Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 127 of 378
Found at i:35643225 original size:47 final size:47
Alignment explanation
Indices: 35643156--35643250 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
35643146 GAAATAGGTT
35643156 AAGTTGAATAGTGAGATATGATGGAGTTATAAAGGATATTCATTGGG
1 AAGTTGAATAGTGAGATATGATGGAGTTATAAAGGATATTCATTGGG
35643203 AAGTTGAATAGTGAGATATGATGGAGTTATAAAGGATATTCATTGGG
1 AAGTTGAATAGTGAGATATGATGGAGTTATAAAGGATATTCATTGGG
35643250 A
1 A
35643251 TGTTTGAGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (47 bp):
AAGTTGAATAGTGAGATATGATGGAGTTATAAAGGATATTCATTGGG
Found at i:35643230 original size:23 final size:23
Alignment explanation
Indices: 35643157--35643230 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
35643147 AAATAGGTTA
35643157 AGTTGAATAGTGAGATATGATGG
1 AGTTGAATAGTGAGATATGATGG
** *
35643180 AGTT--ATAAAG-GATATTCATTGGG
1 AGTTGAATAGTGAGATA-TGA-T-GG
35643203 AAGTTGAATAGTGAGATATGATGG
1 -AGTTGAATAGTGAGATATGATGG
35643227 AGTT
1 AGTT
35643231 ATAAAGGATA
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 4 0.11
21 6 0.16
22 1 0.03
23 10 0.26
24 6 0.16
25 1 0.03
26 6 0.16
27 4 0.11
ACGTcount: A:0.35, C:0.01, G:0.31, T:0.32
Consensus pattern (23 bp):
AGTTGAATAGTGAGATATGATGG
Found at i:35646341 original size:30 final size:29
Alignment explanation
Indices: 35646286--35646447 Score: 297
Period size: 29 Copynumber: 5.5 Consensus size: 29
35646276 ATAGTGAATC
35646286 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
35646315 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
35646345 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
35646374 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
35646404 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
35646433 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35646448 GTACAATTTT
Statistics
Matches: 130, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
29 72 0.55
30 58 0.45
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:35646378 original size:59 final size:59
Alignment explanation
Indices: 35646286--35646477 Score: 321
Period size: 59 Copynumber: 3.2 Consensus size: 59
35646276 ATAGTGAATC
35646286 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
35646345 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* * * * * *
35646404 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAACC
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGCT
35646464 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35646478 CAATCTTGTC
Statistics
Matches: 126, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
59 106 0.84
60 20 0.16
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:35646932 original size:2 final size:2
Alignment explanation
Indices: 35646925--35646957 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
35646915 CATACTTATG
35646925 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35646958 GGGCATCACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35647825 original size:19 final size:18
Alignment explanation
Indices: 35647801--35647836 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35647791 TCCCCTTTTT
*
35647801 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
35647820 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
35647837 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:35652027 original size:80 final size:80
Alignment explanation
Indices: 35651943--35652091 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
35651933 TATGGTAACC
* * * *
35651943 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
35652007 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
35652023 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
35652088 CCGG
66 CCGG
35652092 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:35652033 original size:40 final size:38
Alignment explanation
Indices: 35651984--35652091 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
35651974 ATCACGATTT
*
35651984 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
35652024 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
35652064 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
35652092 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:35665872 original size:40 final size:40
Alignment explanation
Indices: 35665835--35666020 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
35665825 GCTACTCGTT
*
35665835 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
35665875 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
35665915 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
35665955 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
35665996 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35666021 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 118 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35674060 original size:40 final size:39
Alignment explanation
Indices: 35673974--35674156 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
35673964 GCTACTCGTT
*
35673974 CAAATGCCTTCGGACATAGCCCGG-TTATAGT-ACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
35674012 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACGCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
*
35674052 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
35674092 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
35674133 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGA
35674157 CATCATTCGA
Statistics
Matches: 128, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
38 11 0.09
39 28 0.22
40 82 0.64
41 7 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35676456 original size:40 final size:40
Alignment explanation
Indices: 35676412--35676641 Score: 390
Period size: 40 Copynumber: 5.8 Consensus size: 40
35676402 AGCATGATTT
* * *
35676412 CTCTTCGGGACCTAG-CTCGGATACATCACTAGCATGAATG
1 CTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAATG
*
35676452 CTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
35676492 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
35676532 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
*
35676572 CTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
*
35676612 CTCTTCGGAACTTAGTCCGGATATATCACT
1 CTCTTCGGAACTTAGTCCGGATACATCACT
35676642 CTCAATTCTC
Statistics
Matches: 183, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 182 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
Found at i:35677931 original size:37 final size:37
Alignment explanation
Indices: 35677873--35678017 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
35677863 GCTCAGACGA
* * *
35677873 AATCTCCACACGAAGTTATCGGGTCTTACCTGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
35677910 ACTCTCCACACGTAGTCATCGGGTCTTACCCGAACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
35677947 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
35677984 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
35678018 ATATATTTCC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:35678133 original size:48 final size:48
Alignment explanation
Indices: 35678062--35678589 Score: 804
Period size: 48 Copynumber: 11.0 Consensus size: 48
35678052 TGTTACAACA
* *
35678062 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
35678110 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* **
35678158 TTCACATTAGCCATTCGGATTTACCACATATACATATCTTGTATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
35678206 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * *
35678254 TTCACATTCGTCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
35678302 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
35678350 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
35678398 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTTATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
35678446 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
35678494 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
35678542 TTCACATTAGCCATTTGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
35678590 ATATTTATCT
Statistics
Matches: 435, Mismatches: 45, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 435 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:35696888 original size:24 final size:25
Alignment explanation
Indices: 35696861--35696917 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
35696851 AAGGAAATGA
*
35696861 AGAAAAATG-GTAGAGAA-TGAAGAG
1 AGAAAAATGAG-AGAGAAGTAAAGAG
35696885 AGAAAAATGAGAGAGAAGTAAAGAG
1 AGAAAAATGAGAGAGAAGTAAAGAG
35696910 ATGAAAAA
1 A-GAAAAA
35696918 AGTTGAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 15 0.52
25 8 0.28
26 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.11
Consensus pattern (25 bp):
AGAAAAATGAGAGAGAAGTAAAGAG
Found at i:35698991 original size:22 final size:22
Alignment explanation
Indices: 35698953--35698994 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
35698943 TTGATTCGGT
35698953 TCAATTGATAAGACACTGGGTG
1 TCAATTGATAAGACACTGGGTG
*
35698975 TCAATTTATATAG-CACTGGG
1 TCAATTGATA-AGACACTGGG
35698995 CGCAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (22 bp):
TCAATTGATAAGACACTGGGTG
Found at i:35701367 original size:27 final size:27
Alignment explanation
Indices: 35701337--35701568 Score: 286
Period size: 27 Copynumber: 8.6 Consensus size: 27
35701327 TTAGTTTACC
35701337 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
35701364 AAATCACTAAAATA-CCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
35701390 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
35701417 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35701444 AAAGTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35701471 AAATTACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
35701498 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
35701525 AAATTACCAAAATAACCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
35701552 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
35701569 TCGACCTATA
Statistics
Matches: 177, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 23 0.13
27 154 0.87
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:35701621 original size:27 final size:27
Alignment explanation
Indices: 35701337--35701629 Score: 233
Period size: 27 Copynumber: 10.9 Consensus size: 27
35701327 TTAGTTTACC
*
35701337 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * * *
35701364 AAATCACTAAAATA-CCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
35701390 AAATCACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
35701417 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
* *
35701444 AAAGTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
35701471 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
35701498 AAATTACCAAAATACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
35701525 AAATTACCAAAATAACCCT-GATTTGTG
1 AAATTACCAAAAT-ACCCTCGATTTGTA
** ** *
35701552 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
35701579 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
35701606 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
35701630 ACAGAATTAC
Statistics
Matches: 218, Mismatches: 38, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
26 28 0.13
27 186 0.85
28 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:35701638 original size:81 final size:81
Alignment explanation
Indices: 35701520--35701677 Score: 185
Period size: 81 Copynumber: 2.0 Consensus size: 81
35701510 TACCCCTAAT
** * *
35701520 TTGTAAAATTACCAAAATAACCCTGATTTGTGAAATTACTGAAATACCCTCGACCTATAAAATTA
1 TTGTAAAATTACCAAAATAACCCTGATTTCAGAAATTACCGAAATACCCTCGACCTACAAAATTA
*
35701585 TTGAAATACCCTCGAC
66 CTGAAATACCCTCGAC
* *** **
35701601 TTGTAAAATTACCAAAGT-ACCCTTGATTTACAG-AATTACCGTTTTACCCTCGATTTACAAAAT
1 TTGTAAAATTACCAAAATAACCC-TGATTT-CAGAAATTACCGAAATACCCTCGACCTACAAAAT
35701664 TACTGAAATACCCT
64 TACTGAAATACCCT
35701678 TGTAGGGTGG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 4 0.06
81 59 0.92
82 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATAACCCTGATTTCAGAAATTACCGAAATACCCTCGACCTACAAAATTA
CTGAAATACCCTCGAC
Found at i:35701675 original size:27 final size:27
Alignment explanation
Indices: 35701552--35701677 Score: 110
Period size: 27 Copynumber: 4.7 Consensus size: 27
35701542 CTGATTTGTG
* *
35701552 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACTGAAATACCCTCGACTTACA
* **
35701579 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* * *
35701606 AAATTAC-CAAAGTACCCTTGATTTACA
1 AAATTACTGAAA-TACCCTCGACTTACA
* * *** *
35701633 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGACTTACA
35701660 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
35701678 TGTAGGGTGG
Statistics
Matches: 77, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
26 3 0.04
27 74 0.96
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTACA
Found at i:35701883 original size:27 final size:27
Alignment explanation
Indices: 35701661--35701890 Score: 298
Period size: 27 Copynumber: 8.5 Consensus size: 27
35701651 CGATTTACAA
* *
35701661 AATTACTGAAATACCCTTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
35701688 AAATAATGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** * *
35701715 AATTACCAAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
35701742 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
35701769 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
35701796 AATTACCAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
35701823 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
35701850 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
35701877 AATTACTGAGATAC
1 AATTACTGAAATAC
35701891 TTTGTGGGGT
Statistics
Matches: 177, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 177 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:35702350 original size:31 final size:31
Alignment explanation
Indices: 35702312--35702452 Score: 187
Period size: 31 Copynumber: 4.6 Consensus size: 31
35702302 TTGCATTAAC
* *
35702312 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
35702343 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
35702374 ATTCTAATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
35702405 ATTCTAATTCTGATTCTGATT--CTGATTCTG
1 ATTCTGATTCTGATTCTG-TTACCTGATACTG
35702435 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
35702453 ATTCTAGTTC
Statistics
Matches: 102, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
30 26 0.25
31 75 0.74
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:35702351 original size:6 final size:6
Alignment explanation
Indices: 35702312--35702457 Score: 145
Period size: 6 Copynumber: 23.8 Consensus size: 6
35702302 TTGCATTAAC
* * * *
35702312 ATTCTG ATTTTG ATTCTG -TTACCTA ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
35702361 -TTACCTG ATACTG ATTCTA ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTA
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
35702411 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
35702458 AGTTCAGATA
Statistics
Matches: 115, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
5 5 0.04
6 99 0.86
7 8 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:35710411 original size:21 final size:22
Alignment explanation
Indices: 35710362--35710422 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 22
35710352 TTAATGGGGC
35710362 ATATATGTATATATATAATAGTT
1 ATATAT-TATATATATAATAGTT
35710385 -TA-A-TATATATATATATAAGTT
1 ATATATTATATATATA-AT-AGTT
35710406 ATATATTATA-AT-TAATA
1 ATATATTATATATATAATA
35710423 AAATGAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
19 10 0.30
20 3 0.09
21 7 0.21
22 6 0.18
23 3 0.09
24 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
ATATATTATATATATAATAGTT
Found at i:35715319 original size:24 final size:26
Alignment explanation
Indices: 35715292--35715343 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
35715282 ATTGTAAATG
*
35715292 GAGT-TATAAGCATAATG-TTG-GTTT
1 GAGTATATAAACAT-ATGTTTGTGTTT
35715316 GAGTATATAAACATATGTTTGTGTTT
1 GAGTATATAAACATATGTTTGTGTTT
35715342 GA
1 GA
35715344 AGCCATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 7 0.29
25 11 0.46
26 6 0.25
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (26 bp):
GAGTATATAAACATATGTTTGTGTTT
Found at i:35721720 original size:27 final size:27
Alignment explanation
Indices: 35721687--35721820 Score: 160
Period size: 27 Copynumber: 5.0 Consensus size: 27
35721677 ATTGCCCCTG
*
35721687 TGGTAAAATGACTATTTTGCTCTTATA
1 TGGTAAAATGACTATTTTGCCCTTATA
* **
35721714 TGGTAAAATGACTATTTTTCCCTTACG
1 TGGTAAAATGACTATTTTGCCCTTATA
* * * *
35721741 TGGTAAATTAATTATTTTGCCCTTATG
1 TGGTAAAATGACTATTTTGCCCTTATA
35721768 TGGTAAAATGACTATTTTGCCCTTATA
1 TGGTAAAATGACTATTTTGCCCTTATA
* * * *
35721795 TGCTAAGATAACTGTTTTGCCCTTAT
1 TGGTAAAATGACTATTTTGCCCTTAT
35721821 GTGATGTATG
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (27 bp):
TGGTAAAATGACTATTTTGCCCTTATA
Found at i:35722201 original size:18 final size:18
Alignment explanation
Indices: 35722152--35722202 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
35722142 TTGCATACTA
* *
35722152 TTTACTATTTCTGTACTG
1 TTTACTATTACTGCACTG
35722170 TTTACTATTACTGCACTG
1 TTTACTATTACTGCACTG
*
35722188 TTTACTGTTACTGCA
1 TTTACTATTACTGCA
35722203 AAGGGCCAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (18 bp):
TTTACTATTACTGCACTG
Found at i:35725111 original size:27 final size:27
Alignment explanation
Indices: 35725071--35725125 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
35725061 CAAAGTTTTT
*
35725071 ATCCACAAATACGAAATTCACCATTAA
1 ATCCACAAACACGAAATTCACCATTAA
35725098 ATCCACAAACACGAAATTCACCATTAA
1 ATCCACAAACACGAAATTCACCATTAA
35725125 A
1 A
35725126 GACATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (27 bp):
ATCCACAAACACGAAATTCACCATTAA
Found at i:35727944 original size:25 final size:25
Alignment explanation
Indices: 35727916--35727973 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
35727906 GAGAGTCCCA
* **
35727916 ATATATGGCTCTCTGAAGTTTCCTG
1 ATATATGGCTCGCTGAAACTTCCTG
*
35727941 --ATATGGCTCGCTTAAACTTCCTG
1 ATATATGGCTCGCTGAAACTTCCTG
35727964 ATATATGGCT
1 ATATATGGCT
35727974 ATCCAAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 19 0.70
25 8 0.30
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (25 bp):
ATATATGGCTCGCTGAAACTTCCTG
Found at i:35729677 original size:39 final size:39
Alignment explanation
Indices: 35729634--35729718 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
35729624 TGAAGTTTAG
* * *
35729634 CTGAAGCACATAAGTGTTAAACAGAAGCTCGAAGGCTAA
1 CTGAAGCACACAAGTGCTAAACAGAAGCCCGAAGGCTAA
*
35729673 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACACAAGTGCTAAACAGAAGCCCGAAGGCTAA
35729712 CTGAAGC
1 CTGAAGC
35729719 TCATCAGAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (39 bp):
CTGAAGCACACAAGTGCTAAACAGAAGCCCGAAGGCTAA
Found at i:35729700 original size:21 final size:21
Alignment explanation
Indices: 35729636--35729700 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
35729626 AAGTTTAGCT
* *
35729636 GAAGCACATAAGTGTTAAACA
1 GAAGCACACAAGTGCTAAACA
* * *
35729657 GAAGCTC-GAAG-GCT-AACT
1 GAAGCACACAAGTGCTAAACA
*
35729675 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACA
35729696 GAAGC
1 GAAGC
35729701 CCGAAGGCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 9 0.26
19 5 0.15
20 6 0.18
21 14 0.41
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.14
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACA
Found at i:35730578 original size:14 final size:14
Alignment explanation
Indices: 35730561--35730590 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35730551 AAATAGTAAA
35730561 TAACACAGTATCAG
1 TAACACAGTATCAG
*
35730575 TAACACGGTATCAG
1 TAACACAGTATCAG
35730589 TA
1 TA
35730591 CAATCTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (14 bp):
TAACACAGTATCAG
Found at i:35730764 original size:42 final size:42
Alignment explanation
Indices: 35730702--35730789 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
35730692 CCTTAGGCCA
35730702 ATTTCAATATCACATATAATGTCAATGGATGTATGCAAGCCC
1 ATTTCAATATCACATATAATGTCAATGGATGTATGCAAGCCC
*
35730744 ATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCC
1 ATTTCAATATCACATATAATGTCAATGGATGTATGCAAGCCC
35730786 ATTT
1 ATTT
35730790 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (42 bp):
ATTTCAATATCACATATAATGTCAATGGATGTATGCAAGCCC
Found at i:35732529 original size:93 final size:93
Alignment explanation
Indices: 35732417--35732587 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
35732407 GCCCCTAAGT
* *
35732417 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35732482 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
35732510 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35732575 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35732588 TTAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:35732603 original size:46 final size:47
Alignment explanation
Indices: 35732412--35732584 Score: 214
Period size: 46 Copynumber: 3.7 Consensus size: 47
35732402 AACCCGCCCC
* *
35732412 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
* *
35732458 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCA
* *
35732506 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
35732551 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35732585 TGCTTAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.56
47 29 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
Found at i:35733045 original size:30 final size:30
Alignment explanation
Indices: 35733011--35733070 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
35733001 ATTTAATACG
35733011 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
35733041 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
35733071 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:35734729 original size:27 final size:27
Alignment explanation
Indices: 35734699--35734750 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
35734689 GTCAATCTAC
35734699 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
35734726 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCTATAATTTT
35734751 TAGAAAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:35734802 original size:27 final size:27
Alignment explanation
Indices: 35734764--35734912 Score: 176
Period size: 27 Copynumber: 5.5 Consensus size: 27
35734754 AAAGTTAAGA
** *
35734764 GTATTTCT-GTAATTTTGTAAATTAGGG
1 GTATTT-TGGTAATTTTACAAACTAGGG
*
35734791 GTATTTTGGTAATTTTACAAA-TTGAGG
1 GTATTTTGGTAATTTTACAAACTAG-GG
* * * * *
35734818 GTATTTCGGTAATTTCAAAAACCAGTG
1 GTATTTTGGTAATTTTACAAACTAGGG
*
35734845 GTATTTCGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
35734872 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
35734899 GTATTTTGGTAATT
1 GTATTTTGGTAATT
35734913 CTATCCTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.03
27 101 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACTAGGG
Found at i:35734879 original size:81 final size:81
Alignment explanation
Indices: 35734764--35734912 Score: 228
Period size: 81 Copynumber: 1.8 Consensus size: 81
35734754 AAAGTTAAGA
* ** * *
35734764 GTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGT
1 GTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGT
35734828 AATTTCAAAAACCAGTG
65 AATTTCAAAAACCAGTG
*
35734845 GTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTA
1 GTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTA
35734910 ATT
66 ATT
35734913 CTATCCTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
81 59 0.97
82 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (81 bp):
GTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTA
ATTTCAAAAACCAGTG
Found at i:35734928 original size:54 final size:54
Alignment explanation
Indices: 35734787--35734945 Score: 167
Period size: 54 Copynumber: 2.9 Consensus size: 54
35734777 TTTGTAAATT
* * * * *
35734787 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAAAAACC
1 AGGGGTATTTCGGTAATTCTACAAACTAAGGGTATTTCGGTAATTTCACAAACC
* * * * * *
35734841 AGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTCTACAAACTAAGGGTATTTCGGTAATTTCACAAACC
* ** *
35734895 AGGGGTATTTTGGTAATTCTATCCTAC-AAGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTCTA-CAAACTAAGGGTATTTCGGTAATTTCACAA
35734946 TCAAGGGTAA
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
54 83 0.97
55 3 0.03
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
AGGGGTATTTCGGTAATTCTACAAACTAAGGGTATTTCGGTAATTTCACAAACC
Found at i:35734982 original size:27 final size:27
Alignment explanation
Indices: 35734944--35735114 Score: 200
Period size: 27 Copynumber: 6.3 Consensus size: 27
35734934 GTAATTTCAC
*
35734944 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
35734971 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
35734998 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
35735025 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
35735052 AATCGAGAGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * **
35735079 AATCGATGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
35735106 AATCGAGGG
1 AATCGAGGG
35735115 CATTTCAGTA
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 121 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:35735018 original size:54 final size:54
Alignment explanation
Indices: 35734944--35735114 Score: 227
Period size: 54 Copynumber: 3.2 Consensus size: 54
35734934 GTAATTTCAC
* * *
35734944 AATCAAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAATGGTAATTTTGTA
* *
35734998 AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
* * * * **
35735052 AATCGAGAGTGAAACGGTAATTCTATAAATCGATGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
35735106 AATCGAGGG
1 AATCGAGGG
35735115 CATTTCAGTA
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 101 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
Found at i:35735071 original size:81 final size:81
Alignment explanation
Indices: 35734932--35735114 Score: 237
Period size: 81 Copynumber: 2.3 Consensus size: 81
35734922 AAGGGTATTT
* * * *
35734932 CAGTAATT-T-CACAATCAAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTT
1 CAGTAATTCTACA-AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGAGTAAAACGGTAATTCT
*
35734995 GTAAATCGAGGGTAAAA
65 ATAAATCGAGGGTAAAA
* *
35735012 CAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAA-TCGAGAGTGAAACGGTAATTCT
1 CAGTAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTAAACT-GAGAGTAAAACGGTAATTCT
*
35735076 ATAAATCGATGGTAAAA
65 ATAAATCGAGGGTAAAA
**
35735093 TGGTAATTCTACAAATCGAGGG
1 CAGTAATTCTACAAATCGAGGG
35735115 CATTTCAGTA
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 9 0.10
81 79 0.89
82 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.28
Consensus pattern (81 bp):
CAGTAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGAGTAAAACGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:35735126 original size:81 final size:81
Alignment explanation
Indices: 35734932--35735136 Score: 209
Period size: 81 Copynumber: 2.5 Consensus size: 81
35734922 AAGGGTATTT
* * * * * *
35734932 CAGTAATT-T-CACAATCAAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTT
1 CAGTAATTCTACA-AATCGAGGGCAAAACAGTAATTTTGTAAACTGAGAGTAAAACGGTAATTCT
*
35734995 GTAAATCGAGGGTAAAA
65 ATAAATCGAGGGTAAAA
* * * *
35735012 CAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAA-TCGAGAGTGAAACGGTAATTCT
1 CAGTAATTCTACAAATCGAGGGCAAAACAGTAATTTTGTAAACT-GAGAGTAAAACGGTAATTCT
*
35735076 ATAAATCGATGGTAAAA
65 ATAAATCGAGGGTAAAA
** *** *
35735093 TGGTAATTCTACAAATCGAGGGCATTTCAGTAATTTGGTAAACT
1 CAGTAATTCTACAAATCGAGGGCAAAACAGTAATTTTGTAAACT
35735137 AAAGTATTCT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 9 0.09
81 93 0.89
82 2 0.02
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (81 bp):
CAGTAATTCTACAAATCGAGGGCAAAACAGTAATTTTGTAAACTGAGAGTAAAACGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:35741233 original size:122 final size:120
Alignment explanation
Indices: 35741018--35741241 Score: 310
Period size: 122 Copynumber: 1.9 Consensus size: 120
35741008 CACAATAACA
* *
35741018 ATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAATCTCAATTTAACACAGAATGT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACAGAATGT
*
35741083 ATGATAACTAACCTAGAAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
66 ATGATAACTAACCTAGAAATACAAATTAAATGATAGATATTGGCATGGTAATAGC
* * ** *
35741138 ATGAGAATAAGCATAGTAATGTCAA-GGGTATGAGGTGTTCCTAATAACTTGATTTAACGC-GAA
1 ATGAGAATAAGAATAGAAATGT-AATGGGTATGAGGTGTTCCTAAT--CTCAATTTAACACAG-A
35741201 ATGTATGATAACTAACCTA-AGAATACAAATTAAATGATAGA
62 ATGTATGATAACTAACCTAGA-AATACAAATTAAATGATAGA
35741242 AAAATGAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
120 38 0.42
121 4 0.04
122 49 0.54
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.29
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACAGAATGT
ATGATAACTAACCTAGAAATACAAATTAAATGATAGATATTGGCATGGTAATAGC
Found at i:35746585 original size:28 final size:28
Alignment explanation
Indices: 35746552--35746639 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
35746542 GTCACTTAAG
35746552 CTATTTAATCACTTTATCAAATTTTGCA
1 CTATTTAATCACTTTATCAAATTTTGCA
* * **
35746580 CTATTT--TCAATTATTAGTC-ACTTAAG--
1 CTATTTAATC-ACT-TTA-TCAAATTTTGCA
35746606 CTATTTAATCACTTTATCAAATTTTGCA
1 CTATTTAATCACTTTATCAAATTTTGCA
35746634 CTATTT
1 CTATTT
35746640 TCAATTTAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 16
0.65 0.12 0.24
Matches are distributed among these distances:
25 2 0.05
26 15 0.34
27 4 0.09
28 21 0.48
29 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.48
Consensus pattern (28 bp):
CTATTTAATCACTTTATCAAATTTTGCA
Found at i:35746600 original size:54 final size:54
Alignment explanation
Indices: 35746536--35746645 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
35746526 AAATCCCTCT
35746536 TTATTAGTCACTTAAGCTATTTAATCACTTTATCAAATTTTGCACTATTTTCAA
1 TTATTAGTCACTTAAGCTATTTAATCACTTTATCAAATTTTGCACTATTTTCAA
35746590 TTATTAGTCACTTAAGCTATTTAATCACTTTATCAAATTTTGCACTATTTTCAA
1 TTATTAGTCACTTAAGCTATTTAATCACTTTATCAAATTTTGCACTATTTTCAA
35746644 TT
1 TT
35746646 TAGTCCTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.47
Consensus pattern (54 bp):
TTATTAGTCACTTAAGCTATTTAATCACTTTATCAAATTTTGCACTATTTTCAA
Found at i:35751009 original size:39 final size:39
Alignment explanation
Indices: 35750955--35751032 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
35750945 CTTAGAGAAT
35750955 TTTTGCTGAAACAGGGGTCACACGCCCATGTGGCTTGGG
1 TTTTGCTGAAACAGGGGTCACACGCCCATGTGGCTTGGG
35750994 TTTTGCTGAAACAGGGGTCACACGCCCATGTGGCTTGGG
1 TTTTGCTGAAACAGGGGTCACACGCCCATGTGGCTTGGG
35751033 ACACGCCCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.18, C:0.23, G:0.33, T:0.26
Consensus pattern (39 bp):
TTTTGCTGAAACAGGGGTCACACGCCCATGTGGCTTGGG
Found at i:35753429 original size:40 final size:40
Alignment explanation
Indices: 35753348--35753520 Score: 242
Period size: 40 Copynumber: 4.4 Consensus size: 40
35753338 CAACCAAGTA
** * *
35753348 CCTTCGGGGTTTAG-CCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35753387 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
35753427 CCTTAGGGACTTAGCCCGGAAATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35753467 CCTTCGGGACTTAGCCC-GAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35753506 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
35753521 TCGGTTATCA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 48 0.40
40 72 0.60
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35761597 original size:40 final size:40
Alignment explanation
Indices: 35761528--35761743 Score: 321
Period size: 40 Copynumber: 5.5 Consensus size: 40
35761518 CAACCAAGTA
* * * *
35761528 CCTTCGGG-TTTAG-CCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
** *
35761566 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
35761606 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
35761646 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
* * *
35761686 CCTTCGAGACTTAGCCTGGAAATAGTAAGTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
35761726 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35761744 TTATCATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 8 0.05
39 15 0.09
40 140 0.86
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
Found at i:35763145 original size:11 final size:11
Alignment explanation
Indices: 35763129--35763153 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35763119 AACATGTGGG
35763129 CTTTTTTTTTT
1 CTTTTTTTTTT
35763140 CTTTTTTTTTT
1 CTTTTTTTTTT
35763151 CTT
1 CTT
35763154 CTAGGTACGG
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:35773801 original size:49 final size:49
Alignment explanation
Indices: 35773706--35773838 Score: 146
Period size: 49 Copynumber: 2.7 Consensus size: 49
35773696 GCACATCAAA
* * *
35773706 GTCAATGCCATGTACCAATA-AGGTCTTACACTCACTTTCATATATCAAG-
1 GTCAATGCCATGTCCCAA-ACAGGTCTTACACTGACTCTCATATATC-AGT
* * * *
35773755 G-CAAATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGT
1 GTC-AATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCAGT
*
35773804 GTCGATGCCATGTCCCAAACAGGTCTTACACTGAC
1 GTCAATGCCATGTCCCAAACAGGTCTTACACTGAC
35773839 ACACAACAAG
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
48 4 0.06
49 64 0.93
50 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (49 bp):
GTCAATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCAGT
Found at i:35774665 original size:20 final size:18
Alignment explanation
Indices: 35774628--35774678 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
35774618 CTATAGCAAC
35774628 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
35774645 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
35774665 TTACAACTTTACAA
1 TCACAA-TTTACAA
35774679 AATAGCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:35781514 original size:40 final size:39
Alignment explanation
Indices: 35781470--35781622 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 39
35781460 AAGTGACTAT
* *
35781470 ATCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAA
1 ATCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAA
* * *
35781510 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAA
* * * *
35781549 ACCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTATA
1 ATCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-A
** * *
35781590 A-CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 ATCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
35781623 CGTTATATCC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 33 0.35
40 60 0.63
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:35785186 original size:25 final size:26
Alignment explanation
Indices: 35785145--35785194 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
35785135 GGCAGGTCAG
*
35785145 TAATCAATGTTCCTATTA-CATTATA
1 TAATCAATGTTCATATTATCATTATA
35785170 TAATCAAT-TTGCATATTATCATTAT
1 TAATCAATGTT-CATATTATCATTAT
35785195 TAACTCACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 2 0.09
25 14 0.64
26 6 0.27
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (26 bp):
TAATCAATGTTCATATTATCATTATA
Found at i:35788466 original size:23 final size:23
Alignment explanation
Indices: 35788411--35788466 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
35788401 CACCCCACCC
35788411 CATGGAATGCAACATAATATCATA
1 CATGG-ATGCAACATAATATCATA
*
35788435 CATAGATGCAACATACATAT-A-A
1 CATGGATGCAACATA-ATATCATA
35788457 CATGGCATGC
1 CATGG-ATGC
35788467 TCAAATACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 5 0.18
23 15 0.54
24 8 0.29
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (23 bp):
CATGGATGCAACATAATATCATA
Found at i:35788833 original size:20 final size:20
Alignment explanation
Indices: 35788808--35788847 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35788798 TACGGGCCCA
* *
35788808 TTGGCCCTACATGGCCCAAT
1 TTGGCCCAAAATGGCCCAAT
35788828 TTGGCCCAAAATGGCCCAAT
1 TTGGCCCAAAATGGCCCAAT
35788848 ACCAATTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (20 bp):
TTGGCCCAAAATGGCCCAAT
Found at i:35794290 original size:140 final size:141
Alignment explanation
Indices: 35794025--35794310 Score: 405
Period size: 140 Copynumber: 2.0 Consensus size: 141
35794015 ATACAAACTA
35794025 AATGAATAACTTAAAACTTTGAAGAGACTTTATCACCATATAGGTTGATGGAGCTATTAAAATCA
1 AATGAATAACTTAAAACTTTGAAGAGACTTTATCACCATATAGGTTGATGGAGCTATTAAAATCA
* * * * * * *
35794090 ACATAGGTTCCACTTCGGCTGTAGGAGTTTTGAGAGACTAAAATGGTGAATAGATCATTGGGTTC
66 ACACAAGTGCCACTTCGGCAGGAGGAGTTTTGAGAGACCAAAATGGTGAACAGATCATTGGGTTC
*
35794155 AATTGTAAAAT
131 AATTGCAAAAT
* * *
35794166 AATGAATAACTT-AAACTTTGAAGAGACTTTATCACCATA-CGGTCTGATGGAGCTGTTAAGATC
1 AATGAATAACTTAAAACTTTGAAGAGACTTTATCACCATATAGGT-TGATGGAGCTATTAAAATC
* * * * *
35794229 AACACAAGTGCCGCTTTGGCAGGAGGAGTTTTGATAGACCAAAATGGTGAACGGATCATTGGTTT
65 AACACAAGTGCCACTTCGGCAGGAGGAGTTTTGAGAGACCAAAATGGTGAACAGATCATTGGGTT
35794294 CAATTGCAAAAT
130 CAATTGCAAAAT
35794306 AATGA
1 AATGA
35794311 TATGTTATGT
Statistics
Matches: 128, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
139 3 0.02
140 113 0.88
141 12 0.09
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (141 bp):
AATGAATAACTTAAAACTTTGAAGAGACTTTATCACCATATAGGTTGATGGAGCTATTAAAATCA
ACACAAGTGCCACTTCGGCAGGAGGAGTTTTGAGAGACCAAAATGGTGAACAGATCATTGGGTTC
AATTGCAAAAT
Found at i:35797531 original size:22 final size:22
Alignment explanation
Indices: 35797503--35797548 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
35797493 AGAGTCTTGG
35797503 CCTAGGATAACATATACTTTGA
1 CCTAGGATAACATATACTTTGA
35797525 CCTAGGATAACATATACTTTGA
1 CCTAGGATAACATATACTTTGA
35797547 CC
1 CC
35797549 ATCATATGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (22 bp):
CCTAGGATAACATATACTTTGA
Found at i:35799446 original size:25 final size:26
Alignment explanation
Indices: 35799403--35799454 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
35799393 AACTTATTTA
*
35799403 TACTAGACTTTTCCTGCAAGTAAAGT
1 TACTAGACTTTTCCTGCAAATAAAGT
* *
35799429 TACTAGGC-TTTCTTGCAAATAAAGT
1 TACTAGACTTTTCCTGCAAATAAAGT
35799454 T
1 T
35799455 TTATTCCTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (26 bp):
TACTAGACTTTTCCTGCAAATAAAGT
Found at i:35804324 original size:6 final size:6
Alignment explanation
Indices: 35804313--35804393 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
35804303 TGTACTTCTT
* *
35804313 TTTTTC TTTTTC TTTTTC TTTTT- TCTTTCC TTTTT- TTTCTC TTATTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TT-TTTC
* * *
35804360 TCTTCC TTTTT- TATTCTTA TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC T-TT-TTC TTTTTC TTTTTC TTT
35804394 CCCTGCTTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
5 8 0.14
6 42 0.72
7 7 0.12
8 1 0.02
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:35804330 original size:12 final size:11
Alignment explanation
Indices: 35804311--35804393 Score: 67
Period size: 12 Copynumber: 7.0 Consensus size: 11
35804301 CTTGTACTTC
35804311 TTTTTTTCTTT
1 TTTTTTTCTTT
35804322 TTCTTTTTCTTT
1 TT-TTTTTCTTT
*
35804334 TTTCTTTCCTTT
1 TTT-TTTTCTTT
*
35804346 TTTTTCTCTTAT
1 TTTTTTTCTT-T
* *
35804358 TTTCTTCCTTT
1 TTTTTTTCTTT
*
35804369 TTTATTCTTATTT
1 TTT-TT-TTCTTT
35804382 TTCTTTTTCTTT
1 TT-TTTTTCTTT
35804394 CCCTGCTTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
11 12 0.21
12 35 0.62
13 8 0.14
14 1 0.02
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:35804341 original size:23 final size:21
Alignment explanation
Indices: 35804311--35804389 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
35804301 CTTGTACTTC
35804311 TTTTTTTCTTTTTCTTTTTCTT
1 TTTTTTTCTTTTT-TTTTTCTT
*
35804333 TTTTCTTTCCTTTTTTTTCTCTT
1 TTTT-TTT-CTTTTTTTTTTCTT
* * *
35804356 ATTTTCTTCCTTTTTTATTC-T
1 -TTTTTTTCTTTTTTTTTTCTT
*
35804377 TATTTTTCTTTTT
1 TTTTTTTCTTTTT
35804390 CTTTCCCTGC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
20 10 0.22
21 1 0.02
22 13 0.28
23 12 0.26
24 10 0.22
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTTTTTTTTTTCTT
Found at i:35810702 original size:67 final size:66
Alignment explanation
Indices: 35810578--35810706 Score: 179
Period size: 67 Copynumber: 1.9 Consensus size: 66
35810568 ACATGGTGAA
* * * *
35810578 CACTTAGTACCACCCATGTAACCTAGCCAGTTTATCTCGTAGCTCTCTTATCTACATGGTGTCCT
1 CACTTAGAACCACCCATGCAACCTAGCCAGTATATCCCGTAGCTCTCTTATCTACATGGTGTCCT
35810643 T
66 T
* *
35810644 CACTTAGAACCACGCATGCAACCTAGCTACA-TATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 CACTTAGAACCACCCATGCAACCTAGC--CAGTATATCCCGTAGCTCTCTTATCTACATGGTGT
35810707 ACACATAGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
66 24 0.44
67 29 0.53
68 2 0.04
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (66 bp):
CACTTAGAACCACCCATGCAACCTAGCCAGTATATCCCGTAGCTCTCTTATCTACATGGTGTCCT
T
Found at i:35810761 original size:68 final size:65
Alignment explanation
Indices: 35810556--35810808 Score: 219
Period size: 68 Copynumber: 3.8 Consensus size: 65
35810546 CATAATTTTG
* *
35810556 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTAACCTAGC--CAGTTTA-TCTCG
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGTAACCTAGCTACA-TATATTCTCG
35810617 TA
64 TA
* * * * * *
35810619 GCTCTCTTATCTACATGGTGTCCTTCACTTAGAACCACGCATGCAACCTAGCTACATATA-TCCC
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGTAACCTAGCTACATATATTCTC
35810683 GTA
63 GTA
* * *
35810686 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGTAACCTAGCTACAT-AT-AT-TCTC
35810751 GTA
63 GTA
** * * * * ** *
35810754 GCTCTCTTGTAAACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGTAACCTAGCTACATA
35810809 CCATCTGTAT
Statistics
Matches: 153, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
62 1 0.01
63 17 0.11
64 27 0.18
65 2 0.01
66 25 0.16
67 29 0.19
68 52 0.34
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGTAACCTAGCTACATATATTCTCGTA
Found at i:35815038 original size:27 final size:28
Alignment explanation
Indices: 35814979--35815039 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
35814969 AGTGCTTGGA
*
35814979 GTGTGGATTAACTCCAGTCTCCTATCAG
1 GTGTGTATTAACTCCAGTCTCCTATCAG
*
35815007 GTGTGTATTAACTCTAGTCT-CTATCAG
1 GTGTGTATTAACTCCAGTCTCCTATCAG
35815034 GTGTGT
1 GTGTGT
35815040 GTTTTCTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (28 bp):
GTGTGTATTAACTCCAGTCTCCTATCAG
Found at i:35815344 original size:27 final size:27
Alignment explanation
Indices: 35815316--35815513 Score: 270
Period size: 27 Copynumber: 7.3 Consensus size: 27
35815306 TACTGAAATG
* * *
35815316 CCCTCGATTTGTAGAATTACCATTTTG
1 CCCTCGATTTATAAAATTACCATTTTA
* *
35815343 CCCTCGATTTATAAAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
35815370 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
35815397 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
35815424 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
35815451 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
35815478 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
35815505 CCCTCGATT
1 CCCTCGATT
35815514 GTGAAATTAC
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:35815431 original size:81 final size:81
Alignment explanation
Indices: 35815316--35815513 Score: 324
Period size: 81 Copynumber: 2.4 Consensus size: 81
35815306 TACTGAAATG
* * *
35815316 CCCTCGATTTGTAGAATTACCATTTTGCCCTCGATTTATAAAATTACCGTTTCACCCTCGATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTCACCCTCGATTTA
*
35815381 CAAAATTACCGTTTTA
66 CAAAATTACCATTTTA
* *
35815397 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTCACCCTCGATTTA
35815462 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* *
35815478 CCCTCAATTTACAAAATTACCATTTTACCCTCGATT
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATT
35815514 GTGAAATTAC
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (81 bp):
CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:35815575 original size:27 final size:27
Alignment explanation
Indices: 35815545--35815722 Score: 243
Period size: 27 Copynumber: 6.6 Consensus size: 27
35815535 TGTAGGATAG
35815545 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
35815572 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
35815599 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
35815626 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
35815653 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
35815680 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
35815707 AATTACAAAAATACCC
1 AATTACCAAAATACCC
35815723 TTGACTTTCT
Statistics
Matches: 135, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.02
27 128 0.95
28 4 0.03
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:35815710 original size:54 final size:54
Alignment explanation
Indices: 35815370--35815779 Score: 190
Period size: 54 Copynumber: 7.6 Consensus size: 54
35815360 TACCGTTTCA
*** * * ***
35815370 CCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTA-
1 CCCT-GATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
* * *** * ** ***
35815424 CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTA-
1 CCCT-GATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
* ** * * **
35815478 CCCTCAATTTACAAAATTACC-ATTTTACCCTCGA-TTGTGAAATTACTGAAATAC
1 CCCT-GATTTACAAAATTACCGA-AATACCCTCAATTTGTAAAATTACCAAAATAC
** * * * *
35815532 CCCTG-TAGGATAGAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATAC
1 CCCTGAT-TTACAAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATAC
** * * *
35815586 CCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCGAAATAC
1 CCCTGA-TTTACAAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATAC
* * ***
35815640 CACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTGATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
** * * * *
35815694 CCCTGATTTACAAAATTACAAAAATACCCTTGACTTTCTAAAAATTA-TAGAAATAC
1 CCCTGATTTACAAAATTACCGAAATACCC-TCAATTTGT-AAAATTACCA-AAATAC
** * *
35815750 CATTGGTTTACAAAATTACTGAAATACCCT
1 CCCTGATTTACAAAATTACCGAAATACCCT
35815780 TGGTTTGTAG
Statistics
Matches: 287, Mismatches: 56, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.01
53 25 0.09
54 213 0.74
55 10 0.03
56 37 0.13
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.32
Consensus pattern (54 bp):
CCCTGATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
Found at i:35815773 original size:27 final size:27
Alignment explanation
Indices: 35815734--35815785 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
35815724 TGACTTTCTA
35815734 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
35815761 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
35815786 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:35815869 original size:27 final size:27
Alignment explanation
Indices: 35815826--35815899 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
35815816 AAATGACTAA
*
35815826 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
35815853 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
35815880 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
35815900 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:35815903 original size:27 final size:27
Alignment explanation
Indices: 35815839--35815903 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
35815829 ACCCCTAATA
*
35815839 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
35815866 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
35815893 GGTAAAATGAC
1 GGTAAAATGAC
35815904 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:35816769 original size:24 final size:23
Alignment explanation
Indices: 35816711--35816783 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 23
35816701 GAGGAAGTGC
*
35816711 TAAAAGGGCTCTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAG-TTAT
* *
35816735 CAGAAAGGGCTTTGCCCCAGTTAT
1 TA-AAAGGGCTATGCCCCAGTTAT
*
35816759 TAAAAGAGGCTAGGCCTCCAGTTAT
1 TAAAAG-GGCTATGCC-CCAGTTAT
35816784 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.10
24 13 0.32
25 24 0.59
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (23 bp):
TAAAAGGGCTATGCCCCAGTTAT
Found at i:35816951 original size:42 final size:42
Alignment explanation
Indices: 35816904--35816995 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
35816894 TAGTCACCCC
* *
35816904 AAATGGGCTTGTATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
35816946 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
35816988 AAATGGGC
1 AAATGGGC
35816996 CTAAGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:35817054 original size:31 final size:31
Alignment explanation
Indices: 35817019--35817133 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
35817009 CATTTACAGT
35817019 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35817050 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
35817081 AAAGGCTTTGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
35817112 AAAGGCTTCGGCACAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
35817134 TCAAGACTAA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:35829605 original size:77 final size:78
Alignment explanation
Indices: 35829475--35829649 Score: 205
Period size: 77 Copynumber: 2.2 Consensus size: 78
35829465 ATGATGTCCG
* *
35829475 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGC
35829540 GAGTTACTAATTCC
66 -AGTTACTAATTCC
* * * **
35829554 GGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTG
*
35829616 CAGTTACT-ATAACC
65 CAGTTACTAAT-TCC
*
35829630 GGGCTATGTCCCGAAGGCAT
1 -GGCTAAGTCCCGAAGGCAT
35829650 TTGAACGAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
75 2 0.02
76 10 0.12
77 39 0.47
78 25 0.30
79 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
GGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGC
AGTTACTAATTCC
Found at i:35829621 original size:39 final size:40
Alignment explanation
Indices: 35829471--35829652 Score: 216
Period size: 39 Copynumber: 4.7 Consensus size: 40
35829461 TCGAATGATG
* *
35829471 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
35829511 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35829551 TCC-GGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35829588 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35829628 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35829653 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
37 17 0.14
38 15 0.12
39 46 0.38
40 36 0.30
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35834112 original size:40 final size:39
Alignment explanation
Indices: 35833952--35834114 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
35833942 TGTGTATGAA
*
35833952 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
35833991 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
35834030 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
35834069 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
35834109 TGTGCG
1 TGTGCG
35834115 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:35834130 original size:40 final size:39
Alignment explanation
Indices: 35833952--35834145 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
35833942 TGTGTATGAA
* *
35833952 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
35833991 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
35834030 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
35834069 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
35834109 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
35834146 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:35842031 original size:40 final size:39
Alignment explanation
Indices: 35841871--35842033 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
35841861 TGTGTATGAA
*
35841871 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
35841910 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
35841949 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
35841988 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
35842028 TGTGCG
1 TGTGCG
35842034 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:35842049 original size:40 final size:39
Alignment explanation
Indices: 35841871--35842064 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
35841861 TGTGTATGAA
* *
35841871 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
35841910 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
35841949 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
35841988 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
35842028 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
35842065 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:35848726 original size:40 final size:39
Alignment explanation
Indices: 35848649--35848831 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
35848639 TCGAATGATG
* *
35848649 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
35848688 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
35848728 TCCGGGCTAAGCCCGAAGGCA-TGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
35848766 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
35848807 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
35848832 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
38 24 0.19
39 28 0.23
40 63 0.51
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35848788 original size:78 final size:79
Alignment explanation
Indices: 35848649--35848828 Score: 222
Period size: 78 Copynumber: 2.3 Consensus size: 79
35848639 TCGAATGATG
* * *
35848649 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
35848714 TGCGAGTTACTA-A
66 TGCGAGTTACTATA
* * * **
35848727 TTCCGGGCTAAGCCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 -TCCGGGCTAAGCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
35848790 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTATA
* *
35848806 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCAT
35848829 TTGAACGAGT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
77 1 0.01
78 51 0.58
79 36 0.41
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:35856030 original size:15 final size:16
Alignment explanation
Indices: 35855991--35856042 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
35855981 GGTGTAACGC
35855991 TCCAGAAAATCCTGAAA
1 TCCA-AAAATCCTGAAA
*
35856008 TCCAAAAATCTTGAAA
1 TCCAAAAATCCTGAAA
*
35856024 TCCAAAAATCCCGAAA
1 TCCAAAAATCCTGAAA
35856040 TCC
1 TCC
35856043 TGAATTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 28 0.88
17 4 0.12
ACGTcount: A:0.46, C:0.27, G:0.08, T:0.19
Consensus pattern (16 bp):
TCCAAAAATCCTGAAA
Found at i:35857165 original size:8 final size:8
Alignment explanation
Indices: 35857140--35857182 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
35857130 ATGTATCAGC
35857140 AAAAGCCG
1 AAAAGCCG
35857148 AAATA-CCG
1 AAA-AGCCG
*
35857156 AAAAGTCG
1 AAAAGCCG
*
35857164 AAATGCCG
1 AAAAGCCG
35857172 AAAAGCCG
1 AAAAGCCG
35857180 AAA
1 AAA
35857183 GTTTGGCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 1 0.03
8 27 0.93
9 1 0.03
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:35857165 original size:16 final size:16
Alignment explanation
Indices: 35857140--35857182 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
35857130 ATGTATCAGC
35857140 AAAAGCCGAAATACCG
1 AAAAGCCGAAATACCG
* *
35857156 AAAAGTCGAAATGCCG
1 AAAAGCCGAAATACCG
35857172 AAAAGCCGAAA
1 AAAAGCCGAAA
35857183 GTTTGGCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATACCG
Found at i:35857449 original size:29 final size:28
Alignment explanation
Indices: 35857392--35857502 Score: 132
Period size: 29 Copynumber: 3.9 Consensus size: 28
35857382 GTGAGCATGA
* *
35857392 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
35857420 ATATAAATGTGATTTGGGCCTAATGTGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
35857449 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
35857478 ATATGAATATGATTGGGCTTAATGG
1 ATATAAATGTGATTGGGCCTAATGG
35857503 TCCAGATACA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 23 0.32
29 48 0.68
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:35859350 original size:71 final size:71
Alignment explanation
Indices: 35859264--35859427 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35859254 CGATTTGTCT
35859264 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35859329 CTTTCA
66 CTTTCA
35859335 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35859400 CTTTCA
66 CTTTCA
35859406 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35859428 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35859465 original size:71 final size:70
Alignment explanation
Indices: 35859264--35859461 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
35859254 CGATTTGTCT
* * * *
35859264 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35859329 CTTTCA
65 CTTTCA
* * * *
35859335 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35859400 CTTTCA
65 CTTTCA
* *
35859406 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35859462 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35866862 original size:40 final size:40
Alignment explanation
Indices: 35866818--35866932 Score: 92
Period size: 40 Copynumber: 3.1 Consensus size: 40
35866808 ACATGGTGTC
35866818 TTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCT
1 TTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCT
* * * *
35866858 TTCAC---G--T-A-GC-T----CCTTGTCTACATGGTGTCC
1 TTCACTTGGAATCACGCATGCGACCTAG-CTACAT-TTATCT
35866888 TTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCT
1 TTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCT
35866928 TTCAC
1 TTCAC
35866933 GTAGCTCTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 28
0.60 0.09 0.31
Matches are distributed among these distances:
28 4 0.08
29 6 0.11
30 8 0.15
32 1 0.02
33 3 0.06
34 1 0.02
35 2 0.04
36 1 0.02
37 3 0.06
38 1 0.02
40 13 0.25
41 6 0.11
42 4 0.08
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.34
Consensus pattern (40 bp):
TTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCT
Found at i:35866885 original size:69 final size:71
Alignment explanation
Indices: 35866792--35866953 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
35866782 CGATTTGTCT
35866792 CGTAGCTCTCTTGTCTACATGGTGT-CTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35866856 CTTTCA
66 CTTTCA
35866862 CGTAGCTC-CTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35866926 CTTTCA
66 CTTTCA
35866932 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35866954 GATACATCTC
Statistics
Matches: 90, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
69 16 0.18
70 61 0.68
71 13 0.14
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35867450 original size:40 final size:39
Alignment explanation
Indices: 35867405--35867534 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
35867395 CGGAATACAA
35867405 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
35867445 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
35867485 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
35867525 CCGGATATAA
1 CCGGATATAA
35867535 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:35875501 original size:40 final size:39
Alignment explanation
Indices: 35875456--35875585 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
35875446 CGGAATACAA
35875456 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
35875496 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
35875536 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
35875576 CCGGATATAA
1 CCGGATATAA
35875586 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:35889939 original size:3 final size:3
Alignment explanation
Indices: 35889933--35889976 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
35889923 TTGGTGATAT
35889933 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
35889977 TTGAAATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:35896252 original size:40 final size:40
Alignment explanation
Indices: 35896184--35896346 Score: 146
Period size: 40 Copynumber: 4.1 Consensus size: 40
35896174 TGAGCGATAT
* ** * *
35896184 CTATTGAATCTACTGAAGTGTATATGCTTTCGAGCCATAC
1 CTATTGAATCTACTAAAACGTATGTGCTTTCAAGCCATAC
* * * ** *** *
35896224 CTACTGAATCTACTCATACGTATGTGCTTTTGAGTGGTAT
1 CTATTGAATCTACTAAAACGTATGTGCTTTCAAGCCATAC
* * *
35896264 CTGTTAAATCTACTAAAACGTATGTGCTTTCAAGCTATAC
1 CTATTGAATCTACTAAAACGTATGTGCTTTCAAGCCATAC
* **
35896304 CTATTGAATCTACTGAAACGTATGAACTTTCAAGCCATAC
1 CTATTGAATCTACTAAAACGTATGTGCTTTCAAGCCATAC
35896344 CTA
1 CTA
35896347 ACAGTCCCAC
Statistics
Matches: 95, Mismatches: 28, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (40 bp):
CTATTGAATCTACTAAAACGTATGTGCTTTCAAGCCATAC
Found at i:35896539 original size:37 final size:38
Alignment explanation
Indices: 35896447--35896548 Score: 118
Period size: 37 Copynumber: 2.7 Consensus size: 38
35896437 AAAAGTAGCT
* * * *
35896447 CAAATGAGCAAATTTTACTGTTATACTGATGTGAAGCT
1 CAAATGAGTAAATTCTACTGTTATACTGATGAGAAGCA
35896485 CAAATGAGTAAATTCTACTGTTATACTGAAT-AG-AGCA
1 CAAATGAGTAAATTCTACTGTTATACTG-ATGAGAAGCA
* * *
35896522 CAAATGAGTAAAATCTACAGATATACT
1 CAAATGAGTAAATTCTACTGTTATACT
35896549 AAAATAAAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
37 27 0.48
38 27 0.48
39 2 0.04
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (38 bp):
CAAATGAGTAAATTCTACTGTTATACTGATGAGAAGCA
Found at i:35904487 original size:20 final size:21
Alignment explanation
Indices: 35904462--35904501 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35904452 TGGGCCATAA
* *
35904462 GCCCATTG-GGCCCTGTTTTG
1 GCCCATCGAGGCCCTATTTTG
35904482 GCCCATCGAGGCCCTATTTT
1 GCCCATCGAGGCCCTATTTT
35904502 CGAAGTACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.10, C:0.33, G:0.25, T:0.33
Consensus pattern (21 bp):
GCCCATCGAGGCCCTATTTTG
Found at i:35908974 original size:26 final size:26
Alignment explanation
Indices: 35908938--35909080 Score: 223
Period size: 26 Copynumber: 5.5 Consensus size: 26
35908928 AACACATTAG
35908938 AAAATGGAAGCCTTTGTGGCATATCT
1 AAAATGGAAGCCTTTGTGGCATATCT
35908964 AAAATGGAAGCCTTTGTGGCATATCT
1 AAAATGGAAGCCTTTGTGGCATATCT
* * * *
35908990 GAAATGGAAGTCTTTGCGGTATATCT
1 AAAATGGAAGCCTTTGTGGCATATCT
35909016 AAAATGGAAGCCTTTGTGGCATATCT
1 AAAATGGAAGCCTTTGTGGCATATCT
* *
35909042 AAAATGGAAGCCTTTGTAGCGTATCT
1 AAAATGGAAGCCTTTGTGGCATATCT
*
35909068 GAAATGGAAGCCT
1 AAAATGGAAGCCT
35909081 CTATGGCGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (26 bp):
AAAATGGAAGCCTTTGTGGCATATCT
Found at i:35942153 original size:31 final size:31
Alignment explanation
Indices: 35942113--35942178 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
35942103 AACCCTTCCT
*
35942113 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
*
35942144 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
35942175 GCAT
1 GCAT
35942179 AAAAATACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.23, G:0.11, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:35942194 original size:31 final size:31
Alignment explanation
Indices: 35942113--35942197 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
35942103 AACCCTTCCT
* *
35942113 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATAAAATACAACCAAAAACAGCAAATATA
* * *
35942144 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATAAAATACAACCAAAAACAGCAAATATA
**
35942175 GCATAAAAATACAATAAAAAACA
1 GCAT-AAAATACAACCAAAAACA
35942198 TTAAATCTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 33 0.70
32 14 0.30
ACGTcount: A:0.58, C:0.20, G:0.08, T:0.14
Consensus pattern (31 bp):
GCATAAAATACAACCAAAAACAGCAAATATA
Found at i:35942940 original size:13 final size:14
Alignment explanation
Indices: 35942914--35942942 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35942904 ACTAACAATG
35942914 AATTAAACCATTAT
1 AATTAAACCATTAT
35942928 AATTAAA-CATTAT
1 AATTAAACCATTAT
35942941 AA
1 AA
35942943 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:35944318 original size:17 final size:18
Alignment explanation
Indices: 35944276--35944324 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
35944266 AGTTGAAAAG
35944276 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
35944295 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
35944312 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
35944325 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:35945213 original size:40 final size:40
Alignment explanation
Indices: 35945147--35945297 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
35945137 AAATTGAATG
* * *
35945147 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35945186 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
35945226 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
35945266 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
35945298 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35945311 original size:40 final size:40
Alignment explanation
Indices: 35945183--35945313 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
35945173 TATGCTGGAA
* * * *
35945183 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
35945223 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
35945263 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
35945303 ATTATATCCGG
1 ATTATATCCGG
35945314 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:35950906 original size:40 final size:39
Alignment explanation
Indices: 35950849--35951033 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
35950839 ATTAAATGAT
* * *
35950849 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
35950889 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
35950929 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
35950969 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
35951009 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
35951034 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:35950985 original size:80 final size:80
Alignment explanation
Indices: 35950848--35951054 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
35950838 AATTAAATGA
* * ** * *
35950848 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
35950913 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
35950926 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
35950991 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
35951008 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
35951055 TTGTATTTCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:35951039 original size:40 final size:39
Alignment explanation
Indices: 35950847--35951054 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
35950837 CAATTAAATG
* * ** *
35950847 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
35950887 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
35950927 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
35950967 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
35951007 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
35951047 ATATCCGG
1 ATATCCGG
35951055 TTGTATTTCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:35953461 original size:61 final size:59
Alignment explanation
Indices: 35953389--35953504 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 59
35953379 AGTCATTATC
** * * * *
35953389 TTAATATTAAATTTAATTTAATATTTGTCTT-ATAGATAATATTCTATTATTTTAATAATAT
1 TTAATATTAAATCAAATCTAATATTTATCTTGAT--A-AATATTATATTAATTTAATAATAT
35953450 TTAATATTAAATCAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATCAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
35953505 TGAAAGTGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 18 0.38
60 1 0.02
61 27 0.56
62 2 0.04
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATCAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAATAT
Found at i:35968048 original size:93 final size:93
Alignment explanation
Indices: 35967936--35968107 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35967926 CGCCCATAAG
* *
35967936 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35968001 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
35968029 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35968094 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
35968108 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35968104 original size:46 final size:46
Alignment explanation
Indices: 35967929--35968104 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35967919 TGTAACCCGC
* * *
35967929 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
35967975 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
35968025 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
35968068 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
35968105 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35971635 original size:21 final size:21
Alignment explanation
Indices: 35971583--35971638 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
35971573 TCTCCAGTTT
*
35971583 CCACATGCCCATGTCACTTAC
1 CCACATGCCCGTGTCACTTAC
*
35971604 CCACACGCCCGTGTCACTTAC
1 CCACATGCCCGTGTCACTTAC
35971625 CCACATGCCCGTGT
1 CCACATGCCCGTGT
35971639 GTAAACCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.20, C:0.45, G:0.14, T:0.21
Consensus pattern (21 bp):
CCACATGCCCGTGTCACTTAC
Found at i:35976573 original size:30 final size:30
Alignment explanation
Indices: 35976537--35976696 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
35976527 GACAAGATTG
* * * * *
35976537 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
35976567 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
35976595 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35976624 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35976654 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35976683 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35976697 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:35976664 original size:59 final size:57
Alignment explanation
Indices: 35976537--35976696 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
35976527 GACAAGATTG
* * * * * *
35976537 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
35976595 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
35976654 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
35976697 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:35984489 original size:30 final size:30
Alignment explanation
Indices: 35984453--35984611 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
35984443 GACAAGATTG
* * * * *
35984453 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
35984483 GCACTAAGTGTGCGAGTTTG---ATTA-ATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
35984510 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35984539 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35984569 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35984598 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35984612 GATTCACTAT
Statistics
Matches: 118, Mismatches: 5, Indels: 13
0.87 0.04 0.10
Matches are distributed among these distances:
26 2 0.02
27 18 0.15
28 5 0.04
29 47 0.40
30 44 0.37
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:35984582 original size:59 final size:56
Alignment explanation
Indices: 35984453--35984611 Score: 212
Period size: 59 Copynumber: 2.8 Consensus size: 56
35984443 GACAAGATTG
* * * * * *
35984453 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTAATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTAATA
35984510 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTA-ATA
35984569 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
35984612 GATTCACTAT
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
55 2 0.02
56 20 0.22
57 20 0.22
58 4 0.04
59 46 0.50
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTAATA
Found at i:35990286 original size:17 final size:18
Alignment explanation
Indices: 35990243--35990288 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
35990233 TCGTTTTTGT
* *
35990243 TCTGATTTTGATAATTTC
1 TCTGTTTTTGATAATTTA
35990261 TCTGTTTTTGATAATTTA
1 TCTGTTTTTGATAATTTA
*
35990279 TTTGTTTTTG
1 TCTGTTTTTG
35990289 TGATCGTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.07, G:0.13, T:0.63
Consensus pattern (18 bp):
TCTGTTTTTGATAATTTA
Found at i:35991158 original size:43 final size:43
Alignment explanation
Indices: 35990998--35991160 Score: 125
Period size: 43 Copynumber: 3.8 Consensus size: 43
35990988 ATAGGATTTC
* * * * * *
35990998 CAATATGTGATTTCGTGTAAGACCACGTCTGGGGCGTTGGCAT
1 CAATATTTGATTACATGTAAGACCACGTCTGGGACATTGGAAT
* * * * *
35991041 TAAT-TTGAGATTTACATATAAGACCATGTCTGAGACATTGGAAT
1 CAATATT-TGA-TTACATGTAAGACCACGTCTGGGACATTGGAAT
* * * * * *
35991085 C-GTATTTGATTTCGTGTAAGACC-CTATCTGGGACAATGGTAT
1 CAATATTTGATTACATGTAAGACCAC-GTCTGGGACATTGGAAT
35991127 CAATATTTGATTACATGTAAGACCACGTCTGGGA
1 CAATATTTGATTACATGTAAGACCACGTCTGGGA
35991161 TGTTGGCATT
Statistics
Matches: 88, Mismatches: 26, Indels: 12
0.70 0.21 0.10
Matches are distributed among these distances:
42 26 0.30
43 34 0.39
44 28 0.32
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
CAATATTTGATTACATGTAAGACCACGTCTGGGACATTGGAAT
Found at i:35992783 original size:22 final size:22
Alignment explanation
Indices: 35992758--35992810 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
35992748 AGGCTCACAC
35992758 GCCCGTGTGGTCCAAGAGACAT
1 GCCCGTGTGGTCCAAGAGACAT
*
35992780 GCCCGTGTGGTCCAAGGGACAT
1 GCCCGTGTGGTCCAAGAGACAT
35992802 GCCCGTGTG
1 GCCCGTGTG
35992811 ACCCTATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.17, C:0.28, G:0.36, T:0.19
Consensus pattern (22 bp):
GCCCGTGTGGTCCAAGAGACAT
Found at i:35996185 original size:10 final size:10
Alignment explanation
Indices: 35996170--35996200 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
35996160 CAACCACCTA
35996170 ACATATATAT
1 ACATATATAT
35996180 ACATATATAT
1 ACATATATAT
35996190 ACATATATAT
1 ACATATATAT
35996200 A
1 A
35996201 TAGCTACCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (10 bp):
ACATATATAT
Found at i:36011587 original size:17 final size:17
Alignment explanation
Indices: 36011565--36011605 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
36011555 TTTGAGTCCC
36011565 TTTATTTTACTATTATT
1 TTTATTTTACTATTATT
* *
36011582 TTTATTTTTCTTTTATT
1 TTTATTTTACTATTATT
36011599 TTTATTT
1 TTTATTT
36011606 AAACTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTTACTATTATT
Done.