Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 178 of 344
Found at i:59428622 original size:43 final size:43
Alignment explanation
Indices: 59428575--59428659 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
59428565 TAGCCCAATT
*
59428575 ATGGTCTTACACGAAATTAAATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
* * * *
59428618 ATGGTCTTACATGTAATCACATAATGATGCCAATGTCCCAGA
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGA
59428660 TGTAATAGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
Found at i:59430542 original size:27 final size:26
Alignment explanation
Indices: 59430494--59430553 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
59430484 GCGAGGCTGC
*
59430494 CAGATATTGTGACGAAGTCACCAAATA
1 CAGATATTGTGACGAAGCCACCAAA-A
* * * *
59430521 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAAAA
59430547 CAGATAT
1 CAGATAT
59430554 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:59430644 original size:27 final size:26
Alignment explanation
Indices: 59430596--59430647 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59430586 GCGAGGCTGC
*
59430596 CAGATATTGTGGCAAAGTCACCAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
* *
59430622 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGGCAAAGCCACCAGA
59430648 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:59431507 original size:37 final size:37
Alignment explanation
Indices: 59431457--59431532 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
59431447 TCACGCCACC
59431457 ACCACTAGGCCATCAACTCATTTGTGTCATAAATCCA
1 ACCACTAGGCCATCAACTCATTTGTGTCATAAATCCA
59431494 ACCACTAGGCCATCAACTCATTTGTGTCATAAATCCA
1 ACCACTAGGCCATCAACTCATTTGTGTCATAAATCCA
59431531 AC
1 AC
59431533 ACATTAAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (37 bp):
ACCACTAGGCCATCAACTCATTTGTGTCATAAATCCA
Found at i:59437193 original size:46 final size:46
Alignment explanation
Indices: 59437143--59437265 Score: 219
Period size: 46 Copynumber: 2.7 Consensus size: 46
59437133 TTGAGCATCT
* *
59437143 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
59437189 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
*
59437235 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59437266 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
Found at i:59441358 original size:40 final size:40
Alignment explanation
Indices: 59441280--59441500 Score: 313
Period size: 40 Copynumber: 5.5 Consensus size: 40
59441270 ACCCAAGTAT
* *
59441280 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
59441319 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
59441359 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
59441399 CTACGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
59441439 CTTCGGGACTTAGCCCGGATATAG-CAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
59441479 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
59441501 CATCCGAATA
Statistics
Matches: 164, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 11 0.07
40 152 0.93
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:59447281 original size:46 final size:46
Alignment explanation
Indices: 59447231--59447403 Score: 196
Period size: 46 Copynumber: 3.7 Consensus size: 46
59447221 TGGTTGAGCA
59447231 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59447277 TCCGAACTCATTGAGTTGAGTCCGAG-T---TTGTGAAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
59447322 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
59447370 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59447404 GGGGTGGGTT
Statistics
Matches: 106, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
45 4 0.04
46 55 0.52
47 25 0.24
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59447387 original size:93 final size:93
Alignment explanation
Indices: 59447228--59447397 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59447218 GGATGGTTGA
59447228 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
59447293 TGAGTCCGAGTTTGTGAAATGTAACTAG
66 TGAGTCCGAGTTTGTGAAATGTAACTAG
* *
59447321 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCATTGAG
59447385 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
59447398 CACTTAGGGG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
TGAGTCCGAGTTTGTGAAATGTAACTAG
Found at i:59452815 original size:46 final size:46
Alignment explanation
Indices: 59452765--59452937 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
59452755 TGGTTGAGCA
59452765 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59452811 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59452856 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59452904 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59452938 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59452921 original size:93 final size:93
Alignment explanation
Indices: 59452762--59452932 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59452752 GGATGGTTGA
* *
59452762 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59452827 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
59452855 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
59452920 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
59452933 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59456246 original size:46 final size:46
Alignment explanation
Indices: 59456196--59456368 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
59456186 TGGTTGAGCA
*
59456196 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
59456242 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
** *
59456287 CATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
59456335 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59456369 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 57 0.55
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:59456352 original size:93 final size:93
Alignment explanation
Indices: 59456193--59456363 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
59456183 GGATGGTTGA
* * *
59456193 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
59456258 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
59456286 GCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
59456351 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59456364 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59459653 original size:29 final size:29
Alignment explanation
Indices: 59459590--59459657 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
59459580 TAATCAACCG
*
59459590 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
**
59459619 -GACACACTTAGTGCCATGCA-TTTCAAGTT
1 CG-CACACTTAGTGCCATGCACTTT-AAACT
59459648 CGCACACTTA
1 CGCACACTTA
59459658 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 4 0.12
29 28 0.85
30 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:59459769 original size:174 final size:174
Alignment explanation
Indices: 59459479--59459980 Score: 925
Period size: 174 Copynumber: 2.9 Consensus size: 174
59459469 AACTCAAGGT
* *
59459479 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
59459544 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
59459609 ACTTTAAACTGACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTGACACACTTAGTGCCATGCATATCAAGTTCGCAC
59459653 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
59459718 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
59459783 ACTTTAAACTCACACACTTAGTGCCATGCATATCAAGTTCGCAC
131 ACTTTAAACTGACACACTTAGTGCCATGCATATCAAGTTCGCAC
59459827 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
59459892 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
59459957 ACTTTAAACTCG-CACACTTAGTGC
131 ACTTTAAACT-GACACACTTAGTGC
59459981 TGTACAATTT
Statistics
Matches: 317, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
174 317 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTGACACACTTAGTGCCATGCATATCAAGTTCGCAC
Found at i:59459827 original size:29 final size:29
Alignment explanation
Indices: 59459764--59459831 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
59459754 TAATCAACCG
*
59459764 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTCAAACT
* **
59459793 CACACACTTAGTGCCATGCA-TATCAAGTT
1 CGCACACTTAGTGCCATGCACT-TCAAACT
59459822 CGCACACTTA
1 CGCACACTTA
59459832 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTCAAACT
Found at i:59459972 original size:29 final size:30
Alignment explanation
Indices: 59459933--59460011 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
59459923 CTTAATAATC
59459933 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
59459963 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
59459992 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
59460012 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:59466569 original size:41 final size:41
Alignment explanation
Indices: 59466512--59466608 Score: 185
Period size: 41 Copynumber: 2.4 Consensus size: 41
59466502 GGCATCATAT
*
59466512 TGGGACATTGGCATCGTTTTGTGATTTTGTGTAACCATGTC
1 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTC
59466553 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTC
1 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTC
59466594 TGGGACATTGGCATC
1 TGGGACATTGGCATC
59466609 ATATTGGGAC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (41 bp):
TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTC
Found at i:59466617 original size:60 final size:63
Alignment explanation
Indices: 59466553--59466675 Score: 207
Period size: 60 Copynumber: 2.0 Consensus size: 63
59466543 TAACCATGTC
*
59466553 TGGGACATTGGCATCGTTATGTGATTTTGTGT-A-ACCATGTCTGGGACATTGGCATC-ATAT
1 TGGGACATTGGCATCGTTATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT
*
59466613 TGGGACATTGGCATCGTTATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGGATCGATAT
1 TGGGACATTGGCATCGTTATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT
59466676 GTGATAACAT
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
60 31 0.53
61 1 0.02
62 22 0.38
63 4 0.07
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (63 bp):
TGGGACATTGGCATCGTTATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT
Found at i:59466677 original size:43 final size:43
Alignment explanation
Indices: 59466608--59466711 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 43
59466598 ACATTGGCAT
* ** * *
59466608 CATAT-TGGGACATTGGCATCGTTATGTGATTTCGTGTAAGAC
1 CATATCTGGGACATTGGCATCGATATGTGATAACATGAAAGAC
* *
59466650 CATGTCTGGGACATTGGGATCGATATGTGATAACATGAAAGAC
1 CATATCTGGGACATTGGCATCGATATGTGATAACATGAAAGAC
*
59466693 CATATCTGGGATA-TGGCAT
1 CATATCTGGGACATTGGCAT
59466712 TATATTTGCT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 9 0.18
43 42 0.82
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (43 bp):
CATATCTGGGACATTGGCATCGATATGTGATAACATGAAAGAC
Found at i:59472126 original size:67 final size:67
Alignment explanation
Indices: 59472005--59472158 Score: 256
Period size: 67 Copynumber: 2.3 Consensus size: 67
59471995 CACCACAGAA
* *
59472005 ATTGCAGCGAGGCTGCCAGATATAGTGACGAAGTCACCGGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATAGTGACGAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
59472070 AG
66 AG
*
59472072 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGCTGCCAGATATAGTGACGAAGTCACCAGATACAGATAT-TGTGGCGAGGCCAC
59472136 CAG
65 CAG
*
59472139 ATTGCAACGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
59472159 ACACTTCCTC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
66 8 0.10
67 74 0.90
ACGTcount: A:0.29, C:0.23, G:0.30, T:0.18
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATAGTGACGAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
AG
Found at i:59472136 original size:27 final size:26
Alignment explanation
Indices: 59472088--59472139 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59472078 GCGAGGCTGC
*
59472088 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
59472114 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
59472140 TTGCAACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:59480307 original size:55 final size:55
Alignment explanation
Indices: 59480227--59480351 Score: 162
Period size: 55 Copynumber: 2.3 Consensus size: 55
59480217 GTTAATTTAA
* *
59480227 CAGGTTCGACCACGGGTGTTCCACACGGGCATGTCAAACACCCGT-TCTGTTTTGG
1 CAGGCTCGACCACGGGTCTTCCACACGGGCATGTCAAACACCCGTGT-TGTTTTGG
* * ** *
59480282 CAGGCTCGACCACGGTTCTTTCACACGGGCATGTCGCACACCTGTGTTGTTTTGG
1 CAGGCTCGACCACGGGTCTTCCACACGGGCATGTCAAACACCCGTGTTGTTTTGG
*
59480337 CAGGCTTGACCACGG
1 CAGGCTCGACCACGG
59480352 CCATATAGCA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 60 0.98
56 1 0.02
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.26
Consensus pattern (55 bp):
CAGGCTCGACCACGGGTCTTCCACACGGGCATGTCAAACACCCGTGTTGTTTTGG
Found at i:59483986 original size:14 final size:15
Alignment explanation
Indices: 59483962--59483990 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59483952 AGGTATCAAA
59483962 ACAATAATTAAGAAC
1 ACAATAATTAAGAAC
59483977 ACAA-AATTAAGAAC
1 ACAATAATTAAGAAC
59483991 TAGTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (15 bp):
ACAATAATTAAGAAC
Found at i:59485791 original size:24 final size:26
Alignment explanation
Indices: 59485759--59485818 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 26
59485749 TCATTGATGG
* *
59485759 TGAATTGGTTATTTAGGTACA-G-TT
1 TGAAATGGTTATTAAGGTACATGTTT
* *
59485783 TGAAATGGTAATTAATGTACATGTTT
1 TGAAATGGTTATTAAGGTACATGTTT
*
59485809 TTAAATGGTT
1 TGAAATGGTT
59485819 TGGTTTGATC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 17 0.61
25 1 0.04
26 10 0.36
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (26 bp):
TGAAATGGTTATTAAGGTACATGTTT
Found at i:59493759 original size:46 final size:46
Alignment explanation
Indices: 59493587--59493756 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 46
59493577 TGTAACCCGC
* * *
59493587 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGAAT
* * *
59493633 CCATAAGTGAACTCGGACTCAACTCAACGAGCT-GGA-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAT-TCGA-AT
* *** *
59493679 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAAT
59493726 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
59493757 TTCAGATGCC
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 61 0.60
47 29 0.29
48 5 0.05
49 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGAAT
Found at i:59496175 original size:15 final size:15
Alignment explanation
Indices: 59496151--59496198 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
59496141 AGGAAACTGA
59496151 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
59496166 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
59496180 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
59496196 ATA
1 ATA
59496199 CGATACTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59499269 original size:93 final size:93
Alignment explanation
Indices: 59499162--59499333 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
59499152 GCCCATAAGT
* * *
59499162 GAACTCGGACTCAACTCAATGAGCTC-GAGCGTTTGCAGCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAATGAGCTCGGA-CATTCGCAGCCATAAGTGAACTCGGACTCAACTCA
59499226 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
59499255 GAACTCAGACTCAACTCAATGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGCTCGGACATTCGCAGCCATAAGTGAACTCGGACTCAACTCAA
*
59499320 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
59499334 CAAATATCCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAATGAGCTCGGACATTCGCAGCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:59499313 original size:46 final size:46
Alignment explanation
Indices: 59499154--59499325 Score: 136
Period size: 46 Copynumber: 3.7 Consensus size: 46
59499144 TGTAACCCGC
* * * * * *
59499154 CCATAAGTGAACTCGGACTCAACTCAATGAG-CTCGAGCGTTTGCAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGA-CATTCGCAT
* * *
59499200 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGC-A--T
* *** * *
59499246 ACATCTCTCGAACTCAGACTCAACTCAATGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
59499293 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
59499326 CGGATGCCCA
Statistics
Matches: 95, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
46 57 0.60
47 30 0.32
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
Found at i:59517371 original size:15 final size:15
Alignment explanation
Indices: 59517351--59517415 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
59517341 ATATCTTGGG
59517351 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
59517366 TTTCTTTATTTTGGG
1 TTTCTTTATTCTGGA
*
59517381 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
59517396 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
59517410 TTTCTT
1 TTTCTT
59517416 GTTATCTTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 9 0.22
15 30 0.73
16 2 0.05
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59517382 original size:30 final size:30
Alignment explanation
Indices: 59517346--59517405 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
59517336 GTATCATATC
*
59517346 TTGGGTTTCTTTAT-TCTGGATTTCTTTATT
1 TTGGGTTTCTCTATCT-TGGATTTCTTTATT
59517376 TTGGGTTTCTCTATCTTGGATTTCTTTATT
1 TTGGGTTTCTCTATCTTGGATTTCTTTATT
59517406 CGGTTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.62
Consensus pattern (30 bp):
TTGGGTTTCTCTATCTTGGATTTCTTTATT
Found at i:59519838 original size:47 final size:46
Alignment explanation
Indices: 59519787--59520005 Score: 200
Period size: 47 Copynumber: 4.7 Consensus size: 46
59519777 CGGATTTTTG
* *
59519787 GGCATTCGAACTTGTTAAGTTGAGTCCGAGTTCATTAGATGTAACTA
1 GGCA-TCGAACTCGTTGAGTTGAGTCCGAGTTCATTAGATGTAACTA
* *
59519834 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAAC--
1 GGCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCA-TTA--GATGT-AACTA
* *
59519883 GTC-T-GAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTA
1 GGCATCGAACTCGTTGAGTTGAGTCCGAGTTCATTAGATGTAACTA
* *
59519927 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A
1 GGCATC-GAACTCGTTGAGTTGAGTCCGAGTTCA-TTA--GATGTAACTA
* * *
59519975 TGC-CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCGAACTCGTTGAGTTGAGTCCGAGTTC
59520006 GCTTATGGGC
Statistics
Matches: 145, Mismatches: 14, Indels: 27
0.78 0.08 0.15
Matches are distributed among these distances:
42 3 0.02
43 5 0.03
44 2 0.01
45 3 0.02
46 52 0.36
47 55 0.38
48 9 0.06
49 2 0.01
50 11 0.08
51 3 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
GGCATCGAACTCGTTGAGTTGAGTCCGAGTTCATTAGATGTAACTA
Found at i:59519905 original size:46 final size:45
Alignment explanation
Indices: 59519841--59520013 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
59519831 CTAGGCATCC
*
59519841 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGTCT
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-AACGTCT
* *
59519887 GAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCATCT
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAC---G--TCT
* * * *
59519934 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-TAACGTCT
*
59519980 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59520014 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
45 3 0.03
46 59 0.55
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (45 bp):
GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAACGTCT
Found at i:59519911 original size:93 final size:93
Alignment explanation
Indices: 59519793--59520005 Score: 327
Period size: 93 Copynumber: 2.3 Consensus size: 93
59519783 TTTGGGCATT
* * *
59519793 CGAACTTGTTAAGTTGAGTCCGAGTTCATTAGATGTAACTAGGCATCCGAGCTCGTTGAGTTGAG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTGAG
* ** *
59519858 TCTGAGTTCACTTATGGATGTGAACGTC
66 TCCGAGTTCACTTATGGATGCAAACGCC
* *
59519886 TGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCTGAGCTCGTTGAGTTGAG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTGAG
*
59519951 TCCGAGTTCACTTATGGATGCAAATGCC
66 TCCGAGTTCACTTATGGATGCAAACGCC
*
59519979 CGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC
59520006 GCTTATGGGC
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 108 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (93 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTGAG
TCCGAGTTCACTTATGGATGCAAACGCC
Found at i:59524304 original size:45 final size:45
Alignment explanation
Indices: 59524239--59524331 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
59524229 CGAAATTCTA
* * *
59524239 GAGTTGAAAGAATTCATCGTTCTGGTTGAGAGGGCTTGTGAAGTC
1 GAGTTGAAAGAATTCATCGTTCTGGTTGAAAGGGCTTGTAAAGCC
*
59524284 GAGTTGAAAGAATTCCTCGTTCTGGTTGAAAGGGCTTGTAAAGCC
1 GAGTTGAAAGAATTCATCGTTCTGGTTGAAAGGGCTTGTAAAGCC
59524329 GAG
1 GAG
59524332 GATCTTAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (45 bp):
GAGTTGAAAGAATTCATCGTTCTGGTTGAAAGGGCTTGTAAAGCC
Found at i:59536327 original size:40 final size:40
Alignment explanation
Indices: 59536282--59537264 Score: 1659
Period size: 40 Copynumber: 24.6 Consensus size: 40
59536272 CAAGCTCAAT
* * * * *
59536282 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536322 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
*
59536362 TGCCTTCGGGTCTTAGCCCGGATATATCAATTAGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * * *
59536402 CGCCATCGGGTCTTATCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
59536442 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
59536482 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536522 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536562 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536602 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536642 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
59536682 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536722 TG-CTTCGGGACTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536761 TGCCTTC-GGTCTTAGCCCGGATATATCAATTCGTACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536800 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536840 TGCCTTCGGGTCTTA-TCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536879 TGCCATCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59536919 TGCCTTTCGGGTCTTAGCCTGGATATATCAATTCGCACAAA
1 TGCC-TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
59536960 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59537000 TGCCTTCGGGTCTTAGCCCGAATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59537040 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59537080 TGCCATCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
59537120 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
59537160 TGCCTTCGGGTCTTAGCCCGAATATATCAATTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
59537200 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
59537240 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
59537265 CATTCAAATT
Statistics
Matches: 892, Mismatches: 45, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
39 114 0.13
40 739 0.83
41 39 0.04
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:59539647 original size:1 final size:1
Alignment explanation
Indices: 59539535--59539640 Score: 212
Period size: 1 Copynumber: 106.0 Consensus size: 1
59539525 TATAAAACTC
59539535 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
59539600 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
59539641 TCAAAAATTC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 105 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:59547241 original size:42 final size:42
Alignment explanation
Indices: 59547194--59547351 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
59547184 GATTATCGAG
*
59547194 ATGTGATTACATGTAATACCATGTCTGGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
* *
59547236 ATGTGATTACGTGTAAGAGCATGTCTGGGACATTGGCATCAT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGT
* * * *
59547279 ATGCGATTTCATGTAAGACCATAG-CTAGG-CTATTGGCATCGAT
1 ATGTGATTACATGTAAGACCAT-GTCTGGGAC-ATTGGCATTG-T
* * *
59547322 ATGAGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
59547352 TACGACATTG
Statistics
Matches: 94, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
42 37 0.39
43 55 0.59
44 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
Found at i:59549046 original size:24 final size:24
Alignment explanation
Indices: 59549016--59549062 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
59549006 AATTCATGCC
59549016 ACAAAATATACCAATTCATCATCA
1 ACAAAATATACCAATTCATCATCA
*
59549040 ACAAAATGTACCAATTCATCATC
1 ACAAAATATACCAATTCATCATC
59549063 CCTATACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (24 bp):
ACAAAATATACCAATTCATCATCA
Found at i:59559701 original size:20 final size:20
Alignment explanation
Indices: 59559676--59559742 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
59559666 ATTTTGATAT
*
59559676 ACATGAT-TGATATGATATAC
1 ACATGATATG-TATGATATGC
59559696 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
59559716 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
59559736 ACATGAT
1 ACATGAT
59559743 GTATTCATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59559721 original size:11 final size:11
Alignment explanation
Indices: 59559687--59559742 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
59559677 CATGATTGAT
*
59559687 ATGATATACAC
1 ATGATATGCAC
*
59559698 ATGATATG--T
1 ATGATATGCAC
59559707 ATGATATGCAC
1 ATGATATGCAC
*
59559718 ATGATATG--T
1 ATGATATGCAC
59559727 ATGATATGCAC
1 ATGATATGCAC
59559738 ATGAT
1 ATGAT
59559743 GTATTCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 16 0.44
11 20 0.56
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59559756 original size:40 final size:39
Alignment explanation
Indices: 59559676--59559756 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 39
59559666 ATTTTGATAT
*
59559676 ACATGATTGATATGATATACACATGATATGTATGATATGC
1 ACATGATTGATATGATATACACATGA-ATGTATCATATGC
*
59559716 ACATGATATG-TATGATATGCACATG-ATGTATTCATAATGC
1 ACATGAT-TGATATGATATACACATGAATGTA-TCAT-ATGC
59559756 A
1 A
59559757 TTGGGTTAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
38 5 0.14
39 3 0.08
40 26 0.72
41 2 0.06
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (39 bp):
ACATGATTGATATGATATACACATGAATGTATCATATGC
Found at i:59559859 original size:24 final size:24
Alignment explanation
Indices: 59559790--59559872 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
59559780 AGGAAGTGCA
* *
59559790 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
59559814 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGC-TTTGCCCCAGTTTATC
* *
59559840 AAAAGGGCTTTGCCCTAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
59559863 AAAAGAGGCT
1 AAAAG-GGCT
59559873 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 9 0.17
24 13 0.25
25 16 0.31
26 14 0.27
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:59560122 original size:31 final size:31
Alignment explanation
Indices: 59560081--59560144 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
59560071 CATTTACAGT
* *
59560081 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGATTCGGCCCAGTAATATGAAATATGA
**
59560112 AAAGGATTCGGCCCAGTGTTATGAAATATGA
1 AAAGGATTCGGCCCAGTAATATGAAATATGA
59560143 AA
1 AA
59560145 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGATTCGGCCCAGTAATATGAAATATGA
Found at i:59567775 original size:50 final size:49
Alignment explanation
Indices: 59567696--59567803 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 49
59567686 AGGAAGTGCA
* * *
59567696 AAAAGGGC-TATGCCCTAGTTTACTGAAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCGAGTTTACTCAAAAGGGC-TTTACCCCAG-TTATT
*
59567746 AAAAGGGCTTTTGCCCGAGTTTA-TCAAAAGGGCTTTACCCCAGTTATT
1 AAAAGGGCTTATGCCCGAGTTTACTCAAAAGGGCTTTACCCCAGTTATT
59567794 AAAAGAGGCT
1 AAAAG-GGCT
59567804 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
48 10 0.19
49 13 0.25
50 17 0.33
51 12 0.23
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCGAGTTTACTCAAAAGGGCTTTACCCCAGTTATT
Found at i:59567803 original size:24 final size:25
Alignment explanation
Indices: 59567696--59567803 Score: 123
Period size: 25 Copynumber: 4.4 Consensus size: 25
59567686 AGGAAGTGCA
* * *
59567696 AAAAGGGC-TATGCCCTAGTTTACTG
1 AAAAGGGCTTTTGCCCCAGTTTA-TT
59567721 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
* *
59567746 AAAAGGGCTTTTGCCCGAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATT
*
59567771 AAAAGGGC-TTTACCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
59567794 AAAAGAGGCT
1 AAAAG-GGCT
59567804 AGGCCTCCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 9 0.12
24 11 0.15
25 40 0.56
26 12 0.17
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATT
Found at i:59568050 original size:31 final size:31
Alignment explanation
Indices: 59568012--59568075 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
59568002 CATTTACTGT
*
59568012 AAAGGCTTCTGTCCAGTAATATGAAATATGA
1 AAAGGCTTCGGTCCAGTAATATGAAATATGA
**
59568043 AAAGGCTTCGGTCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGTCCAGTAATATGAAATATGA
59568074 AA
1 AA
59568076 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGTCCAGTAATATGAAATATGA
Found at i:59568080 original size:38 final size:38
Alignment explanation
Indices: 59568029--59568135 Score: 178
Period size: 38 Copynumber: 2.8 Consensus size: 38
59568019 TCTGTCCAGT
*
59568029 AATATGAAATATGAAAAGGCTTCGGTCCAGTGTTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
59568067 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
* * *
59568105 AATATTAAATATGGAAAGACTTCGGCCCAGT
1 AATATGAAATATGAAAAGGCTTCGGCCCAGT
59568136 ATACGCTGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
Found at i:59586684 original size:46 final size:45
Alignment explanation
Indices: 59586614--59586788 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
59586604 TGTAACCTGC
*
59586614 CCATAAGCGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGG-GTTCGCAT
* *
59586660 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATTC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGGTTCGC-A--T
* * * **
59586706 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCAGATGTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTC-GGGGTTCGCAT
*
59586753 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
59586789 ATGCCTAGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 19
0.76 0.11 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 5 0.05
46 60 0.57
47 28 0.27
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGGTTCGCAT
Found at i:59586730 original size:47 final size:46
Alignment explanation
Indices: 59586668--59586830 Score: 199
Period size: 47 Copynumber: 3.5 Consensus size: 46
59586658 ATCCATAAGT
59586668 GAACTCGGACTCAACTCAACGAGCTCGGATTCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGA-TCCTAGTTACATCTCAC
* * * * *
59586715 GAACTCGGACTCAACTCAACGAGTTCAGA---T-GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATCCTAGTT-ACAT-C-TCA-C
59586761 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGAT-CCTAGTTACATCTCAC
59586808 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
59586831 TTCGAATGCC
Statistics
Matches: 97, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
45 2 0.02
46 27 0.28
47 50 0.52
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATCCTAGTTACATCTCAC
Found at i:59586831 original size:93 final size:93
Alignment explanation
Indices: 59586621--59586833 Score: 372
Period size: 93 Copynumber: 2.3 Consensus size: 93
59586611 TGCCCATAAG
* * * *
59586621 CGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
59586686 ACGAGCTCGGATTCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
59586714 CGAACTCGGACTCAACTCAACGAGTTCAGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
59586779 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
59586807 CGAACTCGGACTCAACTCAACGAGTTC
1 CGAACTCGGACTCAACTCAACGAGTTC
59586834 GAATGCCCAA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 114 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:59588680 original size:8 final size:8
Alignment explanation
Indices: 59588655--59588688 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
59588645 AACCCACTTC
59588655 TCGGCTTT
1 TCGGCTTT
* *
59588663 TCAGCCTT
1 TCGGCTTT
59588671 TCGGCTTT
1 TCGGCTTT
59588679 TCGGCTTT
1 TCGGCTTT
59588687 TC
1 TC
59588689 AGCCTTTGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.29, G:0.21, T:0.47
Consensus pattern (8 bp):
TCGGCTTT
Found at i:59597337 original size:12 final size:12
Alignment explanation
Indices: 59597330--59597363 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
59597320 CACTCCCCAT
59597330 ATCTCTCCACAA
1 ATCTCTCCACAA
*
59597342 ATCTCTCTACAA
1 ATCTCTCCACAA
*
59597354 CTCTCTCCAC
1 ATCTCTCCAC
59597364 TTTTCCCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.29
Consensus pattern (12 bp):
ATCTCTCCACAA
Found at i:59598081 original size:43 final size:41
Alignment explanation
Indices: 59598035--59598174 Score: 138
Period size: 43 Copynumber: 3.3 Consensus size: 41
59598025 TATCTCAAAT
* * *
59598035 ATGGTCTTACATGTTATCTCATATCATTGCCAATATCCCAGC
1 ATGGTCTTACACGTAATCACATATCA-TGCCAATATCCCAGC
* * *
59598077 TATGGTCTTACACGAAATCACATAATGATGCCAATGTCCCAAGC
1 -ATGGTCTTACACGTAATCACAT-ATCATGCCAATATCCC-AGC
* *
59598121 ATGGTCTTACACGTAATCACA-ATACAATGCCAATTTCCTAGAC
1 ATGGTCTTACACGTAATCACATAT-C-ATGCCAATATCCCAG-C
59598164 ATGGTCTTACA
1 ATGGTCTTACA
59598175 TGAAACCACA
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 72 0.88
44 6 0.07
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (41 bp):
ATGGTCTTACACGTAATCACATATCATGCCAATATCCCAGC
Found at i:59601400 original size:7 final size:7
Alignment explanation
Indices: 59601384--59601414 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
59601374 ATAAAAATAA
59601384 TTAGGGT
1 TTAGGGT
*
59601391 TTAGGTT
1 TTAGGGT
59601398 TTAGGGT
1 TTAGGGT
59601405 TTAGGGT
1 TTAGGGT
59601412 TTA
1 TTA
59601415 AAATCCCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:59611746 original size:29 final size:28
Alignment explanation
Indices: 59611710--59611787 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
59611700 TCATGAGATT
59611710 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
59611740 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
59611767 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
59611788 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:59612007 original size:145 final size:145
Alignment explanation
Indices: 59611765--59612038 Score: 512
Period size: 145 Copynumber: 1.9 Consensus size: 145
59611755 GTTTAAAGTA
*
59611765 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* *
59611830 ATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
59611895 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
59611910 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
*
59611975 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
59612039 ACTTTGAGTT
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 125 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:59628838 original size:20 final size:20
Alignment explanation
Indices: 59628772--59628838 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
59628762 ATTTTGATAA
*
59628772 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
59628792 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
59628812 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
59628832 ACGTGAT
1 ACATGAT
59628839 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59628967 original size:24 final size:24
Alignment explanation
Indices: 59628888--59628991 Score: 167
Period size: 23 Copynumber: 4.4 Consensus size: 24
59628878 GAGGAAGTGA
*
59628888 AAAAGGGCTTGTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
59628912 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
59628935 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
59628958 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
59628982 AAAAGAGGCT
1 AAAAG-GGCT
59628992 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
23 45 0.59
24 27 0.36
25 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:59628981 original size:47 final size:46
Alignment explanation
Indices: 59628889--59628984 Score: 165
Period size: 47 Copynumber: 2.1 Consensus size: 46
59628879 AGGAAGTGAA
*
59628889 AAAGGGCTTGTGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
59628935 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
59628982 AAA
1 AAA
59628985 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 22 0.47
47 25 0.53
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:59632142 original size:28 final size:29
Alignment explanation
Indices: 59632107--59632176 Score: 124
Period size: 28 Copynumber: 2.4 Consensus size: 29
59632097 GTCTAAAGGT
59632107 AAAATGGTCATTTGTGAAAGTCT-GGGGC
1 AAAATGGTCATTTGTGAAAGTCTAGGGGC
*
59632135 AAACTGGTCATTTGTGAAAGTCTAGGGGC
1 AAAATGGTCATTTGTGAAAGTCTAGGGGC
59632164 AAAATGGTCATTT
1 AAAATGGTCATTT
59632177 TACCAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (29 bp):
AAAATGGTCATTTGTGAAAGTCTAGGGGC
Found at i:59633941 original size:55 final size:53
Alignment explanation
Indices: 59633842--59634018 Score: 194
Period size: 55 Copynumber: 3.3 Consensus size: 53
59633832 CATGTCTAGA
* * * * *
59633842 CATGGTCTTACGTGGTATCCTTGCTTTAT-GAACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGGGA-CCTTTCCTTATAGAACTCATCAATGCCATGCCTTGG
* ** *
59633895 CATGGTCTTCCATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGTTTTGT
1 CATGGTCTTACATGGGACC-TTTCCTTATAG-AACTCATCAATGCCATGCCTTGG
*** *
59633950 CATGGTCTTACATGATTTCCTTTCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATG-GGACCTTTCCTTATAGAACTCATCAATGCCATGCCTTGG
59634004 CATGGTCTTACATGG
1 CATGGTCTTACATGG
59634019 TATCCTTGTC
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 21 0.21
54 34 0.33
55 43 0.42
56 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
CATGGTCTTACATGGGACCTTTCCTTATAGAACTCATCAATGCCATGCCTTGG
Found at i:59634011 original size:54 final size:53
Alignment explanation
Indices: 59633819--59634025 Score: 193
Period size: 55 Copynumber: 3.8 Consensus size: 53
59633809 TTCCTTCTTA
* * * * * * * *
59633819 AACTTACCATTGCCATGTCTAGACATGGTCTTACGTGGTATCCTTGCTTTAT-G
1 AACTCACCAATGCCATGCCTTGGCATGGTCTTACAT-GTATCCTTTCCTTATAG
* *
59633872 AACTCACCAATGCCATGCCTTGGCATGGTCTTCCATGGGA-CCTTTTCCTTATAG
1 AACTCACCAATGCCATGCCTTGGCATGGTCTTACAT-GTATCC-TTTCCTTATAG
* ** * *
59633926 TAACTCATCAATGCCATGTTTTGTCATGGTCTTACATGATTTCCTTTCCTTATAG
1 -AACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-TATCCTTTCCTTATAG
* *
59633981 AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AACTCACCAATGCCATGCCTTGGCATGGTCTTACAT-GTATCCTT
59634026 GTCTTACCAA
Statistics
Matches: 126, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 39 0.31
54 40 0.32
55 43 0.34
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (53 bp):
AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGTATCCTTTCCTTATAG
Found at i:59636387 original size:50 final size:47
Alignment explanation
Indices: 59636312--59636440 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 47
59636302 CGAGATGTGT
* *
59636312 TAGTATAAGACCATGTCTGGGACATGGCATCGACACGGAT-ATGTGA-GAGC
1 TAGTGTAAGACCATGT-TTGGACATGGCATCGA-AC--ATGATG-GATGAGC
*
59636362 TAGTGTAAGACCATGTTTGGAACATGGCATC-AACTTGATGGATGAGC
1 TAGTGTAAGACCATGTTTGG-ACATGGCATCGAACATGATGGATGAGC
* *
59636409 CAGTGTAAGACCATGTCTAGGACATGGCATCG
1 TAGTGTAAGACCATGT-TTGGACATGGCATCG
59636441 GCATTCTACC
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
46 3 0.04
47 32 0.46
48 5 0.07
49 4 0.06
50 25 0.36
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
TAGTGTAAGACCATGTTTGGACATGGCATCGAACATGATGGATGAGC
Found at i:59636434 original size:47 final size:49
Alignment explanation
Indices: 59636168--59636440 Score: 143
Period size: 46 Copynumber: 5.8 Consensus size: 49
59636158 GGCCACATTA
* * ** *
59636168 TGAGAGCCAGTGAAAGACCATGTCTAGGACATGGCATCGGCATTGAA-A
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACGGAATG
** * * * *
59636216 CAAGAG-TAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTC-GAGATG
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACACGGA-ATG
* * **
59636263 T-A-AGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGGTAC-GAGATG
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACACGGA-ATG
** * *
59636309 T----GTTAGTATAAGACCATGTCTGGGACATGGCATCGACACGGATATG
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACGGA-ATG
* * *
59636355 TGAGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATC-A-ACTTG-ATG
1 TGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGACAC-GGAATG
59636402 -GATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 TGA-GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
59636441 GCATTCTACC
Statistics
Matches: 180, Mismatches: 29, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
44 8 0.04
45 26 0.14
46 66 0.37
47 40 0.22
48 9 0.05
49 5 0.03
50 26 0.14
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (49 bp):
TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACGGAATG
Found at i:59641727 original size:492 final size:491
Alignment explanation
Indices: 59640736--59642929 Score: 2726
Period size: 492 Copynumber: 4.5 Consensus size: 491
59640726 TTTGTTTCCG
* * * * *
59640736 CACATGGACTGGAACATGGTTCAATTACGTTATT-TCGAGGAATTTCCTGCAAAGAAGTTTGAAC
1 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCT-GAGGGATTTCCTGCAAA-AAGTTTGAGC
* * * * * *
59640800 CACAATATTACTCATATTACCAGAACTCATATAATCATCTTGATCACTAAAAGTCTTAACAGAGT
64 CACAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGT
* **
59640865 CACGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCAAAAAATATTT
129 CACGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTT
* * *
59640930 ACCCAAAAAGTGCCGAATTCAAAATGATTTACCTCGACTGTACT-TAAT-GGAAGACATTCAGTA
194 ACCCTAAAAGTGCTGAATTCAGAATGATTTACCTCGACTGTACTAT-ATGGGAAGACATTCAGTA
* * * *
59640993 CCATAAAAGTAGTTTCTCCGCTTGCATTAAGCTCTGAAATGACAATACGTGGGTCCATTTTATCT
258 CCATAAAAGGAGTTGCTCTGCTTGCATTAAGCTCTGAAGTGACAATACGTGGGTCCATTTTATCT
* * * * *
59641058 AATAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATCCGTATGCTTATCATGGTGGCACTT
323 ATTAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATCATGGTGTCACTT
* * ** *
59641123 TAGTTCTGCATTGTGTACCCTCAGTTTCTCCTTGACATGTGTCTGCCATTCATCTAGTTCATCGA
388 TAGTTCTACATTGTGTACTCTCAGTTTCTCCTTGACATGTGTCCACCATTCATCTAGTTCATCAA
* * *
59641188 TTTGCAACATTCGTTATTCATGAGGCATACTATTTCCAT
453 TTTGCAACATTCATTATTCATGAGTCATTCTATTTCCAT
59641227 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAAGAAGTTTGAGCC
1 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAA-AAGTTTGAGCC
* * * * * *
59641292 ACAATGTTACTTATATTAATAGAACTCGTATAATCATCTCTATCACTATATGTCTTAATAGAATC
65 ACAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGTC
** *
59641357 ACGAGCTTGGAGTTTAATCTCATCAATTTTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTA
130 ACGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTA
* **
59641422 CCCTAAAAGTGCTAAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTGTC
195 CCCTAAAAGTGCTGAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTACC
* ** * *
59641487 ATAAAAGGAGTTGCTTTTTTTGCATTAAGCTTTGAAGTGATAATACGTGGGTCCATTTTATCTAT
260 ATAAAAGGAGTTGCTCTGCTTGCATTAAGCTCTGAAGTGACAATACGTGGGTCCATTTTATCTAT
*
59641552 TAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATTATGGTGTCACTTT-
325 TAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATCATGGTGTCACTTTA
* * *
59641616 GATTCTATATTGTGTACTCTCAGTTTCTCCTTGAGATGTGTCCACCATTCATCCAGTTCATCAAA
390 G-TTCTACATTGTGTACTCTCAGTTTCTCCTTGACATGTGTCCACCATTCATCTAGTTCATC-AA
* * *
59641681 TTT-CAACATTCATTCTTCATGAGTCATTCTATTTTCGT
453 TTTGCAACATTCATTATTCATGAGTCATTCTATTTCCAT
* *
59641719 CACATGGACTGGAACTTGGTTCCATTACATTCTTCTGAGGGATTT--T-C--------T-A--CA
1 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAAAAGTTTGAGCCA
* * * * * *
59641770 CAATGTTACTCATATTAACAGAACCCATATAATCATCTAGATGAATAGATGTCTTATTAGAGTCC
66 CAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGTCA
*
59641835 CGAGCTTGGAGTTTAATCTTGTCAATTCTACTAACAAAATAAGGTTTGAGTCGAGTAATATTTAC
131 CGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTAC
* * * * * *
59641900 CCTAATAGTGCCGAATTCAAAATGATTTACCTCGACTGTACTGTGTGAGAAGACATTCAGTA-CA
196 CCTAAAAGTGCTGAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTACCA
* * * *
59641964 GTAAAAGAAGTTACTCTGCTTGCATTAAGCTCTGAAGTGACAACACATGGGTCCATTTTATCTAT
261 -TAAAAGGAGTTGCTCTGCTTGCATTAAGCTCTGAAGTGACAATACGTGGGTCCATTTTATCTAT
* * * * * * * * *
59642029 TAATGCCTTGTGTTCAACCTTAATATGGTGTGTTCCATCCTTATGCTTATCATGGCGGT-GCTTT
325 TAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATCATGG-TGTCACTTT
** * ** *
59642093 AGTTCTACATCATGTACTCTCAATTTCTCCTTGACATGTGTCTGCCATTCATCTAGTTCAGT-GA
389 AGTTCTACATTGTGTACTCTCAGTTTCTCCTTGACATGTGTCCACCATTCATCTAGTTCA-TCAA
* *
59642157 TTTGCAACATTCGTTATTCATGAGTCATTCTGTTTCCAT
453 TTTGCAACATTCATTATTCATGAGTCATTCTATTTCCAT
* * * *
59642196 TACATGGACTGAAACGTGGTTCCATTACATTCTTCTGAGGGATTTCCTGCAAAAAGGTTTGAGCT
1 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAAAA-GTTTGAGCC
* * *
59642261 ACAATGCTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAAAATC
65 ACAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGTC
*
59642326 ACGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTAAGTCGAGTAATATTTA
130 ACGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTA
* * * * *
59642391 CCCTAAAAGTG-TCGAATTTAGAATGATTTACCTCAACTGTATTATATAGGAATACATTCAGTAC
195 CCCTAAAAGTGCT-GAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTAC
* * *
59642455 CGTAAAAGGAGTTGCTCTGCTTGCATTATGCTCTGAAGTGACAATACGTGGGTCCATTTTCTCTA
259 CATAAAAGGAGTTGCTCTGCTTGCATTAAGCTCTGAAGTGACAATACGTGGGTCCATTTTATCTA
* *
59642520 TTAATACCTTGTCTCCAACCTTAATTTGGTGTGGTCCATACATATGCTCATCATGGTGTCGCTTT
324 TTAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATCATGGTGTCACTTT
* * * *
59642585 -GATTCTGCATTTTGTACTCTCAGTTTCTCATTGAGATGTGTCCACCATTCATCTAGTTCATCAA
389 AG-TTCTACATTGTGTACTCTCAGTTTCTCCTTGACATGTGTCCACCATTCATCTAGTTCATCAA
* * * **
59642649 ATTGCAACATTTATTCTTCATGAGTCATTCTATTTTTGA-
453 TTTGCAACATTCATTATTCATGAGTCATTCTA-TTTCCAT
* * * *
59642688 CACATGGACTGGTACTTGGTTCCATTACGTGCTTCCGAGGGATTT-C--C--------T--G-CA
1 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAAAAGTTTGAGCCA
* * *
59642739 CAATGTTACTCATATTAACAGAACCCATATAATCATCTCAATCACTAGATGTCTTAATAGAGTTA
66 CAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGTCA
** * * * * *
59642804 TAAGCTTGGAGTTTAATCTTATCAATTATACTAAC--AATAAGATTTGAGTCGAGTAATATTTTC
131 CGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTAC
* * *
59642867 CCTAATAGTG-TCGAATTCAGAATGATTTACCTCGACTGTTCTGTATGGGAAGACATTCAGTAC
196 CCTAAAAGTGCT-GAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTAC
59642930 TGTAACGCCC
Statistics
Matches: 1468, Mismatches: 204, Indels: 78
0.84 0.12 0.04
Matches are distributed among these distances:
475 80 0.05
476 6 0.00
477 488 0.33
478 5 0.00
479 2 0.00
480 3 0.00
489 3 0.00
490 2 0.00
491 218 0.15
492 652 0.44
493 9 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (491 bp):
CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAAAAGTTTGAGCCA
CAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGTCA
CGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTAC
CCTAAAAGTGCTGAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTACCA
TAAAAGGAGTTGCTCTGCTTGCATTAAGCTCTGAAGTGACAATACGTGGGTCCATTTTATCTATT
AATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATCATGGTGTCACTTTAG
TTCTACATTGTGTACTCTCAGTTTCTCCTTGACATGTGTCCACCATTCATCTAGTTCATCAATTT
GCAACATTCATTATTCATGAGTCATTCTATTTCCAT
Found at i:59654642 original size:80 final size:78
Alignment explanation
Indices: 59654499--59654703 Score: 243
Period size: 80 Copynumber: 2.6 Consensus size: 78
59654489 GGACTAAGAT
* * *
59654499 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA
1 CCGAAGGCATTTGTACGAG-TACTAAATCC-GGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
* *
59654563 -AATCCGGGTTATGTT
64 TAA-CCGGGCTATGTC
* *
59654578 TCGAAGGCATTTGTACGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTACGAG-TACTAAATCC-GGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
59654643 TAACCGGGCTATGTC
64 TAACCGGGCTATGTC
* * * *
59654658 CCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGTACGAGTA-CTAAATCCGGTTAAGTCCCGAAGG
59654704 TACGTGATTT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
79 48 0.44
80 59 0.54
81 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (78 bp):
CCGAAGGCATTTGTACGAGTACTAAATCCGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTATA
ACCGGGCTATGTC
Found at i:59654677 original size:40 final size:40
Alignment explanation
Indices: 59654446--59654670 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
59654436 TCGAATGATG
* * * *
59654446 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
59654486 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59654526 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * ** *
59654565 TCCGGGTTATGTTTCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59654605 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59654646 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59654671 AACGAGTAGC
Statistics
Matches: 155, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 33 0.21
40 112 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59662727 original size:40 final size:41
Alignment explanation
Indices: 59662489--59662713 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 41
59662479 TCGAATGATG
* * *
59662489 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * * *
59662529 TCCGGACTAAGAT-CTGAAGGCATTTGTACGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
59662569 TCCGGCCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
59662608 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
59662648 TCCGGGTTAAGTCCCGAAGACATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
59662689 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59662714 AACGAGTAGC
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 30 0.19
40 116 0.75
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:59680479 original size:27 final size:27
Alignment explanation
Indices: 59680448--59680625 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
59680438 TAAATTGTAC
59680448 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
59680475 TGCACGAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59680501 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59680529 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59680557 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59680584 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59680611 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59680626 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59680567 original size:82 final size:81
Alignment explanation
Indices: 59680449--59680604 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
59680439 AAATTGTACA
* *
59680449 GCACTAAGTGTGCGATTTGACTATGTTGCACGAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACGAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59680513 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
59680530 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACGAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59680595 TGCGAGTTGA
65 TGCGAATTGA
59680605 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACGAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59680616 original size:82 final size:81
Alignment explanation
Indices: 59680445--59680625 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
59680435 GATTAAATTG
* *
59680445 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACGAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACGAAGTGTGCGAAATGAATACGATGCACTAA
59680510 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
59680526 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACGAAGTGTGCGAAATGAATACGAT-GCACT
* **
59680590 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59680608 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59680626 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACGAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59685150 original size:40 final size:40
Alignment explanation
Indices: 59684978--59685143 Score: 253
Period size: 40 Copynumber: 4.2 Consensus size: 40
59684968 AACCCAAGTA
* * * * *
59684978 CCTTCGGGATTTAG-CTGGATATAGCAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
59685017 CCGTCGGGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
59685057 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
59685097 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
59685137 CCTTCGG
1 CCTTCGG
59685144 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.10
40 104 0.90
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:59686539 original size:13 final size:13
Alignment explanation
Indices: 59686521--59686546 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59686511 ATTTTTATTT
59686521 TTAACATAAAATA
1 TTAACATAAAATA
59686534 TTAACATAAAATA
1 TTAACATAAAATA
59686547 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:59689346 original size:29 final size:29
Alignment explanation
Indices: 59689285--59689374 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
59689275 CACATACCTG
*
59689285 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
59689313 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
59689342 TATATGACCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
59689371 TATA
1 TATA
59689375 GTCATGTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:59689611 original size:16 final size:16
Alignment explanation
Indices: 59689587--59689629 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
59689577 GTAGTTAAAC
*
59689587 TTTTAGCTTTTCGATA
1 TTTTAGCTTTTCGACA
* *
59689603 TTTTGGCTTTTCGGCA
1 TTTTAGCTTTTCGACA
*
59689619 TTTTTGCTTTT
1 TTTTAGCTTTT
59689630 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.14, G:0.16, T:0.60
Consensus pattern (16 bp):
TTTTAGCTTTTCGACA
Found at i:59696425 original size:25 final size:24
Alignment explanation
Indices: 59696339--59696502 Score: 114
Period size: 24 Copynumber: 6.7 Consensus size: 24
59696329 TGGACACACC
* *
59696339 ATGGCTCTCACGAGCTTCCCAATTA
1 ATGGCTCTCATGAGCTTCCCGA-TA
* * *
59696364 ATGGCTCTCTTGAGCTTCCCGTTT
1 ATGGCTCTCATGAGCTTCCCGATA
* *
59696388 ATGGCT-TGTATGAGCTTCCTGATA
1 ATGGCTCT-CATGAGCTTCCCGATA
* **
59696412 ATTGGCTCTCATGAGATTCTTGATTA
1 A-TGGCTCTCATGAGCTTCCCGA-TA
* * *
59696438 ATGGCTCTTAAGAGCTACCCGATA
1 ATGGCTCTCATGAGCTTCCCGATA
* * * *
59696462 TTGGCTCGCATGACCTTCCCGATT
1 ATGGCTCTCATGAGCTTCCCGATA
* *
59696486 ACGGCTCGCATGAGCTT
1 ATGGCTCTCATGAGCTT
59696503 TGTAACAACC
Statistics
Matches: 106, Mismatches: 29, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
23 1 0.01
24 52 0.49
25 49 0.46
26 4 0.04
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.34
Consensus pattern (24 bp):
ATGGCTCTCATGAGCTTCCCGATA
Found at i:59697124 original size:21 final size:21
Alignment explanation
Indices: 59697099--59697138 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59697089 TGAAACTATG
*
59697099 AGTATTAT-GAAGTTTGATGAT
1 AGTA-TATGGAAGATTGATGAT
59697120 AGTATATGGAAGATTGATG
1 AGTATATGGAAGATTGATG
59697139 TTGGGTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.38
Consensus pattern (21 bp):
AGTATATGGAAGATTGATGAT
Found at i:59710188 original size:40 final size:40
Alignment explanation
Indices: 59710133--59710393 Score: 384
Period size: 40 Copynumber: 6.6 Consensus size: 40
59710123 TATTCGAATG
*
59710133 ATATCCGGGCTAAGTCCCGAATGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
59710173 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
59710213 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCAATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
59710253 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
59710293 ATATCCGGGCTAAGT-CCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
59710332 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
59710372 ATATTC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
59710394 TACTTGGGTT
Statistics
Matches: 199, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 49 0.25
40 147 0.74
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:59738342 original size:14 final size:16
Alignment explanation
Indices: 59738296--59738358 Score: 78
Period size: 16 Copynumber: 4.1 Consensus size: 16
59738286 TATATAAACA
59738296 TAAA-AATTTAATAAT
1 TAAATAATTTAATAAT
*
59738311 CTAAATAATATAATAAT
1 -TAAATAATTTAATAAT
*
59738328 TAACT-ATTTAA-AAT
1 TAAATAATTTAATAAT
59738342 TAAATAATTTAATAAT
1 TAAATAATTTAATAAT
59738358 T
1 T
59738359 TTTTCTTACC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 7 0.17
15 11 0.28
16 12 0.30
17 10 0.25
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAATAATTTAATAAT
Found at i:59738359 original size:8 final size:8
Alignment explanation
Indices: 59738300--59738359 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
59738290 TAAACATAAA
59738300 AATTTAAT
1 AATTTAAT
*
59738308 AATCTAAAT
1 AAT-TTAAT
*
59738317 AATATAAT
1 AATTTAAT
59738325 AA-TTAACT
1 AATTTAA-T
59738333 -ATTTAA-
1 AATTTAAT
*
59738339 AATTAAAT
1 AATTTAAT
59738347 AATTTAAT
1 AATTTAAT
59738355 AATTT
1 AATTT
59738360 TTTCTTACCA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
7 9 0.22
8 25 0.61
9 7 0.17
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (8 bp):
AATTTAAT
Found at i:59738518 original size:21 final size:21
Alignment explanation
Indices: 59738494--59738539 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
59738484 AAAAAAATAT
*
59738494 TTGAGGATTGAGGATTG-GAAA
1 TTGAGGATTGAAGATTGAG-AA
59738515 TTGAGGATTGAAGATTGAGAA
1 TTGAGGATTGAAGATTGAGAA
59738536 TTGA
1 TTGA
59738540 AAATTGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (21 bp):
TTGAGGATTGAAGATTGAGAA
Found at i:59738519 original size:14 final size:14
Alignment explanation
Indices: 59738500--59738545 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
59738490 ATATTTGAGG
59738500 ATTGAGGATTGGAA
1 ATTGAGGATTGGAA
59738514 ATTGAGGATT-GAA
1 ATTGAGGATTGGAA
* *
59738527 GATTGAGAATTGAAA
1 -ATTGAGGATTGGAA
59738542 ATTG
1 ATTG
59738546 GAAATCGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 23 0.82
15 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (14 bp):
ATTGAGGATTGGAA
Found at i:59738544 original size:7 final size:7
Alignment explanation
Indices: 59738507--59738585 Score: 52
Period size: 7 Copynumber: 11.4 Consensus size: 7
59738497 AGGATTGAGG
*
59738507 ATTGGAA
1 ATTGAAA
**
59738514 ATTGAGG
1 ATTGAAA
*
59738521 ATTGAAG
1 ATTGAAA
*
59738528 ATTGAGA
1 ATTGAAA
59738535 ATTGAAA
1 ATTGAAA
*
59738542 ATTGGAA
1 ATTGAAA
* *
59738549 ATCGGAA
1 ATTGAAA
59738556 ATTG-AA
1 ATTGAAA
59738562 ATTGAAA
1 ATTGAAA
* *
59738569 ACTGAAG
1 ATTGAAA
*
59738576 ATTGAGA
1 ATTGAAA
59738583 ATT
1 ATT
59738586 TAGGATGGAG
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
6 6 0.11
7 50 0.89
ACGTcount: A:0.44, C:0.03, G:0.25, T:0.28
Consensus pattern (7 bp):
ATTGAAA
Found at i:59742552 original size:27 final size:27
Alignment explanation
Indices: 59742522--59742699 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
59742512 ATATTGAGCC
* *
59742522 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59742549 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
59742576 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
59742604 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
59742631 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
59742658 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
59742685 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59742700 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:59742661 original size:82 final size:81
Alignment explanation
Indices: 59742543--59742698 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
59742533 TGCTATATAA
* *
59742543 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59742608 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
59742625 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59742689 CACTTAGTGC
65 CACTTAGTGC
59742699 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59750663 original size:27 final size:27
Alignment explanation
Indices: 59750633--59750810 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
59750623 ATATTGAGCC
* *
59750633 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59750660 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
59750687 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
59750715 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
59750742 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
59750769 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
59750796 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59750811 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:59750772 original size:82 final size:81
Alignment explanation
Indices: 59750654--59750809 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
59750644 TGCTATATAA
* *
59750654 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59750719 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
59750736 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59750800 CACTTAGTGC
65 CACTTAGTGC
59750810 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59753381 original size:25 final size:27
Alignment explanation
Indices: 59753347--59753405 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
59753337 CTTATGAGCA
*
59753347 TCCCGATTAA-AGGTTCTTTGTGAACT
1 TCCCGATTAATAGGCTCTTTGTGAACT
* *
59753373 TCCCG-TTAATTGGCTCTTTGTGAGCT
1 TCCCGATTAATAGGCTCTTTGTGAACT
59753399 TCCCGAT
1 TCCCGAT
59753406 AGTGCTTGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 23 0.82
27 1 0.04
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (27 bp):
TCCCGATTAATAGGCTCTTTGTGAACT
Found at i:59753523 original size:24 final size:25
Alignment explanation
Indices: 59753334--59753528 Score: 108
Period size: 24 Copynumber: 8.0 Consensus size: 25
59753324 ACACACCTTA
* *
59753334 GCTC-TTATGAGCATCCCGATTAAAG
1 GCTCTTTATGAGCTTCCCGATT-ATG
* * *
59753359 GTTCTTTGTGAACTTCCCG-TTAATTG
1 GCTCTTTATGAGCTTCCCGATT-A-TG
*
59753385 GCTCTTTGTGAGCTTCCCGA-TA-G
1 GCTCTTTATGAGCTTCCCGATTATG
* * *
59753408 TGCT-TGCT-TGAACTTCCTGA-TATTG
1 -GCTCT-TTATGAGCTTCCCGATTA-TG
* *
59753433 GCTATTTA-GAGCTT-CCTATTACATG
1 GCTCTTTATGAGCTTCCCGATT--ATG
59753458 GCTCTTTATGAGCTTCCCGA-TATG
1 GCTCTTTATGAGCTTCCCGATTATG
* * *
59753482 GTTCTTTGTGAACTTCCCGATTATG
1 GCTCTTTATGAGCTTCCCGATTATG
59753507 GCTC-TTATGAGCTTCCC-ATTAT
1 GCTCTTTATGAGCTTCCCGATTAT
59753529 ATAGACCGGA
Statistics
Matches: 133, Mismatches: 22, Indels: 32
0.71 0.12 0.17
Matches are distributed among these distances:
23 21 0.16
24 45 0.34
25 26 0.20
26 38 0.29
27 3 0.02
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.39
Consensus pattern (25 bp):
GCTCTTTATGAGCTTCCCGATTATG
Found at i:59763790 original size:21 final size:21
Alignment explanation
Indices: 59763766--59763835 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
59763756 TGATCTAAAA
59763766 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * * *
59763787 TCA-TGATATATGTGACATCTAAGC
1 TCATTGA-GT-TGTG--GTCTGAGT
59763811 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
59763832 TCAT
1 TCAT
59763836 GATGTATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 3 0.08
21 13 0.36
22 4 0.11
23 4 0.11
24 9 0.25
25 3 0.08
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:59767783 original size:40 final size:40
Alignment explanation
Indices: 59767728--59767839 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
59767718 TATTCGGATG
* * *
59767728 ATATCCGGGCTAAGTCCCGAGGGCATTTGTTCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* * *
59767768 ATATCCGGGCTAAGTCCAGAATGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* * *
59767808 ATATCCGGGCTAAGACCCGAAGGTATTCGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
59767840 GAGTTGTATA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
Found at i:59775910 original size:40 final size:40
Alignment explanation
Indices: 59775855--59776035 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
59775845 TATTCGGATG
* * *
59775855 ATATCCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
59775895 ATATCTGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * **
59775935 ATATCTGGGCTAAGTGCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
59775975 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
59776015 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59776036 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 12 0.10
40 107 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:59787375 original size:13 final size:13
Alignment explanation
Indices: 59787357--59787386 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
59787347 ATCATAAACC
59787357 ACATAGTTCATAT
1 ACATAGTTCATAT
59787370 ACATAGTTCATAT
1 ACATAGTTCATAT
59787383 ACAT
1 ACAT
59787387 TTTCACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (13 bp):
ACATAGTTCATAT
Found at i:59787539 original size:50 final size:50
Alignment explanation
Indices: 59787461--59787563 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
59787451 TATTCACAAG
*
59787461 CATAGTATACATTTTAAACGTACCTGATTCAGATACACATTTCATATATT
1 CATAGTATACATTTCAAACGTACCTGATTCAGATACACATTTCATATATT
*
59787511 CATAGTATACATTTCAAACGTACTTGATTCAGATACACATTTCATATATT
1 CATAGTATACATTTCAAACGTACCTGATTCAGATACACATTTCATATATT
59787561 CAT
1 CAT
59787564 TCTTTTCTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (50 bp):
CATAGTATACATTTCAAACGTACCTGATTCAGATACACATTTCATATATT
Found at i:59795984 original size:24 final size:24
Alignment explanation
Indices: 59795883--59796030 Score: 82
Period size: 24 Copynumber: 6.0 Consensus size: 24
59795873 ACACAGTGTT
** *
59795883 ATTCAAATCCGCACACTTAGTGCC
1 ATTCAAATCAACACACATAGTGCC
* * * *
59795907 ATGCTAACCCACACACATAGTGCC
1 ATTCAAATCAACACACATAGTGCC
* * * * *
59795931 -TTAGAAATCCACACACTCGTATTGAC
1 ATT-CAAAT-CA-ACACACATAGTGCC
*
59795957 ATTCAAATCAACACACATAGTGCT
1 ATTCAAATCAACACACATAGTGCC
* **
59795981 ATTCAATTCCGCACACATAGTGCC
1 ATTCAAATCAACACACATAGTGCC
** *
59796005 ATTCAAAATCCGCACACTTAGTGCC
1 ATTC-AAATCAACACACATAGTGCC
59796030 A
1 A
59796031 ATGTCATTTC
Statistics
Matches: 93, Mismatches: 26, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
23 1 0.01
24 54 0.58
25 22 0.24
26 14 0.15
27 2 0.02
ACGTcount: A:0.34, C:0.31, G:0.11, T:0.24
Consensus pattern (24 bp):
ATTCAAATCAACACACATAGTGCC
Found at i:59797430 original size:54 final size:54
Alignment explanation
Indices: 59797371--59797479 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
59797361 AGAAGATATG
*
59797371 TAAATAAATTTTAAATAAATTTTATGACTCGGTTTTGTGGTCCCGAAACCACAT
1 TAAATAAATTTTAAATAAATTTTATGACTCAGTTTTGTGGTCCCGAAACCACAT
59797425 TAAATAAATTTTAAATAAATTTTATGACTCAGTTTTGTGGTCCCGAAACCACAT
1 TAAATAAATTTTAAATAAATTTTATGACTCAGTTTTGTGGTCCCGAAACCACAT
59797479 T
1 T
59797480 CCGACTAGGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (54 bp):
TAAATAAATTTTAAATAAATTTTATGACTCAGTTTTGTGGTCCCGAAACCACAT
Found at i:59797440 original size:11 final size:11
Alignment explanation
Indices: 59797424--59797448 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59797414 CGAAACCACA
59797424 TTAAATAAATT
1 TTAAATAAATT
59797435 TTAAATAAATT
1 TTAAATAAATT
59797446 TTA
1 TTA
59797449 TGACTCAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAAATAAATT
Found at i:59803176 original size:24 final size:23
Alignment explanation
Indices: 59803148--59803307 Score: 115
Period size: 24 Copynumber: 6.6 Consensus size: 23
59803138 AATCGATTTT
*
59803148 GCACACAAAGTGCTATTCAAATCC
1 GCACACATAGTGC-ATTCAAATCC
* * * *
59803172 GCACACTTAGTGCCATGCTAACCC
1 GCACACATAGTG-CATTCAAATCC
*
59803196 GCACACATAGTGCCTT-AGATATCC
1 GCACACATAGTGCATTCA-A-ATCC
* * * *
59803220 ACACACTCGTATTGACATTCAAATCA
1 GCACA--CATAGTG-CATTCAAATCC
*
59803246 GCACACATAGTGCTATTCAATTCC
1 GCACACATAGTGC-ATTCAAATCC
59803270 GCACACATAGTGCCATTCAAAATCC
1 GCACACATAGTG-CATTC-AAATCC
*
59803295 GCACACTTAGTGC
1 GCACACATAGTGC
59803308 CAATGTCATT
Statistics
Matches: 104, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
23 4 0.04
24 65 0.62
25 18 0.17
26 12 0.12
27 4 0.04
28 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (23 bp):
GCACACATAGTGCATTCAAATCC
Found at i:59803275 original size:50 final size:48
Alignment explanation
Indices: 59803148--59803307 Score: 119
Period size: 50 Copynumber: 3.3 Consensus size: 48
59803138 AATCGATTTT
* * * * *
59803148 GCACACAAAGTGCTATTCAAATCCGCACACTTAGTGCCATGCTAACCC
1 GCACACATAGTGCTATTCAATTCCGCACACTTAGTGACATGCAAACCA
* * * * *
59803196 GCACACATAGTGC-CTT-AGATATCCACACACTCGTATTGACATTCAAATCA
1 GCACACATAGTGCTATTCA-AT-TCCGCACACT--TAGTGACATGCAAACCA
* * *
59803246 GCACACATAGTGCTATTCAATTCCGCACACATAGTGCCATTCAAAATCC-
1 GCACACATAGTGCTATTCAATTCCGCACACTTAGTGACATGC-AAA-CCA
*
59803295 GCACACTTAGTGC
1 GCACACATAGTGC
59803308 CAATGTCATT
Statistics
Matches: 87, Mismatches: 17, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
48 30 0.34
49 15 0.17
50 33 0.38
51 4 0.05
52 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (48 bp):
GCACACATAGTGCTATTCAATTCCGCACACTTAGTGACATGCAAACCA
Found at i:59805355 original size:79 final size:81
Alignment explanation
Indices: 59805246--59805428 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
59805236 TCCTCGTTCA
* * * *
59805246 AATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTC-GGATCTTAACCCGG
* *
59805309 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
59805326 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATACCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGA
* *
59805389 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
59805405 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
59805429 CATCATTCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:59805428 original size:40 final size:40
Alignment explanation
Indices: 59805244--59805428 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
59805234 GCTCCTCGTT
* * *
59805244 CAAATGCCTTCGGGACATAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59805284 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59805324 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
59805363 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
59805404 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59805429 CATCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 77 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:59813190 original size:40 final size:40
Alignment explanation
Indices: 59813146--59813369 Score: 160
Period size: 40 Copynumber: 5.6 Consensus size: 40
59813136 GCTCCTCGTT
*
59813146 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
59813186 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
* **
59813226 CAAATGCCTTCGGG-CTTAGTCC-GAAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * **
59813265 CAAATGCCTTC-GGATCCTAGTCCGAATT-TAGT-ATCTCATA
1 CAAATGCCTTCGGGA-CTTAGCCCG-GTTATAGTAAT-TCGCA
* * * * *
59813305 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
*
59813346 CAAA-GCCTTCGGGAATTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
59813370 ACATCATTCA
Statistics
Matches: 148, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
38 4 0.03
39 27 0.18
40 105 0.71
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:59813264 original size:79 final size:80
Alignment explanation
Indices: 59813181--59813328 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 80
59813171 TTATAGTAAT
* * *
59813181 TCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG-GCTTA
1 TCGCACAAATGCCTTC-GGATCCTAACCCGAATTTAGTAACTCACACAAATGCCTTCGGAGCTTA
59813244 GTCCGAAATTAGTATC
65 GTCCGAAATTAGTATC
** * * *
59813260 TCGCACAAATGCCTTCGGATCCTAGTCCGAATTTAGTATCTCATACAAATGCCTTCGGATCTTAG
1 TCGCACAAATGCCTTCGGATCCTAACCCGAATTTAGTAACTCACACAAATGCCTTCGGAGCTTAG
59813325 TCCG
66 TCCG
59813329 GATATGGTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
78 3 0.05
79 47 0.80
80 9 0.15
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (80 bp):
TCGCACAAATGCCTTCGGATCCTAACCCGAATTTAGTAACTCACACAAATGCCTTCGGAGCTTAG
TCCGAAATTAGTATC
Found at i:59813267 original size:39 final size:40
Alignment explanation
Indices: 59813181--59813328 Score: 183
Period size: 40 Copynumber: 3.7 Consensus size: 40
59813171 TTATAGTAAT
** * *
59813181 TCGCACAAATGCCTTCGG-GACTTAACCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGAG-CTTAGTCCGAATTTAGTATC
*
59813221 TCGCACAAATGCCTTCGG-GCTTAGTCCGAAATTAGTATC
1 TCGCACAAATGCCTTCGGAGCTTAGTCCGAATTTAGTATC
* *
59813260 TCGCACAAATGCCTTCGGATCCTAGTCCGAATTTAGTATC
1 TCGCACAAATGCCTTCGGAGCTTAGTCCGAATTTAGTATC
** *
59813300 TCATACAAATGCCTTCGGATCTTAGTCCG
1 TCGCACAAATGCCTTCGGAGCTTAGTCCG
59813329 GATATGGTCA
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 33 0.34
40 63 0.66
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGAGCTTAGTCCGAATTTAGTATC
Found at i:59830572 original size:28 final size:28
Alignment explanation
Indices: 59830507--59830657 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
59830497 GAGATTGGCG
* * * *
59830507 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
59830536 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59830564 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
59830592 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59830620 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59830647 CTGAGTGTGCG
1 CTAAGTGTGCG
59830658 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:59835739 original size:12 final size:12
Alignment explanation
Indices: 59835719--59835748 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59835709 CCTAATGGGC
*
59835719 AAATTACTCGGT
1 AAATCACTCGGT
59835731 AAATCACTCGGT
1 AAATCACTCGGT
59835743 AAATCA
1 AAATCA
59835749 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (12 bp):
AAATCACTCGGT
Found at i:59844680 original size:53 final size:53
Alignment explanation
Indices: 59844593--59844806 Score: 214
Period size: 53 Copynumber: 4.0 Consensus size: 53
59844583 GGAACCTTTT
* * * * *
59844593 CTTTTTGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTG
1 CTTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* *
59844646 CTTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CTTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG
* * * * *
59844699 CCTTATATTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTG
1 -CTT-TATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* * * * * * *
59844754 CCTTATAGAACTTATCAATGCCATTCCTTGGCATGGTCTTATATGATATCCTT
1 CTTTAT-GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
59844807 ATCTTACCAA
Statistics
Matches: 134, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
52 2 0.01
53 46 0.34
54 44 0.33
55 40 0.30
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.38
Consensus pattern (53 bp):
CTTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
Found at i:59844722 original size:55 final size:54
Alignment explanation
Indices: 59844610--59844794 Score: 214
Period size: 55 Copynumber: 3.4 Consensus size: 54
59844600 AACTTACCAT
* * *
59844610 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTG-CTT-TATGAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATATGAACTCATCAA
* * *
59844663 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATATTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATATGAACTCATCAA
* * * *
59844718 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA-GAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATATGAACTCATCAA
* *
59844772 TGCCATTCCTTGGCATGGTCTTA
1 TGCCATGCCTTGACATGGTCTTA
59844795 TATGATATCC
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 29 0.26
54 32 0.29
55 47 0.42
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATATGAACTCATCAA
Found at i:59844901 original size:47 final size:47
Alignment explanation
Indices: 59844785--59844903 Score: 175
Period size: 47 Copynumber: 2.5 Consensus size: 47
59844775 CATTCCTTGG
* * * *
59844785 CATGGTCTTATATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAGGTTCCAAA
* * *
59844832 GATGGTCTTACATGGTATCCTTGTCTTACCAAATTCTAGGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAGGTTCCAAA
59844879 CATGGTCTTACATGGTATCCTTGTC
1 CATGGTCTTACATGGTATCCTTGTC
59844904 CTAATGCCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAGGTTCCAAA
Found at i:59845221 original size:12 final size:12
Alignment explanation
Indices: 59845204--59845228 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59845194 CATAACTCAG
59845204 TAATAACAATAA
1 TAATAACAATAA
59845216 TAATAACAATAA
1 TAATAACAATAA
59845228 T
1 T
59845229 TGCGTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAATAACAATAA
Found at i:59849963 original size:23 final size:23
Alignment explanation
Indices: 59849934--59849980 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
59849924 TCATATACAC
59849934 ATATATTCTCAAAAATCAGTCCT
1 ATATATTCTCAAAAATCAGTCCT
59849957 ATATATTCTCAAAAATCAGTCCT
1 ATATATTCTCAAAAATCAGTCCT
59849980 A
1 A
59849981 CTTCACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATATTCTCAAAAATCAGTCCT
Found at i:59850265 original size:40 final size:40
Alignment explanation
Indices: 59850219--59850443 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
59850209 CTTGCACAAG
* * *
59850219 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
59850259 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
59850299 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
59850339 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
59850379 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
59850420 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
59850444 CATTCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:59850314 original size:80 final size:80
Alignment explanation
Indices: 59850183--59850443 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
59850173 CTCAAGTAAT
* * * * * * * *
59850183 CTTCGGGATTTAG-TCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
59850246 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
59850261 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
59850325 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
59850341 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
59850406 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
59850422 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
59850444 CATTCGAATA
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 12 0.08
79 15 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:59853846 original size:40 final size:39
Alignment explanation
Indices: 59853742--59853882 Score: 135
Period size: 39 Copynumber: 3.6 Consensus size: 39
59853732 AAGCCTTCGA
* * *
59853742 GACTTTAAACCCGGATATATTTCCAGCATATAGCCCATG
1 GACTTTAAACCCGGATATAATTCCAGCATATAGCCTAGG
* ** *
59853781 GACCTTAAGTCCGGAAATAATTCCAGCATATAGCCTACGG
1 GACTTTAAACCCGGATATAATTCCAGCATATAGCCTA-GG
*
59853821 GTA-TTTAAACCCGGATATAATTCCAGCACATAGCCT-GCG
1 G-ACTTTAAACCCGGATATAATTCCAGCATATAGCCTAG-G
* *
59853860 GACCTTAAGA-CCGAATATAATTC
1 GACTTTAA-ACCCGGATATAATTC
59853883 TAGATATCAT
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
38 2 0.02
39 49 0.59
40 31 0.37
41 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (39 bp):
GACTTTAAACCCGGATATAATTCCAGCATATAGCCTAGG
Found at i:59866599 original size:55 final size:55
Alignment explanation
Indices: 59866511--59866635 Score: 207
Period size: 55 Copynumber: 2.3 Consensus size: 55
59866501 ATATTAAGTC
* * *
59866511 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
59866566 CGCACA-TTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCTACATAATCAAACT
59866621 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59866636 GTACAATTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
54 16 0.25
55 41 0.63
56 8 0.12
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:59866612 original size:28 final size:28
Alignment explanation
Indices: 59866511--59866635 Score: 209
Period size: 27 Copynumber: 4.5 Consensus size: 28
59866501 ATATTAAGTC
* *
59866511 CGCACACTCAGTGCTATATAATCAA-CT
1 CGCACACTTAGTGCTACATAATCAAGCT
59866538 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
59866566 CGCACA-TTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
*
59866593 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
59866621 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59866636 GTACAATTTA
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
27 50 0.54
28 43 0.46
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAGCT
Found at i:59866658 original size:29 final size:28
Alignment explanation
Indices: 59866510--59866660 Score: 173
Period size: 27 Copynumber: 5.4 Consensus size: 28
59866500 TATATTAAGT
* *
59866510 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTACATAATCAAAC
* *
59866537 TCGCACACTTAGTGCTACATAATCAAGC
1 CCGCACACTTAGTGCTACATAATCAAAC
* *
59866565 TCGCACA-TTAGTGCTACATAATCAAGC
1 CCGCACACTTAGTGCTACATAATCAAAC
*
59866592 TCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAATCAAAC
* * *
59866620 TCGCACACTTAGTGCTGTACA-ATTTAAAC
1 CCGCACACTTAGTGC--TACATAATCAAAC
59866649 CCGCACACTTAG
1 CCGCACACTTAG
59866661 CGCCAATCTC
Statistics
Matches: 112, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
27 48 0.43
28 43 0.38
29 17 0.15
30 4 0.04
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CCGCACACTTAGTGCTACATAATCAAAC
Found at i:59874862 original size:28 final size:28
Alignment explanation
Indices: 59874797--59874922 Score: 218
Period size: 28 Copynumber: 4.5 Consensus size: 28
59874787 ATATTAAGTC
* *
59874797 CGCACACTCAGTGCTATATAATCAA-CT
1 CGCACACTTAGTGCTACATAATCAAGCT
59874824 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
59874852 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
*
59874880 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
59874908 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59874923 GTACAATTTA
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 23 0.24
28 72 0.76
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAGCT
Found at i:59874945 original size:29 final size:28
Alignment explanation
Indices: 59874796--59874947 Score: 182
Period size: 28 Copynumber: 5.4 Consensus size: 28
59874786 TATATTAAGT
* *
59874796 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTACATAATCAAAC
* *
59874823 TCGCACACTTAGTGCTACATAATCAAGC
1 CCGCACACTTAGTGCTACATAATCAAAC
* *
59874851 TCGCACACTTAGTGCTACATAATCAAGC
1 CCGCACACTTAGTGCTACATAATCAAAC
*
59874879 TCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAATCAAAC
* * *
59874907 TCGCACACTTAGTGCTGTACA-ATTTAAAC
1 CCGCACACTTAGTGC--TACATAATCAAAC
59874936 CCGCACACTTAG
1 CCGCACACTTAG
59874948 CGCCAATCTC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
27 21 0.18
28 72 0.63
29 17 0.15
30 4 0.04
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (28 bp):
CCGCACACTTAGTGCTACATAATCAAAC
Found at i:59878845 original size:27 final size:27
Alignment explanation
Indices: 59878814--59878991 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
59878804 TAAATTGTAC
*
59878814 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* *** *
59878841 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
59878867 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
*
59878895 GGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGATTATGT
*
59878923 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* *
59878950 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
59878977 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59878992 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Done.