Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 110 of 325
Found at i:35555032 original size:29 final size:27
Alignment explanation
Indices: 35554921--35555032 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
35554911 CATGAGATTT
** * *
35554921 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
35554950 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
35554978 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
35555005 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
35555033 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:35558130 original size:39 final size:40
Alignment explanation
Indices: 35558035--35558216 Score: 216
Period size: 39 Copynumber: 4.7 Consensus size: 40
35558025 TCGAATGATG
* *
35558035 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
35558075 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
35558113 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
35558153 TCC-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
35558192 ACCGGGCTATGTCCCGAAGGC-TTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35558217 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
38 7 0.06
39 83 0.67
40 33 0.27
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:35558223 original size:78 final size:77
Alignment explanation
Indices: 35558087--35558248 Score: 195
Period size: 78 Copynumber: 2.1 Consensus size: 77
35558077 GGACTAAGAT
* **
35558087 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
*
35558151 AATCCGGTTAAGTC
65 AAT-CGGTTAAATC
* *
35558165 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGC-TTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTAGCT
* *
35558228 ATATCGGTTAAATT
64 AAATCGGTTAAATC
35558242 CCGAAGG
1 CCGAAGG
35558249 TACGTGATTC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
77 19 0.26
78 45 0.62
79 9 0.12
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCGGTTAAATC
Found at i:35589882 original size:21 final size:22
Alignment explanation
Indices: 35589856--35589914 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
35589846 GTTTTAAGAA
*
35589856 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
35589877 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
35589899 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
35589915 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:35589929 original size:26 final size:24
Alignment explanation
Indices: 35589885--35589934 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
35589875 ATTTGTTTTA
*
35589885 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
35589909 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
35589935 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:35600416 original size:44 final size:43
Alignment explanation
Indices: 35600266--35600430 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 43
35600256 AGCTCGTACA
* * *
35600266 ATGCCAACGTCCCAAACGTGGTCTTCCATGTAATCACATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACAAATCG
* * *
35600309 ATACC-ACTGTCCCAGACAG-GGTCTTACAC-CAAT--CAAATACG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTACACGTAATCACAAAT-CG
* ** * *
35600350 ATGCCGATATCCCAGACATGGTCTTACACGTAAATCACAAATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGT-AATCACAAATCG
35600394 ATGCCAACGTCCCAAACGTGGTCTTACACGTAATCAC
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAATCAC
35600431 CTATAAGAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
40 4 0.04
41 24 0.25
42 6 0.06
43 29 0.30
44 29 0.30
45 5 0.05
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACAAATCG
Found at i:35605817 original size:24 final size:24
Alignment explanation
Indices: 35605785--35605831 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
35605775 GTCGCACACG
35605785 GCTAAGACACACGCCTGTGTCCCA
1 GCTAAGACACACGCCTGTGTCCCA
35605809 GCTAAGACACACGCCTGTGTCCC
1 GCTAAGACACACGCCTGTGTCCC
35605832 TACCCGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.17
Consensus pattern (24 bp):
GCTAAGACACACGCCTGTGTCCCA
Found at i:35609563 original size:39 final size:39
Alignment explanation
Indices: 35609359--35609581 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
35609349 TTGAATGCTG
* * * * * *
35609359 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
35609399 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * * *
35609439 TCCGAGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
35609479 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
35609519 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
35609558 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35609582 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 38 0.25
40 104 0.68
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:35609601 original size:79 final size:80
Alignment explanation
Indices: 35609439--35609616 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
35609429 AGATACAAGT
* * * * *
35609439 TCCGAGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
35609504 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
35609519 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
35609583 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
35609598 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35609617 TATGTGATTT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 16 0.20
79 48 0.59
80 18 0.22
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:35613303 original size:39 final size:39
Alignment explanation
Indices: 35613256--35613507 Score: 384
Period size: 39 Copynumber: 6.5 Consensus size: 39
35613246 GTGTGAGATA
*
35613256 TATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
35613295 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
35613334 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
35613373 TATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* *
35613412 TATACCCGGGCTAAGTCCCGAAGGCACTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * *
35613451 TATATCC-GGCTAAGT-CCTAAGGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
35613487 TACATCCGGGCTTAAAGTCCC
1 TATATCCGGGC-T-AAGTCCC
35613508 ACATGCTTTG
Statistics
Matches: 196, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
36 16 0.08
37 10 0.05
38 9 0.05
39 159 0.81
40 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:35613353 original size:78 final size:78
Alignment explanation
Indices: 35613223--35613507 Score: 393
Period size: 78 Copynumber: 3.7 Consensus size: 78
35613213 AGGATTTTAA
* * * *
35613223 CCGGGCTAAGACCCGCAGGCCTT-GTG-TGAG-ATATATATCCGGGCTAATTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTG-GTAT-TATATCCGGGCTAAGTCCCGAAGGCATTC
35613285 GTGCTGGTGTTATAT
64 GTGCTGGTGTTATAT
35613300 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGT
35613365 GCTGGTGTTATAT
66 GCTGGTGTTATAT
* * * *
35613378 TCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATACCCGGGCTAAGTCCCGAAGGCACTCGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGT
35613443 GCTGGTGTTATAT
66 GCTGGTGTTATAT
* * *
35613456 CC-GGCTAAGT-CCTAAGGC-TTTGTGCTGGTATTACATCCGGGCTTAAAGTCCC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGC-T-AAGTCCC
35613508 ACATGCTTTG
Statistics
Matches: 189, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
75 20 0.11
76 8 0.04
77 35 0.19
78 122 0.65
79 4 0.02
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGT
GCTGGTGTTATAT
Found at i:35618269 original size:38 final size:38
Alignment explanation
Indices: 35618226--35618327 Score: 204
Period size: 38 Copynumber: 2.7 Consensus size: 38
35618216 TAGTTTTTGA
35618226 AATTTTAAGCTTAGTTTAAGTTAATTAACTAGTTTCAT
1 AATTTTAAGCTTAGTTTAAGTTAATTAACTAGTTTCAT
35618264 AATTTTAAGCTTAGTTTAAGTTAATTAACTAGTTTCAT
1 AATTTTAAGCTTAGTTTAAGTTAATTAACTAGTTTCAT
35618302 AATTTTAAGCTTAGTTTAAGTTAATT
1 AATTTTAAGCTTAGTTTAAGTTAATT
35618328 TATATTCTTG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (38 bp):
AATTTTAAGCTTAGTTTAAGTTAATTAACTAGTTTCAT
Found at i:35618326 original size:22 final size:22
Alignment explanation
Indices: 35618226--35618328 Score: 104
Period size: 18 Copynumber: 5.2 Consensus size: 22
35618216 TAGTTTTTGA
35618226 AATTTTAAGCTTAGTTTAAGTT
1 AATTTTAAGCTTAGTTTAAGTT
*
35618248 AA--TTAA-C-TAGTTTCA--T
1 AATTTTAAGCTTAGTTTAAGTT
35618264 AATTTTAAGCTTAGTTTAAGTT
1 AATTTTAAGCTTAGTTTAAGTT
*
35618286 AA--TTAA-C-TAGTTTCA--T
1 AATTTTAAGCTTAGTTTAAGTT
35618302 AATTTTAAGCTTAGTTTAAGTT
1 AATTTTAAGCTTAGTTTAAGTT
35618324 AATTT
1 AATTT
35618329 ATATTCTTGG
Statistics
Matches: 65, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
16 6 0.09
18 22 0.34
19 4 0.06
20 22 0.34
22 11 0.17
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.49
Consensus pattern (22 bp):
AATTTTAAGCTTAGTTTAAGTT
Found at i:35622680 original size:28 final size:28
Alignment explanation
Indices: 35622647--35622705 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
35622637 TCGATCATTC
35622647 ACTCTACAACTGGCTATTCACCATTTGA
1 ACTCTACAACTGGCTATTCACCATTTGA
35622675 ACTCTACAACTGGCTATTCACCATTTGA
1 ACTCTACAACTGGCTATTCACCATTTGA
35622703 ACT
1 ACT
35622706 TGTTTATGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (28 bp):
ACTCTACAACTGGCTATTCACCATTTGA
Found at i:35626209 original size:11 final size:11
Alignment explanation
Indices: 35626193--35626220 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
35626183 GATAGACAAC
35626193 ATTTTCACTTG
1 ATTTTCACTTG
35626204 ATTTTCACTTG
1 ATTTTCACTTG
35626215 ATTTTC
1 ATTTTC
35626221 CCTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.57
Consensus pattern (11 bp):
ATTTTCACTTG
Found at i:35638299 original size:21 final size:22
Alignment explanation
Indices: 35638259--35638308 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
35638249 TACAAATTAA
*
35638259 AACACAAACTTATAAAAACATAT
1 AACACAAACTAATAAAAACAT-T
35638282 AACACAAA-TAAT-AAAACATT
1 AACACAAACTAATAAAAACATT
35638302 AA-ACAAA
1 AACACAAA
35638309 AGTTGATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 5 0.19
20 3 0.12
21 7 0.27
22 3 0.12
23 8 0.31
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (22 bp):
AACACAAACTAATAAAAACATT
Found at i:35639054 original size:20 final size:21
Alignment explanation
Indices: 35639015--35639056 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35639005 CATTGATATA
*
35639015 CAAAAAGTATTAATACCTTTT
1 CAAAAAGTATCAATACCTTTT
* *
35639036 CAAAAAGTATCGATACTTTTT
1 CAAAAAGTATCAATACCTTTT
35639057 ACCAGGTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (21 bp):
CAAAAAGTATCAATACCTTTT
Found at i:35642973 original size:3 final size:3
Alignment explanation
Indices: 35642965--35642992 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
35642955 GTGCAATGTG
35642965 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
35642993 AAGAAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:35643367 original size:24 final size:23
Alignment explanation
Indices: 35643320--35643369 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
35643310 TAAAGTAAGT
*
35643320 TATATATTATTTTTTTAATATTA
1 TATATATGATTTTTTTAATATTA
35643343 TATATAATGATTTTTATTAAT-TTA
1 TATAT-ATGATTTTT-TTAATATTA
35643367 TAT
1 TAT
35643370 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATATATGATTTTTTTAATATTA
Found at i:35643507 original size:59 final size:58
Alignment explanation
Indices: 35643343--35643507 Score: 217
Period size: 59 Copynumber: 2.8 Consensus size: 58
35643333 TTTAATATTA
* * * *
35643343 TATATAATGATTTTTATTAATTTATATTTTAAAAATAATTATATTAAGAATGTTATTAAAT
1 TATAT-ATTATTTTTATTAAATTATA-TTTAATAATAATTATATTAA-AATATTATTAAAT
*
35643404 TATATATTA-TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATTATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATTATTAAAT
*
35643461 TATATCATTATTTTTATTAAATTATATTTAGTAATAATCT-TATTAAA
1 TATAT-ATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAA
35643508 TTTTAATAAC
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
57 17 0.18
58 22 0.23
59 46 0.49
60 4 0.04
61 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (58 bp):
TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATTATTAAAT
Found at i:35643726 original size:16 final size:16
Alignment explanation
Indices: 35643707--35643742 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
35643697 AACTATGTTA
35643707 CATTACA-TCTCTATTC
1 CATTACAGTCT-TATTC
35643723 CATTACAGTCTTATTC
1 CATTACAGTCTTATTC
35643739 CATT
1 CATT
35643743 CACCCTAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.25, C:0.28, G:0.03, T:0.44
Consensus pattern (16 bp):
CATTACAGTCTTATTC
Found at i:35644370 original size:22 final size:22
Alignment explanation
Indices: 35644342--35644385 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35644332 AAATTAGCAC
35644342 ACAAAAAATTCAAAGAATATTT
1 ACAAAAAATTCAAAGAATATTT
35644364 ACAAAAAATTCAAAGAATATTT
1 ACAAAAAATTCAAAGAATATTT
35644386 TCTCTCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (22 bp):
ACAAAAAATTCAAAGAATATTT
Found at i:35644750 original size:26 final size:25
Alignment explanation
Indices: 35644691--35644740 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
35644681 TGTGTATTTG
*
35644691 GAATATTTCACATATAAAAATACTT
1 GAATATTTCACATATAAAAATAATT
*
35644716 GAAATATTTTACATATAAAAATAAT
1 G-AATATTTCACATATAAAAATAAT
35644741 AATGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (25 bp):
GAATATTTCACATATAAAAATAATT
Found at i:35649056 original size:34 final size:38
Alignment explanation
Indices: 35648993--35649063 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 38
35648983 TACAGATGTC
*
35648993 TAGGATTATAAGTTATCTTCAAGGTTTAAATTTAGGGA
1 TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGGA
35649031 TAGGATTATAAG-T-T-TT-AAGGTTTAAATCTAGGG
1 TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGG
35649064 GTAGTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 16 0.50
35 2 0.06
36 1 0.03
37 1 0.03
38 12 0.38
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (38 bp):
TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGGA
Found at i:35656295 original size:40 final size:40
Alignment explanation
Indices: 35656211--35656467 Score: 315
Period size: 40 Copynumber: 6.5 Consensus size: 40
35656201 AAGCCAAGTA
* * *
35656211 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
35656249 CCTTCGGGACATAGCCCGAATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35656289 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
35656329 CCTTTGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
35656369 CCTTTGGGACTTAGCCCGGATGTAATAACTCGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
35656409 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
35656449 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35656468 TTATCATCCG
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 166 0.86
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35664542 original size:27 final size:27
Alignment explanation
Indices: 35664458--35664545 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
35664448 TAAGTTGTAG
* *
35664458 AATTTCCGAAATACCCCTGTAAGGTAGA
1 AATTACCGAAATACCCCTGTAGGGTA-A
* * *
35664486 AA-TATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAA
* *
35664512 AATTACCGAGATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAA
35664539 AATTACC
1 AATTACC
35664546 ATTTTGCCCC
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.04
27 45 0.92
28 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAA
Found at i:35665238 original size:27 final size:26
Alignment explanation
Indices: 35665194--35665245 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35665184 CTCGCTGCAA
*
35665194 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
35665221 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
35665246 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:35680094 original size:60 final size:60
Alignment explanation
Indices: 35679935--35680153 Score: 176
Period size: 60 Copynumber: 3.6 Consensus size: 60
35679925 AATAGAGGTT
* * * *
35679935 GCCACGAAGGCTTACCCT-TCTAGATTTTTTCCACAAA--TGCATTCATTTACATTCAATACCC
1 GCCACAAAGGCTT-TCCTGTCTAGA-TTTTTCCACAAAGGTGC--TCCTTTACATTCAATACGC
*** * * * * * **
35679996 ATGAGAAAGGCTTTCCTATCTAAAGTTTTGCCACAAAGGTGCTCCTTTACATTCAGTACTT
1 GCCACAAAGGCTTTCCTGTCTAGA-TTTTTCCACAAAGGTGCTCCTTTACATTCAATACGC
* * * *
35680057 GCCA-AAAGGCTTTCCTGTCCAGATTTTTTCCAAAAAGGTGTTCCTTTACATTTAATACGC
1 GCCACAAAGGCTTTCCTGTCTAGA-TTTTTCCACAAAGGTGCTCCTTTACATTCAATACGC
* *
35680117 GCCACAAAGGCTTTCTTGTCTAGAGTTTTCCACAAAG
1 GCCACAAAGGCTTTCCTGTCTAGATTTTTCCACAAAG
35680154 ACATTCCTTT
Statistics
Matches: 123, Mismatches: 31, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
60 63 0.51
61 57 0.46
63 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (60 bp):
GCCACAAAGGCTTTCCTGTCTAGATTTTTCCACAAAGGTGCTCCTTTACATTCAATACGC
Found at i:35680889 original size:28 final size:28
Alignment explanation
Indices: 35680851--35680978 Score: 100
Period size: 28 Copynumber: 4.6 Consensus size: 28
35680841 ATTCTTGGGA
*
35680851 AATACCTTTACTGATCATACTTTTGGCG
1 AATACCCTTACTGATCATACTTTTGGCG
*
35680879 AATACCCTTACT-AGTCATACTTTTGACG
1 AATACCCTTACTGA-TCATACTTTTGGCG
* * * *
35680907 GATAGCCTTACTGATCTTGCTTTTGGCTG
1 AATACCCTTACTGATCATACTTTTGGC-G
* * * *
35680936 -ATACCTTTATTGATCTTTCTTTTGGC-
1 AATACCCTTACTGATCATACTTTTGGCG
* *
35680962 AGATGCCCTTAATGATC
1 A-ATACCCTTACTGATC
35680979 TTGATAAATC
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.01
28 78 0.96
29 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (28 bp):
AATACCCTTACTGATCATACTTTTGGCG
Found at i:35681508 original size:20 final size:20
Alignment explanation
Indices: 35681479--35681545 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 20
35681469 TATCAGAATA
*
35681479 CCATAGAGGCTAACAAAATG
1 CCATAAAGGCTAACAAAATG
* *
35681499 CCATAAAGGCCATATCAAAATACA
1 CCATAAAGG-C-TAACAAAAT--G
35681523 CCATAAAGGCT-ACAAAAATG
1 CCATAAAGGCTAAC-AAAATG
35681543 CCA
1 CCA
35681546 CCCAGGAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
20 11 0.30
21 2 0.05
22 14 0.38
23 1 0.03
24 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.13, T:0.15
Consensus pattern (20 bp):
CCATAAAGGCTAACAAAATG
Found at i:35681541 original size:44 final size:42
Alignment explanation
Indices: 35681453--35681546 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
35681443 AGGCTAGCTG
* *
35681453 AATGCCACAAAAGCCATATCAGAATACCATAGAGGCTAACAA
1 AATGCCACAAAAGCCATATCAAAATACCATAAAGGCTAACAA
* *
35681495 AATGCCATAAAGGCCATATCAAAATACACCATAAAGGCT-ACAAA
1 AATGCCACAAAAGCCATATCAAAAT--ACCATAAAGGCTAAC-AA
35681539 AATGCCAC
1 AATGCCAC
35681547 CCAGGAACCC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
42 22 0.50
43 2 0.05
44 20 0.45
ACGTcount: A:0.48, C:0.24, G:0.13, T:0.15
Consensus pattern (42 bp):
AATGCCACAAAAGCCATATCAAAATACCATAAAGGCTAACAA
Found at i:35685673 original size:34 final size:35
Alignment explanation
Indices: 35685618--35685708 Score: 91
Period size: 34 Copynumber: 2.6 Consensus size: 35
35685608 TTGCATACTG
*
35685618 TACT-AAACTGGGCTAAGGCCCAAACTGCCT-CTGT
1 TACTGAAACTGGGCTAAGGCCCAAACTG-ATGCTGT
*
35685652 TACTGAAA-TGGGCTCAA-GCCCAGACTGATGCTGT
1 TACTGAAACTGGGCT-AAGGCCCAAACTGATGCTGT
**
35685686 TACTGAAAAAAGGGCTAAGGCCC
1 TACTG-AAACTGGGCTAAGGCCC
35685709 TAATCAGAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
33 1 0.02
34 28 0.58
35 10 0.21
36 9 0.19
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (35 bp):
TACTGAAACTGGGCTAAGGCCCAAACTGATGCTGT
Found at i:35687661 original size:32 final size:32
Alignment explanation
Indices: 35687625--35687690 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
35687615 GTATAATGAG
35687625 TAAGACCATTAACAAAAGACTCCATGACATCA
1 TAAGACCATTAACAAAAGACTCCATGACATCA
** *
35687657 TAAGACCATTAATGAAAGACTCTATGACATCA
1 TAAGACCATTAACAAAAGACTCCATGACATCA
35687689 TA
1 TA
35687691 CGATAGAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (32 bp):
TAAGACCATTAACAAAAGACTCCATGACATCA
Found at i:35688399 original size:18 final size:18
Alignment explanation
Indices: 35688354--35688409 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
35688344 CTTTTAAAAA
35688354 TATATCGATACC-TATTGAAT
1 TATATCGATACCATATT---T
*
35688374 TTTATCGATACCATATTT
1 TATATCGATACCATATTT
35688392 TATATCGATACCA-ATTT
1 TATATCGATACCATATTT
35688409 T
1 T
35688410 GTATTTTGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 5 0.15
18 13 0.39
20 11 0.33
21 4 0.12
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (18 bp):
TATATCGATACCATATTT
Found at i:35690703 original size:13 final size:13
Alignment explanation
Indices: 35690685--35690710 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35690675 ACCATTTATT
35690685 AATTGAAAACTAA
1 AATTGAAAACTAA
35690698 AATTGAAAACTAA
1 AATTGAAAACTAA
35690711 TAAAACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AATTGAAAACTAA
Found at i:35695967 original size:13 final size:13
Alignment explanation
Indices: 35695949--35695973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35695939 AACGAAGACA
35695949 GACACGGCCGTGC
1 GACACGGCCGTGC
35695962 GACACGGCCGTG
1 GACACGGCCGTG
35695974 TGCACCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:35701001 original size:17 final size:18
Alignment explanation
Indices: 35700979--35701015 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
35700969 ATGTTTTGAC
35700979 TTTATTTTT-AGTCACTT
1 TTTATTTTTGAGTCACTT
35700996 TTTATTTTTGAGTCACTT
1 TTTATTTTTGAGTCACTT
35701014 TT
1 TT
35701016 GACTTTGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.16, C:0.11, G:0.08, T:0.65
Consensus pattern (18 bp):
TTTATTTTTGAGTCACTT
Found at i:35708046 original size:47 final size:46
Alignment explanation
Indices: 35707977--35708103 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 46
35707967 AGATGTAAGC
*
35707977 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAAAATGAT-AG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCT-CAAAAT-ATGAG
* * * * *
35708022 TCAGTGTAAGACCATGTCTTGGACATGGAATCGACTTAAGATATGAG
1 -CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCAAAATATGAG
35708069 CTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 C-AGTGTAAGACCATGTCTAGGACATGGCATCGGC
35708104 ACCTTACCCA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
46 13 0.19
47 49 0.71
48 7 0.10
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCAAAATATGAG
Found at i:35708495 original size:54 final size:53
Alignment explanation
Indices: 35708319--35708496 Score: 230
Period size: 54 Copynumber: 3.3 Consensus size: 53
35708309 ACCCCAAACT
* * *
35708319 AGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATTGAGGGT-AAATGGTAATTCTATAAATCG
* * *
35708373 ATGGTAAAACGGTAATTCTGTAAATCGAGGGTAAATGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAATGGTAATTCTATAAATCG
* * * * *
35708426 AGGGTAAAACAGTAATTTTGTAAATTGAGGGTGAAACGCTAATCCTATAAATTG
1 AGGGTAAAACGGTAATTTTGTAAATTGAGGGT-AAATGGTAATTCTATAAATCG
*
35708480 AGGGTAAAATGGTAATT
1 AGGGTAAAACGGTAATT
35708497 CTACAAATCG
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
53 47 0.44
54 60 0.56
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.30
Consensus pattern (53 bp):
AGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAATGGTAATTCTATAAATCG
Found at i:35708504 original size:27 final size:27
Alignment explanation
Indices: 35708319--35708510 Score: 208
Period size: 27 Copynumber: 7.1 Consensus size: 27
35708309 ACCCCAAACT
*
35708319 AGGGTAAAACGGTAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* *
35708346 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
35708373 ATGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
35708400 AGGGT-AAATGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
35708426 AGGGTAAAACAGTAATTTTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * * * *
35708453 AGGGTGAAACGCTAATCCTATAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* **
35708480 AGGGTAAAATGGTAATTCTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
35708507 AGGG
1 AGGG
35708511 CATTTTAGTA
Statistics
Matches: 139, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
26 24 0.17
27 114 0.82
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:35710899 original size:25 final size:25
Alignment explanation
Indices: 35710871--35710940 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
35710861 CTCTTTTAAT
*
35710871 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
35710896 AACTGGGGCAAAGCCCTTTTCGGTC
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35710921 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
35710941 AGCATTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:35710992 original size:16 final size:16
Alignment explanation
Indices: 35710971--35711001 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35710961 AACCCAACCC
*
35710971 ATGCAGCATGTCATGT
1 ATGCAGAATGTCATGT
35710987 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
35711002 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:35711222 original size:27 final size:27
Alignment explanation
Indices: 35711143--35711357 Score: 306
Period size: 27 Copynumber: 8.0 Consensus size: 27
35711133 GGGGCAAAAT
* *
35711143 GGTAATTTTACCCTACA-AGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
35711169 GGTAATTCTACCCTTACAGGGGTATTTC
1 GGTAATTCTACCC-TACAGGGGTATTTC
*
35711197 GGTAATTCTACCCCACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35711224 GGTAATTCTACCGTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
35711251 GATAATTCAACCTTAAAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
35711278 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35711305 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
35711332 AGTAATTCTACTCTATAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
35711358 TTGTAATTTT
Statistics
Matches: 169, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
26 12 0.07
27 136 0.80
28 21 0.12
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:35711380 original size:27 final size:26
Alignment explanation
Indices: 35711350--35711417 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
35711340 TACTCTATAG
*
35711350 GGGTATTTTTGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* *
35711377 GGGTATTTTGGGAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACAA
35711403 GGGATATTTTGGTAA
1 GGG-TATTTTGGTAA
35711418 CTTTGGTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:35711381 original size:54 final size:54
Alignment explanation
Indices: 35711143--35711384 Score: 238
Period size: 54 Copynumber: 4.5 Consensus size: 54
35711133 GGGGCAAAAT
* ** *
35711143 GGTAATTTTACCCTACAA-GGTATTTCGGTAATTCTACCCTTACAGGGGTATTTC
1 GGTAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCC-TACAGGGGTATTTC
** * * *
35711197 GGTAATTCTACCCCACAGGGGTATTTCGGTAATTCTACCGTACAGGGGTATTTC
1 GGTAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * * *
35711251 GATAATTCAACCTTAA-AGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACC-AAACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
** * * * *
35711305 GGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACTCTATAGGGGTATTTT
1 GGTAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
35711359 TGTAATTTTA-CAAACCAAGGGTATTT
1 GGTAATTCTACCAAA-CAAGGGTATTT
35711385 TGGGAATTTT
Statistics
Matches: 163, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 4 0.02
54 138 0.85
55 21 0.13
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:35711381 original size:81 final size:78
Alignment explanation
Indices: 35711143--35711384 Score: 256
Period size: 81 Copynumber: 3.0 Consensus size: 78
35711133 GGGGCAAAAT
* * *
35711143 GGTAATTTTACCCTACA-AGGTATTTCGGTAATTCTACCCTTACAGGGGTATTTCGGTAATTCTA
1 GGTAATTCTACCCTACAGGGGTATTTC-GTAATTCTA-CCTTAAAGGGGTATTTCGGTAATTCTA
*
35711207 CCCCACAGGGGTATTTC
64 CACCA-A-GGGTATTTC
* *
35711224 GGTAATTCTACCGTACAGGGGTATTTCGATAATTCAACCTTAAAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCG-TAATTCTACCTTAAAGGGGTATTTCGGTAATTCTAC
35711289 -CCTACAGGGGTATTTC
65 ACC-A-A-GGGTATTTC
* * ** *
35711305 GGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTA-CTCTATAGGGGTATTTTTGTAATTTTA
1 GGTAATTCTACCCTACAGGGGTATTTC-GTAATTCTACCT-TAAAGGGGTATTTCGGTAATTCTA
35711369 CAAACCAAGGGTATTT
64 C--ACCAAGGGTATTT
35711385 TGGGAATTTT
Statistics
Matches: 142, Mismatches: 11, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
80 4 0.03
81 118 0.83
82 17 0.12
83 1 0.01
84 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (78 bp):
GGTAATTCTACCCTACAGGGGTATTTCGTAATTCTACCTTAAAGGGGTATTTCGGTAATTCTACA
CCAAGGGTATTTC
Found at i:35713698 original size:31 final size:31
Alignment explanation
Indices: 35713658--35713741 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
35713648 TTAGTCTTGA
*
35713658 CATAT-ACTCGGTTGAAGCCTTTCCATAAAT
1 CATATCACTCGGCTGAAGCCTTTCCATAAAT
** *
35713688 CATATCACTCGGCCAAAGCCTTTTCATAAAT
1 CATATCACTCGGCTGAAGCCTTTCCATAAAT
* *
35713719 TATATCACTGGGCTGAAGCCTTT
1 CATATCACTCGGCTGAAGCCTTT
35713742 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 5 0.11
31 40 0.89
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (31 bp):
CATATCACTCGGCTGAAGCCTTTCCATAAAT
Found at i:35713816 original size:42 final size:42
Alignment explanation
Indices: 35713769--35713856 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
35713759 CCTTAGGCCC
**
35713769 ATTTCAATATCACATGTAATGTCAATGGATGTATACAAGCCA
1 ATTTCAATATCACATGTAATGTCAATAAATGTATACAAGCCA
* *
35713811 ATTTCAATATCACATGTAATGTCAATAAATGTATGCAAGCCC
1 ATTTCAATATCACATGTAATGTCAATAAATGTATACAAGCCA
35713853 ATTT
1 ATTT
35713857 GGGGAGACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (42 bp):
ATTTCAATATCACATGTAATGTCAATAAATGTATACAAGCCA
Found at i:35714073 original size:25 final size:25
Alignment explanation
Indices: 35714004--35714073 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
35713994 CTCTTTTAAT
* *
35714004 AACTGGGGCAAAGCCCTTTCTGATA
1 AACTAGGGCAAAGCCCTTTTTGATA
*
35714029 AACTAGGGCAAAGCCCTTTTTGGTA
1 AACTAGGGCAAAGCCCTTTTTGATA
*
35714054 AACTAGGGCAGAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
35714074 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTTGATA
Found at i:35715031 original size:27 final size:27
Alignment explanation
Indices: 35714999--35715223 Score: 182
Period size: 27 Copynumber: 8.3 Consensus size: 27
35714989 TTGGTAAATC
*
35714999 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
* * **
35715026 TGCAAACCAATGGTATTTCTATAATTTT
1 TACAAACCAAGGGTATTTCGGTAA-TTT
* **
35715054 TAAAAACTCAAGGGTATTTCTATAATTT
1 TACAAAC-CAAGGGTATTTCGGTAATTT
** * * *
35715082 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
* ***
35715109 TATAAATTGAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
** *
35715136 TACAAA-CAAGGGGTATTTTTGTAAGTT
1 TACAAACCAA-GGGTATTTCGGTAATTT
* * *
35715163 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
* * *
35715190 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
35715217 TACAAAC
1 TACAAAC
35715224 TAGGGTAAAA
Statistics
Matches: 165, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 132 0.80
28 16 0.10
29 16 0.10
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCGGTAATTT
Found at i:35715073 original size:29 final size:28
Alignment explanation
Indices: 35715002--35715087 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 28
35714992 GTAAATCTAC
**
35715002 AAACCAAGGGTATTTC-AGTAA-TTTTGC
1 AAACCAAGGGTATTTCTA-TAATTTTTAA
*
35715029 AAACCAATGGTATTTCTATAATTTTTAA
1 AAACCAAGGGTATTTCTATAATTTTTAA
35715057 AAACTCAAGGGTATTTCTATAATTTTGTAA
1 AAAC-CAAGGGTATTTCTATAATTTT-TAA
35715087 A
1 A
35715088 TCAGGGGTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
27 18 0.35
28 9 0.18
29 20 0.39
30 4 0.08
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTATAATTTTTAA
Found at i:35715148 original size:54 final size:52
Alignment explanation
Indices: 35714987--35715230 Score: 220
Period size: 54 Copynumber: 4.5 Consensus size: 52
35714977 TACAATGGTG
* * * * * **
35714987 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGCAAACCAATGGTA
1 TTTTGGTAATTTTACAAA-CTAGGGTATTTCGGTAATTTTACAAA-CAGGGGTA
* * ** **
35715041 TTTCT-ATAATTTTTAAAAACTCAAGGGTATTTCTATAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAACT--AGGGTATTTCGGTAATTTTACAAA-CAGGGGTA
* *
35715097 TTTTGGTAATTTTATAAATTGAGGGTATTTCGGTAATTTTACAAACAAGGGGTA
1 TTTTGGTAATTTTACAAACT-AGGGTATTTCGGTAATTTTACAAAC-AGGGGTA
* * *
35715151 TTTTTGTAAGTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACTA-GGGTATTTCGGTAATTTTACAAAC-AGGGGTA
35715205 TTTTGGTAATTTTACAAACTAGGGTA
1 TTTTGGTAATTTTACAAACTAGGGTA
35715231 AAACGGTAAT
Statistics
Matches: 156, Mismatches: 27, Indels: 15
0.79 0.14 0.08
Matches are distributed among these distances:
53 7 0.04
54 99 0.63
55 17 0.11
56 33 0.21
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (52 bp):
TTTTGGTAATTTTACAAACTAGGGTATTTCGGTAATTTTACAAACAGGGGTA
Found at i:35715224 original size:27 final size:27
Alignment explanation
Indices: 35715090--35715228 Score: 208
Period size: 27 Copynumber: 5.1 Consensus size: 27
35715080 TTTGTAAATC
*
35715090 AGGGGTATTTTGGTAATTTTATAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
35715116 TGAGGGTATTTCGGTAATTTTACAAACA
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
35715144 AGGGGTATTTTTGTAAGTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
35715171 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
35715198 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
35715225 AGGG
1 AGGG
35715229 TAAAACGGTA
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 98 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:35715293 original size:27 final size:27
Alignment explanation
Indices: 35715225--35715417 Score: 192
Period size: 27 Copynumber: 7.1 Consensus size: 27
35715215 TTTACAAACT
*
35715225 AGGGTAAAACGGTAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* * *
35715252 AAGGT-AAACTAGTAATTTTGTAAATCG
1 AGGGTAAAAC-GGTAATTCTGTAAATCG
*
35715279 AAGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
35715306 AGGGTAAAATGGTAATTCTATAAATCT
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * * *
35715333 ATGGTAAAACGATAATTTTGCAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
35715360 AGGGTGAAACGGTAATTCTATAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* **
35715387 AGGGTAAAATGGTAATTCTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
35715414 AGGG
1 AGGG
35715418 CATTTCAGTA
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.03
27 128 0.93
28 5 0.04
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:35715339 original size:81 final size:82
Alignment explanation
Indices: 35715225--35715412 Score: 247
Period size: 81 Copynumber: 2.3 Consensus size: 82
35715215 TTTACAAACT
* * * * *
35715225 AGGGTAAAACGGTAATTTTGTAAA-CTGAAGGT-AAACTAGTAATTTTGTAAATCGAAGGTAAAA
1 AGGGTAAAATGGTAATTCTATAAATCTGAAGGTAAAACGA-TAATTTTGCAAATCGAAGGTAAAA
*
35715288 CGGTAATTCTGTAAATCG
65 CGGTAATTCTATAAATCG
* * *
35715306 AGGGTAAAATGGTAATTCTATAAATCT-ATGGTAAAACGATAATTTTGCAAATCGAGGGTGAAAC
1 AGGGTAAAATGGTAATTCTATAAATCTGAAGGTAAAACGATAATTTTGCAAATCGAAGGTAAAAC
*
35715370 GGTAATTCTATAAATTG
66 GGTAATTCTATAAATCG
*
35715387 AGGGTAAAATGGTAATTCTACAAATC
1 AGGGTAAAATGGTAATTCTATAAATC
35715413 GAGGGCATTT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
81 87 0.93
82 7 0.07
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (82 bp):
AGGGTAAAATGGTAATTCTATAAATCTGAAGGTAAAACGATAATTTTGCAAATCGAAGGTAAAAC
GGTAATTCTATAAATCG
Found at i:35717615 original size:25 final size:25
Alignment explanation
Indices: 35717582--35717676 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
35717572 CTCTTTTAAT
*
35717582 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGGTA
35717607 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGGTA
35717632 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGGTA
* *
35717657 AATTGGGGCATAA-CCCTTTT
1 AACTAGGGCA-AAGCCCTTTT
35717677 AGCACTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 64 0.97
26 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGGTA
Found at i:35717908 original size:27 final size:27
Alignment explanation
Indices: 35717878--35718153 Score: 290
Period size: 27 Copynumber: 10.3 Consensus size: 27
35717868 AGGGGCAAAA
* * *
35717878 TGGTAATTTTACCCTATAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
35717905 TGGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
35717932 TGGTAATTCTACCCTCCAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
35717959 CGATAATTCTACCCT-CAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
** *
35717985 CAGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
35718012 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
35718039 CT-GTAATTCTACCTTATAGGGGTATTT
1 -TGGTAATTCTACCCTACAGGGGTATTT
** *
35718066 CAGT-ATTCTACCCTACAGGGGTGTTT
1 TGGTAATTCTACCCTACAGGGGTATTT
** *
35718092 CAGTAATTCTACTCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* ** *
35718119 TGGTAATTTTA-CAAACCAAGGGTATTT
1 TGGTAATTCTACCCTA-CAGGGGTATTT
35718146 TGGTAATT
1 TGGTAATT
35718154 TTACAAACTA
Statistics
Matches: 215, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
26 48 0.22
27 167 0.78
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:35718006 original size:53 final size:54
Alignment explanation
Indices: 35717880--35718118 Score: 322
Period size: 53 Copynumber: 4.5 Consensus size: 54
35717870 GGGCAAAATG
* * * * * **
35717880 GTAATTTTACCCTATAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
**
35717934 GTAATTCTACCCTCCAGGGGTATTTCGATAATTCTACCCT-CAGGGGTATTTCA
1 GTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
*
35717987 GTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCT
1 GTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* *
35718041 GTAATTCTACCTTATAGGGGTATTTC-AGT-ATTCTACCCTACAGGGGTGTTTCA
1 GTAATTCTACCCTATAGGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCA
* *
35718094 GTAATTCTACTCTACAGGGGTATTT
1 GTAATTCTACCCTATAGGGGTATTT
35718119 TGGTAATTTT
Statistics
Matches: 165, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
53 93 0.56
54 72 0.44
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (54 bp):
GTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
Found at i:35718008 original size:80 final size:81
Alignment explanation
Indices: 35717880--35718126 Score: 313
Period size: 80 Copynumber: 3.1 Consensus size: 81
35717870 GGGCAAAATG
* * * ** * *
35717880 GTAATTTTACCCTATAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
*
35717945 CTCCAGGGGTATTTC-
66 CTACAGGGGTATTTCT
* *
35717960 GATAATTCTACCCT-CAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTAC
1 G-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
35718024 CCTACAGGGGTATTTCT
65 CCTACAGGGGTATTTCT
* * * * *
35718041 GTAATTCTACCTTATAGGGGTATTTCAGT-ATTCTACCCTACAGGGGTGTTTCAGTAATTCTACT
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
35718105 CTACAGGGGTATTT-T
66 CTACAGGGGTATTTCT
35718120 GGTAATT
1 -GTAATT
35718127 TTACAAACCA
Statistics
Matches: 146, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.01
80 119 0.82
81 26 0.18
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
CTACAGGGGTATTTCT
Found at i:35718142 original size:107 final size:107
Alignment explanation
Indices: 35717880--35718153 Score: 349
Period size: 107 Copynumber: 2.6 Consensus size: 107
35717870 GGGCAAAATG
* * *
35717880 GTAATTTTACCCTATAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACC
*
35717945 CTCCAGGGGTATTTCGATAATTCTACCCTCAGGGGTATTTCA
66 CTACAGGGGTATTTCGATAATTCTACCCTCAGGGGTATTTCA
* * * *
35717987 GTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCT-GTAATTCTAC
1 GTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTT-TGGTAATTCTAC
* * *
35718051 CTTATAGGGGTATTTC-AGT-ATTCTACCCTACAGGGGTGTTTCA
65 CCTACAGGGGTATTTCGA-TAATTCTACCCT-CAGGGGTATTTCA
* * **
35718094 GTAATTCTACTCTACAGGGGTATTTTGGTAATTTTA-CAAACCAAGGGTATTTTGGTAATT
1 GTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTA-CAAGGGTATTTTGGTAATT
35718154 TTACAAACTA
Statistics
Matches: 145, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
106 14 0.10
107 130 0.90
108 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (107 bp):
GTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACC
CTACAGGGGTATTTCGATAATTCTACCCTCAGGGGTATTTCA
Found at i:35718154 original size:27 final size:26
Alignment explanation
Indices: 35718111--35718178 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 26
35718101 TACTCTACAG
35718111 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
35718138 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACAA
35718164 GGGATATTTTGGTAA
1 GGG-TATTTTGGTAA
35718179 CTTTGGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 5 0.13
27 34 0.87
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:35722717 original size:15 final size:16
Alignment explanation
Indices: 35722690--35722719 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35722680 TCCTTGTCGC
35722690 TTTAAATTTATATATA
1 TTTAAATTTATATATA
35722706 TTTAAA-TTATATAT
1 TTTAAATTTATATAT
35722720 TGAAATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAATTTATATATA
Found at i:35726102 original size:52 final size:51
Alignment explanation
Indices: 35726021--35726120 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 51
35726011 ACCTTTTCAT
* *
35726021 ATGTTAACTCTTTCAAGGTAACAACCTTTTCAAGCTTTTCATTTGATATTGG
1 ATGTTAACCCTTTCAAGGTAACAACCTTTTCAA-CCTTTCATTTGATATTGG
* * *
35726073 ATGTTAACCCTTTTAGGGTAACAATCTTTTCAACCTTTCATTTGATAT
1 ATGTTAACCCTTTCAAGGTAACAACCTTTTCAACCTTTCATTTGATAT
35726121 CCGTCTCAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 14 0.33
52 29 0.67
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (51 bp):
ATGTTAACCCTTTCAAGGTAACAACCTTTTCAACCTTTCATTTGATATTGG
Found at i:35733789 original size:20 final size:19
Alignment explanation
Indices: 35733747--35733790 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
35733737 CAAATATATT
* *
35733747 TAAAAACATAAAAAAATAT
1 TAAAAAAATAAAAAAATAC
*
35733766 TAAAAAAATAAAAATGATAC
1 TAAAAAAATAAAAA-AATAC
35733786 TAAAA
1 TAAAA
35733791 CAATTCTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (19 bp):
TAAAAAAATAAAAAAATAC
Found at i:35739255 original size:34 final size:34
Alignment explanation
Indices: 35739180--35739260 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
35739170 GCATGACTAT
* * *
35739180 TACTGATACTATGATGGGCTAAGTCCCTAATGCG
1 TACTGATACTGTAATGGGCTAAGTCCCTAATGCA
*
35739214 TACTGATACTGTAATGGGCTAAG-CCCTACTGCA
1 TACTGATACTGTAATGGGCTAAGTCCCTAATGCA
*
35739247 TATTTGATACTGTA
1 TA-CTGATACTGTA
35739261 TAGAGATAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
33 10 0.24
34 31 0.76
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (34 bp):
TACTGATACTGTAATGGGCTAAGTCCCTAATGCA
Found at i:35742232 original size:56 final size:56
Alignment explanation
Indices: 35742165--35742274 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
35742155 AAAATTAAGT
*
35742165 ATAAATTTTAAATAACTAATTCCAATTATAGTAAACATACACATTTGGGCCTTATG
1 ATAAATTTTAAATAACTAATTCCAATTATAGCAAACATACACATTTGGGCCTTATG
*
35742221 ATAAATTTTAAATAACTAATTCTAATTATAGCAAACATACACATTTGGGCCTTA
1 ATAAATTTTAAATAACTAATTCCAATTATAGCAAACATACACATTTGGGCCTTA
35742275 AATTGAGTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (56 bp):
ATAAATTTTAAATAACTAATTCCAATTATAGCAAACATACACATTTGGGCCTTATG
Found at i:35743899 original size:20 final size:20
Alignment explanation
Indices: 35743841--35743899 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
35743831 GGCACGATTG
* * * *
35743841 TGCAATCAAAGGTATCGAAG
1 TGCAAACAAAGGCATCAAAA
* * *
35743861 TGCAAATAAAGACACCAAAA
1 TGCAAACAAAGGCATCAAAA
35743881 TGCAAACAAAGGCATCAAA
1 TGCAAACAAAGGCATCAAA
35743900 GTGTAATCCC
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.51, C:0.19, G:0.17, T:0.14
Consensus pattern (20 bp):
TGCAAACAAAGGCATCAAAA
Found at i:35746777 original size:29 final size:29
Alignment explanation
Indices: 35746744--35746801 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
35746734 AAAATGATGG
35746744 AAAACTCTTTTTCTAGGGACCAAGTGATT
1 AAAACTCTTTTTCTAGGGACCAAGTGATT
35746773 AAAACTCTTTTTCTAGGGACCAAGTGATT
1 AAAACTCTTTTTCTAGGGACCAAGTGATT
35746802 GTTGTAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (29 bp):
AAAACTCTTTTTCTAGGGACCAAGTGATT
Found at i:35756200 original size:40 final size:40
Alignment explanation
Indices: 35756151--35756253 Score: 170
Period size: 40 Copynumber: 2.6 Consensus size: 40
35756141 GCTACTCACT
35756151 CAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
1 CAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
* * *
35756191 CAATGCCTTCGGGACTTAGCTCGGATATAGTAGCTCGCAC
1 CAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
*
35756231 AAATGCCTTCGGGACATAGCCCG
1 CAATGCCTTCGGGACATAGCCCG
35756254 AAACTAGTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
CAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
Found at i:35756275 original size:40 final size:38
Alignment explanation
Indices: 35756135--35756293 Score: 149
Period size: 40 Copynumber: 4.0 Consensus size: 38
35756125 GATTTAACCG
* *
35756135 GATATAGCTACTCACTC-AATGCCTTCGGGACATAGCCC
1 GATATAG-TACTCGCACAAATGCCTTCGGGACATAGCCC
* * *
35756173 GGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCTCG
1 -GATATAGT-ACTCGCACAAATGCCTTCGGGACATAGC-CC
35756214 GATATAGTAGCTCGCACAAATGCCTTCGGGACATAGCCC
1 GATATAGTA-CTCGCACAAATGCCTTCGGGACATAGCCC
* * ** * *
35756253 GAAACTAGTCACTAGCGGAAATGCCTTCGAGACTTAGCCC
1 GATA-TAGT-ACTCGCACAAATGCCTTCGGGACATAGCCC
35756293 G
1 G
35756294 GTTATCATCC
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 18 0.18
40 80 0.79
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (38 bp):
GATATAGTACTCGCACAAATGCCTTCGGGACATAGCCC
Found at i:35756276 original size:80 final size:78
Alignment explanation
Indices: 35756118--35756291 Score: 199
Period size: 80 Copynumber: 2.2 Consensus size: 78
35756108 AAGCCAAGTA
* * * *
35756118 CCTTCGGGATTTAACCGGATATAGCTACTCACTCAATGCCTTCGGGACATAGCCCGGATATAGTA
1 CCTTCGGGACTTAGCCGGATATAGCTACTCACACAATGCCTTCGGGACATAGCCCGGAAATAGTA
* *
35756183 ACTCGCACCAATG
66 ACTAGCACAAATG
*
35756196 CCTTCGGGACTTAGCTCGGATATAG-TAGCTCGCACAAATGCCTTCGGGACATAGCCC-GAAACT
1 CCTTCGGGACTTAGC-CGGATATAGCTA-CTCACAC-AATGCCTTCGGGACATAGCCCGGAAA-T
* **
35756259 AGTCACTAGCGGAAATG
62 AGTAACTAGCACAAATG
*
35756276 CCTTCGAGACTTAGCC
1 CCTTCGGGACTTAGCC
35756292 CGGTTATCAT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
78 15 0.19
79 18 0.22
80 48 0.59
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCGGATATAGCTACTCACACAATGCCTTCGGGACATAGCCCGGAAATAGTA
ACTAGCACAAATG
Found at i:35758450 original size:22 final size:22
Alignment explanation
Indices: 35758424--35758465 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
35758414 AATTAACCAC
35758424 ACCATCGCCGCACCACCACCTT
1 ACCATCGCCGCACCACCACCTT
35758446 ACCATCGCCGCACCACCACC
1 ACCATCGCCGCACCACCACC
35758466 GTGATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.57, G:0.10, T:0.10
Consensus pattern (22 bp):
ACCATCGCCGCACCACCACCTT
Found at i:35759537 original size:24 final size:24
Alignment explanation
Indices: 35759510--35759557 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
35759500 TTTACTGCAA
* *
35759510 TATTGAGTGGCTTGGCCACAACGT
1 TATTAAGTGGCTTGACCACAACGT
35759534 TATTAAGTGGCTTGACCACAACGT
1 TATTAAGTGGCTTGACCACAACGT
35759558 GCAACTTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (24 bp):
TATTAAGTGGCTTGACCACAACGT
Found at i:35778001 original size:39 final size:40
Alignment explanation
Indices: 35777947--35778123 Score: 143
Period size: 40 Copynumber: 4.5 Consensus size: 40
35777937 GAATCACGTA
* *
35777947 CCTTCGGAATTTA-ACCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGACCGGTTATAGTAACTCGCACAAATG
* *
35777986 CCTTCGGGACTTA-ACCCGAATT-TAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGA-CCG-GTTATAGTAACTCGCACAAATG
* * *
35778026 CCTTCGGG-CTTAGCCCGG-AATTAGTAACTCACACAAATG
1 CCTTCGGGACTTAGACCGGTTA-TAGTAACTCGCACAAATG
* * * * *
35778065 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAGACCGGTTATAGTAAC-TCGCACAAATG
*
35778105 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGACCGG
35778124 ACATCATTCG
Statistics
Matches: 112, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
38 2 0.02
39 40 0.36
40 57 0.51
41 13 0.12
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGACCGGTTATAGTAACTCGCACAAATG
Found at i:35778020 original size:40 final size:39
Alignment explanation
Indices: 35777968--35778071 Score: 156
Period size: 39 Copynumber: 2.6 Consensus size: 39
35777958 TAACCGGTTA
35777968 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GAATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGAA-T
* *
35778008 TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAAT
*
35778047 TAGTAACTCACACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
35778072 ATCTTAGTCC
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
39 31 0.53
40 28 0.47
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAAT
Found at i:35778078 original size:40 final size:40
Alignment explanation
Indices: 35777968--35778124 Score: 171
Period size: 40 Copynumber: 4.0 Consensus size: 40
35777958 TAACCGGTTA
* *
35777968 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GAATT
1 TAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAA-T
* *
35778008 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAAT
*
35778047 TAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGG-AT
1 TAGTAACTCACACAAATGCCTTCGGGA-CTTAGCCCGGAAT
* * *
35778086 ATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAACTCA-CACAAATGCCTTCGGGACTTAGCCCGGA
35778125 CATCATTCGA
Statistics
Matches: 101, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.31
40 59 0.58
41 9 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAAT
Found at i:35778108 original size:79 final size:80
Alignment explanation
Indices: 35777968--35778124 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 80
35777958 TAACCGGTTA
* * * *
35777968 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCACACAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACCAAAGCCTTCGG
35778033 G-CTTAGCCCGGAAT
66 GACTTAGCCCGGAAT
** * * *
35778047 TAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACCAAAGCCTTC
35778110 GGGACTTAGCCCGGA
64 GGGACTTAGCCCGGA
35778125 CATCATTCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 3 0.05
79 48 0.73
80 15 0.23
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TAGTAACTCACACAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACCAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:35779421 original size:85 final size:85
Alignment explanation
Indices: 35779292--35779470 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
35779282 TATTTTATTG
35779292 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
35779357 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
35779377 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
35779442 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
35779462 CCCATGCTC
1 CCCATGCTC
35779471 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:35779866 original size:17 final size:17
Alignment explanation
Indices: 35779844--35779876 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35779834 AGTTGTCACA
35779844 TGAATTAAATTAATTTT
1 TGAATTAAATTAATTTT
*
35779861 TGAATTAATTTAATTT
1 TGAATTAAATTAATTT
35779877 GATAGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGAATTAAATTAATTTT
Found at i:35787320 original size:49 final size:49
Alignment explanation
Indices: 35787203--35787431 Score: 176
Period size: 49 Copynumber: 4.6 Consensus size: 49
35787193 TGTGAGAACA
* * * * * *
35787203 CATGTGTAGTACCATGTGCAGGCTACTATGTGT-TTAAGATGGTTTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAG--TT-GGTCG
*
35787255 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTT-GGTCG
** * * ** * * * *
35787305 CAT-TGTAGTACTAAGTGCTTGCTACTATGCGTACCCGACAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA-TAGTT-GGTCG
* * * *
35787355 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-GTCGGATTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTGGTCG
35787404 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
35787432 TGCATACCAG
Statistics
Matches: 140, Mismatches: 33, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
49 59 0.42
50 19 0.14
51 27 0.19
52 34 0.24
53 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTGGTCG
Found at i:35787381 original size:100 final size:100
Alignment explanation
Indices: 35787252--35787439 Score: 290
Period size: 100 Copynumber: 1.9 Consensus size: 100
35787242 TGGTTTTAGG
35787252 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGTCGCAT-TGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-CTCAGATAGTT-GGTCGCATGTGTAGTA
** *
35787315 CTAAGTGCTTGCTACTATGCGTACCCGACAACTTCGA
64 CTAAGTGCAGGCTACTATGCATACCCGACAACTTCGA
* * *
35787352 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGTCGGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTCTCAGATAGTTGGTCGCATGTGTAGTACT
35787417 AAGTGCAGGCTACTATGCATACC
66 AAGTGCAGGCTACTATGCATACC
35787440 AGATAGCTTC
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
99 9 0.11
100 71 0.89
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTCTCAGATAGTTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGACAACTTCGA
Found at i:35787474 original size:100 final size:100
Alignment explanation
Indices: 35787267--35787474 Score: 222
Period size: 100 Copynumber: 2.1 Consensus size: 100
35787257 TGTGTAGTAC
**
35787267 TAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATTGTAGTACTAAGTGCTTGCTACTA
1 TAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATTGTAGTACTAAGTGCAGGCTACTA
* * ** * * *
35787332 TGCGTACCCGACAACTTCGATCACGTGTGTAGTAC
66 TGCATACCAGACAACTTCGATCACAAGGGTAGCAA
* * *
35787367 TAAGTGCAGGCTACTACGTGT-GTCGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTAC
1 TAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGTCGCAT-TGTAGTACTAAGTGCAGGCTAC
* * * * *
35787430 TATGCATACCAGATAGCTTCGGTTACAAGGGTGGCAA
64 TATGCATACCAGACAACTTCGATCACAAGGGTAGCAA
*
35787467 TATGTGCA
1 TAAGTGCA
35787475 AGCAACCGTG
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
99 9 0.10
100 79 0.90
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATTGTAGTACTAAGTGCAGGCTACTA
TGCATACCAGACAACTTCGATCACAAGGGTAGCAA
Found at i:35787849 original size:30 final size:30
Alignment explanation
Indices: 35787813--35787873 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
35787803 ACGGTGTAAG
35787813 AAAAAGAATTTCATATTATGAGATATTTGA
1 AAAAAGAATTTCATATTATGAGATATTTGA
35787843 AAAAAGAATTTCATATTATGAGATATTTGA
1 AAAAAGAATTTCATATTATGAGATATTTGA
35787873 A
1 A
35787874 TTTTTGTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.36
Consensus pattern (30 bp):
AAAAAGAATTTCATATTATGAGATATTTGA
Found at i:35792711 original size:25 final size:25
Alignment explanation
Indices: 35792678--35792727 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
35792668 AAACGATAAT
35792678 CTCCAAGCTGAATAACAGTAAGCTC
1 CTCCAAGCTGAATAACAGTAAGCTC
* * **
35792703 CTCCGAGCTGTATAATGGTAAGCTC
1 CTCCAAGCTGAATAACAGTAAGCTC
35792728 ATACGATCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (25 bp):
CTCCAAGCTGAATAACAGTAAGCTC
Found at i:35802381 original size:48 final size:48
Alignment explanation
Indices: 35802348--35802629 Score: 404
Period size: 48 Copynumber: 5.9 Consensus size: 48
35802338 TACGAAGTCT
* *
35802348 CATATCAGTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
1 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
*
35802396 CATAT-AATCGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACA
1 CATATCAAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
*
35802444 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
1 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
* ** *
35802492 CATATCAACGCTAATGCCATGTCCCAGACATGATCTTACACTAGCACA
1 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
* * * * *
35802540 CATATCAACGCCAATGCCATGTTCCAGACATGGTCTTACACTAGCTCT
1 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
* *
35802588 CATCTCGGATGCCGATGCCATGTCCCAGACATGGTCTTACAC
1 CATATC-AATGCCGATGCCATGTCCCAGACATGGTCTTACAC
35802630 GGGATCTCAT
Statistics
Matches: 211, Mismatches: 20, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
47 2 0.01
48 175 0.83
49 34 0.16
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (48 bp):
CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
Found at i:35802460 original size:96 final size:97
Alignment explanation
Indices: 35802315--35802629 Score: 411
Period size: 96 Copynumber: 3.3 Consensus size: 97
35802305 ACATGTCGAC
* * * * ** * * *
35802315 GCCATATCCCAGATATGGTCTTATACGAAGTCTCATATCAGTGTCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTAACACACATATCAATGCCGATGCCATGTCCCAGACATG
35802380 GTCTTACACTAGCACACATAT-AATCGCCGAT
66 GTCTTACACTAGCACACATATCAATCGCCGAT
35802411 GCCATGTCCCAGACATGGTCTTACACTAACACACATATCAATGCCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTAACACACATATCAATGCCGATGCCATGTCCCAGACATG
* **
35802476 GTCTTACACTGGCACACATATCAA-CGCTAAT
66 GTCTTACACTAGCACACATATCAATCGCCGAT
* * * * *
35802507 GCCATGTCCCAGACATGATCTTACACTAGCACACATATCAACGCCAATGCCATGTTCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTAACACACATATCAATGCCGATGCCATGTCCCAGACATG
* * * *
35802572 GTCTTACACTAGCTCTCATCTCGGAT-GCCGAT
66 GTCTTACACTAGCACACATATC-AATCGCCGAT
35802604 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
35802630 GGGATCTCAT
Statistics
Matches: 191, Mismatches: 25, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
96 159 0.83
97 32 0.17
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (97 bp):
GCCATGTCCCAGACATGGTCTTACACTAACACACATATCAATGCCGATGCCATGTCCCAGACATG
GTCTTACACTAGCACACATATCAATCGCCGAT
Found at i:35811798 original size:30 final size:30
Alignment explanation
Indices: 35811752--35811827 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
35811742 CACGAGCTGG
* * *
35811752 CACATGGGCATATGGCCAGCTCGTGTGGCT
1 CACACGGGCATGTGGCCAGCCCGTGTGGCT
*
35811782 CACACGGGCGTGTGGCCAGCCCGTGTGGCT
1 CACACGGGCATGTGGCCAGCCCGTGTGGCT
*
35811812 CACATGGGCATGTGGC
1 CACACGGGCATGTGGC
35811828 AACCCATGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.14, C:0.29, G:0.37, T:0.20
Consensus pattern (30 bp):
CACACGGGCATGTGGCCAGCCCGTGTGGCT
Found at i:35821181 original size:19 final size:21
Alignment explanation
Indices: 35821145--35821192 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
35821135 TAAATAATAT
35821145 ATTTTTAATTATTGTAATT-A
1 ATTTTTAATTATTGTAATTGA
35821165 ATTTTTAATTCA-T-TAATTGA
1 ATTTTTAATT-ATTGTAATTGA
35821185 ATTTTTAA
1 ATTTTTAA
35821193 ATATATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 20 0.77
21 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTTTAATTATTGTAATTGA
Found at i:35825278 original size:32 final size:33
Alignment explanation
Indices: 35825242--35825310 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
35825232 TAGTTTTTAT
35825242 AAAATATTTT-CAGAAAAT-T-TGCCAAACACTAG
1 AAAATATTTTACA-AAAATCTAT-CCAAACACTAG
*
35825274 AAAATATTTTACAAAGATCTATCCAAACACTAG
1 AAAATATTTTACAAAAATCTATCCAAACACTAG
35825307 AAAA
1 AAAA
35825311 GTAAGTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 14 0.42
33 18 0.55
34 1 0.03
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (33 bp):
AAAATATTTTACAAAAATCTATCCAAACACTAG
Found at i:35829808 original size:25 final size:25
Alignment explanation
Indices: 35829774--35829843 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
35829764 CTCTTTTAAT
*
35829774 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
35829799 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
35829824 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
35829844 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:35830688 original size:27 final size:27
Alignment explanation
Indices: 35830653--35830709 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
35830643 GGGCATATTC
*
35830653 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
35830680 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
35830707 GTC
1 GTC
35830710 TTTTTGCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:35830801 original size:27 final size:27
Alignment explanation
Indices: 35830771--35830878 Score: 105
Period size: 27 Copynumber: 3.9 Consensus size: 27
35830761 GTAAATCTAC
35830771 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
35830798 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
35830824 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* *
35830854 AAATCAAGGGTAATTT-GGTAATTTT
1 AAACCAAGGGT-ATTTCAGTAATTTT
35830879 ACAAATTGAT
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
26 1 0.01
27 38 0.55
28 11 0.16
29 18 0.26
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:35830884 original size:27 final size:27
Alignment explanation
Indices: 35830820--35830957 Score: 95
Period size: 27 Copynumber: 5.1 Consensus size: 27
35830810 TTTCTATAAT
* *
35830820 TTTTAGAAAGTCAAGGGT-ATTTCTGTAA
1 TTTTACAAA-TCAAGGGTAATTT-GGTAA
**
35830848 TTTTGTAAATCAAGGGTAATTTGGTAA
1 TTTTACAAATCAAGGGTAATTTGGTAA
** *
35830875 TTTTACAAATTGATGGT-ATTTCGGTAA
1 TTTTACAAATCAAGGGTAATTT-GGTAA
* * * *
35830902 TTTCACAAA-CCAGTGGTATTTTGATAA
1 TTTTACAAATCAAG-GGTAATTTGGTAA
*
35830929 TTTTACAAA-CTAAGGGTATTTTGGTAA
1 TTTTACAAATC-AAGGGTAATTTGGTAA
35830956 TT
1 TT
35830958 CTACCCTATA
Statistics
Matches: 88, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
26 5 0.06
27 67 0.76
28 16 0.18
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAAGGGTAATTTGGTAA
Found at i:35831025 original size:27 final size:27
Alignment explanation
Indices: 35830989--35831080 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
35830979 ATAATTTCAC
*
35830989 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
35831016 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * * *
35831043 AATCAAGGGTAAAATAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
35831070 AATCGAGGGTA
1 AATCGAGGGTA
35831081 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:35833249 original size:13 final size:13
Alignment explanation
Indices: 35833199--35833290 Score: 53
Period size: 13 Copynumber: 6.9 Consensus size: 13
35833189 ATCCAATGTT
*
35833199 CCATTTTATATAT
1 CCATTTTATATAA
* *
35833212 CTATTTCCATATAA
1 CCATTT-TATATAA
*
35833226 CCGA-TTCATATAA
1 CC-ATTTTATATAA
35833239 CCATTTTATAT-A
1 CCATTTTATATAA
*
35833251 TCATTTTTCATATAA
1 CCA-TTTT-ATATAA
* * **
35833266 TCAATTCGTATAA
1 CCATTTTATATAA
35833279 CCATTTTATATA
1 CCATTTTATATA
35833291 TTTATTTCCA
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
12 4 0.07
13 37 0.62
14 14 0.23
15 5 0.08
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (13 bp):
CCATTTTATATAA
Found at i:35833263 original size:40 final size:39
Alignment explanation
Indices: 35833199--35833317 Score: 150
Period size: 40 Copynumber: 3.0 Consensus size: 39
35833189 ATCCAATGTT
* *
35833199 CCATTTTATATATCTATTTCCATATAACCGATTCATATAA
1 CCATTTTATATATCT-TTTTCATATAACCAATTCATATAA
* *
35833239 CCATTTTATATATCATTTTTCATATAATCAATTCGTATAA
1 CCATTTTATATATC-TTTTTCATATAACCAATTCATATAA
*
35833279 CCATTTTATATAT-TTATTTCCACATAACCAATTCATATA
1 CCATTTTATATATCTT-TTT-CATATAACCAATTCATATA
35833318 TCATTTTTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 63 0.91
41 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (39 bp):
CCATTTTATATATCTTTTTCATATAACCAATTCATATAA
Found at i:35833345 original size:80 final size:80
Alignment explanation
Indices: 35833199--35833365 Score: 176
Period size: 80 Copynumber: 2.1 Consensus size: 80
35833189 ATCCAATGTT
* * * *** *
35833199 CCATTTTATATATCTATTTCCATATAACCGATTCATATAACCATTTTATATATCATTTTTCATAT
1 CCATTTTATATATCTATTTCCACATAACCAATTCATATAACCATTTTAGATATCACGATACATAT
* *
35833264 AATCAATTCGTATAA
66 AACCAATTCATATAA
* * *
35833279 CCATTTTATATATTTATTTCCACATAACCAATTCATAT-ATCATTTTTTAGATATC-CGATACGT
1 CCATTTTATATATCTATTTCCACATAACCAATTCATATAACCA--TTTTAGATATCACGATACAT
* *
35833342 ATAACCATTTCATATAT
64 ATAACCAATTCATATAA
35833359 CCATTTT
1 CCATTTT
35833366 CATTTGCACA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 3 0.04
80 58 0.82
81 10 0.14
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.45
Consensus pattern (80 bp):
CCATTTTATATATCTATTTCCACATAACCAATTCATATAACCATTTTAGATATCACGATACATAT
AACCAATTCATATAA
Found at i:35834826 original size:44 final size:42
Alignment explanation
Indices: 35834778--35834877 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 42
35834768 ATAATAATTC
* * **
35834778 CGCACACTTAGTGCCATCTCAATTAACCGAAGCTATTTCGGTAT
1 CGCACACTTAGTGCCA-CTCAAGTAACCGAAGCTAATTC-AAAT
*
35834822 CGCACACTTAGTG-C-CTCAAGTAGCCGAAGCTAATTCAAAT
1 CGCACACTTAGTGCCACTCAAGTAACCGAAGCTAATTCAAAT
*
35834862 AGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
35834878 AATACCATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
40 14 0.29
41 20 0.42
43 1 0.02
44 13 0.27
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
CGCACACTTAGTGCCACTCAAGTAACCGAAGCTAATTCAAAT
Found at i:35841111 original size:30 final size:30
Alignment explanation
Indices: 35841050--35841124 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
35841040 TATCAAAATA
*
35841050 TGGAAGCCTTTGTGGCCGTTCTCTGACAAG
1 TGGAAGCCTTTGTGGCCATTCTCTGACAAG
* *
35841080 T-GAATGCCTTTGTGGCTATTCTC-GAATAAG
1 TGGAA-GCCTTTGTGGCCATTCTCTG-ACAAG
*
35841110 TGGAAGCCTATGTGG
1 TGGAAGCCTTTGTGG
35841125 TTGTTCTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 4 0.11
30 31 0.82
31 3 0.08
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (30 bp):
TGGAAGCCTTTGTGGCCATTCTCTGACAAG
Found at i:35841202 original size:56 final size:56
Alignment explanation
Indices: 35841133--35841255 Score: 174
Period size: 56 Copynumber: 2.2 Consensus size: 56
35841123 GGTTGTTCTT
* * *
35841133 TGTTATACATGAGCCCTTGTGGCTGATTTTGTTAAATGCGCCTTCATGATAAAGTA
1 TGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCGCCTTCATGACAAAGTA
* * ** *
35841189 TGTTATATGTGAGCCCTTGTGGATGATTTTGTTAAATGTGCCTTTGTGACAAAGTT
1 TGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCGCCTTCATGACAAAGTA
35841245 TGTTATATATG
1 TGTTATATATG
35841256 GCCTCTTCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (56 bp):
TGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCGCCTTCATGACAAAGTA
Found at i:35843832 original size:46 final size:46
Alignment explanation
Indices: 35843776--35844000 Score: 181
Period size: 47 Copynumber: 4.8 Consensus size: 46
35843766 GATATTTGGG
* * * *
35843776 CATCCTAACTCATTGAGTTGAGTCCCAGTTCACTTATGGATGCGA-A
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGA-ACTAGA
* * * *
35843822 CGTCCGAACTCATTGAGTTGAGTCCGAGTTCA-TGAAATGTAACTAGG
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACT--TATGGAACTAGA
* * * * *
35843869 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAGG
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACT--TATGGAACTAGA
* * *
35843916 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAA
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGA-ACTAGA
** *
35843962 CGCCCGAGA-TCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGA-ACTCATTGAGTTGAGTCCGAGTTCACTTATGG
35844001 GCGGGTTACA
Statistics
Matches: 152, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 69 0.45
47 81 0.53
48 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGAACTAGA
Found at i:35843892 original size:47 final size:47
Alignment explanation
Indices: 35843824--35843947 Score: 230
Period size: 47 Copynumber: 2.6 Consensus size: 47
35843814 GATGCGAACG
*
35843824 TCCGAACTCATTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
*
35843871 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
35843918 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
35843948 CTTATGGATG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
Found at i:35850628 original size:26 final size:26
Alignment explanation
Indices: 35850593--35850653 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
35850583 GAATATATTT
*
35850593 ATCAAAATTTTA-CTAGTGGTAAAATC
1 ATCAAAATTTTACCAAG-GGTAAAATC
*
35850619 ATCAACATTTTACCAAGGGTAAAATC
1 ATCAAAATTTTACCAAGGGTAAAATC
35850645 ATCAAAATT
1 ATCAAAATT
35850654 GTTTTATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (26 bp):
ATCAAAATTTTACCAAGGGTAAAATC
Found at i:35854938 original size:29 final size:29
Alignment explanation
Indices: 35854903--35854976 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
35854893 GTTGTGAGAT
* *
35854903 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
35854932 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
35854961 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35854977 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:35860099 original size:41 final size:40
Alignment explanation
Indices: 35859929--35860106 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
35859919 AAGCCAAGTA
* * *
35859929 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
35859967 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35860007 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35860047 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
35860088 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35860107 TTATCATCCA
Statistics
Matches: 125, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
38 12 0.10
39 18 0.14
40 67 0.54
41 24 0.19
42 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35881463 original size:15 final size:17
Alignment explanation
Indices: 35881441--35881478 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
35881431 CGTATAGCCC
35881441 TATATTTT-TTAA-TTT
1 TATATTTTATTAAGTTT
*
35881456 TCTATTTTATTAAGTTT
1 TATATTTTATTAAGTTT
35881473 TATATT
1 TATATT
35881479 CATTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 8 0.42
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TATATTTTATTAAGTTT
Found at i:35884673 original size:44 final size:44
Alignment explanation
Indices: 35884610--35884698 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
35884600 CAGCACCTCA
*
35884610 AACAACTTCTAATCTTTATTCCTAGTCCAATAACATGTATTCTG
1 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
35884654 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
1 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
35884698 A
1 A
35884699 GTGTTAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (44 bp):
AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
Found at i:35886706 original size:20 final size:20
Alignment explanation
Indices: 35886683--35886748 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
35886673 TCGAAATTCA
35886683 TAATTTAATTATAAAATAAT
1 TAATTTAATTATAAAATAAT
* ** * *
35886703 TAATTTATAGTCGAAATTCA-
1 TAATTTA-ATTATAAAATAAT
35886723 TAATTTAATTATAAAATAAT
1 TAATTTAATTATAAAATAAT
35886743 TAATTT
1 TAATTT
35886749 GTACTTAAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 7 0.21
20 20 0.59
21 7 0.21
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TAATTTAATTATAAAATAAT
Found at i:35886718 original size:40 final size:40
Alignment explanation
Indices: 35886672--35886748 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
35886662 AGTAAATTTT
35886672 GTCGAAATTCATAATTTAATTATAAAATAATTAATTTATA
1 GTCGAAATTCATAATTTAATTATAAAATAATTAATTTATA
35886712 GTCGAAATTCATAATTTAATTATAAAATAATTAATTT
1 GTCGAAATTCATAATTTAATTATAAAATAATTAATTT
35886749 GTACTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (40 bp):
GTCGAAATTCATAATTTAATTATAAAATAATTAATTTATA
Found at i:35888277 original size:16 final size:18
Alignment explanation
Indices: 35888256--35888289 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
35888246 ATTGGAATTT
35888256 TTACTTA-TT-ATTTTTA
1 TTACTTAGTTAATTTTTA
35888272 TTACTTAGTTAATTTTTA
1 TTACTTAGTTAATTTTTA
35888290 GTTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
TTACTTAGTTAATTTTTA
Found at i:35889130 original size:6 final size:6
Alignment explanation
Indices: 35889118--35889157 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
35889108 TAGGTTTGTA
* *
35889118 AAAATG GAAATG -GAATG AAAATG AAAATG AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT
35889158 AGGGATAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:35889140 original size:17 final size:18
Alignment explanation
Indices: 35889118--35889157 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
35889108 TAGGTTTGTA
* *
35889118 AAAATGGAAATG-GAATG
1 AAAATGAAAATGAAAATG
35889135 AAAATGAAAATGAAAATG
1 AAAATGAAAATGAAAATG
35889153 AAAAT
1 AAAAT
35889158 AGGGATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (18 bp):
AAAATGAAAATGAAAATG
Found at i:35892142 original size:16 final size:15
Alignment explanation
Indices: 35892122--35892164 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
35892112 TTAAAAAAAT
35892122 TAATATTAAAAATT-
1 TAATATTAAAAATTC
*
35892136 TAAAATATAAATAATTC
1 TAATAT-TAAA-AATTC
35892153 TAATATTAAAAA
1 TAATATTAAAAA
35892165 AAATTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 5 0.21
15 6 0.25
16 8 0.33
17 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATATTAAAAATTC
Found at i:35894523 original size:51 final size:52
Alignment explanation
Indices: 35894428--35894528 Score: 118
Period size: 51 Copynumber: 2.0 Consensus size: 52
35894418 ATTAAATTTA
* * * *
35894428 TTTAGTTTAAATTTGAAAAAGTTAATTTAAATAAGTTAAATTATATAAATAT
1 TTTAGTTTAAATTTGAAAAAATTAATATAAATAAATTAAATTATAAAAATAT
*
35894480 TTTA-TTTAATATTTGAAAAAATT-ATGATAAA-AAATTAACTTATAAAAAT
1 TTTAGTTTAA-ATTTGAAAAAATTAAT-ATAAATAAATTAAATTATAAAAAT
35894529 TCACTTAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
51 22 0.52
52 20 0.48
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (52 bp):
TTTAGTTTAAATTTGAAAAAATTAATATAAATAAATTAAATTATAAAAATAT
Found at i:35902242 original size:21 final size:21
Alignment explanation
Indices: 35902194--35902245 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
35902184 GACAGATAAA
*
35902194 GTGCCTAAAACGACACACGAG
1 GTGCCTGAAACGACACACGAG
*
35902215 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACGAG
35902236 GTGCCTGAAA
1 GTGCCTGAAA
35902246 TATGACACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.27, G:0.27, T:0.13
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:35902420 original size:23 final size:23
Alignment explanation
Indices: 35902351--35902407 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
35902341 GTTAATAGGG
*
35902351 TATTTCAATTCTCAATTCACTTT
1 TATTTCCATTCTCAATTCACTTT
35902374 TATTTCCATTCTCAATTCACTTT
1 TATTTCCATTCTCAATTCACTTT
35902397 TATTTCCATTC
1 TATTTCCATTC
35902408 CAAGATTACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTTCCATTCTCAATTCACTTT
Found at i:35903819 original size:27 final size:30
Alignment explanation
Indices: 35903774--35903828 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
35903764 GCTCGAATGC
*
35903774 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
35903803 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
35903829 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:35910151 original size:23 final size:22
Alignment explanation
Indices: 35910124--35910173 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
35910114 TGCCTAAAAT
35910124 GACACACGAGGTGCCTG-ATAC
1 GACACACGAGGTGCCTGAATAC
35910145 GACACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG-AATAC
35910168 GACACA
1 GACACA
35910174 TAAAGTGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 17 0.63
23 10 0.37
ACGTcount: A:0.34, C:0.28, G:0.26, T:0.12
Consensus pattern (22 bp):
GACACACGAGGTGCCTGAATAC
Found at i:35910181 original size:23 final size:23
Alignment explanation
Indices: 35910099--35910185 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
35910089 CCTGATCAGT
*
35910099 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
35910121 A-ATGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
35910141 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
35910164 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
35910186 TCAGTAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.60
22 1 0.02
23 19 0.36
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:35912094 original size:27 final size:27
Alignment explanation
Indices: 35912064--35912239 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
35912054 ATATTGAGTC
* * *
35912064 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
35912091 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
35912118 CGCACACTTAGTGCTACATAGTCAAA-
1 CGCACACTTAGTGCTACATAATCAAAT
* ** ** *
35912144 CTCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
**
35912171 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAATCAAAT
* *
35912198 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
35912225 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35912240 GTACAATTTA
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
25 4 0.03
26 21 0.17
27 97 0.78
29 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Done.