Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 166 of 230
Found at i:49499432 original size:25 final size:25
Alignment explanation
Indices: 49499387--49499453 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
49499377 GTCATTAGGG
* *
49499387 TTACCGATTC-CAGCTCTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
49499411 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* * *
49499436 TTACTGTTATTCAGCTCG
1 TTACCGATACTCAGCTCG
49499454 GAGGATCTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 9 0.24
25 28 0.76
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:49504984 original size:13 final size:13
Alignment explanation
Indices: 49504960--49505003 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
49504950 TTCTTTTAAT
49504960 TAAC-TAATAAAA
1 TAACATAATAAAA
49504972 TAA-ATATATAAAA
1 TAACATA-ATAAAA
49504985 TAACATAATAAAA
1 TAACATAATAAAA
*
49504998 AAACAT
1 TAACAT
49505004 CAACCGTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 20 0.71
14 3 0.11
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (13 bp):
TAACATAATAAAA
Found at i:49506956 original size:78 final size:78
Alignment explanation
Indices: 49506822--49506978 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
49506812 ATGCAAGTTT
* * * * *
49506822 CGAGTGTTGCTGTCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACCATTGCGAATTCAG
1 CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
49506887 TCCTCATTAACCC
66 TCCTCATTAACCC
* * * *
49506900 CGAGTGTCGCTGCCTTATCAATGGAAGCTAAGCCAATTAAGTTAGAATCACAATTGCAAATTCAC
1 CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
**
49506965 TCCTTGTTAACCC
66 TCCTCATTAACCC
49506978 C
1 C
49506979 TTGACTAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (78 bp):
CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
TCCTCATTAACCC
Found at i:49507165 original size:34 final size:34
Alignment explanation
Indices: 49507122--49507189 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
49507112 TTAAATGTAG
49507122 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
1 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
49507156 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
1 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
49507190 GAATTTCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (34 bp):
AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
Found at i:49507205 original size:34 final size:34
Alignment explanation
Indices: 49507133--49507205 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
49507123 ACATTTGGGT
* **
49507133 TTTGCCCAAAGCAGATCGAGATTAACATTTGGGT
1 TTTGCCCAAAGCAGATCGAGATTAACATTTAGAA
*
49507167 TTTGCCCAAAGCAGATCGAGATTGA-ATTTCAGAA
1 TTTGCCCAAAGCAGATCGAGATTAACATTT-AGAA
49507201 TTTGC
1 TTTGC
49507206 ATGCTCGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 4 0.12
34 30 0.88
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (34 bp):
TTTGCCCAAAGCAGATCGAGATTAACATTTAGAA
Found at i:49508770 original size:93 final size:92
Alignment explanation
Indices: 49508638--49508832 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
49508628 TTGATTTTAG
* *
49508638 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
49508702 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
49508730 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
49508795 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
49508823 CAAATTCATA
1 TAAATTCATA
49508833 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:49508890 original size:17 final size:17
Alignment explanation
Indices: 49508865--49508898 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49508855 ATAATTTTAA
*
49508865 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
49508882 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
49508899 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:49508900 original size:15 final size:16
Alignment explanation
Indices: 49508865--49508903 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
49508855 ATAATTTTAA
*
49508865 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
49508882 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
49508897 ATTTAAT
1 ATTTAAT
49508904 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:49508907 original size:17 final size:18
Alignment explanation
Indices: 49508869--49508908 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
49508859 TTTTAAATTT
*
49508869 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
49508887 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
49508903 TATTAA
1 TATTAA
49508909 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:49508976 original size:17 final size:16
Alignment explanation
Indices: 49508956--49508991 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49508946 ATTTGAGTAA
49508956 ATTTATAGAAGAATTTT
1 ATTTAT-GAAGAATTTT
*
49508973 ATTTATTAAGAATTTT
1 ATTTATGAAGAATTTT
49508989 ATT
1 ATT
49508992 AAATTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (16 bp):
ATTTATGAAGAATTTT
Found at i:49509023 original size:15 final size:15
Alignment explanation
Indices: 49508988--49509122 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
49508978 TTAAGAATTT
*
49508988 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49509002 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49509016 TATTTAATAATAAT-
1 TATTTAATTATAATA
49509030 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
49509044 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
*
49509059 TATTATGATTTGAGTAAATTCA
1 TATT-T-AATT-A-T-AA-T-A
*
49509081 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49509095 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49509109 TATTTAATAATAAT
1 TATTTAATTATAAT
49509123 TATGTTTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 17 0.18
15 32 0.34
16 3 0.03
17 2 0.02
18 3 0.03
19 2 0.02
20 4 0.04
21 1 0.01
22 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49509111 original size:16 final size:16
Alignment explanation
Indices: 49509090--49509131 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49509080 ATATTAAATT
*
49509090 ATATATTTTAATTATA
1 ATATATTTTAATAATA
49509106 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
49509121 AT-TATGTTTAA
1 ATATAT-TTTAA
49509132 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:49509239 original size:154 final size:156
Alignment explanation
Indices: 49509081--49509378 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
49509071 AGTAAATTCA
*
49509081 TATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
49509146 TTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
66 TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
49509209 AAATTTATGCTAATTATTAAGAATTT
131 AAATTTATGCTAATTATTAAGAATTT
49509235 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
*
49509300 TTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAA
66 TTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAA
*
49509365 CAAATTTCTGCTAA
130 CAAATTTATGCTAA
49509379 GGGTATTCTA
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 76 0.55
155 2 0.01
157 60 0.43
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
AAATTTATGCTAATTATTAAGAATTT
Found at i:49509259 original size:18 final size:17
Alignment explanation
Indices: 49509231--49509265 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49509221 ATTATTAAGA
*
49509231 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49509248 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49509266 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49509519 original size:16 final size:16
Alignment explanation
Indices: 49509498--49509536 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
49509488 TTGATTTGCT
*
49509498 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
49509514 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
49509530 ATTACAC
1 ATTACAC
49509537 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:49509537 original size:16 final size:16
Alignment explanation
Indices: 49509511--49509567 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
49509501 ACACAGCTTT
* *
49509511 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
49509527 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
49509543 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
49509559 TCCAATACA
1 TCCAATACA
49509568 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:49509796 original size:158 final size:157
Alignment explanation
Indices: 49509585--49509876 Score: 485
Period size: 158 Copynumber: 1.9 Consensus size: 157
49509575 AAACGTGCTG
* *
49509585 TAATAGAAATTAAATGTTTTTAACTTTTACGATTTAGTCCTTTTTACTTAATTAGCTATTTAAAT
1 TAATAGAAATTAAATGTTTTTAACTTTTACGATTTAGACCTTTTTACTTAATTAGCTATTTAAAC
* * *
49509650 GCTAAAATTTCTTAGCCAAATTTTAATATGACCCTAATAACACATATTTACGGGCTCAGTTTATA
66 GCTAAAATTTCGTAACCAAATTTTAATATAACCCTAATAACACATATTTACGGGCTCAGTTTATA
49509715 AAAACGAGGTCTAGTTAATCAATTAAC
131 AAAACGAGGTCTAGTTAATCAATTAAC
* * * *
49509742 TAATAGAAATTAACTTTTTTTAAATTTTTATGATTTAGACCTTTTTACTTAATTAGCTATTTAAA
1 TAATAGAAATTAAATGTTTTT-AACTTTTACGATTTAGACCTTTTTACTTAATTAGCTATTTAAA
49509807 CGCTAAAATTTCGTAACCAAATTTTAATATAACCCTAATAACACATATTTACGGGCTCAGTTTAT
65 CGCTAAAATTTCGTAACCAAATTTTAATATAACCCTAATAACACATATTTACGGGCTCAGTTTAT
*
49509872 GAAAA
130 AAAAA
49509877 TAAGGTCTCG
Statistics
Matches: 124, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
157 19 0.15
158 105 0.85
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (157 bp):
TAATAGAAATTAAATGTTTTTAACTTTTACGATTTAGACCTTTTTACTTAATTAGCTATTTAAAC
GCTAAAATTTCGTAACCAAATTTTAATATAACCCTAATAACACATATTTACGGGCTCAGTTTATA
AAAACGAGGTCTAGTTAATCAATTAAC
Found at i:49511217 original size:52 final size:52
Alignment explanation
Indices: 49511138--49511236 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
49511128 TCAGTGATGG
* * *
49511138 TTTTTGAAGTGAAGAAATCATAGCCACTACCGAGGATGTCGTAACACCGATT
1 TTTTTGAAGTGAAAAAATCATAGCCACTACCGAGGATGCCGCAACACCGATT
* *
49511190 TTTTTGAAGTGAAAAAATTAT-GACCACTATCGAGGATGCCGCAACAC
1 TTTTTGAAGTGAAAAAATCATAG-CCACTACCGAGGATGCCGCAACAC
49511237 TAGCTACTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 1 0.02
52 40 0.98
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (52 bp):
TTTTTGAAGTGAAAAAATCATAGCCACTACCGAGGATGCCGCAACACCGATT
Found at i:49511510 original size:34 final size:34
Alignment explanation
Indices: 49511472--49511540 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
49511462 TTCACAATTT
49511472 TAGGCTAGGTTTCCTTTCTTTTTCTTTTCCTTTC
1 TAGGCTAGGTTTCCTTTCTTTTTCTTTTCCTTTC
49511506 TAGGCTAGGTTTCCTTTCTTTTTCTTTTCCTTTC
1 TAGGCTAGGTTTCCTTTCTTTTTCTTTTCCTTTC
49511540 T
1 T
49511541 TTTCGTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.06, C:0.23, G:0.12, T:0.59
Consensus pattern (34 bp):
TAGGCTAGGTTTCCTTTCTTTTTCTTTTCCTTTC
Found at i:49511549 original size:16 final size:16
Alignment explanation
Indices: 49511481--49511543 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
49511471 TTAGGCTAGG
49511481 TTTCCTTTCTTTTTCT
1 TTTCCTTTCTTTTTCT
***
49511497 TTTCCTTTC-TAGGCT
1 TTTCCTTTCTTTTTCT
49511512 AGGTTTCCTTTCTTTTTCT
1 ---TTTCCTTTCTTTTTCT
49511531 TTTCCTTTCTTTT
1 TTTCCTTTCTTTT
49511544 CGTTTTTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
15 3 0.08
16 22 0.59
18 9 0.24
19 3 0.08
ACGTcount: A:0.03, C:0.24, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTCCTTTCTTTTTCT
Found at i:49511587 original size:25 final size:26
Alignment explanation
Indices: 49511539--49511587 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
49511529 CTTTTCCTTT
* *
49511539 CTTTTCGTTTTTAGATTAGGTTTTTC
1 CTTTTCGTTTTTAGAATAGATTTTTC
*
49511565 CTTTTC-TTTTTAGAATATATTTT
1 CTTTTCGTTTTTAGAATAGATTTT
49511588 ATTTTTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.63
Consensus pattern (26 bp):
CTTTTCGTTTTTAGAATAGATTTTTC
Found at i:49514458 original size:21 final size:24
Alignment explanation
Indices: 49514433--49514476 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
49514423 TCTTATTATT
49514433 AATAT-TATTT-TT-AAGAGATAA
1 AATATATATTTATTCAAGAGATAA
49514454 AATATCATATTTATTCAAGAGAT
1 AATAT-ATATTTATTCAAGAGAT
49514477 TTTTGGGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
23 5 0.26
24 2 0.11
25 7 0.37
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (24 bp):
AATATATATTTATTCAAGAGATAA
Found at i:49516298 original size:28 final size:28
Alignment explanation
Indices: 49516260--49516313 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
49516250 AAATTTTAAA
49516260 AAATTCAAAAAAC-TATAAAATATATTTTT
1 AAATTCAAAAAACAT-TAAAAT-TATTTTT
49516289 AAATT-AAAAAACATTAAAATTATTT
1 AAATTCAAAAAACATTAAAATTATTT
49516314 AGCATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.21
28 13 0.54
29 6 0.25
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATTCAAAAAACATTAAAATTATTTTT
Found at i:49516477 original size:223 final size:224
Alignment explanation
Indices: 49516079--49516537 Score: 875
Period size: 223 Copynumber: 2.0 Consensus size: 224
49516069 TCGTATTCAA
* *
49516079 AAAATTATTTTAGCATTTTATTTATTTGTTTATTTATTTTTTAAAAAATTTAAAAATTTGTGTTT
1 AAAATTA-TTTAGCATTTTATTTATTTATTTATTTATTTTTAAAAAAATTTAAAAATTTGTGTTT
49516144 TTTTAAATCATCCCCAAATCGATAAAAAAATTTTAACGTTTTTAATTTTGCTGATGTGGTGACAT
65 TTTTAAATCATCCCCAAATCGATAAAAAAATTTTAACGTTTTTAATTTTGCTGATGTGGTGACAT
49516209 AAACATGGATGACATGTTAGCATTTAATTAATTTTTTTAAAAAATTTTAAAAAATTCAAAAAACT
130 AAACATGGATGACATGTTAGCATTTAATTAATTTTTTTAAAAAATTTTAAAAAATTCAAAAAACT
49516274 ATAAAATATATTTTTAAATTAAAAAACATT
195 ATAAAATATATTTTTAAATTAAAAAACATT
49516304 AAAATTATTTAGCATTTTATTTATTTATTTATTT-TTTTTAAAAAAATTTAAAAATTTGTGTTTT
1 AAAATTATTTAGCATTTTATTTATTTATTTATTTATTTTTAAAAAAATTTAAAAATTTGTGTTTT
49516368 TTTAAATCATCCCCAAATCGATAAAAAAATTTTAACGTTTTTAATTTTGCTGATGTGGTGACATA
66 TTTAAATCATCCCCAAATCGATAAAAAAATTTTAACGTTTTTAATTTTGCTGATGTGGTGACATA
*
49516433 AACATGGATGACATGTTAGCATTTAATTAATTTTTTTTAAAAATTTTAAAAAATTCAAAAAACTA
131 AACATGGATGACATGTTAGCATTTAATTAATTTTTTTAAAAAATTTTAAAAAATTCAAAAAACTA
49516498 TAAAATATATTTTTAAATTAAAAAACATT
196 TAAAATATATTTTTAAATTAAAAAACATT
49516527 AAAATTATTTA
1 AAAATTATTTA
49516538 AAAAGTATAG
Statistics
Matches: 231, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
223 198 0.86
224 26 0.11
225 7 0.03
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (224 bp):
AAAATTATTTAGCATTTTATTTATTTATTTATTTATTTTTAAAAAAATTTAAAAATTTGTGTTTT
TTTAAATCATCCCCAAATCGATAAAAAAATTTTAACGTTTTTAATTTTGCTGATGTGGTGACATA
AACATGGATGACATGTTAGCATTTAATTAATTTTTTTAAAAAATTTTAAAAAATTCAAAAAACTA
TAAAATATATTTTTAAATTAAAAAACATT
Found at i:49516520 original size:28 final size:28
Alignment explanation
Indices: 49516483--49516536 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
49516473 AAATTTTAAA
49516483 AAATTCAAAAAAC-TATAAAATATATTTTT
1 AAATTCAAAAAACAT-TAAAAT-TATTTTT
49516512 AAATT-AAAAAACATTAAAATTATTT
1 AAATTCAAAAAACATTAAAATTATTT
49516537 AAAAAGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.21
28 13 0.54
29 6 0.25
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATTCAAAAAACATTAAAATTATTTTT
Found at i:49516564 original size:11 final size:11
Alignment explanation
Indices: 49516548--49516581 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
49516538 AAAAGTATAG
49516548 AAATATTTTTA
1 AAATATTTTTA
49516559 AAATATTTTT-
1 AAATATTTTTA
49516569 AAA-ATTTTTA
1 AAATATTTTTA
49516579 AAA
1 AAA
49516582 AGTAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATTTTTA
Found at i:49516590 original size:20 final size:19
Alignment explanation
Indices: 49516524--49516591 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
49516514 ATTAAAAAAC
49516524 ATTAAAATTATTTAAAAAGT
1 ATTAAAATT-TTTAAAAAGT
* *
49516544 ATAGAAATATTTTTAAAATATT
1 AT-TAAA-ATTTTTAAAA-AGT
*
49516566 TTTAAAATTTTTAAAAAGT
1 ATTAAAATTTTTAAAAAGT
49516585 AATTAAA
1 -ATTAAA
49516592 TGTTGACATG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.05
20 17 0.45
21 13 0.34
22 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
ATTAAAATTTTTAAAAAGT
Found at i:49519705 original size:29 final size:31
Alignment explanation
Indices: 49519638--49519708 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
49519628 GGTTTATGGG
49519638 AGAAAAAAAAA-GAAAAGAAGAGAAATAGAA
1 AGAAAAAAAAAGGAAAAGAAGAGAAATAGAA
* * * *
49519668 AG-AATAAAAAGGAGAATAA-AGAAATA-AT
1 AGAAAAAAAAAGGAAAAGAAGAGAAATAGAA
49519696 AGAAAAAAAAAGG
1 AGAAAAAAAAAGG
49519709 TAGGAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
28 3 0.09
29 23 0.68
30 8 0.24
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (31 bp):
AGAAAAAAAAAGGAAAAGAAGAGAAATAGAA
Found at i:49520584 original size:43 final size:44
Alignment explanation
Indices: 49520501--49520596 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 44
49520491 CCTAAAATTG
* * *
49520501 CCACTAAA-AATCATGATCTTTAGCTGCGTTTGTGGTAAAAGCG
1 CCACTAAAGAATCATGATCTTTAGCGGCATTTGTGGTAAAAGCA
* *
49520544 CCGCTAAAGAA-CATGATCTTTAGCGGCATTTTTGCG-AAAAGCA
1 CCACTAAAGAATCATGATCTTTAGCGGCATTTGTG-GTAAAAGCA
49520587 CCACTAAAGA
1 CCACTAAAGA
49520597 TTCTTTAGCG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 42 0.93
44 3 0.07
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
CCACTAAAGAATCATGATCTTTAGCGGCATTTGTGGTAAAAGCA
Found at i:49522049 original size:23 final size:23
Alignment explanation
Indices: 49522023--49522091 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
49522013 TTTAGAAAGT
49522023 AAAATATAAATGAAACTTAAACC
1 AAAATATAAATGAAACTTAAACC
* *
49522046 AAAATAT-TATGAAA-GT-----
1 AAAATATAAATGAAACTTAAACC
49522062 AAAATATAAATGAAACTTAAACC
1 AAAATATAAATGAAACTTAAACC
49522085 AAAATAT
1 AAAATAT
49522092 TATAAATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
16 7 0.20
17 6 0.17
18 1 0.03
21 1 0.03
22 6 0.17
23 14 0.40
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.25
Consensus pattern (23 bp):
AAAATATAAATGAAACTTAAACC
Found at i:49522071 original size:39 final size:39
Alignment explanation
Indices: 49522017--49522094 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
49522007 CACAAGTTTA
49522017 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
1 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
49522056 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
1 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
49522095 AAATTACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (39 bp):
GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
Found at i:49539109 original size:9 final size:9
Alignment explanation
Indices: 49539095--49539123 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
49539085 TAAACAATTC
49539095 AATAATATA
1 AATAATATA
49539104 AATAATATA
1 AATAATATA
49539113 AATAATATA
1 AATAATATA
49539122 AA
1 AA
49539124 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:49539538 original size:9 final size:9
Alignment explanation
Indices: 49539520--49539556 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
49539510 TATAGTTTGA
*
49539520 TATTCAAAT
1 TATTCGAAT
49539529 TATTCGAAT
1 TATTCGAAT
*
49539538 TATTCGAGT
1 TATTCGAAT
49539547 TATTCGAAT
1 TATTCGAAT
49539556 T
1 T
49539557 TGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:49541181 original size:12 final size:12
Alignment explanation
Indices: 49541164--49541189 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49541154 CTCTCTGCCT
49541164 TAACAAACAAAA
1 TAACAAACAAAA
49541176 TAACAAACAAAA
1 TAACAAACAAAA
49541188 TA
1 TA
49541190 TTTTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (12 bp):
TAACAAACAAAA
Found at i:49541219 original size:13 final size:13
Alignment explanation
Indices: 49541198--49541228 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49541188 TATTTTAATT
*
49541198 ATTTTCTAATAAA
1 ATTTCCTAATAAA
49541211 ATTTCCTAATAAA
1 ATTTCCTAATAAA
49541224 ATTTC
1 ATTTC
49541229 TGCCTGCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTCCTAATAAA
Found at i:49542021 original size:77 final size:75
Alignment explanation
Indices: 49541849--49542074 Score: 262
Period size: 78 Copynumber: 3.0 Consensus size: 75
49541839 AAATTCGAAA
* * * * *
49541849 AAAAAAAGAAAGGGATTTCGGAAAAAA-TTAGGGA-TTT-CGCAGAGGGGGAATTAATTTGGGGA
1 AAAAAAAGAAAGGGGTTTGGGAAAAAACTTAGAGATTTTGGGCAGAGGGGGAATTGATTT-GGGA
49541911 AAAGAAATTGGG
65 AAA-AAATTGGG
* * *
49541923 GAAAAAAGAAAGGGGTCTGGGAAAGAAACTTAGAGATTTTGGGCAGAAGGGGAATTGATTGTGGG
1 AAAAAAAGAAAGGGGTTTGGGAAA-AAACTTAGAGATTTTGGGCAGAGGGGGAATTGATT-TGGG
49541988 AAAAAAATTGGG
64 AAAAAAATTGGG
* *
49542000 AAAAAAAGAAAGGGGTTTGGGAAAAAAAACTTA-AGGATTTCGGGGAGAGGGGGAATTGATTTGG
1 AAAAAAAGAAAGGGGTTTGGG--AAAAAACTTAGA-GATTTTGGGCAGAGGGGGAATTGATTTGG
49542064 GAAAAAGAATT
63 GAAAAA-AATT
49542075 TGGAGTTTTA
Statistics
Matches: 130, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
74 20 0.15
75 3 0.02
76 6 0.05
77 40 0.31
78 57 0.44
79 4 0.03
ACGTcount: A:0.42, C:0.04, G:0.34, T:0.20
Consensus pattern (75 bp):
AAAAAAAGAAAGGGGTTTGGGAAAAAACTTAGAGATTTTGGGCAGAGGGGGAATTGATTTGGGAA
AAAAATTGGG
Found at i:49544832 original size:17 final size:19
Alignment explanation
Indices: 49544810--49544848 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
49544800 AATATTGACA
*
49544810 GATTGAA-GTTGTG-ATAT
1 GATTGAATGATGTGTATAT
49544827 GATTGAATGATGTGTATAT
1 GATTGAATGATGTGTATAT
49544846 GAT
1 GAT
49544849 GTATATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (19 bp):
GATTGAATGATGTGTATAT
Found at i:49545440 original size:46 final size:45
Alignment explanation
Indices: 49545206--49545433 Score: 206
Period size: 46 Copynumber: 5.0 Consensus size: 45
49545196 AGTTCTTGCC
* * * ** *
49545206 TAGGTTCTCAACTCTTGCATATGTTGCGGACTAAAGGATACAGATT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACAG-TT
* ** ** **
49545252 TAGGTTCCCAAATCCTGTATACATTAG-AAACTGGAGAATACAGATT
1 TAGGTTCCCAACTCCTACATATGTT-GCGGACTGGAGAATACAG-TT
* * * *
49545298 CAGGTTCCCAACTCCTACATATGTTACAGACTAGAGAATACAGGTT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACA-GTT
* *
49545344 TAGGTTCCCAGCTCCTACATATGTTGCGAACTGGAGAATACAAGTT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATAC-AGTT
* * *
49545390 TAGGTTCCCAACTCCTGCATATGTTGTGGATTGGAGAATACAGT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACAGT
49545434 AATAGGTAGT
Statistics
Matches: 147, Mismatches: 31, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
45 3 0.02
46 141 0.96
47 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (45 bp):
TAGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACAGTT
Found at i:49547515 original size:51 final size:50
Alignment explanation
Indices: 49547419--49547550 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 50
49547409 GATACCGGTT
* * *
49547419 CACATAGTAGCCTGCACAGAGTACTACACATGTAACCATCACTAT-CTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTAACCA-CACTATCCAG-TA
* * *
49547470 CACATAGTAGCCTGCACATAGAACTACACACGTGATCGA-AGCTATCCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGT-AACCACA-CTATCCAGTA
* *
49547521 CGCATAATAGCCTGCACATAGTACTACACA
1 CACATAGTAGCCTGCACATAGTACTACACA
49547551 TGGGACCTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.01
51 63 0.91
52 5 0.07
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTAACCACACTATCCAGTA
Found at i:49547602 original size:101 final size:101
Alignment explanation
Indices: 49547421--49547605 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 101
49547411 TACCGGTTCA
* *
49547421 CATAGTAGCCTGCACAGAGTACTACACATGTAACCATCACTATCTGATACACATAGTAGCCTGCA
1 CATAATAGCCTGCACAGAGTACTACACATGGAACCAT-ACTATCTGATACACATAGTAGCCTGCA
*
49547486 CATAGAACTACACACGTGATCGAAGCTATCCAGTACG
65 CAGAGAACTACACACGTGATCGAAGCTATCCAGTACG
* * * * * *
49547523 CATAATAGCCTGCACATAGTACTACACATGGGACC-TATCTTTTTGGTACACGTAGTAGCCTGCA
1 CATAATAGCCTGCACAGAGTACTACACATGGAACCATA-CTATCTGATACACATAGTAGCCTGCA
* *
49547587 CGGAGTACTACACACGTGA
65 CAGAGAACTACACACGTGA
49547606 CCATCACTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
100 1 0.01
101 39 0.55
102 31 0.44
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAATAGCCTGCACAGAGTACTACACATGGAACCATACTATCTGATACACATAGTAGCCTGCAC
AGAGAACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:49551505 original size:112 final size:112
Alignment explanation
Indices: 49551316--49551522 Score: 315
Period size: 112 Copynumber: 1.8 Consensus size: 112
49551306 TATGACGAGT
* * * ** *
49551316 TCATTAGACAAGCACTAGATAAGTAGCTTTCGTAATGGTATATAATAGGGAAAGCTCATTCATGG
1 TCATTAGACAACCACTAGATAAGTAGCTTTCATAATGGTATATAATAGAGAAAGCAAATTCATGA
*
49551381 TACTTTATTAGAATTCCTCCATGACTAAATAGTTTTGTATGATAAGG
66 TACTTTAGTAGAATTCCTCCATGACTAAATAGTTTTGTATGATAAGG
* *
49551428 TCATTAGACAACCACTAGATAAGTAGCTTTCATTATGGTATATAATAGAGAGAGCAAATTCATGA
1 TCATTAGACAACCACTAGATAAGTAGCTTTCATAATGGTATATAATAGAGAAAGCAAATTCATGA
* *
49551493 TACTTTGGTAGAATTCCTCCGTGACTAAAT
66 TACTTTAGTAGAATTCCTCCATGACTAAAT
49551523 GATCTGCCAT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 84 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (112 bp):
TCATTAGACAACCACTAGATAAGTAGCTTTCATAATGGTATATAATAGAGAAAGCAAATTCATGA
TACTTTAGTAGAATTCCTCCATGACTAAATAGTTTTGTATGATAAGG
Found at i:49565073 original size:12 final size:12
Alignment explanation
Indices: 49565056--49565087 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
49565046 CCATTCCATT
49565056 GAGGAGTACCAA
1 GAGGAGTACCAA
49565068 GAGGAGTACCAA
1 GAGGAGTACCAA
*
49565080 GAAGAGTA
1 GAGGAGTA
49565088 AGTTGTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.34, T:0.09
Consensus pattern (12 bp):
GAGGAGTACCAA
Found at i:49577521 original size:98 final size:98
Alignment explanation
Indices: 49577392--49577597 Score: 369
Period size: 98 Copynumber: 2.1 Consensus size: 98
49577382 ATGAAGATTT
* *
49577392 TTTTAATAATAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAAT-TGTGCCCTAACGTATTGG
1 TTTTAA-AGTAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCT-TGCCCTAACGTATTGG
49577456 GTGTGATTTCTTAAATCTTGGATAAGTGGATGTTC
64 GTGTGATTTCTTAAATCTTGGATAAGTGGATGTTC
49577491 TTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCTTGCCCTAACGTATTGGGT
1 TTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCTTGCCCTAACGTATTGGGT
49577556 GTGATTTCTTAAATCTTGGATAAGTGGATGTTC
66 GTGATTTCTTAAATCTTGGATAAGTGGATGTTC
49577589 TTTTAAAGT
1 TTTTAAAGT
49577598 TTTATTGTAC
Statistics
Matches: 104, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
98 97 0.93
99 7 0.07
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (98 bp):
TTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCTTGCCCTAACGTATTGGGT
GTGATTTCTTAAATCTTGGATAAGTGGATGTTC
Found at i:49582188 original size:105 final size:104
Alignment explanation
Indices: 49581974--49582188 Score: 236
Period size: 105 Copynumber: 2.0 Consensus size: 104
49581964 TGTCAGCCCG
* * *
49581974 TGTGAAAACTTCACCTATACTGTTTTGAAACACATTTAGGGTACACGCCCGTGTGAGTTGCCTGT
1 TGTGAAAACTTCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGAGTTGCCTGT
* * * * *
49582039 GCATATCACACGATCGTGTGACAGCCCATGACCCAGGCCG
66 GCA-ATCACACGACCGAGTAACAGCCCATGACCCAAGCCA
* * * *
49582079 TGTGAAAACTAT-ATCTATATTGTTTTGAAACACATTCAGGGCACAGGCCCATGTGTGTTGCCCG
1 TGTGAAAACT-TCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGAGTTG-CC-
* * * *
49582143 TGTGC-ATCACACGACCGAGTAATAGTCCGTGTCCCAAGCCA
63 TGTGCAATCACACGACCGAGTAACAGCCCATGACCCAAGCCA
49582184 TGTGA
1 TGTGA
49582189 GCACAAAAAT
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
105 83 0.91
106 3 0.03
107 5 0.05
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (104 bp):
TGTGAAAACTTCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGAGTTGCCTGT
GCAATCACACGACCGAGTAACAGCCCATGACCCAAGCCA
Found at i:49586052 original size:30 final size:30
Alignment explanation
Indices: 49586016--49586078 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
49586006 ACTTATTTTA
*
49586016 TTGTTAATTTTGTTGTTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
49586046 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
49586076 TTG
1 TTG
49586079 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:49587673 original size:20 final size:20
Alignment explanation
Indices: 49587650--49587711 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
49587640 GTTTTTAGAT
49587650 AATTATG-TTTATTTTCTTTA
1 AATTATGATTTATTTT-TTTA
* *
49587670 AATTAAGAGTTATTTTTTTA
1 AATTATGATTTATTTTTTTA
*
49587690 ACTTCATGATTTATTTATTTTA
1 AATT-ATGATTTATTT-TTTTA
49587712 TTATTTTCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 13 0.38
21 16 0.47
22 5 0.15
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (20 bp):
AATTATGATTTATTTTTTTA
Found at i:49596055 original size:16 final size:17
Alignment explanation
Indices: 49596026--49596057 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49596016 AATTTTAGGG
49596026 GGAAAATAAAAAGTTTT
1 GGAAAATAAAAAGTTTT
49596043 GGAAAAT-AAAAGTTT
1 GGAAAATAAAAAGTTT
49596058 GAGGGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (17 bp):
GGAAAATAAAAAGTTTT
Found at i:49596374 original size:30 final size:31
Alignment explanation
Indices: 49596313--49596371 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
49596303 GAGGTTGGGA
* **
49596313 TGGGAAGAGAGTAAAAGTTTTGATTAGAAAG
1 TGGGAAGAGAGTAAAAATTTTGAGGAGAAAG
49596344 TGGGAAG-GAGTAAAAATTTTGAGG-GAAA
1 TGGGAAGAGAGTAAAAATTTTGAGGAGAAA
49596372 AGTAAAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 14 0.56
31 7 0.28
ACGTcount: A:0.42, C:0.00, G:0.34, T:0.24
Consensus pattern (31 bp):
TGGGAAGAGAGTAAAAATTTTGAGGAGAAAG
Found at i:49601712 original size:24 final size:27
Alignment explanation
Indices: 49601671--49601720 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 27
49601661 ACTTTCTTTT
*
49601671 TATAAATTGTTTATAATTTTT-TAAAA
1 TATAAATTGTTTAGAATTTTTATAAAA
49601697 TATAAA-T-TTTAGAATTTTTATAAA
1 TATAAATTGTTTAGAATTTTTATAAA
49601721 TATTTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 5 0.23
26 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (27 bp):
TATAAATTGTTTAGAATTTTTATAAAA
Found at i:49602503 original size:27 final size:27
Alignment explanation
Indices: 49602473--49602526 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
49602463 GCTTGCGGGG
*
49602473 ATGTTAGTTTTC-GAGTTTCGTTACCAC
1 ATGTTAGTTTCCAG-GTTTCGTTACCAC
49602500 ATGTTAGTTTCCAGGTTTCGTTACCAC
1 ATGTTAGTTTCCAGGTTTCGTTACCAC
49602527 CCGTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (27 bp):
ATGTTAGTTTCCAGGTTTCGTTACCAC
Found at i:49608679 original size:17 final size:17
Alignment explanation
Indices: 49608657--49608708 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
49608647 ATGGAAACAT
* *
49608657 AATCTTCAAGGATATGC
1 AATCTTGAAAGATATGC
*
49608674 AATCTTAGATATGATATGC
1 AATCTT-GA-AAGATATGC
49608693 AATCTTGAAAGATATG
1 AATCTTGAAAGATATG
49608709 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.43
18 3 0.10
19 14 0.47
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (17 bp):
AATCTTGAAAGATATGC
Found at i:49608727 original size:22 final size:22
Alignment explanation
Indices: 49608667--49608710 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 22
49608657 AATCTTCAAG
49608667 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTGAAAGATAT
49608686 GATATGCAATCTTGAAAGATAT
1 GATATGCAATCTTGAAAGATAT
49608708 GAT
1 GAT
49608711 TTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.59
22 9 0.41
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (22 bp):
GATATGCAATCTTGAAAGATAT
Found at i:49614277 original size:11 final size:10
Alignment explanation
Indices: 49614263--49614305 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
49614253 AATATTCCAA
49614263 AAAAAAGAAAG
1 AAAAAA-AAAG
49614274 AAAAAAAAAG
1 AAAAAAAAAG
*
49614284 CAAAGAAAAAG
1 -AAAAAAAAAG
49614295 AAAAGAAAAAG
1 AAAA-AAAAAG
49614306 GAGAGGCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:49614279 original size:15 final size:14
Alignment explanation
Indices: 49614261--49614302 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 14
49614251 AAAATATTCC
49614261 AAAAAAAAGAAAGA
1 AAAAAAAAGAAAGA
49614275 AAAAAAAAGCAAAGA
1 AAAAAAAAG-AAAGA
49614290 AAAAGAAAAGAAA
1 AAAA-AAAAGAAA
49614303 AAGGAGAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.35
15 12 0.46
16 5 0.19
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAGA
Found at i:49628394 original size:11 final size:10
Alignment explanation
Indices: 49628380--49628422 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
49628370 ATATTCCAAA
49628380 AAAAAAGAAAG
1 AAAAAA-AAAG
49628391 AAAAAAAAAG
1 AAAAAAAAAG
*
49628401 CAAAGAAAAAG
1 -AAAAAAAAAG
49628412 AAAAGAAAAAG
1 AAAA-AAAAAG
49628423 GAGAGGCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:49628395 original size:15 final size:14
Alignment explanation
Indices: 49628377--49628419 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 14
49628367 AAAATATTCC
49628377 AAAAAAAAAGAAAG
1 AAAAAAAAAGAAAG
49628391 AAAAAAAAAGCAAAG
1 AAAAAAAAAG-AAAG
49628406 AAAAAGAAAAGAAA
1 AAAAA-AAAAGAAA
49628420 AAGGAGAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.37
15 12 0.44
16 5 0.19
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:49629815 original size:88 final size:88
Alignment explanation
Indices: 49629662--49630547 Score: 1038
Period size: 88 Copynumber: 10.2 Consensus size: 88
49629652 GAAATCACAA
* *
49629662 AGCCTTGCCTCCCTGGGTTGTAGTGGAGTAGGTTGAATATAACAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
*
49629727 CAACTCAGCAGATCGAAGATACC
66 CAACTAAGCAGATCGAAGATACC
*
49629750 AGCGTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
* * *
49629815 CAGCGAAGCAGTTCGAAGATACC
66 CAACTAAGCAGATCGAAGATACC
*
49629838 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATTAACAGATCTTGCCTTCCTGCATCG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATA-TAGCAGATCTTGCCTTCCTGCATCG
* * *
49629903 ACAGCGAAGCATATCGAAGATACC
65 ACAACTAAGCAGATCGAAGATACC
*
49629927 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCA-G--G--T-T-----ATCTTGCCTTCCTGTATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
* * * *
49629981 CAGCGAAGCAGATTGAAGGTACC
66 CAACTAAGCAGATCGAAGATACC
* * * *
49630004 AGTCTTGCCTCCTTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCTTGCATTGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
* *
49630069 CAGCGAAGCAGATCGAAGATACC
66 CAACTAAGCAGATCGAAGATACC
* * * * *
49630092 AGCCTTGCCTCCCTGGGTTGTAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
* *
49630157 C-AGTGAAGCAGATCGAAGATTCC
66 CAACT-AAGCAGATCGAAGATACC
* *
49630180 AGCCTTGCCTCCCTGGGTTGTAGTAGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
*
49630245 CAA-TGAAGCAGATCAAAGATACC
66 CAACT-AAGCAGATCGAAGATACC
* * *
49630268 AGCCTTG---CCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTA-CTG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATC-G
* *
49630329 A-AAGTGAAGTAGATCGAAGATACC
65 ACAACT-AAGCAGATCGAAGATACC
* ** * * * *
49630353 AGCCTTGCCTCCCTGGATCATAGTTGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
*
49630418 C-AGTGAAGCAGATCGAAGATACC
66 CAACT-AAGCAGATCGAAGATACC
* * * ** * * * *
49630441 ATCCTTGCCTCCCTGGGTTGTAGTGAAGTAGGTTGAAGGTAGTAGATCTTGCCTTCCTGTACCAA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
* * *
49630506 C-AGTGAAACAGATCAAAGATACC
66 CAACT-AAGCAGATCGAAGATACC
* *
49630529 AGTCTTGCCTCCTTGGGTT
1 AGCCTTGCCTCCCTGGGTT
49630548 ATCGTGAAGT
Statistics
Matches: 708, Mismatches: 69, Indels: 42
0.86 0.08 0.05
Matches are distributed among these distances:
77 67 0.09
78 1 0.00
80 1 0.00
82 2 0.00
83 1 0.00
84 4 0.01
85 75 0.11
86 1 0.00
88 478 0.68
89 78 0.11
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
CAACTAAGCAGATCGAAGATACC
Found at i:49630362 original size:261 final size:262
Alignment explanation
Indices: 49629961--49630584 Score: 847
Period size: 261 Copynumber: 2.4 Consensus size: 262
49629951 GGAGCAGGTT
* ** *
49629961 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATTGAAGGTACCAGTCTTGCCTCCTTGGGTTGTA
1 ATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCAAAGATACCAGTCTTG-C-CCTTGGGTTGTA
* * * *
49630026 GTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGATAC
64 GTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGAAAGCGAAGCAGATCGAAGATAC
* ** *
49630091 CAGCCTTGCCTCCCTGGGTTGTAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCG
129 CAGCCTTGCCTCCCTGGATCATAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCG
*
49630156 ACAGTGAAGCAGATCGAAGATTCCAGCCTTGCCTCCCTGGGTTGTAGT-AGAGCAGGTTGAAGAT
194 ACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGA-AGCAGGTTGAAGAT
49630220 AGCAG
258 AGCAG
* * *
49630225 ATCTTGCCTTCCTGCATCGACAATGAAGCAGATCAAAGATACCAGCCTTGCCC-TGGGTTGTAGT
1 ATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCAAAGATACCAGTCTTGCCCTTGGGTTGTAGT
* * * *
49630289 GGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTACTGAAAGTGAAGTAGATCGAAGATACCA
66 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGAAAGCGAAGCAGATCGAAGATACCA
* * *
49630354 GCCTTGCCTCCCTGGATCATAGTTGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGAC
131 GCCTTGCCTCCCTGGATCATAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCGAC
* * * *
49630419 AGTGAAGCAGATCGAAGATACCATCCTTGCCTCCCTGGGTTGTAGTGAAGTAGGTTGAAGGTAGT
196 AGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGCAGGTTGAAGATAGC
49630484 AG
261 AG
* * * * *
49630486 ATCTTGCCTTCCTGTACCAACAGTGAAACAGATCAAAGATACCAGTCTTGCCTCCTTGGGTTATC
1 ATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCAAAGATACCAGTCTTG-C-CCTTGGGTTGTA
* * * ** *
49630551 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
64 GTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
49630585 ATGTATTGGC
Statistics
Matches: 314, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
261 230 0.73
262 4 0.01
263 3 0.01
264 77 0.25
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (262 bp):
ATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCAAAGATACCAGTCTTGCCCTTGGGTTGTAGT
GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGAAAGCGAAGCAGATCGAAGATACCA
GCCTTGCCTCCCTGGATCATAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCGAC
AGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGCAGGTTGAAGATAGC
AG
Found at i:49630579 original size:44 final size:44
Alignment explanation
Indices: 49630550--49630936 Score: 436
Period size: 44 Copynumber: 8.8 Consensus size: 44
49630540 CTTGGGTTAT
49630550 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * *** *
49630594 CGTGAAATAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * *
49630638 TGGCGCAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
49630683 AGTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
*
49630727 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * * *
49630771 CGTGAAGTAGATCGAAGAGAGCAGATCCTGTCTTCCTATACTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * *
49630815 TGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * **
49630860 C--GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACCGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * *
49630902 CATGAAATAGACCAAAGGTAGCAGATCTTGTCTTC
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
49630937 CCATACTGGT
Statistics
Matches: 289, Mismatches: 50, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
42 38 0.13
44 180 0.62
45 71 0.25
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
Found at i:49630623 original size:88 final size:88
Alignment explanation
Indices: 49630549--49630966 Score: 400
Period size: 89 Copynumber: 4.7 Consensus size: 88
49630539 CCTTGGGTTA
* *
49630549 TCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATA
1 TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
*
49630614 GCAGATCTTGTCTTCCCAT-ACTGG
66 GCAGATCTTG-CTT-CCATGACTTG
* * * * * *
49630638 TGGCGCAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGAGTGAAGTAGATCAAAGATA
1 TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
* *
49630703 GCAGATCTTGTTTTCATGTA-TTG
66 GCAGATCTTGCTTCCATG-ACTTG
* * * *
49630726 GCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAGA
1 TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
* *
49630791 GCAGATCCTGTCTTCCTAT-ACTGG
66 GCAGATCTTG-CTTCC-ATGACTTG
* * * * *
49630815 TGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC--GAAGTAGATCGAAGAAA
1 TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
* *
49630878 GCAGATCTTATCTT-CATGTAC-CG
66 GCAGATCTT-GCTTCCATG-ACTTG
* * * * * * *** * *
49630901 GCATGAAATAGACCAAAGGTAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAT
1 TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
49630966 A
65 A
49630967 CAAGTCTTAT
Statistics
Matches: 266, Mismatches: 52, Indels: 22
0.78 0.15 0.06
Matches are distributed among these distances:
85 2 0.01
86 33 0.12
87 32 0.12
88 69 0.26
89 128 0.48
90 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (88 bp):
TCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
GCAGATCTTGCTTCCATGACTTG
Found at i:49630705 original size:133 final size:133
Alignment explanation
Indices: 49630551--49630966 Score: 451
Period size: 133 Copynumber: 3.1 Consensus size: 133
49630541 TTGGGTTATC
*
49630551 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGC
1 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
* * * * * * *
49630616 AGATCTTGTCTTCCCATACTGGTGGCGCAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
66 AGATCTTGTCTTCACATACTAG-CGCGAAGTAGATCGAAGAAAGCAGATCCTGTCTTCATATACT
49630681 GG-A
130 GGTA
* *
49630684 GTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
1 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
** * * * *
49630749 AGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAGAGCAGATCCTGTCTTCCTATACTG
66 AGATCTTGTCTTCACATACTAGCGCGAAGTAGATCGAAGAAAGCAGATCCTGTCTTCATATACTG
*
49630814 GTG
131 GTA
* * * * *
49630817 GCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC--GAAGTAGATCGAAGAAAGC
1 GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
* ** ** ** * * * ** * **
49630880 AGATCTTATCTTCATGTACCGGCATGAAATAGACCAAAGGTAGCAGATCTTGTCTTCCCATACTG
66 AGATCTTGTCTTCACATACTAGCGCGAAGTAGATCGAAGAAAGCAGATCCTGTCTTCATATACTG
*
49630945 GTG
131 GTA
*
49630948 GTGAAGTAGATCGAAGATA
1 GTGAAGTAGATCAAAGATA
49630967 CAAGTCTTAT
Statistics
Matches: 244, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
131 90 0.37
132 36 0.15
133 118 0.48
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (133 bp):
GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
AGATCTTGTCTTCACATACTAGCGCGAAGTAGATCGAAGAAAGCAGATCCTGTCTTCATATACTG
GTA
Found at i:49630746 original size:177 final size:175
Alignment explanation
Indices: 49630550--49630936 Score: 594
Period size: 177 Copynumber: 2.2 Consensus size: 175
49630540 CTTGGGTTAT
* *
49630550 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAGATCGAAGAGAG
* *
49630615 CAGATCTTGTCTTCCCATACTGGTGGCGCAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
66 CAGATCCTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
* * * * **
49630680 TGGAGTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGG
131 T-G-GCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTACCGG
*
49630727 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAGAG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAGATCGAAGAGAG
* *
49630792 CAGATCCTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTAT
66 CAGATCCTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
*
49630857 TGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACCGG
131 TGGCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTACCGG
* * * *
49630902 CATGAAATAGACCAAAGGTAGCAGATCTTGTCTTC
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
49630937 CCATACTGGT
Statistics
Matches: 192, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 67 0.35
176 1 0.01
177 124 0.65
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (175 bp):
CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAGATCGAAGAGAG
CAGATCCTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
TGGCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTACCGG
Found at i:49631345 original size:19 final size:19
Alignment explanation
Indices: 49631271--49631342 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
49631261 AATCTTCAAG
49631271 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
49631290 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
49631309 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
49631330 GATATGCAATCTT
1 GATATGCAATCTT
49631343 GGAAGATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:49634368 original size:9 final size:9
Alignment explanation
Indices: 49634354--49634378 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49634344 TTAATTTCAG
49634354 TTTCTTTCT
1 TTTCTTTCT
49634363 TTTCTTTCT
1 TTTCTTTCT
49634372 TTTCTTT
1 TTTCTTT
49634379 TAATAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:49642636 original size:19 final size:20
Alignment explanation
Indices: 49642612--49642652 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
49642602 TTAATTGATA
49642612 ATGTAATTATT-TTATATAT
1 ATGTAATTATTCTTATATAT
* *
49642631 ATGTAATTTTTCTTATCTAT
1 ATGTAATTATTCTTATATAT
49642651 AT
1 AT
49642653 ATGCATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (20 bp):
ATGTAATTATTCTTATATAT
Found at i:49643122 original size:15 final size:15
Alignment explanation
Indices: 49643102--49643136 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
49643092 TTTCTATGAG
49643102 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
49643117 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
49643132 ATTGT
1 ATTGT
49643137 GGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:49654154 original size:25 final size:26
Alignment explanation
Indices: 49654107--49654155 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
49654097 TAGAATTTTT
49654107 TTGTTCTTGTAATATTTTATTCTTCA
1 TTGTTCTTGTAATATTTTATTCTTCA
49654133 TTGTTCTTG-AATATCTTT-TTCTT
1 TTGTTCTTGTAATAT-TTTATTCTT
49654156 TTCAAGACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.63
Consensus pattern (26 bp):
TTGTTCTTGTAATATTTTATTCTTCA
Found at i:49655475 original size:310 final size:310
Alignment explanation
Indices: 49654848--49655568 Score: 1027
Period size: 310 Copynumber: 2.3 Consensus size: 310
49654838 GTATTGGCGT
* * * * * *
49654848 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTAGC--GAAGTGGATCGACGAT-GCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAG
* * * * **
49654910 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCGG
66 ATCTTGTCTTCCTATACTAGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATCGG
* * * *
49654975 CGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATG
131 CGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATA
* * *
49655040 CAGATCTTGTCTTCAAGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATT
196 CAGATCTTATCTTCAAGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCAATATT
* *
49655105 GGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
261 GGTAGCGAAGTGGATCGAAAATGCAGATCTTGTCTTCCCATACTGGTGGC
* * *
49655155 GAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAG
* * * * *
49655220 ATCTTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGG
66 ATCTTGTCTTCCTATACTAGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATCGG
*
49655284 TGGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT
131 -CGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT
** *
49655349 ACAGATCTTATCTTCCCGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCAATAT
195 ACAGATCTTATCTTCAAGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCAATAT
49655414 TGGTAGCGAAGTGGATCGAAAATGCAGATCTTGTCTTCCCATACTGGTGGC
260 TGGTAGCGAAGTGGATCGAAAATGCAGATCTTGTCTTCCCATACTGGTGGC
* * *
49655465 GAAGTAGATCGAAGAAAGCAGATCTTATCTACATGTATTAGCGTGAAGTAGATCGAAAATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAG
* * * * * *
49655530 ATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGAAGA
66 ATCTTGTCTTCCTATACTAGTAGCGAAGTAGATCGAAGA
49655569 CATTAGTCTT
Statistics
Matches: 362, Mismatches: 47, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
307 36 0.10
309 35 0.10
310 291 0.80
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (310 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAG
ATCTTGTCTTCCTATACTAGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATCGG
CGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATA
CAGATCTTATCTTCAAGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCAATATT
GGTAGCGAAGTGGATCGAAAATGCAGATCTTGTCTTCCCATACTGGTGGC
Found at i:49655564 original size:133 final size:133
Alignment explanation
Indices: 49654818--49655568 Score: 824
Period size: 133 Copynumber: 5.7 Consensus size: 133
49654808 TGCTAAAAAA
* *
49654818 AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
* * *
49654883 TA-T--TAGCGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
66 TATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
49654945 AAG
131 AAG
* **
49654948 AAAGCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
* *
49655013 TATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT-CAAGTA-T--TGGCATGAAGTAGA
66 TATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCA-TACTGGTGGC--GAAGTAGA
49655074 TCGAAG
128 TCGAAG
* * * * * *
49655080 ATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCC
1 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCT
* * * * *** * * *
49655144 ATACTGGTGGCGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGAT
65 ATATTGGTAGCGAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
49655208 CGAAG
129 CGAAG
* * ** * *
49655213 ATAA-CAGATCTTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCC
1 A-AAGCAGATCTTGTCTTCATGTATT-GGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCC
* * * * * * * *
49655276 CATATTGGTGGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGA
64 TATATTGGTAGCGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
49655341 TCGAAG
128 TCGAAG
* * ** * *
49655347 ATA-CAGATCTTATCTTCCCGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCAA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
* *
49655411 TATTGGTAGCGAAGTGGATCGAAAATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
66 TATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
49655476 AAG
131 AAG
* * * * * *
49655479 AAAGCAGATCTTATCTACATGTATTAGCGTGAAGTAGATCGAAAATAGCAGATCTTGCCTTCCTG
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
* * * *
49655544 TACTGGCAGTGAAGCAGATCGAAGA
66 TATTGGTAGCGAAGTAGATCGAAGA
49655569 CATTAGTCTT
Statistics
Matches: 528, Mismatches: 75, Indels: 33
0.83 0.12 0.05
Matches are distributed among these distances:
130 65 0.12
131 1 0.00
132 131 0.25
133 312 0.59
134 18 0.03
135 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (133 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
TATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
AAG
Found at i:49655568 original size:221 final size:221
Alignment explanation
Indices: 49654819--49655542 Score: 992
Period size: 221 Copynumber: 3.3 Consensus size: 221
49654809 GCTAAAAAAA
*
49654819 AAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTAT
*
49654884 A-T--TAGCGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
66 ATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
* *
49654946 AGAAAGCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCC
131 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCC
49655011 TATATTGGTAGCGAAGTGGATCGAAG
196 TATATTGGTAGCGAAGTGGATCGAAG
* * * *
49655037 ATGCAGATCTTGTCTTCAAGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTAT
* * *
49655102 ATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGA
66 ATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
49655167 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCC
131 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCC
*
49655232 TATATTAGTAGCGAAGTGGATCGAAG
196 TATATTGGTAGCGAAGTGGATCGAAG
* *** * * *
49655258 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTA
1 AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
* * * * *
49655323 TATTGGTAGCGAAGTGGATCGAAGATACAGATCTTATCTTCCCGTATTGG-CGTGAAGTAGATCG
65 TATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
* * * * * * * *
49655387 AAGATAGCAGATCCTGTCTTCCA-ATATTGGTAGCGAAGTGGATCGAAAAT-GCAGATCTTGTCT
130 AAGAAAGCAGATCTTGTCTT-CATGTATTGG-CGTGAAGTAGATCGAAGATAACAGATCTTGTCT
* * * *
49655450 TCCCATACTGGTGGCGAAGTAGATCGAAG
193 TCCTATATTGGTAGCGAAGTGGATCGAAG
* * * * * *
49655479 AAAGCAGATCTTATCTACATGTATTAGCGTGAAGTAGATCGAAAATAGCAGATCTTGCCTTCCT
1 -AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCT
49655543 GTACTGGCAG
Statistics
Matches: 445, Mismatches: 54, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
218 61 0.14
219 1 0.00
221 269 0.60
222 114 0.26
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (221 bp):
AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTAT
ATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCC
TATATTGGTAGCGAAGTGGATCGAAG
Found at i:49657690 original size:28 final size:30
Alignment explanation
Indices: 49657626--49657684 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
49657616 TATATGCATA
49657626 TATATTTCTATTTTTTAATAAATATTTTTC
1 TATATTTCTATTTTTTAATAAATATTTTTC
* *
49657656 TATATTTGT-TTTTTTAAATGAATATTTTT
1 TATATTTCTATTTTTT-AATAAATATTTTT
49657685 ATATTTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (30 bp):
TATATTTCTATTTTTTAATAAATATTTTTC
Found at i:49658056 original size:27 final size:27
Alignment explanation
Indices: 49658008--49658060 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
49657998 CATGTGATCG
* * *
49658008 TTTATTTTTTTTATGTATATTAGTTTCA
1 TTTATTTTATTTATATACATTA-TTTCA
49658036 TTTA-TTTATTTATATACATTATTTC
1 TTTATTTTATTTATATACATTATTTC
49658061 TATGACATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 14 0.64
28 4 0.18
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTATTTTATTTATATACATTATTTCA
Found at i:49659698 original size:58 final size:54
Alignment explanation
Indices: 49659604--49659714 Score: 132
Period size: 58 Copynumber: 2.0 Consensus size: 54
49659594 ATAAAATATA
* * *
49659604 AAAAATATATATAAGTATGTATATATTCGTGAAAATAGAAAGATGCATATAGAC
1 AAAAATATATATAAGTATGTATATATTCATGAAAATAAAAAAATGCATATAGAC
* * *
49659658 AAAAATATATGAGTACGTATGTATATATATATATGAAAATAAAAAAATGTATATAGA
1 AAAAATATAT-A-TAAGTATGTATATAT-T-CATGAAAATAAAAAAATGCATATAGA
49659715 TTATAGAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 10 0.21
55 1 0.02
56 14 0.30
57 1 0.02
58 21 0.45
ACGTcount: A:0.52, C:0.04, G:0.14, T:0.31
Consensus pattern (54 bp):
AAAAATATATATAAGTATGTATATATTCATGAAAATAAAAAAATGCATATAGAC
Found at i:49661163 original size:40 final size:40
Alignment explanation
Indices: 49661111--49661722 Score: 400
Period size: 40 Copynumber: 14.7 Consensus size: 40
49661101 TATCTTTAAC
49661111 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAG-GCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTG-GTGCGAT
49661151 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAG-GCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTG-GTGCGAT
* *
49661191 CTGCTCCACTACTGCTTAAGGAGATAAGATCTGTGGTTCTG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTGC-GAT
*
49661233 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTGC-GAT
*
49661275 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTGCGAT
***
49661315 CTGCTCCACTACTGCTTAGGGAGATAAGATCTATGGTTTTAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGG-TGCGAT
* * ** * * *
49661358 CCGCTCCACTGCAACTTTAGGGATATAGGA-TTGGTTTTTTTCG-T
1 CTGCTCCACTACTGC-TTAGGGAGATAAGACTTGG-----TGCGAT
* *
49661402 CTGCTCCACTACTGCTTACGGAGATAAGACTTGATGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTGCGAT
** ***
49661442 CTGCTCCACTTTTGCTTAGGGAGATAAGATCTGTGGTTTTAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGG-TGCGAT
* * * * * ** **
49661485 CCGCTCAACT-GTAACTTCAGGGAGATAGGATGATTTTTTTTTG-T
1 CTGCTCCACTACT-GCTT-AGGGAGATA--A-GA-CTTGGTGCGAT
* *
49661529 CTGCTCCACTACTACTTAGGGAGATAAGAC-TGGATGTGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGG-TGCGAT
* * ***
49661569 CTGCTTCACTACTACTTAGGGAGATAAGATCTTGGTTTTAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTTGG-TGCGAT
* * ** * ****
49661611 -TCACTCCACTGCAACTTTAGGGAGATAGGA-TTGGTTTTTT
1 CT-GCTCCACTACTGC-TTAGGGAGATAAGACTTGGTGCGAT
* **
49661651 TTGTCTGCTCACTACTGCTTAGGGAGATAAGACTTCATGCGAT
1 CTG-CT-C-CACTACTGCTTAGGGAGATAAGACTTGGTGCGAT
49661694 CTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
49661723 TCTGTGGTTT
Statistics
Matches: 466, Mismatches: 71, Indels: 70
0.77 0.12 0.12
Matches are distributed among these distances:
38 1 0.00
39 7 0.02
40 187 0.40
41 23 0.05
42 112 0.24
43 74 0.16
44 49 0.11
45 7 0.02
46 2 0.00
47 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (40 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTGCGAT
Found at i:49661259 original size:82 final size:82
Alignment explanation
Indices: 49661111--49661731 Score: 418
Period size: 82 Copynumber: 7.5 Consensus size: 82
49661101 TATCTTTAAC
*
49661111 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GATCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG-TCTGCTCCACTACTGCTTAGGG
*
49661172 AGATAAGA-CTTGAGGCGAT
64 AGATAAGATCTTG-GTCGAT
*
49661191 CTGCTCCACTACTGCTTAAGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAG
49661256 ATAAGATCTGTGGTTCTG-T
66 ATAAGATCT-TGG-TC-GAT
* *
49661275 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGC-GATCTGCTCCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-TCTGCTCCACTACTGCTTAGGGA
**
49661337 GATAAGATCTATGGTTTTAAT
65 GATAAGATCT-TGG--TCGAT
* * ** * * ** * *
49661358 CCGCTCCACTGCAACTTTAGGGATATAGGAT-TGGTTTTTTTCGTCTGCTCCACTACTGCTTACG
1 CTGCTCCACTACTGC-TTAGGGAGATAAGATCT-GTGGTTCT-GTCTGCTCCACTACTGCTTAGG
*
49661422 GAGATAAGA-CTTGATGCGAT
63 GAGATAAGATCTTGGT-CGAT
** * * * * * *
49661442 CTGCTCCACTTTTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCAACT-GTAACTTCAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCT-GTCTGCTCCACTACT-GCTT-AGG
* ** *
49661506 GAGATAGGATGATTTTTTTTTG-T
63 GAGATA--A-GA-TCTTGGTCGAT
* * * * *
49661529 CTGCTCCACTACTACTTAGGGAGATAAGA-C--TGGATGTGATCTGCTTCACTACTACTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-TCTGCTCCACTACTGCTTAGGGA
**
49661591 GATAAGATCTTGGTTTTAAT
65 GATAAGATCTTGG--TCGAT
* * ** * ** *
49661611 -TCACTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTTTTTTGTCTGCT-CACTACTGCTTAG
1 CT-GCTCCACTACTGC-TTAGGGAGATAAGATCT-G-TGGTTCTGTCTGCTCCACTACTGCTTAG
**
49661673 GGAGATAAGA-CTTCATGCGAT
62 GGAGATAAGATCTTGGT-CGAT
49661694 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
49661732 TTAATCCGCT
Statistics
Matches: 423, Mismatches: 77, Indels: 81
0.73 0.13 0.14
Matches are distributed among these distances:
79 3 0.01
80 30 0.07
81 11 0.03
82 101 0.24
83 86 0.20
84 87 0.21
85 26 0.06
86 12 0.03
87 62 0.15
88 2 0.00
89 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (82 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTTGGTCGAT
Found at i:49661441 original size:127 final size:127
Alignment explanation
Indices: 49661150--49661750 Score: 847
Period size: 127 Copynumber: 4.8 Consensus size: 127
49661140 CTTGAGGCGA
* *
49661150 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAAGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * * * ** * ** *
49661215 TAAGATCTGTGGTTCT-GTCTGCTCCACTACTGC-TTAGGGAGATAAGATCT-G-TGGTTCTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTTTTTTG
49661274 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * *
49661339 TAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTTAGGGATATAGGATTGGTTTTTTTCG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
* **
49661401 TCTGCTCCACTACTGCTTACGGAGATAAGACTTGATGCGATCTGCTCCACTTTTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * * *
49661466 TAAGATCTGTGGTTTTAATCCGCTCAACTGTAACTTCAGGGAGATAGGA-TGATTTTTTTTTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTG-GTTTTTTTTG
* * * * *
49661528 TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGATCTGCTTCACTACTACTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* *
49661593 TAAGATCT-TGGTTTTAATTCACTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
*
49661654 TCTGCT-CACTACTGCTTAGGGAGATAAGACTTCATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
**
49661718 TAAGATCTGTGGTTTTAATCCGCTTAACTGCAA
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAA
49661751 TGTCGGGGAA
Statistics
Matches: 421, Mismatches: 49, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
124 77 0.18
125 73 0.17
126 86 0.20
127 185 0.44
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (127 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
Found at i:49661554 original size:43 final size:43
Alignment explanation
Indices: 49661498--49661679 Score: 112
Period size: 43 Copynumber: 4.3 Consensus size: 43
49661488 CTCAACTGTA
49661498 ACTTCAGGGAGATAGGATGATTTTTTTTTGTCTGCTCCACTACT
1 ACTT-AGGGAGATAGGATGATTTTTTTTTGTCTGCTCCACTACT
* *** * *
49661542 ACTTAGGGAGATA--A-GA-CTGGATGTGATCTGCTTCACTACT
1 ACTTAGGGAGATAGGATGATTTTTTTTTG-TCTGCTCCACTACT
* * ** * * *
49661582 ACTTAGGGAGATAAGAT-CTTGGTTTTAAT-TC-ACTCCACTGCA
1 ACTTAGGGAGATAGGATGATT--TTTTTTTGTCTGCTCCACTACT
*
49661624 ACTTTAGGGAGATAGGATTG-GTTTTTTTTGTCTGCT-CACTACT
1 AC-TTAGGGAGATAGGA-TGATTTTTTTTTGTCTGCTCCACTACT
*
49661667 GCTTAGGGAGATA
1 ACTTAGGGAGATA
49661680 AGACTTCATG
Statistics
Matches: 101, Mismatches: 25, Indels: 26
0.66 0.16 0.17
Matches are distributed among these distances:
39 4 0.04
40 28 0.28
41 1 0.01
42 26 0.26
43 32 0.32
44 8 0.08
45 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.36
Consensus pattern (43 bp):
ACTTAGGGAGATAGGATGATTTTTTTTTGTCTGCTCCACTACT
Found at i:49661858 original size:50 final size:50
Alignment explanation
Indices: 49661804--49662286 Score: 267
Period size: 50 Copynumber: 9.7 Consensus size: 50
49661794 ACTGTATCGC
* * * *
49661804 CAGGGAAATAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
* ** * * *
49661854 CAGGG-AACAAGATTCGCCGTTGTAGCTTCAAT-TTGACCCACTGC-ATCGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTT-TTCAATTGCAAT-GT
** * *
49661903 CAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
* * * * * * ** * * *
49661953 CGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTACTCCATTGCATTGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
** * * * *
49662003 CAGGGAAGTAAGATTCACCGTTGCGGCTTTAATCTTTTTAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
* * * * * * *
49662053 C-GGGGAACAAGATTCGCCGTTGTAGCTTCAAT-TTGATCCACTGCATTGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTT-TTCAATTGCAATGT
* * ** ** * * * *
49662102 CTGAGAAGTAAGATTCATCGTTGCGGCCTCAATCTTTTAAATTGCAATAT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
* * * * * * *** * * *
49662152 CAGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCCCCACTGC-ATCGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAAT-GT
* * * * *
49662202 CATGGAAATAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
* * * *
49662252 CGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCT
49662287 GTTCCACTGC
Statistics
Matches: 308, Mismatches: 115, Indels: 20
0.70 0.26 0.05
Matches are distributed among these distances:
48 6 0.02
49 69 0.22
50 225 0.73
51 8 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (50 bp):
CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTCAATTGCAATGT
Found at i:49662018 original size:100 final size:100
Alignment explanation
Indices: 49661746--49662301 Score: 724
Period size: 100 Copynumber: 5.6 Consensus size: 100
49661736 TCCGCTTAAC
** * * *
49661746 TGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTTAATCTGCTCCACTGTATCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTACTCCACTGCATCGCCAGGGAA
* * * *
49661811 ATAAGATTCGCCGTTGCGGCTTCAATATTTTTAAT
66 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* *
49661846 TGCAATGTCAGGGAA-CAAGATTCGCCGTTGTAGCTTCAATTTGAC-CCACTGCATCGCCAGGGA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT-ACTCCACTGCATCGCCAGGGA
*
49661909 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
65 AGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* * * * *
49661945 TGCAATGTCGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTACTCCATTGCATTGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTACTCCACTGCATCGCCAGGGAA
* *
49662010 GTAAGATTCACCGTTGCGGCTTTAATCTTTTTAAT
66 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* * * *
49662045 TGCAATGTCGGGGAA-CAAGATTCGCCGTTGTAGCTTCAATTTGA-TCCACTGCATTGCCTGAGA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT-ACTCCACTGCATCGCCAGGGA
* *
49662108 AGTAAGATTCATCGTTGCGGCCTCAATCTTTTAAAT
65 AGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* * * * * * * * *
49662144 TGCAATATCAGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCCCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTACTCCACTGCATCGCCAGGGAA
*
49662209 ATAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
66 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* **
49662244 TGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATCGC
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTACTCCACTGCATCGC
49662302 TAGTTTGATA
Statistics
Matches: 394, Mismatches: 56, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
99 173 0.44
100 221 0.56
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (100 bp):
TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTACTCCACTGCATCGCCAGGGAA
GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
Found at i:49662086 original size:199 final size:199
Alignment explanation
Indices: 49661746--49662301 Score: 851
Period size: 199 Copynumber: 2.8 Consensus size: 199
49661736 TCCGCTTAAC
* * * *
49661746 TGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTTAATCTGCTCCACTGTATCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* * *
49661811 ATAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAGGGAACAAGATTCGCCGTTG
66 ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
* * * *
49661876 TAGCTTCAATTTGACCCACTGCATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTT
131 TAGCTTCAATTTGATCCACTGCATCGCCAGAGAAGTAAGATTCACCGTTGCGGCCTCAATCTTTT
49661941 AAAT
196 AAAT
* * * *
49661945 TGCAATGTCGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTACTCCATTGCATTGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* *
49662010 GTAAGATTCACCGTTGCGGCTTTAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
66 ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
* * *
49662075 TAGCTTCAATTTGATCCACTGCATTGCCTGAGAAGTAAGATTCATCGTTGCGGCCTCAATCTTTT
131 TAGCTTCAATTTGATCCACTGCATCGCCAGAGAAGTAAGATTCACCGTTGCGGCCTCAATCTTTT
49662140 AAAT
196 AAAT
* * * *
49662144 TGCAATATCAGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCCCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* *
49662209 ATAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTT
66 ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCGTT
* *
49662274 GTAGCTTCAATCTGTTCCACTGCATCGC
130 GTAGCTTCAATTTGATCCACTGCATCGC
49662302 TAGTTTGATA
Statistics
Matches: 321, Mismatches: 35, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
199 283 0.88
200 38 0.12
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (199 bp):
TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
TAGCTTCAATTTGATCCACTGCATCGCCAGAGAAGTAAGATTCACCGTTGCGGCCTCAATCTTTT
AAAT
Found at i:49662444 original size:44 final size:44
Alignment explanation
Indices: 49662344--49662615 Score: 280
Period size: 44 Copynumber: 6.2 Consensus size: 44
49662334 AGAGAGATAG
* * * * *
49662344 GATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGACAA
* * *
49662389 GATCTGC-ATCTTTGATCCACTTCCTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGACAA
* * * *
49662432 GACCTGCTATCTTCGATCTACTTCCTGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGACAA
* * * *
49662476 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGACAA
* * * *
49662521 GATTTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGACAA
* * * *
49662564 GACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGACAA
49662608 GATCTGCT
1 GATCTGCT
49662616 TTAATGACTT
Statistics
Matches: 183, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
43 42 0.23
44 114 0.62
45 27 0.15
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGACAA
Found at i:49662581 original size:132 final size:132
Alignment explanation
Indices: 49662344--49662617 Score: 496
Period size: 132 Copynumber: 2.1 Consensus size: 132
49662334 AGAGAGATAG
* *
49662344 GATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTTGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC
49662409 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTC-CTGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGA
49662473 CAA
130 CAA
*
49662476 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
49662541 TTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
49662606 AA
131 AA
49662608 GATCTGCTTT
1 GATCTGCTTT
49662618 AATGACTTCA
Statistics
Matches: 137, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
132 136 0.99
133 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:49662995 original size:24 final size:25
Alignment explanation
Indices: 49662943--49662996 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
49662933 ATTGCCCCTA
49662943 CTGTAATCTTCAAAGTTCAATCCGT
1 CTGTAATCTTCAAAGTTCAATCCGT
*
49662968 -TGTAATCTTCAAGGTT-AAGTCC-T
1 CTGTAATCTTCAAAGTTCAA-TCCGT
49662991 CTGTAA
1 CTGTAA
49662997 ATTTGGGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (25 bp):
CTGTAATCTTCAAAGTTCAATCCGT
Found at i:49664357 original size:17 final size:16
Alignment explanation
Indices: 49664319--49664365 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
49664309 CCAGTAAAGG
49664319 TTTTTTGTTTTTTTTC
1 TTTTTTGTTTTTTTTC
*
49664335 TCTTTTGTTCTTTTTT-
1 TTTTTTGTT-TTTTTTC
49664351 TGTTTTTGTGTTTTT
1 T-TTTTTGT-TTTTT
49664366 GGTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.35
17 16 0.62
18 1 0.04
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (16 bp):
TTTTTTGTTTTTTTTC
Found at i:49668138 original size:31 final size:29
Alignment explanation
Indices: 49668073--49668139 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
49668063 TATGAGTACG
* *
49668073 TATGTATATATATATGAAAATAAATAAAA
1 TATGTATATAGATATGAAAATAAAGAAAA
* * *
49668102 AATGTATATAGATTATAGAATATAAAGAATA
1 TATGTATATAGA-TAT-GAAAATAAAGAAAA
49668133 TATGTAT
1 TATGTAT
49668140 GAGTATGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 10 0.33
30 3 0.10
31 17 0.57
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (29 bp):
TATGTATATAGATATGAAAATAAAGAAAA
Found at i:49672629 original size:25 final size:25
Alignment explanation
Indices: 49672601--49672656 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
49672591 ATAATTCTAC
*
49672601 AATTAAATAAAATACTTAATAATAA
1 AATTAAATAAAATAATTAATAATAA
* *
49672626 AATTAAATATACTAATTAATAATAA
1 AATTAAATAAAATAATTAATAATAA
49672651 AATTAA
1 AATTAA
49672657 TTATGTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (25 bp):
AATTAAATAAAATAATTAATAATAA
Found at i:49672631 original size:12 final size:12
Alignment explanation
Indices: 49672616--49672657 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
49672606 AATAAAATAC
49672616 TTAATAATAAAA
1 TTAATAATAAAA
*
49672628 TTAA-ATATACTAA
1 TTAATA-ATA-AAA
49672641 TTAATAATAAAA
1 TTAATAATAAAA
49672653 TTAAT
1 TTAAT
49672658 TATGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 1 0.04
12 14 0.56
13 9 0.36
14 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAATAATAAAA
Found at i:49675950 original size:37 final size:36
Alignment explanation
Indices: 49675897--49676004 Score: 109
Period size: 37 Copynumber: 2.9 Consensus size: 36
49675887 ATTCTAAAAA
49675897 TAATATTAT-TTCAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTT-AATAGTTTAATATT-AATTTAATAT
*
49675933 TAATACTTATCTTAATAGTATTTA-ATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
49675970 TAAAGTGATTATCTTAATA-TTTAAT-TTAATTTAAT
1 T-AA-T-ATTATCTTAATAGTTTAATATTAATTTAAT
49676005 GTTTATCTAC
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
36 13 0.21
37 28 0.45
38 8 0.13
39 12 0.19
40 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:49680097 original size:23 final size:22
Alignment explanation
Indices: 49680026--49680111 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 22
49680016 CCTGATCAGT
49680026 ATACGACACAT-AAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
* ** *
49680047 A-ATGACACACGAGGTGCCT-A
1 ATACGACACATAAAGTGCCTGA
49680067 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
49680089 GATACGACACATAAAGTGCCTGA
1 -ATACGACACATAAAGTGCCTGA
49680112 TTGGCAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 9 0.17
21 22 0.41
22 1 0.02
23 22 0.41
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:49682330 original size:16 final size:15
Alignment explanation
Indices: 49682282--49682333 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
49682272 CTATTAGAAT
*
49682282 TTTTCCTTCCTTTCTC
1 TTTTCTTTCCTTT-TC
*
49682298 TATTTCTTCCCTCTTTC
1 T-TTTCTTTCCT-TTTC
49682315 TTTTCTTTTCCTTTTC
1 TTTTC-TTTCCTTTTC
49682331 TTT
1 TTT
49682334 GTATCATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.40
17 16 0.53
18 2 0.07
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCTTTCCTTTTC
Found at i:49683300 original size:34 final size:34
Alignment explanation
Indices: 49683262--49683345 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
49683252 GATTTACTAA
* *
49683262 AAGCATGTCTATTGCTATCGTATTGATCCGTTAT
1 AAGCATGTCTATTGCTACCATATTGATCCGTTAT
* * **
49683296 AAGCATATTTATTGCTACCATATTGATTTGTTAT
1 AAGCATGTCTATTGCTACCATATTGATCCGTTAT
*
49683330 AAACATGTCATATTGC
1 AAGCATGTC-TATTGC
49683346 ATTGCATAGG
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
34 34 0.85
35 6 0.15
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (34 bp):
AAGCATGTCTATTGCTACCATATTGATCCGTTAT
Found at i:49683561 original size:45 final size:45
Alignment explanation
Indices: 49683390--49683563 Score: 199
Period size: 45 Copynumber: 3.9 Consensus size: 45
49683380 TATAAGCCAC
* * * *
49683390 TTATCTGCACCAATTAGTGGTTTATCCACACCGTACTAGCAACTT
1 TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAGCAACTT
* * **
49683435 TTATC--TACATCGATTAGTGGTTTATCCACACTGTACTAGCAACTT
1 TTATCTGTAC-T-AATGAGTGGTTTATCCACACCATACTAGCAACTT
* * *
49683480 TAATTTGTACTAATGAGTGGTTTATCCATACCATACTAGCAACTT
1 TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAGCAACTT
* *
49683525 TTATCTGTACTAATGAGTGGTTTATTCACACTATACTAG
1 TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAG
49683564 TAGTTTATCT
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.02
45 103 0.94
46 1 0.01
47 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (45 bp):
TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAGCAACTT
Found at i:49684147 original size:24 final size:24
Alignment explanation
Indices: 49684120--49684165 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
49684110 ATTTGTAAGT
49684120 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATGC
* *
49684144 CAAATATATTATACTAATAAAT
1 CAAATAAACTATACTAATAAAT
49684166 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATGC
Found at i:49686110 original size:24 final size:24
Alignment explanation
Indices: 49686083--49686128 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
49686073 ATTTGTAAGT
49686083 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATGC
* *
49686107 CAAATATATTATACTAATAAAT
1 CAAATAAACTATACTAATAAAT
49686129 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATGC
Found at i:49687400 original size:15 final size:15
Alignment explanation
Indices: 49687380--49687430 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 15
49687370 TTTTTTAAAC
*
49687380 ATATTTAAATTTATT
1 ATATTTAATTTTATT
49687395 ATATTTATTATTGATTATT
1 ATATTTA--ATT--TTATT
49687414 ATATTTAATTTTATT
1 ATATTTAATTTTATT
49687429 AT
1 AT
49687431 TAATTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 14 0.45
17 5 0.16
19 12 0.39
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
ATATTTAATTTTATT
Found at i:49687412 original size:19 final size:18
Alignment explanation
Indices: 49687390--49687432 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
49687380 ATATTTAAAT
49687390 TTATTATATTT-ATTATTGA
1 TTATTATATTTAATT-TT-A
49687409 TTATTATATTTAATTTTA
1 TTATTATATTTAATTTTA
49687427 TTATTA
1 TTATTA
49687433 ATTAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 13 0.57
20 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATTATATTTAATTTTA
Found at i:49687431 original size:25 final size:25
Alignment explanation
Indices: 49687398--49687449 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
49687388 ATTTATTATA
* **
49687398 TTTATTATTGATTATTATATTTAAT
1 TTTATTATTAATTAAAATATTTAAT
49687423 TTTATTATTAATTAAAATATTTAAT
1 TTTATTATTAATTAAAATATTTAAT
49687448 TT
1 TT
49687450 AAAAAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTATTATTAATTAAAATATTTAAT
Found at i:49689063 original size:21 final size:22
Alignment explanation
Indices: 49689039--49689080 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
49689029 CGGGTTTGGG
*
49689039 GTTTAATGATTTA-GGTTTAAA
1 GTTTAAGGATTTAGGGTTTAAA
*
49689060 GTTTAAGGGTTTAGGGTTTAA
1 GTTTAAGGATTTAGGGTTTAA
49689081 GATTACGAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (22 bp):
GTTTAAGGATTTAGGGTTTAAA
Found at i:49690660 original size:113 final size:115
Alignment explanation
Indices: 49690453--49690793 Score: 449
Period size: 113 Copynumber: 3.0 Consensus size: 115
49690443 CGAAAATGCC
* ** *
49690453 ACAAAAAAACCTAAGACCAACGACGCCGTTTTTTGAGCTTTTGGGGATTTAGCGGCGTTTTTAAG
1 ACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG
* *
49690518 AAAGCGAC-GCTAATGCTCAGGGCTTTAGCGGCGTTTTC-GGTAAAGCGCA
66 TAAGCG-CTGCTAATGCTCAGGGCTTTAGCGGCGTTTTCTGGGAAAGCGCA
* * *
49690567 ACAAAAGAACCTAAGCCCAACGACGCCGTTTACTGAGC-TTCGGGGCTTTAGCGGCATTTTTAAG
1 ACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG
* * ** * *
49690631 TAAGCGCTTCTAATGCTCCGGGCTTTAGCGATG-ATTCTGGGAAAGCGCC
66 TAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTCTGGGAAAGCGCA
* * * *
49690680 GCAAAAAAACATAAGCCCAACGACGCCGTTTACTGAGCTTTCGGGGTTTTAGCGGGGTTTTTAAG
1 ACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG
*
49690745 TAAGCGCTGCTAATGCTTAGGGCTTTAGCGGCGTTTT-TGGGAAATGCGC
66 TAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTCTGGGAAA-GCGC
49690794 CGCAAAGGGC
Statistics
Matches: 195, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
112 4 0.02
113 93 0.48
114 92 0.47
115 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (115 bp):
ACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG
TAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTCTGGGAAAGCGCA
Found at i:49691423 original size:14 final size:15
Alignment explanation
Indices: 49691392--49691424 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
49691382 AAGTTTTATA
49691392 GATTATGGAATTAAG
1 GATTATGGAATTAAG
*
49691407 GATTATGG-ATTAGG
1 GATTATGGAATTAAG
49691421 GATT
1 GATT
49691425 CTAGTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAAG
Found at i:49691714 original size:89 final size:89
Alignment explanation
Indices: 49691611--49691878 Score: 308
Period size: 97 Copynumber: 2.9 Consensus size: 89
49691601 GGTTATAGGT
*
49691611 TAGGGGTTCA-GGGTTAGGGATTTAGGA-TTGGGTTATGGTTTAGGGTTTAGATTAATTAGTATT
1 TAGGGGTT-AGGGGTTAGGGATTTAGGAGTTGGGTTAGGGTTTAGGGTTTAGATTAATTAGTATT
*
49691674 TTTAAATTTATATATTAAATAAAGTG
65 TTT-AATTTATATATTAAATAAAATG
* * *
49691700 TAGGGGTTAGGGGTTAGGGGTTAAGGATTTGGGGTCAAGTTTAGGGTTTAGGGTTTAGATTAATT
1 TAGGGGTTAGGGGTTAGGGATTTAGGAGTT--GG----G-TTAGGGTTTAGGGTTTAGATTAATT
* *
49691765 AGTGTTTGTTAATTTATATATTAAATAAAATT
59 AGTATTT-TTAATTTATATATTAAATAAAATG
* * * * *
49691797 TAGCGGTTAGGGGTTAAGGATTT-GGAGTCGGGTTAGGGTTTAAGATTTAGATTAATTAGTACTT
1 TAGGGGTTAGGGGTTAGGGATTTAGGAGTTGGGTTAGGGTTTAGGGTTTAGATTAATTAGTA-TT
49691861 TTTAATTTATATATTAAA
65 TTTAATTTATATATTAAA
49691879 CAAGTTCTTT
Statistics
Matches: 153, Mismatches: 15, Indels: 22
0.81 0.08 0.12
Matches are distributed among these distances:
88 1 0.01
89 66 0.43
90 6 0.04
92 2 0.01
94 2 0.01
96 5 0.03
97 69 0.45
98 2 0.01
ACGTcount: A:0.29, C:0.02, G:0.28, T:0.42
Consensus pattern (89 bp):
TAGGGGTTAGGGGTTAGGGATTTAGGAGTTGGGTTAGGGTTTAGGGTTTAGATTAATTAGTATTT
TTAATTTATATATTAAATAAAATG
Found at i:49692223 original size:83 final size:84
Alignment explanation
Indices: 49692073--49692235 Score: 204
Period size: 83 Copynumber: 2.0 Consensus size: 84
49692063 GCCAAAGCGG
* * * * *
49692073 CGCCGTTTCTTTACTGGAATAAAATCATTTAGTGGCGTTTTGTAGGAAAACGCCGCAAAAGTGAA
1 CGCCGTTTCTCTACTCGAATAAAATCATTTAGTGGCATTTTGTAAGAAAACACCGCAAAAGTGAA
*
49692138 TTACTGTTGGCCAATACGA
66 TTAATGTTGGCCAATACGA
* * * *
49692157 CGCCGTTTCTCTACTCGAATGAAATC--TTATGTGGCATTTTTTAAGAAAACACTGCAAGAGTGA
1 CGCCGTTTCTCTACTCGAATAAAATCATTTA-GTGGCATTTTGTAAGAAAACACCGCAAAAGTGA
*
49692220 ATTAATGTTTGCCAAT
65 ATTAATGTTGGCCAAT
49692236 GTGACACTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
82 3 0.04
83 41 0.61
84 23 0.34
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (84 bp):
CGCCGTTTCTCTACTCGAATAAAATCATTTAGTGGCATTTTGTAAGAAAACACCGCAAAAGTGAA
TTAATGTTGGCCAATACGA
Found at i:49692635 original size:84 final size:84
Alignment explanation
Indices: 49692513--49692768 Score: 254
Period size: 84 Copynumber: 3.0 Consensus size: 84
49692503 TTCTTATGTT
* * *** * * * *
49692513 TTAAAATTTGTCAA-AATGGCGCCATTTATCTTGAGGAATGAAATATTTTTGTGGCGTTTTTGAT
1 TTAAAATTTGCCAATAA-GGCGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTA-
* *
49692577 AAAAACACCGCAAGGA-TGTA
64 AAAAACGCCGCAAGGAGTGAA
* *
49692597 TTAAAATTTGCC-A-AAGCGACGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTA
1 TTAAAATTTGCCAATAAG-G-CGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTA
*
49692660 GGAAAACGCCGCAA-GAGTGAA
64 -AAAAACGCCGCAAGGAGTGAA
* * *
49692681 TTAATATTTGCCAATAAGGTGCCATTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAG
1 TTAAAATTTGCCAATAAGGCGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAA-
*
49692746 AAAACGCCGCAA-GTGTGAA
65 AAAACGCCGCAAGGAGTGAA
49692765 TTAA
1 TTAA
49692769 TGTCTGTCAA
Statistics
Matches: 144, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
82 1 0.01
83 6 0.04
84 132 0.92
85 2 0.01
86 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (84 bp):
TTAAAATTTGCCAATAAGGCGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAA
AAACGCCGCAAGGAGTGAA
Found at i:49692769 original size:84 final size:83
Alignment explanation
Indices: 49692548--49692769 Score: 261
Period size: 84 Copynumber: 2.6 Consensus size: 83
49692538 TTATCTTGAG
* * * * * * *
49692548 GAATGAAATATTTTTGTGGCGTTTTTGATA-AAAACACCGCAAGGATGTATTAAAATTTGCCAAA
1 GAATGAAATCTTATAGTGGCGTTTTTTA-AGAAAACGCCGCAAGG-TGAATTAATATTTGCCAAA
* *
49692612 GCGACGCCGTTTCTCTACTG
64 GCGACGCCATTTCTCTACTC
* *
49692632 GAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATTAATATTTGCCAATA
1 GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAG-GTGAATTAATATTTGCC-A-A
*
49692697 AG-G-TGCCATTTCTCTACTC
63 AGCGACGCCATTTCTCTACTC
49692716 GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAGTGTGAATTAAT
1 GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAG-GTGAATTAAT
49692770 GTCTGTCAAT
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
84 113 0.95
85 3 0.03
86 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (83 bp):
GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAGGTGAATTAATATTTGCCAAAGC
GACGCCATTTCTCTACTC
Found at i:49693180 original size:84 final size:84
Alignment explanation
Indices: 49693058--49693337 Score: 257
Period size: 84 Copynumber: 3.3 Consensus size: 84
49693048 TTCTTATGTT
* * * * *** * * *
49693058 TTAAAATTTGTCAAAACGGCACCGTTTATCTTGAGGAATGAAATATTTTTGTGGCGATTTTGATA
1 TTAAAATTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGATTTT-ATA
*
49693123 AAAACGCCGCAAGGA-TGTA
65 AAAACGCCGCAAGGAGTGAA
* * *
49693142 TTAAAATTTTCCAA-AGCGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGC-ATTTTTTA
1 TTAAAATTTGCCAATA-CGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGATTTTATA
49693205 GGAAAACGCCGCAA-GAGTGAA
65 --AAAACGCCGCAAGGAGTGAA
** *
49693226 TTAATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCG-TTTTTTAG
1 TTAAAATTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGATTTTATA-
*
49693290 GAAAACGCCGCAA-GTGTGAA
65 -AAAACGCCGCAAGGAGTGAA
** * * *
49693310 TTAATGTTTGTCAATGCGGCACCGTTTC
1 TTAAAATTTGCCAATACGGCGCCGTTTC
49693338 GATTCATGAA
Statistics
Matches: 169, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
82 2 0.01
83 8 0.05
84 158 0.93
85 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (84 bp):
TTAAAATTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGATTTTATAA
AAACGCCGCAAGGAGTGAA
Found at i:49693286 original size:545 final size:544
Alignment explanation
Indices: 49692010--49693485 Score: 2366
Period size: 545 Copynumber: 2.7 Consensus size: 544
49692000 TAAAATTGTA
* * *
49692010 AAATAATTTTGTGGAGTTTTTAATAAAAACGCCGCAAGGAT-TCATTAAAATTTGCCAAAGCGGC
1 AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGT-ATTAAAATTTGCCAAAGCGGC
* * *
49692074 GCCGTTTCTTTACTGGAATAAAATCATT-TAGTGGCGTTTTGTAGGAAAACGCCGCAAAAGTGAA
65 GCCGTTTCTCTACTGGAATAAAATC-TTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAA
* * * *
49692138 TTACTGTTGGCCAATACGACGCCGTTTCTCTACTCGAATGAAATCTTAT-GTGGCATTTTTTAAG
129 TTAATGTTTGCCAATACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAG
* * * * * * *
49692202 AAAACACTGCAAGAGTGAATTAATGTTTGCCAATGTGACACTGTTTGGCTTCATGAAATGAATTT
194 AAAACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACTGTTTCGCTTCATGAAATGAATTT
*
49692267 ATACTGGCGTTTTTGCTAGAAACGCCAGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTT
259 ATACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTT
* * *
49692332 TTGTTCAGTACTTTATTTTGGTGGTGTTTTTTATTAAAACGTTGCAAATATCGGAAGCAATAGCG
324 TTGTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCAGAAGCAATAGCG
* * *
49692397 GGGTTTTGGCCTAAAATGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCGTTTCAGTTGA
389 GCGTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGA
49692462 GGAATTTAATTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAA
454 GGAATTTAATTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAA
* *
49692527 AATGGCGCCATTTATCTTGAGGAATG
519 AACGGCACCATTTATCTTGAGGAATG
* *
49692553 AAATATTTTTGTGGCGTTTTTGATAAAAACACCGCAAGGATGTATTAAAATTTGCCAAAGCGACG
1 AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
49692618 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
66 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
* * * *
49692683 AATATTTGCCAATAAGGTGCCATTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
131 AATGTTTGCCAATACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
* *
49692748 AACGCCGCAAGTGTGAATTAATGTCTGTCAATGCGGCAATGTTTCGCTTCATGAAATGAATTTAT
196 AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACTGTTTCGCTTCATGAAATGAATTTAT
*
49692813 ACTGGCGTTTTTACTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
261 ACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
*
49692878 GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATTAGAAGCAATAGCGGC
326 GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCAGAAGCAATAGCGGC
49692943 GTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGAGG
391 GTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGAGG
* *
49693008 AATTTAATTTTTTTTAGTGGCATTTTTTGGGAAAACGTCGTTCTTATGTTTTAAAATTTGTCAAA
456 AATTTAA-TTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAAA
*
49693073 ACGGCACCGTTTATCTTGAGGAATG
520 ACGGCACCATTTATCTTGAGGAATG
* *
49693098 AAATATTTTTGTGGCGATTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTTCCAAAGCGGCG
1 AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
*
49693163 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCATTTTTTAGGAAAACGCCGCAAGAGTGAATT
66 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
* *
49693228 AATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAGGAA
131 AATGTTTGCCAATACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
* *
49693293 AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACCGTTTCGATTCATGAAATGAATTTAT
196 AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACTGTTTCGCTTCATGAAATGAATTTAT
* * * * *
49693358 ACTGTCGTTTTTGCTAGAAACGCTGAAAATATGCATCAAAGTTTAGTAAAACGGCACCAT-TTTC
261 ACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTT-
* * * * * * *
49693422 TATTCAGTACTCTATTTCGGTGGCGTTTTCTATTAAAATGCCGCAAATGTCAGAAGCAATAGCG
325 TGTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCAGAAGCAATAGCG
49693486 ACATTTTTAA
Statistics
Matches: 860, Mismatches: 68, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
542 2 0.00
543 157 0.18
544 269 0.31
545 432 0.50
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (544 bp):
AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
AATGTTTGCCAATACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACTGTTTCGCTTCATGAAATGAATTTAT
ACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCAGAAGCAATAGCGGC
GTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGAGG
AATTTAATTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAAAA
CGGCACCATTTATCTTGAGGAATG
Found at i:49695038 original size:18 final size:18
Alignment explanation
Indices: 49695023--49695092 Score: 88
Period size: 18 Copynumber: 3.7 Consensus size: 18
49695013 TAAAATATGC
49695023 TACATTACTTAAATATAT
1 TACATTACTTAAATATAT
*
49695041 TAC-TTACTAAAATTTATAATT
1 TACATTACTTAAA--TAT-A-T
49695062 TACATTACTTAAATATAT
1 TACATTACTTAAATATAT
49695080 TACATTACTTAAA
1 TACATTACTTAAA
49695093 ATTTATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
17 8 0.18
18 17 0.38
19 4 0.09
20 4 0.09
21 4 0.09
22 8 0.18
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
TACATTACTTAAATATAT
Found at i:49695069 original size:39 final size:41
Alignment explanation
Indices: 49695023--49695099 Score: 140
Period size: 39 Copynumber: 1.9 Consensus size: 41
49695013 TAAAATATGC
49695023 TACATTACTTAAATATATTAC-TTAC-TAAAATTTATAATT
1 TACATTACTTAAATATATTACATTACTTAAAATTTATAATT
49695062 TACATTACTTAAATATATTACATTACTTAAAATTTATA
1 TACATTACTTAAATATATTACATTACTTAAAATTTATA
49695100 TATATTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 21 0.58
40 4 0.11
41 11 0.31
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.45
Consensus pattern (41 bp):
TACATTACTTAAATATATTACATTACTTAAAATTTATAATT
Found at i:49695110 original size:17 final size:17
Alignment explanation
Indices: 49695088--49695121 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49695078 ATTACATTAC
49695088 TTAAAATTTATATATAT
1 TTAAAATTTATATATAT
*
49695105 TTAAAATTTTTATATAT
1 TTAAAATTTATATATAT
49695122 GGTATGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATTTATATATAT
Found at i:49695356 original size:30 final size:30
Alignment explanation
Indices: 49695317--49695374 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
49695307 TTATAAATAA
49695317 TATACATAAAAGTG-ATATACTTACATAACT
1 TATACATAAAAGTGCATA-ACTTACATAACT
* **
49695347 TATATATAAACTTGCATAACTTACATAA
1 TATACATAAAAGTGCATAACTTACATAA
49695375 TAACATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (30 bp):
TATACATAAAAGTGCATAACTTACATAACT
Found at i:49695367 original size:9 final size:9
Alignment explanation
Indices: 49695335--49695704 Score: 151
Period size: 9 Copynumber: 42.3 Consensus size: 9
49695325 AAAGTGATAT
49695335 ACTTACATA
1 ACTTACATA
*
49695344 ACTTATATATAA
1 AC-T-TACAT-A
*
49695356 ACTTGCATA
1 ACTTACATA
49695365 ACTTACATA
1 ACTTACATA
*
49695374 A-TAACATAATA
1 ACTTAC---ATA
49695385 ACTTACATA
1 ACTTACATA
*
49695394 A--TACACA
1 ACTTACATA
49695401 ACTTACATA
1 ACTTACATA
*
49695410 ACTTAAATA
1 ACTTACATA
49695419 ACTTACAT-
1 ACTTACATA
*
49695427 A-GTACATA
1 ACTTACATA
**
49695435 ACTTTGATA
1 ACTTACATA
* *
49695444 ACTAACATT
1 ACTTACATA
*
49695453 A--TACACA
1 ACTTACATA
49695460 ACTTACATA
1 ACTTACATA
*
49695469 ACATACACTTA
1 ACTTACA--TA
*
49695480 A-ATACATA
1 ACTTACATA
*
49695488 ACATACATA
1 ACTTACATA
*
49695497 A--TACACA
1 ACTTACATA
49695504 ACTTA-ATTAA
1 ACTTACA-T-A
*
49695514 TATTATACATA
1 -ACT-TACATA
*
49695525 ACATACATA
1 ACTTACATA
49695534 A--TACATA
1 ACTTACATA
*
49695541 A-TACACATA
1 ACT-TACATA
49695550 ACTTACAT-
1 ACTTACATA
*
49695558 A-GTACATA
1 ACTTACATA
*
49695566 ACTAACATA
1 ACTTACATA
*
49695575 A--TACACA
1 ACTTACATA
*
49695582 ACTTACGTA
1 ACTTACATA
* *
49695591 ACTGAAATA
1 ACTTACATA
49695600 ACTTACATA
1 ACTTACATA
*
49695609 GCTTACATA
1 ACTTACATA
49695618 A--TACATA
1 ACTTACATA
49695625 ACTTACATA
1 ACTTACATA
*
49695634 ACTTATATA
1 ACTTACATA
49695643 A--TACATA
1 ACTTACATA
49695650 ACTTACATA
1 ACTTACATA
* *
49695659 ATTTACCTA
1 ACTTACATA
49695668 A--TACATA
1 ACTTACATA
* *
49695675 A-ATATATA
1 ACTTACATA
* *
49695683 TCATATCATA
1 ACTTA-CATA
49695693 ACTTACATA
1 ACTTACATA
49695702 ACT
1 ACT
49695705 CATTTATAGT
Statistics
Matches: 270, Mismatches: 54, Indels: 74
0.68 0.14 0.19
Matches are distributed among these distances:
7 57 0.21
8 16 0.06
9 154 0.57
10 18 0.07
11 15 0.06
12 9 0.03
13 1 0.00
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:49695405 original size:16 final size:16
Alignment explanation
Indices: 49695361--49695660 Score: 145
Period size: 16 Copynumber: 17.9 Consensus size: 16
49695351 TATAAACTTG
49695361 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
49695378 CATAATAACTTACATAATA
1 C---ATAACTTACATAATA
*
49695397 CACAACTTACATAACTTA
1 CATAACTTACATAA--TA
* *
49695415 AATAACTTACATAGTA
1 CATAACTTACATAATA
**
49695431 CATAACTTTGATAACTAA
1 CATAACTTACATAA-T-A
* *
49695449 CATTA--TACACAACTTA
1 CATAACTTACATAA--TA
*
49695465 CATAACATACACTTAAATA
1 CATAACTTACA--T-AATA
*
49695484 CATAACATACATAATA
1 CATAACTTACATAATA
*
49695500 CACAACTTA-AT--TA
1 CATAACTTACATAATA
*
49695513 -AT-ATTATACATAACATA
1 CATAACT-TACAT-A-ATA
49695530 CATAA--TACATAATACA
1 CATAACTTACATAAT--A
*
49695546 CATAACTTACATAGTA
1 CATAACTTACATAATA
*
49695562 CATAACTAACATAATA
1 CATAACTTACATAATA
* *
49695578 CACAACTTACGTAACTGA
1 CATAACTTACATAA-T-A
* *
49695596 AATAACTTACATAGCTTA
1 CATAACTTACATA--ATA
49695614 CATAA--TACATAACTTA
1 CATAACTTACATAA--TA
*
49695630 CATAACTTATATAATA
1 CATAACTTACATAATA
49695646 CATAACTTACATAAT
1 CATAACTTACATAAT
49695661 TTACCTAATA
Statistics
Matches: 217, Mismatches: 33, Indels: 67
0.68 0.10 0.21
Matches are distributed among these distances:
11 2 0.01
12 3 0.01
13 4 0.02
14 2 0.01
15 3 0.01
16 110 0.51
17 7 0.03
18 53 0.24
19 17 0.08
20 14 0.06
21 2 0.01
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:49695494 original size:28 final size:28
Alignment explanation
Indices: 49695453--49695556 Score: 81
Period size: 28 Copynumber: 3.8 Consensus size: 28
49695443 AACTAACATT
* *
49695453 ATACACAACTTACATAACATACACTTAA
1 ATACATAACATACATAACATACACTTAA
* *
49695481 ATACATAACATACATAATACACAACTTAA
1 ATACATAACATACATAACATAC-ACTTAA
* **
49695510 TTA-ATATTATACATAACATACA--T-A
1 ATACATAACATACATAACATACACTTAA
* * *
49695534 ATACATAATACACATAACTTACA
1 ATACATAACATACATAACATACA
49695557 TAGTACATAA
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
24 3 0.05
25 17 0.28
27 1 0.02
28 32 0.52
29 8 0.13
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (28 bp):
ATACATAACATACATAACATACACTTAA
Found at i:49695501 original size:44 final size:44
Alignment explanation
Indices: 49695448--49695558 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 44
49695438 TTGATAACTA
* *
49695448 ACATTATACACAACTTACATAACA-TACACTTAA-ATACATAACAT
1 ACATAATACACAACTTACATAACATTACACATAACATACAT-A-AT
* *
49695492 ACATAATACACAACTTA-ATTAATATTATACATAACATACATAAT
1 ACATAATACACAACTTACA-TAACATTACACATAACATACATAAT
49695536 ACATAATACACATAACTTACATA
1 ACATAATACAC--AACTTACATA
49695559 GTACATAACT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
43 1 0.02
44 33 0.58
45 8 0.14
46 14 0.25
47 1 0.02
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (44 bp):
ACATAATACACAACTTACATAACATTACACATAACATACATAAT
Found at i:49695630 original size:25 final size:25
Alignment explanation
Indices: 49695335--49695702 Score: 100
Period size: 25 Copynumber: 14.8 Consensus size: 25
49695325 AAAGTGATAT
*
49695335 ACTTACATAACTT--AT-ATATA-A
1 ACTTACATAACTTACATAATACATA
*
49695356 ACTTGCATAACTTACATAATAACATAATA
1 ACTTACATAACTTACATAAT-AC---ATA
*
49695385 ACTTACATAA--TACACAACTTACATA
1 ACTTACATAACTTACATAA--TACATA
* *
49695410 ACTTAAATAACTTACATAGTACATA
1 ACTTACATAACTTACATAATACATA
** * * *
49695435 ACTTTGATAACTAACATTATACACA
1 ACTTACATAACTTACATAATACATA
*
49695460 ACTTACATAACATACACTTAAATACATA
1 ACTTACATAACTTACA--T-AATACATA
* * *
49695488 ACATACATAA--TACA-CA-ACTTA
1 ACTTACATAACTTACATAATACATA
*
49695509 A-TTA-AT-ATTATACATAACATACATA
1 ACTTACATAACT-TACAT-A-ATACATA
*
49695534 A--TACATAA-TACACATAACTTACAT-
1 ACTTACATAACT-TACATAA--TACATA
* * *
49695558 A-GTACATAACTAACATAATACACA
1 ACTTACATAACTTACATAATACATA
* * *
49695582 ACTTACGTAACTGAAATAACTTACATA
1 ACTTACATAACTTACATAA--TACATA
*
49695609 GCTTACATAA--TACATAACTTACATA
1 ACTTACATAACTTACATAA--TACATA
*
49695634 ACTTATATAA--TACATAACTTACATA
1 ACTTACATAACTTACATAA--TACATA
* * *
49695659 ATTTACCTAA--TACATAAATATATA
1 ACTTACATAACTTACAT-AATACATA
* *
49695683 TCATATCATAACTTACATAA
1 ACTTA-CATAACTTACATAA
49695703 CTCATTTATA
Statistics
Matches: 264, Mismatches: 47, Indels: 67
0.70 0.12 0.18
Matches are distributed among these distances:
18 1 0.00
19 2 0.01
20 2 0.01
21 21 0.08
22 1 0.00
23 7 0.03
24 15 0.06
25 146 0.55
26 10 0.04
27 30 0.11
28 18 0.07
29 11 0.04
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (25 bp):
ACTTACATAACTTACATAATACATA
Found at i:49697516 original size:21 final size:21
Alignment explanation
Indices: 49697486--49697532 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
49697476 CTACAACTTA
*
49697486 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAAAGGCGGCAGCGAGGG
49697507 AAGCAAAGGCGGCAGCGAGGG
1 AAGCAAAGGCGGCAGCGAGGG
49697528 AAGCA
1 AAGCA
49697533 GAGCAGAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.47, T:0.00
Consensus pattern (21 bp):
AAGCAAAGGCGGCAGCGAGGG
Found at i:49698112 original size:43 final size:43
Alignment explanation
Indices: 49697902--49698111 Score: 312
Period size: 43 Copynumber: 4.9 Consensus size: 43
49697892 TTTGTGAGGA
*
49697902 AAGCGCCGCTAAAGAACATGACCTTTAACGGCGTTTGTTATAG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATAG
**
49697945 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTCATTATAG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATAG
*
49697988 AAGCGCCGCTAAAGAACATGACCTTTAGCGACGTTTGTTATAG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATAG
* * * * *
49698031 AGGCGCCGCTAAAGAACATGACCTTTACCGGGGTTTGTGACAG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATAG
* * *
49698074 AGGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTGT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGT
49698112 GGGAAATGCG
Statistics
Matches: 151, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 151 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.24
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATAG
Found at i:49698508 original size:10 final size:10
Alignment explanation
Indices: 49698485--49698538 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
49698475 TATTAAAAAA
49698485 TATAAAA-AT
1 TATAAAATAT
*
49698494 CATAAAATAT
1 TATAAAATAT
49698504 TATAAAATAT
1 TATAAAATAT
49698514 T-TAGAAATA-
1 TATA-AAATAT
* *
49698523 TAGAAAAAAT
1 TATAAAATAT
49698533 TATAAA
1 TATAAA
49698539 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
9 13 0.36
10 23 0.64
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (10 bp):
TATAAAATAT
Found at i:49698792 original size:18 final size:19
Alignment explanation
Indices: 49698760--49698802 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
49698750 GTTAAAGGAC
49698760 ATTTTTTATACATTTTATA
1 ATTTTTTATACATTTTATA
* *
49698779 ATTTTTTCTA-ATTTTTTA
1 ATTTTTTATACATTTTATA
49698797 ATTTTT
1 ATTTTT
49698803 ATTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTTATACATTTTATA
Found at i:49698819 original size:19 final size:20
Alignment explanation
Indices: 49698797--49698843 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
49698787 TAATTTTTTA
49698797 ATTTTTATTAAAATTTAAT-
1 ATTTTTATTAAAATTTAATG
* *
49698816 ATTTTTA-TAACATTTATTG
1 ATTTTTATTAAAATTTAATG
49698835 ATTTTTATT
1 ATTTTTATT
49698844 TTTATCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 14 0.58
20 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTTATTAAAATTTAATG
Done.