Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 164 of 255
Found at i:53789405 original size:13 final size:13
Alignment explanation
Indices: 53789387--53789412 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53789377 GCTCGACAGG
53789387 GACACGCCCGTGT
1 GACACGCCCGTGT
53789400 GACACGCCCGTGT
1 GACACGCCCGTGT
53789413 ACGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:53794005 original size:22 final size:22
Alignment explanation
Indices: 53793980--53794024 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
53793970 CAACCAAATC
53793980 AATTCAACATATTT-TCAAGATA
1 AATTCAACATATTTAT-AAGATA
*
53794002 AATTCATCATATTTATAAGATA
1 AATTCAACATATTTATAAGATA
53794024 A
1 A
53794025 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTCAACATATTTATAAGATA
Found at i:53794030 original size:22 final size:22
Alignment explanation
Indices: 53793987--53794032 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
53793977 ATCAATTCAA
*
53793987 CATATTTTCAAGATAAATTCAT
1 CATATTTTCAAGATAAAGTCAT
*
53794009 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
53794031 CA
1 CA
53794033 CATATCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (22 bp):
CATATTTTCAAGATAAAGTCAT
Found at i:53801795 original size:22 final size:23
Alignment explanation
Indices: 53801770--53801815 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
53801760 CAACCAAATC
53801770 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
53801792 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
53801815 A
1 A
53801816 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:53801821 original size:23 final size:23
Alignment explanation
Indices: 53801777--53801821 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
53801767 ATCAATTCAA
*
53801777 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
53801800 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
53801822 CACATATCTA
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:53809898 original size:38 final size:38
Alignment explanation
Indices: 53809847--53810140 Score: 210
Period size: 38 Copynumber: 7.0 Consensus size: 38
53809837 AATGAACAAA
*
53809847 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
53809885 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGT
* *
53809933 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
** *
53809980 AATATGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * *
53810018 GACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* *
53810065 AACGTGGTGCTAAGTGGATATACCACGGTGAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
53810103 AACGTGGTGCTAAGTGGATATGCAACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
53810141 TAATTTGAAA
Statistics
Matches: 203, Mismatches: 26, Indels: 54
0.72 0.09 0.19
Matches are distributed among these distances:
38 89 0.44
39 2 0.01
40 7 0.03
41 4 0.02
44 4 0.02
45 6 0.03
47 58 0.29
48 33 0.16
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:53810006 original size:47 final size:47
Alignment explanation
Indices: 53809884--53810093 Score: 267
Period size: 47 Copynumber: 4.6 Consensus size: 47
53809874 GTTATACGTG
* * *
53809884 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
53809931 GTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
** *
53809979 TAATATGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
53810017 TGACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
53810064 TAACGTGGTGCTAAGTGGATATACCACGGT
1 TAACGTGGTGCTAAGTGGATATACCACGGT
53810094 GAAACATGTA
Statistics
Matches: 138, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
38 28 0.20
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 57 0.41
48 43 0.31
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:53810039 original size:85 final size:85
Alignment explanation
Indices: 53809927--53810133 Score: 369
Period size: 85 Copynumber: 2.4 Consensus size: 85
53809917 ACATATTGAT
*
53809927 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
*
53809992 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTGAA
* *
53810012 ACATGTGACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
53810077 AGTGGATATACCACGGTGAA
66 AGTGGATATACCACGGTGAA
*
53810097 ACATGTAACGTGGTGCTAAGTGGATATGCAACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
53810134 TACATGTTAA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 116 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
AGTGGATATACCACGGTGAA
Found at i:53815294 original size:42 final size:42
Alignment explanation
Indices: 53815228--53815309 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
53815218 GGGTTACGTG
*
53815228 TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
1 TGATTTCATGTAAGACCATATCTGGGACATGGCATCGATATT
** * *
53815270 TGATTTCATGTAAGACTGTGTCTGGGACATGGCATTGATA
1 TGATTTCATGTAAGACCATATCTGGGACATGGCATCGATA
53815310 CGAGATATCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATATCTGGGACATGGCATCGATATT
Found at i:53827857 original size:12 final size:12
Alignment explanation
Indices: 53827840--53827877 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
53827830 GCAACCCAAC
53827840 GGGAAGGGGAAA
1 GGGAAGGGGAAA
*
53827852 GGGAAGGGGAAG
1 GGGAAGGGGAAA
*
53827864 GGGAAGAGGAAA
1 GGGAAGGGGAAA
53827876 GG
1 GG
53827878 AGAGAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (12 bp):
GGGAAGGGGAAA
Found at i:53829180 original size:127 final size:127
Alignment explanation
Indices: 53828999--53829243 Score: 316
Period size: 127 Copynumber: 1.9 Consensus size: 127
53828989 TGTTTTTTGC
* * ** *
53828999 TTTAAAGCTTACAAAAGGCGGACGAAATTTAAAAGGGAAATATGATTATCTAGACAAATAAAAGA
1 TTTAAAGCTTACAAAACGCGCACGAAATTTAAAAGGGAAATATGACAATCTAGACAAACAAAAGA
*
53829064 TC-AAAACCCAACACATT-AGG-ACACGATCCCTCGAATTTCTAAACATCAAACATCGCCTTCGT
66 CCGAAAA-CCAACACATTGAGGTACA--ATCCCTCGAATTTCTAAACATCAAACATCGCCTTCGT
* * * * * * *
53829126 TTTAAGGCTTAGAAAACGCGCATGAAATTTTAAAGGGAAATTTGACAATTTAGACAAACGAAAGA
1 TTTAAAGCTTACAAAACGCGCACGAAATTTAAAAGGGAAATATGACAATCTAGACAAACAAAAGA
*
53829191 CCGAAAACCAACACATTGAGGTACAATCTCTCGAATTTCTAAACATCAAACAT
66 CCGAAAACCAACACATTGAGGTACAATCCCTCGAATTTCTAAACATCAAACAT
53829244 TACTTTCGTT
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
127 91 0.90
128 7 0.07
129 3 0.03
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (127 bp):
TTTAAAGCTTACAAAACGCGCACGAAATTTAAAAGGGAAATATGACAATCTAGACAAACAAAAGA
CCGAAAACCAACACATTGAGGTACAATCCCTCGAATTTCTAAACATCAAACATCGCCTTCGT
Found at i:53830023 original size:32 final size:31
Alignment explanation
Indices: 53829963--53830033 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 31
53829953 AGAAGTAAAC
* * *
53829963 TATATACATAATAGATTTGAAAGGAAATATA
1 TATATATATAATAGATTTAAAAGAAAATATA
*
53829994 TATATATATAAATTGATTTAAAAGAAAATATA
1 TATATATAT-AATAGATTTAAAAGAAAATATA
53830026 TATATATA
1 TATATATA
53830034 AGACAACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 8 0.23
32 27 0.77
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (31 bp):
TATATATATAATAGATTTAAAAGAAAATATA
Found at i:53830113 original size:32 final size:34
Alignment explanation
Indices: 53830051--53830118 Score: 79
Period size: 36 Copynumber: 2.0 Consensus size: 34
53830041 ATGAAAACAA
*
53830051 TATATATATATAATAAAAAACAATTTTAATATAAAC
1 TATATATATATAATAAAAAACAA--TTAATAAAAAC
53830087 TATATATA-ATAATATAAAAA-AA-TAATAAAAAC
1 TATATATATATAATA-AAAAACAATTAATAAAAAC
53830119 AACTAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
32 9 0.30
35 8 0.27
36 13 0.43
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.32
Consensus pattern (34 bp):
TATATATATATAATAAAAAACAATTAATAAAAAC
Found at i:53831701 original size:15 final size:16
Alignment explanation
Indices: 53831676--53831705 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53831666 TAATTGGACC
53831676 GTTTAATTTTTATTTG
1 GTTTAATTTTTATTTG
53831692 GTTT-ATTTTTATTT
1 GTTTAATTTTTATTT
53831706 AGTGGGCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (16 bp):
GTTTAATTTTTATTTG
Found at i:53834120 original size:405 final size:405
Alignment explanation
Indices: 53833369--53834181 Score: 1599
Period size: 405 Copynumber: 2.0 Consensus size: 405
53833359 TTGTCAACCA
53833369 AGGGAAAAAGACACACTGTTTTTCTTAGAGAAGGATATGAAAGGGGGTGTTTGATTGACCCAAAT
1 AGGGAAAAAGACACACTGTTTTTCTTAGAGAAGGATATGAAAGGGGGTGTTTGATTGACCCAAAT
53833434 CCAGTCTATAATGCAAGGAGAAAACTTCTAGATCTAGTTGTGCTGGGACGCCATGCCATGTTAAT
66 CCAGTCTATAATGCAAGGAGAAAACTTCTAGATCTAGTTGTGCTGGGACGCCATGCCATGTTAAT
*
53833499 CAACAATGAATCAAGGTCAGTGGAAAATTGTCAGACTCAGAAACCTTGTTTACAAGATGAGGGTA
131 CAACAATGAATCAAGGTCAGTGGAAAATTGTCAGACTCAGAAACCTGGTTTACAAGATGAGGGTA
53833564 GGGATGAAAGTATTTAGTTCTTCATTTTTAAATCCCTGTTTTCTTATTCTTCCTCATGCACTTCG
196 GGGATGAAAGTATTTAGTTCTTCATTTTTAAATCCCTGTTTTCTTATTCTTCCTCATGCACTTCG
53833629 GCTCTAACATGTTTGTGAACTTTGGGCTTTGTCTAGTAACTTTGAGCGTGTCCTATATTTTTTTG
261 GCTCTAACATGTTTGTGAACTTTGGGCTTTGTCTAGTAACTTTGAGCGTGTCCTATATTTTTTTG
53833694 ACTTTAATCACCTAATATCATCTCTGTTCTTTTTCAATGCAATGCCTAGAACAACTTATAACCCT
326 ACTTTAATCACCTAATATCATCTCTGTTCTTTTTCAATGCAATGCCTAGAACAACTTATAACCCT
53833759 CCCTAATTATTAAAT
391 CCCTAATTATTAAAT
53833774 AGGGAAAAAGACACACTGTTTTTCTTAGAGAAGGATATGAAAGGGGGTGTTTGATTGACCCAAAT
1 AGGGAAAAAGACACACTGTTTTTCTTAGAGAAGGATATGAAAGGGGGTGTTTGATTGACCCAAAT
53833839 CCAGTCTATAATGCAAGGAGAAAACTTCTAGATCTAGTTGTGCTGGGACGCCATGCCATGTTAAT
66 CCAGTCTATAATGCAAGGAGAAAACTTCTAGATCTAGTTGTGCTGGGACGCCATGCCATGTTAAT
*
53833904 CAACAATGAATCAAGGTCAGTGGAAAATTGTCAGACTCAGAAACCTGGTTTACTAGATGAGGGTA
131 CAACAATGAATCAAGGTCAGTGGAAAATTGTCAGACTCAGAAACCTGGTTTACAAGATGAGGGTA
53833969 GGGATGAAAGTATTTAGTTCTTCATTTTTAAATCCCTGTTTTCTTATTCTTCCTCATGCACTTCG
196 GGGATGAAAGTATTTAGTTCTTCATTTTTAAATCCCTGTTTTCTTATTCTTCCTCATGCACTTCG
53834034 GCTCTAACATGTTTGTGAACTTTGGGCTTTGTCTAGTAACTTTGAGCGTGTCCTATATTTTTTTG
261 GCTCTAACATGTTTGTGAACTTTGGGCTTTGTCTAGTAACTTTGAGCGTGTCCTATATTTTTTTG
*
53834099 ACTTTAATCACCTAATATCATCTCTGTTCTTTTTCTATGCAATGCCTAGAACAACTTATAACCCT
326 ACTTTAATCACCTAATATCATCTCTGTTCTTTTTCAATGCAATGCCTAGAACAACTTATAACCCT
53834164 CCCTAATTATTAAAT
391 CCCTAATTATTAAAT
53834179 AGG
1 AGG
53834182 AGGACAATGT
Statistics
Matches: 405, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
405 405 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (405 bp):
AGGGAAAAAGACACACTGTTTTTCTTAGAGAAGGATATGAAAGGGGGTGTTTGATTGACCCAAAT
CCAGTCTATAATGCAAGGAGAAAACTTCTAGATCTAGTTGTGCTGGGACGCCATGCCATGTTAAT
CAACAATGAATCAAGGTCAGTGGAAAATTGTCAGACTCAGAAACCTGGTTTACAAGATGAGGGTA
GGGATGAAAGTATTTAGTTCTTCATTTTTAAATCCCTGTTTTCTTATTCTTCCTCATGCACTTCG
GCTCTAACATGTTTGTGAACTTTGGGCTTTGTCTAGTAACTTTGAGCGTGTCCTATATTTTTTTG
ACTTTAATCACCTAATATCATCTCTGTTCTTTTTCAATGCAATGCCTAGAACAACTTATAACCCT
CCCTAATTATTAAAT
Found at i:53836368 original size:21 final size:21
Alignment explanation
Indices: 53836335--53836374 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53836325 GGGACAGGTG
*
53836335 ACGTGACCCGTTAACTAGCTA
1 ACGTGACCAGTTAACTAGCTA
* *
53836356 ACGTGACTAGTTAATTAGC
1 ACGTGACCAGTTAACTAGC
53836375 CATGTTGGAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (21 bp):
ACGTGACCAGTTAACTAGCTA
Found at i:53841939 original size:3 final size:3
Alignment explanation
Indices: 53841933--53841971 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
53841923 ATTTCTTCTA
* * *
53841933 TTC TTC TTC TTC TTC TTT TTC TTC TGC TTC TTT TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
53841972 CATTAGCTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:53841956 original size:15 final size:15
Alignment explanation
Indices: 53841925--53841971 Score: 67
Period size: 15 Copynumber: 3.0 Consensus size: 15
53841915 GTATCTCCAT
53841925 TTCTTCTATTCTTCTTC
1 TTCTTCT-TT-TTCTTC
53841942 TTCTTCTTTTTCTTC
1 TTCTTCTTTTTCTTC
*
53841957 TGCTTCTTTTTCTTC
1 TTCTTCTTTTTCTTC
53841972 CATTAGCTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 20 0.69
16 2 0.07
17 7 0.24
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (15 bp):
TTCTTCTTTTTCTTC
Found at i:53842092 original size:30 final size:29
Alignment explanation
Indices: 53842056--53842136 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
53842046 AAAATGTCTA
* *
53842056 TTAGTGACTACTTTGTTATTTTTGTAAAGT
1 TTAGTGACTACTTTGTTATTTTT-CAAAAT
* * *
53842086 TTAGTGACTGA-GTTGTCACTTTTCAAAAT
1 TTAGTGACT-ACTTTGTTATTTTTCAAAAT
*
53842115 TTAGTGACTACTTTATTATTTT
1 TTAGTGACTACTTTGTTATTTT
53842137 AATAAAAGTT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
28 1 0.03
29 20 0.50
30 18 0.45
31 1 0.03
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.51
Consensus pattern (29 bp):
TTAGTGACTACTTTGTTATTTTTCAAAAT
Found at i:53848663 original size:20 final size:20
Alignment explanation
Indices: 53848640--53848695 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
53848630 AAAAAAATTC
*
53848640 AAATAATTTTAAAATATTTA
1 AAATAATTTTAAAATATTAA
*
53848660 AAATATTTTTCAAAA-ATTAA
1 AAATAATTTT-AAAATATTAA
53848680 AAATAAATTTTAAAAT
1 AAAT-AATTTTAAAAT
53848696 TCAAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAATTTTAAAATATTAA
Found at i:53848675 original size:39 final size:37
Alignment explanation
Indices: 53848632--53848716 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 37
53848622 CTCAACAAAA
* *
53848632 AAAAATTCAAAT-AATTTTAAAATATTTAAAATATTTTT
1 AAAAATTCAAATAAATTTT-AAA-ATTCAAAATATTTAT
*
53848670 CAAAAATTAAAAATAAATTTTAAAATTCAAAATATTTAT
1 -AAAAATT-CAAATAAATTTTAAAATTCAAAATATTTAT
53848709 AAAAATTC
1 AAAAATTC
53848717 CAACATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
38 7 0.17
39 20 0.50
40 7 0.17
41 6 0.15
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (37 bp):
AAAAATTCAAATAAATTTTAAAATTCAAAATATTTAT
Found at i:53848716 original size:19 final size:19
Alignment explanation
Indices: 53848632--53848716 Score: 86
Period size: 19 Copynumber: 4.4 Consensus size: 19
53848622 CTCAACAAAA
53848632 AAAAATTC-AAATAATTTT
1 AAAAATTCAAAATAATTTT
* *
53848650 AAAATATTTAAAATATTTTT
1 AAAA-ATTCAAAATAATTTT
*
53848670 CAAAAATTAAAAATAAATTTT
1 -AAAAATTCAAAAT-AATTTT
53848691 -AAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
53848709 AAAAATTC
1 AAAAATTC
53848717 CAACATTTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.07
18 5 0.09
19 21 0.38
20 17 0.30
21 9 0.16
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:53849733 original size:14 final size:14
Alignment explanation
Indices: 53849714--53849743 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53849704 CAAACGATAG
53849714 TAATTAAATTAGAT
1 TAATTAAATTAGAT
*
53849728 TAATTAAATTATAT
1 TAATTAAATTAGAT
53849742 TA
1 TA
53849744 TTAGTTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
TAATTAAATTAGAT
Found at i:53851574 original size:41 final size:40
Alignment explanation
Indices: 53851519--53851733 Score: 184
Period size: 41 Copynumber: 5.2 Consensus size: 40
53851509 GCTAGAAGGA
* * * *
53851519 AAACGTCGCAAAAAGTTGAGCAATAGTGGCATTTTTCTACC
1 AAACGCCGCTAAAAGTTGAGCAATAGTGGCGTTTTTGT-CC
* * * *
53851560 AAACGCCGCTAAAAGCTGAGAAATAGTGGCCTTTTAGGTCC
1 AAACGCCGCTAAAAGTTGAGCAATAGTGGCGTTTT-TGTCC
* *
53851601 AAACGCTGCTAAAAGTTGAGCAATAGTGGCGTTTTAGGTCC
1 AAACGCCGCTAAAAGTTGAGCAATAGTGGCGTTTT-TGTCC
** * *
53851642 AAACGTTGTTAAAAGCTGAGCAATAGTGGCGTTTTTGGT-C
1 AAACGCCGCTAAAAGTTGAGCAATAGTGGCGTTTTT-GTCC
* *
53851682 AAA-GCACTGC-AAAAGGTTGAGCTATAGTGGCGTTTTTTTATCC
1 AAACGC-C-GCTAAAA-GTTGAGCAATAGTGGCG--TTTTTGTCC
53851725 AAACGCCGC
1 AAACGCCGC
53851734 AAATATGTAT
Statistics
Matches: 144, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.01
40 8 0.06
41 119 0.83
42 4 0.03
43 10 0.07
44 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (40 bp):
AAACGCCGCTAAAAGTTGAGCAATAGTGGCGTTTTTGTCC
Found at i:53851617 original size:82 final size:81
Alignment explanation
Indices: 53851529--53851733 Score: 243
Period size: 82 Copynumber: 2.5 Consensus size: 81
53851519 AAACGTCGCA
*
53851529 AAAAGTTGAGCAATAGTGGCATTTTTCTACCAAACGCCGCTAAAAGCTGAGAAATAGTGGCCTTT
1 AAAAGTTGAGCAATAGTGGCGTTTTTCTACCAAACGCCGCTAAAAGCTGAGAAATAGTGGCCTTT
*
53851594 TAGGTCCAAA-CGCTGC
66 TAGGT-CAAAGCACTGC
** ** * * *
53851610 TAAAAGTTGAGCAATAGTGGCGTTTTAGGT-CCAAACGTTGTTAAAAGCTGAGCAATAGTGGCGT
1 -AAAAGTTGAGCAATAGTGGCGTTTT-TCTACCAAACGCCGCTAAAAGCTGAGAAATAGTGGCCT
*
53851674 TTTTGGTCAAAGCACTGC
64 TTTAGGTCAAAGCACTGC
* *
53851692 AAAAGGTTGAGCTATAGTGGCGTTTTTTTATCCAAACGCCGC
1 AAAA-GTTGAGCAATAGTGGCGTTTTTCTA-CCAAACGCCGC
53851734 AAATATGTAT
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
81 9 0.09
82 84 0.82
83 9 0.09
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (81 bp):
AAAAGTTGAGCAATAGTGGCGTTTTTCTACCAAACGCCGCTAAAAGCTGAGAAATAGTGGCCTTT
TAGGTCAAAGCACTGC
Found at i:53852273 original size:7 final size:7
Alignment explanation
Indices: 53852261--53852323 Score: 63
Period size: 7 Copynumber: 9.0 Consensus size: 7
53852251 ATCTGTTTAT
53852261 CCCTAAA
1 CCCTAAA
53852268 CCCTAAA
1 CCCTAAA
* *
53852275 CCATAAG
1 CCCTAAA
*
53852282 CCATAAA
1 CCCTAAA
*
53852289 CCATAAA
1 CCCTAAA
*
53852296 CCCTGAA
1 CCCTAAA
*
53852303 CTCTAAA
1 CCCTAAA
*
53852310 CCTTAAA
1 CCCTAAA
53852317 CCCTAAA
1 CCCTAAA
53852324 ATATATACAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.44, C:0.35, G:0.03, T:0.17
Consensus pattern (7 bp):
CCCTAAA
Found at i:53852442 original size:41 final size:41
Alignment explanation
Indices: 53852397--53852477 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
53852387 AAGGTCTACC
*
53852397 AGTAGCGATGTTTGTGATAAAAACGCTGC-AAAAGGTCAAGT
1 AGTAGCGACGTTTGTGATAAAAACGCTGCTAAAA-GTCAAGT
*
53852438 AGTAGCGGCGTTTGTGATAAAAACGCTGCTAAAAGTCAAG
1 AGTAGCGACGTTTGTGATAAAAACGCTGCTAAAAGTCAAG
53852478 CCGTAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 33 0.89
42 4 0.11
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (41 bp):
AGTAGCGACGTTTGTGATAAAAACGCTGCTAAAAGTCAAGT
Found at i:53852537 original size:7 final size:7
Alignment explanation
Indices: 53852500--53852581 Score: 58
Period size: 7 Copynumber: 11.6 Consensus size: 7
53852490 ATAATTTTAT
*
53852500 TTTAGGG
1 TTTAAGG
53852507 TTTAA-G
1 TTTAAGG
*
53852513 TTTCAAGA
1 TTT-AAGG
*
53852521 TTTAATG
1 TTTAAGG
53852528 TTTAAGG
1 TTTAAGG
53852535 TTTAAGG
1 TTTAAGG
* *
53852542 TCTATGG
1 TTTAAGG
*
53852549 TTTATGG
1 TTTAAGG
*
53852556 TTTTAATG
1 -TTTAAGG
*
53852564 TTTATGG
1 TTTAAGG
*
53852571 TTTAATG
1 TTTAAGG
53852578 TTTA
1 TTTA
53852582 GTATATTAGG
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
6 4 0.07
7 46 0.79
8 8 0.14
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.51
Consensus pattern (7 bp):
TTTAAGG
Found at i:53852569 original size:22 final size:21
Alignment explanation
Indices: 53852527--53852581 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
53852517 AAGATTTAAT
53852527 GTTTAAGGTTTAAGGTCTATG
1 GTTTAAGGTTTAAGGTCTATG
* * *
53852548 GTTTATGGTTTTAATGTTTATG
1 GTTTAAGG-TTTAAGGTCTATG
*
53852570 GTTTAATGTTTA
1 GTTTAAGGTTTA
53852582 GTATATTAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.53
Consensus pattern (21 bp):
GTTTAAGGTTTAAGGTCTATG
Found at i:53852693 original size:22 final size:23
Alignment explanation
Indices: 53852668--53852716 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
53852658 TATAGCCTTA
53852668 GTATTTAGGGTTTAA-GGTTAGG
1 GTATTTAGGGTTTAAGGGTTAGG
*
53852690 GTA-TTATGGTTTAAGGGTTAGG
1 GTATTTAGGGTTTAAGGGTTAGG
53852712 G-ATTT
1 GTATTT
53852717 TAATAAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (23 bp):
GTATTTAGGGTTTAAGGGTTAGG
Found at i:53853187 original size:14 final size:14
Alignment explanation
Indices: 53853138--53853192 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
53853128 AATATAAGGT
*
53853138 TTTAGGGTTTAAGA
1 TTTAGGGTTTAGGA
*
53853152 TTTAAGGG-TTATG-
1 TTT-AGGGTTTAGGA
*
53853165 TTCTAGGGTCTAGGA
1 TT-TAGGGTTTAGGA
53853180 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
53853193 GTAAAATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 6 0.18
14 21 0.64
15 6 0.18
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.42
Consensus pattern (14 bp):
TTTAGGGTTTAGGA
Found at i:53854322 original size:19 final size:18
Alignment explanation
Indices: 53854290--53854331 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
53854280 TTAGATTTGC
*
53854290 TATTTCTGGTTGGCTTTA
1 TATTTCTGGATGGCTTTA
*
53854308 TATTTGCTGGATGGCTTTG
1 TATTT-CTGGATGGCTTTA
53854327 TATTT
1 TATTT
53854332 TCTATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.12, C:0.10, G:0.24, T:0.55
Consensus pattern (18 bp):
TATTTCTGGATGGCTTTA
Found at i:53857573 original size:43 final size:44
Alignment explanation
Indices: 53857521--53857645 Score: 175
Period size: 43 Copynumber: 2.9 Consensus size: 44
53857511 GTTTTTCACT
53857521 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTTGT-A-
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT-TTGTGAG
* *
53857564 AAAGTGCCGCTGAAGGTCATGTTCTATAGCGGCGTTTTTGTGAG
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTTGTGAG
* * *
53857608 AAA-CGCCACTAAAGGTCATGTTCTATAACGGCATTTTT
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTT
53857646 TCAAATAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
42 4 0.05
43 66 0.90
44 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (44 bp):
AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTTGTGAG
Found at i:53857875 original size:13 final size:13
Alignment explanation
Indices: 53857857--53857883 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53857847 GTCTAGAGCA
53857857 ATTTAATTTTTTT
1 ATTTAATTTTTTT
53857870 ATTTAATTTTTTT
1 ATTTAATTTTTTT
53857883 A
1 A
53857884 ACTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTAATTTTTTT
Found at i:53858108 original size:17 final size:18
Alignment explanation
Indices: 53858082--53858115 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
53858072 AATTAATTAA
*
53858082 TTTTATAAAATTTAAAAT
1 TTTTATAAAAATTAAAAT
53858100 TTTTA-AAAAATTAAAA
1 TTTTATAAAAATTAAAA
53858116 GTATAGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTATAAAAATTAAAAT
Found at i:53858194 original size:30 final size:29
Alignment explanation
Indices: 53858145--53858201 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
53858135 AAATTTAAAA
** *
53858145 TTTTTAAAATTTAAAAATATATTTTTACT
1 TTTTTAAAAAATAAAAATATATATTTACT
53858174 TTTTTAAAAAATATAAAATATATATTTA
1 TTTTTAAAAAATA-AAAATATATATTTA
53858202 AAAAATAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTTTAAAAAATAAAAATATATATTTACT
Found at i:53859707 original size:13 final size:13
Alignment explanation
Indices: 53859681--53859716 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
53859671 CCACTTTAAC
53859681 ATAAAATCAAATAA
1 ATAAAAT-AAATAA
53859695 ATAAAATAAATAA
1 ATAAAATAAATAA
53859708 ATAAAATAA
1 ATAAAATAA
53859717 GATTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAAAATAAATAA
Found at i:53868071 original size:21 final size:21
Alignment explanation
Indices: 53868045--53868085 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
53868035 ATATTAATGA
53868045 GTGCCCCCCACTTGCAGCATT
1 GTGCCCCCCACTTGCAGCATT
53868066 GTGCCCCCCACTTGCAGCAT
1 GTGCCCCCCACTTGCAGCAT
53868086 CTATCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.44, G:0.20, T:0.22
Consensus pattern (21 bp):
GTGCCCCCCACTTGCAGCATT
Found at i:53870652 original size:23 final size:24
Alignment explanation
Indices: 53870614--53870678 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
53870604 TTCTTGATTG
*
53870614 AATTAAAACAATTATATAAAAATA
1 AATTAAAACAAATATATAAAAATA
*
53870638 AATT-AAACAAATATATAAATATA
1 AATTAAAACAAATATATAAAAATA
* *
53870661 ATCTTAAAATAAATATAT
1 A-ATTAAAACAAATATAT
53870679 TAGTTATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.51
24 6 0.17
25 11 0.31
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTAAAACAAATATATAAAAATA
Found at i:53872284 original size:58 final size:58
Alignment explanation
Indices: 53872194--53872360 Score: 298
Period size: 58 Copynumber: 2.9 Consensus size: 58
53872184 AAATTGCGTA
*
53872194 AGATATAAAATATTGGGTCAAAATTGTAATTTTTGAGTTATAAGGGACACACGACTAT
1 AGATATAAAATTTTGGGTCAAAATTGTAATTTTTGAGTTATAAGGGACACACGACTAT
*
53872252 AGATATAAAATTTTGGGTCAAATTTGTAATTTTTGAGTTATAAGGGACACACGACTAT
1 AGATATAAAATTTTGGGTCAAAATTGTAATTTTTGAGTTATAAGGGACACACGACTAT
* *
53872310 AGATATAAAATTTTGGGTCAAAATTGTAATTTTTGAGTTTTAGGGGACACA
1 AGATATAAAATTTTGGGTCAAAATTGTAATTTTTGAGTTATAAGGGACACA
53872361 TGACCATGTG
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 104 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (58 bp):
AGATATAAAATTTTGGGTCAAAATTGTAATTTTTGAGTTATAAGGGACACACGACTAT
Found at i:53873941 original size:21 final size:21
Alignment explanation
Indices: 53873902--53873956 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
53873892 TCATTTTAGA
**
53873902 TTAATTAA-TATAATAATAC-
1 TTAATTAATTATTTTAATACT
53873921 TTAATTATATTATTTTAATACT
1 TTAATTA-ATTATTTTAATACT
53873943 TTAATTAATTATTT
1 TTAATTAATTATTT
53873957 ATGACCTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.23
20 1 0.03
21 16 0.52
22 7 0.23
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATTAATTATTTTAATACT
Found at i:53893801 original size:98 final size:98
Alignment explanation
Indices: 53893625--53894037 Score: 376
Period size: 98 Copynumber: 4.2 Consensus size: 98
53893615 GGAAGCCGCT
* * *
53893625 GCCATGTCCCAGACATGGTCTTACACTAGTTCACGTATCAAAGTCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAAGTCGATGCCATGTCCTAGACATG
* *
53893690 GTCTTACACTGACTATCATGTATTGAGGCCGAC
66 GTCTTACACTGACTATCATGTATCGAGGCCAAC
* *
53893723 GCCATGTCCCAGACAAGGTCTTACTCTAGCTCACATATCAAAGTCGATGCCATGTCCTAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAAGTCGATGCCATGTCCTAGACATG
* * * *
53893788 TTCTTATATTGACTATCATGTATCGAGGCTAAC
66 GTCTTACACTGACTATCATGTATCGAGGCCAAC
* * * * * ** *
53893821 ACCATGTCCCAAACATGGTATTACACTAGCTCTCGTATGTTGAGGTCGATGCCATGTCCTAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCAC--ATATCAAAGTCGATGCCATGTCCTAGACA
* * * * *
53893886 TGGTATTACACT-AGCTCTCGTATGT-T-GAGGTCGAT
64 TGGTCTTACACTGA-CTATC--ATGTATCGAGGCCAAC
* * * *** *
53893921 GCCATGTCCTAGACATGGTCTTACACT-GACTCTCGTCCATCTGTGCCGATGCCATGTCCTAGAC
1 GCCATGTCCCAGACATGGTCTTACACTAG-CTCACAT--ATCAAAGTCGATGCCATGTCCTAGAC
* * *
53893985 ATGGTCTTACACTGA-TA-CATCTTAT--A-GCCGAT
63 ATGGTCTTACACTGACTATCAT-GTATCGAGGCCAAC
53894017 GCCATGTCCCAGACATGGTCT
1 GCCATGTCCCAGACATGGTCT
53894038 GTAACACCCC
Statistics
Matches: 258, Mismatches: 46, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
96 27 0.10
97 2 0.01
98 118 0.46
99 3 0.01
100 102 0.40
101 2 0.01
102 4 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (98 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAAGTCGATGCCATGTCCTAGACATG
GTCTTACACTGACTATCATGTATCGAGGCCAAC
Found at i:53893900 original size:148 final size:149
Alignment explanation
Indices: 53893674--53893943 Score: 346
Period size: 148 Copynumber: 1.8 Consensus size: 149
53893664 AAAGTCGATG
* * *
53893674 CCATGTCCCAGACATGGTCTTACACTGACTATCATGTATTGAGGCCGACGCCATGTCCCAGACAA
1 CCATGTCCCAAACATGGTATTACACTGACTATCATATATTGAGGCCGACGCCATGTCCCAGACAA
* * *
53893739 GGTCTTACTCTAGCTCAC-ATATCAAAGTCGATGCCATGTCCTAGACATGTTCTTATATTGACTA
66 GGTATTACACTAGCTCACGATATCAAAGTCGATGCCATGTCCTAGACATGGTCTTATATTGACTA
53893803 TCATGTATCGAGGCTAACA
131 TCATGTATCGAGGCTAACA
* * * * * *
53893822 CCATGTCCCAAACATGGTATTACACT-AGCTCTCGTATGTTGAGGTCGATGCCATGTCCTAGACA
1 CCATGTCCCAAACATGGTATTACACTGA-CTATCATATATTGAGGCCGACGCCATGTCCCAGACA
* * * ** *
53893886 TGGTATTACACTAGCTCTCGTATGTTGAGGTCGATGCCATGTCCTAGACATGGTCTTA
65 AGGTATTACACTAGCTCACG-ATATCAAAGTCGATGCCATGTCCTAGACATGGTCTTA
53893944 CACTGACTCT
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
147 1 0.01
148 68 0.67
150 32 0.32
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (149 bp):
CCATGTCCCAAACATGGTATTACACTGACTATCATATATTGAGGCCGACGCCATGTCCCAGACAA
GGTATTACACTAGCTCACGATATCAAAGTCGATGCCATGTCCTAGACATGGTCTTATATTGACTA
TCATGTATCGAGGCTAACA
Found at i:53893998 original size:50 final size:51
Alignment explanation
Indices: 53893619--53893999 Score: 274
Period size: 50 Copynumber: 7.7 Consensus size: 51
53893609 AGGGTAGGAA
* * * * * *
53893619 GCCGCTGCCATGTCCCAGACATGGTCTTACACT-AGTTCACGTAT-C-AAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAGCTCTCGTATGCTGAG
* * *
53893667 GTCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCATGTAT--TGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAGCTCTC--GTATGCTGAG
* * * * * * * *
53893717 GCCGACGCCATGTCCCAGACAAGGTCTTACTCT-AGCTCACATAT-C-AAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAGCTCTCGTATGCTGAG
* * * * *
53893765 GTCGATGCCATGTCCTAGACATGTTCTTATATTGA-CTATCATGTAT-C-GAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAGCTCTC--GTATGCTGAG
** ** * * * *
53893815 GCTAACACCATGTCCCAAACATGGTATTACACT-AGCTCTCGTATGTTGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAGCTCTCGTATGCTGAG
* * *
53893865 GTCGATGCCATGTCCTAGACATGGTATTACACT-AGCTCTCGTATGTTGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAGCTCTCGTATGCTGAG
* *
53893915 GTCGATGCCATGTCCTAGACATGGTCTTACACTGA-CTCTCGTCCAT-CTG-T
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAGCTCTCGT--ATGCTGAG
53893965 GCCGATGCCATGTCCTAGACATGGTCTTACACTGA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGA
53894000 TACATCTTAT
Statistics
Matches: 265, Mismatches: 53, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
48 69 0.26
49 4 0.02
50 187 0.71
51 3 0.01
52 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (51 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGAGCTCTCGTATGCTGAG
Found at i:53895382 original size:53 final size:54
Alignment explanation
Indices: 53895318--53895505 Score: 182
Period size: 53 Copynumber: 3.5 Consensus size: 54
53895308 CTTTTTAAAT
* * *
53895318 TTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTTCCTTAT-GAAC
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATAGAAC
* * * * **
53895371 TCACCATTGCCATGCCTTGGCATGGTCTTACATGGGAT-CTTTGCCTTATAGTAGT
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTT-CCTTATAG-AAC
* * * * * * * *
53895426 TTATCAATGCCATGTCTTGACAAGGTCTTACATGATTTCCTTGCCTTTTCGAAC
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATAGAAC
*
53895480 TTACCAATGCCATGCCTTGGCATGGT
1 TTACCAATGCCATGCCTTGACATGGT
53895506 TTTTCTGGGT
Statistics
Matches: 106, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
52 4 0.04
53 39 0.37
54 24 0.23
55 36 0.34
56 3 0.03
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATAGAAC
Found at i:53898962 original size:12 final size:12
Alignment explanation
Indices: 53898945--53898969 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53898935 TTAATGACAC
53898945 TTTATAAATATT
1 TTTATAAATATT
53898957 TTTATAAATATT
1 TTTATAAATATT
53898969 T
1 T
53898970 ATGACTCAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATAAATATT
Found at i:53899588 original size:265 final size:268
Alignment explanation
Indices: 53899106--53899641 Score: 794
Period size: 265 Copynumber: 2.0 Consensus size: 268
53899096 AAAACTATAT
*
53899106 TTGACTCGTAAATATTAAATAATAATATTTACGAACTTACTCGTCAGTTTCGGTGGCCCTAAAAC
1 TTGACTCATAAATATTAAATAATAATATTTACGAACTTACTCGTCAGTTTCGGTGGCCCTAAAAC
* * * * *
53899171 CACTGTTTCTAACATAATTAAAAATAGGCTGTTACAAGTTGTCACGGCCTAGCCACACGACTGTG
66 CACTATTTCCAACATAACTAAAAATA----G--ACAAGCTGTCACAGCCTAGCCACACGACTGTG
* **
53899236 TGCCTTATTGATTTTAGGTGCAGGATTTTTCACACGATCACAGTTAGTTACAGGGTCTGAGCACA
125 TACCTTATTGATTTTAGGTGCAGGATTTTTCACACGATCACAGTTAGTTACACAGTCTGAGCACA
* *
53899301 TGGGTGTGTGGGGTGGCCACACGGCCGTGTAACCTTTGTTTTCAAATTTTTCAAAATTTTCTATA
190 CGGGTGTGTGGGGTGGCCACACGGCCGTGTAACCTTTGTTTTCAAATTTTTCAAAATATTCTATA
53899366 ATTTTCTATTTGAC
255 ATTTTCTATTTGAC
* *
53899380 TTGACTCATAAATATTAAATAA-ATATATTTACGAACTTACTCGTCGGATTT-GGTGGCCCTGAA
1 TTGACTCATAAATATTAAATAATA-ATATTTACGAACTTACTCGTCAG-TTTCGGTGGCCCTAAA
* * *
53899443 ACCACTATTTCCGACATCACT-GAAA-A-ACAAGCTGTCACAGCCTAGCCACACGACTGTGTACC
64 ACCACTATTTCCAACATAACTAAAAATAGACAAGCTGTCACAGCCTAGCCACACGACTGTGTACC
*
53899505 TTATTGATTTTAGGTGCAGGATTTTTCACACGGTCACAGTTAGTTACACAGTCTGAGCACACGGG
129 TTATTGATTTTAGGTGCAGGATTTTTCACACGATCACAGTTAGTTACACAGTCTGAGCACACGGG
* *
53899570 TGTGTGGGGTGGCCACACGGTCGTGTGACCTTTGTTTTCAAATTTTTCAAAATATTCTATAATTT
194 TGTGTGGGGTGGCCACACGGCCGTGTAACCTTTGTTTTCAAATTTTTCAAAATATTCTATAATTT
53899635 TCTATTT
259 TCTATTT
53899642 TGTTTCAAAT
Statistics
Matches: 241, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
265 163 0.68
272 1 0.00
273 4 0.02
274 70 0.29
275 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (268 bp):
TTGACTCATAAATATTAAATAATAATATTTACGAACTTACTCGTCAGTTTCGGTGGCCCTAAAAC
CACTATTTCCAACATAACTAAAAATAGACAAGCTGTCACAGCCTAGCCACACGACTGTGTACCTT
ATTGATTTTAGGTGCAGGATTTTTCACACGATCACAGTTAGTTACACAGTCTGAGCACACGGGTG
TGTGGGGTGGCCACACGGCCGTGTAACCTTTGTTTTCAAATTTTTCAAAATATTCTATAATTTTC
TATTTGAC
Found at i:53902641 original size:47 final size:47
Alignment explanation
Indices: 53902583--53903025 Score: 717
Period size: 47 Copynumber: 9.4 Consensus size: 47
53902573 CAGCCAAGAC
53902583 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
53902630 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
53902677 AGTGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATA--TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
53902726 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
53902773 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
53902820 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
53902867 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
53902914 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
53902961 AGT-TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
53903007 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
53903026 TCCCGAAGGG
Statistics
Matches: 375, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
46 39 0.10
47 291 0.78
49 45 0.12
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:53903200 original size:37 final size:37
Alignment explanation
Indices: 53903144--53903222 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
53903134 CCGAGCTCTA
* *
53903144 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
53903181 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53903218 AAGAC
1 AAGAC
53903223 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53905134 original size:43 final size:43
Alignment explanation
Indices: 53905086--53905188 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
53905076 TTGGTTTTCA
53905086 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
53905129 GCACTAAGTGTGCAGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
53905172 GCACTAAGTATGCGGGC
1 GCACTAAGTGTGCGGGC
53905189 TTGAAATGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:53905203 original size:29 final size:29
Alignment explanation
Indices: 53905170--53905243 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
53905160 GTTGTGAGAT
* * *
53905170 TGGCACTAAGTATGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53905199 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53905228 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53905244 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53905691 original size:80 final size:82
Alignment explanation
Indices: 53905554--53905744 Score: 198
Period size: 80 Copynumber: 2.4 Consensus size: 82
53905544 TCGAATGATG
**
53905554 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAAGTGACTATATCCGGACTAAGATCCGAAGAGCA
* *
53905616 TTGGTGCGAGTTACTAAA
66 TTCGTGCGAGTGA-TAAA
* *
53905634 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTG-GTGTATCCAGG-CTAAG-TCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAAGTGACTATATCC-GGACTAAGAT-CCGAAGAG
* *
53905695 CATTCGTGCTAGTGATATA
64 CATTCGTGCGAGTGATAAA
* * * *
53905714 TTCGTGCTAAATCCCGAAGAGCAATCATGCT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT
53905745 GGTGACGTGT
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
79 1 0.01
80 66 0.70
81 21 0.22
82 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAAGTGACTATATCCGGACTAAGATCCGAAGAGCA
TTCGTGCGAGTGATAAA
Found at i:53905733 original size:40 final size:40
Alignment explanation
Indices: 53905558--53905749 Score: 153
Period size: 40 Copynumber: 4.8 Consensus size: 40
53905548 ATGATGTCCG
**
53905558 GGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACTATATCC-
1 GGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATATCCA
** * * * *
53905597 GGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAATCCG
1 GG-CTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATATCCA
* *
53905638 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGGTGTATCCA
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCA
* *
53905678 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATTC-
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCA
* * *
53905717 GTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 G-GCTAAGTCCCGAAGAGCATTCATGCTAGTGA
53905750 CGTGTATTCG
Statistics
Matches: 126, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
39 4 0.03
40 102 0.81
41 20 0.16
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCA
Found at i:53909336 original size:47 final size:47
Alignment explanation
Indices: 53909278--53909721 Score: 717
Period size: 47 Copynumber: 9.4 Consensus size: 47
53909268 CAGCCAAGAC
*
53909278 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
53909325 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
53909372 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
53909419 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
** *
53909468 AGTGTATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
53909515 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
53909562 AGTGTATATATGTAATAAGGCCTAATGGTCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
53909609 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
53909656 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
53909703 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
53909722 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 326 0.87
49 47 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:53909601 original size:190 final size:188
Alignment explanation
Indices: 53909278--53909721 Score: 744
Period size: 190 Copynumber: 2.4 Consensus size: 188
53909268 CAGCCAAGAC
53909278 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
53909343 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTG
53909408 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
**
53909468 AGTGTATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
53909533 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGTCGATGTG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTG
53909598 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * * * *
53909656 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
53909721 G
66 G
53909722 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
188 97 0.41
190 141 0.59
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (188 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:53909896 original size:37 final size:37
Alignment explanation
Indices: 53909840--53909918 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
53909830 CCGAGCTCTA
* *
53909840 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
53909877 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53909914 AAGAC
1 AAGAC
53909919 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53912848 original size:15 final size:16
Alignment explanation
Indices: 53912818--53912850 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
53912808 GAAAGAAAAA
53912818 AGGAAAACAGTGAAAG
1 AGGAAAACAGTGAAAG
*
53912834 AGGAAAAGA-TGAAAG
1 AGGAAAACAGTGAAAG
53912849 AG
1 AG
53912851 AAATCGATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.33, T:0.06
Consensus pattern (16 bp):
AGGAAAACAGTGAAAG
Found at i:53920324 original size:28 final size:28
Alignment explanation
Indices: 53920281--53920336 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
53920271 GAGATAGTAA
* *
53920281 GACTGCATGGGGTTCCTGTTTCGATTAT
1 GACTGCATGAGGTTCCTGTTTCAATTAT
*
53920309 GACTGCATGAGTTTCCTGTTTCAATTAT
1 GACTGCATGAGGTTCCTGTTTCAATTAT
53920337 TTCTGATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (28 bp):
GACTGCATGAGGTTCCTGTTTCAATTAT
Found at i:53922514 original size:21 final size:20
Alignment explanation
Indices: 53922473--53922529 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
53922463 AACAAGGGAT
* * *
53922473 TATAAAAAATTTTGAGAATG
1 TATAAAAAAATGTGAAAATG
53922493 TATAAAAAAATGTGAAACATG
1 TATAAAAAAATGTGAAA-ATG
*
53922514 TACCAAAAAAATGTGA
1 TA-TAAAAAAATGTGA
53922530 TGGAATACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 14 0.45
21 5 0.16
22 12 0.39
ACGTcount: A:0.54, C:0.05, G:0.14, T:0.26
Consensus pattern (20 bp):
TATAAAAAAATGTGAAAATG
Found at i:53939279 original size:24 final size:24
Alignment explanation
Indices: 53939239--53939318 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
53939229 AAGCTCCTCC
53939239 TGAGCTGATAAACAGTAAGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCTAT
* *
53939264 TGAGCTGAAAACAGTAAGTTTTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
*
53939288 TGAGCTG--AACAGTTAGCTCT-T
1 TGAGCTGAAAACAGTAAGCTCTAT
53939309 TCGAGCTGAA
1 T-GAGCTGAA
53939319 CGGTAAGCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.04
22 16 0.34
24 21 0.45
25 8 0.17
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:53944416 original size:20 final size:20
Alignment explanation
Indices: 53944391--53944431 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
53944381 GTTTTAAAAG
53944391 ATGGTCAAAAACTATTTAAA
1 ATGGTCAAAAACTATTTAAA
53944411 ATGGTCAAAAACTATTTAAA
1 ATGGTCAAAAACTATTTAAA
53944431 A
1 A
53944432 ACTAAGTAAA
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:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
ATGGTCAAAAACTATTTAAA
Found at i:53945459 original size:11 final size:11
Alignment explanation
Indices: 53945440--53945471 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
53945430 ATGTTGTGGA
*
53945440 ATGAAGGATGG
1 ATGAGGGATGG
53945451 ATGAGGGATGG
1 ATGAGGGATGG
53945462 ATGAGGGATG
1 ATGAGGGATG
53945472 CTTTGAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.50, T:0.19
Consensus pattern (11 bp):
ATGAGGGATGG
Found at i:53952424 original size:19 final size:20
Alignment explanation
Indices: 53952400--53952437 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53952390 GGTACCACCA
53952400 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
53952419 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
53952438 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:53952826 original size:93 final size:93
Alignment explanation
Indices: 53952666--53952836 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
53952656 ACCCCTAAGT
* * *
53952666 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACCCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
53952731 CGAATTCAGATGCCGAGTTACATCTCAC
66 CGAATTCAGATGCCGAGTTACATCTCAC
* * * * * *
53952759 GAACTCGGACTCAACCCAATGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGAACTCAACCCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
* *
53952824 CGAGTTCGGATGC
66 CGAATTCAGATGC
53952837 TCAACCATCC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACCCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAATTCAGATGCCGAGTTACATCTCAC
Found at i:53953290 original size:30 final size:30
Alignment explanation
Indices: 53953256--53953315 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
53953246 ATTTAATACG
53953256 AACTTTTAAAAAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
** *
53953286 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
53953316 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:53961141 original size:24 final size:26
Alignment explanation
Indices: 53961086--53961141 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
53961076 GAGTCCTGGT
*
53961086 CAGTAAGCTCCTCCTGAGCTGATAAA
1 CAGTAAGCTCCTACTGAGCTGATAAA
*
53961112 CAGTAAGCT-CTATTGAGCTGA-AAA
1 CAGTAAGCTCCTACTGAGCTGATAAA
53961136 CAGTAA
1 CAGTAA
53961142 TGTAACGCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 9 0.32
25 10 0.36
26 9 0.32
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (26 bp):
CAGTAAGCTCCTACTGAGCTGATAAA
Found at i:53961570 original size:24 final size:24
Alignment explanation
Indices: 53961538--53961628 Score: 146
Period size: 24 Copynumber: 3.8 Consensus size: 24
53961528 TCAGGAGAGA
*
53961538 ATTTAGGAGTTGATAAGGGATAGG
1 ATTTAGGAGCTGATAAGGGATAGG
*
53961562 ATTTAGGAGTTGATAAGGGATAGG
1 ATTTAGGAGCTGATAAGGGATAGG
*
53961586 ATTTAGGAGCTGATAAGGGAGAGG
1 ATTTAGGAGCTGATAAGGGATAGG
53961610 ATTTAGGAGCTGATTAAGG
1 ATTTAGGAGCTGA-TAAGG
53961629 AGAACAATGT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 59 0.92
25 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.37, T:0.27
Consensus pattern (24 bp):
ATTTAGGAGCTGATAAGGGATAGG
Found at i:53963051 original size:27 final size:26
Alignment explanation
Indices: 53963019--53963105 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 26
53963009 AGGAAGCGTC
53963019 CTGGTGGTTATGCCACATTTATCTGAT
1 CTGGTGGTT-TGCCACATTTATCTGAT
* *
53963046 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGG-TTTGCCACATTTATCTGA-T
* * *
53963073 ATGGTGGCTTTGCCACAATTATCTGTT
1 CTGGTGG-TTTGCCACATTTATCTGAT
53963100 CTGGTG
1 CTGGTG
53963106 ACTCTATCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
26 1 0.02
27 47 0.96
28 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (26 bp):
CTGGTGGTTTGCCACATTTATCTGAT
Found at i:53963117 original size:54 final size:53
Alignment explanation
Indices: 53963020--53963122 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 53
53963010 GGAAGCGTCC
* * *
53963020 TGGTGGTTATGCCACATTTATCTGATCTGGTGGCTCTGCCACATATATCTATTA
1 TGGTGGTTATGCCACAATTATCTGATCTGGTGACTCTACCACAT-TATCTATTA
* *
53963074 TGGTGGCTT-TGCCACAATTATCTGTTCTGGTGACTCTATCACATTATCT
1 TGGTGG-TTATGCCACAATTATCTGATCTGGTGACTCTACCACATTATCT
53963123 GTTCTGGCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 5 0.12
54 36 0.84
55 2 0.05
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (53 bp):
TGGTGGTTATGCCACAATTATCTGATCTGGTGACTCTACCACATTATCTATTA
Found at i:53966476 original size:47 final size:47
Alignment explanation
Indices: 53966425--53967581 Score: 1612
Period size: 47 Copynumber: 24.1 Consensus size: 47
53966415 TTAGGATTTT
*
53966425 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53966472 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
53966525 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53966572 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
53966619 ATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53966666 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
53966713 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
53966760 ATGTGATGAATGTGAACATCCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ** * * *
53966807 ATGTGATGAATATGAACATGTATATATGAGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
53966854 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53966901 ATGTGATGAATGTGAACCCGTATATATATGTCTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
53966952 ATGTGATGAATTTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53966999 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
53967052 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
53967099 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
53967146 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
53967193 CTGGGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
53967240 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
53967291 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53967338 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
53967391 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53967438 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
53967485 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
53967532 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53967579 ATG
1 ATG
53967582 CGAAACGTGT
Statistics
Matches: 990, Mismatches: 94, Indels: 52
0.87 0.08 0.05
Matches are distributed among these distances:
47 770 0.78
48 3 0.00
49 4 0.00
51 84 0.08
52 3 0.00
53 126 0.13
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:53966552 original size:23 final size:23
Alignment explanation
Indices: 53966525--53966599 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
53966515 CGAATGGCCA
53966525 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
53966548 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
53966572 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
53966595 ATGTG
1 ATGTG
53966600 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:53967114 original size:339 final size:339
Alignment explanation
Indices: 53966425--53967581 Score: 1821
Period size: 339 Copynumber: 3.4 Consensus size: 339
53966415 TTAGGATTTT
*
53966425 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
** *
53966490 TGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
65 ---ATGCATATAT--GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
***
53966555 ATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGG
125 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGG
* * *
53966616 CCAATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
190 CCAATGTGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*** * * *
53966681 A-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACATGCGTATGT
255 ACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
53966740 GTGATAAGGCCGAATGGCCA
320 GTGATAAGGCCGAATGGCCA
* * *
53966760 ATGTGATGAATGTGAACATCCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATATGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * *
53966825 TGTATATATGAGATAAGGTCGAATGGCCACTGTGATGGATGTGAACATGCGTATGTGTGATAAGG
66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
*
53966890 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTCTGATAAGGCCGAATGGCCAATG
131 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
*
53966955 TGATGAATTTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGT
196 TGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGT
53967020 ATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
261 ATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
53967085 AGGCCGAATGGCCA
326 AGGCCGAATGGCCA
* * *
53967099 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * * * * *
53967164 TGCGTATGTGTGATAAGGCCGAATGGCTACTGGGATGGATGTGAACATGCGTATGTGTGATAAGG
66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
53967229 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
131 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
*
53967294 TGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGT
196 TGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGT
53967359 ATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
261 ATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
53967424 AGGCCGAATGGCCA
326 AGGCCGAATGGCCA
53967438 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
** * *
53967503 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGG
66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
*
53967568 CCGAATGGCTAATG
131 CCGAATGGCCAATG
53967582 CGAAACGTGT
Statistics
Matches: 759, Mismatches: 53, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
329 79 0.10
331 10 0.01
333 85 0.11
334 2 0.00
335 59 0.08
339 524 0.69
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (339 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
TGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGT
ATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AGGCCGAATGGCCA
Found at i:53967295 original size:24 final size:24
Alignment explanation
Indices: 53967267--53967342 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
53967257 CCGTATATAT
53967267 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
53967291 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
53967314 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
53967338 ATGTG
1 ATGTG
53967343 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:53967418 original size:23 final size:23
Alignment explanation
Indices: 53967391--53967465 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
53967381 CGAATGGCCA
53967391 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
53967414 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
53967438 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
53967461 ATGTG
1 ATGTG
53967466 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:53967644 original size:46 final size:46
Alignment explanation
Indices: 53967557--53967645 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
53967547 ACATGAATAT
* * * *
53967557 ATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGGAA
1 ATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGGAA
* * *
53967603 ATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
53967646 TGTATATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.34, C:0.10, G:0.33, T:0.24
Consensus pattern (46 bp):
ATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGGAA
Found at i:53967898 original size:37 final size:37
Alignment explanation
Indices: 53967790--53967898 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
53967780 GGAAATATAT
*
53967790 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
53967827 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
53967864 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
53967899 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:53969555 original size:40 final size:40
Alignment explanation
Indices: 53969152--53969543 Score: 543
Period size: 40 Copynumber: 9.8 Consensus size: 40
53969142 GAGAATTGAG
53969152 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
53969192 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
53969232 AGTGATATATCCGAGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
53969272 AGTGGTATATCCGGACTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
53969312 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTTCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
53969352 AGTGATATATCTGGGCTAAGTCCCGAGGAGAATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
53969392 AGTGATATATCTGGGCTAAGTCCC-AAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAA-GAGCATTCGTGCT
* **
53969432 AGTGATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
**** **
53969472 AGTGATATATATTTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
53969512 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
53969544 ATCATGCTGG
Statistics
Matches: 313, Mismatches: 37, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
39 1 0.00
40 310 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:53969822 original size:58 final size:57
Alignment explanation
Indices: 53969753--53969861 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
53969743 CGAATGATTA
* * *
53969753 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTACGAAATCGGTAATT
* * *
53969811 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTACGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTACGAAATCG
53969862 ATCAGTGGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 25 0.56
58 20 0.44
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTACGAAATCGGTAATT
Found at i:53973638 original size:47 final size:47
Alignment explanation
Indices: 53973587--53974598 Score: 1457
Period size: 47 Copynumber: 21.1 Consensus size: 47
53973577 TTAGGATTTT
*
53973587 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53973634 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53973681 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
53973734 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
53973781 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
53973828 ATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53973875 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
53973922 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
53973969 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53974016 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
53974069 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
53974116 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
53974163 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
53974210 CTGGGGTGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
53974257 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
53974308 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53974355 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
53974408 ATGTGATGAATGTGAAGATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53974455 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
53974502 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
53974549 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53974596 ATG
1 ATG
53974599 CGAAACGTGT
Statistics
Matches: 873, Mismatches: 70, Indels: 44
0.88 0.07 0.04
Matches are distributed among these distances:
47 696 0.80
48 3 0.00
49 2 0.00
51 43 0.05
52 2 0.00
53 127 0.15
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:53973975 original size:22 final size:22
Alignment explanation
Indices: 53973948--53974022 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
53973938 CATGCGTATG
53973948 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
53973970 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
53973993 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
53974017 TGTGAT
1 TGTGAT
53974023 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:53974055 original size:241 final size:236
Alignment explanation
Indices: 53973587--53974598 Score: 1479
Period size: 241 Copynumber: 4.2 Consensus size: 236
53973577 TTAGGATTTT
*
53973587 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *** *
53973652 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTG
66 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C-----ATGCGTATGTGTG
53973717 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
125 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
* ***
53973782 TGTGATGGATGTGAAC-ATGCGTATGTGTGATAAGGCCGAATGGCCA
190 TGTGATGAATGTGAACTATATATATGTGTGATAAGGCCGAATGGCCA
* * * *
53973828 ATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
53973893 TGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACATGCGTATGTGTGATAAGG
66 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
*
53973958 CCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGAT
131 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
*
53974023 GAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
196 GAATGTGAA-C----TATATATATGTGTGATAAGGCCGAATGGCCA
53974069 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
53974134 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
66 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
* * * * *
53974199 CCGAATGGCTACTGGGGTGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
131 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
53974264 GAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
196 GAATGTGAA--C-TATATATATGTGTGATAAGGCCGAATGGCCA
53974308 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
** * *
53974373 TGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGATGCGTATGTGTG
65 -----ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
53974438 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
125 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
** * *
53974503 TGTGATGAATGTGAAC-ATGCATATATGAGATAAGGCCGAATGGCCA
190 TGTGATGAATGTGAACTATATATATGTGTGATAAGGCCGAATGGCCA
** * * *
53974549 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
53974599 CGAAACGTGT
Statistics
Matches: 704, Mismatches: 54, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
235 87 0.12
236 1 0.00
239 93 0.13
240 2 0.00
241 389 0.55
242 2 0.00
243 1 0.00
245 129 0.18
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (236 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
GAATGTGAACTATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:53974312 original size:24 final size:24
Alignment explanation
Indices: 53974284--53974359 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
53974274 CCGTATATAT
53974284 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
53974308 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
53974331 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
53974355 ATGTG
1 ATGTG
53974360 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:53974661 original size:46 final size:46
Alignment explanation
Indices: 53974572--53974662 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
53974562 GAACATGAAT
* * * *
53974572 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
53974618 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
53974663 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:53974857 original size:37 final size:36
Alignment explanation
Indices: 53974807--53974915 Score: 173
Period size: 37 Copynumber: 3.0 Consensus size: 36
53974797 GGAAATATAT
53974807 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT-TG
53974844 TCCGGGTAAGACCCGATGACTACGTGTGGAGATGTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAT-TTG
* * *
53974881 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
53974916 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
36 2 0.03
37 65 0.96
38 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (36 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
Found at i:53977561 original size:39 final size:40
Alignment explanation
Indices: 53977466--53977727 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
53977456 TTGAATGATG
*
53977466 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
53977504 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
53977545 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
53977584 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
53977623 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
53977662 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
53977701 AACCGGGCTATGTCCCGAAGTCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
53977728 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 58 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:53985588 original size:39 final size:40
Alignment explanation
Indices: 53985493--53985754 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
53985483 TTGAATGATG
*
53985493 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-T
*
53985532 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
53985572 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
53985611 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
53985650 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
53985689 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
53985728 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
53985755 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 60 0.30
41 10 0.05
42 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:53987177 original size:22 final size:22
Alignment explanation
Indices: 53987152--53987227 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
53987142 GGTGTTACAG
53987152 GTAAGCTCTATTGAGCTGAACA
1 GTAAGCTCTATTGAGCTGAACA
* *
53987174 GTAAGCTAT-TTCGAGCTAAAC-
1 GTAAGCTCTATT-GAGCTGAACA
* * *
53987195 GATAAGCTCCAATGAGCTGAAATA
1 G-TAAGCTCTATTGAGCTG-AACA
53987219 GTAAGCTCT
1 GTAAGCTCT
53987228 TACGAGTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
21 3 0.07
22 27 0.66
23 10 0.24
24 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTGAACA
Found at i:53988720 original size:137 final size:138
Alignment explanation
Indices: 53988428--53989252 Score: 1149
Period size: 138 Copynumber: 6.1 Consensus size: 138
53988418 AGAAAAAAGG
* *
53988428 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTACATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
53988493 TATAACTATTTATATTACTAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATAAAATT
66 TATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
53988558 CATATATT
131 CATATATT
* * * *
53988566 AATTATATT-TTTTCAAAAGAATATTAATTTTCATATCTGTTATATTTTGACCGATATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * *
53988630 TATATCTGTTTATATTAGTAAATTCGATAAAATATATACAATCAA-AATTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
53988694 -ACTATATT
131 CA-TATATT
53988702 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * *
53988767 CATAACTGTTTATATTAATGAATTC-AGTAAAATATATTCAATTAATATTTTTTATGAATCAAAT
66 TATAACTATTTATATTAATAAATTCGA-TAAAATATATACAATTAATATTTTGTATGAATCAAAT
53988831 TCATATATT
130 TCATATATT
* * * *
53988840 AATTATATTCTTTCCAAAAGAAAATTAATTTCCATGTATTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
** * *
53988905 TATAACTATTTATATTAATAAA-T---T----T-GGT-CAATTAATATTTTATATAAATCAAATT
66 TATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
53988960 CATATATT
131 CATATATT
* * *
53988968 AATTATATTTTTTCTAGAAGAATATTAATTTTCATGTCTTTTATATTTTGACC-AGAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGA-AATTAATTA
* * *
53989032 ATATAACTGTTTATATTAATAAGTTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
53989097 TCATATATT
130 TCATATATT
* * * *
53989106 AATCATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
53989171 TATAACTATTTATATTAATAAATTCGACAAAATATATTCAATTAATATTTTGTATGAATCAATTT
66 TATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
53989236 TATATATT
131 CATATATT
53989244 AATTATATT
1 AATTATATT
53989253 TATGTTCTCT
Statistics
Matches: 607, Mismatches: 63, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
127 1 0.00
128 109 0.18
129 2 0.00
130 1 0.00
132 1 0.00
134 1 0.00
135 1 0.00
136 34 0.06
137 179 0.29
138 276 0.45
139 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:53989040 original size:266 final size:270
Alignment explanation
Indices: 53988428--53989252 Score: 1128
Period size: 266 Copynumber: 3.0 Consensus size: 270
53988418 AGAAAAAAGG
* *
53988428 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTACATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
53988493 TATAACTATTTATATTACTAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATAAAATT
66 TATAACTGTTTATATTAAT-AATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * * * * *
53988558 CATATATTAATTATATT-TTTTCAAAAGAATATTAATTTTCATATCTGTTATATTTTGACCGATA
130 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAA
* * * * *
53988622 TTAATTAATATATCTGTTTATATTAGTAAATTCGATAAAATATATACAATCAAAATTTGTATGAA
195 TTAATTAATATAACTATTTATATTAATAAATTCGAT-AAATATATA-AAT--AAATTTATATAAA
53988687 TCAAATTACTATATT
256 TCAAATTACTATATT
53988702 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
53988767 CATAACTGTTTATATTAATGAATTCAGTAAAATATATTCAATTAATATTTTTTATGAATCAAATT
66 TATAACTGTTTATATTAAT-AATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
53988832 CATATATTAATTATATTCTTTCCAAAAGAAAATTAATTTCCATGTATTTTATATTTTGATCGAAA
130 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAA
* * * *
53988897 TTAATTAATATAACTATTTATATTAATAAATTTGGT-CA-AT-T-AAT-ATTTTATATAAATCAA
195 TTAATTAATATAACTATTTATATTAATAAATTCGATAAATATATAAATAAATTTATATAAATCAA
53988957 ATT-CATATATT
260 ATTAC-TATATT
* * *
53988968 AATTATATTTTTTCTAGAAGAATATTAATTTTCATGTCTTTTATATTTTGACC-AGAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGA-AATTAATTA
53989032 ATATAACTGTTTATATTAATAAGTTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAACTGTTTATATTAATAA-TTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
* *
53989097 TCATATATTAATCATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCAAA
129 TCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAA
* * * *
53989162 ATTAATTAATATAACTATTTATATTAATAAATTCGACAAAATATATTCAATTAATATTTTGTATG
194 ATTAATTAATATAACTATTTATATTAATAAATTCGA-TAAATATA-T-AAATAA-A-TTTATATA
*
53989227 AATCAATTTTA-TATATT
254 AATCAA-ATTACTATATT
53989244 AATTATATT
1 AATTATATT
53989253 TATGTTCTCT
Statistics
Matches: 488, Mismatches: 47, Indels: 30
0.86 0.08 0.05
Matches are distributed among these distances:
265 4 0.01
266 234 0.48
268 1 0.00
269 5 0.01
271 2 0.00
272 2 0.00
273 3 0.01
274 138 0.28
275 70 0.14
276 27 0.06
277 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (270 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAAT
TAATTAATATAACTATTTATATTAATAAATTCGATAAATATATAAATAAATTTATATAAATCAAA
TTACTATATT
Found at i:53994820 original size:27 final size:27
Alignment explanation
Indices: 53994781--53994845 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
53994771 CTTTAATCGA
*
53994781 TAAAATGATTGTTTTGCCCTTATGA-GG
1 TAAAATGACTGTTTTGCCCTTAT-ATGG
*
53994808 TTAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
53994835 TAAAATGACTG
1 TAAAATGACTG
53994846 AAATGCCCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATATGG
Found at i:53994852 original size:27 final size:27
Alignment explanation
Indices: 53994795--53994858 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
53994785 ATGATTGTTT
* ***
53994795 TGCCCTTATGAGGTTAAATGACTGTTT
1 TGCCCTTATGAGGTAAAATGACTGAAA
53994822 TGCCCTTAT-ATGGTAAAATGACTGAAA
1 TGCCCTTATGA-GGTAAAATGACTGAAA
*
53994849 TGCCCCTATG
1 TGCCCTTATG
53994859 TGAGGTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (27 bp):
TGCCCTTATGAGGTAAAATGACTGAAA
Found at i:53995235 original size:18 final size:18
Alignment explanation
Indices: 53995212--53995250 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
53995202 TACTGTTTAA
53995212 ACTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
*
53995230 ACTGTTATTGCACTGATT
1 ACTGTTACTGCACTGATT
53995248 ACT
1 ACT
53995251 ATCATTGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:53995257 original size:18 final size:18
Alignment explanation
Indices: 53995220--53995258 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
53995210 AAACTGTTAC
* *
53995220 TGCACTGATTACTGTTAT
1 TGCACTGATTACTATCAT
53995238 TGCACTGATTACTATCAT
1 TGCACTGATTACTATCAT
53995256 TGC
1 TGC
53995259 TCTATTTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (18 bp):
TGCACTGATTACTATCAT
Found at i:53998728 original size:16 final size:17
Alignment explanation
Indices: 53998695--53998729 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
53998685 TGAAAAGAGG
*
53998695 AAGTGAAATATGGTATA
1 AAGTGAAATATAGTATA
53998712 AAGTGAAAT-TAGTATA
1 AAGTGAAATATAGTATA
53998728 AA
1 AA
53998730 AATATGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (17 bp):
AAGTGAAATATAGTATA
Found at i:53999114 original size:25 final size:25
Alignment explanation
Indices: 53999066--53999114 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
53999056 CATGATTGAA
* * *
53999066 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
53999091 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
53999115 ATGTATTGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:53999578 original size:16 final size:17
Alignment explanation
Indices: 53999536--53999579 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
53999526 ATGAGAAATT
53999536 AATATGAG--ATGAGAA
1 AATATGAGAAATGAGAA
*
53999551 AATAT-TGAAATG-GAA
1 AATATGAGAAATGAGAA
53999566 AATATGAGAAATGA
1 AATATGAGAAATGA
53999580 TTATGGGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 1 0.04
15 13 0.57
16 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (17 bp):
AATATGAGAAATGAGAA
Found at i:54004591 original size:130 final size:130
Alignment explanation
Indices: 54004340--54004602 Score: 293
Period size: 131 Copynumber: 2.0 Consensus size: 130
54004330 TAAAGTTTTC
* * * *
54004340 AAAATAAAGGTAATATTTCGTATCTGGAACTTCGAGAAGTCATACCCTAACTTTCGGGGTTTCAA
1 AAAATAAAGGTAATATTCCGCATCTGAAACTTCAAGAAGTCATACCCTAACTTTCGGGGTTTCAA
* ** * *
54004405 TTTTCTCGTTGAATCTAAATAACCAAATATCCTTTCAAATTTTAAAATATATGAATTTT-AAATA
66 TTTTCTCGTTGAATCTAAACAACCAAATATCCTTTCAAAAATCAAAATATACGAATTTTAAAATA
* * *
54004469 AAAATAAAGGTAATATTCCGCATTTAGAAAC-TCAAGAAGGTCATGCCTTAACTTAT-GGGGTTT
1 AAAATAAAGGTAATATTCCGCATCT-GAAACTTCAAGAA-GTCATACCCTAACTT-TCGGGGTTT
* * * * *
54004532 TAATTTTCCTTGTTGAATCTAAACAACCGAATATCCTTTTAGAAAATCAAAGT-T-CGAATTTTA
63 CAATTTT-CTCGTTGAATCTAAACAACCAAATATCCTTTCA-AAAATCAAAATATACGAATTTTA
54004595 AAATA
126 AAATA
54004600 AAA
1 AAA
54004603 TAATTGAAAG
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
129 28 0.25
130 37 0.33
131 39 0.35
132 7 0.06
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (130 bp):
AAAATAAAGGTAATATTCCGCATCTGAAACTTCAAGAAGTCATACCCTAACTTTCGGGGTTTCAA
TTTTCTCGTTGAATCTAAACAACCAAATATCCTTTCAAAAATCAAAATATACGAATTTTAAAATA
Found at i:54009124 original size:1 final size:1
Alignment explanation
Indices: 54009118--54009222 Score: 57
Period size: 1 Copynumber: 105.0 Consensus size: 1
54009108 ACTTTTATTC
* * * * * * * * * *
54009118 AAAAAAAAGAAAAAAAGAAAAGAAAAAAAATAAAAAATAAAAAGAGAAAAGAAAATAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
54009183 TAAAATAAAAAGAAAAGAAAAAGAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
54009223 GGAGAGGCCA
Statistics
Matches: 70, Mismatches: 34, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (1 bp):
A
Found at i:54009138 original size:6 final size:6
Alignment explanation
Indices: 54009121--54009223 Score: 72
Period size: 6 Copynumber: 17.0 Consensus size: 6
54009111 TTTATTCAAA
* * *
54009121 AAAAAG AAAAAA AGAAAAG AAAAA- AAATA- AAAAAT AAAAAG AGAAAAG
1 AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG
* *
54009169 AAAATA- AAATAAA ATAAAAT AAAAAG -AAAAG AAAAAG -AAAAG AAAAAAG
1 AAAA-AG AAA-AAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG
54009218 AAAAAG
1 AAAAAG
54009224 GAGAGGCCAA
Statistics
Matches: 80, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
5 18 0.22
6 38 0.47
7 22 0.28
8 2 0.03
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:54009221 original size:5 final size:5
Alignment explanation
Indices: 54009118--54009214 Score: 71
Period size: 5 Copynumber: 19.8 Consensus size: 5
54009108 ACTTTTATTC
*
54009118 AAAA- AAAAG -AAA- AAAAG AAAAG AAAA- AAAAT AAAA- AATAA- AAAGAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAA-AG
* * * *
54009164 AAAAG AAAAT AAAAT AAAAT AAAATA AAAAG AAAAG AAAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG -AAAAG AAAAG AAAA
54009215 AAGAAAAAGG
Statistics
Matches: 81, Mismatches: 3, Indels: 17
0.80 0.03 0.17
Matches are distributed among these distances:
4 17 0.21
5 52 0.64
6 12 0.15
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (5 bp):
AAAAG
Found at i:54010615 original size:143 final size:142
Alignment explanation
Indices: 54010351--54010921 Score: 784
Period size: 143 Copynumber: 4.0 Consensus size: 142
54010341 TAGATTGAAG
* * * *
54010351 ATGGCAGATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTAACTCCCTA
1 ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * *
54010416 AAGTTGCAGCGGAGCAGATTGAAGACAACGAATCTTATTTTCCTGAACTTGTAGTGGAATAGATT
66 AAGTTGCAGCGGAGCAGATTGAAGACAACGAATCTTA-TTTCCTGAAGTTGCAATGGAACAGATT
*
54010481 GAAGCTACAAGTT
130 AAAGCTACAAGTT
* * *
54010494 ATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAAATTGAAACCACCAGCCTTATCTCCCTG
1 ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * * *
54010559 AAGTTGTAGCGGAGTAGATTGAAGACAGCGAATCTTATTTCCTTAAAGTTGCAGTGGAACAGATT
66 AAGTTGCAGCGGAGCAGATTGAAGACAACGAATCTTATTTCC-TGAAGTTGCAATGGAACAGATT
*
54010624 GAAGCTACAAGTT
130 AAAGCTACAAGTT
* * *
54010637 ATGGCGGATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCCTATCTCCCTG
1 ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * **
54010702 AAGTTGCAGTGGAGTAGACTGAAGACAACGAATCTTATTTCCGTGGCGTTGCAATGGAACAGATT
66 AAGTTGCAGCGGAGCAGATTGAAGACAACGAATCTTATTTCC-TGAAGTTGCAATGGAACAGATT
*
54010767 AAAGCTACAAATT
130 AAAGCTACAAGTT
* * *
54010780 ATGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTGACGCCACCAGCCTTATCTCCCTG
1 ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * *
54010845 AAGTTGTAGCGGAGCAGATTGAAGACAGCGAATCTCATTTCCCTGAAGTTGCAATGGAGA-TGAT
66 AAGTTGCAGCGGAGCAGATTGAAGACAACGAATCTTATTT-CCTGAAGTTGCAATGGA-ACAGAT
54010909 TAAAGCTACAAGT
129 TAAAGCTACAAGT
54010922 CTAATCTCCC
Statistics
Matches: 378, Mismatches: 47, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
142 5 0.01
143 370 0.98
144 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (142 bp):
ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
AAGTTGCAGCGGAGCAGATTGAAGACAACGAATCTTATTTCCTGAAGTTGCAATGGAACAGATTA
AAGCTACAAGTT
Found at i:54019282 original size:42 final size:42
Alignment explanation
Indices: 54019223--54019307 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
54019213 TTTATAAGAC
*
54019223 TCCATTTTATTTATATTAGTATAATTAATATTAAGATAATTA
1 TCCATTTTATTTATATTAGGATAATTAATATTAAGATAATTA
54019265 TCCATTTTATTTATATTAGGATAATTAATATTAAGATAATTA
1 TCCATTTTATTTATATTAGGATAATTAATATTAAGATAATTA
54019307 T
1 T
54019308 TAGGATTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (42 bp):
TCCATTTTATTTATATTAGGATAATTAATATTAAGATAATTA
Found at i:54019297 original size:15 final size:15
Alignment explanation
Indices: 54019277--54019306 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54019267 CATTTTATTT
*
54019277 ATATTAGGATAATTA
1 ATATTAAGATAATTA
54019292 ATATTAAGATAATTA
1 ATATTAAGATAATTA
54019307 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:54019317 original size:42 final size:42
Alignment explanation
Indices: 54019229--54019329 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
54019219 AGACTCCATT
* **
54019229 TTATTTATATTAGTATAATTAATATTAAGATAATTATCCATT
1 TTATTTATATTAGGATAATTAATATTAAGATAATTATCCAGA
*
54019271 TTATTTATATTAGGATAATTAATATTAAGATAATTAT-TAGGA
1 TTATTTATATTAGGATAATTAATATTAAGATAATTATCCA-GA
*
54019313 TTATTTAATTTTAGGAT
1 TTATTT-ATATTAGGAT
54019330 TTAATTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 42 0.81
43 9 0.17
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.50
Consensus pattern (42 bp):
TTATTTATATTAGGATAATTAATATTAAGATAATTATCCAGA
Found at i:54019350 original size:10 final size:10
Alignment explanation
Indices: 54019335--54019362 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
54019325 AGGATTTAAT
54019335 TTTAATTATC
1 TTTAATTATC
54019345 TTTAATTATC
1 TTTAATTATC
54019355 TTTAATTA
1 TTTAATTA
54019363 AATGTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTAATTATC
Found at i:54024732 original size:30 final size:30
Alignment explanation
Indices: 54024698--54024757 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
54024688 TTCCCAAGCC
*
54024698 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
54024728 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
54024758 CATATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:54028535 original size:5 final size:5
Alignment explanation
Indices: 54028510--54028573 Score: 62
Period size: 5 Copynumber: 12.6 Consensus size: 5
54028500 AGGCAACCCA
*
54028510 ATTTT CATTTT ATTTT CATTTT ATTTTT ATTTT -TATTT ATTTT ATCTT
1 ATTTT -ATTTT ATTTT -ATTTT A-TTTT ATTTT AT-TTT ATTTT ATTTT
54028558 A--TT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATT
54028574 CAGATATTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
3 3 0.06
4 1 0.02
5 31 0.61
6 16 0.31
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:54028537 original size:17 final size:16
Alignment explanation
Indices: 54028510--54028573 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 16
54028500 AGGCAACCCA
*
54028510 ATTTTCATTTTATTTTC
1 ATTTT-ATTTTATTTTT
54028527 ATTTTATTTTTATTTTT
1 ATTTTA-TTTTATTTTT
54028544 A-TTTATTTTATCTTATT
1 ATTTTATTTTAT-TT-TT
54028561 ATTTTATTTTATT
1 ATTTTATTTTATT
54028574 CAGATATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
15 6 0.14
16 7 0.17
17 19 0.45
18 10 0.24
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTTATTTTATTTTT
Found at i:54028571 original size:23 final size:21
Alignment explanation
Indices: 54028510--54028573 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 21
54028500 AGGCAACCCA
*
54028510 ATTTTCATTTTATTTTCATTTT
1 ATTTTTATTTTATTTT-ATTTT
54028532 ATTTTTATTTT-TATTTATTTT
1 ATTTTTATTTTAT-TTTATTTT
54028553 ATCTTATTATTTTATTTTATT
1 AT-TT-TTATTTTATTTTATT
54028574 CAGATATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
21 8 0.22
22 15 0.41
23 13 0.35
24 1 0.03
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (21 bp):
ATTTTTATTTTATTTTATTTT
Found at i:54030079 original size:15 final size:15
Alignment explanation
Indices: 54030059--54030088 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54030049 CATTTTATTT
*
54030059 ATATTAGGATAATTA
1 ATATTAAGATAATTA
54030074 ATATTAAGATAATTA
1 ATATTAAGATAATTA
54030089 TTAAGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:54041142 original size:39 final size:40
Alignment explanation
Indices: 54041058--54041142 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
54041048 ACTTAATTCA
* * *
54041058 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
54041098 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
54041137 TCAGCA
1 CCAGCA
54041143 CAATTCACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:54041267 original size:45 final size:46
Alignment explanation
Indices: 54041213--54041321 Score: 150
Period size: 47 Copynumber: 2.3 Consensus size: 46
54041203 TGCACACTTT
* *
54041213 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
*
54041259 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
54041306 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
54041322 ATCTTAAGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 25 0.44
46 5 0.09
47 27 0.47
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:54043823 original size:22 final size:20
Alignment explanation
Indices: 54043783--54043823 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
54043773 AGTCCTATTA
*
54043783 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
54043803 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
54043824 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:54045141 original size:34 final size:35
Alignment explanation
Indices: 54045067--54045144 Score: 101
Period size: 34 Copynumber: 2.3 Consensus size: 35
54045057 CTGTTGCATT
*
54045067 ACTGATACTGTTAGCGTAATGGGCTAAGGCCCATG
1 ACTGATACTGTTAGCGTAATGGGCTAAGGCCCATC
54045102 A-TGATACTGTTA-CTGCT-ATGGGCTAAGGCCCA-C
1 ACTGATACTGTTAGC-G-TAATGGGCTAAGGCCCATC
54045135 ACTGATACTG
1 ACTGATACTG
54045145 GACTACCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
33 2 0.05
34 35 0.90
35 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (35 bp):
ACTGATACTGTTAGCGTAATGGGCTAAGGCCCATC
Found at i:54046869 original size:79 final size:81
Alignment explanation
Indices: 54046758--54046938 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
54046748 GCTACTCGTT
* * *
54046758 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
54046822 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
54046838 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
54046901 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
54046918 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
54046939 TGGACATCAT
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 54 0.62
80 29 0.33
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:54046875 original size:39 final size:40
Alignment explanation
Indices: 54046758--54046938 Score: 217
Period size: 40 Copynumber: 4.5 Consensus size: 40
54046748 GCTACTCGTT
*
54046758 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
54046798 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
54046838 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
54046877 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
54046918 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
54046939 TGGACATCAT
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 73 0.60
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:54053741 original size:42 final size:42
Alignment explanation
Indices: 54053676--54053829 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
54053666 TAAGACTACA
* * *
54053676 TGTAAGACCATACCTGGGGTATGGCATCAATATGAGATTACG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTACG
* *
54053718 TGTAAGACCATATTTGGGATATGGAATCGATATGAGAGTT-CG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTACG
* * * * * *
54053760 TGTTAGACCATAACTGTGCTATTGGCATCGATACGAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTACG
54053803 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
54053830 TGGTATGGTA
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 58 0.63
43 34 0.37
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTACG
Found at i:54060324 original size:15 final size:15
Alignment explanation
Indices: 54060296--54060342 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
54060286 TGCTATTAAT
54060296 TTATTAAGATAAAAAC
1 TTATTAA-ATAAAAAC
54060312 TTATTAAATAAAATA-
1 TTATTAAATAAAA-AC
* *
54060327 TGATTAAATTAAAAC
1 TTATTAAATAAAAAC
54060342 T
1 T
54060343 AATCCTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 1 0.04
15 18 0.67
16 8 0.30
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (15 bp):
TTATTAAATAAAAAC
Found at i:54061751 original size:40 final size:39
Alignment explanation
Indices: 54061688--54061773 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 39
54061678 TAACGACTTA
*
54061688 TCGGCTAAAATGGCACAGAGTGTGCAGTTCGAAATAGCT
1 TCGGCTAAAATGGCACAGAGTGTGCAATTCGAAATAGCT
* * *
54061727 TCGGCTAAAAGTGGCACTTG-GTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCAC-AGAGTGTGCAATTCGAAATAGCT
*
54061767 TTGGCTA
1 TCGGCTA
54061774 TTTATATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 10 0.25
40 29 0.73
41 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (39 bp):
TCGGCTAAAATGGCACAGAGTGTGCAATTCGAAATAGCT
Found at i:54064440 original size:50 final size:50
Alignment explanation
Indices: 54064376--54064510 Score: 159
Period size: 49 Copynumber: 2.7 Consensus size: 50
54064366 CAATACATGT
* *
54064376 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTATAGA-A-AGAGAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATA-AG-A
* * * * *
54064426 GAGCCAGTGTAAGACCA-GTCTAGGATATGGCATTGGCCTCGATATAAGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATAAGA
*
54064475 GAGACAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
54064511 ACTCGATATG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
49 36 0.51
50 34 0.48
51 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (50 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATAAGA
Done.