Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 103 of 322
Found at i:33509091 original size:40 final size:39
Alignment explanation
Indices: 33508993--33509255 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
33508983 TCCTCGTTCA
* * * *
33508993 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
33509032 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
33509071 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
33509111 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
33509151 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
33509191 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
33509232 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33509256 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:33509215 original size:120 final size:119
Alignment explanation
Indices: 33508993--33509255 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
33508983 TCCTCGTTCA
* * *
33508993 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
33509058 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
33509111 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
33509176 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
33509232 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
33509256 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:33509264 original size:41 final size:41
Alignment explanation
Indices: 33509187--33509264 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
33509177 TTTGTATCTC
* * *
33509187 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
33509228 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
33509265 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:33517041 original size:40 final size:39
Alignment explanation
Indices: 33516943--33517205 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
33516933 TCCTCGTTCA
* * * *
33516943 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
33516982 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
33517021 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
33517061 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
33517101 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
33517141 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
33517182 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33517206 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:33517165 original size:120 final size:119
Alignment explanation
Indices: 33516943--33517205 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
33516933 TCCTCGTTCA
* * *
33516943 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
33517008 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
33517061 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
33517126 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
33517182 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
33517206 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:33517214 original size:41 final size:41
Alignment explanation
Indices: 33517137--33517214 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
33517127 TTTGTATCTC
* * *
33517137 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
33517178 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
33517215 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:33522526 original size:15 final size:15
Alignment explanation
Indices: 33522508--33522536 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33522498 TTTATTTTTC
33522508 TTATATTTTTATGGT
1 TTATATTTTTATGGT
33522523 TTATATTTTTATGG
1 TTATATTTTTATGG
33522537 AATGATTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.66
Consensus pattern (15 bp):
TTATATTTTTATGGT
Found at i:33525560 original size:46 final size:46
Alignment explanation
Indices: 33525510--33525727 Score: 382
Period size: 46 Copynumber: 4.7 Consensus size: 46
33525500 TGGTTGAGCA
*
33525510 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
33525556 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
33525602 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
33525648 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
33525694 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33525728 GGGGCGGGTT
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 169 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:33528520 original size:19 final size:19
Alignment explanation
Indices: 33528493--33528550 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
33528483 ATCAACAAAT
*
33528493 AATTTAAAAATTATAAAAA
1 AATTCAAAAATTATAAAAA
33528512 AATTC-AAAATTAT-AAAA
1 AATTCAAAAATTATAAAAA
33528529 AATTCATAAAATT-TCAAAAA
1 AATTCA-AAAATTAT-AAAAA
33528549 AA
1 AA
33528551 AGAGAAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 9 0.26
18 9 0.26
19 10 0.29
20 6 0.18
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
AATTCAAAAATTATAAAAA
Found at i:33528530 original size:17 final size:18
Alignment explanation
Indices: 33528499--33528534 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
33528489 AAATAATTTA
33528499 AAAATTATAAAAAAATTC
1 AAAATTATAAAAAAATTC
33528517 AAAATTAT-AAAAAATTC
1 AAAATTATAAAAAAATTC
33528534 A
1 A
33528535 TAAAATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATTATAAAAAAATTC
Found at i:33540323 original size:48 final size:48
Alignment explanation
Indices: 33540252--33540543 Score: 403
Period size: 48 Copynumber: 6.1 Consensus size: 48
33540242 TAAAGTACCA
* *
33540252 ATGCCATGTCCTC-GACATGGTCTTACA-T-GAATCCACATATCATCACTG
1 ATGCCATGTCC-CAGACATGGTCTTACACTGGCA--CACATATCATCACCG
**
33540300 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
* *
33540348 ATGCCATGT-CCAGACATGTTCTTACACTGGCACACATATCATCACCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
* **
33540395 ATGCCATGTCCCAGACATGGTCTTACACTGACACACATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
* * *
33540443 ATGCCATGTCCCAGACATGTTCTTACATTGGCACACATATCATCACCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
* *
33540491 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
33540539 ATGCC
1 ATGCC
33540544 TAAACCCTAA
Statistics
Matches: 216, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
47 44 0.20
48 169 0.78
49 1 0.00
50 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
Found at i:33540430 original size:95 final size:96
Alignment explanation
Indices: 33540252--33540543 Score: 457
Period size: 96 Copynumber: 3.1 Consensus size: 96
33540242 TAAAGTACCA
* * **
33540252 ATGCCATGTCCTC-GACATGGTCTTACA-T-GAATCCACATATCATCACTGATGCCATGTCCCAG
1 ATGCCATGTCC-CAGACATGTTCTTACACTGGCA--CACATATCATCACCAATGCCATGTCCCAG
33540314 ACATGGTCTTACACTGGCACACATATCATTGCCG
63 ACATGGTCTTACACTGGCACACATATCATTGCCG
33540348 ATGCCATGT-CCAGACATGTTCTTACACTGGCACACATATCATCACCAATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGTTCTTACACTGGCACACATATCATCACCAATGCCATGTCCCAGACA
*
33540412 TGGTCTTACACTGACACACATATCATTGCCG
66 TGGTCTTACACTGGCACACATATCATTGCCG
*
33540443 ATGCCATGTCCCAGACATGTTCTTACATTGGCACACATATCATCACCAATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGTTCTTACACTGGCACACATATCATCACCAATGCCATGTCCCAGACA
* *
33540508 TGGTCTTACACTGGCACACATATCATCGCTG
66 TGGTCTTACACTGGCACACATATCATTGCCG
33540539 ATGCC
1 ATGCC
33540544 TAAACCCTAA
Statistics
Matches: 183, Mismatches: 9, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
94 1 0.01
95 83 0.45
96 97 0.53
97 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGTTCTTACACTGGCACACATATCATCACCAATGCCATGTCCCAGACA
TGGTCTTACACTGGCACACATATCATTGCCG
Found at i:33545142 original size:59 final size:59
Alignment explanation
Indices: 33545072--33545190 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
33545062 TCTCTCTGAG
33545072 TCAGATTTAGGAACTCTCTTCTATGGGTATCCTCATAACTAGTCCCCACATACTTCCCC
1 TCAGATTTAGGAACTCTCTTCTATGGGTATCCTCATAACTAGTCCCCACATACTTCCCC
33545131 TCAGATTTAGGAACTCTCTTCTATGGGTATCCTCATAACTAGTCCCCACATACTTCCCC
1 TCAGATTTAGGAACTCTCTTCTATGGGTATCCTCATAACTAGTCCCCACATACTTCCCC
33545190 T
1 T
33545191 AGAAAGCAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.33
Consensus pattern (59 bp):
TCAGATTTAGGAACTCTCTTCTATGGGTATCCTCATAACTAGTCCCCACATACTTCCCC
Found at i:33549382 original size:15 final size:15
Alignment explanation
Indices: 33549294--33549382 Score: 76
Period size: 15 Copynumber: 6.0 Consensus size: 15
33549284 CAAAGATAAC
*
33549294 AAGAAACCCGA-ATA
1 AAGAAACCCAAGATA
*
33549308 AAGAAATCCAAGATA
1 AAGAAACCCAAGATA
*
33549323 GAGAAACCCGAA-ATA
1 AAGAAACCC-AAGATA
*
33549338 AAGAAATCC-AGAATA
1 AAGAAACCCAAG-ATA
* * *
33549353 AAGAGATCCAGGATA
1 AAGAAACCCAAGATA
33549368 AAGAAACCCAAGATA
1 AAGAAACCCAAGATA
33549383 CGATACTATG
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
13 1 0.02
14 9 0.15
15 46 0.78
16 3 0.05
ACGTcount: A:0.56, C:0.17, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAAGATA
Found at i:33552020 original size:93 final size:93
Alignment explanation
Indices: 33551909--33552083 Score: 262
Period size: 93 Copynumber: 1.9 Consensus size: 93
33551899 CGCCCATAAG
* * *
33551909 CGAACTCGGACTCAACTCAATGAGCTAGGGCGT-TCGCATCCATAAATGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTAGGACATAT-GCATCCATAAATGAACTCGGACTCAACTC
33551973 AACGAGCTCGAATGCCCAGTTACATCTCA
65 AACGAGCTCGAATGCCCAGTTACATCTCA
* * *
33552002 CGAACTCGGACTCAACTCAACGAGTTCGGACATATGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTAGGACATATGCATCCATAAATGAACTCGGACTCAACTCA
* *
33552067 ACGAGTTCGGATGCCCA
66 ACGAGCTCGAATGCCCA
33552084 AATATCCCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTAGGACATATGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGAATGCCCAGTTACATCTCA
Found at i:33552070 original size:46 final size:45
Alignment explanation
Indices: 33551902--33552077 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
33551892 TGTAACCCGC
* * * *
33551902 CCATAAGCGAACTCGGACTCAACTCAATGAGCTAGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATT-GCAT
** * *
33551948 CCATAAATGAACTCGGACTCAACTCAACGAGCTCGAATGCCCAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCG---G-ACA-TTGCAT
* *
33551998 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATATGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACAT-TGCAT
* *
33552041 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
33552078 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 26 0.24
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTGCAT
Found at i:33552096 original size:46 final size:46
Alignment explanation
Indices: 33551955--33552096 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 46
33551945 CATCCATAAA
* * * *
33551955 TGAACTCGGACTCAACTCAACGAGCTCGAATGCCCAGTTACATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCCAG
* *
33552002 CGAACTCGGACTCAACTCAACGAGTTCGGA----CATATGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--CAG
*
33552048 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCCAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCCAG
33552094 TGA
1 TGA
33552097 CATATCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
41 2 0.03
43 5 0.06
45 1 0.01
46 34 0.44
47 27 0.35
48 4 0.05
50 4 0.05
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCCAG
Found at i:33553581 original size:17 final size:18
Alignment explanation
Indices: 33553549--33553582 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33553539 TGTTGTCTGT
*
33553549 CCGTGTGGGTCCACATGC
1 CCGTGTGGGCCCACATGC
33553567 CCGTGT-GGCCCACATG
1 CCGTGTGGGCCCACATG
33553583 ACCCAATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.35, G:0.32, T:0.21
Consensus pattern (18 bp):
CCGTGTGGGCCCACATGC
Found at i:33554013 original size:15 final size:15
Alignment explanation
Indices: 33553993--33554022 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33553983 CTTTTTTGGC
*
33553993 CGATTTGCTTTCTGT
1 CGATTTGCTCTCTGT
33554008 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
33554023 TTTACCCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:33554379 original size:17 final size:18
Alignment explanation
Indices: 33554347--33554380 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33554337 TGTTGTCTGT
*
33554347 CCGTGTGGGTCCACATGC
1 CCGTGTGGGCCCACATGC
33554365 CCGTGT-GGCCCACATG
1 CCGTGTGGGCCCACATG
33554381 ACCCAATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.35, G:0.32, T:0.21
Consensus pattern (18 bp):
CCGTGTGGGCCCACATGC
Found at i:33561718 original size:17 final size:16
Alignment explanation
Indices: 33561685--33561719 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
33561675 TTTAAAAAGG
*
33561685 TTTTTTATATAGTGAT
1 TTTTTTATATAGCGAT
33561701 TTTTTTATATAAGCGAT
1 TTTTTTATAT-AGCGAT
33561718 TT
1 TT
33561720 ATTAAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (16 bp):
TTTTTTATATAGCGAT
Found at i:33561802 original size:15 final size:15
Alignment explanation
Indices: 33561778--33561808 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33561768 AGGTATTGGG
*
33561778 ACCTCGTTTCTATAA
1 ACCTCATTTCTATAA
33561793 ACCTCATTTCTATAA
1 ACCTCATTTCTATAA
33561808 A
1 A
33561809 TTGAGCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (15 bp):
ACCTCATTTCTATAA
Found at i:33570024 original size:17 final size:17
Alignment explanation
Indices: 33570002--33570038 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
33569992 TCGAGGGTCC
*
33570002 AATCAAGGGACGTTTTA
1 AATCAACGGACGTTTTA
*
33570019 AATCAACGGATGTTTTA
1 AATCAACGGACGTTTTA
33570036 AAT
1 AAT
33570039 TATCTCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (17 bp):
AATCAACGGACGTTTTA
Found at i:33574997 original size:8 final size:8
Alignment explanation
Indices: 33574986--33575010 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33574976 AATAAAAAAA
33574986 ATTAATAT
1 ATTAATAT
33574994 ATTAATAT
1 ATTAATAT
33575002 ATTAATAT
1 ATTAATAT
33575010 A
1 A
33575011 AAAATTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTAATAT
Found at i:33575237 original size:17 final size:17
Alignment explanation
Indices: 33575217--33575260 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
33575207 TTTTAAAGTT
*
33575217 TTTATTTTTTTTATAAA
1 TTTATTTTTTTTAAAAA
*
33575234 TTTATATTTTTTAAAAA
1 TTTATTTTTTTTAAAAA
33575251 TTATATTTTT
1 TT-TATTTTT
33575261 ATGCTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATTTTTTTTAAAAA
Found at i:33575243 original size:16 final size:17
Alignment explanation
Indices: 33575224--33575262 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
33575214 GTTTTTATTT
*
33575224 TTTTTAT-AAATTTATA
1 TTTTTATAAAAATTATA
33575240 TTTTT-TAAAAATTATA
1 TTTTTATAAAAATTATA
33575256 TTTTTAT
1 TTTTTAT
33575263 GCTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.90
17 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTATAAAAATTATA
Found at i:33579002 original size:31 final size:31
Alignment explanation
Indices: 33578964--33579057 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
33578954 GTCAATCAAT
** *
33578964 TGATATATTCTTATGTATATTTTGTATGTTA
1 TGATATATTAGTATGTATATTATGTATGTTA
* *
33578995 TGATATATTAGTATGTTTATTATGTTTGTTA
1 TGATATATTAGTATGTATATTATGTATGTTA
* *
33579026 TGATATATTAGTGTGTATGTTATGATATGTTA
1 TGATATATTAGTATGTATATTATG-TATGTTA
33579058 GTATGTATAG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 47 0.89
32 6 0.11
ACGTcount: A:0.27, C:0.01, G:0.17, T:0.55
Consensus pattern (31 bp):
TGATATATTAGTATGTATATTATGTATGTTA
Found at i:33579047 original size:22 final size:22
Alignment explanation
Indices: 33579015--33579073 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
33579005 GTATGTTTAT
*
33579015 TATGTTTGTTATGATATATTAG
1 TATGTATGTTATGATATATTAG
* *
33579037 TGTGTATGTTATGATATGTTAG
1 TATGTATGTTATGATATATTAG
33579059 TATGTATAG-TATGAT
1 TATGTAT-GTTATGAT
33579074 TTTTTTTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (22 bp):
TATGTATGTTATGATATATTAG
Found at i:33589184 original size:40 final size:40
Alignment explanation
Indices: 33589136--33589725 Score: 1119
Period size: 40 Copynumber: 14.8 Consensus size: 40
33589126 CCACAAGCTC
* * * *
33589136 AATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACG
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA-T
33589177 AA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589216 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
*
33589256 AATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589296 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589336 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589376 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589416 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589456 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589496 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589536 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589576 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589616 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589656 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
33589696 AATTGCCTTCGGGTCTTAGCCCGGATATAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATAT
33589726 TCCAATGCTC
Statistics
Matches: 542, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
39 2 0.00
40 538 0.99
41 2 0.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (40 bp):
AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAT
Found at i:33603782 original size:19 final size:19
Alignment explanation
Indices: 33603754--33603791 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33603744 AAGAAAGGGA
33603754 AAAAAATTTATTTTACTAT
1 AAAAAATTTATTTTACTAT
*
33603773 AAAAATTTTATTTTACTAT
1 AAAAAATTTATTTTACTAT
33603792 TTACAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAAAATTTATTTTACTAT
Found at i:33608297 original size:25 final size:26
Alignment explanation
Indices: 33608258--33608308 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
33608248 GAATTTTTTA
*
33608258 AAATTATTATAATTTTTTAAAAATAT
1 AAATTATTAGAATTTTTTAAAAATAT
*
33608284 AAATT-TTAGAATTTTTTATAAATAT
1 AAATTATTAGAATTTTTTAAAAATAT
33608309 TTTGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
AAATTATTAGAATTTTTTAAAAATAT
Found at i:33608593 original size:85 final size:85
Alignment explanation
Indices: 33608450--33608624 Score: 341
Period size: 85 Copynumber: 2.1 Consensus size: 85
33608440 TCAAATTGTA
33608450 AAATTCAACTTGATTCGAACTAGAAACTCGAATTACTTATTCGAGTTGACTCAAATAACTTGAAT
1 AAATTCAACTTGATTCGAACTAGAAACTCGAATTACTTATTCGAGTTGACTCAAATAACTTGAAT
33608515 AACTTGATTTGATTAACTCG
66 AACTTGATTTGATTAACTCG
*
33608535 AAATTCAACTTGATTCGAACTAGAAACTTGAATTACTTATTCGAGTTGACTCAAATAACTTGAAT
1 AAATTCAACTTGATTCGAACTAGAAACTCGAATTACTTATTCGAGTTGACTCAAATAACTTGAAT
33608600 AACTTGATTTGATTAACTCG
66 AACTTGATTTGATTAACTCG
33608620 AAATT
1 AAATT
33608625 TAATTTTTTT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (85 bp):
AAATTCAACTTGATTCGAACTAGAAACTCGAATTACTTATTCGAGTTGACTCAAATAACTTGAAT
AACTTGATTTGATTAACTCG
Found at i:33609367 original size:12 final size:12
Alignment explanation
Indices: 33609346--33609380 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
33609336 AGACTGACCC
*
33609346 TATTAATTTTTA
1 TATTATTTTTTA
33609358 TATTATTTTTTA
1 TATTATTTTTTA
*
33609370 TATAATTTTTT
1 TATTATTTTTT
33609381 TAAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:33613876 original size:5 final size:5
Alignment explanation
Indices: 33613860--33613904 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
33613850 ACCTAATCTA
* *
33613860 AAAATG AAAAG ATAAG AAAAG ACAAG AGAAAG AAAAG AAAAG AAA
1 AAAA-G AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAA
33613905 CCTAATTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 26 0.76
6 8 0.24
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:33614638 original size:5 final size:5
Alignment explanation
Indices: 33614617--33614680 Score: 94
Period size: 5 Copynumber: 12.6 Consensus size: 5
33614607 TTAAGATTTT
*
33614617 TATTA TAATA TATTA T-TATA TTATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TAT-TA -TATTA TATTA TATTA TATTA TATTA TATTA
33614668 TATTA TATTA TAT
1 TATTA TATTA TAT
33614681 ATAAAACAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
4 1 0.02
5 49 0.91
6 3 0.06
7 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:33621518 original size:13 final size:13
Alignment explanation
Indices: 33621485--33621539 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
33621475 TAGCCTATTC
33621485 TAAATTAAT-AAAA
1 TAAA-TAATAAAAA
33621498 TAAA-AATAAAAA
1 TAAATAATAAAAA
*
33621510 TAAATAATAAAAC
1 TAAATAATAAAAA
*
33621523 TAAATAAAACAAAA
1 TAAATAATA-AAAA
33621537 TAA
1 TAA
33621540 TATCTTCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 3 0.08
12 8 0.22
13 19 0.53
14 6 0.17
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:33632297 original size:13 final size:13
Alignment explanation
Indices: 33632258--33632297 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
33632248 TAATTAATAA
*
33632258 AATAAAAATAAAT
1 AATAAAACTAAAT
33632271 AATAAAACT--A-
1 AATAAAACTAAAT
33632281 AATAAAACTAAAT
1 AATAAAACTAAAT
33632294 AATA
1 AATA
33632298 TCTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
10 9 0.39
11 1 0.04
12 1 0.04
13 12 0.52
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAAACTAAAT
Found at i:33633656 original size:106 final size:105
Alignment explanation
Indices: 33633461--33633658 Score: 247
Period size: 106 Copynumber: 1.9 Consensus size: 105
33633451 CCTCGTTCAC
* * * * *
33633461 TTCTCCCATGTCCGTGTATGTATGTCCACCCCGTGTTGTTTTGTAAGTCTTGACCATGAGGAGTG
1 TTCTCCCACGTCCGTGTATGGATGTCCACCCCATGTTATTTTGTAAGTCTTGACCACGAGGAGTG
*
33633526 AACACAGGTGTGTCGCACGACCGTGTTCTGCTTCATTCCT
66 AACACAGGCGTGTCGCACGACCGTGTTCTGCTTCATTCCT
*
33633566 TTCTCCCACG-CCAGTGTATGGATGTCCACGCCCATGTTATTTTGTCAGTCTTGACCACG-GGTA
1 TTCTCCCACGTCC-GTGTATGGATGTCCAC-CCCATGTTATTTTGTAAGTCTTGACCACGAGG-A
* ** * *
33633629 GTGAGCATGGGCGTGTCTCACGTCCGTGTT
63 GTGAACACAGGCGTGTCGCACGACCGTGTT
33633659 GTTTTCTTAG
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
104 2 0.03
105 26 0.33
106 50 0.64
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.33
Consensus pattern (105 bp):
TTCTCCCACGTCCGTGTATGGATGTCCACCCCATGTTATTTTGTAAGTCTTGACCACGAGGAGTG
AACACAGGCGTGTCGCACGACCGTGTTCTGCTTCATTCCT
Found at i:33635873 original size:549 final size:546
Alignment explanation
Indices: 33634776--33636424 Score: 2675
Period size: 549 Copynumber: 3.0 Consensus size: 546
33634766 CATTGGTACT
* *
33634776 AGCCCCTAAATCAGCCAAAGCATTATTAACTTCTAAACTACCAATGACACAAGGAATCGTAAAAC
1 AGCCCTTAAATCAGCCAAAGCATTATTAACTTCTAAACTACCAATTACACAAGGAATCGTAAAAC
* *
33634841 TCCTTAGATCTTTTAATTTGTTGGCCAGCTTATTCTGTAGTATGGCTGAGCAAACTACATTTAAC
66 TCCCTAGATCTTTTAATTTGTTGGCCAGCTTATTCTGTAGTATGGCTGAGCAAACTGCATTTAAC
* * *
33634906 TCCACATGCGACGCCTCATCCAACTTCCGCTTATTTGTTATAAGCTCCTTTAAGAATTTGGCTGT
131 TCAACATGCGACGCCTCATCCAACTTCCGCTTATTTGTTAAAAGCTCCTTTAAGAATTTGGCTGC
*
33634971 GTTTGGCATCTGCGAAAGAGCTTCAATAAACGGTAACTTGATATGTAATTTTTTTAATAATTGAA
196 GTTTGGCATCTGCGAAAGAGCTTCAATAAACGGTAAATTGATATGTAATTTTTTTAATAATTGAA
* *
33635036 GGAATTTACCGAATTGTTC--GT-C-TCTTTCCTTGTTGCATTAGGGTATGGCACTCGTGGTTTG
261 GGAATTTACCGAATTGTTCTTGTGCGTCTTTTCTTGTTGCATTAGGGTATGGCACCCGTGGTTTG
33635097 TACTCTTTACTTACCGGTTGTTGCTCACTGTGGACTACCTCACCTTTACCTTTACTTACCACTAT
326 TACTCTTTACTTACCGGTTGTTGCTCACTGTGGACTACCTCACCTTTACCTTTACTTACCAC-AT
* *
33635162 TCCTTGCCTTGGTTCTGGTTCAAGTTCAACTAACCCTTCCTCATCTTGAATGGTAATTGCATTGA
390 TCCTTGCCTTGGTTCTGGTTCAGGTTCAACTAACCCTTCATCATCTTGAATGGTAATTGCATTGA
* * *
33635227 GCTGTTCCCTTAGGTTAGATTCAATGTTACTTGGCAGGCTACCTTGTGGTCA-TTCAGAAATCAA
455 GCTGTTCCCTTAGGTTAGATTCAGTGTTACTCGGTAGGCTACCTTGTGGT-AGTTCAGAAATCAA
*
33635291 TTTGGTGAGTTGGCCTATCTGAGTTTAG
519 TTTGGTGAGTTGGCCTATCTGAGTTTCG
33635319 AGCCCTTAAATCAGCCAAAGCATTATTAACTTCTAAACTACCAATTACACAAGGAATCGTAAAAC
1 AGCCCTTAAATCAGCCAAAGCATTATTAACTTCTAAACTACCAATTACACAAGGAATCGTAAAAC
* *
33635384 TCCCTAGATCTTTTAATTTGTTGGCCAGCTTATTCTGTAGTATGGCTGAGGAAACTGGATTTAAC
66 TCCCTAGATCTTTTAATTTGTTGGCCAGCTTATTCTGTAGTATGGCTGAGCAAACTGCATTTAAC
* *
33635449 TGAACATGCGACGCCTCATCCAACTTTCGCTTATTTGTTAAAAGCTCCTTTAAGAATTTGGCTGC
131 TCAACATGCGACGCCTCATCCAACTTCCGCTTATTTGTTAAAAGCTCCTTTAAGAATTTGGCTGC
* * *
33635514 GTTTGGCATCTGCAAAAGAGCTTCAATAAACGGTAAGTTGATATGT-ATTTTTTTAATAATTAAA
196 GTTTGGCATCTGCGAAAGAGCTTCAATAAACGGTAAATTGATATGTAATTTTTTTAATAATTGAA
* * * *
33635578 GGAATTTATCAAATTGTTCGTATGTGCAGTCTTTTCTTGTCGCATTAGGGTATGACACCCGTGGT
261 GGAATTTACCGAATTGTTC-T-TGTGC-GTCTTTTCTTGTTGCATTAGGGTATGGCACCCGTGGT
*
33635643 TTGTACTCTTTACTTACCGGTTGTTGCTCACTGTGGACTACCTCACCTTTACCTTTACTTACAAT
323 TTGTACTCTTTACTTACCGGTTGTTGCTCACTGTGGACTACCTCACCTTTACCTTTACTTACCA-
* *
33635708 CGTTCCTTGCCTTGGTTTTGGTTCAGGTTCAACTAACCCTTCATCATCTTGAATGGTAATTGCAT
387 CATTCCTTGCCTTGGTTCTGGTTCAGGTTCAACTAACCCTTCATCATCTTGAATGGTAATTGCAT
* * *
33635773 TGAGCTATTCCCTTAGGTTAGATTTAGTGTTACTCGGTAGGCTACCTTGTGGTAGTTTAGAAATC
452 TGAGCTGTTCCCTTAGGTTAGATTCAGTGTTACTCGGTAGGCTACCTTGTGGTAGTTCAGAAATC
33635838 AATTTGGTGAGTTGGCCTATCTGAGTTTCG
517 AATTTGGTGAGTTGGCCTATCTGAGTTTCG
* *
33635868 AGCCCTTAAATCAGCCAAAGCATTATTAACATCTAAACTACCAATTACATAAGGAATCGTAAAAC
1 AGCCCTTAAATCAGCCAAAGCATTATTAACTTCTAAACTACCAATTACACAAGGAATCGTAAAAC
*
33635933 TCCCTAGATCTTTTAATTTGTTGGCCAGCTTATTCTGTAGTATGGTTGAGCAAACTGCATTTAAC
66 TCCCTAGATCTTTTAATTTGTTGGCCAGCTTATTCTGTAGTATGGCTGAGCAAACTGCATTTAAC
33635998 TCAACATGCGACGCCTCATCCAACTTCCGCTTATTTGTTAAAAGCTCCTTTAAGAATTTGGCTGC
131 TCAACATGCGACGCCTCATCCAACTTCCGCTTATTTGTTAAAAGCTCCTTTAAGAATTTGGCTGC
* *
33636063 ATTTGGCATCTGCGAAAGAGCTTCAATAAATGGTAAATTGATATGTAATTTTTTTAATAATTGAA
196 GTTTGGCATCTGCGAAAGAGCTTCAATAAACGGTAAATTGATATGTAATTTTTTTAATAATTGAA
* * *
33636128 GGAATTTACCGAATTGTTCATTTGTGCGGTCTTTTCTTTTTGTATTAGGGTATGGCACCTGTGGT
261 GGAATTTACCGAATTGTTC--TTGTGC-GTCTTTTCTTGTTGCATTAGGGTATGGCACCCGTGGT
* * * * *
33636193 TTATACTCTTTACTTACCGATTGTTGCTCACTATGGCCTGCCTCACCTTTACCTTTACTTACCAC
323 TTGTACTCTTTACTTACCGGTTGTTGCTCACTGTGGACTACCTCACCTTTACCTTTACTTACCA-
*
33636258 CA-TCACTTGCCTTGGTTCTGATTCAGGTTCAACTAACCCTTCCA-CATCTTGAATGGTAATTGC
387 CATTC-CTTGCCTTGGTTCTGGTTCAGGTTCAACTAACCCTT-CATCATCTTGAATGGTAATTGC
* * * *
33636321 ATTGAGTTGTTCCCTTGGGTTAGATTCAGTGTTACTCGGTAGACTACCTTGTGGTCGTTCAGAAA
450 ATTGAGCTGTTCCCTTAGGTTAGATTCAGTGTTACTCGGTAGGCTACCTTGTGGTAGTTCAGAAA
33636386 TCAATTTGGTGAGTTGGCCTATCTGAGTTTCG
515 TCAATTTGGTGAGTTGGCCTATCTGAGTTTCG
33636418 AGCCCTT
1 AGCCCTT
33636425 GGATCGACGC
Statistics
Matches: 1023, Mismatches: 70, Indels: 19
0.92 0.06 0.02
Matches are distributed among these distances:
542 34 0.03
543 228 0.22
546 2 0.00
547 1 0.00
548 1 0.00
549 473 0.46
550 281 0.27
551 3 0.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (546 bp):
AGCCCTTAAATCAGCCAAAGCATTATTAACTTCTAAACTACCAATTACACAAGGAATCGTAAAAC
TCCCTAGATCTTTTAATTTGTTGGCCAGCTTATTCTGTAGTATGGCTGAGCAAACTGCATTTAAC
TCAACATGCGACGCCTCATCCAACTTCCGCTTATTTGTTAAAAGCTCCTTTAAGAATTTGGCTGC
GTTTGGCATCTGCGAAAGAGCTTCAATAAACGGTAAATTGATATGTAATTTTTTTAATAATTGAA
GGAATTTACCGAATTGTTCTTGTGCGTCTTTTCTTGTTGCATTAGGGTATGGCACCCGTGGTTTG
TACTCTTTACTTACCGGTTGTTGCTCACTGTGGACTACCTCACCTTTACCTTTACTTACCACATT
CCTTGCCTTGGTTCTGGTTCAGGTTCAACTAACCCTTCATCATCTTGAATGGTAATTGCATTGAG
CTGTTCCCTTAGGTTAGATTCAGTGTTACTCGGTAGGCTACCTTGTGGTAGTTCAGAAATCAATT
TGGTGAGTTGGCCTATCTGAGTTTCG
Found at i:33648854 original size:5 final size:6
Alignment explanation
Indices: 33648816--33648861 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
33648806 TAATTTAATT
*
33648816 AATAAA AATAAA AATCTAAA ACTAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AA--TAAA AATAAA AATAAA AATAAA AATAAA AA
33648862 ACATATAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 31 0.86
8 5 0.14
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:33648862 original size:20 final size:20
Alignment explanation
Indices: 33648816--33648855 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33648806 TAATTTAATT
**
33648816 AATAAAAATAAAAATCTAAA
1 AATAAAAATAAAAATAAAAA
*
33648836 ACTAAAAATAAAAATAAAAA
1 AATAAAAATAAAAATAAAAA
33648856 TAAAAAACAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (20 bp):
AATAAAAATAAAAATAAAAA
Found at i:33648895 original size:9 final size:9
Alignment explanation
Indices: 33648881--33648939 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
33648871 TTTGTACAAA
33648881 TAATTCGGT
1 TAATTCGGT
*
33648890 TAATTCAGT
1 TAATTCGGT
*
33648899 TAATTTGAG-
1 TAATTCG-GT
33648908 TAATTCAGG-
1 TAATTC-GGT
* *
33648917 TAGTTCGGG
1 TAATTCGGT
33648926 TAATTCGGT
1 TAATTCGGT
33648935 TAATT
1 TAATT
33648940 TTATACTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
8 2 0.05
9 36 0.90
10 2 0.05
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:33648911 original size:18 final size:18
Alignment explanation
Indices: 33648890--33648940 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
33648880 ATAATTCGGT
33648890 TAATTCAGTTAATTTGAG
1 TAATTCAGTTAATTTGAG
* * * *
33648908 TAATTCAGGTAGTTCGGG
1 TAATTCAGTTAATTTGAG
*
33648926 TAATTCGGTTAATTT
1 TAATTCAGTTAATTT
33648941 TATACTTATT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (18 bp):
TAATTCAGTTAATTTGAG
Found at i:33662580 original size:24 final size:24
Alignment explanation
Indices: 33662535--33662580 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
33662525 ATTTATTAGT
*
33662535 ATAATATATTTAGCATTTATTAAC
1 ATAATATATTTAGCATTGATTAAC
33662559 ATAATATATTT-GACATTGATTA
1 ATAATATATTTAG-CATTGATTA
33662581 GAATTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (24 bp):
ATAATATATTTAGCATTGATTAAC
Found at i:33664706 original size:131 final size:131
Alignment explanation
Indices: 33664459--33664869 Score: 465
Period size: 131 Copynumber: 3.2 Consensus size: 131
33664449 TATTGTTTAC
* * * * * *
33664459 TTTATATATCATGAATAATCTTATTT-AGCTAGTTGATTT-ATATCGTTACTCCAAATAGCTTGC
1 TTTA-ATATCATGAACAATCTTATTTGAGTTAGTTGATTTAATATCGCTACTCCAAACAGCTCGT
* * * *
33664522 TGATTTAAGATCGCAGCTGATATCT-TTAAGGTTTGCTGATTTAAAATTACAACCTAAGTTCATT
65 TGATTTAAAATCGCAGCTGATAT-TGTTAAGGTTCGTTGATTTAAAATCACAACCTAAGTTCATT
*
33664586 CAA
129 CGA
* *
33664589 TTTAATACCATGAACAATCTTATTTGAGTTAGTTGATTTAATATCGCTACTCCAAACAACTCGTT
1 TTTAATATCATGAACAATCTTATTTGAGTTAGTTGATTTAATATCGCTACTCCAAACAGCTCGTT
* * * *
33664654 GATTTAAAATCGTAG-TCGATATTGTTAAGGTTCGTT-AGTTTAATATCGCAACCTAAGCTCATT
66 GATTTAAAATCGCAGCT-GATATTGTTAAGGTTCGTTGA-TTTAAAATCACAACCTAAGTTCATT
33664717 CGA
129 CGA
* * * * *
33664720 TTTAATATCGTGAACTATCTTATTTGAGTTAGTTGATTTAATATTGCTACTCC-AACTGTTCGTT
1 TTTAATATCATGAACAATCTTATTTGAGTTAGTTGATTTAATATCGCTACTCCAAACAGCTCGTT
* * ** * * * *
33664784 TATTTAATATCGCAGCTGATAACGTTAAGGTTCGTTGATCTAAAATCCCAATCTAAGTTCATTTG
66 GATTTAAAATCGCAGCTGATATTGTTAAGGTTCGTTGATTTAAAATCACAACCTAAGTTCATTCG
33664849 A
131 A
*
33664850 TTCAATATCATGAACAATCT
1 TTTAATATCATGAACAATCT
33664870 CAATTGTGTT
Statistics
Matches: 236, Mismatches: 38, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
129 19 0.08
130 95 0.40
131 122 0.52
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (131 bp):
TTTAATATCATGAACAATCTTATTTGAGTTAGTTGATTTAATATCGCTACTCCAAACAGCTCGTT
GATTTAAAATCGCAGCTGATATTGTTAAGGTTCGTTGATTTAAAATCACAACCTAAGTTCATTCG
A
Found at i:33664760 original size:64 final size:64
Alignment explanation
Indices: 33664571--33664763 Score: 151
Period size: 64 Copynumber: 3.0 Consensus size: 64
33664561 TTTAAAATTA
* * * *
33664571 CAACCTAAGTTCATTCAATTTAATACCATGAACAATCTTATTTGAGTTAGTTGATTTAATATCG
1 CAACCTAAGCTCATTCGATTTAATATCGTGAACAATCTTATTTGAGTTAGTTGATTTAATATCG
* * * * * * * * * * *
33664635 CTACTCCAAACAACTCGTT-GATTTAAAATCGT-AGTCGATATT-GTTAAGGTTCGTT-AGTTTA
1 C-A-ACC-TA-AGCTCATTCGATTTAATATCGTGA-ACAATCTTATTTGA-GTTAGTTGA-TTTA
33664696 ATATCG
59 ATATCG
*
33664702 CAACCTAAGCTCATTCGATTTAATATCGTGAACTATCTTATTTGAGTTAGTTGATTTAATAT
1 CAACCTAAGCTCATTCGATTTAATATCGTGAACAATCTTATTTGAGTTAGTTGATTTAATAT
33664764 TGCTACTCCA
Statistics
Matches: 92, Mismatches: 26, Indels: 22
0.66 0.19 0.16
Matches are distributed among these distances:
63 6 0.07
64 33 0.36
65 8 0.09
66 8 0.09
67 32 0.35
68 5 0.05
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (64 bp):
CAACCTAAGCTCATTCGATTTAATATCGTGAACAATCTTATTTGAGTTAGTTGATTTAATATCG
Found at i:33677055 original size:27 final size:26
Alignment explanation
Indices: 33677025--33677099 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 26
33677015 AATTTTAGGT
*
33677025 AGATAATTATT-GTTATTAAATTTAATA
1 AGATAATTATTAGATA-T-AATTTAATA
*
33677052 AGATTATTATTAGATATAATTTAATA
1 AGATAATTATTAGATATAATTTAATA
33677078 A-A-AA-TATT--ATATAATTTAATA
1 AGATAATTATTAGATATAATTTAATA
33677099 A
1 A
33677100 TATTCTTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
21 14 0.32
23 4 0.09
24 1 0.02
25 1 0.02
26 10 0.23
27 11 0.25
28 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (26 bp):
AGATAATTATTAGATATAATTTAATA
Found at i:33677103 original size:18 final size:19
Alignment explanation
Indices: 33677065--33677103 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
33677055 TTATTATTAG
33677065 ATATAATTTAATAAAAATATT
1 ATATAATTTAAT--AAATATT
33677086 ATATAATTTAAT-AATATT
1 ATATAATTTAATAAATATT
33677104 CTTAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
21 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTAATAAATATT
Found at i:33681850 original size:38 final size:38
Alignment explanation
Indices: 33681808--33681884 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
33681798 TTCATAGTAT
* *
33681808 TAGCTTTTACAGAGATAGCATTGATTTTTCACATATCA
1 TAGCTTTTACAGAGATAGCATTGAGTTTCCACATATCA
33681846 TAGCTTTTACAGAGATAGCATTGAGTTTCCACATATCA
1 TAGCTTTTACAGAGATAGCATTGAGTTTCCACATATCA
33681884 T
1 T
33681885 TTAATACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (38 bp):
TAGCTTTTACAGAGATAGCATTGAGTTTCCACATATCA
Found at i:33695351 original size:22 final size:24
Alignment explanation
Indices: 33695306--33695352 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
33695296 AGACATAAAA
* *
33695306 ATTTTATGTTAAAATAGTTGTTAT
1 ATTTTATGTTAAAATAGCTATTAT
33695330 ATTTT-TGTT-AAATAGCTATTAT
1 ATTTTATGTTAAAATAGCTATTAT
33695352 A
1 A
33695353 CGCAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 4 0.19
24 5 0.24
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (24 bp):
ATTTTATGTTAAAATAGCTATTAT
Found at i:33695367 original size:25 final size:27
Alignment explanation
Indices: 33695338--33695390 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
33695328 ATATTTTTGT
33695338 TAAA-TAGCT-ATTATACGCAAATATA
1 TAAATTAGCTAATTATACGCAAATATA
** *
33695363 TAAATTATTTAATTATACGCATATATA
1 TAAATTAGCTAATTATACGCAAATATA
33695390 T
1 T
33695391 TATCATAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 3 0.13
27 16 0.70
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (27 bp):
TAAATTAGCTAATTATACGCAAATATA
Found at i:33707926 original size:89 final size:89
Alignment explanation
Indices: 33707832--33708011 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 89
33707822 CCGTAAAAAC
33707832 AAAATCTTGAAAATACTAAAGATTTAAATTTTTTGAGTTAATCAAATAAATTCATATTCAATAAA
1 AAAATCTTGAAAATACTAAAGATTTAAATTTTTTGAGTTAATCAAATAAATTCATATTCAATAAA
*
33707897 ATTATTTTAGAGATTTAAAAAATT
66 ATCATTTTAGAGATTTAAAAAATT
33707921 AAAATCTTGAAAATACTAAAGATTTAAATTTTTTGAGTTAATCAAATAAATTCATATTCAATAAA
1 AAAATCTTGAAAATACTAAAGATTTAAATTTTTTGAGTTAATCAAATAAATTCATATTCAATAAA
33707986 ATCATTTTAGAGATTTAAAAAATT
66 ATCATTTTAGAGATTTAAAAAATT
33708010 AA
1 AA
33708012 TTTTAAAAAA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (89 bp):
AAAATCTTGAAAATACTAAAGATTTAAATTTTTTGAGTTAATCAAATAAATTCATATTCAATAAA
ATCATTTTAGAGATTTAAAAAATT
Found at i:33711982 original size:43 final size:43
Alignment explanation
Indices: 33711888--33712054 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
33711878 GGTTACTGAG
* * * *
33711888 ATGTGATTTCATGTAAGAACATGTCTGGGATATTGGCGTTGTA
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCGTA
* *
33711931 TTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTA
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCG-TA
* * * * *
33711975 AT-CGATTACGTATAAGACTC-TGTCTAGGATAGTGGCATCG-A
1 ATGTGATTACATGTAAGAC-CATGTCTGGGATATTGGCATCGTA
* *
33712016 TATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCAT
33712055 TGTACGAGTT
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 86 0.86
44 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCGTA
Found at i:33718390 original size:74 final size:74
Alignment explanation
Indices: 33718269--33718416 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
33718259 CATCTGTTCT
33718269 TTGTTAAGGGACTAGACTTGTTGGGTCAAGTGATTGTGTAAATCTTAGTCCATTATCAGGGGTTG
1 TTGTTAAGGGACTAGACTTGTTGGGTCAAGTGATTGTGTAAATCTTAGTCCATTATCAGGGGTTG
33718334 GTACAGTGG
66 GTACAGTGG
* *
33718343 TTGTTAAGGGACTAGACTTGTTGGGTCAAGTGATTGTGTAAATCTTAGTCTATTATCATGGGTTG
1 TTGTTAAGGGACTAGACTTGTTGGGTCAAGTGATTGTGTAAATCTTAGTCCATTATCAGGGGTTG
*
33718408 GTATAGTGG
66 GTACAGTGG
33718417 CAAATCTAAG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (74 bp):
TTGTTAAGGGACTAGACTTGTTGGGTCAAGTGATTGTGTAAATCTTAGTCCATTATCAGGGGTTG
GTACAGTGG
Found at i:33724495 original size:40 final size:40
Alignment explanation
Indices: 33724440--33724518 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
33724430 AAAGGTTGGT
* *
33724440 TGTATAATCATCTTTTGTTAGCAAGTATCATTAAACATAG
1 TGTATAATCATCTTTTGTTAACAACTATCATTAAACATAG
*
33724480 TGTATGATCATCTTTTGTTAACAACTATCATTAAACATA
1 TGTATAATCATCTTTTGTTAACAACTATCATTAAACATA
33724519 TAAGTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (40 bp):
TGTATAATCATCTTTTGTTAACAACTATCATTAAACATAG
Found at i:33725268 original size:20 final size:20
Alignment explanation
Indices: 33725243--33725287 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33725233 AGGGACTAAA
* *
33725243 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
33725263 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
33725283 ATGAA
1 ATGAA
33725288 TACTTGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:33741771 original size:137 final size:137
Alignment explanation
Indices: 33741575--33742114 Score: 789
Period size: 137 Copynumber: 3.9 Consensus size: 137
33741565 GCTTTAATCC
* * * ** * *
33741575 ACTCTACTGTATCTTCAA-AGAGATAAGATTTGTGATTTATAGATTCAATCTGTTTCACTACAAC
1 ACTCTACTGCAACTT-AAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTACAAC
* * *
33741639 TCCAGGGAAATAAGACTTGCTATCTCCAGTCCGCTCCGCTGCAACTTTAGGGAGATAAGACTTGT
65 TCCAGGGAAATAAGACTTGCTATCTTCAGTCCGCTCCGCTGCAACTTCAAGGAGATAAGACTTGT
33741704 TTTGATCT
130 TTTGATCT
*
33741712 ACTCTACTGCAACTTAAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTACAATT
1 ACTCTACTGCAACTTAAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTACAACT
* * *
33741777 CCAGGGAAATAAGACTTGCTATCTTCAGCCCGCTCCGCTGCAACTTC-AGAGAAATAAGACTTAT
66 CCAGGGAAATAAGACTTGCTATCTTCAGTCCGCTCCGCTGCAACTTCAAG-GAGATAAGACTTGT
33741841 TTTGATCT
130 TTTGATCT
* * * *
33741849 GCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCATTGCAACT
1 ACTCTACTGCAACTTAAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTACAACT
* *
33741914 CCAGGGAAATAAGATTTGCTATCTTCAGTCCGCTCCTCTGCAACTTCAAGGAGATAAGACTTGTT
66 CCAGGGAAATAAGACTTGCTATCTTCAGTCCGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTT
33741979 TTGATCT
131 TTGATCT
* * * *
33741986 GCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTGCAATT
1 ACTCTACTGCAACTTAAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTACAACT
* * *
33742051 CCAGGGAAATAAGACTTGCTATCTTCAG-CCTGCTCCACTGCAACCTCAAGGAGATACGACTTGT
66 CCAGGGAAATAAGACTTGCTATCTTCAGTCC-GCTCCGCTGCAACTTCAAGGAGATAAGACTTGT
33742115 AACTTTAACC
Statistics
Matches: 369, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
136 5 0.01
137 362 0.98
138 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (137 bp):
ACTCTACTGCAACTTAAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTACAACT
CCAGGGAAATAAGACTTGCTATCTTCAGTCCGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTT
TTGATCT
Found at i:33741958 original size:45 final size:45
Alignment explanation
Indices: 33741635--33742113 Score: 190
Period size: 45 Copynumber: 10.5 Consensus size: 45
33741625 TGTTTCACTA
* * * *
33741635 CAACTCCAGGGAAATAAGACTTGCTATCTCCAGTCCGCTCCGCTG
1 CAACTTCAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCTCTG
* * * *
33741680 CAACTTTAGGGAGATAAGACTTG-T-T-TTGA-TCTACT-CTACTG
1 CAACTTCAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCT-CTG
* * * * * * *
33741721 CAACTTAAGAGAGATAAGA-TCTGCAATTTATAGCTTCAATCTGTTCCACTA
1 CAACTTCAGGGAAATAAGACT-TGC----TAT--CTTCAGTCTGCTCCTCTG
* * *
33741772 CAA-TTCCAGGGAAATAAGACTTGCTATCTTCAGCCCGCTCCGCTG
1 CAACTT-CAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCTCTG
* * *
33741817 CAACTTCAGAGAAATAAGAC-T--TATTTTGA-TCTGCT-CTACTG
1 CAACTTCAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCT-CTG
* * * *
33741858 CAACTTCAGAGAGATAAGA-TCTGCAATTTATAGCTTCAATCTGTTCCAT-TG
1 CAACTTCAGGGAAATAAGACT-TGC----TAT--CTTCAGTCTGCTCC-TCTG
* * *
33741909 CAACTCCAGGGAAATAAGATTTGCTATCTTCAGTCCGCTCCTCTG
1 CAACTTCAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCTCTG
* * *
33741954 CAACTTCAAGGAGATAAGACTTG-T-T-TTGA-TCTGCT-CTACTG
1 CAACTTCAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCT-CTG
* * * * *
33741995 CAACTTCAGAGAGATAAGA-TCTGCAATTTATAGCTTCAATCTGTTCCACTG
1 CAACTTCAGGGAAATAAGACT-TGC----TAT--CTTCAGTCTGCTCCTCTG
* *
33742046 CAA-TTCCAGGGAAATAAGACTTGCTATCTTCAGCCTGCTCCACTG
1 CAACTT-CAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCTCTG
* * * *
33742091 CAACCTCAAGGAGATACGACTTG
1 CAACTTCAGGGAAATAAGACTTG
33742114 TAACTTTAAC
Statistics
Matches: 326, Mismatches: 60, Indels: 96
0.68 0.12 0.20
Matches are distributed among these distances:
40 6 0.02
41 78 0.24
42 12 0.04
43 2 0.01
44 4 0.01
45 112 0.34
46 5 0.02
47 11 0.03
48 3 0.01
50 13 0.04
51 73 0.22
52 6 0.02
53 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
CAACTTCAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCTCTG
Found at i:33742065 original size:274 final size:275
Alignment explanation
Indices: 33741531--33742094 Score: 869
Period size: 274 Copynumber: 2.0 Consensus size: 275
33741521 TCTTCAATGT
* ** * *
33741531 GCTCCACTGCAACTTCAGAGAGATAAGGTTTATAGCTTTAATCCACTCTACTGTATCTTCAAAGA
1 GCTCCACTGCAACTTCAGAGAAATAAGACTTATA--TTTAATCCACTCTACTGCAACTTCAAAGA
* ** *
33741596 GATAAGATTTGTGATTTATAGATTCAATCTGTTTCACTACAACTCCAGGGAAATAAGACTTGCTA
64 GATAAGATCTGCAATTTATAGATTCAATCTGTTCCACTACAACTCCAGGGAAATAAGACTTGCTA
* *
33741661 TCTCCAGTCCGCTCCGCTGCAACTTTAGGGAGATAAGACTTGTTTTGATCTACTCTACTGCAACT
129 TCTCCAGTCCGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTTTTGATCTACTCTACTGCAACT
33741726 TAAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTACAATTCCAGGGAAATAAGA
194 TAAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTACAATTCCAGGGAAATAAGA
33741791 CTTGCTATCTTCAGCCC
259 CTTGCTATCTTCAGCCC
* * ** *
33741808 GCTCCGCTGCAACTTCAGAGAAATAAGACTTAT-TTTGATCTGCTCTACTGCAACTTCAGAGAGA
1 GCTCCACTGCAACTTCAGAGAAATAAGACTTATATTTAATCCACTCTACTGCAACTTCAAAGAGA
* * * *
33741872 TAAGATCTGCAATTTATAGCTTCAATCTGTTCCATTGCAACTCCAGGGAAATAAGATTTGCTATC
66 TAAGATCTGCAATTTATAGATTCAATCTGTTCCACTACAACTCCAGGGAAATAAGACTTGCTATC
* * * *
33741937 TTCAGTCCGCTCCTCTGCAACTTCAAGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTC
131 TCCAGTCCGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTTTTGATCTACTCTACTGCAACTTA
*
33742002 AGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTGCAATTCCAGGGAAATAAGACT
196 AGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTACAATTCCAGGGAAATAAGACT
*
33742067 TGCTATCTTCAGCCT
261 TGCTATCTTCAGCCC
33742082 GCTCCACTGCAAC
1 GCTCCACTGCAAC
33742095 CTCAAGGAGA
Statistics
Matches: 260, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
274 231 0.89
277 29 0.11
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (275 bp):
GCTCCACTGCAACTTCAGAGAAATAAGACTTATATTTAATCCACTCTACTGCAACTTCAAAGAGA
TAAGATCTGCAATTTATAGATTCAATCTGTTCCACTACAACTCCAGGGAAATAAGACTTGCTATC
TCCAGTCCGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTTTTGATCTACTCTACTGCAACTTA
AGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGTTCCACTACAATTCCAGGGAAATAAGACT
TGCTATCTTCAGCCC
Found at i:33742221 original size:133 final size:133
Alignment explanation
Indices: 33742071--33742337 Score: 363
Period size: 133 Copynumber: 2.0 Consensus size: 133
33742061 AAGACTTGCT
* * * *
33742071 ATCTTCAGCCTGCTCCACTGCAACCTCAAGGAGATACGACTTGTAACTTTAACCTACTCCACCGT
1 ATCTTCAGCCTGCTCCACTGCAACCTCAAGGAGATAAGACTTGCAACTTCAACCTACTCCACCGC
* *
33742136 ATCTACAGGGAGATAAGGTTAGCGGCTTCGATCTACTTCACTGCAACTTAAAGAAGACAAGATTC
66 ATCTACAGAGAGATAAGGTTAGCGGCTTCAATCTACTTCACTGCAACTTAAAGAAGACAAGATTC
33742201 GCC
131 GCC
* * * * **
33742204 ATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCAACTTCAACTTACTCTATTGC
1 ATCTTCAGCCTGCTCCACTGCAACCTCAAGGAGATAAGACTTGCAACTTCAACCTACTCCACCGC
* * * * * * *
33742269 ATCTTCAGAGAGATAAGGTTAGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATTT
66 ATCTACAGAGAGATAAGGTTAGCGGCTTCAATCTACTTCACTGCAACTTAAAGAAGACAAGATTC
33742334 GCC
131 GCC
33742337 A
1 A
33742338 AAATTCGTAA
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
133 115 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (133 bp):
ATCTTCAGCCTGCTCCACTGCAACCTCAAGGAGATAAGACTTGCAACTTCAACCTACTCCACCGC
ATCTACAGAGAGATAAGGTTAGCGGCTTCAATCTACTTCACTGCAACTTAAAGAAGACAAGATTC
GCC
Found at i:33747426 original size:27 final size:27
Alignment explanation
Indices: 33747395--33747572 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33747385 TAAATTGTAC
33747395 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33747422 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33747448 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33747476 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33747504 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33747531 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33747558 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33747573 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33747509 original size:82 final size:81
Alignment explanation
Indices: 33747396--33747551 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33747386 AAATTGTACA
* *
33747396 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33747460 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33747477 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33747542 TGCGAGTTGA
65 TGCGAATTGA
33747552 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33747563 original size:82 final size:81
Alignment explanation
Indices: 33747392--33747572 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33747382 GATTAAATTG
* *
33747392 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33747457 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33747473 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33747537 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33747555 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33747573 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33760186 original size:46 final size:46
Alignment explanation
Indices: 33760136--33760307 Score: 317
Period size: 46 Copynumber: 3.7 Consensus size: 46
33760126 TGGTTGAGCA
33760136 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
33760182 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
33760228 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
33760274 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33760308 GGGGCGGGTT
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 123 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33767776 original size:46 final size:46
Alignment explanation
Indices: 33767726--33767898 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
33767716 TGGTTGAGCA
33767726 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33767772 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
33767817 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
33767865 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33767899 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33767882 original size:93 final size:93
Alignment explanation
Indices: 33767723--33767893 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
33767713 GGATGGTTGA
* *
33767723 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33767788 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
33767816 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33767881 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33767894 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33774058 original size:14 final size:15
Alignment explanation
Indices: 33774041--33774070 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33774031 ACATTATTCA
33774041 AAAATAT-ATTTTAC
1 AAAATATAATTTTAC
33774055 AAAATATAATTTTAC
1 AAAATATAATTTTAC
33774070 A
1 A
33774071 TTTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATATAATTTTAC
Found at i:33775926 original size:15 final size:15
Alignment explanation
Indices: 33775891--33775924 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33775881 ACTCAATTAT
*
33775891 TATTAATTTTTTAAA
1 TATTTATTTTTTAAA
33775906 TATTTATTTTTT-AA
1 TATTTATTTTTTAAA
33775920 TATTT
1 TATTT
33775925 TAGCATACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATTTTTTAAA
Found at i:33784223 original size:24 final size:23
Alignment explanation
Indices: 33784172--33784296 Score: 130
Period size: 23 Copynumber: 5.3 Consensus size: 23
33784162 TCATGGTCGA
*
33784172 TAAGCTCTTACTGAGCTGATAAACAG
1 TAAGCTC-TATTGAGCTG--AAACAG
33784198 TAAGCTCTATTGAGCTGAAAACAG
1 TAAGCTCTATTGAGCTG-AAACAG
33784222 TAAGCTCTATTGAGCT--AACAG
1 TAAGCTCTATTGAGCTGAAACAG
* *
33784243 TAAGCTCT-TTCGAGCTGAATCGG
1 TAAGCTCTATT-GAGCTGAAACAG
* * *
33784266 TAAGCTCCAATGAGCTGAAATAG
1 TAAGCTCTATTGAGCTGAAACAG
33784289 TAAGCTCT
1 TAAGCTCT
33784297 TACGGGCTAT
Statistics
Matches: 85, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
20 2 0.02
21 18 0.21
23 26 0.31
24 23 0.27
25 9 0.11
26 7 0.08
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (23 bp):
TAAGCTCTATTGAGCTGAAACAG
Found at i:33784258 original size:45 final size:44
Alignment explanation
Indices: 33784191--33784297 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
33784181 ACTGAGCTGA
* *
33784191 TAAACAGTAAGCTCTATTGAGCTGAAAACAGTAAGCTCTATTGAGC
1 TAAACAGTAAGCTCT-TTGAGCTG-AAACAGTAAGCTCCAATGAGC
* *
33784237 T-AACAGTAAGCTCTTTCGAGCTGAATCGGTAAGCTCCAATGAGC
1 TAAACAGTAAGCTCTTT-GAGCTGAAACAGTAAGCTCCAATGAGC
*
33784281 TGAAATAGTAAGCTCTT
1 T-AAACAGTAAGCTCTT
33784298 ACGGGCTATG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
44 20 0.38
45 19 0.36
46 14 0.26
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
TAAACAGTAAGCTCTTTGAGCTGAAACAGTAAGCTCCAATGAGC
Found at i:33784291 original size:23 final size:22
Alignment explanation
Indices: 33784193--33784295 Score: 93
Period size: 24 Copynumber: 4.5 Consensus size: 22
33784183 TGAGCTGATA
*
33784193 AACAGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCCATTGAGCTG
*
33784215 AAAACAGTAAGCTCTATTGAGCT-
1 --AACAGTAAGCTCCATTGAGCTG
*
33784238 AACAGTAAGCT-CTTTCGAGCTG
1 AACAGTAAGCTCCATT-GAGCTG
* *
33784260 AATCGGTAAGCTCCAATGAGCTG
1 AA-CAGTAAGCTCCATTGAGCTG
*
33784283 AAATAGTAAGCTC
1 -AACAGTAAGCTC
33784296 TTACGGGCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.03
21 16 0.24
22 2 0.03
23 22 0.33
24 25 0.37
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (22 bp):
AACAGTAAGCTCCATTGAGCTG
Found at i:33796041 original size:42 final size:42
Alignment explanation
Indices: 33795952--33796067 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 42
33795942 AAGTTATTAA
* * * *
33795952 GATTTCGTATAAGACTATATCTGGGATATGGCCTCGGTATGT
1 GATTTCGTATAAGACCATATCAGGGATATGGTCTCGATATGT
* * *
33795994 GATTTCGTATAAGACCATGTCAGGGACATGGTGTCGATATGAT
1 GATTTCGTATAAGACCATATCAGGGATATGGTCTCGATATG-T
* *
33796037 -ATTTCATGTAAGACCATATCAGGGATATGGT
1 GATTTCGTATAAGACCATATCAGGGATATGGT
33796068 ATTGAAACGA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (42 bp):
GATTTCGTATAAGACCATATCAGGGATATGGTCTCGATATGT
Found at i:33799464 original size:51 final size:51
Alignment explanation
Indices: 33799380--33799547 Score: 248
Period size: 51 Copynumber: 3.3 Consensus size: 51
33799370 CTGATCACAT
*
33799380 TTATCACTTGTCACTTGTCACTGATCAGGTAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
33799431 TTTTCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
33799482 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAG-TGGAGGCTGCCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCT-AAAGCTACCAC
*
33799533 TTATGACTTGTCACT
1 TTATCACTTGTCACT
33799548 GATCAGAAGT
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 1 0.01
51 104 0.99
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:33804389 original size:13 final size:12
Alignment explanation
Indices: 33804367--33804391 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33804357 AAGAACTTAA
33804367 ACAATTTTTTTT
1 ACAATTTTTTTT
33804379 ACAATTTTTTTT
1 ACAATTTTTTTT
33804391 A
1 A
33804392 TTTTTTTACT
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:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (12 bp):
ACAATTTTTTTT
Found at i:33805499 original size:9 final size:9
Alignment explanation
Indices: 33805485--33805538 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
33805475 GACACCTGCA
33805485 ATTAAACAC
1 ATTAAACAC
33805494 ATTAAA-AC
1 ATTAAACAC
*
33805502 ---AAACAT
1 ATTAAACAC
33805508 ATTAAACAC
1 ATTAAACAC
33805517 ATTAAACAC
1 ATTAAACAC
33805526 ATTAAACAC
1 ATTAAACAC
33805535 -TTAA
1 ATTAA
33805539 CTTAAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 3 0.08
6 1 0.03
8 6 0.15
9 29 0.74
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (9 bp):
ATTAAACAC
Found at i:33806434 original size:5 final size:5
Alignment explanation
Indices: 33806424--33806469 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
33806414 CTGAGGCTAA
*
33806424 AATTT AATTT -ATTT AATTT -ATTT -ATTT AATTT AA-TT CATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT
33806470 TATTCTGCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 15 0.42
5 21 0.58
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (5 bp):
AATTT
Found at i:33806439 original size:9 final size:9
Alignment explanation
Indices: 33806425--33806469 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
33806415 TGAGGCTAAA
33806425 ATTTAATTT
1 ATTTAATTT
33806434 ATTTAATTT
1 ATTTAATTT
33806443 ATTT-ATTT
1 ATTTAATTT
*
33806451 AATTTAATTC
1 -ATTTAATTT
33806461 ATTTAATTT
1 ATTTAATTT
33806470 TATTCTGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 4 0.12
9 25 0.78
10 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTAATTT
Found at i:33806474 original size:14 final size:14
Alignment explanation
Indices: 33806424--33806474 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
33806414 CTGAGGCTAA
*
33806424 AATTTAATTTATTT
1 AATTTAATTCATTT
*
33806438 AATTT-ATTTATTT
1 AATTTAATTCATTT
33806451 AATTTAATTCATTT
1 AATTTAATTCATTT
*
33806465 AATTTTATTC
1 AATTTAATTC
33806475 TGCAATCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
13 13 0.38
14 21 0.62
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTAATTCATTT
Found at i:33812924 original size:19 final size:19
Alignment explanation
Indices: 33812900--33812937 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33812890 GTAGATGAGT
33812900 TAGAAGTTACCTTAATATC
1 TAGAAGTTACCTTAATATC
33812919 TAGAAGTTACCTTAATATC
1 TAGAAGTTACCTTAATATC
33812938 ATCTATGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TAGAAGTTACCTTAATATC
Found at i:33817400 original size:59 final size:59
Alignment explanation
Indices: 33817337--33817458 Score: 208
Period size: 59 Copynumber: 2.1 Consensus size: 59
33817327 TCATCATTGG
*
33817337 AAATTGAATGAAATATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAATA
1 AAATTGAATGAAATATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACA
* * *
33817396 AAATTGAATGAATTATTAAGGTTAATTTTGGAAATTAGTGATTAAATTTATAATAAACA
1 AAATTGAATGAAATATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACA
33817455 AAAT
1 AAAT
33817459 AAAATAATCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.48, C:0.01, G:0.13, T:0.38
Consensus pattern (59 bp):
AAATTGAATGAAATATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACA
Found at i:33817472 original size:59 final size:59
Alignment explanation
Indices: 33817343--33817472 Score: 190
Period size: 59 Copynumber: 2.2 Consensus size: 59
33817333 TTGGAAATTG
* * **
33817343 AATGAAATATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAATAAAATTG
1 AATGAATTATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACAAAATAA
* *
33817402 AATGAATTATTAAGGTTAATTTTGGAAATTAGTGATTAAATTTATAATAAACAAAATAA
1 AATGAATTATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACAAAATAA
33817461 AAT-AATCTATTA
1 AATGAAT-TATTA
33817473 TCATCATCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 3 0.05
59 61 0.95
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.38
Consensus pattern (59 bp):
AATGAATTATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACAAAATAA
Found at i:33817507 original size:14 final size:15
Alignment explanation
Indices: 33817488--33817520 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
33817478 ATCATCCACC
*
33817488 AAAAATAATAAGAA-
1 AAAAATAAGAAGAAG
33817502 AAAAATAAGAAGAAG
1 AAAAATAAGAAGAAG
33817517 AAAA
1 AAAA
33817521 CCTAGCCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (15 bp):
AAAAATAAGAAGAAG
Found at i:33821393 original size:25 final size:25
Alignment explanation
Indices: 33821359--33821407 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
33821349 GCATTTATAT
*
33821359 ATATATATATTAGTTTGTATTTCGC
1 ATATATATATTAATTTGTATTTCGC
33821384 ATATATATATTAATTTGTATTTCG
1 ATATATATATTAATTTGTATTTCG
33821408 TGTGATGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (25 bp):
ATATATATATTAATTTGTATTTCGC
Found at i:33821930 original size:73 final size:73
Alignment explanation
Indices: 33821840--33821983 Score: 261
Period size: 73 Copynumber: 2.0 Consensus size: 73
33821830 TTGAATGATA
*
33821840 AACTAAAACATTTTAATTAATAATTAAGGTCAATATCTAAAAGTTAAAAATATAAAAACAAACTT
1 AACTAAAACACTTTAATTAATAATTAAGGTCAATATCTAAAAGTTAAAAATATAAAAACAAACTT
33821905 TATTAACT
66 TATTAACT
* *
33821913 AACTACAACACTTTAATTAATAATTAAGGTCAATATCTAAAAGTTAAAAATATAAAAACAAATTT
1 AACTAAAACACTTTAATTAATAATTAAGGTCAATATCTAAAAGTTAAAAATATAAAAACAAACTT
33821978 TATTAA
66 TATTAA
33821984 TCAAATAATA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (73 bp):
AACTAAAACACTTTAATTAATAATTAAGGTCAATATCTAAAAGTTAAAAATATAAAAACAAACTT
TATTAACT
Found at i:33834307 original size:14 final size:14
Alignment explanation
Indices: 33834288--33834361 Score: 67
Period size: 14 Copynumber: 5.1 Consensus size: 14
33834278 TATTCATAAT
33834288 GGTTCGCATACAAG
1 GGTTCGCATACAAG
* *
33834302 GGTTCGCCTATAGAG
1 GGTTCGCATACA-AG
*
33834317 GGTTCGCATACATG
1 GGTTCGCATACAAG
* * *
33834331 GGTTCTCCTATAAG
1 GGTTCGCATACAAG
*
33834345 AGTTCGCATACAGAG
1 GGTTCGCATACA-AG
33834360 GG
1 GG
33834362 GTTATACACA
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
14 29 0.66
15 15 0.34
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (14 bp):
GGTTCGCATACAAG
Found at i:33834320 original size:29 final size:28
Alignment explanation
Indices: 33834283--33834361 Score: 104
Period size: 29 Copynumber: 2.8 Consensus size: 28
33834273 GTTCTTATTC
*
33834283 ATAATGGTTCGCATACAAGGGTTCGCCT
1 ATAAGGGTTCGCATACAAGGGTTCGCCT
* *
33834311 ATAGAGGGTTCGCATACATGGGTTCTCCT
1 ATA-AGGGTTCGCATACAAGGGTTCGCCT
*
33834340 ATAAGAGTTCGCATACAGAGGG
1 ATAAGGGTTCGCATACA-AGGG
33834362 GTTATACACA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
28 16 0.36
29 28 0.64
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (28 bp):
ATAAGGGTTCGCATACAAGGGTTCGCCT
Found at i:33840168 original size:32 final size:32
Alignment explanation
Indices: 33840127--33840191 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
33840117 TTAAGTAAAT
33840127 TTCTCATTATTTTTTCGTAATTTCTTTATGAA
1 TTCTCATTATTTTTTCGTAATTTCTTTATGAA
33840159 TTCTCATTATTTTTTCGTAATTTCTTTATGAA
1 TTCTCATTATTTTTTCGTAATTTCTTTATGAA
33840191 T
1 T
33840192 AATTATTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (32 bp):
TTCTCATTATTTTTTCGTAATTTCTTTATGAA
Found at i:33841133 original size:41 final size:40
Alignment explanation
Indices: 33841065--33841232 Score: 237
Period size: 41 Copynumber: 4.1 Consensus size: 40
33841055 GCAAAAATTA
* *
33841065 TAAAACACGGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* *
33841106 TAAAAATAGAGCAATAGCGGCGTTTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGC
* *
33841147 TAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* *
33841187 TAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
33841228 TAAAA
1 TAAAA
33841233 GTCATATAAT
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 37 0.32
41 80 0.68
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:33841215 original size:81 final size:82
Alignment explanation
Indices: 33841065--33841232 Score: 250
Period size: 81 Copynumber: 2.1 Consensus size: 82
33841055 GCAAAAATTA
* * * *
33841065 TAAAACACGGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAATAGAGCAATAGCGGCGTT
1 TAAAACACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTC
*
33841130 TTTTGGTAAAACGCCGC
66 TTTTGGCAAAACGCCGC
* *
33841147 TAAAAC-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCG-
1 TAAAACACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGT
33841210 CTTTTGGCAAAACGCCGC
65 CTTTTGGCAAAACGCCGC
33841228 TAAAA
1 TAAAA
33841233 GTCATATAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
81 58 0.74
82 20 0.26
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (82 bp):
TAAAACACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTC
TTTTGGCAAAACGCCGC
Found at i:33841294 original size:47 final size:47
Alignment explanation
Indices: 33841237--33841368 Score: 124
Period size: 54 Copynumber: 2.6 Consensus size: 47
33841227 CTAAAAGTCA
* *
33841237 TATAATCCCTAAAACCCTAAAGCCCAAAAAAATA-A-TAAACACTAATC
1 TATAACCCCTAAAACCCTAAA-CCCAAAAAAA-ACACTAAACACTAAAC
* *
33841284 TATAACCCCTAAAACACTAAACCCCTAAATCCTAAAAACACCTAAATACTAAAC
1 TATAACCCCTAAAACCCTAAA-CCC-AAA----AAAAACA-CTAAACACTAAAC
33841338 TATAACCCCTAAAACCCTAAACTCCAAAAAA
1 TATAACCCCTAAAACCCTAAAC-CCAAAAAA
33841369 CATCATATGG
Statistics
Matches: 70, Mismatches: 6, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
47 22 0.31
48 3 0.04
49 3 0.04
51 1 0.01
52 5 0.07
53 4 0.06
54 32 0.46
ACGTcount: A:0.52, C:0.30, G:0.01, T:0.18
Consensus pattern (47 bp):
TATAACCCCTAAAACCCTAAACCCAAAAAAAACACTAAACACTAAAC
Found at i:33841307 original size:54 final size:53
Alignment explanation
Indices: 33841248--33841359 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 53
33841238 ATAATCCCTA
*
33841248 AAACCCTAAAGCCCAAAAAAATAATAAACACTAATCTATAACCCCTAAAACACT
1 AAACCCTAAAGCCCAAAAAAA-AATAAACACTAAACTATAACCCCTAAAACACT
* * * ** * *
33841302 AAACCCCTAAATCCTAAAAACACCTAAATACTAAACTATAACCCCTAAAACCCT
1 AAA-CCCTAAAGCCCAAAAAAAAATAAACACTAAACTATAACCCCTAAAACACT
33841356 AAAC
1 AAAC
33841360 TCCAAAAAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
53 1 0.02
54 33 0.67
55 15 0.31
ACGTcount: A:0.52, C:0.30, G:0.01, T:0.17
Consensus pattern (53 bp):
AAACCCTAAAGCCCAAAAAAAAATAAACACTAAACTATAACCCCTAAAACACT
Found at i:33841327 original size:17 final size:17
Alignment explanation
Indices: 33841302--33841336 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33841292 CTAAAACACT
* *
33841302 AAACCCCTAAATCCTAA
1 AAACACCTAAATACTAA
33841319 AAACACCTAAATACTAA
1 AAACACCTAAATACTAA
33841336 A
1 A
33841337 CTATAACCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACACCTAAATACTAA
Found at i:33842520 original size:14 final size:14
Alignment explanation
Indices: 33842483--33842525 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
33842473 GCATTTCTTG
*
33842483 CTTCTCTAAATCGC
1 CTTCTCTAAATCTC
* *
33842497 CATCTGTAAATCTC
1 CTTCTCTAAATCTC
*
33842511 GTTCTCTAAATCTC
1 CTTCTCTAAATCTC
33842525 C
1 C
33842526 ATCCTTTTGA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (14 bp):
CTTCTCTAAATCTC
Found at i:33846812 original size:43 final size:43
Alignment explanation
Indices: 33846748--33846844 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
33846738 AAGGTTATAT
** *
33846748 TCTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGATCATGA
1 TCTTTAGCGGCGTTTACGGGAAAAGCGCCGCTAAAGATCATGA
* * *
33846791 TTTTTAGCGGCGTTTACGGGAAAAGCGCCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTACGGGAAAAGCGCCGCTAAAGATCATGA
33846834 TCTTTAGCGGC
1 TCTTTAGCGGC
33846845 ATTTTTTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTACGGGAAAAGCGCCGCTAAAGATCATGA
Found at i:33849880 original size:86 final size:86
Alignment explanation
Indices: 33849758--33849950 Score: 248
Period size: 86 Copynumber: 2.2 Consensus size: 86
33849748 AATAAAAATA
* * *
33849758 AAAATTGAATAAAATCTGT-TTTGAGATTTATTCCCGCCGTTCACCAGATTTTATTCCA-TTTTT
1 AAAATTAAATAAAAT-T-TATTTCAGATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTT
* **
33849821 TATTTTGTTTCCAAATGAGAATT
64 TATGTTGTTTCCAAAAAAGAATT
*
33849844 AAAATTAAATAAAATTTATTTCAGAATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTTTTT
1 AAAATTAAATAAAATTTATTTCAG-ATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTT
* *
33849909 ATGTTGTTTTCAAAAAATAATT
65 ATGTTGTTTCCAAAAAAGAATT
*
33849931 -AAATTAAATAAAATCTATTT
1 AAAATTAAATAAAATTTATTT
33849951 ACGTTCAACA
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
84 1 0.01
85 6 0.06
86 64 0.68
87 23 0.24
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (86 bp):
AAAATTAAATAAAATTTATTTCAGATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTTA
TGTTGTTTCCAAAAAAGAATT
Found at i:33850011 original size:70 final size:69
Alignment explanation
Indices: 33849881--33850018 Score: 174
Period size: 70 Copynumber: 2.0 Consensus size: 69
33849871 TTATTCCCGC
*
33849881 CGTTCAACAGATTTTATTCTATTTTTTTATGTTGTTTTCAAAAAATAATTAAATTAAATAAAATC
1 CGTTCAACAGATTTTATTCTATTTTTTTATGTTGTTTTCAAAAAAGAATTAAATTAAAT--AATC
33849946 TATTTA
64 TATTTA
* ** *
33849952 CGTTCAACAGATTTTATTGC-A-TTTTTTATTTTG-TTTCTAAATGAGAATTAAATTGAATAATC
1 CGTTCAACAGATTTTATT-CTATTTTTTTATGTTGTTTTC-AAAAAAGAATTAAATTAAATAATC
33850014 TATTT
64 TATTT
33850019 CGGGATTTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
68 9 0.15
69 4 0.07
70 27 0.45
71 19 0.32
72 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.49
Consensus pattern (69 bp):
CGTTCAACAGATTTTATTCTATTTTTTTATGTTGTTTTCAAAAAAGAATTAAATTAAATAATCTA
TTTA
Found at i:33850115 original size:66 final size:66
Alignment explanation
Indices: 33849993--33850127 Score: 198
Period size: 66 Copynumber: 2.0 Consensus size: 66
33849983 TGTTTCTAAA
* * *
33849993 TGAGAATTAAATTGAATAATCTATTTCGGGATTTATTCCCACCATATAATAGATTTTATTTCATT
1 TGAGAATTAAATTGAATAATCTATTTCGGGATTTATTCCCACCATATAACAAATTTTATTCCATT
33850058 T
66 T
* ** * *
33850059 TGAGAATTAAATTGAATAATCTATTTCGGGATTTATTTCTGCCGTTTAACAAATTTTATTCCATT
1 TGAGAATTAAATTGAATAATCTATTTCGGGATTTATTCCCACCATATAACAAATTTTATTCCATT
33850124 T
66 T
33850125 TGA
1 TGA
33850128 TTTTGTTTCT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (66 bp):
TGAGAATTAAATTGAATAATCTATTTCGGGATTTATTCCCACCATATAACAAATTTTATTCCATT
T
Found at i:33850187 original size:82 final size:77
Alignment explanation
Indices: 33850080--33850252 Score: 193
Period size: 77 Copynumber: 2.2 Consensus size: 77
33850070 TTGAATAATC
* * * * *
33850080 TATTTCGGGATTTATTTCTGCCGTTTAACAAATTTTATTCCATTTTGATTTTGTTTCTAAACGAG
1 TATTTCGAGATTTATTCCTGCCGTTTAACAAA--TT-TT--ATTTTGATTTTGTGTCCAAACAAG
33850145 AATTAATCAAATAATTT
61 AATTAATCAAATAATTT
* * ** *
33850162 TGTTTCGAGATTTATTCCTGTCGTTTAACTGATTTTATTTTGATTTTGTGTCCAAACAAGATTTA
1 TATTTCGAGATTTATTCCTGCCGTTTAACAAATTTTATTTTGATTTTGTGTCCAAACAAGAATTA
*
33850227 ATTAAATAATTT
66 ATCAAATAATTT
*
33850239 TATTTCAAGATTTA
1 TATTTCGAGATTTA
33850253 ATCGTACTGT
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
77 48 0.62
79 2 0.03
80 2 0.03
82 26 0.33
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.49
Consensus pattern (77 bp):
TATTTCGAGATTTATTCCTGCCGTTTAACAAATTTTATTTTGATTTTGTGTCCAAACAAGAATTA
ATCAAATAATTT
Found at i:33850279 original size:77 final size:77
Alignment explanation
Indices: 33850121--33850283 Score: 186
Period size: 77 Copynumber: 2.1 Consensus size: 77
33850111 ATTTTATTCC
* * * * * *
33850121 ATTTTGATTTTGTTTCTAAACGAGAATTAATCAAATAATTTTGTTTCGAGATTTATTCCTGTCGT
1 ATTTTGATTTTGTGTCCAAACAAGAATTAATCAAATAATTTTATTTCAAGATTTAATCCTGTCGT
* * * *
33850186 TTAACTGATTTT
66 TCAACAGAATTG
* *
33850198 ATTTTGATTTTGTGTCCAAACAAGATTTAATTAAATAATTTTATTTCAAGATTTAAT-C-GTACT
1 ATTTTGATTTTGTGTCCAAACAAGAATTAATCAAATAATTTTATTTCAAGATTTAATCCTGT-C-
33850261 GTTCAACAGAATTG
64 GTTCAACAGAATTG
33850275 ATTTTGATT
1 ATTTTGATT
33850284 ATGTTTCAGA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
75 2 0.03
76 2 0.03
77 68 0.94
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (77 bp):
ATTTTGATTTTGTGTCCAAACAAGAATTAATCAAATAATTTTATTTCAAGATTTAATCCTGTCGT
TCAACAGAATTG
Found at i:33850376 original size:13 final size:13
Alignment explanation
Indices: 33850358--33850388 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
33850348 TTTTCTATTT
33850358 ATTGTGGCCTTAA
1 ATTGTGGCCTTAA
*
33850371 ATTGTGGCTTTAA
1 ATTGTGGCCTTAA
33850384 ATTGT
1 ATTGT
33850389 AGCTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.45
Consensus pattern (13 bp):
ATTGTGGCCTTAA
Found at i:33852672 original size:83 final size:85
Alignment explanation
Indices: 33852412--33852778 Score: 381
Period size: 85 Copynumber: 4.4 Consensus size: 85
33852402 ATAAAAATAA
* * * * * * * *
33852412 AAATTGAATAAAATCTATTTCAAGATTTATTCTCGCCGCTCAACATATTTTATTCTATTTTTTAT
1 AAATTAAATAAAATCTGTTTCAGGATTTATTCTCGTCGTTCAACAGATTTTATTCCATTTTTGAT
*
33852477 TTT-TTTCTAAACGAGAATT
66 TTTGTTTCCAAACGAGAATT
* * ** * * * * *
33852496 AAAATTAGATAAAATTTGTTTTGGGATTTATTC-CTATCATTCAACAGACTTTATTCTATTTTTT
1 -AAATTAAATAAAATCTGTTTCAGGATTTATTCTC-GTCGTTCAACAGATTTTATTCCATTTTTG
**
33852560 ATTTTGTTTCCAAATAAGAATT
64 ATTTTGTTTCCAAACGAGAATT
* *
33852582 AAATTAAATAAAATCTGTTTCAGGATTTATTCTCGTCGTTTAACA-AATTTATTCCA-TTTTGAT
1 AAATTAAATAAAATCTGTTTCAGGATTTATTCTCGTCGTTCAACAGATTTTATTCCATTTTTGAT
*
33852645 TTTGTTTCTAAACGAGAATT
66 TTTGTTTCCAAACGAGAATT
* * *
33852665 AAATTAAATAAAATATGTTTCGGGATTTATTCTCG-CTGTTTAACAGATTTTATTCCA-TTTTGA
1 AAATTAAATAAAATCTGTTTCAGGATTTATTCTCGTC-GTTCAACAGATTTTATTCCATTTTTGA
*
33852728 TTTTGTTTCCAAATGAGAATT
65 TTTTGTTTCCAAACGAGAATT
* * *
33852749 -AATTAAAT-AATTCTGCTTCAGAATTTATTC
1 AAATTAAATAAAATCTGTTTCAGGATTTATTC
33852779 CCACCATTTA
Statistics
Matches: 238, Mismatches: 39, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
82 18 0.08
83 72 0.30
84 45 0.19
85 89 0.37
86 14 0.06
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (85 bp):
AAATTAAATAAAATCTGTTTCAGGATTTATTCTCGTCGTTCAACAGATTTTATTCCATTTTTGAT
TTTGTTTCCAAACGAGAATT
Found at i:33853012 original size:51 final size:51
Alignment explanation
Indices: 33852948--33853045 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
33852938 TTTTGGTCAA
*
33852948 GTTCAAGCCATGCCAAACTCCCCATTTTCATTTTAATTTTGGCCAAACTAG
1 GTTCAAGCCATGCCAAACTCCCCATTTCCATTTTAATTTTGGCCAAACTAG
* *
33852999 GTTCAAGTCATGCCAAACTCCCCCTTTCCATTTTAATTTTGGCCAAA
1 GTTCAAGCCATGCCAAACTCCCCATTTCCATTTTAATTTTGGCCAAA
33853046 TAACCCCTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (51 bp):
GTTCAAGCCATGCCAAACTCCCCATTTCCATTTTAATTTTGGCCAAACTAG
Found at i:33853960 original size:28 final size:27
Alignment explanation
Indices: 33853881--33854155 Score: 211
Period size: 28 Copynumber: 9.9 Consensus size: 27
33853871 CCGTGTGTCT
*
33853881 CCTATTTTTCAGATTTTACAAATTTATCC
1 CCTATTTTTTAGATTTTAC-AATTT-TCC
* * *
33853910 CCTA-CTTTAAAATTTTTACAATTTTACC
1 CCTATTTTTTAGA-TTTTACAATTTT-CC
* * *
33853938 CCTATTTTTTTGATTCTATAA-TTTCC
1 CCTATTTTTTAGATTTTACAATTTTCC
* * *
33853964 CCTATTTTTTGGATTTTACAGTTTTGCT
1 CCTATTTTTTAGATTTTACAATTTT-CC
*
33853992 CATATTTTTTAGATTTTACAATCTTGT-C
1 CCTATTTTTTAGATTTTACAAT-TT-TCC
* *
33854020 CCTATTTTTTATATTTTACAATTTAGCC
1 CCTATTTTTTAGATTTTACAATTT-TCC
33854048 CCTATTTTTTAGATTTTACAATATTTCC
1 CCTATTTTTTAGATTTTACAAT-TTTCC
* * * *
33854076 TCTATTTTTAAAATTTTACAATTTT-G
1 CCTATTTTTTAGATTTTACAATTTTCC
* *
33854102 CCTATATTTTATAGATTTTA-AAGTTGT-G
1 CCTAT-TTTT-TAGATTTTACAA-TTTTCC
*
33854130 CCTTTGTTTTTAGATTTTACAATTTT
1 CCTAT-TTTTTAGATTTTACAATTTT
33854156 ACGCAAAATT
Statistics
Matches: 198, Mismatches: 35, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
26 23 0.12
27 30 0.15
28 126 0.64
29 18 0.09
30 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.54
Consensus pattern (27 bp):
CCTATTTTTTAGATTTTACAATTTTCC
Found at i:33854082 original size:84 final size:80
Alignment explanation
Indices: 33853881--33854114 Score: 233
Period size: 82 Copynumber: 2.8 Consensus size: 80
33853871 CCGTGTGTCT
* * *
33853881 CCTATTTTTCAGATTTTACAAATTTATCC-CCTA-CTTTAAAATTTTTACAATTTTACCCCTATT
1 CCTATTTTTTAGATTTTAC-AATTT-TCCTCATATTTTTAAAA-TTTTACAATTTT--CCCTATT
*
33853944 TTTT-TGATTCTATAATTTCC
61 TTTTAT-ATTCTACAATTTCC
* * * * *
33853964 CCTATTTTTTGGATTTTACAGTTTTGCTCATATTTTTTAGATTTTACAATCTTGTCCCTATTTTT
1 CCTATTTTTTAGATTTTACAATTTTCCTCATATTTTTAAAATTTTACAAT-TT-TCCCTATTTTT
*
33854029 TATATTTTACAATTTAGCC
64 TATATTCTACAATTT--CC
* *
33854048 CCTATTTTTTAGATTTTACAATATTTCCTC-TATTTTTAAAATTTTACAATTTTGCCTATATTTT
1 CCTATTTTTTAGATTTTACAAT-TTTCCTCATATTTTTAAAATTTTACAATTTTCCCTATTTTTT
33854112 ATA
65 ATA
33854115 GATTTTAAAG
Statistics
Matches: 126, Mismatches: 17, Indels: 17
0.79 0.11 0.11
Matches are distributed among these distances:
81 2 0.02
82 50 0.40
83 27 0.21
84 41 0.33
85 6 0.05
ACGTcount: A:0.25, C:0.17, G:0.05, T:0.53
Consensus pattern (80 bp):
CCTATTTTTTAGATTTTACAATTTTCCTCATATTTTTAAAATTTTACAATTTTCCCTATTTTTTA
TATTCTACAATTTCC
Found at i:33854120 original size:84 final size:81
Alignment explanation
Indices: 33853881--33854152 Score: 232
Period size: 83 Copynumber: 3.3 Consensus size: 81
33853871 CCGTGTGTCT
* * *
33853881 CCTATTTTTCAGATTTTACAA-ATTTATCCCCTA-CTTTAAAATTTTTACAATTTTACCCCTAT-
1 CCTATTTTTTAGATTTTACAATA-TT-TCCTCTATTTTTAAAA-TTTTACAATTTTA--CCTATA
* *
33853943 TTTTTTGATTCTATAATTT-CC
61 TTTTTAGATTTTA-AATTTGCC
* * * * * *
33853964 CCTATTTTTTGGATTTTACAGT-TTTGCTCATATTTTTTAGATTTTACAATCTTGTCCCTAT-TT
1 CCTATTTTTTAGATTTTACAATATTTCCTC-TATTTTTAAAATTTTACAAT-TT-TACCTATATT
*
33854027 TTTATATTTTACAATTTAGCC
63 TTTAGATTTTA-AATTT-GCC
*
33854048 CCTATTTTTTAGATTTTACAATATTTCCTCTATTTTTAAAATTTTACAATTTTGCCTATATTTTA
1 CCTATTTTTTAGATTTTACAATATTTCCTCTATTTTTAAAATTTTACAATTTTACCTATATTTT-
* **
33854113 TAGATTTTAAAGTTGTG
65 TAGATTTTAAATTTGCC
*
33854130 CCTTTGTTTTTAGATTTTACAAT
1 CCTAT-TTTTTAGATTTTACAAT
33854153 TTTACGCAAA
Statistics
Matches: 154, Mismatches: 24, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
81 3 0.02
82 44 0.29
83 52 0.34
84 49 0.32
85 6 0.04
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.53
Consensus pattern (81 bp):
CCTATTTTTTAGATTTTACAATATTTCCTCTATTTTTAAAATTTTACAATTTTACCTATATTTTT
AGATTTTAAATTTGCC
Found at i:33854515 original size:34 final size:34
Alignment explanation
Indices: 33854444--33854515 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
33854434 AGCATAATAC
*** *
33854444 TTGCTACTATATTGAACTGTTATAAGTATATTAA
1 TTGCTACTATACCAAACTGTTATAAGTATACTAA
*
33854478 TTGCTACTATACCAAACTGTTATAAGTATACTGA
1 TTGCTACTATACCAAACTGTTATAAGTATACTAA
33854512 TTGC
1 TTGC
33854516 CACCGTACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (34 bp):
TTGCTACTATACCAAACTGTTATAAGTATACTAA
Found at i:33854690 original size:45 final size:45
Alignment explanation
Indices: 33854635--33854772 Score: 145
Period size: 45 Copynumber: 3.0 Consensus size: 45
33854625 AACTTGTCTG
*
33854635 CACTGTTTAGTGGTTTATCCATATCGTATTAGCAACTTTTATCTA
1 CACTGATTAGTGGTTTATCCATATCGTATTAGCAACTTTTATCTA
* * * *
33854680 CACTGATTAGTGGTTTATCCACACCATATTAGCAACTTTTATTTA
1 CACTGATTAGTGGTTTATCCATATCGTATTAGCAACTTTTATCTA
* * * * *
33854725 TA-TCGAATTAGTGGTTTA-CCCTCTCCGTATTAGTAGCTTTTATCTA
1 CACT-G-ATTAGTGGTTTATCCATAT-CGTATTAGCAACTTTTATCTA
33854771 CA
1 CA
33854773 AATGTGTTGT
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
44 1 0.01
45 44 0.59
46 30 0.40
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (45 bp):
CACTGATTAGTGGTTTATCCATATCGTATTAGCAACTTTTATCTA
Found at i:33861291 original size:22 final size:22
Alignment explanation
Indices: 33861252--33861293 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
33861242 ATTTTAAATA
*
33861252 GTGTGTTTATTGGGTCCTAATG
1 GTGTGTTTATTGGATCCTAATG
*
33861274 GTGTGTTTATTGTATCCTAA
1 GTGTGTTTATTGGATCCTAA
33861294 GAGTACCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.48
Consensus pattern (22 bp):
GTGTGTTTATTGGATCCTAATG
Found at i:33865562 original size:21 final size:23
Alignment explanation
Indices: 33865538--33865585 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
33865528 CGAATTCCTA
33865538 AATATAAA-AACAGAATATA-AC
1 AATATAAATAACAGAATATATAC
* *
33865559 AATATAAATTACATAATATATAC
1 AATATAAATAACAGAATATATAC
33865582 AATA
1 AATA
33865586 ATATTTCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 9 0.39
23 6 0.26
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (23 bp):
AATATAAATAACAGAATATATAC
Found at i:33865708 original size:22 final size:22
Alignment explanation
Indices: 33865675--33865717 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
33865665 AATTAACATA
* *
33865675 ATAAAACAATAC-TAAATAAAT
1 ATAAAAAAATACAAAAATAAAT
33865696 ATAAAAAAGATACAAAAATAAA
1 ATAAAAAA-ATACAAAAATAAA
33865718 CAAACAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAAAAAAATACAAAAATAAAT
Found at i:33866086 original size:20 final size:19
Alignment explanation
Indices: 33866026--33866098 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
33866016 TACATAATAA
*
33866026 ATAATTAATAATAAAATGAT
1 ATAA-TAATAATAAAAAGAT
* *
33866046 ATAGTAA-AATAAAAATAAT
1 ATAATAATAATAAAAA-GAT
33866065 ATAATGAATAATAAAAAGAT
1 ATAAT-AATAATAAAAAGAT
33866085 ATAATATATAATAA
1 ATAATA-ATAATAA
33866099 TTTTTACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.16
19 10 0.23
20 19 0.43
21 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATAATAATAAAAAGAT
Found at i:33868776 original size:79 final size:81
Alignment explanation
Indices: 33868640--33868824 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
33868630 TTGAATGATG
* *
33868640 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
33868704 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33868719 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
33868781 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
33868799 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33868825 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:33868838 original size:40 final size:40
Alignment explanation
Indices: 33868641--33868824 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
33868631 TGAATGATGT
* * * *
33868641 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
33868681 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
33868721 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
33868759 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33868800 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33868825 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:33868846 original size:79 final size:79
Alignment explanation
Indices: 33868693--33868857 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
33868683 GGACTAAGAT
* * **
33868693 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
33868758 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
33868772 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
33868835 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33868851 CCGAAGG
1 CCGAAGG
33868858 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:33870516 original size:90 final size:90
Alignment explanation
Indices: 33870363--33871040 Score: 1007
Period size: 90 Copynumber: 7.5 Consensus size: 90
33870353 TGAAATCTTT
* * * *
33870363 GATCTGCTCCCCGCCTAATACAGAGACGCTAAATCTGTCATTTTCTATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
33870428 CACAAATGTCAGATCTGCTATCCTC
66 CACGAATGTCAGATCTGCTATCCTC
* *
33870453 GATCTGCTCCCCGTCTAATACAAAGACACCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* *
33870518 CACGAATGTCAGATCTACTA-CCTTT
66 CACGAATGTCAGATCTGCTATCC-TC
* * * * *
33870543 GATATGTTCCCCATCTATTACAGAGACGCCAAATCTGCCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* *
33870608 TACGAATGTCAGATCTGCTATCTTC
66 CACGAATGTCAGATCTGCTATCCTC
* * * * *
33870633 GATCTACTCCCCGTCTAATACAGGGATGCCAAATTTGTCATCTTCGATCTGCTTCGATGTAAATA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
33870698 CACGAATGTCAGATCTGCTATTCTC
66 CACGAATGTCAGATCTGCTATCCTC
* * * *
33870723 GATCTGCTCCCCATCTAATACAGAGACACCAAATCTGTCATCTTCGATCTGCTTCAATGTAAATA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
33870788 CACGAATGTCAAATCTGCTATCCTC
66 CACGAATGTCAGATCTGCTATCCTC
* * * * *
33870813 GATCTACTCTCTGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAATA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
33870878 CACGAATGTCAGATCTGCTATCCTC
66 CACGAATGTCAGATCTGCTATCCTC
*
33870903 GATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
33870968 CACGAATGTCAGATCTGCTATCCTC
66 CACGAATGTCAGATCTGCTATCCTC
* * * *
33870993 GATCTACTCTCTGTCTAATACAGAGACGCCAAATCTGTCATATTCGAT
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGAT
33871041 TTGTTCCCCG
Statistics
Matches: 529, Mismatches: 57, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
89 2 0.00
90 526 0.99
91 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (90 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
CACGAATGTCAGATCTGCTATCCTC
Found at i:33871029 original size:45 final size:45
Alignment explanation
Indices: 33870440--33871078 Score: 322
Period size: 45 Copynumber: 14.2 Consensus size: 45
33870430 CAAATGTCAG
* * * * **
33870440 ATCTGCTATCCTCGATCTGCTCCCCGTCTAATACAAAGACACCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCTAATACAGAGATGCCAA
* * * *
33870485 ATCTG-TCATCTTCGATCTGCT-TC-GATGTAA-ACACACGAATGTCAG
1 ATCTGCT-ATCTTCGATCTGCTCTCTG-TCTAATACAGA-G-ATGCCAA
* * * * * * ** * *
33870530 ATCTACTACCTTTGATATGTTCCCCATCTATTACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCTAATACAGAGATGCCAA
* * * * *
33870575 ATCTGCCATCTTCGATCTGCT-TC-GATGTAA-ACATACGAATGTCAG
1 ATCTGCTATCTTCGATCTGCTCTCTG-TCTAATACAGA-G-ATGCCAA
* * * *
33870620 ATCTGCTATCTTCGATCTACTCCCCGTCTAATACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCTAATACAGAGATGCCAA
* * * *
33870665 ATTTG-TCATCTTCGATCTGCT-TCGATGT-AAATACACGA-ATGTCAG
1 ATCTGCT-ATCTTCGATCTGCTCTC--TGTCTAATACA-GAGATGCCAA
* ** **
33870710 ATCTGCTAT-TCTCGATCTGCTCCCCATCTAATACAGAGACACCAA
1 ATCTGCTATCT-TCGATCTGCTCTCTGTCTAATACAGAGATGCCAA
* *
33870755 ATCTG-TCATCTTCGATCTGCT-TCAATGT-AAATACACGA-ATGTCAA
1 ATCTGCT-ATCTTCGATCTGCTCTC--TGTCTAATACA-GAGATGCCAA
* *
33870800 ATCTGCTATCCTCGATCTACTCTCTGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCTAATACAGAGATGCCAA
* * *
33870845 ATCTG-TCATCTTCGATCTGCT-TCGATGT-AAATACACGA-ATGTCAG
1 ATCTGCT-ATCTTCGATCTGCTCTC--TGTCTAATACA-GAGATGCCAA
* * *
33870890 ATCTGCTATCCTCGATCTGCTCCCTGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCTAATACAGAGATGCCAA
* * * *
33870935 ATCTG-TCATCTTCGATCTGCT-TC-GATGTAA-ACACACGAATGTCAG
1 ATCTGCT-ATCTTCGATCTGCTCTCTG-TCTAATACAGA-G-ATGCCAA
* * *
33870980 ATCTGCTATCCTCGATCTACTCTCTGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCTAATACAGAGATGCCAA
* * * * * *
33871025 ATCTG-TCATATTCGATTTGTTCCCCGTC-AATACAGAGATGTCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCTAATACAGAGATGCCAA
33871069 ATCTGCTATC
1 ATCTGCTATC
33871079 AGTGATCTAC
Statistics
Matches: 438, Mismatches: 106, Indels: 101
0.68 0.16 0.16
Matches are distributed among these distances:
43 14 0.03
44 62 0.14
45 310 0.71
46 39 0.09
47 13 0.03
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCTAATACAGAGATGCCAA
Found at i:33882429 original size:22 final size:22
Alignment explanation
Indices: 33882396--33882438 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
33882386 AATTAACATA
* *
33882396 ATAAAACAATAC-TAAATAAAT
1 ATAAAAAAATACAAAAATAAAT
33882417 ATAAAAAAGATACAAAAATAAA
1 ATAAAAAA-ATACAAAAATAAA
33882439 CAAACAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAAAAAAATACAAAAATAAAT
Found at i:33882807 original size:20 final size:19
Alignment explanation
Indices: 33882747--33882819 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
33882737 TACATAATAA
*
33882747 ATAATTAATAATAAAATGAT
1 ATAA-TAATAATAAAAAGAT
* *
33882767 ATAGTAA-AATAAAAATAAT
1 ATAATAATAATAAAAA-GAT
33882786 ATAATGAATAATAAAAAGAT
1 ATAAT-AATAATAAAAAGAT
33882806 ATAATATATAATAA
1 ATAATA-ATAATAA
33882820 TTTTTACACA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.16
19 10 0.23
20 19 0.43
21 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATAATAATAAAAAGAT
Found at i:33884750 original size:13 final size:13
Alignment explanation
Indices: 33884732--33884810 Score: 65
Period size: 13 Copynumber: 6.2 Consensus size: 13
33884722 TCAGTTTGGC
33884732 AATGCTTTTGAGA
1 AATGCTTTTGAGA
33884745 AATGCTTTTGAGA
1 AATGCTTTTGAGA
* * *
33884758 AGTGCTGTGGA-A
1 AATGCTTTTGAGA
33884770 AAGTGCTTTTGAG-
1 AA-TGCTTTTGAGA
* *
33884783 AGTGCTTTTCAGA
1 AATGCTTTTGAGA
* *
33884796 AGTACTTTTGA-A
1 AATGCTTTTGAGA
33884808 AAT
1 AAT
33884811 TTGAAGTGTT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
12 14 0.27
13 38 0.73
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (13 bp):
AATGCTTTTGAGA
Found at i:33884798 original size:25 final size:26
Alignment explanation
Indices: 33884734--33884806 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
33884724 AGTTTGGCAA
*
33884734 TGCTTTTGAGAAATGCTTTTGAGAAG
1 TGCTTTTGAGAAGTGCTTTTGAGAAG
* * *
33884760 TGCTGTGGAAAAGTGCTTTTGAG-AG
1 TGCTTTTGAGAAGTGCTTTTGAGAAG
* *
33884785 TGCTTTTCAGAAGTACTTTTGA
1 TGCTTTTGAGAAGTGCTTTTGA
33884807 AAATTTGAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 19 0.50
26 19 0.50
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.38
Consensus pattern (26 bp):
TGCTTTTGAGAAGTGCTTTTGAGAAG
Done.