Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 182 of 316
Found at i:58681679 original size:27 final size:27
Alignment explanation
Indices: 58681649--58681702 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
58681639 GAAACACGAA
58681649 AATATATAAAATTTTTCATGCCCTTTT
1 AATATATAAAATTTTTCATGCCCTTTT
* *
58681676 AATATATAGACTTTTTCATGCCCTTTT
1 AATATATAAAATTTTTCATGCCCTTTT
58681703 GAACTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.48
Consensus pattern (27 bp):
AATATATAAAATTTTTCATGCCCTTTT
Found at i:58688705 original size:23 final size:23
Alignment explanation
Indices: 58688679--58688725 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
58688669 AAAACCAATC
*
58688679 TACGTTTTGATTAAATCCAAAAG
1 TACGTCTTGATTAAATCCAAAAG
*
58688702 TACGTCTTGCTTAAATCCAAAAG
1 TACGTCTTGATTAAATCCAAAAG
58688725 T
1 T
58688726 CTTAATCGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (23 bp):
TACGTCTTGATTAAATCCAAAAG
Found at i:58692400 original size:42 final size:42
Alignment explanation
Indices: 58692353--58692511 Score: 151
Period size: 42 Copynumber: 3.8 Consensus size: 42
58692343 GGTACCGTAC
*
58692353 CAATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCTAGATATGGTCTTACATGTAATCTCATAT
* * * * * * *
58692395 CAATGCTGATAGCCCAGCTATAGTCTTACACGAAATCTCATAT
1 CAATGC-CATATCCTAGATATGGTCTTACATGTAATCTCATAT
* * *
58692438 TAATGCAATATCCTAGATATGGTCTTACACT-TAGTCTCATAT
1 CAATGCCATATCCTAGATATGGTCTTACA-TGTAATCTCATAT
** *
58692480 TGATGTCATAT-CTCAGATATGGTCTTACATGT
1 CAATGCCATATCCT-AGATATGGTCTTACATGT
58692512 GGTCTCAGTA
Statistics
Matches: 93, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
41 3 0.03
42 57 0.61
43 33 0.35
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (42 bp):
CAATGCCATATCCTAGATATGGTCTTACATGTAATCTCATAT
Found at i:58696982 original size:37 final size:37
Alignment explanation
Indices: 58696940--58697013 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
58696930 CCTAAAGGGT
58696940 TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
1 TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
58696977 TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
1 TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
58697014 CAAGTTCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.22
Consensus pattern (37 bp):
TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
Found at i:58700253 original size:39 final size:39
Alignment explanation
Indices: 58700195--58700387 Score: 271
Period size: 39 Copynumber: 5.0 Consensus size: 39
58700185 GTACCATTCT
* *
58700195 AGCACATAGCCTGCGGACTTCAAGTCCGGATATATTTCC
1 AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTCC
** * * *
58700234 AGCACATAGCCTGTAGACTTTAAGTCCGGATATATTTCC
1 AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTCC
*
58700273 AGCACATAGCCTGCAGACCTCATGTCCGGATATATTTCC
1 AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTCC
* * *
58700312 AACACATAGCCTGTGGACCTCATGTCCGGATATATTCCC
1 AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTCC
*
58700351 AG-ATATAGCCTGCGGACCTCATGTCCGGATATATTTC
1 AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTC
58700388 AAATACCATG
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
38 32 0.23
39 107 0.77
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTCC
Found at i:58706937 original size:94 final size:94
Alignment explanation
Indices: 58706775--58707244 Score: 841
Period size: 94 Copynumber: 5.0 Consensus size: 94
58706765 AATGTGACCG
* *
58706775 TATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
58706840 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
58706869 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGTG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
58706934 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
* *
58706963 TATATGCTATTTGAATTAAGTAAATTTCCTTATTATAATGAGTTAACATTGGCACTATGTGTGTG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
58707028 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
58707057 TATATGCTATTTGAATTAAATAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
*
58707122 GAATTAAATGTCACTTAGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
58707151 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTAAGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* * *
58707216 AAATTAAATGGCACTATGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
58707245 GAATGTCGAT
Statistics
Matches: 362, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 362 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:58707305 original size:24 final size:24
Alignment explanation
Indices: 58707273--58707336 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
58707263 GAAAATTTTA
* *
58707273 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
58707297 GGCACTATGTGTGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
58707321 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
58707337 ATTTGGTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:58715558 original size:46 final size:45
Alignment explanation
Indices: 58715508--58715683 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
58715498 TGGTTGAGCA
*
58715508 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
58715554 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
58715599 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
58715647 CCCGAGCTCGTTGAGTTGAGTCGGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58715684 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 30 0.28
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:58715664 original size:93 final size:93
Alignment explanation
Indices: 58715505--58715675 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
58715495 GGATGGTTGA
* * * * *
58715505 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAACGCCCGAACTCGTTGAGT
58715570 TGAGTCCGAGTTCATGAAATGTAACTAG
66 TGAGTCCGAGTTCATGAAATGTAACTAG
*
58715598 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAACGCCCGAACTCGTTGAGT
*
58715663 TGAGTCGGAGTTC
66 TGAGTCCGAGTTC
58715676 GCTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAAATGTAACTAG
Found at i:58719179 original size:6 final size:6
Alignment explanation
Indices: 58719162--58719198 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
58719152 TTTTCAAGTT
58719162 ATTTTC ATTTTTC ATTTTAC ATTTTC ATTTTC ATTTT
1 ATTTTC A-TTTTC ATTTT-C ATTTTC ATTTTC ATTTT
58719199 GGAAAAAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTC
Found at i:58719186 original size:13 final size:12
Alignment explanation
Indices: 58719162--58719198 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
58719152 TTTTCAAGTT
58719162 ATTTTCATTTTTC
1 ATTTTCA-TTTTC
58719175 ATTTTACATTTTC
1 ATTTT-CATTTTC
58719188 ATTTTCATTTT
1 ATTTTCATTTT
58719199 GGAAAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 15 0.65
14 2 0.09
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTCATTTTC
Found at i:58719230 original size:41 final size:40
Alignment explanation
Indices: 58719172--58719249 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
58719162 ATTTTCATTT
* *
58719172 TTCATTTTACATTTTCATTTTCATTTTGGAAAAAACCACA
1 TTCATTTTACATTTTCATTTTAATTTTCGAAAAAACCACA
* *
58719212 TTCATTTTTCAATTTTCATTTTAATTTTCGAGAAAACC
1 TTCATTTTAC-ATTTTCATTTTAATTTTCGAAAAAACC
58719250 TTAATCATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
40 9 0.27
41 24 0.73
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (40 bp):
TTCATTTTACATTTTCATTTTAATTTTCGAAAAAACCACA
Found at i:58719258 original size:41 final size:40
Alignment explanation
Indices: 58719173--58719259 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
58719163 TTTTCATTTT
* * *
58719173 TCATTTTACATTTTCATTTTCATTTTGGAAAAAACCACAT
1 TCATTTTACATTTTCATTTTAATTTTCGAAAAAACCACAA
* * **
58719213 TCATTTTTCAATTTTCATTTTAATTTTCGAGAAAACCTTAA
1 TCATTTTAC-ATTTTCATTTTAATTTTCGAAAAAACCACAA
58719254 TCATTT
1 TCATTT
58719260 CCAAATGATT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 31 0.79
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.48
Consensus pattern (40 bp):
TCATTTTACATTTTCATTTTAATTTTCGAAAAAACCACAA
Found at i:58720889 original size:93 final size:93
Alignment explanation
Indices: 58720777--58720948 Score: 294
Period size: 93 Copynumber: 1.8 Consensus size: 93
58720767 CGCCCATAAG
*
58720777 CGAACTCGGACTCAACTCAACGA-TCTCAGG-CGTTCGCATCCATAAGTGAACTCGAACTCAACT
1 CGAACTCGGACTCAACTCAACGAGT-TC-GGACATTCGCATCCATAAGTGAACTCGAACTCAACT
58720840 CAACGAGTTCGGATGCCTAGTTACATCTCA
64 CAACGAGTTCGGATGCCTAGTTACATCTCA
*
58720870 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
58720935 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
58720949 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
92 2 0.03
93 72 0.96
94 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:58720943 original size:46 final size:46
Alignment explanation
Indices: 58720770--58720945 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
58720760 TGTAACCCGC
*
58720770 CCATAAGCGAACTCGGACTCAACTCAACGA-TCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGT-TC-GGACATTCGCAT
* * *
58720816 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
58720866 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
58720909 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
58720946 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:58720964 original size:46 final size:44
Alignment explanation
Indices: 58720778--58720964 Score: 132
Period size: 46 Copynumber: 4.0 Consensus size: 44
58720768 GCCCATAAGC
* * * *
58720778 GAACTCGGACTCAACTCAACGA-TCTCAGGCGTTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGT-TC-GG-ATGC-CAACCATCTAGT
* *
58720824 GAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
58720871 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
58720917 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
58720963 GA
1 GA
58720965 CATGTCACTT
Statistics
Matches: 112, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 3 0.03
46 59 0.53
47 31 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:58724899 original size:13 final size:13
Alignment explanation
Indices: 58724881--58724906 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58724871 ATTTTTCAGG
58724881 TCATTTTCATTTT
1 TCATTTTCATTTT
58724894 TCATTTTCATTTT
1 TCATTTTCATTTT
58724907 GGAGAAAACC
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:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:58724963 original size:12 final size:14
Alignment explanation
Indices: 58724935--58724967 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
58724925 TTCCAAATGA
58724935 TTTCATTTCTCCAT
1 TTTCATTTCTCCAT
58724949 TTTCATTT-T-CAT
1 TTTCATTTCTCCAT
58724961 TTTCATT
1 TTTCATT
58724968 CTGGAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 1 0.05
14 8 0.42
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTCATTTCTCCAT
Found at i:58724965 original size:63 final size:65
Alignment explanation
Indices: 58724882--58725014 Score: 184
Period size: 63 Copynumber: 2.1 Consensus size: 65
58724872 TTTTTCAGGT
* *
58724882 CATTTTCATTTTTCATTTTCATTTTGGAGAAAACCACAT-TCATTTCCAAATGATTT-C-ATTTC
1 CATTTTCATTTTTCATTTTCATTCTGGAGAAAACC-CATATCATTTCCAAATG-TTTCCTACTTC
58724944 TC
64 TC
**
58724946 CATTTTCA-TTTTCATTTTCATTCTGGAGAAAACCTTTATCATTTCCAAATGTTTCCTACTTCTC
1 CATTTTCATTTTTCATTTTCATTCTGGAGAAAACCCATATCATTTCCAAATGTTTCCTACTTCTC
58725010 CATTT
1 CATTT
58725015 CACCGATCCT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
62 4 0.06
63 39 0.63
64 19 0.31
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (65 bp):
CATTTTCATTTTTCATTTTCATTCTGGAGAAAACCCATATCATTTCCAAATGTTTCCTACTTCTC
Found at i:58728499 original size:17 final size:17
Alignment explanation
Indices: 58728471--58728511 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
58728461 CATTTGTTGA
* *
58728471 GAAATGGAAATGAGATGT
1 GAAAT-GAAATGAAATAT
58728489 GAAATGAAATGAAATAT
1 GAAATGAAATGAAATAT
58728506 GAAATG
1 GAAATG
58728512 GTAGATTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (17 bp):
GAAATGAAATGAAATAT
Found at i:58730556 original size:14 final size:15
Alignment explanation
Indices: 58730532--58730560 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58730522 TTATGCATGA
58730532 TATTACTGTATCTGT
1 TATTACTGTATCTGT
58730547 TATT-CTGTATCTGT
1 TATTACTGTATCTGT
58730561 GACTGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (15 bp):
TATTACTGTATCTGT
Found at i:58735923 original size:29 final size:29
Alignment explanation
Indices: 58735888--58735987 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
58735878 AATGTGACTG
*
58735888 GGCCTAACGGGCCATATAAATGTGATTTA
1 GGCCTAATGGGCCATATAAATGTGATTTA
* * *
58735917 GGCCTAATGGGCCATATATAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTA
* * *
58735946 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTA
*
58735974 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
58735988 GATACAGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 16 0.26
29 46 0.74
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTA
Found at i:58735958 original size:58 final size:57
Alignment explanation
Indices: 58735886--58735996 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
58735876 TGAATGTGAC
* * *
58735886 TGGGCCTAACGGGCCATATAAATGTGATTTAGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTAGGCCTAATGGGCCAGATACAGGTGATT
* * * *
58735944 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTAGGCCTAATGGGCCAGATACAGGT
58735997 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 22 0.48
58 24 0.52
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTAGGCCTAATGGGCCAGATACAGGTGATT
Found at i:58740994 original size:40 final size:40
Alignment explanation
Indices: 58740965--58741173 Score: 312
Period size: 40 Copynumber: 5.2 Consensus size: 40
58740955 GATTAAGATT
* * * *
58740965 CGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCC
1 CGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCC
58741005 CGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCC
1 CGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCC
58741045 CGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCC
1 CGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCC
* *
58741085 CGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCC
1 CGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCC
* * * * *
58741125 CGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCC
1 CGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCC
58741164 CGAAGGCATT
1 CGAAGGCATT
58741174 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.22
40 124 0.78
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCC
Found at i:58741049 original size:80 final size:80
Alignment explanation
Indices: 58740911--58741173 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
58740901 TTGAATGCTG
* * * * * * *
58740911 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-TCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
58740974 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
58740991 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
58741056 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
58741071 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
58741135 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
58741150 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
58741174 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:58741125 original size:120 final size:120
Alignment explanation
Indices: 58740911--58741173 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
58740901 TTGAATGCTG
* * * *
58740911 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATTCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* *
58740975 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * *
58741031 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCAT
* ** * *
58741094 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
58741150 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
58741174 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 35 0.29
120 81 0.66
121 6 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:58741193 original size:79 final size:80
Alignment explanation
Indices: 58740965--58741208 Score: 242
Period size: 80 Copynumber: 3.1 Consensus size: 80
58740955 GATTAAGATT
* * * * * ** * *
58740965 CGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTA
1 CGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCTA
58741029 AATCCGGGTTAAGTCC
65 AATCCGGGTTAAGTCC
* * * ** ** *
58741045 CGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 CGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAA
*
58741110 ATCCGGGTTATGTCC
66 ATCCGGGTTAAGTCC
* * * *
58741125 CGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTAT
1 CGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAA
*
58741189 ATCC-GGTTAAATCC
66 ATCCGGGTTAAGTCC
*
58741203 TGAAGG
1 CGAAGG
58741209 TACGTGGTTT
Statistics
Matches: 142, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 13 0.09
79 47 0.33
80 82 0.58
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAA
ATCCGGGTTAAGTCC
Found at i:58749043 original size:39 final size:40
Alignment explanation
Indices: 58748856--58749116 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
58748846 TTGAATGCTG
* * * * * *
58748856 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
58748896 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
58748936 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
58748976 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
58749016 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
58749055 TCCGGGTTATGT-CCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
58749093 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58749117 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 22 0.11
39 60 0.30
40 108 0.55
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:58749136 original size:117 final size:119
Alignment explanation
Indices: 58748857--58749151 Score: 303
Period size: 117 Copynumber: 2.5 Consensus size: 119
58748847 TGAATGCTGT
* ** * * * * *
58748857 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCGAAGGCATTC
* *
58748921 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
64 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAA
* ** * * *
58748977 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCGAAGGCATTCGT
* ** * *
58749042 GCGAGTTGTTAAATCCGGGTTATGT-CCGAAGGCATT-GTGTGAGTTACTAAAA
66 GCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAA
* * *
58749094 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGT-CCGAAGG
58749152 TACGTGGTTT
Statistics
Matches: 147, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
116 8 0.05
117 52 0.35
118 11 0.07
119 34 0.23
120 36 0.24
121 6 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCGAAGGCATTCGT
GCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAA
Found at i:58767886 original size:40 final size:40
Alignment explanation
Indices: 58767803--58768065 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
58767793 TTGAATGCTG
* * * * * *
58767803 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
58767843 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
58767883 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
58767923 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
58767963 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
58768003 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
58768042 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58768066 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:58768085 original size:79 final size:80
Alignment explanation
Indices: 58767842--58768100 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
58767832 AAGTGAATAT
* * * * * *
58767842 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
58767906 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
58767922 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
58767987 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
58768002 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
58768066 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
58768081 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
58768101 TACGTGGTTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:58771577 original size:15 final size:15
Alignment explanation
Indices: 58771557--58771586 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58771547 CACGGCAAGT
58771557 GTTAAGTTTAATTTA
1 GTTAAGTTTAATTTA
*
58771572 GTTAAGTTTTATTTA
1 GTTAAGTTTAATTTA
58771587 AGGGATTGTT
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:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (15 bp):
GTTAAGTTTAATTTA
Found at i:58777086 original size:40 final size:40
Alignment explanation
Indices: 58777003--58777195 Score: 264
Period size: 40 Copynumber: 4.8 Consensus size: 40
58776993 TTCTAGCGCA
* * * *
58777003 AGCCTACGGGTCTTTAA-CCCAAATACCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCA-TAT
*
58777042 AGCCTGCGGGTCTTTATGCCCAGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCATAT
* * *
58777082 AGCCTGTGGGTCTTTAAGCCCGGATACATTTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCATAT
*
58777122 AGCCTGTGGGTCTTTAAGCCCAGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCATAT
* *
58777162 AGCCTGCGGGTCTTTAAGCCCGGATGCAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCA
58777196 AATATCATAC
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.12
40 122 0.88
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCATAT
Found at i:58778474 original size:21 final size:21
Alignment explanation
Indices: 58778448--58778488 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58778438 CGGCAATTTC
58778448 AATTCACACCT-TTCAACCATG
1 AATTCA-ACCTATTCAACCATG
*
58778469 AATTCAACTTATTCAACCAT
1 AATTCAACCTATTCAACCAT
58778489 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.32
Consensus pattern (21 bp):
AATTCAACCTATTCAACCATG
Found at i:58778498 original size:21 final size:21
Alignment explanation
Indices: 58778459--58778498 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
58778449 ATTCACACCT
* *
58778459 TTCAACCATGAATTCAACTTA
1 TTCAACCATCAATTAAACTTA
*
58778480 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
58778499 GCTTAACATA
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:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTA
Found at i:58789336 original size:24 final size:23
Alignment explanation
Indices: 58789284--58789335 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
58789274 GAAGTTGAAA
58789284 GAAAAAGTACAAGAAAAAAAAGT
1 GAAAAAGTACAAGAAAAAAAAGT
* *
58789307 GAAAAAGATA-AAGACAAAAAATT
1 GAAAAAG-TACAAGAAAAAAAAGT
58789330 GAAAAA
1 GAAAAA
58789336 AAAAAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.71, C:0.04, G:0.15, T:0.10
Consensus pattern (23 bp):
GAAAAAGTACAAGAAAAAAAAGT
Found at i:58791017 original size:40 final size:40
Alignment explanation
Indices: 58790970--58791154 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
58790960 CTTGCACAAG
*
58790970 GCCTTCGGGTCTTAGCCCGGATAT-GATCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAG-TCACTAGCACAAAT
* *
58791010 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
58791050 GCCTTCGGGTCTTAGCCCGGATTTAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
58791090 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
58791131 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58791155 CATTCAAATA
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 91 0.75
41 30 0.25
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:58801388 original size:14 final size:15
Alignment explanation
Indices: 58801362--58801391 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
58801352 ATGTATGTGC
58801362 ATTAAACATTTGTTT
1 ATTAAACATTTGTTT
58801377 ATTAAA-ATTTGTTT
1 ATTAAACATTTGTTT
58801391 A
1 A
58801392 ATCGGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTAAACATTTGTTT
Found at i:58805926 original size:23 final size:23
Alignment explanation
Indices: 58805900--58805949 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
58805890 GATCAGGATC
*
58805900 GCACCAAAGTGCTAAG-AATAGGA
1 GCACCAAAGTGC-AAGTAACAGGA
58805923 GCACCAAAGTGCAAGTAACAGGA
1 GCACCAAAGTGCAAGTAACAGGA
58805946 GCAC
1 GCAC
58805950 TTATAAGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.10
Consensus pattern (23 bp):
GCACCAAAGTGCAAGTAACAGGA
Found at i:58806191 original size:30 final size:30
Alignment explanation
Indices: 58806134--58806192 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
58806124 TTGTTTTCAA
* * * **
58806134 GAGCCACACGGGCTGGGCACATGCCCATGT
1 GAGCCACACGAGCTAGACACACACCCATGT
58806164 GAGCCACACGAGCTAGACACACACCCATG
1 GAGCCACACGAGCTAGACACACACCCATG
58806193 AGCCAGCCCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.36, G:0.27, T:0.10
Consensus pattern (30 bp):
GAGCCACACGAGCTAGACACACACCCATGT
Found at i:58808458 original size:22 final size:22
Alignment explanation
Indices: 58808432--58808507 Score: 116
Period size: 22 Copynumber: 3.5 Consensus size: 22
58808422 CACCAAGTTA
**
58808432 ACAGGACGGTTCAACGTCGTAG
1 ACAGGACGACTCAACGTCGTAG
*
58808454 ACAGGACGACTCAACGCCGTAG
1 ACAGGACGACTCAACGTCGTAG
*
58808476 ACAGGATGACTCAACGTCGTAG
1 ACAGGACGACTCAACGTCGTAG
58808498 ACAGGACGAC
1 ACAGGACGAC
58808508 AAAAGGCCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.32, C:0.26, G:0.29, T:0.13
Consensus pattern (22 bp):
ACAGGACGACTCAACGTCGTAG
Found at i:58808783 original size:27 final size:27
Alignment explanation
Indices: 58808753--58808829 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
58808743 GGCATAATCC
* *
58808753 TCATTCTACCATACAGGGGTATTATGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
58808780 TCATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
*
58808807 TCATTTTA-CACTACAAGGGTATT
1 TCATTTTACCA-TACAGGGGTATT
58808830 TCAATAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.02
27 41 0.98
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:58815193 original size:27 final size:27
Alignment explanation
Indices: 58815163--58815249 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
58815153 GTGACGAAGT
*
58815163 CACCAGATACAGATATTATGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
58815190 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
58815217 CACCAGAT-CAGATAATTGTGGCACAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
58815244 CACCAG
1 CACCAG
58815250 GATGCTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.15
27 45 0.82
28 2 0.04
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:58816878 original size:26 final size:26
Alignment explanation
Indices: 58816847--58816954 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
58816837 TGAAATGCCC
*
58816847 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
58816873 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
58816899 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
58816925 ATCATGGAACATTAACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58816951 ATCA
1 ATCA
58816955 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58818839 original size:24 final size:23
Alignment explanation
Indices: 58818812--58818856 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
58818802 ATTTTTAAAC
58818812 ATAC-AAATATAAATTTACAATATT
1 ATACTAAATAT-AATTT-CAATATT
*
58818836 ATACTCAATATAATTTCAATA
1 ATACTAAATATAATTTCAATA
58818857 AAGTCAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 9 0.47
25 5 0.26
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (23 bp):
ATACTAAATATAATTTCAATATT
Found at i:58821058 original size:25 final size:25
Alignment explanation
Indices: 58821024--58821073 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
58821014 TAAAGTAGTC
58821024 ACTCCCCCTGAAGATGAGTGTTTTA
1 ACTCCCCCTGAAGATGAGTGTTTTA
58821049 ACTCCCCCTGAAGATGAGTGTTTTA
1 ACTCCCCCTGAAGATGAGTGTTTTA
58821074 CAAATAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
ACTCCCCCTGAAGATGAGTGTTTTA
Found at i:58822012 original size:33 final size:33
Alignment explanation
Indices: 58821974--58822072 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
58821964 GACTGAGTGG
*
58821974 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
58822007 GAGTGTTTTGCTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
58822040 GGGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
58822073 CGAGAAGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.17, C:0.10, G:0.41, T:0.31
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:58828866 original size:15 final size:15
Alignment explanation
Indices: 58828846--58828875 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58828836 AAGCAATTAC
*
58828846 GACATGAAAATATAT
1 GACATGAAAAAATAT
58828861 GACATGAAAAAATAT
1 GACATGAAAAAATAT
58828876 ATGTACATGT
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:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (15 bp):
GACATGAAAAAATAT
Found at i:58840155 original size:18 final size:17
Alignment explanation
Indices: 58840134--58840192 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
58840124 ATTTTTTGAA
58840134 TTTTTAAGAATTTTTATT
1 TTTTTAA-AATTTTTATT
*
58840152 TTTTCT-TAATTTTTAATT
1 TTTT-TAAAATTTTT-ATT
* *
58840170 TTTTTAAAAATTATATT
1 TTTTTAAAATTTTTATT
58840187 TTTTTA
1 TTTTTA
58840193 TTTTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
17 17 0.50
18 16 0.47
19 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTTAAAATTTTTATT
Found at i:58840187 original size:24 final size:25
Alignment explanation
Indices: 58840160--58840212 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
58840150 TTTTTTCTTA
58840160 ATTTTTA-ATTTTTTTAAAA-ATTAT
1 ATTTTTATA-TTTTTTAAAAGATTAT
*
58840184 ATTTTTTTATTTTTTAAAAGATTAT
1 ATTTTTATATTTTTTAAAAGATTAT
58840209 ATTT
1 ATTT
58840213 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTTTTATATTTTTTAAAAGATTAT
Found at i:58840189 original size:25 final size:25
Alignment explanation
Indices: 58840161--58840247 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
58840151 TTTTTCTTAA
58840161 TTTTTAATTTTTTTAAAAATTATAT
1 TTTTTAATTTTTTTAAAAATTATAT
*
58840186 TTTTTTA-TTTTTTAAAAGATTATATTT
1 TTTTTAATTTTTTTAAAA-ATTATA--T
* *
58840213 ATTTTTTATTTTTTTTAAAA-TATAAT
1 -TTTTTAATTTTTTTAAAAATTAT-AT
58840239 TTTTTAATT
1 TTTTTAATT
58840248 GTTATGTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
24 10 0.19
25 20 0.38
26 1 0.02
27 4 0.08
28 9 0.17
29 9 0.17
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (25 bp):
TTTTTAATTTTTTTAAAAATTATAT
Found at i:58841028 original size:23 final size:24
Alignment explanation
Indices: 58840983--58841029 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
58840973 ACCCAAATCT
*
58840983 AATTTTAAAAATCTATTTCTATAA
1 AATTTTAAAAATCTATATCTATAA
58841007 AATTTATAAAAAT-TATAT-TATAA
1 AATTT-TAAAAATCTATATCTATAA
58841030 GTATGAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
AATTTTAAAAATCTATATCTATAA
Found at i:58847336 original size:21 final size:21
Alignment explanation
Indices: 58847310--58847357 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
58847300 GTGGTTCAAG
*
58847310 GGACACATCCATGTGACCCTA
1 GGACACACCCATGTGACCCTA
* *
58847331 GGACACGCCCGTGTGACCCTA
1 GGACACACCCATGTGACCCTA
58847352 GGACAC
1 GGACAC
58847358 GTCCGTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.35, G:0.25, T:0.15
Consensus pattern (21 bp):
GGACACACCCATGTGACCCTA
Found at i:58847358 original size:21 final size:21
Alignment explanation
Indices: 58847321--58847365 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
58847311 GACACATCCA
58847321 TGTGACCCTAGGACACGCCCG
1 TGTGACCCTAGGACACGCCCG
*
58847342 TGTGACCCTAGGACACGTCCG
1 TGTGACCCTAGGACACGCCCG
58847363 TGT
1 TGT
58847366 TAGAGGCCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.33, G:0.29, T:0.20
Consensus pattern (21 bp):
TGTGACCCTAGGACACGCCCG
Found at i:58849267 original size:19 final size:20
Alignment explanation
Indices: 58849239--58849282 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
58849229 TGCACATGAG
58849239 TTCATAAAATTTTAGAA-TT
1 TTCATAAAATTTTAGAACTT
* *
58849258 TTCATCAAATTTTATAACTT
1 TTCATAAAATTTTAGAACTT
58849278 TTCAT
1 TTCAT
58849283 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (20 bp):
TTCATAAAATTTTAGAACTT
Found at i:58852089 original size:42 final size:43
Alignment explanation
Indices: 58852028--58852132 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 43
58852018 GATTTGAGAT
*
58852028 TTACGTGTAAGACCATGTCTAGGACA-TCGACATCG-TATTTGA
1 TTACATGTAAGACCATGTCTAGGACAGT-GACATCGATATTTGA
* * * * *
58852070 TTTCATGTAAGACCTTGTCTGGGGCAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTAGGACAGTGACATCGATATTTGA
*
58852113 TTACATGTAAGACCACGTCT
1 TTACATGTAAGACCATGTCT
58852133 GGGATGTTGG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 27 0.52
43 25 0.48
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTAGGACAGTGACATCGATATTTGA
Found at i:58852144 original size:43 final size:43
Alignment explanation
Indices: 58851991--58852145 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 43
58851981 GTGTTACCTT
* * *
58851991 TAAGACCACGTCTGGGACATTAGCATCGAT-TTGAGATTTACGTG
1 TAAGACCACGTCTGGGACATTGGCATCGATATT-TGA-TTACATG
* * * * *
58852035 TAAGACCATGTCTAGGACATCGACATCG-TATTTGATTTCATG
1 TAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACATG
** * *
58852077 TAAGACCTTGTCTGGGGCAGTGGCATCGATATTTGATTACATG
1 TAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACATG
**
58852120 TAAGACCACGTCTGGGATGTTGGCAT
1 TAAGACCACGTCTGGGACATTGGCAT
58852146 TATACGAGTT
Statistics
Matches: 88, Mismatches: 21, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
42 27 0.31
43 36 0.41
44 25 0.28
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACATG
Found at i:58859696 original size:43 final size:43
Alignment explanation
Indices: 58859539--58859697 Score: 121
Period size: 43 Copynumber: 3.7 Consensus size: 43
58859529 GGTGTGTTAT
* *
58859539 CGTGTAAGACCACGCCT-GAGACGTTGGCATCGAT-TTGAGATTTA
1 CGTGTAAGACCACGTCTAG-GACGTTGGCATCGATATT-TGA-TTA
* * * * * *
58859583 CGTGCAAGACCATGTCTAGGACATCGACATC-ATATTTGATTT
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTA
* * * *
58859625 CGTGTAAGACC-CTATTTGGGATAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTAGGA-CGTTGGCATCGATATTTGATTA
*
58859668 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
58859698 TGTACGAGTT
Statistics
Matches: 85, Mismatches: 23, Indels: 15
0.69 0.19 0.12
Matches are distributed among these distances:
42 23 0.27
43 35 0.41
44 26 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTA
Found at i:58861648 original size:28 final size:28
Alignment explanation
Indices: 58861578--58861635 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
58861568 AAAATACATA
58861578 ATCAAATGTATAAAAGATAGGAATAAAT
1 ATCAAATGTATAAAAGATAGGAATAAAT
58861606 ATCAAATGTATAAAAGATAGGAATAAAT
1 ATCAAATGTATAAAAGATAGGAATAAAT
58861634 AT
1 AT
58861636 ACATATTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.57, C:0.03, G:0.14, T:0.26
Consensus pattern (28 bp):
ATCAAATGTATAAAAGATAGGAATAAAT
Found at i:58861933 original size:22 final size:21
Alignment explanation
Indices: 58861903--58861968 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
58861893 TACAAATTAA
58861903 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
58861925 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
58861946 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
58861965 ATCT
1 ATCT
58861969 AAGATTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:58861955 original size:19 final size:19
Alignment explanation
Indices: 58861920--58862017 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
58861910 AGATTACAAG
58861920 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
58861941 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
58861960 ATCATATCTAAGATT--TT
1 ATCATATCTAAGATTGCAT
58861977 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
58861996 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
58862015 ATC
1 ATC
58862018 TTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:58861984 original size:36 final size:36
Alignment explanation
Indices: 58861940--58862010 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
58861930 CAAGATTGCA
58861940 TATCATATCTAAGATTGCATATCATATCTAAGATTT
1 TATCATATCTAAGATTGCATATCATATCTAAGATTT
58861976 TATCATATCTAAGATTGCATATCATATCTAAGATT
1 TATCATATCTAAGATTGCATATCATATCTAAGATT
58862011 GCATATCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTT
Found at i:58862026 original size:36 final size:35
Alignment explanation
Indices: 58861920--58862027 Score: 117
Period size: 36 Copynumber: 2.9 Consensus size: 35
58861910 AGATTACAAG
58861920 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATC-T-T-TAAGATTGCAT
** * *
58861960 ATCATATCTAAGATTTTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT-ATCTTTAAGATTGCAT
58861996 ATCATATCTAAGATTGCATATCTTTAAAGATT
1 ATCATATCTAAGATTGCATATCTTT-AAGATT
58862028 ATATTTCCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
35 4 0.07
36 34 0.59
38 9 0.16
39 3 0.05
40 8 0.14
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (35 bp):
ATCATATCTAAGATTGCATATCTTTAAGATTGCAT
Found at i:58862721 original size:44 final size:43
Alignment explanation
Indices: 58862642--58863748 Score: 655
Period size: 44 Copynumber: 25.2 Consensus size: 43
58862632 ATCCAAAAGT
* *
58862642 CAAATCTGCTATGTCTTCGATTTTTTCCCTGTAAACACAGGGATGC
1 CAAATCTGCTA--TCTTCGA-TTGTTCCCTATAAACACAGGGATGC
*
58862688 CAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
** *** * * * * * *
58862732 CATGT-TAAAATCTTTGATCTGTTTCACTGTAAGCACAGGAATGT
1 CAAATCTGCTATCTTCGAT-TG-TTCCCTATAAACACAGGGATGC
* *
58862776 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACATGGATGC
1 CAAATCTGCTATCTTCGAT-TGTTCCCTATAAACACAGGGATGC
* * *
58862820 CAAATCTGCTAT-TCTCAACTTGTTCCCAATAAACATAGGGATGC
1 CAAATCTGCTATCT-TCGA-TTGTTCCCTATAAACACAGGGATGC
** * ** * *
58862864 C--ATGCTGAAATCTTTGATCTGCTTTGCTGTAAGCACAGGAGTAT--
1 CAAAT-CTGCTATCTTCGAT-TG-TTCCCTATAAACACAGG-G-ATGC
* *
58862908 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGATGC
1 CAAATCTGCTATCTTCGAT-TGTTCCCTATAAACACAGGGATGC
* * * *
58862952 CAAATCTGCTATATTCAACTTGTTCCCAATAAACAAAGGGATGC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
** * * * *
58862996 C--ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACA-GGAGTGT
1 CAAAT-CTGCTATCTTCGAT-TG-TTCCCTATAAACACAGGGA-TGC
* * *
58863040 CAGATCTACTATCTTCGATCTGTTCCCTATAAACACAGGGATAC
1 CAAATCTGCTATCTTCGAT-TGTTCCCTATAAACACAGGGATGC
* * * *
58863084 CAAATTTTCTATCTTCAACTTGTTCCCAATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
** * * ** * *
58863128 C--ATGCTGAAATCTTCAACCTGCTTTACTGTAAGA-ACA-GGAGTGT
1 CAAAT-CTGCTATCTTCGA-TTG-TTCCCTATAA-ACACAGGGA-TGC
* *
58863172 CAGATCTGCTATCTTTGATTTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
*
58863216 CAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
** ** * * * *
58863260 CATGT-TGAAATCTTCGATCTGCTTCGCTGTAAGCACA-GGAGTGT
1 CAAATCTGCTATCTTCGAT-TG-TTCCCTATAAACACAGGGA-TGC
* * *
58863304 TAGATCTGCTATCTTTGATTTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
* * * *
58863348 CAAATCTGCTATCTTCAACTTGTTTCCAATAAACACAAGGATGC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
** * * * * *
58863392 C--ATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGAG-TGT
1 CAAAT-CTGCTATCTTCGAT-TG-TTCCCTATAAACACAGGGATGC
*
58863435 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGAT-TGTTCCCTATAAACACAGGGATGC
** * *
58863479 CAAATCTGCTATCTTTAACTTGTTCCCAAT-AACACAGGGATTC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
** * * * * * * *
58863522 C--ATGCTGAAATCTTCAATCTACTTCGCTGTAAGCACA-AGAGTGT
1 CAAAT-CTGCTATCTTCGAT-T-GTTCCCTATAAACACAGGGA-TGC
*
58863566 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGAT-TGTTCCCTATAAACACAGGGATGC
* *
58863610 CAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGAATGC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
** * * * *
58863654 C--ATGCTGAAATCTTCGATCTACTTCACTGTAAGA-ACA-GGAGTGT
1 CAAAT-CTGCTATCTTCGAT-T-GTTCCCTATAA-ACACAGGGA-TGC
*
58863698 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGAT-TGTTCCCTATAAACACAGGGATGC
58863742 CAAATCT
1 CAAATCT
58863749 TGTTTTTTTG
Statistics
Matches: 805, Mismatches: 193, Indels: 128
0.71 0.17 0.11
Matches are distributed among these distances:
41 3 0.00
42 29 0.04
43 127 0.16
44 509 0.63
45 113 0.14
46 24 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (43 bp):
CAAATCTGCTATCTTCGATTGTTCCCTATAAACACAGGGATGC
Found at i:58862894 original size:132 final size:132
Alignment explanation
Indices: 58862640--58863748 Score: 1738
Period size: 132 Copynumber: 8.4 Consensus size: 132
58862630 ACATCCAAAA
* * * *
58862640 GTCAAATCTGCTATGTCTTCGATTTTTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCA
1 GTCAGATCTGCTA--TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCA
* * * * *
58862705 ACTTGTTCCCTATAAACACAGGGATGCCATGTTAAAATCTTTGATCTGTTTCACTGTAAGCACAG
64 ACTTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAG
*
58862770 GAAT
129 GAGT
*
58862774 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACATGGATGCCAAATCTGCTAT-TCTCAA
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCT-TCAA
* * **
58862838 CTTGTTCCCAATAAACATAGGGATGCCATGCTGAAATCTTTGATCTGCTTTGCTGTAAGCACAGG
65 CTTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGG
58862903 AGT
130 AGT
* * *
58862906 ATCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGATGCCAAATCTGCTATATTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
*
58862971 TTGTTCCCAATAAACAAAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
58863036 GT
131 GT
* * * *
58863038 GTCAGATCTACTATCTTCGATCTGTTCCCTATAAACACAGGGATACCAAATTTTCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* * * *
58863103 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCAACCTGCTTTACTGTAAGAACAGGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
58863168 GT
131 GT
* *
58863170 GTCAGATCTGCTATCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* * *
58863235 TTGTTCCCTATAAACACAGGGATGCCATGTTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
58863300 GT
131 GT
* * *
58863302 GTTAGATCTGCTATCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* * *
58863367 TTGTTTCCAATAAACACAAGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACA-GA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
58863431 GT
131 GT
*
58863433 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTTAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* * * * *
58863498 TTGTTCCCAAT-AACACAGGGATTCCATGCTGAAATCTTCAATCTACTTCGCTGTAAGCACAAGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
58863562 GT
131 GT
58863564 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* * * *
58863629 TTGTTCCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGAACAGGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
58863694 GT
131 GT
58863696 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
58863749 TGTTTTTTTG
Statistics
Matches: 905, Mismatches: 66, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
130 46 0.05
131 154 0.17
132 692 0.76
133 1 0.00
134 12 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (132 bp):
GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
GT
Found at i:58864645 original size:1 final size:1
Alignment explanation
Indices: 58864639--58864759 Score: 71
Period size: 1 Copynumber: 121.0 Consensus size: 1
58864629 GGCCTCTCCA
* * * * * * * * * *
58864639 TTTTTTTTCTTTTTATTATTCTTTTTCTTTTTCTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * ** * *
58864704 CTTGTTTTTCTTTTTTCTTTTTTCTTTTTTCATTTTTATTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58864760 GAAATAGAAG
Statistics
Matches: 83, Mismatches: 37, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.03, C:0.12, G:0.01, T:0.84
Consensus pattern (1 bp):
T
Found at i:58864662 original size:12 final size:11
Alignment explanation
Indices: 58864639--58864758 Score: 111
Period size: 12 Copynumber: 10.7 Consensus size: 11
58864629 GGCCTCTCCA
58864639 TTTTTTTTCTT
1 TTTTTTTTCTT
*
58864650 TTTATTATTCTT
1 TTT-TTTTTCTT
58864662 TTTCTTTTTCTT
1 TTT-TTTTTCTT
58864674 TTCTTTTTTCTT
1 TT-TTTTTTCTT
*
58864686 TTTTCTTT-TT
1 TTTTTTTTCTT
*
58864696 TCTTTTTTCTT
1 TTTTTTTTCTT
58864707 GTTTTTCTTT-TT
1 -TTTTT-TTTCTT
*
58864719 TCTTTTTTCTT
1 TTTTTTTTCTT
**
58864730 TTTTCATT-TT
1 TTTTTTTTCTT
*
58864740 TATTTTTTCTT
1 TTTTTTTTCTT
58864751 TTTTTTTT
1 TTTTTTTT
58864759 TGAAATAGAA
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
10 18 0.21
11 30 0.34
12 35 0.40
13 4 0.05
ACGTcount: A:0.03, C:0.12, G:0.01, T:0.84
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:58864665 original size:18 final size:18
Alignment explanation
Indices: 58864641--58864759 Score: 92
Period size: 21 Copynumber: 6.7 Consensus size: 18
58864631 CCTCTCCATT
58864641 TTTTTTCTTTTTATTATTC
1 TTTTTTCTTTTTATT-TTC
*
58864660 -TTTTTCTTTTTCTTTTC
1 TTTTTTCTTTTTATTTTC
*
58864677 TTTTTTCTTTTTTCTTTTTTC
1 TTTTTTC--TTTT-TATTTTC
*
58864698 TTTTTTC-TTGT-TTTTC
1 TTTTTTCTTTTTATTTTC
58864714 TTTTTTC---TT-TTTTC
1 TTTTTTCTTTTTATTTTC
58864728 TTTTTTCATTTTTATTTTTTC
1 TTTTTTC-TTTTTA--TTTTC
58864749 TTTTTT-TTTTT
1 TTTTTTCTTTTT
58864760 GAAATAGAAG
Statistics
Matches: 85, Mismatches: 4, Indels: 22
0.77 0.04 0.20
Matches are distributed among these distances:
14 13 0.15
16 12 0.14
17 4 0.05
18 23 0.27
19 5 0.06
20 4 0.05
21 24 0.28
ACGTcount: A:0.03, C:0.12, G:0.01, T:0.84
Consensus pattern (18 bp):
TTTTTTCTTTTTATTTTC
Found at i:58864670 original size:7 final size:7
Alignment explanation
Indices: 58864660--58864759 Score: 136
Period size: 7 Copynumber: 14.6 Consensus size: 7
58864650 TTTATTATTC
58864660 TTTTTC-
1 TTTTTCT
58864666 TTTTTC-
1 TTTTTCT
58864672 -TTTTCT
1 TTTTTCT
58864678 TTTTTCT
1 TTTTTCT
58864685 TTTTTCT
1 TTTTTCT
58864692 TTTTTCT
1 TTTTTCT
58864699 TTTTTCTT
1 TTTTTC-T
58864707 GTTTTTCT
1 -TTTTTCT
58864715 TTTTTCT
1 TTTTTCT
58864722 TTTTTCT
1 TTTTTCT
*
58864729 TTTTTCA
1 TTTTTCT
*
58864736 TTTTTAT
1 TTTTTCT
58864743 TTTTTCT
1 TTTTTCT
58864750 TTTTT-T
1 TTTTTCT
58864756 TTTT
1 TTTT
58864760 GAAATAGAAG
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
5 5 0.06
6 11 0.13
7 62 0.72
8 2 0.02
9 6 0.07
ACGTcount: A:0.02, C:0.12, G:0.01, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:58864720 original size:44 final size:42
Alignment explanation
Indices: 58864641--58864759 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 42
58864631 CCTCTCCATT
*
58864641 TTTTTTC-TTTTTATTATTCTT-TTTCTTTTTCTTTTCTTTTTTC
1 TTTTTTCATTTTTATT-TT-TTCTTT-TTTTTTTTTTCTTTTTTC
* *
58864684 TTTTTTCTTTTTTCTTTTTTCTTGTTTTTCTTTTTTCTTTTTTC
1 TTTTTTCATTTTTATTTTTTCTT-TTTTT-TTTTTTCTTTTTTC
58864728 TTTTTTCATTTTTATTTTTTCTTTTTTTTTTT
1 TTTTTTCATTTTTATTTTTTCTTTTTTTTTTT
58864760 GAAATAGAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
42 6 0.09
43 20 0.29
44 42 0.62
ACGTcount: A:0.03, C:0.12, G:0.01, T:0.84
Consensus pattern (42 bp):
TTTTTTCATTTTTATTTTTTCTTTTTTTTTTTTTCTTTTTTC
Found at i:58868598 original size:22 final size:22
Alignment explanation
Indices: 58868556--58868614 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
58868546 CTTAAACTGT
**
58868556 TTTTTATTTTTATTTTTTATTC
1 TTTTTATTTTTATTTAGTATTC
58868578 TTTTTATTTGTT-TTTAGTATTC
1 TTTTTATTT-TTATTTAGTATTC
* *
58868600 TATGTATTATTTATT
1 TTTTTATT-TTTATT
58868615 ATAAGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTTTATTTTTATTTAGTATTC
Found at i:58868685 original size:21 final size:21
Alignment explanation
Indices: 58868661--58868700 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
58868651 TACTTGTGTC
*
58868661 TATAT-TATTTGTTATAAAATT
1 TATATATATTT-TTAAAAAATT
58868682 TATATATATTTTTAAAAAA
1 TATATATATTTTTAAAAAA
58868701 ATTGTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TATATATATTTTTAAAAAATT
Found at i:58870316 original size:16 final size:14
Alignment explanation
Indices: 58870275--58870327 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
58870265 TTTATAATTT
58870275 TGAATGCAAATG-A
1 TGAATGCAAATGCA
58870288 TGTAATG-AAATGCTA
1 TG-AATGCAAATGC-A
58870303 TGAGATGCAAATGCA
1 TGA-ATGCAAATGCA
58870318 TGAATGCAAA
1 TGAATGCAAA
58870328 AGGTATCGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 10 0.29
16 6 0.17
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (14 bp):
TGAATGCAAATGCA
Found at i:58873394 original size:36 final size:38
Alignment explanation
Indices: 58873336--58873408 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 38
58873326 AGATTACAAG
*
58873336 ATCATATCTTCAATATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
58873374 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
58873409 CATATCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.40
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:58873397 original size:19 final size:19
Alignment explanation
Indices: 58873336--58873414 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
58873326 AGATTACAAG
*
58873336 ATCATATCTTCAATATTGCAT
1 ATCATATC-T-AAGATTGCAT
58873357 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
58873374 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
58873393 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
58873412 ATC
1 ATC
58873415 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:58873546 original size:6 final size:6
Alignment explanation
Indices: 58873537--58873564 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
58873527 TTGGACTTTG
58873537 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
58873565 TGGACTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:58876529 original size:20 final size:19
Alignment explanation
Indices: 58876502--58876541 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
58876492 TGTCTTTGAT
*
58876502 TGTTACAATGTTGATGTGA
1 TGTTACAACGTTGATGTGA
58876521 TGTTAACAACGTTGATGTGA
1 TGTT-ACAACGTTGATGTGA
58876541 T
1 T
58876542 AATTTATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (19 bp):
TGTTACAACGTTGATGTGA
Found at i:58876818 original size:15 final size:15
Alignment explanation
Indices: 58876800--58876832 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
58876790 AAAAAATATT
58876800 AAATTAAAATTAATA
1 AAATTAAAATTAATA
58876815 AAATTAAAATTAATA
1 AAATTAAAATTAATA
58876830 AAA
1 AAA
58876833 CCATTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTAAAATTAATA
Found at i:58882684 original size:2 final size:2
Alignment explanation
Indices: 58882679--58882703 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58882669 AGAAAAAAAT
58882679 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
58882704 AAAGAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:58884698 original size:20 final size:20
Alignment explanation
Indices: 58884628--58884714 Score: 79
Period size: 20 Copynumber: 4.2 Consensus size: 20
58884618 CTTATTTCAT
58884628 TAAATAAAAAAAT-TTAAAAA
1 TAAATAAAAAAATATT-AAAA
58884648 TATAATAAATCAAATATATTTAAAA
1 TA-AATAAA--AAA-ATA-TTAAAA
*
58884673 -ACATAAAAAAATATTAAAA
1 TAAATAAAAAAATATTAAAA
* *
58884692 TAAATAAAAAGATACTAAAA
1 TAAATAAAAAAATATTAAAA
58884712 TAA
1 TAA
58884715 TTCTTAAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
19 6 0.11
20 24 0.43
21 9 0.16
23 8 0.14
24 3 0.05
25 4 0.07
26 2 0.04
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (20 bp):
TAAATAAAAAAATATTAAAA
Found at i:58886867 original size:40 final size:40
Alignment explanation
Indices: 58886816--58887007 Score: 187
Period size: 40 Copynumber: 4.8 Consensus size: 40
58886806 GGATATAGCT
* *
58886816 ACTCGCTCAAATGCCTTTGGGACATT-GCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TTAGCCCGGTTATAGTA
*
58886856 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
58886896 ACTCGCACCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* ** * *
58886935 ACTCGCACAAATGCCTTC-GGATCTGAATCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTA
* * *
58886975 ACTTAGCACAAAAGCCTTCGAGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGG
58887008 ATATCATTCG
Statistics
Matches: 125, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 64 0.51
41 24 0.19
42 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:58886934 original size:79 final size:81
Alignment explanation
Indices: 58886851--58887008 Score: 214
Period size: 79 Copynumber: 2.0 Consensus size: 81
58886841 TGCCCGGTTA
* * * * *
58886851 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTGAACCCGGATATAGTAACTTAGCACAAAAGCCTTC
*
58886914 G-GGCTTAGCCCGGAAT
65 GAGACTTAGCCCGGAAT
* *
58886930 TAGTAACTCGCACAAATGCCTTCGGATCTGAATCCGGATATAGTCACTTAGCACAAAAGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGATCTGAACCCGGATATAGTAACTTAGCACAAAAGCCTTCG
58886995 AGACTTAGCCCGGA
66 AGACTTAGCCCGGA
58887009 TATCATTCGA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.04
79 39 0.57
80 14 0.21
81 12 0.18
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (81 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTGAACCCGGATATAGTAACTTAGCACAAAAGCCTTCG
AGACTTAGCCCGGAAT
Found at i:58910640 original size:40 final size:40
Alignment explanation
Indices: 58910585--58910808 Score: 290
Period size: 40 Copynumber: 5.5 Consensus size: 40
58910575 TATTCGGATG
58910585 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
58910625 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* *
58910668 AT-TCCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAT-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
58910708 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
58910748 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
58910788 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58910809 ATACTTGGGT
Statistics
Matches: 166, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 2 0.01
42 1 0.01
43 36 0.22
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:58910728 original size:83 final size:80
Alignment explanation
Indices: 58910585--58910808 Score: 294
Period size: 83 Copynumber: 2.8 Consensus size: 80
58910575 TATTCGGATG
*
58910585 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
**
58910650 TTTGTGCGAGTAGTTG-CT
66 TTCATGC---TAG-TGACT
*
58910668 AT-TCCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATAT-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGC
58910732 ATTCATGCTAGTGACT
65 ATTCATGCTAGTGACT
* * * *
58910748 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
58910809 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
79 16 0.12
80 43 0.33
81 3 0.02
82 1 0.01
83 66 0.51
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGCTAGTGACT
Found at i:58912745 original size:13 final size:13
Alignment explanation
Indices: 58912727--58912752 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58912717 CGAAATCTTA
58912727 ATTATAATAATTT
1 ATTATAATAATTT
58912740 ATTATAATAATTT
1 ATTATAATAATTT
58912753 TGGTAAACTA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:58914033 original size:63 final size:63
Alignment explanation
Indices: 58913944--58914089 Score: 179
Period size: 63 Copynumber: 2.3 Consensus size: 63
58913934 ACTACAATAG
* * * *
58913944 TGAGTGGCTTGGCCATAACT-TCATTGAGTGGCTTGTCCATAATGTGCAGTTTGTCTGCGA-TAT
1 TGAGTGGCTTGGCCACAA-TGTCATTGAGTGGCTTGACCACAATGTGCAGCTTGTCTG-GATTAT
* * * * *
58914007 TGAGTGGCTTGGGCACAATGTTATTGAGTGGTTTGACCACAATGTGTAGCTTGTCTGTATTAT
1 TGAGTGGCTTGGCCACAATGTCATTGAGTGGCTTGACCACAATGTGCAGCTTGTCTGGATTAT
58914070 TGAGTGGCTTGGCCACAATG
1 TGAGTGGCTTGGCCACAATG
58914090 AGGAATGTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
62 2 0.03
63 69 0.97
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.36
Consensus pattern (63 bp):
TGAGTGGCTTGGCCACAATGTCATTGAGTGGCTTGACCACAATGTGCAGCTTGTCTGGATTAT
Found at i:58914036 original size:24 final size:24
Alignment explanation
Indices: 58914004--58914051 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
58913994 TTGTCTGCGA
**
58914004 TATTGAGTGGCTTGGGCACAATGT
1 TATTGAGTGGCTTGACCACAATGT
*
58914028 TATTGAGTGGTTTGACCACAATGT
1 TATTGAGTGGCTTGACCACAATGT
58914052 GTAGCTTGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.35
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAATGT
Found at i:58915236 original size:29 final size:29
Alignment explanation
Indices: 58915203--58915261 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
58915193 GGATCATAAG
58915203 TCTGATGAGTAAGTTCAAATAATTATATT
1 TCTGATGAGTAAGTTCAAATAATTATATT
58915232 TCTGATGAGTAAGTTCAAATAATTATATT
1 TCTGATGAGTAAGTTCAAATAATTATATT
58915261 T
1 T
58915262 AAATTATACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (29 bp):
TCTGATGAGTAAGTTCAAATAATTATATT
Found at i:58915432 original size:13 final size:13
Alignment explanation
Indices: 58915414--58915438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58915404 TTTAAAGATG
58915414 TAAATATTTTTAT
1 TAAATATTTTTAT
58915427 TAAATATTTTTA
1 TAAATATTTTTA
58915439 GAGTCTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:58916709 original size:37 final size:36
Alignment explanation
Indices: 58916661--58916769 Score: 96
Period size: 38 Copynumber: 2.9 Consensus size: 36
58916651 AAAATGGAAT
*
58916661 ACTGAATATACTAAATGTGCTCAAAAGAGCAATGTC
1 ACTGATTATACTAAATGTGCTCAAAAGAGCAATGTC
* * * *
58916697 TATTGATTATACTGAAACT-TTCTCAAACGAGCGGTAT-TC
1 -ACTGATTATACT-AAA-TGTGCTCAAAAGAGC--AATGTC
* *
58916736 ACTGATTATACAAAATGGGCTCAAAAGAGCAATG
1 ACTGATTATACTAAATGTGCTCAAAAGAGCAATG
58916770 CCTACGTGCA
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
35 2 0.04
36 1 0.02
37 23 0.42
38 24 0.44
39 3 0.05
40 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (36 bp):
ACTGATTATACTAAATGTGCTCAAAAGAGCAATGTC
Found at i:58916991 original size:112 final size:111
Alignment explanation
Indices: 58916780--58917023 Score: 317
Period size: 112 Copynumber: 2.2 Consensus size: 111
58916770 CCTACGTGCA
* * * * *
58916780 CAAACAAGCAATATCTACTGGATCTACTGAACATGCTCAAAAGAGCAATGTTTATTGATTATACT
1 CAAACGAGAAATATCTACTGAATCTACTGAACATGCTCAAAAGAGAAATGTTTACTGATTATACT
* *
58916845 GAAAGTTGCTCAAACGAGTGATATCCACTAATTATACTGAATGGGCT
66 GAAAATTGCTCAAACGAGTGATATCCACTAATTATACT-AATAGGCT
* * * * * * *
58916892 CAAATGAGAAATATCTACTTAATGTACTGAACGTTCTTAAAAGAGAAATGTTTACTGATTATATT
1 CAAACGAGAAATATCTACTGAATCTACTGAACATGCTCAAAAGAGAAATGTTTACTGATTATACT
* *
58916957 GAAAATTGCTTAAACGAGTGATATCCACTGATTATACTAATAGGCT
66 GAAAATTGCTCAAACGAGTGATATCCACTAATTATACTAATAGGCT
**
58917003 CAAACGAGTGATATCTACTGA
1 CAAACGAGAAATATCTACTGA
58917024 TTATATGGAA
Statistics
Matches: 112, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
111 24 0.21
112 88 0.79
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (111 bp):
CAAACGAGAAATATCTACTGAATCTACTGAACATGCTCAAAAGAGAAATGTTTACTGATTATACT
GAAAATTGCTCAAACGAGTGATATCCACTAATTATACTAATAGGCT
Found at i:58918607 original size:24 final size:24
Alignment explanation
Indices: 58918580--58918627 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
58918570 AACTTAAGAT
58918580 AGTGTGATATTGATTTATCCAATC
1 AGTGTGATATTGATTTATCCAATC
58918604 AGTGTGATATTGATTTATCCAATC
1 AGTGTGATATTGATTTATCCAATC
58918628 CAACCCATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (24 bp):
AGTGTGATATTGATTTATCCAATC
Found at i:58926676 original size:13 final size:13
Alignment explanation
Indices: 58926658--58926685 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58926648 ATGACTGTGA
58926658 CTTTCCTGTTGAT
1 CTTTCCTGTTGAT
58926671 CTTTCCTGTTGAT
1 CTTTCCTGTTGAT
58926684 CT
1 CT
58926686 AATGTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.25, G:0.14, T:0.54
Consensus pattern (13 bp):
CTTTCCTGTTGAT
Found at i:58930317 original size:20 final size:20
Alignment explanation
Indices: 58930286--58930339 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
58930276 TTTAAGGGCC
58930286 ACACACCCGTGTGGCTTAGG
1 ACACACCCGTGTGGCTTAGG
* * *
58930306 ACACTCCTGTGTGGCTTGGG
1 ACACACCCGTGTGGCTTAGG
58930326 ACACACCCGTGTGG
1 ACACACCCGTGTGG
58930340 GTAGGCCGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.30, G:0.31, T:0.22
Consensus pattern (20 bp):
ACACACCCGTGTGGCTTAGG
Found at i:58931482 original size:42 final size:42
Alignment explanation
Indices: 58931435--58931544 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
58931425 AATCATACCA
* * * **
58931435 ATGCCATATCCTAGATACGGTCTTACATAGGAT-CTTTTATCG
1 ATGCCATATCCCAGATATGGTCTTACA-AGAATCCTCATATCG
* * *
58931477 ATGCCAATAGCCCAGCTATGGTCTTACACGAATCCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAAGAATCCTCATATCG
58931520 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
58931545 TGCGTAATCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 26 0.46
43 30 0.54
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAATCCTCATATCG
Found at i:58939212 original size:27 final size:27
Alignment explanation
Indices: 58939182--58939358 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
58939172 TATTGAGTCT
* * * *
58939182 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
58939209 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
58939236 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
58939264 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
58939291 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
58939318 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
58939345 GCACACTTAGTGCT
1 GCACACTTAGTGCT
58939359 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:58939320 original size:82 final size:81
Alignment explanation
Indices: 58939202--58939357 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58939192 TGCTATATAA
* *
58939202 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
58939267 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
58939284 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
58939348 CACTTAGTGC
65 CACTTAGTGC
58939358 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:58946880 original size:27 final size:27
Alignment explanation
Indices: 58946850--58947027 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
58946840 ATATTGAGTC
* * * *
58946850 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
58946877 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
58946904 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
58946932 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
58946959 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
58946986 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
58947013 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58947028 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:58946989 original size:82 final size:81
Alignment explanation
Indices: 58946871--58947026 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58946861 TGCTATATAA
* *
58946871 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
58946936 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
58946953 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
58947017 CACTTAGTGC
65 CACTTAGTGC
58947027 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:58951472 original size:20 final size:20
Alignment explanation
Indices: 58951423--58951474 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
58951413 TTTAAGGGCC
*
58951423 ACATGCCCATGTGGCTTGGG
1 ACATGCCCGTGTGGCTTGGG
*
58951443 ATATGCCCGTGTGGCTTGGG
1 ACATGCCCGTGTGGCTTGGG
*
58951463 ACATGTCCGTGT
1 ACATGCCCGTGT
58951475 AGGCAGGCCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (20 bp):
ACATGCCCGTGTGGCTTGGG
Found at i:58953142 original size:27 final size:27
Alignment explanation
Indices: 58953104--58953157 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
58953094 TAAATTACAC
58953104 AATATACGTTATCATCTTATGCATATA
1 AATATACGTTATCATCTTATGCATATA
*
58953131 AATATATGTTATCATCTTATGCATATA
1 AATATACGTTATCATCTTATGCATATA
58953158 TAATCATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (27 bp):
AATATACGTTATCATCTTATGCATATA
Found at i:58953712 original size:8 final size:8
Alignment explanation
Indices: 58953692--58953725 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
58953682 TTTTAAAATT
58953692 ATAATA-A
1 ATAATATA
*
58953699 ATAATATT
1 ATAATATA
58953707 ATAATATA
1 ATAATATA
58953715 ATAATATA
1 ATAATATA
58953723 ATA
1 ATA
58953726 TAATGAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:58953717 original size:13 final size:13
Alignment explanation
Indices: 58953689--58953729 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
58953679 AATTTTTAAA
58953689 ATTATAATAAATAAT
1 ATTATAAT--ATAAT
58953704 ATTATAATATAAT
1 ATTATAATATAAT
*
58953717 AATATAATATAAT
1 ATTATAATATAAT
58953730 GAACAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 17 0.68
15 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTATAATATAAT
Found at i:58953738 original size:33 final size:33
Alignment explanation
Indices: 58953691--58953764 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
58953681 TTTTTAAAAT
* * *
58953691 TATAATAAATAATATTATAATATAATAATAT-A-A
1 TATAATGAACAATA-TAT-ATATAATAAAATGATA
*
58953724 TATAATGAACAATATATGTATAATAAAATGATA
1 TATAATGAACAATATATATATAATAAAATGATA
58953757 TATAATGA
1 TATAATGA
58953765 GATGTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 10 0.29
32 4 0.11
33 21 0.60
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (33 bp):
TATAATGAACAATATATATATAATAAAATGATA
Found at i:58955497 original size:44 final size:44
Alignment explanation
Indices: 58955443--58955995 Score: 607
Period size: 44 Copynumber: 12.7 Consensus size: 44
58955433 TATTTTTCAG
* *
58955443 TCTGCTCTCTGACAATACAGAGACGCCAAATCCACCATTTTCGA
1 TCTGCTCTCTGACAATACAGAGACGCCAAATCCACTATCTTCGA
* * *
58955487 TCTACTCTCTGACAATACAGAGACGCCAAATCTACTATTTTCGA
1 TCTGCTCTCTGACAATACAGAGACGCCAAATCCACTATCTTCGA
* *
58955531 TCTACTCTCTGACAATACAGAGACGCCAAATCTA-TCATCTTCGA
1 TCTGCTCTCTGACAATACAGAGACGCCAAATCCACT-ATCTTCGA
* * * *
58955575 TCTGCTCTCT-ATAAATACAGAGAAGCCAAATCTGA-TATCGTCGA
1 TCTGCTCTCTGA-CAATACAGAGACGCCAAATC-CACTATCTTCGA
* * *
58955619 TCTACTCTCTGACAATACAAAGACGCCAAATCTGA-TATCTTCGA
1 TCTGCTCTCTGACAATACAGAGACGCCAAATC-CACTATCTTCGA
* * *
58955663 TCTGCTCTCTGACAATACAGAGATGCCAAATCTACTATTTTCGA
1 TCTGCTCTCTGACAATACAGAGACGCCAAATCCACTATCTTCGA
58955707 TCTGCTCTCTGACAATACAGAGACGCCAAAT-CAGCTATCTTCGA
1 TCTGCTCTCTGACAATACAGAGACGCCAAATCCA-CTATCTTCGA
* *
58955751 TCTACTCTCTGACAATACAGAGACGCCAAATCCGCTATCTTCGA
1 TCTGCTCTCTGACAATACAGAGACGCCAAATCCACTATCTTCGA
*
58955795 TCTGTTCTCTGACAATACAGAGACGCCAAAT-CAGCTATCTTCGA
1 TCTGCTCTCTGACAATACAGAGACGCCAAATCCA-CTATCTTCGA
* *
58955839 TCTGCTCTCTGATAATACAGAGACACCAAAT---C--T-TT-GA
1 TCTGCTCTCTGACAATACAGAGACGCCAAATCCACTATCTTCGA
* ** * *
58955876 TCTGCTTTCT-ATCAATACAGAGAAACCAAATCTGA-TGTCTGT-GA
1 TCTGCTCTCTGA-CAATACAGAGACGCCAAATC-CACTATCT-TCGA
*** *
58955920 TCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTATCTTTGA
1 TCTGCTCTCTGACAATACAGAGACGCCAAATCCACTATCTTCGA
* * *
58955964 TCTGGTCTCTAACAATACAAAGACGCCAAATC
1 TCTGCTCTCTGACAATACAGAGACGCCAAATC
58955996 GGCTATCGGT
Statistics
Matches: 447, Mismatches: 42, Indels: 40
0.84 0.08 0.08
Matches are distributed among these distances:
36 1 0.00
37 28 0.06
38 2 0.00
39 1 0.00
41 1 0.00
42 1 0.00
43 7 0.02
44 401 0.90
45 5 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (44 bp):
TCTGCTCTCTGACAATACAGAGACGCCAAATCCACTATCTTCGA
Found at i:58955881 original size:37 final size:37
Alignment explanation
Indices: 58955831--58955952 Score: 120
Period size: 37 Copynumber: 3.1 Consensus size: 37
58955821 CAAATCAGCT
*
58955831 ATCTTCGATCTGCTCTCTGATAATACAGAGACACCAA
1 ATCTTTGATCTGCTCTCTGATAATACAGAGACACCAA
* *
58955868 ATCTTTGATCTGCTTTCT-ATCAATACAGAGAAACCAA
1 ATCTTTGATCTGCTCTCTGAT-AATACAGAGACACCAA
* *
58955905 ATCTGATGTCTGTGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATC-----T-T-TGATCTGCTCTCTGATAATACAGAGACACCAA
58955949 ATCT
1 ATCT
58955953 GTTATCTTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
36 2 0.03
37 34 0.49
39 1 0.01
42 1 0.01
43 1 0.01
44 29 0.42
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (37 bp):
ATCTTTGATCTGCTCTCTGATAATACAGAGACACCAA
Found at i:58956009 original size:44 final size:44
Alignment explanation
Indices: 58955873--58956010 Score: 132
Period size: 44 Copynumber: 3.1 Consensus size: 44
58955863 ACCAAATCTT
* * * ** * * * *
58955873 TGATCTGCTTTCTATCAATACAGAGAAACCAAATCTGATGTCTG
1 TGATCTGCTCTCTAACAATACAAAGACGCCAAATCGGCTATCGG
* * * * **
58955917 TGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTATCTT
1 TGATCTGCTCTCTAACAATACAAAGACGCCAAATCGGCTATCGG
*
58955961 TGATCTGGTCTCTAACAATACAAAGACGCCAAATCGGCTATCGG
1 TGATCTGCTCTCTAACAATACAAAGACGCCAAATCGGCTATCGG
58956005 TGATCT
1 TGATCT
58956011 ACATTGTCCC
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (44 bp):
TGATCTGCTCTCTAACAATACAAAGACGCCAAATCGGCTATCGG
Found at i:58960635 original size:37 final size:37
Alignment explanation
Indices: 58960585--58960663 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
58960575 TTATTACGAA
* * *
58960585 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
58960622 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
58960659 GTCTT
1 GTCTT
58960664 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:58960860 original size:47 final size:47
Alignment explanation
Indices: 58960784--58961383 Score: 645
Period size: 47 Copynumber: 13.0 Consensus size: 47
58960774 CTTCGGGACT
* * * * * *
58960784 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
58960831 TGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
58960878 TATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
58960927 TATCACACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
58960976 TATCACGTATATACACTTACACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
58961023 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG--C
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
**
58961068 TATC-C--ATAT--A---TCACA-TCATCACATC-G-CATTA-GCTA
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * * * * * *
58961103 TA-CATATACACTTTCACATTCATCA--CATCGGCCATTAGGCC--TA---TC
1 TATCACATATA--TACACTTTCA-CATTCATC--ACA-TCGGCCATTAGGCCC
* *
58961148 -A-CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
58961193 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
58961242 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
58961289 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
58961338 TATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
58961384 TTACTATCAT
Statistics
Matches: 483, Mismatches: 35, Indels: 70
0.82 0.06 0.12
Matches are distributed among these distances:
33 1 0.00
34 6 0.01
35 3 0.01
36 10 0.02
37 7 0.01
39 1 0.00
40 6 0.01
41 5 0.01
42 14 0.03
43 4 0.01
44 16 0.03
45 7 0.01
46 3 0.01
47 216 0.45
48 1 0.00
49 183 0.38
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:58960987 original size:96 final size:96
Alignment explanation
Indices: 58960782--58961383 Score: 815
Period size: 96 Copynumber: 6.5 Consensus size: 96
58960772 CCCTTCGGGA
* * * * * * *
58960782 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAT--
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
58960845 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * **
58960876 CCTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCCTATCACACGTATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
58960941 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58960974 CTTATCACGTATATACACTTACACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
58961037 ACTTTCACATTCATCACATCGGCCATTAGG-
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58961067 C-TATC-C--ATAT--A---TCACA-TCATCACATC-G-CATTA-G--CTAT-ACATATAC----
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
58961112 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58961143 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
58961207 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58961240 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
58961305 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58961336 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
58961384 TTACTATCAT
Statistics
Matches: 454, Mismatches: 25, Indels: 56
0.85 0.05 0.10
Matches are distributed among these distances:
75 30 0.07
76 5 0.01
77 3 0.01
78 3 0.01
79 3 0.01
80 1 0.00
81 9 0.02
82 1 0.00
83 11 0.02
84 4 0.01
86 5 0.01
87 11 0.02
88 1 0.00
89 9 0.02
90 1 0.00
91 1 0.00
92 7 0.02
93 8 0.02
94 44 0.10
96 221 0.49
97 32 0.07
98 44 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58961103 original size:33 final size:37
Alignment explanation
Indices: 58961041--58961155 Score: 130
Period size: 39 Copynumber: 3.0 Consensus size: 37
58961031 ATATACACTT
*
58961041 TCACATTCATCACATCGGCCATTAGGCTATCCATATA
1 TCACATTCATCACATCGGCCATTAGGCTATACATATA
58961078 TCACA-TCATCACATC-G-CATTA-GCTATACATATACA
1 TCACATTCATCACATCGGCCATTAGGCTATACATAT--A
58961113 CTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATA
1 ---TCACATTCATCACATCGGCCATTAGG-CTAT-ACATATA
58961155 T
1 T
58961156 ATACACTTTC
Statistics
Matches: 66, Mismatches: 1, Indels: 20
0.76 0.01 0.23
Matches are distributed among these distances:
33 10 0.15
34 5 0.08
35 2 0.03
36 10 0.15
37 5 0.08
38 5 0.08
39 11 0.17
40 1 0.02
41 5 0.08
42 2 0.03
43 4 0.06
44 6 0.09
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (37 bp):
TCACATTCATCACATCGGCCATTAGGCTATACATATA
Found at i:58961216 original size:49 final size:49
Alignment explanation
Indices: 58961106--58961386 Score: 509
Period size: 49 Copynumber: 5.8 Consensus size: 49
58961096 TTAGCTATAC
58961106 ATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
58961154 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
58961203 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--GT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
58961250 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
58961299 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--AT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
58961346 ATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTA
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
58961387 CTATCATTTC
Statistics
Matches: 227, Mismatches: 3, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
47 88 0.39
48 38 0.17
49 101 0.44
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:58964863 original size:40 final size:41
Alignment explanation
Indices: 58964681--58964956 Score: 241
Period size: 40 Copynumber: 6.9 Consensus size: 41
58964671 CCGAATACAC
* * * * *
58964681 GTCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
58964722 -ACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
58964762 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
58964802 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
58964842 GTAACTCGCACCAATGC-CTTCGGG-CTTAGCCC-GAAATTA
1 GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA-TA
* * * *
58964881 GT-ATCTCGCACAAATGC-CTTC-GGATCTTAGTCCGGATATG
1 GTCA-CTAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATATA
*
58964921 GTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 GTCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCGGA
58964957 CATCATTCGA
Statistics
Matches: 200, Mismatches: 26, Indels: 19
0.82 0.11 0.08
Matches are distributed among these distances:
38 5 0.03
39 28 0.14
40 143 0.71
41 24 0.12
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (41 bp):
GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:58964882 original size:39 final size:40
Alignment explanation
Indices: 58964813--58964954 Score: 139
Period size: 39 Copynumber: 3.5 Consensus size: 40
58964803 CACTAGCATG
* * *
58964813 AATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
1 AATGC-CTTCGGGACTTAGCCCGAAATTAGTAACTCGCACA
*
58964854 AATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACA
* * * * *
58964893 AATGCCTTC-GGATCTTAGTCCG-GATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGAAAT-TAGTAAC-TCGCACA
58964934 AA-GCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
58964955 GACATCATTC
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 34 0.40
40 33 0.39
41 16 0.19
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACA
Found at i:58965301 original size:29 final size:29
Alignment explanation
Indices: 58965262--58965340 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
58965252 CTTAATAATC
* *
58965262 AACCACGCACACTTAGTGCCATGTATTTTA
1 AACC-CGCACACTTAGTGCCATGCATTTCA
*
58965292 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
58965321 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
58965341 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 41 0.93
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:58965383 original size:43 final size:43
Alignment explanation
Indices: 58965322--58965424 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
58965312 TGCATTTCAA
58965322 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
58965365 GCCCGCACACTTAGTGCCAATCTCACAGCCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
58965408 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
58965425 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:58967123 original size:37 final size:37
Alignment explanation
Indices: 58967073--58967151 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
58967063 TTATTACGAA
* * *
58967073 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
58967110 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
58967147 GTCTT
1 GTCTT
58967152 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:58967348 original size:47 final size:47
Alignment explanation
Indices: 58967270--58967894 Score: 998
Period size: 47 Copynumber: 13.1 Consensus size: 47
58967260 CCCTTCGGGA
* * * * * *
58967270 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58967317 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58967364 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58967413 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58967462 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58967509 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58967556 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58967603 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58967650 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58967699 CTTATCACATATATATACACTTTCCCATTCATCACATCGGCCATTACGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58967748 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58967795 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58967844 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58967891 CTTA
1 CTTA
58967895 CTATCATTTC
Statistics
Matches: 549, Mismatches: 23, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
47 316 0.58
49 233 0.42
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58967475 original size:96 final size:96
Alignment explanation
Indices: 58967270--58967894 Score: 1019
Period size: 96 Copynumber: 6.5 Consensus size: 96
58967260 CCCTTCGGGA
* * * * * * * *
58967270 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAT--
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
58967333 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
58967364 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
58967429 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58967462 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--GTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
58967525 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
58967556 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
58967619 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58967650 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
58967715 ACACTTTCCCATTCATCACATCGGCCATTACGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
58967748 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
58967813 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58967844 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
58967895 CTATCATTTC
Statistics
Matches: 500, Mismatches: 23, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
94 144 0.29
96 274 0.55
98 82 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58978320 original size:27 final size:27
Alignment explanation
Indices: 58978282--58978335 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
58978272 TAAATTACAC
58978282 AATATACATTATCATCTTATGCATATA
1 AATATACATTATCATCTTATGCATATA
*
58978309 AATATACGTTATCATCTTATGCATATA
1 AATATACATTATCATCTTATGCATATA
58978336 TAATCATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
AATATACATTATCATCTTATGCATATA
Done.