Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 19 of 253
Found at i:5275524 original size:35 final size:35
Alignment explanation
Indices: 5275482--5275550 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
5275472 TCGAGGATCG
*
5275482 CATATCTTTGAAGATCCCCTTCCATATTTGCCAAC
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAC
* *
5275517 CATATCTTTGAAGATTACTTTCCATATTTGCCAA
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAA
5275551 GCTTCGGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAC
Found at i:5276874 original size:51 final size:52
Alignment explanation
Indices: 5276798--5276905 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 52
5276788 TATGCACCTT
* * * *
5276798 GAAATCAACGCCCATGAGTTTTAAGATGCTCCT-AAAAAAATCATATTCCAA
1 GAAATCAACGCCCATAAATTTTAAGATACTCCTAAAAAAAACCATATTCCAA
* *
5276849 GAAATCAATGCCTATAAATTTTAAGATACTCCTAAAAAAAACCATATTCCAA
1 GAAATCAACGCCCATAAATTTTAAGATACTCCTAAAAAAAACCATATTCCAA
*
5276901 TAAAT
1 GAAAT
5276906 TCCCAACCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 28 0.57
52 21 0.43
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.27
Consensus pattern (52 bp):
GAAATCAACGCCCATAAATTTTAAGATACTCCTAAAAAAAACCATATTCCAA
Found at i:5277099 original size:12 final size:12
Alignment explanation
Indices: 5277082--5277108 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5277072 TTTATTATGA
5277082 AATAGTAAATTT
1 AATAGTAAATTT
5277094 AATAGTAAATTT
1 AATAGTAAATTT
5277106 AAT
1 AAT
5277109 GAAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
AATAGTAAATTT
Found at i:5280008 original size:85 final size:85
Alignment explanation
Indices: 5279862--5280032 Score: 225
Period size: 85 Copynumber: 2.0 Consensus size: 85
5279852 TAAGATTCAC
* * * *
5279862 TTTCACAATAGATAAGACAATGTAAAAAATAAGGTCAAAATCCAGTTTCGGATGATCTTGTGACA
1 TTTCACAATAGATAAGACAATGTAAAAAATAAGATCAAAATCCAATTTCAGATAATCTTGTGACA
5279927 TACCTACAACAACACAAGTA
66 TACCTACAACAACACAAGTA
* * * * * * * *
5279947 TTTCACCATAGGTAATACAATGTCAAAGATAAGATCAACATCCAATTTCAGATAATTTTGTGACG
1 TTTCACAATAGATAAGACAATGTAAAAAATAAGATCAAAATCCAATTTCAGATAATCTTGTGACA
*
5280012 TACCTGCAACAACACAAGTA
66 TACCTACAACAACACAAGTA
5280032 T
1 T
5280033 GTGGAACGTC
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (85 bp):
TTTCACAATAGATAAGACAATGTAAAAAATAAGATCAAAATCCAATTTCAGATAATCTTGTGACA
TACCTACAACAACACAAGTA
Found at i:5280784 original size:13 final size:13
Alignment explanation
Indices: 5280766--5280802 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
5280756 ATATGCCAAA
5280766 GTTGAAACCGAGG
1 GTTGAAACCGAGG
5280779 GTTGAAACCGAGG
1 GTTGAAACCGAGG
5280792 GTTGAAACCGA
1 GTTGAAACCGA
5280803 AGAATGCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (13 bp):
GTTGAAACCGAGG
Found at i:5285241 original size:5 final size:5
Alignment explanation
Indices: 5285231--5285267 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
5285221 TTGTTAAATT
5285231 TTAAA TTAAA TTAAA TTAAA TTAAA TTTCAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA -TT-AAA TTAAA
5285268 ATATTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.77
6 4 0.13
7 3 0.10
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (5 bp):
TTAAA
Found at i:5286883 original size:22 final size:23
Alignment explanation
Indices: 5286851--5286907 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
5286841 AAAAGGGGGG
*
5286851 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATTGTATTTTGAGGAGAGA
*
5286873 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATTGTATTTTGAGGAGAGA
5286896 A-CAGATTGTATT
1 ATC-GATTGTATT
5286908 AGAGGGGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (23 bp):
ATCGATTGTATTTTGAGGAGAGA
Found at i:5287570 original size:40 final size:39
Alignment explanation
Indices: 5287520--5287661 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 39
5287510 ATAAAGTATG
5287520 GTTTTAATTAATAATAAAAACAAAATAGTATTGGGGAAT-
1 GTTTTAATTAATAAT-AAAACAAAATAGTATTGGGGAATA
*
5287559 GATTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 G-TTTTAATTAATAAT-AAAACAAAATAGTATTGGGGAATA
*
5287600 GTTTTAATTAATAATAAAACAAAATAGTA-TGGGAGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATTGGG-GAATA
5287639 GTTTTAATTAATAATAAAACAAA
1 GTTTTAATTAATAATAAAACAAA
5287662 GTAGCATGGG
Statistics
Matches: 97, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
38 3 0.03
39 42 0.43
40 51 0.53
41 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.32
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATTGGGGAATA
Found at i:5287619 original size:39 final size:40
Alignment explanation
Indices: 5287520--5287673 Score: 233
Period size: 39 Copynumber: 3.9 Consensus size: 40
5287510 ATAAAGTATG
*
5287520 GTTTTAATTAATAATAAAAACAAAATAGTATTGGGGAAT-
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
5287559 GATTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 G-TTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
5287600 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGAGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
5287639 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGG
5287674 GAGTGGAATC
Statistics
Matches: 107, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
39 55 0.51
40 51 0.48
41 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.31
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:5287675 original size:79 final size:80
Alignment explanation
Indices: 5287520--5287673 Score: 235
Period size: 79 Copynumber: 1.9 Consensus size: 80
5287510 ATAAAGTATG
5287520 GTTTTAATTAATAATAAAAACAAAATAGTATTGGGGAATGATTTTAATTAATAATAAAAACAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATTGGGGAATGATTTTAATTAATAATAAAAACAAAA
*
5287585 TAGTATGGGGGAATA
66 TAGCATGGGGGAATA
*
5287600 GTTTTAATTAATAAT-AAAACAAAATAGTA-TGGGAGAGT-AGTTTTAATTAATAAT-AAAACAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATTGGG-GAATGA-TTTTAATTAATAATAAAAACAA
*
5287661 AGTAGCATGGGGG
64 AATAGCATGGGGG
5287674 GAGTGGAATC
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
78 23 0.33
79 31 0.45
80 15 0.22
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.31
Consensus pattern (80 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATTGGGGAATGATTTTAATTAATAATAAAAACAAAA
TAGCATGGGGGAATA
Found at i:5300399 original size:205 final size:203
Alignment explanation
Indices: 5300019--5300584 Score: 866
Period size: 205 Copynumber: 2.8 Consensus size: 203
5300009 TAGGTCGCAG
* * *
5300019 CATAACAGATCTGGCCTTCAGATGTTATACTGAAGCAGATCCAAGATGGCTTGGTATCCTTGTGT
1 CATAACAGATCTCGCCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
5300084 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATCT
65 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAATCT
*
5300148 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGATGG
*
5300213 AGAGCAGACA
194 AGAGCAAACA
**
5300223 CATAGTAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAACAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
5300288 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* * *
5300353 AAGATGAATTGTCGTCTCTGTATCGTCAGAGAACGAATCAAAGTTTGGCATCTTCATTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGATGG
5300418 AGAGCAAACA
194 AGAGCAAACA
* * *
5300428 CATAACAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTTATG
1 CATAACAGATCTCGCCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * **
5300493 CTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCT
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* *
5300557 AAGATGATTTGGCATCTCTGTATTGTCA
129 AAGATGATTTGTCGTCTCTGTATTGTCA
5300585 AGGAACAAAT
Statistics
Matches: 330, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
203 1 0.00
204 89 0.27
205 240 0.73
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (203 bp):
CATAACAGATCTCGCCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTT
TACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCTAA
GATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAG
AGCAAACA
Found at i:5300786 original size:133 final size:133
Alignment explanation
Indices: 5300634--5301050 Score: 732
Period size: 133 Copynumber: 3.2 Consensus size: 133
5300624 AGACGGGGGG
5300634 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCAT
1 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCAT
5300699 GGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGGCATCCCTGTTCTTATAGG
66 GGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGGCATCCCTGTTCTTATAGG
5300764 GAA
131 GAA
*
5300767 CAGATCGAAGATAGCAGATCTGACATTCCTTTGCTTACAGTAAAGCAGATCGAAGATTTCAGCAT
1 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCAT
*
5300832 GGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
66 GGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGGCATCCCTGTTCTTATAGG
5300897 GAA
131 GAA
* *
5300900 CAGATCGAATATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
1 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCAT
* * *
5300965 GGCATCCCTGTGTTTATAGGGAACAAGTTG-AAGATAGCAGATTTGGCATCCCTGTGT-TTATAG
66 GGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGGCATCCCTGT-TCTTATAG
5301028 GGAA
130 GGAA
*
5301032 CAAATCGAAGA-AGCAGATC
1 CAGATCGAAGATAGCAGATC
5301051 AAAGAACTCA
Statistics
Matches: 272, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
131 8 0.03
132 42 0.15
133 222 0.82
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (133 bp):
CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCAT
GGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAGATTTGGCATCCCTGTTCTTATAGG
GAA
Found at i:5300931 original size:44 final size:44
Alignment explanation
Indices: 5300634--5301050 Score: 341
Period size: 44 Copynumber: 9.5 Consensus size: 44
5300624 AGACGGGGGG
* * * **
5300634 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
**
5300678 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * * *
5300722 CA-AGTTGAAAAACAGCAGATTTGGCATCCCTGTTCTTATAGGGAA
1 CAGA-TCG-AAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * **
5300767 CAGATCGAAGATAGCAGATCTGACATTCCTTTGCTTACAGTAAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
**
5300811 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * *
5300855 CA-AGTTGAAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCG-AAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
5300900 CAGATCGAATATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
** *
5300944 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * *
5300988 CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
*
5301032 CAAATCGAAGA-AGCAGATC
1 CAGATCGAAGATAGCAGATC
5301051 AAAGAACTCA
Statistics
Matches: 292, Mismatches: 61, Indels: 40
0.74 0.16 0.10
Matches are distributed among these distances:
42 3 0.01
43 30 0.10
44 157 0.54
45 100 0.34
46 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
Found at i:5302207 original size:40 final size:39
Alignment explanation
Indices: 5302164--5302305 Score: 214
Period size: 40 Copynumber: 3.6 Consensus size: 39
5302154 ATAAAGTATG
*
5302164 GTTTTAATTAATAATAAAAACAAAATAGTATTGGGGAATG
1 GTTTTAATTAATAAT-AAAACAAAATAGTATTGGGGAATA
*
5302204 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATTGGGGAATA
* *
5302244 GTTTTAATGAATAATAAAACAAAATAGTA-TGGGAGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATTGGG-GAATA
5302283 GTTTTAATTAATAATAAAACAAA
1 GTTTTAATTAATAATAAAACAAA
5302306 GTAGCATGGG
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 3 0.03
39 40 0.42
40 52 0.55
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.31
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATTGGGGAATA
Found at i:5302263 original size:39 final size:40
Alignment explanation
Indices: 5302164--5302317 Score: 231
Period size: 39 Copynumber: 3.9 Consensus size: 40
5302154 ATAAAGTATG
* *
5302164 GTTTTAATTAATAATAAAAACAAAATAGTATTGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
5302204 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* * *
5302244 GTTTTAATGAATAAT-AAAACAAAATAGTATGGGAGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
5302283 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGG
5302318 GAATCAACTT
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 53 0.50
40 52 0.50
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:5302321 original size:79 final size:80
Alignment explanation
Indices: 5302164--5302317 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 80
5302154 ATAAAGTATG
* *
5302164 GTTTTAATTAATAATAAAAACAAAATAGTATTGGGGAATGGTTTTAATTAATAATAAAAACAAAA
1 GTTTTAATGAATAATAAAAACAAAATAGTATTGGGGAATAGTTTTAATTAATAATAAAAACAAAA
*
5302229 TAGTATGGGGGAATA
66 TAGCATGGGGGAATA
*
5302244 GTTTTAATGAATAAT-AAAACAAAATAGTA-TGGGAGAGTAGTTTTAATTAATAAT-AAAACAAA
1 GTTTTAATGAATAATAAAAACAAAATAGTATTGGG-GAATAGTTTTAATTAATAATAAAAACAAA
*
5302306 GTAGCATGGGGG
65 ATAGCATGGGGG
5302318 GAATCAACTT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
78 22 0.32
79 32 0.47
80 14 0.21
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (80 bp):
GTTTTAATGAATAATAAAAACAAAATAGTATTGGGGAATAGTTTTAATTAATAATAAAAACAAAA
TAGCATGGGGGAATA
Found at i:5312674 original size:25 final size:26
Alignment explanation
Indices: 5312632--5312680 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
5312622 ATTATTATTA
*
5312632 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
5312657 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
5312681 CAGAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:5314195 original size:23 final size:23
Alignment explanation
Indices: 5314165--5314251 Score: 101
Period size: 21 Copynumber: 4.0 Consensus size: 23
5314155 GCTTTATCGA
* *
5314165 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
5314188 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
5314209 TCAGGCACCTCATGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
5314231 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
5314252 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:5314227 original size:44 final size:42
Alignment explanation
Indices: 5314164--5314251 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 42
5314154 GGCTTTATCG
* * *
5314164 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT-TTT-AGGCACCTCATGTGTCGT
* *
5314208 ATCAGGCACCTCATGTGTCGTTTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGTTTTAGGCACCTCATGTGTCGT
5314250 AT
1 AT
5314252 ACTGATCAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 17 0.44
43 3 0.08
44 19 0.49
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.38
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTTTTAGGCACCTCATGTGTCGT
Found at i:5320481 original size:25 final size:26
Alignment explanation
Indices: 5320439--5320487 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
5320429 ATTATTATTA
*
5320439 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
5320464 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
5320488 CAGAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:5322014 original size:23 final size:22
Alignment explanation
Indices: 5321986--5322070 Score: 84
Period size: 21 Copynumber: 3.9 Consensus size: 22
5321976 TTTATCGATC
* *
5321986 AGGCACTTTATGTGTCGTATTT
1 AGGCACCTCATGTGTCGTATTT
* *
5322008 CAGGCACCTCGTGTGTCATA-TT
1 -AGGCACCTCATGTGTCGTATTT
*
5322030 AGGCACCTCGTGTGTCGT-TTT
1 AGGCACCTCATGTGTCGTATTT
* *
5322051 AGGCACTTTATGTGTCGTAT
1 AGGCACCTCATGTGTCGTAT
5322071 ACTGATCAGG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 34 0.65
22 3 0.06
23 15 0.29
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (22 bp):
AGGCACCTCATGTGTCGTATTT
Found at i:5329561 original size:21 final size:22
Alignment explanation
Indices: 5329537--5329577 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
5329527 AATAAAGAAT
5329537 AAATTAATTTA-TTTTATTAAA
1 AAATTAATTTATTTTTATTAAA
*
5329558 AAATTTATTTATTTTTATTA
1 AAATTAATTTATTTTTATTA
5329578 TTTAGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AAATTAATTTATTTTTATTAAA
Found at i:5330605 original size:14 final size:15
Alignment explanation
Indices: 5330583--5330616 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5330573 TTTGATAAAC
* *
5330583 TGAAAAATTAAGTGT
1 TGAAAATTTAAGTAT
5330598 TGAAAATTTAAGTAT
1 TGAAAATTTAAGTAT
5330613 TGAA
1 TGAA
5330617 TTTTTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (15 bp):
TGAAAATTTAAGTAT
Found at i:5333462 original size:15 final size:15
Alignment explanation
Indices: 5333444--5333472 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5333434 ATATATAAAA
5333444 AATAAATATTTATCT
1 AATAAATATTTATCT
5333459 AATAAATATTTATC
1 AATAAATATTTATC
5333473 AAAGCTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAAATATTTATCT
Found at i:5333663 original size:21 final size:21
Alignment explanation
Indices: 5333639--5333683 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5333629 CCTAAATCCC
*
5333639 GAACCCTAAATCAT-GAACCTT
1 GAACCCAAAAT-ATCGAACCTT
*
5333660 GAACGCAAAATATCGAACCTT
1 GAACCCAAAATATCGAACCTT
5333681 GAA
1 GAA
5333684 TATCAAACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.20
Consensus pattern (21 bp):
GAACCCAAAATATCGAACCTT
Found at i:5333783 original size:21 final size:21
Alignment explanation
Indices: 5333759--5333809 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
5333749 TCAAACCTCA
* *
5333759 AACCTTGAACACC-AAATCATG
1 AACCTTAAAC-CCTAAACCATG
5333780 AACCTTAAACCCTAAACCATG
1 AACCTTAAACCCTAAACCATG
5333801 AACC-TAAAC
1 AACCTTAAAC
5333810 TCAGAACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.45, C:0.31, G:0.06, T:0.18
Consensus pattern (21 bp):
AACCTTAAACCCTAAACCATG
Found at i:5333981 original size:21 final size:21
Alignment explanation
Indices: 5333957--5334006 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
5333947 TTGAGGTTCG
5333957 AGATTTAAGGTTCTAAATTCA
1 AGATTTAAGGTTCTAAATTCA
* **
5333978 AGATTTGAGGTTCTTGATTCA
1 AGATTTAAGGTTCTAAATTCA
5333999 AGATTTAA
1 AGATTTAA
5334007 AGTAAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (21 bp):
AGATTTAAGGTTCTAAATTCA
Found at i:5336318 original size:29 final size:29
Alignment explanation
Indices: 5336282--5336341 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
5336272 ATAGTACAAA
5336282 CGATTCGAGTACCCATCTAGAACCAAAAC
1 CGATTCGAGTACCCATCTAGAACCAAAAC
5336311 CGATTCGAGTACCCATCTAGAACCAAAAC
1 CGATTCGAGTACCCATCTAGAACCAAAAC
5336340 CG
1 CG
5336342 CATATAGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.32, G:0.15, T:0.17
Consensus pattern (29 bp):
CGATTCGAGTACCCATCTAGAACCAAAAC
Found at i:5336806 original size:12 final size:12
Alignment explanation
Indices: 5336789--5336824 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
5336779 ATTCATTTGA
5336789 CATTCATGCATT
1 CATTCATGCATT
*
5336801 CATTCATGCATC
1 CATTCATGCATT
*
5336813 CATTCATTCATT
1 CATTCATGCATT
5336825 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:5336818 original size:16 final size:17
Alignment explanation
Indices: 5336797--5336828 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5336787 GACATTCATG
5336797 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
5336813 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
5336829 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:5345455 original size:72 final size:71
Alignment explanation
Indices: 5345334--5345528 Score: 248
Period size: 72 Copynumber: 2.7 Consensus size: 71
5345324 GAGTTAAGCC
* * * *
5345334 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGA
5345398 TGAGGTA
65 TGAGGTA
**
5345405 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGA
5345470 TGAGGTA
65 TGAGGTA
* * * * *
5345477 ATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCAAGAGGTGAGTTGA
5345529 ACCTTTTAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 6 0.06
72 71 0.66
73 30 0.28
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGAT
GAGGTA
Found at i:5345623 original size:253 final size:253
Alignment explanation
Indices: 5345307--5346094 Score: 1486
Period size: 253 Copynumber: 3.1 Consensus size: 253
5345297 TTTAAATTGA
*
5345307 CTCATATTGCAAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTA
1 CTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTA
5345372 GAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCAT
66 GAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCAT
*
5345437 ATTGCAAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAAT
131 ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAAT
*
5345502 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTTCAAAATTAG
196 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTTCAAAATCAG
*
5345560 CTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTTAAAATCAACTCATATTGCTA
1 CTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTA
*
5345625 GAGGTGAGTTGAGCCTCGGGGCACGCTAAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCAT
66 GAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCAT
*
5345690 ATTGCGAGAGATGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAAT
131 ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAAT
5345755 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTTTCAAAATCAG
196 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTAC-TTTTTTCAAAATCAG
*
5345814 CTAATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTA
1 CTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTA
5345879 GAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCAT
66 GAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCAT
5345944 ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAAT
131 ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAAT
*
5346009 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCGACTTTTTTCAAAATCAG
196 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTTCAAAATCAG
*
5346067 CTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTCATATTGCGAGAGGTGAGTTAAGCCT
5346095 CAGGTCACGC
Statistics
Matches: 521, Mismatches: 13, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
253 274 0.53
254 247 0.47
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (253 bp):
CTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTA
GAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCAT
ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAAT
CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTTCAAAATCAG
Found at i:5345628 original size:53 final size:55
Alignment explanation
Indices: 5345494--5345640 Score: 192
Period size: 55 Copynumber: 2.7 Consensus size: 55
5345484 TTTCTGTTTG
*
5345494 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTTT
1 TCAA-AATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTTCTACTTTTT
* * **
5345550 TCAAAATTAGCTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTT-TTGTTTTT
1 TCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTACTTTTT
* *
5345604 T-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCT
1 TCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
5345641 CGGGGCACGC
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
53 32 0.40
54 9 0.11
55 36 0.44
56 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (55 bp):
TCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTACTTTTT
Found at i:5345708 original size:72 final size:71
Alignment explanation
Indices: 5345587--5345781 Score: 239
Period size: 72 Copynumber: 2.7 Consensus size: 71
5345577 GAGTTAAGCC
* * * *
5345587 TTTT-AATTTTTGTTTTTTAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
5345651 TAAGGTA
65 TAAGGTA
** *
5345658 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
*
5345723 TGAGGTA
65 TAAGGTA
* * * *
5345730 ATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
5345782 ACCTTTTAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
71 7 0.07
72 72 0.69
73 26 0.25
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
AAGGTA
Found at i:5345821 original size:56 final size:54
Alignment explanation
Indices: 5345735--5345894 Score: 200
Period size: 53 Copynumber: 2.9 Consensus size: 54
5345725 AGGTAATTTC
* * *
5345735 AATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTT
1 AATTTTTGTTTTTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTT
* * *
5345789 AATTTCTACTTTTTTTCAAAATCAGCTAATATTGCGAGAGGTGAGTT-AAGCCTTTT
1 AATTT-T--TGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTT
*
5345845 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTG-AGCCT
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCT
5345895 CGGGGCACGC
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
53 39 0.43
54 5 0.05
55 3 0.03
56 36 0.40
57 8 0.09
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (54 bp):
AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTT
Found at i:5345962 original size:72 final size:71
Alignment explanation
Indices: 5345841--5346035 Score: 257
Period size: 72 Copynumber: 2.7 Consensus size: 71
5345831 GAGTTAAGCC
* * * *
5345841 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
5345905 TGAGGTA
65 TGAGGTA
**
5345912 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
5345977 TGAGGTA
65 TGAGGTA
* * * *
5345984 ATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
5346036 ACCTTTTAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
71 6 0.06
72 71 0.66
73 31 0.29
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
GAGGTA
Found at i:5346244 original size:88 final size:85
Alignment explanation
Indices: 5346039--5346304 Score: 291
Period size: 88 Copynumber: 3.0 Consensus size: 85
5346029 GGGTTGAACC
** * * *
5346039 TTTTAATTTCGACTTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACG
1 TTTTAATTTTTAC-TTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACG
5346104 CCGAAGTATTTTCAATTTCTG-
65 -CGAAGTATTTTCAATTTCTGT
* ** ** *
5346125 TTTTCATTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGGGTCA
1 TTTTAATT-TT-TACTTTTCCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* *
5346190 CATGTCGATGTATTTTCAAATTCTGT
63 C--G-CGAAGTATTTTCAATTTCTGT
* * *
5346216 TTTTAATTTTTACTTTTCCAAAACCAACTCATATTGCGAGAGGTGAGTTGCGCCTCGGGGCACGC
1 TTTTAATTTTTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGC
*
5346281 TGAGGTATTTTCAATTTCTGT
66 -GAAGTATTTTCAATTTCTGT
5346302 TTT
1 TTT
5346305 CAAGAATCAA
Statistics
Matches: 149, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
85 1 0.01
86 29 0.19
87 7 0.05
88 77 0.52
89 7 0.05
90 21 0.14
91 7 0.05
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (85 bp):
TTTTAATTTTTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGC
GAAGTATTTTCAATTTCTGT
Found at i:5346289 original size:376 final size:358
Alignment explanation
Indices: 5346001--5346778 Score: 924
Period size: 372 Copynumber: 2.1 Consensus size: 358
5345991 TTTCTGTTTG
5346001 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCGACTTTTTTCAAAATCA
1 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCGAC-TTTTTCAAAATCA
* * *
5346066 GCTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGTCAC-GCCGAAGTATTTTCAATTTCTGTT-T
65 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-GTCACAGCCGAAGTATTTTCAAATTCTATTAT
* * * * * *
5346128 TCATTATTATGTTTTTGA-A-AGAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGGGTCAC
129 TCA-AATTATGTTTTTAATATAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
* *
5346191 ATG-TCGATGTATTTTCAAATTCTG-TTTTTAATTTTTACTTTTCCAAAACCAACTCATATTGCG
193 --GCT-GAGGTATTTTCAAATTCTGCTTTTTAATTTTTACTTTTCCAAAATCAACTCATATTGCG
* **
5346254 AGAGGTGAGTTGCGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCAAGAATCAACTCA
255 AGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCAA-TTTCAACTCA
*
5346319 TATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTGT
319 TATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTGT
*
5346359 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAA
1 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCGACTTTTTCAAAATCAA
* *
5346424 CTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATGTCGAGGTATTTTCAAATTCTATTATT
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACA-GCCGAAGTATTTTCAAATTCTATTATT
*
5346489 CAAATTCTGTTTTTAATTTTTACTTTTCCAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT
130 CAAATTATGTTTTTAA----TA----T--AAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * *
5346554 CGGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCTTACTTTTCAAAAAAATCAACTCA
185 CGGGGCACGCTGAGGTATTTTCAAATTCTGCTTTTTAATTTTTACTTTTC--CAAAATCAACTCA
* *
5346619 TATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTA
248 TATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTGTTTTC-A---A
* *
5346684 TGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
309 -----TT------TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTGT
* *
5346745 TCAA-AATCAGCTCATATTGCGAGAGGTGAGTTGA
1 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
5346779 GCCTCGGTTC
Statistics
Matches: 359, Mismatches: 27, Indels: 41
0.84 0.06 0.10
Matches are distributed among these distances:
357 47 0.13
358 51 0.14
359 31 0.09
360 4 0.01
364 1 0.00
369 18 0.05
370 18 0.05
371 40 0.11
372 67 0.19
373 1 0.00
376 1 0.00
380 1 0.00
385 28 0.08
386 51 0.14
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (358 bp):
TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCGACTTTTTCAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACAGCCGAAGTATTTTCAAATTCTATTATTC
AAATTATGTTTTTAATATAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTATTTTCAAATTCTGCTTTTTAATTTTTACTTTTCCAAAATCAACTCATATTGCGAGAGGT
GAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTCAACTCATATTGCG
AGAGGTGAGTTGAACCTTTTAATTTCTACTTGT
Found at i:5346447 original size:54 final size:55
Alignment explanation
Indices: 5346301--5346447 Score: 269
Period size: 55 Copynumber: 2.7 Consensus size: 55
5346291 TCAATTTCTG
5346301 TTTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
1 TTTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
*
5346356 TGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
1 TTTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
*
5346411 TTTTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
5346448 GCCTCGAGTC
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 29 0.33
55 60 0.67
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (55 bp):
TTTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
Found at i:5346635 original size:89 final size:85
Alignment explanation
Indices: 5346482--5346724 Score: 326
Period size: 89 Copynumber: 2.8 Consensus size: 85
5346472 TTTCAAATTC
* * * *
5346482 TATTATTCAAATTCTGTTTTTAATTTTTACTTTTCCAAAACCAACTCATATTGCGAGAGGTGAGT
1 TATT-TTCAATTTCTGTTTTCAA-TTTTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
*
5346547 TGAGCCTCGGGGCACGCTGAGG
64 TGAGCCTCAGGGCACGCTGAGG
5346569 TATTTTCAATTTCTGCTTTTCAATTCTTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
1 TATTTTCAATTTCTG-TTTTCAATT-TTACTTTTC--AAAAATCAACTCATATTGCGAGAGGTGA
*
5346634 GTTGAGCCTCAGGTCACGCTGAGG
62 GTTGAGCCTCAGGGCACGCTGAGG
* * *
5346658 TATTTTCAATTTCTGTTTTCAA-TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGT
1 TATTTTCAATTTCTGTTTTCAATTTTA-CTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGT
5346722 TGA
64 TGA
5346725 ACCTTTTAAT
Statistics
Matches: 141, Mismatches: 9, Indels: 13
0.87 0.06 0.08
Matches are distributed among these distances:
86 46 0.33
87 22 0.16
88 10 0.07
89 63 0.45
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (85 bp):
TATTTTCAATTTCTGTTTTCAATTTTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAGGGCACGCTGAGG
Found at i:5346678 original size:13 final size:13
Alignment explanation
Indices: 5346660--5346693 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
5346650 CGCTGAGGTA
*
5346660 TTTTCAATTTCTG
1 TTTTCAATTTATG
5346673 TTTTCAATTTATG
1 TTTTCAATTTATG
5346686 TTGTTCAA
1 TT-TTCAA
5346694 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:5346945 original size:72 final size:72
Alignment explanation
Indices: 5346828--5346968 Score: 273
Period size: 72 Copynumber: 2.0 Consensus size: 72
5346818 TTCAAAAAAA
5346828 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTC
5346893 TGTTTTC
66 TGTTTTC
*
5346900 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTC
5346965 TGTT
66 TGTT
5346969 CAAAATGAGT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (72 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:5346979 original size:49 final size:49
Alignment explanation
Indices: 5346922--5347017 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
5346912 ATATTGCGAG
5346922 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
*
5346971 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTGAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTT
5347018 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
Found at i:5347064 original size:121 final size:121
Alignment explanation
Indices: 5346850--5347089 Score: 408
Period size: 121 Copynumber: 2.0 Consensus size: 121
5346840 ATATTGCGAG
5346850 AAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
5346915 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
* *
5346971 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTGAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * * * *
5347036 TTGTGAGAAATTAGTTGATCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
5347090 TTTCAAAAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 111 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (121 bp):
AAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:5347226 original size:75 final size:75
Alignment explanation
Indices: 5346971--5347324 Score: 419
Period size: 78 Copynumber: 4.7 Consensus size: 75
5346961 TTTCTGTTCA
* * * *
5346971 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTGAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
5347033 ATATTGTGAG
66 ATATTGTGAG
* * *
5347043 AAATTAGTTGATCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC---AAAAAAATCAA
5347108 CTCATATTGTGAG
63 CTCATATTGTGAG
*
5347121 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
*
5347186 ATATTGCGAG
66 ATATTGTGAG
** * * * * *
5347196 AGGTGAGTTGAGCCTCAGGACACGCAGAGGTAATTTCAATTTCT-ATTGTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
*
5347260 GTATTGTGAG
66 ATATTGTGAG
*** * * * *
5347270 AGGCGAGTTGAGCCTCAGGTCACACCCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
5347325 TTTCTGCCTT
Statistics
Matches: 246, Mismatches: 27, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
72 39 0.16
73 5 0.02
74 44 0.18
75 61 0.25
76 21 0.09
77 6 0.02
78 70 0.28
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (75 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGTGAG
Found at i:5347416 original size:93 final size:93
Alignment explanation
Indices: 5347246--5347417 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 93
5347236 TTCTATTGTC
* * *
5347246 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACCCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACCCCGAGCTATTTTCAA
*
5347311 TTTCCGTTTTTCAATTTCTGCCTTTCAA
66 TTTCCGTCTTTCAATTTCTGCCTTTCAA
* * * * *
5347339 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACCCCGAGCTATTTTCA
**
5347403 ATTTTTGTCTTTCAA
65 ATTTCCGTCTTTCAA
5347418 AAAAAATCAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
92 2 0.03
93 65 0.97
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (93 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACCCCGAGCTATTTTCAA
TTTCCGTCTTTCAATTTCTGCCTTTCAA
Found at i:5347448 original size:78 final size:78
Alignment explanation
Indices: 5347318--5347914 Score: 337
Period size: 88 Copynumber: 7.2 Consensus size: 78
5347308 CAATTTCCGT
**
5347318 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTTTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
*
5347383 CACGCGCTGAGCTA
65 CACACGCTGAGCTA
* * * * *
5347397 TTTTCAATTTTTGTCTTTCAAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAG-CTTCAGAT
1 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCT
* *
5347461 CACACACTGAGGTA
65 CACACGCTGAGCTA
* * * ** * *
5347475 TTTTTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATTTGAGTTGAGCCTCGGG
1 --TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
* *
5347539 TCACATG-TCGAGGTA
64 TCACACGCT-GAGCTA
** * * *
5347554 TTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTTATATTGCGAGAAGTGAGATGA
1 TTTTCAATTTCTGTTTTTCAAA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
**
5347619 GCCTTGGCTCACGTGCTGAGCTA
56 GCCTTGGCTCACACGCTGAGCTA
* *
5347642 TTTTCAATTTCTATTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTT
1 TTTTCAATTTC-----TGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC---
* ** * * *
5347707 TTAATTTCTGCGAGA-GTTGAGTTGA
58 CT--TGGCT-C-ACACGCTGAGCT-A
* * **
5347732 GTCTTTTAATTTCTGTTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG
1 -T-TTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGG
*** *
5347794 -TCACATATTGAGGTA
63 CTCACACGCTGAGCTA
** * *
5347809 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 TTTTCAATTTCTG-TTTT----TCAA-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
5347874 GCCTTGGTTCATACGCTGAGCTA
56 GCCTTGGCTCACACGCTGAGCTA
5347897 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
5347915 AATGTCTGTT
Statistics
Matches: 397, Mismatches: 74, Indels: 90
0.71 0.13 0.16
Matches are distributed among these distances:
75 9 0.02
76 5 0.01
77 21 0.05
78 59 0.15
79 62 0.16
80 19 0.05
81 1 0.00
83 32 0.08
84 33 0.08
86 1 0.00
87 12 0.03
88 113 0.28
89 8 0.02
90 2 0.01
91 1 0.00
92 9 0.02
93 10 0.03
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (78 bp):
TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
ACACGCTGAGCTA
Found at i:5347543 original size:79 final size:78
Alignment explanation
Indices: 5347318--5347543 Score: 256
Period size: 79 Copynumber: 2.9 Consensus size: 78
5347308 CAATTTCCGT
* ** * *
5347318 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTATATCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAT
* *
5347383 CACGCGCTGAGCTA
65 CACACACTGAGCTA
* * * * *
5347397 TTTTCAATTTTTGTCTTTCAAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTTCAATTTATATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATC
*
5347462 ACACACTGAGGTA
66 ACACACTGAGCTA
* * ** *
5347475 TTTTTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATTTGAGTTGAGCCTCGGG
1 --TTTTCAATTTATATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA
5347539 TCACA
64 TCACA
5347544 TGTCGAGGTA
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
78 51 0.41
79 58 0.46
80 16 0.13
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (78 bp):
TTTTCAATTTATATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATC
ACACACTGAGCTA
Found at i:5347554 original size:250 final size:244
Alignment explanation
Indices: 5347075--5347914 Score: 819
Period size: 250 Copynumber: 3.4 Consensus size: 244
5347065 TGCTGAGGTA
* *
5347075 TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--C
1 TTTTCAATTTCTG-TTTTC----AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC
** * * *
5347137 AAGACATGCTGAGGTATTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTG
61 -TCACACGCTGAGCTATTTTCAATTTTTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTG
* * * * *
5347201 AGTTGAGCCTCAGGA-CACGCA-GAGGTA-ATTTCAATTTCTA-TTGTCAAAAAAATCAACTCGT
125 AGTTGAGCTTCA-GATCACACATGAGGTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCAT
* * *** ** *
5347262 ATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACCCCGAGGTATTTTCAATTTCCGT
189 ATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATATCGAGGTATTTTCAAAATCTGT
* *
5347318 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTG-TTTTC---AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCT
* * *
5347383 CACGCGCTGAGCTATTTTCAATTTTTGTCTTTCAAAAAAAATCAATTCATATTGCGAGAGGTGAG
62 CACACGCTGAGCTATTTTCAATTTTTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAG
* *
5347448 TTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACA
127 TTGAGCTTCAGATCACACA-TGAGGTA-TTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATA
** * *
5347513 TTGCGAGATTTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGT
190 TTGCGAGAGGTGAGTTGAGCCTCAGGTCACATATCGAGGTATTTTCAAAATCTGT
* * * *
5347568 TTTTCAAATTCTGTTTTC-AAAAATCAACTTATATTGCGAGAAGTGAGATGAGCCTTGGCTCACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACA
* * *
5347632 TGCTGAGCTATTTTCAATTTCTATTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGA
66 CGCTGAGCTATTTTCAA----T-TTTTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGA
* * * * *
5347697 GTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC--AAAAA
126 GTTGAGC--TTCAGA--TC-AC-ACA--TGAGGT-A-T-TTTTCAATTTCTATTTTTCAAAAAAA
* *
5347758 TCAACTCATATTGCGAGAGGTGAGTTGAACCTCCA-GTCACATATTGAGGTATTTTCAAAATCTG
180 TCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGGTCACATATCGAGGTATTTTCAAAATCTG
*
5347822 C
244 T
* ** * * * *
5347823 TTTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGTTCATA
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACA
*
5347887 CGCTGAGCTATTTTCAATTTCTGTTTTT
66 CGCTGAGCTATTTTCAATTTTTGTTTTT
5347915 AATGTCTGTT
Statistics
Matches: 501, Mismatches: 70, Indels: 45
0.81 0.11 0.07
Matches are distributed among these distances:
242 37 0.07
243 18 0.04
244 29 0.06
245 104 0.21
247 6 0.01
249 16 0.03
250 128 0.26
251 2 0.00
252 3 0.01
253 2 0.00
254 5 0.01
255 127 0.25
256 6 0.01
257 14 0.03
258 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (244 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACA
CGCTGAGCTATTTTCAATTTTTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCTTCAGATCACACATGAGGTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCTCAGGTCACATATCGAGGTATTTTCAAAATCTGT
Found at i:5347573 original size:14 final size:13
Alignment explanation
Indices: 5347554--5347589 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
5347544 TGTCGAGGTA
5347554 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
5347567 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
5347581 TTTTCAAAA
1 TTTTCAAAA
5347590 ATCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:5347721 original size:30 final size:30
Alignment explanation
Indices: 5347685--5347746 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
5347675 CAACTCATAT
5347685 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
5347715 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
5347745 TG
1 TG
5347747 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:5347829 original size:255 final size:248
Alignment explanation
Indices: 5347144--5347914 Score: 727
Period size: 255 Copynumber: 3.1 Consensus size: 248
5347134 CTCAAGACAT
* *
5347144 GCTGAGGTATTTTCAATTTC---TGTT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGT
1 GCTGAGCTATTTTCAATTTCTTTTTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * * * * **
5347204 TGAGCCTCAGGA-CACGCA--GAGGTA--ATTTCAATTTCTA-TTGTCAAAAAAATCAACTCGTA
66 TGAGCTTCA-GATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACA
* * * *** ** * * *
5347263 TTGTGAGAGGCGAGTTGAGCCT-CAGGTCACACCCCGAGGTATTTTCAATTTCCGTTTTTCAATT
129 TTGCGAGAGGTGAGTTGAACCTCCA-GTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAAT
**
5347327 TCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
193 TAAG--TTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
* *
5347388 GCTGAGCTATTTTCAA----TTTTTGTCTTTCAAAAAAAATCAATTCATATTGCGAGAGGTGAGT
1 GCTGAGCTATTTTCAATTTCTTTTTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
5347449 TGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACAT
66 TGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACAT
** * ** * * *
5347514 TGCGAGATTTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTC
130 TGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTA
* * * * *
5347579 TGTTTTC-AAAAATCAACTTATATTGCGAGAAGTGAGATGAGCCTTGGCTCACGT
195 AG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
* *
5347633 GCTGAGCTATTTTCAATTTCTATTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG
1 GCTGAGCTATTTTCAATTTCT-TTTTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAG
* * * * * * *
5347698 TTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATC
65 TTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATC
* *
5347760 AACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATTGAGGTATTTTCAAAATCTGCTT
121 AACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTT
* * * **
5347825 TTCAAGTTAAGTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGTTCATAC
186 TTCAAATTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
5347888 GCTGAGCTATTTTCAATTTCTGTTTTT
1 GCTGAGCTATTTTCAATTTCTTTTTTT
5347915 AATGTCTGTT
Statistics
Matches: 438, Mismatches: 62, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
243 2 0.00
244 21 0.05
245 103 0.24
247 6 0.01
249 16 0.04
250 118 0.27
251 1 0.00
252 3 0.01
253 2 0.00
254 10 0.02
255 133 0.30
256 5 0.01
257 13 0.03
258 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (248 bp):
GCTGAGCTATTTTCAATTTCTTTTTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATT
GCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
GTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
Found at i:5348615 original size:26 final size:26
Alignment explanation
Indices: 5348571--5348628 Score: 91
Period size: 28 Copynumber: 2.2 Consensus size: 26
5348561 AAGCCCCCCC
5348571 AAAAAAAACCTAA-CCCCCCCCCAAA
1 AAAAAAAACCTAACCCCCCCCCCAAA
5348596 AAAAGAAAACCTAACTCCCCCCCCCAAA
1 AAAA-AAAACCTAAC-CCCCCCCCCAAA
5348624 AAAAA
1 AAAAA
5348629 CCAAGAAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.13
26 9 0.30
27 1 0.03
28 16 0.53
ACGTcount: A:0.53, C:0.40, G:0.02, T:0.05
Consensus pattern (26 bp):
AAAAAAAACCTAACCCCCCCCCCAAA
Found at i:5348923 original size:12 final size:12
Alignment explanation
Indices: 5348908--5348943 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
5348898 CTTTCGAATC
5348908 TTTTTTTTCTTT
1 TTTTTTTTCTTT
* *
5348920 TTTTTTGTCTTG
1 TTTTTTTTCTTT
5348932 TTTTTTTTCTTT
1 TTTTTTTTCTTT
5348944 CTTTATATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:5355175 original size:22 final size:23
Alignment explanation
Indices: 5355150--5355195 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
5355140 CAACCAAACT
5355150 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
5355172 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
5355195 A
1 A
5355196 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:5355201 original size:23 final size:23
Alignment explanation
Indices: 5355157--5355201 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5355147 ACTAATTCAA
*
5355157 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
5355180 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
5355202 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:5359047 original size:34 final size:33
Alignment explanation
Indices: 5358989--5359099 Score: 116
Period size: 34 Copynumber: 3.3 Consensus size: 33
5358979 TTCTAATATG
* * * *
5358989 ATATTACATTCTAATTTGACATATGCTTATGGAA
1 ATATGACATTCTGATTCGATATATG-TTATGGAA
*
5359023 ATATGACATTCTGATTCGATATATGTTTTCGGAA
1 ATATGACATTCTGATTCGATATATGTTAT-GGAA
* *
5359057 ATATGACATTTTGA-TCTGATATATGTTTATGGTA
1 ATATGACATTCTGATTC-GATATATG-TTATGGAA
5359091 ATATGACAT
1 ATATGACAT
5359100 GTTGATATGA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
33 5 0.08
34 58 0.88
35 3 0.05
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (33 bp):
ATATGACATTCTGATTCGATATATGTTATGGAA
Found at i:5359105 original size:34 final size:32
Alignment explanation
Indices: 5359004--5359112 Score: 121
Period size: 34 Copynumber: 3.2 Consensus size: 32
5358994 ACATTCTAAT
* *
5359004 TTGACATATGCTTATGGAAATATGACATTCTGA
1 TTGATATATGTTTATGGAAATATGACATT-TGA
5359037 TTCGATATATGTTT-TCGGAAATATGACATTTTGA
1 TT-GATATATGTTTAT-GGAAATATGACA-TTTGA
*
5359071 TCTGATATATGTTTATGGTAATATGACATGTTGA
1 T-TGATATATGTTTATGGAAATATGACAT-TTGA
5359105 TATGATAT
1 T-TGATAT
5359113 TTATATATGT
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
33 4 0.06
34 58 0.88
35 4 0.06
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (32 bp):
TTGATATATGTTTATGGAAATATGACATTTGA
Found at i:5361127 original size:25 final size:27
Alignment explanation
Indices: 5361090--5361143 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
5361080 TCAAACATGC
5361090 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
5361116 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
5361142 AT
1 AT
5361144 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:5361151 original size:26 final size:27
Alignment explanation
Indices: 5361107--5361182 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
5361097 TCAATTTAAC
* * *
5361107 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
5361133 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
5361161 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
5361183 ATCTATTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:5362664 original size:26 final size:26
Alignment explanation
Indices: 5362628--5362711 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
5362618 CATGAAATTC
5362628 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5362654 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5362680 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5362706 TTATCA
1 TTATCA
5362712 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5363165 original size:16 final size:16
Alignment explanation
Indices: 5363146--5363176 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5363136 AAATTGAACC
5363146 TTAGTTTCTTGATTCG
1 TTAGTTTCTTGATTCG
5363162 TTAGTTTCTTGATTC
1 TTAGTTTCTTGATTC
5363177 TCTTATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (16 bp):
TTAGTTTCTTGATTCG
Found at i:5368948 original size:20 final size:20
Alignment explanation
Indices: 5368923--5368961 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
5368913 TTAAGGTAAG
5368923 ATCCCTTGTTTAAATGAGAA
1 ATCCCTTGTTTAAATGAGAA
5368943 ATCCCTTGTTTAAATGAGA
1 ATCCCTTGTTTAAATGAGA
5368962 TGAATTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
ATCCCTTGTTTAAATGAGAA
Found at i:5370131 original size:21 final size:21
Alignment explanation
Indices: 5370105--5370144 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5370095 GTTTTATATT
*
5370105 ATTTTTAGTTGTTTTAAGTTA
1 ATTTTTAGTTATTTTAAGTTA
5370126 ATTTTTAGTTATTTTAAGT
1 ATTTTTAGTTATTTTAAGT
5370145 AATAGATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (21 bp):
ATTTTTAGTTATTTTAAGTTA
Found at i:5370686 original size:15 final size:15
Alignment explanation
Indices: 5370668--5370697 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5370658 TGTTTCAATG
5370668 TTTGTTATAAATTAA
1 TTTGTTATAAATTAA
5370683 TTTGTTATAAATTAA
1 TTTGTTATAAATTAA
5370698 CCATTGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTGTTATAAATTAA
Found at i:5376267 original size:17 final size:17
Alignment explanation
Indices: 5376247--5376380 Score: 169
Period size: 17 Copynumber: 7.6 Consensus size: 17
5376237 CAATGATATG
*
5376247 CAATCTTAGATACGATA
1 CAATCTTAGATATGATA
* *
5376264 CAATCTTAAATATGATTG
1 CAATCTTAGATATGA-TA
5376282 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
5376299 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
5376317 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
5376334 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
5376352 CAATATTAGATATGATATA
1 CAATCTTAGATATG--ATA
5376371 CAATCTTAGA
1 CAATCTTAGA
5376381 AGATATGATT
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
17 45 0.45
18 45 0.45
19 10 0.10
20 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:5376285 original size:35 final size:35
Alignment explanation
Indices: 5376239--5376380 Score: 230
Period size: 35 Copynumber: 4.0 Consensus size: 35
5376229 ATAATCTTCA
* *
5376239 ATGATATGCAATCTTAGATACGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
5376275 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
5376310 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
*
5376345 ATGATTGCAATATTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
5376381 AGATATGATT
Statistics
Matches: 101, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 83 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:5376866 original size:18 final size:17
Alignment explanation
Indices: 5376845--5376904 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
5376835 TTCTAAACCA
5376845 ATATATTTTATATTTTTT
1 ATATA-TTTATATTTTTT
* *
5376863 ATATAATTATTATTTCTT
1 ATATATTTA-TATTTTTT
*
5376881 ATA-A-ATATATTTTTT
1 ATATATTTATATTTTTT
5376896 ATTATATTT
1 A-TATATTT
5376905 TAAATTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 5 0.15
18 16 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATATTTATATTTTTT
Found at i:5380971 original size:35 final size:35
Alignment explanation
Indices: 5380906--5380974 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
5380896 AGGTGTTAGA
* **
5380906 ACGTTTGTAGGCAGTCAACTAGTACGAGCGGTGGT
1 ACGTTTGTAGGCAGTCAACTAATAAAAGCGGTGGT
5380941 ACGTTTGTAGGCAGTCAACTAATAAAAGCGGTGG
1 ACGTTTGTAGGCAGTCAACTAATAAAAGCGGTGG
5380975 CCTCTTACGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (35 bp):
ACGTTTGTAGGCAGTCAACTAATAAAAGCGGTGGT
Found at i:5381821 original size:16 final size:17
Alignment explanation
Indices: 5381802--5381862 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 17
5381792 TAATCACAAT
5381802 AATATTAAATTAATAT-
1 AATATTAAATTAATATA
* * *
5381818 AATATT-TATCAAAATA
1 AATATTAAATTAATATA
5381834 AATATTAAATTAAATATTA
1 AATATTAAATT-AATA-TA
5381853 AATATTAAAT
1 AATATTAAAT
5381863 CTTATTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 6 0.17
16 12 0.34
17 2 0.06
18 3 0.09
19 12 0.34
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATTAAATTAATATA
Found at i:5392708 original size:21 final size:22
Alignment explanation
Indices: 5392679--5392725 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5392669 CAGAAGGAGT
*
5392679 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
5392701 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
5392722 GAGT
1 GAGT
5392726 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:5393705 original size:14 final size:14
Alignment explanation
Indices: 5393686--5393715 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5393676 AATTCGTATA
5393686 GAAGTTTATGTTAG
1 GAAGTTTATGTTAG
5393700 GAAGTTTATGTTAG
1 GAAGTTTATGTTAG
5393714 GA
1 GA
5393716 TCGTCCCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (14 bp):
GAAGTTTATGTTAG
Found at i:5394052 original size:24 final size:24
Alignment explanation
Indices: 5394025--5394076 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
5394015 TTAGTAAGTC
*
5394025 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
5394049 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
5394073 AAAT
1 AAAT
5394077 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:5395430 original size:43 final size:43
Alignment explanation
Indices: 5395373--5395455 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
5395363 CTTCGAATAT
5395373 AACTGTATAACAGACATGAAGAATACCAAACAAAAATCTTATA
1 AACTGTATAACAGACATGAAGAATACCAAACAAAAATCTTATA
5395416 AACTGTATAACAGACATGAAGAATACCAAACAAAAATCTT
1 AACTGTATAACAGACATGAAGAATACCAAACAAAAATCTT
5395456 TCTCTTTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.20
Consensus pattern (43 bp):
AACTGTATAACAGACATGAAGAATACCAAACAAAAATCTTATA
Found at i:5399681 original size:21 final size:20
Alignment explanation
Indices: 5399650--5399688 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
5399640 AGCTTAACCT
*
5399650 AAATTAATAAAATAAAATTA
1 AAATTAATAAAACAAAATTA
5399670 AAATTAAATAAAACAAAAT
1 AAATT-AATAAAACAAAAT
5399689 AATATCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATTAATAAAACAAAATTA
Found at i:5400408 original size:27 final size:27
Alignment explanation
Indices: 5400333--5400408 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
5400323 GTAGTCCGCA
* * *
5400333 GGGACAATAAACAAGGAGGTAGTCTGTC
1 GGGACAATAAACACGG-GGTAGCCTATC
* * * *
5400361 GGGACAGTAAACACAGTGTAGCCTATT
1 GGGACAATAAACACGGGGTAGCCTATC
*
5400388 GGGACAATAAATACGGGGTAG
1 GGGACAATAAACACGGGGTAG
5400409 TCTACCTAGA
Statistics
Matches: 37, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 24 0.65
28 13 0.35
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (27 bp):
GGGACAATAAACACGGGGTAGCCTATC
Found at i:5407541 original size:15 final size:15
Alignment explanation
Indices: 5407529--5407576 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 15
5407519 GAAAAATATT
5407529 TATATTAATAATAAA
1 TATATTAATAATAAA
*
5407544 TATATTAAAATTTATAAA
1 TATATT--AA-TAATAAA
5407562 TAT-TTAATAATAAA
1 TATATTAATAATAAA
5407576 T
1 T
5407577 GTTTTATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 7 0.25
15 8 0.29
17 4 0.14
18 9 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATATTAATAATAAA
Found at i:5409993 original size:36 final size:33
Alignment explanation
Indices: 5409920--5409993 Score: 82
Period size: 36 Copynumber: 2.2 Consensus size: 33
5409910 GTGTTTATTT
5409920 ATTAAA-TTATTAAAGTAATATTATTTTAATTA
1 ATTAAATTTATTAAAGTAATATTATTTTAATTA
*
5409952 A-TAAATTTAATTAAAATGTAATAATTATTTTTA-TA
1 ATTAAATTT-ATT-AAA-GTAAT-ATTATTTTAATTA
5409987 ATTAAAT
1 ATTAAAT
5409994 AATGCAATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
31 4 0.11
32 3 0.09
33 3 0.09
34 3 0.09
35 8 0.23
36 14 0.40
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (33 bp):
ATTAAATTTATTAAAGTAATATTATTTTAATTA
Found at i:5410637 original size:26 final size:25
Alignment explanation
Indices: 5410607--5410660 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
5410597 TAATGTAAAG
*
5410607 TAACATTATTAA-TATATATATATAAT
1 TAACATAATTAACTATA-ATAT-TAAT
*
5410633 TAACATAATTAACTCTAATATTAAT
1 TAACATAATTAACTATAATATTAAT
5410658 TAA
1 TAA
5410661 GTGATAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 15 0.60
27 3 0.12
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (25 bp):
TAACATAATTAACTATAATATTAAT
Found at i:5412746 original size:32 final size:32
Alignment explanation
Indices: 5412710--5412772 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
5412700 TAAATTAATA
*
5412710 AAATGTGCAAATTGTGAATACTTGGAATACTC
1 AAATGTGCAAATTGTGAATACTTGAAATACTC
5412742 AAATGTGCAAATTGTGAATACTTGAAATACT
1 AAATGTGCAAATTGTGAATACTTGAAATACT
5412773 TACTAAGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (32 bp):
AAATGTGCAAATTGTGAATACTTGAAATACTC
Found at i:5421625 original size:19 final size:19
Alignment explanation
Indices: 5421593--5421636 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
5421583 TACAAGCAAC
* *
5421593 ACAACATCAATCCAGATAA
1 ACAACATCAATCCAAAAAA
* *
5421612 ACAACATTAGTCCAAAAAA
1 ACAACATCAATCCAAAAAA
5421631 ACAACA
1 ACAACA
5421637 AAAACAAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.25, G:0.05, T:0.14
Consensus pattern (19 bp):
ACAACATCAATCCAAAAAA
Found at i:5425980 original size:14 final size:14
Alignment explanation
Indices: 5425958--5425994 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5425948 GGGAGTAGGA
5425958 TTCTGATTTTTTAT
1 TTCTGATTTTTTAT
*
5425972 TTTTGATTTTTTAT
1 TTCTGATTTTTTAT
5425986 TTCTGATTT
1 TTCTGATTT
5425995 CTGATTCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.05, G:0.08, T:0.73
Consensus pattern (14 bp):
TTCTGATTTTTTAT
Found at i:5430762 original size:21 final size:21
Alignment explanation
Indices: 5430715--5430755 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
5430705 GCAGGGGAAG
5430715 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
*
5430736 GAAAGAAA-AAAAAGGGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
5430756 TCGAAGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:5432740 original size:46 final size:46
Alignment explanation
Indices: 5432688--5432961 Score: 397
Period size: 46 Copynumber: 6.0 Consensus size: 46
5432678 AGTGTGCTCT
*
5432688 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
5432734 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
5432780 CTAATATGAAATGTTTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
5432826 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ***
5432872 GTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
5432918 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGATACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
5432962 TCTTGTCAAA
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 209 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:5436443 original size:43 final size:42
Alignment explanation
Indices: 5436333--5436443 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
5436323 TATGTAGAAT
* * *
5436333 AGAACATGACGTTTAGAGGCACTTATCCAAAAACGCCGTCAA
1 AGAACATGACCTTTAGAGGCACTTTTCCAAAAACGCCATCAA
* * * * *
5436375 AGAACATGACTTTTAGCGACACTTTTACTAAAAACGCCATTAA
1 AGAACATGACCTTTAGAGGCACTTTT-CCAAAAACGCCATCAA
* *
5436418 AGAACATGACCTTTAGTGGCGCTTTT
1 AGAACATGACCTTTAGAGGCACTTTT
5436444 TTTCCAAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (42 bp):
AGAACATGACCTTTAGAGGCACTTTTCCAAAAACGCCATCAA
Found at i:5436871 original size:23 final size:22
Alignment explanation
Indices: 5436832--5436876 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
5436822 TTTACCTACA
5436832 TAAAAAATAAAAAAAATAATAT
1 TAAAAAATAAAAAAAATAATAT
*
5436854 TAAAATAATCAAAAAAATAATAT
1 TAAAA-AATAAAAAAAATAATAT
5436877 GCCAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAAAAATAAAAAAAATAATAT
Found at i:5436968 original size:27 final size:27
Alignment explanation
Indices: 5436911--5436972 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
5436901 TATACTAAGT
* *
5436911 GTGCCGCCTATCAAATAGGTACCACCA
1 GTGCCGCCTATCAAATAGGCACAACCA
* **
5436938 GTGCCGCCTATCAGATAGGCACAACTG
1 GTGCCGCCTATCAAATAGGCACAACCA
5436965 GTGCCGCC
1 GTGCCGCC
5436973 CATCTGACAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.24, C:0.34, G:0.24, T:0.18
Consensus pattern (27 bp):
GTGCCGCCTATCAAATAGGCACAACCA
Found at i:5440375 original size:18 final size:19
Alignment explanation
Indices: 5440344--5440381 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
5440334 GACAATTGAG
* *
5440344 TGGTGGATATGTGGG-GGT
1 TGGTGGAAAAGTGGGAGGT
5440362 TGGTGGAAAAGTGGGAGGT
1 TGGTGGAAAAGTGGGAGGT
5440381 T
1 T
5440382 ATCAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.18, C:0.00, G:0.53, T:0.29
Consensus pattern (19 bp):
TGGTGGAAAAGTGGGAGGT
Found at i:5442537 original size:6 final size:6
Alignment explanation
Indices: 5442519--5442565 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
5442509 TTTGTGTACC
*
5442519 GTTACT GTGACT GTTACT GTTACT GTTACT GTTACT GTTACT GTTAC
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT GTTAC
5442566 CGTTGCGGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (6 bp):
GTTACT
Found at i:5444257 original size:22 final size:22
Alignment explanation
Indices: 5444232--5444281 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
5444222 GTCACACGAG
*
5444232 CGTGTGGAATTCTAGATCAGGC
1 CGTGTGGAATTCTAGACCAGGC
* *
5444254 CGTGTGGAATTCTGGACCAGGT
1 CGTGTGGAATTCTAGACCAGGC
5444276 CGTGTG
1 CGTGTG
5444282 ATCCACACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (22 bp):
CGTGTGGAATTCTAGACCAGGC
Found at i:5445864 original size:24 final size:23
Alignment explanation
Indices: 5445831--5445882 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
5445821 CCTCTTTTTC
5445831 TCTCTTTCTCAAGCAAAGGCAAA
1 TCTCTTTCTCAAGCAAAGGCAAA
*
5445854 TCTCATTTCTCAGGCAAAGGCAAA
1 TCTC-TTTCTCAAGCAAAGGCAAA
5445878 TCTCT
1 TCTCT
5445883 CTTTCTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (23 bp):
TCTCTTTCTCAAGCAAAGGCAAA
Found at i:5448766 original size:22 final size:22
Alignment explanation
Indices: 5448741--5448782 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
5448731 ACAGTTTAAA
5448741 ATATAAATTTATTAATATATAT
1 ATATAAATTTATTAATATATAT
5448763 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
5448783 GTAAAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATAAATTTATTAATATATAT
Found at i:5448813 original size:13 final size:13
Alignment explanation
Indices: 5448795--5448819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5448785 AAAAATAGAT
5448795 TTTTCAGAAAATA
1 TTTTCAGAAAATA
5448808 TTTTCAGAAAAT
1 TTTTCAGAAAAT
5448820 CTGCCAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
TTTTCAGAAAATA
Found at i:5448904 original size:20 final size:20
Alignment explanation
Indices: 5448863--5448929 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
5448853 CATCCAAACA
5448863 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
5448882 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
5448902 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
5448922 CCAGAAAA
1 CCAGAAAA
5448930 CATTTTACTG
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
19 16 0.34
20 31 0.66
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.25
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:5456605 original size:29 final size:28
Alignment explanation
Indices: 5456561--5456621 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
5456551 TAATTAATTT
5456561 TTTTAAAATTAAAAAA-ATTAAAAAAAATA
1 TTTTAAAATTAAAAAATA-T-AAAAAAATA
** *
5456590 TTTTAAAATTTTAAAATATAATAAAATA
1 TTTTAAAATTAAAAAATATAAAAAAATA
5456618 TTTT
1 TTTT
5456622 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 12 0.43
29 15 0.54
30 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
TTTTAAAATTAAAAAATATAAAAAAATA
Found at i:5458883 original size:21 final size:22
Alignment explanation
Indices: 5458846--5458889 Score: 56
Period size: 20 Copynumber: 2.0 Consensus size: 22
5458836 GTAATTCCAC
*
5458846 AACCGAATAATTCCAC-ACCTA
1 AACCGAATAATTACACAACCTA
5458867 AACC-AATAATTAACACAACCTA
1 AACCGAATAATT-ACACAACCTA
5458889 A
1 A
5458890 CTCAGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 7 0.35
22 6 0.30
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.18
Consensus pattern (22 bp):
AACCGAATAATTACACAACCTA
Found at i:5463801 original size:13 final size:13
Alignment explanation
Indices: 5463783--5463813 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5463773 TTCATATTTT
*
5463783 TAAAATATTTATA
1 TAAAATATTTAAA
5463796 TAAAATATTTAAA
1 TAAAATATTTAAA
5463809 TAAAA
1 TAAAA
5463814 CAATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAATATTTAAA
Found at i:5466232 original size:29 final size:30
Alignment explanation
Indices: 5466168--5466234 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
5466158 TTGAATTTAT
* *
5466168 ACATGAATTTTGTTTTAATGTACAATTTGAT
1 ACATGAACTTTGTTTTAATG-ACAATTTGAA
*
5466199 ACATGAACTTTGTTTTGATG-CAATTAT-AA
1 ACATGAACTTTGTTTTAATGACAATT-TGAA
5466228 ACATGAA
1 ACATGAA
5466235 GCTTGAATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.41
30 1 0.03
31 18 0.56
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (30 bp):
ACATGAACTTTGTTTTAATGACAATTTGAA
Found at i:5466527 original size:17 final size:17
Alignment explanation
Indices: 5466494--5466528 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5466484 TGGCAATCTT
*
5466494 TAAGGTTTGGTGAACTC
1 TAAGGTTTGGCGAACTC
*
5466511 TAAGGTTTGGCGGACTC
1 TAAGGTTTGGCGAACTC
5466528 T
1 T
5466529 TCTATGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.14, G:0.31, T:0.34
Consensus pattern (17 bp):
TAAGGTTTGGCGAACTC
Found at i:5472281 original size:16 final size:16
Alignment explanation
Indices: 5472262--5472292 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5472252 TCGGATACCG
*
5472262 AGTAGTTCAGATACAC
1 AGTAGATCAGATACAC
5472278 AGTAGATCAGATACA
1 AGTAGATCAGATACA
5472293 GAAATAGATT
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:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (16 bp):
AGTAGATCAGATACAC
Found at i:5474665 original size:40 final size:41
Alignment explanation
Indices: 5474591--5474671 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 41
5474581 CTACCTATTT
5474591 GATTCCACATAGAAGGCTAATTGACGCACAATTCAAATATC
1 GATTCCACATAGAAGGCTAATTGACGCACAATTCAAATATC
5474632 GATTCCACATAGAAGGCT-ATTGACGCACAATTCAAATATC
1 GATTCCACATAGAAGGCTAATTGACGCACAATTCAAATATC
5474672 TTGTTTACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 22 0.55
41 18 0.45
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (41 bp):
GATTCCACATAGAAGGCTAATTGACGCACAATTCAAATATC
Found at i:5475545 original size:26 final size:26
Alignment explanation
Indices: 5475516--5475575 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
5475506 AAATTGATTG
5475516 TTATTATTATTTAATATGTT-A-AGCTT
1 TTATTATTATTTAATAT-TTGATA-CTT
* *
5475542 TTATTATTGTTTATTATTTGATACTT
1 TTATTATTATTTAATATTTGATACTT
5475568 TTATTATT
1 TTATTATT
5475576 TAATATCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.07
26 27 0.90
27 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (26 bp):
TTATTATTATTTAATATTTGATACTT
Found at i:5491242 original size:15 final size:15
Alignment explanation
Indices: 5491222--5491259 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
5491212 ATTTTGTTGG
5491222 GACGAAACCAAACTC
1 GACGAAACCAAACTC
5491237 GACGAAACCAAACTC
1 GACGAAACCAAACTC
*
5491252 GATGAAAC
1 GACGAAAC
5491260 AACGCATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.08
Consensus pattern (15 bp):
GACGAAACCAAACTC
Found at i:5491357 original size:30 final size:31
Alignment explanation
Indices: 5491323--5491385 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
5491313 ACTTATTTTA
* *
5491323 TTGTTAATT-TTGTTATTATTTTAAAGGCAT
1 TTGTTAATTATTATTATTATTTTAAAGACAT
*
5491353 TTGTTAATTATTATTATTATTTTAGAGACAT
1 TTGTTAATTATTATTATTATTTTAAAGACAT
5491384 TT
1 TT
5491386 ACTTGTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 9 0.31
31 20 0.69
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (31 bp):
TTGTTAATTATTATTATTATTTTAAAGACAT
Found at i:5493769 original size:13 final size:13
Alignment explanation
Indices: 5493747--5493790 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
5493737 GAAATATTTT
5493747 ATTATTTATATAA
1 ATTATTTATATAA
*
5493760 ATTTTTTATATATGA
1 ATTATTTATATA--A
5493775 ATTATTTATATTAA
1 ATTATTTATA-TAA
5493789 AT
1 AT
5493791 AAATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 11 0.42
14 3 0.12
15 10 0.38
16 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATTATTTATATAA
Found at i:5493777 original size:15 final size:15
Alignment explanation
Indices: 5493753--5493790 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
5493743 TTTTATTATT
*
5493753 TATATAAATTTTTTA
1 TATATAAATTATTTA
*
5493768 TATATGAATTATTTA
1 TATATAAATTATTTA
5493783 TAT-TAAAT
1 TATATAAAT
5493791 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATATAAATTATTTA
Found at i:5498149 original size:31 final size:32
Alignment explanation
Indices: 5498108--5498168 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
5498098 TATAATTTTA
5498108 AATATAATAATAAAT-AATATTTAA-ATAATCT
1 AATATAATAATAAATCAA-ATTTAATATAATCT
* *
5498139 AATATGATAATACATCAAATTTAATATAAT
1 AATATAATAATAAATCAAATTTAATATAAT
5498169 GATACATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (32 bp):
AATATAATAATAAATCAAATTTAATATAATCT
Found at i:5498165 original size:22 final size:22
Alignment explanation
Indices: 5498138--5498180 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5498128 TTAAATAATC
* *
5498138 TAATATGATAATACATCAAATT
1 TAATATAATAATACATAAAATT
*
5498160 TAATATAATGATACATAAAAT
1 TAATATAATAATACATAAAAT
5498181 ATAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (22 bp):
TAATATAATAATACATAAAATT
Found at i:5498190 original size:22 final size:22
Alignment explanation
Indices: 5498139--5498190 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
5498129 TAAATAATCT
* * * *
5498139 AATATGATAATACATCAAATTT
1 AATATAATGATACATAAAATTA
5498161 AATATAATGATACATAAAATATA
1 AATATAATGATACATAAAAT-TA
5498184 AAT-TAAT
1 AATATAAT
5498191 CTAATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (22 bp):
AATATAATGATACATAAAATTA
Found at i:5504894 original size:69 final size:69
Alignment explanation
Indices: 5504783--5504922 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
5504773 AGATACTATA
*
5504783 AATAGAAAACCAAGAATTAGAAAATATAAATATGACATCCATCTTTTGATTGAGGGCATTCATAA
1 AATAGAAAACCAAGAATTAGAAAATATAAATATGACATCCATCTTTTGAATGAGGGCATTCATAA
5504848 AACT
66 AACT
*
5504852 AATAGAAAACCAAGAATTAGAAAATATAAATATGGCATCCATCTTTTGAATGAGGGCATTCATAA
1 AATAGAAAACCAAGAATTAGAAAATATAAATATGACATCCATCTTTTGAATGAGGGCATTCATAA
5504917 AACT
66 AACT
5504921 AA
1 AA
5504923 CATATGATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (69 bp):
AATAGAAAACCAAGAATTAGAAAATATAAATATGACATCCATCTTTTGAATGAGGGCATTCATAA
AACT
Found at i:5505353 original size:17 final size:17
Alignment explanation
Indices: 5505327--5505369 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
5505317 AAAATAGAAC
5505327 AAAAAAAAAACAAA-GG
1 AAAAAAAAAACAAATGG
*
5505343 AAAAAAGAAAAGAAATGG
1 AAAAAA-AAAACAAATGG
5505361 AAAAGAAAA
1 AAAA-AAAA
5505370 CACGAAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 7 0.30
18 8 0.35
19 2 0.09
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAACAAATGG
Found at i:5508208 original size:19 final size:19
Alignment explanation
Indices: 5508184--5508223 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
5508174 GTTACATATG
*
5508184 TTAGCTAAATATGAATTGA
1 TTAGCTAAATACGAATTGA
5508203 TTAGCTAAATACGAATTGA
1 TTAGCTAAATACGAATTGA
5508222 TT
1 TT
5508224 GTTTTTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (19 bp):
TTAGCTAAATACGAATTGA
Found at i:5514696 original size:42 final size:43
Alignment explanation
Indices: 5514651--5514745 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 43
5514641 ATTTTAGATT
*
5514651 TTTTTAT-TTGTATAATATT-TTT-A-ATTTTTTAAATACATATA
1 TTTTTATATT-TATAAT-TTATTTCATATTTTTTAAAAACATATA
*
5514692 TTTTTATCATTTATAATTTATTTCATATTTTTTAAAAATATATAA
1 TTTTTAT-ATTTATAATTTATTTCATATTTTTTAAAAACATAT-A
5514737 TTTTTATAT
1 TTTTTATAT
5514746 ATTTTCTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
41 9 0.20
42 9 0.20
43 3 0.07
44 17 0.37
45 8 0.17
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (43 bp):
TTTTTATATTTATAATTTATTTCATATTTTTTAAAAACATATA
Found at i:5515040 original size:28 final size:30
Alignment explanation
Indices: 5514993--5515048 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 30
5514983 AGAATTATAA
*
5514993 ATAAATATAAACTCATATAATATTATTTAT
1 ATAAATATAAACTCAAATAATATTATTTAT
5515023 ATAAATATAAA-T-AAATAATATTATTT
1 ATAAATATAAACTCAAATAATATTATTT
5515049 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 13 0.52
29 1 0.04
30 11 0.44
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
ATAAATATAAACTCAAATAATATTATTTAT
Found at i:5515882 original size:19 final size:19
Alignment explanation
Indices: 5515858--5515899 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
5515848 TGAGAATCAA
5515858 ACAAACTGAGAATGAGCTT
1 ACAAACTGAGAATGAGCTT
5515877 ACAAACTGAGAATGAGCTT
1 ACAAACTGAGAATGAGCTT
5515896 ACAA
1 ACAA
5515900 GCTCAGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (19 bp):
ACAAACTGAGAATGAGCTT
Found at i:5517868 original size:20 final size:19
Alignment explanation
Indices: 5517840--5517903 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
5517830 AATTACATAT
*
5517840 AAAAATTAAAATAATTTTC
1 AAAATTTAAAATAATTTTC
*
5517859 AAATATTTAAAATAATTTTT
1 AAA-ATTTAAAATAATTTTC
*
5517879 AAAATTCAAAAT-ATTTAT-
1 AAAATTTAAAATAATTT-TC
5517897 AAAATTT
1 AAAATTT
5517904 TCAAAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 10 0.26
19 12 0.31
20 17 0.44
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTTAAAATAATTTTC
Found at i:5517886 original size:27 final size:27
Alignment explanation
Indices: 5517859--5517911 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
5517849 AATAATTTTC
*
5517859 AAATATTTAAAATAATTTTTAAAATTCA
1 AAATATTTAAAA-AATTTTCAAAATTCA
*
5517887 AAATATTTATAAAATTTTCAAAATT
1 AAATATTTAAAAAATTTTCAAAATT
5517912 TACTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (27 bp):
AAATATTTAAAAAATTTTCAAAATTCA
Found at i:5517891 original size:19 final size:18
Alignment explanation
Indices: 5517841--5517902 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
5517831 ATTACATATA
*
5517841 AAAATTAAAATAATTTTC
1 AAAATTAAAATAATTTTT
5517859 AAATATTTAAAATAATTTTT
1 AAA-A-TTAAAATAATTTTT
*
5517879 AAAATTCAAAAT-ATTTAT
1 AAAATT-AAAATAATTTTT
5517897 AAAATT
1 AAAATT
5517903 TTCAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 16 0.41
19 7 0.18
20 16 0.41
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTAAAATAATTTTT
Found at i:5519746 original size:18 final size:18
Alignment explanation
Indices: 5519723--5520005 Score: 142
Period size: 18 Copynumber: 15.3 Consensus size: 18
5519713 GAATAATTAT
5519723 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * * *
5519741 TTATTCGGTAGCAATCAA
1 TTATTCAGTAACAGTCAG
* * **
5519759 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
5519777 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* * *
5519803 TTATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAG
* *
5519821 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
5519838 GTATTCAGTAACAACTAAG
1 TTATTCAGTAAC-AGTCAG
5519857 TTATTCAGTAACAGTCA-
1 TTATTCAGTAACAGTCAG
* *
5519874 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
5519893 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
5519911 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
5519929 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
5519947 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * * *
5519965 TTATCCGGTAACAGTTAA
1 TTATTCAGTAACAGTCAG
* *
5519983 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
5520001 TTATT
1 TTATT
5520006 TTATACCTTT
Statistics
Matches: 197, Mismatches: 52, Indels: 32
0.70 0.19 0.11
Matches are distributed among these distances:
17 16 0.08
18 147 0.75
19 19 0.10
21 2 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:5519765 original size:36 final size:36
Alignment explanation
Indices: 5519723--5520005 Score: 176
Period size: 36 Copynumber: 7.6 Consensus size: 36
5519713 GAATAATTAT
* * *
5519723 TTATTCAGTAACAGTCAGTTATTCGGTAGCAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
5519759 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
5519795 TTGATCGGTTATCCAGTAATAGTCAATTATTTAGTAA-AATCAG
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
5519838 GTATTCAGTAACAACTAAGTTATTCAGTAACAGTC-A
1 TTATTCAGTAACAA-TCAGTTATTCAGTAACAATCAA
* **
5519874 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
5519911 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * * * *
5519948 -TATCCAGTAACAGTCAATTATCCGGTAACAGTTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
5519983 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
5520006 TTATACCTTT
Statistics
Matches: 186, Mismatches: 47, Indels: 28
0.71 0.18 0.11
Matches are distributed among these distances:
35 9 0.05
36 130 0.70
37 21 0.11
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Done.