp):
ATCGATGCACATTTAAGGGTGC
Found at i:7264111 original size:21 final size:21
Alignment explanation
Indices: 7264085--7264124 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7264075 AAGACTATTT
7264085 TCATTTTT-TAATTTTGAAACA
1 TCATTTTTGT-ATTTTGAAACA
7264106 TCATTTTTGTATTTTGAAA
1 TCATTTTTGTATTTTGAAA
7264125 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTGTATTTTGAAACA
Found at i:7266093 original size:65 final size:64
Alignment explanation
Indices: 7265995--7266163 Score: 160
Period size: 65 Copynumber: 2.6 Consensus size: 64
7265985 TGGAAGACTT
* * * *** *
7265995 AGTGCATCGGTACACTAGGGTGTACATCGGTGCACAAATTTGCTTTGATGTTTCAA-AAATAGCC
1 AGTGCATCGATACA-T-GGCTGTGCATCGGTGCACAAATTAAATTCGATGTTTCAATAAA-AGCC
7266059 AG
63 AG
* * * * * * *
7266061 GGTGCATCGATGCATGGCTTTTGTATCGGTGCACAAAATAAATTCGATGTTTTAATAAAATCCAG
1 AGTGCATCGATACATGGC-TGTGCATCGGTGCACAAATTAAATTCGATGTTTCAATAAAAGCCAG
*
7266126 AGTGCATCGATACATGGCTGTGCATCGGTGCATAAATT
1 AGTGCATCGATACATGGCTGTGCATCGGTGCACAAATT
7266164 GTATTCAAAA
Statistics
Matches: 81, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
64 18 0.22
65 49 0.60
66 14 0.17
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (64 bp):
AGTGCATCGATACATGGCTGTGCATCGGTGCACAAATTAAATTCGATGTTTCAATAAAAGCCAG
Found at i:7270947 original size:35 final size:35
Alignment explanation
Indices: 7270908--7271033 Score: 148
Period size: 35 Copynumber: 3.6 Consensus size: 35
7270898 GTTCAACTCG
7270908 ATCAAACTGGTAATTCCTTATATTA-GTTCAGACCA
1 ATCAAACTGGTAATTCCTTATA-TAGGTTCAGACCA
** * *
7270943 ATCAAACTGGTAATTTTTTATAGCAGGTTTA-ACTCA
1 ATCAAACTGGTAATTCCTTATA-TAGGTTCAGAC-CA
* * *
7270979 ATCAAACTTGTAATTCCTTGTATAGGTTCAGACCG
1 ATCAAACTGGTAATTCCTTATATAGGTTCAGACCA
7271014 ATCAAACTGGTAATTCCTTA
1 ATCAAACTGGTAATTCCTTA
7271034 CAGATCTAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
35 48 0.65
36 26 0.35
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (35 bp):
ATCAAACTGGTAATTCCTTATATAGGTTCAGACCA
Found at i:7270994 original size:71 final size:71
Alignment explanation
Indices: 7270895--7271028 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 71
7270885 GAAATCTCTA
*
7270895 CAGGTTCAACTCGATCAAACTGGTAATTCCTTATATTA-GTTCAGACCAATCAAACTGGTAATTT
1 CAGGTTCAACTCAATCAAACTGGTAATTCCTTATA-TAGGTTCAGACCAATCAAACTGGTAATTT
7270959 TTTATAG
65 TTTATAG
* * * *
7270966 CAGGTTTAACTCAATCAAACTTGTAATTCCTTGTATAGGTTCAGACCGATCAAACTGGTAATT
1 CAGGTTCAACTCAATCAAACTGGTAATTCCTTATATAGGTTCAGACCAATCAAACTGGTAATT
7271029 CCTTACAGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 2 0.04
71 55 0.96
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (71 bp):
CAGGTTCAACTCAATCAAACTGGTAATTCCTTATATAGGTTCAGACCAATCAAACTGGTAATTTT
TTATAG
Found at i:7273331 original size:24 final size:24
Alignment explanation
Indices: 7273304--7273359 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
7273294 AACCGAGTCA
*
7273304 ACCCGACCTGACCTGTTGACTTTG
1 ACCCGACCTAACCTGTTGACTTTG
*
7273328 ACCCGACCTAACTTGTTGACTTTG
1 ACCCGACCTAACCTGTTGACTTTG
7273352 ACCCGACC
1 ACCCGACC
7273360 CGTTGACCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.36, G:0.18, T:0.27
Consensus pattern (24 bp):
ACCCGACCTAACCTGTTGACTTTG
Found at i:7273335 original size:19 final size:19
Alignment explanation
Indices: 7273308--7273366 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 19
7273298 GAGTCAACCC
*
7273308 GACCTGACCTGTTGACTTT
1 GACCCGACCTGTTGACTTT
7273327 GACCCGACCTAACTTGTTGACTTT
1 GACCCGA-C---C-TGTTGACTTT
*
7273351 GACCCGACCCGTTGAC
1 GACCCGACCTGTTGAC
7273367 CTTTTGACCG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
19 12 0.36
20 2 0.06
23 2 0.06
24 17 0.52
ACGTcount: A:0.19, C:0.32, G:0.20, T:0.29
Consensus pattern (19 bp):
GACCCGACCTGTTGACTTT
Found at i:7281420 original size:23 final size:24
Alignment explanation
Indices: 7281370--7281429 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
7281360 CACAAAGTGC
7281370 CATAGTACACAAAG--TTCTACTA
1 CATAGTACACAAAGTATTCTACTA
**
7281392 CA-AGTACACAAAGTATTCTTGT-
1 CATAGTACACAAAGTATTCTACTA
7281414 CATAGTACACAAAGTA
1 CATAGTACACAAAGTA
7281430 CTACTCCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 11 0.33
22 4 0.12
23 18 0.55
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (24 bp):
CATAGTACACAAAGTATTCTACTA
Found at i:7281450 original size:44 final size:44
Alignment explanation
Indices: 7281370--7281455 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
7281360 CACAAAGTGC
* * *
7281370 CATAGTACACAAAGTTCTACTACAAGTACACAAAGTATTCTTGT
1 CATAGTACACAAAGTACTACTACAAGCACACAAAGTACTCTTGT
* **
7281414 CATAGTACACAAAGTACTACTCCAAGCACATGAAGTACTCTT
1 CATAGTACACAAAGTACTACTACAAGCACACAAAGTACTCTT
7281456 ACAAAAATGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (44 bp):
CATAGTACACAAAGTACTACTACAAGCACACAAAGTACTCTTGT
Found at i:7284166 original size:36 final size:35
Alignment explanation
Indices: 7284126--7284221 Score: 122
Period size: 36 Copynumber: 2.7 Consensus size: 35
7284116 AGTTTTAAAA
* * *
7284126 GTTCAACTTGATCGAACTGGTAATTCCTTACGGTAG
1 GTTCAACTCGATCAAACTGGTAATTCCTTA-GATAG
* *
7284162 GTTCAAATCGATCAAACTGGTAATTCCTTATATAG
1 GTTCAACTCGATCAAACTGGTAATTCCTTAGATAG
7284197 GTTCAGAC-CGATCAAACTGGTAATT
1 GTTCA-ACTCGATCAAACTGGTAATT
7284222 ATTTATGAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
35 25 0.47
36 28 0.53
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (35 bp):
GTTCAACTCGATCAAACTGGTAATTCCTTAGATAG
Found at i:7284209 original size:35 final size:36
Alignment explanation
Indices: 7284135--7284221 Score: 122
Period size: 35 Copynumber: 2.4 Consensus size: 36
7284125 AGTTCAACTT
* * *
7284135 GATCGAACTGGTAATTCCTTACGGTAGGTTCAAATC
1 GATCAAACTGGTAATTCCTTACGATAGGTTCAAACC
* *
7284171 GATCAAACTGGTAATTCCTTA-TATAGGTTCAGACC
1 GATCAAACTGGTAATTCCTTACGATAGGTTCAAACC
7284206 GATCAAACTGGTAATT
1 GATCAAACTGGTAATT
7284222 ATTTATGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 26 0.57
36 20 0.43
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (36 bp):
GATCAAACTGGTAATTCCTTACGATAGGTTCAAACC
Found at i:7304600 original size:14 final size:14
Alignment explanation
Indices: 7304571--7304607 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7304561 AGAAAAAGAA
7304571 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
7304586 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
7304600 GAAGAAAA
1 GAAGAAAA
7304608 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:7306986 original size:140 final size:140
Alignment explanation
Indices: 7306734--7307016 Score: 530
Period size: 140 Copynumber: 2.0 Consensus size: 140
7306724 GCAAACGTTG
7306734 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* *
7306799 TTGAACATTGTTATGATCTGTTCAGTTTTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
7306864 CGAATTTGAC
131 CGAATTTGAC
7306874 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* *
7306939 TTGAACATTGCTATGATCTGTTTAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAATG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
7307004 CGAATTTGAC
131 CGAATTTGAC
7307014 TAT
1 TAT
7307017 CGCAACAAGA
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:7307012 original size:20 final size:20
Alignment explanation
Indices: 7306987--7307240 Score: 170
Period size: 20 Copynumber: 13.7 Consensus size: 20
7306977 TTACACATTC
* *
7306987 ATTTGAATATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
**
7307007 ATTTGACTATCGCAACAAGA
1 ATTTGACTATCGCAACGCGA
* * *
7307027 ATTTGATTATCGTAACTC-A
1 ATTTGACTATCGCAACGCGA
*
7307046 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
7307061 ATTTGACTATCGTAGCGCGA
1 ATTTGACTATCGCAACGCGA
*
7307081 ATTTGACTATCGCAATGC-A
1 ATTTGACTATCGCAACGCGA
*
7307100 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
7307115 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
*
7307135 ATTTGACTATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
*
7307155 ATTTGATTATCGCAACG-GA
1 ATTTGACTATCGCAACGCGA
* *
7307174 TATTTGACTAGCGCAACGAGA
1 -ATTTGACTATCGCAACGCGA
* *
7307195 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
7307209 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
7307229 A-TTGACTTTCGC
1 ATTTGACTATCGC
7307241 GTTGCGATTT
Statistics
Matches: 179, Mismatches: 35, Indels: 41
0.70 0.14 0.16
Matches are distributed among these distances:
14 26 0.15
15 6 0.03
16 1 0.01
18 1 0.01
19 16 0.09
20 127 0.71
21 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:7307083 original size:54 final size:54
Alignment explanation
Indices: 7306995--7307195 Score: 226
Period size: 54 Copynumber: 3.6 Consensus size: 54
7306985 TCATTTGAAT
* * * *
7306995 ATCGCAATGCGAATTTGACTATCGCAACAAGAATTTGATTATCGTAACTCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACTCAAAA
* * *
7307049 ATCGCAACGCGAATTTGACTATCGTAGCGCGAATTTGACTATCGCAA-TGCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACT-CAAAA
* *
7307103 ATCGCAACGCGAATTTGACTATCGCAACGTGAATTTGACTATCGCAACGCAAATTTGA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACTCAAA----A
*
7307161 TTATCGCAACG-GATATTTGACTAGCGCAACGAGAA
1 --ATCGCAACGCGA-ATTTGACTATCGCAACGAGAA
7307196 AATCGCAAAG
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
53 1 0.01
54 93 0.74
58 1 0.01
59 2 0.02
60 28 0.22
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACTCAAAA
Found at i:7307392 original size:29 final size:28
Alignment explanation
Indices: 7307353--7307407 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
7307343 ATAAGAATTA
*
7307353 TTTATACATCAATATTAAACAAATCAACT
1 TTTATAAATCAAT-TTAAACAAATCAACT
**
7307382 TTTATAAATCAATTTTTACAAATCAA
1 TTTATAAATCAATTTAAACAAATCAA
7307408 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (28 bp):
TTTATAAATCAATTTAAACAAATCAACT
Done.