Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 160 of 161
Found at i:49933249 original size:66 final size:66
Alignment explanation
Indices: 49933143--49933268 Score: 243
Period size: 66 Copynumber: 1.9 Consensus size: 66
49933133 TAGCTTCGTA
49933143 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
1 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
49933208 T
66 T
*
49933209 AATATTAAATATTAATATTTACAGGCTTGGTTTACAAAAATAGGGTTTTGAAAATGTCAT
1 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCAT
49933269 TTTCAGCACT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.39
Consensus pattern (66 bp):
AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
T
Found at i:49946005 original size:225 final size:223
Alignment explanation
Indices: 49945614--49946066 Score: 852
Period size: 225 Copynumber: 2.0 Consensus size: 223
49945604 ATATTTGATA
49945614 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
1 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
* *
49945679 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATATATGAAGACGTGGG
66 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATACAGGAAGACGTGGG
49945744 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
131 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
49945809 CTAGGCATTGAGTGAAAAAAAAAAGAAAAG
196 CTAGGCATTGAGTG--AAAAAAAAGAAAAG
49945839 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
1 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
* *
49945904 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGTATTGGTATTGTTGTCTATACAGGAAGACGTGGG
66 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATACAGGAAGACGTGGG
49945969 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
131 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
49946034 CTAGGCATTGAGTGAAAAAAAAGAAAAG
196 CTAGGCATTGAGTGAAAAAAAAGAAAAG
49946062 AAAGA
1 AAAGA
49946067 TATGATTAGA
Statistics
Matches: 224, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
223 19 0.08
225 205 0.92
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (223 bp):
AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATACAGGAAGACGTGGG
TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
CTAGGCATTGAGTGAAAAAAAAGAAAAG
Found at i:49947437 original size:23 final size:23
Alignment explanation
Indices: 49947410--49947455 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
49947400 CATTTTGTAG
49947410 CAACCCTTTTAAATAAGAATTCT
1 CAACCCTTTTAAATAAGAATTCT
*
49947433 CAACCCTTTTAAATGAGAATTCT
1 CAACCCTTTTAAATAAGAATTCT
49947456 TCTTCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (23 bp):
CAACCCTTTTAAATAAGAATTCT
Found at i:49955066 original size:22 final size:21
Alignment explanation
Indices: 49955025--49955081 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
49955015 AAATATATAC
49955025 ATAATAA-TATTAA-AAT-AAA
1 ATAATAAGTA-TAATAATGAAA
49955044 ATAATAAGTGATAATAATGAAA
1 ATAATAAGT-ATAATAATGAAA
*
49955066 ATAATAGGTATAATAA
1 ATAATAAGTATAATAA
49955082 ATAATATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
21 11 0.33
22 11 0.33
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
ATAATAAGTATAATAATGAAA
Found at i:49955090 original size:21 final size:22
Alignment explanation
Indices: 49955037--49955091 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
49955027 AATAATATTA
49955037 AAATAAAATAATAAGTGATAAT
1 AAATAAAATAATAAGTGATAAT
*
49955059 -AATGAAAATAATAGGT-ATAAT
1 AAAT-AAAATAATAAGTGATAAT
*
49955080 AAATAATATAAT
1 AAATAAAATAAT
49955092 GATATATGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (22 bp):
AAATAAAATAATAAGTGATAAT
Found at i:49956761 original size:28 final size:27
Alignment explanation
Indices: 49956713--49956770 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
49956703 GTTTAGGTTA
49956713 TTTATTTGGGCTGAAGGTGTAAAATGGG
1 TTTATTTGGGCTGAAGGTGT-AAATGGG
*
49956741 TTTA-TTGGGCT-AATGGTTGTAACTGGG
1 TTTATTTGGGCTGAA-GG-TGTAAATGGG
49956768 TTT
1 TTT
49956771 GAATGTAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 2 0.07
27 18 0.67
28 7 0.26
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.41
Consensus pattern (27 bp):
TTTATTTGGGCTGAAGGTGTAAATGGG
Found at i:49959690 original size:23 final size:23
Alignment explanation
Indices: 49959660--49959705 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
49959650 CAAAGAACCA
49959660 TATCGAGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCACGAAGAGCC
49959683 TATCGAGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCACGAAGAGCC
49959706 ATATATCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (23 bp):
TATCGAGAAGCTCACGAAGAGCC
Found at i:49962542 original size:23 final size:23
Alignment explanation
Indices: 49962512--49962557 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
49962502 CAAAGAACCA
49962512 TATCGAGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCACGAAGAGCC
49962535 TATCGAGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCACGAAGAGCC
49962558 ATATATCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (23 bp):
TATCGAGAAGCTCACGAAGAGCC
Found at i:49964718 original size:18 final size:20
Alignment explanation
Indices: 49964691--49964739 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
49964681 TAATTAATAA
* *
49964691 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
49964712 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
49964732 T-AAATAAT
1 TAAAATAAT
49964740 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:49964728 original size:20 final size:21
Alignment explanation
Indices: 49964691--49964750 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
49964681 TAATTAATAA
*
49964691 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
49964712 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
49964732 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
49964751 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:49965285 original size:42 final size:42
Alignment explanation
Indices: 49965226--49965310 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
49965216 TTGCTTTCCG
49965226 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
1 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
49965268 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
1 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
49965310 T
1 T
49965311 AACCCTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.41
Consensus pattern (42 bp):
TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
Found at i:49965313 original size:20 final size:20
Alignment explanation
Indices: 49965246--49965313 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
49965236 ACGAGCTTCC
49965246 GTTAACTCATATGAGTTTCA
1 GTTAACTCATATGAGTTTCA
* * * * *
49965266 GTTTTAGCTCTTACGAGCTTCC
1 G--TTAACTCATATGAGTTTCA
49965288 GTTAACTCATATGAGTTTCA
1 GTTAACTCATATGAGTTTCA
49965308 GTTAAC
1 GTTAAC
49965314 CCTTTTGGGG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
20 21 0.58
22 15 0.42
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (20 bp):
GTTAACTCATATGAGTTTCA
Found at i:49965390 original size:39 final size:39
Alignment explanation
Indices: 49965344--49965483 Score: 235
Period size: 39 Copynumber: 3.6 Consensus size: 39
49965334 GCTCTGATAA
*
49965344 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
*
49965383 GCTTCAGTTAGCCTTCGGACTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
*
49965422 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
* *
49965461 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
49965484 AGATCATGAT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
Found at i:49981580 original size:31 final size:31
Alignment explanation
Indices: 49981545--49981603 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
49981535 ACAATTATTA
49981545 AACTATTCGAAAA-TTTTCATTTAAGTCATTG
1 AACTATTC-AAAAGTTTTCATTTAAGTCATTG
*
49981576 AACTATTCAAAAGTTTTTATTTAAGTCA
1 AACTATTCAAAAGTTTTCATTTAAGTCA
49981604 CTAGGCTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAGTCATTG
Found at i:49986957 original size:3 final size:3
Alignment explanation
Indices: 49986949--49986982 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
49986939 CCACATAGTA
49986949 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49986983 TCCGCATAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49987222 original size:15 final size:14
Alignment explanation
Indices: 49987202--49987248 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
49987192 TTTATCAGTA
49987202 AATAATATATAAAAT
1 AATAATAT-TAAAAT
49987217 AATAATATTGAAAAT
1 AATAATATT-AAAAT
* *
49987232 AATTATTTTAAAAT
1 AATAATATTAAAAT
49987246 AAT
1 AAT
49987249 TAAAAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 9 0.31
15 20 0.69
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AATAATATTAAAAT
Found at i:49987607 original size:5 final size:5
Alignment explanation
Indices: 49987597--49987629 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
49987587 CAAATTACTT
49987597 ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA
49987630 GAGGTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:49995762 original size:21 final size:21
Alignment explanation
Indices: 49995727--49995781 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
49995717 TTTAGTTTTC
49995727 GTTTGATGTCACTAAAATTAGTT
1 GTTTGAT-T-ACTAAAATTAGTT
* *
49995750 GTTTGTTTACTAAATTTAGTT
1 GTTTGATTACTAAAATTAGTT
49995771 GTTTGATTACT
1 GTTTGATTACT
49995782 CGTTATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 22 0.76
22 1 0.03
23 6 0.21
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.51
Consensus pattern (21 bp):
GTTTGATTACTAAAATTAGTT
Found at i:49999433 original size:14 final size:14
Alignment explanation
Indices: 49999410--49999439 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49999400 TTGAAAATAT
49999410 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
49999424 GTTGATTTGGATTG
1 GTTGAATTGGATTG
49999438 GT
1 GT
49999440 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:50003162 original size:23 final size:23
Alignment explanation
Indices: 50003119--50003163 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
50003109 ATATATCATC
50003119 AATAATAAAAATATAAATATTAA
1 AATAATAAAAATATAAATATTAA
* *
50003142 AATACATAACAAT-TAATTATTA
1 AATA-ATAAAAATATAAATATTA
50003164 CCGGACATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAATAAAAATATAAATATTAA
Found at i:50004451 original size:25 final size:24
Alignment explanation
Indices: 50004406--50004461 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
50004396 CCCTATTTTC
* * *
50004406 TCTTTTTCTTTCTTTTTTTTTACT
1 TCTTTTACTTTCATTTGTTTTACT
*
50004430 TCTTTTACGTTTCATTTGTTTTATT
1 TCTTTTAC-TTTCATTTGTTTTACT
*
50004455 TATTTTA
1 TCTTTTA
50004462 TGTTATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.11, C:0.12, G:0.04, T:0.73
Consensus pattern (24 bp):
TCTTTTACTTTCATTTGTTTTACT
Found at i:50009178 original size:14 final size:14
Alignment explanation
Indices: 50009155--50009184 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50009145 TTGAAAATAT
50009155 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
50009169 GTTGATTTGGATTG
1 GTTGAATTGGATTG
50009183 GT
1 GT
50009185 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:50010894 original size:17 final size:17
Alignment explanation
Indices: 50010872--50010915 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
50010862 ACAGGGAAGG
50010872 AAAGAAAGAAAAAGAGA
1 AAAGAAAGAAAAAGAGA
50010889 AAAGAAAGAAAAAGAGA
1 AAAGAAAGAAAAAGAGA
*
50010906 AAGGAAAGAA
1 AAAGAAAGAA
50010916 GAAAACAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAAAAGAGA
Found at i:50011415 original size:51 final size:51
Alignment explanation
Indices: 50011330--50011444 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 51
50011320 TTGTGTCGAC
* * *
50011330 TACTGTTACTGTTCCGGATTCGTTTCGAAGAGGTACTCTGTACTTTACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCTTACTGT
* *
50011381 TACTGTTACTGTTTCGGATTTGTTCCGAAAAGGTACTCTGTACCTTACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCTTACTGT
* *
50011432 TACTATTAATGTT
1 TACTGTTACTGTT
50011445 ACTGTTCCGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (51 bp):
TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCTTACTGT
Found at i:50011435 original size:57 final size:59
Alignment explanation
Indices: 50011370--50011510 Score: 180
Period size: 57 Copynumber: 2.4 Consensus size: 59
50011360 AGGTACTCTG
* * * *
50011370 TACT-TTACTGTTACTGTTACTGTTTCGGATTTGTTCCGAAAAGGTAC-TCTGTACC-T
1 TACTGTTACTATTAATGTTACTGTTCCGGATTTGTTCCGAAAAGGTACTTCTGTACCGC
** *
50011426 TACTGTTACTATTAATGTTACTGTTCCGGATTTGTTCCGATGAGGTACTTTGTGTACCGC
1 TACTGTTACTATTAATGTTACTGTTCCGGATTTGTTCCGAAAAGGTAC-TTCTGTACCGC
*
50011486 TACTGTTACTATTATTGTTACTGTT
1 TACTGTTACTATTAATGTTACTGTT
50011511 ACCGTTACTG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
56 4 0.05
57 38 0.52
59 7 0.10
60 24 0.33
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (59 bp):
TACTGTTACTATTAATGTTACTGTTCCGGATTTGTTCCGAAAAGGTACTTCTGTACCGC
Found at i:50011666 original size:18 final size:18
Alignment explanation
Indices: 50011643--50011677 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50011633 TATTAAAGAC
50011643 TGACTGCTACTGAATAAT
1 TGACTGCTACTGAATAAT
*
50011661 TGACTGTTACTGAATAA
1 TGACTGCTACTGAATAA
50011678 ATCATTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (18 bp):
TGACTGCTACTGAATAAT
Found at i:50011686 original size:18 final size:18
Alignment explanation
Indices: 50011645--50011691 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
50011635 TTAAAGACTG
* * *
50011645 ACTGCTACTGAATAATTG
1 ACTGTTACTGAATAAATC
50011663 ACTGTTACTGAATAAATC
1 ACTGTTACTGAATAAATC
*
50011681 ATTGTTACTGA
1 ACTGTTACTGA
50011692 TTAACCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (18 bp):
ACTGTTACTGAATAAATC
Found at i:50015154 original size:6 final size:6
Alignment explanation
Indices: 50015123--50015189 Score: 55
Period size: 6 Copynumber: 11.2 Consensus size: 6
50015113 ATAGAAGAAC
* * * * * *
50015123 AAGATG AAAATG AAGAT- AACGTTG AAGATG AATATG GAGATG GAGGTG
1 AAGATG AAGATG AAGATG AA-GATG AAGATG AAGATG AAGATG AAGATG
*
50015171 AAGGTG AAGATG AAGATG A
1 AAGATG AAGATG AAGATG A
50015190 TAATAATGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
5 2 0.04
6 45 0.92
7 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.34, T:0.19
Consensus pattern (6 bp):
AAGATG
Found at i:50018967 original size:20 final size:20
Alignment explanation
Indices: 50018942--50018981 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
50018932 TTTCAAAAAG
50018942 TTAGAAAAGATCAGACATGA
1 TTAGAAAAGATCAGACATGA
*
50018962 TTAGAAAAGATCGGACATGA
1 TTAGAAAAGATCAGACATGA
50018982 CTCACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (20 bp):
TTAGAAAAGATCAGACATGA
Found at i:50022023 original size:5 final size:5
Alignment explanation
Indices: 50022013--50022044 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
50022003 CTATCTGTGA
50022013 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
50022045 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:50022038 original size:9 final size:9
Alignment explanation
Indices: 50022014--50022044 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
50022004 TATCTGTGAA
50022014 AAATAAAAT
1 AAATAAAAT
50022023 AAAATAAAAT
1 -AAATAAAAT
50022033 AAATAAAAT
1 AAATAAAAT
50022042 AAA
1 AAA
50022045 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:50030650 original size:21 final size:22
Alignment explanation
Indices: 50030626--50030680 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
50030616 TATAATTTAC
*
50030626 ATAAATTTTTTTTGAAATT-TT
1 ATAAATTTTTTTTAAAATTATT
* *
50030647 ATAAAATTTTATTAAAATTATT
1 ATAAATTTTTTTTAAAATTATT
*
50030669 A-AGATTTTTTTT
1 ATAAATTTTTTTT
50030681 TTCAATTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
ATAAATTTTTTTTAAAATTATT
Found at i:50030845 original size:8 final size:9
Alignment explanation
Indices: 50030815--50030844 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50030805 TTTGAAACTT
50030815 TTTTATAAA
1 TTTTATAAA
50030824 TTTTATAAA
1 TTTTATAAA
50030833 TTTT-TAAA
1 TTTTATAAA
50030841 TTTT
1 TTTT
50030845 TGTAGAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTATAAA
Found at i:50031060 original size:3 final size:3
Alignment explanation
Indices: 50031052--50031082 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
50031042 TGTTTCAAGG
50031052 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
50031083 ATACTCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50031230 original size:29 final size:29
Alignment explanation
Indices: 50031198--50031266 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
50031188 TGAGAAATAT
* *
50031198 ATTATATATTTAATTTTTTTAAAAATTAA
1 ATTATAAATTTAATTATTTTAAAAATTAA
* *
50031227 ATTA-AAATTTTATTATTTTAAAGATTAA
1 ATTATAAATTTAATTATTTTAAAAATTAA
*
50031255 AATATAAATTTA
1 ATTATAAATTTA
50031267 TTGTATACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 23 0.70
29 10 0.30
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTATAAATTTAATTATTTTAAAAATTAA
Found at i:50046322 original size:72 final size:72
Alignment explanation
Indices: 50046205--50046348 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 72
50046195 TCGAGCACAT
* * * *
50046205 TGTCGTCCAAGCCATCCACTTTTAGCTAGAATACACTCATCTACATGGGGGACCACTAAGGGACT
1 TGTCGTCCAAGCCACCCACTTTTAGCTAGAACACACTCATCTACATAGGGGACCACTAAGAGACT
50046270 ACAAAGG
66 ACAAAGG
* *
50046277 TGTCGTCCAGGCCACCCACTTTTAGCTAGAACCCACTCATCTACATAGGGGACCACTAAGAGACT
1 TGTCGTCCAAGCCACCCACTTTTAGCTAGAACACACTCATCTACATAGGGGACCACTAAGAGACT
50046342 ACAAAGG
66 ACAAAGG
50046349 CGTAACAACT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (72 bp):
TGTCGTCCAAGCCACCCACTTTTAGCTAGAACACACTCATCTACATAGGGGACCACTAAGAGACT
ACAAAGG
Found at i:50055104 original size:13 final size:12
Alignment explanation
Indices: 50055081--50055112 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50055071 TTAATATAAC
50055081 GAAAAAGAAAGA
1 GAAAAAGAAAGA
50055093 GAAAAAGAAA-A
1 GAAAAAGAAAGA
50055104 G-AAAAGAAA
1 GAAAAAGAAA
50055113 ATAAGTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.40
11 2 0.10
12 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAAGA
Found at i:50061675 original size:13 final size:13
Alignment explanation
Indices: 50061618--50061683 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
50061608 TTTTATGTAT
*
50061618 AAATTTCTTTA-A
1 AAATATCTTTATA
50061630 AAATATCTTTATA
1 AAATATCTTTATA
* * * *
50061643 AAAAATATCTACTT
1 AAATATCTTTA-TA
50061657 AAATATCTTTATA
1 AAATATCTTTATA
50061670 AAATATCTTTATA
1 AAATATCTTTATA
50061683 A
1 A
50061684 GAAAAGGTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
12 10 0.23
13 24 0.56
14 9 0.21
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATATCTTTATA
Found at i:50064654 original size:56 final size:56
Alignment explanation
Indices: 50064592--50064707 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
50064582 ATATTTCTGG
50064592 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
1 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
*
50064648 TTTTGTTGTATGGTGTACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
1 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
50064704 TTTT
1 TTTT
50064708 CTTATTTTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.48
Consensus pattern (56 bp):
TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
Found at i:50068720 original size:30 final size:30
Alignment explanation
Indices: 50068655--50068729 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
50068645 AAATTTTAAA
*
50068655 TTAATAAA-GATAAAATTGTACTTTATCTCT
1 TTAA-AAATGATAAAATTGTAATTTATCTCT
* *
50068685 CTAAAAATGATAAAATTTTAATTTAATCT-T
1 TTAAAAATGATAAAATTGTAATTT-ATCTCT
* *
50068715 TTAAAATTTATAAAA
1 TTAAAAATGATAAAA
50068730 ATATAAACTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 3 0.08
30 30 0.81
31 4 0.11
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (30 bp):
TTAAAAATGATAAAATTGTAATTTATCTCT
Found at i:50072360 original size:60 final size:60
Alignment explanation
Indices: 50072250--50072400 Score: 239
Period size: 60 Copynumber: 2.5 Consensus size: 60
50072240 ATTTGACCTA
* * * *
50072250 AAAAAAGCTTAGGTACCAAATTAGAAAAAAAAATAGCAAGTTCAAGTATCAAATTGGACCC
1 AAAAAAGTTTAGGTACCAAATTAG-GAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
* *
50072311 AACAAAGTTTAGGTACCAAATTAGGAAAAAAATACCAAGTTCAATTATCAAATTAGACCC
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
50072371 AAAAAAGTTTAGGTACCAAATTAGGAAAAA
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAA
50072401 TGTCAAGTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
60 61 0.73
61 22 0.27
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (60 bp):
AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
Found at i:50072411 original size:30 final size:31
Alignment explanation
Indices: 50072375--50072452 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
50072365 AGACCCAAAA
* **
50072375 AAGTTTAGGTACCAAATT-AGGAAAAATGTC
1 AAGTTTAGATACCAAATTAAAAAAAAATGTC
50072405 AAGTTTAGATACCAAATTAAAAAAAAATGTC
1 AAGTTTAGATACCAAATTAAAAAAAAATGTC
* *
50072436 AAGTTCATATACCAAAT
1 AAGTTTAGATACCAAAT
50072453 ATTATATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 17 0.40
31 25 0.60
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.27
Consensus pattern (31 bp):
AAGTTTAGATACCAAATTAAAAAAAAATGTC
Found at i:50075010 original size:12 final size:12
Alignment explanation
Indices: 50074995--50075037 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
50074985 ATATTGTTAT
* *
50074995 TATTATTCCTAA
1 TATTATTACTAC
*
50075007 TATTATTAATAC
1 TATTATTACTAC
*
50075019 TATTATTTCTAC
1 TATTATTACTAC
50075031 TATTATT
1 TATTATT
50075038 GTTATTATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTATTACTAC
Found at i:50075175 original size:29 final size:29
Alignment explanation
Indices: 50075108--50075175 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
50075098 TTACTATTTT
50075108 TAGTATTATTATTATATGTAATATTAGTA
1 TAGTATTATTATTATATGTAATATTAGTA
* *
50075137 TAGGTTTTATTA-TATATGTACGTATATA-TA
1 TA-GTATTATTATTATATGTA-ATAT-TAGTA
50075167 TAGTATTAT
1 TAGTATTAT
50075176 CTTAATTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 16 0.48
30 15 0.45
31 2 0.06
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.51
Consensus pattern (29 bp):
TAGTATTATTATTATATGTAATATTAGTA
Found at i:50077021 original size:12 final size:13
Alignment explanation
Indices: 50076997--50077026 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
50076987 CTGGCCCACC
50076997 TATATTAATTTTT
1 TATATTAATTTTT
50077010 TATATT-ATTTTT
1 TATATTAATTTTT
50077022 TATAT
1 TATAT
50077027 ACTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATATTAATTTTT
Found at i:50077770 original size:13 final size:13
Alignment explanation
Indices: 50077752--50077799 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
50077742 AGTTTTTCAT
50077752 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
50077765 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
50077778 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
50077791 TGCTTTTGA
1 TGCTTTTGA
50077800 GGAGTATTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:50081056 original size:18 final size:19
Alignment explanation
Indices: 50081003--50081067 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
50080993 TACAAAATAA
50081003 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTT-AAAAAT
*
50081023 TCAAAATAAATTTAAAAA-
1 TCAAAATAATTTTAAAAAT
50081041 TCAAAAT-ATTTATAAAAAT
1 TCAAAATAATTT-TAAAAAT
50081060 TCTAAAAT
1 TC-AAAAT
50081068 TTATATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.08
18 13 0.32
19 7 0.17
20 17 0.43
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAT
Found at i:50081069 original size:18 final size:18
Alignment explanation
Indices: 50081001--50081072 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 18
50080991 AATACAAAAT
50081001 AATCAAAATAATTT-TCAAA
1 AATCAAAAT-ATTTAT-AAA
*
50081020 AATTCAAAATAAATT-TAAA
1 AA-TCAAAAT-ATTTATAAA
50081039 AATCAAAATATTTATAAA
1 AATCAAAATATTTATAAA
*
50081057 AATTCTAAA-ATTTATA
1 AA-TCAAAATATTTATA
50081073 TTTTTAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
17 3 0.06
18 20 0.43
19 12 0.26
20 12 0.26
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
AATCAAAATATTTATAAA
Found at i:50082652 original size:17 final size:16
Alignment explanation
Indices: 50082634--50082711 Score: 65
Period size: 17 Copynumber: 4.9 Consensus size: 16
50082624 CTTCACACCT
50082634 TTTTGTTTTCTTTTTC
1 TTTTGTTTTCTTTTTC
* *
50082650 TTTTATTTTCATATTTC
1 TTTTGTTTTC-TTTTTC
50082667 TTTTG--TT-TTTTTC
1 TTTTGTTTTCTTTTTC
* *
50082680 TTTTATTTTCATATTTC
1 TTTTGTTTTC-TTTTTC
50082697 TTTT-TTTTACTTTTT
1 TTTTGTTTT-CTTTTT
50082712 TATTTTGTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
13 9 0.18
15 4 0.08
16 17 0.35
17 19 0.39
ACGTcount: A:0.09, C:0.10, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTGTTTTCTTTTTC
Found at i:50082680 original size:30 final size:29
Alignment explanation
Indices: 50082639--50082717 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 29
50082629 CACCTTTTTG
*
50082639 TTTTCTTTTTCTTTTATTTTCATATTTCT
1 TTTTTTTTTTCTTTTATTTTCATATTTCT
50082668 TTTGTTTTTTTCTTTTATTTTCATATTTCT
1 TTT-TTTTTTTCTTTTATTTTCATATTTCT
*
50082698 TTTTTTTACTT-TTTTATTTT
1 TTTTTTT-TTTCTTTTATTTT
50082718 GTTCCTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 16 0.35
30 30 0.65
ACGTcount: A:0.10, C:0.10, G:0.01, T:0.78
Consensus pattern (29 bp):
TTTTTTTTTTCTTTTATTTTCATATTTCT
Found at i:50082752 original size:9 final size:9
Alignment explanation
Indices: 50082738--50082808 Score: 65
Period size: 9 Copynumber: 7.9 Consensus size: 9
50082728 AAATTTTATC
50082738 TTTTTATTT
1 TTTTTATTT
*
50082747 TTTTTACTT
1 TTTTTATTT
50082756 TTTTTA-TT
1 TTTTTATTT
*
50082764 TTTTT-CTT
1 TTTTTATTT
* *
50082772 ATTTCATTT
1 TTTTTATTT
*
50082781 TGTTTATTT
1 TTTTTATTT
50082790 TGTTTTATTT
1 T-TTTTATTT
50082800 TTTATTATT
1 TTT-TTATT
50082809 AACTTTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
8 12 0.24
9 25 0.50
10 13 0.26
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTTATTT
Found at i:50082781 original size:24 final size:24
Alignment explanation
Indices: 50082754--50082799 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
50082744 TTTTTTTTAC
*
50082754 TTTT-TTTATTTTTTTCTTATTTCA
1 TTTTGTTTATTTTGTT-TTATTTCA
50082778 TTTTGTTTATTTTGTTTTATTT
1 TTTTGTTTATTTTGTTTTATTT
50082800 TTTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (24 bp):
TTTTGTTTATTTTGTTTTATTTCA
Found at i:50082801 original size:34 final size:32
Alignment explanation
Indices: 50082730--50082808 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 32
50082720 TCCTTAATAA
* *
50082730 ATTTTATCTT-TTTATTTTTTTTACTTTTTTT
1 ATTTTTTCTTATTTATTTTGTTTACTTTTTTT
*
50082761 ATTTTTTTCTTATTTCATTTTGTTTATTTTGTTTT
1 A-TTTTTTCTTATTT-ATTTTGTTTACTTT-TTTT
*
50082796 ATTTTTTATTATT
1 ATTTTTTCTTATT
50082809 AACTTTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 1 0.03
32 8 0.20
33 3 0.08
34 23 0.57
35 5 0.12
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (32 bp):
ATTTTTTCTTATTTATTTTGTTTACTTTTTTT
Found at i:50082924 original size:28 final size:27
Alignment explanation
Indices: 50082812--50082932 Score: 74
Period size: 28 Copynumber: 4.4 Consensus size: 27
50082802 TATTATTAAC
* *
50082812 TTTAAAATGATACAATATAA-TATATTT
1 TTTAATATGATATAATATAATTAT-TTT
*
50082839 TTTAATTATGATATAATATAATTATGTGGTG
1 TTTAA-TATGATATAATATAATTAT-T--TT
* * *
50082870 TCTAATATCAT-T--T-T-ATTTTTTT
1 TTTAATATGATATAATATAATTATTTT
50082892 ATTTAATATGATATAATATAATATATTTT
1 -TTTAATATGATATAATATAAT-TATTTT
50082921 TTTAATTATGAT
1 TTTAA-TATGAT
50082933 TGGATTTTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
22 1 0.01
23 9 0.13
24 2 0.03
25 4 0.06
26 2 0.03
27 7 0.10
28 20 0.28
29 16 0.23
30 5 0.07
31 5 0.07
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (27 bp):
TTTAATATGATATAATATAATTATTTT
Found at i:50083943 original size:28 final size:28
Alignment explanation
Indices: 50083911--50083971 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
50083901 AGATAAACCA
50083911 ATCATAATTAAAAAATATATTATATTAT
1 ATCATAATTAAAAAATATATTATATTAT
50083939 ATCATAATTAAAAAATATATTATATTAT
1 ATCATAATTAAAAAATATATTATATTAT
50083967 ATCAT
1 ATCAT
50083972 TTTAAAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (28 bp):
ATCATAATTAAAAAATATATTATATTAT
Found at i:50084007 original size:10 final size:10
Alignment explanation
Indices: 50083994--50084027 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
50083984 ATATATTCTT
50083994 AATTATTTTA
1 AATTATTTTA
50084004 AATTATTTTA
1 AATTATTTTA
*
50084014 AATT-TTTAA
1 AATTATTTTA
50084023 AATTA
1 AATTA
50084028 ATTAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTATTTTA
Found at i:50084320 original size:397 final size:397
Alignment explanation
Indices: 50083587--50084381 Score: 1545
Period size: 397 Copynumber: 2.0 Consensus size: 397
50083577 AATTTTTTTA
*
50083587 ATATATTCTTAATTATTTTAAATTTTTTTAAAAATTTAAAATTAATTAAATATTAAGATATCATC
1 ATATATTCTTAATTATTTTAAATTATTTTAAAAATTTAAAATTAATTAAATATTAAGATATCATC
*
50083652 CACATAGCTATTTATGTATTGAAAAAATTCATCAATTTTGAGTAAAAAATAGATTTAAAAGTTAA
66 CACATAACTATTTATGTATTGAAAAAATTCATCAATTTTGAGTAAAAAATAGATTTAAAAGTTAA
50083717 GAAAAATGAAAAATTAAATGAATGAATAAAATAATTTTTTTAAATGCAATATATTTTACTAATAT
131 GAAAAATGAAAAATTAAATGAATGAATAAAATAATTTTTTTAAATGCAATATATTTTACTAATAT
50083782 TTGTTAATTATAATATTGGATTTTTAGAAAAATAGGATGAAATATTCATCACAATTAATACCTAT
196 TTGTTAATTATAATATTGGATTTTTAGAAAAATAGGATGAAATATTCATCACAATTAATACCTAT
50083847 CTTTAAAAGGTAAAAAAGCAATCATGGCCATATAATTCTCATTTAATACAAAAAAGATAAACCAA
261 CTTTAAAAGGTAAAAAAGCAATCATGGCCATATAATTCTCATTTAATACAAAAAAGATAAACCAA
*
50083912 TCATAATTAAAAAATATATTATATTATATCATAATTAAAAAATATATTATATTATATCATTTTAA
326 TCATAATTAAAAAAAATATTATATTATATCATAATTAAAAAATATATTATATTATATCATTTTAA
50083977 AGTTAAT
391 AGTTAAT
**
50083984 ATATATTCTTAATTATTTTAAATTATTTTAAATTTTTAAAATTAATTAAATATTAAGATATCATC
1 ATATATTCTTAATTATTTTAAATTATTTTAAAAATTTAAAATTAATTAAATATTAAGATATCATC
50084049 CACATAACTATTTATGTATTGAAAAAATTCATCAATTTTGAGTAAAAAATAGATTTAAAAGTTAA
66 CACATAACTATTTATGTATTGAAAAAATTCATCAATTTTGAGTAAAAAATAGATTTAAAAGTTAA
50084114 GAAAAATGAAAAATTAAATGAATGAATAAAATAATTTTTTTAAATGCAATATATTTTACTAATAT
131 GAAAAATGAAAAATTAAATGAATGAATAAAATAATTTTTTTAAATGCAATATATTTTACTAATAT
50084179 TTGTTAATTATAATATTGGATTTTTAGAAAAATAGGATGAAATATTCATCACAATTAATACCTAT
196 TTGTTAATTATAATATTGGATTTTTAGAAAAATAGGATGAAATATTCATCACAATTAATACCTAT
50084244 CTTTAAAAGGTAAAAAAGCAATCATGGCCATATAATTCTCATTTAATACAAAAAAGATAAACCAA
261 CTTTAAAAGGTAAAAAAGCAATCATGGCCATATAATTCTCATTTAATACAAAAAAGATAAACCAA
50084309 TCATAATTAAAAAAAATATTATATTATATCATAATTAAAAAATATATTATATTATATCATTTTAA
326 TCATAATTAAAAAAAATATTATATTATATCATAATTAAAAAATATATTATATTATATCATTTTAA
50084374 AGTTAAT
391 AGTTAAT
50084381 A
1 A
50084382 ATAAAAAATA
Statistics
Matches: 393, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
397 393 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (397 bp):
ATATATTCTTAATTATTTTAAATTATTTTAAAAATTTAAAATTAATTAAATATTAAGATATCATC
CACATAACTATTTATGTATTGAAAAAATTCATCAATTTTGAGTAAAAAATAGATTTAAAAGTTAA
GAAAAATGAAAAATTAAATGAATGAATAAAATAATTTTTTTAAATGCAATATATTTTACTAATAT
TTGTTAATTATAATATTGGATTTTTAGAAAAATAGGATGAAATATTCATCACAATTAATACCTAT
CTTTAAAAGGTAAAAAAGCAATCATGGCCATATAATTCTCATTTAATACAAAAAAGATAAACCAA
TCATAATTAAAAAAAATATTATATTATATCATAATTAAAAAATATATTATATTATATCATTTTAA
AGTTAAT
Found at i:50084340 original size:28 final size:28
Alignment explanation
Indices: 50084308--50084368 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
50084298 AGATAAACCA
50084308 ATCATAATTAAAAAAAATATTATATTAT
1 ATCATAATTAAAAAAAATATTATATTAT
*
50084336 ATCATAATTAAAAAATATATTATATTAT
1 ATCATAATTAAAAAAAATATTATATTAT
50084364 ATCAT
1 ATCAT
50084369 TTTAAAGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (28 bp):
ATCATAATTAAAAAAAATATTATATTAT
Found at i:50084403 original size:17 final size:17
Alignment explanation
Indices: 50084396--50084456 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
50084386 AAAATAAAAC
* *
50084396 AAAATAAACAAAATGAA
1 AAAATAAAAAAAATCAA
* *
50084413 ATAAGAAAAAAAATCAA
1 AAAATAAAAAAAATCAA
50084430 AAAAGTAAAAAAAAT-AA
1 AAAA-TAAAAAAAATCAA
50084447 AAAGATAAAA
1 AAA-ATAAAA
50084457 TTTATTAAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 26 0.72
18 10 0.28
ACGTcount: A:0.79, C:0.03, G:0.07, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAAAATCAA
Found at i:50084497 original size:23 final size:22
Alignment explanation
Indices: 50084471--50084546 Score: 55
Period size: 23 Copynumber: 3.1 Consensus size: 22
50084461 TTAAGGAACA
50084471 AAATA-AAAAAGTAAAAATAAAAG
1 AAATATAAAAA-TAAAAA-AAAAG
*
50084494 AAATATGAAAATAAAAAAAAACAAAAG
1 AAATAT---AA-AAATAAAAA-AAAAG
*
50084521 AAATATGAAAATAAAAGAAAAAG
1 AAATATAAAAATAAAA-AAAAAG
50084544 AAA
1 AAA
50084547 ACAAAAAGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
23 20 0.47
24 2 0.05
27 18 0.42
28 3 0.07
ACGTcount: A:0.78, C:0.01, G:0.09, T:0.12
Consensus pattern (22 bp):
AAATATAAAAATAAAAAAAAAG
Found at i:50084506 original size:17 final size:17
Alignment explanation
Indices: 50084484--50084540 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
50084474 TAAAAAAGTA
50084484 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
50084501 AAAAT---A-AAA-A--
1 AAAATAAAAGAAATATG
*
50084511 AAAACAAAAGAAATATG
1 AAAATAAAAGAAATATG
50084528 AAAATAAAAGAAA
1 AAAATAAAAGAAA
50084541 AAGAAAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
10 4 0.13
12 1 0.03
13 4 0.13
14 4 0.13
15 1 0.03
17 17 0.55
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:50084519 original size:27 final size:28
Alignment explanation
Indices: 50084477--50084547 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 28
50084467 AACAAAATAA
*
50084477 AAAAGTAAAAATAAAAGAAATATGAAAAT
1 AAAAG-AAAAACAAAAGAAATATGAAAAT
50084506 AAAA-AAAAACAAAAGAAATATGAAAAT
1 AAAAGAAAAACAAAAGAAATATGAAAAT
*
50084533 AAAAGAAAAAGAAAA
1 AAAAGAAAAACAAAA
50084548 CAAAAAGGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 26 0.67
28 9 0.23
29 4 0.10
ACGTcount: A:0.77, C:0.01, G:0.10, T:0.11
Consensus pattern (28 bp):
AAAAGAAAAACAAAAGAAATATGAAAAT
Found at i:50085981 original size:20 final size:18
Alignment explanation
Indices: 50085953--50086021 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 18
50085943 ATCGCAAAAT
*
50085953 AATTTAAAATCATTTTCAAA
1 AATTCAAAAT-ATTTT-AAA
*
50085973 AATTCAAAATAATTTTTAA
1 AATTCAAAAT-ATTTTAAA
* *
50085992 AAGTCAAAATATTTAGAAA
1 AATTCAAAATATTT-TAAA
50086011 AATTCCAAAAT
1 AATT-CAAAAT
50086022 TTATATTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 4 0.10
19 16 0.40
20 20 0.50
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTCAAAATATTTTAAA
Found at i:50088661 original size:34 final size:33
Alignment explanation
Indices: 50088577--50088668 Score: 82
Period size: 34 Copynumber: 2.7 Consensus size: 33
50088567 ACATCATCAC
50088577 TTAATAGT-AAAAATAAATAATATTTTTAATATTT
1 TTAATA-TAAAAAATAAA-AATATTTTTAATATTT
* * *
50088611 TTAATATAATATATAAAAAT-TTATTTATTTATTT
1 TTAATATAAAAAATAAAAATATT-TTTA-ATATTT
50088645 TTAAT-TAAAAAAATAAAATATATT
1 TTAATAT-AAAAAATAAAA-ATATT
50088669 CCGATTGTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
32 2 0.04
33 9 0.19
34 32 0.68
35 2 0.04
36 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (33 bp):
TTAATATAAAAAATAAAAATATTTTTAATATTT
Found at i:50097828 original size:12 final size:12
Alignment explanation
Indices: 50097813--50097839 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50097803 ATATATACAT
50097813 ATATAGAGAGAG
1 ATATAGAGAGAG
50097825 ATATAGAGAGAG
1 ATATAGAGAGAG
50097837 ATA
1 ATA
50097840 GCATTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.19
Consensus pattern (12 bp):
ATATAGAGAGAG
Found at i:50103407 original size:9 final size:9
Alignment explanation
Indices: 50103393--50103423 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
50103383 GGCTCAATTG
50103393 TTTTATTTA
1 TTTTATTTA
50103402 TTTTATTTTA
1 TTTTA-TTTA
50103412 TTTTATTTA
1 TTTTATTTA
50103421 TTT
1 TTT
50103424 AGATAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTATTTA
Found at i:50103726 original size:6 final size:6
Alignment explanation
Indices: 50103712--50103741 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
50103702 AAGTAAGTAC
*
50103712 AATATA AATACA AATACA AATACA AATACA
1 AATACA AATACA AATACA AATACA AATACA
50103742 TGTATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (6 bp):
AATACA
Found at i:50108287 original size:25 final size:25
Alignment explanation
Indices: 50108255--50108370 Score: 71
Period size: 24 Copynumber: 4.7 Consensus size: 25
50108245 TCTTCGTGAA
50108255 CTTCCTGATTAATGGCTCTCTAGAG
1 CTTCCTGATTAATGGCTCTCTAGAG
* * * *
50108280 CTTCCTGA-TACTGGCTCACTTGAAC
1 CTTCCTGATTAATGGCTCTCTAG-AG
* * * *
50108305 CTTTCTGA-TATTGGCTC-GTATGAT
1 CTTCCTGATTAATGGCTCTCTA-GAG
* *
50108329 CTTCCCG-TTAATGGCTTTCTAGAG
1 CTTCCTGATTAATGGCTCTCTAGAG
*
50108353 CTTTCT-ATTATATGGCTC
1 CTTCCTGATTA-ATGGCTC
50108371 GAAAGAGCTT
Statistics
Matches: 67, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
24 34 0.51
25 33 0.49
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (25 bp):
CTTCCTGATTAATGGCTCTCTAGAG
Found at i:50108377 original size:25 final size:25
Alignment explanation
Indices: 50108349--50108398 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
50108339 ATGGCTTTCT
*
50108349 AGAGCTTTCTATTATATG-GCTCGAA
1 AGAGCTTCCTATT-TATGTGCTCGAA
50108374 AGAGCTTCCTATTTATGTGCTCGAA
1 AGAGCTTCCTATTTATGTGCTCGAA
50108399 TGAGTATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (25 bp):
AGAGCTTCCTATTTATGTGCTCGAA
Found at i:50108408 original size:26 final size:25
Alignment explanation
Indices: 50108357--50108408 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
50108347 CTAGAGCTTT
*
50108357 CTATTATATGGCTCGAAAGAGCTTC
1 CTATTATATGGCTCGAAAGAGATTC
*
50108382 CTATT-TATGTGCTCGAATGAGTATTC
1 CTATTATATG-GCTCGAAAGAG-ATTC
50108408 C
1 C
50108409 CGAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 15 0.65
26 4 0.17
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (25 bp):
CTATTATATGGCTCGAAAGAGATTC
Found at i:50110771 original size:17 final size:18
Alignment explanation
Indices: 50110749--50110787 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
50110739 CAAAAAATAC
50110749 AAAACC-TTAAACCTTAA
1 AAAACCTTTAAACCTTAA
50110766 AAAACCTTTAAACCTTAA
1 AAAACCTTTAAACCTTAA
50110784 AAAA
1 AAAA
50110788 ACAAAGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAACCTTTAAACCTTAA
Found at i:50111459 original size:8 final size:7
Alignment explanation
Indices: 50111446--50111478 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
50111436 TATTTAAGTA
50111446 AAAAAAG
1 AAAAAAG
*
50111453 CAAAAA-
1 AAAAAAG
50111459 AAAAAAG
1 AAAAAAG
50111466 AAAAAAG
1 AAAAAAG
50111473 AAAAAA
1 AAAAAA
50111479 AGGTCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:50111901 original size:30 final size:31
Alignment explanation
Indices: 50111842--50111905 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
50111832 ACTTAATAAG
50111842 CAAATGCCTCTAAAATAATAAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATTAA
* *
50111873 CAAATGCCTTTAAAATAAT-AACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATTAA
50111903 CAA
1 CAA
50111906 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.23
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAAAAAAAATTAA
Found at i:50117598 original size:30 final size:30
Alignment explanation
Indices: 50117562--50117623 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
50117552 CTTATTTTAC
*
50117562 TGTTAATTTTGTTATTATTTTAAAGATATT
1 TGTTAATTTTGTTATTATTTTAAAGACATT
*
50117592 TGTTAATTTTGTTATTATTTTAGAGACATT
1 TGTTAATTTTGTTATTATTTTAAAGACATT
50117622 TG
1 TG
50117624 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGACATT
Found at i:50118045 original size:73 final size:73
Alignment explanation
Indices: 50117926--50118145 Score: 431
Period size: 73 Copynumber: 3.0 Consensus size: 73
50117916 CACCTCTAGC
50117926 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
1 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
50117991 ATAGTGAT
66 ATAGTGAT
50117999 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
1 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
50118064 ATAGTGAT
66 ATAGTGAT
*
50118072 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAATCGTATGTTTG
1 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
50118137 ATAGTGAT
66 ATAGTGAT
50118145 T
1 T
50118146 CATACTCCAT
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 146 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (73 bp):
TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
ATAGTGAT
Found at i:50118999 original size:47 final size:47
Alignment explanation
Indices: 50118930--50119023 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
50118920 GTTAATCAGA
50118930 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
1 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
50118977 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
1 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
50119024 ACTTGTTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (47 bp):
CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
Found at i:50119586 original size:31 final size:31
Alignment explanation
Indices: 50119550--50119609 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
50119540 TTTTATTTTA
* *
50119550 AAAGAGTAAATTAGTCTCTGTATGT-TAAATG
1 AAAGAGCAAATCAGTC-CTGTATGTATAAATG
*
50119581 AAAGAGCAAATCAGTCCTTTATGTATAAA
1 AAAGAGCAAATCAGTCCTGTATGTATAAA
50119610 AACTTCACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (31 bp):
AAAGAGCAAATCAGTCCTGTATGTATAAATG
Found at i:50123207 original size:46 final size:46
Alignment explanation
Indices: 50123155--50123381 Score: 339
Period size: 46 Copynumber: 4.9 Consensus size: 46
50123145 GTGTGCTCTC
*
50123155 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
50123201 TGATATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
50123247 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
50123293 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * * *
50123339 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
50123382 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:50123688 original size:16 final size:17
Alignment explanation
Indices: 50123667--50123699 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50123657 ATGATGGAGC
50123667 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
50123683 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
50123700 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:50126062 original size:30 final size:30
Alignment explanation
Indices: 50126028--50126088 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
50126018 TCCTTAACTC
50126028 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
50126058 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
50126088 A
1 A
50126089 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:50127519 original size:4 final size:4
Alignment explanation
Indices: 50127510--50127549 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
50127500 TCTTTTTCTC
*
50127510 TTTA TTTA TTTTA TTTA TTTA TTTTA CTTA TTTA TTTA TT
1 TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TT
50127550 ATTAACTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:50127526 original size:13 final size:13
Alignment explanation
Indices: 50127510--50127546 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
50127500 TCTTTTTCTC
50127510 TTTATTTATTTTA
1 TTTATTTATTTTA
50127523 TTTATTTATTTTA
1 TTTATTTATTTTA
*
50127536 CTTATTTATTT
1 TTTATTTATTT
50127547 ATTATTAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:50127532 original size:17 final size:18
Alignment explanation
Indices: 50127510--50127549 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
50127500 TCTTTTTCTC
*
50127510 TTTA-TTTATTTTATTTA
1 TTTATTTTATCTTATTTA
50127527 TTTATTTTA-CTTATTTA
1 TTTATTTTATCTTATTTA
50127544 TTTATT
1 TTTATT
50127550 ATTAACTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTTATCTTATTTA
Found at i:50127607 original size:38 final size:33
Alignment explanation
Indices: 50127565--50127638 Score: 85
Period size: 37 Copynumber: 2.1 Consensus size: 33
50127555 CTTTAAAAAG
50127565 TTTGAAATATATATTTGAAATATTTTATTAATATATAT
1 TTTGAAAT-TATATTTGAAA-ATTTTA--AATAT-TAT
* *
50127603 TTTGAAATTATTTTTTAAAATTTTAAATATTAT
1 TTTGAAATTATATTTGAAAATTTTAAATATTAT
50127636 TTT
1 TTT
50127639 TTAATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 6 0.18
34 5 0.15
36 6 0.18
37 9 0.26
38 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (33 bp):
TTTGAAATTATATTTGAAAATTTTAAATATTAT
Found at i:50127614 original size:26 final size:23
Alignment explanation
Indices: 50127570--50127656 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 23
50127560 AAAAGTTTGA
50127570 AATATATATTTGAAATATTTTATT
1 AATATATATTTGAAATATTTT-TT
50127594 AATATATATTTTGAAATTATTTTTT
1 AATATATA-TTTGAAA-TATTTTTT
50127619 AA-A-AT-TTT-AAATATTATTTT
1 AATATATATTTGAAATATT-TTTT
*
50127639 -TTA-ATATTT-AAATATTTT
1 AATATATATTTGAAATATTTT
50127657 AAACTTTCAA
Statistics
Matches: 57, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
19 4 0.07
20 12 0.21
21 13 0.23
23 2 0.04
24 9 0.16
25 11 0.19
26 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AATATATATTTGAAATATTTTTT
Found at i:50127620 original size:25 final size:25
Alignment explanation
Indices: 50127570--50127645 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 25
50127560 AAAAGTTTGA
50127570 AATATATA-TTTGAAA-TATTTTATT
1 AATATATATTTTGAAATTATTTT-TT
50127594 AATATATATTTTGAAATTATTTTTT
1 AATATATATTTTGAAATTATTTTTT
*
50127619 -A-A-A-ATTTTAAATATTATTTTTT
1 AATATATATTTTGAA-ATTATTTTTT
50127641 AATAT
1 AATAT
50127646 TTAAATATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.16
22 11 0.24
23 2 0.04
24 10 0.22
25 9 0.20
26 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (25 bp):
AATATATATTTTGAAATTATTTTTT
Found at i:50127694 original size:36 final size:38
Alignment explanation
Indices: 50127616--50127695 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 38
50127606 GAAATTATTT
* * *
50127616 TTTAAAATTTTAAATATTATTTTTTAATATTTAAATAT
1 TTTAAAATTTCAAATATTATTTATTAATATTTAAATAA
*
50127654 TTTAAACTTTCAAAT-TTA-TTATTAAT-TTTATAATAA
1 TTTAAAATTTCAAATATTATTTATTAATATTTA-AATAA
50127690 TTTAAA
1 TTTAAA
50127696 TATTATTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 4 0.11
36 17 0.46
37 3 0.08
38 13 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (38 bp):
TTTAAAATTTCAAATATTATTTATTAATATTTAAATAA
Found at i:50127703 original size:22 final size:21
Alignment explanation
Indices: 50127609--50127703 Score: 77
Period size: 22 Copynumber: 4.3 Consensus size: 21
50127599 ATATTTTGAA
50127609 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAA-TTTAAAT
*
50127631 ATTATTTTTTAATATTTAAAT
1 ATTATTTTTTAAAATTTAAAT
* * *
50127652 ATT-TTAAACTTTCAAATTT-ATT
1 ATTATT---TTTTAAAATTTAAAT
*
50127674 ATTAATTTTATAATAATTTAAAT
1 ATT-ATTTTTTAA-AATTTAAAT
50127697 ATTATTT
1 ATTATTT
50127704 AATTTGTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
20 2 0.04
21 13 0.23
22 27 0.47
23 13 0.23
24 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTATTTTTTAAAATTTAAAT
Found at i:50128036 original size:22 final size:23
Alignment explanation
Indices: 50127984--50128042 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
50127974 ATATCTTTAA
50127984 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAATCATAATT
*
50128006 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTA-AAAATCATAATT
50128027 AAATAATATTAAAAAT
1 AAATAATATTAAAAAT
50128043 ATTAACAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAATATTAAAAATCATAATT
Found at i:50128168 original size:31 final size:33
Alignment explanation
Indices: 50128131--50128198 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 33
50128121 TAATGTTTAA
50128131 AAAATAAAATTCAAAATTTTAAAA-ATA-ATT-T
1 AAAATAAAATTCAAAA-TTTAAAATATATATTAT
* *
50128162 AAAATAATATTTAAAATTTAAAATATATATTAT
1 AAAATAAAATTCAAAATTTAAAATATATATTAT
50128195 AAAA
1 AAAA
50128199 CATTTCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 7 0.22
31 17 0.53
32 3 0.09
33 5 0.16
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (33 bp):
AAAATAAAATTCAAAATTTAAAATATATATTAT
Found at i:50128179 original size:19 final size:21
Alignment explanation
Indices: 50128157--50128198 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
50128147 TTTTAAAAAT
50128157 AATTTAAAATA-ATATT-TAA
1 AATTTAAAATATATATTATAA
50128176 AATTTAAAATATATATTATAA
1 AATTTAAAATATATATTATAA
50128197 AA
1 AA
50128199 CATTTCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.52
20 5 0.24
21 5 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTTAAAATATATATTATAA
Found at i:50128231 original size:23 final size:23
Alignment explanation
Indices: 50128158--50128220 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
50128148 TTTAAAAATA
*
50128158 ATTTAAAATA-ATATT-T-AAA-
1 ATTTAAAATATACATTATAAAAC
*
50128177 ATTTAAAATATATATTATAAAAC
1 ATTTAAAATATACATTATAAAAC
* *
50128200 ATTTCAAATATACATTTTAAA
1 ATTTAAAATATACATTATAAA
50128221 TTTTTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 10 0.27
20 5 0.14
21 1 0.03
22 3 0.08
23 18 0.49
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTTAAAATATACATTATAAAAC
Found at i:50128258 original size:22 final size:21
Alignment explanation
Indices: 50128228--50128269 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50128218 AAATTTTTTA
*
50128228 AAATTAATAACAAAAAATAAAT
1 AAATAAATAA-AAAAAATAAAT
*
50128250 AAATAAATAAACAAAATAAA
1 AAATAAATAAAAAAAATAAA
50128270 ACAAGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAAATAAAAAAAATAAAT
Found at i:50128521 original size:22 final size:23
Alignment explanation
Indices: 50128469--50128521 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
50128459 ATATCTTTAA
50128469 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAATCATAATT
*
50128491 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTA-AAAATCATAATT
50128512 AAATAATATT
1 AAATAATATT
50128522 TACATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 9 0.35
22 13 0.50
23 4 0.15
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATAATATTAAAAATCATAATT
Found at i:50128588 original size:22 final size:22
Alignment explanation
Indices: 50128561--50128615 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
50128551 GAAAGTTTAA
50128561 AATATTT-AAATATTAAAAAAAT
1 AATATTTAAAAT-TTAAAAAAAT
*
50128583 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAAT
*
50128605 AAT-TTCAAAAT
1 AATATTTAAAAT
50128616 ATATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 7 0.23
22 19 0.63
23 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAAT
Found at i:50128687 original size:14 final size:15
Alignment explanation
Indices: 50128664--50128692 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50128654 TTTTAAAATT
50128664 AATAATAATAAATAA
1 AATAATAATAAATAA
50128679 AATAA-AATAAATAA
1 AATAATAATAAATAA
50128693 TGAGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:50129794 original size:6 final size:6
Alignment explanation
Indices: 50129783--50129817 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
50129773 GTTCTCCCCA
50129783 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
50129818 CCAACATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:50132309 original size:59 final size:57
Alignment explanation
Indices: 50132241--50132429 Score: 145
Period size: 59 Copynumber: 3.2 Consensus size: 57
50132231 ATTTTATTAA
50132241 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTTCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTT-TTTTATAGT
* * ** * *
50132300 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATTTTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-ATTTTTTTTATAGT
* * *
50132361 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTT-T-TTTTATAGT
50132420 ATCATATATT
1 ATCATATATT
50132430 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 16, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
54 13 0.13
55 6 0.06
56 7 0.07
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 7 0.07
65 10 0.10
66 11 0.11
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTTTTTTATAGT
Found at i:50132354 original size:66 final size:63
Alignment explanation
Indices: 50132268--50132475 Score: 184
Period size: 66 Copynumber: 3.3 Consensus size: 63
50132258 AAATATATTT
*
50132268 AATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTA-TT-AAAATTT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
50132333 G
63 G
* * * * **
50132334 AATATTAATTATTAAGAATTTTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTAA-AATTTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * *
50132388 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TAAAATT-T-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
50132453 G
63 G
50132454 AATATTAATTATTAAGAATTTT
1 AATATTAATTATTAA-AATTTT
50132476 ATTAAATTAT
Statistics
Matches: 108, Mismatches: 19, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.13
55 7 0.06
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 8 0.07
65 13 0.12
66 25 0.23
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAAATTTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:50132368 original size:120 final size:120
Alignment explanation
Indices: 50132230--50132522 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 120
50132220 AATTATTTTA
* * * *
50132230 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
50132293 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
50132350 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
50132415 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
50132470 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
50132523 TAAATATGAT
Statistics
Matches: 167, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
119 5 0.03
120 160 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:50132390 original size:15 final size:15
Alignment explanation
Indices: 50132355--50132406 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50132345 TTAAGAATTT
*
50132355 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50132369 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50132383 TATTTAATAATAAT-
1 TATTTAATTATAATA
50132397 TATGTTAATT
1 TAT-TTAATT
50132407 TATATTTTAT
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:50132488 original size:61 final size:61
Alignment explanation
Indices: 50132303--50132490 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
50132293 TTATAGTATC
50132303 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
50132364 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
50132422 C
61 T
50132423 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
50132484 ATATATT
1 ATATATT
50132491 TTAATTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.16
61 25 0.26
62 8 0.08
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:50132505 original size:16 final size:16
Alignment explanation
Indices: 50132484--50132525 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50132474 TTATTAAATT
*
50132484 ATATATTTTAATTATA
1 ATATATTTTAATAATA
50132500 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
50132515 AT-TATGTTTAA
1 ATATAT-TTTAA
50132526 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:50132510 original size:15 final size:15
Alignment explanation
Indices: 50132475--50132516 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50132465 TTAAGAATTT
*
50132475 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50132489 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50132503 TATTTAATAATAAT
1 TATTTAATTATAAT
50132517 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:50132666 original size:157 final size:157
Alignment explanation
Indices: 50132459--50132764 Score: 551
Period size: 157 Copynumber: 1.9 Consensus size: 157
50132449 ATAAGAATAT
*
50132459 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
50132524 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
50132589 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTCTGC
50132616 TAATTA-TAAGAATTTTATTAAATTATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
50132680 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
*
50132745 ATAATCATTTACCAAAACAA
130 ATAATAATTTACCAAAACAA
50132765 TTTTATGTTA
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
156 25 0.17
157 118 0.83
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGC
Found at i:50132892 original size:44 final size:45
Alignment explanation
Indices: 50132827--50132917 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
50132817 ACCTCTATTC
* * *
50132827 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
50132871 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
50132916 CA
1 CA
50132918 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:50132919 original size:16 final size:16
Alignment explanation
Indices: 50132898--50132966 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
50132888 GATTAGCTAT
50132898 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
50132914 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
50132931 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
50132947 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
50132963 TACA
1 TACA
50132967 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:50132940 original size:33 final size:32
Alignment explanation
Indices: 50132898--50132966 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
50132888 GATTAGCTAT
50132898 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
50132931 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
50132963 TACA
1 TACA
50132967 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:50136167 original size:16 final size:16
Alignment explanation
Indices: 50136146--50136213 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
50136136 TTTGGTTCGC
50136146 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
50136162 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
50136177 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
50136194 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
50136210 TGTA
1 TGTA
50136214 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:50136185 original size:32 final size:32
Alignment explanation
Indices: 50136146--50136213 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
50136136 TTTGGTTCGC
50136146 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
50136178 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
50136210 TGTA
1 TGTA
50136214 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:50136550 original size:157 final size:157
Alignment explanation
Indices: 50136343--50136652 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
50136333 CCCTTAGCAT
*
50136343 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * *
50136408 TAATGAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
50136473 TTTAATAAAATTCTTAATAATTACCAA
131 TTTAATAAAATTCTTAATAATTACCAA
* * * *
50136500 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
50136565 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
50136630 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
50136653 ATATTCTTAT
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAA
Found at i:50137550 original size:13 final size:13
Alignment explanation
Indices: 50137532--50137561 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
50137522 CAATCAGCTA
50137532 AATTCAGAAAAAC
1 AATTCAGAAAAAC
50137545 AATTCAGAAAAAC
1 AATTCAGAAAAAC
50137558 AATT
1 AATT
50137562 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:50141015 original size:6 final size:6
Alignment explanation
Indices: 50141006--50141034 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
50140996 TTGATGTTGG
50141006 GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
50141035 TGGGGAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:50144759 original size:22 final size:22
Alignment explanation
Indices: 50144732--50144775 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
50144722 AATATTAAAA
50144732 TATATATTTT-TAATTAATATTT
1 TATATATTTTATAATTAA-ATTT
50144754 TATATATTTTATAATTAAATTT
1 TATATATTTTATAATTAAATTT
50144776 AATTAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATATATTTTATAATTAAATTT
Found at i:50147090 original size:30 final size:31
Alignment explanation
Indices: 50147017--50147080 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
50147007 TTATAGAATT
* * *
50147017 GTCATTGAACTATTTAAAAGTTTTCATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTCAA
50147048 GTCACTGAACTATTCAAAAGTTTT-ATTCAA
1 GTCACTGAACTATTCAAAAGTTTTCATTCAA
50147078 GTC
1 GTC
50147081 CTTAGACTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTCATTCAA
Found at i:50155381 original size:60 final size:60
Alignment explanation
Indices: 50155250--50155405 Score: 179
Period size: 60 Copynumber: 2.5 Consensus size: 60
50155240 TTTGAGTTAT
* * * * *
50155250 TGTCTTTTGTTATTACCCTATGTGCTAGGTTTATTATGTGATTGCTTTTGATTTATTGCCATC
1 TGTCTTTTGTTACT--CC-ATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* *
50155313 CG-CGTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTGTTGCAATA
1 TGTC-TTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* * *
50155373 TGTCTTTTGTTACACTATGTGCTAGATTTATCA
1 TGTCTTTTGTTACTCCATGTGCTAGGTTTATCA
50155406 GTATGTTTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
60 66 0.82
61 3 0.04
62 1 0.01
63 10 0.12
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.49
Consensus pattern (60 bp):
TGTCTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
Found at i:50165410 original size:85 final size:85
Alignment explanation
Indices: 50165240--50165410 Score: 200
Period size: 85 Copynumber: 2.0 Consensus size: 85
50165230 GACGCTCCAT
* * * * * *
50165240 ATACTTGTGTTGTTGTAGGTGCGTTATAAGATTATCCAAAATTGGATTTTGACCTGATCTCTGAC
1 ATACTTGTGTTGTTGCAGGTACGTTACAAGATAATCCAAAATTGGATTATGACATGATCTCTGAC
* ***
50165305 ATTGGCTTACATATTTTGAA
66 ATTAGCTTACATACAGTGAA
* **
50165325 ATACTTGTGTTGTTGCAGGTATGTTACAAGATAATCCAATTTTGGATTATGACATGATCTCTGAC
1 ATACTTGTGTTGTTGCAGGTACGTTACAAGATAATCCAAAATTGGATTATGACATGATCTCTGAC
*
50165390 ATTATCTTATC-TACAGTGAA
66 ATTAGCTTA-CATACAGTGAA
50165410 A
1 A
50165411 GTGAGTCTTA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 70 0.99
86 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (85 bp):
ATACTTGTGTTGTTGCAGGTACGTTACAAGATAATCCAAAATTGGATTATGACATGATCTCTGAC
ATTAGCTTACATACAGTGAA
Found at i:50167778 original size:21 final size:20
Alignment explanation
Indices: 50167754--50167799 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
50167744 GAGTTCAACG
50167754 TATAATAGAGTAATATACCAT
1 TATAATA-AGTAATATACCAT
*
50167775 TATAA-ATGTAATATACCAT
1 TATAATAAGTAATATACCAT
50167794 T-TAATA
1 TATAATA
50167800 TATTACAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 1 0.04
21 5 0.22
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (20 bp):
TATAATAAGTAATATACCAT
Found at i:50170538 original size:63 final size:63
Alignment explanation
Indices: 50170352--50170539 Score: 243
Period size: 64 Copynumber: 3.0 Consensus size: 63
50170342 TTTATTCATT
* * *
50170352 TTTTTCGTAAATTGTAAATATGTATATTATTGATGTAAAAATACAATACAAACAATTTTTGCA
1 TTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACATTTTTTTCA
* * * * * *
50170415 ATTTTCTTAAATTGTAAAAAAAGTATATTATTGATATAAAAATACAATAAAAATATTTTTTTCA
1 TTTTTCGTAAATTGT-AAATAAGTATATTATTGATGTAAAAATACAATACAAACATTTTTTTCA
* * *
50170479 TTTTTCGTAAATTATAAATAAGTATATTATTGATGTAAAAAAATAA-ACAAACACTTTTTTT
1 TTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACA-TTTTTTT
50170540 ATAAAATGTG
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
62 5 0.05
63 47 0.45
64 53 0.50
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (63 bp):
TTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACATTTTTTTCA
Found at i:50172617 original size:16 final size:17
Alignment explanation
Indices: 50172592--50172629 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
50172582 ATATAAACAT
*
50172592 ATAATTTTAAAAA-TTA
1 ATAATATTAAAAACTTA
50172608 ATAATATTAAAAACTTA
1 ATAATATTAAAAACTTA
50172625 ATAAT
1 ATAAT
50172630 TATCTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAATATTAAAAACTTA
Done.