Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 122 of 318
Found at i:37439365 original size:40 final size:40
Alignment explanation
Indices: 37439320--37439486 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
37439310 CGGAATATAA
37439320 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
37439360 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
37439400 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
37439440 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
37439479 CCGGATAT
1 CCGGATAT
37439487 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:37456851 original size:79 final size:80
Alignment explanation
Indices: 37456753--37456935 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
37456743 TACTCGTTCA
* *
37456753 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCAG
* *
37456816 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
** *
37456833 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
*
37456897 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
37456912 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
37456936 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
ATAGTAACTTAGCAC
Found at i:37456935 original size:40 final size:40
Alignment explanation
Indices: 37456732--37456935 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
37456722 CGGAATTTAA
** *
37456732 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37456772 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
37456812 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
37456851 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
37456891 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
37456931 CCGGA
1 CCGGA
37456936 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37460537 original size:29 final size:29
Alignment explanation
Indices: 37460504--37460635 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
37460494 CCTCCGAACT
** * * *
37460504 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
37460533 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37460562 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37460591 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37460620 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
37460636 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:37468585 original size:29 final size:29
Alignment explanation
Indices: 37468552--37468683 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
37468542 CCTCCGAACT
** * * *
37468552 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
37468581 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37468610 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37468639 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37468668 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
37468684 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:37476273 original size:79 final size:81
Alignment explanation
Indices: 37476164--37476346 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
37476154 TACTCGTTCA
* *
37476164 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
37476227 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
37476244 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
37476307 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
37476323 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
37476347 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:37476346 original size:40 final size:40
Alignment explanation
Indices: 37476143--37476346 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
37476133 CGGAATTTAA
** *
37476143 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37476183 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37476223 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
37476262 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
37476302 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
37476342 CCGGA
1 CCGGA
37476347 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37488775 original size:22 final size:22
Alignment explanation
Indices: 37488690--37488778 Score: 72
Period size: 22 Copynumber: 4.1 Consensus size: 22
37488680 TACTATGATA
* * *
37488690 TTTACGGTATTTAGCCGTCCTA
1 TTTACGGCATTGAGCCGTCCTG
* *
37488712 TCTA-GGCATTGAGTCGTCCTG
1 TTTACGGCATTGAGCCGTCCTG
* ** * *
37488733 TCTACGGGGTTGACCCATCCTG
1 TTTACGGCATTGAGCCGTCCTG
*
37488755 TTTACGGCATTGAGTCGTCCTG
1 TTTACGGCATTGAGCCGTCCTG
37488777 TT
1 TT
37488779 GACTTAGTCC
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
21 17 0.34
22 33 0.66
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.36
Consensus pattern (22 bp):
TTTACGGCATTGAGCCGTCCTG
Found at i:37493459 original size:21 final size:21
Alignment explanation
Indices: 37493433--37493472 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37493423 TTTGGGTGGA
37493433 TCAACTCTTAAGAGCTTCTCT
1 TCAACTCTTAAGAGCTTCTCT
*
37493454 TCAACTCTTATGAGCTTCT
1 TCAACTCTTAAGAGCTTCT
37493473 ATTGGTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.40
Consensus pattern (21 bp):
TCAACTCTTAAGAGCTTCTCT
Found at i:37496668 original size:2 final size:2
Alignment explanation
Indices: 37496661--37496686 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37496651 ATCGGGTATG
37496661 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
37496687 AGTATGCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37497169 original size:24 final size:24
Alignment explanation
Indices: 37497137--37497367 Score: 417
Period size: 24 Copynumber: 9.6 Consensus size: 24
37497127 TATCTCAAAT
*
37497137 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
37497161 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
37497185 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
37497209 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
37497233 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
37497257 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
37497281 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
37497305 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
37497329 GCACTACGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
37497353 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
37497368 ACATAATAAG
Statistics
Matches: 201, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 201 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:37504511 original size:24 final size:24
Alignment explanation
Indices: 37504479--37504709 Score: 381
Period size: 24 Copynumber: 9.6 Consensus size: 24
37504469 TATCTCAAAT
*
37504479 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
37504503 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
37504527 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
37504551 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
37504575 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
37504599 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
37504623 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
37504647 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
37504671 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
37504695 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
37504710 ACATAATAAG
Statistics
Matches: 198, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 198 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:37506762 original size:27 final size:28
Alignment explanation
Indices: 37506701--37506770 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
37506691 AAATTTGTAC
* *
37506701 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
37506729 AGCACTAAGTGTGCGAG-CTGAATATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
*
37506756 GGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37506771 TGATCGAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:37514763 original size:27 final size:28
Alignment explanation
Indices: 37514702--37514771 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
37514692 AAATTTGTAC
* *
37514702 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
37514730 AGCACTAAGTGTGCGAG-CTGAATATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
*
37514757 GGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37514772 TGATCGAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:37521240 original size:40 final size:40
Alignment explanation
Indices: 37521158--37521346 Score: 258
Period size: 40 Copynumber: 4.8 Consensus size: 40
37521148 AAGCCAAGTA
* * *
37521158 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
37521196 CCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
37521236 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
37521276 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
37521316 CCTTCGAGACTTAGCCCGGATATAGTAACTC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC
37521347 TGTAACACCC
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
38 12 0.09
39 16 0.12
40 105 0.79
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:37522272 original size:21 final size:21
Alignment explanation
Indices: 37522248--37522312 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
37522238 AAAAGGGTAG
37522248 TCCTATACATTAACCAAAATA
1 TCCTATACATTAACCAAAATA
* * * ***
37522269 TCCTCT-CACT-ACTAGTCTA
1 TCCTATACATTAACCAAAATA
*
37522288 TTCTATACATTAACCAAAATA
1 TCCTATACATTAACCAAAATA
37522309 TCCT
1 TCCT
37522313 CTCACTACTA
Statistics
Matches: 28, Mismatches: 14, Indels: 4
0.61 0.30 0.09
Matches are distributed among these distances:
19 9 0.32
20 6 0.21
21 13 0.46
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.34
Consensus pattern (21 bp):
TCCTATACATTAACCAAAATA
Found at i:37522296 original size:40 final size:40
Alignment explanation
Indices: 37522250--37522337 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
37522240 AAGGGTAGTC
37522250 CTATACATTAACCAAAATATCCTCTCACTACTAGTCTATT
1 CTATACATTAACCAAAATATCCTCTCACTACTAGTCTATT
37522290 CTATACATTAACCAAAATATCCTCTCACTACTAGTCTATT
1 CTATACATTAACCAAAATATCCTCTCACTACTAGTCTATT
37522330 CTATACAT
1 CTATACAT
37522338 GCCATAAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.35
Consensus pattern (40 bp):
CTATACATTAACCAAAATATCCTCTCACTACTAGTCTATT
Found at i:37523135 original size:47 final size:47
Alignment explanation
Indices: 37523063--37523267 Score: 268
Period size: 47 Copynumber: 4.3 Consensus size: 47
37523053 CCCTTCGGGA
* * ** * * *
37523063 CTTATCACATTTATACA-TTTCCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTT-CACATTCATCACATCGGCCATTAGGC
* * *
37523110 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37523157 CTTATCACATATATACACCTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37523204 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
37523253 CTTATCACATATATA
1 CTTATCACATATATA
37523268 TATCTCATAC
Statistics
Matches: 142, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
47 94 0.66
48 3 0.02
49 45 0.32
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37523141 original size:25 final size:25
Alignment explanation
Indices: 37523113--37523240 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 25
37523103 ACTCGGCCCT
*
37523113 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
37523138 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
37523160 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
* * *
37523185 ATCACAT-CA-GC-CATT-AGGCCTT-
1 ATCACATATATACACATTCA--CATTC
37523207 ATCACATATATACACACTTTCACATTC
1 ATCACATATATACACA--TTCACATTC
37523234 ATCACAT
1 ATCACAT
37523241 CGGCCATTAG
Statistics
Matches: 72, Mismatches: 17, Indels: 26
0.63 0.15 0.23
Matches are distributed among these distances:
21 1 0.01
22 21 0.29
23 10 0.14
24 7 0.10
25 20 0.28
26 3 0.04
27 9 0.12
28 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.32
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:37530800 original size:40 final size:40
Alignment explanation
Indices: 37530706--37530888 Score: 271
Period size: 40 Copynumber: 4.5 Consensus size: 40
37530696 GGATGATAAT
*
37530706 CGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATC
* *
37530747 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
37530787 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
37530827 TGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
37530867 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
37530889 GAGTGAGTAG
Statistics
Matches: 131, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
40 104 0.79
41 23 0.18
42 4 0.03
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:37530854 original size:80 final size:80
Alignment explanation
Indices: 37530706--37530922 Score: 273
Period size: 80 Copynumber: 2.7 Consensus size: 80
37530696 GGATGATAAT
* *
37530706 CGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCTGGGCTAAGTCCCGAAGGCATT
* *
37530769 TGTGCGAGTTATTACATC
63 GGTGCGAGTTACTACATC
37530787 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTGGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTGGT
*
37530852 GCGAGTTACTATATC
66 GCGAGTTACTACATC
* * * * *
37530867 CGGGCTATGTCCCGAAGGCA-TTGAGTGAG-TAGCTATATCT-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCTGGGCTAAGTCCCGAAGG
37530923 TACTTGGCTT
Statistics
Matches: 123, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
78 16 0.13
79 16 0.13
80 64 0.52
81 23 0.19
82 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTACATC
Found at i:37539175 original size:27 final size:27
Alignment explanation
Indices: 37539108--37539177 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
37539098 TGCTAATAGT
* **
37539108 AACGTAGCAAAGCTGCTAATAGCAGTA
1 AACGTGGCAAAGCCACTAATAGCAGTA
** *
37539135 AACGTGGCGTAGCCACTAATATCAG-A
1 AACGTGGCAAAGCCACTAATAGCAGTA
37539161 ATACGTGGCAAAGCCAC
1 A-ACGTGGCAAAGCCAC
37539178 CCGAACAGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
AACGTGGCAAAGCCACTAATAGCAGTA
Found at i:37542231 original size:2 final size:2
Alignment explanation
Indices: 37542192--37542217 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37542182 AAACACAGGC
37542192 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
37542218 CACATCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37542890 original size:43 final size:45
Alignment explanation
Indices: 37542750--37542908 Score: 132
Period size: 43 Copynumber: 3.7 Consensus size: 45
37542740 ACAATACTAT
* * * ** * * *
37542750 ATCCCAGATATGGTCTTACATGTTATCA-TTTATCGATGCCACTG
1 ATCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAATG
* * ** *
37542794 -TCCCAGACAGGGTCTTACACGAAAT-GGAATAACGATGCCAATG
1 ATCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAATG
* *
37542837 TTCCCA-ACATGGTCTTACACGTAATCACAAT-ACAATGCTAAT-
1 ATCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAATG
*
37542879 ATCCCAGACATGGTCTTACATGTAATCACA
1 ATCCCAGACATGGTCTTACACGTAATCACA
37542909 TCTCGGTAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 5 0.05
43 80 0.86
44 8 0.09
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (45 bp):
ATCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAATG
Found at i:37550477 original size:47 final size:47
Alignment explanation
Indices: 37550423--37550677 Score: 399
Period size: 47 Copynumber: 5.5 Consensus size: 47
37550413 TTAGGATTTT
** * * **
37550423 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* *
37550470 ATGTGATGAATGTGAACATGCGTATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
*
37550517 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
37550564 ATGTGATGAATGTGAACATGC--ATATGAGATAAGGCCGAAT-GCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
*
37550608 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
37550655 ATGTGATGAATGTGAACATGCAT
1 ATGTGATGAATGTGAACATGCAT
37550678 GGCTAATGCG
Statistics
Matches: 192, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
44 25 0.13
45 18 0.09
46 18 0.09
47 131 0.68
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:37550634 original size:138 final size:140
Alignment explanation
Indices: 37550423--37550677 Score: 406
Period size: 138 Copynumber: 1.8 Consensus size: 140
37550413 TTAGGATTTT
** * *
37550423 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGAATGGAAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATG-ACATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACA
*
37550488 TGCGTATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
65 TGCATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
37550553 CCGAATGGCCA
130 CCGAATGGCCA
**
37550564 ATGTGATGAATGTGAACATG-CATATGAGATAAGGCCGAAT-GCCAATGTGATGAATGTGAACAT
1 ATGTGATGAATGTGAACATGACATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACAT
* *
37550627 GCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCAT
66 GCATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCAT
37550678 GGCTAATGCG
Statistics
Matches: 105, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
138 69 0.66
139 18 0.17
141 18 0.17
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGACATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACAT
GCATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATATATGTGATAAGGC
CGAATGGCCA
Found at i:37550640 original size:91 final size:92
Alignment explanation
Indices: 37550423--37550677 Score: 422
Period size: 91 Copynumber: 2.8 Consensus size: 92
37550413 TTAGGATTTT
** * * * **
37550423 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGAATGGAAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
37550488 TGCGTATATGAGATAAGGCCGAATGACCA
66 TGC--ATATGAGATAAGGCCGAATGACCA
37550517 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
37550582 TGCATATGAGATAAGGCCGAATG-CCA
66 TGCATATGAGATAAGGCCGAATGACCA
37550608 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
37550673 TGCAT
66 TGCAT
37550678 GGCTAATGCG
Statistics
Matches: 154, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
91 73 0.47
92 20 0.13
94 61 0.40
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.26
Consensus pattern (92 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATGAGATAAGGCCGAATGACCA
Found at i:37550743 original size:46 final size:46
Alignment explanation
Indices: 37550676--37550841 Score: 269
Period size: 46 Copynumber: 3.6 Consensus size: 46
37550666 GTGAACATGC
*
37550676 ATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAGCCGA
1 ATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGA
37550722 ATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGA
1 ATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGA
* *
37550768 ATGGCTAATGCGAAACGTGTATGAGATGGATATGTGGTAAAGCCAA
1 ATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGA
* * **
37550814 ATGGCTAATGTGAGATATGTATGAGATG
1 ATGGCTAATGCGAAACGTGTATGAGATG
37550842 TGTATATATA
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 113 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.25
Consensus pattern (46 bp):
ATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGA
Found at i:37552376 original size:40 final size:40
Alignment explanation
Indices: 37552321--37552455 Score: 243
Period size: 40 Copynumber: 3.4 Consensus size: 40
37552311 TGAGAGTTAT
37552321 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
37552361 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTTCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
37552401 ATATATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
37552441 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
37552456 ACCTCGAAGG
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:37552584 original size:28 final size:28
Alignment explanation
Indices: 37552544--37552614 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
37552534 AGTAGTTGAG
37552544 GCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTTCAATCGA
*
37552572 GCACTATGTGTGCGAGTTCTTTAATCGA
1 GCACTATGTGTGCGAGTTCTTCAATCGA
*
37552600 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
37552615 AATTAGTCAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTCAATCGA
Found at i:37558115 original size:29 final size:29
Alignment explanation
Indices: 37558082--37558184 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
37558072 GTGACGAGAT
37558082 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
37558111 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
37558140 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
37558169 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37558185 AAATCGAGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:37559673 original size:20 final size:20
Alignment explanation
Indices: 37559648--37559685 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37559638 GTTTATTCAC
*
37559648 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
37559668 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
37559686 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:37561344 original size:28 final size:28
Alignment explanation
Indices: 37561312--37561380 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
37561302 GCGTAGATCA
37561312 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
37561340 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
37561368 CGATA-TACCCCTA
1 CGAAATTACCCCTA
37561381 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:37567676 original size:20 final size:20
Alignment explanation
Indices: 37567651--37567688 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37567641 GTTTATTCGC
*
37567651 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
37567671 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
37567689 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:37569345 original size:27 final size:28
Alignment explanation
Indices: 37569314--37569381 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
37569304 GCGTAGATCA
37569314 CGAAATTACCCCTAAAGAGC-AAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
37569341 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
37569369 CGATA-TACCCCTA
1 CGAAATTACCCCTA
37569382 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 28 0.72
28 11 0.28
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:37570652 original size:47 final size:47
Alignment explanation
Indices: 37570598--37570976 Score: 589
Period size: 47 Copynumber: 8.1 Consensus size: 47
37570588 TTAGGATTTT
** * * *
37570598 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
37570645 ATGTGATGAATGTGAACATGCGTATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
37570692 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
37570739 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
37570786 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** *
37570833 ATGTGATGAATGTGAGTATGCATATATGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
37570880 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
37570927 ATGTGATGAACGTGGAAC-TGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
37570974 ATG
1 ATG
37570977 CGAAATGTGT
Statistics
Matches: 311, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 307 0.99
48 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:37572778 original size:16 final size:16
Alignment explanation
Indices: 37572728--37572778 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
37572718 ATTTCAATTA
*
37572728 GGATTTAGCCTGGACT
1 GGATTTAGCTTGGACT
37572744 GGTAATTCTAG-TT-GACT
1 GG--ATT-TAGCTTGGACT
37572761 GGATTTAGCTTGGACT
1 GGATTTAGCTTGGACT
37572777 GG
1 GG
37572779 TAACCCAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
14 3 0.10
15 5 0.17
16 8 0.28
17 6 0.21
18 4 0.14
19 3 0.10
ACGTcount: A:0.20, C:0.14, G:0.31, T:0.35
Consensus pattern (16 bp):
GGATTTAGCTTGGACT
Found at i:37577763 original size:44 final size:43
Alignment explanation
Indices: 37577664--37577776 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 43
37577654 TCATACAATA
* *
37577664 CCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCGATG
1 CCAACATCCCAGACGTGATCTTACACGTAATCAAATATCGATG
37577707 CC-ACTATCCCAGACAG-GATCTTACACGTAAATCTCAAAT-T-GATG
1 CCAAC-ATCCCAGAC-GTGATCTTACACGT-AA--TCAAATATCGATG
*
37577751 CCAACATCCCAGACGTGGTCTTACAC
1 CCAACATCCCAGACGTGATCTTACAC
37577777 AAAAAAAACA
Statistics
Matches: 60, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
42 2 0.03
43 22 0.37
44 27 0.45
45 3 0.05
46 6 0.10
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (43 bp):
CCAACATCCCAGACGTGATCTTACACGTAATCAAATATCGATG
Found at i:37580661 original size:42 final size:42
Alignment explanation
Indices: 37580538--37580703 Score: 156
Period size: 42 Copynumber: 3.9 Consensus size: 42
37580528 GGTACTGTAC
* * *
37580538 CAATGCCATATCCC-GAATAAGGTCTTACATGTAA-TCTCGTAT
1 CAATGCCATATCCCAG-ATATGGTCTTACACG-AAGTCTCATAT
** * * ** *
37580580 CGTTGCCAATAGCCCAGCTATGGTCTTACAAAAAATCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATAT
*
37580623 CAATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATAT
** * *
37580665 TGATGCCATATCCCAGAAATGGTCTTACACGTAGTCTCA
1 CAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCA
37580704 GTAACCTTAT
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
42 70 0.70
43 29 0.29
44 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATAT
Found at i:37584467 original size:29 final size:27
Alignment explanation
Indices: 37584433--37584535 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
37584423 TACTCGATCA
*
37584433 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
37584462 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
37584491 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
37584520 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
37584536 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:37585790 original size:16 final size:18
Alignment explanation
Indices: 37585757--37585793 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
37585747 TCCACACACA
37585757 TTTTTTTTCATCATTTTCT
1 TTTTTTTTCA-CATTTTCT
37585776 TTTTTTTTC-CA-TTTCT
1 TTTTTTTTCACATTTTCT
37585792 TT
1 TT
37585794 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
19 9 0.50
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTTTCACATTTTCT
Found at i:37597104 original size:40 final size:40
Alignment explanation
Indices: 37597007--37597170 Score: 127
Period size: 40 Copynumber: 4.1 Consensus size: 40
37596997 CGGATTTTAT
* * * * * *
37597007 CCGGATATAGCAACTCGCTCAAAAGCCTTCGAGACATAGC
1 CCGGATATGGGAACTCGCACAAATGCCTTCGGGACTTAGC
* *** * *
37597047 CCGGTTATAATAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATGGGAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
37597087 CCGGATTTGGGAACTCGCACAAATG-CTTC-AGATCTTAGT
1 CCGGATATGGGAACTCGCACAAATGCCTTCGGGA-CTTAGC
** *
37597126 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATGGGAAC-TCGCACAAATGCCTTCGGGACTTAGC
37597166 CCGGA
1 CCGGA
37597171 CATCATTCGA
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
38 2 0.02
39 20 0.21
40 72 0.75
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATGGGAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37598950 original size:46 final size:46
Alignment explanation
Indices: 37598900--37599075 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37598890 TGGTTGAGCA
37598900 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37598946 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37598991 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37599039 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37599076 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, 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 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37599056 original size:93 final size:93
Alignment explanation
Indices: 37598897--37599068 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37598887 GGATGGTTGA
* *
37598897 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37598962 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37598990 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37599055 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37599069 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37607154 original size:49 final size:50
Alignment explanation
Indices: 37607069--37607299 Score: 252
Period size: 49 Copynumber: 4.7 Consensus size: 50
37607059 TATGGTATGG
* * *
37607069 TAATGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGA
1 TAATTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGA
* * ** *
37607119 TAATT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGA
1 TAATTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGA
* * * * * **
37607168 TAACTTCGATCACGTGTGTCGTACTAAGTGCAGGCTACTACGTGTATCAAA
1 TAA-TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGA
** *
37607219 TGGTTAGGTCACATGTGTAGTAC-AAGTGCAGGCTACTATGTGTACCGGA
1 TAATTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGA
* *
37607268 TAATT-GGTCGCATGTGTAGTACTAAGCGCAGG
1 TAATTAGGTCACATGTGTAGTACTAAGTGCAGG
37607300 ATATTATGCG
Statistics
Matches: 146, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
48 16 0.11
49 73 0.50
50 22 0.15
51 35 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
TAATTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGA
Found at i:37607250 original size:100 final size:100
Alignment explanation
Indices: 37607077--37607299 Score: 299
Period size: 100 Copynumber: 2.2 Consensus size: 100
37607067 GGTAATGAGG
** *
37607077 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATAATTGGTCACATGTGTAGTACT
37607142 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
* **
37607177 TCACGTGTGTCGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATAATT-GGTCACATGTGTAGTAC
** * *
37607242 -AAGTGCAGGCTACTATGTGTACCGGATAA-TT-GG
65 TAAGTGCAGGCTACTATGCATACCCGATAACTTCGA
* * *
37607275 TCGCATGTGTAGTACTAAGCGCAGG
1 TCACGTGTGTAGTACTAAGTGCAGG
37607300 ATATTATGCG
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
98 22 0.20
99 2 0.02
100 68 0.63
101 16 0.15
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
Found at i:37609725 original size:46 final size:46
Alignment explanation
Indices: 37609675--37609850 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37609665 TGGTTGAGCA
37609675 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37609721 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37609766 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37609814 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37609851 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, 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 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37609831 original size:93 final size:93
Alignment explanation
Indices: 37609672--37609843 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37609662 GGATGGTTGA
* *
37609672 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37609737 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37609765 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37609830 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37609844 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37617345 original size:46 final size:46
Alignment explanation
Indices: 37617181--37617354 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
37617171 GGTTGAGCAT
*
37617181 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
37617226 TCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
37617271 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
37617319 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37617355 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 27 0.25
46 34 0.31
47 27 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:37625338 original size:27 final size:27
Alignment explanation
Indices: 37625308--37625414 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
37625298 GGCTGCCAAA
* *
37625308 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
37625335 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
* *
37625362 ATAGAAATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
37625390 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
37625415 GACACTTCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.01
27 51 0.74
28 17 0.25
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:37626856 original size:24 final size:24
Alignment explanation
Indices: 37626829--37626879 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
37626819 CTAGATTTCC
** *
37626829 TCCCTTATCTGCTCTTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
37626853 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
37626877 TCC
1 TCC
37626880 TGACAGACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.37, G:0.02, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:37631844 original size:27 final size:26
Alignment explanation
Indices: 37631824--37631894 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 26
37631814 ATATAGTGAG
37631824 TCCGCACACTTAGTGCTATATAATCAA
1 TCCGCACACTTAGTGCTATATAAT-AA
37631851 -CTCGCACACTTAGTGCTATATAATCAAA
1 TC-CGCACACTTAGTGCTATATAAT--AA
37631879 T-CGCACACTTAGTGCT
1 TCCGCACACTTAGTGCT
37631895 GTACGAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.30
Consensus pattern (26 bp):
TCCGCACACTTAGTGCTATATAATAA
Found at i:37637143 original size:40 final size:40
Alignment explanation
Indices: 37637035--37637244 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
37637025 CGGGATTTAA
* * * * *
37637035 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
37637075 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
37637115 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
37637155 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
37637195 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
37637235 CCGGATATAT
1 CCGGATATAT
37637245 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:37645278 original size:40 final size:40
Alignment explanation
Indices: 37645170--37645379 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
37645160 CGGGATTTAA
* * * * *
37645170 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
37645210 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
37645250 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
37645290 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
37645330 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
37645370 CCGGATATAT
1 CCGGATATAT
37645380 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:37647504 original size:31 final size:30
Alignment explanation
Indices: 37647468--37647537 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
37647458 ATTTAGCCCA
* *
37647468 TTTTCCTAATTACAATTGAATTTTAGCTTTC
1 TTTTCCTAACTA-AACTGAATTTTAGCTTTC
* * *
37647499 TTTTCCAAACTAAACTGAATTTTTGTTTTC
1 TTTTCCTAACTAAACTGAATTTTAGCTTTC
37647529 TTTCTCCTA
1 TTT-TCCTA
37647538 TTTCTTCCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 18 0.56
31 14 0.44
ACGTcount: A:0.24, C:0.19, G:0.06, T:0.51
Consensus pattern (30 bp):
TTTTCCTAACTAAACTGAATTTTAGCTTTC
Found at i:37648515 original size:34 final size:34
Alignment explanation
Indices: 37648487--37648551 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
37648477 TTGCTATCGA
* *
37648487 ATTGATTTTAGATAAGCATATTAATTGCTACCAT
1 ATTGATATGAGATAAGCATATTAATTGCTACCAT
* *
37648521 ATTGATATGATATAAGCATATTAAATGCTAC
1 ATTGATATGAGATAAGCATATTAATTGCTAC
37648552 TGGTTTGATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (34 bp):
ATTGATATGAGATAAGCATATTAATTGCTACCAT
Found at i:37654651 original size:49 final size:49
Alignment explanation
Indices: 37654593--37654816 Score: 288
Period size: 49 Copynumber: 4.5 Consensus size: 49
37654583 CTGGTACGCA
* * * *
37654593 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
37654642 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
37654691 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
37654741 TA-TAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
37654791 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
37654817 TGCGACCTCA
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
49 104 0.68
50 25 0.16
51 24 0.16
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:37654843 original size:100 final size:98
Alignment explanation
Indices: 37654580--37654834 Score: 318
Period size: 98 Copynumber: 2.6 Consensus size: 98
37654570 TAGCCAAAGC
* * **
37654580 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCAG-TACACGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAAT-CAGATACACGT
37654643 AGTAGCCTGCACTTAGTACTACACACGTGACCAAT
65 A-TAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * * * * *
37654678 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCAGATACACGTA
*
37654743 TAGCCTGCACTTAGTACTACACACGTGATCACAGT
66 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
37654778 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACAAT-AGAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCAGAT
37654835 CATTCGTATC
Statistics
Matches: 132, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
98 69 0.52
99 16 0.12
100 47 0.36
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (98 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCAGATACACGTA
TAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:37656979 original size:15 final size:14
Alignment explanation
Indices: 37656957--37657018 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 14
37656947 AAGAAAACGA
37656957 ATAAAGAAATCCAAG
1 ATAAAGAAA-CCAAG
* *
37656972 ATAGAGAAACCCAG
1 ATAAAGAAACCAAG
37656986 AATAAAGAAACC-AG
1 -ATAAAGAAACCAAG
37657000 AGTAAAGAAACCCAAG
1 A-TAAAGAAA-CCAAG
37657016 ATA
1 ATA
37657019 CGATACTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.03
14 14 0.35
15 22 0.55
16 3 0.08
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (14 bp):
ATAAAGAAACCAAG
Found at i:37656989 original size:30 final size:29
Alignment explanation
Indices: 37656955--37657013 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
37656945 ACAAGAAAAC
*
37656955 GAATAAAGAAATCCA-AGATAGAGAAACCCA
1 GAATAAAGAAA-CCAGAG-TAAAGAAACCCA
37656985 GAATAAAGAAACCAGAGTAAAGAAACCCA
1 GAATAAAGAAACCAGAGTAAAGAAACCCA
37657014 AGATACGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.58, C:0.17, G:0.17, T:0.08
Consensus pattern (29 bp):
GAATAAAGAAACCAGAGTAAAGAAACCCA
Found at i:37660112 original size:48 final size:48
Alignment explanation
Indices: 37659989--37660175 Score: 230
Period size: 49 Copynumber: 3.8 Consensus size: 48
37659979 TAGCCAAAGC
* * * *
37659989 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* *
37660037 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
1 -TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * *
37660086 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CA-A
* * *
37660137 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
37660176 TGCGACCTCA
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
48 42 0.34
49 43 0.35
50 2 0.02
51 35 0.29
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:37660167 original size:51 final size:48
Alignment explanation
Indices: 37659989--37660175 Score: 221
Period size: 48 Copynumber: 3.8 Consensus size: 48
37659979 TAGCCAAAGC
* * * * *
37659989 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AT
* *
37660038 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAT
* * *
37660086 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CA-T
* * *
37660137 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
37660176 TGCGACCTCA
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
48 43 0.36
49 41 0.34
50 2 0.02
51 35 0.29
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAT
Found at i:37660172 original size:99 final size:97
Alignment explanation
Indices: 37659989--37660175 Score: 257
Period size: 97 Copynumber: 1.9 Consensus size: 97
37659979 TAGCCAAAGC
* ** *
37659989 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCTGGTACACATAGTAGCCTGCACATAGTACTACACACACGACCAATTATCCGGTACACATAG
37660054 TAGCCTGCACTTAGTACTACACACGTGACCAA
66 TAGCCTGCACTTAGTACTACACACGTGACCAA
* * * * * * *
37660086 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGTTTTCGGGTACGCAT
1 TATCTGGTACACATAGTAGCCTGCACATAGTACTACACACACGA-C-CAATTATCCGGTACACAT
37660151 AGTAGCCTGCACTTAGTACTACACA
64 AGTAGCCTGCACTTAGTACTACACA
37660176 TGCGACCTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
97 38 0.49
98 1 0.01
99 38 0.49
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (97 bp):
TATCTGGTACACATAGTAGCCTGCACATAGTACTACACACACGACCAATTATCCGGTACACATAG
TAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:37662354 original size:14 final size:15
Alignment explanation
Indices: 37662312--37662370 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
37662302 CAAGAAAACT
*
37662312 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
37662327 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
37662342 GAATAAA-AAACCCA
1 GAATAAAGAAACCCA
*
37662356 GAGTAAAGAAACCCA
1 GAATAAAGAAACCCA
37662371 AGATACGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
14 14 0.38
15 22 0.59
16 1 0.03
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:37665463 original size:50 final size:49
Alignment explanation
Indices: 37665353--37665528 Score: 167
Period size: 50 Copynumber: 3.5 Consensus size: 49
37665343 CTGGTACGCA
* * * **
37665353 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCAGTACACG
*
37665402 TA-TGAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-CTGATACACG
1 TAGT-AGCCTGCACTTAGTACTACACACGTGACC-AACCATCCAG-TACACG
**** ** * *
37665452 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACCATCCAGTACACG
37665503 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
37665529 TGCGACCTCA
Statistics
Matches: 106, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
48 1 0.01
49 30 0.28
50 39 0.37
51 34 0.32
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCAGTACACG
Found at i:37668298 original size:43 final size:44
Alignment explanation
Indices: 37668231--37668381 Score: 182
Period size: 43 Copynumber: 3.5 Consensus size: 44
37668221 GAATACCGAG
* * * * *
37668231 ATGTGGTTACATGCAAGATCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
37668275 -TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
37668317 ATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
37668360 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACGTGTAAGACCAT
37668382 ATCTAGGATA
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 90 0.99
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (44 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:37671929 original size:47 final size:47
Alignment explanation
Indices: 37671875--37672015 Score: 273
Period size: 47 Copynumber: 3.0 Consensus size: 47
37671865 GAATTTAGTT
*
37671875 TTCTTTCTCCTACTTTTTCCCCATTTTCTTTTCTATATTCTTCTTTG
1 TTCTTTCTCCTACTTCTTCCCCATTTTCTTTTCTATATTCTTCTTTG
37671922 TTCTTTCTCCTACTTCTTCCCCATTTTCTTTTCTATATTCTTCTTTG
1 TTCTTTCTCCTACTTCTTCCCCATTTTCTTTTCTATATTCTTCTTTG
37671969 TTCTTTCTCCTACTTCTTCCCCATTTTCTTTTCTATATTCTTCTTTG
1 TTCTTTCTCCTACTTCTTCCCCATTTTCTTTTCTATATTCTTCTTTG
37672016 CATCATATTT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.09, C:0.29, G:0.02, T:0.60
Consensus pattern (47 bp):
TTCTTTCTCCTACTTCTTCCCCATTTTCTTTTCTATATTCTTCTTTG
Found at i:37673308 original size:46 final size:46
Alignment explanation
Indices: 37673231--37673361 Score: 140
Period size: 46 Copynumber: 2.9 Consensus size: 46
37673221 TTATTTACAA
* *
37673231 ATTTGTTGTGTATCCATAACCAAAGGAAGATTCCATATGTG-GGTT
1 ATTTGTTGTGTATCCACAACCAAAGGAAGATTCCATATGTGAGATT
* * * * * *
37673276 ATTTGCTGTGTAATCTACAACCAAAGGTAGATTTCATCTGCGAGATT
1 ATTTGTTGTGT-ATCCACAACCAAAGGAAGATTCCATATGTGAGATT
* * *
37673323 -TTTGTTGTGTACCCACAACCAGAGGCAGATTCCATATGT
1 ATTTGTTGTGTATCCACAACCAAAGGAAGATTCCATATGT
37673362 AGGACTTTTT
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
45 32 0.47
46 33 0.49
47 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (46 bp):
ATTTGTTGTGTATCCACAACCAAAGGAAGATTCCATATGTGAGATT
Found at i:37680342 original size:39 final size:40
Alignment explanation
Indices: 37680245--37680424 Score: 152
Period size: 40 Copynumber: 4.5 Consensus size: 40
37680235 AATGATGTCT
* * * * *
37680245 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTAATAAACCC
* * * *
37680285 GGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAATCC
1 GGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTAATAAACCC
* *
37680325 GGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAACCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATAAACCC
* * *
37680364 GGGTTAAGTCCCGAAGGCATTCGTGCAAGTCACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATA-AACCC
** *
37680404 GGGCTTCGTCCTGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
37680425 TGAGCGAGTC
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 33 0.29
40 73 0.63
41 9 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATAAACCC
Found at i:37680406 original size:79 final size:81
Alignment explanation
Indices: 37680245--37680426 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 81
37680235 AATGATGTCT
* * *
37680245 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGT
* *
37680309 GCGAGTTAATAAATCC
66 GCAAGTCAATAAATCC
* **
37680325 GGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTCG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTCG
*
37680387 TGCAAGTCACTATAA-CC
65 TGCAAGTCAATA-AATCC
** *
37680404 GGGCTTCGTCCTGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
37680427 AGCGAGTCGT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 55 0.64
80 30 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGT
GCAAGTCAATAAATCC
Found at i:37683363 original size:22 final size:22
Alignment explanation
Indices: 37683320--37683366 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
37683310 CACTAAGTTA
* *
37683320 ACAGGACGGCTCAATGCCGTAG
1 ACAGGAAGGCTCAATCCCGTAG
37683342 ACAGGAAGGCTCAA-CCCTGTAG
1 ACAGGAAGGCTCAATCCC-GTAG
37683364 ACA
1 ACA
37683367 TCGCAACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.32, C:0.28, G:0.28, T:0.13
Consensus pattern (22 bp):
ACAGGAAGGCTCAATCCCGTAG
Found at i:37683646 original size:27 final size:27
Alignment explanation
Indices: 37683616--37683685 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
37683606 ATATAGGGGT
*
37683616 ATTACGGTCATTTTACACTACAAGGGC
1 ATTACAGTCATTTTACACTACAAGGGC
*
37683643 ATTACAGTCATTTTACACTACAAGGGT
1 ATTACAGTCATTTTACACTACAAGGGC
*
37683670 ATTTA-AGTAATTTTAC
1 A-TTACAGTCATTTTAC
37683686 CAATATTGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 36 0.92
28 3 0.08
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (27 bp):
ATTACAGTCATTTTACACTACAAGGGC
Found at i:37683931 original size:17 final size:18
Alignment explanation
Indices: 37683909--37683951 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
37683899 TGTGGATTTG
37683909 AGGCCCACGA-GCCCAT-T
1 AGGCCCAC-ACGCCCATCT
37683926 AGGCCCACACGGCCCATCT
1 AGGCCCACAC-GCCCATCT
37683945 AGGCCCA
1 AGGCCCA
37683952 ACTAGGCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.04
17 8 0.35
18 6 0.26
19 8 0.35
ACGTcount: A:0.23, C:0.44, G:0.23, T:0.09
Consensus pattern (18 bp):
AGGCCCACACGCCCATCT
Found at i:37683947 original size:19 final size:19
Alignment explanation
Indices: 37683914--37683951 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
37683904 ATTTGAGGCC
37683914 CACGAGCCCATTAGGCCCA
1 CACGAGCCCATTAGGCCCA
37683933 CACG-GCCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
37683952 ACTAGGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.24, C:0.45, G:0.21, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:37686284 original size:20 final size:20
Alignment explanation
Indices: 37686259--37686301 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
37686249 TGGGTAGGGG
37686259 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
37686279 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
37686299 ACA
1 ACA
37686302 AGGTCTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.35, G:0.28, T:0.09
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:37697216 original size:21 final size:21
Alignment explanation
Indices: 37697192--37697241 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
37697182 TTCTCCTCTC
37697192 TTTT-TTTCTAATTTCTTTTCT
1 TTTTCTTTCTAA-TTCTTTTCT
* *
37697213 TTTTCTTTTTCATTCTTTTCT
1 TTTTCTTTCTAATTCTTTTCT
37697234 TTTTCTTT
1 TTTTCTTT
37697242 TGATTTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCTTTCTAATTCTTTTCT
Found at i:37699636 original size:44 final size:43
Alignment explanation
Indices: 37699525--37699639 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 43
37699515 AGCTCATACA
* *
37699525 ATGCCAACGTCCTAGACGTGGTCTTACATATAATCGAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCCAATATCG
* *
37699568 ATGCC-ACTGTCCCAGACAG-AGTCTTACATGTAAATCTCAA-ATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATAT-AATC-CAATATCG
* *
37699612 TTGCCAACATCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
37699640 CGAAATTACA
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.03
43 24 0.41
44 29 0.49
45 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATATAATCCAATATCG
Found at i:37702931 original size:17 final size:18
Alignment explanation
Indices: 37702889--37702937 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
37702879 AGTTGAAAAG
37702889 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
37702908 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
37702925 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
37702938 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:37703826 original size:40 final size:40
Alignment explanation
Indices: 37703760--37703926 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
37703750 AAATTGAATG
* * *
37703760 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
37703799 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
37703839 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
37703879 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
37703919 ATATCCGG
1 ATATCCGG
37703927 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:37710939 original size:17 final size:18
Alignment explanation
Indices: 37710897--37710945 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
37710887 AGTTGAAAAG
37710897 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
37710916 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
37710933 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
37710946 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:37718600 original size:29 final size:29
Alignment explanation
Indices: 37718567--37718726 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
37718557 GTGACGAGAT
37718567 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
37718596 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
37718625 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
37718654 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
37718683 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
37718712 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
37718727 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:37728107 original size:27 final size:27
Alignment explanation
Indices: 37728077--37728566 Score: 206
Period size: 27 Copynumber: 18.2 Consensus size: 27
37728067 TTTAATTTAC
*
37728077 TAAAATTACCGAAATACCCTTAGTTTG
1 TAAAATTACCGAAATACCCTTCGTTTG
* *
37728104 TAAAATTACTGAAATACCC-TCAATTTG
1 TAAAATTACCGAAATACCCTTC-GTTTG
* *
37728131 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTCG-TTTG
*
37728158 TAAAATTACC-AAATTACCC--CGGTTTA
1 TAAAATTACCGAAA-TACCCTTC-GTTTG
* * *
37728184 TAAAATTATCGAAATA-CCGTCGATTG
1 TAAAATTACCGAAATACCCTTCGTTTG
* *
37728210 TAAAATTACTGAAATACCC-TCAATTTG
1 TAAAATTACCGAAATACCCTTC-GTTTG
*
37728237 TAAAATTACC-AAAGTACCC-TCGATT-
1 TAAAATTACCGAAA-TACCCTTCGTTTG
* *** *
37728262 TACAGAATTATCGTTTTACCC-TCGATTTA
1 TA-A-AATTACCGAAATACCCTTCG-TTTG
* ** *
37728291 TAGAATTACC-ATTTTACCC-TCGATTTA
1 TAAAATTACCGA-AATACCCTTCG-TTTG
* * *** *
37728318 TAGAATTATCGTTTTACCC-TCGATTTA
1 TAAAATTACCGAAATACCCTTCG-TTTG
* *** ** *
37728345 TAGAATTACCGTTTTACCCTTAATTTA
1 TAAAATTACCGAAATACCCTTCGTTTG
* ** * *
37728372 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCGAAATACCCTTCGTTTG
* * **
37728399 CAAAATTACCAAAATACCC-TCGATCAG
1 TAAAATTACCGAAATACCCTTCG-TTTG
* * *
37728426 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCGAAATACCCTTCGTTTG
** * *
37728453 TAAAATTACTAAAATACCCCTGGTTTG
1 TAAAATTACCGAAATACCCTTCGTTTG
* *
37728480 TAAAATTACCAAAATACCCCT-GTCTTG
1 TAAAATTACCGAAATACCCTTCGT-TTG
*
37728507 TAAAATTACCAAAATACCCTT-GATTTG
1 TAAAATTACCGAAATACCCTTCG-TTTG
* * *
37728534 TGAAATTATCGAAATACTC-TCGATTTG
1 TAAAATTACCGAAATACCCTTCG-TTTG
37728561 TAAAAT
1 TAAAAT
37728567 ATTAAAATAC
Statistics
Matches: 380, Mismatches: 58, Indels: 50
0.78 0.12 0.10
Matches are distributed among these distances:
25 4 0.01
26 50 0.13
27 316 0.83
28 8 0.02
29 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTCGTTTG
Found at i:37728241 original size:53 final size:52
Alignment explanation
Indices: 37728077--37728261 Score: 212
Period size: 53 Copynumber: 3.5 Consensus size: 52
37728067 TTTAATTTAC
* *
37728077 TAAAATTACCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCTCAATTTG
1 TAAAATTA-CGAAATA-CCTTCGATTGTAAAATTACTGAAATACCCTCAATTTG
* ** *
37728131 TAAAATTACTGAAATACCTTCGACTTGTAAAATTAC-CAAATTACCC-CGGTTTA
1 TAAAATTAC-GAAATACCTTCGA-TTGTAAAATTACTGAAA-TACCCTCAATTTG
*
37728184 TAAAATTATCGAAATACCGTCGATTGTAAAATTACTGAAATACCCTCAATTTG
1 TAAAATTA-CGAAATACCTTCGATTGTAAAATTACTGAAATACCCTCAATTTG
* *
37728237 TAAAATTACCAAAGTACCCTCGATT
1 TAAAATTACGAAA-TACCTTCGATT
37728262 TACAGAATTA
Statistics
Matches: 111, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
52 21 0.19
53 58 0.52
54 32 0.29
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (52 bp):
TAAAATTACGAAATACCTTCGATTGTAAAATTACTGAAATACCCTCAATTTG
Found at i:37728281 original size:106 final size:108
Alignment explanation
Indices: 37728071--37728300 Score: 281
Period size: 106 Copynumber: 2.1 Consensus size: 108
37728061 GAATACTTTA
* *
37728071 ATTTACTAAAATTACCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCTCAATTTGTAAAA
1 ATTTA-TAAAATTACCGAAATACCCGTAGATTGTAAAATTACTGAAATACCCTCAATTTGTAAAA
* *
37728136 TTACTGAAATACCTTCGACTTGTAAAATTACCAAATTACCC-CG
65 TTACTCAAATACCCTCGACTTGTAAAATTACCAAATTACCCTCG
* * *
37728179 GTTTATAAAATTATCGAAATA-CCGTCGATTGTAAAATTACTGAAATACCCTCAATTTGTAAAAT
1 ATTTATAAAATTACCGAAATACCCGTAGATTGTAAAATTACTGAAATACCCTCAATTTGTAAAAT
* ***
37728243 TAC-CAAAGTACCCTCGA-TT-TACAGAATTATCGTTTTACCCTCG
66 TACTCAAA-TACCCTCGACTTGTA-A-AATTACCAAATTACCCTCG
*
37728286 ATTTATAGAATTACC
1 ATTTATAAAATTACC
37728301 ATTTTACCCT
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
104 2 0.02
105 6 0.06
106 63 0.61
107 29 0.28
108 4 0.04
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (108 bp):
ATTTATAAAATTACCGAAATACCCGTAGATTGTAAAATTACTGAAATACCCTCAATTTGTAAAAT
TACTCAAATACCCTCGACTTGTAAAATTACCAAATTACCCTCG
Found at i:37728417 original size:81 final size:81
Alignment explanation
Indices: 37728118--37728498 Score: 257
Period size: 81 Copynumber: 4.7 Consensus size: 81
37728108 ATTACTGAAA
* * * * * * * *
37728118 TACCCTCAATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAATTACCC-CGGTT
1 TACCCTTAATTTATAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATT
* * ***
37728182 TATAAAATTATCGAAA
66 TATAGAATTACCGTTT
* ** * * * * *
37728198 TACCGTCGA-TTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAGTACCCTCGATT
1 TACCCTTAATTTATAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATT
* *
37728262 TACAGAATTATCGTTT
66 TATAGAATTACCGTTT
** * * *** * * ****
37728278 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTTAATTTATAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATT
37728343 TATAGAATTACCGTTT
66 TATAGAATTACCGTTT
* * * *
37728359 TACCCTTAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-T
1 TACCCTTAATTTATAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATT
* * ****
37728423 CAGTAAAATTACCAAAA
66 TA-TAGAATTACCGTTT
* * * * *
37728440 TACCCCTAGTTTGTAAAATTACTAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCC
1 TACCCTTAATTTATAAAATTACTAAAATACCCTC-GATTTATAAAATTACCAAAATACCC
37728499 CTGTCTTGTA
Statistics
Matches: 237, Mismatches: 60, Indels: 7
0.78 0.20 0.02
Matches are distributed among these distances:
79 45 0.19
80 32 0.14
81 160 0.68
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (81 bp):
TACCCTTAATTTATAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATT
TATAGAATTACCGTTT
Found at i:37728534 original size:81 final size:80
Alignment explanation
Indices: 37728359--37728541 Score: 235
Period size: 81 Copynumber: 2.2 Consensus size: 80
37728349 ATTACCGTTT
** *
37728359 TACCCTTAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTT-ATTTGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATC
37728424 AGTAAAATTACCAAAA
65 AGTAAAATTACCAAAA
* **
37728440 TACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTG-T
1 TACCCTTA-TTTGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTC-GAT
*
37728503 CTTGTAAAATTACCAAAA
64 C-AGTAAAATTACCAAAA
*
37728521 TACCCTTGATTTGTGAAATTA
1 TACCCTT-ATTTGTAAAATTA
37728542 TCGAAATACT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
80 4 0.04
81 84 0.94
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (80 bp):
TACCCTTATTTGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATCA
GTAAAATTACCAAAA
Found at i:37728550 original size:81 final size:82
Alignment explanation
Indices: 37728373--37728525 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 82
37728363 CTTAATTTAC
* **
37728373 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCGATCAGTAAAATTACCA
37728437 AAATACCCCTAGTTTGT
66 AAATACCCCTAGTTTGT
*
37728454 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-G-TCTTGTAAAATTACC
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCGATC-AGTAAAATTACC
37728517 AAAATACCC
65 AAAATACCC
37728526 TTGATTTGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.91
82 4 0.06
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (82 bp):
AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCGATCAGTAAAATTACCA
AAATACCCCTAGTTTGT
Found at i:37728562 original size:54 final size:53
Alignment explanation
Indices: 37728077--37728566 Score: 292
Period size: 54 Copynumber: 9.1 Consensus size: 53
37728067 TTTAATTTAC
* *
37728077 TAAAATTACCGAAATACCCTT-AGTTTGTAAAATTACTGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTTGA-TTTGTAAAATTAC-GAAATACCCTCGATTTG
** * * * *
37728131 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAATTACCC-CGGTTTA
1 TAAAATTACCAAAATACCCTT-GATTTGTAAAATTACGAAA-TACCCTCGATTTG
* * * * *
37728184 TAAAATTATCGAAATACCGTCGA-TTGTAAAATTACTGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTTGATTTGTAAAATTAC-GAAATACCCTCGATTTG
* * ** * *** *
37728237 TAAAATTACCAAAGTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTTGATTTGTAAAATTA-CGAAATACCCTCGATTTG
* *** * * * *** *
37728291 TAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTTGATTTGTAAAATTA-CGAAATACCCTCGATTTG
* **** * ** * * * *
37728345 TAGAATTACCGTTTTACCCTTAATTTACAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTTGATTTGTAAAATTAC-GAAATACCCTCGATTTG
* * ** * *
37728399 CAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTTGATTTGTAAAATTA-CGAAATACCCTCGA-TTTG
* * * *
37728453 TAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTG-TCTTG
1 TAAAATTACCAAAATACCCTTGATTTGTAAAATTA-CGAAATACCCTC-GAT-TTG
* *
37728507 TAAAATTACCAAAATACCCTTGATTTGTGAAATTATCGAAATACTCTCGATTTG
1 TAAAATTACCAAAATACCCTTGATTTGTAAAATTA-CGAAATACCCTCGATTTG
37728561 TAAAAT
1 TAAAAT
37728567 ATTAAAATAC
Statistics
Matches: 348, Mismatches: 73, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
52 17 0.05
53 55 0.16
54 271 0.78
55 5 0.01
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (53 bp):
TAAAATTACCAAAATACCCTTGATTTGTAAAATTACGAAATACCCTCGATTTG
Found at i:37728609 original size:27 final size:27
Alignment explanation
Indices: 37728571--37728838 Score: 376
Period size: 27 Copynumber: 10.0 Consensus size: 27
37728561 TAAAATATTA
* *
37728571 AAATACCCCTATAGGGTAGAATGACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
37728598 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
37728625 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
37728652 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
37728679 AAATAACCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
37728706 AAATACCCCTATAGTGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
37728733 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*** *
37728760 AAATACAATTGTAGGGTA-AAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
37728786 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
37728813 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
37728839 ATTTTGCCCC
Statistics
Matches: 216, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 22 0.10
27 194 0.90
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:37729150 original size:24 final size:25
Alignment explanation
Indices: 37729043--37729137 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
37729033 AGGAAGTGCT
*
37729043 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
37729068 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
37729093 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
37729118 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
37729138 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:37731050 original size:8 final size:9
Alignment explanation
Indices: 37731029--37731053 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37731019 TTGGTGTTGT
37731029 TTTTTGATG
1 TTTTTGATG
37731038 TTTTTGATG
1 TTTTTGATG
37731047 TTTTTGA
1 TTTTTGA
37731054 GATCCTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (9 bp):
TTTTTGATG
Found at i:37732109 original size:46 final size:47
Alignment explanation
Indices: 37732001--37732198 Score: 155
Period size: 46 Copynumber: 4.2 Consensus size: 47
37731991 CCATATTTGG
* * *
37732001 TGGCATCGGCATA-GAGACG-AGAGCTAGTGTTAGA-CATGTCTGGGATA
1 TGGCATCGGC-TACGAGATGTA-AGCT-GTGTAAGACCATGTCTGGGACA
*
37732048 T-GCATTGGCCT-CGAGATGTAAGCCTGTGTAAGA-CATGTCTGGGACA
1 TGGCATCGG-CTACGAGATGTAAG-CTGTGTAAGACCATGTCTGGGACA
* *
37732094 T-GCATCGGCTACGAGATGT--GTCAGTGTAAGACCATGTATGGGACA
1 TGGCATCGGCTACGAGATGTAAG-CTGTGTAAGACCATGTCTGGGACA
* * *
37732139 TGGCATCGAC-ACAAATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACA
1 TGGCATCGGCTAC-GAGATGT-A-AGCT-GTGTAAGACCATGTCTGGGACA
37732189 TGGCATCGGC
1 TGGCATCGGC
37732199 ATTATACCCT
Statistics
Matches: 124, Mismatches: 14, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
44 10 0.08
45 17 0.14
46 60 0.48
47 5 0.04
49 1 0.01
50 31 0.25
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
TGGCATCGGCTACGAGATGTAAGCTGTGTAAGACCATGTCTGGGACA
Found at i:37735806 original size:2 final size:2
Alignment explanation
Indices: 37735799--37735832 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
37735789 ACTTTGCCTG
*
37735799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37735833 GGGAAGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:37737869 original size:46 final size:46
Alignment explanation
Indices: 37737802--37737930 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
37737792 TGTAACCCGC
* * * *
37737802 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
37737848 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
37737894 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37737931 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37737949 original size:46 final size:45
Alignment explanation
Indices: 37737810--37737949 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
37737800 GCCCATAAGC
* ** * *
37737810 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
37737856 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
37737902 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
37737948 GA
1 GA
37737950 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:37745431 original size:46 final size:46
Alignment explanation
Indices: 37745330--37745417 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
37745320 TGTAACCCGC
* * * *
37745330 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
37745376 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
37745418 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:37754665 original size:36 final size:36
Alignment explanation
Indices: 37754625--37754697 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
37754615 ACAATATGGC
* *
37754625 TTATGTTGTAGGTAAATAACAATAAAGTAGGCCATA
1 TTATGATGTAGGAAAATAACAATAAAGTAGGCCATA
37754661 TTATGATGTAGGAAAATAACAATAAAGTAGGCCATA
1 TTATGATGTAGGAAAATAACAATAAAGTAGGCCATA
37754697 T
1 T
37754698 AGCTCAAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (36 bp):
TTATGATGTAGGAAAATAACAATAAAGTAGGCCATA
Found at i:37758338 original size:40 final size:40
Alignment explanation
Indices: 37758293--37758460 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
37758283 CGGAATACAA
*
37758293 CCGGATATAACCACACGCATGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
37758333 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
37758373 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
37758413 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
37758453 CCGGATAT
1 CCGGATAT
37758461 CATTCAATTG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 107 0.96
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:37758433 original size:80 final size:80
Alignment explanation
Indices: 37758293--37758460 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
37758283 CGGAATACAA
* * *
37758293 CCGGATATAACCACACGCATGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
37758358 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
37758373 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
37758436 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
37758453 CCGGATAT
1 CCGGATAT
37758461 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:37769585 original size:18 final size:18
Alignment explanation
Indices: 37769562--37769597 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
37769552 CTTCAAAGTT
37769562 TTTTAATGATTTCTTGTG
1 TTTTAATGATTTCTTGTG
*
37769580 TTTTAATGATTTTTTGTG
1 TTTTAATGATTTCTTGTG
37769598 GATATTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.17, T:0.64
Consensus pattern (18 bp):
TTTTAATGATTTCTTGTG
Found at i:37771650 original size:16 final size:16
Alignment explanation
Indices: 37771629--37771659 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
37771619 ATTTCTTAGT
37771629 GGATCAACTATTCAGC
1 GGATCAACTATTCAGC
37771645 GGATCAACTATTCAG
1 GGATCAACTATTCAG
37771660 GAGAGGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (16 bp):
GGATCAACTATTCAGC
Found at i:37772574 original size:19 final size:19
Alignment explanation
Indices: 37772550--37772640 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
37772540 ATAATCTTCA
37772550 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
37772569 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
37772588 AT-A-ATACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
37772605 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
37772623 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
37772641 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 19 0.28
19 33 0.49
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:37772621 original size:35 final size:38
Alignment explanation
Indices: 37772550--37772647 Score: 143
Period size: 36 Copynumber: 2.7 Consensus size: 38
37772540 ATAATCTTCA
*
37772550 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATATACAATCTTAGATATGATATGCAATCTTAGAT
37772588 AT-A-ATACAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATATACAATCTTAGATATGATATGCAATCTTAGAT
*
37772623 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATATACAATCTTAGATATGATATG
37772648 ATTTTGTAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
35 18 0.33
36 22 0.40
37 13 0.24
38 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (38 bp):
ATGATATACAATCTTAGATATGATATGCAATCTTAGAT
Found at i:37772666 original size:22 final size:22
Alignment explanation
Indices: 37772550--37772663 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
37772540 ATAATCTTCA
37772550 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
37772569 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
37772588 AT-A-ATACAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
37772605 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
37772623 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
37772645 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
37772664 GATTTAATTT
Statistics
Matches: 84, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
17 15 0.18
18 19 0.23
19 30 0.36
22 8 0.10
23 12 0.14
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:37772953 original size:19 final size:19
Alignment explanation
Indices: 37772929--37772968 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
37772919 CATGTTTCCC
*
37772929 TAATTTCTTTTATAT-ATTT
1 TAATTT-TTTTAAATAATTT
37772948 TAATTTTTTTAAATAATTT
1 TAATTTTTTTAAATAATTT
37772967 TA
1 TA
37772969 GTATCATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTTTTTAAATAATTT
Found at i:37778371 original size:40 final size:40
Alignment explanation
Indices: 37778326--37778493 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
37778316 CGGAATAAAA
37778326 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
37778366 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
37778406 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
37778446 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
37778486 CCGGATAT
1 CCGGATAT
37778494 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:37784989 original size:2 final size:2
Alignment explanation
Indices: 37784982--37785015 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
37784972 AGCATAGTTG
*
37784982 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37785016 TCGACCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:37785682 original size:29 final size:28
Alignment explanation
Indices: 37785649--37785747 Score: 119
Period size: 29 Copynumber: 3.5 Consensus size: 28
37785639 GACGAGAATG
* *
37785649 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-GAAATATATA
*
37785678 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAA-TATATA
* * *
37785707 GCACTATGTGTGCGAGCTG-ATTTTATA
1 GCACTAAGTGTGCGAGCTGAAATATATA
37785734 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37785748 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
27 18 0.30
28 4 0.07
29 39 0.64
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGCTGAAATATATA
Found at i:37788447 original size:11 final size:12
Alignment explanation
Indices: 37788420--37788453 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
37788410 ATATATTCTC
37788420 TTTTTTTCACAAG
1 TTTTTTTCA-AAG
37788433 TTTTTTTCAAA-
1 TTTTTTTCAAAG
37788444 TTTTTTTCAA
1 TTTTTTTCAA
37788454 CTAATTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 2 0.10
13 9 0.43
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.62
Consensus pattern (12 bp):
TTTTTTTCAAAG
Found at i:37790030 original size:26 final size:26
Alignment explanation
Indices: 37790001--37790051 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
37789991 CTATGCTCAC
37790001 ATCATTTCCTCGTTTTCATAAGTGCA
1 ATCATTTCCTCGTTTTCATAAGTGCA
37790027 ATCATTTCCTCGTTTTCATAAGTGC
1 ATCATTTCCTCGTTTTCATAAGTGC
37790052 TTGTTTGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.43
Consensus pattern (26 bp):
ATCATTTCCTCGTTTTCATAAGTGCA
Found at i:37791808 original size:21 final size:20
Alignment explanation
Indices: 37791771--37791816 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
37791761 TGATGAACAC
*
37791771 ATGAT-TATTTTGATGTTTA
1 ATGATATATTATGATGTTTA
*
37791790 ATGATATATTATGAATGTTTG
1 ATGATATATTATG-ATGTTTA
37791811 ATGATA
1 ATGATA
37791817 GTTATACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.22
20 6 0.26
21 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (20 bp):
ATGATATATTATGATGTTTA
Found at i:37795974 original size:17 final size:17
Alignment explanation
Indices: 37795952--37796036 Score: 70
Period size: 17 Copynumber: 5.1 Consensus size: 17
37795942 GTTAGATTTG
37795952 AAACTATAGAATGTGAA
1 AAACTATAGAATGTGAA
37795969 AAACTATAG-AT-TGAGA
1 AAACTATAGAATGTGA-A
* *
37795985 CAACTATAGACTGTGAA
1 AAACTATAGAATGTGAA
* *
37796002 AAGCTATAG--TTTGAGA
1 AAACTATAGAATGTGA-A
* *
37796018 CAACTATAGACTGTGAA
1 AAACTATAGAATGTGAA
37796035 AA
1 AA
37796037 CTCTACATAG
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
15 7 0.13
16 19 0.36
17 20 0.38
18 7 0.13
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.25
Consensus pattern (17 bp):
AAACTATAGAATGTGAA
Found at i:37795991 original size:33 final size:33
Alignment explanation
Indices: 37795953--37796036 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
37795943 TTAGATTTGA
*
37795953 AACTATAGAATGTGAAAAACTATAGATTGAGAC
1 AACTATAGACTGTGAAAAACTATAGATTGAGAC
* *
37795986 AACTATAGACTGTGAAAAGCTATAGTTTGAGAC
1 AACTATAGACTGTGAAAAACTATAGATTGAGAC
37796019 AACTATAGACTGTGAAAA
1 AACTATAGACTGTGAAAA
37796037 CTCTACATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (33 bp):
AACTATAGACTGTGAAAAACTATAGATTGAGAC
Found at i:37796038 original size:16 final size:16
Alignment explanation
Indices: 37795952--37796038 Score: 84
Period size: 16 Copynumber: 5.3 Consensus size: 16
37795942 GTTAGATTTG
*
37795952 AAACTATAGAATGTGAA
1 AAACTATAGACTGTG-A
* *
37795969 AAACTATAGATTGAGA
1 AAACTATAGACTGTGA
*
37795985 CAACTATAGACTGTGA
1 AAACTATAGACTGTGA
** *
37796001 AAAGCTATAGTTTGAGA
1 AAA-CTATAGACTGTGA
*
37796018 CAACTATAGACTGTGA
1 AAACTATAGACTGTGA
37796034 AAACT
1 AAACT
37796039 CTACATAGTG
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
16 30 0.55
17 25 0.45
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.25
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:37801146 original size:40 final size:39
Alignment explanation
Indices: 37801052--37801283 Score: 232
Period size: 40 Copynumber: 5.8 Consensus size: 39
37801042 TATTCAAATG
* * * *
37801052 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCTA-GCGACT
* * ** * *
37801093 ATAACCGGACTAAGATTCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCTAG-CGACT
*
37801133 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCTAGCGACT
*
37801173 ATATCCGGGCTAAGACTCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCTAGCGACT
* * * *
37801213 ATATCTGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCAT-TGTGCTAGCGACT
* *
37801253 ACATCCGGGCTAAGACCCGAAGGCCTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTGTGC
37801284 AAGTAGTTAT
Statistics
Matches: 159, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
39 8 0.05
40 123 0.77
41 28 0.18
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCTAGCGACT
Found at i:37801223 original size:80 final size:80
Alignment explanation
Indices: 37801052--37801312 Score: 287
Period size: 80 Copynumber: 3.3 Consensus size: 80
37801042 TATTCAAATG
* * * *
37801052 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATTCGAAGGC
1 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACTCGAAGGC
*
37801117 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
37801133 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACTCGAAGGCA
1 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGC-
*
37801198 ATT-GTGCTAG-CGACT
65 ATTCGTGCGAGTCG-CT
* * * * *
37801213 ATATCTGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
* * *
37801278 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
* *
37801292 ATATC-CGGCTAAATCCCGAAG
1 ATATCTGGGCTAAGTCCCGAAG
37801313 ATTACTTGAG
Statistics
Matches: 153, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 14 0.09
79 15 0.10
80 90 0.59
81 34 0.22
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:37804561 original size:58 final size:58
Alignment explanation
Indices: 37804380--37804568 Score: 175
Period size: 58 Copynumber: 3.3 Consensus size: 58
37804370 CACTCGATTT
* * * *** * *
37804380 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
** * ** * * *
37804438 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
37804496 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
37804554 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
37804569 AATCTCGTCA
Statistics
Matches: 103, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 95 0.92
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:37804569 original size:29 final size:29
Alignment explanation
Indices: 37804380--37804569 Score: 159
Period size: 29 Copynumber: 6.6 Consensus size: 29
37804370 CACTCGATTT
* *
37804380 CGCACACTTAGTGCCACGTA-ATTT-AAGCC
1 CGCACACTTAGTGCCA--TATATTTCCAGCA
** *** * *
37804409 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** * * *
37804438 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * * *
37804467 TGCACACATAGTGTCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
37804496 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37804525 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37804554 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
37804570 ATCTCGTCAC
Statistics
Matches: 136, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
27 2 0.01
28 2 0.01
29 132 0.97
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:37811766 original size:58 final size:58
Alignment explanation
Indices: 37811585--37811773 Score: 175
Period size: 58 Copynumber: 3.3 Consensus size: 58
37811575 CACTCGATTT
* * * *** * *
37811585 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
** * ** * * *
37811643 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
37811701 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
37811759 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
37811774 AATCTCGTCA
Statistics
Matches: 103, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 95 0.92
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:37811774 original size:29 final size:29
Alignment explanation
Indices: 37811585--37811774 Score: 159
Period size: 29 Copynumber: 6.6 Consensus size: 29
37811575 CACTCGATTT
* *
37811585 CGCACACTTAGTGCCACGTA-ATTT-AAGCC
1 CGCACACTTAGTGCCA--TATATTTCCAGCA
** *** * *
37811614 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** * * *
37811643 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * * *
37811672 TGCACACATAGTGTCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
37811701 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37811730 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37811759 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
37811775 ATCTCGTCAC
Statistics
Matches: 136, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
27 2 0.01
28 2 0.01
29 132 0.97
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Done.