Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 148 of 185
Found at i:45673019 original size:19 final size:19
Alignment explanation
Indices: 45672982--45673021 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45672972 TAAAATATAA
*
45672982 AATTTTTATTTAAATTTTT
1 AATTTTTATTTAAAATTTT
45673001 AATTTTT-TTTAAAAATTTT
1 AATTTTTATTT-AAAATTTT
45673020 AA
1 AA
45673022 ATTAGCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTTATTTAAAATTTT
Found at i:45673024 original size:20 final size:19
Alignment explanation
Indices: 45672981--45673024 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
45672971 CTAAAATATA
45672981 AAATTTTTATTTAAATTTT
1 AAATTTTTATTTAAATTTT
*
45673000 TAATTTTT-TTTAAAAATTTT
1 AAATTTTTATTT--AAATTTT
45673020 AAATT
1 AAATT
45673025 AGCAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 7 0.33
20 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AAATTTTTATTTAAATTTT
Found at i:45695523 original size:73 final size:73
Alignment explanation
Indices: 45695399--45695560 Score: 245
Period size: 73 Copynumber: 2.2 Consensus size: 73
45695389 TTCACACATC
* *
45695399 GCCTCATTCAATTTCTGACTGACCATCGAATTATGGATGAAAGGTATTATTGGAGTTTAACCGTG
1 GCCTCGTTCAATTTCTGACTGACCATCGAATTATGGATGAAAGGTAGTATTGGAGTTTAACCGTG
45695464 TAACCAAA
66 TAACCAAA
* * * *
45695472 GCCTCGTTCAATTTTTGACTGACTATC-AGATTATGGATGAAAGGTCGTATTGGAGTTTAACTGT
1 GCCTCGTTCAATTTCTGACTGACCATCGA-ATTATGGATGAAAGGTAGTATTGGAGTTTAACCGT
45695536 GTAACCAAA
65 GTAACCAAA
*
45695545 GCCTTGTTCAATTTCT
1 GCCTCGTTCAATTTCT
45695561 TCTAGAACTG
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
72 1 0.01
73 79 0.99
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (73 bp):
GCCTCGTTCAATTTCTGACTGACCATCGAATTATGGATGAAAGGTAGTATTGGAGTTTAACCGTG
TAACCAAA
Found at i:45706759 original size:17 final size:19
Alignment explanation
Indices: 45706738--45706779 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
45706728 TCCAATCAAG
*
45706738 ATATAAAGGAAAAAATGAT
1 ATATACAGGAAAAAATGAT
*
45706757 ATAATACATGAAAAAATGAT
1 AT-ATACAGGAAAAAATGAT
45706777 ATA
1 ATA
45706780 CAGGTTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (19 bp):
ATATACAGGAAAAAATGAT
Found at i:45712623 original size:40 final size:40
Alignment explanation
Indices: 45712535--45712624 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
45712525 TGAGTGGATT
* * * *
45712535 CAGGGGTACCGAAGTACAAACAGGGGCCCGTATATGCAAT
1 CAGGGGTACCGAAGTACAAACAGGAGCACATATATGCAAC
** * *
45712575 CAACGGTACCGAAGTACAAACATGAGCACATATGTGCAAC
1 CAGGGGTACCGAAGTACAAACAGGAGCACATATATGCAAC
45712615 CAGGGGTACC
1 CAGGGGTACC
45712625 AATGCATGTA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.27, T:0.14
Consensus pattern (40 bp):
CAGGGGTACCGAAGTACAAACAGGAGCACATATATGCAAC
Found at i:45712668 original size:20 final size:20
Alignment explanation
Indices: 45712643--45712751 Score: 60
Period size: 20 Copynumber: 5.5 Consensus size: 20
45712633 TATGTGAAAT
45712643 TAGGGGCACCGAAGTACAAA
1 TAGGGGCACCGAAGTACAAA
** * *
45712663 TAGGGGCA-CGTATCTGCAAT
1 TAGGGGCACCG-AAGTACAAA
* * *
45712683 TAGGGGTATCGAAGTACAAG
1 TAGGGGCACCGAAGTACAAA
** * *
45712703 TAGGGGCA-CGTATCTGCAAT
1 TAGGGGCACCG-AAGTACAAA
* *
45712723 TAAGGGTACCGAAGTACAAA
1 TAGGGGCACCGAAGTACAAA
*
45712743 CAGGGGCAC
1 TAGGGGCAC
45712752 GTACGTGCAA
Statistics
Matches: 62, Mismatches: 23, Indels: 8
0.67 0.25 0.09
Matches are distributed among these distances:
19 4 0.06
20 54 0.87
21 4 0.06
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.17
Consensus pattern (20 bp):
TAGGGGCACCGAAGTACAAA
Found at i:45712696 original size:40 final size:40
Alignment explanation
Indices: 45712640--45712762 Score: 185
Period size: 40 Copynumber: 3.1 Consensus size: 40
45712630 ATGTATGTGA
*
45712640 AATTAGGGGCACCGAAGTACAAATAGGGGCACGTATCTGC
1 AATTAGGGGTACCGAAGTACAAATAGGGGCACGTATCTGC
* *
45712680 AATTAGGGGTATCGAAGTACAAGTAGGGGCACGTATCTGC
1 AATTAGGGGTACCGAAGTACAAATAGGGGCACGTATCTGC
* *
45712720 AATTAAGGGTACCGAAGTACAAACAGGGGCACGTA-CGTGC
1 AATTAGGGGTACCGAAGTACAAATAGGGGCACGTATC-TGC
45712760 AAT
1 AAT
45712763 CAGCAACAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (40 bp):
AATTAGGGGTACCGAAGTACAAATAGGGGCACGTATCTGC
Found at i:45712730 original size:108 final size:108
Alignment explanation
Indices: 45712536--45712732 Score: 241
Period size: 108 Copynumber: 1.8 Consensus size: 108
45712526 GAGTGGATTC
* * *
45712536 AGGGGTACCGAAGTACAAACAGGGGCCCGTATATGCAATCAACGGTACCGAAGTACAAACATGAG
1 AGGGGCACCGAAGTACAAACAGGGGCACGTATATGCAATCAACGGTACCGAAGTACAAACAGGAG
* *
45712601 CACATATGTGCAACCAGGGGTACCAATGCATGTATGTGAAATT
66 CACATATCTGCAACCAAGGGTACCAATGCATGTATGTGAAATT
* * * ** * ** *
45712644 AGGGGCACCGAAGTACAAATAGGGGCACGTATCTGCAATTAGGGGTATCGAAGTACAAGTAGGGG
1 AGGGGCACCGAAGTACAAACAGGGGCACGTATATGCAATCAACGGTACCGAAGTACAAACAGGAG
* **
45712709 CACGTATCTGCAATTAAGGGTACC
66 CACATATCTGCAACCAAGGGTACC
45712733 GAAGTACAAA
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
108 72 1.00
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (108 bp):
AGGGGCACCGAAGTACAAACAGGGGCACGTATATGCAATCAACGGTACCGAAGTACAAACAGGAG
CACATATCTGCAACCAAGGGTACCAATGCATGTATGTGAAATT
Found at i:45715750 original size:21 final size:21
Alignment explanation
Indices: 45715711--45715753 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
45715701 ACTTGATCTA
45715711 AATAATCAAATTCATTCCATTC
1 AATAATC-AATTCATTCCATTC
45715733 AATAATC-ATTCTATTCCATTC
1 AATAATCAATTC-ATTCCATTC
45715754 TATCCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATCAATTCATTCCATTC
Found at i:45742654 original size:39 final size:40
Alignment explanation
Indices: 45742450--45742672 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
45742440 TTGAATGCTG
* * * * * *
45742450 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
45742490 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
45742530 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
45742570 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
45742610 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
45742649 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45742673 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:45742692 original size:79 final size:80
Alignment explanation
Indices: 45742525--45742707 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
45742515 GTGCGAGATA
* * *
45742525 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
45742590 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
45742605 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
45742669 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
45742684 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
45742708 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:45750549 original size:39 final size:40
Alignment explanation
Indices: 45750345--45750567 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
45750335 TTGAATGCTG
* * * * * *
45750345 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
45750385 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
45750425 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
45750465 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
45750505 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
45750544 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45750568 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:45750587 original size:79 final size:80
Alignment explanation
Indices: 45750420--45750602 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
45750410 GTGCGAGATA
* * *
45750420 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
45750485 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
45750500 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
45750564 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
45750579 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
45750603 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:45765325 original size:40 final size:40
Alignment explanation
Indices: 45765295--45765425 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 40
45765285 GGACTAAGAT
* *
45765295 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
45765335 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
45765375 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
*
45765415 CCAAAGGCATT
1 CCGAAGGCATT
45765426 TGAACGAGGA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:45783962 original size:20 final size:22
Alignment explanation
Indices: 45783925--45783966 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
45783915 ATTTTTTAAA
*
45783925 AATATTCATATTATTTTAATTT
1 AATATTCATATTAATTTAATTT
45783947 AATATTCA-A-TAATTTAATTT
1 AATATTCATATTAATTTAATTT
45783967 TTTTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATTCATATTAATTTAATTT
Found at i:45784458 original size:67 final size:66
Alignment explanation
Indices: 45784333--45784460 Score: 202
Period size: 66 Copynumber: 1.9 Consensus size: 66
45784323 ATTTGACAAA
*
45784333 ATTTTTTTCTTTCATTTTCTCTCTTGCCAAACAACACTTTTTTCTTCAAAACACATGGTTGCTGC
1 ATTTTTTTCTCTCATTTTCTCTCTTGCCAAACAACACTTTTTTCTTCAAAACACATGGTTGCTGC
45784398 C
66 C
* * * *
45784399 ATTTTTTTCTCTCATTTTTTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACATATGGTTG
1 ATTTTTTTCTCTCATTTTCTCTCTTGCCAAACAACACTTTT-TTCTTCAAAACACATGGTTG
45784461 GCTCATTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 37 0.66
67 19 0.34
ACGTcount: A:0.21, C:0.24, G:0.07, T:0.48
Consensus pattern (66 bp):
ATTTTTTTCTCTCATTTTCTCTCTTGCCAAACAACACTTTTTTCTTCAAAACACATGGTTGCTGC
C
Found at i:45791258 original size:66 final size:66
Alignment explanation
Indices: 45791152--45791278 Score: 202
Period size: 66 Copynumber: 1.9 Consensus size: 66
45791142 AGACCATGTC
* *
45791152 TGGGACATGACGTTGGCATCGAGATGAGAGGTCCCATGTAAGCCCATGTCTGGGACATGGCCTAC
1 TGGGACATGACGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTCCGGGACATGGCCTAC
45791217 A
66 A
* *
45791218 TGGGACATGGCGTTGGCA-CTGAGATGAGAGGTCCTATGTAAGACCATGTCCGGGACATGGC
1 TGGGACATGACGTTGGCATC-GAGATGAGAGGTCCCATGTAAGACCATGTCCGGGACATGGC
45791279 GTTGGCACCG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
65 1 0.02
66 55 0.98
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.21
Consensus pattern (66 bp):
TGGGACATGACGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTCCGGGACATGGCCTAC
A
Found at i:45791298 original size:50 final size:50
Alignment explanation
Indices: 45791218--45791436 Score: 258
Period size: 50 Copynumber: 4.4 Consensus size: 50
45791208 ATGGCCTACA
* *
45791218 TGGGACATGGCGTTGGCACTGAGATGAGAGGTCCTATGTAAGACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * * *
45791268 CGGGACATGGCGTTGGCACCGAGATAAGAGGTCCTATGTAAGACGATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* ** *
45791318 TGGGACATGGCGTTGGCACCGAGATTAGAGGTCCCCCGTAAGACAATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * * * * ** *
45791368 TGGGACATAGCATGGGCACTGATATGAGAACATCCCATGTAAGACCATCTC
1 TGGGACATGGCGTTGGCACCGAGATGAG-AGGTCCCATGTAAGACCATGTC
*
45791419 TGGGACATGGCTTTGGCA
1 TGGGACATGGCGTTGGCA
45791437 TGTTATTATC
Statistics
Matches: 143, Mismatches: 25, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 112 0.78
51 31 0.22
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.22
Consensus pattern (50 bp):
TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
Found at i:45798808 original size:50 final size:50
Alignment explanation
Indices: 45798730--45799072 Score: 447
Period size: 50 Copynumber: 6.8 Consensus size: 50
45798720 ATTTGGGTAA
*
45798730 AGAGGTCCCATGTAAGACCGTGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
45798780 AGAGGTCCCATGTAAGCCCATGTTTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
45798830 AGAGGTCCTATATAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
45798880 AGAGGTCCCATGTAAGACCATGT-TCGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCT-GGGACATGGCGTTGGCACCGAGATG
* * *
45798930 AGAAGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * * *
45798980 AGAGGTCTCC-CGTAAGACCATGTTTGGGACATGGCATGGGCACCAATATG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
45799030 AGAACATCTCATGTAAGACCATGTCAGGGACATGTCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
45799073 TGTTATTATC
Statistics
Matches: 256, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.00
50 223 0.87
51 32 0.12
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:45803302 original size:5 final size:6
Alignment explanation
Indices: 45803286--45803311 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
45803276 CAAAGATCTG
45803286 CTTTTT CTTTTT CTTTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTTTT CT
45803312 ACCAGCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:45807525 original size:14 final size:14
Alignment explanation
Indices: 45807506--45807536 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45807496 ATCTAAACAA
45807506 TAACAACAAAATAG
1 TAACAACAAAATAG
*
45807520 TAACAACATAATAG
1 TAACAACAAAATAG
45807534 TAA
1 TAA
45807537 ATTTGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:45807583 original size:23 final size:25
Alignment explanation
Indices: 45807546--45807592 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
45807536 AATTTGTAGC
*
45807546 AAAATAGTAAAAAAA-AG-AAAAAG
1 AAAATAGCAAAAAAACAGTAAAAAG
*
45807569 AAAATAGCAACAAAACAGTAAAAA
1 AAAATAGCAAAAAAACAGTAAAAA
45807593 AAACAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 2 0.10
25 5 0.25
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (25 bp):
AAAATAGCAAAAAAACAGTAAAAAG
Found at i:45807613 original size:19 final size:19
Alignment explanation
Indices: 45807576--45807632 Score: 96
Period size: 19 Copynumber: 2.9 Consensus size: 19
45807566 AAGAAAATAG
*
45807576 CAACAAAACAGTAAAAAAAA
1 CAACAAAACA-TTAAAAAAA
45807596 CAACAAAACATTAAAAAAA
1 CAACAAAACATTAAAAAAA
45807615 CAACAAAACATTAAAAAA
1 CAACAAAACATTAAAAAA
45807633 TATATTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 26 0.72
20 10 0.28
ACGTcount: A:0.74, C:0.16, G:0.02, T:0.09
Consensus pattern (19 bp):
CAACAAAACATTAAAAAAA
Found at i:45811015 original size:30 final size:32
Alignment explanation
Indices: 45810972--45811030 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
45810962 GAGAAAAAGA
*
45810972 AGAAGATAAGAAAAGGAAA-AA-AAAAGAGGG
1 AGAAGATAAGAAAAAGAAAGAACAAAAGAGGG
45811002 AGAAGA-AATGAAAAAGAAAGAACAAAAGA
1 AGAAGATAA-GAAAAAGAAAGAACAAAAGA
45811031 AAATGGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 15 0.60
31 2 0.08
32 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.03
Consensus pattern (32 bp):
AGAAGATAAGAAAAAGAAAGAACAAAAGAGGG
Found at i:45811034 original size:24 final size:24
Alignment explanation
Indices: 45810964--45811091 Score: 68
Period size: 24 Copynumber: 5.2 Consensus size: 24
45810954 AGGAGGAGGA
* *
45810964 GAAAAAG-AAGAAGATAAGAAAAG
1 GAAAAAGAAAGAAGAAAAGAAAAT
* * *
45810987 GAAAAAAAAAGAGGGAGAAG-AAAT
1 GAAAAAGAAAGA-AGAAAAGAAAAT
*
45811011 GAAAAAGAAAGAACAAAAGAAAAT
1 GAAAAAGAAAGAAGAAAAGAAAAT
* *
45811035 GGGAAAATGGGAAAGAA-AAAA-AAGA-
1 --GAAAA--AGAAAGAAGAAAAGAAAAT
* *
45811060 GAAAAGTGGAAGAAAGAAAAGAAAAT
1 GAAAA-AGAAAG-AAGAAAAGAAAAT
45811086 GAAAAA
1 GAAAAA
45811092 AATGTGAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
22 5 0.06
23 17 0.21
24 26 0.32
25 8 0.10
26 13 0.16
27 4 0.05
28 7 0.09
ACGTcount: A:0.69, C:0.01, G:0.26, T:0.05
Consensus pattern (24 bp):
GAAAAAGAAAGAAGAAAAGAAAAT
Found at i:45811063 original size:23 final size:26
Alignment explanation
Indices: 45811025--45811084 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
45811015 AAGAAAGAAC
*
45811025 AAAAGAAAATGGGAAAA-TGG-GAAAG
1 AAAAGAAAA-GAGAAAAGTGGAGAAAG
45811050 AAAA-AAAAGAGAAAAGTGGAAGAAAG
1 AAAAGAAAAGAGAAAAGTGG-AGAAAG
45811076 AAAAGAAAA
1 AAAAGAAAA
45811085 TGAAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 6 0.20
24 7 0.23
25 4 0.13
26 9 0.30
27 4 0.13
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (26 bp):
AAAAGAAAAGAGAAAAGTGGAGAAAG
Found at i:45819040 original size:18 final size:18
Alignment explanation
Indices: 45819017--45819080 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
45819007 TATTCATTGC
45819017 AAATATTCAAATATTCAT
1 AAATATTCAAATATTCAT
***
45819035 AAATATTGTTATATATC-T
1 AAATATTCAAATAT-TCAT
*
45819053 ACA-A-TCAAATATTCAT
1 AAATATTCAAATATTCAT
45819069 AAATATTCAAAT
1 AAATATTCAAAT
45819081 TCAAATTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
15 2 0.06
16 8 0.24
17 2 0.06
18 20 0.59
19 2 0.06
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATATTCAAATATTCAT
Found at i:45829693 original size:26 final size:25
Alignment explanation
Indices: 45829642--45829693 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
45829632 CAAAAATAAT
* **
45829642 ATCTATTCTAAAAAGAAAAGGGAAA
1 ATCTAATCTAAAAAGAAAAGAAAAA
45829667 ATCTAATCTAAAAATGAAAAGAAAAA
1 ATCTAATCTAAAAA-GAAAAGAAAAA
45829693 A
1 A
45829694 GAAAAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.19
Consensus pattern (25 bp):
ATCTAATCTAAAAAGAAAAGAAAAA
Found at i:45829717 original size:5 final size:5
Alignment explanation
Indices: 45829709--45829760 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
45829699 AAAGAAAAGA
45829709 AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT
1 AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT AACCT
45829759 AA
1 AA
45829761 AACTAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.19
Consensus pattern (5 bp):
AACCT
Found at i:45835940 original size:19 final size:19
Alignment explanation
Indices: 45835916--45835956 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
45835906 AGTGCACATA
45835916 ACAAAAGAGACTCTAAATT
1 ACAAAAGAGACTCTAAATT
*
45835935 ACAAAAGAGACTCTAGATT
1 ACAAAAGAGACTCTAAATT
45835954 ACA
1 ACA
45835957 TTTCCTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (19 bp):
ACAAAAGAGACTCTAAATT
Found at i:45837842 original size:13 final size:13
Alignment explanation
Indices: 45837824--45837857 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
45837814 GAAGAATATG
45837824 AAAGGTACATGTC
1 AAAGGTACATGTC
45837837 AAAGGTACATGTC
1 AAAGGTACATGTC
45837850 AAAGGTAC
1 AAAGGTAC
45837858 CTTATTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (13 bp):
AAAGGTACATGTC
Found at i:45842140 original size:21 final size:20
Alignment explanation
Indices: 45842116--45842199 Score: 60
Period size: 21 Copynumber: 4.0 Consensus size: 20
45842106 AATAGAAGCA
45842116 CATAAGTGCTAAACAGAAACC
1 CATAAG-GCTAAACAGAAACC
* *
45842137 CATAAGGGTTAAACAGAAGCTC
1 CATAA-GGCTAAACAGAAAC-C
* * * *
45842159 GTAAAAGAGCTGAACGGAAACC
1 -CATAAG-GCTAAACAGAAACC
*
45842181 CATAAGGTTAAACAGAAAC
1 CATAAGGCTAAACAGAAAC
45842200 TCAAAAGAAC
Statistics
Matches: 46, Mismatches: 13, Indels: 9
0.68 0.19 0.13
Matches are distributed among these distances:
20 10 0.22
21 20 0.43
22 4 0.09
23 12 0.26
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.14
Consensus pattern (20 bp):
CATAAGGCTAAACAGAAACC
Found at i:45842215 original size:41 final size:42
Alignment explanation
Indices: 45842131--45842239 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 42
45842121 GTGCTAAACA
* *
45842131 GAAACCCATAAGGGTTAAACAGAAGCTCGTAAAAGAGCTGAACG
1 GAAACCCATAA-GGTTAAACAGAAACTCG-AAAAGAACTGAACG
45842175 GAAACCCATAAGGTTAAACAGAAACTC-AAAAGAACTGAACG
1 GAAACCCATAAGGTTAAACAGAAACTCGAAAAGAACTGAACG
* * *
45842216 AAAACACATATGAGTTAAACAGAA
1 GAAACCCATAAG-GTTAAACAGAA
45842240 GCTTGTGAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
41 22 0.37
42 11 0.19
43 15 0.25
44 11 0.19
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.14
Consensus pattern (42 bp):
GAAACCCATAAGGTTAAACAGAAACTCGAAAAGAACTGAACG
Found at i:45844137 original size:2 final size:2
Alignment explanation
Indices: 45844130--45844159 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45844120 ATATGAACAT
45844130 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
45844160 TCTATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:45848414 original size:253 final size:253
Alignment explanation
Indices: 45847966--45848475 Score: 948
Period size: 253 Copynumber: 2.0 Consensus size: 253
45847956 TATGTTCAAG
* *
45847966 TATGCTAACATGTTTGTGTTGATGCCTAGGCTTGTGCCAAGCTAAAATTTGGATTATGCCATGTT
1 TATGCTAACATGTTTGTGTTGATGCCTAGGCTTGTGCCAAGCTAAAAGTGGGATTATGCCATGTT
*
45848031 AAATTTTAATGTTATGAAGTGAACGATAAGCTGTGTTTTATGTTATACGAACATACTAAGTATTA
66 AAATTTTAATGTTATGAAGTGAACGATAAGCTGTGTTTTATGTTATACGAACATACTAAGCATTA
*
45848096 TATGCTTACATAGTCTCATTTCCCATGTTTTATAGATAATCGGAAGCTCGTTCGGTTTGGAAGCT
131 TATGCTTACATAGTCTCATTTCCCATGTTTTATAGATAATCAGAAGCTCGTTCGGTTTGGAAGCT
* *
45848161 CGTCGGAGACCTATCACACTATCCCGTAACTATTTCGGAAGATTTTGAGGTTTTGAAT
196 CGTCGGAGACCTATCACACTATCCCGCAACTATTTCGAAAGATTTTGAGGTTTTGAAT
45848219 TATGCTAACATGTTTGTGTTGATGCCTAGGCTTGTGCCAAGCTAAAAGTGGGATTATGCCATGTT
1 TATGCTAACATGTTTGTGTTGATGCCTAGGCTTGTGCCAAGCTAAAAGTGGGATTATGCCATGTT
45848284 AAATTTTAATGTTATGAAGTGAACGATAAGCTGTGTTTTATGTTATACGAACATACTAAGCATTA
66 AAATTTTAATGTTATGAAGTGAACGATAAGCTGTGTTTTATGTTATACGAACATACTAAGCATTA
*
45848349 TATGCTTACATAGTCTTATTTCCCATGTTTTATAGATAATCAGAAGCTCGTTCGGTTTGGAAGCT
131 TATGCTTACATAGTCTCATTTCCCATGTTTTATAGATAATCAGAAGCTCGTTCGGTTTGGAAGCT
*
45848414 CGTCGGAGACCTATCACACTATCCCGCGACTATTTCGAAAGATTTTGAGGTTTTGAAT
196 CGTCGGAGACCTATCACACTATCCCGCAACTATTTCGAAAGATTTTGAGGTTTTGAAT
45848472 TATG
1 TATG
45848476 GTTATAATGG
Statistics
Matches: 249, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
253 249 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (253 bp):
TATGCTAACATGTTTGTGTTGATGCCTAGGCTTGTGCCAAGCTAAAAGTGGGATTATGCCATGTT
AAATTTTAATGTTATGAAGTGAACGATAAGCTGTGTTTTATGTTATACGAACATACTAAGCATTA
TATGCTTACATAGTCTCATTTCCCATGTTTTATAGATAATCAGAAGCTCGTTCGGTTTGGAAGCT
CGTCGGAGACCTATCACACTATCCCGCAACTATTTCGAAAGATTTTGAGGTTTTGAAT
Found at i:45851491 original size:29 final size:29
Alignment explanation
Indices: 45851459--45851538 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 29
45851449 TAAAGGTCAA
45851459 AAAAAATTTTTACCAACTTTTAAGGACCC
1 AAAAAATTTTTACCAACTTTTAAGGACCC
*** *
45851488 AAAAAATTTTTTTGAAGCTTTTAAGGGCCC
1 AAAAAATTTTTACCAA-CTTTTAAGGACCC
45851518 AAAATATATTTTTTACCAACT
1 AAAA-A-A-TTTTTACCAACT
45851539 GTGAAGGGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
29 13 0.32
30 16 0.40
31 1 0.03
32 3 0.08
33 7 0.17
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (29 bp):
AAAAAATTTTTACCAACTTTTAAGGACCC
Found at i:45851493 original size:32 final size:31
Alignment explanation
Indices: 45851456--45851575 Score: 93
Period size: 32 Copynumber: 3.8 Consensus size: 31
45851446 TTTTAAAGGT
45851456 CAAAAAAAATTTTTACCAACTTTTAAGGACC
1 CAAAAAAAATTTTTACCAACTTTTAAGGACC
** * *
45851487 CAAAAAATTTTTTTGA--AGCTTTTAAGGGCC
1 CAAAAAAAATTTTT-ACCAACTTTTAAGGACC
* * * * *
45851517 CAAAATATATTTTTTACCAACTGTGAAGGGATC
1 CAAAA-AAAATTTTTACCAACTTTTAA-GGACC
*
45851550 TAAAAAAAATTTTCT-CCAACTTTTAA
1 CAAAAAAAATTTT-TACCAACTTTTAA
45851576 ATAACCTAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
30 18 0.27
31 19 0.28
32 22 0.33
33 8 0.12
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (31 bp):
CAAAAAAAATTTTTACCAACTTTTAAGGACC
Found at i:45857594 original size:17 final size:18
Alignment explanation
Indices: 45857567--45857602 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
45857557 ATACTCTAAC
*
45857567 AAATGACAAATAATCAAT
1 AAATGACAAATAAACAAT
45857585 AAAT-ACAAATAAACAAT
1 AAATGACAAATAAACAAT
45857602 A
1 A
45857603 CCGTACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATGACAAATAAACAAT
Found at i:45858358 original size:3 final size:3
Alignment explanation
Indices: 45858345--45858379 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
45858335 ATTGATAAAA
* *
45858345 AAT ACT AAT AAT AAT AAT AGT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
45858380 CAAGAGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:45859817 original size:51 final size:51
Alignment explanation
Indices: 45859719--45859819 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
45859709 ACTCCACTTC
* * *
45859719 AGCTTTAATCTATTCCACTGCAACGCTAGGGAAACAATATTCACTACCTTT
1 AGCTTTAATCTATTCCACTACAACGCAAGGGAAACAAGATTCACTACCTTT
* * * **
45859770 AGCTTTAATCTGTTTCACTACAACGCAAGGGAAATAAGATTTGCTACCTT
1 AGCTTTAATCTATTCCACTACAACGCAAGGGAAACAAGATTCACTACCTT
45859820 CAGTCTTAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (51 bp):
AGCTTTAATCTATTCCACTACAACGCAAGGGAAACAAGATTCACTACCTTT
Found at i:45859912 original size:51 final size:51
Alignment explanation
Indices: 45859831--45859975 Score: 173
Period size: 51 Copynumber: 2.8 Consensus size: 51
45859821 AGTCTTAACG
* * **
45859831 TCAGGGAGATAAGATTTGCTACCTTCAGCTTTAATCTGCTCCGCTGCAACA
1 TCAGGGAGATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCAATGCAACA
* * * * *
45859882 TCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCAATGTAACG
1 TCAGGGAGATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCAATGCAACA
* * * *
45859933 CCAAGGAGATAGGATTCGCTACCTTTAGCTTTAATCCGCTCCA
1 TCAGGGAGATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCA
45859976 CTTCAGCTTT
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 78 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (51 bp):
TCAGGGAGATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCAATGCAACA
Found at i:45860060 original size:51 final size:51
Alignment explanation
Indices: 45859980--45860077 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
45859970 GCTCCACTTC
*
45859980 AGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTTGCTGCTTTT
1 AGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCGCTGCTTTT
* * * *
45860031 AGCTTTAATCTGTTCTACTGCAACGCCAGGGAAATAAGATTCGCTGC
1 AGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCGCTGC
45860078 CTTCAGTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (51 bp):
AGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCGCTGCTTTT
Found at i:45860072 original size:123 final size:121
Alignment explanation
Indices: 45859853--45860225 Score: 376
Period size: 123 Copynumber: 3.0 Consensus size: 121
45859843 GATTTGCTAC
* * * *
45859853 CTTCAGCTTTAATCTGCTCCGCTGCAACATCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTGCTCCACTGCAACACCAGGGAAACAAGATTTGCTGCCTTTAGCTTTAATC
* * * * * *
45859918 TGTTCCAATGTAACGCCAAGGAGATAGGATTCGCTACCTTTAGCTTTAATCCGCTCCA
66 TGTT-CTATG-AACGCCAGGGAAATAAGATTCGCTGCCTTTAGCTTTAATCCGTTCCA
** *
45859976 CTTCAGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTTGCTGCTTTTAGCTTTAATC
1 CTTCAGCTTTAATCTGCTCCACTGCAACACCAGGGAAACAAGATTTGCTGCCTTTAGCTTTAATC
* *
45860041 TGTTCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAG-TCTTAACGCCAAGATTCGCTG
66 TGTTCTA-TG-AACGCCAGGGAAATAAGATTCGCTGCCTTTAGCT-TTAA-TCC--G-TTC-C--
*
45860105 C
121 A
* * * * *
45860106 CTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTTGTTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGCTCCACTGCAACACCAGGGAAACAAGATTTGCTGCCTTTAGCTTTAATC
* * * * *
45860171 --TACTATG-ACGCTAGGGAAATAAGATTTGCTGCCTTTAACTTTAATCTGTTCCA
66 TGTTCTATGAACGCCAGGGAAATAAGATTCGCTGCCTTTAGCTTTAATCCGTTCCA
45860224 CT
1 CT
45860226 GCAATGCCAA
Statistics
Matches: 207, Mismatches: 33, Indels: 25
0.78 0.12 0.09
Matches are distributed among these distances:
118 2 0.01
120 1 0.00
121 3 0.01
122 4 0.02
123 95 0.46
124 3 0.01
125 31 0.15
126 2 0.01
127 4 0.02
128 5 0.02
130 57 0.28
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (121 bp):
CTTCAGCTTTAATCTGCTCCACTGCAACACCAGGGAAACAAGATTTGCTGCCTTTAGCTTTAATC
TGTTCTATGAACGCCAGGGAAATAAGATTCGCTGCCTTTAGCTTTAATCCGTTCCA
Found at i:45860145 original size:79 final size:79
Alignment explanation
Indices: 45860014--45860162 Score: 226
Period size: 79 Copynumber: 1.9 Consensus size: 79
45860004 ACCAGGGAAA
* * * * * *
45860014 CAAGATTTGCTGCTTTTAGCTTTAATCTGTTCTACTGCAACGCCAGGGAAATAAGATTCGCTGCC
1 CAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCC
45860079 TTCAGTCTTAACGC
66 TTCAGTCTTAACGC
* *
45860093 CAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTTGTTGCC
1 CAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCC
45860158 TTCAG
66 TTCAG
45860163 CTTTAATCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 62 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (79 bp):
CAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCC
TTCAGTCTTAACGC
Found at i:45860213 original size:46 final size:47
Alignment explanation
Indices: 45860094--45860508 Score: 275
Period size: 46 Copynumber: 8.6 Consensus size: 47
45860084 TCTTAACGCC
* * * *
45860094 AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACT--A-TG-AACGCCAGGGAAAT
* * *
45860145 AAGATTTGTTGCCTTCAGCTTTAATCTACTATG-ACGCTAGGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACTATGAACGCCAGGGAAAT
* * * * *
45860191 AAGATTTGCTGCCTTTAACTTTAATCTGTTCCACTGCAATGCCAAGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATC--TACTA-TG-AACGCCAGGGAAAT
* * *
45860242 AAGATTTGCTGCCTTTAGCTTTAATCTA-T-TGCGACGCCAGGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACTATG-AACGCCAGGGAAAT
* * * * * *
45860288 AAGATTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATC--TACTA-TG-AACGCCAGGGAAAT
* ** *
45860339 AAAATTCACTGCCTTCTACTTTAATCTA-T-TGCAACGCCAGGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACTATG-AACGCCAGGGAAAT
* * * *
45860385 AAGATTTGCTGCCTTCAACTTTAATTTGCTCCACTGCAATGCCAAGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACT--A-TG-AACGCCAGGGAAAT
* ** ** * *
45860436 AAGATTCGCTATCTTCTGCTTTAATCTATTGTG-ACGCCAGGGAAAT
1 AAGATTTGCTGCCTTCAACTTTAATCTACTATGAACGCCAGGGAAAT
* * *
45860482 AAGATTCGTTGCCTTCAGCTTTAATCT
1 AAGATTTGCTGCCTTCAACTTTAATCT
45860509 GTTCCACTGC
Statistics
Matches: 292, Mismatches: 57, Indels: 35
0.76 0.15 0.09
Matches are distributed among these distances:
46 143 0.49
47 1 0.00
48 8 0.03
49 5 0.02
51 135 0.46
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (47 bp):
AAGATTTGCTGCCTTCAACTTTAATCTACTATGAACGCCAGGGAAAT
Found at i:45860262 original size:97 final size:97
Alignment explanation
Indices: 45860094--45860685 Score: 774
Period size: 97 Copynumber: 6.1 Consensus size: 97
45860084 TCTTAACGCC
* *
45860094 AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTTGTTGCCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
* * * *
45860159 TCAGCTTTAATCTACTATGACGCTAGGGAAAT
66 TTAGCTTTAATCTATTGTGACGCCAGGGAAAT
* * * *
45860191 AAGATTTGCTGCCTTTAACTTTAATCTGTTCCACTGCAATGCCAAGGAAATAAGATTTGCTGCCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
*
45860256 TTAGCTTTAATCTATTGCGACGCCAGGGAAAT
66 TTAGCTTTAATCTATTGTGACGCCAGGGAAAT
* * **
45860288 AAGATTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAAATTCACTGCCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
**
45860353 TCTA-CTTTAATCTATTGCAACGCCAGGGAAAT
66 T-TAGCTTTAATCTATTGTGACGCCAGGGAAAT
* * * * * * **
45860385 AAGATTTGCTGCCTTCAACTTTAATTTGCTCCACTGCAATGCCAAGGAAATAAGATTCGCTATCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
45860450 TCT-GCTTTAATCTATTGTGACGCCAGGGAAAT
66 T-TAGCTTTAATCTATTGTGACGCCAGGGAAAT
* * * * * **
45860482 AAGATTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCAAAGGAAATAAAATTGGCCACCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
* * *
45860547 TCAGCTTTAATCTATTGTGACACCACGGAAAT
66 TTAGCTTTAATCTATTGTGACGCCAGGGAAAT
* * ** * *
45860579 AGGATTCGTTTTCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTTGCTGCCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
*
45860644 TTAGCTTTAATCTATTGCGACGCCAGGGAAAT
66 TTAGCTTTAATCTATTGTGACGCCAGGGAAAT
45860676 AAGATTCGCT
1 AAGATTCGCT
45860686 ATGATAACTT
Statistics
Matches: 430, Mismatches: 62, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
97 428 1.00
98 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (97 bp):
AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCT
TTAGCTTTAATCTATTGTGACGCCAGGGAAAT
Found at i:45860459 original size:291 final size:291
Alignment explanation
Indices: 45860094--45860685 Score: 862
Period size: 291 Copynumber: 2.0 Consensus size: 291
45860084 TCTTAACGCC
* * * *
45860094 AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTTGTTGCCT
1 AAGATTCGCTGCCTTCAACTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCT
* * *
45860159 TCAGCTTTAATCTACTATGACGCTAGGGAAATAAGATTTGCTGCCTTTAACTTTAATCTGTTCCA
66 TCAGCTTTAATCTACTATGACGCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAATCTGTTCCA
* * * ** * * *
45860224 CTGCAATGCCAAGGAAATAAGATTTGCTGCCTTTAGCTTTAATCTATTGCGACGCCAGGGAAATA
131 CTGCAATGCAAAGGAAATAAAATTGGCCACCTTCAGCTTTAATCTATTGCGACACCACGGAAATA
*
45860289 AGATTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAAATTCACTGCCTT
196 AGATTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAAATTCACTGCCTT
45860354 CTA-CTTTAATCTATTGCAACGCCAGGGAAAT
261 -TAGCTTTAATCTATTGCAACGCCAGGGAAAT
* * * *
45860385 AAGATTTGCTGCCTTCAACTTTAATTTGCTCCACTGCAATGCCAAGGAAATAAGATTCGCTATCT
1 AAGATTCGCTGCCTTCAACTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCT
* * * * *
45860450 TCTGCTTTAATCTATTGTGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTGTTCCA
66 TCAGCTTTAATCTACTATGACGCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAATCTGTTCCA
*
45860515 CTGCAATGCAAAGGAAATAAAATTGGCCACCTTCAGCTTTAATCTATTGTGACACCACGGAAATA
131 CTGCAATGCAAAGGAAATAAAATTGGCCACCTTCAGCTTTAATCTATTGCGACACCACGGAAATA
* ** * * **
45860580 GGATTCGTTTTCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTTGCTGCCTT
196 AGATTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAAATTCACTGCCTT
*
45860645 TAGCTTTAATCTATTGCGACGCCAGGGAAAT
261 TAGCTTTAATCTATTGCAACGCCAGGGAAAT
45860676 AAGATTCGCT
1 AAGATTCGCT
45860686 ATGATAACTT
Statistics
Matches: 265, Mismatches: 35, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
290 2 0.01
291 263 0.99
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (291 bp):
AAGATTCGCTGCCTTCAACTTTAATCTGCTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCT
TCAGCTTTAATCTACTATGACGCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAATCTGTTCCA
CTGCAATGCAAAGGAAATAAAATTGGCCACCTTCAGCTTTAATCTATTGCGACACCACGGAAATA
AGATTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAAATTCACTGCCTT
TAGCTTTAATCTATTGCAACGCCAGGGAAAT
Found at i:45861030 original size:24 final size:24
Alignment explanation
Indices: 45860996--45861053 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
45860986 CGGATTGCCC
*
45860996 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
*
45861020 CTACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
*
45861044 CCACTATAAT
1 CCACTGTAAT
45861054 TTTGGGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:45866451 original size:34 final size:34
Alignment explanation
Indices: 45866410--45866479 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
45866400 AACCACCTTT
45866410 CTTGGCTGACTTACAGTAACTGATCTTGAGTAAC
1 CTTGGCTGACTTACAGTAACTGATCTTGAGTAAC
*
45866444 CTTGGCTGACTTACAGTAATTGATCTTGAGTAAC
1 CTTGGCTGACTTACAGTAACTGATCTTGAGTAAC
45866478 CT
1 CT
45866480 GTGTTATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (34 bp):
CTTGGCTGACTTACAGTAACTGATCTTGAGTAAC
Found at i:45879221 original size:28 final size:28
Alignment explanation
Indices: 45879176--45879250 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 28
45879166 TTTTGAAGAT
45879176 AAGAAGAGAAGAGTAAAAAAATTGGTTGTAG
1 AAGAAGAGAA-A--AAAAAAATTGGTTGTAG
45879207 AAGAAGAG---AAAAAAATTGGTTGTAG
1 AAGAAGAGAAAAAAAAAATTGGTTGTAG
45879232 AAGAAGAGAAAACAAAAAA
1 AAGAAGAGAAAA-AAAAAA
45879251 GAATTCGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
25 25 0.62
28 1 0.03
29 6 0.15
31 8 0.20
ACGTcount: A:0.59, C:0.01, G:0.25, T:0.15
Consensus pattern (28 bp):
AAGAAGAGAAAAAAAAAATTGGTTGTAG
Found at i:45879224 original size:25 final size:25
Alignment explanation
Indices: 45879182--45879243 Score: 115
Period size: 25 Copynumber: 2.4 Consensus size: 25
45879172 AGATAAGAAG
45879182 AGAAGAGTAAAAAAATTGGTTGTAGA
1 AGAAGAG-AAAAAAATTGGTTGTAGA
45879208 AGAAGAGAAAAAAATTGGTTGTAGA
1 AGAAGAGAAAAAAATTGGTTGTAGA
45879233 AGAAGAGAAAA
1 AGAAGAGAAAA
45879244 CAAAAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 29 0.81
26 7 0.19
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (25 bp):
AGAAGAGAAAAAAATTGGTTGTAGA
Found at i:45882159 original size:15 final size:15
Alignment explanation
Indices: 45882139--45882167 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45882129 TACAAGCTTG
45882139 AAAATTAAGTCAAAT
1 AAAATTAAGTCAAAT
45882154 AAAATTAAGTCAAA
1 AAAATTAAGTCAAA
45882168 CATTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
AAAATTAAGTCAAAT
Found at i:45890514 original size:82 final size:82
Alignment explanation
Indices: 45890377--45890542 Score: 305
Period size: 82 Copynumber: 2.0 Consensus size: 82
45890367 ATCAAAATTA
*
45890377 TAATCACAAATCATGTCATAATTGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
1 TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
45890442 TTATAATTAATATATAT
66 TTATAATTAATATATAT
*
45890459 TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATATAAAGAGAC
1 TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
*
45890524 TTGTAATTAATATATAT
66 TTATAATTAATATATAT
45890541 TA
1 TA
45890543 TCAACTTTCT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (82 bp):
TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
TTATAATTAATATATAT
Found at i:45894652 original size:23 final size:23
Alignment explanation
Indices: 45894626--45894680 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
45894616 ATATTCATTA
*
45894626 TATTTTTTTAAAAATGATTTTTT
1 TATTTTTTAAAAAATGATTTTTT
** *
45894649 TATTTTCAAAAAAATGTTTTTTT
1 TATTTTTTAAAAAATGATTTTTT
*
45894672 TAATTTTTA
1 TATTTTTTA
45894681 CTAGCGTGAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
TATTTTTTAAAAAATGATTTTTT
Found at i:45900849 original size:77 final size:77
Alignment explanation
Indices: 45900722--45900882 Score: 313
Period size: 77 Copynumber: 2.1 Consensus size: 77
45900712 AAAAATTTAC
45900722 TTTTAATCTAGATGAATCATGACGTTTTGGTTATATATAGGTATAAGTATGTGTGTATATCTATA
1 TTTTAATCTAGATGAATCATGACGTTTTGGTTATATATAGGTATAAGTATGTGTGTATATCTATA
45900787 CATAGACAATCA
66 CATAGACAATCA
*
45900799 TTTTAATCTAGATGAATCATGACGTTTTGGTTATATATAGTTATAAGTATGTGTGTATATCTATA
1 TTTTAATCTAGATGAATCATGACGTTTTGGTTATATATAGGTATAAGTATGTGTGTATATCTATA
45900864 CATAGACAATCA
66 CATAGACAATCA
45900876 TTTTAAT
1 TTTTAAT
45900883 TTGTTCTTCC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 83 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.42
Consensus pattern (77 bp):
TTTTAATCTAGATGAATCATGACGTTTTGGTTATATATAGGTATAAGTATGTGTGTATATCTATA
CATAGACAATCA
Found at i:45901867 original size:11 final size:11
Alignment explanation
Indices: 45901851--45901877 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45901841 TTATAAAATG
45901851 ACAATATCTCA
1 ACAATATCTCA
45901862 ACAATATCTCA
1 ACAATATCTCA
45901873 ACAAT
1 ACAAT
45901878 TGATAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (11 bp):
ACAATATCTCA
Found at i:45905062 original size:92 final size:91
Alignment explanation
Indices: 45904905--45905113 Score: 251
Period size: 92 Copynumber: 2.3 Consensus size: 91
45904895 TTGATTTTAG
* * ** * *
45904905 TAAATTAATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTGTTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTACCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
45904970 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
45904997 TAAATTCATATAAGAAAATTTATTACCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTACCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
45905061 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
45905089 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
45905114 GTTATAATTA
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
90 1 0.01
91 28 0.28
92 69 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTACCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:45905076 original size:24 final size:25
Alignment explanation
Indices: 45905041--45905088 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
45905031 TTATGAAATT
45905041 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
45905065 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
45905089 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:45905267 original size:120 final size:120
Alignment explanation
Indices: 45905129--45905541 Score: 731
Period size: 120 Copynumber: 3.4 Consensus size: 120
45905119 AATTATTTTA
* * * *
45905129 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTTA-AAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATAAT
*
45905192 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
45905249 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAGTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAATTT
45905314 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
45905369 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAATTT
45905434 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
45905489 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
45905542 TAAATATGAT
Statistics
Matches: 284, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
119 6 0.02
120 276 0.97
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAATTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:45905289 original size:15 final size:15
Alignment explanation
Indices: 45905254--45905305 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45905244 TTAAGAATTT
*
45905254 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45905268 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45905282 TATTTAATAATAAT-
1 TATTTAATTATAATA
45905296 TATGTTAATT
1 TAT-TTAATT
45905306 TATAGTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45905409 original size:15 final size:15
Alignment explanation
Indices: 45905374--45905425 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45905364 TTAAGAATTT
*
45905374 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45905388 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45905402 TATTTAATAATAAT-
1 TATTTAATTATAATA
45905416 TATGTTAATT
1 TAT-TTAATT
45905426 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45905524 original size:16 final size:16
Alignment explanation
Indices: 45905503--45905544 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45905493 TTATTAAATT
*
45905503 ATATATTTTAATTATA
1 ATATATTTTAATAATA
45905519 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
45905534 AT-TATGTTTAA
1 ATATAT-TTTAA
45905545 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:45905529 original size:15 final size:15
Alignment explanation
Indices: 45905494--45905535 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45905484 TTAAGAATTT
*
45905494 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45905508 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45905522 TATTTAATAATAAT
1 TATTTAATTATAAT
45905536 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45905637 original size:240 final size:238
Alignment explanation
Indices: 45905145--45905624 Score: 602
Period size: 240 Copynumber: 2.0 Consensus size: 238
45905135 ATTAAATCAT
* * * *
45905145 ATATTTTAAATAAAATATATTTAATATTAATTATTTCAAATTTAAATTTATAGTATCATATATTA
1 ATATTTTAATTATAATATATTTAATAATAATTATTT-AAATTTAAATTTACAGTATCATATATTA
45905210 TGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAT
65 TGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAT
* * *
45905275 TATAATATATTTAATAATAATTATGTTAATTTATAGTTTACAGTATCATATATTATGATTTGAGT
130 TATAATATATTTAATAATAATTATGTTAATATATAGATTACAG-ATCATATATTATGATTTGAAT
* * * * ** ** *
45905340 AAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
194 AAATTCATATAAGAATATTAATCAATAACAATATTACCAAAACAA
*
45905385 ATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATT
1 ATATTTTAATTATAATATATTTAATAATAATTAT-TTAAATTTA-AATTTACAGTATCATATATT
45905449 ATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAA
64 ATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAA
* *
45905514 TTATAATATATTTAATAATAATTATGTTTAA-ATAT-GATTA-A-ATTATTTATTATTGATATT-
129 TTATAATATATTTAATAATAATTATG-TTAATATATAGATTACAGATCATATATTA-TGAT-TTG
*
45905574 AAT-AA-TCTTATTAA-AAT-TTAAATAACAATAACAATAATTACCAAAACAA
191 AATAAATTCATA-TAAGAATATT-AAT--CAATAACAAT-ATTACCAAAACAA
45905623 AT
1 AT
45905625 TTCTGCTAAT
Statistics
Matches: 210, Mismatches: 20, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
234 2 0.01
235 10 0.05
236 14 0.07
237 13 0.06
238 12 0.06
239 10 0.05
240 143 0.68
241 6 0.03
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (238 bp):
ATATTTTAATTATAATATATTTAATAATAATTATTTAAATTTAAATTTACAGTATCATATATTAT
GATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
ATAATATATTTAATAATAATTATGTTAATATATAGATTACAGATCATATATTATGATTTGAATAA
ATTCATATAAGAATATTAATCAATAACAATATTACCAAAACAA
Found at i:45905655 original size:153 final size:156
Alignment explanation
Indices: 45905478--45905790 Score: 510
Period size: 153 Copynumber: 2.0 Consensus size: 156
45905468 ATAAGAATAT
*
45905478 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATAT-A-TTTAATAATAATTATGT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTA-AA-ATGAGTTTAATAATAATTATGT
* *
45905541 TTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAAC
64 TTAAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAC
*
45905606 AAT-A-A-TTACCAAAACAAATTTCTGC
129 AATAACATTTACCAAAACAAATTTATGC
*
45905631 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGAGTTTAATAATATTTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGAGTTTAATAATAATTATGTTT
*
45905696 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATCACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
45905761 TAATCATTTACCAAAACAAATTTATGC
131 TAA-CATTTACCAAAACAAATTTATGC
45905788 TAA
1 TAA
45905791 GGGTATTCTA
Statistics
Matches: 148, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
151 2 0.01
152 3 0.02
153 119 0.80
154 1 0.01
156 1 0.01
157 22 0.15
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGAGTTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAACATTTACCAAAACAAATTTATGC
Found at i:45905938 original size:16 final size:16
Alignment explanation
Indices: 45905913--45905948 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
45905903 GATTTGCTAT
*
45905913 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
45905929 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45905945 TACA
1 TACA
45905949 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45907125 original size:71 final size:71
Alignment explanation
Indices: 45907009--45907152 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
45906999 CATGATGAAG
*
45907009 TAAGCTTTCACTCAACTATACCACGCACGTGGTTCTTGCTGAAGTCAATAAAGCACATTCTTTAG
1 TAAGCTTTCACTCAACTATACCACGCACATGGTTCTTGCTGAAGTCAATAAAGCACATTCTTTAG
45907074 CTTATA
66 CTTATA
45907080 TAAGCTTTCACTCAACTATACCACGCACATGGTTCTTGCTGAAGTCAATAAAGCACATTCTTTAG
1 TAAGCTTTCACTCAACTATACCACGCACATGGTTCTTGCTGAAGTCAATAAAGCACATTCTTTAG
45907145 CTTATA
66 CTTATA
45907151 TA
1 TA
45907153 CCTTTTACTC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (71 bp):
TAAGCTTTCACTCAACTATACCACGCACATGGTTCTTGCTGAAGTCAATAAAGCACATTCTTTAG
CTTATA
Found at i:45918983 original size:24 final size:24
Alignment explanation
Indices: 45918956--45919007 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45918946 TTAGTAAGTC
*
45918956 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
45918980 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
45919004 AAAT
1 AAAT
45919008 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:45920953 original size:24 final size:24
Alignment explanation
Indices: 45920926--45920977 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45920916 TTAGTAAGTC
*
45920926 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
45920950 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
45920974 AAAT
1 AAAT
45920978 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:45923124 original size:6 final size:6
Alignment explanation
Indices: 45923115--45923190 Score: 88
Period size: 6 Copynumber: 13.0 Consensus size: 6
45923105 TTTAAATTTC
* *
45923115 ATATTA ATATTA ATATTA ATATTA ATATTA A-ATAA ATATAATT ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATAT--TA ATATTA
45923164 A-A-TA A-ATTA ATATTA ATATTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA
45923191 TTAATTTAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
4 4 0.07
5 8 0.13
6 45 0.74
8 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATATTA
Found at i:45923167 original size:15 final size:15
Alignment explanation
Indices: 45923117--45923190 Score: 64
Period size: 19 Copynumber: 4.7 Consensus size: 15
45923107 TAAATTTCAT
45923117 ATTAATATTAATATTAA
1 ATTAATATTAA-A-TAA
45923134 TATTAATATTAAATAA
1 -ATTAATATTAAATAA
45923150 ATATAATTATATTAAATAA
1 AT-T-A--ATATTAAATAA
45923169 ATTAATATT-AAT--
1 ATTAATATTAAATAA
45923181 ATTAATATTA
1 ATTAATATTA
45923191 TTAATTTAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
12 9 0.18
14 3 0.06
15 7 0.14
16 4 0.08
17 3 0.06
18 12 0.24
19 13 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAATATTAAATAA
Found at i:45924565 original size:15 final size:14
Alignment explanation
Indices: 45924543--45924576 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
45924533 TGATAAATCA
*
45924543 AATAAAAATAATAT
1 AATAAAAATAAAAT
45924557 AATATAAAATAAAAT
1 AATA-AAAATAAAAT
45924572 AATAA
1 AATAA
45924577 CACAATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAAATAAAAT
Found at i:45928863 original size:22 final size:23
Alignment explanation
Indices: 45928838--45928889 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
45928828 TTAGGCTTAG
45928838 TTTGGGTTTTGGA-TTTTTTT-TA
1 TTTGGGTTTT-GATTTTTTTTATA
45928860 TTTGGG-TTTGATTTTTTTTATA
1 TTTGGGTTTTGATTTTTTTTATA
45928882 TTTGGGTT
1 TTTGGGTT
45928890 GACTTTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 2 0.07
21 10 0.37
22 14 0.52
23 1 0.04
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (23 bp):
TTTGGGTTTTGATTTTTTTTATA
Found at i:45939413 original size:19 final size:20
Alignment explanation
Indices: 45939388--45939436 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
45939378 TTCTCTTACA
**
45939388 ATTTTTGATATTTTCTCATT
1 ATTTTTGATATTCCCTCATT
*
45939408 -TTTTTGGTATTCCCTCATT
1 ATTTTTGATATTCCCTCATT
45939427 ATTTTTGATA
1 ATTTTTGATA
45939437 CACCCTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.18, C:0.12, G:0.08, T:0.61
Consensus pattern (20 bp):
ATTTTTGATATTCCCTCATT
Found at i:45940872 original size:16 final size:15
Alignment explanation
Indices: 45940845--45940899 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
45940835 TTTTTCATAA
45940845 ATATATATTATT-TT
1 ATATATATTATTATT
45940859 ATATATATCCTATTATT
1 ATATATAT--TATTATT
*
45940876 -TATATACTTATTATAC
1 ATATATA-TTATTAT-T
45940892 ATATATAT
1 ATATATAT
45940900 AAGTGTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 8 0.24
15 6 0.18
16 11 0.32
17 9 0.26
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATATTATTATT
Found at i:45941497 original size:110 final size:110
Alignment explanation
Indices: 45941304--45941538 Score: 452
Period size: 110 Copynumber: 2.1 Consensus size: 110
45941294 GAAATTGAGC
*
45941304 CCTAACGTATTAGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
1 CCTAACGTATTGGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
45941369 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
66 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
*
45941414 CCTAACGTATTGGGTTCTGATTTTCTTTGATGATCTTAAATAATTGAGGATATTCTTTATTCAAA
1 CCTAACGTATTGGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
45941479 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
66 ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
45941524 CCTAACGTATTGGGT
1 CCTAACGTATTGGGT
45941539 GTGGCATGTT
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 123 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (110 bp):
CCTAACGTATTGGGTTCTGATTTTCTTTGATGATCTTAAATAACTGAGGATATTCTTTATTCAAA
ATGCATGAGTATAAAAATTATTTTTGGGAACTTAACTTGTTGTGT
Found at i:45952831 original size:45 final size:45
Alignment explanation
Indices: 45952754--45952949 Score: 223
Period size: 45 Copynumber: 4.4 Consensus size: 45
45952744 GGTTGAAAAG
* * * * * *
45952754 TAGCAGATCCTGTCTTCCTAAATTGGTAGCGAAGTGGATCGAAGA
1 TAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
*
45952799 TAGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGA
1 TAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
* *** * * * *
45952844 AAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAATA
1 TAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
* *
45952888 TACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGAGA
1 TAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
*
45952933 AAGCAGATCTTGTCTTC
1 TAGCAGATCTTGTCTTC
45952950 ATGTATTAAC
Statistics
Matches: 122, Mismatches: 28, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
44 34 0.28
45 88 0.72
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
TAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
Found at i:45952896 original size:44 final size:44
Alignment explanation
Indices: 45952833--45953787 Score: 906
Period size: 44 Copynumber: 21.8 Consensus size: 44
45952823 GGTGGCGAAA
* * * * * *
45952833 TAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* ** * ** *
45952877 TAGATCAAATATACCAGATCTTGTCTTCCCATACTGGTGGC--GAAG
1 TAGATCAAAGATAGTAGATCTTGTCTT--CAT-GTATTGACATGAAG
** * * *
45952922 TAGATCGGAGAAAGCAGATCTTGTCTTCATGTATTAACATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * * * *
45952966 TAGATCAGAGATAGCAGATCTTATCTTCATATATTGATATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* *
45953010 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * * *
45953054 TAGATCAGAGATAGTAGATCTTATCTTCATATATTGATATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * *
45953098 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * *
45953142 TAGATCAGAGATAGCAGATCTTATCTTCATGTATTGACATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* *
45953186 TAGATCGAAGATAAT-GAATCTTGTCTTCATGTATTGACATGAAG
1 TAGATCAAAGATAGTAG-ATCTTGTCTTCATGTATTGACATGAAG
* * *
45953230 TAGATCAGAGATAATAGATCTTATCTTC----A-T---ATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * * *
45953266 TAGAACAAAGATAATGGATCTTGTCTTCATGTATTGACCTGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * * *
45953310 TAGATCAGAGATAGAAAATCTTATCTTCATGTATTGACATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * * *
45953354 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTAACATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * *
45953398 TAGATTAGAGATAGTAGATCTTGTCTTCATGTATTGACATAAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * * *
45953442 TAGATCGAGGATAATGGATCTTGTCTTCATGTATTGACATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * *** * ***
45953486 TAGATCAGAGATAGTGGATCTTGTCTTCCCATACTGGTGGTGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTA-TTGACATGAAG
* *
45953531 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * *** * ***
45953575 TAGATCAGAGATAGTGGATCTTGTCTTCCCATACTGGTGGTGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTA-TTGACATGAAG
* * *
45953620 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * * * * * *
45953664 TAGATCAGAGATAGCAGATCTTATCTTTATATATTAATATGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * * *
45953708 TAGATCAAAGATAATGGATCTTGTCTTCGTGTATTGACAGGAAG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
* * * *
45953752 TAGATCAAAGACAGCAGACCTTGTCTTCCTGTATTG
1 TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTG
45953788 GCAGCGAGGA
Statistics
Matches: 732, Mismatches: 162, Indels: 34
0.79 0.17 0.04
Matches are distributed among these distances:
36 30 0.04
39 1 0.00
40 2 0.00
41 1 0.00
42 3 0.00
43 4 0.01
44 589 0.80
45 94 0.13
46 3 0.00
47 5 0.01
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (44 bp):
TAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACATGAAG
Found at i:45953043 original size:88 final size:88
Alignment explanation
Indices: 45952833--45953779 Score: 1180
Period size: 88 Copynumber: 10.8 Consensus size: 88
45952823 GGTGGCGAAA
* * * * * *
45952833 TAGATCGAAGA-AA-GCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATACCAGAT
1 TAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGAT
* ** * * **
45952896 CTTGTCTTCCCATACTGGTGGCGAAG
64 CTTATCTTCATATATTGAT-ATGAAG
* *
45952922 TAGATCGGAGA-AA-GCAGATCTTGTCTTCATGTATTAACATGAAGTAGATCAGAGATAGCAGAT
1 TAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGAT
45952985 CTTATCTTCATATATTGATATGAAG
64 CTTATCTTCATATATTGATATGAAG
* *
45953010 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCT
1 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
45953075 TATCTTCATATATTGATATGAAG
66 TATCTTCATATATTGATATGAAG
45953098 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
1 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* *
45953163 TATCTTCATGTATTGACATGAAG
66 TATCTTCATATATTGATATGAAG
* **
45953186 TAGATCGAAGATAATGAATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAATAGATCT
1 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
45953251 TATCTTC--------ATATGAAG
66 TATCTTCATATATTGATATGAAG
* * * * *
45953266 TAGAACAAAGATAATGGATCTTGTCTTCATGTATTGACCTGAAGTAGATCAGAGATAGAAAATCT
1 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* *
45953331 TATCTTCATGTATTGACATGAAG
66 TATCTTCATATATTGATATGAAG
* * *
45953354 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTAACATGAAGTAGATTAGAGATAGTAGATCT
1 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* * * *
45953419 TGTCTTCATGTATTGACATAAAG
66 TATCTTCATATATTGATATGAAG
* **
45953442 TAGATCGAGGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTGGATCT
1 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* ** * * *
45953507 TGTCTTCCCATACTGGTGGTGAAG
66 TATCTTCATATATTGAT-ATGAAG
* **
45953531 TAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTGGATCT
1 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* ** * * *
45953596 TGTCTTCCCATACTGGTGGTGAAG
66 TATCTTCATATATTGAT-ATGAAG
45953620 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
1 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
* *
45953685 TATCTTTATATATTAATATGAAG
66 TATCTTCATATATTGATATGAAG
* * * * * *
45953708 TAGATCAAAGATAATGGATCTTGTCTTCGTGTATTGACAGGAAGTAGATCAAAGACAGCAGACCT
1 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
*
45953773 TGTCTTC
66 TATCTTC
45953780 CTGTATTGGC
Statistics
Matches: 770, Mismatches: 77, Indels: 23
0.89 0.09 0.03
Matches are distributed among these distances:
80 72 0.09
88 464 0.60
89 234 0.30
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (88 bp):
TAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCT
TATCTTCATATATTGATATGAAG
Found at i:45953278 original size:36 final size:36
Alignment explanation
Indices: 45953224--45953295 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
45953214 ATGTATTGAC
* *
45953224 ATGAAGTAGATCAGAGATAATAGATCTTATCTTCAT
1 ATGAAGTAGAACAAAGATAATAGATCTTATCTTCAT
* *
45953260 ATGAAGTAGAACAAAGATAATGGATCTTGTCTTCAT
1 ATGAAGTAGAACAAAGATAATAGATCTTATCTTCAT
45953296 GTATTGACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (36 bp):
ATGAAGTAGAACAAAGATAATAGATCTTATCTTCAT
Found at i:45953543 original size:45 final size:45
Alignment explanation
Indices: 45953481--45953647 Score: 205
Period size: 45 Copynumber: 3.7 Consensus size: 45
45953471 TGTATTGACA
*
45953481 TGAAGTAGATCAGAGATAGTGGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCAGAGATAATGGATCTTGTCTTCCCATACTGGTGG
* *** * ***
45953526 TGAAGTAGATC-GAAGATAATAGATCTTGTCTTCATGTA-TTGACA
1 TGAAGTAGATCAG-AGATAATGGATCTTGTCTTCCCATACTGGTGG
*
45953570 TGAAGTAGATCAGAGATAGTGGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCAGAGATAATGGATCTTGTCTTCCCATACTGGTGG
45953615 TGAAGTAGATC-GAAGATAATGGATCTTGTCTTC
1 TGAAGTAGATCAG-AGATAATGGATCTTGTCTTC
45953648 ATGTATTGAC
Statistics
Matches: 99, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
44 35 0.35
45 64 0.65
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (45 bp):
TGAAGTAGATCAGAGATAATGGATCTTGTCTTCCCATACTGGTGG
Found at i:45955670 original size:16 final size:15
Alignment explanation
Indices: 45955643--45955697 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
45955633 ATTTTCATAA
45955643 ATATATATTATT-TT
1 ATATATATTATTATT
45955657 ATATATATCCTATTATT
1 ATATATAT--TATTATT
*
45955674 -TATATACTTATTATAC
1 ATATATA-TTATTAT-T
45955690 ATATATAT
1 ATATATAT
45955698 AAGTGTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 8 0.24
15 6 0.18
16 11 0.32
17 9 0.26
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATATTATTATT
Found at i:45957395 original size:20 final size:19
Alignment explanation
Indices: 45957357--45957483 Score: 67
Period size: 20 Copynumber: 6.4 Consensus size: 19
45957347 AATACCAACC
45957357 AATTTTTGGTAGAC-CCTCAT
1 AATTTTTGGT--ACTCCTCAT
45957377 AATTTTTGGTACTCACTCAT
1 AATTTTTGGTACTC-CTCAT
** * *
45957397 GTTTTTTGATACTTCCTTAT
1 AATTTTTGGTAC-TCCTCAT
* * * *
45957417 AAGTTTTGGTATTTCTTCAA
1 AATTTTTGGTA-CTCCTCAT
** *
45957437 AATTTTTGGTACCTTTTAAT
1 AATTTTTGGTA-CTCCTCAT
* *
45957457 ATTTTTTGGTATTCTCTCAT
1 AATTTTTGGTACTC-CTCAT
45957477 AATTTTT
1 AATTTTT
45957484 TGGCACACTA
Statistics
Matches: 78, Mismatches: 24, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
20 72 0.92
21 2 0.03
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.53
Consensus pattern (19 bp):
AATTTTTGGTACTCCTCAT
Found at i:45957481 original size:21 final size:21
Alignment explanation
Indices: 45957457--45957542 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
45957447 ACCTTTTAAT
45957457 ATTTTTTGGTATTCTCTCATA
1 ATTTTTTGGTATTCTCTCATA
* ** * *
45957478 ATTTTTTGGCACACTATTATA
1 ATTTTTTGGTATTCTCTCATA
*
45957499 ATGTTTT-GTATT-TCTCATA
1 ATTTTTTGGTATTCTCTCATA
*
45957518 A--TTTTGGTA-TCCCTTCATA
1 ATTTTTTGGTATTCTC-TCATA
45957537 ATTTTT
1 ATTTTT
45957543 AGTATGGTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
17 5 0.10
18 4 0.08
19 12 0.25
20 2 0.04
21 25 0.52
ACGTcount: A:0.22, C:0.14, G:0.09, T:0.55
Consensus pattern (21 bp):
ATTTTTTGGTATTCTCTCATA
Found at i:45957515 original size:40 final size:40
Alignment explanation
Indices: 45957413--45957522 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
45957403 TGATACTTCC
* * *
45957413 TTATAA-GTTTTGGTATTTCTTCA-AAATTTTTGGTACCTT
1 TTATAATGTTTTGGTATTTC-TCATAATTTTTTGGCACCTA
*
45957452 TTA-ATATTTTTTGGTATTCTCTCATAATTTTTTGGCACACTA
1 TTATA-ATGTTTTGGTATT-TCTCATAATTTTTTGGCAC-CTA
45957494 TTATAATGTTTT-GTATTTCTCATAATTTT
1 TTATAATGTTTTGGTATTTCTCATAATTTT
45957523 GGTATCCCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 25 0.42
41 18 0.30
42 11 0.18
43 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.10, T:0.55
Consensus pattern (40 bp):
TTATAATGTTTTGGTATTTCTCATAATTTTTTGGCACCTA
Found at i:45958138 original size:23 final size:25
Alignment explanation
Indices: 45958103--45958153 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
45958093 ATATAAAAAT
45958103 TTAAATAAAAAA-TAAAAAAAT-TA
1 TTAAATAAAAAATTAAAAAAATATA
** *
45958126 TTAAATACTAAATTAAAATAATATA
1 TTAAATAAAAAATTAAAAAAATATA
45958151 TTA
1 TTA
45958154 TTTTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 10 0.43
24 8 0.35
25 5 0.22
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
TTAAATAAAAAATTAAAAAAATATA
Found at i:45958611 original size:20 final size:19
Alignment explanation
Indices: 45958549--45958618 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
45958539 TTGGTACAAG
45958549 CCTCATAATTTTTTATACTTC
1 CCTCAT-ATTTTTTATAC-TC
* * *
45958570 CC-CATTTTTTTTATATTT
1 CCTCATATTTTTTATACTC
*
45958588 CCTCATAATTTTTTACACTC
1 CCTCAT-ATTTTTTATACTC
45958608 CCTCATATTTT
1 CCTCATATTTT
45958619 ATGGTATGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
18 3 0.08
19 17 0.43
20 18 0.45
21 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.54
Consensus pattern (19 bp):
CCTCATATTTTTTATACTC
Found at i:45958656 original size:20 final size:21
Alignment explanation
Indices: 45958609--45958658 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
45958599 TTTACACTCC
45958609 CTCAT-ATTTTATGGTATGCT
1 CTCATAATTTTATGGTATGCT
* *
45958629 CTCCTAATTTT-TGGTATTCT
1 CTCATAATTTTATGGTATGCT
*
45958649 TTCATAATTT
1 CTCATAATTT
45958659 GTTTTGCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.54
Consensus pattern (21 bp):
CTCATAATTTTATGGTATGCT
Found at i:45959096 original size:20 final size:20
Alignment explanation
Indices: 45959073--45959147 Score: 51
Period size: 20 Copynumber: 3.7 Consensus size: 20
45959063 TTTAAAATAT
45959073 GAGGGATTACCAAAAATAAC
1 GAGGGATTACCAAAAATAAC
** * * *
45959093 GAGGGCGTGCAAAAAATTAC
1 GAGGGATTACCAAAAATAAC
* * * *
45959113 GTGAGATTACCAAAAAAATAT
1 GAGGGATTACCAAAAATA-AC
*
45959134 GAGGGACTACCAAA
1 GAGGGATTACCAAA
45959148 TATTGGCTCG
Statistics
Matches: 37, Mismatches: 17, Indels: 1
0.67 0.31 0.02
Matches are distributed among these distances:
20 25 0.68
21 12 0.32
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.16
Consensus pattern (20 bp):
GAGGGATTACCAAAAATAAC
Found at i:45960142 original size:48 final size:49
Alignment explanation
Indices: 45960073--45960165 Score: 152
Period size: 48 Copynumber: 1.9 Consensus size: 49
45960063 GCATGATTTT
* * *
45960073 TTTTATCTTGAGGCGTGAATCATTTTCCTTATCGCTTTATCTTTTTTCG
1 TTTTATCTTGAGGCGTAAATCACTTTCCATATCGCTTTATCTTTTTTCG
45960122 TTTTAT-TTGAGGCGTAAATCACTTTCCATATCGCTTTATCTTTT
1 TTTTATCTTGAGGCGTAAATCACTTTCCATATCGCTTTATCTTTT
45960166 GACCGATGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 35 0.85
49 6 0.15
ACGTcount: A:0.17, C:0.18, G:0.13, T:0.52
Consensus pattern (49 bp):
TTTTATCTTGAGGCGTAAATCACTTTCCATATCGCTTTATCTTTTTTCG
Found at i:45966047 original size:29 final size:29
Alignment explanation
Indices: 45965966--45966035 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
45965956 TTTAAAATTT
* * *
45965966 TTATTTAAGTCACTAAATTATCT-AAAAAA
1 TTATTTAAGTTACGAAACTAT-TAAAAAAA
45965995 TTATTTAAGTTACGAAACTATTAAAAAAA
1 TTATTTAAGTTACGAAACTATTAAAAAAA
45966024 TTATTTAAGTTA
1 TTATTTAAGTTA
45966036 TTGGATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 1 0.03
29 36 0.97
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (29 bp):
TTATTTAAGTTACGAAACTATTAAAAAAA
Found at i:45966591 original size:2 final size:2
Alignment explanation
Indices: 45966584--45966662 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
45966574 AAAGCAAAAT
45966584 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45966626 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
45966663 CCAAATTATA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45968182 original size:22 final size:23
Alignment explanation
Indices: 45968155--45968199 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45968145 AGGTATCTAC
45968155 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
45968177 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
45968200 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:45968203 original size:17 final size:17
Alignment explanation
Indices: 45968181--45968233 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
45968171 ATTACAAAAT
45968181 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
45968198 CATATCATATCTATGATTG
1 CATATC-T-TCTAAGATTA
* *
45968217 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
45968234 TGTTTCCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:45968204 original size:22 final size:22
Alignment explanation
Indices: 45968152--45968209 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
45968142 GAAAGGTATC
*
45968152 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
45968173 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
45968196 TACATATCATATCT
1 TACAAATCATATCT
45968210 ATGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:45974247 original size:22 final size:23
Alignment explanation
Indices: 45974220--45974264 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45974210 AGGTATCTAC
45974220 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
45974242 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
45974265 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:45974269 original size:22 final size:22
Alignment explanation
Indices: 45974217--45974274 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
45974207 GAAAGGTATC
*
45974217 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
45974238 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
45974261 TACATATCATATCT
1 TACAAATCATATCT
45974275 ACGATTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:45991147 original size:8 final size:8
Alignment explanation
Indices: 45991134--45991195 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
45991124 GTATAAGAAT
45991134 AAAAAATAA
1 AAAAAAT-A
45991143 AAAAAATA
1 AAAAAATA
**
45991151 GTAAAATA
1 AAAAAATA
45991159 AAAAAATA
1 AAAAAATA
* *
45991167 ATATAATA
1 AAAAAATA
*
45991175 ATAAAATAA
1 AAAAAAT-A
45991184 AATAAAATA
1 AA-AAAATA
45991193 AAA
1 AAA
45991196 GGGGTGACTT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
8 26 0.60
9 12 0.28
10 5 0.12
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAAAATA
Found at i:45991160 original size:5 final size:5
Alignment explanation
Indices: 45991136--45991195 Score: 61
Period size: 5 Copynumber: 11.8 Consensus size: 5
45991126 ATAAGAATAA
* *
45991136 AAAAT AAAAA AAATAGT AAAAT -AAA- AAAAT AATAT AATAAT AAAAT
1 AAAAT AAAAT AAA-A-T AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT
45991182 AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAA
45991196 GGGGTGACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
4 6 0.13
5 31 0.67
6 6 0.13
7 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:45991161 original size:16 final size:16
Alignment explanation
Indices: 45991131--45991195 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
45991121 TAAGTATAAG
45991131 AATAA-AAAATAAAAAA
1 AATAATAAAAT-AAAAA
*
45991147 AATAGTAAAATAAAAA
1 AATAATAAAATAAAAA
*
45991163 AATAATATAATAATAAA
1 AATAATAAAATAA-AAA
*
45991180 ATAAAATAAAATAAAA
1 A-ATAATAAAATAAAA
45991196 GGGGTGACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 20 0.49
17 11 0.27
18 10 0.24
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AATAATAAAATAAAAA
Found at i:45991162 original size:24 final size:24
Alignment explanation
Indices: 45991126--45991195 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
45991116 AAATTTAAGT
45991126 ATAAGAAT-AAAAAATAAAAAAAATA
1 ATAA-AATAAAAAAAT-AAAAAAATA
* * *
45991151 GTAAAATAAAAAAATAATATAATA
1 ATAAAATAAAAAAATAAAAAAATA
45991175 ATAAAATAAAATAAAATAAAA
1 ATAAAAT-AAA-AAAATAAAA
45991196 GGGGTGACTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 16 0.43
25 13 0.35
26 8 0.22
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (24 bp):
ATAAAATAAAAAAATAAAAAAATA
Found at i:45995648 original size:13 final size:13
Alignment explanation
Indices: 45995630--45995680 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
45995620 AGTTCTTCAT
45995630 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
45995643 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
45995656 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
45995669 TTCTTTTGAAAA
1 TGCTTTTGAAAA
45995681 ATTTAAGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:45997660 original size:39 final size:39
Alignment explanation
Indices: 45997606--45997684 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
45997596 GCAATTTCCT
45997606 TATTAAAAATACTTCAGCTTTGCAAAACACTGGTTCTCA
1 TATTAAAAATACTTCAGCTTTGCAAAACACTGGTTCTCA
45997645 TATTAAAAATACTTCAGCTTTGCAAAACACTGGTTCTCA
1 TATTAAAAATACTTCAGCTTTGCAAAACACTGGTTCTCA
45997684 T
1 T
45997685 GCAATTGATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.34
Consensus pattern (39 bp):
TATTAAAAATACTTCAGCTTTGCAAAACACTGGTTCTCA
Found at i:45999099 original size:26 final size:26
Alignment explanation
Indices: 45999070--45999135 Score: 93
Period size: 23 Copynumber: 2.7 Consensus size: 26
45999060 AGATAAACTC
*
45999070 ACCGGTAGAGGGCAGAGGAACAAAGA
1 ACCGGCAGAGGGCAGAGGAACAAAGA
45999096 ACCGGCAGAGGGC--A-GAACAAAGA
1 ACCGGCAGAGGGCAGAGGAACAAAGA
*
45999119 ACTGGCAGAGGGCAGAG
1 ACCGGCAGAGGGCAGAG
45999136 ATGAGGGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 21 0.60
24 1 0.03
25 1 0.03
26 12 0.34
ACGTcount: A:0.39, C:0.18, G:0.39, T:0.03
Consensus pattern (26 bp):
ACCGGCAGAGGGCAGAGGAACAAAGA
Found at i:45999135 original size:30 final size:30
Alignment explanation
Indices: 45999099--45999181 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
45999089 ACAAAGAACC
* *
45999099 GGCAGAGGGCAGAACAAAGAACTGGCAGAG
1 GGCAGAGAGCAGAACAAAGAACTAGCAGAG
**
45999129 GGCAGAGATG-AGGGCAAAGAACTAGCAGAG
1 GGCAGAGA-GCAGAACAAAGAACTAGCAGAG
45999159 GGCAGAGAGCAGAGAGCAAAGAA
1 GGCAGAGAGCAGA-A-CAAAGAA
45999182 GGGCATTCGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.02
30 34 0.79
31 1 0.02
32 7 0.16
ACGTcount: A:0.42, C:0.14, G:0.40, T:0.04
Consensus pattern (30 bp):
GGCAGAGAGCAGAACAAAGAACTAGCAGAG
Found at i:46001865 original size:40 final size:40
Alignment explanation
Indices: 46001800--46001880 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
46001790 ATTTACTAAA
*
46001800 GTTTTCTTATCATTCCTGTGAGGTAATAGGGACGTGTTAG
1 GTTTTCTTAGCATTCCTGTGAGGTAATAGGGACGTGTTAG
* *
46001840 GTTTTCTTAGCATTCGTGTGTGGTAATAGGGACGTGTTAG
1 GTTTTCTTAGCATTCCTGTGAGGTAATAGGGACGTGTTAG
46001880 G
1 G
46001881 CTTGAAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.19, C:0.11, G:0.31, T:0.40
Consensus pattern (40 bp):
GTTTTCTTAGCATTCCTGTGAGGTAATAGGGACGTGTTAG
Found at i:46011191 original size:27 final size:26
Alignment explanation
Indices: 46011161--46011328 Score: 237
Period size: 27 Copynumber: 6.3 Consensus size: 26
46011151 GGGTATAACA
46011161 GTCATTTTACCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
*
46011188 GTCAATTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
46011215 GTCATTTTACCCTATGGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
* *
46011241 GTCATTCTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
46011268 GTCATTTTACCCTATTGAGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTTCG
*
46011295 GTCATTTTACCCTACGGGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTTCG
*
46011322 GTTATTT
1 GTCATTT
46011329 ATCGACCTCT
Statistics
Matches: 127, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
26 25 0.20
27 97 0.76
28 5 0.04
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:46011271 original size:80 final size:81
Alignment explanation
Indices: 46011161--46011323 Score: 249
Period size: 80 Copynumber: 2.0 Consensus size: 81
46011151 GGGTATAACA
* *
46011161 GTCATTTTACCCTATGGGGTTATTTCGGTCAATTTACCCTATGGGGGTATTTCGGTCATTTTACC
1 GTCATTCTACCCTATGGGGTTATTTCGGTCAATTTACCCTATGGAGGTATTTCGGTCATTTTACC
*
46011226 CTA-TGGGGTATTTCG
66 CTACGGGGGTATTTCG
* * *
46011241 GTCATTCTACCCTATAGGGG-TATTTTGGTCATTTTACCCTATTGAGGTATTTCGGTCATTTTAC
1 GTCATTCTACCCTAT-GGGGTTATTTCGGTCAATTTACCCTATGGAGGTATTTCGGTCATTTTAC
46011305 CCTACGGGGGTATTTCG
65 CCTACGGGGGTATTTCG
46011322 GT
1 GT
46011324 TATTTATCGA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 58 0.77
81 17 0.23
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.41
Consensus pattern (81 bp):
GTCATTCTACCCTATGGGGTTATTTCGGTCAATTTACCCTATGGAGGTATTTCGGTCATTTTACC
CTACGGGGGTATTTCG
Found at i:46013241 original size:3 final size:3
Alignment explanation
Indices: 46013235--46013282 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
46013225 TAATTTTTGA
* * * *
46013235 TAT TAT TAT TAT TAT TAT TAG TAT TAG TAT TAA TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46013283 ATATCAATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:46013368 original size:13 final size:13
Alignment explanation
Indices: 46013350--46013383 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
46013340 AAAGTTTTTT
46013350 TTATATATTATGA
1 TTATATATTATGA
*
46013363 TTATATATTATTA
1 TTATATATTATGA
46013376 TTATATAT
1 TTATATAT
46013384 CAGAACGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTATATATTATGA
Found at i:46013744 original size:15 final size:15
Alignment explanation
Indices: 46013716--46013745 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46013706 TCTTTCATGC
46013716 ATTTTTTTATTTTTA
1 ATTTTTTTATTTTTA
46013731 ATTTATTTTATTTTT
1 ATTT-TTTTATTTTT
46013746 TGTTTGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
ATTTTTTTATTTTTA
Found at i:46023610 original size:50 final size:50
Alignment explanation
Indices: 46023395--46023668 Score: 178
Period size: 50 Copynumber: 5.4 Consensus size: 50
46023385 GGTAAAGAGA
* * * * * *
46023395 TCCCATGTAAGGCCATGTATGGGACATGCCATAGGCATCCTTGAGATCATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGAT-AAG-AA-C
* * **
46023451 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGG-ACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAAC
* * ** * * * * * * **
46023500 TCTCATGTAAGACCATGTATCAGAAATTGCGTTGCCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAAC
* *
46023550 TCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAAC
* * ** * *
46023600 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-ATACATGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAAC
46023648 ATCCCATGTAAGACCATGTCT
1 -TCCCATGTAAGACCATGTCT
46023669 CGGAAATAGC
Statistics
Matches: 176, Mismatches: 38, Indels: 15
0.77 0.17 0.07
Matches are distributed among these distances:
48 3 0.02
49 53 0.30
50 80 0.45
51 2 0.01
52 5 0.03
54 2 0.01
55 1 0.01
56 30 0.17
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAAC
Found at i:46026974 original size:45 final size:47
Alignment explanation
Indices: 46026922--46027041 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 47
46026912 GAGGAGGGAT
46026922 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAATCCT-AAAAA-GAGA-C
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAAT-CTAAAAAAGGAGAGC
* * *
46026967 TAAGGTGAAAACCCGCAAAGGGTGCTTTGAGTCTAAAAAAAAGGGAGAGGC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAATCT--AAAAAA-GGAGA-GC
46027018 CAAGGTGAAAACCCGCAAAGGGCG
1 CAAGGTGAAAACCCGCAAAGGGCG
46027042 TTCTGAGACC
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
44 2 0.03
45 29 0.46
47 5 0.08
49 4 0.06
51 23 0.37
ACGTcount: A:0.39, C:0.19, G:0.29, T:0.12
Consensus pattern (47 bp):
CAAGGTGAAAACCCGCAAAGGGCGCTTTGAATCTAAAAAAGGAGAGC
Found at i:46028355 original size:44 final size:44
Alignment explanation
Indices: 46028302--46028501 Score: 201
Period size: 44 Copynumber: 4.6 Consensus size: 44
46028292 TAGCAGGTCT
* *
46028302 TATCTCCCTGATGTTGCAGCGGAGTAGACAGAAGAAGCTAATCC
1 TATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAGCTAATCC
* * * * *
46028346 TATCTCCCTGAAGTTGCAGTGAAGCAGAAAAAAGAGGCTAATCC
1 TATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAGCTAATCC
* * * *
46028390 TATCT-CCTGAAGTTGTAGCGGAGC-GA-ATTAA-AATCATAGATCT
1 TATCTCCCTGAAGTTGCAGCGGAGCAGACA-GAAGAAGC-TA-ATCC
* * *
46028433 TATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAAAAGCTAATCC
1 TATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAGCTAATCC
* *
46028477 TATCTCCTTGAAGTTGTAGCGGAGC
1 TATCTCCCTGAAGTTGCAGCGGAGC
46028502 GGATTAAAAT
Statistics
Matches: 125, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
41 3 0.02
42 6 0.05
43 24 0.19
44 82 0.66
45 6 0.05
46 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAGCTAATCC
Found at i:46028444 original size:87 final size:88
Alignment explanation
Indices: 46028346--46028538 Score: 302
Period size: 88 Copynumber: 2.2 Consensus size: 88
46028336 AAGCTAATCC
*
46028346 TATCTCCCTGAAGTTGCAGTGAAGCAGA-A-AAAAGAGGCTAATCCTATCTCC-TGAAGTTGTAG
1 TATCTCTCTGAAGTTGCAGTGAAGCAGACAGAAAA-A-GCTAATCCTATCTCCTTGAAGTTGTAG
*
46028408 CGGAGCGAATTAAAATCATAGATCT
64 CGGAGCGAATTAAAATCACAGATCT
*
46028433 TATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAAAAGCTAATCCTATCTCCTTGAAGTTGTAGCG
1 TATCTCTCTGAAGTTGCAGTGAAGCAGACAGAAAAAGCTAATCCTATCTCCTTGAAGTTGTAGCG
*
46028498 GAGCGGATTAAAATCACAGATCT
66 GAGCGAATTAAAATCACAGATCT
*
46028521 TATCTCTCTAAAGTTGCA
1 TATCTCTCTGAAGTTGCA
46028539 AAGAGCAGAT
Statistics
Matches: 98, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
87 41 0.42
88 53 0.54
89 4 0.04
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (88 bp):
TATCTCTCTGAAGTTGCAGTGAAGCAGACAGAAAAAGCTAATCCTATCTCCTTGAAGTTGTAGCG
GAGCGAATTAAAATCACAGATCT
Found at i:46028535 original size:44 final size:43
Alignment explanation
Indices: 46028390--46028536 Score: 138
Period size: 44 Copynumber: 3.3 Consensus size: 43
46028380 AGGCTAATCC
* *
46028390 TATCTCCTGAAGTTGTAGCGGAGCGAATTAAAATCATAGATCT
1 TATCTCCTGAAGTTGTAGCGGAGCGGATTAAAATCACAGATCT
* * * * * *
46028433 TATCTCTCTGAAGTTGCAGTGGAGCAGA-CAGAAA-AAGCTA-ATCC
1 TATCTC-CTGAAGTTGTAGCGGAGCGGATTA-AAATCA-C-AGATCT
46028477 TATCTCCTTGAAGTTGTAGCGGAGCGGATTAAAATCACAGATCT
1 TATCTCC-TGAAGTTGTAGCGGAGCGGATTAAAATCACAGATCT
*
46028521 TATCTCTCTAAAGTTG
1 TATCTC-CTGAAGTTG
46028537 CAAAGAGCAG
Statistics
Matches: 80, Mismatches: 15, Indels: 17
0.71 0.13 0.15
Matches are distributed among these distances:
43 10 0.12
44 66 0.82
45 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
TATCTCCTGAAGTTGTAGCGGAGCGGATTAAAATCACAGATCT
Found at i:46028664 original size:45 final size:44
Alignment explanation
Indices: 46028599--46028765 Score: 130
Period size: 44 Copynumber: 3.8 Consensus size: 44
46028589 CTGAATAAAT
* *
46028599 GAATCTTATC-CTCCTGAAGTTGCAGTGGGGCAGATTGAAGATGAC
1 GAATCTTATCTC-CCTAAAGTTGCAGTAGGGCAGATT-AAGATGAC
*
46028644 GAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAA-A-G-C
1 GAATCTTATCTCCCTAAAGTTGCAGTAGGGCAGATTAAGATGAC
* * * * * *
46028685 CAATAATTCTATCTCCCTAAAGTTGTAGCAGGACAGATTAAAATGAC
1 GAAT--CT-TATCTCCCTAAAGTTGCAGTAGGGCAGATTAAGATGAC
* * *
46028732 -AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 GA-ATCTTATCTCCCTAAAGTTGCAGTAGGGCAGAT
46028766 CATATCTAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
41 4 0.04
42 1 0.01
43 9 0.09
44 46 0.46
45 33 0.33
46 3 0.03
47 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
GAATCTTATCTCCCTAAAGTTGCAGTAGGGCAGATTAAGATGAC
Found at i:46030568 original size:16 final size:15
Alignment explanation
Indices: 46030542--46030572 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
46030532 TCTTTCATGC
46030542 ATTTTTTTTATTTTT
1 ATTTTTTTTATTTTT
46030557 ATTTTATTTTATTTTT
1 ATTTT-TTTTATTTTT
46030573 TGTTTGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
ATTTTTTTTATTTTT
Found at i:46035951 original size:17 final size:17
Alignment explanation
Indices: 46035929--46035981 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
46035919 ATAGAAAGTC
*
46035929 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAA
* *
46035946 AAAGATATAGGTATAAA
1 AAAGATATGGGTATCAA
46035963 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
46035980 AA
1 AA
46035982 TCTAAGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.23
Consensus pattern (17 bp):
AAAGATATGGGTATCAA
Found at i:46041483 original size:23 final size:23
Alignment explanation
Indices: 46041448--46041492 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46041438 TGGAGTATAA
* *
46041448 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
46041471 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
46041493 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Done.