Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 90 of 345
Found at i:24627377 original size:5 final size:5
Alignment explanation
Indices: 24627343--24627417 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
24627333 ATAACCCAAT
* * * *
24627343 TTTTA TTTT- TATTTC TTTTA CTTAA TTTTA TTTTA TTTTTA TTTTA CTTTA
1 TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA
*
24627394 TTTTA TTGTT- TATTA TTTTA TTTT
1 TTTTA TT-TTA TTTTA TTTTA TTTT
24627418 TTTGACGTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
4 3 0.05
5 45 0.80
6 8 0.14
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:24627398 original size:36 final size:36
Alignment explanation
Indices: 24627341--24627418 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
24627331 AGATAACCCA
*
24627341 ATTTTTATTTTTATTTCTTTTACTTAATT-TTATTTT
1 ATTTTTATTTTTATTTATTTTA-TTAATTATTATTTT
**
24627377 ATTTTTA-TTTTACTTTATTTTATTGTTTATTATTTT
1 ATTTTTATTTTTA-TTTATTTTATTAATTATTATTTT
24627413 ATTTTT
1 ATTTTT
24627419 TTGACGTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 9 0.24
36 28 0.76
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (36 bp):
ATTTTTATTTTTATTTATTTTATTAATTATTATTTT
Found at i:24632201 original size:10 final size:10
Alignment explanation
Indices: 24632188--24632245 Score: 82
Period size: 10 Copynumber: 5.8 Consensus size: 10
24632178 TTATTTTCAT
24632188 TTATCTTTAA
1 TTATCTTTAA
24632198 TTATCTTTAA
1 TTATCTTTAA
24632208 TTATCTTTAA
1 TTATCTTTAA
*
24632218 TTATCTTTAT
1 TTATCTTTAA
*
24632228 TTAT-TTGTAT
1 TTATCTT-TAA
24632238 TTATCTTT
1 TTATCTTT
24632246 TAGAATTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:24633283 original size:44 final size:44
Alignment explanation
Indices: 24633220--24633352 Score: 248
Period size: 44 Copynumber: 3.0 Consensus size: 44
24633210 GTTCAATGTA
* *
24633220 AAACTTCTCTTTGATATTCGTTACTTAACATTCATTACTTGTTT
1 AAACTTCTCTTTGATATTCGATACTTATCATTCATTACTTGTTT
24633264 AAACTTCTCTTTGATATTCGATACTTATCATTCATTACTTGTTT
1 AAACTTCTCTTTGATATTCGATACTTATCATTCATTACTTGTTT
24633308 AAACTTCTCTTTGATATTCGATACTTATCATTCATTACTTGTTT
1 AAACTTCTCTTTGATATTCGATACTTATCATTCATTACTTGTTT
24633352 A
1 A
24633353 GTAATGTAAG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 87 1.00
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.50
Consensus pattern (44 bp):
AAACTTCTCTTTGATATTCGATACTTATCATTCATTACTTGTTT
Found at i:24637954 original size:27 final size:26
Alignment explanation
Indices: 24637903--24637959 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
24637893 GATAAATGAG
* *
24637903 TTAAATATATTTATATTCTCATTATT
1 TTAAATATATTTATAATATCATTATT
24637929 TTAAATATATTTTATAATAT-ACTTATT
1 TTAAATATA-TTTATAATATCA-TTATT
24637956 TTAA
1 TTAA
24637960 GTCGGTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (26 bp):
TTAAATATATTTATAATATCATTATT
Found at i:24640991 original size:21 final size:20
Alignment explanation
Indices: 24640947--24640992 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24640937 AAAATCAGGG
*
24640947 TAAAATAAACTTACGGGCCT
1 TAAAATAAACTTACGGGCCC
* *
24640967 TAAACTAAGCTTACAGGGCCC
1 TAAAATAAACTTAC-GGGCCC
24640988 TAAAA
1 TAAAA
24640993 ATAGTTTGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (20 bp):
TAAAATAAACTTACGGGCCC
Found at i:24650531 original size:27 final size:27
Alignment explanation
Indices: 24650493--24650584 Score: 118
Period size: 27 Copynumber: 3.4 Consensus size: 27
24650483 GCGAGGCTGC
*
24650493 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGACAG-AGCCACCAGATA
24650520 CAGATATTGTGACAGAGCCACCAGA-A
1 CAGATATTGTGACAGAGCCACCAGATA
*
24650546 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGACAGAGCCACCAGATA
24650573 CAGATAATTGTG
1 CAGAT-ATTGTG
24650585 GCATAACCAC
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
26 8 0.14
27 48 0.81
28 3 0.05
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACAGAGCCACCAGATA
Found at i:24650585 original size:27 final size:26
Alignment explanation
Indices: 24650493--24650597 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 26
24650483 GCGAGGCTGC
* *
24650493 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
* *
24650519 ACAGATATTGTGACAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
24650546 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
* *
24650573 CAGATAATTGTGGCATAACCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
24650598 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.10
27 59 0.86
28 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:24651000 original size:8 final size:8
Alignment explanation
Indices: 24650987--24651018 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
24650977 CTCAAAATAC
24650987 CGGCTTTT
1 CGGCTTTT
24650995 CGGCTTTT
1 CGGCTTTT
24651003 CGGCTTTT
1 CGGCTTTT
24651011 CGGCTTTT
1 CGGCTTTT
24651019 GCCAATCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.25, T:0.50
Consensus pattern (8 bp):
CGGCTTTT
Found at i:24652222 original size:26 final size:26
Alignment explanation
Indices: 24652192--24652247 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
24652182 TGAAATTCCC
*
24652192 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
24652218 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
24652244 ATCA
1 ATCA
24652248 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:24652583 original size:2 final size:2
Alignment explanation
Indices: 24652576--24652607 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24652566 GCGTTACAGA
24652576 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24652608 GGAATTAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24662890 original size:27 final size:27
Alignment explanation
Indices: 24662852--24662997 Score: 140
Period size: 27 Copynumber: 5.4 Consensus size: 27
24662842 GTGAGGCTGC
*
24662852 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGACAG-AGCCACCAGATA
*
24662879 CAGATATTGTGACAGAGCCACTAGA-A
1 CAGATATTGTGACAGAGCCACCAGATA
*
24662905 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGACAGAGCCACCAGATA
* * * *
24662932 CAGATAATTGTGGCATAGCCACTAG-GA
1 CAGAT-ATTGTGACAGAGCCACCAGATA
*
24662959 CAGATATTTGTGGCAGAGCCACCAGAT-
1 CAGATA-TTGTGACAGAGCCACCAGATA
24662986 CAGATAATTGTG
1 CAGAT-ATTGTG
24662998 GCATTGCCAC
Statistics
Matches: 101, Mismatches: 10, Indels: 16
0.80 0.08 0.13
Matches are distributed among these distances:
26 9 0.09
27 88 0.87
28 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGACAGAGCCACCAGATA
Found at i:24662998 original size:27 final size:27
Alignment explanation
Indices: 24662870--24663010 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
24662860 GTGACGAAGT
*
24662870 CACCAGATACAGAT-ATTGTGACAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGC
* *
24662897 CACTAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGATCAGATAAT-TGTGGCAGAGC
*
24662924 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
* *
24662951 CACTAGGA-CAGATATTTGTGGCAGAGC
1 CACCA-GATCAGATAATTGTGGCAGAGC
**
24662978 CACCAGATCAGATAATTGTGGCATTGC
1 CACCAGATCAGATAATTGTGGCAGAGC
24663005 CACCAG
1 CACCAG
24663011 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.09
27 84 0.87
28 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCAGAGC
Found at i:24662998 original size:54 final size:54
Alignment explanation
Indices: 24662870--24663013 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
24662860 GTGACGAAGT
* * *
24662870 CACCAGATACAGAT-ATTGTGACAGAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACTAGGACAGATATATGTGGCAGAGC
*
24662924 CACCAGATCAGATAATTGTGGCATAGCCACTAGGACAGATATTTGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACTAGGACAGATATATGTGGCAGAGC
* *
24662978 CACCAGATCAGATAATTGTGGCATTGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACTAGGAC
24663014 GCTTCCTACA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACTAGGACAGATATATGTGGCAGAGC
Found at i:24676217 original size:25 final size:25
Alignment explanation
Indices: 24676188--24676270 Score: 91
Period size: 25 Copynumber: 3.3 Consensus size: 25
24676178 TCCAGTTTTG
*
24676188 TAGCTCGTGAGAGCTTACCGATTC-
1 TAGCTCGTGAGAGCTTACCAATTCA
24676212 TCAGCTCGT-ATGAGCTTACCAATTCA
1 T-AGCTCGTGA-GAGCTTACCAATTCA
* *
24676238 TAGCTCGTGAGAG-TATATCGATTCA
1 TAGCTCGTGAGAGCT-TACCAATTCA
24676263 TAGCTCGT
1 TAGCTCGT
24676271 ATGAGCAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.06
25 46 0.90
26 2 0.04
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (25 bp):
TAGCTCGTGAGAGCTTACCAATTCA
Found at i:24684512 original size:20 final size:22
Alignment explanation
Indices: 24684474--24684513 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24684464 TTAATATTAC
*
24684474 ATATATATTTTATAGTTGTTTT
1 ATATATATTATATAGTTGTTTT
24684496 ATATATATTAT-TA-TTGTT
1 ATATATATTATATAGTTGTT
24684514 CCTAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (22 bp):
ATATATATTATATAGTTGTTTT
Found at i:24684617 original size:24 final size:25
Alignment explanation
Indices: 24684590--24684636 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
24684580 TACCTCTATA
24684590 TTTATTAT-TA-ATATTAATATATGT
1 TTTATTATATATAT-TTAATATATGT
24684614 TTTATTATATATATTTAATATAT
1 TTTATTATATATATTTAATATAT
24684637 ATACGTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 11 0.52
26 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTATTATATATATTTAATATATGT
Found at i:24684949 original size:15 final size:16
Alignment explanation
Indices: 24684915--24684956 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
24684905 TGTTATGTAT
*
24684915 ATATATTTGATTTTATC
1 ATATATTT-ATTTTACC
24684932 ATATATTTATTTT-CC
1 ATATATTTATTTTACC
24684947 ATATATTTAT
1 ATATATTTAT
24684957 GTAATGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (16 bp):
ATATATTTATTTTACC
Found at i:24697415 original size:43 final size:44
Alignment explanation
Indices: 24697354--24697440 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
24697344 ATTCACCAAG
* *
24697354 CCTTAAACCCCTAAGCAGTAGGGTAACAGG-TTAAATTTACAGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
* *
24697397 CCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAAATTACAGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
24697441 TCTCGTCTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 28 0.72
44 11 0.28
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (44 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
Found at i:24697684 original size:43 final size:42
Alignment explanation
Indices: 24697626--24697731 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
24697616 GAGCTTCAAC
* * *
24697626 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACTTTAAA
1 CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAA-TCTAAA
* *** *
24697669 CCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTAAA
1 CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAATCTAAA
*
24697711 CCCCTAAGCAGTAGGGAAACA
1 CCCCTAAGCAGTAGGGTAACA
24697732 GATCAATGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (42 bp):
CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAATCTAAA
Found at i:24697887 original size:42 final size:42
Alignment explanation
Indices: 24697818--24697898 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
24697808 GTAGCGGCTG
*
24697818 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATTA
1 AAGCCACAGAAGATCTCCTTGAAGTTTCAGTGGAATTGATTA
*
24697860 AAGCTACAGAAGATCTCCTTGAAGTTTCAGTGGAATTGA
1 AAGCCACAGAAGATCTCCTTGAAGTTTCAGTGGAATTGA
24697899 CCGAAAATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (42 bp):
AAGCCACAGAAGATCTCCTTGAAGTTTCAGTGGAATTGATTA
Found at i:24698059 original size:44 final size:43
Alignment explanation
Indices: 24698003--24698211 Score: 136
Period size: 44 Copynumber: 4.7 Consensus size: 43
24697993 CCACCAAGCT
*
24698003 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATA
1 TTAA-CCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATC
* * * *** * *
24698047 TTATCGCCCTAAGCAGTAGGGAAAC-AGATCGAAGGCGA-CGAGC
1 TTAAC-CCCTAAGCAGTAGGGTAACAAGCT-GAAGTTTATAGATC
* * * *
24698090 TTTAACTCTCTAAGCAGTAGGGTAACAAGATGACGTTCATAAGATC
1 -TTAAC-CCCTAAGCAGTAGGGTAACAAGCTGAAGTTTAT-AGATC
* * * * * *
24698136 TTATCACCCTAAGAAGTAGGGTAGCAAGCCGAA-TTTACAGACC
1 TTAAC-CCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATC
* *
24698179 TTGAACCCCTAAGCAGTAGGGTAATAGGCTGAA
1 TT-AACCCCTAAGCAGTAGGGTAACAAGCTGAA
24698212 AATCAAATGT
Statistics
Matches: 122, Mismatches: 36, Indels: 15
0.71 0.21 0.09
Matches are distributed among these distances:
43 34 0.28
44 56 0.46
45 29 0.24
46 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (43 bp):
TTAACCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATC
Found at i:24699727 original size:20 final size:22
Alignment explanation
Indices: 24699689--24699728 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24699679 TTAATATTAC
*
24699689 ATATATATTTTATAGTTGTTTT
1 ATATATATTATATAGTTGTTTT
24699711 ATATATATTAT-TA-TTGTT
1 ATATATATTATATAGTTGTT
24699729 CCTAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (22 bp):
ATATATATTATATAGTTGTTTT
Found at i:24700167 original size:15 final size:16
Alignment explanation
Indices: 24700133--24700174 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
24700123 TGTTATGTAT
*
24700133 ATATATTTGATTTTATC
1 ATATATTT-ATTTTACC
24700150 ATATATTTATTTT-CC
1 ATATATTTATTTTACC
*
24700165 ATATGTTTAT
1 ATATATTTAT
24700175 GTAATGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 5 0.22
17 8 0.35
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (16 bp):
ATATATTTATTTTACC
Found at i:24704849 original size:25 final size:25
Alignment explanation
Indices: 24704820--24704903 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
24704810 TGGACACACC
24704820 ACAGCTCGTATGAGCTT-CCTGATTT
1 ACAGCTCGTATGAGCTTACC-GATTT
* * *
24704845 GCAGCTCATGA-GAGCTTACCAATTT
1 ACAGCTCGT-ATGAGCTTACCGATTT
* *
24704870 TCAGCTCGTATGAGCTTACCGATTC
1 ACAGCTCGTATGAGCTTACCGATTT
24704895 ACAGCTCGT
1 ACAGCTCGT
24704904 GAGAGCATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
24 1 0.02
25 44 0.92
26 3 0.06
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (25 bp):
ACAGCTCGTATGAGCTTACCGATTT
Found at i:24704914 original size:25 final size:25
Alignment explanation
Indices: 24704846--24704914 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
24704836 TCCTGATTTG
* **
24704846 CAGCTCATGAGAGCTTACCAATTTT
1 CAGCTCGTGAGAGCTTACCAATTCA
*
24704871 CAGCTCGT-ATGAGCTTACCGATTCA
1 CAGCTCGTGA-GAGCTTACCAATTCA
*
24704896 CAGCTCGTGAGAGCATACC
1 CAGCTCGTGAGAGCTTACC
24704915 TCGTTTAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTACCAATTCA
Found at i:24710008 original size:20 final size:20
Alignment explanation
Indices: 24709962--24710001 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24709952 CTTTTTTTAA
24709962 ATAATTATGTTTATTTTCTT
1 ATAATTATGTTTATTTTCTT
24709982 ATAATTATGTTTATTTTCTT
1 ATAATTATGTTTATTTTCTT
24710002 TAAATTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (20 bp):
ATAATTATGTTTATTTTCTT
Found at i:24711882 original size:6 final size:6
Alignment explanation
Indices: 24711850--24711883 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
24711840 GAGGCAAAGA
* *
24711850 AAGATG AAAATG AAAATG AAGATG AAGATG AAGA
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGA
24711884 GAGCATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (6 bp):
AAGATG
Found at i:24711955 original size:13 final size:13
Alignment explanation
Indices: 24711937--24711963 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24711927 AGTGAATGGG
24711937 TATTTAATTTTTT
1 TATTTAATTTTTT
24711950 TATTTAATTTTTT
1 TATTTAATTTTTT
24711963 T
1 T
24711964 TTTGTGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TATTTAATTTTTT
Found at i:24713035 original size:28 final size:28
Alignment explanation
Indices: 24713004--24713061 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
24712994 ATTTTCAATT
24713004 AAAATTATAAATTAAAATAAAATTTTTA
1 AAAATTATAAATTAAAATAAAATTTTTA
* **
24713032 AAAATTATCAATTAAAATATTATTTTTA
1 AAAATTATAAATTAAAATAAAATTTTTA
24713060 AA
1 AA
24713062 TATTTAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAATTATAAATTAAAATAAAATTTTTA
Found at i:24713743 original size:21 final size:22
Alignment explanation
Indices: 24713694--24713743 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
24713684 GTTCCCAAAC
24713694 TATTTTTAAGGCCCCGTAAGCT
1 TATTTTTAAGGCCCCGTAAGCT
* *
24713716 TA-GTTTAAGG-CTCGTAAG-T
1 TATTTTTAAGGCCCCGTAAGCT
24713735 GTATTTTTA
1 -TATTTTTA
24713744 TCCTGATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
19 1 0.04
20 9 0.39
21 11 0.48
22 2 0.09
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (22 bp):
TATTTTTAAGGCCCCGTAAGCT
Found at i:24715787 original size:26 final size:26
Alignment explanation
Indices: 24715751--24715801 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
24715741 ATATTATATA
24715751 CTTAACACTCGAGATTCGGAGTCGAT
1 CTTAACACTCGAGATTCGGAGTCGAT
24715777 CTTAACACTCGAGATTCGGAGTCGA
1 CTTAACACTCGAGATTCGGAGTCGA
24715802 AACTTGATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (26 bp):
CTTAACACTCGAGATTCGGAGTCGAT
Found at i:24718871 original size:2 final size:2
Alignment explanation
Indices: 24718864--24718888 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24718854 TACACGGATC
24718864 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
24718889 TAAAATACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:24719306 original size:20 final size:21
Alignment explanation
Indices: 24719276--24719322 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
24719266 TAATTTATTT
*
24719276 ATTACATAAATATCT-TTTATA
1 ATTA-ATAAATATCTATTAATA
24719297 ATTAATAAATATCTATTAATA
1 ATTAATAAATATCTATTAATA
24719318 ATTAA
1 ATTAA
24719323 ATACATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAATAAATATCTATTAATA
Found at i:24719488 original size:30 final size:29
Alignment explanation
Indices: 24719425--24719488 Score: 69
Period size: 30 Copynumber: 2.1 Consensus size: 29
24719415 ATATCAATTT
*
24719425 AATAATAATAAATACATTAATGTTTACTTA
1 AATAATAACAAATACATTAATGTTTAC-TA
24719455 AATAATAAGCAAATACA-TACATGTATTAC-A
1 AATAATAA-CAAATACATTA-ATGT-TTACTA
24719485 AATA
1 AATA
24719489 TATGTATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
30 15 0.50
31 11 0.37
32 4 0.13
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (29 bp):
AATAATAACAAATACATTAATGTTTACTA
Found at i:24719933 original size:26 final size:26
Alignment explanation
Indices: 24719903--24719980 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
24719893 AAATATATAT
24719903 ATTTTATAATTAAAATCTAAGTAAAA
1 ATTTTATAATTAAAATCTAAGTAAAA
* * * *
24719929 ATTTTA-GATT----TTTAA-TATAT
1 ATTTTATAATTAAAATCTAAGTAAAA
24719949 ATTTTATAATTAAAATCTAAGTAAAA
1 ATTTTATAATTAAAATCTAAGTAAAA
24719975 ATTTTA
1 ATTTTA
24719981 GATTTTTACT
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
20 9 0.24
21 7 0.18
25 7 0.18
26 15 0.39
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (26 bp):
ATTTTATAATTAAAATCTAAGTAAAA
Found at i:24719996 original size:46 final size:46
Alignment explanation
Indices: 24719897--24719988 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
24719887 ACTAATAAAT
24719897 ATATATATTTTATAATTAAAATCTAAGTAAAAATTTTAGATTTTTA
1 ATATATATTTTATAATTAAAATCTAAGTAAAAATTTTAGATTTTTA
24719943 ATATATATTTTATAATTAAAATCTAAGTAAAAATTTTAGATTTTTA
1 ATATATATTTTATAATTAAAATCTAAGTAAAAATTTTAGATTTTTA
24719989 CTTTATATGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (46 bp):
ATATATATTTTATAATTAAAATCTAAGTAAAAATTTTAGATTTTTA
Found at i:24720378 original size:43 final size:44
Alignment explanation
Indices: 24720296--24720398 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 44
24720286 AGTTTAATGT
* ** *
24720296 ATTGGCACTAAGTATG-TGATACAATTATAGCCTCGGCTAATTA
1 ATTGGCACTAAGTGTGCTGATACAATTATAGCCTAAGCTAACTA
*
24720339 ATTGGCACTAAGTGTGCT-ATACAATTATAGCTTAAGCTAACTA
1 ATTGGCACTAAGTGTGCTGATACAATTATAGCCTAAGCTAACTA
* *
24720382 ATCGACACTAAGTGTGC
1 ATTGGCACTAAGTGTGC
24720399 GAGTTCGTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 51 0.98
44 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (44 bp):
ATTGGCACTAAGTGTGCTGATACAATTATAGCCTAAGCTAACTA
Found at i:24721617 original size:20 final size:20
Alignment explanation
Indices: 24721577--24721622 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
24721567 TAAACATGAA
*
24721577 ATTGATTGATGATATTATGG
1 ATTGATTGATCATATTATGG
24721597 ATTGATTGATACATATT-TGG
1 ATTGATTGAT-CATATTATGG
24721617 AGTTGA
1 A-TTGA
24721623 ATTTTGACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTGATTGATCATATTATGG
Found at i:24723648 original size:137 final size:137
Alignment explanation
Indices: 24723402--24723688 Score: 502
Period size: 137 Copynumber: 2.1 Consensus size: 137
24723392 CATTGGGCCT
**
24723402 AAGCCCATTCAGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
24723467 AGACCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGACCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
*
24723532 CATATGC
131 CATATAC
* *
24723539 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* * *
24723604 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGACCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
24723669 CATATAC
131 CATATAC
24723676 AAGCCCATTTGGG
1 AAGCCCATTTGGG
24723689 GAGACTACTC
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGACCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATAC
Found at i:24725511 original size:26 final size:26
Alignment explanation
Indices: 24725475--24725584 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
24725465 CATGAAATTC
24725475 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
24725501 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
24725527 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
24725553 TTATCATGGAACATTTACCTGACCTA
1 TTATCATGAAACATTTACCTAACCTA
24725579 TTATCA
1 TTATCA
24725585 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:24725595 original size:10 final size:10
Alignment explanation
Indices: 24725580--24725604 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24725570 CCTGACCTAT
24725580 TATCAATTTG
1 TATCAATTTG
24725590 TATCAATTTG
1 TATCAATTTG
24725600 TATCA
1 TATCA
24725605 TAAATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:24730803 original size:136 final size:135
Alignment explanation
Indices: 24730552--24730835 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 135
24730542 CATTGGGCCT
**
24730552 AAGCCCATTCAGGTAACAGTGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
24730617 GCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACA
66 GCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACA
24730682 TATGC
131 TATGC
24730687 AAGCCCATTTGGGTAACAGTGGTACTGGG-CAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGT-GTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
24730751 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AG-CCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
24730816 CATATGC
129 CATATGC
24730823 AAGCCCATTTGGG
1 AAGCCCATTTGGG
24730836 GAGACTACTC
Statistics
Matches: 145, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
135 55 0.38
136 90 0.62
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGTGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACA
TATGC
Found at i:24732649 original size:26 final size:26
Alignment explanation
Indices: 24732613--24732717 Score: 139
Period size: 26 Copynumber: 4.2 Consensus size: 26
24732603 CATGAAATTC
24732613 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
24732639 TTATCATGAAACATTTACCTAACCC-
1 TTATCATGAAACATTTACCTAACCCA
* *
24732664 ----CATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
24732686 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
24732712 TTATCA
1 TTATCA
24732718 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
21 19 0.26
26 53 0.74
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:24732691 original size:47 final size:47
Alignment explanation
Indices: 24732617--24732709 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
24732607 AAATTCTTAT
24732617 CATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCC
1 CATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCC
* * *
24732664 CATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACC
1 CATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACC
24732710 TATTATCAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.29
Consensus pattern (47 bp):
CATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCC
Found at i:24737044 original size:43 final size:43
Alignment explanation
Indices: 24736990--24737094 Score: 158
Period size: 43 Copynumber: 2.4 Consensus size: 43
24736980 GGTTTAATGT
* *
24736990 ATTGGAACTAAGTGTGCGATACAATTATAGCCTT-GGCTAATTA
1 ATTGGCACTAAGTGTGCGATACAATTATAG-CTTAAGCTAATTA
24737033 ATTGGCACTAAGTGTGCGATACAATTATAGCTTAAGCTAATTA
1 ATTGGCACTAAGTGTGCGATACAATTATAGCTTAAGCTAATTA
**
24737076 ATCCGCACTAAGTGTGCGA
1 ATTGGCACTAAGTGTGCGA
24737095 GTTCATTGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
42 3 0.05
43 54 0.95
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (43 bp):
ATTGGCACTAAGTGTGCGATACAATTATAGCTTAAGCTAATTA
Found at i:24741956 original size:17 final size:17
Alignment explanation
Indices: 24741917--24741957 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
24741907 AAAATTGCAA
24741917 TCAA-TTTTCATTTTAT
1 TCAATTTTTCATTTTAT
*
24741933 ACAAATTTTTCATTTTAT
1 TC-AATTTTTCATTTTAT
24741951 TCAATTT
1 TCAATTT
24741958 AGTCCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 7 0.33
18 13 0.62
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
TCAATTTTTCATTTTAT
Found at i:24743944 original size:61 final size:62
Alignment explanation
Indices: 24743879--24743998 Score: 152
Period size: 62 Copynumber: 2.0 Consensus size: 62
24743869 TGTAAACAGA
* * * *
24743879 GAGTTACACGGCCTAGA-ACAAGTCTGTGTCCTTGCCCGTGTGGTCCTATGTCACAAATAGT
1 GAGTTACACGACCTAGACACAAGTCCGTGTACTTGCCCGTGTGGTCCTAAGTCACAAATAGT
* * * * *
24743940 GAGTTACATGACTTAGACACACGTCCGTGTACTTGCCCGTGTTGTCCTAAGTCATAAAT
1 GAGTTACACGACCTAGACACAAGTCCGTGTACTTGCCCGTGTGGTCCTAAGTCACAAAT
24743999 GTAGGAGGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
61 14 0.29
62 35 0.71
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (62 bp):
GAGTTACACGACCTAGACACAAGTCCGTGTACTTGCCCGTGTGGTCCTAAGTCACAAATAGT
Found at i:24744454 original size:15 final size:15
Alignment explanation
Indices: 24744436--24744468 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
24744426 AAAGAACTTG
24744436 AAAGAAAAGAAAAA-A
1 AAAGAAAA-AAAAATA
24744451 AAAGAAAAAAAAATA
1 AAAGAAAAAAAAATA
24744466 AAA
1 AAA
24744469 TGACCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAAATA
Found at i:24744942 original size:20 final size:20
Alignment explanation
Indices: 24744901--24744950 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
24744891 CCTGGTTTTG
*
24744901 GTATCGATACCAAGGGCTGA
1 GTATCGATACCAAGGGCAGA
*
24744921 GTATCGATACCATGAGG-AGA
1 GTATCGATACCAAG-GGCAGA
*
24744941 GTATCAATAC
1 GTATCGATAC
24744951 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (20 bp):
GTATCGATACCAAGGGCAGA
Found at i:24750028 original size:17 final size:17
Alignment explanation
Indices: 24749999--24750040 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
24749989 GAAAATGACC
24749999 CTTTGTTTCTTTTTTTT
1 CTTTGTTTCTTTTTTTT
24750016 CTTT-TTTCTTTTTTTT
1 CTTTGTTTCTTTTTTTT
*
24750032 -TTTCTTTCT
1 CTTTGTTTCT
24750041 GGAAATTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.12
16 17 0.71
17 4 0.17
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.83
Consensus pattern (17 bp):
CTTTGTTTCTTTTTTTT
Found at i:24752121 original size:41 final size:41
Alignment explanation
Indices: 24752076--24752235 Score: 221
Period size: 41 Copynumber: 3.9 Consensus size: 41
24752066 GTAAAACACA
* * *
24752076 GAGCATTAGCGGCGCTTTTGGTAAAACGCTGCTAAAAGTCG
1 GAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAATCG
*
24752117 GAGCATTAGCGGAGCTTTCGGTAAAACGCCGCTAAAAATCG
1 GAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAATCG
* * * *
24752158 GAGCATTAGCAGCGCTTTCAGTAAAACGCCGCTAAAAACCA
1 GAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAATCG
* * *
24752199 GAGCATTAGCGACGCTTTTGGTAAAATGCCGCTAAAA
1 GAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
24752236 GTTATATAAC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAATCG
Found at i:24752352 original size:53 final size:53
Alignment explanation
Indices: 24752251--24752362 Score: 131
Period size: 53 Copynumber: 2.1 Consensus size: 53
24752241 ATAACCCCTA
* * *
24752251 AAACCCTAAACCCTAAAAAATCATGAACATTAATCTATAACCCATAAAACAC-T
1 AAACCCTAAACCCTAAAAAATCATAAACACTAAACTATAACCCATAAAAC-CTT
* *
24752304 AAACCTCTAAACCCT-AAAAATCCTAAACACTAAACTATAACTTC-TAAAACCTT
1 AAACC-CTAAACCCTAAAAAATCATAAACACTAAACTATAAC-CCATAAAACCTT
24752357 AAACCC
1 AAACCC
24752363 CAAAAACATC
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
52 2 0.04
53 39 0.76
54 10 0.20
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (53 bp):
AAACCCTAAACCCTAAAAAATCATAAACACTAAACTATAACCCATAAAACCTT
Found at i:24752453 original size:7 final size:7
Alignment explanation
Indices: 24752441--24752504 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
24752431 TTTATTTTTT
*
24752441 GGTTTAC
1 GGTTTAA
24752448 GGTTTAA
1 GGTTTAA
**
24752455 TATTTAA
1 GGTTTAA
24752462 GGTTTAA
1 GGTTTAA
* *
24752469 GGTCTAT
1 GGTTTAA
*
24752476 GGTTTAG
1 GGTTTAA
*
24752483 GGTTTTAT
1 GG-TTTAA
24752491 GGTTTAA
1 GGTTTAA
24752498 GGTTTAA
1 GGTTTAA
24752505 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:24752493 original size:15 final size:15
Alignment explanation
Indices: 24752457--24752507 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
24752447 CGGTTTAATA
*
24752457 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
24752471 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
24752486 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
24752501 TTAATGG
1 TTTATGG
24752508 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:24753095 original size:7 final size:7
Alignment explanation
Indices: 24753085--24753164 Score: 56
Period size: 7 Copynumber: 11.3 Consensus size: 7
24753075 CATTAAACCG
24753085 AAATAAA
1 AAATAAA
24753092 AAAT--A
1 AAATAAA
*
24753097 AACTCAAA
1 AAAT-AAA
24753105 AAATAAA
1 AAATAAA
*
24753112 AATTTAAA
1 AA-ATAAA
*
24753120 AATTTAAA
1 AA-ATAAA
* *
24753128 AATTTAA
1 AAATAAA
24753135 AAATAAA
1 AAATAAA
* *
24753142 AATTTAA
1 AAATAAA
24753149 AAATAAA
1 AAATAAA
24753156 AAATAAA
1 AAATAAA
24753163 AA
1 AA
24753165 CTTAAAAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
5 4 0.07
7 37 0.63
8 18 0.31
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (7 bp):
AAATAAA
Found at i:24753119 original size:8 final size:8
Alignment explanation
Indices: 24753108--24753177 Score: 87
Period size: 8 Copynumber: 9.4 Consensus size: 8
24753098 ACTCAAAAAA
24753108 TAAAAATT
1 TAAAAATT
24753116 TAAAAATT
1 TAAAAATT
24753124 TAAAAATT
1 TAAAAATT
24753132 TAAAAA--
1 TAAAAATT
24753138 TAAAAATT
1 TAAAAATT
24753146 TAAAAA--
1 TAAAAATT
*
24753152 TAAAAA-A
1 TAAAAATT
*
24753159 TAAAAACT
1 TAAAAATT
24753167 TAAAAATT
1 TAAAAATT
24753175 TAA
1 TAA
24753178 TATTTAATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
6 12 0.21
7 6 0.11
8 38 0.68
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (8 bp):
TAAAAATT
Found at i:24753120 original size:14 final size:14
Alignment explanation
Indices: 24753103--24753177 Score: 98
Period size: 14 Copynumber: 5.1 Consensus size: 14
24753093 AATAAACTCA
24753103 AAAAATAAAAATTT
1 AAAAATAAAAATTT
24753117 AAAAATTTAAAAATTT
1 AAAAA--TAAAAATTT
24753133 AAAAATAAAAATTT
1 AAAAATAAAAATTT
*
24753147 AAAAATAAAAA-AT
1 AAAAATAAAAATTT
24753160 AAAAACTTAAAAATTT
1 AAAAA--TAAAAATTT
24753176 AA
1 AA
24753178 TATTTAATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
13 6 0.11
14 25 0.46
15 6 0.11
16 17 0.31
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATAAAAATTT
Found at i:24753141 original size:22 final size:22
Alignment explanation
Indices: 24753116--24753177 Score: 99
Period size: 21 Copynumber: 2.9 Consensus size: 22
24753106 AATAAAAATT
24753116 TAAAAATTTAAAAATTTAAAAA
1 TAAAAATTTAAAAATTTAAAAA
*
24753138 TAAAAATTTAAAAA-TAAAAAA
1 TAAAAATTTAAAAATTTAAAAA
*
24753159 TAAAAACTTAAAAATTTAA
1 TAAAAATTTAAAAATTTAA
24753178 TATTTAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAATTTAAAAATTTAAAAA
Found at i:24753141 original size:43 final size:43
Alignment explanation
Indices: 24753090--24753177 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
24753080 AACCGAAATA
* * *
24753090 AAAAAT-AAACTCAAAAAATAAAAATTTAAAAATTTAAAAATTT
1 AAAAATAAAAATCAAAAAATAAAAA-ATAAAAACTTAAAAATTT
**
24753133 AAAAATAAAAATTTAAAAATAAAAAATAAAAACTTAAAAATTT
1 AAAAATAAAAATCAAAAAATAAAAAATAAAAACTTAAAAATTT
24753176 AA
1 AA
24753178 TATTTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 24 0.62
44 15 0.38
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.26
Consensus pattern (43 bp):
AAAAATAAAAATCAAAAAATAAAAAATAAAAACTTAAAAATTT
Found at i:24756686 original size:23 final size:23
Alignment explanation
Indices: 24756660--24756870 Score: 146
Period size: 23 Copynumber: 9.2 Consensus size: 23
24756650 CTGCTGTTGC
* *
24756660 TTAAATGTTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGT
* *
24756683 TTAAATGCTATAAATTGAAGCGT
1 TTAAATGCTGTAAATTGAAGTGT
* *
24756706 TTAAATGTTGTAAATTGAAGTAT
1 TTAAATGCTGTAAATTGAAGTGT
* * *
24756729 TTAAGTACTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGT
** * *
24756752 TTAGTTGCTGGAAATTG-AGATAT
1 TTAAATGCTGTAAATTGAAG-TGT
*
24756775 TT-TATCGCTGT-AATTG-AGTTGT
1 TTAAAT-GCTGTAAATTGAAG-TGT
* * *
24756797 ATAAATGTTGTTAATTG-AGATG-
1 TTAAATGCTGTAAATTGAAG-TGT
* **
24756819 TTAAAGTGTTACAAATTGAAGTGT
1 TTAAA-TGCTGTAAATTGAAGTGT
*
24756843 TTAAATGCTGTAAATTGAAGTGC
1 TTAAATGCTGTAAATTGAAGTGT
24756866 TTAAA
1 TTAAA
24756871 CGTTATACAA
Statistics
Matches: 146, Mismatches: 35, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
22 21 0.14
23 118 0.81
24 7 0.05
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (23 bp):
TTAAATGCTGTAAATTGAAGTGT
Found at i:24759606 original size:12 final size:12
Alignment explanation
Indices: 24759578--24759721 Score: 52
Period size: 12 Copynumber: 11.8 Consensus size: 12
24759568 TTATTTTCTA
* *
24759578 TATATATTTAAA
1 TATATATTTTAT
24759590 T-TATATTTTAT
1 TATATATTTTAT
*
24759601 TATATAACATTTAT
1 TATAT-A-TTTTAT
24759615 TATAT-TTTTAT
1 TATATATTTTAT
*
24759626 T-TTTATTCTATAT
1 TATATATT-T-TAT
24759639 TACTTATCATTTT-T
1 TA--TAT-ATTTTAT
*
24759653 TATATATGTTAT
1 TATATATTTTAT
*
24759665 GTATATCA-TATAT
1 -TATAT-ATTTTAT
* *
24759678 TATCTATTATAT
1 TATATATTTTAT
*
24759690 TATTTATGTTTA-
1 TATATAT-TTTAT
24759702 TAT-TA-TTTAT
1 TATATATTTTAT
24759712 TATATTATTT
1 TATA-TATTT
24759722 AAAATTTTAA
Statistics
Matches: 101, Mismatches: 12, Indels: 37
0.67 0.08 0.25
Matches are distributed among these distances:
9 4 0.04
10 5 0.05
11 24 0.24
12 29 0.29
13 18 0.18
14 14 0.14
15 1 0.01
16 3 0.03
17 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (12 bp):
TATATATTTTAT
Found at i:24759702 original size:15 final size:12
Alignment explanation
Indices: 24759456--24759722 Score: 68
Period size: 11 Copynumber: 21.7 Consensus size: 12
24759446 ATTTTACATC
24759456 ATTATTT-TTAT
1 ATTATTTATTAT
24759467 ATTA-TTATTAT
1 ATTATTTATTAT
*
24759478 ATT-TTTACTTGTGTT
1 ATTATTTA--T-T-AT
24759493 ATATATTTATTA-
1 AT-TATTTATTAT
24759505 ATTATTTA-TAT
1 ATTATTTATTAT
*
24759516 ATTGTTT-TTACAT
1 ATTATTTATT--AT
*
24759529 ATATACGTTCATTAT
1 AT-TA--TTTATTAT
*
24759544 -TT-TATATTAT
1 ATTATTTATTAT
24759554 ATCTATTATATT-T
1 AT-TATT-TATTAT
*
24759567 CTTATTT-TCTAT
1 ATTATTTAT-TAT
24759579 ATATATTTAAATTAT
1 AT-TATTT--ATTAT
24759594 A-T-TTTATTAT
1 ATTATTTATTAT
*
24759604 ATAACATTTATTAT
1 AT--TATTTATTAT
24759618 ATT-TTTATT-T
1 ATTATTTATTAT
*
24759628 -TTA-TT-CTAT
1 ATTATTTATTAT
* *
24759637 ATTACTTATCAT
1 ATTATTTATTAT
24759649 -TT-TTTATATAT
1 ATTATTTAT-TAT
*
24759660 GTTATGTATATCATAT
1 ATTAT-T-TAT--TAT
*
24759676 ATTATCTATTAT
1 ATTATTTATTAT
24759688 ATTATTTATGTTTAT
1 ATTATTTA---TTAT
24759703 ATTATTTATTAT
1 ATTATTTATTAT
24759715 ATTATTTA
1 ATTATTTA
24759723 AAATTTTAAA
Statistics
Matches: 192, Mismatches: 20, Indels: 87
0.64 0.07 0.29
Matches are distributed among these distances:
8 1 0.01
9 5 0.03
10 25 0.13
11 42 0.22
12 38 0.20
13 16 0.08
14 22 0.11
15 25 0.13
16 12 0.06
17 6 0.03
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (12 bp):
ATTATTTATTAT
Found at i:24759718 original size:32 final size:32
Alignment explanation
Indices: 24759546--24759719 Score: 86
Period size: 31 Copynumber: 5.6 Consensus size: 32
24759536 TTCATTATTT
* *
24759546 TATATTATATCTATTATATT-TCTTATTT-TCTA
1 TATATTAT-T-TATTATATTATATTATTTATGTA
24759578 TATA-TATTTA--A-ATTATA-T-TTTAT-TA
1 TATATTATTTATTATATTATATTATTTATGTA
** * *
24759603 TATAACATTTATTATATTTTTATT-TTTAT-TC
1 TATATTATTTATTATA-TTATATTATTTATGTA
* * * *
24759634 TATATTACTTATCATTTTTTATATATGTTATGTA
1 TATATTATTTATTATATTATAT-TAT-TTATGTA
* *
24759668 TATCA-TATATTA-TCTATTATATTATTTATGTT
1 TAT-ATTAT-TTATTATATTATATTATTTATGTA
24759700 TATATTATTTATTATATTAT
1 TATATTATTTATTATATTAT
24759720 TTAAAATTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
25 9 0.08
26 10 0.09
27 2 0.02
28 1 0.01
29 3 0.03
30 11 0.10
31 26 0.24
32 24 0.22
33 7 0.06
34 12 0.11
35 4 0.04
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (32 bp):
TATATTATTTATTATATTATATTATTTATGTA
Found at i:24759813 original size:19 final size:19
Alignment explanation
Indices: 24759787--24759850 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
24759777 TAAATTATTA
24759787 ATTA-TTTATTTATTATGT
1 ATTATTTTATTTATTATGT
**
24759805 ATTATTTTACTTTAAAATG-
1 ATTATTTTA-TTTATTATGT
*
24759824 A-TATTTT-TATATTATGT
1 ATTATTTTATTTATTATGT
*
24759841 GTTATTTTAT
1 ATTATTTTAT
24759851 AAATTCTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
18 16 0.46
19 6 0.17
20 7 0.20
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (19 bp):
ATTATTTTATTTATTATGT
Found at i:24771688 original size:44 final size:44
Alignment explanation
Indices: 24771636--24771895 Score: 201
Period size: 44 Copynumber: 5.9 Consensus size: 44
24771626 CAAGATTTGG
24771636 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
1 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
* * * * ** *
24771680 CATTCCTGTGCTTACAGCGAAACAGATCGAAGATTTCAGCAT-AG-
1 CATCCCTGTGTTTATAG-GGAACAGATCGAAGATAGCAG-ATCTGA
* * *
24771724 CATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGG
1 CATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTGA
* *
24771768 CATCCCTGTGTTTATAAGGAACAGATCGAAGATAACAGATCTGA
1 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
* * * * * ** *
24771812 CA-CTCCTGTGCTTACAGCGAAGCAGATTGAGGATTTCAG--CATGG
1 CATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAGATC-TGA
* **
24771856 TATCCCTGTGTTTATAGGGAACA-AGTTAAAGATAGCAGAT
1 CATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGAT
24771896 TTGGCATCTC
Statistics
Matches: 166, Mismatches: 37, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
42 4 0.02
43 29 0.17
44 97 0.58
45 34 0.20
46 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
Found at i:24771821 original size:88 final size:88
Alignment explanation
Indices: 24771635--24771805 Score: 231
Period size: 88 Copynumber: 2.0 Consensus size: 88
24771625 ACAAGATTTG
* *
24771635 GCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGA
1 GCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATCCCTGTGCTTAAAGCGA
**
24771700 AACAGATCGAAGATTTCAGCATA
66 AACAGATCGAAGATAACAGCATA
* * * *
24771723 GCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAG-
1 GCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATCCCTGTGCTTA-AAGC
24771786 G-AACAGATCGAAGATAACAG
64 GAAACAGATCGAAGATAACAG
24771806 ATCTGACACT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
87 18 0.25
88 53 0.73
89 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (88 bp):
GCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATCCCTGTGCTTAAAGCGA
AACAGATCGAAGATAACAGCATA
Found at i:24771865 original size:132 final size:132
Alignment explanation
Indices: 24771628--24771903 Score: 471
Period size: 132 Copynumber: 2.1 Consensus size: 132
24771618 CAAAGAAACA
* * *
24771628 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
*
24771693 ACAGCGAAACAGATCGAAGATTTCAGCATAGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAACAGATCGAAGATTTCAGCATAGCATCCCTGTGTTTATAGGGAACAAGTTAAAGATA
24771758 GC
131 GC
24771760 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* * * * *
24771825 ACAGCGAAGCAGATTGAGGATTTCAGCATGGTATCCCTGTGTTTATAGGGAACAAGTTAAAGATA
66 ACAGCGAAACAGATCGAAGATTTCAGCATAGCATCCCTGTGTTTATAGGGAACAAGTTAAAGATA
24771890 GC
131 GC
24771892 AGATTTGGCATC
1 AGATTTGGCATC
24771904 TCTATATTGT
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 135 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
ACAGCGAAACAGATCGAAGATTTCAGCATAGCATCCCTGTGTTTATAGGGAACAAGTTAAAGATA
GC
Found at i:24772102 original size:41 final size:42
Alignment explanation
Indices: 24772056--24772197 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 42
24772046 AAGACGTAGC
24772056 TGATTTGGC-TTTCACGTGTTTACGTTGAAGCAAATCTAAGA
1 TGATTTGGCATTTCACGTGTTTACGTTGAAGCAAATCTAAGA
* * ** * *
24772097 TGATTTGGCATTTC-TGTATTGGCG--GAGAGCAGATCGAAGACA
1 TGATTTGGCATTTCACGTGTTTACGTTGA-AGCAAATCTAAG--A
24772139 TAGCTAATTTGGC-TTTCACGTGTTTACGTTGAAGCAAATCTAAGA
1 T-G---ATTTGGCATTTCACGTGTTTACGTTGAAGCAAATCTAAGA
24772184 TGATTTGGCATTTC
1 TGATTTGGCATTTC
24772198 TGTATTGTCA
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
39 2 0.03
40 10 0.13
41 22 0.29
42 10 0.13
43 1 0.01
44 1 0.01
45 6 0.08
46 13 0.17
47 10 0.13
48 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (42 bp):
TGATTTGGCATTTCACGTGTTTACGTTGAAGCAAATCTAAGA
Found at i:24772136 original size:87 final size:87
Alignment explanation
Indices: 24772045--24772204 Score: 302
Period size: 87 Copynumber: 1.8 Consensus size: 87
24772035 GGAACAAATT
* *
24772045 GAAGACGTAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATTT
1 GAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATTT
24772110 CTGTATTGGCGGAGAGCAGATC
66 CTGTATTGGCGGAGAGCAGATC
24772132 GAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATTT
1 GAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATTT
24772197 CTGTATTG
66 CTGTATTG
24772205 TCAGATAACA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (87 bp):
GAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATTT
CTGTATTGGCGGAGAGCAGATC
Found at i:24772427 original size:292 final size:292
Alignment explanation
Indices: 24771893--24772427 Score: 813
Period size: 292 Copynumber: 1.8 Consensus size: 292
24771883 AAAGATAGCA
* *
24771893 GATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTACGACGGAAGGC
1 GATTTGGCATCTCTATATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCATTACGACAGAAGGC
* * *
24771958 AGACACATAGCAGATCCAACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCC
66 AAACACATAGCAAATCCAACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCC
* * * *
24772023 TTGTACTTATAAGGAACAAATTGAAGACGTAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCA
131 TTGTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCA
* * * * *
24772088 AATCTAAGATGATTTGGCATTTCTGTATTGGCGGAGAGCAGATCGAAGACATAGCTAATTTGGCT
196 AATCTAAGATGATTTGACATCTCTGTATTGGCAGAGAACAAATCGAAGACATAGCTAATTTGGCT
24772153 TTCACGTGTTTACGTTGAAGCAAATCTAAGAT
261 TTCACGTGTTTACGTTGAAGCAAATCTAAGAT
* * * * *
24772185 GATTTGGCATTTCTGTATTGTCAGATAACAAATCAAAGTCTGGCATCTCCACTT-CGCCAGAGGG
1 GATTTGGCATCTCTATATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCA-TTACGACAGAAGG
* *
24772249 CAAACACATAGTAAATCCAAAC-TTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCAT
65 CAAACACATAGCAAATCC-AACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCAT
* *
24772313 CCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAG
129 CCTTGTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAG
**
24772378 CAAATCTAAGATGATTTGACATCTCTGTATTTTCAGAGAACAAATCGAAG
194 CAAATCTAAGATGATTTGACATCTCTGTATTGGCAGAGAACAAATCGAAG
24772428 TCTGGCATCT
Statistics
Matches: 216, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
292 211 0.98
293 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (292 bp):
GATTTGGCATCTCTATATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCATTACGACAGAAGGC
AAACACATAGCAAATCCAACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCC
TTGTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCA
AATCTAAGATGATTTGACATCTCTGTATTGGCAGAGAACAAATCGAAGACATAGCTAATTTGGCT
TTCACGTGTTTACGTTGAAGCAAATCTAAGAT
Found at i:24772455 original size:205 final size:205
Alignment explanation
Indices: 24772123--24772632 Score: 806
Period size: 205 Copynumber: 2.5 Consensus size: 205
24772113 TATTGGCGGA
*
24772123 GAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * * * * *
24772188 TTGGCATTTCTGTATTGTCAGATAACAAATCAAAGTCTGGCATCTCCACTTCGCCAGAGGGCAAA
66 TTGACATCTCTGTATTTTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACAGAGGGCAAA
* *
24772253 CACATAGTAAATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAAATCCAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTG
*
24772318 TGCTTACAAG
196 TACTTACAAG
* *
24772328 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* *
24772393 TTGACATCTCTGTATTTTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCATA
66 TTGACATCTCTGTATTTTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACAGAGGGCAAA
* * *
24772458 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTG
131 CACATAGCAAATCCAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTG
24772523 TACTTACAAG
196 TACTTACAAG
* * *
24772533 GAACAAATCGAAGACGTAGCTAATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* *
24772598 TTGTCATCTCTATATTGTT-AGAGAACAAATCGAAG
66 TTGACATCTCTGTATT-TTCAGAGAACAAATCGAAG
24772633 AAGCAGATTT
Statistics
Matches: 280, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
205 278 0.99
206 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGACATCTCTGTATTTTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACAGAGGGCAAA
CACATAGCAAATCCAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTG
TACTTACAAG
Found at i:24774392 original size:19 final size:19
Alignment explanation
Indices: 24774370--24774432 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 19
24774360 TTTACATCAT
24774370 TATTTTTATATTATTATTA
1 TATTTTTATATTATTATTA
24774389 TATTTTTACT-TGTATTA-TA
1 TATTTTTA-TAT-TATTATTA
24774408 TATTTATTA-ATTATTTATATA
1 TATTT-TTATATTA-TTAT-TA
24774429 TATT
1 TATT
24774433 GTTTTTACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.05
19 20 0.54
20 9 0.24
21 6 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTTTTATATTATTATTA
Found at i:24774868 original size:22 final size:24
Alignment explanation
Indices: 24774825--24774869 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
24774815 TTTATATATA
24774825 GTTATTATTCTTTTATAAATATTTT
1 GTTATTATTCTTTTAT-AATATTTT
*
24774850 GTTATTA-TGTTTTAT-ATATT
1 GTTATTATTCTTTTATAATATT
24774870 GTATAGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
24 7 0.37
25 7 0.37
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (24 bp):
GTTATTATTCTTTTATAATATTTT
Found at i:24775094 original size:32 final size:32
Alignment explanation
Indices: 24775056--24775121 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
24775046 GTATTACTCT
24775056 TTTTTGTATATCATGCATTATTTAATTATTAC
1 TTTTTGTATATCATGCATTATTTAATTATTAC
24775088 TTTTTGTATATCATGCATTATTTAATTATTAC
1 TTTTTGTATATCATGCATTATTTAATTATTAC
24775120 TT
1 TT
24775122 CGTATGTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (32 bp):
TTTTTGTATATCATGCATTATTTAATTATTAC
Found at i:24775984 original size:46 final size:46
Alignment explanation
Indices: 24775911--24776546 Score: 540
Period size: 46 Copynumber: 13.9 Consensus size: 46
24775901 CGACAGCTGT
* * * * * *
24775911 AATTGAGGTGTATAAATGTTGTTAATTGAAATGTTAAAGTGTTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* * *
24775957 AATTGAAGTGTTTTAATACTGTAAATTGAAGTGTTAAATTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* * *
24776003 AATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAA-TACTGTA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCA
* * * * *
24776049 AATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* ** * * * ** * *
24776095 AATTGAAGTATTTAGTTGTTGGACATTG-AGATGTTTTA-TCGTTG-T
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGT-GCTGCA
* * * *
24776140 AATTGAGGTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCA
* *
24776186 AATTGAAGTGCTTAAATGCTATAAATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* *
24776232 AATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCA
* * * * * *
24776278 AATTGAAGTGCTTAAATGTTGCAAATTAAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
** * * * ** * *
24776324 AATTGAAGTGTTTAGTTGTTGGATATTG-AGATGTTTTA-TCGTTG-T
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGT-GCTGCA
* * * *
24776369 AATTGAGGTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCA
24776415 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* * * *
24776461 AATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTGAA-TGCTGTA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCA
* * * *
24776507 AATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGT
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGT
24776547 ACTTATTTTG
Statistics
Matches: 480, Mismatches: 92, Indels: 36
0.79 0.15 0.06
Matches are distributed among these distances:
45 85 0.18
46 373 0.78
47 22 0.05
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.38
Consensus pattern (46 bp):
AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
Found at i:24776146 original size:22 final size:22
Alignment explanation
Indices: 24776119--24776177 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
24776109 GTTGTTGGAC
**
24776119 ATTGAGATGTTTTATCGTTG-TA
1 ATTGAGATGTTAAAT-GTTGTTA
*
24776141 ATTGAGGTGTATAAATGTTGTTA
1 ATTGAGATGT-TAAATGTTGTTA
24776164 ATTGAGATGTTAAA
1 ATTGAGATGTTAAA
24776178 GTGCTGCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 17 0.55
23 14 0.45
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.44
Consensus pattern (22 bp):
ATTGAGATGTTAAATGTTGTTA
Found at i:24776312 original size:229 final size:228
Alignment explanation
Indices: 24775908--24776549 Score: 1149
Period size: 229 Copynumber: 2.8 Consensus size: 228
24775898 TTTCGACAGC
* * *
24775908 TGTAATTGAGGTGTATAAATGTTGTTAATTGAAATGTTAAAGTGTTGCAAATTGAAGTGTTTTAA
1 TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTG-TTAAA
* *
24775973 TACTGTAAATTGAAGTGTTAAATTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTT
65 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTT
*
24776038 TAAATACTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAG
130 TAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAG
24776103 TATTTAGTTGTTGGACATTGAGATGTTTTATCGT
195 TATTTAGTTGTTGGACATTGAGATGTTTTATCGT
24776137 TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAA
1 TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTG-TTAAA
*
24776202 TGCTATAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTT
65 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTT
*
24776267 TAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTAAAGTGTTTAAGTACTGCAAATTGAAG
130 TAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAG
* *
24776332 TGTTTAGTTGTTGGATATTGAGATGTTTTATCGT
195 TATTTAGTTGTTGGACATTGAGATGTTTTATCGT
24776366 TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAG
1 TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTAAA-
*
24776431 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTT
65 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTT
*
24776496 TGAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACT
130 TAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACT
24776550 TATTTTGGGT
Statistics
Matches: 397, Mismatches: 15, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
228 5 0.01
229 392 0.99
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.38
Consensus pattern (228 bp):
TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAT
GCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTT
AAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGT
ATTTAGTTGTTGGACATTGAGATGTTTTATCGT
Found at i:24776389 original size:22 final size:22
Alignment explanation
Indices: 24776348--24776406 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
24776338 GTTGTTGGAT
**
24776348 ATTGAGATGTTTTATCGTTG-TA
1 ATTGAGATGTTAAAT-GTTGTTA
*
24776370 ATTGAGGTGTATAAATGTTGTTA
1 ATTGAGATGT-TAAATGTTGTTA
24776393 ATTGAGATGTTAAA
1 ATTGAGATGTTAAA
24776407 GTGCTGCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 17 0.55
23 14 0.45
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.44
Consensus pattern (22 bp):
ATTGAGATGTTAAATGTTGTTA
Found at i:24776544 original size:23 final size:23
Alignment explanation
Indices: 24775911--24776544 Score: 488
Period size: 23 Copynumber: 27.7 Consensus size: 23
24775901 CGACAGCTGT
* * * **
24775911 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
* *
24775934 AATTGAAATG-TTAAAGTGTTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* * *
24775957 AATTGAAGTGTTTTAATACTGTA
1 AATTGAAGTGTTTAAATGCTGCA
24775980 AATTGAAGTG-TTAAATTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
24776003 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
24776026 AATTGAAGTGTTTAAATACTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
24776049 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
24776072 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* ** * *
24776095 AATTGAAGTATTTAGTTGTTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * * *
24776118 CATTG-AGATGTTT-TATCGTTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
24776140 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
24776163 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* **
24776186 AATTGAAGTGCTTAAATGCTATA
1 AATTGAAGTGTTTAAATGCTGCA
24776209 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
24776232 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
*
24776255 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
24776278 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
24776301 AATTAAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** * *
24776324 AATTGAAGTGTTTAGTTGTTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * * *
24776347 TATTG-AGATGTTT-TATCGTTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
24776369 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
24776392 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
*
24776415 AATTGAAGTG-TTAAAGTGCTGTA
1 AATTGAAGTGTTTAAA-TGCTGCA
24776438 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
24776461 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
24776484 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
24776507 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
24776530 AATTGAAGTGTTTAA
1 AATTGAAGTGTTTAA
24776545 GTACTTATTT
Statistics
Matches: 499, Mismatches: 88, Indels: 48
0.79 0.14 0.08
Matches are distributed among these distances:
22 53 0.11
23 421 0.84
24 25 0.05
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.38
Consensus pattern (23 bp):
AATTGAAGTGTTTAAATGCTGCA
Found at i:24777312 original size:42 final size:42
Alignment explanation
Indices: 24777254--24777334 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
24777244 AAAGGTTATG
* *
24777254 TTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTA
1 TTTTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCTA
* * *
24777296 TTTTATAGCGGTGTTTGTAGGAAAAGTGCCGTTAAAGGT
1 TTTTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGT
24777335 TATGACTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.33
Consensus pattern (42 bp):
TTTTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCTA
Found at i:24777954 original size:20 final size:20
Alignment explanation
Indices: 24777921--24777970 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
24777911 TCCATTAGAT
* *
24777921 ATTTTGATAAAGTGATAAAA
1 ATTTTGGTATAGTGATAAAA
* *
24777941 ATTTTGGTATAGTGTTAGAA
1 ATTTTGGTATAGTGATAAAA
*
24777961 ATATTGGTAT
1 ATTTTGGTAT
24777971 TGGTATGTCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
ATTTTGGTATAGTGATAAAA
Found at i:24777983 original size:26 final size:26
Alignment explanation
Indices: 24777944--24778022 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
24777934 GATAAAAATT
24777944 TTGGTATAGT-GTTAGAAATATTGGTA
1 TTGGTAT-GTCGTTAGAAATATTGGTA
* *
24777970 TTGGTATGTCGTTAGAAATTTTAGTA
1 TTGGTATGTCGTTAGAAATATTGGTA
* *
24777996 TTGGTATATCGTTAAAAATATTGGTA
1 TTGGTATGTCGTTAGAAATATTGGTA
24778022 T
1 T
24778023 AGCATTAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 2 0.04
26 44 0.96
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.44
Consensus pattern (26 bp):
TTGGTATGTCGTTAGAAATATTGGTA
Found at i:24778019 original size:20 final size:20
Alignment explanation
Indices: 24777994--24778065 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
24777984 GAAATTTTAG
* *
24777994 TATTGGTATATCGTTAAAAA
1 TATTGGTATAACATTAAAAA
* *
24778014 TATTGGTATAGCATTAGAAA
1 TATTGGTATAACATTAAAAA
* * *
24778034 TTTTGATATAACCTTACAAAA
1 TATTGGTATAACATTA-AAAA
24778055 T-TTGGTATAAC
1 TATTGGTATAAC
24778066 TTTTTTTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 38 0.90
21 4 0.10
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (20 bp):
TATTGGTATAACATTAAAAA
Found at i:24778042 original size:26 final size:25
Alignment explanation
Indices: 24777944--24778042 Score: 75
Period size: 26 Copynumber: 4.0 Consensus size: 25
24777934 GATAAAAATT
* **
24777944 TTGGTATAGTGTTAGAAATATTGGTA
1 TTGGTATAGCGTTAGAAAT-TTTATA
24777970 TTGGTAT-GTCGTTAGAAATTTTAGTA
1 TTGGTATAG-CGTTAGAAATTTTA-TA
*
24777996 TTGGTATATCGTTA-AAA----ATA
1 TTGGTATAGCGTTAGAAATTTTATA
*
24778016 TTGGTATAGCATTAGAAATTTTGATA
1 TTGGTATAGCGTTAGAAATTTT-ATA
24778042 T
1 T
24778043 AACCTTACAA
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
20 14 0.24
21 4 0.07
25 6 0.10
26 34 0.59
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.43
Consensus pattern (25 bp):
TTGGTATAGCGTTAGAAATTTTATA
Found at i:24786625 original size:14 final size:14
Alignment explanation
Indices: 24786606--24786636 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24786596 ATCCACTTCA
*
24786606 TTTGTTTTATTTAT
1 TTTGTTTTATATAT
24786620 TTTGTTTTATATAT
1 TTTGTTTTATATAT
24786634 TTT
1 TTT
24786637 ATTTAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (14 bp):
TTTGTTTTATATAT
Found at i:24792260 original size:14 final size:14
Alignment explanation
Indices: 24792242--24792274 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
24792232 TTATAAATAT
*
24792242 ATTTTTTTACAT-A
1 ATTTTTTAACATCA
24792255 ATTTTTTAACATCA
1 ATTTTTTAACATCA
24792269 ATTTTT
1 ATTTTT
24792275 ATATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTTTTAACATCA
Found at i:24794519 original size:14 final size:14
Alignment explanation
Indices: 24794508--24794537 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24794498 GTAAAATGTT
24794508 TTTC-GGAAAATGA
1 TTTCTGGAAAATGA
24794521 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
24794535 TTT
1 TTT
24794538 ACTTTTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:24796833 original size:17 final size:18
Alignment explanation
Indices: 24796813--24796847 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24796803 TATGGAATTT
*
24796813 CCAATTA-CTTGGACCTC
1 CCAATTATCATGGACCTC
24796830 CCAATTATCATGGACCTC
1 CCAATTATCATGGACCTC
24796848 AAAGAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (18 bp):
CCAATTATCATGGACCTC
Found at i:24800437 original size:21 final size:21
Alignment explanation
Indices: 24800411--24800451 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24800401 ATCTGCTCAA
* *
24800411 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
24800432 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
24800452 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:24803621 original size:14 final size:14
Alignment explanation
Indices: 24803602--24803628 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24803592 AGAAAAGCCT
24803602 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
24803616 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
24803629 AGGTTACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:24805257 original size:3 final size:3
Alignment explanation
Indices: 24805249--24805273 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24805239 AAATTAGACA
24805249 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
24805274 GAGAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24810793 original size:17 final size:16
Alignment explanation
Indices: 24810753--24810807 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
24810743 CAAAACTAAT
24810753 ACTAAAGTAA-AAAAAA
1 ACTAAA-TAATAAAAAA
*
24810769 AATAAAATAATAACAAAA
1 ACT-AAATAATAA-AAAA
*
24810787 ACTAAATAATAAAACA
1 ACTAAATAATAAAAAA
24810803 ACTAA
1 ACTAA
24810808 CTATTGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 13 0.39
17 14 0.42
18 6 0.18
ACGTcount: A:0.73, C:0.09, G:0.02, T:0.16
Consensus pattern (16 bp):
ACTAAATAATAAAAAA
Found at i:24810921 original size:16 final size:16
Alignment explanation
Indices: 24810880--24810920 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
24810870 TAGGTATGAC
*
24810880 AATAATAATACTAAAT
1 AATAATAAAACTAAAT
24810896 AATAATAAAACTAAAT
1 AATAATAAAACTAAAT
24810912 -ATAATAAAA
1 AATAATAAAA
24810921 AAAGAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAATAAAACTAAAT
Found at i:24814330 original size:35 final size:36
Alignment explanation
Indices: 24814264--24814431 Score: 189
Period size: 35 Copynumber: 4.6 Consensus size: 36
24814254 TCCTCATTGA
***
24814264 AATACCATACCTACATTTTTTTAACTCAGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTATGGGAT
* **
24814300 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
*
24814340 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
24814375 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* *
24814410 GATACCATACCTACGTTTCACA
1 AATACCATACCTACATTTCACA
24814432 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:24814386 original size:75 final size:73
Alignment explanation
Indices: 24814259--24814431 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
24814249 GGTTTTCCTC
*** * **
24814259 ATTGAAATACCATACCTACATTTTTTTAACTCAGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
24814324 TCAGTATGG
65 TCAGTATGG
*
24814333 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
24814397 ACTCAGTATGG
63 ACTCAGTATGG
*
24814408 A-TG--ATACCATACCTACGTTTCACA
1 ATTGAAATACCATACCTACATTTCACA
24814432 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 20 0.23
73 2 0.02
74 4 0.05
75 47 0.53
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:24819549 original size:15 final size:14
Alignment explanation
Indices: 24819512--24819553 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
24819502 TACTTTTGAC
24819512 TAAATTTAATTAAT
1 TAAATTTAATTAAT
* *
24819526 CAAAATTAATTAAT
1 TAAATTTAATTAAT
24819540 TAAACTTTAATTAA
1 TAAA-TTTAATTAA
24819554 CCAAACCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATTTAATTAAT
Found at i:24819559 original size:15 final size:15
Alignment explanation
Indices: 24819516--24819565 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
24819506 TTTGACTAAA
24819516 TTTAATTAATCAAA-
1 TTTAATTAATCAAAC
* *
24819530 ATTAATTAATTAAAC
1 TTTAATTAATCAAAC
*
24819545 TTTAATTAACCAAAC
1 TTTAATTAATCAAAC
*
24819560 CTTAAT
1 TTTAAT
24819566 CTTAATTATC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTAATTAATCAAAC
Found at i:24826190 original size:7 final size:7
Alignment explanation
Indices: 24826177--24826214 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
24826167 AAATAAATGA
24826177 AAAAATT
1 AAAAATT
*
24826184 TAAAATT
1 AAAAATT
24826191 AAAAA-T
1 AAAAATT
24826197 AAAAATT
1 AAAAATT
*
24826204 AAAAAAT
1 AAAAATT
24826211 AAAA
1 AAAA
24826215 TAAAAGAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:24826209 original size:14 final size:14
Alignment explanation
Indices: 24826171--24826214 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
24826161 GAAATAAAAT
* *
24826171 AAATGAAAAAATTTA
1 AAATTAAAAAA-TAA
24826186 AAATT-AAAAATAA
1 AAATTAAAAAATAA
24826199 AAATTAAAAAATAA
1 AAATTAAAAAATAA
24826213 AA
1 AA
24826215 TAAAAGAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 7 0.27
14 15 0.58
15 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
AAATTAAAAAATAA
Found at i:24826215 original size:13 final size:13
Alignment explanation
Indices: 24826166--24826219 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
24826156 AAAATGAAAT
*
24826166 AAAAT-AAATGAA
1 AAAATAAAATTAA
24826178 AAAATTTAAAATT-A
1 AAAA--TAAAATTAA
24826192 AAAATAAAAATTAA
1 AAAAT-AAAATTAA
24826206 AAAATAAAA-TAA
1 AAAATAAAATTAA
24826218 AA
1 AA
24826220 GAAACATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 10 0.28
13 10 0.28
14 12 0.33
15 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AAAATAAAATTAA
Found at i:24828398 original size:133 final size:133
Alignment explanation
Indices: 24828137--24828547 Score: 434
Period size: 133 Copynumber: 3.1 Consensus size: 133
24828127 AGAGGTATAG
* * * * * *
24828137 GATTTGTCGCTTCAATATGCATCCACTGCAACTTCAGCGAAATAAGATTTGTAGC-TTCAATCTG
1 GATTTGTAGTTTCAATCTG-ATCCACTGCAACTTCAGAGAGATAAGATTTGTGGCTTTCAATCTG
* ** * * * **
24828201 TTCCACTACAACTTCAGGGAGACAAGATTCATTATCTTCAATCTACTCCACTATAACTTCAGGGA
65 TTCCACTACAACTTCAGGGAGATAAGATTTGTTGT-TTTAATCTGCTCCACTGCAACTTCAGGGA
24828266 GATAA
129 GATAA
* * * *
24828271 GATTTGTAGCTTT-AATTTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTCAATTTG
1 GATTTGTAG-TTTCAATCTGATCCACTGCAACTTCAGAGAGATAAGATTTGTGGCTTTCAATCTG
* *
24828335 TTCCACTACAACTTCAAGGAGATAAGATTTGTTGTTTTAATCTGCTCCACTGCAACTTTAGGGAG
65 TTCCACTACAACTTCAGGGAGATAAGATTTGTTGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
24828400 ATAA
130 ATAA
* * * * * **
24828404 GATTTGTTGTTTCAATCTGATCCATTGTAACTTTAAAGAGATAAGATTTGTGGCTTT-AATCTAC
1 GATTTGTAGTTTCAATCTGATCCACTGCAACTTCAGAGAGATAAGATTTGTGGCTTTCAATCTGT
* * * * * * * *
24828468 TCCACTGCAACTTTAGGGAGATAATATTTGTAGCTTTAATTTGATCCACTGCAACTTCAGGGATA
66 TCCACTACAACTTCAGGGAGATAAGATTTGTTGTTTTAATCTGCTCCACTGCAACTTCAGGGAGA
24828533 TGAA
131 T-AA
*
24828537 -ATTTGTGGTTT
1 GATTTGTAGTTT
24828548 TACTGATCTG
Statistics
Matches: 233, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
132 73 0.31
133 107 0.46
134 51 0.22
135 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (133 bp):
GATTTGTAGTTTCAATCTGATCCACTGCAACTTCAGAGAGATAAGATTTGTGGCTTTCAATCTGT
TCCACTACAACTTCAGGGAGATAAGATTTGTTGTTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAA
Found at i:24828464 original size:88 final size:89
Alignment explanation
Indices: 24828137--24828526 Score: 405
Period size: 89 Copynumber: 4.4 Consensus size: 89
24828127 AGAGGTATAG
* * * * *
24828137 GATTTGTCGC-TTCAATATGCATCCACTGCAACTTC-AGCGAAATAAGATTTGTAGCTTCAATCT
1 GATTTGTTGCTTTCAATCTG-ATCCACTACAACTTCAAG-GAGATAAGATTTGTAGCTTTAATCT
* * *
24828200 GTTCCACTACAACTTCAGGGAGACAA
64 GCTCCACTGCAACTTCAGGGAGATAA
** * * * *
24828226 GATTCATT-ATCTTCAATCT-ACTCCACTATAACTTCAGGGAGATAAGATTTGTAGCTTTAATTT
1 GATTTGTTGCT-TTCAATCTGA-TCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTTAATCT
*
24828289 GTTCCACTGCAACTTCAGGGAGATAA
64 GCTCCACTGCAACTTCAGGGAGATAA
* * * * *
24828315 GATTTGTGGCTTTCAATTTGTTCCACTACAACTTCAAGGAGATAAGATTTGTTGTTTTAATCTGC
1 GATTTGTTGCTTTCAATCTGATCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
*
24828380 TCCACTGCAACTTTAGGGAGATAA
66 TCCACTGCAACTTCAGGGAGATAA
* ** * * * *
24828404 GATTTGTTG-TTTCAATCTGATCCATTGTAACTTTAAAGAGATAAGATTTGTGGCTTTAATCTAC
1 GATTTGTTGCTTTCAATCTGATCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
*
24828468 TCCACTGCAACTTTAGGGAGATAA
66 TCCACTGCAACTTCAGGGAGATAA
* * * *
24828492 TATTTGTAGCTTT-AATTTGATCCACTGCAACTTCA
1 GATTTGTTGCTTTCAATCTGATCCACTACAACTTCA
24828527 GGGATATGAA
Statistics
Matches: 251, Mismatches: 43, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
88 95 0.38
89 147 0.59
90 9 0.04
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (89 bp):
GATTTGTTGCTTTCAATCTGATCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
TCCACTGCAACTTCAGGGAGATAA
Found at i:24828542 original size:44 final size:44
Alignment explanation
Indices: 24828137--24828530 Score: 391
Period size: 44 Copynumber: 8.9 Consensus size: 44
24828127 AGAGGTATAG
* * * * *
24828137 GATTTGTCGCTTCAATATGCATCCACTGCAACTTCAGCGAAATAA
1 GATTTGTAGCTTTAATCTG-ATCCACTGCAACTTCAGGGAGATAA
* * * *
24828182 GATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGACAA
1 GATTTGTAGCTTTAATCTGATCCACTGCAACTTCAGGGAGATAA
* * **
24828226 GATTCAT-TATCTTCAATCT-ACTCCACTATAACTTCAGGGAGATAA
1 GATT--TGTAGCTTTAATCTGA-TCCACTGCAACTTCAGGGAGATAA
* *
24828271 GATTTGTAGCTTTAATTTGTTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTAGCTTTAATCTGATCCACTGCAACTTCAGGGAGATAA
* * * * *
24828315 GATTTGTGGCTTTCAATTTGTTCCACTACAACTTCAAGGAGATAA
1 GATTTGTAGCTTT-AATCTGATCCACTGCAACTTCAGGGAGATAA
* * * *
24828360 GATTTGTTGTTTTAATCTGCTCCACTGCAACTTTAGGGAGATAA
1 GATTTGTAGCTTTAATCTGATCCACTGCAACTTCAGGGAGATAA
* * * * **
24828404 GATTTGTTG-TTTCAATCTGATCCATTGTAACTTTAAAGAGATAA
1 GATTTGTAGCTTT-AATCTGATCCACTGCAACTTCAGGGAGATAA
* *
24828448 GATTTGTGGCTTTAATCT-ACTCCACTGCAACTTTAGGGAGATAA
1 GATTTGTAGCTTTAATCTGA-TCCACTGCAACTTCAGGGAGATAA
* *
24828492 TATTTGTAGCTTTAATTTGATCCACTGCAACTTCAGGGA
1 GATTTGTAGCTTTAATCTGATCCACTGCAACTTCAGGGA
24828531 TATGAAATTT
Statistics
Matches: 298, Mismatches: 41, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
43 5 0.02
44 194 0.65
45 98 0.33
46 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (44 bp):
GATTTGTAGCTTTAATCTGATCCACTGCAACTTCAGGGAGATAA
Found at i:24836274 original size:46 final size:46
Alignment explanation
Indices: 24836217--24836383 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
24836207 ACACACCGTA
24836217 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
* ** * * *
24836263 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
* *
24836316 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGA-ATCACATATCACACTGAT
* * *
24836362 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
24836384 TTCCGTCAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
46 44 0.45
47 7 0.07
48 5 0.05
49 1 0.01
50 1 0.01
51 6 0.06
52 5 0.05
53 28 0.29
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
Found at i:24837490 original size:21 final size:21
Alignment explanation
Indices: 24837461--24837521 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
24837451 CGACACATAA
24837461 GTGCCTGAAACGACACACGAG
1 GTGCCTGAAACGACACACGAG
* *
24837482 GTGCTTGAAATGACACACGAG
1 GTGCCTGAAACGACACACGAG
24837503 GTGCCTGAAATACGACACA
1 GTGCCTG-AA-ACGACACA
24837522 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 25 0.74
22 2 0.06
23 7 0.21
ACGTcount: A:0.34, C:0.25, G:0.26, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:24837529 original size:23 final size:23
Alignment explanation
Indices: 24837448--24837533 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
24837438 CCTGATCAGT
*
24837448 ATACGACACA-TAAGTGCCTG-A
1 ATACGACACACGAAGTGCCTGAA
* *
24837469 A-ACGACACACGAGGTGCTTGAA
1 ATACGACACACGAAGTGCCTGAA
*
24837491 AT--GACACACGAGGTGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
**
24837512 ATACGACACATAAAGTGCCTGA
1 ATACGACACACGAAGTGCCTGA
24837534 TCAGTATAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
20 8 0.15
21 28 0.53
22 2 0.04
23 15 0.28
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (23 bp):
ATACGACACACGAAGTGCCTGAA
Found at i:24837750 original size:23 final size:24
Alignment explanation
Indices: 24837724--24837818 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
24837714 AAATGTCCAA
24837724 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
24837747 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
24837775 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
24837804 CCAAAACACACCAGA
1 CCAAAACACACCAGA
24837819 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:24837820 original size:29 final size:28
Alignment explanation
Indices: 24837738--24837821 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
24837728 AACACACCAG
* *
24837738 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
24837766 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
24837794 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
24837822 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:24850885 original size:11 final size:11
Alignment explanation
Indices: 24850869--24850950 Score: 59
Period size: 11 Copynumber: 7.8 Consensus size: 11
24850859 CTTAATCACT
24850869 TTAATATTAAA
1 TTAATATTAAA
24850880 TTAATA--AAA
1 TTAATATTAAA
*
24850889 -TACTATTAAGA
1 TTAATATTAA-A
*
24850900 TAAATATTAAA
1 TTAATATTAAA
*
24850911 TTAA-ATTTAA
1 TTAATATTAAA
*
24850921 TATAATATAAAA
1 T-TAATATTAAA
24850933 TT--TATTAAA
1 TTAATATTAAA
*
24850942 ATAATATTA
1 TTAATATTA
24850951 TTTTTGAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
8 4 0.07
9 10 0.19
10 8 0.15
11 20 0.37
12 12 0.22
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:24850927 original size:22 final size:20
Alignment explanation
Indices: 24850902--24850950 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
24850892 TATTAAGATA
*
24850902 AATATTAAATTAAATTTAATAT
1 AATATTAAATT-AA-TTAAAAT
* *
24850924 AATATAAAATTTATTAAAAT
1 AATATTAAATTAATTAAAAT
24850944 AATATTA
1 AATATTA
24850951 TTTTTGAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.52
21 1 0.04
22 10 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATATTAAATTAATTAAAAT
Found at i:24851372 original size:9 final size:9
Alignment explanation
Indices: 24851350--24851384 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
24851340 TTCTAAAAAC
*
24851350 ATTTATTTA
1 ATTTAATTA
*
24851359 TTTTAATTA
1 ATTTAATTA
24851368 ATTTAATTA
1 ATTTAATTA
24851377 ATTTAATT
1 ATTTAATT
24851385 TTACTTAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
ATTTAATTA
Found at i:24851752 original size:17 final size:17
Alignment explanation
Indices: 24851712--24851745 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24851702 AATATTAAAA
* *
24851712 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
24851729 TTATAATTATTATGATT
1 TTATAATTATTATGATT
24851746 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:24851978 original size:19 final size:19
Alignment explanation
Indices: 24851956--24852019 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
24851946 ATAAATGTAA
24851956 TAAAATATGTAAATGATGT
1 TAAAATATGTAAATGATGT
* *
24851975 TAAAATATGTGTACA-GTTG-
1 TAAAATA--TGTAAATGATGT
24851994 TAAAATATGTAAATGATGT
1 TAAAATATGTAAATGATGT
24852013 TAAAATA
1 TAAAATA
24852020 GATATTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 5 0.14
18 3 0.08
19 21 0.57
20 3 0.08
21 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.36
Consensus pattern (19 bp):
TAAAATATGTAAATGATGT
Found at i:24852156 original size:12 final size:12
Alignment explanation
Indices: 24852139--24852169 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24852129 GAAGCAGGGG
24852139 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
24852151 AGAAAAAGGGAA
1 AGAAAAAGAGAA
24852163 AGAAAAA
1 AGAAAAA
24852170 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:24853121 original size:41 final size:41
Alignment explanation
Indices: 24853076--24853172 Score: 94
Period size: 38 Copynumber: 2.4 Consensus size: 41
24853066 CCTCGAGTCA
* *
24853076 ATGAGACACTGGGTGTCACTAAATTT-CTTCGGATAGATTCG
1 ATGAGACACTGGGTGTCACCAAATTTACTTCGGATAGACT-G
** * * *
24853117 ATGAGGTACT-GG-GT-ACCAACTTTACTTCGGCTAGGCTG
1 ATGAGACACTGGGTGTCACCAAATTTACTTCGGATAGACTG
24853155 ATGAGACACTGGGTGTCA
1 ATGAGACACTGGGTGTCA
24853173 ACTATTACTT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
38 16 0.37
39 14 0.33
40 4 0.09
41 9 0.21
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (41 bp):
ATGAGACACTGGGTGTCACCAAATTTACTTCGGATAGACTG
Found at i:24853181 original size:39 final size:40
Alignment explanation
Indices: 24853076--24853184 Score: 107
Period size: 39 Copynumber: 2.8 Consensus size: 40
24853066 CCTCGAGTCA
* *
24853076 ATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATTCG
1 ATGAGACACTGGGTGTCAACT--ATTACTTCGGATAGACTCG
** ** * *
24853117 ATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGCT-G
1 ATGAGACACTGGGTGTCAACTATTACTTCGGATAGACTCG
24853155 ATGAGACACTGGGTGTCAACTATTACTTCG
1 ATGAGACACTGGGTGTCAACTATTACTTCG
24853185 AACTATCCGA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
38 18 0.33
39 20 0.37
41 13 0.24
42 3 0.06
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAACTATTACTTCGGATAGACTCG
Found at i:24853338 original size:18 final size:18
Alignment explanation
Indices: 24853315--24853355 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24853305 TAAAAAAAAA
24853315 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
24853333 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
24853351 AGAAA
1 AGAAA
24853356 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:24853983 original size:26 final size:26
Alignment explanation
Indices: 24853946--24854081 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
24853936 TGATACAAAT
* *
24853946 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
24853972 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
24853998 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
24854024 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
24854050 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
24854076 TGATAA
1 TGATAA
24854082 GAATTCATGT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:24859831 original size:26 final size:26
Alignment explanation
Indices: 24859744--24859877 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
24859734 TGATACAAAT
24859744 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
24859770 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
24859794 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
24859820 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
24859846 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
24859872 TGATAA
1 TGATAA
24859878 GAATTCATGT
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
24 9 0.09
25 30 0.29
26 65 0.62
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Done.