Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 42 of 276
Found at i:13122802 original size:47 final size:46
Alignment explanation
Indices: 13122730--13122900 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
13122720 GGTAATGTGC
* * * *
13122730 CGATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTCAAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTGACTCATATCTCAGGT
* * ** *
13122777 CGATGCCATGTCCCAGACATAGTCTTACATTGACTTC-CGTCTCTAGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGAC-TCATATCTC-AGGT
* *
13122825 CGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGT--GGT
1 CGATGCATGTCCCAGACATGGTCTTACACT-G-ACTCAT-ATCTCAGGT
*
13122872 CGATGCATGTCCTAGACAT-GTCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
13122901 AGCTTACACA
Statistics
Matches: 101, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
46 10 0.10
47 76 0.75
48 12 0.12
49 1 0.01
50 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGACTCATATCTCAGGT
Found at i:13122890 original size:94 final size:93
Alignment explanation
Indices: 13122728--13122898 Score: 222
Period size: 94 Copynumber: 1.8 Consensus size: 93
13122718 ACGGTAATGT
*
13122728 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTCATATCT-AAGTCGATGCCATGTCCCAG
13122793 ACATAGTCTTACATTGACTTCCGTCTCTAG
65 ACAT-GTCTTACATTGACTTCCGTCTCTAG
* * * * *
13122823 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGT-GGTCGATG-CATGTCCT
1 GCCGATGCCATGTCCCAGACACGGTCTTACACT-G-GCTCAT-ATCTAAGTCGATGCCATGTCCC
13122885 AGACATGTCTTACA
63 AGACATGTCTTACA
13122899 CTAGCTTACA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
93 8 0.12
94 36 0.54
95 15 0.22
96 5 0.07
97 3 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTCATATCTAAGTCGATGCCATGTCCCAGA
CATGTCTTACATTGACTTCCGTCTCTAG
Found at i:13132695 original size:39 final size:39
Alignment explanation
Indices: 13132651--13132758 Score: 155
Period size: 39 Copynumber: 2.8 Consensus size: 39
13132641 TATGAGATTG
*
13132651 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
13132690 AAAATATCCGGACATGAGA-CCTGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGATCC-GCAGGCTATATGCTAGA
* * * *
13132729 AATATATCCAGACTTGAGGTCCGCAGGCTA
1 AAAATATCCGGACATGAGATCCGCAGGCTA
13132759 CGTGTTGGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 58 0.94
40 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
Found at i:13132812 original size:38 final size:38
Alignment explanation
Indices: 13132770--13132883 Score: 122
Period size: 38 Copynumber: 2.9 Consensus size: 38
13132760 GTGTTGGAAT
13132770 TATATCCGAGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATCCGAGTTAAATCCCGCAGGCTTCATGCTGGTAA
* * * *
13132808 TATATCCGGGTCAAATCCCGCAGGCCT-AGTGCTGGTAT
1 TATATCCGAGTTAAATCCCGCAGGCTTCA-TGCTGGTAA
* * * *
13132846 TATATCTGAGTTTAAAGTCCTGTAGGCTTCGTGCTGGT
1 TATATCCGAG-TTAAA-TCCCGCAGGCTTCATGCTGGT
13132884 GTTACGTTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
37 1 0.02
38 40 0.66
39 4 0.07
40 16 0.26
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
TATATCCGAGTTAAATCCCGCAGGCTTCATGCTGGTAA
Found at i:13134507 original size:43 final size:43
Alignment explanation
Indices: 13134446--13134569 Score: 203
Period size: 43 Copynumber: 2.9 Consensus size: 43
13134436 GCATGAAACT
*
13134446 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTTGTGC
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
*
13134489 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGTAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
* * *
13134532 CAGTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTT
13134570 AATGACGGTG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.10, C:0.21, G:0.34, T:0.35
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
Found at i:13134799 original size:29 final size:29
Alignment explanation
Indices: 13134761--13134847 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
13134751 AAATTCCTTT
13134761 AACCGAGCACTATGTGTGCGAGATCGGT-
1 AACCGAGCACTATGTGTGCGAGATCGGTC
** * * *
13134789 AATTGAGGCACTGTGTGTGCGAGTTC-TTC
1 AACCGA-GCACTATGTGTGCGAGATCGGTC
13134818 AACCGAGCACTATGTGTGCGAGATCGGTC
1 AACCGAGCACTATGTGTGCGAGATCGGTC
13134847 A
1 A
13134848 GTGGGCACTA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
28 22 0.48
29 24 0.52
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (29 bp):
AACCGAGCACTATGTGTGCGAGATCGGTC
Found at i:13134833 original size:57 final size:58
Alignment explanation
Indices: 13134735--13134845 Score: 188
Period size: 57 Copynumber: 1.9 Consensus size: 58
13134725 CGAATGATTA
*
13134735 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
13134793 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACTATGTGTGCGAGATCGGT
13134846 CAGTGGGCAC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
57 31 0.62
58 19 0.38
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:13134834 original size:28 final size:27
Alignment explanation
Indices: 13134759--13134839 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 27
13134749 GCAAATTCCT
*
13134759 TTAACCGAGCACTATGTGTGCGAGATC
1 TTAACCGAGCACTATGTGTGCGAGTTC
* ** *
13134786 GGTAATTGAGGCACTGTGTGTGCGAGTTC
1 -TTAACCGA-GCACTATGTGTGCGAGTTC
13134815 TTCAACCGAGCACTATGTGTGCGAG
1 TT-AACCGAGCACTATGTGTGCGAG
13134840 ATCGGTCAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (27 bp):
TTAACCGAGCACTATGTGTGCGAGTTC
Found at i:13134855 original size:28 final size:28
Alignment explanation
Indices: 13134767--13134857 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
13134757 CTTTAACCGA
* *
13134767 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* * * * *
13134796 GCACTGTGTGTGCGAGTTC-TTCAACCGA
1 GCACTATGTGTGCGAGATCGGTC-ACTGG
*
13134824 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCACTGG
13134852 GCACTA
1 GCACTA
13134858 AGTATGTGAA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
28 26 0.55
29 21 0.45
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCACTGG
Found at i:13149620 original size:36 final size:36
Alignment explanation
Indices: 13149579--13149654 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
13149569 CCTAGACGAA
*
13149579 TATTATTAGTACTCATATCAACCCATATTTTTCATT
1 TATTATTAGTACTCATATCAACCCACATTTTTCATT
* **
13149615 TATTATTAGTACTCATATTAGTCCACATTTTTCATT
1 TATTATTAGTACTCATATCAACCCACATTTTTCATT
13149651 TATT
1 TATT
13149655 CACATTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.17, G:0.04, T:0.50
Consensus pattern (36 bp):
TATTATTAGTACTCATATCAACCCACATTTTTCATT
Found at i:13159506 original size:15 final size:16
Alignment explanation
Indices: 13159488--13159521 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13159478 AAATTAAAAT
*
13159488 AATTAA-CTAGATGCA
1 AATTAATCTAAATGCA
13159503 AATTAATCTAAATGCA
1 AATTAATCTAAATGCA
13159519 AAT
1 AAT
13159522 GAGATACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (16 bp):
AATTAATCTAAATGCA
Found at i:13168878 original size:31 final size:31
Alignment explanation
Indices: 13168840--13168899 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
13168830 AAATCTTCTG
13168840 TACTAGTTCTGAACCTTTCAGTACACATAGA
1 TACTAGTTCTGAACCTTTCAGTACACATAGA
13168871 TACTAGTTCTGAACCTTTCAGTACACATA
1 TACTAGTTCTGAACCTTTCAGTACACATA
13168900 CTCTGCCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (31 bp):
TACTAGTTCTGAACCTTTCAGTACACATAGA
Found at i:13171630 original size:28 final size:28
Alignment explanation
Indices: 13171598--13171656 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
13171588 ATGCAGTTGA
* *
13171598 ATACTCAATGTCACACACACTAAGTGTC
1 ATACTCAATATCACACACACTAAGTGCC
* *
13171626 ATACTCGATATCTCACACACTAAGTGCC
1 ATACTCAATATCACACACACTAAGTGCC
13171654 ATA
1 ATA
13171657 TATAGCCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.25
Consensus pattern (28 bp):
ATACTCAATATCACACACACTAAGTGCC
Found at i:13172055 original size:29 final size:29
Alignment explanation
Indices: 13172018--13172075 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
13172008 CCTTATTTCA
*
13172018 TAAAATCACAAATTAGTGAAATTTAAAAT
1 TAAAATCACAAATTAGTGAAATTCAAAAT
13172047 TAAAATCACAAATTAGTGAAATTCAAAAT
1 TAAAATCACAAATTAGTGAAATTCAAAAT
13172076 ATACCCATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (29 bp):
TAAAATCACAAATTAGTGAAATTCAAAAT
Found at i:13172075 original size:16 final size:16
Alignment explanation
Indices: 13172027--13172075 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
13172017 ATAAAATCAC
*
13172027 AAATTAGTGAAATTTA
1 AAATTAGTGAAATTCA
13172043 AAATTA---AAA-TCA
1 AAATTAGTGAAATTCA
13172055 CAAATTAGTGAAATTCA
1 -AAATTAGTGAAATTCA
13172072 AAAT
1 AAAT
13172076 ATACCCATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
12 2 0.07
13 9 0.33
16 13 0.48
17 3 0.11
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (16 bp):
AAATTAGTGAAATTCA
Found at i:13172253 original size:21 final size:21
Alignment explanation
Indices: 13172219--13172258 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13172209 AAACTTGTAT
* *
13172219 ATCTATTAACAAACATTCATA
1 ATCTATCAAAAAACATTCATA
*
13172240 ATCTATCAAAAAACTTTCA
1 ATCTATCAAAAAACATTCA
13172259 AAAAAAATGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCTATCAAAAAACATTCATA
Found at i:13180681 original size:7 final size:7
Alignment explanation
Indices: 13180671--13180737 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
13180661 TTTTGCTTAG
13180671 GGTTTAT
1 GGTTTAT
*
13180678 GGTTCAT
1 GGTTTAT
13180685 GGTTTGA-
1 GGTTT-AT
*
13180692 GATTT-T
1 GGTTTAT
*
13180698 AGATTTAT
1 -GGTTTAT
13180706 GGTTT-T
1 GGTTTAT
13180712 GGGTTTAT
1 -GGTTTAT
*
13180720 AGTTTAT
1 GGTTTAT
13180727 GGTTTAT
1 GGTTTAT
13180734 GGTT
1 GGTT
13180738 ATTGTTTTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
6 1 0.02
7 44 0.92
8 3 0.06
ACGTcount: A:0.16, C:0.01, G:0.28, T:0.54
Consensus pattern (7 bp):
GGTTTAT
Found at i:13180737 original size:21 final size:21
Alignment explanation
Indices: 13180671--13180737 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
13180661 TTTTGCTTAG
* *
13180671 GGTTTATGGTTCATGGTTTGA-
1 GGTTTATAGTTTATGGTTT-AT
*
13180692 GATTT-TAGATTTATGGTTT-T
1 GGTTTATAG-TTTATGGTTTAT
13180712 GGGTTTATAGTTTATGGTTTAT
1 -GGTTTATAGTTTATGGTTTAT
13180734 GGTT
1 GGTT
13180738 ATTGTTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
20 2 0.05
21 31 0.84
22 4 0.11
ACGTcount: A:0.16, C:0.01, G:0.28, T:0.54
Consensus pattern (21 bp):
GGTTTATAGTTTATGGTTTAT
Found at i:13180896 original size:14 final size:14
Alignment explanation
Indices: 13180868--13180937 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
13180858 TTTAATTTTG
*
13180868 GGGTTTAAGTTTTTA
1 GGGTTT-AGTGTTTA
13180883 GGGTTTAGTGTTTA
1 GGGTTTAGTGTTTA
* * *
13180897 TAGTTTTAG-GTTTT
1 -GGGTTTAGTGTTTA
* **
13180911 GGATTTTTTGTTTA
1 GGGTTTAGTGTTTA
13180925 GGGTTTAGTGTTT
1 GGGTTTAGTGTTT
13180938 GATATTCTAA
Statistics
Matches: 41, Mismatches: 12, Indels: 5
0.71 0.21 0.09
Matches are distributed among these distances:
13 4 0.10
14 25 0.61
15 12 0.29
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (14 bp):
GGGTTTAGTGTTTA
Found at i:13181522 original size:26 final size:23
Alignment explanation
Indices: 13181492--13181554 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 23
13181482 ATACATATTT
13181492 AATTATTTATATTTAGTCATATAATA
1 AATTATTTATATTTA-T--TATAATA
*
13181518 AATTATATT-TA-TTATTTTAATA
1 AATTAT-TTATATTTATTATAATA
13181540 AATTATTTAATATTT
1 AATTATTT-ATATTT
13181555 TAATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
21 2 0.06
22 12 0.38
23 2 0.06
24 3 0.09
25 3 0.09
26 8 0.25
27 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
AATTATTTATATTTATTATAATA
Found at i:13181523 original size:22 final size:22
Alignment explanation
Indices: 13181498--13181545 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13181488 ATTTAATTAT
13181498 TTATATTTAGTCA-TATAATAAA
1 TTATATTTA-TCATTATAATAAA
* *
13181520 TTATATTTATTATTTTAATAAA
1 TTATATTTATCATTATAATAAA
13181542 TTAT
1 TTAT
13181546 TTAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATATTTATCATTATAATAAA
Found at i:13181548 original size:20 final size:22
Alignment explanation
Indices: 13181513--13181558 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
13181503 TTTAGTCATA
*
13181513 TAATAAATTATATTTATTATTT
1 TAATAAATTATATTTAATATTT
13181535 TAATAAA-T-TATTTAATATTT
1 TAATAAATTATATTTAATATTT
13181555 TAAT
1 TAAT
13181559 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.65
21 1 0.04
22 7 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATAAATTATATTTAATATTT
Found at i:13186020 original size:19 final size:21
Alignment explanation
Indices: 13185984--13186025 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
13185974 TAACTACTTG
13185984 AAGATTAATGTATAATTAATT
1 AAGATTAATGTATAATTAATT
13186005 AAGATTAA-GT-TAATTAATT
1 AAGATTAATGTATAATTAATT
13186024 AA
1 AA
13186026 TTTTAACTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (21 bp):
AAGATTAATGTATAATTAATT
Found at i:13189781 original size:68 final size:68
Alignment explanation
Indices: 13189706--13189835 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 68
13189696 TTTTAATAGT
* **
13189706 TTAATATTAAATTAAATTTAATACTTATCTTAATAATATTTTATT-AATTTAATATTAAAGTGGT
1 TTAATATTAAATTAAATCTAATACTTATCTTAATAA-ATTAAATTAAATTTAATATTAAAGTGGT
13189770 TATC
65 TATC
* * *
13189774 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATTAAATTAAATTTAATATTAAAGTG
1 TTAATATTAAATTAAATCTAATACTTATCTTAATAAATTAAATTAAATTTAATATTAAAGTG
13189836 ATTAAGTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 6 0.11
68 49 0.89
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (68 bp):
TTAATATTAAATTAAATCTAATACTTATCTTAATAAATTAAATTAAATTTAATATTAAAGTGGTT
ATC
Found at i:13200484 original size:26 final size:26
Alignment explanation
Indices: 13200455--13200505 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
13200445 ACAAATTGAT
* *
13200455 AATGGGTTAGGTAAATGTTCCATGAC
1 AATGGATTAGGTAAATATTCCATGAC
13200481 AATGGATTAGGTAAATATTCCATGA
1 AATGGATTAGGTAAATATTCCATGA
13200506 TGGGAATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (26 bp):
AATGGATTAGGTAAATATTCCATGAC
Found at i:13200602 original size:130 final size:130
Alignment explanation
Indices: 13200453--13200713 Score: 495
Period size: 130 Copynumber: 2.0 Consensus size: 130
13200443 ATACAAATTG
13200453 ATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCATGATGGGAATTTCAT
1 ATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCATGATGGGAATTTCAT
13200518 GTCTTTTGTATTAAAGAATTAAATGGATGAAATATGAAATTTTATTAAAAGAAAAAGGGGTAAAA
66 GTCTTTTGTATTAAAGAATTAAATGGATGAAATATGAAATTTTATTAAAAGAAAAAGGGGTAAAA
* * *
13200583 ATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATGATGGGAATTTCAT
1 ATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCATGATGGGAATTTCAT
13200648 GTCTTTTGTATTAAAGAATTAAATGGATGAAATATGAAATTTTATTAAAAGAAAAAGGGGTAAAA
66 GTCTTTTGTATTAAAGAATTAAATGGATGAAATATGAAATTTTATTAAAAGAAAAAGGGGTAAAA
13200713 A
1 A
13200714 GAACAAAGTT
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 128 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (130 bp):
ATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCATGATGGGAATTTCAT
GTCTTTTGTATTAAAGAATTAAATGGATGAAATATGAAATTTTATTAAAAGAAAAAGGGGTAAAA
Found at i:13200620 original size:26 final size:26
Alignment explanation
Indices: 13200583--13200636 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
13200573 AGGGGTAAAA
13200583 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
13200609 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
13200635 AT
1 AT
13200637 GGGAATTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:13207616 original size:28 final size:28
Alignment explanation
Indices: 13207584--13207682 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 28
13207574 ACAGTGCATG
* *
13207584 CAGTAACAGTCTGGGCCTGAGCCCTATT
1 CAGTAACAGTCTGGGCCTAAGCCCTATA
*
13207612 CAGTATCAGTACAGTCTGGGCCTTAGCCCTATA
1 CAG--T-A--ACAGTCTGGGCCTAAGCCCTATA
* * *
13207645 CAGTAACAGTGTAGGCCTAAGCCCAATA
1 CAGTAACAGTCTGGGCCTAAGCCCTATA
*
13207673 CAGTACCAGT
1 CAGTAACAGT
13207683 ACAGTGTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
28 31 0.53
30 2 0.03
31 2 0.03
33 24 0.41
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCTATA
Found at i:13207627 original size:33 final size:34
Alignment explanation
Indices: 13207584--13207654 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
13207574 ACAGTGCATG
* *
13207584 CAGTAACAGTCTGGGCCTGAGCCCTATTCAGTAT
1 CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAA
*
13207618 CAGT-ACAGTCTGGGCCTTAGCCCTATACAGTAA
1 CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAA
13207651 CAGT
1 CAGT
13207655 GTAGGCCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.88
34 4 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAA
Found at i:13208073 original size:27 final size:26
Alignment explanation
Indices: 13208031--13208102 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
13208021 AGGGCATAAT
* * *
13208031 CGTCA-TTTACCGTACAGGAGTATTAT
1 CGTCATTTTACCCTACAGG-CTATTAC
* *
13208057 GGTCATTTTACTCTACAAGGCTATTAC
1 CGTCATTTTACCCTAC-AGGCTATTAC
13208084 CGTCATTTTACCCTACAGG
1 CGTCATTTTACCCTACAGG
13208103 GGTTTCAGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 7 0.19
27 27 0.73
28 3 0.08
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (26 bp):
CGTCATTTTACCCTACAGGCTATTAC
Found at i:13221598 original size:40 final size:40
Alignment explanation
Indices: 13221537--13221720 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
13221527 TATTCGAATG
*
13221537 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * * *
13221577 ATATCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAG-TGACT
* * *
13221617 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
13221657 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* *
13221697 ATATCCGGGCTATGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
13221721 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:13226832 original size:42 final size:41
Alignment explanation
Indices: 13226765--13226866 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
13226755 GGATTAGACT
* * **
13226765 ACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-C
1 ACTGGCTCAAAAGCCCTTCAAAACTAAGTCCGGTTATGAGC
** *
13226805 ACTGGCTCTAAAAAGCCCTTCAAAACTAAGTTTGGTTATTAGC
1 ACTGGCTC--AAAAGCCCTTCAAAACTAAGTCCGGTTATGAGC
13226848 ACTGGCTCAAAAGCCCTTC
1 ACTGGCTCAAAAGCCCTTC
13226867 GAGACGAAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
40 8 0.15
41 11 0.21
42 24 0.46
43 9 0.17
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (41 bp):
ACTGGCTCAAAAGCCCTTCAAAACTAAGTCCGGTTATGAGC
Found at i:13231771 original size:94 final size:94
Alignment explanation
Indices: 13231597--13231808 Score: 223
Period size: 94 Copynumber: 2.3 Consensus size: 94
13231587 TTTGTGTGCT
* *
13231597 AGTGTAAGACATGTCTGGGACATGCATCGGCCATAATATAAGAGCCAGTGTAAGACATGTCTAAG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATAAGACAAGAGCCAGTGTAAGACATGTCTAAG
** ** **
13231662 ACATGGTTTGCCCTCG-AGATATTTAAGCC
66 ACATCATCAGCCCTCGCA-ATATACAAGCC
* * * ** *
13231691 AGTGTAAGACATGTTTGGGACATGCATCGG-TATTGAGACAAGAGTTAGTGTAAGACATGTCTGA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-TAAGACAAGAGCCAGTGTAAGACATGTCTAA
*
13231755 GACATACATCAG-CCTCGCAATATACAAGCT
65 GACAT-CATCAGCCCTCGCAATATACAAGCC
* *
13231785 AGTGTAAGACCTATCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
13231809 GCGTCAGCTT
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
93 1 0.01
94 93 0.96
95 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATAAGACAAGAGCCAGTGTAAGACATGTCTAAG
ACATCATCAGCCCTCGCAATATACAAGCC
Found at i:13237376 original size:185 final size:184
Alignment explanation
Indices: 13237064--13237437 Score: 721
Period size: 185 Copynumber: 2.0 Consensus size: 184
13237054 AAAAAGGACC
13237064 ATTTTGCATAAGTTGTAAAATAGGTGATAAAGGTGTGAAATATTGAGAATTTTGGATTGCTTCTA
1 ATTTTGCATAAGTTGTAAAATAGGTGATAAAGGTGTGAAATATTGAGAATTTTGGATTGCTTCTA
13237129 GTGTAAAAATTAATCGAATAGGCTTAACATATGAAGAAATTAGATAAAAATCAATTTTTGGACCT
66 GTGTAAAAATTAATCGAATAGGCTTAACATATGAAGAAATTAGATAAAAATCAATTTTTGGACCT
13237194 AAGGGTAAAATGGTCATTTTGTAAAAGTCTAAGGGCAAAATGGTCATTTTACCCA
131 AAGGGTAAAATGGTCATTTTGTAAAAGTCT-AGGGCAAAATGGTCATTTTACCCA
13237249 ATTTTGCATAAGTTGTAAAATAGGTGATAAAGGTGTGAAATATTGAGAATTTTGGATTGCTTCTA
1 ATTTTGCATAAGTTGTAAAATAGGTGATAAAGGTGTGAAATATTGAGAATTTTGGATTGCTTCTA
* *
13237314 GTGTAAAAATTAATCGAATAGGCTTAAGATATGAAGAAATTCGATAAAAATCAATTTTTGGACCT
66 GTGTAAAAATTAATCGAATAGGCTTAACATATGAAGAAATTAGATAAAAATCAATTTTTGGACCT
13237379 AAGGGTAAAATGGTCATTTTGTAAAAGTCTAGGGCAAAATGGTCATTTTACCCA
131 AAGGGTAAAATGGTCATTTTGTAAAAGTCTAGGGCAAAATGGTCATTTTACCCA
13237433 ATTTT
1 ATTTT
13237438 AAGTTGTTGA
Statistics
Matches: 187, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
184 29 0.16
185 158 0.84
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.34
Consensus pattern (184 bp):
ATTTTGCATAAGTTGTAAAATAGGTGATAAAGGTGTGAAATATTGAGAATTTTGGATTGCTTCTA
GTGTAAAAATTAATCGAATAGGCTTAACATATGAAGAAATTAGATAAAAATCAATTTTTGGACCT
AAGGGTAAAATGGTCATTTTGTAAAAGTCTAGGGCAAAATGGTCATTTTACCCA
Found at i:13237963 original size:46 final size:48
Alignment explanation
Indices: 13237861--13237984 Score: 155
Period size: 46 Copynumber: 2.6 Consensus size: 48
13237851 TGTGTCAGTA
* * *
13237861 TAAGACCATGTCGGGGACATGGCATCGGTACGGATACGTGGGAGTCAATG
1 TAAGACCATGTCAGGGACATGGCATC-G-ACGGATACGTGAGAGCCAATG
**
13237911 TAAGACCATGTCAGGGACATGGCATC-ACTTA-ACGTGAGAGCCAATG
1 TAAGACCATGTCAGGGACATGGCATCGACGGATACGTGAGAGCCAATG
*
13237957 TAAGACCATGTCA-AGACATGGCATCGAC
1 TAAGACCATGTCAGGGACATGGCATCGAC
13237985 ATTATACCGT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
45 11 0.16
46 28 0.42
47 3 0.04
50 25 0.37
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (48 bp):
TAAGACCATGTCAGGGACATGGCATCGACGGATACGTGAGAGCCAATG
Found at i:13242431 original size:16 final size:15
Alignment explanation
Indices: 13242404--13242437 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13242394 ATAACTAGTA
*
13242404 TATAATTATATTTAT
1 TATAATTATATTAAT
13242419 TATAATATATATTAAT
1 TATAAT-TATATTAAT
13242435 TAT
1 TAT
13242438 TATAGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:13243284 original size:33 final size:34
Alignment explanation
Indices: 13243240--13243307 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
13243230 ATGTTAATAT
13243240 TTTATACTAATTAAATTTTTGAGAAAATATTTGC
1 TTTATACTAATTAAATTTTTGAGAAAATATTTGC
*
13243274 TTTATA-TAATTAAATTTTTTAGAAAATATTTGC
1 TTTATACTAATTAAATTTTTGAGAAAATATTTGC
13243307 T
1 T
13243308 CTATCTTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 27 0.82
34 6 0.18
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.50
Consensus pattern (34 bp):
TTTATACTAATTAAATTTTTGAGAAAATATTTGC
Found at i:13244871 original size:3 final size:3
Alignment explanation
Indices: 13244863--13244894 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13244853 CGAGGATCTC
13244863 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
13244895 TGCCACAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13255405 original size:19 final size:19
Alignment explanation
Indices: 13255381--13255418 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13255371 GTAGAATCTA
13255381 AGTGAATGCGGAAAACACT
1 AGTGAATGCGGAAAACACT
*
13255400 AGTGAATGCTGAAAACACT
1 AGTGAATGCGGAAAACACT
13255419 TAAGAAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (19 bp):
AGTGAATGCGGAAAACACT
Found at i:13257737 original size:18 final size:18
Alignment explanation
Indices: 13257714--13257753 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13257704 AAAATTATAT
*
13257714 ATTTTTAAATATATATAAA
1 ATTTTGAAA-ATATATAAA
*
13257733 ATTTTGAAAATATTTAAA
1 ATTTTGAAAATATATAAA
13257751 ATT
1 ATT
13257754 AAAAGGAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTTTGAAAATATATAAA
Found at i:13257883 original size:20 final size:20
Alignment explanation
Indices: 13257860--13257907 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
13257850 ATTTTTATTG
13257860 TTGAATTTAAATTTAAAAAT
1 TTGAATTTAAATTTAAAAAT
* *
13257880 TTGAATTTGAATTTAAAATT
1 TTGAATTTAAATTTAAAAAT
*
13257900 TTTAATTT
1 TTGAATTT
13257908 TAATAAACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (20 bp):
TTGAATTTAAATTTAAAAAT
Found at i:13266807 original size:30 final size:30
Alignment explanation
Indices: 13266771--13266831 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
13266761 CTGATACATA
13266771 TCTTCATTCAGCCCCTGCTGGTTTTAAATT
1 TCTTCATTCAGCCCCTGCTGGTTTTAAATT
13266801 TCTTCATTCAGCCCCTGCTGGTTTTAAATT
1 TCTTCATTCAGCCCCTGCTGGTTTTAAATT
13266831 T
1 T
13266832 TCTTATATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.44
Consensus pattern (30 bp):
TCTTCATTCAGCCCCTGCTGGTTTTAAATT
Found at i:13275144 original size:13 final size:14
Alignment explanation
Indices: 13275121--13275149 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13275111 AAAAAACCTG
13275121 CTATCTTTACTTTA
1 CTATCTTTACTTTA
13275135 CTAT-TTTACTTTA
1 CTATCTTTACTTTA
13275148 CT
1 CT
13275150 GTTTCTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (14 bp):
CTATCTTTACTTTA
Found at i:13282134 original size:46 final size:46
Alignment explanation
Indices: 13282062--13282151 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
13282052 TGAATGCATG
13282062 AATAAAAAGAAGGGGAGGCTCCGATGATCATGGCGTCACCCCACCC
1 AATAAAAAGAAGGGGAGGCTCCGATGATCATGGCGTCACCCCACCC
* *
13282108 AATAAAAAGAAGGGGAGGCTCTGATGATCGTGGCGTCACCCCAC
1 AATAAAAAGAAGGGGAGGCTCCGATGATCATGGCGTCACCCCAC
13282152 TGTTGGGTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.32, C:0.26, G:0.28, T:0.14
Consensus pattern (46 bp):
AATAAAAAGAAGGGGAGGCTCCGATGATCATGGCGTCACCCCACCC
Found at i:13282637 original size:76 final size:76
Alignment explanation
Indices: 13282556--13282838 Score: 261
Period size: 76 Copynumber: 3.7 Consensus size: 76
13282546 CAAATATAGA
* * * * **
13282556 TTCATTTTTATTTCTAGAATTCAAAATTTTAGGTTTTAATAGGTTTAATTAAATTTCAATTTGGA
1 TTCATTTTTATTTCTAGAATTCAAAATTTTAGGTTTTAATAGATTTAATTAGATTTTAGTTTACA
13282621 GTTAAGTTTAT
66 GTTAAGTTTAT
* * * * *
13282632 TTCATTTTTAATTCTGGAATTTAGAAA-TTTAGGTTTTAGTAGGCTTAATTAATTAGATTTTAGT
1 TTCATTTTTATTTCTAGAATTCA-AAATTTTAGGTTTTAATA-G---ATTTAATTAGATTTTAGT
* *
13282696 TTATAGTT-GGATTTCAT
61 TTACAGTTAAG-TTT-AT
* * *
13282713 TTCATTTTTAATGTT-AACAATT-AAAATTTTTGGTTTTAATAGATTTAATTAGATTTTAGTTTA
1 TTCATTTTT-AT-TTCTAGAATTCAAAATTTTAGGTTTTAATAGATTTAATTAGATTTTAGTTTA
*
13282776 CAATTGAA-TTTAT
64 CAGTT-AAGTTTAT
* * *
13282789 TTTATTTTTAGTTCTAGAATTCAAAATTTTAAGTTTTAATAGATTTAATT
1 TTCATTTTTATTTCTAGAATTCAAAATTTTAGGTTTTAATAGATTTAATT
13282839 TGGTACATGC
Statistics
Matches: 165, Mismatches: 28, Indels: 28
0.75 0.13 0.13
Matches are distributed among these distances:
74 2 0.01
75 6 0.04
76 69 0.42
77 30 0.18
79 1 0.01
80 26 0.16
81 24 0.15
82 5 0.03
83 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.52
Consensus pattern (76 bp):
TTCATTTTTATTTCTAGAATTCAAAATTTTAGGTTTTAATAGATTTAATTAGATTTTAGTTTACA
GTTAAGTTTAT
Found at i:13284123 original size:16 final size:16
Alignment explanation
Indices: 13284102--13284171 Score: 79
Period size: 16 Copynumber: 4.3 Consensus size: 16
13284092 TTAATCACTT
13284102 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* *
13284118 TAATATT-TATTAAGA
1 TAATATTAAATTAATA
*
13284133 TAAATATTAAATTTAATT
1 T-AATATTAAA-TTAATA
13284151 TAATATTAAATTAATA
1 TAATATTAAATTAATA
*
13284167 AAATA
1 TAATA
13284172 CCATTAAGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 7 0.16
16 22 0.50
17 10 0.23
18 5 0.11
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:13284199 original size:48 final size:49
Alignment explanation
Indices: 13284100--13284219 Score: 161
Period size: 48 Copynumber: 2.5 Consensus size: 49
13284090 ACTTAATCAC
* ** *
13284100 TTTAATATTAAATTAATATAATATTTATTAAGATAAATATTAAATTTAA
1 TTTAATATTAAATTAATAAAATATCCATTAAGATAAATATTAAATTAAA
* *
13284149 TTTAATATTAAATTAATAAAATA-CCATTAAGCTAAGTATTAAATTAAA
1 TTTAATATTAAATTAATAAAATATCCATTAAGATAAATATTAAATTAAA
* *
13284197 TTTAATATTAAACTATTAAAATA
1 TTTAATATTAAATTAATAAAATA
13284220 GTATTATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
48 41 0.65
49 22 0.35
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (49 bp):
TTTAATATTAAATTAATAAAATATCCATTAAGATAAATATTAAATTAAA
Found at i:13285842 original size:16 final size:16
Alignment explanation
Indices: 13285821--13285851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13285811 TTATGCATGC
*
13285821 AAAATAGAAAAGACAG
1 AAAATACAAAAGACAG
13285837 AAAATACAAAAGACA
1 AAAATACAAAAGACA
13285852 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:13291168 original size:40 final size:40
Alignment explanation
Indices: 13291091--13291229 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
13291081 AAACCAAGTA
* * * *
13291091 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGAATATAG-TAACTCGCACAAATG
* **
13291130 CCTTCGGAACTTAGCCCGAATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
*
13291170 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
13291210 CCTTCGGGACTTAGCCCGAA
1 CCTTCGGGACTTAGCCCGAA
13291230 NNNNNNNNNN
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 12 0.14
40 74 0.86
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
Found at i:13298695 original size:22 final size:22
Alignment explanation
Indices: 13298667--13298709 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13298657 TGCCTTCGGA
13298667 ACTTAGCCCGAATATAGTAGTG
1 ACTTAGCCCGAATATAGTAGTG
*
13298689 ACTTAGCCCGGATATAGTAGT
1 ACTTAGCCCGAATATAGTAGT
13298710 TCGCACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (22 bp):
ACTTAGCCCGAATATAGTAGTG
Found at i:13303809 original size:19 final size:19
Alignment explanation
Indices: 13303785--13303822 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
13303775 AATTGAACTT
13303785 GAAAATT-GGACCTGAGATC
1 GAAAATTCGG-CCTGAGATC
13303804 GAAAATTCGGCCTGAGATC
1 GAAAATTCGGCCTGAGATC
13303823 CCAAAGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (19 bp):
GAAAATTCGGCCTGAGATC
Found at i:13304198 original size:20 final size:20
Alignment explanation
Indices: 13304173--13304211 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13304163 TTAGATTATT
*
13304173 TTATTATTTTAATATTAAAA
1 TTATTATCTTAATATTAAAA
13304193 TTATTATCTTAATATTAAA
1 TTATTATCTTAATATTAAA
13304212 TTTAATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATTATCTTAATATTAAAA
Found at i:13323254 original size:48 final size:48
Alignment explanation
Indices: 13323198--13323294 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
13323188 ATCCAAAAAT
*
13323198 GCCAACAAACTAAAGTCAAGACGTTTAATGAGTATGTATTAAAGAAGA
1 GCCAACAAACTAAAGTCAAGACGTTTAATGAGTATGCATTAAAGAAGA
*
13323246 GCCAACAAACTAAAGTCAAGATGTTTAATGAGTATGCATTAAAGAAGA
1 GCCAACAAACTAAAGTCAAGACGTTTAATGAGTATGCATTAAAGAAGA
13323294 G
1 G
13323295 GAGTTTATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (48 bp):
GCCAACAAACTAAAGTCAAGACGTTTAATGAGTATGCATTAAAGAAGA
Found at i:13324878 original size:13 final size:13
Alignment explanation
Indices: 13324836--13324898 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
13324826 TTGGCAATGC
*
13324836 TTTTGAAAAGTGT
1 TTTTGAAAAGTAT
* * * *
13324849 TGTGGAAAAATAC
1 TTTTGAAAAGTAT
13324862 TTTTGAAAAGTAT
1 TTTTGAAAAGTAT
*
13324875 TTTT-AAGAAGTGT
1 TTTTGAA-AAGTAT
13324888 TTTTGAAAAGT
1 TTTTGAAAAGT
13324899 TTGATTTAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
12 2 0.05
13 34 0.89
14 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.41
Consensus pattern (13 bp):
TTTTGAAAAGTAT
Found at i:13325122 original size:24 final size:25
Alignment explanation
Indices: 13325094--13325141 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
13325084 AATATATAAT
*
13325094 ATTAATTTTAAATATTT-TTAAATA
1 ATTAATATTAAATATTTATTAAATA
*
13325118 ATTAATATTAATTATTTATTAAAT
1 ATTAATATTAAATATTTATTAAAT
13325142 TTAATTAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTAATATTAAATATTTATTAAATA
Found at i:13328106 original size:52 final size:46
Alignment explanation
Indices: 13328087--13328433 Score: 460
Period size: 46 Copynumber: 7.3 Consensus size: 46
13328077 TGACAAGTGG
* * *
13328087 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
13328133 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* * *
13328179 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
13328231 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* * * *
13328277 AAGTGAAAAGTGATAAGTGATAGCTACGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* *
13328329 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* *
13328375 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
13328421 AAAGTGATAAGTG
1 AAAGTGATAAGTG
13328434 GCTACACTTA
Statistics
Matches: 272, Mismatches: 17, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
46 187 0.69
52 85 0.31
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
Found at i:13328141 original size:98 final size:98
Alignment explanation
Indices: 13328021--13328433 Score: 667
Period size: 98 Copynumber: 4.3 Consensus size: 98
13328011 TTTGAGTACT
* *
13328021 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
13328086 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
13328119 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
13328184 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
13328217 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
13328282 AAAAGTGATAAGTGATAGCTACGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
13328315 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-----
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* ** *
13328375 -AAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
13328407 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
13328434 GCTACACTTA
Statistics
Matches: 303, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
92 55 0.18
98 248 0.82
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:13328441 original size:37 final size:37
Alignment explanation
Indices: 13328397--13328616 Score: 390
Period size: 37 Copynumber: 6.0 Consensus size: 37
13328387 GATAGCTTTA
*
13328397 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
13328434 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
13328471 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
13328508 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
13328545 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
13328582 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
13328617 ATCATACGTA
Statistics
Matches: 178, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 163 0.92
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:13329976 original size:497 final size:497
Alignment explanation
Indices: 13328717--13332687 Score: 7910
Period size: 497 Copynumber: 8.0 Consensus size: 497
13328707 AAGTGACAAA
13328717 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
1 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
13328782 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
66 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
13328847 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
131 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
13328912 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
196 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
13328977 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
261 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
*
13329042 ATGATTATAATATTTTGAGGATATATTGTGAAAAGTTATAGAAACATGTTAATTA-TTTTGAAAG
326 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
13329106 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
391 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
13329171 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
456 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
13329213 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
1 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
13329278 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
66 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
13329343 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
131 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
13329408 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
196 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
13329473 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
261 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
13329538 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
326 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
13329603 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
391 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
13329668 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
456 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
13329710 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
1 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
13329775 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
66 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
13329840 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
131 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
13329905 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
196 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
13329970 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
261 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
13330035 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
326 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
13330100 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
391 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
13330165 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
456 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
13330207 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
1 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
13330272 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
66 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
13330337 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
131 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
13330402 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
196 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
13330467 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
261 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
13330532 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
326 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
13330597 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
391 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
13330662 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
456 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
13330704 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
1 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
13330769 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
66 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
13330834 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
131 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
13330899 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
196 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
13330964 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
261 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
13331029 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
326 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
13331094 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
391 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
13331159 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
456 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
13331201 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
1 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
13331266 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
66 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
13331331 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
131 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
13331396 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
196 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
13331461 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
261 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
13331526 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
326 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
13331591 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
391 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
13331656 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
456 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
13331698 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
1 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
13331763 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
66 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
13331828 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
131 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
13331893 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
196 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
13331958 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
261 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
13332023 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
326 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
13332088 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
391 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
13332153 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
456 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
13332195 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
1 TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
13332260 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
66 TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
13332325 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
131 AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
13332390 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
196 ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
13332455 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
261 AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
13332520 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTA-TTTTGAAAG
326 ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
13332584 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
391 TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
*
13332649 GCCTCGTACCCTATTCCGGTGTTGGATACGGGTAAGGGG
456 GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGG
13332688 TGTTACATGA
Statistics
Matches: 3472, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
496 491 0.14
497 2981 0.86
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.36
Consensus pattern (497 bp):
TGGGCCCAAAAGAATTAAAGTAAATGGATAAGTGGTAGTGTATTTATATCAGGACGATGTTGTTA
TTCAAACTAAAGTGATATTTTCATTGCTAAATTGAGAATTTCATAAATGTGTTATTGAATGGTAT
AATCAATAAACATTGAGTTAAATGGTAAATACGTATTAGTTTTGAATTTGATGTCATTGAATTGT
ACGTGAATTAAATGGAAATTGCTAGTGATATGATTTAAATTATGAGCATGAGAAATTGCGAATTG
AATGAAATGGAAATGAAGCATTAAATTGCATGAGTATGTATCGGGTCTCGCAGGCCCTAATTATT
ATGATTATAATATTTTGAGAATATATTGTGAAAAGTTATAGAAACATGTTAATTATTTTTGAAAG
TTTTAATTTTGATGAAATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTTTGGTAAT
GCCTCGTACCCTATTCCGGTGTTGGATACGGGGAAGGGGGGT
Found at i:13341721 original size:24 final size:24
Alignment explanation
Indices: 13341693--13341742 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
13341683 ATAATTTTTC
13341693 GCCTTACGATCCTTCAATTTGAAA
1 GCCTTACGATCCTTCAATTTGAAA
13341717 GCCTTACGATCCTTCAATTTGAAA
1 GCCTTACGATCCTTCAATTTGAAA
13341741 GC
1 GC
13341743 ATTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (24 bp):
GCCTTACGATCCTTCAATTTGAAA
Found at i:13349128 original size:3 final size:3
Alignment explanation
Indices: 13349120--13349144 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13349110 CACTATATTC
13349120 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
13349145 TAGTAACCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:13351759 original size:22 final size:21
Alignment explanation
Indices: 13351733--13351799 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
13351723 ATATTTTTTA
13351733 TAATTTATATTTAAAAAATATT
1 TAATTTATATTTAAAAAAT-TT
* *
13351755 TAA-TTATATTCAGTAAAATTT
1 TAATTTATATTTA-AAAAATTT
* *
13351776 TAATTAATATATTAAATAATTT
1 TAATTTATAT-TTAAAAAATTT
13351798 TA
1 TA
13351800 TAATTTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
21 13 0.36
22 21 0.58
23 2 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (21 bp):
TAATTTATATTTAAAAAATTT
Found at i:13356014 original size:24 final size:24
Alignment explanation
Indices: 13355987--13356039 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
13355977 AGGAGGAACC
13355987 TCATCATGAAC-TCCCTCAACATCT
1 TCATCATG-ACTTCCCTCAACATCT
**
13356011 TCATTGTGACTTCCCTCAACATCT
1 TCATCATGACTTCCCTCAACATCT
13356035 TCATC
1 TCATC
13356040 TTCATGAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.25, C:0.36, G:0.06, T:0.34
Consensus pattern (24 bp):
TCATCATGACTTCCCTCAACATCT
Found at i:13358182 original size:24 final size:25
Alignment explanation
Indices: 13358136--13358182 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
13358126 TTTGTTTTCA
*
13358136 TTTTCTTTTCCCTCTCTTCTTATAT
1 TTTTCTTTCCCCTCTCTTCTTATAT
13358161 TTTTCTTTCCTCCTC-CTT-TTAT
1 TTTTCTTTCC-CCTCTCTTCTTAT
13358183 GCCACCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 12 0.60
26 4 0.20
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTCTTTCCCCTCTCTTCTTATAT
Found at i:13360124 original size:19 final size:19
Alignment explanation
Indices: 13360109--13360145 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13360099 AAAAAAATAT
*
13360109 CAACAAAATATTAAAAAAG
1 CAACAAAATAGTAAAAAAG
*
13360128 CAAGAAAATAGTAAAAAA
1 CAACAAAATAGTAAAAAA
13360146 AACAACAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.08, G:0.08, T:0.14
Consensus pattern (19 bp):
CAACAAAATAGTAAAAAAG
Found at i:13362963 original size:6 final size:6
Alignment explanation
Indices: 13362948--13362981 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
13362938 ATGAATAAAC
* *
13362948 TTATGT TTATGA TTATGT TTATGA TTATGT TTAT
1 TTATGT TTATGT TTATGT TTATGT TTATGT TTAT
13362982 TATGCCATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.62
Consensus pattern (6 bp):
TTATGT
Found at i:13362965 original size:12 final size:12
Alignment explanation
Indices: 13362948--13362981 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
13362938 ATGAATAAAC
13362948 TTATGTTTATGA
1 TTATGTTTATGA
13362960 TTATGTTTATGA
1 TTATGTTTATGA
13362972 TTATGTTTAT
1 TTATGTTTAT
13362982 TATGCCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
TTATGTTTATGA
Found at i:13364341 original size:28 final size:28
Alignment explanation
Indices: 13364301--13364354 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
13364291 AAATGACAAG
13364301 GTCAAATGAATATGGTTTAGTATGTCTA
1 GTCAAATGAATATGGTTTAGTATGTCTA
13364329 GTCAAATGAATATGGTTTAGTATGTC
1 GTCAAATGAATATGGTTTAGTATGTC
13364355 CAGACTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (28 bp):
GTCAAATGAATATGGTTTAGTATGTCTA
Found at i:13370663 original size:20 final size:20
Alignment explanation
Indices: 13370598--13370689 Score: 76
Period size: 20 Copynumber: 4.6 Consensus size: 20
13370588 GAGGAAGTAT
*
13370598 TGGTAGCTTGTCTGCAATTC
1 TGGTAGCTTGTCTGCAATAC
* * ** *
13370618 TTGTAGCCTGTCCACAATTC
1 TGGTAGCTTGTCTGCAATAC
* *
13370638 TAGTAGCTTGTTTGCAATAC
1 TGGTAGCTTGTCTGCAATAC
* * *
13370658 TGGTAGTTTATCTGCATTAC
1 TGGTAGCTTGTCTGCAATAC
*
13370678 TGGTGGCTTGTC
1 TGGTAGCTTGTC
13370690 CACAAACTAT
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
TGGTAGCTTGTCTGCAATAC
Found at i:13383339 original size:27 final size:27
Alignment explanation
Indices: 13383282--13383352 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
13383272 GTCATTTTTA
* *
13383282 TATTATTAATATTATTACTATTATTTC
1 TATTATTATTATTATTACTATTATATC
*
13383309 TATTATTATTATTATTACTGTTAGTAT-
1 TATTATTATTATTATTACTATTA-TATC
13383336 TATT-TTCATTATTATTA
1 TATTATT-ATTATTATTA
13383353 TTTTTAATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 35 0.90
28 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (27 bp):
TATTATTATTATTATTACTATTATATC
Found at i:13383371 original size:3 final size:3
Alignment explanation
Indices: 13383282--13383354 Score: 69
Period size: 3 Copynumber: 24.3 Consensus size: 3
13383272 GTCATTTTTA
* * *
13383282 TAT TAT TAA TAT TAT TAC TAT TAT T-T CTAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* *
13383327 TGT TAG TAT TAT T-T TCAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT T
13383355 TTTAATACAT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
2 3 0.05
3 50 0.89
4 3 0.05
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:13395060 original size:79 final size:77
Alignment explanation
Indices: 13394950--13395238 Score: 399
Period size: 75 Copynumber: 3.8 Consensus size: 77
13394940 GGTATTCTGA
*
13394950 TATTTTTATTTCTATTTTT---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTAGTTCTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
13395012 CACAAACTGAGG
66 CACACACTGAGG
* *
13395024 TATTTTTAGTTCCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
1 TATTTTTAGTT-CTATTTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* *
13395089 ATCACGCACTGAGG
64 GTCACACACTGAGG
* * *
13395103 TATTTTCAATT-TATGTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTAGTTCTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
**
13395166 CACACGTTGAGG
66 CACACACTGAGG
**
13395178 TATTTTTAGTTTCTATTTTTCAAAAAAAATCAACTCATATTTTGAGAGGTGAGTTGAGCCT
1 TATTTTTAG-TTCTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
13395239 TTTAGTTTCT
Statistics
Matches: 187, Mismatches: 20, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
74 10 0.05
75 65 0.35
76 2 0.01
77 14 0.07
78 37 0.20
79 59 0.32
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (77 bp):
TATTTTTAGTTCTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
CACACACTGAGG
Found at i:13395261 original size:57 final size:58
Alignment explanation
Indices: 13395181--13395293 Score: 183
Period size: 58 Copynumber: 2.0 Consensus size: 58
13395171 GTTGAGGTAT
**
13395181 TTTTAGTTTCTATTTTTC-AAAAAAAATCAACTCATATTTTGAGAGGTGAGTTGAGCC
1 TTTTAGTTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
13395238 TTTTAGTTTCTGTTTTTCAAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTAGTTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
13395294 TCTCAGGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 17 0.33
58 34 0.67
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (58 bp):
TTTTAGTTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:13397026 original size:3 final size:3
Alignment explanation
Indices: 13397018--13397070 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
13397008 CTTTATTAAA
* * *
13397018 TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13397063 TAT TAT TA
1 TAT TAT TA
13397071 AAATTAGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:13397042 original size:9 final size:9
Alignment explanation
Indices: 13397010--13397067 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
13397000 TTTTGTTTCT
13397010 TTATTAAATA
1 TTATT-AATA
13397020 TTATT-AT-
1 TTATTAATA
*
13397027 TT-CTAATA
1 TTATTAATA
13397035 TTATTAATA
1 TTATTAATA
*
13397044 TTATTACTA
1 TTATTAATA
*
13397053 TTATTATTA
1 TTATTAATA
13397062 TTATTA
1 TTATTA
13397068 TTAAAATTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
6 1 0.02
7 4 0.10
8 4 0.10
9 27 0.66
10 5 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATTAATA
Found at i:13398260 original size:5 final size:6
Alignment explanation
Indices: 13398243--13398272 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
13398233 CGACCCTTCA
*
13398243 TCTTTT TCTTTT TCTTTT TCTTTT TATTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
13398273 CCTTATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (6 bp):
TCTTTT
Found at i:13400059 original size:30 final size:30
Alignment explanation
Indices: 13400023--13400081 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
13400013 GAGATGAACC
13400023 CGGGTCCTTTAACTAACTTTAGAAAAATAT
1 CGGGTCCTTTAACTAACTTTAGAAAAATAT
13400053 CGGGTCCTTTAACTAACTTTAGAAAAATA
1 CGGGTCCTTTAACTAACTTTAGAAAAATA
13400082 ACTTTTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (30 bp):
CGGGTCCTTTAACTAACTTTAGAAAAATAT
Found at i:13400304 original size:28 final size:28
Alignment explanation
Indices: 13400250--13400307 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 28
13400240 TACAGGGGTT
13400250 TTCACACGGCCTGACACACGCCCGTGTCC
1 TTCACACGGCCTGA-ACACGCCCGTGTCC
*
13400279 TTCACACGGCCATG-ACACGCTCGTGTCC
1 TTCACACGGCC-TGAACACGCCCGTGTCC
13400307 T
1 T
13400308 AGCCCGTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 11 0.41
30 2 0.07
ACGTcount: A:0.17, C:0.41, G:0.21, T:0.21
Consensus pattern (28 bp):
TTCACACGGCCTGAACACGCCCGTGTCC
Found at i:13400798 original size:11 final size:11
Alignment explanation
Indices: 13400782--13400806 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13400772 TTTGGCTAAT
13400782 TAACAATGACG
1 TAACAATGACG
13400793 TAACAATGACG
1 TAACAATGACG
13400804 TAA
1 TAA
13400807 AACTCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (11 bp):
TAACAATGACG
Found at i:13401411 original size:48 final size:45
Alignment explanation
Indices: 13401246--13401513 Score: 170
Period size: 49 Copynumber: 5.7 Consensus size: 45
13401236 AGGTATAATA
* **
13401246 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAAAATCG-AGG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGAC-A-C-ATCTCGTA-G
* * ** *
13401295 CCGATACCATGTCGCAGACATGGTCTTACATAGCTCTCACATATTCGT-G
1 CCGATGCCATGTCCCAGACAT-GTCTTAC--A-CTGACACAT-CTCGTAG
* * *
13401344 CCAATGCCATGTCCTAGACATAGTCTTACACTGACACCTCTATACGT-G
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGACACATC--T-CGTAG
** * *
13401392 TTGATGCCATGTCCCAGACATGGTTTTAGACTGACACATCTCGTAG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAG
* *
13401438 CCGATG-CATGTCCCAGACATGCCTTACACTGGCTTACATCTCG-AG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTAG
*
13401483 ACCGATG-CATGTCCTAGACATGTCTTACACT
1 -CCGATGCCATGTCCCAGACATGTCTTACACT
13401514 AGCTATTGTC
Statistics
Matches: 176, Mismatches: 31, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
44 9 0.05
45 19 0.11
46 48 0.27
47 2 0.01
48 36 0.20
49 53 0.30
50 4 0.02
51 2 0.01
52 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTGACACATCTCGTAG
Found at i:13401457 original size:45 final size:46
Alignment explanation
Indices: 13401394--13401513 Score: 131
Period size: 46 Copynumber: 2.6 Consensus size: 46
13401384 TATACGTGTT
** *
13401394 GATGCCATGTCCCAGACATGGTTTTAGACTGAC-ACATCTCGTAG-CC
1 GATG-CATGTCCCAGACATGGCCTTACACTGACTACATCTCG-AGACC
*
13401440 GATGCATGTCCCAGACAT-GCCTTACACTGGCTTACATCTCGAGACC
1 GATGCATGTCCCAGACATGGCCTTACACTGAC-TACATCTCGAGACC
* *
13401486 GATGCATGTCCTAGACAT-GTCTTACACT
1 GATGCATGTCCCAGACATGGCCTTACACT
13401514 AGCTATTGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 9 0.14
45 16 0.25
46 40 0.62
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGCCTTACACTGACTACATCTCGAGACC
Found at i:13407544 original size:15 final size:14
Alignment explanation
Indices: 13407521--13407556 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
13407511 CAAGTTTCAC
*
13407521 TATTTTGTCTTTTG
1 TATTTTGTCTTTTA
13407535 TATTTATGTCTTTTA
1 TATTT-TGTCTTTTA
13407550 TATTTTG
1 TATTTTG
13407557 CATGCATAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (14 bp):
TATTTTGTCTTTTA
Found at i:13409088 original size:58 final size:59
Alignment explanation
Indices: 13408955--13409089 Score: 150
Period size: 58 Copynumber: 2.3 Consensus size: 59
13408945 TGATTATCTT
* * * *
13408955 AATATTAAATTTAATTTAATATTTATCTTTTAGATAAACATTCTATTATTTTAATGGATTT
1 AATATTAAATTTAATCTAATATTTATC-TTTAGATAAACATTATATTAATTTAAT-GATTA
* *
13409016 AATATTAAATTTAATCTAATATTTATC-TT-GATTAATATTATATTAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATCTTTAGATAAACATTATATTAATTTAATGATTA
*
13409072 AAGTGATTAAGTTTAATC
1 AA-T-ATTAAATTTAATC
13409090 ATAGTTGAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 31 0.48
59 2 0.03
61 26 0.40
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.50
Consensus pattern (59 bp):
AATATTAAATTTAATCTAATATTTATCTTTAGATAAACATTATATTAATTTAATGATTA
Found at i:13419796 original size:34 final size:34
Alignment explanation
Indices: 13419755--13419822 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
13419745 AAGATGCCTA
13419755 TGTGATCCACACGAGCTGGCCACAAGCCCATGTG
1 TGTGATCCACACGAGCTGGCCACAAGCCCATGTG
13419789 TGTGATCCACACGAGCTGGCCACAAGCCCATGTG
1 TGTGATCCACACGAGCTGGCCACAAGCCCATGTG
13419823 CCAGCTCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.32, G:0.26, T:0.18
Consensus pattern (34 bp):
TGTGATCCACACGAGCTGGCCACAAGCCCATGTG
Found at i:13425567 original size:8 final size:8
Alignment explanation
Indices: 13425525--13425549 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13425515 ATATAGACTA
13425525 AATAAAAT
1 AATAAAAT
13425533 AATAAAAT
1 AATAAAAT
13425541 AATAAAAT
1 AATAAAAT
13425549 A
1 A
13425550 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:13425573 original size:29 final size:31
Alignment explanation
Indices: 13425522--13425594 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
13425512 TATATATAGA
*
13425522 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
13425551 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
13425582 CTAATT-AAATAAT
1 CTAATTAAAATAAT
13425595 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:13425599 original size:29 final size:30
Alignment explanation
Indices: 13425529--13425600 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
13425519 AGACTAAATA
*
13425529 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
13425557 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
13425588 AAATAATTATAAA
1 AAATAATTATAAA
13425601 ATATCATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:13425869 original size:30 final size:32
Alignment explanation
Indices: 13425801--13425870 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
13425791 CCACTCTTAA
* *
13425801 AATATTTTCACTATTAGTCCTTCAACTTTTTC
1 AATATTTACACTATTAGTCCTTCAACATTTTC
13425833 AA-ATTTACACT-TTAGTCCTTCAA-ATTTT-
1 AATATTTACACTATTAGTCCTTCAACATTTTC
13425861 AAGTATTTAC
1 AA-TATTTAC
13425871 TATTGGGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 2 0.06
29 4 0.12
30 18 0.53
31 8 0.24
32 2 0.06
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (32 bp):
AATATTTACACTATTAGTCCTTCAACATTTTC
Found at i:13438023 original size:33 final size:32
Alignment explanation
Indices: 13437986--13438109 Score: 196
Period size: 33 Copynumber: 3.8 Consensus size: 32
13437976 TCTGTTTCAG
13437986 GTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
13438018 AGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 -GTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
13438051 GGTTGCTGGACAGGAGCTGTAATGTGAGTGTTT
1 -GTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
13438084 GATTGCTGGACAGGAGCT-GAATGTGA
1 G-TTGCTGGACAGGAGCTGGAATGTGA
13438110 AGAAAAAAGA
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
32 8 0.09
33 77 0.91
ACGTcount: A:0.20, C:0.10, G:0.40, T:0.30
Consensus pattern (32 bp):
GTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:13441358 original size:3 final size:3
Alignment explanation
Indices: 13441350--13441385 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
13441340 GTTACATGCA
13441350 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
13441386 GTAAGAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:13442734 original size:31 final size:31
Alignment explanation
Indices: 13442699--13442761 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
13442689 TTTGGAAATG
* *
13442699 AAAGTCCTCATGGTCCTTAAAAGATCAAGAA
1 AAAGTCCTCATGGACCTTAAAAGACCAAGAA
13442730 AAAGTCCTCATGGACCTTAAAAGACCAAGAA
1 AAAGTCCTCATGGACCTTAAAAGACCAAGAA
13442761 A
1 A
13442762 CAATTGGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (31 bp):
AAAGTCCTCATGGACCTTAAAAGACCAAGAA
Found at i:13445594 original size:27 final size:27
Alignment explanation
Indices: 13445564--13445616 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
13445554 TGGAGCTGAA
*
13445564 ATAAAAAGGTTTAGGTCAGACAATGCT
1 ATAAAAAAGTTTAGGTCAGACAATGCT
13445591 ATAAAAAAGTTTAGGTCAGACAATGC
1 ATAAAAAAGTTTAGGTCAGACAATGC
13445617 CAAGGACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (27 bp):
ATAAAAAAGTTTAGGTCAGACAATGCT
Found at i:13446092 original size:562 final size:556
Alignment explanation
Indices: 13445030--13446929 Score: 3159
Period size: 536 Copynumber: 3.5 Consensus size: 556
13445020 TGGAGCTGAA
*
13445030 ATAAAAAGGTTTAGGTCAGACAATGCCAAGGACTATTTCAATCAATTTCTCTCACCATATTTCCA
1 ATAAAAAAGTTTAGGTCAGACAATGCCAAGGACTATTTCAATCAATTTCTCTCACCATATTTCCA
* * * *
13445095 AGAAAAAGGCATTATACATGAGTCATTTTGTGTTAGCACACCCCAACAAAATGGTGTTGCCGAAC
66 AGAAAGAGACATTATACATGAGTCATCTTGTGTTAGCACACCCCAACAAAATGGTGTTGCCGAAA
13445160 AAAAGAATCGTCACATTTTAGCTATTACAAGAGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAA
131 AAAAGAATCGTCACATTTTAGCTATTACAAGAGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAA
13445225 TACTGGGGGAGGCTGTTTTAACTGCTACTCATATGATAAATTGATTGCCTACAAAAGTCCTTGAA
196 TACTGGGGGAGGCTGTTTTAACTGCTACTCATATGATAAATTGATTGCCTACAAAAGTCCTTGAA
13445290 TCTCAAAATTCCATTGTGATGTTTGTGAACTTGCAAAACATAAACGTACCTCTTTTCCGGTAAGC
261 TCTCAAAATTCCATTGTGATGTTTGTGAACTTGCAAAACATAAACGTACCTCTTTTCCGGTAAGC
*
13445355 AATAAAAGAACATCCGCTCCTTTACTCTTACTCATAGTGATGTTTGGGGACCATCCACTATTTCA
326 AATAAAAGAACATCCGCTCCTTTACTCTTATTCATAGTGATGTTTGGGGACCATCCACTATTTCA
* *
13445420 AATATTTCTGGGGCTCGGTGGTTTGTATCCTTTATTGATGATTGTACTCGTGCGTCTTGGATATT
391 AATATTTCTGGGGCTCGGTGGTTTGTATCCTTTATTGATGATTGTACCCGTGCGTCTTGGATATA
* * * *
13445485 TCTTTTAAAACAAAAATCTAATGTAAGGTTTGTCTTTTCAACCTTTTACAATATAATCAAAACAC
456 TCTTTTAAAACAAAAATCTGATGTAAGGTTTGTCTTTCCAACCTTTTACAACATGATCAAAACAC
13445550 AATTTGGAGCTGAAATAAAAAGGTTTAGGTCAGACAATGC
521 AATTTGGAGCTGAAATAAAAAGGTTTAGGTCAG--AA--C
13445590 TATAAAAAAGTTTAGGTCAGACAATGCCAAGGACTATTTCAATCAATTTCTCTCACCATATTTCC
1 -ATAAAAAAGTTTAGGTCAGACAATGCCAAGGACTATTTCAATCAATTTCTCTCACCATATTTCC
*
13445655 AAGAAAGAGACATTATACATGAGTTATCTTGTGTTAGCACACCCCAACAAAATGGTGTTGCCGAA
65 AAGAAAGAGACATTATACATGAGTCATCTTGTGTTAGCACACCCCAACAAAATGGTGTTGCCGAA
*
13445720 CAAAAGAATCGTCACATTTTAGCTATTACAAGAGCCCTCTTGTTCCAAAAAAATGTCCCTAAACA
130 AAAAAGAATCGTCACATTTTAGCTATTACAAGAGCCCTCTTGTTCCAAAAAAATGTCCCTAAACA
13445785 ATACTGGGGAGAGGCTGTTTTAACTGCTACTCATATGATAAATTGATTGCCTACAAAAGTCCTTG
195 ATACTGGGG-GAGGCTGTTTTAACTGCTACTCATATGATAAATTGATTGCCTACAAAAGTCCTTG
*
13445850 AATCTCAAAATTCCATTGTGATGTTTGTGAACTTGCAAAACATAAACGTACCTCTTTTCCGATAA
259 AATCTCAAAATTCCATTGTGATGTTTGTGAACTTGCAAAACATAAACGTACCTCTTTTCCGGTAA
13445915 GCAATAAAAGAACATCCGCTCCTTTACTCTTATTCATAGTGATGTTTGGGGACCATCCACTATTT
324 GCAATAAAAGAACATCCGCTCCTTTACTCTTATTCATAGTGATGTTTGGGGACCATCCACTATTT
*
13445980 CAAATATTTCTGAGGCTCGGTGGTTTGTATCCTTTATTGATGATTGTACCCGTGCGTCTTGGATA
389 CAAATATTTCTGGGGCTCGGTGGTTTGTATCCTTTATTGATGATTGTACCCGTGCGTCTTGGATA
*
13446045 TATCTTTTAAAACAAAAATCTGATGTAAGGTTTGTCTTTCCAACCTTTTATAACATGATCAAAAC
454 TATCTTTTAAAACAAAAATCTGATGTAAGGTTTGTCTTTCCAACCTTTTACAACATGATCAAAAC
13446110 ACAATTTGGAGCTGAAATAAAAAGGTTTAGGTCAG-AC
519 ACAATTTGGAGCTGAAATAAAAAGGTTTAGGTCAGAAC
13446147 ------AA---T--G-C---C-A---C--GGACTATTTCAATCAATTTCTCTCACCATATTTCCA
1 ATAAAAAAGTTTAGGTCAGACAATGCCAAGGACTATTTCAATCAATTTCTCTCACCATATTTCCA
*
13446191 AGAAAGAGACATTATAGATGAGTCATCTTGTGTTAGCACACCCCAACAAAATGGTGTTGCCGAAA
66 AGAAAGAGACATTATACATGAGTCATCTTGTGTTAGCACACCCCAACAAAATGGTGTTGCCGAAA
*
13446256 AAAAGAATGGTCACATTTTAGCTATTACAAGAGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAA
131 AAAAGAATCGTCACATTTTAGCTATTACAAGAGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAA
* *
13446321 TACTGTGGGGAGGCTATTTTAACTGCTACTCATATGATAAATTGATTACCTACAAAAGTCCTTGA
196 TACTG-GGGGAGGCTGTTTTAACTGCTACTCATATGATAAATTGATTGCCTACAAAAGTCCTTGA
* *
13446386 ATCTCAAAATTCCATTGTGATGTTTGTGAACTTGCAAAACATAAACGTACCTCTTTTTCGGTAAA
260 ATCTCAAAATTCCATTGTGATGTTTGTGAACTTGCAAAACATAAACGTACCTCTTTTCCGGTAAG
13446451 CAATAAAAGAACATCCGCTCCTTTTACTCTTATTCATAGTGATGTTTGGGGACCATCCACTATTT
325 CAATAAAAGAACATCCGCTCC-TTTACTCTTATTCATAGTGATGTTTGGGGACCATCCACTATTT
*
13446516 CAAATATTTCTGGGGCTCGATGGTTTGTATCCTTTATTGATGATTGTACCCGTGCGTCTTGGATA
389 CAAATATTTCTGGGGCTCGGTGGTTTGTATCCTTTATTGATGATTGTACCCGTGCGTCTTGGATA
13446581 TATCTTTTAAAACAAAAATCTGATGTAAGGTTTGTCTTTCCAACCTTTTACAACATGATCAAAAC
454 TATCTTTTAAAACAAAAATCTGATGTAAGGTTTGTCTTTCCAACCTTTTACAACATGATCAAAAC
13446646 ACAATTTGGAGC-------------------T--GAA-
519 ACAATTTGGAGCTGAAATAAAAAGGTTTAGGTCAGAAC
*
13446662 ATAAAAAAGTTTAGGTCAGACAATGCCAAGGCCTATTTCAATCAATTTCTCTCACCATATTTCCA
1 ATAAAAAAGTTTAGGTCAGACAATGCCAAGGACTATTTCAATCAATTTCTCTCACCATATTTCCA
*
13446727 AGAAAGAGACATTATACATGAGTTATCTTGTGTTAGCACACCCCAACAAAATGGTGTTGCCGAAA
66 AGAAAGAGACATTATACATGAGTCATCTTGTGTTAGCACACCCCAACAAAATGGTGTTGCCGAAA
* *
13446792 AAAAGAATGGTTACATTTTAGCTATTACAAGAGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAA
131 AAAAGAATCGTCACATTTTAGCTATTACAAGAGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAA
13446857 TACTGGGGGGAGGCTGTTTTAACTGCTACTCATATGATAAATTGATTGCCTACAAAAGTCCTTGA
196 TACT-GGGGGAGGCTGTTTTAACTGCTACTCATATGATAAATTGATTGCCTACAAAAGTCCTTGA
13446922 ATCTCAAA
260 ATCTCAAA
13446930 GTCCTATGCA
Statistics
Matches: 1280, Mismatches: 33, Indels: 77
0.92 0.02 0.06
Matches are distributed among these distances:
515 1 0.00
516 1 0.00
517 1 0.00
521 2 0.00
524 1 0.00
526 1 0.00
527 1 0.00
530 1 0.00
531 1 0.00
534 1 0.00
535 304 0.24
536 416 0.32
537 2 0.00
540 1 0.00
541 1 0.00
544 1 0.00
545 1 0.00
547 1 0.00
550 2 0.00
557 1 0.00
559 1 0.00
561 198 0.15
562 340 0.27
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (556 bp):
ATAAAAAAGTTTAGGTCAGACAATGCCAAGGACTATTTCAATCAATTTCTCTCACCATATTTCCA
AGAAAGAGACATTATACATGAGTCATCTTGTGTTAGCACACCCCAACAAAATGGTGTTGCCGAAA
AAAAGAATCGTCACATTTTAGCTATTACAAGAGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAA
TACTGGGGGAGGCTGTTTTAACTGCTACTCATATGATAAATTGATTGCCTACAAAAGTCCTTGAA
TCTCAAAATTCCATTGTGATGTTTGTGAACTTGCAAAACATAAACGTACCTCTTTTCCGGTAAGC
AATAAAAGAACATCCGCTCCTTTACTCTTATTCATAGTGATGTTTGGGGACCATCCACTATTTCA
AATATTTCTGGGGCTCGGTGGTTTGTATCCTTTATTGATGATTGTACCCGTGCGTCTTGGATATA
TCTTTTAAAACAAAAATCTGATGTAAGGTTTGTCTTTCCAACCTTTTACAACATGATCAAAACAC
AATTTGGAGCTGAAATAAAAAGGTTTAGGTCAGAAC
Found at i:13447260 original size:33 final size:33
Alignment explanation
Indices: 13447223--13447290 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
13447213 TCTTTCTTCT
*
13447223 TCACATTCCAGCTCCTGTCCAGCAACCAAACAC
1 TCACATTACAGCTCCTGTCCAGCAACCAAACAC
13447256 TCACATTACAGCTCCTGTCCAGCAACCAAACAC
1 TCACATTACAGCTCCTGTCCAGCAACCAAACAC
13447289 TC
1 TC
13447291 CCACTCAGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.41, G:0.09, T:0.19
Consensus pattern (33 bp):
TCACATTACAGCTCCTGTCCAGCAACCAAACAC
Found at i:13458481 original size:3 final size:3
Alignment explanation
Indices: 13458473--13458597 Score: 250
Period size: 3 Copynumber: 41.7 Consensus size: 3
13458463 AGATATTTAC
13458473 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13458521 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13458569 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13458598 TTTTATCTAA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 122 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13460246 original size:13 final size:13
Alignment explanation
Indices: 13460210--13460246 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13460200 TGATAGTTTG
*
13460210 GTATGAATTTATAT
1 GTATG-ATTTGTAT
13460224 GTATGATTTGTAT
1 GTATGATTTGTAT
13460237 GTATGATTTG
1 GTATGATTTG
13460247 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:13460764 original size:20 final size:20
Alignment explanation
Indices: 13460736--13460786 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
13460726 CTATGGGCAG
* *
13460736 GCCATACGGGCATGTTCCAA
1 GCCACACGGGCATGTCCCAA
* *
13460756 GCCACACGGTCATGTCCCAT
1 GCCACACGGGCATGTCCCAA
13460776 GCCACACGGGC
1 GCCACACGGGC
13460787 GTGTGCCCCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.37, G:0.25, T:0.16
Consensus pattern (20 bp):
GCCACACGGGCATGTCCCAA
Found at i:13466137 original size:3 final size:3
Alignment explanation
Indices: 13466123--13466156 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
13466113 AGATATTTAC
*
13466123 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13466157 ATTTTATCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:13466137 original size:9 final size:9
Alignment explanation
Indices: 13466123--13466164 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
13466113 AGATATTTAC
13466123 TTATTATCA
1 TTATTATCA
*
13466132 TTATTATTA
1 TTATTATCA
*
13466141 TTATTATTA
1 TTATTATCA
13466150 TTATTAT-A
1 TTATTATCA
13466158 TT-TTATC
1 TTATTATC
13466165 TAATAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
7 4 0.13
8 3 0.10
9 24 0.77
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (9 bp):
TTATTATCA
Found at i:13467805 original size:13 final size:13
Alignment explanation
Indices: 13467769--13467805 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13467759 TGATAGTTTG
*
13467769 GTATGAATTTATAT
1 GTATG-ATTTGTAT
13467783 GTATGATTTGTAT
1 GTATGATTTGTAT
13467796 GTATGATTTG
1 GTATGATTTG
13467806 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:13468315 original size:20 final size:20
Alignment explanation
Indices: 13468290--13468347 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
13468280 TGCCCATGGG
*
13468290 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTCC
*
13468310 CAGGCCACACGGCCATGTCC
1 CAGGCCACACGGGCATGTCC
* *
13468330 CATGCCACACTGGCATGT
1 CAGGCCACACGGGCATGT
13468348 GCCCCTATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.16
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:13470254 original size:39 final size:40
Alignment explanation
Indices: 13470158--13470280 Score: 133
Period size: 40 Copynumber: 3.1 Consensus size: 40
13470148 CACACCAGAG
* ** * *
13470158 AGAAGCTCATAAGAGCTAATCCAATTGAAATACGCCAAAT
1 AGAAGCTCATAAGAGCTAATCCACTCAAAACACGCCAAAC
* * *
13470198 AGAAGCTCATAAAAGCTAGTCCACTCAAAACATGCC-AAC
1 AGAAGCTCATAAGAGCTAATCCACTCAAAACACGCCAAAC
* *
13470237 AGAAGCTCATAAGAGCTAATCCACCCGAATA-ACGCCAAAC
1 AGAAGCTCATAAGAGCTAATCCACTC-AAAACACGCCAAAC
13470277 AGAA
1 AGAA
13470281 AGTAGAACGC
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 29 0.43
40 39 0.57
ACGTcount: A:0.45, C:0.25, G:0.15, T:0.15
Consensus pattern (40 bp):
AGAAGCTCATAAGAGCTAATCCACTCAAAACACGCCAAAC
Found at i:13471782 original size:29 final size:25
Alignment explanation
Indices: 13471745--13471844 Score: 87
Period size: 28 Copynumber: 3.7 Consensus size: 25
13471735 TTATCATATT
13471745 ATTTCGCACTTCTGTGCTTATCGTTGTAAA
1 ATTT-GCACTT-TGTGCTTATCGTT-T--A
13471775 ATTTGCACTTTGGTGCTTATCGTAATTA
1 ATTTGCACTTT-GTGCTTATCGT--TTA
* *
13471803 TTTTGCACTTCAGTGCTTATC-TTT-
1 ATTTGCACTT-TGTGCTTATCGTTTA
13471827 ATTTGCACTTTGTGCTTA
1 ATTTGCACTTTGTGCTTA
13471845 GTGATATATG
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
23 7 0.11
24 9 0.15
25 2 0.03
27 1 0.02
28 20 0.32
29 17 0.27
30 5 0.08
31 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (25 bp):
ATTTGCACTTTGTGCTTATCGTTTA
Found at i:13471818 original size:28 final size:27
Alignment explanation
Indices: 13471734--13471844 Score: 88
Period size: 29 Copynumber: 4.1 Consensus size: 27
13471724 AATTAGTGCT
* * *
13471734 CTTATCATATTATTTCGCACTTCTGTG
1 CTTATCGTATTATTTTGCACTTCAGTG
* **
13471761 CTTATCGT-TGTAAAATTTGCACTTTGGTG
1 CTTATCGTAT-T--ATTTTGCACTTCAGTG
13471790 CTTATCGTAATTATTTTGCACTTCAGTG
1 CTTATCGT-ATTATTTTGCACTTCAGTG
*
13471818 CTTATC-T-TTA-TTTGCACTT-TGTG
1 CTTATCGTATTATTTTGCACTTCAGTG
13471841 CTTA
1 CTTA
13471845 GTGATATATG
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
23 7 0.10
24 9 0.13
25 3 0.04
26 1 0.01
27 9 0.13
28 19 0.27
29 20 0.29
30 1 0.01
31 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (27 bp):
CTTATCGTATTATTTTGCACTTCAGTG
Found at i:13471821 original size:57 final size:50
Alignment explanation
Indices: 13471734--13471844 Score: 132
Period size: 57 Copynumber: 2.1 Consensus size: 50
13471724 AATTAGTGCT
*
13471734 CTTATCATATTATTTCGCACTTCTGTGCTTATCGTTGTAAAATTTGCACTTTGGTG
1 CTTATCATATTATTTCGCACTTCAGTGCTTATC-TT-T---ATTTGCACTTT-GTG
* *
13471790 CTTATCGTAATTATTTTGCACTTCAGTGCTTATCTTTATTTGCACTTTGTG
1 CTTATCAT-ATTATTTCGCACTTCAGTGCTTATCTTTATTTGCACTTTGTG
13471841 CTTA
1 CTTA
13471845 GTGATATATG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
51 7 0.14
52 11 0.22
55 1 0.02
56 9 0.18
57 23 0.45
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (50 bp):
CTTATCATATTATTTCGCACTTCAGTGCTTATCTTTATTTGCACTTTGTG
Found at i:13478973 original size:46 final size:46
Alignment explanation
Indices: 13478798--13478973 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
13478788 TGTAACCCGC
* * * *
13478798 CCATAAGCGAATTGGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * **
13478844 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTACTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA--CGT--TCGCAT
* *
13478894 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
13478937 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
13478974 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 4 0.04
46 60 0.57
47 27 0.26
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:13481486 original size:47 final size:50
Alignment explanation
Indices: 13481416--13481725 Score: 150
Period size: 47 Copynumber: 6.6 Consensus size: 50
13481406 AATAATGCCG
** * * *
13481416 ATGCCATGTCTTAGACATTGTCTTATACTGGCTCATC-CAT-TAAGT-C-A
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCACATATAAGTCCGA
**
13481463 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCCGTGCCGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATAAGT-CCGA
* * *
13481514 A-GCCATGTCCCAGACATGGTCTTACACTGA--CACATCTTGT-AG-CCG-
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCA-CATATAAGTCCGA
* * * * *
13481559 ATG-CATGTCCCAGACAT-ATCTTACACTGGCT-T-ACATCTCGAGGCCG-
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATAT-AAGTCCGA
* *
13481605 ATG-CATGTCCCAGACATGG-CTTACACTAGTTCTCGTCTCAT-T--G-CCG-
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACTC-TCACATATAAGTCCGA
* * * * * ** *
13481651 ATGCCATGTCCCAGACATGGTTTTATATTGGCTCTCATA-ATGTGGCCG-
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATAAGTCCGA
13481699 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
13481726 AGCACACAAT
Statistics
Matches: 211, Mismatches: 28, Indels: 49
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.01
44 11 0.05
45 21 0.10
46 50 0.24
47 66 0.31
48 20 0.09
49 3 0.01
50 32 0.15
51 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATAAGTCCGA
Found at i:13481608 original size:46 final size:47
Alignment explanation
Indices: 13481467--13481725 Score: 207
Period size: 46 Copynumber: 5.5 Consensus size: 47
13481457 AAGTCAATGC
* * * *
13481467 CATGTCCCAGACATGGTCTTACACTGACTCTCACATATCCG-TGCCGAAG
1 CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGAGGCCGATG
* *
13481516 CCATGTCCCAGACATGGTCTTACACTGAC--ACATCTTGTA-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCG-AGGCCGATG
*
13481562 CATGTCCCAGACAT-ATCTTACACTGGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATG
* * * *
13481608 CATGTCCCAGACATGG-CTTACACTAG-TTCTCGTCTC-ATTGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTT-ACATCTCGA-GGCCGATG
* * * * *
13481654 CCATGTCCCAGACATGGTTTTATATTGGCTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAGGCCGATG
13481702 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
13481726 AGCACACAAT
Statistics
Matches: 173, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
44 11 0.06
45 19 0.11
46 67 0.39
47 30 0.17
48 15 0.09
49 2 0.01
50 29 0.17
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATG
Found at i:13481704 original size:94 final size:94
Alignment explanation
Indices: 13481463--13481733 Score: 286
Period size: 94 Copynumber: 2.9 Consensus size: 94
13481453 CATTAAGTCA
* * *
13481463 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCCGT-GCCGAAGCCATGTCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-CGTGGCCGATG-CATGTCCCAG
**
13481527 ACATGGTCTTACACT-GACACATCTTGTAGCCG
63 ACATGG-CTTACACTAGACACATCTCATAGCCG
* * *
13481559 ATG-CATGTCCCAGACAT-ATCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATCGTGGCCGATGCATGTCCCAGAC
* * * *
13481620 ATGGCTTACACTAGTTCTCGTCTCATTGCCG
65 ATGGCTTACACTAG-ACACATCTCATAGCCG
* * *
13481651 ATGCCATGTCCCAGACATGGTTTTATATTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTCCCAGACA
*
13481715 TGTCTTACACTAGCACACA
66 TGGCTTACACTAG-ACACA
13481734 ATTAACCCGA
Statistics
Matches: 144, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
90 8 0.06
91 19 0.13
92 20 0.14
93 15 0.10
94 63 0.44
95 16 0.11
96 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (94 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTCCCAGACA
TGGCTTACACTAGACACATCTCATAGCCG
Found at i:13481714 original size:140 final size:141
Alignment explanation
Indices: 13481467--13481725 Score: 337
Period size: 140 Copynumber: 1.8 Consensus size: 141
13481457 AAGTCAATGC
*
13481467 CATGTCCCAGACATGGTCTTACACTGACTCTCACATATCCGTGCCGAAGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTGACTCTCACATATCAGTGCCGAAGCCATGTCCCAGACATG
13481532 GTCTTACACTGACACATCTTGTAGCCGATGCATGTCCCAGACATATCTTACACTGGCTTACATCT
66 GTCTTACACTGACACATCTTGTAGCCGATGCATGTCCCAGACATATCTTACACTGGCTTACATCT
13481597 CGAGGCCGATG
131 CGAGGCCGATG
* * * * * *
13481608 CATGTCCCAGACATGG-CTTACACT-AGT-TCTCGTCTCATTGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTGACTCTCACATATCAGTGCCGAAGCCATGTCCCAGACATG
* * * * * * *
13481670 GTTTTATATTGGCTC-TCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
66 GTCTTACACTGACACATC-T--TGTAGCCGATGCATGTCCCAGACATATCTTACACT
13481726 AGCACACAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
137 2 0.02
138 40 0.40
139 2 0.02
140 41 0.41
141 16 0.16
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (141 bp):
CATGTCCCAGACATGGTCTTACACTGACTCTCACATATCAGTGCCGAAGCCATGTCCCAGACATG
GTCTTACACTGACACATCTTGTAGCCGATGCATGTCCCAGACATATCTTACACTGGCTTACATCT
CGAGGCCGATG
Found at i:13485146 original size:22 final size:22
Alignment explanation
Indices: 13485112--13485173 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
13485102 AATTAAATTA
*
13485112 ATATAAAATATTTAATAATAATC
1 ATATTAAA-ATTTAATAATAATC
* * *
13485135 CTATTAACATTTAATAATAGTC
1 ATATTAAAATTTAATAATAATC
13485157 ATATTAAAATTTAATAA
1 ATATTAAAATTTAATAA
13485174 CAATAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
ATATTAAAATTTAATAATAATC
Found at i:13487200 original size:20 final size:20
Alignment explanation
Indices: 13487177--13487219 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
13487167 AAATCCAAAT
*
13487177 TAAAATCCTGAAATTCAGGA
1 TAAAATCCTAAAATTCAGGA
13487197 TAAAATCCTAAAATTCAGGA
1 TAAAATCCTAAAATTCAGGA
13487217 TAA
1 TAA
13487220 GAATACTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.26
Consensus pattern (20 bp):
TAAAATCCTAAAATTCAGGA
Found at i:13493879 original size:91 final size:91
Alignment explanation
Indices: 13493724--13493907 Score: 368
Period size: 91 Copynumber: 2.0 Consensus size: 91
13493714 GGGTAGGTGT
13493724 ACATTTTGTGCTTATATTCGAATGAAGCAATTAAATTACTAATGTGATATGTTATGTGAAATGTG
1 ACATTTTGTGCTTATATTCGAATGAAGCAATTAAATTACTAATGTGATATGTTATGTGAAATGTG
13493789 TTAACATGTGAATAAATATTCAAGAC
66 TTAACATGTGAATAAATATTCAAGAC
13493815 ACATTTTGTGCTTATATTCGAATGAAGCAATTAAATTACTAATGTGATATGTTATGTGAAATGTG
1 ACATTTTGTGCTTATATTCGAATGAAGCAATTAAATTACTAATGTGATATGTTATGTGAAATGTG
13493880 TTAACATGTGAATAAATATTCAAGAC
66 TTAACATGTGAATAAATATTCAAGAC
13493906 AC
1 AC
13493908 TGGAAATGTA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (91 bp):
ACATTTTGTGCTTATATTCGAATGAAGCAATTAAATTACTAATGTGATATGTTATGTGAAATGTG
TTAACATGTGAATAAATATTCAAGAC
Found at i:13498113 original size:15 final size:16
Alignment explanation
Indices: 13498093--13498127 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
13498083 AAATTATCAA
*
13498093 AAAAATAAA-TAAACC
1 AAAAATAAATTAAAAC
13498108 AAAAATAAATTAAAAC
1 AAAAATAAATTAAAAC
13498124 AAAA
1 AAAA
13498128 CCAATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAATAAATTAAAAC
Found at i:13498300 original size:17 final size:17
Alignment explanation
Indices: 13498263--13498302 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
13498253 AGGCCCAATG
* *
13498263 GCCCAATCTTAAAACCT
1 GCCCAATCCTAAAACCA
*
13498280 GCCCAATCCTAAAATCA
1 GCCCAATCCTAAAACCA
13498297 GCCCAA
1 GCCCAA
13498303 ATGATCCAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.38, G:0.07, T:0.17
Consensus pattern (17 bp):
GCCCAATCCTAAAACCA
Found at i:13499604 original size:16 final size:16
Alignment explanation
Indices: 13499585--13499636 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
13499575 TAAATTTTTT
13499585 TTATTCTATGTATATA
1 TTATTCTATGTATATA
* *
13499601 TTATT-GATG-CTATA
1 TTATTCTATGTATATA
*
13499615 TTATTTTATGTATATA
1 TTATTCTATGTATATA
13499631 TT-TTCT
1 TTATTCT
13499637 TTAAAAATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 9 0.31
15 9 0.31
16 11 0.38
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.60
Consensus pattern (16 bp):
TTATTCTATGTATATA
Found at i:13499628 original size:14 final size:13
Alignment explanation
Indices: 13499586--13499634 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
13499576 AAATTTTTTT
*
13499586 TATTCTATGTATA
1 TATTTTATGTATA
13499599 TATTATTGATGCTATA
1 TATT-TT-ATG-TATA
13499615 TTATTTTATGTATA
1 -TATTTTATGTATA
13499629 TATTTT
1 TATTTT
13499635 CTTTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 10 0.32
14 5 0.16
15 6 0.19
16 6 0.19
17 4 0.13
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (13 bp):
TATTTTATGTATA
Found at i:13500789 original size:13 final size:13
Alignment explanation
Indices: 13500771--13500801 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
13500761 AATTAATCAA
13500771 TTAGGTATCAATT
1 TTAGGTATCAATT
13500784 TTAGGTATCAATT
1 TTAGGTATCAATT
13500797 TTAGG
1 TTAGG
13500802 CGTTGCGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (13 bp):
TTAGGTATCAATT
Found at i:13506133 original size:23 final size:24
Alignment explanation
Indices: 13506107--13506158 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
13506097 TTCTAGTGTG
* *
13506107 AAAATAATT-ATAGCCTAATATAA
1 AAAATAATTCAAAGCCTAACATAA
* *
13506130 AAAAAAATTCAAATCCTAACATAA
1 AAAATAATTCAAAGCCTAACATAA
13506154 AAAAT
1 AAAAT
13506159 TTTCCAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAATAATTCAAAGCCTAACATAA
Found at i:13507725 original size:16 final size:16
Alignment explanation
Indices: 13507706--13507767 Score: 90
Period size: 16 Copynumber: 3.9 Consensus size: 16
13507696 TGTGAATAAT
13507706 AAAATATATAAAATAT-
1 AAAATAT-TAAAATATC
13507722 AAAATATTAAAATATC
1 AAAATATTAAAATATC
*
13507738 AAAATATCAAAATATC
1 AAAATATTAAAATATC
*
13507754 AAAATATTAGAATA
1 AAAATATTAAAATA
13507768 ATAATAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
15 8 0.19
16 34 0.81
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAATATTAAAATATC
Done.