Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 63 of 89
Found at i:14708329 original size:6 final size:6
Alignment explanation
Indices: 14708318--14708371 Score: 58
Period size: 6 Copynumber: 9.0 Consensus size: 6
14708308 GATGTATGAG
* *
14708318 TCTTTT TC-TTT TCTTTT TCTTTT TCTTCGT TCTTTT TCTCTTT T-TGTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT TCT-TTT TCTTTT
14708366 TCTTTT
1 TCTTTT
14708372 GTTGCAGCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 8 0.20
6 23 0.57
7 9 0.22
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.78
Consensus pattern (6 bp):
TCTTTT
Found at i:14708352 original size:19 final size:17
Alignment explanation
Indices: 14708318--14708371 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 17
14708308 GATGTATGAG
14708318 TCTTTTTCTTTTCTTTT
1 TCTTTTTCTTTTCTTTT
14708335 TCTTTTTCTTCGTTCTTTT
1 TCTTTTTCTT--TTCTTTT
14708354 TCTCTTTT-TGTTTCTTTT
1 TCT-TTTTCT-TTTCTTTT
14708372 GTTGCAGCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
17 10 0.30
18 7 0.21
19 11 0.33
20 5 0.15
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.78
Consensus pattern (17 bp):
TCTTTTTCTTTTCTTTT
Found at i:14710915 original size:23 final size:25
Alignment explanation
Indices: 14710880--14710933 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
14710870 AAATGCAGCA
*
14710880 AAGAAAATCAAAGCACTC-AAAA-G
1 AAGAAAATCAAAGCACCCAAAAAGG
* *
14710903 AAGAAATTGAAAGCACCCAAAAAGG
1 AAGAAAATCAAAGCACCCAAAAAGG
14710928 AAGAAA
1 AAGAAA
14710934 GAGAAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 15 0.58
24 4 0.15
25 7 0.27
ACGTcount: A:0.61, C:0.15, G:0.17, T:0.07
Consensus pattern (25 bp):
AAGAAAATCAAAGCACCCAAAAAGG
Found at i:14710939 original size:25 final size:23
Alignment explanation
Indices: 14710889--14710939 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
14710879 AAAGAAAATC
* **
14710889 AAAGCACTCAAAAGAAGAAATTG
1 AAAGCACCCAAAAGAAGAAAGAG
14710912 AAAGCACCCAAAAAGGAAGAAAGAG
1 AAAGCACCC-AAAA-GAAGAAAGAG
14710937 AAA
1 AAA
14710940 AGAACAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.35
24 4 0.17
25 11 0.48
ACGTcount: A:0.61, C:0.14, G:0.20, T:0.06
Consensus pattern (23 bp):
AAAGCACCCAAAAGAAGAAAGAG
Found at i:14714022 original size:19 final size:21
Alignment explanation
Indices: 14713998--14714049 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
14713988 CGGCCAAGAG
*
14713998 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
14714017 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
14714038 CATGTATTTTCA
1 CATGTATTTTCA
14714050 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:14714878 original size:19 final size:21
Alignment explanation
Indices: 14714835--14714886 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
14714825 GAAACCCCTT
14714835 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
14714856 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
14714875 TGAATATACATG
1 TGAAAATACATG
14714887 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:14717170 original size:11 final size:10
Alignment explanation
Indices: 14717155--14717189 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
14717145 ATTTTCTGAA
14717155 TTTTTTTTCT
1 TTTTTTTTCT
14717165 TCTTTTTTTCT
1 T-TTTTTTTCT
*
14717176 TTTTCTTTCT
1 TTTTTTTTCT
14717186 TTTT
1 TTTT
14717190 GCACTCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:14717934 original size:19 final size:21
Alignment explanation
Indices: 14717893--14717944 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
14717883 GAAACCCCTT
14717893 TGAAAATACATGATATTTAAA
1 TGAAAATACATGATATTTAAA
*
14717914 TGAAACTACATGAT-TTT-AA
1 TGAAAATACATGATATTTAAA
*
14717933 TGAATATACATG
1 TGAAAATACATG
14717945 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATATTTAAA
Found at i:14720016 original size:24 final size:24
Alignment explanation
Indices: 14719975--14720024 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
14719965 TATGTCTCTA
*
14719975 GAAGTTCAAAAAGATGTG-TCACTT
1 GAAGTGCAAAAAGATGTGATCA-TT
* *
14719999 GAAGTGCAACAAGTTGTGATCATT
1 GAAGTGCAAAAAGATGTGATCATT
14720023 GA
1 GA
14720025 GTCTCCAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (24 bp):
GAAGTGCAAAAAGATGTGATCATT
Found at i:14725526 original size:6 final size:6
Alignment explanation
Indices: 14725515--14725563 Score: 66
Period size: 6 Copynumber: 8.2 Consensus size: 6
14725505 GATGTAGGAG
14725515 TCTTTT TC-TTT TC-TTT TCTTTT TCTTTT TCTTCTT TCTTTT TCTCTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT TCT-TTT
14725563 T
1 T
14725564 TGTCTCTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.25
6 20 0.50
7 10 0.25
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:14725536 original size:16 final size:18
Alignment explanation
Indices: 14725515--14725558 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
14725505 GATGTAGGAG
14725515 TCTTTTTCTTTTC-T-TT
1 TCTTTTTCTTTTCTTCTT
14725531 TCTTTTTCTTTTTCTTCTT
1 TCTTTTTC-TTTTCTTCTT
14725550 TCTTTTTCT
1 TCTTTTTCT
14725559 CTTTTTGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
17 5 0.20
18 2 0.08
19 10 0.40
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TCTTTTTCTTTTCTTCTT
Found at i:14725556 original size:25 final size:24
Alignment explanation
Indices: 14725515--14725564 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 24
14725505 GATGTAGGAG
14725515 TCTTTTTCT-TTTCTTT-TCTTTT
1 TCTTTTTCTCTTTCTTTCTCTTTT
14725537 TCTTTTTCTTCTTTCTTTTTCTCTTTT
1 TCTTTTTC-TCTTTC--TTTCTCTTTT
14725564 T
1 T
14725565 GTCTCTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.35
23 1 0.04
24 4 0.17
26 3 0.13
27 7 0.30
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TCTTTTTCTCTTTCTTTCTCTTTT
Found at i:14729575 original size:19 final size:19
Alignment explanation
Indices: 14729551--14729589 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
14729541 TTCGGCCAAG
14729551 GATTTTAATGAAAATACAT
1 GATTTTAATGAAAATACAT
*
14729570 GATTTTAATGAAGATACAT
1 GATTTTAATGAAAATACAT
14729589 G
1 G
14729590 CTCTTGGACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (19 bp):
GATTTTAATGAAAATACAT
Found at i:14729617 original size:11 final size:11
Alignment explanation
Indices: 14729601--14729625 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14729591 TCTTGGACGA
14729601 ATGGAGTGCAC
1 ATGGAGTGCAC
14729612 ATGGAGTGCAC
1 ATGGAGTGCAC
14729623 ATG
1 ATG
14729626 TTTGAATGAT
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:0.28, C:0.16, G:0.36, T:0.20
Consensus pattern (11 bp):
ATGGAGTGCAC
Found at i:14732866 original size:19 final size:19
Alignment explanation
Indices: 14732844--14732900 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
14732834 TTTTGGATTT
14732844 TTCTTTTTCTTTTCTTTTC
1 TTCTTTTTCTTTTCTTTTC
*
14732863 TTC-TTTTCTGATTT-TTCTC
1 TTCTTTTTCT--TTTCTTTTC
14732882 TTCTTTTCTCTTTTTCTTT
1 TTCTTTT-TC-TTTTCTTT
14732901 CTTTTTGCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
18 6 0.20
19 10 0.33
20 9 0.30
21 4 0.13
22 1 0.03
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (19 bp):
TTCTTTTTCTTTTCTTTTC
Found at i:14732868 original size:33 final size:32
Alignment explanation
Indices: 14732829--14732900 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
14732819 CTTGGCTTGC
*
14732829 TTTCTTTT-TGGATTTTTCTTTTTCTTTTCT-TT
1 TTTCTTTTCT-GATTTTTC-TCTTCTTTTCTCTT
14732861 TCTTCTTTTCTGATTTTTCTCTTCTTTTCTCTT
1 T-TTCTTTTCTGATTTTTCTCTTCTTTTCTCTT
14732894 TTTCTTT
1 TTTCTTT
14732901 CTTTTTGCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
32 17 0.47
33 18 0.50
34 1 0.03
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.75
Consensus pattern (32 bp):
TTTCTTTTCTGATTTTTCTCTTCTTTTCTCTT
Found at i:14732905 original size:27 final size:27
Alignment explanation
Indices: 14732843--14732905 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
14732833 TTTTTGGATT
*
14732843 TTTCTTTTTCTTTTCTTTTCTTCTTTTC
1 TTTC-TTTTCTCTTCTTTTCTTCTTTTC
*
14732871 TGAT-TTTTCTCTTCTTTTC-TCTTTTTC
1 T-TTCTTTTCTCTTCTTTTCTTC-TTTTC
14732898 TTTCTTTT
1 TTTCTTTT
14732906 TGCACTCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
26 3 0.10
27 24 0.83
28 1 0.03
29 1 0.03
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (27 bp):
TTTCTTTTCTCTTCTTTTCTTCTTTTC
Found at i:14733671 original size:19 final size:21
Alignment explanation
Indices: 14733623--14733674 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
14733613 GAAACCCCTT
*
14733623 TGAAAATACATGATTTCTTGA
1 TGAAAATACATGATTTCTTAA
14733644 TGAAAATACATGA-TT-TTAA
1 TGAAAATACATGATTTCTTAA
*
14733663 TGAAGATACATG
1 TGAAAATACATG
14733675 CTATTAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.48
20 2 0.07
21 13 0.45
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTCTTAA
Found at i:14735565 original size:6 final size:6
Alignment explanation
Indices: 14735554--14735590 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
14735544 CATGTAGGAG
14735554 TCTTTT TC-TTT TCTTTT TCTTTT TCTTCTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT T
14735591 ATCTTTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TCTTTT
Found at i:14736419 original size:19 final size:20
Alignment explanation
Indices: 14736381--14736423 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
14736371 GAAACCCTTT
*
14736381 TGAAAACACATGATTTTTAA
1 TGAAAACACATGAATTTTAA
*
14736401 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
14736420 TGAA
1 TGAA
14736424 GATAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:14741072 original size:186 final size:183
Alignment explanation
Indices: 14740757--14741126 Score: 623
Period size: 186 Copynumber: 2.0 Consensus size: 183
14740747 GTTTCAAGTT
14740757 GCTTCTTCCACCAAGGCTCTGATACTAAATACGATCCGATCTACCTTATCGAATGATTATGGATA
1 GCTTCTTCCACCAAGGCTCTGATACTAAATACGATCCGATCTACCTTATCGAATGATTATGGATA
* * * *
14740822 TAGGAAATAAGCAAAATAACCTGCATAAAATAAATGGTAACAAATGGATAGTTTAATCTGGTAAA
66 TAGGAAAGAAGCAAAACAACCTGCATAAAATAAATGGCAACAAATGGATAGTTTAAGCTGGTAAA
14740887 TGGTTAGGTAAATGGTCGTTTTAAGGGATGGTAGCGGAAGACGTTTGGTTGTG
131 TGGTTAGGTAAATGGTCGTTTTAAGGGATGGTAGCGGAAGACGTTTGGTTGTG
* *
14740940 GCTTCTTCCACCAAGGCTCTGATACCATATGATACGATCCGATCTACCTTATCGAATGATTGTGG
1 GCTTCTTCCACCAAGGCTCTGATA-C-TA-AATACGATCCGATCTACCTTATCGAATGATTATGG
* *
14741005 ATATAGGAAAGAAGCAAAGCAACCTGCATAAAATAAATGGCAACAAATGGATAGTTTAAGGTGGT
63 ATATAGGAAAGAAGCAAAACAACCTGCATAAAATAAATGGCAACAAATGGATAGTTTAAGCTGGT
* *
14741070 AAATGTTTTGGTAAATGGTCGTTTTAAGGGATGGTAGCGGAAGACGTTTGGTTGTG
128 AAATGGTTAGGTAAATGGTCGTTTTAAGGGATGGTAGCGGAAGACGTTTGGTTGTG
14741126 G
1 G
14741127 TTATGAAATG
Statistics
Matches: 174, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
183 24 0.14
184 1 0.01
185 2 0.01
186 147 0.84
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (183 bp):
GCTTCTTCCACCAAGGCTCTGATACTAAATACGATCCGATCTACCTTATCGAATGATTATGGATA
TAGGAAAGAAGCAAAACAACCTGCATAAAATAAATGGCAACAAATGGATAGTTTAAGCTGGTAAA
TGGTTAGGTAAATGGTCGTTTTAAGGGATGGTAGCGGAAGACGTTTGGTTGTG
Found at i:14742765 original size:186 final size:185
Alignment explanation
Indices: 14742448--14742818 Score: 643
Period size: 186 Copynumber: 2.0 Consensus size: 185
14742438 GTTGCAAGTT
14742448 TCTTCTTCCACCAAGGCTCTGTACCATATGATACGATCCGATCTGCCTTATCGAATGATTGTGGA
1 TCTTCTTCCACCAAGGCTCTGTACCATATGATACGATCCGATCTGCCTTATCGAATGATTGTGGA
* * *
14742513 TATAGGAAATAAGCAAAACAACCTGCATAAAATAAATGGTAACAAATGGATAGTTTAAGCTGGTA
66 TATAGGAAAGAAGAAAAACAACCTGCATAAAATAAATAGTAACAAATGGATAGTTTAAGCTGGTA
*
14742578 AATGTTAAGGTAAATGGTCGTTTTAAGGGACGGTAGTGGAAGACGTTTGGTTGTG
131 AATGTTAAGGTAAATGGTCGTTTTAAGGGACGGTAGCGGAAGACGTTTGGTTGTG
14742633 TCTTCTTCCACCAAGGCTCTGATACCATATGATACGATCCGATCTGCCTTATCGAATGATTGTGG
1 TCTTCTTCCACCAAGGCTCTG-TACCATATGATACGATCCGATCTGCCTTATCGAATGATTGTGG
* * *
14742698 ATATAGGAAAGACGAAAAACAACCTGCATAAAATAAATAGTAAGAAATGGATAGTTTAAGGTGGT
65 ATATAGGAAAGAAGAAAAACAACCTGCATAAAATAAATAGTAACAAATGGATAGTTTAAGCTGGT
* * *
14742763 AAATGTTATGGTAAATGGTTGTTTTAAGGGATGGTAGCGGAAGACGTTTGGTTGTG
130 AAATGTTAAGGTAAATGGTCGTTTTAAGGGACGGTAGCGGAAGACGTTTGGTTGTG
14742819 GATATGAAAT
Statistics
Matches: 175, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
185 21 0.12
186 154 0.88
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (185 bp):
TCTTCTTCCACCAAGGCTCTGTACCATATGATACGATCCGATCTGCCTTATCGAATGATTGTGGA
TATAGGAAAGAAGAAAAACAACCTGCATAAAATAAATAGTAACAAATGGATAGTTTAAGCTGGTA
AATGTTAAGGTAAATGGTCGTTTTAAGGGACGGTAGCGGAAGACGTTTGGTTGTG
Found at i:14750280 original size:19 final size:20
Alignment explanation
Indices: 14750256--14750302 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
14750246 CGGCCAAGAG
14750256 CATGTATCTCAATT-AAAAT
1 CATGTATCTCAATTAAAAAT
* *
14750275 CATGTATTTTCATTTAAAAAT
1 CATGTA-TCTCAATTAAAAAT
14750296 CATGTAT
1 CATGTAT
14750303 TTTCAAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 7 0.29
21 11 0.46
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATCTCAATTAAAAAT
Found at i:14751074 original size:19 final size:20
Alignment explanation
Indices: 14751019--14751077 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
14751009 GAGTGCAAAA
14751019 AGAAAGAAAAAGACAAAAGAAG
1 AGAAAG-AAAAGA-AAAAGAAG
*
14751041 AGAAA-AATCAG-AAAAGAAG
1 AGAAAGAA-AAGAAAAAGAAG
14751060 A-AAAGAAAAGAAAAAGAA
1 AGAAAGAAAAGAAAAAGAA
14751078 AAATTCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 5 0.16
19 18 0.56
20 2 0.06
21 2 0.06
22 5 0.16
ACGTcount: A:0.75, C:0.03, G:0.20, T:0.02
Consensus pattern (20 bp):
AGAAAGAAAAGAAAAAGAAG
Found at i:14754299 original size:19 final size:21
Alignment explanation
Indices: 14754275--14754326 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
14754265 CGGCCAAGAG
*
14754275 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
14754294 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
14754315 CATGTATTTTCA
1 CATGTATTTTCA
14754327 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:14756806 original size:16 final size:16
Alignment explanation
Indices: 14756774--14756821 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
14756764 AAGGTAATGA
14756774 AATAAGAATAGATGAAAG
1 AATAAGAA-A-ATGAAAG
*
14756792 AATAAGAAAATGAAAT
1 AATAAGAAAATGAAAG
* *
14756808 AGTAAGAAAGTGAA
1 AATAAGAAAATGAA
14756822 GATAACTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 18 0.67
17 1 0.04
18 8 0.30
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (16 bp):
AATAAGAAAATGAAAG
Found at i:14757041 original size:12 final size:12
Alignment explanation
Indices: 14757024--14757060 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
14757014 TGTAAGAGTC
14757024 TTTTTCTTTTTG
1 TTTTTCTTTTTG
14757036 TTTTTCTTCTTTG
1 TTTTTCTT-TTTG
14757049 TTTTTCTCTTTT
1 TTTTTCT-TTTT
14757061 TGTTGCAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 14 0.61
14 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (12 bp):
TTTTTCTTTTTG
Found at i:14757048 original size:13 final size:13
Alignment explanation
Indices: 14757024--14757059 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
14757014 TGTAAGAGTC
14757024 TTTTTCTT-TTTG
1 TTTTTCTTCTTTG
14757036 TTTTTCTTCTTTG
1 TTTTTCTTCTTTG
14757049 TTTTTC-TCTTT
1 TTTTTCTTCTTT
14757060 TTGTTGCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.81
Consensus pattern (13 bp):
TTTTTCTTCTTTG
Found at i:14761692 original size:25 final size:24
Alignment explanation
Indices: 14761648--14761700 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
14761638 TTTGAACTTC
*
14761648 TTTTTCTTTTCTTCTATTCTATTTT
1 TTTTTCTTTTCTTCTATTCT-TTCT
*
14761673 TTTTTCTTTT-TGTCTTTTCTTTCT
1 TTTTTCTTTTCT-TCTATTCTTTCT
14761697 TTTT
1 TTTT
14761701 GCACTCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (24 bp):
TTTTTCTTTTCTTCTATTCTTTCT
Found at i:14763048 original size:119 final size:120
Alignment explanation
Indices: 14762837--14763075 Score: 471
Period size: 119 Copynumber: 2.0 Consensus size: 120
14762827 TCAGCTCAAT
14762837 CTAGCTATGAGCTCACGGCCTCCGGATAACTTTTCACTAATTGTTCCTTGTGCTCTCCTATTCGA
1 CTAGCTATGAGCTCACGGCCTCCGGATAACTTTTCACTAATTGTTCCTTGTGCTCTCCTATTCGA
14762902 TCCCATGTAAGTTTCCTTGTTGTTACATGCTCCATTTAGCTCCAATA-AGCTCCC
66 TCCCATGTAAGTTTCCTTGTTGTTACATGCTCCATTTAGCTCCAATACAGCTCCC
14762956 CTAGCTATGAGCTCACGGCCTCCGGATAACTTTTCACTAATTGTTCCTTGTGCTCTCCTATTCGA
1 CTAGCTATGAGCTCACGGCCTCCGGATAACTTTTCACTAATTGTTCCTTGTGCTCTCCTATTCGA
14763021 TCCCATGTAAGTTTCCTTGTTGTTACATGCTCCATTTAGCTCCAATACAGCTCCC
66 TCCCATGTAAGTTTCCTTGTTGTTACATGCTCCATTTAGCTCCAATACAGCTCCC
14763076 AAGTGTTGGT
Statistics
Matches: 119, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 112 0.94
120 7 0.06
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (120 bp):
CTAGCTATGAGCTCACGGCCTCCGGATAACTTTTCACTAATTGTTCCTTGTGCTCTCCTATTCGA
TCCCATGTAAGTTTCCTTGTTGTTACATGCTCCATTTAGCTCCAATACAGCTCCC
Found at i:14764985 original size:19 final size:20
Alignment explanation
Indices: 14764961--14765000 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
14764951 TATCCTTTCT
14764961 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
14764980 TTATTTCATTTCATTACTTA
1 TTATTTCATTTCATTACTTA
14765000 T
1 T
14765001 ATTATTATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:14765298 original size:8 final size:8
Alignment explanation
Indices: 14765287--14765311 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14765277 GAGAAAAATC
14765287 AGAAAAGA
1 AGAAAAGA
14765295 AGAAAAGA
1 AGAAAAGA
14765303 AGAAAAGA
1 AGAAAAGA
14765311 A
1 A
14765312 AAGAAAAAGA
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:0.24, T:0.00
Consensus pattern (8 bp):
AGAAAAGA
Found at i:14767468 original size:19 final size:21
Alignment explanation
Indices: 14767444--14767489 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
14767434 TTCGGCCAAG
14767444 ATCATGTATCTTCA-TT-AAA
1 ATCATGTATCTTCATTTAAAA
*
14767463 ATCATGTATTTTCATTTAAAA
1 ATCATGTATCTTCATTTAAAA
14767484 ATCATG
1 ATCATG
14767490 CATTTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.54
20 2 0.08
21 9 0.38
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (21 bp):
ATCATGTATCTTCATTTAAAA
Found at i:14767486 original size:21 final size:19
Alignment explanation
Indices: 14767444--14767497 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 19
14767434 TTCGGCCAAG
*
14767444 ATCATGTATCTTCATTAAA
1 ATCATGTATTTTCATTAAA
14767463 ATCATGTATTTTCATTTAAAA
1 ATCATGTATTTTCA-TT-AAA
*
14767484 ATCATGCATTTTCA
1 ATCATGTATTTTCA
14767498 AAGGGGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 13 0.42
20 2 0.06
21 16 0.52
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (19 bp):
ATCATGTATTTTCATTAAA
Found at i:14767922 original size:19 final size:19
Alignment explanation
Indices: 14767898--14767939 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
14767888 ATCCTTTCTT
14767898 TATTTCATTTCATT-CTTAA
1 TATTTCATTTCATTACTT-A
14767917 TATTTCATTTCATTACTTA
1 TATTTCATTTCATTACTTA
14767936 TATT
1 TATT
14767940 ATTATCCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTCATTTCATTACTTA
Found at i:14769224 original size:25 final size:25
Alignment explanation
Indices: 14769196--14769250 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
14769186 TTGAGGACAT
14769196 GAGGAAAGGAAAATTGAAGTTAATA
1 GAGGAAAGGAAAATTGAAGTTAATA
14769221 GAGGAAAGGAAAATTGAAGTTAATA
1 GAGGAAAGGAAAATTGAAGTTAATA
14769246 GAGGA
1 GAGGA
14769251 GGAAACCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.18
Consensus pattern (25 bp):
GAGGAAAGGAAAATTGAAGTTAATA
Found at i:14772977 original size:19 final size:20
Alignment explanation
Indices: 14772953--14772992 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
14772943 TATCCTTTCT
14772953 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
14772972 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
14772992 T
1 T
14772993 ATTATTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:14773902 original size:19 final size:20
Alignment explanation
Indices: 14773864--14773906 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
14773854 AAAACCCCTT
*
14773864 TGAAAACACATGATTTTTAA
1 TGAAAACACATGAATTTTAA
*
14773884 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
14773903 TGAA
1 TGAA
14773907 GATAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:14776438 original size:30 final size:30
Alignment explanation
Indices: 14776404--14776461 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
14776394 CCTCCATCGA
14776404 TGATCATGAAACAAACTTTGTTATGTACGT
1 TGATCATGAAACAAACTTTGTTATGTACGT
14776434 TGATCATGAAACAAACTTTGTTATGTAC
1 TGATCATGAAACAAACTTTGTTATGTAC
14776462 ATGACAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (30 bp):
TGATCATGAAACAAACTTTGTTATGTACGT
Found at i:14776921 original size:18 final size:18
Alignment explanation
Indices: 14776894--14776941 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
14776884 AAAAAGGTTT
* *
14776894 AAGAAAAGGATAAGGT-A
1 AAGAAAAGGAAAAGATGA
14776911 AAGAAATAGGAAAAGATGA
1 AAGAAA-AGGAAAAGATGA
*
14776930 AAGAAAAAGAAA
1 AAGAAAAGGAAA
14776942 TGAAATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.23
18 13 0.50
19 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (18 bp):
AAGAAAAGGAAAAGATGA
Found at i:14777173 original size:6 final size:6
Alignment explanation
Indices: 14777162--14777216 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
14777152 GATGTAGGAG
*
14777162 TCTTTT TC-TTT TCTTTT TCTTTT TCTTCTT TTTTTGT TCTCTTT T-TTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTT-T TCT-TTT TCTTTT
*
14777211 GCTTTT
1 TCTTTT
14777217 GTTGCAGCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
5 8 0.20
6 21 0.51
7 10 0.24
8 2 0.05
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:14777191 original size:26 final size:25
Alignment explanation
Indices: 14777162--14777210 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
14777152 GATGTAGGAG
*
14777162 TCTTTTTCTT-TTCTTTTTCTTTTTCT
1 TCTTTTT-TTGTTCTCTTT-TTTTTCT
14777188 TCTTTTTTTGTTCTCTTTTTTTT
1 TCTTTTTTTGTTCTCTTTTTTTT
14777211 GCTTTTGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (25 bp):
TCTTTTTTTGTTCTCTTTTTTTTCT
Found at i:14777192 original size:20 final size:21
Alignment explanation
Indices: 14777167--14777206 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14777157 AGGAGTCTTT
14777167 TTCTTTTCTTT-TTCT-TTTTC
1 TTCTTTT-TTTGTTCTCTTTTC
14777187 TTCTTTTTTTGTTCTCTTTT
1 TTCTTTTTTTGTTCTCTTTT
14777207 TTTTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 11 0.61
21 4 0.22
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (21 bp):
TTCTTTTTTTGTTCTCTTTTC
Found at i:14777201 original size:14 final size:14
Alignment explanation
Indices: 14777172--14777209 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
14777162 TCTTTTTCTT
*
14777172 TTCTTTTTCTTTTTC
1 TTCTTTTT-TTGTTC
14777187 TTCTTTTTTTGTTC
1 TTCTTTTTTTGTTC
14777201 -TCTTTTTTT
1 TTCTTTTTTT
14777210 TGCTTTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 5 0.23
15 8 0.36
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (14 bp):
TTCTTTTTTTGTTC
Found at i:14779033 original size:14 final size:14
Alignment explanation
Indices: 14779002--14779041 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
14778992 ATGGGAGTGA
*
14779002 ATGGTGATGG-AGG
1 ATGGTGATGGAAAG
14779015 ATGGTGATGGAAAG
1 ATGGTGATGGAAAG
14779029 ATGGTGATGGAAA
1 ATGGTGATGGAAA
14779042 TAGTATCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.45, T:0.23
Consensus pattern (14 bp):
ATGGTGATGGAAAG
Found at i:14779412 original size:19 final size:20
Alignment explanation
Indices: 14779374--14779416 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
14779364 AAAACCCCAT
*
14779374 TGAAAACACATGATTTTTAA
1 TGAAAACACATGAATTTTAA
*
14779394 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
14779413 TGAA
1 TGAA
14779417 GATAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:14780354 original size:170 final size:177
Alignment explanation
Indices: 14780071--14780418 Score: 638
Period size: 170 Copynumber: 2.0 Consensus size: 177
14780061 GGGGTCAGCT
14780071 ATGATCTCCCGAGTCATCCTATGTAAGTTTTCCTAGCTCCTTGTCCTTAGTTAAGCTCAAATTTA
1 ATGATCTCCCGAGTCATCCTATGTAAGTTTTCCTAGCTCCTTGTCCTTAGTTAAGCTCAAATTTA
14780136 GCTCCCATCATGTAGCCGAATATGCACCTACAAATGAAAGCATAATATAAGCTAAGTATTT-AAG
66 GCTCCCATCATGTAGCCGAATATGCACCTACAAATGAAAGCATAATATAAGCTAAGTATTTAAAG
14780200 TAAATAA-TAT-A-A-AAAGATGTGAACTATAGA-TATAATAATAAC
131 TAAATAACTATAATATAAAGATGTGAACTATAGATTATAATAATAAC
14780242 ATGATCTCCCGAGTCA-CCTATGTAAGTTTTCCTAGCTCCTTGTCCTTAGTTAAGCTCAAATTTA
1 ATGATCTCCCGAGTCATCCTATGTAAGTTTTCCTAGCTCCTTGTCCTTAGTTAAGCTCAAATTTA
14780306 GCTCCCATCATGTAGCCGAATATGCACCTACAAATGAAAGCATAATATAAGCTAAGTATTTAAAG
66 GCTCCCATCATGTAGCCGAATATGCACCTACAAATGAAAGCATAATATAAGCTAAGTATTTAAAG
14780371 TAAATAACTTATAATATAAAGATGTGAACTATAGATTATAATAATAAC
131 TAAATAAC-TATAATATAAAGATGTGAACTATAGATTATAATAATAAC
14780419 TCATGCATCA
Statistics
Matches: 170, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
170 109 0.64
171 26 0.15
173 3 0.02
174 1 0.01
175 1 0.01
176 18 0.11
177 12 0.07
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.31
Consensus pattern (177 bp):
ATGATCTCCCGAGTCATCCTATGTAAGTTTTCCTAGCTCCTTGTCCTTAGTTAAGCTCAAATTTA
GCTCCCATCATGTAGCCGAATATGCACCTACAAATGAAAGCATAATATAAGCTAAGTATTTAAAG
TAAATAACTATAATATAAAGATGTGAACTATAGATTATAATAATAAC
Found at i:14782282 original size:21 final size:22
Alignment explanation
Indices: 14782237--14782282 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
14782227 AAAATAAATT
*
14782237 AAAACCTTACCAGTACACTCAC
1 AAAACCTCACCAGTACACTCAC
14782259 AAAACCTCA-CAGTATCACTC-C
1 AAAACCTCACCAGTA-CACTCAC
14782280 AAA
1 AAA
14782283 GAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.43, C:0.35, G:0.04, T:0.17
Consensus pattern (22 bp):
AAAACCTCACCAGTACACTCAC
Found at i:14792503 original size:20 final size:22
Alignment explanation
Indices: 14792464--14792509 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
14792454 TTTCAAGAAA
*
14792464 AAAAAACAAAACAAAAAAAGGC
1 AAAAAACAAAACAAAAAAAGAC
14792486 AAAAAA-AAAAC-AAAAAAGAC
1 AAAAAACAAAACAAAAAAAGAC
14792506 AAAA
1 AAAA
14792510 TTTCAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 5 0.22
22 6 0.26
ACGTcount: A:0.83, C:0.11, G:0.07, T:0.00
Consensus pattern (22 bp):
AAAAAACAAAACAAAAAAAGAC
Found at i:14811524 original size:158 final size:158
Alignment explanation
Indices: 14811236--14811551 Score: 632
Period size: 158 Copynumber: 2.0 Consensus size: 158
14811226 AATTCTCCCA
14811236 TCTTTCGAATGAAATACGGACAACAAAGGAAGAATCCATTTCATACTCGTTTTCATGTGAATGAT
1 TCTTTCGAATGAAATACGGACAACAAAGGAAGAATCCATTTCATACTCGTTTTCATGTGAATGAT
14811301 AACGTATGCCTTGTAGCCTTGATGGTAGTAGTTGTGCAAATCTTGCAAGTACATACATGGTTGAG
66 AACGTATGCCTTGTAGCCTTGATGGTAGTAGTTGTGCAAATCTTGCAAGTACATACATGGTTGAG
14811366 AAGTTGGGGCTTATAACATTCAAACATC
131 AAGTTGGGGCTTATAACATTCAAACATC
14811394 TCTTTCGAATGAAATACGGACAACAAAGGAAGAATCCATTTCATACTCGTTTTCATGTGAATGAT
1 TCTTTCGAATGAAATACGGACAACAAAGGAAGAATCCATTTCATACTCGTTTTCATGTGAATGAT
14811459 AACGTATGCCTTGTAGCCTTGATGGTAGTAGTTGTGCAAATCTTGCAAGTACATACATGGTTGAG
66 AACGTATGCCTTGTAGCCTTGATGGTAGTAGTTGTGCAAATCTTGCAAGTACATACATGGTTGAG
14811524 AAGTTGGGGCTTATAACATTCAAACATC
131 AAGTTGGGGCTTATAACATTCAAACATC
14811552 GCAGTCCATA
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (158 bp):
TCTTTCGAATGAAATACGGACAACAAAGGAAGAATCCATTTCATACTCGTTTTCATGTGAATGAT
AACGTATGCCTTGTAGCCTTGATGGTAGTAGTTGTGCAAATCTTGCAAGTACATACATGGTTGAG
AAGTTGGGGCTTATAACATTCAAACATC
Found at i:14823217 original size:27 final size:27
Alignment explanation
Indices: 14823186--14823238 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
14823176 GTTTTTAAAA
*
14823186 GGACATGTTGCCAACCATTGTCCCAAC
1 GGACATGTTGCCAACCAATGTCCCAAC
14823213 GGACATGTTGCCAACCAATGTCCCAA
1 GGACATGTTGCCAACCAATGTCCCAA
14823239 TGGAAATGCT
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:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (27 bp):
GGACATGTTGCCAACCAATGTCCCAAC
Found at i:14837770 original size:2 final size:2
Alignment explanation
Indices: 14837763--14837811 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
14837753 TGGTAGCCGA
14837763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14837805 AT AT AT A
1 AT AT AT A
14837812 AGTTGGTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14839677 original size:16 final size:15
Alignment explanation
Indices: 14839633--14839677 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
14839623 CCTTTGGTAC
*
14839633 TTCTTTGTATTTTGCT
1 TTCTTTGT-TTTTCCT
*
14839649 TTCTTTTTTTTTCCT
1 TTCTTTGTTTTTCCT
14839664 TTCTTTAGTTTTTC
1 TTCTTT-GTTTTTC
14839678 TTCACTGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.04, C:0.16, G:0.07, T:0.73
Consensus pattern (15 bp):
TTCTTTGTTTTTCCT
Found at i:14840082 original size:144 final size:144
Alignment explanation
Indices: 14839821--14840113 Score: 480
Period size: 144 Copynumber: 2.0 Consensus size: 144
14839811 TGATTACCAT
* *
14839821 ATGATACAGTTCAACCTAGCCTCACTTAGATGGATGGTGAAGTTAAGGTTGTATCTTTGATTGTT
1 ATGATACAGTTCAACCTAGCCTCACTTAGATGGATGGTGAAGTCAAGGTTGTACCTTTGATTGTT
* * *
14839886 TCTATCTAGGAAAGCAACAAGGGTCTTGCACAAACAAGAAAGCTCAAAAAAATAGTTAAATGGAA
66 TCGATCTAGGAAAGCAACAAGGATCCTGCACAAACAAGAAAGCTCAAAAAAATAGTTAAATGGAA
14839951 GTAATGAAATGAAA
131 GTAATGAAATGAAA
*
14839965 ATGATACAGTTCAACCTAGCCTCACTTGGATGGATGGTGAAGTCAAGGTTGTACCTTTGATTGTT
1 ATGATACAGTTCAACCTAGCCTCACTTAGATGGATGGTGAAGTCAAGGTTGTACCTTTGATTGTT
* * * *
14840030 TCGGTCTAGGAAAGCAACAAGTATCCTGCACAAACAAGAAAGCTCAACAAAATAGTTAAATGGAC
66 TCGATCTAGGAAAGCAACAAGGATCCTGCACAAACAAGAAAGCTCAAAAAAATAGTTAAATGGAA
*
14840095 GTAATGAAATGGAA
131 GTAATGAAATGAAA
14840109 A-GATA
1 ATGATA
14840114 AATATGGCAG
Statistics
Matches: 138, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
143 4 0.03
144 134 0.97
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (144 bp):
ATGATACAGTTCAACCTAGCCTCACTTAGATGGATGGTGAAGTCAAGGTTGTACCTTTGATTGTT
TCGATCTAGGAAAGCAACAAGGATCCTGCACAAACAAGAAAGCTCAAAAAAATAGTTAAATGGAA
GTAATGAAATGAAA
Found at i:14848170 original size:11 final size:11
Alignment explanation
Indices: 14848147--14848195 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 11
14848137 CACCATCTTC
14848147 CATCACCATTAT
1 CATCACCA-TAT
14848159 CA-CACCTATAT
1 CATCACC-ATAT
14848170 CATCACCATAGT
1 CATCACCATA-T
14848182 CCATCACCATAT
1 -CATCACCATAT
14848194 CA
1 CA
14848196 CGCCTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 14 0.42
12 9 0.27
13 10 0.30
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.27
Consensus pattern (11 bp):
CATCACCATAT
Found at i:14848202 original size:35 final size:36
Alignment explanation
Indices: 14848135--14848212 Score: 113
Period size: 35 Copynumber: 2.2 Consensus size: 36
14848125 CAATCTGTTG
**
14848135 ATCACCATCTTCCATCACCATTATCACACCTATATC
1 ATCACCATAGTCCATCACCATTATCACACCTATATC
* *
14848171 ATCACCATAGTCCATCACCA-TATCACGCCTATATT
1 ATCACCATAGTCCATCACCATTATCACACCTATATC
14848206 ATCACCA
1 ATCACCA
14848213 ACTTCTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
35 20 0.53
36 18 0.47
ACGTcount: A:0.32, C:0.37, G:0.03, T:0.28
Consensus pattern (36 bp):
ATCACCATAGTCCATCACCATTATCACACCTATATC
Found at i:14848863 original size:16 final size:15
Alignment explanation
Indices: 14848824--14848880 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
14848814 GAGTTGTATG
14848824 TTATCTTCATTTTTCTTA
1 TTAT-TTCA-TTTT-TTA
*
14848842 TCATTTCATTTCTTTA
1 TTATTTCATTT-TTTA
* *
14848858 TTATTTCATCTTTTC
1 TTATTTCATTTTTTA
14848873 TTATTTCA
1 TTATTTCA
14848881 CTATCTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 11 0.32
16 15 0.44
17 5 0.15
18 3 0.09
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTTCATTTTTTA
Found at i:14860357 original size:148 final size:149
Alignment explanation
Indices: 14860089--14860389 Score: 595
Period size: 148 Copynumber: 2.0 Consensus size: 149
14860079 TTTGATTGTC
14860089 AAAATTATACAGAACAAAAGAAGGTTAGGCTTGCTGTTATGGAATTCGTGGACTATGCCTTAGTT
1 AAAATTATACAGAACAAAAGAAGGTTAGGCTTGCTGTTATGGAATTCGTGGACTATGCCTTAGTT
14860154 TGGTGGAACTAATTGGTAAGTTCAAGAAGACGAAATGGTGAACGCCCCATCACTACATAGGAAGA
66 TGGTGGAACTAATTGGTAAGTTCAAGAAGACGAAATGGTGAACGCCCCATCACTACATAGGAAGA
14860219 AATGAAAGCC-TTATGAGG
131 AATGAAAGCCATTATGAGG
14860237 AAAATTATACAGAACAAAAGAAGGTTAGGCTTGCTGTTATGGAATTCGTGGACTATGCCTTAGTT
1 AAAATTATACAGAACAAAAGAAGGTTAGGCTTGCTGTTATGGAATTCGTGGACTATGCCTTAGTT
14860302 TGGTGGAACTAATTGGTAAGTTCAAGAAGACGAAATGGTGAACGCCCCATCACTACATAGGAAGA
66 TGGTGGAACTAATTGGTAAGTTCAAGAAGACGAAATGGTGAACGCCCCATCACTACATAGGAAGA
14860367 AATGAAAGCCATTATGAGG
131 AATGAAAGCCATTATGAGG
14860386 AAAA
1 AAAA
14860390 GGTTCGTACC
Statistics
Matches: 152, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
148 140 0.92
149 12 0.08
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (149 bp):
AAAATTATACAGAACAAAAGAAGGTTAGGCTTGCTGTTATGGAATTCGTGGACTATGCCTTAGTT
TGGTGGAACTAATTGGTAAGTTCAAGAAGACGAAATGGTGAACGCCCCATCACTACATAGGAAGA
AATGAAAGCCATTATGAGG
Found at i:14866910 original size:2 final size:2
Alignment explanation
Indices: 14866903--14866927 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14866893 TGATATGGAA
14866903 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14866928 AGTTTGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14869149 original size:19 final size:20
Alignment explanation
Indices: 14869111--14869157 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
14869101 GAAACCCCTT
* *
14869111 TGAAAACACATGATTTTTAA
1 TGAAAATACATGAATTTTAA
14869131 TGAAAATACAT-AATTTTAA
1 TGAAAATACATGAATTTTAA
14869150 TGAAAATA
1 TGAAAATA
14869158 AATGTTCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (20 bp):
TGAAAATACATGAATTTTAA
Found at i:14874496 original size:20 final size:20
Alignment explanation
Indices: 14874471--14874511 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14874461 ATTTGTAAAC
14874471 GCTTGGCCGAATAGATATAT
1 GCTTGGCCGAATAGATATAT
14874491 GCTTGGCCGAATAGATATAT
1 GCTTGGCCGAATAGATATAT
14874511 G
1 G
14874512 GCTTTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (20 bp):
GCTTGGCCGAATAGATATAT
Found at i:14878412 original size:15 final size:15
Alignment explanation
Indices: 14878389--14878424 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
14878379 AATGAAAAGT
14878389 GAATGGAAATGGAAA
1 GAATGGAAATGGAAA
*
14878404 GAATTGAAATGGAAA
1 GAATGGAAATGGAAA
14878419 GGAATG
1 -GAATG
14878425 TTATCAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
GAATGGAAATGGAAA
Found at i:14878918 original size:20 final size:20
Alignment explanation
Indices: 14878893--14878933 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14878883 ATTTGTAAAC
14878893 GCTTGGCCGAATAGATATAT
1 GCTTGGCCGAATAGATATAT
14878913 GCTTGGCCGAATAGATATAT
1 GCTTGGCCGAATAGATATAT
14878933 G
1 G
14878934 GCTTTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (20 bp):
GCTTGGCCGAATAGATATAT
Found at i:14882874 original size:15 final size:15
Alignment explanation
Indices: 14882851--14882886 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
14882841 AATGAAAAGT
14882851 GAATGGAAATGGAAA
1 GAATGGAAATGGAAA
*
14882866 GAATTGAAATGGAAA
1 GAATGGAAATGGAAA
14882881 GGAATG
1 -GAATG
14882887 TTATCAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
GAATGGAAATGGAAA
Found at i:14883380 original size:20 final size:20
Alignment explanation
Indices: 14883355--14883395 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14883345 ATTTGTAAAC
14883355 GCTTGGCCGAATAGATATAT
1 GCTTGGCCGAATAGATATAT
14883375 GCTTGGCCGAATAGATATAT
1 GCTTGGCCGAATAGATATAT
14883395 G
1 G
14883396 GCTTTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (20 bp):
GCTTGGCCGAATAGATATAT
Found at i:14887336 original size:15 final size:15
Alignment explanation
Indices: 14887313--14887348 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
14887303 AATGAAAAGT
14887313 GAATGGAAATGGAAA
1 GAATGGAAATGGAAA
*
14887328 GAATTGAAATGGAAA
1 GAATGGAAATGGAAA
14887343 GGAATG
1 -GAATG
14887349 TTATCAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
GAATGGAAATGGAAA
Found at i:14887842 original size:20 final size:20
Alignment explanation
Indices: 14887817--14887857 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14887807 ATTTGTAAAC
14887817 GCTTGGCCGAATAGATATAT
1 GCTTGGCCGAATAGATATAT
14887837 GCTTGGCCGAATAGATATAT
1 GCTTGGCCGAATAGATATAT
14887857 G
1 G
14887858 GCTTTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (20 bp):
GCTTGGCCGAATAGATATAT
Found at i:14891800 original size:15 final size:15
Alignment explanation
Indices: 14891777--14891812 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
14891767 AATGAAAAGT
14891777 GAATGGAAATGGAAA
1 GAATGGAAATGGAAA
*
14891792 GAATTGAAATGGAAA
1 GAATGGAAATGGAAA
14891807 GGAATG
1 -GAATG
14891813 TTATCAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
GAATGGAAATGGAAA
Found at i:14892306 original size:20 final size:20
Alignment explanation
Indices: 14892281--14892321 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14892271 ATTTGTAAAC
14892281 GCTTGGCCGAATAGATATAT
1 GCTTGGCCGAATAGATATAT
14892301 GCTTGGCCGAATAGATATAT
1 GCTTGGCCGAATAGATATAT
14892321 G
1 G
14892322 GCTTTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (20 bp):
GCTTGGCCGAATAGATATAT
Found at i:14896269 original size:15 final size:15
Alignment explanation
Indices: 14896246--14896281 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
14896236 AATGAAAAGT
14896246 GAATGGAAATGGAAA
1 GAATGGAAATGGAAA
*
14896261 GAATTGAAATGGAAA
1 GAATGGAAATGGAAA
14896276 GGAATG
1 -GAATG
14896282 TTATCAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
GAATGGAAATGGAAA
Found at i:14897472 original size:22 final size:22
Alignment explanation
Indices: 14897446--14897489 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
14897436 CTGTCCCAGA
14897446 GTTGTCCTAGTCACTTTTCCTT
1 GTTGTCCTAGTCACTTTTCCTT
14897468 GTTGTCCTAGTCACTTTTCCTT
1 GTTGTCCTAGTCACTTTTCCTT
14897490 ATCTCATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.27, G:0.14, T:0.50
Consensus pattern (22 bp):
GTTGTCCTAGTCACTTTTCCTT
Found at i:14903518 original size:15 final size:15
Alignment explanation
Indices: 14903498--14903529 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14903488 AGGATAAGGT
14903498 AATGAAAGAAGAAAG
1 AATGAAAGAAGAAAG
*
14903513 AATGAAAGAATAAAG
1 AATGAAAGAAGAAAG
14903528 AA
1 AA
14903530 ACGAAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (15 bp):
AATGAAAGAAGAAAG
Found at i:14904535 original size:19 final size:20
Alignment explanation
Indices: 14904497--14904539 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
14904487 GAAACCCCTT
*
14904497 TGAAAACACATGATTTTTAA
1 TGAAAACACATGAATTTTAA
*
14904517 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
14904536 TGAA
1 TGAA
14904540 GATAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:14908767 original size:23 final size:25
Alignment explanation
Indices: 14908728--14908781 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
14908718 TTTCTTTATT
14908728 TTTCTTACTTTTTGAGTGCTTTCAA
1 TTTCTTACTTTTTGAGTGCTTTCAA
* *
14908753 TTTCTT-C-TTTTGAGTGCTTTGAT
1 TTTCTTACTTTTTGAGTGCTTTCAA
14908776 TTTCTT
1 TTTCTT
14908782 TGCTGTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 20 0.74
24 1 0.04
25 6 0.22
ACGTcount: A:0.11, C:0.15, G:0.13, T:0.61
Consensus pattern (25 bp):
TTTCTTACTTTTTGAGTGCTTTCAA
Found at i:14910482 original size:20 final size:20
Alignment explanation
Indices: 14910459--14910512 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
14910449 TGGAGTGCAG
14910459 AAAAGAAAAGAAAAA-AGATA
1 AAAAGAAAAGAAAAATAGA-A
*
14910479 AAAAGAAAA-AAAAATTGAA
1 AAAAGAAAAGAAAAATAGAA
14910498 AAGAAGAAAAGAAAA
1 AA-AAGAAAAGAAAA
14910513 GAAATTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 8 0.27
20 18 0.60
21 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATAGAA
Found at i:14910485 original size:25 final size:25
Alignment explanation
Indices: 14910457--14910516 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
14910447 ATTGGAGTGC
14910457 AGAAAAGAAAAGAAAAAAGATA-AAA
1 AGAAAAGAAAAGAAAAAAGA-AGAAA
* ***
14910482 AGAAAAAAAAATTGAAAAGAAGAAA
1 AGAAAAGAAAAGAAAAAAGAAGAAA
14910507 AGAAAAGAAA
1 AGAAAAGAAA
14910517 TTCAAAAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (25 bp):
AGAAAAGAAAAGAAAAAAGAAGAAA
Found at i:14915819 original size:6 final size:6
Alignment explanation
Indices: 14915805--14915839 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
14915795 TGTAGGAGTC
*
14915805 TTTTCT TTTTGT TTTTCT TCTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTT
14915840 GTTGCTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:14915834 original size:13 final size:12
Alignment explanation
Indices: 14915805--14915839 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
14915795 TGTAGGAGTC
*
14915805 TTTTCTTTTTGT
1 TTTTCTTTTTCT
14915817 TTTTCTTCTTTCT
1 TTTTCTT-TTTCT
14915830 TTTTCTTTTT
1 TTTTCTTTTT
14915840 GTTGCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:14916327 original size:36 final size:35
Alignment explanation
Indices: 14916231--14916339 Score: 116
Period size: 35 Copynumber: 3.1 Consensus size: 35
14916221 GGTGGTTATT
* * ** *
14916231 TAGGCGTGAAATGGTGATAGAAGATGGCAATGATA
1 TAGGCGTGAAATGGAGATGGAAGATGGTGATGTTA
14916266 TAGGCGTGCAAA-GGTA-ATGGAAGATGGTGATGTTA
1 TAGGCGTG-AAATGG-AGATGGAAGATGGTGATGTTA
*
14916301 TAGTCGTGAAAATGGAGATGGAAGATGGTGATGTT-
1 TAGGCGTG-AAATGGAGATGGAAGATGGTGATGTTA
14916336 TAGG
1 TAGG
14916340 TAGTATCTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
35 39 0.63
36 23 0.37
ACGTcount: A:0.33, C:0.05, G:0.37, T:0.26
Consensus pattern (35 bp):
TAGGCGTGAAATGGAGATGGAAGATGGTGATGTTA
Found at i:14924983 original size:19 final size:20
Alignment explanation
Indices: 14924955--14924994 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
14924945 AGATAATAAT
14924955 ATAAGTAATGAAATGAAATA
1 ATAAGTAATGAAATGAAATA
14924975 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAATGAAATA
14924994 A
1 A
14924995 AGAAAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (20 bp):
ATAAGTAATGAAATGAAATA
Found at i:14927446 original size:208 final size:203
Alignment explanation
Indices: 14927061--14927472 Score: 779
Period size: 208 Copynumber: 2.0 Consensus size: 203
14927051 TAATACATAG
14927061 TGCATAAATAAGTAAATATAAGATAAAGTAAGGTAGAACTCCCTTAGAACCAGATTTGAAACATC
1 TGCATAAATAAGTAAATATAAGATAAAGTAAGGTAGAACTCCCTTAGAACCAGATTTGAAACATC
14927126 CATGTGTGATCAAGTCATGAGAAAATTAGAGCTAGACAGGATCACATCATCCTCCCTTCTTTTGG
66 CATGTGTGATCAAGTCATGAGAAAATTAGAGCTAGACAGGATCACATCATCCTCCCTTCTTTTGG
14927191 GCGATTTGTCCTCAAATCGAAAGGTGACTTCTCCAAATTGAACGCCCATTCATAGGTCATCTTTA
131 GCGATTTGTCCTCAAATCGAAAGGTGACTTCTCCAAATTGAACGCCCATTCATAGGTCATCTTTA
14927256 TGAAATGA
196 TGAAATGA
14927264 TGCATAAATAAGTAAATATAAGATAAAGTAAGGTAGAACTCCCTTAGAACCAGATTTGAATAACA
1 TGCATAAATAAGTAAATATAAGATAAAGTAAGGTAGAACTCCCTTAGAACCAGATTTG-A-AACA
14927329 TCCATGGTGTGATCAAGTCATGAAGAAAATTAGAGCTAGACAGGATCACATCATCCTCCCCTTCT
64 TCCAT-GTGTGATCAAGTCATG-AGAAAATTAGAGCTAGACAGGATCACATCATCCT-CCCTTCT
14927394 TTTGGGCGATTTGTCCTCAAATCGAAAGGTGACTTCTCCAAATTGAACGCCCATTCATAGGTCAT
126 TTTGGGCGATTTGTCCTCAAATCGAAAGGTGACTTCTCCAAATTGAACGCCCATTCATAGGTCAT
14927459 CTTTATGAAATGA
191 CTTTATGAAATGA
14927472 T
1 T
14927473 TCTTATCAAA
Statistics
Matches: 204, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
203 58 0.28
204 1 0.00
205 9 0.04
206 16 0.08
207 34 0.17
208 86 0.42
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (203 bp):
TGCATAAATAAGTAAATATAAGATAAAGTAAGGTAGAACTCCCTTAGAACCAGATTTGAAACATC
CATGTGTGATCAAGTCATGAGAAAATTAGAGCTAGACAGGATCACATCATCCTCCCTTCTTTTGG
GCGATTTGTCCTCAAATCGAAAGGTGACTTCTCCAAATTGAACGCCCATTCATAGGTCATCTTTA
TGAAATGA
Found at i:14929472 original size:20 final size:21
Alignment explanation
Indices: 14929447--14929490 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
14929437 GTAGGAGTCC
14929447 TTTCTTCTATT-TTTTT-TCTT
1 TTTCTTCT-TTCTTTTTCTCTT
14929467 TTTCTTCTTTCTTTTTCTCTT
1 TTTCTTCTTTCTTTTTCTCTT
14929488 TTT
1 TTT
14929491 TTGCAGCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.09
20 13 0.59
21 7 0.32
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTCTTCTTTCTTTTTCTCTT
Found at i:14929487 original size:12 final size:13
Alignment explanation
Indices: 14929461--14929492 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14929451 TTCTATTTTT
14929461 TTTCTTTTTCTTC
1 TTTCTTTTTCTTC
14929474 TTTCTTTTTC-TC
1 TTTCTTTTTCTTC
14929486 TTT-TTTT
1 TTTCTTTT
14929493 GCAGCACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 4 0.21
12 5 0.26
13 10 0.53
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTCTTC
Found at i:14933227 original size:24 final size:24
Alignment explanation
Indices: 14933200--14933293 Score: 170
Period size: 24 Copynumber: 3.9 Consensus size: 24
14933190 AGATGAACTA
14933200 TCTTGGTAGCTAGCTAGGTGAGTG
1 TCTTGGTAGCTAGCTAGGTGAGTG
14933224 TCTTGGTAGCTAGCTAGGTGAGTG
1 TCTTGGTAGCTAGCTAGGTGAGTG
*
14933248 TCATGGTAGCTAGCTAGGTGAGTG
1 TCTTGGTAGCTAGCTAGGTGAGTG
*
14933272 TCTTGGTAGCTAACTAGGTGAG
1 TCTTGGTAGCTAGCTAGGTGAG
14933294 CTATAACTTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.19, C:0.13, G:0.36, T:0.32
Consensus pattern (24 bp):
TCTTGGTAGCTAGCTAGGTGAGTG
Found at i:14934020 original size:42 final size:42
Alignment explanation
Indices: 14933973--14934069 Score: 194
Period size: 42 Copynumber: 2.3 Consensus size: 42
14933963 ATAGCATAGA
14933973 TATGAATGATATGGAAAACATGATGAACTAAACTTATGATGG
1 TATGAATGATATGGAAAACATGATGAACTAAACTTATGATGG
14934015 TATGAATGATATGGAAAACATGATGAACTAAACTTATGATGG
1 TATGAATGATATGGAAAACATGATGAACTAAACTTATGATGG
14934057 TATGAATGATATG
1 TATGAATGATATG
14934070 ATAATTTACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (42 bp):
TATGAATGATATGGAAAACATGATGAACTAAACTTATGATGG
Found at i:14936219 original size:10 final size:10
Alignment explanation
Indices: 14936204--14936237 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
14936194 GTGCTTCAAC
14936204 TTTCTTTCTT
1 TTTCTTTCTT
14936214 TTTCTTTTCTT
1 TTTC-TTTCTT
*
14936225 TTTCTTCCTT
1 TTTCTTTCTT
14936235 TTT
1 TTT
14936238 GAGTGCTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:14936274 original size:23 final size:25
Alignment explanation
Indices: 14936225--14936278 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
14936215 TTCTTTTCTT
*
14936225 TTTCTTCCTTTTTGAGTGCTTTCAA
1 TTTCTTCCTTTTGGAGTGCTTTCAA
14936250 TTTCTT-CTTTTGGAGTGCTTT-AA
1 TTTCTTCCTTTTGGAGTGCTTTCAA
14936273 TTTCTT
1 TTTCTT
14936279 GTATGATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 8 0.29
24 14 0.50
25 6 0.21
ACGTcount: A:0.11, C:0.17, G:0.13, T:0.59
Consensus pattern (25 bp):
TTTCTTCCTTTTGGAGTGCTTTCAA
Found at i:14950489 original size:19 final size:19
Alignment explanation
Indices: 14950447--14950500 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
14950437 GAAACCCCTT
* *
14950447 TGAAAATACATGTTTTTTTGA
1 TGAAAATACATG--ATTTTAA
14950468 TGAAAATACATGATTTTAA
1 TGAAAATACATGATTTTAA
*
14950487 TGAAGATACATGAT
1 TGAAAATACATGAT
14950501 CTTGGCCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (19 bp):
TGAAAATACATGATTTTAA
Found at i:14951435 original size:30 final size:31
Alignment explanation
Indices: 14951396--14951455 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
14951386 ACATGTTGCC
**
14951396 ATGATATCTAAATGATATGCAAACAAAATAG
1 ATGATATCTAAAACATATGCAAACAAAATAG
* *
14951427 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACAAAATA
14951456 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACAAAATAG
Found at i:14953858 original size:14 final size:13
Alignment explanation
Indices: 14953823--14953861 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
14953813 CTTTTTGAAC
*
14953823 TTCTCTTTTTCTT
1 TTCTATTTTTCTT
*
14953836 TTCTTTTTTTCTT
1 TTCTATTTTTCTT
14953849 TTCTGATTTTTCT
1 TTCT-ATTTTTCT
14953862 CTTATTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.77
Consensus pattern (13 bp):
TTCTATTTTTCTT
Found at i:14954635 original size:19 final size:20
Alignment explanation
Indices: 14954594--14954644 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
14954584 GAAACCCCTT
*
14954594 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
14954614 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
14954633 TGAAGATACATG
1 TGAAAATACATG
14954645 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:14955595 original size:30 final size:31
Alignment explanation
Indices: 14955556--14955615 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
14955546 ACATGCTTCC
**
14955556 ATGATATCTAAATGATATGCAAACAAAATAA
1 ATGATATCTAAAACATATGCAAACAAAATAA
* *
14955587 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACAAAATA
14955616 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACAAAATAA
Found at i:14958163 original size:23 final size:24
Alignment explanation
Indices: 14958140--14958186 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14958130 AGAAAACAAA
*
14958140 TTAAAGCACTCCAAAAGAAGAAAT
1 TTAAAGCACTCAAAAAGAAGAAAT
**
14958164 TTCCAGCACTCAAAAAGAAGAAA
1 TTAAAGCACTCAAAAAGAAGAAA
14958187 AGTAACGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.53, C:0.19, G:0.13, T:0.15
Consensus pattern (24 bp):
TTAAAGCACTCAAAAAGAAGAAAT
Found at i:14961474 original size:19 final size:20
Alignment explanation
Indices: 14961446--14961485 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
14961436 GGATAATAAT
14961446 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
*
14961466 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAAAGAAATA
14961485 A
1 A
14961486 AGAAGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:14964187 original size:8 final size:8
Alignment explanation
Indices: 14964160--14964221 Score: 51
Period size: 8 Copynumber: 7.8 Consensus size: 8
14964150 GAGTGCAACC
14964160 AGAAAA-A
1 AGAAAAGA
14964167 A-AAAAGA
1 AGAAAAGA
14964174 TA-AAAAGA
1 -AGAAAAGA
14964182 AGAAAAAAGA
1 AG--AAAAGA
14964192 AGAAAAGA
1 AGAAAAGA
14964200 AGAAAAGA
1 AGAAAAGA
*
14964208 A-AAGAAAA
1 AGAA-AAGA
14964216 AGAAAA
1 AGAAAA
14964222 TCAAAAAGAG
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
6 4 0.09
7 5 0.11
8 28 0.60
9 2 0.04
10 8 0.17
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (8 bp):
AGAAAAGA
Found at i:14964187 original size:21 final size:20
Alignment explanation
Indices: 14964163--14964216 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
14964153 TGCAACCAGA
14964163 AAAAAAAAAGATAAAAAGAAG
1 AAAAAAAAAGA-AAAAAGAAG
*
14964184 AAAAAAGAAG--AAAAGAAG
1 AAAAAAAAAGAAAAAAGAAG
*
14964202 AAAAGAAAAGAAAAA
1 AAAAAAAAAGAAAAA
14964217 GAAAATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 16 0.57
20 3 0.11
21 9 0.32
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAGAAG
Found at i:14964216 original size:11 final size:11
Alignment explanation
Indices: 14964160--14964235 Score: 57
Period size: 11 Copynumber: 6.6 Consensus size: 11
14964150 GAGTGCAACC
*
14964160 AGAAAAAAAAA
1 AGAAAAGAAAA
*
14964171 AGATAAA-AAGA
1 AGA-AAAGAAAA
*
14964182 AGAAAA-AAGA
1 AGAAAAGAAAA
14964192 AGAAAAGAAGAAA
1 AGAAAAG-A-AAA
14964205 AGAAAAGAAAA
1 AGAAAAGAAAA
*
14964216 AGAAAATCAAAA
1 AGAAAA-GAAAA
14964228 AGAGAAAG
1 AGA-AAAG
14964236 CAAGCCAAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
10 13 0.24
11 18 0.33
12 12 0.22
13 12 0.22
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:14970216 original size:15 final size:15
Alignment explanation
Indices: 14970176--14970220 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
14970166 TTCTTAAGCA
14970176 TTCTATCCT-ACC-T
1 TTCTATCCTAACCAT
14970189 TT-TA-CCATAACCAT
1 TTCTATCC-TAACCAT
14970203 TTCTATCCTAACCAT
1 TTCTATCCTAACCAT
14970218 TTC
1 TTC
14970221 CTTTTTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 2 0.07
12 3 0.11
13 5 0.19
14 3 0.11
15 12 0.44
16 2 0.07
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.42
Consensus pattern (15 bp):
TTCTATCCTAACCAT
Found at i:14974584 original size:26 final size:26
Alignment explanation
Indices: 14974548--14974608 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
14974538 CCCTAGGACA
*
14974548 CCCATGTGCATGCCATATGGCCAGCC
1 CCCATGTGCATGCCATATGACCAGCC
14974574 CCCATGTGCATGCCATATGACCAGCC
1 CCCATGTGCATGCCATATGACCAGCC
14974600 CCCATGTGC
1 CCCATGTGC
14974609 CTTGTATGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.20, C:0.39, G:0.21, T:0.20
Consensus pattern (26 bp):
CCCATGTGCATGCCATATGACCAGCC
Found at i:14981903 original size:50 final size:50
Alignment explanation
Indices: 14981798--14981904 Score: 112
Period size: 50 Copynumber: 2.1 Consensus size: 50
14981788 TCACACTCCA
* * * *
14981798 ATTTGCCTTTTCATCGCGACTAGGAGGGTTAGTTAGAGCCATATTATCATG
1 ATTTTCCTTTTCATCGCGACTAGGAGGGCTAGATAGAG-CACATTATCATG
* *
14981849 -TTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAG-G-ACATTATCCATCG
1 ATTTTCCTTTTCATCGCGACTAGGAGGGCTAGATAGAGCACATTAT-CAT-G
14981898 ATTTTCC
1 ATTTTCC
14981905 ACATATCCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
47 6 0.13
48 3 0.06
49 2 0.04
50 36 0.77
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (50 bp):
ATTTTCCTTTTCATCGCGACTAGGAGGGCTAGATAGAGCACATTATCATG
Found at i:14986748 original size:23 final size:22
Alignment explanation
Indices: 14986710--14986752 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
14986700 CAATTCCTCT
14986710 ATCTTTTCTTTATCTTGTTTTA
1 ATCTTTTCTTTATCTTGTTTTA
*
14986732 ATCTTATTTTTTATCTTGTTT
1 ATCTT-TTCTTTATCTTGTTT
14986753 CCAACACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (22 bp):
ATCTTTTCTTTATCTTGTTTTA
Found at i:14987849 original size:20 final size:21
Alignment explanation
Indices: 14987808--14987857 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
14987798 TTATATTATG
14987808 TTTACATATGTTTTAGATTCA
1 TTTACATATGTTTTAGATTCA
*
14987829 TTTA-ATATGTTTGTATA-TCA
1 TTTACATATGTTT-TAGATTCA
*
14987849 TTTAGATAT
1 TTTACATAT
14987858 CATGGCAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTACATATGTTTTAGATTCA
Found at i:14988672 original size:19 final size:21
Alignment explanation
Indices: 14988648--14988699 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
14988638 CGGCCAAGAG
*
14988648 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
14988667 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
14988688 CATGTATTTTCA
1 CATGTATTTTCA
14988700 ATGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:14989424 original size:26 final size:26
Alignment explanation
Indices: 14989371--14989424 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
14989361 CGTGCAAAAC
* * *
14989371 AAAAAAATAAAAGTAAAGAAAATCAG
1 AAAAAAAGAAAAGAAAAGAAAAACAG
*
14989397 AAAAAAAGAAAAGAAAAGAAAAAGAG
1 AAAAAAAGAAAAGAAAAGAAAAACAG
14989423 AA
1 AA
14989425 GTTCGAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.06
Consensus pattern (26 bp):
AAAAAAAGAAAAGAAAAGAAAAACAG
Found at i:14992807 original size:19 final size:21
Alignment explanation
Indices: 14992783--14992836 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
14992773 CGGCCAAGAG
14992783 CATGTATCTT-AATT-AAAAT
1 CATGTATCTTCAATTAAAAAT
* *
14992802 CATGTATTTTCATTTAAAAAT
1 CATGTATCTTCAATTAAAAAT
*
14992823 CATGTATTTTCAAT
1 CATGTATCTTCAAT
14992837 GGGGTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 9 0.30
20 3 0.10
21 18 0.60
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATCTTCAATTAAAAAT
Found at i:14993546 original size:17 final size:16
Alignment explanation
Indices: 14993506--14993556 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
14993496 ATGCAAAGCG
14993506 AAAA-AGAAAAG-AAA
1 AAAATAGAAAAGAAAA
*
14993520 AAGATA-AAAAGAAAA
1 AAAATAGAAAAGAAAA
14993535 AAAATCAGAAAAGAAAA
1 AAAAT-AGAAAAGAAAA
14993552 GAAAA
1 -AAAA
14993557 AGAGAAGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 8 0.27
15 8 0.27
16 1 0.03
17 9 0.30
18 4 0.13
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (16 bp):
AAAATAGAAAAGAAAA
Found at i:14993562 original size:18 final size:18
Alignment explanation
Indices: 14993507--14993562 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
14993497 TGCAAAGCGA
*
14993507 AAAAGAAAAGAAAAAGATA
1 AAAAGAAAAGAAAAAGA-G
**
14993526 AAAAGAAAA-AAAATCAG
1 AAAAGAAAAGAAAAAGAG
14993543 AAAAGAAAAGAAAAAGAG
1 AAAAGAAAAGAAAAAGAG
14993561 AA
1 AA
14993563 GTTCAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 9 0.29
18 13 0.42
19 9 0.29
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAGAAAAAGAG
Found at i:14996942 original size:19 final size:21
Alignment explanation
Indices: 14996918--14996971 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
14996908 CGGCCAAGAG
14996918 CATGTATCTT-AATT-AAAAT
1 CATGTATCTTCAATTAAAAAT
* *
14996937 CATGTATTTTCATTTAAAAAT
1 CATGTATCTTCAATTAAAAAT
*
14996958 CATGTATTTTCAAT
1 CATGTATCTTCAAT
14996972 GGGGTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 9 0.30
20 3 0.10
21 18 0.60
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATCTTCAATTAAAAAT
Found at i:15001079 original size:19 final size:21
Alignment explanation
Indices: 15001055--15001108 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
15001045 CGGCCAAGAG
15001055 CATGTATCTT-AATT-AAAAT
1 CATGTATCTTCAATTAAAAAT
* *
15001074 CATGTATTTTCATTTAAAAAT
1 CATGTATCTTCAATTAAAAAT
*
15001095 CATGTATTTTCAAT
1 CATGTATCTTCAAT
15001109 GGGGTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 9 0.30
20 3 0.10
21 18 0.60
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATCTTCAATTAAAAAT
Found at i:15001816 original size:16 final size:14
Alignment explanation
Indices: 15001777--15001822 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
15001767 CGTGCAAAGC
*
15001777 AAAAATGAAAAGAA
1 AAAAATAAAAAGAA
*
15001791 AAAGATAAAAAGAA
1 AAAAATAAAAAGAA
15001805 AAAAATCAAAAAAGAA
1 AAAAAT--AAAAAGAA
15001821 AA
1 AA
15001823 GAAAAAGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 17 0.63
16 10 0.37
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (14 bp):
AAAAATAAAAAGAA
Found at i:15005213 original size:19 final size:21
Alignment explanation
Indices: 15005189--15005242 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
15005179 CGGCCAAGAG
15005189 CATGTATCTT-AATT-AAAAT
1 CATGTATCTTCAATTAAAAAT
* *
15005208 CATGTATTTTCATTTAAAAAT
1 CATGTATCTTCAATTAAAAAT
*
15005229 CATGTATTTTCAAT
1 CATGTATCTTCAAT
15005243 GGGGTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 9 0.30
20 3 0.10
21 18 0.60
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATCTTCAATTAAAAAT
Found at i:15013480 original size:19 final size:21
Alignment explanation
Indices: 15013456--15013509 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
15013446 CGGCCAAGAG
15013456 CATGTATCTT-AATT-AAAAT
1 CATGTATCTTCAATTAAAAAT
* *
15013475 CATGTATTTTCATTTAAAAAT
1 CATGTATCTTCAATTAAAAAT
*
15013496 CATGTATTTTCAAT
1 CATGTATCTTCAAT
15013510 GGGGTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 9 0.30
20 3 0.10
21 18 0.60
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATCTTCAATTAAAAAT
Found at i:15014234 original size:17 final size:17
Alignment explanation
Indices: 15014179--15014234 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
15014169 GTGCAAAGCA
*
15014179 AAAATGAAAAGAAAAAGATA
1 AAAA-GAAAAG-AAAAGA-G
*
15014199 AAAAGAAAA-AAAATCAG
1 AAAAGAAAAGAAAA-GAG
15014216 AAAAGAAAAGAAAAGAG
1 AAAAGAAAAGAAAAGAG
15014233 AA
1 AA
15014235 GTTCAAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 17 0.55
18 5 0.16
19 5 0.16
20 4 0.13
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAAGAAAAGAAAAGAG
Found at i:15017606 original size:19 final size:21
Alignment explanation
Indices: 15017582--15017633 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
15017572 CGGCAAAGAG
*
15017582 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
15017601 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
*
15017622 TATGTATTTTCA
1 CATGTATTTTCA
15017634 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.38
20 2 0.07
21 16 0.55
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.48
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:15018452 original size:2 final size:2
Alignment explanation
Indices: 15018445--15018485 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
15018435 TCATTATAGC
* *
15018445 TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA AA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15018486 GAATATAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:15018460 original size:12 final size:12
Alignment explanation
Indices: 15018445--15018492 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
15018435 TCATTATAGC
*
15018445 TATATATATATA
1 TATATAAATATA
15018457 TATATAAATATA
1 TATATAAATATA
15018469 TATATAAATATA
1 TATATAAATATA
*
15018481 TATATGAATATA
1 TATATAAATATA
15018493 GTTAGATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (12 bp):
TATATAAATATA
Found at i:15020808 original size:14 final size:15
Alignment explanation
Indices: 15020789--15020817 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15020779 AACACTTTGC
15020789 ATCATTTTGG-CTTG
1 ATCATTTTGGACTTG
15020803 ATCATTTTGGACTTG
1 ATCATTTTGGACTTG
15020818 TTTAGGCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (15 bp):
ATCATTTTGGACTTG
Found at i:15028572 original size:16 final size:16
Alignment explanation
Indices: 15028539--15028587 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
15028529 TAAGGTAATT
15028539 GAATAAGAATAGATGAAA
1 GAATAAGAA-A-ATGAAA
15028557 GAATAAGAAAATGAAA
1 GAATAAGAAAATGAAA
* * *
15028573 TAAAAAGAAAGTGAA
1 GAATAAGAAAATGAA
15028588 GATAACTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
17 1 0.04
18 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.20, T:0.14
Consensus pattern (16 bp):
GAATAAGAAAATGAAA
Found at i:15028739 original size:11 final size:10
Alignment explanation
Indices: 15028723--15028764 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
15028713 TTACTTCACT
15028723 TTTCTTTTTC
1 TTTCTTTTTC
15028733 ATTTCTTTTTC
1 -TTTCTTTTTC
15028744 -TTCTTTTTC
1 TTTCTTTTTC
*
15028753 TTT-TCTTTC
1 TTTCTTTTTC
15028762 TTT
1 TTT
15028765 TGCACTCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 17 0.59
10 2 0.07
11 10 0.34
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:15032365 original size:23 final size:22
Alignment explanation
Indices: 15032314--15032366 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
15032304 GGACTATAGG
*
15032314 TTATAATAATAATTAAAATTCA
1 TTATTATAATAATTAAAATTCA
15032336 -TATTATAATGAATTAAAGATT-A
1 TTATTATAAT-AATTAAA-ATTCA
15032358 TTATTATAA
1 TTATTATAA
15032367 CCACAGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.30
22 8 0.30
23 11 0.41
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (22 bp):
TTATTATAATAATTAAAATTCA
Done.