Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 142 of 214
Found at i:42758060 original size:44 final size:44
Alignment explanation
Indices: 42757947--42758071 Score: 119
Period size: 44 Copynumber: 2.8 Consensus size: 44
42757937 CGATGACCCC
* * **
42757947 AGCCCTATCTCTCTAGACAGTAGTGGAATAGGTTGAAGATTGTA
1 AGCCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATTGTA
* **
42757991 AGCCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGA
1 AGCCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATTGT-A
* ** *
42758036 A-TCCTATCTCTTTAAG-CAACAGTGGAGTAGGTTGAA
1 AGCCCTATCTCCCT-AGTCAACAGTGGAATAGGTTGAA
42758072 AATAGCAGAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 66 0.96
45 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
AGCCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATTGTA
Found at i:42758684 original size:45 final size:44
Alignment explanation
Indices: 42758563--42758905 Score: 146
Period size: 45 Copynumber: 7.8 Consensus size: 44
42758553 GATCGTATCT
42758563 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGTA
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGTA
* * *
42758607 AGCCTTATC-CTCTTGAAGTTGTAGT-GAGGCAGACTGAAG-ATGGTGA
1 AGTCTTATCTC-CTTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGT-A
* * * *
42758653 A-TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAA-TA
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGTA
* * ** *
42758697 ATTC-TATCTAGC-TGAAGTTGCAGTGGAGTGGATTAA--AA-TCA
1 AGTCTTATCT-CCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGT-A
* * * *
42758738 CAGATCTTATCT-CTCTGAAGTTGCAG-AGAGCAGA-T-TG-CA-TCG
1 -AG-TCTTATCTCCT-TGAAGTTGCAGTGGAGCAGACTAAGTAAGT-A
* * * * * * **
42758780 GGTCATATCTTCTTGAAGTTGCAGTGGAGCAAACCCAAGAAAGCG
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGTA
*
42758825 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTCAAG-AAATCA
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-AAGTAAGT-A
* * * * *
42758870 AGTATTATCCCCCTGAAATTGCAGTGG-GTAGACTAA
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAA
42758906 ATAAACAAAT
Statistics
Matches: 230, Mismatches: 42, Indels: 55
0.70 0.13 0.17
Matches are distributed among these distances:
40 21 0.09
41 10 0.04
42 6 0.03
43 14 0.06
44 81 0.35
45 92 0.40
46 5 0.02
47 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGTA
Found at i:42758797 original size:217 final size:217
Alignment explanation
Indices: 42758420--42758810 Score: 629
Period size: 217 Copynumber: 1.8 Consensus size: 217
42758410 GCAATTTAAA
*
42758420 AGACTGAAAATGGCGAATCTTATCTACCTGAAGTTGCAATGGAGTAGATTAAAGCCAATAATCCT
1 AGACTGAAAATGGCGAATCTTATCTACCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAATCCT
** *
42758485 ATCTCTCTAAAGTCGCAGTGGAGCGGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTAGCTAAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* * *
42758550 GCAGATCGTATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGCCTTAT
131 GCAGATCGCATCGAGTCATATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGCCTTAT
42758615 CCTCTTGAAGTTGTAGTGAGGC
196 CCTCTTGAAGTTGTAGTGAGGC
* * * *
42758637 AGACTGAAGATGGTGAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAATTCT
1 AGACTGAAAATGGCGAATCTTATCTACCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAATCCT
* * *
42758702 ATCTAGCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTAGCTAAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* * *
42758767 GCAGATTGCATCGGGTCATATCTTCTTGAAGTTGCAGTGGAGCA
131 GCAGATCGCATCGAGTCATATCTCCTTGAAGTTGCAGTGGAGCA
42758811 AACCCAAGAA
Statistics
Matches: 157, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
217 157 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (217 bp):
AGACTGAAAATGGCGAATCTTATCTACCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAATCCT
ATCTAGCTAAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCGAGTCATATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGCCTTAT
CCTCTTGAAGTTGTAGTGAGGC
Found at i:42758943 original size:217 final size:217
Alignment explanation
Indices: 42758446--42758953 Score: 549
Period size: 217 Copynumber: 2.3 Consensus size: 217
42758436 ATCTTATCTA
* * * * * * * *
42758446 CCTGAAGTTGCAATGGAGTAGATTAAAGCCAATAATCCTATCTCTCTAAAGTCGCAGTGGAGCGG
1 CCTGAAATTGCAATGGAGCAGACTAAAGCAAAAAATCCTATCTCCCTAAAGTTGCAGTGGAGTGG
* * * *
42758511 ATTAAAATCATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGTATCTAGTCTTATCTCCT
66 ATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGAGTCATATCTCCT
* * * * *
42758576 TGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGCCTTATCCTCTTGAAGTTGTAGTGAGGCAGAC
131 TGAAGTTGCAGTGGAGCAAACCAAGAAAGCAAGCCTTATCCTCTTGAAGTTGCAGTGAGGCAGAC
* ** * * *
42758641 TGAAGATGGTGAATCTTATCTC
196 TCAAGATAATCAATATTATCCC
* * * * * ** *
42758663 CCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAATTCTATCTAGCTGAAGTTGCAGTGGAGTGG
1 CCTGAAATTGCAATGGAGCAGACTAAAGCAAAAAATCCTATCTCCCTAAAGTTGCAGTGGAGTGG
* * *
42758728 ATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATCGGGTCATATCTTCT
66 ATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGAGTCATATCTCCT
* *
42758793 TGAAGTTGCAGTGGAGCAAACCCAAGAAAGCGAGTCTTAT-CTCCTTGAAGTTGCAGTG-GAGCA
131 TGAAGTTGCAGTGGAGCAAA-CCAAGAAAGCAAGCCTTATCCT-CTTGAAGTTGCAGTGAG-GCA
42758856 GACTCAAGA-AATCAAGTATTATCCC
193 GACTCAAGATAATCAA-TATTATCCC
* * * * * *
42758881 CCTGAAATTGCAGTGG-GTAGACTAAA-TAAACAAATCCCATCTCCCTAAAGTTGTAATGGAGTG
1 CCTGAAATTGCAATGGAGCAGACTAAAGCAAA-AAATCCTATCTCCCTAAAGTTGCAGTGGAGTG
*
42758944 GATTAGAATC
65 GATTAAAATC
42758954 TCTCTGAAAT
Statistics
Matches: 244, Mismatches: 42, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
216 2 0.01
217 182 0.75
218 60 0.25
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (217 bp):
CCTGAAATTGCAATGGAGCAGACTAAAGCAAAAAATCCTATCTCCCTAAAGTTGCAGTGGAGTGG
ATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGAGTCATATCTCCT
TGAAGTTGCAGTGGAGCAAACCAAGAAAGCAAGCCTTATCCTCTTGAAGTTGCAGTGAGGCAGAC
TCAAGATAATCAATATTATCCC
Found at i:42759474 original size:19 final size:19
Alignment explanation
Indices: 42759450--42759503 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
42759440 AATCTTCAAG
42759450 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42759469 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42759488 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
42759504 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42759529 original size:22 final size:22
Alignment explanation
Indices: 42759450--42759526 Score: 85
Period size: 19 Copynumber: 3.7 Consensus size: 22
42759440 AATCTTCAAG
42759450 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
42759469 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
42759488 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
42759510 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
42759527 GATTTAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 32 0.62
22 8 0.15
23 12 0.23
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:42759749 original size:23 final size:23
Alignment explanation
Indices: 42759705--42759749 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
42759695 TCTTATTTTG
* *
42759705 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
42759728 TTGATTTGTATATGGTTGATTT
1 TTGATTTGTATATAATTGATTT
42759750 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.18, T:0.60
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:42759997 original size:13 final size:13
Alignment explanation
Indices: 42759979--42760016 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
42759969 TCTTGTATCA
*
42759979 TTATTATTATTAT
1 TTATTATTTTTAT
42759992 TTATTATTTTTAT
1 TTATTATTTTTAT
42760005 TT-TTATTTTTAT
1 TTATTATTTTTAT
42760017 ATTCATGCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTATTTTTAT
Found at i:42762181 original size:19 final size:19
Alignment explanation
Indices: 42762157--42762202 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
42762147 TAGATGTAGT
42762157 TATTAAATTGTGATTGCAG
1 TATTAAATTGTGATTGCAG
*
42762176 TATTAAATTGTGATTGTAG
1 TATTAAATTGTGATTGCAG
42762195 TATTAAAT
1 TATTAAAT
42762203 ACGATTCGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (19 bp):
TATTAAATTGTGATTGCAG
Found at i:42763265 original size:25 final size:24
Alignment explanation
Indices: 42763220--42763266 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
42763210 GCTTTTAGAC
* * *
42763220 TAAATTGAATGTTTATGTATATTA
1 TAAATTGAATATGTATATATATTA
42763244 TAAATTCGAATATGTATATATAT
1 TAAATT-GAATATGTATATATAT
42763267 ACGTACAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (24 bp):
TAAATTGAATATGTATATATATTA
Found at i:42763729 original size:42 final size:42
Alignment explanation
Indices: 42763664--42763838 Score: 253
Period size: 42 Copynumber: 4.2 Consensus size: 42
42763654 CCTAGCTTGT
* *
42763664 TGCCAGTGAAAT-CATTCAGACTTTACGTCTAGCAGGCTTAA
1 TGCCGGTGAAATAAATTCAGACTTTACGTCTAGCAGGCTTAA
*
42763705 TGCCGGTGAAATAAATTCAAACTTTACGTCTAGCAGGCTTAA
1 TGCCGGTGAAATAAATTCAGACTTTACGTCTAGCAGGCTTAA
*
42763747 TGCCGGTGAAATAAATTCAGACTTCACGTCTAGCAGGCTTAA
1 TGCCGGTGAAATAAATTCAGACTTTACGTCTAGCAGGCTTAA
** * * *
42763789 TGCTAGTGAAATAAATTCGGACTATAAGTCTAGCAGGCTTAA
1 TGCCGGTGAAATAAATTCAGACTTTACGTCTAGCAGGCTTAA
*
42763831 AGCCGGTG
1 TGCCGGTG
42763839 TACTGAATCA
Statistics
Matches: 119, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 11 0.09
42 108 0.91
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (42 bp):
TGCCGGTGAAATAAATTCAGACTTTACGTCTAGCAGGCTTAA
Found at i:42771912 original size:42 final size:42
Alignment explanation
Indices: 42771856--42772000 Score: 218
Period size: 42 Copynumber: 3.5 Consensus size: 42
42771846 CAGTGAAACC
* *
42771856 ATTCAGACTTTACGTCTAGCAGGCTCAATGCCAGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
*
42771898 ATTCAAACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
* * *
42771940 ATTCAGACTTCACGTTTAGCATGCTTAATGCCGGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
* *
42771982 ATTCAGACTATAAGTCTAG
1 ATTCAGACTTTACGTCTAG
42772001 TCGACTTAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (42 bp):
ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
Found at i:42787451 original size:24 final size:25
Alignment explanation
Indices: 42787389--42787441 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
42787379 ATTATATTTA
*
42787389 TAAT-AAATATATAAAATTAAAAAT
1 TAATAAAATCTATAAAATTAAAAAT
* *
42787413 TATTAAAATCTATAAAATTAAAATT
1 TAATAAAATCTATAAAATTAAAAAT
42787438 TAAT
1 TAAT
42787442 GATACTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
TAATAAAATCTATAAAATTAAAAAT
Found at i:42787574 original size:28 final size:30
Alignment explanation
Indices: 42787525--42787597 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
42787515 ATACTAAATT
* *
42787525 CATATATTACTAATACATAAAATAAT-ATA
1 CATATATAACTATTACATAAAATAATAATA
*
42787554 -ATATATAACTATTAC-TGAAAATATTAATA
1 CATATATAACTATTACAT-AAAATAATAATA
42787583 CATATATAACTATTA
1 CATATATAACTATTA
42787598 TTATAACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 1 0.03
28 20 0.53
29 3 0.08
30 14 0.37
ACGTcount: A:0.52, C:0.10, G:0.01, T:0.37
Consensus pattern (30 bp):
CATATATAACTATTACATAAAATAATAATA
Found at i:42788457 original size:24 final size:26
Alignment explanation
Indices: 42788403--42788458 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
42788393 ATTGTTATCG
*
42788403 TATAAAAATAAAATGAATTATTACAT
1 TATAAAAATAAAATGAATTATAACAT
*
42788429 T-TAAAAATAAAAT-ATTTATAAC-T
1 TATAAAAATAAAATGAATTATAACAT
42788452 TATAAAA
1 TATAAAA
42788459 TTCAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 12 0.44
25 12 0.44
26 1 0.04
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAAAATAAAATGAATTATAACAT
Found at i:42791230 original size:21 final size:22
Alignment explanation
Indices: 42791206--42791246 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
42791196 AGCTATGATC
42791206 AATAAATTTA-TTATAAAAAAT
1 AATAAATTTATTTATAAAAAAT
*
42791227 AATATATTTATTTATAAAAA
1 AATAAATTTATTTATAAAAA
42791247 GTTATGGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAAATTTATTTATAAAAAAT
Found at i:42800045 original size:23 final size:24
Alignment explanation
Indices: 42799992--42800085 Score: 102
Period size: 26 Copynumber: 3.8 Consensus size: 24
42799982 AGCCATGATC
*
42799992 GGTAAGCTCATTCCGAGCTGAAGAAT
1 GGTAAGCTCA-TACGAGCTG-AGAAT
42800018 GGTAAGCTC-TATCGAGCTGA-AAT
1 GGTAAGCTCATA-CGAGCTGAGAAT
* *
42800041 GGTAAGCTCATAAGAGCTGATATATT
1 GGTAAGCTCATACGAGCTGAGA-A-T
42800067 GGTAAGCTCATACGAGCTG
1 GGTAAGCTCATACGAGCTG
42800086 TGGTGAGTCT
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
23 19 0.32
24 5 0.08
25 8 0.13
26 28 0.47
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (24 bp):
GGTAAGCTCATACGAGCTGAGAAT
Found at i:42800051 original size:49 final size:49
Alignment explanation
Indices: 42799992--42800085 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
42799982 AGCCATGATC
**
42799992 GGTAAGCTCATTCCGAGCTGA-AGAATGGTAAGCTC-TATCGAGCTGAAAT
1 GGTAAGCTCA-TAAGAGCTGATAGAATGGTAAGCTCATA-CGAGCTGAAAT
* *
42800041 GGTAAGCTCATAAGAGCTGATATATTGGTAAGCTCATACGAGCTG
1 GGTAAGCTCATAAGAGCTGATAGAATGGTAAGCTCATACGAGCTG
42800086 TGGTGAGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 8 0.21
49 29 0.74
50 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (49 bp):
GGTAAGCTCATAAGAGCTGATAGAATGGTAAGCTCATACGAGCTGAAAT
Found at i:42807921 original size:21 final size:21
Alignment explanation
Indices: 42807894--42807950 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
42807884 TTAACTCTAA
42807894 AAAATATTTAAAAACAATACAT
1 AAAATATTTAAAAA-AATACAT
42807916 -AAATATGTT-AAAAAATACAT
1 AAAATAT-TTAAAAAAATACAT
42807936 AAAAATATTTAAAAA
1 -AAAATATTTAAAAA
42807951 TTCAAAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 7 0.23
21 12 0.39
22 12 0.39
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAATATTTAAAAAAATACAT
Found at i:42808895 original size:19 final size:18
Alignment explanation
Indices: 42808873--42808932 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 18
42808863 TAAAAAATTG
42808873 AAAATGATATAAAGTATAT
1 AAAAT-ATATAAAGTATAT
*
42808892 AAAATTATAAAAAG-ATTAT
1 AAAA-TATATAAAGTA-TAT
*
42808911 AAATATATATAAA-TACAT
1 AAA-ATATATAAAGTATAT
42808929 AAAA
1 AAAA
42808933 AAAATCTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
17 1 0.03
18 6 0.18
19 25 0.74
20 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAATATATAAAGTATAT
Found at i:42816962 original size:15 final size:15
Alignment explanation
Indices: 42816944--42816987 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
42816934 TGTACATGTT
42816944 CATGTTGCACATATC
1 CATGTTGCACATATC
* * *
42816959 CATGTTGTACATGTT
1 CATGTTGCACATATC
*
42816974 CATGTTGCATATAT
1 CATGTTGCACATAT
42816988 TAATCTTGGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (15 bp):
CATGTTGCACATATC
Found at i:42817001 original size:30 final size:30
Alignment explanation
Indices: 42816927--42817003 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
42816917 GCAGTTAGTG
42816927 TCAATCTTGTACATGTTCATGTTGCACATA
1 TCAATCTTGTACATGTTCATGTTGCACATA
* * *
42816957 TCCATGTTGTACATGTTCATGTTGCATATA
1 TCAATCTTGTACATGTTCATGTTGCACATA
* *
42816987 TTAATCTTGGACATGTT
1 TCAATCTTGTACATGTT
42817004 ACTCTTCATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.43
Consensus pattern (30 bp):
TCAATCTTGTACATGTTCATGTTGCACATA
Found at i:42817606 original size:18 final size:17
Alignment explanation
Indices: 42817575--42817619 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
42817565 ATTGATTGAA
42817575 TTAA-ATTTTATATTTT
1 TTAATATTTTATATTTT
*
42817591 TTAATACTTTTTTATTTT
1 TTAATA-TTTTATATTTT
42817609 TTAATATTTTA
1 TTAATATTTTA
42817620 AAATTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
18 16 0.64
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TTAATATTTTATATTTT
Found at i:42821696 original size:15 final size:14
Alignment explanation
Indices: 42821675--42821710 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
42821665 ATAATCCTTA
*
42821675 ATAATTATCTTAAT
1 ATAATTATCCTAAT
42821689 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
42821704 ATAATTA
1 ATAATTA
42821711 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:42824535 original size:16 final size:18
Alignment explanation
Indices: 42824501--42824553 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
42824491 GTTGAATTAG
42824501 ATTTTATATTTTTTAAAT
1 ATTTTATATTTTTTAAAT
42824519 ATTTTATA-TTTTT-AAT
1 ATTTTATATTTTTTAAAT
*
42824535 AATTTAT-TTATTTTAAAT
1 ATTTTATATT-TTTTAAAT
42824553 A
1 A
42824554 GATAAACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 10 0.32
17 9 0.29
18 12 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTATATTTTTTAAAT
Found at i:42828019 original size:45 final size:44
Alignment explanation
Indices: 42827903--42828019 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 44
42827893 CCACTCTGTT
* ** * * *
42827903 GCAACTTCAGGGGGACGAGATTGGTATCTTCAACCTGCTCCCCT
1 GCAACTTCAGGGAGATAAGATTGTTATCTTCAACCTGCTCCACA
* * **
42827947 GCAACTTTAGGGAGATAAGGTTGGTTATCTTCAGTCTGCTCCACA
1 GCAACTTCAGGGAGATAAGATT-GTTATCTTCAACCTGCTCCACA
42827992 GCAACTTCAGGGAGATAAGACTTGTTAT
1 GCAACTTCAGGGAGATAAGA-TTGTTAT
42828020 GGTAGATTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 17 0.29
45 40 0.68
46 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (44 bp):
GCAACTTCAGGGAGATAAGATTGTTATCTTCAACCTGCTCCACA
Found at i:42828318 original size:89 final size:89
Alignment explanation
Indices: 42828186--42828409 Score: 218
Period size: 89 Copynumber: 2.5 Consensus size: 89
42828176 CTGATTAGGG
* * * * * * * *
42828186 AGACAAGATCTACAATCTTCAACCTACTCCACTAC-AACTTCAGGGAAATAAGGTTTGT-TATTT
1 AGACAAGATCTGCTATCTTCAACCTACTCCGCTGCAAAC-TCAGGGAAACAAGATTGGTGT-CTT
* *
42828249 CGATCTGCTTCACTGCCAGCACAGGA
64 CGATCTACTTCACTGCCAACACAGGA
* * ** ** ** *
42828275 AGACAAGATCTGTTATTTTCAGTCTACTTTGCTGCAAACTCAGGGAGGCGAGATTGGTGTCTTCG
1 AGACAAGATCTGCTATCTTCAACCTACTCCGCTGCAAACTCAGGGAAACAAGATTGGTGTCTTCG
* *
42828340 ATCTACTTCGCTGCCAATACAGGA
66 ATCTACTTCACTGCCAACACAGGA
*
42828364 AGACAAGATCTGCTATCTTCAACCTACTCCGCTGCAAACTTAGGGA
1 AGACAAGATCTGCTATCTTCAACCTACTCCGCTGCAAACTCAGGGA
42828410 GGCAAGGCTT
Statistics
Matches: 105, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
89 101 0.96
90 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (89 bp):
AGACAAGATCTGCTATCTTCAACCTACTCCGCTGCAAACTCAGGGAAACAAGATTGGTGTCTTCG
ATCTACTTCACTGCCAACACAGGA
Found at i:42828391 original size:45 final size:46
Alignment explanation
Indices: 42828269--42828403 Score: 132
Period size: 45 Copynumber: 3.0 Consensus size: 46
42828259 CACTGCCAGC
* * * *
42828269 ACAGGAAGACAAGATCTGTTATTTTCAGTCTACTTTGCTGCAAACT
1 ACAGGAAGACAAGATCTGCTATCTTCAATCTACTTCGCTGCAAACT
* * * * * * *
42828315 -CAGGGAGGCGAGAT-TGGTGTCTTCGATCTACTTCGCTGCCAA-T
1 ACAGGAAGACAAGATCTGCTATCTTCAATCTACTTCGCTGCAAACT
* *
42828358 ACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCGCTGCAAACT
1 ACAGGAAGACAAGATCTGCTATCTTCAATCTACTTCGCTGCAAACT
42828404 TAGGGAGGCA
Statistics
Matches: 67, Mismatches: 19, Indels: 6
0.73 0.21 0.07
Matches are distributed among these distances:
43 1 0.01
44 32 0.48
45 33 0.49
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (46 bp):
ACAGGAAGACAAGATCTGCTATCTTCAATCTACTTCGCTGCAAACT
Found at i:42828410 original size:89 final size:89
Alignment explanation
Indices: 42828247--42828412 Score: 233
Period size: 89 Copynumber: 1.9 Consensus size: 89
42828237 GGTTTGTTAT
* * * * ** **
42828247 TTCGATCTGCTTCACTGCCAGCACAGGAAGACAAGATCTGTTATTTTCAGTCTACTTTGCTGCAA
1 TTCGATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCGCTGCAA
42828312 ACTCAGGGAGGCGAGATTGGTGTC
66 ACTCAGGGAGGCGAGATTGGTGTC
* *
42828336 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCGCTGCAA
1 TTCGATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCGCTGCAA
*
42828401 ACTTAGGGAGGC
66 ACTCAGGGAGGC
42828413 AAGGCTTGTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 66 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (89 bp):
TTCGATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCGCTGCAA
ACTCAGGGAGGCGAGATTGGTGTC
Found at i:42830003 original size:1 final size:1
Alignment explanation
Indices: 42829997--42830062 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
42829987 CCGGTAGAGG
* * * * * * * * *
42829997 TTTTTTTTGTTTTTTATTTTCTTGTTTTTTTGTTTTTGTTTTTGTTTTTTGTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
42830062 T
1 T
42830063 CTCCACTCTA
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:42830011 original size:7 final size:7
Alignment explanation
Indices: 42829999--42830060 Score: 83
Period size: 7 Copynumber: 8.9 Consensus size: 7
42829989 GGTAGAGGTT
42829999 TTTTTTG
1 TTTTTTG
*
42830006 TTTTTTA
1 TTTTTTG
42830013 TTTTCTTG
1 TTTT-TTG
42830021 TTTTTT-
1 TTTTTTG
42830027 TGTTTTTG
1 T-TTTTTG
42830035 -TTTTTG
1 TTTTTTG
42830041 TTTTTTG
1 TTTTTTG
42830048 TTTTTTG
1 TTTTTTG
42830055 TTTTTT
1 TTTTTT
42830061 TTCTCCACTC
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
6 7 0.14
7 36 0.73
8 6 0.12
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (7 bp):
TTTTTTG
Found at i:42830032 original size:6 final size:6
Alignment explanation
Indices: 42830000--42830059 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
42829990 GTAGAGGTTT
* *
42830000 TTTTTG TTTTT- TATTTTC TTGTT- TTTTTG TTTTTG TTTTTG TTTTTTG
1 TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG TTTTTG TTTTTG -TTTTTG
42830048 TTTTTTG TTTTT
1 -TTTTTG TTTTT
42830060 TTTCTCCACT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
5 5 0.10
6 29 0.60
7 14 0.29
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:42830041 original size:20 final size:21
Alignment explanation
Indices: 42829999--42830061 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 21
42829989 GGTAGAGGTT
42829999 TTTTTTGTTTTT-TATTTTCTTG
1 TTTTTTGTTTTTGT-TTTT-TTG
42830021 TTTTTTTGTTTTTG--TTTTTG
1 -TTTTTTGTTTTTGTTTTTTTG
42830041 TTTTTTGTTTTTTGTTTTTTT
1 TTTTTTG-TTTTTGTTTTTTT
42830062 TCTCCACTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 7 0.19
20 9 0.25
21 3 0.08
22 5 0.14
23 12 0.33
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.86
Consensus pattern (21 bp):
TTTTTTGTTTTTGTTTTTTTG
Found at i:42832781 original size:24 final size:25
Alignment explanation
Indices: 42832754--42832807 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
42832744 GGTTCTTTTG
*
42832754 TGAATTTTAATGCAAATG-ATGCAA
1 TGAATTGTAATGCAAATGAATGCAA
* * *
42832778 TGAAATGTAATGCAGATGAATGGAA
1 TGAATTGTAATGCAAATGAATGCAA
42832803 TGAAT
1 TGAAT
42832808 ACAAAAAGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.30
Consensus pattern (25 bp):
TGAATTGTAATGCAAATGAATGCAA
Found at i:42837546 original size:24 final size:25
Alignment explanation
Indices: 42837519--42837595 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 25
42837509 TAGGTTAATC
42837519 ATATTTTAATATAATAATTATTAT-
1 ATATTTTAATATAATAATTATTATA
** *
42837543 ATATAATAATAT-ATAATT-TAATA
1 ATATTTTAATATAATAATTATTATA
* * *
42837566 AAATTCTTAATATAATTATTATTAAA
1 ATATT-TTAATATAATAATTATTATA
42837592 ATAT
1 ATAT
42837596 GAATTAATAA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
22 3 0.08
23 9 0.23
24 16 0.41
25 5 0.13
26 6 0.15
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (25 bp):
ATATTTTAATATAATAATTATTATA
Found at i:42847936 original size:15 final size:15
Alignment explanation
Indices: 42847916--42847945 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
42847906 GAAAAGGATG
42847916 ATGCTTGTGAAGTTT
1 ATGCTTGTGAAGTTT
42847931 ATGCTTGTGAAGTTT
1 ATGCTTGTGAAGTTT
42847946 TCCTCATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (15 bp):
ATGCTTGTGAAGTTT
Found at i:42852701 original size:19 final size:19
Alignment explanation
Indices: 42852677--42852723 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
42852667 GCAACTCACC
42852677 CCACTGCCTCGCAGTAGCT
1 CCACTGCCTCGCAGTAGCT
42852696 CCACTGCCTCGCAGTAGCT
1 CCACTGCCTCGCAGTAGCT
42852715 CCACTGCCT
1 CCACTGCCT
42852724 GTAGAGAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.15, C:0.45, G:0.19, T:0.21
Consensus pattern (19 bp):
CCACTGCCTCGCAGTAGCT
Found at i:42854638 original size:30 final size:31
Alignment explanation
Indices: 42854588--42854649 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
42854578 ACGCTCATTA
42854588 TGATATTATTATTATTTATTTACATAGCTAG
1 TGATATTATTATTATTTATTTACATAGCTAG
42854619 TGATATTATTATT-TTTATTTACATAGCTAG
1 TGATATTATTATTATTTATTTACATAGCTAG
42854649 T
1 T
42854650 AAGTGAGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 18 0.58
31 13 0.42
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (31 bp):
TGATATTATTATTATTTATTTACATAGCTAG
Found at i:42873853 original size:26 final size:26
Alignment explanation
Indices: 42873798--42873853 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
42873788 GGCCCGGCCT
* * * *
42873798 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAATA
42873824 ATTTTAAAAATAAAAAAATAAAAAA-A
1 ATTTTAAAAAT-AAAAAATAAAAAATA
42873850 ATTT
1 ATTT
42873854 ATTTTAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
ATTTTAAAAATAAAAAATAAAAAATA
Found at i:42878026 original size:15 final size:15
Alignment explanation
Indices: 42878008--42878049 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
42877998 ATAATAATAC
42878008 TAATAATAATGAGAA
1 TAATAATAATGAGAA
*
42878023 TAAT-ATGAATGATAA
1 TAATAAT-AATGAGAA
*
42878038 TAAAAATAATGA
1 TAATAATAATGA
42878050 ATAATCTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 19 0.83
16 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.29
Consensus pattern (15 bp):
TAATAATAATGAGAA
Found at i:42878570 original size:34 final size:35
Alignment explanation
Indices: 42878526--42878592 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
42878516 CATTAAAATG
*
42878526 TTTTCCGTAAAATAATTT-CTAGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
* * *
42878560 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
42878593 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:42882083 original size:44 final size:44
Alignment explanation
Indices: 42882003--42882158 Score: 161
Period size: 44 Copynumber: 3.5 Consensus size: 44
42881993 TCATTCTAAC
* * * * *
42882003 CCACTGTATCTTCAGGG-GTATAGGAATTATCGCTTCGATCCACT
1 CCACTGCAACTTCAGGGAG-ATAAGACTTATAGCTTCGATCCACT
* * *
42882047 CCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCGATCCATT
1 CCACTGCAACTTCAGGGAGATAAGACTTATAGCTTCGATCCACT
* * ***
42882091 CCACTGTAACTTCAGGGAGATAAGACTTATAGCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTATAGCTTCGATCCACT
* *
42882135 CCGCTGCAACTTCAAGGAGATAAG
1 CCACTGCAACTTCAGGGAGATAAG
42882159 GTTTGTGTCT
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 91 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGACTTATAGCTTCGATCCACT
Found at i:42882275 original size:45 final size:45
Alignment explanation
Indices: 42882212--42882930 Score: 284
Period size: 44 Copynumber: 16.0 Consensus size: 45
42882202 AGTGTGAAGC
** * **
42882212 TTTAATCTGCTCTGCTGCAACTTGAAAAAGATAAGATTTGTTATT
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTTATT
* * * * * ****
42882257 TTTAACCTGCTCCACTGCAATTTTAGGGAGATAAGGTTTG-CGGC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTTATT
*
42882301 TTTAATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTG-TAGCTT
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTTA--TT
* * *
42882347 ATCTTCAATCTACTCCACTGCAATTTCAAGGAGATAAGATTTGTTTTT
1 -T-TT-AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTTATT
* * * * * **
42882395 TTTAA-CTTTCTCCACTACAACTTCAAAGAGATAAGGTTT-ATAGC
1 TTTAATC-TGCTCCACTGCAACTTCAAGGAGATAAGATTTGTTATT
* ** * *
42882439 TTTAATCTACTTTATTGCAACTTC-AGAGAGATAAGATTTGCTATCT
1 TTTAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTTAT-T
* * * * * *
42882485 CTT-ATCTACTCTACTGCAACTTTAGGGATATAAGATTTGTTTATT
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTG-TTATT
* * * **
42882530 TTTAACCTGCTCCACTGCAACTTCAAGAAGATAAGATTT-ATAGC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTTATT
* * * * *
42882574 TTTAATCTGCTCTATTACAACTTC-AGAGAGATAAGATTTGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTTATT
* * * * * * * **
42882619 TCTGATCTACTCCACT-AAAGCTTCAGGGAGATAAGATCT-ATAAC
1 TTTAATCTGCTCCACTGCAA-CTTCAAGGAGATAAGATTTGTTATT
* * * * * * * * **
42882663 TTCAACCTGCCCCACTACAACTTCAGGGAGACAATATTTGTAACC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTTATT
* * * * * * **
42882708 TTCAGTCTGTTCCACTACAACTTTAAGGAGATAAGACTTG-TAAC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTTATT
* * * * * * * * * **
42882752 TTCAACCTGTTCCACTGTAAATT-TAGGAAGATACGGTTT-ATAGC
1 TTTAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTGTTATT
* * * * *
42882796 TTTAATATGCTCTACTGCAACTTC-AGAGAAATAAGATTTGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTTATT
* * * * * * **
42882841 TTCAATCTACTCTACTGCAACTTC-AGAAAGATAAGATCT-ATAAC
1 TTTAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTTATT
* * *
42882885 TTCAATCTGCTCCACTGCAACTT-TAGGTAGATAAGATTTGTAATT
1 TTTAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTGTTATT
42882930 T
1 T
42882931 GTAGCTTTAA
Statistics
Matches: 503, Mismatches: 143, Indels: 56
0.72 0.20 0.08
Matches are distributed among these distances:
43 6 0.01
44 221 0.44
45 198 0.39
46 37 0.07
47 2 0.00
48 4 0.01
49 34 0.07
50 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (45 bp):
TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTTATT
Found at i:42882417 original size:94 final size:93
Alignment explanation
Indices: 42882266--42882440 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 93
42882256 TTTTAACCTG
* * * * *
42882266 CTCCACTGCAATTTTAGGGAGATAAGGTTTGCGGCTTTAATTTGCTCCACTGCAACTTCAAGGAG
1 CTCCACTGCAATTTCAAGGAGATAAGATTTGCGGCTTTAATTTGCTCCACTACAACTTCAAAGAG
*
42882331 ATAAGATTTGTAGCTTATCTTCAATCTA
66 ATAAGATTTATAGCTTATCTTCAATCTA
****
42882359 CTCCACTGCAATTTCAAGGAGATAAGATTTGTTTTTTTTAACTTT-CTCCACTACAACTTCAAAG
1 CTCCACTGCAATTTCAAGGAGATAAGATTTG-CGGCTTTAA-TTTGCTCCACTACAACTTCAAAG
*
42882423 AGATAAGGTTTATAGCTT
64 AGATAAGATTTATAGCTT
42882441 TAATCTACTT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
93 28 0.41
94 38 0.55
95 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (93 bp):
CTCCACTGCAATTTCAAGGAGATAAGATTTGCGGCTTTAATTTGCTCCACTACAACTTCAAAGAG
ATAAGATTTATAGCTTATCTTCAATCTA
Found at i:42882460 original size:44 final size:44
Alignment explanation
Indices: 42882044--42882923 Score: 253
Period size: 44 Copynumber: 19.7 Consensus size: 44
42882034 GCTTCGATCC
* * * * * ** *
42882044 ACTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCGATCC
1 ACTCTACTGCAACTTCAGAGAGATAAGATTTATAGCTTTAATCT
* * * * * * *
42882088 ATTCCACTGTAACTTCAGGGAGATAAGACTTATAGCTTCAATTT
1 ACTCTACTGCAACTTCAGAGAGATAAGATTTATAGCTTTAATCT
* ** * *
42882132 GCTCCGCTGCAACTTCA-AGGAGATAAGGTTTGT-GTCTTCT-ATCT
1 ACTCTACTGCAACTTCAGA-GAGATAAGATTTATAG-CTT-TAATCT
* * * *
42882176 -GTTTCACTACGAAC-TCAGAGAGATAA-AGTGTGA-AGCTTTAATCT
1 ACTCT-ACTGC-AACTTCAGAGAGATAAGA-T-TTATAGCTTTAATCT
* * * * * * ** *
42882220 GCTCTGCTGCAACTTGAAAAAGATAAGATTTGTTATTTTTAACCT
1 ACTCTACTGCAACTTCAGAGAGATAAGATTT-ATAGCTTTAATCT
* * * * * * *** *
42882265 GCTCCACTGCAATTTTAGGGAGATAAGGTTTGCGGCTTTAATTT
1 ACTCTACTGCAACTTCAGAGAGATAAGATTTATAGCTTTAATCT
* * *
42882309 GCTCCACTGCAACTTCA-AGGAGATAAGATTTGTAGCTTATCTTCAATCT
1 ACTCTACTGCAACTTCAGA-GAGATAAGATTTATAGC---T-TT-AATCT
* * * ***
42882358 ACTCCACTGCAATTTCA-AGGAGATAAGATTTGTTTTTTTTAA-CTT
1 ACTCTACTGCAACTTCAGA-GAGATAAGATTT-ATAGCTTTAATC-T
* * * * *
42882403 TCTCCACTACAACTTCAAAGAGATAAGGTTTATAGCTTTAATCT
1 ACTCTACTGCAACTTCAGAGAGATAAGATTTATAGCTTTAATCT
* * * *
42882447 ACTTTATTGCAACTTCAGAGAGATAAGATTTGCTATCTCTT-ATCT
1 ACTCTACTGCAACTTCAGAGAGATAAGATTT-ATAGCT-TTAATCT
* * * * ** *
42882492 ACTCTACTGCAACTTTAGGGATATAAGATTTGTTTATTTTTAACCT
1 ACTCTACTGCAACTTCAGAGAGATAAGA-TT-TATAGCTTTAATCT
* *
42882538 GCTCCACTGCAACTTCA-AGAAGATAAGATTTATAGCTTTAATCT
1 ACTCTACTGCAACTTCAGAG-AGATAAGATTTATAGCTTTAATCT
* * * * * * *
42882582 GCTCTATTACAACTTCAGAGAGATAAGATTTGCTATCTCTGATCT
1 ACTCTACTGCAACTTCAGAGAGATAAGATTT-ATAGCTTTAATCT
* * * * * * *
42882627 ACTCCACT-AAAGCTTCAGGGAGATAAGATCTATAACTTCAACCT
1 ACTCTACTGCAA-CTTCAGAGAGATAAGATTTATAGCTTTAATCT
* * * * * * * * * * *
42882671 GCCCCACTACAACTTCAGGGAGACAATATTTGTAACCTTCAGTCT
1 ACTCTACTGCAACTTCAGAGAGATAAGATTTAT-AGCTTTAATCT
** * * * * * * * *
42882716 GTTCCACTACAACTTTA-AGGAGATAAGACTTGTAACTTCAACCT
1 ACTCTACTGCAACTTCAGA-GAGATAAGATTTATAGCTTTAATCT
** * * * * * * *
42882760 GTTCCACTGTAAATTTAG-GAAGATACGGTTTATAGCTTTAATAT
1 ACTCTACTGCAACTTCAGAG-AGATAAGATTTATAGCTTTAATCT
* * * * *
42882804 GCTCTACTGCAACTTCAGAGAAATAAGATTTGCTATCTTCAATCT
1 ACTCTACTGCAACTTCAGAGAGATAAGATTT-ATAGCTTTAATCT
* * * *
42882849 ACTCTACTGCAACTTCAGAAAGATAAGATCTATAACTTCAATCT
1 ACTCTACTGCAACTTCAGAGAGATAAGATTTATAGCTTTAATCT
* * *
42882893 GCTCCACTGCAACTTTAG-GTAGATAAGATTT
1 ACTCTACTGCAACTTCAGAG-AGATAAGATTT
42882924 GTAATTTGTA
Statistics
Matches: 622, Mismatches: 172, Indels: 84
0.71 0.20 0.10
Matches are distributed among these distances:
43 8 0.01
44 330 0.53
45 210 0.34
46 35 0.06
47 3 0.00
48 2 0.00
49 33 0.05
50 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
ACTCTACTGCAACTTCAGAGAGATAAGATTTATAGCTTTAATCT
Found at i:42882647 original size:135 final size:135
Alignment explanation
Indices: 42882240--42882655 Score: 493
Period size: 135 Copynumber: 3.1 Consensus size: 135
42882230 AACTTGAAAA
* * * * ***
42882240 AGATAAGATTTG-TTATTTTTAACCTGCTCCACTGCAATTTTAGGGAGATAAGGTTTGCGGCTTT
1 AGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCAAGAAGATAAGGTTTATAGCTTT
* * *
42882304 AATTTGCTCCACTGCAACTTCA-AGGAGATAAGATTTGTAGCTTATCT-TCAATCTACTCCACTG
66 AATCTGCTCTATTGCAACTTCAGA-GAGATAAGA-TT-T-GC-TATCTCT-AATCTACTCCACTG
* *
42882367 CAATTTCAAGG
125 CAACTTCAGGG
* * *
42882378 AGATAAGATTTGTTT-TTTTTAACTTTCTCCACTACAACTTCAA-AGAGATAAGGTTTATAGCTT
1 AGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCAAGA-AGATAAGGTTTATAGCTT
* * * *
42882441 TAATCTACTTTATTGCAACTTCAGAGAGATAAGATTTGCTATCTCTTATCTACTCTACTGCAACT
65 TAATCTGCTCTATTGCAACTTCAGAGAGATAAGATTTGCTATCTCTAATCTACTCCACTGCAACT
*
42882506 TTAGGG
130 TCAGGG
* *
42882512 ATATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCAAGAAGATAAGATTTATAGCTTT
1 AGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCAAGAAGATAAGGTTTATAGCTTT
* * *
42882577 AATCTGCTCTATTACAACTTCAGAGAGATAAGATTTGCTATCTCTGATCTACTCCACT-AAAGCT
66 AATCTGCTCTATTGCAACTTCAGAGAGATAAGATTTGCTATCTCTAATCTACTCCACTGCAA-CT
42882641 TCAGGG
130 TCAGGG
42882647 AGATAAGAT
1 AGATAAGAT
42882656 CTATAACTTC
Statistics
Matches: 238, Mismatches: 33, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
134 41 0.17
135 114 0.48
136 2 0.01
137 2 0.01
138 76 0.32
139 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (135 bp):
AGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCAAGAAGATAAGGTTTATAGCTTT
AATCTGCTCTATTGCAACTTCAGAGAGATAAGATTTGCTATCTCTAATCTACTCCACTGCAACTT
CAGGG
Found at i:42882998 original size:140 final size:140
Alignment explanation
Indices: 42882792--42883047 Score: 316
Period size: 140 Copynumber: 1.8 Consensus size: 140
42882782 ATACGGTTTA
* * ** *
42882792 TAGCTTTAATATGCTCTACTGCAACTTCAGAGAAATAAGATTTGCTATCTTCAATCTACTCTACT
1 TAGCTTTAATATACTCTACTGCAAATTCAGAGAAATAAGATTCACTATCTTCAATCTACTCCACT
* * *
42882857 GCAACTTCAGAAAGATAAGA-TCTATAACTTCAATCTGCTCCACTGCAACTTTAGGTAGATAAGA
66 GCAACTTCAGAAAGATAAGACT-TATAACTTCAAACAGCTCCACTACAACTTTAGGTAGATAAGA
42882921 TTTGTAATTTG
130 TTTGTAATTTG
* * * * * **
42882932 TAGCTTTAATCTATTCTACTGCAAATTTAGGGAAATAAGATTCACTATCTTCAGTCTGTTCCACT
1 TAGCTTTAATATACTCTACTGCAAATTCAGAGAAATAAGATTCACTATCTTCAATCTACTCCACT
* *** *
42882997 GCAACTTTAGGGTGATAAGACTTGTAACTTCAAACAGCTCCACTACAACTT
66 GCAACTTCAGAAAGATAAGACTTATAACTTCAAACAGCTCCACTACAACTT
42883048 CAGGGGTATG
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
140 94 0.99
141 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (140 bp):
TAGCTTTAATATACTCTACTGCAAATTCAGAGAAATAAGATTCACTATCTTCAATCTACTCCACT
GCAACTTCAGAAAGATAAGACTTATAACTTCAAACAGCTCCACTACAACTTTAGGTAGATAAGAT
TTGTAATTTG
Found at i:42896327 original size:82 final size:78
Alignment explanation
Indices: 42896169--42896327 Score: 185
Period size: 79 Copynumber: 2.0 Consensus size: 78
42896159 AAATATTAGA
* *
42896169 TAAATAAATATAAAAAGAAATATAATAGAAATAATAATGCAAAACTAATTAATTTAATAATATGA
1 TAAATAAATATAAAAAGAAATATAATAGAAATAATAATACAAAACTAATTAATTTAATAATATAA
* *
42896234 TAATAATAACAAG
66 CAAAAATAACAAG
* * ** *
42896247 TAAATAAATA-AAAAGGAAAATAATAATAGTAATAATAATATTAAATTAATTAATTTAATAATAA
1 TAAATAAATATAAAAAG-AAAT-ATAATAGAAATAATAATACAAAACTAATTAATTTAATAAT--
42896311 AATAACAAAAATAACAA
62 -ATAACAAAAATAACAA
42896328 AAAAAGGGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
77 5 0.07
78 14 0.21
79 35 0.52
82 13 0.19
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (78 bp):
TAAATAAATATAAAAAGAAATATAATAGAAATAATAATACAAAACTAATTAATTTAATAATATAA
CAAAAATAACAAG
Found at i:42899682 original size:18 final size:20
Alignment explanation
Indices: 42899638--42899687 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
42899628 GACTTATCTC
*
42899638 TTTCTTTCTTCTCCCGTTTT
1 TTTCTTTCTTCTCCCGTTCT
42899658 TTCTCTTTCTTCT-CC-TTCT
1 TT-TCTTTCTTCTCCCGTTCT
42899677 TTTCTTTCTTC
1 TTTCTTTCTTC
42899688 CTTTCCTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.32
19 5 0.18
20 4 0.14
21 10 0.36
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTCTTTCTTCTCCCGTTCT
Found at i:42899706 original size:21 final size:22
Alignment explanation
Indices: 42899661--42899715 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
42899651 CCGTTTTTTC
* * *
42899661 TCTTTCTTCTCCTTCTTTTCTT
1 TCTTCCTTCTCCTTCTTGTCCT
42899683 TCTTCCTT-TCCTTCTTGTCCT
1 TCTTCCTTCTCCTTCTTGTCCT
*
42899704 TCTCTTCTTCTC
1 TCT-TCCTTCTC
42899716 TATTAATCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 14 0.52
22 11 0.41
23 2 0.07
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (22 bp):
TCTTCCTTCTCCTTCTTGTCCT
Found at i:42925050 original size:11 final size:10
Alignment explanation
Indices: 42925034--42925060 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
42925024 TTTGCTTCCT
42925034 AAAAAAAAAG
1 AAAAAAAAAG
42925044 AAAAAAAAAG
1 AAAAAAAAAG
42925054 AAAAAAA
1 AAAAAAA
42925061 CTTTGGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:42926098 original size:44 final size:44
Alignment explanation
Indices: 42926035--42926144 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 44
42926025 AAAATTTCAG
*
42926035 ATCTTATCTCCCTGAGATTACAATAGAGCAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAACAGAGCAGATTGAAGATAGTA
* * *
42926079 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAACAGAGCAGATTGAAGATAGTA
* * *
42926123 ATCCTATCTGCCTAAGATTACA
1 ATCTTATCTCCCTGAGATTACA
42926145 GTGGAGTGGA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAACAGAGCAGATTGAAGATAGTA
Found at i:42926145 original size:44 final size:44
Alignment explanation
Indices: 42926039--42926156 Score: 146
Period size: 44 Copynumber: 2.7 Consensus size: 44
42926029 TTTCAGATCT
* *** * *
42926039 TATCTCCCTGAGATTACAATAGAGCAGATTGAAGATAGTAATCT
1 TATCTCCCTAAGATTACAGCGGAGTAGATTGAAGATAGTAATCC
*
42926083 TATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTAATCC
1 TATCTCCCTAAGATTACAGCGGAGTAGATTGAAGATAGTAATCC
* * *
42926127 TATCTGCCTAAGATTACAGTGGAGTGGATT
1 TATCTCCCTAAGATTACAGCGGAGTAGATT
42926157 AAAATAAAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
TATCTCCCTAAGATTACAGCGGAGTAGATTGAAGATAGTAATCC
Found at i:42927189 original size:19 final size:18
Alignment explanation
Indices: 42927161--42927224 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
42927151 TATATATACT
42927161 AAAA-AATATAAAAATAA
1 AAAATAATATAAAAATAA
* *
42927178 CAATATAATATAAACATAA
1 -AAAATAATATAAAAATAA
*
42927197 AAAATATATAAAAAAATAA
1 AAAATA-ATATAAAAATAA
42927216 AAAA-AATAT
1 AAAATAATAT
42927225 TTTTTTTACC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 3 0.08
18 9 0.24
19 26 0.68
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATAATATAAAAATAA
Found at i:42927344 original size:11 final size:12
Alignment explanation
Indices: 42927314--42927345 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
42927304 CCCCCCTCCT
42927314 TTCTCTC-TCCC
1 TTCTCTCTTCCC
42927325 TTCTCTCTTCCC
1 TTCTCTCTTCCC
42927337 -TCTCTCTTC
1 TTCTCTCTTC
42927346 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (12 bp):
TTCTCTCTTCCC
Found at i:42927835 original size:3 final size:3
Alignment explanation
Indices: 42927811--42927878 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
42927801 AATATCCTTG
* * * *
42927811 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA GTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
42927859 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
42927879 GTACGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:42927888 original size:23 final size:23
Alignment explanation
Indices: 42927818--42927889 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
42927808 TTGTTATTTT
* *
42927818 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
42927840 TTAGTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
42927865 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
42927888 TA
1 TA
42927890 CATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 21 0.49
24 14 0.33
25 8 0.19
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:42928246 original size:13 final size:14
Alignment explanation
Indices: 42928216--42928257 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
42928206 TATGTCGTAT
*
42928216 TATTATATTTTA-A
1 TATTATATTATACA
42928229 TATTATATTATACA
1 TATTATATTATACA
42928243 -ATTATA-TATACA
1 TATTATATTATACA
42928255 TAT
1 TAT
42928258 ATCTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 6 0.23
13 19 0.73
14 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTATATTATACA
Found at i:42928284 original size:17 final size:17
Alignment explanation
Indices: 42928228--42928287 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
42928218 TTATATTTTA
42928228 ATAT-TATATTATACAATT
1 ATATATATATTAT-C-ATT
*
42928246 ATATATACATATATC-TT
1 ATATATATAT-TATCATT
*
42928263 TTATATATATTATCATT
1 ATATATATATTATCATT
*
42928280 GTATATAT
1 ATATATAT
42928288 TTTAATATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 4 0.11
17 19 0.54
18 4 0.11
19 5 0.14
20 3 0.09
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (17 bp):
ATATATATATTATCATT
Found at i:42928325 original size:19 final size:18
Alignment explanation
Indices: 42928281--42928340 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 18
42928271 ATTATCATTG
42928281 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
42928299 TAGTTATATTTTACACTATTAT
1 TA--TATATTTTA-A-TATTAT
*
42928321 ATATATTTTTCTAATATTAT
1 -TATATATTT-TAATATTAT
42928341 ATTGTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
20 15 0.43
21 8 0.23
22 8 0.23
23 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:42928783 original size:38 final size:37
Alignment explanation
Indices: 42928699--42928793 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
42928689 TATACGTACT
*
42928699 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
42928737 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
42928773 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
42928794 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:42930359 original size:27 final size:27
Alignment explanation
Indices: 42930300--42930359 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
42930290 GTAAAAGTTA
* * *
42930300 TATATATATATTATATAAAGAAATATG
1 TATATATATACTATATAAAAAAATACG
*
42930327 TATATATATACTATATAAAAAAATGCG
1 TATATATATACTATATAAAAAAATACG
*
42930354 TGTATA
1 TATATA
42930360 AATATAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.38
Consensus pattern (27 bp):
TATATATATACTATATAAAAAAATACG
Found at i:42931515 original size:20 final size:20
Alignment explanation
Indices: 42931492--42931585 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 20
42931482 AAATTGTAAA
42931492 AAATATTGTAAAAAATTATT
1 AAATATTGTAAAAAATTATT
* *
42931512 AAATATTTTTAAAAATATTTTT
1 AAATA-TTGTAAAAA-ATTATT
42931534 AAAT-TT-T-AAAAATTATT
1 AAATATTGTAAAAAATTATT
* * *
42931551 AAAAATTATAAAACATTATTT
1 AAATATTGTAAAAAATTA-TT
42931572 AAA-ATTTGTAAAAA
1 AAATA-TTGTAAAAA
42931586 TCATTAAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.13
18 6 0.10
19 2 0.03
20 15 0.25
21 20 0.33
22 9 0.15
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (20 bp):
AAATATTGTAAAAAATTATT
Found at i:42931529 original size:12 final size:12
Alignment explanation
Indices: 42931512--42931536 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42931502 AAAAATTATT
42931512 AAATATTTTTAA
1 AAATATTTTTAA
42931524 AAATATTTTTAA
1 AAATATTTTTAA
42931536 A
1 A
42931537 TTTTAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATATTTTTAA
Found at i:42931548 original size:39 final size:39
Alignment explanation
Indices: 42931491--42931635 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 39
42931481 AAAATTGTAA
42931491 AAAATATTGTAAAAAATTATTAAATATTTTTAAAAATATTTT
1 AAAAT-TTGT-AAAAATTATTAAA-ATTTTTAAAAATATTTT
* * *
42931533 TAAATTT-TAAAAATTATTAAAAATTATAAAACAT-TATTT
1 AAAATTTGTAAAAATTATTAAAATTTTTAAAA-ATAT-TTT
* * * *
42931572 AAAATTTGTAAAAATCATTAAAATTTTGAAAATTATTTAA
1 AAAATTTGTAAAAATTATTAAAATTTTTAAAAATATTT-T
* *
42931612 AAAAATTGAAAATAATTATTAAAA
1 AAAATTTGTAAA-AATTATTAAAA
42931636 AATTATAAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
38 9 0.11
39 27 0.32
40 32 0.38
41 12 0.14
42 4 0.05
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (39 bp):
AAAATTTGTAAAAATTATTAAAATTTTTAAAAATATTTT
Found at i:42931552 original size:10 final size:10
Alignment explanation
Indices: 42931502--42931653 Score: 93
Period size: 10 Copynumber: 15.0 Consensus size: 10
42931492 AAATATTGTA
42931502 AAAAATTATT
1 AAAAATTATT
* *
42931512 AAATATTTTT
1 AAAAATTATT
42931522 AAAAA-TATTT
1 AAAAATTA-TT
**
42931532 TTAAATT-TT
1 AAAAATTATT
42931541 AAAAATTATT
1 AAAAATTATT
42931551 AAAAATTA-T
1 AAAAATTATT
42931560 AAAACATTATT
1 AAAA-ATTATT
*
42931571 TAAAATT-TGT
1 AAAAATTAT-T
*
42931581 AAAAATCATT
1 AAAAATTATT
42931591 -AAAATT-TT
1 AAAAATTATT
*
42931599 GAAAATTATTT
1 AAAAATTA-TT
*
42931610 AAAAA-AATT
1 AAAAATTATT
42931619 GAAAATAATTATT
1 --AAA-AATTATT
*
42931632 AAAAAATTATAA
1 -AAAAATTAT-T
42931644 AAAAATTATT
1 AAAAATTATT
42931654 TAATTAGAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
8 2 0.02
9 27 0.25
10 42 0.38
11 30 0.27
12 6 0.05
13 3 0.03
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (10 bp):
AAAAATTATT
Found at i:42931584 original size:59 final size:59
Alignment explanation
Indices: 42931491--42931614 Score: 146
Period size: 59 Copynumber: 2.1 Consensus size: 59
42931481 AAAATTGTAA
* * *
42931491 AAAATATTGTAAAAAATTATTAAATATTTTTAAAAAT-ATTTTTAAATTTTAAAAATTA-TT
1 AAAA-ATTATAAAAAATTATTAAATATTTGTAAAAATCA--TTAAAATTTTAAAAATTATTT
* *
42931551 AAAAATTATAAAACATTATTTAAA-ATTTGTAAAAATCATTAAAATTTTGAAAATTATTT
1 AAAAATTATAAAAAATTA-TTAAATATTTGTAAAAATCATTAAAATTTTAAAAATTATTT
42931610 AAAAA
1 AAAAA
42931615 AATTGAAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
58 16 0.29
59 30 0.54
60 10 0.18
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (59 bp):
AAAAATTATAAAAAATTATTAAATATTTGTAAAAATCATTAAAATTTTAAAAATTATTT
Found at i:42931614 original size:20 final size:19
Alignment explanation
Indices: 42931478--42931646 Score: 108
Period size: 19 Copynumber: 8.4 Consensus size: 19
42931468 GGCTTGTACA
* *
42931478 TTAAAAATTGTAAAAAATAT
1 TTAAAAATTATTAAAAAT-T
*
42931498 TGTAAAAAATTATTAAATATTT
1 T-T-AAAAATTATTAAA-AATT
**
42931520 TTAAAAA-TATTTTTAAATT
1 TTAAAAATTA-TTAAAAATT
42931539 TTAAAAATTATTAAAAATT
1 TTAAAAATTATTAAAAATT
* *
42931558 ATAAAACATTATTTAAAATT
1 TTAAAA-ATTATTAAAAATT
*
42931578 TGTAAAAATCATT-AAAATT
1 T-TAAAAATTATTAAAAATT
*
42931597 TTGAAAATTATTTAAAAAAATT
1 TTAAAAATTA-TT--AAAAATT
**
42931619 GAAAATAATTATTAAAAAATT
1 TTAAA-AATTATT-AAAAATT
*
42931640 ATAAAAA
1 TTAAAAA
42931647 AATTATTTAA
Statistics
Matches: 118, Mismatches: 19, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
18 7 0.06
19 33 0.28
20 30 0.25
21 18 0.15
22 23 0.19
23 7 0.06
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (19 bp):
TTAAAAATTATTAAAAATT
Found at i:42931775 original size:20 final size:19
Alignment explanation
Indices: 42931674--42931811 Score: 98
Period size: 20 Copynumber: 6.7 Consensus size: 19
42931664 TTTCATAATT
* **
42931674 TTTTAATAATTATTTACTG
1 TTTTAATAATTTTTTACAA
*
42931693 TTGTTAATAATTTTTAACAAA
1 TT-TTAATAATTTTTTAC-AA
* * *
42931714 TTTAAATGATTTTTTTATAA
1 TTTTAAT-AATTTTTTACAA
42931734 TTTTTAATAATTTTTTTTACAA
1 -TTTTAATAA--TTTTTTACAA
42931756 TTTTAA-AATATTTTTGACAA
1 TTTTAATAAT-TTTTT-ACAA
*
42931776 TATTTAATAATTATTTACAA
1 T-TTTAATAATTTTTTACAA
42931796 TTTTTAATACATTTTT
1 -TTTTAATA-ATTTTT
42931812 AAAATTTTTT
Statistics
Matches: 94, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
18 1 0.01
19 7 0.07
20 38 0.40
21 36 0.38
22 12 0.13
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTAATAATTTTTTACAA
Found at i:42931792 original size:11 final size:10
Alignment explanation
Indices: 42931668--42931841 Score: 84
Period size: 10 Copynumber: 17.0 Consensus size: 10
42931658 TAGAAATTTC
42931668 ATAATTTTTTA
1 ATAA-TTTTTA
42931679 ATAATTATTTA
1 ATAATT-TTTA
* * *
42931690 CT-GTTGTTA
1 ATAATTTTTA
42931699 ATAATTTTTA
1 ATAATTTTTA
* * *
42931709 ACAAATTTAA
1 ATAATTTTTA
* *
42931719 ATGATTTTTTT
1 AT-AATTTTTA
42931730 ATAATTTTTA
1 ATAATTTTTA
*
42931740 ATAATTTTTT
1 ATAATTTTTA
* *
42931750 TTACAATTTTA
1 ATA-ATTTTTA
* *
42931761 AAATATTTTTG
1 ATA-ATTTTTA
* *
42931772 ACAATATTTA
1 ATAATTTTTA
42931782 ATAATTATTT-
1 ATAATT-TTTA
*
42931792 ACAATTTTTA
1 ATAATTTTTA
42931802 ATACATTTTTA
1 ATA-ATTTTTA
*
42931813 A-AATTTTTT
1 ATAATTTTTA
* *
42931822 ACAATTTTAA
1 ATAATTTTTA
*
42931832 ATATTTTTTA
1 ATAATTTTTA
42931842 TAACCTTTTT
Statistics
Matches: 117, Mismatches: 38, Indels: 17
0.68 0.22 0.10
Matches are distributed among these distances:
9 14 0.12
10 64 0.55
11 39 0.33
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.56
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:42931812 original size:20 final size:20
Alignment explanation
Indices: 42931725--42931860 Score: 84
Period size: 20 Copynumber: 6.7 Consensus size: 20
42931715 TTAAATGATT
*
42931725 TTTTTATAATTTTTAATA-A
1 TTTTTACAATTTTTAATACA
* *
42931744 TTTTTTTTACAA-TTTTAAAATA
1 ---TTTTTACAATTTTTAATACA
*
42931766 TTTTTGACAATATTTAATA-A
1 TTTTT-ACAATTTTTAATACA
42931786 TTATTTACAATTTTTAATACA
1 TT-TTTACAATTTTTAATACA
*
42931807 TTTTTAAAATTTTT--TACA
1 TTTTTACAATTTTTAATACA
* * * *
42931825 ATTTTAAATATTTTTTATAACC
1 TTTTTACA-ATTTTTAAT-ACA
42931847 TTTTTACAAATTTT
1 TTTTTAC-AATTTT
42931861 CAACGTGGTC
Statistics
Matches: 94, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
18 11 0.12
19 11 0.12
20 30 0.32
21 20 0.21
22 21 0.22
23 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (20 bp):
TTTTTACAATTTTTAATACA
Found at i:42931823 original size:30 final size:29
Alignment explanation
Indices: 42931784--42931860 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
42931774 AATATTTAAT
*
42931784 AATTATTTACAATTTTTAATACATTTTTAA
1 AATTTTTTACAATTTTTAATA-ATTTTTAA
* *
42931814 AATTTTTTACAATTTTAAATATTTTTTATA
1 AATTTTTTACAATTTTTAATAATTTTTA-A
** *
42931844 ACCTTTTTACAAATTTT
1 AATTTTTTACAATTTTT
42931861 CAACGTGGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 6 0.15
30 33 0.85
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (29 bp):
AATTTTTTACAATTTTTAATAATTTTTAA
Found at i:42931824 original size:18 final size:18
Alignment explanation
Indices: 42931789--42931841 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
42931779 TTAATAATTA
* *
42931789 TTTACAATTTTTAATACATT
1 TTTAAAATTTTT--TACAAT
42931809 TTTAAAATTTTTTACAAT
1 TTTAAAATTTTTTACAAT
42931827 TTTAAATATTTTTTA
1 TTTAAA-ATTTTTTA
42931842 TAACCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 11 0.37
19 8 0.27
20 11 0.37
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAAATTTTTTACAAT
Found at i:42938332 original size:26 final size:26
Alignment explanation
Indices: 42938280--42938347 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
42938270 CTAACAAACA
* *
42938280 AAAAAAAATTTAAGACAAAGGACAAC
1 AAAAAAAATTCAAAACAAAGGACAAC
* * *
42938306 AAAAAAAATTCAAAAGAAATGATAAC
1 AAAAAAAATTCAAAACAAAGGACAAC
*
42938332 AGCAGAAAAATTCAAA
1 A--AAAAAAATTCAAA
42938348 TAAAGAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 22 0.65
28 12 0.35
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.13
Consensus pattern (26 bp):
AAAAAAAATTCAAAACAAAGGACAAC
Found at i:42939720 original size:16 final size:16
Alignment explanation
Indices: 42939699--42939734 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
42939689 AAACGGAAAG
42939699 TATATAGATATACATA
1 TATATAGATATACATA
42939715 TATATAGATATACATA
1 TATATAGATATACATA
42939731 TATA
1 TATA
42939735 AAAAAGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATAGATATACATA
Found at i:42939904 original size:3 final size:3
Alignment explanation
Indices: 42939890--42939921 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
42939880 ATATAATGAG
*
42939890 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
42939922 ATTTGTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:42940654 original size:14 final size:13
Alignment explanation
Indices: 42940625--42940650 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42940615 TACAAAAGTT
42940625 GAAAAAAAGAAAA
1 GAAAAAAAGAAAA
42940638 GAAAAAAAGAAAA
1 GAAAAAAAGAAAA
42940651 AGAACCCCCC
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
GAAAAAAAGAAAA
Found at i:42946954 original size:26 final size:26
Alignment explanation
Indices: 42946922--42946975 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
42946912 ACATAGTTTT
42946922 TATATTAT-TTATAAAGGTTATAATAA
1 TATATTATATTATAAA-GTTATAATAA
*
42946948 TATATTATATTATAAAGTTATTATAA
1 TATATTATATTATAAAGTTATAATAA
42946974 TA
1 TA
42946976 AAAGACAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (26 bp):
TATATTATATTATAAAGTTATAATAA
Found at i:42949566 original size:46 final size:46
Alignment explanation
Indices: 42949499--42949638 Score: 201
Period size: 46 Copynumber: 3.0 Consensus size: 46
42949489 ACAATGCTAT
* * * *
42949499 AACTCAATATGGTTTCCTTCACTGAAATACCATACCTACTTTTCTC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
42949545 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTATTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
42949591 AACTTAGTATGAGTTTT-TTCACTGAAACACTATACCTACTTTTCAC
1 AACTCAGTATG-GTTTTCTTCACTGAAACACCATACCTACTTTTCAC
42949637 AA
1 AA
42949639 TTTTCCATGG
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
46 80 0.94
47 5 0.06
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:42950886 original size:17 final size:17
Alignment explanation
Indices: 42950864--42950911 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
42950854 AAATTCTTTT
42950864 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
42950881 TAAATCACAGAATTCAC
1 TAAATCACAAAATTCAC
*
42950898 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
42950912 TTCTAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:42951171 original size:43 final size:44
Alignment explanation
Indices: 42951067--42951373 Score: 200
Period size: 44 Copynumber: 6.7 Consensus size: 44
42951057 TATGTGTTAT
* * *
42951067 CATGTAAGACCAC-GTCTAGGACGTTGGCATCGTTTTATGATTTG
1 CATGTAAGACC-CTGTCTGGGACGTTGGCATCGTTATATGATTTA
* * *
42951111 CGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATGTGA-TTA
1 CATGTAAGACCCTGTCTGGGAC-GTTGGCATCGTTATATGATTTA
* *
42951154 CATGTAAGACCAC-GTCTGGGACGTTGGCATCGTTTTATGATTTG
1 CATGTAAGACC-CTGTCTGGGACGTTGGCATCGTTATATGATTTA
* * *
42951198 CGTGTAAGACCCTGTCTGGGACAGCATATGTCATGACATAGGATTCCGTTATG-TGTTA
1 CATGTAAGACCCTGTCTGGGAC-G--T-TG----G-CAT-CG-TT---ATATGAT-TTA
* * *
42951256 TCATGTAAGACCAC-GTCTAGGACGTTGGCATCGTTTTATGATTTG
1 -CATGTAAGACC-CTGTCTGGGACGTTGGCATCGTTATATGATTTA
* * *
42951301 CGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATGTGA-TTA
1 CATGTAAGACCCTGTCTGGGAC-GTTGGCATCGTTATATGATTTA
42951344 CATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 CATGTAAGACC-CTGTCTGGGACGTTGGCAT
42951374 TGTACCAACT
Statistics
Matches: 210, Mismatches: 25, Indels: 57
0.72 0.09 0.20
Matches are distributed among these distances:
42 2 0.01
43 64 0.30
44 85 0.40
45 10 0.05
46 1 0.00
47 1 0.00
48 4 0.02
49 1 0.00
50 3 0.01
51 1 0.00
52 1 0.00
53 3 0.01
54 1 0.00
55 4 0.02
56 1 0.00
57 1 0.00
58 8 0.04
59 18 0.09
60 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (44 bp):
CATGTAAGACCCTGTCTGGGACGTTGGCATCGTTATATGATTTA
Found at i:42951203 original size:87 final size:87
Alignment explanation
Indices: 42951057--42951221 Score: 305
Period size: 87 Copynumber: 1.9 Consensus size: 87
42951047 AGGATTCCGT
42951057 TATGTG-TTATCATGTAAGACCACGTCTAGGACGTTGGCATCGTTTTATGATTTGCGTGTAAGAC
1 TATGTGATTA-CATGTAAGACCACGTCTAGGACGTTGGCATCGTTTTATGATTTGCGTGTAAGAC
42951121 CCTGTCTGGGACAGTGGCATCGA
65 CCTGTCTGGGACAGTGGCATCGA
*
42951144 TATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATCGTTTTATGATTTGCGTGTAAGACC
1 TATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCATCGTTTTATGATTTGCGTGTAAGACC
42951209 CTGTCTGGGACAG
66 CTGTCTGGGACAG
42951222 CATATGTCAT
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
87 73 0.96
88 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (87 bp):
TATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCATCGTTTTATGATTTGCGTGTAAGACC
CTGTCTGGGACAGTGGCATCGA
Found at i:42951355 original size:190 final size:190
Alignment explanation
Indices: 42951032--42951373 Score: 684
Period size: 190 Copynumber: 1.8 Consensus size: 190
42951022 TTACAGGATA
42951032 CATATGTCATGACATAGGATTCCGTTATGTGTTATCATGTAAGACCACGTCTAGGACGTTGGCAT
1 CATATGTCATGACATAGGATTCCGTTATGTGTTATCATGTAAGACCACGTCTAGGACGTTGGCAT
42951097 CGTTTTATGATTTGCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAG
66 CGTTTTATGATTTGCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAG
42951162 ACCACGTCTGGGACGTTGGCATCGTTTTATGATTTGCGTGTAAGACCCTGTCTGGGACAG
131 ACCACGTCTGGGACGTTGGCATCGTTTTATGATTTGCGTGTAAGACCCTGTCTGGGACAG
42951222 CATATGTCATGACATAGGATTCCGTTATGTGTTATCATGTAAGACCACGTCTAGGACGTTGGCAT
1 CATATGTCATGACATAGGATTCCGTTATGTGTTATCATGTAAGACCACGTCTAGGACGTTGGCAT
42951287 CGTTTTATGATTTGCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAG
66 CGTTTTATGATTTGCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAG
42951352 ACCACGTCTGGGACGTTGGCAT
131 ACCACGTCTGGGACGTTGGCAT
42951374 TGTACCAACT
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
190 152 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (190 bp):
CATATGTCATGACATAGGATTCCGTTATGTGTTATCATGTAAGACCACGTCTAGGACGTTGGCAT
CGTTTTATGATTTGCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAG
ACCACGTCTGGGACGTTGGCATCGTTTTATGATTTGCGTGTAAGACCCTGTCTGGGACAG
Found at i:42957889 original size:43 final size:43
Alignment explanation
Indices: 42957822--42958092 Score: 276
Period size: 43 Copynumber: 6.3 Consensus size: 43
42957812 TTTTAGACAT
* * * ***
42957822 AAACGCAGCTAAA-AATCATGACTTTTAGCGGCGTTTTTTTCAC
1 AAACGCCGCTAAAGAA-CATGACCTTTAGCGGCGCTTTACCCAC
* * * * **
42957865 AAACACCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* * * *
42957908 AAACGTCGCTATAGAACATGAGCTTTAACGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* *
42957951 AAATGCCGCTAAAGAACATGACCTTTAACGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* *
42957994 AAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTACCCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
** * * * *
42958037 AAATACCGCTAAAGAACGTGATCTTTAGCTGCGCTTTTA-TCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTTACCCAC
42958080 AAACGCCGCTAAA
1 AAACGCCGCTAAA
42958093 AGTACGATTC
Statistics
Matches: 195, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
43 190 0.97
44 5 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
Found at i:42959126 original size:34 final size:34
Alignment explanation
Indices: 42959083--42959151 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
42959073 TTCAAGCAAG
42959083 ACATACACACAATAAGTACTGGAAAATTAAGCCA
1 ACATACACACAATAAGTACTGGAAAATTAAGCCA
42959117 ACATACACACAATAAGTACTGGAAAATTAAGCCA
1 ACATACACACAATAAGTACTGGAAAATTAAGCCA
42959151 A
1 A
42959152 TACTAACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.17
Consensus pattern (34 bp):
ACATACACACAATAAGTACTGGAAAATTAAGCCA
Found at i:42959361 original size:40 final size:40
Alignment explanation
Indices: 42959298--42959382 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
42959288 TAGCTTGAAT
* * *
42959298 ATCAACACTTCAATATTTAATATGTAAGGAATTATCAAAA
1 ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
* *
42959338 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACACAA
1 ATCAACACTTCAAT-ATTTAATATGCAAGAAATTAACAAAA
42959378 ATCAA
1 ATCAA
42959383 TCTTACAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
Found at i:42959576 original size:87 final size:86
Alignment explanation
Indices: 42959448--42959727 Score: 384
Period size: 86 Copynumber: 3.2 Consensus size: 86
42959438 GGCAATAGGG
* * *
42959448 CTAAATCTTCAATTTCTATAACGATTTATATGCAACAAATTAGCAAAAAATCAATGGTTCAAGTT
1 CTAAATTTTCAATTT-TATAACAACTTATATGCAACAAATTAGCAAAAAATCAATGGTTCAAGTT
* * *
42959513 CATGTATTTACCAAAAATCAGA
65 CATGCATTTACCAACAACCAGA
* *
42959535 CTAATTTTTCAATATTTATAACAACTTATATGCAACAAATTAGC-AAAAATAAATGGTTCAAGTT
1 CTAAATTTTCAAT-TTTATAACAACTTATATGCAACAAATTAGCAAAAAATCAATGGTTCAAGTT
*
42959599 CATGCATTTACCAACAAGCAGA
65 CATGCATTTACCAACAACCAGA
* **
42959621 CTAAATTTTCAATTTTTATAACAACTTATGTGCAACAAATTAG-AAAAAATCAACAGTTCAAGTT
1 CTAAATTTTCAA-TTTTATAACAACTTATATGCAACAAATTAGCAAAAAATCAATGGTTCAAGTT
*
42959685 CATGCATTCACCAACAACCAGA
65 CATGCATTTACCAACAACCAGA
*
42959707 CCAAATTTTCAACTTTTATAA
1 CTAAATTTTCAA-TTTTATAA
42959728 AGTAGAAAAA
Statistics
Matches: 173, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
86 133 0.77
87 38 0.22
88 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.32
Consensus pattern (86 bp):
CTAAATTTTCAATTTTATAACAACTTATATGCAACAAATTAGCAAAAAATCAATGGTTCAAGTTC
ATGCATTTACCAACAACCAGA
Found at i:42963444 original size:14 final size:14
Alignment explanation
Indices: 42963352--42963478 Score: 57
Period size: 14 Copynumber: 8.9 Consensus size: 14
42963342 ACATAAATTA
42963352 TAAATCCTT-AACTCC
1 TAAA-CCTTAAAC-CC
42963367 TAAATCC-TAAACCC
1 TAAA-CCTTAAACCC
*
42963381 TAACCCTTAAACCC
1 TAAACCTTAAACCC
* * *
42963395 ATAATCCATAAACCT
1 -TAAACCTTAAACCC
* *
42963410 TAAGA--TAATAACTCT
1 TAA-ACCTTA-AAC-CC
42963425 TAAACCTTAAACCC
1 TAAACCTTAAACCC
* * *
42963439 TAAACCATATATCC
1 TAAACCTTAAACCC
42963453 TAAA-CTATAAACCC
1 TAAACCT-TAAACCC
*
42963467 TAAACCCTAAAC
1 TAAACCTTAAAC
42963479 TATAATGATA
Statistics
Matches: 86, Mismatches: 16, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
13 4 0.05
14 50 0.58
15 30 0.35
16 2 0.02
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:42963463 original size:21 final size:21
Alignment explanation
Indices: 42963425--42963483 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
42963415 TAATAACTCT
* **
42963425 TAAACCTTAAACCCTAAACCA
1 TAAACCCTAAACTATAAACCA
* * *
42963446 TATATCCTAAACTATAAACCC
1 TAAACCCTAAACTATAAACCA
42963467 TAAACCCTAAACTATAA
1 TAAACCCTAAACTATAA
42963484 TGATAATTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCCTAAACTATAAACCA
Found at i:42963567 original size:8 final size:7
Alignment explanation
Indices: 42963529--42963577 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
42963519 CTAGTTACTC
*
42963529 TAAACCT
1 TAAACCA
42963536 TAAACCA
1 TAAACCA
42963543 TAAACC-
1 TAAACCA
*
42963549 TAAACCC
1 TAAACCA
42963556 TAAAACCA
1 T-AAACCA
42963564 TAAACTCA
1 TAAAC-CA
42963572 TAAACC
1 TAAACC
42963578 CTTAACACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 6 0.16
7 18 0.49
8 13 0.35
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCA
Found at i:42963627 original size:7 final size:7
Alignment explanation
Indices: 42963615--42963661 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
42963605 CCCCAGCCTT
42963615 TAAACCA
1 TAAACCA
42963622 TAAACCA
1 TAAACCA
*
42963629 TAAATCA
1 TAAACCA
*
42963636 TAACCCA
1 TAAACCA
42963643 TAAACCCA
1 TAAA-CCA
*
42963651 TAATCCA
1 TAAACCA
42963658 TAAA
1 TAAA
42963662 TCTTAAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:42963698 original size:14 final size:14
Alignment explanation
Indices: 42963679--42963712 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
42963669 ATGGTAACAC
*
42963679 CTAAACCTTAAACT
1 CTAAACCATAAACT
*
42963693 CTAAACCATATACT
1 CTAAACCATAAACT
42963707 CTAAAC
1 CTAAAC
42963713 TAAAAACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
CTAAACCATAAACT
Found at i:42964142 original size:41 final size:41
Alignment explanation
Indices: 42964031--42964261 Score: 222
Period size: 41 Copynumber: 5.8 Consensus size: 41
42964021 AATAGTTTTT
* * **
42964031 GCGGCGCTTTTTCAAAAACGTCGCTAAA-AATAGAGCATT-
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCTAGAGCATTA
* **
42964070 GC-G--TTTTTTCAAAAACGCCGCTAAA-AATAGAGCATTA
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCTAGAGCATTA
* * **
42964107 GAGTCACTTTTTCAAAAACGATGCTAAAGCCTAGAGCATTA
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCTAGAGCATTA
* * * *
42964148 GCGGCACCTTTTCACAAATGCCGCTAAAGCCCAGAGCATTA
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCTAGAGCATTA
* ** *
42964189 GCGGCGCTTTTTCAAAAACGCCGCTAAATTCTCGAGCATTA
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCTAGAGCATTA
* * *
42964230 GTGGCATTTTTTCAAAAACGCCGCTAACGCCT
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCT
42964262 CAAAAAGCTG
Statistics
Matches: 156, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
36 31 0.20
37 1 0.01
38 1 0.01
39 2 0.01
40 19 0.12
41 102 0.65
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
GCGGCACTTTTTCAAAAACGCCGCTAAAGCCTAGAGCATTA
Found at i:42969708 original size:6 final size:6
Alignment explanation
Indices: 42969689--42969745 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
42969679 ATTATTGGGC
* * * * * *
42969689 CATGAT CATAGT CATGGT CACGGT CATGGC CATGAT CACGGT CATGGT
1 CATGGT CATGGT CATGGT CATGGT CATGGT CATGGT CATGGT CATGGT
*
42969737 CATAGT CAT
1 CATGGT CAT
42969746 AGCCATAGCC
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (6 bp):
CATGGT
Found at i:42969722 original size:18 final size:18
Alignment explanation
Indices: 42969701--42969735 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42969691 TGATCATAGT
*
42969701 CATGGTCACGGTCATGGC
1 CATGATCACGGTCATGGC
42969719 CATGATCACGGTCATGG
1 CATGATCACGGTCATGG
42969736 TCATAGTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (18 bp):
CATGATCACGGTCATGGC
Found at i:42969745 original size:30 final size:30
Alignment explanation
Indices: 42969686--42969751 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
42969676 TCTATTATTG
* *
42969686 GGCCATGATCATAGTCATGGTCACGGTCAT
1 GGCCATGATCACAGTCATGGTCACAGTCAT
* *
42969716 GGCCATGATCACGGTCATGGTCATAGTCAT
1 GGCCATGATCACAGTCATGGTCACAGTCAT
*
42969746 AGCCAT
1 GGCCAT
42969752 AGCCATAGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (30 bp):
GGCCATGATCACAGTCATGGTCACAGTCAT
Found at i:42969784 original size:6 final size:6
Alignment explanation
Indices: 42969737--42969771 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
42969727 CGGTCATGGT
*
42969737 CATAGT CATAGC CATAGC CATAGC CATAGC CATAG
1 CATAGC CATAGC CATAGC CATAGC CATAGC CATAG
42969772 TGATCATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (6 bp):
CATAGC
Found at i:42976097 original size:21 final size:21
Alignment explanation
Indices: 42976065--42976105 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
42976055 GAACATTTGG
42976065 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
42976086 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
42976106 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:42982798 original size:18 final size:18
Alignment explanation
Indices: 42982775--42982810 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
42982765 AGACCAATCT
42982775 GTTATTCGAATTATTCGA
1 GTTATTCGAATTATTCGA
* *
42982793 GTTATTTGAGTTATTCGA
1 GTTATTCGAATTATTCGA
42982811 ATTGTAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.47
Consensus pattern (18 bp):
GTTATTCGAATTATTCGA
Found at i:42984835 original size:21 final size:21
Alignment explanation
Indices: 42984800--42984862 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
42984790 CAAATGTGCA
42984800 AGCTCACCAAAGCATGAGAGCG
1 AGCTCACC-AAGCATGAGAGCG
42984822 AGCTCACCAAGCATGAGAGCG
1 AGCTCACCAAGCATGAGAGCG
42984843 AGCTCACCAAGCATGAGAGC
1 AGCTCACCAAGCATGAGAGC
42984863 TTACCTGCGA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 33 0.80
22 8 0.20
ACGTcount: A:0.35, C:0.29, G:0.27, T:0.10
Consensus pattern (21 bp):
AGCTCACCAAGCATGAGAGCG
Found at i:42985100 original size:16 final size:16
Alignment explanation
Indices: 42985079--42985112 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
42985069 AACTATGCAT
*
42985079 CAGTTTTTTAATGAAA
1 CAGTTTTTTAACGAAA
42985095 CAGTTTTTTAACGAAA
1 CAGTTTTTTAACGAAA
42985111 CA
1 CA
42985113 ATTCACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
CAGTTTTTTAACGAAA
Found at i:42986730 original size:4 final size:4
Alignment explanation
Indices: 42986721--42986754 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
42986711 AAGTTTTATT
42986721 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
42986755 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:42986762 original size:22 final size:22
Alignment explanation
Indices: 42986704--42986763 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
42986694 AAGTGGCCCA
*
42986704 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
42986728 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
42986749 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
42986764 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:42990557 original size:4 final size:4
Alignment explanation
Indices: 42990548--42990581 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
42990538 AAGTTTTATT
42990548 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
42990582 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:42990589 original size:22 final size:22
Alignment explanation
Indices: 42990531--42990590 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
42990521 AAGTGGCCCA
*
42990531 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
42990555 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
42990576 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
42990591 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:42996134 original size:34 final size:34
Alignment explanation
Indices: 42996095--42996167 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
42996085 ACTAAGTAGA
42996095 TATAAGCCCTAAACTTCCACCACATAAAGGAGAT
1 TATAAGCCCTAAACTTCCACCACATAAAGGAGAT
42996129 TATAAGCCCTAAACTTCCACCACATAAAGGAGAT
1 TATAAGCCCTAAACTTCCACCACATAAAGGAGAT
*
42996163 AATAA
1 TATAA
42996168 AAAGTAGGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.44, C:0.25, G:0.11, T:0.21
Consensus pattern (34 bp):
TATAAGCCCTAAACTTCCACCACATAAAGGAGAT
Found at i:43001342 original size:9 final size:10
Alignment explanation
Indices: 43001330--43001371 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
43001320 CTTTTCGTTC
43001330 TTTTAATGAT
1 TTTTAATGAT
*
43001340 TTTT-ATAAT
1 TTTTAATGAT
*
43001349 TTTTAATTAT
1 TTTTAATGAT
43001359 TTTTAA-GAT
1 TTTTAATGAT
43001368 TTTT
1 TTTT
43001372 TAAAAGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 14 0.50
10 14 0.50
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (10 bp):
TTTTAATGAT
Found at i:43009663 original size:58 final size:59
Alignment explanation
Indices: 43009594--43009707 Score: 169
Period size: 58 Copynumber: 1.9 Consensus size: 59
43009584 TCTTGAAAGA
* * * *
43009594 ATGTGATACTTGCC-CTCATAAAAGTTTTAACA-AAAATGATCCTGAAATTGAAGACTAG
1 ATGTGAAACTTGCCACT-ATAAAAGCTTTAACAGAAAACGATCCTAAAATTGAAGACTAG
43009652 ATGTGAAACTTGCCACTATAAAAGCTTTAACAGAAAACGATCCTAAAATTGAAGAC
1 ATGTGAAACTTGCCACTATAAAAGCTTTAACAGAAAACGATCCTAAAATTGAAGAC
43009708 AACTATCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 27 0.54
59 23 0.46
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (59 bp):
ATGTGAAACTTGCCACTATAAAAGCTTTAACAGAAAACGATCCTAAAATTGAAGACTAG
Found at i:43010771 original size:6 final size:6
Alignment explanation
Indices: 43010760--43010806 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
43010750 AACCATTGAA
43010760 CATAAG CATAAG CATAAG CATAAG CATAAG CATAAG CATAAG CATAA
1 CATAAG CATAAG CATAAG CATAAG CATAAG CATAAG CATAAG CATAA
43010807 ACAAGAAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (6 bp):
CATAAG
Found at i:43014123 original size:13 final size:13
Alignment explanation
Indices: 43014105--43014133 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
43014095 ACTATTAGTA
43014105 TTTTTTAAAATAT
1 TTTTTTAAAATAT
43014118 TTTTTTAAAATAT
1 TTTTTTAAAATAT
43014131 TTT
1 TTT
43014134 ACCATACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTTAAAATAT
Found at i:43016717 original size:41 final size:41
Alignment explanation
Indices: 43016665--43016770 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 41
43016655 TATTTGCATT
*
43016665 CTGTATCTGATATGGGCCAAGGCCCTAATGTATTTCTGAGA
1 CTGTATCTGATATGGGCCAAGACCCTAATGTATTTCTGAGA
* *
43016706 CTGTATTTGATATGGGCCAAGACCCTAATGTATTTTTGAGA
1 CTGTATCTGATATGGGCCAAGACCCTAATGTATTTCTGAGA
*
43016747 CTGTATCTGA-ATGGGCTAAGACCC
1 CTGTATCTGATATGGGCCAAGACCC
43016771 AAACTAATTC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
40 13 0.22
41 47 0.78
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (41 bp):
CTGTATCTGATATGGGCCAAGACCCTAATGTATTTCTGAGA
Found at i:43019865 original size:34 final size:35
Alignment explanation
Indices: 43019810--43019876 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43019800 CAAACACCAG
*
43019810 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
43019845 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
43019877 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:43020274 original size:15 final size:15
Alignment explanation
Indices: 43020247--43020284 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
43020237 AACATGAATT
43020247 TATTTATTAAAATAA
1 TATTTATTAAAATAA
43020262 TATTT-TTATAAATAA
1 TATTTATTA-AAATAA
*
43020277 TATATATT
1 TATTTATT
43020285 TTAAAAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 15 0.75
16 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTATTAAAATAA
Found at i:43026846 original size:17 final size:15
Alignment explanation
Indices: 43026814--43026862 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 15
43026804 TATATATATC
43026814 AAAAAATATAATAAAAT
1 AAAAAATA-AA-AAAAT
43026831 AATAGAAATAAAAAAAT
1 AA-A-AAATAAAAAAAT
*
43026848 AAAAAAAAAAAAAAT
1 AAAAAATAAAAAAAT
43026863 TTTTTACCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 11 0.38
16 1 0.03
17 9 0.31
18 3 0.10
19 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:43026854 original size:8 final size:8
Alignment explanation
Indices: 43026814--43026862 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
43026804 TATATATATC
43026814 AAAAAATAT
1 AAAAAA-AT
*
43026823 AATAAAAT
1 AAAAAAAT
*
43026831 AATAGAAAT
1 AA-AAAAAT
43026840 AAAAAAAT
1 AAAAAAAT
43026848 AAAAAAA-
1 AAAAAAAT
43026855 AAAAAAAT
1 AAAAAAAT
43026863 TTTTTACCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
7 7 0.21
8 16 0.47
9 11 0.32
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (8 bp):
AAAAAAAT
Found at i:43040246 original size:69 final size:69
Alignment explanation
Indices: 43040126--43040299 Score: 201
Period size: 69 Copynumber: 2.5 Consensus size: 69
43040116 CTTTCCAAGG
* **
43040126 AAAATCAACTCATATTGCGAG-AGATGAATTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
43040189 T-TTAAA
65 TGTT--A
* * *
43040195 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
43040260 GTTT
66 GTTA
* ** *
43040264 TAAATTGACTCATATTGCGAGAAGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
43040300 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
69 86 0.95
70 3 0.03
71 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTA
Found at i:43040439 original size:74 final size:74
Alignment explanation
Indices: 43040317--43041362 Score: 1095
Period size: 74 Copynumber: 13.8 Consensus size: 74
43040307 TTTGTTTTTC
* * *
43040317 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
43040382 GTTGTCAAA
66 GTTTTCAAA
** * *
43040391 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
43040456 GTTTTTC---
66 G-TTTTCAAA
* *
43040463 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
43040528 GTTGTCAAAA
66 GTTTTC-AAA
** * *
43040538 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
43040603 GTTTTTC---
66 G-TTTTCAAA
* * *
43040610 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
43040675 GTTGTCAAA
66 GTTTTCAAA
* **
43040684 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
43040749 GCTTTTCAAG
66 G-TTTTCAAA
* * *
43040759 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* **
43040824 GTTCAATTTATGTTTTTC
66 GTT---TTCA------AA
* **
43040842 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
43040907 GATTTTCAAG
66 G-TTTTCAAA
* * *
43040917 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* **
43040982 GTTCAATTTATGTTTTTC
66 GTT---TTCA------AA
*
43041000 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
***
43041065 GTTTTTTCA
66 GTTTTCAAA
* * * *
43041074 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
**
43041139 ACTTTCAAA
66 GTTTTCAAA
* * * * *
43041148 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCACTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-ATTTTCAAT
***
43041211 TTCTGTTTTTATGTCTGTTTTC
62 TTCTG---TT-T-TC----AAA
* * * * *
43041233 TAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
**
43041298 G-TTT-GGA
66 GTTTTCAAA
* * *
43041305 AAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
43041363 CGATTCTATT
Statistics
Matches: 836, Mismatches: 92, Indels: 90
0.82 0.09 0.09
Matches are distributed among these distances:
71 8 0.01
72 174 0.21
73 3 0.00
74 229 0.27
75 202 0.24
76 15 0.02
77 7 0.01
78 1 0.00
79 2 0.00
80 4 0.00
81 5 0.01
83 140 0.17
84 4 0.00
85 38 0.05
86 4 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTCAAA
Found at i:43040881 original size:83 final size:80
Alignment explanation
Indices: 43040759--43041453 Score: 545
Period size: 83 Copynumber: 8.8 Consensus size: 80
43040749 GCTTTTCAAG
* *
43040759 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCCT
43040824 GTTCAATTTATGTTTTTC
66 GTTC--TTTATG-TTTTC
* ** *
43040842 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCCT
* *
43040907 GATT-TTCAAG-----
66 G-TTCTTTATGTTTTC
* *
43040917 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCCT
43040982 GTTCAATTTATGTTTTTC
66 GTTC--TTTATG-TTTTC
*
43041000 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA----T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCCT
*
43041061 -TTCTGT-T-TTTTC
66 GTTCTTTATGTTTTC
* * *
43041073 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT-
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC-AATTC
* **
43041137 C--TACTTTCA-----AA
64 CTGTTCTTT-ATGTTTTC
* * * * *
43041148 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCACTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-ATTTTCAAT
*
43041211 TTCTGTT-TTTATGTCTGTTTTC
62 TCCTGTTCTTTA----TGTTTTC
* * * * *
43041233 TAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCCT
**
43041298 G----TT-TG---GA
66 GTTCTTTATGTTTTC
* * * *
43041305 AAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCGATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT-CAATTC-
* *
43041370 ATTTTTCAATTTATGTTTTC
64 -CTGTTC--TTTATGTTTTC
* * * * * *
43041390 AAAAATCAATTCATATTGCTAGAGGTGAATGGAGCCTCAGGTCATACGCCGAGGTATTTTCAAT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAAT
43041454 AGATGTTTTT
Statistics
Matches: 499, Mismatches: 62, Indels: 98
0.76 0.09 0.15
Matches are distributed among these distances:
72 50 0.10
73 12 0.02
74 96 0.19
75 76 0.15
76 9 0.02
77 11 0.02
78 4 0.01
79 1 0.00
80 2 0.00
81 6 0.01
82 2 0.00
83 133 0.27
84 4 0.01
85 38 0.08
86 38 0.08
87 3 0.01
88 14 0.03
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (80 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTCCT
GTTCTTTATGTTTTC
Found at i:43040897 original size:158 final size:158
Alignment explanation
Indices: 43040684--43041133 Score: 778
Period size: 158 Copynumber: 2.9 Consensus size: 158
43040674 TGTTGTCAAA
43040684 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
*
43040749 GCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
66 GATTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
43040814 TTCAATTCCTGTTCAATTTATGTTTTTC
131 TTCAATTCCTGTTCAATTTATGTTTTTC
43040842 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
43040907 GATTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
66 GATTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
43040972 TTCAATTCCTGTTCAATTTATGTTTTTC
131 TTCAATTCCTGTTCAATTTATGTTTTTC
* ** *
43041000 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
* ** * **
43041065 GTTTTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTAT
66 G-ATTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
43041128 TTTCAA
130 TTTCAA
43041134 ATTCTACTTT
Statistics
Matches: 280, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
157 55 0.20
158 220 0.79
159 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (158 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
GATTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
TTCAATTCCTGTTCAATTTATGTTTTTC
Found at i:43041137 original size:158 final size:159
Alignment explanation
Indices: 43040684--43041802 Score: 746
Period size: 158 Copynumber: 6.8 Consensus size: 159
43040674 TGTTGTCAAA
* **
43040684 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* ** *
43040749 G-CTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 GTTTTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAT
43040813 TTTC-AATTCCTGTTCAATTTATGTTTTTC
130 TTTCAAATTCCTGTTCAATTTATGTTTTTC
* **
43040842 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* ** *
43040907 G-ATTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 GTTTTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAT
43040971 TTTC-AATTCCTGTTCAATTTATGTTTTTC
130 TTTCAAATTCCTGTTCAATTTATGTTTTTC
*
43041000 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* *
43041065 GTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATT
66 GTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATT
43041129 TTCAAATTCTACT-TTCAA---A--------
131 TTCAAATTC--CTGTTCAATTTATGTTTTTC
* * * * *
43041148 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCACTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-ATTTTCAAT
*** * *
43041211 TTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCA
62 TTCTG-TTTT-T-TC-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
* **
43041276 CGCTGAGGTATTTTC-AATTACTG------TT-TG----GA
119 CGCTGAGGTATTTTCAAATTCCTGTTCAATTTATGTTTTTC
* * *
43041305 AAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCGATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT-C-A----
* * * * * *
43041370 ATTTTTCAATTTATGTTTTC-AAAAATCAATTCATATTGCTAGAGGTGAATGGAGCCTCAGGTCA
60 A--TTTC--TGT-T-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GA
* * * * ** * *
43041434 TACGCCGAGGTATTTTCAATAGATGT-TTTTTCCAATTCCTGCTTCTC
117 CACGCTGAGGTATTTTC-A-A-AT-TCCTGTT-CAATTTATGTTTTTC
* ** * *
43041481 AAAAAAAATTTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 ----AAAA--TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* * **
43041546 AGTTCTG-CTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCTCAC
60 ATTTCTGTTTTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACAC
* * *
43041610 GCTGAGGTATTTTCAATTTTTCGTTTTTTCAATTTATGCTTTTCAAATTCTACTTTTCC
120 GCTGAGGTATTTTCAA--ATTC--CTGTTCAATTTATG------------T--TTTT-C
* * * * *
43041669 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* ** * * *
43041734 GTGTTTT---AATTTCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTA
66 GTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GACACGCTGAGGTA
43041796 TTTTCAA
129 TTTTCAA
43041803 TTAAGCCTTT
Statistics
Matches: 785, Mismatches: 87, Indels: 159
0.76 0.08 0.15
Matches are distributed among these distances:
147 4 0.01
148 40 0.05
149 2 0.00
150 13 0.02
151 4 0.01
152 1 0.00
153 2 0.00
155 4 0.01
156 6 0.01
157 91 0.12
158 265 0.34
159 67 0.09
160 17 0.02
161 1 0.00
163 5 0.01
164 6 0.01
165 4 0.01
166 2 0.00
169 5 0.01
171 3 0.00
172 7 0.01
173 58 0.07
174 8 0.01
176 1 0.00
177 53 0.07
178 2 0.00
180 5 0.01
181 1 0.00
182 96 0.12
183 4 0.01
184 4 0.01
187 3 0.00
188 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (159 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATT
TTCAAATTCCTGTTCAATTTATGTTTTTC
Done.