Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 199 of 770
Found at i:59507913 original size:20 final size:20
Alignment explanation
Indices: 59507890--59507952 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
59507880 GAACATCTCG
59507890 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
59507910 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
59507930 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
59507950 TGT
1 TGT
59507953 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:59508017 original size:25 final size:25
Alignment explanation
Indices: 59507989--59508036 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59507979 ATATATAAAC
* * *
59507989 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
59508014 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
59508037 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:59508780 original size:12 final size:12
Alignment explanation
Indices: 59508763--59508789 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59508753 TTCAATAAAT
59508763 TTGATGTTATTC
1 TTGATGTTATTC
59508775 TTGATGTTATTC
1 TTGATGTTATTC
59508787 TTG
1 TTG
59508790 GTGAATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.19, T:0.59
Consensus pattern (12 bp):
TTGATGTTATTC
Found at i:59513474 original size:29 final size:29
Alignment explanation
Indices: 59513435--59513509 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
59513425 GGTTGAGAGA
* *
59513435 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
59513464 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
59513493 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
59513510 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:59521295 original size:45 final size:45
Alignment explanation
Indices: 59521138--59521311 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 45
59521128 GGTTGAGCAT
**
59521138 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CA
*** * * * *
59521184 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACA
*
59521230 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
*
59521276 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59521312 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
45 36 0.34
46 37 0.35
47 34 0.32
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
Found at i:59524266 original size:15 final size:15
Alignment explanation
Indices: 59524246--59524309 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
59524236 GTATCTTGGG
59524246 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
59524261 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
59524276 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
59524291 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
59524304 TTTCTT
1 TTTCTT
59524310 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59528727 original size:29 final size:29
Alignment explanation
Indices: 59528667--59528740 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
59528657 GGTTGAGAGA
** *
59528667 ATGGCACTAAGTGTGCGGGCTTGAAATGC
1 ATGGCACTAAGTGTGCAAGCTTGAAATAC
*
59528696 ATGGCACTAAGTGTGCAAG-TTTAAAGTAC
1 ATGGCACTAAGTGTGCAAGCTTGAAA-TAC
*
59528725 ATGGCTCTAAGTGTGC
1 ATGGCACTAAGTGTGC
59528741 GTGGTTGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCAAGCTTGAAATAC
Found at i:59536525 original size:19 final size:18
Alignment explanation
Indices: 59536487--59536525 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
59536477 TAAGTGCACT
*
59536487 TTAATTATTTTATAAAAA
1 TTAATTATTTGATAAAAA
*
59536505 TTAATTATTTCGATAAGAA
1 TTAATTATTT-GATAAAAA
59536524 TT
1 TT
59536526 TAACCGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (18 bp):
TTAATTATTTGATAAAAA
Found at i:59540319 original size:21 final size:20
Alignment explanation
Indices: 59540274--59540319 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
59540264 TTGTTGGAAT
59540274 GGTT-AATTTAATCAGATTA
1 GGTTGAATTTAATCAGATTA
*
59540293 GTTTGAATTTAATTCATG-TTA
1 GGTTGAATTTAA-TCA-GATTA
59540314 GGTTGA
1 GGTTGA
59540320 TTGCATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 7 0.32
21 11 0.50
22 1 0.05
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAGATTA
Found at i:59549392 original size:2 final size:2
Alignment explanation
Indices: 59549385--59549412 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59549375 GCTCTTGCAC
59549385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59549413 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59550209 original size:40 final size:40
Alignment explanation
Indices: 59550125--59550309 Score: 205
Period size: 40 Copynumber: 4.7 Consensus size: 40
59550115 TCGAATGATG
* * * * *
59550125 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
59550165 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCTAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59550205 TCCGGGCTAAG-CCCGAAGGCATTGGTGCAAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
*
59550244 TCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
59550285 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
59550310 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59550261 original size:79 final size:81
Alignment explanation
Indices: 59550125--59550307 Score: 239
Period size: 79 Copynumber: 2.3 Consensus size: 81
59550115 TCGAATGATG
* * *
59550125 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCATT
*
59550189 TGTGCGAGTTCCTA-A
66 TGTGCGAGTTACTATA
* * **
59550204 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-AAGTTACTAAATCCGGGTTAAGACCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCAT
59550267 TTGTGCGAGTTACTATA
65 TTGTGCGAGTTACTATA
* *
59550284 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
59550308 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 60 0.67
80 30 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:59550332 original size:79 final size:79
Alignment explanation
Indices: 59550172--59550342 Score: 188
Period size: 79 Copynumber: 2.2 Consensus size: 79
59550162 ATATCCGGAC
* * * **
59550172 TAAGATCCGAAGGCATTTGTGCGAGTTCCTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCAAGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGT
*
59550237 TACTAAATCCGGGT
66 TACTAAATCCGAGT
* * *
59550251 TAAGACCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACAA
*
59550315 G-TAGCTATATCC-AGT
64 GTTA-CTAAATCCGAGT
59550330 TAA-ACTCCGAAGG
1 TAAGAC-CCGAAGG
59550343 TACGTGATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 51 0.65
80 23 0.29
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
TAAGACCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGT
TACTAAATCCGAGT
Found at i:59554988 original size:44 final size:44
Alignment explanation
Indices: 59554920--59555028 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 44
59554910 TATGTGATTT
* ** * *
59554920 CATGTAACACCACATCTAGGACGTTGGCATAGACTTTTGTTTTA
1 CATGTAAGACCATGTCTGGGACGTTGGCATAGACTTTTGCTTTA
* *
59554964 CGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTTTGCTTTA
1 CATGTAAGACCATGTCTGGGACGTTGGCATAGACTTTTGCTTTA
*
59555008 CATGTAAGACCCTGTCTGGGA
1 CATGTAAGACCATGTCTGGGA
59555029 TAGCGACATC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (44 bp):
CATGTAAGACCATGTCTGGGACGTTGGCATAGACTTTTGCTTTA
Found at i:59557229 original size:41 final size:42
Alignment explanation
Indices: 59557166--59557410 Score: 162
Period size: 45 Copynumber: 5.6 Consensus size: 42
59557156 TTTTATCAAA
* * * *
59557166 TCACCGGCATTCAGCCTACTAGGTTTTAAACCTGA-ATTCA-T
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAACCTGATA-TCATT
* *
59557207 TCACCGGCATTTTGCCTGCTAGGCTTGAAGCCTGATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAACCTGATATCATT
* * * * *
59557249 TCACCGGCATTATGGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATC
1 TCACCGGCATT-TAGCCTGCTAGGCTTGAA-ACCTG-ATA-TCATT
* *
59557294 TCACCGGCATTATAGCCTGCTAGGC-TCAAAGGCCTGAATAGT-ATC
1 TCACCGGCATT-TAGCCTGCTAGGCTTGAAA--CCTG-ATA-TCATT
* *
59557339 TCACCGGCATTATAGCCTGCTAGGC-TCAAAGGCCTGAATAGT-ATC
1 TCACCGGCATT-TAGCCTGCTAGGCTTGAAA--CCTG-ATA-TCATT
59557384 TCACCGGCATTATAGCCTGCTAGGCTT
1 TCACCGGCATT-TAGCCTGCTAGGCTT
59557411 AAAGGCCTGA
Statistics
Matches: 180, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
41 32 0.18
42 13 0.07
43 16 0.09
44 6 0.03
45 111 0.62
46 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (42 bp):
TCACCGGCATTTAGCCTGCTAGGCTTGAAACCTGATATCATT
Found at i:59557305 original size:45 final size:45
Alignment explanation
Indices: 59557207--59557426 Score: 331
Period size: 45 Copynumber: 5.0 Consensus size: 45
59557197 CTGAATTCAT
* ** *
59557207 TCACCGGCATT-TTGCCTGCTAGGCTTGAA-GCCTG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGT-ATC
* * *
59557249 TCACCGGCATTATGGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
59557294 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
59557339 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
*
59557384 TCACCGGCATTATAGCCTGCTAGGCTTAAAGGCCTGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTA
59557427 CTGTACGATA
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
42 11 0.07
43 16 0.10
44 4 0.02
45 134 0.81
46 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
Found at i:59558274 original size:25 final size:25
Alignment explanation
Indices: 59558246--59558366 Score: 161
Period size: 25 Copynumber: 4.8 Consensus size: 25
59558236 GTAACTTATT
* *
59558246 CAGAAATAATAAGGGCAAATTTAAC
1 CAGAAATATTAAGAGCAAATTTAAC
59558271 CAGAAATATTAAGAGCAAATTTAAC
1 CAGAAATATTAAGAGCAAATTTAAC
* * *
59558296 CGGAATTATTAAGAACAAATTTAAC
1 CAGAAATATTAAGAGCAAATTTAAC
* *
59558321 CGGAATTATTAAGAGCAAATTTAAC
1 CAGAAATATTAAGAGCAAATTTAAC
* *
59558346 CAGAATTATTAAGAACAAATT
1 CAGAAATATTAAGAGCAAATT
59558367 AACAAGCTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 88 1.00
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.26
Consensus pattern (25 bp):
CAGAAATATTAAGAGCAAATTTAAC
Found at i:59558336 original size:50 final size:50
Alignment explanation
Indices: 59558261--59558366 Score: 185
Period size: 50 Copynumber: 2.1 Consensus size: 50
59558251 ATAATAAGGG
*
59558261 CAAATTTAACCAGAAATATTAAGAGCAAATTTAACCGGAATTATTAAGAA
1 CAAATTTAACCAGAAATATTAAGAGCAAATTTAACCAGAATTATTAAGAA
* *
59558311 CAAATTTAACCGGAATTATTAAGAGCAAATTTAACCAGAATTATTAAGAA
1 CAAATTTAACCAGAAATATTAAGAGCAAATTTAACCAGAATTATTAAGAA
59558361 CAAATT
1 CAAATT
59558367 AACAAGCTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.27
Consensus pattern (50 bp):
CAAATTTAACCAGAAATATTAAGAGCAAATTTAACCAGAATTATTAAGAA
Found at i:59567177 original size:39 final size:39
Alignment explanation
Indices: 59567073--59567267 Score: 228
Period size: 39 Copynumber: 4.9 Consensus size: 39
59567063 CTCGTTCAAA
* * ** * *
59567073 TGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAA
1 TGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAAT
* *
59567113 TGCCTTCGGGTCTTAACCCGGATATCATAACTCGTACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAAT
** * *
59567153 TGCCTTCGGGCTTAGCCCGGATATCATAGTTCGGACCAT
1 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
* *
59567192 TGCCTTCGGGCTTAGCCCGAATATCACAACTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
* *
59567231 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
59567268 TTCATACACA
Statistics
Matches: 133, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 92 0.69
40 41 0.31
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
Found at i:59578416 original size:29 final size:29
Alignment explanation
Indices: 59578376--59578450 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
59578366 GGTTGAGAGA
* *
59578376 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
* *
59578405 ATGGCACCAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
59578434 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
59578451 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:59588038 original size:40 final size:41
Alignment explanation
Indices: 59587981--59588148 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 41
59587971 TGAATGATAC
* *
59587981 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* * * *
59588021 CCGGGCTAAGACTCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* ** *
59588061 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* * * *
59588101 CCGGGTTAAGACCCGAAGGCAATTGTGCTTG-TGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
59588141 CC-GGCTAA
1 CCGGGCTAA
59588149 ATTCCGAAGA
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
39 6 0.06
40 96 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
Found at i:59588118 original size:80 final size:80
Alignment explanation
Indices: 59587981--59588148 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
59587971 TGAATGATAC
* * ** * *
59587981 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACTCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
*
59588045 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* *
59588061 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGACCAAATCCGGGCTAAGACCCGAAGGCAATT
**
59588125 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
59588141 CC-GGCTAA
1 CCGGGCTAA
59588149 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
79 6 0.08
80 65 0.87
81 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:59593983 original size:23 final size:23
Alignment explanation
Indices: 59593952--59594001 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
59593942 GAATCCGAGA
59593952 TTCA-GACATACCCAAAACTGCC
1 TTCAGGACATACCCAAAACTGCC
59593974 TTCAGGACATACCCAAAACTGCC
1 TTCAGGACATACCCAAAACTGCC
59593997 TTCAG
1 TTCAG
59594002 AATGAGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.20
Consensus pattern (23 bp):
TTCAGGACATACCCAAAACTGCC
Found at i:59598226 original size:40 final size:41
Alignment explanation
Indices: 59598171--59598338 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 41
59598161 TGAATGATAC
* *
59598171 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* * *
59598211 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* ** *
59598251 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* * * *
59598291 CCGGGTTAAGACCCGAAGGCAATTGTGCTTG-TGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
59598331 CC-GGCTAA
1 CCGGGCTAA
59598339 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
Found at i:59598304 original size:80 final size:80
Alignment explanation
Indices: 59598171--59598338 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
59598161 TGAATGATAC
* * ** *
59598171 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
*
59598235 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* *
59598251 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGACCAAATCCGGGCTAAGACCCGAAGGCAATT
**
59598315 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
59598331 CC-GGCTAA
1 CCGGGCTAA
59598339 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 6 0.08
80 66 0.87
81 4 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:59606997 original size:40 final size:39
Alignment explanation
Indices: 59606952--59607081 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
59606942 CGGAATACAA
59606952 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
59606992 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
59607032 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
59607072 CCGGATATAA
1 CCGGATATAA
59607082 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:59612952 original size:21 final size:21
Alignment explanation
Indices: 59612923--59612965 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
59612913 AGCTGAAAAC
*
59612923 CCTTATTCT-CTTTTTTATTTT
1 CCTTATTCTGATTTTTT-TTTT
*
59612944 CCTTGTTCTGATTTTTTTTTT
1 CCTTATTCTGATTTTTTTTTT
59612965 C
1 C
59612966 ACTTTTGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.07, C:0.19, G:0.05, T:0.70
Consensus pattern (21 bp):
CCTTATTCTGATTTTTTTTTT
Found at i:59613856 original size:29 final size:29
Alignment explanation
Indices: 59613820--59613911 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
59613810 TAGGCCTAAC
*
59613820 GGGCCATATAAATGTGATTTGGGTTTAAT
1 GGGCCATATAAATGTGATTTGGGCTTAAT
* * *
59613849 GGGCCATATATAGGTGATTTGGGCCTAAT
1 GGGCCATATAAATGTGATTTGGGCTTAAT
* *
59613878 GGGCCATATGAATATGA-TTGGGCTTAAT
1 GGGCCATATAAATGTGATTTGGGCTTAAT
59613906 GGGCCA
1 GGGCCA
59613912 GATACAGGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 16 0.30
29 38 0.70
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (29 bp):
GGGCCATATAAATGTGATTTGGGCTTAAT
Found at i:59613882 original size:58 final size:57
Alignment explanation
Indices: 59613812--59613920 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
59613802 AATGTGACTA
* * * *
59613812 GGCCTAACGGGCCATATAAATGTGATTTGGGTTTAATGGGCCATATATAGGTGATTTG
1 GGCCTAACGGGCCATATAAATATGA-TTGGGCTTAATGGGCCAGATACAGGTGATTTG
* *
59613870 GGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATACAGGT
1 GGCCTAACGGGCCATATAAATATGATTGGGCTTAATGGGCCAGATACAGGT
59613921 ATGTGAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (57 bp):
GGCCTAACGGGCCATATAAATATGATTGGGCTTAATGGGCCAGATACAGGTGATTTG
Found at i:59621264 original size:16 final size:16
Alignment explanation
Indices: 59621239--59621291 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
59621229 ATGAATCAGC
*
59621239 AAAAGCCGAAATGCTG
1 AAAAGTCGAAATGCTG
*
59621255 AAAAGTCGAAATGCCG
1 AAAAGTCGAAATGCTG
*
59621271 TAAAGTCGAAATGCTG
1 AAAAGTCGAAATGCTG
59621287 AAAAG
1 AAAAG
59621292 CTAAAAGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.15
Consensus pattern (16 bp):
AAAAGTCGAAATGCTG
Found at i:59621561 original size:29 final size:28
Alignment explanation
Indices: 59621506--59621566 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
59621496 GTGAGCATGA
*
59621506 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGACTGGGCCTAACGGGCC
* *
59621534 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-CTGGGCCTAACGGGCC
59621563 ATAT
1 ATAT
59621567 GAATATGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGACTGGGCCTAACGGGCC
Found at i:59622674 original size:17 final size:18
Alignment explanation
Indices: 59622642--59622676 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
59622632 TTTAAGAAGG
59622642 GTTTTCGATGAAAACACT
1 GTTTTCGATGAAAACACT
*
59622660 GTTTTCGCT-AAAACACT
1 GTTTTCGATGAAAACACT
59622677 TCAATGTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (18 bp):
GTTTTCGATGAAAACACT
Found at i:59624675 original size:42 final size:42
Alignment explanation
Indices: 59624616--59624700 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
59624606 GATCATGTGT
59624616 TAGGCTTATGAGCCTAATTGGGTAGTGATATAGTACGATGTA
1 TAGGCTTATGAGCCTAATTGGGTAGTGATATAGTACGATGTA
*
59624658 TAGGCTTATGAGCCTAATTGGGTTGTGATATAGTACGATGTA
1 TAGGCTTATGAGCCTAATTGGGTAGTGATATAGTACGATGTA
59624700 T
1 T
59624701 GTACTTAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.09, G:0.28, T:0.35
Consensus pattern (42 bp):
TAGGCTTATGAGCCTAATTGGGTAGTGATATAGTACGATGTA
Found at i:59627320 original size:16 final size:18
Alignment explanation
Indices: 59627288--59627320 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
59627278 ATGTATCAAT
59627288 ATGCTCAATTCCACAAAC
1 ATGCTCAATTCCACAAAC
59627306 ATGCT-AATT-CACAAA
1 ATGCTCAATTCCACAAA
59627321 TCATCACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.24
Consensus pattern (18 bp):
ATGCTCAATTCCACAAAC
Found at i:59630121 original size:40 final size:40
Alignment explanation
Indices: 59630019--59630179 Score: 171
Period size: 40 Copynumber: 4.0 Consensus size: 40
59630009 AATTTAGCCA
* * * *
59630019 GATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* *** *
59630059 GATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* * * *
59630099 GATATAACAACTCGCACGAATGCCTTCGAGTCTTAGCCTG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* *
59630139 GATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCG
1 GATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
59630179 G
1 G
59630180 GTATCATTCA
Statistics
Matches: 97, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 96 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:59631076 original size:18 final size:17
Alignment explanation
Indices: 59631031--59631076 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
59631021 GATTATGTAG
*
59631031 AAAGAATAAAGAAATGA
1 AAAGAAAAAAGAAATGA
*
59631048 AAATAATAAAAGAAATAGA
1 AAAGAA-AAAAGAAAT-GA
59631067 AAAGAAAAAA
1 AAAGAAAAAA
59631077 AAAAGTGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 5 0.21
18 12 0.50
19 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAGAAAAAAGAAATGA
Found at i:59632435 original size:29 final size:29
Alignment explanation
Indices: 59632402--59632474 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
59632392 GTGACGAGAT
*
59632402 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
59632431 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
59632460 TGACACTATGTGTGC
1 TGGCACTAAGTGTGC
59632475 AAGCTGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:59636042 original size:2 final size:2
Alignment explanation
Indices: 59636035--59636070 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59636025 CGAATTCATT
59636035 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
59636071 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:59636357 original size:39 final size:39
Alignment explanation
Indices: 59636304--59636392 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
59636294 TTTAACCCGA
* *
59636304 ATATTTTTCCAGCATGTAGCCTGCAGACCTCAAGTCCGG
1 ATATTTTTCTAGCATATAGCCTGCAGACCTCAAGTCCGG
* * * *
59636343 ATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCGG
1 ATATTTTTCTAGCATATAGCCTGCAGACCTCAAGTCCGG
59636382 ATATTTTTCTA
1 ATATTTTTCTA
59636393 TCTCAAACAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (39 bp):
ATATTTTTCTAGCATATAGCCTGCAGACCTCAAGTCCGG
Found at i:59642461 original size:20 final size:19
Alignment explanation
Indices: 59642422--59642461 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
59642412 TCCCCTGTAG
*
59642422 TTTGAAAAATTTTCTAAGT
1 TTTGAAAAATTTCCTAAGT
*
59642441 TTTGTAAAAATTTCCTGAGT
1 TTTG-AAAAATTTCCTAAGT
59642461 T
1 T
59642462 ATCAGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTGAAAAATTTCCTAAGT
Found at i:59649315 original size:40 final size:39
Alignment explanation
Indices: 59649269--59649366 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 39
59649259 ATTTCAATTC
*
59649269 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACCAAATCCGGACTAAG-T
* * **
59649309 CCGAAGGCATTTGTACGAGTTCCCAAATCCGGGTTAAGT
1 CCGAAGGCATTTGTGCGAGTTACCAAATCCGGACTAAGT
59649348 CCGAAGGCATTTGTGCGAG
1 CCGAAGGCATTTGTGCGAG
59649367 CTATTATAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 19 0.37
40 33 0.63
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACCAAATCCGGACTAAGT
Found at i:59651177 original size:39 final size:39
Alignment explanation
Indices: 59651125--59651342 Score: 296
Period size: 39 Copynumber: 5.6 Consensus size: 39
59651115 AATGTTCGAG
*
59651125 TGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
59651164 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
59651203 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
59651242 TGATA-CC-GGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * *
59651279 TGATATCCGGGTTAAGTCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
** * *
59651318 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
59651343 TGTTTTGAAC
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
37 33 0.21
38 4 0.03
39 115 0.72
40 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:59651288 original size:76 final size:78
Alignment explanation
Indices: 59651124--59651312 Score: 301
Period size: 76 Copynumber: 2.4 Consensus size: 78
59651114 GAATGTTCGA
* *
59651124 GTGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATACCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCCGGGCTAAGCCCGAAGGC
59651189 AATTGTGCGAGCT
66 AATTGTGCGAGCT
*
59651202 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATA-CC-GGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCCGGGCTAAGCCCGAAGGC
*
59651265 AATTGTGCGAGTT
66 AATTGTGCGAGCT
* * *
59651278 GTGATATCCGGGTTAAGTCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCG
59651313 GGTTACCATA
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
76 59 0.57
77 2 0.02
78 42 0.41
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (78 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCCGGGCTAAGCCCGAAGGC
AATTGTGCGAGCT
Found at i:59658706 original size:39 final size:38
Alignment explanation
Indices: 59658616--59658800 Score: 270
Period size: 38 Copynumber: 4.9 Consensus size: 38
59658606 AATGTTCGAG
59658616 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTA
*
59658654 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG-TA
*
59658693 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGTGA-TA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTA
*
59658729 TGATA-CCGGGCTAAGCCCGAAGGC-ATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG-TA
* *
59658766 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
59658801 GGTTACCATA
Statistics
Matches: 133, Mismatches: 7, Indels: 12
0.88 0.05 0.08
Matches are distributed among these distances:
35 18 0.14
36 15 0.11
37 6 0.05
38 61 0.46
39 26 0.20
40 7 0.05
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (38 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTA
Found at i:59658816 original size:40 final size:39
Alignment explanation
Indices: 59658622--59658830 Score: 166
Period size: 38 Copynumber: 5.5 Consensus size: 39
59658612 CGAGTGATAT
** *
59658622 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAG-TATGATAC
1 CCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACCATAA
* ** *
59658660 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACCATAA
* **
59658699 CCGGGCTAAG--CCGAAGGCAATTGTGTGA--TATGAT-A
1 CCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACCATAA
*** *
59658734 CCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACCATAA
* *
59658772 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACCATAA
*
59658812 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59658831 TGTTTTGAAC
Statistics
Matches: 150, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
35 18 0.12
36 14 0.09
37 5 0.03
38 56 0.37
39 27 0.18
40 30 0.20
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACCATAA
Found at i:59658819 original size:113 final size:113
Alignment explanation
Indices: 59658616--59658819 Score: 295
Period size: 113 Copynumber: 1.8 Consensus size: 113
59658606 AATGTTCGAG
59658616 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTATGATACCCGGGCTAAGCCCGAAGGCAA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTATGATACCCGGGCTAAGCCCGAAGGCAA
** *
59658681 TTGTGCGAGCTATGATATCCGGGCTAAGCCGAAGGCAATTGTGTGATA
66 TTGTGCGAGCTACCATAACCGGGCTAAGCCGAAGGCAATTGTGTGATA
* * *
59658729 TGATA-CCGGGCTAAGCCCGAAGGC-ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG-TATGATACCCGGGCTAAG-CCCGAAGGC
* * *
59658792 ATTTGTGCGGGTTACCATAACCGGGCTA
64 AATTGTGCGAGCTACCATAACCGGGCTA
59658820 TGTCCCGAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
111 10 0.12
112 34 0.43
113 36 0.45
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.23
Consensus pattern (113 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTATGATACCCGGGCTAAGCCCGAAGGCAA
TTGTGCGAGCTACCATAACCGGGCTAAGCCGAAGGCAATTGTGTGATA
Found at i:59663799 original size:80 final size:80
Alignment explanation
Indices: 59663715--59663863 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
59663705 TATGGTAACC
* * * *
59663715 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
59663779 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * *
59663795 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
59663860 CCGG
66 CCGG
59663864 TTATAATTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 57 0.98
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:59663884 original size:40 final size:40
Alignment explanation
Indices: 59663756--59663907 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
59663746 ATCACGATTT
* * **
59663756 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCAC-CA
* *
59663796 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* * ***
59663836 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* * *
59663876 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
59663908 CATTCAATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 88 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
Found at i:59669809 original size:18 final size:19
Alignment explanation
Indices: 59669786--59669835 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
59669776 ACCAAATGCA
59669786 TCATTCATTAATACACA-T
1 TCATTCATTAATACACACT
* *
59669804 TCATTC-TTACTTCACACT
1 TCATTCATTAATACACACT
59669822 TCA-TCATTATATAC
1 TCATTCATTA-ATAC
59669836 TTTCACAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 10 0.40
18 13 0.52
19 2 0.08
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (19 bp):
TCATTCATTAATACACACT
Found at i:59670067 original size:40 final size:40
Alignment explanation
Indices: 59670022--59670188 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
59670012 CGGAATATAA
59670022 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
59670062 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59670102 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
59670142 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
59670181 CCGGATAT
1 CCGGATAT
59670189 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59672018 original size:2 final size:2
Alignment explanation
Indices: 59672011--59672044 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
59672001 TATCATGGGC
59672011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59672045 TGTAAGCGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59678177 original size:47 final size:47
Alignment explanation
Indices: 59678123--59678294 Score: 238
Period size: 47 Copynumber: 3.7 Consensus size: 47
59678113 GATTTTACGC
* *
59678123 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
59678170 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * *
59678217 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
59678264 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
59678295 TCCCGAAGGG
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
46 2 0.02
47 108 0.97
48 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.33, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:59680316 original size:40 final size:40
Alignment explanation
Indices: 59680218--59680379 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
59680208 CTCGACGATG
* * *
59680218 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG--ATAT
* *
59680260 ATCCGGGTTAAGTCCCGTAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
59680300 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * * * *
59680340 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
59680380 GTATTCGGGC
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 72 0.70
42 31 0.30
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:59680518 original size:84 final size:85
Alignment explanation
Indices: 59680372--59680589 Score: 359
Period size: 84 Copynumber: 2.6 Consensus size: 85
59680362 CAGTCATGCT
59680372 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC-GTGATATGTATTCGGGCCTTC
1 GGTGATATGTATTCGGG-CTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
*
59680436 GTGCCTAGCAGGCTTTGTGCC
65 GAGCCTAGCAGGCTTTGTGCC
*
59680457 GGTGATATGTATTCGGG-TTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTCG
1 GGTGATATGTATTCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTCG
59680521 AGCCTAGCAGGCTTTGTGCC
66 AGCCTAGCAGGCTTTGTGCC
* **
59680541 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCCGGTGAT
1 GGTGATATGTATTCGGG-CTTCGTGCCTAGCAGGCTTTGTGCCGGTGAT
59680590 TCGAGCAAGG
Statistics
Matches: 124, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
83 23 0.19
84 58 0.47
85 17 0.14
86 26 0.21
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.33
Consensus pattern (85 bp):
GGTGATATGTATTCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTCG
AGCCTAGCAGGCTTTGTGCC
Found at i:59680535 original size:43 final size:43
Alignment explanation
Indices: 59680372--59680589 Score: 361
Period size: 43 Copynumber: 5.1 Consensus size: 43
59680362 CAGTCATGCT
59680372 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
59680415 -GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
59680457 GGTGATATGTATTCGGG--TTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
59680498 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* * **
59680541 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
59680584 GGTGAT
1 GGTGAT
59680590 TCGAGCAAGG
Statistics
Matches: 166, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
41 40 0.24
42 42 0.25
43 84 0.51
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.33
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
Found at i:59684480 original size:46 final size:47
Alignment explanation
Indices: 59684329--59684499 Score: 245
Period size: 47 Copynumber: 3.7 Consensus size: 47
59684319 GATTTTACGC
* * *
59684329 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
*
59684376 GATGAATGTGAAGGTGTATATATGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
59684423 GATGAATGTGAAGGTGTATATATGTGA-CAGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
59684469 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
59684500 TCCCGAAGGG
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
46 39 0.35
47 72 0.65
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:59684494 original size:93 final size:94
Alignment explanation
Indices: 59684329--59684499 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 94
59684319 GATTTTACGC
* * * * *
59684329 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTA
*
59684394 TATATGTGATAAGGCTGAATGGCCAATGT
66 TAAATGTGATAAGGCTGAATGGCCAATGT
* * *
59684423 GATGAATGTGAAGGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTA
59684487 TAAATGTGATAAG
66 TAAATGTGATAAG
59684500 TCCCGAAGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
93 42 0.62
94 26 0.38
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (94 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTA
TAAATGTGATAAGGCTGAATGGCCAATGT
Found at i:59687416 original size:17 final size:17
Alignment explanation
Indices: 59687394--59687428 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
59687384 AGAATAATAA
* *
59687394 AATAAATAAAAATAAAT
1 AATAAAAAAAAACAAAT
59687411 AATAAAAAAAAACAAAT
1 AATAAAAAAAAACAAAT
59687428 A
1 A
59687429 GAGCTAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (17 bp):
AATAAAAAAAAACAAAT
Found at i:59690000 original size:27 final size:28
Alignment explanation
Indices: 59689944--59690013 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
59689934 AAACTTGTAC
59689944 AGCACTAAGTGTGCGAGTTTGATCACAT
1 AGCACTAAGTGTGCGAGTTTGATCACAT
* *
59689972 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCACAT
59689999 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59690014 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCACAT
Found at i:59690024 original size:27 final size:27
Alignment explanation
Indices: 59689944--59690025 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
59689934 AAACTTGTAC
* * *
59689944 AGCACTAAGTGTGCGAGTTTGA-TCACAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
59689972 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
59689999 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
59690026 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:59707207 original size:40 final size:40
Alignment explanation
Indices: 59707140--59707233 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
59707130 CAACTATTTG
* * *
59707140 TGGCACTTAGTGTGCGATTAGATATAGCTTCGGCTATCTA
1 TGGCACTTAGTGTGCAATTAGAGATAGCTTCGGCTATATA
*
59707180 TGGCACTTAGTGTGCAATTTGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCAATTAGAGATAGCTTCGGCTATATA
*
59707220 CGGCACTTAGTGTG
1 TGGCACTTAGTGTG
59707234 TGAGATATCG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTAGAGATAGCTTCGGCTATATA
Found at i:59707261 original size:28 final size:28
Alignment explanation
Indices: 59707221--59707317 Score: 151
Period size: 28 Copynumber: 3.5 Consensus size: 28
59707211 GGCTATATAC
59707221 GGCACTTAGTGTGTGAGATATCGAGTGT
1 GGCACTTAGTGTGTGAGATATCGAGTGT
*
59707249 GGCACTTAGTGTGTGAGATA-CTGAGAGT
1 GGCACTTAGTGTGTGAGATATC-GAGTGT
* *
59707277 GACACTTAGTGTGTGAGATATCGAGTAT
1 GGCACTTAGTGTGTGAGATATCGAGTGT
59707305 GGCACTTAGTGTG
1 GGCACTTAGTGTG
59707318 CGAGGCATTG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
27 1 0.02
28 60 0.97
29 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.34, T:0.31
Consensus pattern (28 bp):
GGCACTTAGTGTGTGAGATATCGAGTGT
Found at i:59709810 original size:10 final size:10
Alignment explanation
Indices: 59709783--59709812 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
59709773 TGATATCTTA
59709783 AGAAACTTTC
1 AGAAACTTTC
59709793 ACGAAACTTTC
1 A-GAAACTTTC
59709804 AGAAACTTT
1 AGAAACTTT
59709813 GAAAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (10 bp):
AGAAACTTTC
Found at i:59710956 original size:12 final size:13
Alignment explanation
Indices: 59710928--59710960 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
59710918 TTATTTCTTT
59710928 TTCTCCATCTACC
1 TTCTCCATCTACC
*
59710941 TTCTCC-TCTTCC
1 TTCTCCATCTACC
59710953 TTCTCCAT
1 TTCTCCAT
59710961 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:59712067 original size:28 final size:26
Alignment explanation
Indices: 59712026--59712132 Score: 118
Period size: 28 Copynumber: 4.2 Consensus size: 26
59712016 TGTACTAGAG
*
59712026 TACCCTATGGATGCAAAATTACCATTA
1 TACCCTATGTATGCAAAATTACC-TTA
59712053 TACCCTTATGTATGCAAAATTA-C---
1 TACCC-TATGTATGCAAAATTACCTTA
59712076 --CCCTATGTATGCAAAATTACCATTA
1 TACCCTATGTATGCAAAATTACC-TTA
*
59712101 TACCCCTATGTATGCAAAATGACCTTA
1 TA-CCCTATGTATGCAAAATTACCTTA
59712128 TACCC
1 TACCC
59712133 CTAGGGTTAA
Statistics
Matches: 69, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
20 16 0.23
21 4 0.06
26 3 0.04
27 11 0.16
28 35 0.51
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (26 bp):
TACCCTATGTATGCAAAATTACCTTA
Found at i:59712080 original size:48 final size:48
Alignment explanation
Indices: 59712028--59712120 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
59712018 TACTAGAGTA
*
59712028 CCCTATGGATGCAAAATTACCATTATACCCTTATGTATGCAAAATTAC
1 CCCTATGGATGCAAAATTACCATTATACCCCTATGTATGCAAAATTAC
*
59712076 CCCTATGTATGCAAAATTACCATTATACCCCTATGTATGCAAAAT
1 CCCTATGGATGCAAAATTACCATTATACCCCTATGTATGCAAAAT
59712121 GACCTTATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (48 bp):
CCCTATGGATGCAAAATTACCATTATACCCCTATGTATGCAAAATTAC
Found at i:59712082 original size:20 final size:20
Alignment explanation
Indices: 59712053--59712096 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
59712043 ATTACCATTA
*
59712053 TACCCTTATGTATGCAAAAT
1 TACCCCTATGTATGCAAAAT
59712073 TACCCCTATGTATGCAAAAT
1 TACCCCTATGTATGCAAAAT
59712093 TACC
1 TACC
59712097 ATTATACCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (20 bp):
TACCCCTATGTATGCAAAAT
Found at i:59712292 original size:27 final size:28
Alignment explanation
Indices: 59712253--59712328 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 28
59712243 TGGTTATGCT
* *
59712253 ACAAATTATCTGTTCTGGTGGCCCTGCC
1 ACAAAATATCTGTTCTGGTGGCACTGCC
**
59712281 AC-GTATATCTGTTCTGGTGGCACTGCC
1 ACAAAATATCTGTTCTGGTGGCACTGCC
59712308 ACAAAATATCTGTATCTGGTG
1 ACAAAATATCTGT-TCTGGTG
59712329 ACTCTGTCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.57
28 10 0.25
29 7 0.17
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (28 bp):
ACAAAATATCTGTTCTGGTGGCACTGCC
Found at i:59712339 original size:29 final size:28
Alignment explanation
Indices: 59712253--59712339 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 28
59712243 TGGTTATGCT
* * *
59712253 ACAAATTATCTGTTCTGGTGGCCCTGCC
1 ACAAAATATCTGTTCTGGTGACACTGCC
** *
59712281 AC-GTATATCTGTTCTGGTGGCACTGCC
1 ACAAAATATCTGTTCTGGTGACACTGCC
* *
59712308 ACAAAATATCTGTATCTGGTGACTCTGTC
1 ACAAAATATCTGT-TCTGGTGACACTGCC
59712337 ACA
1 ACA
59712340 TTTTCTGTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 23 0.48
28 10 0.21
29 15 0.31
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
ACAAAATATCTGTTCTGGTGACACTGCC
Found at i:59713444 original size:11 final size:10
Alignment explanation
Indices: 59713416--59713449 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
59713406 AGCCTGTAAG
59713416 TATTCTGAAT
1 TATTCTGAAT
*
59713426 TTTTCTGAAT
1 TATTCTGAAT
59713436 ATATTCTGAAT
1 -TATTCTGAAT
59713447 TAT
1 TAT
59713450 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:59718844 original size:12 final size:13
Alignment explanation
Indices: 59718816--59718848 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
59718806 TTATTTCTTT
59718816 TTCTCCATCTACC
1 TTCTCCATCTACC
*
59718829 TTCTCC-TCTTCC
1 TTCTCCATCTACC
59718841 TTCTCCAT
1 TTCTCCAT
59718849 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:59719965 original size:28 final size:28
Alignment explanation
Indices: 59719925--59720016 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
59719915 TGTACTAGAG
59719925 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
59719953 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
* *
59719981 TACCCCAATGTATGCAAAATGACC-TCTA
1 TACCCCTATGTATGCAAAATTACCAT-TA
59720009 TACCCCTA
1 TACCCCTA
59720017 GGGTTAATTT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:59720180 original size:27 final size:28
Alignment explanation
Indices: 59720122--59720211 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
59720112 AGGAAGCGTC
*
59720122 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
59720150 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
59720177 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
59720206 CTGGTG
1 CTGGTG
59720212 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:59720222 original size:29 final size:28
Alignment explanation
Indices: 59720132--59720222 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
59720122 CTGGTGGCTA
* * *
59720132 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
59720160 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
59720187 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
59720216 TGTCACA
1 TGCCACA
59720223 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:59720230 original size:55 final size:56
Alignment explanation
Indices: 59720122--59720236 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
59720112 AGGAAGCGTC
* * *
59720122 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
59720177 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
59720233 CTGG
1 CTGG
59720237 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:59729172 original size:53 final size:53
Alignment explanation
Indices: 59729068--59729172 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
59729058 TTCGTTTTTA
* * * * * * *
59729068 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGTCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCGTACATGGGATCCTTGCCTTATG
* *
59729121 AACTCACCATTGCCATGCCTTGGCATGGTCGTACATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGCCTTGACATGGTCGTACATGGGATCCTTGCCTTAT
59729173 TGTAGTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCGTACATGGGATCCTTGCCTTATG
Found at i:59741517 original size:47 final size:47
Alignment explanation
Indices: 59741462--59741745 Score: 469
Period size: 47 Copynumber: 6.0 Consensus size: 47
59741452 TGTAGGAGAT
59741462 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
59741509 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* * *
59741556 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
59741603 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* * *
59741652 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
*
59741699 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
59741746 CATATGTGTG
Statistics
Matches: 223, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
47 136 0.61
49 87 0.39
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:59741637 original size:96 final size:96
Alignment explanation
Indices: 59741462--59741745 Score: 518
Period size: 96 Copynumber: 3.0 Consensus size: 96
59741452 TGTAGGAGAT
* * *
59741462 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--TATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
59741525 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
59741556 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
59741621 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
59741652 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
*
59741717 GCCTAATGGCCGATGTGATGAATGTGAAA
66 GCCTAATGGCCAATGTGATGAATGTGAAA
59741746 CATATGTGTG
Statistics
Matches: 184, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
94 45 0.24
96 139 0.76
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:59741793 original size:48 final size:48
Alignment explanation
Indices: 59741737--59742032 Score: 529
Period size: 48 Copynumber: 6.2 Consensus size: 48
59741727 CGATGTGATG
*
59741737 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
59741785 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59741833 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
59741881 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59741929 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
59741977 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59742025 AATGTGAA
1 AATGTGAA
59742033 TGTTGTAACA
Statistics
Matches: 237, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 237 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:59744825 original size:33 final size:32
Alignment explanation
Indices: 59744774--59744837 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
59744764 AAGAAGTCAC
* *
59744774 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
59744806 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
59744838 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:59744868 original size:79 final size:73
Alignment explanation
Indices: 59744773--59744929 Score: 206
Period size: 73 Copynumber: 2.1 Consensus size: 73
59744763 AAAGAAGTCA
* * * *
59744773 CCAGATACAGATATTGTGGCTAGGCCACCAGAACAGATATATATATATGTGGCGAAGCCACCAGA
1 CCAGATACAGATATTGTGACGAAGCCACCAGAACAG------ATATATGTAGCGAAGCCACCAGA
59744838 TTGCAGCGAGGCTG
60 TTGCAGCGAGGCTG
* *
59744852 CCAGATACAGATATTGTGACGAAGTCACCAGAACAGATATATGTAGCGAGGCCACCAGATTGCAG
1 CCAGATACAGATATTGTGACGAAGCCACCAGAACAGATATATGTAGCGAAGCCACCAGATTGCAG
59744917 CGAGGCTG
66 CGAGGCTG
59744925 CCAGA
1 CCAGA
59744930 ACGCTTCCTC
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
73 40 0.56
79 32 0.44
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.18
Consensus pattern (73 bp):
CCAGATACAGATATTGTGACGAAGCCACCAGAACAGATATATGTAGCGAAGCCACCAGATTGCAG
CGAGGCTG
Found at i:59744907 original size:27 final size:27
Alignment explanation
Indices: 59744837--59744911 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
59744827 AAGCCACCAG
* **
59744837 ATTGCAGCGAGGCTGCCAGATACAGAT
1 ATTGTAGCGAGGCCACCAGATACAGAT
* *
59744864 ATTGT-GACGAAGTCACCAGA-ACAGAT
1 ATTGTAG-CGAGGCCACCAGATACAGAT
59744890 ATATGTAGCGAGGCCACCAGAT
1 AT-TGTAGCGAGGCCACCAGAT
59744912 TGCAGCGAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
26 9 0.24
27 27 0.73
28 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (27 bp):
ATTGTAGCGAGGCCACCAGATACAGAT
Found at i:59745603 original size:27 final size:27
Alignment explanation
Indices: 59745560--59745677 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
59745550 AGGGGCAAAT
* * *
59745560 GGTAATT-TACCCCACAATGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
59745586 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59745613 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59745640 GGTAATTCTACCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
59745667 GGTAATTCTAC
1 GGTAATTCTAC
59745678 AACTTATCCA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 7 0.09
27 75 0.91
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:59751661 original size:27 final size:26
Alignment explanation
Indices: 59751613--59751672 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
59751603 GCGAGGCTGG
*
59751613 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
59751640 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
59751666 CAGATAT
1 CAGATAT
59751673 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:59755265 original size:30 final size:30
Alignment explanation
Indices: 59755231--59755291 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59755221 TTCCCGAGCC
59755231 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
59755261 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
59755291 T
1 T
59755292 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:59760452 original size:55 final size:53
Alignment explanation
Indices: 59760314--59760516 Score: 203
Period size: 55 Copynumber: 3.8 Consensus size: 53
59760304 TTTGAAAATT
* * *
59760314 ACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTC
* * *
59760367 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CTTTTGCCTTATAGTAACTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGGATC-CTTGCCTTAT-G-AACTC
* * *** *
59760422 AGCAATGCCATGGCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTC
* * *
59760476 ACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 ACCAA-TGCCATGCCTTGACATGGTCTTACATGGGATCCTT
59760517 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 43 0.35
54 8 0.06
55 71 0.57
56 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
ACCAATGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTC
Found at i:59766505 original size:55 final size:53
Alignment explanation
Indices: 59766318--59766569 Score: 205
Period size: 55 Copynumber: 4.8 Consensus size: 53
59766308 CGGGTACCTT
* * * * *
59766318 ACCATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AACTC
* *
59766367 ACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTC
* * * *
59766420 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATACTAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT--GAACTC
* * *** *
59766475 ATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTC
* *
59766529 ACCAATTGCCAT-TCCTTGGCATGGTCTTACATGGTATCCTT
1 ACCAA-TGCCATGT-CTTGACATGGTCTTACATGGGATCCTT
59766570 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 22, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
49 36 0.21
50 1 0.01
52 2 0.01
53 48 0.29
54 10 0.06
55 69 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTC
Found at i:59768104 original size:13 final size:13
Alignment explanation
Indices: 59768082--59768114 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59768072 AAGGGTTTGT
59768082 TTAT-TAAACTAA
1 TTATCTAAACTAA
59768094 TTATCTAAACTAA
1 TTATCTAAACTAA
*
59768107 TTAACTAA
1 TTATCTAA
59768115 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:59771064 original size:19 final size:18
Alignment explanation
Indices: 59771028--59771068 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
59771018 AATTGAAATG
59771028 AAAATAAAAATAAAAAGA
1 AAAATAAAAATAAAAAGA
*
59771046 AAAATAAATAATAAGAAGA
1 AAAATAAA-AATAAAAAGA
59771065 AAAA
1 AAAA
59771069 GATAGGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAATAAAAATAAAAAGA
Found at i:59774918 original size:13 final size:13
Alignment explanation
Indices: 59774896--59774928 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59774886 AAGGGTTTGT
59774896 TTAT-TAAACTAA
1 TTATCTAAACTAA
59774908 TTATCTAAACTAA
1 TTATCTAAACTAA
*
59774921 TTAACTAA
1 TTATCTAA
59774929 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:59776829 original size:40 final size:40
Alignment explanation
Indices: 59776785--59776913 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
59776775 TGCTGGAAAT
* * *
59776785 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGATAAGACCCGAAGGCAATTGTGCGAGTGAC
* * * *
59776825 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGATAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
59776865 TCTATCCGGGATAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGATAAGACCCGAAGGCAATTGTGCGA-GTGAC
59776905 TATATCCGG
1 TATATCCGG
59776914 TTATATTCCG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 4 0.05
40 68 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TATATCCGGGATAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:59779965 original size:21 final size:20
Alignment explanation
Indices: 59779941--59779979 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
59779931 AAACCTGTAT
59779941 ATCTATCAACAAGCATTCATA
1 ATCTATCAACAAGC-TTCATA
*
59779962 ATCTATCAAGAAGCTTCA
1 ATCTATCAACAAGCTTCA
59779980 AAATACACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (20 bp):
ATCTATCAACAAGCTTCATA
Found at i:59781598 original size:30 final size:27
Alignment explanation
Indices: 59781526--59781580 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
59781516 ACATCTATTC
59781526 TGTATAAACAGCAACCCACAAACAATT
1 TGTATAAACAGCAACCCACAAACAATT
59781553 TGTATAAACAGCAACCCACAAACAATT
1 TGTATAAACAGCAACCCACAAACAATT
59781580 T
1 T
59781581 TTCCCTGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.25, G:0.07, T:0.20
Consensus pattern (27 bp):
TGTATAAACAGCAACCCACAAACAATT
Found at i:59782721 original size:43 final size:43
Alignment explanation
Indices: 59782594--59782710 Score: 207
Period size: 43 Copynumber: 2.7 Consensus size: 43
59782584 TTAAACTTTT
*
59782594 ACATTTAAATTTAATGATTATCATAACTTACATAAACATTTAA
1 ACATTTAAAGTTAATGATTATCATAACTTACATAAACATTTAA
*
59782637 ACATTTAAAGTTAATGATTATCATAAATTACATAAACATTTAA
1 ACATTTAAAGTTAATGATTATCATAACTTACATAAACATTTAA
*
59782680 ACATTTAAAGTTAATGATAATCATAACTTAC
1 ACATTTAAAGTTAATGATTATCATAACTTAC
59782711 GTACAAATTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (43 bp):
ACATTTAAAGTTAATGATTATCATAACTTACATAAACATTTAA
Found at i:59784671 original size:381 final size:382
Alignment explanation
Indices: 59783968--59784727 Score: 1378
Period size: 381 Copynumber: 2.0 Consensus size: 382
59783958 GATTTTCTAA
* *
59783968 TTATATGTAATATTATAATTTAAATCTTGGTCTTGCTAAATATTTTAACTATTTTATATGTACTA
1 TTATATGTAATATTATAATTTAAATCTTAGTCTTGCTAAATATTTCAACTATTTTATATGTACTA
59784033 TTATTGTTGTAATTAGATACTAATATTTCAACTATTTTATGTGTATTGCAGATAATATGATTAGA
66 TTATTGTTGTAATTAGATACTAATATTTCAACTATTTTATGTGTATTGCAGATAATATGATTAGA
* * *
59784098 AGAAGATTGCGAGATCTAAGTATTATTCAAAATCCTCCAAATTCGGAAGAAACAAATAGTGAACA
131 AAAAGATTCCAAGATCTAAGTATTATTCAAAATCCTCCAAATTCGGAAGAAACAAATAGTGAACA
* * *
59784163 ACAGATTGCTATTGGATTTTCGAATGTTCCGAATACAGCTGACAAACCTGCATAAATTCAAAGTA
196 ACAGACTGCTATTGGATCTTCGAATGTTCCGAATACAGCTGACAAACCTGCAGAAATTCAAAGTA
59784228 ATGTTAACTTTAATTTACATGCATGTTGACTTTTATTATTGATTTTTGTTTCAAATTCTTATATT
261 ATGTTAACTTTAATTTACATGCATGTTGACTTTTATTATTGATTTTTGTTTCAAATTCTTATATT
* *
59784293 ATCATATACAATTT-TTTTAGATGAAAGTGGTGGGAGGTGCAAAACTTGAGGACTAT
326 ATCATATACAATTTCTTTTAGATGAAAGTGGTGAGAGGTGCAAAACTCGAGGACTAT
59784349 TTATATGTAATATTATAATTTAAATCTTAGTCTTGCTAAATATTTCAACTATTTTATATGTACTA
1 TTATATGTAATATTATAATTTAAATCTTAGTCTTGCTAAATATTTCAACTATTTTATATGTACTA
* *
59784414 TTATTGTTGTAATTAGTTACTAATATTTCAACTATTTTATGTGTATTGCAGTTAATATGATTAGA
66 TTATTGTTGTAATTAGATACTAATATTTCAACTATTTTATGTGTATTGCAGATAATATGATTAGA
59784479 AAAAGATTCCAAGATCTAAGTATTATTCAAAATCCTCCAAATTCGGAAGAAACAAATAGTGAACA
131 AAAAGATTCCAAGATCTAAGTATTATTCAAAATCCTCCAAATTCGGAAGAAACAAATAGTGAACA
* * *
59784544 ATAGACTGCTATTGGATCTTCGAATGTTCTGAATGCAGCTGACAAACCTGCAGAAATTCAAAGTA
196 ACAGACTGCTATTGGATCTTCGAATGTTCCGAATACAGCTGACAAACCTGCAGAAATTCAAAGTA
59784609 ATGTTAACTTTAATTTACATGCATGTTGACTTTTATTATTGATTTTTGTTTCAAATTCTTATATT
261 ATGTTAACTTTAATTTACATGCATGTTGACTTTTATTATTGATTTTTGTTTCAAATTCTTATATT
59784674 ATCATATACAATTTCTTTTAGATGAAAGTGGTGAGAGGTGCAAAACTCGAGGAC
326 ATCATATACAATTTCTTTTAGATGAAAGTGGTGAGAGGTGCAAAACTCGAGGAC
59784728 GTACGCTATT
Statistics
Matches: 363, Mismatches: 15, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
381 326 0.90
382 37 0.10
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (382 bp):
TTATATGTAATATTATAATTTAAATCTTAGTCTTGCTAAATATTTCAACTATTTTATATGTACTA
TTATTGTTGTAATTAGATACTAATATTTCAACTATTTTATGTGTATTGCAGATAATATGATTAGA
AAAAGATTCCAAGATCTAAGTATTATTCAAAATCCTCCAAATTCGGAAGAAACAAATAGTGAACA
ACAGACTGCTATTGGATCTTCGAATGTTCCGAATACAGCTGACAAACCTGCAGAAATTCAAAGTA
ATGTTAACTTTAATTTACATGCATGTTGACTTTTATTATTGATTTTTGTTTCAAATTCTTATATT
ATCATATACAATTTCTTTTAGATGAAAGTGGTGAGAGGTGCAAAACTCGAGGACTAT
Found at i:59787298 original size:48 final size:48
Alignment explanation
Indices: 59787242--59787535 Score: 347
Period size: 48 Copynumber: 6.1 Consensus size: 48
59787232 TACATGGTAG
* * * *
59787242 GATGCCAATGCCATATCTCGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATC
* * * ** *
59787290 GATGCCAATGTCATGTGCCAGACATGGTCTTACATGGGATCGTAGGTC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATC
* *
59787338 GATGCCAATGCCATGA-CCCAAACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCAT-ATCCCAGACATGGTCTTACATGGGATCACAGATC
* ** *
59787386 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGGTC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATC
* ** *
59787434 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGGTC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATC
* * * *
59787482 GATGCCAATGCCATATCCTAGACATGTTCTTACATGAGATCACATATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATC
*
59787530 GGTGCC
1 GATGCC
59787536 GATAGCCCAG
Statistics
Matches: 211, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
48 211 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATC
Found at i:59787407 original size:96 final size:96
Alignment explanation
Indices: 59787265--59787522 Score: 408
Period size: 96 Copynumber: 2.7 Consensus size: 96
59787255 TATCTCGGAT
* *
59787265 ATGGTCTTACATGGGATCACATATCGATGCCAATGTCATGTGCCAGACATGGTCTTACATGGGAT
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
59787330 CGTAGGTCGATGCCAATGCCATGACCCAAAC
66 CGTAGGTCGATGCCAATGCCATGACCCAAAC
59787361 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
* *
59787426 CGTAGGTCGATGCCAATGCCATGTCCCAGAC
66 CGTAGGTCGATGCCAATGCCATGACCCAAAC
** ** * * * *
59787457 ATGGTCTTACATGGGATCGTAGGTCGATGCCAATGCCATATCCTAGACATGTTCTTACATGAGAT
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
59787522 C
66 C
59787523 ACATATCGGT
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 150 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (96 bp):
ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
CGTAGGTCGATGCCAATGCCATGACCCAAAC
Found at i:59787507 original size:144 final size:144
Alignment explanation
Indices: 59787242--59787614 Score: 449
Period size: 144 Copynumber: 2.6 Consensus size: 144
59787232 TACATGGTAG
* * * * * *
59787242 GATGCCAATGCCATATCTCGGATATGGTCTTACATGGGATCACATATCGATGCCAATGTCATGTG
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATCGATGCCAATGCCATGTC
59787307 CCAGACATGGTCTTACATGGGATCGTAGGTCGATGCCAATGCCATGACCCAAACATGGTCTTACA
66 CCAGACATGGTCTTACATGGGATCGTAGGTCGATGCCAATGCCATGACCCAAACATGGTCTTACA
*
59787372 TGGGATCACATATC
131 TGAGATCACATATC
* ** *
59787386 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGGTCGATGCCAATGCCATGTC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATCGATGCCAATGCCATGTC
* * *
59787451 CCAGACATGGTCTTACATGGGATCGTAGGTCGATGCCAATGCCAT-ATCCTAGACATGTTCTTAC
66 CCAGACATGGTCTTACATGGGATCGTAGGTCGATGCCAATGCCATGA-CCCAAACATGGTCTTAC
59787515 ATGAGATCACATATC
130 ATGAGATCACATATC
* * ** * * * ***
59787530 GGTGCC---G--ATAGCCCAG-CTATGGTCTTACATGTAATTACATATCAATG-CAAAAAC-TGT
1 GATGCCAATGCCATATCCCAGAC-ATGGTCTTACATGGGATCACAGATCGATGCCAATGCCATGT
59787587 CCCAGACATGGTCTTACATGGGATCGTA
65 CCCAGACATGGTCTTACATGGGATCGTA
59787615 CATAACCCTA
Statistics
Matches: 199, Mismatches: 28, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
137 31 0.16
138 5 0.03
139 28 0.14
141 1 0.01
143 1 0.01
144 133 0.67
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (144 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATCGATGCCAATGCCATGTC
CCAGACATGGTCTTACATGGGATCGTAGGTCGATGCCAATGCCATGACCCAAACATGGTCTTACA
TGAGATCACATATC
Found at i:59789215 original size:66 final size:66
Alignment explanation
Indices: 59789104--59789241 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 66
59789094 GCAAATTGCT
* * * * *
59789104 CAACTTAAAGCGGAAGCAGCATCAAGAGAAGCAGAGGCTCAAAGAAAATATGATGAACTCTAGCT
1 CAACTTAAAGCGGAAGCAGCAGCAAGAGAAGAAGAGGCACAAAGAAAATATGACGAACTATAGCT
59789169 A
66 A
* * * *
59789170 CAACTTAAAGCGGAGGTAGCAGCGAGGGAAGAAGAGGCA-ACAAGAAAATATGACGAACTATAGC
1 CAACTTAAAGCGGAAGCAGCAGCAAGAGAAGAAGAGGCACA-AAGAAAATATGACGAACTATAGC
59789234 TA
65 TA
59789236 CAACTT
1 CAACTT
59789242 TAAAATATGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 1 0.02
66 61 0.98
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.14
Consensus pattern (66 bp):
CAACTTAAAGCGGAAGCAGCAGCAAGAGAAGAAGAGGCACAAAGAAAATATGACGAACTATAGCT
A
Found at i:59795550 original size:131 final size:129
Alignment explanation
Indices: 59795275--59795606 Score: 415
Period size: 131 Copynumber: 2.6 Consensus size: 129
59795265 GAAAAACTGA
* * * * * *
59795275 AACCCAGCAC-AGTAGGGCACGATTCCTC-ACATTTCTAGACATCGAACATTGCCTTATTTT--A
1 AACCCAGCACGA-TAGGGCACGATTCCCCGA-ATTGCCAAACATCGAACATTTCCTTGTTTTAAA
* ** * * *
59795336 -AA-TTTTAGAAAATATGAGTGAAATTTTAAAGGGATATCCGATTATTTTGAACAAACGGAAATT
64 GAATTTTTA-AAAACATGAGTGAAATTCCAAAGGAATATCCGATTATTTTAAACAAACGGAAATC
59795399 GC
128 GC
59795401 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTCTGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCT-TGTTTTAAAG
* * * *
59795466 AATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTAAACGAACGAGAAATCG
65 AATTTTTAAAAACATGAGTGAAATTCCAAAGGAATATCCGATTATTTTAAACAAACG-GAAATCG
59795531 C
129 C
*
59795532 AACCCAGCACGATAGGGCACGATTTCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTT-GTTTTAAAG
59795597 AATTTTTAAA
65 AATTTTTAAA
59795607 TGAATGATTA
Statistics
Matches: 180, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
126 45 0.25
127 7 0.04
129 1 0.01
130 43 0.24
131 84 0.47
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (129 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTGTTTTAAAGA
ATTTTTAAAAACATGAGTGAAATTCCAAAGGAATATCCGATTATTTTAAACAAACGGAAATCGC
Found at i:59796746 original size:303 final size:303
Alignment explanation
Indices: 59796199--59796808 Score: 1184
Period size: 303 Copynumber: 2.0 Consensus size: 303
59796189 AAATTATGTA
59796199 CAAAATATGAAAAGATTCTAAAAATGTATAGTGAAATATAATCTTAGAAACATAATAGATTTACA
1 CAAAATATGAAAAGATTCTAAAAATGTATAGTGAAATATAATCTTAGAAACATAATAGATTTACA
59796264 AATCATATATACATAAATAACTTGAAAAATAATTATTTGCAAAAACATGGAAATACATACAAGAT
66 AATCATATATACATAAATAACTTGAAAAATAATTATTTGCAAAAACATGGAAATACATACAAGAT
59796329 TAAATTAATTTTATCATAAATTATATATAATAGATTTAAGAACATACTTATATATACAAAGAAAA
131 TAAATTAATTTTATCATAAATTATATATAATAGATTTAAGAACATACTTATATATACAAAGAAAA
59796394 CTATATGTATAAAATACACAGATTTAGTAATGTTTATATCAAATATACGTACCAATGTATATGTA
196 CTATATGTATAAAATACACAGATTTAGTAATGTTTATATCAAATATACGTACCAATGTATATGTA
59796459 TAAAAATAAATTCAACTAAAGTAAAAAGCACGTGGTTTCCTTT
261 TAAAAATAAATTCAACTAAAGTAAAAAGCACGTGGTTTCCTTT
*
59796502 CAAAATATGAAAAGATTCTAAAAATGTATAGTGAAATATAATCTTAGAAACATTATAGATTTACA
1 CAAAATATGAAAAGATTCTAAAAATGTATAGTGAAATATAATCTTAGAAACATAATAGATTTACA
*
59796567 AATCATATATACATAAATAACTTTAAAAATAATTATTTGCAAAAACATGGAAATACATACAAGAT
66 AATCATATATACATAAATAACTTGAAAAATAATTATTTGCAAAAACATGGAAATACATACAAGAT
59796632 TAAATTAATTTTATCATAAATTATATATAATAGATTTAAGAACATACTTATATATACAAAGAAAA
131 TAAATTAATTTTATCATAAATTATATATAATAGATTTAAGAACATACTTATATATACAAAGAAAA
*
59796697 CTATATGTATAAAATACACGGATTTAGTAATGTTTATATCAAATATACGTACCAATGTATATGTA
196 CTATATGTATAAAATACACAGATTTAGTAATGTTTATATCAAATATACGTACCAATGTATATGTA
*
59796762 TAAAAATAAATTCAACTAAAGTATAAAGCACGTGGTTTCCTTT
261 TAAAAATAAATTCAACTAAAGTAAAAAGCACGTGGTTTCCTTT
59796805 CAAA
1 CAAA
59796809 CAACAAATAT
Statistics
Matches: 303, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
303 303 1.00
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.33
Consensus pattern (303 bp):
CAAAATATGAAAAGATTCTAAAAATGTATAGTGAAATATAATCTTAGAAACATAATAGATTTACA
AATCATATATACATAAATAACTTGAAAAATAATTATTTGCAAAAACATGGAAATACATACAAGAT
TAAATTAATTTTATCATAAATTATATATAATAGATTTAAGAACATACTTATATATACAAAGAAAA
CTATATGTATAAAATACACAGATTTAGTAATGTTTATATCAAATATACGTACCAATGTATATGTA
TAAAAATAAATTCAACTAAAGTAAAAAGCACGTGGTTTCCTTT
Found at i:59799009 original size:45 final size:44
Alignment explanation
Indices: 59798826--59799557 Score: 219
Period size: 45 Copynumber: 16.5 Consensus size: 44
59798816 TTCTTTGATT
* *
59798826 TGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCC
1 TGCTCCACTACAACTTTAGGGAGACAAGATC-ACAATCTTCAGTC
* * ** ***** * *
59798871 TGTTACC-CTACGAC-TTAGGGAGTTAAGAT-GGTGGCTTAAATC
1 TGCT-CCACTACAACTTTAGGGAGACAAGATCACAATCTTCAGTC
* * * * * *
59798913 TGCTTCACTGCAACTTTAGGAAGAAAAGATTCACTATCTTC-GATT
1 TGCTCCACTACAACTTTAGGGAGACAAGA-TCACAATCTTCAG-TC
*
59798958 TGCTCCACTACAACTTTAGGGAGACAAGATCCACAATCTTCAGCC
1 TGCTCCACTACAACTTTAGGGAGACAAGAT-CACAATCTTCAGTC
* * * **** * *
59799003 TACTCCACTCCAACTTTAGGGAG-CTAGGAT-AGTGGCTTAAATC
1 TGCTCCACTACAACTTTAGGGAGAC-AAGATCACAATCTTCAGTC
* * ** ** *
59799046 TGCTTCACTGCAACTTCTA-AAAGACAAGATTCGA-TGTCTTC-GATT
1 TGCTCCACTACAACTT-TAGGGAGACAAGA-TC-ACAATCTTCAG-TC
* * *
59799091 TGCTCCAGTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCC
1 TGCTCCACTACAACTTTAGGGAGACAAGATC-ACAATCTTCAGTC
* * *** * * *
59799136 TACTCCACTACAACTTTAGGGAG-CTAGGAT-GGTAGCTTAAATC
1 TGCTCCACTACAACTTTAGGGAGAC-AAGATCACAATCTTCAGTC
* * * * * * *
59799179 TGCTTCATTGCAACTTCAGGAAGACTAGATTCACCATCTTC-GATC
1 TGCTCCACTACAACTTTAGGGAGACAAGA-TCACAATCTTCAG-TC
* * *
59799224 TGCTCCACTATAACTTTAGGGAAACAAGATCTACAATCTTCAGCC
1 TGCTCCACTACAACTTTAGGGAGACAAGATC-ACAATCTTCAGTC
* * ***** * *
59799269 TACTCCACTACAACTTTAGGGAG-CTAGGAT-GGTGGCTTAAATC
1 TGCTCCACTACAACTTTAGGGAGAC-AAGATCACAATCTTCAGTC
* ** * * * * **
59799312 TGCTTCACTGTAACTTCAGGAAGACTAGATTCGCCGTCTTC-GATC
1 TGCTCCACTACAACTTTAGGGAGACAAGA-TCACAATCTTCAG-TC
* * * *
59799357 TGCTCTACTGCAACTTCAGGGAAACAAGATCTACAATCTTCAG-C
1 TGCTCCACTACAACTTTAGGGAGACAAGATC-ACAATCTTCAGTC
* * * *
59799401 GTACTCCACTACAACTTTAGGGAG-CTAGGAT---AATGGCTTAAATC
1 -TGCTCCACTACAACTTTAGGGAGAC-AAGATCACAAT--CTTCAGTC
* ** * * * * **
59799445 TGCTTCACTGTAACTTCAGGAAGACTAGATTCGCCGTCTTC-GATC
1 TGCTCCACTACAACTTTAGGGAGACAAGA-TCACAATCTTCAG-TC
* * *
59799490 TGCTCCACTGCAACTTTAGGGAAACAAGATCTACAATCTTCAGCC
1 TGCTCCACTACAACTTTAGGGAGACAAGATC-ACAATCTTCAGTC
*
59799535 TACTCCACTACAACTTTAGGGAG
1 TGCTCCACTACAACTTTAGGGAG
59799558 CTAGGATAAT
Statistics
Matches: 475, Mismatches: 167, Indels: 90
0.65 0.23 0.12
Matches are distributed among these distances:
41 4 0.01
42 13 0.03
43 107 0.23
44 41 0.09
45 301 0.63
46 8 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
TGCTCCACTACAACTTTAGGGAGACAAGATCACAATCTTCAGTC
Found at i:59799636 original size:133 final size:133
Alignment explanation
Indices: 59798817--59799654 Score: 1171
Period size: 133 Copynumber: 6.3 Consensus size: 133
59798807 AAGGCTTGCT
* * **
59798817 TCTTTGATTTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACC-CTA
1 TCTTCGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCCTACT-CCACTA
* * * * * **
59798881 CGAC-TTAGGGAGTTAAGATGGTGGCTTAAATCTGCTTCACTGCAACTTTAGGAAGAAAAGATTC
65 CAACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTC
* *
59798945 ACTA
130 GCCA
* * * *
59798949 TCTTCGATTTGCTCCACTACAACTTTAGGGAGACAAGATCCACAATCTTCAGCCTACTCCACTCC
1 TCTTCGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
* *
59799014 AACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACTTCTA-AAAGACAAGATTC
66 AACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACTTC-AGGAAGACTAGATTC
***
59799078 GATG
130 GCCA
* * * *
59799082 TCTTCGATTTGCTCCAGTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
1 TCTTCGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
* * * *
59799147 AACTTTAGGGAGCTAGGATGGTAGCTTAAATCTGCTTCATTGCAACTTCAGGAAGACTAGATTCA
66 AACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCG
59799212 CCA
131 CCA
** *
59799215 TCTTCGATCTGCTCCACTATAACTTTAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTAC
1 TCTTCGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
* *
59799280 AACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGTAACTTCAGGAAGACTAGATTCG
66 AACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCG
*
59799345 CCG
131 CCA
* * * *
59799348 TCTTCGATCTGCTCTACTGCAACTTCAGGGAAACAAGATCTACAATCTTCAGCGTACTCCACTAC
1 TCTTCGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
* *
59799413 AACTTTAGGGAGCTAGGATAATGGCTTAAATCTGCTTCACTGTAACTTCAGGAAGACTAGATTCG
66 AACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCG
*
59799478 CCG
131 CCA
*
59799481 TCTTCGATCTGCTCCACTGCAACTTTAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTAC
1 TCTTCGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
* * * *
59799546 AACTTTAGGGAGCTAGGATAATGGCTTAAATCTGCTTCACTGTAACTTCAGCAAGACTAGAATCG
66 AACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCG
59799611 CCA
131 CCA
* *
59799614 TCTTCGATCTGCTCCA-TCGCAACTTCATGGAGACAAGATCT
1 TCTTCGATCTGCTCCACT-GCAACTTTAGGGAGACAAGATCT
59799655 GTAGAATTGG
Statistics
Matches: 646, Mismatches: 55, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
131 2 0.00
132 60 0.09
133 583 0.90
134 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (133 bp):
TCTTCGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
AACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCG
CCA
Found at i:59799782 original size:65 final size:64
Alignment explanation
Indices: 59799677--59799805 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 64
59799667 TCATAGGCCT
* *
59799677 ATGCTTATGCCAAATAATTAGGATGCTATGATCGACATGAATCAAAAGTTCCTAACTAAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAAAGCTCCTAACT-AGATGTG
* *
59799742 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAAAGCTCCTAACTAGATGTG
59799806 TTATGAATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 7 0.12
65 53 0.88
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAAAGCTCCTAACTAGATGTG
Found at i:59803457 original size:46 final size:46
Alignment explanation
Indices: 59803397--59803563 Score: 246
Period size: 46 Copynumber: 3.6 Consensus size: 46
59803387 TTTGACGTGA
* * * * *
59803397 TGCCATAGTGTCTTTCAACTATGGTCTTACTCCTTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-TTCTTTTCATGTCACGT
59803443 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* **
59803489 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATACCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
59803535 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
59803564 CACATTTCAT
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
45 7 0.06
46 105 0.94
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:59805607 original size:11 final size:11
Alignment explanation
Indices: 59805591--59805646 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
59805581 CTTTATATAC
59805591 TAATAAAATAA
1 TAATAAAATAA
59805602 TAATAAAATAA
1 TAATAAAATAA
* **
59805613 TAA-AATATCT
1 TAATAAAATAA
* *
59805623 TATTAAAATAT
1 TAATAAAATAA
59805634 TAATAAAATAA
1 TAATAAAATAA
59805645 TA
1 TA
59805647 TTTATCTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
10 6 0.17
11 30 0.83
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:59805662 original size:43 final size:41
Alignment explanation
Indices: 59805591--59805674 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 41
59805581 CTTTATATAC
*
59805591 TAATAAAATAATAATAAAATAATAAAATATCTTATTAAAATAT
1 TAATAAAATAATAATAAAATAATAAAATA-ATTA-TAAAATAT
* * ** *
59805634 TAATAAAATAATATTTATCTAATTAAATAATTATAAAATAT
1 TAATAAAATAATAATAAAATAATAAAATAATTATAAAATAT
59805675 CAAAATATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 8 0.23
42 3 0.09
43 24 0.69
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (41 bp):
TAATAAAATAATAATAAAATAATAAAATAATTATAAAATAT
Found at i:59805949 original size:30 final size:31
Alignment explanation
Indices: 59805881--59805939 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
59805871 CACTCTTAAA
* * *
59805881 ATATTTACACTATTGATCCTTCAAATTTTTC
1 ATATTTACACTATTAACCCCTCAAATTTTTC
59805912 ATATTTACACT-TTAACCCCTCAAATTTT
1 ATATTTACACTATTAACCCCTCAAATTTT
59805940 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTTTC
Found at i:59809223 original size:40 final size:40
Alignment explanation
Indices: 59809175--59809346 Score: 265
Period size: 40 Copynumber: 4.3 Consensus size: 40
59809165 TCTTCAGCAT
* * * *
59809175 TTAG-CCGGATATAACCACACGCCCAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
59809214 TTAACCCGGACATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
59809254 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
59809294 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGGC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
59809334 TTAGCCCGGATAT
1 TTAGCCCGGATAT
59809347 CATTCAAATG
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 3 0.02
40 118 0.98
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:59811446 original size:25 final size:25
Alignment explanation
Indices: 59811417--59811464 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59811407 TTATAATATG
* * *
59811417 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59811442 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59811465 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59811533 original size:20 final size:20
Alignment explanation
Indices: 59811508--59811566 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
59811498 TAAATATGGT
59811508 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
59811528 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
59811548 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
59811567 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:59811548 original size:11 final size:11
Alignment explanation
Indices: 59811512--59811566 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
59811502 TATGGTATGT
59811512 ATGATATGCAC
1 ATGATATGCAC
* *
59811523 ATGAAATG--T
1 ATGATATGCAC
59811532 ATGATATGCAC
1 ATGATATGCAC
*
59811543 ATGATATG--T
1 ATGATATGCAC
59811552 ATGATATGCAC
1 ATGATATGCAC
59811563 ATGA
1 ATGA
59811567 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59811671 original size:23 final size:24
Alignment explanation
Indices: 59811617--59811721 Score: 158
Period size: 24 Copynumber: 4.4 Consensus size: 24
59811607 GAGGAAGTGA
* *
59811617 AAAATGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
59811641 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
59811664 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
59811688 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
59811712 AAAAGAGGCT
1 AAAAG-GGCT
59811722 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.30
24 48 0.65
25 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:59811693 original size:47 final size:48
Alignment explanation
Indices: 59811617--59811721 Score: 158
Period size: 47 Copynumber: 2.2 Consensus size: 48
59811607 GAGGAAGTGA
*
59811617 AAAATGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
59811664 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
59811712 AAAAGAGGCT
1 AAAAG-GGCT
59811722 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 42 0.81
48 6 0.12
49 4 0.08
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:59811962 original size:31 final size:31
Alignment explanation
Indices: 59811927--59811990 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
59811917 CGTTTACAGT
59811927 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
59811958 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59811989 AA
1 AA
59811991 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59814889 original size:24 final size:24
Alignment explanation
Indices: 59814857--59814906 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
59814847 AGGAAAATCT
*
59814857 AATGCAAATGATACAATGCAATGC
1 AATGCAAATGATACAATACAATGC
*
59814881 AATGCAAATGATGCAATACAATGC
1 AATGCAAATGATACAATACAATGC
59814905 AA
1 AA
59814907 ATGTATGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (24 bp):
AATGCAAATGATACAATACAATGC
Found at i:59814894 original size:19 final size:19
Alignment explanation
Indices: 59814872--59814909 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
59814862 AAATGATACA
*
59814872 ATGCAATGCAATGCAAATG
1 ATGCAATACAATGCAAATG
59814891 ATGCAATACAATGCAAATG
1 ATGCAATACAATGCAAATG
59814910 TATGGGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (19 bp):
ATGCAATACAATGCAAATG
Found at i:59820856 original size:13 final size:15
Alignment explanation
Indices: 59820834--59820870 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
59820824 AAGGTCACAC
59820834 GCCTGTGTGA-ACAG
1 GCCTGTGTGAGACAG
*
59820848 GCC-GTGTGAGACAT
1 GCCTGTGTGAGACAG
59820862 GCCTGTGTG
1 GCCTGTGTG
59820871 TCTAAGCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 6 0.30
14 9 0.45
15 5 0.25
ACGTcount: A:0.16, C:0.22, G:0.38, T:0.24
Consensus pattern (15 bp):
GCCTGTGTGAGACAG
Found at i:59823856 original size:46 final size:46
Alignment explanation
Indices: 59823806--59823981 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
59823796 TGGTTGAGCA
59823806 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59823852 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATG-TAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T-G
* * * *
59823896 GCATCAAAGCTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAACG
1 TC--CGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59823945 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59823982 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 3 0.03
46 60 0.56
47 24 0.22
49 3 0.03
50 5 0.05
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59836238 original size:42 final size:43
Alignment explanation
Indices: 59836141--59836286 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
59836131 AGACATCATA
* * * * *
59836141 TAAGACCGTGTCTGGGACACAGGCCTCG--ATTGAAATTTATATA
1 TAAGACCATGTCTGGGACAGAGGCATCGATATTG-AA-TTACATG
** * *
59836184 TAAGACCATGTCTGGGACATTGGCATCG-TATCTG-ATTTCGTG
1 TAAGACCATGTCTGGGACAGAGGCATCGATAT-TGAATTACATG
*
59836226 TAAGACCTTGTCTGGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACATG
* *
59836269 TAAGACCACGTCCGGGAC
1 TAAGACCATGTCTGGGAC
59836287 GTCGGCATTG
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 30 0.36
43 49 0.59
44 2 0.02
45 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACATG
Done.