Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 82 of 120
Found at i:24570214 original size:30 final size:31
Alignment explanation
Indices: 24570180--24570247 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
24570170 TTGCCCAAGA
** * **
24570180 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
*
24570210 GTAAATGCAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
24570241 GTAAATA
1 GTAAATA
24570248 TTTTAAGGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:24576667 original size:113 final size:113
Alignment explanation
Indices: 24576469--24576679 Score: 404
Period size: 113 Copynumber: 1.9 Consensus size: 113
24576459 ATTTTATTAA
24576469 TCAAATGAGTCCTTCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
1 TCAAATGAGTCCTTCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
24576534 ATGCTTAAGTTGTTCAACTACCTTTATTAATACCTTTTATTAAGTTGT
66 ATGCTTAAGTTGTTCAACTACCTTTATTAATACCTTTTATTAAGTTGT
* *
24576582 TCAAATGAGTCCTTCAATTTGAAGTGCCATTTTCATCAATAACCTGTCCAATGAAAGTGAATTCA
1 TCAAATGAGTCCTTCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
24576647 ATGCTTAAGTTGTTCAACTACCTTTATTAATAC
66 ATGCTTAAGTTGTTCAACTACCTTTATTAATAC
24576680 AATGAATCTT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 96 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (113 bp):
TCAAATGAGTCCTTCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
ATGCTTAAGTTGTTCAACTACCTTTATTAATACCTTTTATTAAGTTGT
Found at i:24576920 original size:12 final size:12
Alignment explanation
Indices: 24576903--24576939 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
24576893 TGGTATTTGA
24576903 TATTGTTGTTAT
1 TATTGTTGTTAT
*
24576915 TATTGTTGTTGT
1 TATTGTTGTTAT
*
24576927 TGTTGTTGTTAT
1 TATTGTTGTTAT
24576939 T
1 T
24576940 TTGCATTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.11, C:0.00, G:0.22, T:0.68
Consensus pattern (12 bp):
TATTGTTGTTAT
Found at i:24582076 original size:24 final size:23
Alignment explanation
Indices: 24582028--24582072 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24582018 CCTATGGAGG
* *
24582028 TCAATCGATTAAATTAGGCTCAT
1 TCAATCAATTAAATTAGACTCAT
24582051 TCAATCAACTTAAATT-GACTCA
1 TCAATCAA-TTAAATTAGACTCA
24582073 ATTCGTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
TCAATCAATTAAATTAGACTCAT
Found at i:24585793 original size:10 final size:10
Alignment explanation
Indices: 24585771--24585803 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
24585761 TGCATGTATT
24585771 CAAA-ACTAC
1 CAAAGACTAC
*
24585780 CAAAGACTAT
1 CAAAGACTAC
24585790 CAAAGACTAC
1 CAAAGACTAC
24585800 CAAA
1 CAAA
24585804 CCTCTTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.55, C:0.27, G:0.06, T:0.12
Consensus pattern (10 bp):
CAAAGACTAC
Found at i:24591631 original size:5 final size:5
Alignment explanation
Indices: 24591623--24591660 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
24591613 TTGGTGCTTG
* *
24591623 AGCTG AGCTA AGCTA AGCTA AGCTA AGCAA AGC-A AGCT
1 AGCTA AGCTA AGCTA AGCTA AGCTA AGCTA AGCTA AGCT
24591661 TCTGAATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (5 bp):
AGCTA
Found at i:24593924 original size:2 final size:2
Alignment explanation
Indices: 24593919--24594003 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
24593909 GAAAAAAAGG
24593919 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
24593961 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
24594003 G
1 G
24594004 CCCTCAAGTA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:24596195 original size:20 final size:21
Alignment explanation
Indices: 24596163--24596203 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
24596153 ATTTACCGTT
24596163 CAACCCTTTTCATGTAAGCAC
1 CAACCCTTTTCATGTAAGCAC
24596184 CAACCC-TTTCATGTAAGCAC
1 CAACCCTTTTCATGTAAGCAC
24596204 TAACTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (21 bp):
CAACCCTTTTCATGTAAGCAC
Found at i:24599292 original size:25 final size:28
Alignment explanation
Indices: 24599241--24599293 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
24599231 GGGTTCTGAT
* *
24599241 TTTCTTCTTTAAATCTAACAATCAAGAA
1 TTTCTTCTTTAAATCAAAAAATCAAGAA
24599269 TTTC-TCTTT-AATCAAAAAAT-AAGAA
1 TTTCTTCTTTAAATCAAAAAATCAAGAA
24599294 CTAATTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
26 9 0.39
27 5 0.22
28 4 0.17
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (28 bp):
TTTCTTCTTTAAATCAAAAAATCAAGAA
Found at i:24605318 original size:44 final size:44
Alignment explanation
Indices: 24605232--24605711 Score: 140
Period size: 44 Copynumber: 11.1 Consensus size: 44
24605222 CCAAGCCTTG
* * * * * *
24605232 TCTCCCTGAGCAGTAGCGGAGAAGATTGAAGATTG-TAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACAAATCTTA
*
24605276 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAAATCTTA
* * * * ** *
24605320 TCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAG-CCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGA-CAAATCTTA
* ** * * *
24605364 TCTCCCTAAGCAGCAGCAGAGTAGGTTG--TA-G----ATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAAATCTTA
* *
24605401 TCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGACAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAAATCTTA
* * * ** *
24605445 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACTAAGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGAC-AAATCTTA
* * * * * **** *
24605489 TCTCCCTGAGCA-TCAGCGGAGTAGGTTGAAAATTTTAGATCTTA
1 TCTCCCTAAGCAGT-AGTGGAGCAGATTGAAGACGACAAATCTTA
* *
24605533 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAAATCTTA
* * * * ** *
24605577 TCTTTCC-AAG-A-TAGTGGGAAACAGATTTAAG-CCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGA-CAAATCTTA
* * * * * * * * *
24605621 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTG-TAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACAAATCTTA
** *
24605665 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAAATCTTA
24605709 TCT
1 TCT
24605712 TTCCAAGATA
Statistics
Matches: 298, Mismatches: 103, Indels: 70
0.63 0.22 0.15
Matches are distributed among these distances:
37 24 0.08
39 1 0.00
40 1 0.00
42 12 0.04
43 26 0.09
44 209 0.70
45 19 0.06
46 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAAATCTTA
Found at i:24605794 original size:257 final size:256
Alignment explanation
Indices: 24605264--24606042 Score: 1201
Period size: 257 Copynumber: 3.0 Consensus size: 256
24605254 AGATTGAAGA
24605264 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAA
1 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAA
*
24605329 GATAGTGGGAAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCAGAGTA-G--G--
66 GATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCAGAGTAGGTTGAA
* * *
24605389 -TTGTAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCA
131 ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCA
* *
24605453 AGATAGTGGGAAGCAGATTTAAGCCACTAAGCCTTGTCTCCCTGAGCATCAGCGGAGTAGG
196 AGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
*
24605514 TTGAAAATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATC
1 TTG-------TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATC
* * *
24605579 TTTCCAAGATAGTGGGAAACAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTA
59 TTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCAGAGTA
24605644 GGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTA
124 GGTTG-AAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTA
* * * *
24605709 TCTTTCCAAGATAGTGGGAAGAAAATTTAAGTCACAAAGCCTTGTCTCCCTGAGCAGCAGCAGAG
188 TCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAG
24605774 TAGG
253 TAGG
* *
24605778 TTGTAAATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAA
1 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAA
* * *
24605843 GATAGTTGGAAGCAAATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCAGAGAAGGTTGAA
66 GATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCAGAGTAGGTTGAA
* *
24605908 GATTGTAGATCTTATCTTCTTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCC
131 -ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCC
* * * *
24605973 AAGATAGTGGGAAGCAGACTTAAGCCACCAAGCCTTATCTCCCTGAGCAGTAGCGGAGTAGG
195 AAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
*
24606035 TTGAAGAT
1 TTGTAGAT
24606043 GGAAAACCAT
Statistics
Matches: 479, Mismatches: 35, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
250 3 0.01
256 2 0.00
257 353 0.74
258 1 0.00
260 1 0.00
264 119 0.25
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (256 bp):
TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAA
GATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCAGAGTAGGTTGAA
ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCA
AGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
Found at i:24606056 original size:132 final size:132
Alignment explanation
Indices: 24605220--24606042 Score: 1233
Period size: 132 Copynumber: 6.3 Consensus size: 132
24605210 ACTGGTGAAA
* * *
24605220 CACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
24605285 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
24605350 GC
131 GC
* *
24605352 CACCAAGCCTTGTCTCCCTAAGCAGCAGC--AG-A-G-T--AGGTTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
24605410 GAAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
24605475 GC
131 GC
* * * *
24605477 CACTAAGCCTTGTCTCCCTGAGCATCAGCGGAGTAGGTTGAAAATTTTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
24605542 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
24605607 GC
131 GC
*
24605609 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
24605674 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGAAAATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
24605739 GT
131 GC
* * * *
24605741 CACAAAGCCTTGTCTCCCTGAGCAGCAGC--AG-A-G-T--AGGTTGTAAATCCTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
24605799 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTTGGAAGCAAATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
24605864 GC
131 GC
* * * * *
24605866 CACCAAGCCTTGTCTCCCTAAGCAGCAGCAGAGAAGGTTGAAGATTGTAGATCTTATCTTCTTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
24605931 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGACTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
24605996 GC
131 GC
* *
24605998 CACCAAGCCTTATCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGAT
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGAT
24606043 GGAAAACCAT
Statistics
Matches: 627, Mismatches: 50, Indels: 28
0.89 0.07 0.04
Matches are distributed among these distances:
125 223 0.36
127 6 0.01
128 3 0.00
129 4 0.01
130 6 0.01
132 385 0.61
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:24606060 original size:389 final size:389
Alignment explanation
Indices: 24605220--24606042 Score: 1385
Period size: 389 Copynumber: 2.1 Consensus size: 389
24605210 ACTGGTGAAA
* *
24605220 CACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
24605285 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGAAAATTTAA
* * *
24605350 GCCACCAAGCCTTGTCTCCCTAAGCAGCAGCAGAGTAGGTTGTAGATCTTATCTCCCTAAGAAGT
131 GCCACAAAGCCTTGTCTCCCTAAGCAGCAGCAGAGTAGGTTGTAAATCCTATCTCCCTAAGAAGT
*
24605415 AGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
196 AGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAAGCCAC
* * * * * *
24605480 TAAGCCTTGTCTCCCTGAGCATCAGCGGAGTAGGTTGAAAATTTTAGATCTTATCTCCCTAAGCA
261 CAAGCCTTGTCTCCCTAAGCAGCAGCAGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCA
* *
24605545 GTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGC
326 GTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGACTTAAGC
* *
24605609 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
24605674 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGAAAATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGAAAATTTAA
* * *
24605739 GTCACAAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGTAAATCCTATCTCCCTAAGCAGT
131 GCCACAAAGCCTTGTCTCCCTAAGCAGCAGCAGAGTAGGTTGTAAATCCTATCTCCCTAAGAAGT
*
24605804 AGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTTGGAAGCAAATTTAAGCCAC
196 AGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAAGCCAC
* * *
24605869 CAAGCCTTGTCTCCCTAAGCAGCAGCAGAGAAGGTTGAAGATTGTAGATCTTATCTTCTTAAGCA
261 CAAGCCTTGTCTCCCTAAGCAGCAGCAGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCA
*
24605934 GTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGACTTAAGC
326 GTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGACTTAAGC
*
24605998 CACCAAGCCTTATCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGAT
1 CACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGAT
24606043 GGAAAACCAT
Statistics
Matches: 403, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
389 403 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (389 bp):
CACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGAAAATTTAA
GCCACAAAGCCTTGTCTCCCTAAGCAGCAGCAGAGTAGGTTGTAAATCCTATCTCCCTAAGAAGT
AGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAAGCCAC
CAAGCCTTGTCTCCCTAAGCAGCAGCAGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGACTTAAGC
Found at i:24606100 original size:44 final size:43
Alignment explanation
Indices: 24606052--24606553 Score: 259
Period size: 44 Copynumber: 11.6 Consensus size: 43
24606042 TGGAAAACCA
*
24606052 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCTGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCT-ATAATCT
* * * * * *
24606096 TATCTCCCTGAAGTTGCAGTGAAGCGGATCAAAACCT-TGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAGAGCTAT-AATCT
** * * * * *
24606140 TATCTCTTTGAAGTTGCAG-AGAGCAGA-TCGCG-TCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCTATAATCT
* *
24606180 TATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AG-TAAACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCT--ATAA-TCT
* * * *
24606224 TATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATG-GAAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-T-TAGA-GCTATAATCT
* * *
24606269 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAGAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAG-CTATAATCT
* * * * *
24606313 TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCT-TGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAGAGCTAT-AATCT
* * * * * *
24606357 TATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCG-TCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCTATAATCT
* *
24606397 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAG-TAAACGAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCTATA--A-TCT
* * **
24606441 TATC-CTCCTGAAGTTGCAGT-GAGGTAGATT-GAAGATGGCAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAG-AGCT-ATAATCT
* * *
24606485 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAACCGATAAT-T
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAG-AGCTATAATCT
* *
24606528 CTATCTCTCTGAAGTTACAGTGGAGC
1 -TATCTCCCTGAAGTTGCAGTGGAGC
24606554 GGATCAAAAC
Statistics
Matches: 348, Mismatches: 75, Indels: 70
0.71 0.15 0.14
Matches are distributed among these distances:
40 43 0.12
41 22 0.06
42 3 0.01
43 25 0.07
44 205 0.59
45 39 0.11
46 8 0.02
47 2 0.01
48 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCTATAATCT
Found at i:24606277 original size:217 final size:217
Alignment explanation
Indices: 24606036--24606591 Score: 943
Period size: 217 Copynumber: 2.6 Consensus size: 217
24606026 CGGAGTAGGT
* * *
24606036 TGAAGATGGAAAACCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCTGATAATCCTATCT
1 TGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCT
* *
24606101 CCCTGAAGTTGCAGTGAAGCGGATCAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAG
66 CCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
24606166 ATCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTC
131 ATCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTC
24606231 CTGAAGTTGCAGTGAGGTAGAC
196 CTGAAGTTGCAGTGAGGTAGAC
*
24606253 TGAAGATGGAAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAGAGCCGATAATCCTATCT
1 TGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCT
* *
24606318 CCCTAAAGTTGCAGTGGAGCAGATCAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
66 CCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
* *
24606383 ATCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAACGAGTCTTATCCTC
131 ATCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTC
*
24606448 CTGAAGTTGCAGTGAGGTAGAT
196 CTGAAGTTGCAGTGAGGTAGAC
* * * *
24606470 TGAAGATGG-CAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAACCGATAATTCTATCT
1 TGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCT
* * *
24606534 CTCTGAAGTTACAGTGGAGCGGATCAAAACCTTGGATCTTCTCTCTCTGAAGTTGCAG
66 CCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTGGATCTTATCTCTCTGAAGTTGCAG
24606592 TGGAGTAGAC
Statistics
Matches: 318, Mismatches: 21, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
216 103 0.32
217 215 0.68
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
TGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCT
CCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
ATCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTC
CTGAAGTTGCAGTGAGGTAGAC
Found at i:24606454 original size:84 final size:86
Alignment explanation
Indices: 24606308--24606513 Score: 212
Period size: 84 Copynumber: 2.4 Consensus size: 86
24606298 TAGAGCCGAT
*
24606308 AATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCTTGGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACC-TGGATCTTATCTCTCTGAAGTTG
*
24606373 CAGAGA-GCAGATCG-CG-T-C
65 CAGAGAGGCAGATCGAAGATGC
* * *
24606391 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAA-C--GAGTCTTATC-CTCCTGA
1 -AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TCA--AAACCTGGA-TCTTATCTCT-CTGA
* * *
24606452 AGTTGCAGTGAGGTAGATTGAAGATGGC
60 AGTTGCAGAGAGGCAGATCGAAGAT-GC
24606480 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
24606514 TAGAACCGAT
Statistics
Matches: 102, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
83 4 0.04
84 51 0.50
85 8 0.08
86 2 0.02
87 5 0.05
88 31 0.30
89 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (86 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCTGGATCTTATCTCTCTGAAGTTGC
AGAGAGGCAGATCGAAGATGC
Found at i:24620759 original size:21 final size:22
Alignment explanation
Indices: 24620710--24620756 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
24620700 AAAAATGGGC
24620710 TAGGCCTCGAGTAAGGCATTTT
1 TAGGCCTCGAGTAAGGCATTTT
24620732 TAGGCCTCGAGTAAGGCATTTT
1 TAGGCCTCGAGTAAGGCATTTT
24620754 TAG
1 TAG
24620757 CCTAGTCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (22 bp):
TAGGCCTCGAGTAAGGCATTTT
Found at i:24620951 original size:30 final size:30
Alignment explanation
Indices: 24620917--24620974 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
24620907 AACTTATTTT
*
24620917 ATTGTTAATCTTGTTATTGTTTTAAAGGCA
1 ATTGTTAATCTTGTTATTATTTTAAAGGCA
* *
24620947 ATTGTTAATTTTGTTATTATTTTCAAGG
1 ATTGTTAATCTTGTTATTATTTTAAAGG
24620975 TATTTGCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (30 bp):
ATTGTTAATCTTGTTATTATTTTAAAGGCA
Found at i:24621118 original size:11 final size:11
Alignment explanation
Indices: 24621102--24621132 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
24621092 TATATACATT
24621102 TAAAAATTATA
1 TAAAAATTATA
*
24621113 TAAAAATAATA
1 TAAAAATTATA
24621124 TAAAAATTA
1 TAAAAATTA
24621133 ATACGGGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:24621382 original size:32 final size:31
Alignment explanation
Indices: 24621342--24621406 Score: 112
Period size: 32 Copynumber: 2.1 Consensus size: 31
24621332 TTATAATAAA
*
24621342 AATTAAAATAAAGGCATAAAAACTAGAAAAC
1 AATTAAAATAAAGGCATAAAAACTAAAAAAC
24621373 AATTCAAAATAAAGGCATAAAAACTAAAAAAC
1 AATT-AAAATAAAGGCATAAAAACTAAAAAAC
24621405 AA
1 AA
24621407 ATTTCCTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 4 0.12
32 28 0.88
ACGTcount: A:0.66, C:0.11, G:0.08, T:0.15
Consensus pattern (31 bp):
AATTAAAATAAAGGCATAAAAACTAAAAAAC
Found at i:24631261 original size:2 final size:2
Alignment explanation
Indices: 24631254--24631278 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24631244 TTTAGCAACA
24631254 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24631279 CATTCGGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24638797 original size:2 final size:2
Alignment explanation
Indices: 24638790--24638816 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24638780 TTTAGCAACA
24638790 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24638817 CATTCGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24640168 original size:10 final size:10
Alignment explanation
Indices: 24640152--24640187 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
24640142 CATAATAACT
24640152 TTATAATATA
1 TTATAATATA
*
24640162 ATATAATATA
1 TTATAATATA
24640172 TTATAATATA
1 TTATAATATA
24640182 TTATAA
1 TTATAA
24640188 GCTTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTATAATATA
Found at i:24640177 original size:20 final size:19
Alignment explanation
Indices: 24640151--24640205 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
24640141 TCATAATAAC
*
24640151 TTTATAATATAATATAATA
1 TTTATAATATAATATAAGA
* *
24640170 TATTATAATATATTATAAGC
1 T-TTATAATATAATATAAGA
24640190 TTTATAA-ATAATATAA
1 TTTATAATATAATATAA
24640206 AAACTATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 8 0.26
19 7 0.23
20 16 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTATAATATAATATAAGA
Found at i:24640205 original size:5 final size:5
Alignment explanation
Indices: 24640153--24640187 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
24640143 ATAATAACTT
* *
24640153 TATAA TATAA TATAA TATAT TATAA TATAT TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA
24640188 GCTTTATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
TATAA
Found at i:24646136 original size:2 final size:2
Alignment explanation
Indices: 24646131--24646157 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24646121 AAATAGGTAA
24646131 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24646158 AAATAATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24646596 original size:3 final size:3
Alignment explanation
Indices: 24646524--24646581 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
24646514 ACAGTAACCT
24646524 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
24646572 TAA TGA TAA T
1 TAA TAA TAA T
24646582 GGTAGTAGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24648302 original size:43 final size:43
Alignment explanation
Indices: 24648253--24648391 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
24648243 CAACTTCAGA
* *
24648253 GAGATAAGATCTATTACTTTAATCCTCTCCACTACTGCTTAGG
1 GAGATAAGATCTATTACTTTAATCCACTCCACTACTGATTAGG
* * * * * **
24648296 GAGATAAGATCTGA-TGC---GATCCACTCTACTGC-AATTTCAAA
1 GAGATAAGATCT-ATTACTTTAATCCACTCCACTACTGA-TT-AGG
* *
24648337 GAGATAAGATCTATTACTTTAATTCGCTCCACTACTGATTAGG
1 GAGATAAGATCTATTACTTTAATCCACTCCACTACTGATTAGG
24648380 GAGATAAGATCT
1 GAGATAAGATCT
24648392 GATACGATCC
Statistics
Matches: 70, Mismatches: 18, Indels: 16
0.67 0.17 0.15
Matches are distributed among these distances:
40 14 0.20
41 15 0.21
43 27 0.39
44 13 0.19
45 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (43 bp):
GAGATAAGATCTATTACTTTAATCCACTCCACTACTGATTAGG
Found at i:24648348 original size:41 final size:40
Alignment explanation
Indices: 24648296--24648432 Score: 116
Period size: 41 Copynumber: 3.3 Consensus size: 40
24648286 ACTGCTTAGG
*
24648296 GAGATAAGATCTGATGCGATCCACTCTACTGCAATTTCAAA
1 GAGATAAGATCTGATACGATCCACTCTACTGCAA-TTCAAA
* * * * * * **
24648337 GAGATAAGATCT-ATTACTTTAATTCGCTCCACTACTGATT-AGG
1 GAGATAAGATCTGA-TAC---GATCCACTCTACTGC-AATTCAAA
24648380 GAGATAAGATCTGATACGATCCACTCTACTGCAACTTCAAA
1 GAGATAAGATCTGATACGATCCACTCTACTGCAA-TTCAAA
24648421 GAGATAAGATCT
1 GAGATAAGATCT
24648433 ATTACTGTAA
Statistics
Matches: 71, Mismatches: 17, Indels: 16
0.68 0.16 0.15
Matches are distributed among these distances:
39 1 0.01
40 13 0.18
41 27 0.38
43 16 0.23
44 13 0.18
45 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (40 bp):
GAGATAAGATCTGATACGATCCACTCTACTGCAATTCAAA
Found at i:24648367 original size:84 final size:84
Alignment explanation
Indices: 24648226--24648455 Score: 388
Period size: 84 Copynumber: 2.7 Consensus size: 84
24648216 CAAGACTTGG
* * * *
24648226 TGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTCCACTACTGC
1 TGCGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACTTTAATCCGCTCCACTACTGA
24648291 TTAGGGAGATAAGATCTGA
66 TTAGGGAGATAAGATCTGA
* *
24648310 TGCGATCCACTCTACTGCAATTTCAAAGAGATAAGATCTATTACTTTAATTCGCTCCACTACTGA
1 TGCGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACTTTAATCCGCTCCACTACTGA
24648375 TTAGGGAGATAAGATCTGA
66 TTAGGGAGATAAGATCTGA
* *
24648394 TACGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACTGTAATCCGCTCCACTAC
1 TGCGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
24648456 AACTTCTGGG
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 136 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (84 bp):
TGCGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACTTTAATCCGCTCCACTACTGA
TTAGGGAGATAAGATCTGA
Found at i:24648686 original size:44 final size:44
Alignment explanation
Indices: 24648243--24648687 Score: 219
Period size: 44 Copynumber: 10.4 Consensus size: 44
24648233 TACTCTACTG
* *
24648243 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTA
** * * * * *
24648287 CTGCTT-AGGGAGATAAGATCTGA-TGC---GATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCCGCTCCACTA
* ** *
24648327 CAATTTCAAAGAGATAAGATCTATTACTTTAATTCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTA
* * * * *
24648371 CTGA-TT-AGGGAGATAAGATCTGA-TAC---GATCCACTCTACTG
1 C-AACTTCAGGGAGATAAGATCT-ATTACTTTAATCCGCTCCACTA
** *
24648411 CAACTTCAAAGAGATAAGATCTATTACTGTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTA
* * * * **
24648455 CAACTTCTGGGAGATAGGAT-TATCGACTTCAATCTACTCCACTA
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCCGCTCCACTA
* * * ** * * *
24648499 CAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCCGCTCCACTA
** * * * *
24648543 TGACTTCAGGGGGATAAGA-CT-TGT-TTTCTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTT-T-AATCCGCTCCACTA
* * * * * *
24648587 CAACTTCAGGGAGATAAGACCTGA-TGC---GATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCCGCTCCACTA
** *
24648628 CAACTTCAAAGAGATAAGATCTATTACTTTAATCCGCTCCATTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTA
24648672 CAACTTCAGGGAGATA
1 CAACTTCAGGGAGATA
24648688 GGATTATCGG
Statistics
Matches: 291, Mismatches: 82, Indels: 56
0.68 0.19 0.13
Matches are distributed among these distances:
39 1 0.00
40 28 0.10
41 63 0.22
42 3 0.01
43 37 0.13
44 153 0.53
45 5 0.02
46 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTA
Found at i:24648834 original size:128 final size:128
Alignment explanation
Indices: 24648678--24649291 Score: 978
Period size: 128 Copynumber: 4.8 Consensus size: 128
24648668 ATTACAACTT
* * * *
24648678 CAGGGAGATAGGA-TTATCGGCTTCAATCTGCTCCCTTACACTTGAAGATAAGATTCGCCGTCTT
1 CAGGGACATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTT
* *
24648742 CGATCTGCTCCGCTACTGCTTAGGAAGACAAGGTCTGTAATTTCCAACCTACTCCACTGCTGAC
65 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
**
24648806 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCACCTTC
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
24648871 GATCTACTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTACTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* *
24648934 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * * * *
24648999 GACCTGCTCCGCTACTGCTTAGGGAGACAATATCTATAATTTCCAGCCTACTCCGCTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* *
24649062 TAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * * *
24649127 GATCTGCTCCACTACTGCTTAGGGATACAAGATCTATAGTTTCCAACCTACTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* *
24649190 TAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
24649255 GATCTGCTCCGCTACTGCTTTGGGAGACAAGATCTGT
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGT
24649292 TATATTCGCT
Statistics
Matches: 447, Mismatches: 38, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
128 444 0.99
129 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (128 bp):
CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:24650571 original size:15 final size:15
Alignment explanation
Indices: 24650534--24650571 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
24650524 AGCCTTTCCA
*
24650534 TCATTTTTTTATTTT
1 TCATTTTTCTATTTT
*
24650549 TCA-TTTTCTCTTTT
1 TCATTTTTCTATTTT
24650563 TCATTTTTC
1 TCATTTTTC
24650572 ACACATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (15 bp):
TCATTTTTCTATTTT
Found at i:24651461 original size:32 final size:32
Alignment explanation
Indices: 24651425--24651485 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
24651415 TTTTTTTCTC
24651425 TTTTTCATATTTTT-ATTTTGACTTTGATTGAT
1 TTTTTC-TATTTTTGATTTTGACTTTGATTGAT
* *
24651457 TTTTTCTTTTTTTGCTTTTGACTTTGATT
1 TTTTTCTATTTTTGATTTTGACTTTGATT
24651486 TTTTTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (32 bp):
TTTTTCTATTTTTGATTTTGACTTTGATTGAT
Found at i:24656452 original size:3 final size:3
Alignment explanation
Indices: 24656446--24656471 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24656436 AATAATAATA
24656446 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
24656472 AATGGTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:24659391 original size:211 final size:212
Alignment explanation
Indices: 24659027--24659452 Score: 624
Period size: 211 Copynumber: 2.0 Consensus size: 212
24659017 CAATATTCAA
* * *
24659027 AAAAGAATAACTAATACTATACTAAAAATATAAAAAATGTCATTATAATTCTAAAAATTAAATTA
1 AAAAGAATAACTAATACTATAATAAAAATATAAAAAATATCATCATAATTCTAAAAATTAAATTA
* * * * *
24659092 AAAAAATGTGACCTTAGTCATATTTCTCAATACTAGGCATCCTAAATTGTACTATTCGCTTTTTC
66 AAAAAATGTGACCTTAGTCATATTTCTCAATACTAAGCATCCTAAATTGCACCATCCACTTTTTC
* * *
24659157 ATAAGATCGAATTCATCAATGATAGACTCCATTGAAAATTCTCGAACTATCTCTTTTTCGATATA
131 ATAAGATCAAATTCATCAATGATAGAATCCATTGAAAATTATCGAACTATCTCTTTTTCGATATA
*
24659222 TGTCACCAAGTAAG-TG
196 TGTCACCAAGCAAGTTG
*
24659238 AAAAGAATAACTAATACTATAAT-AAAATATCAAAAATATCATCATAATTCTAAAAATTAAATTA
1 AAAAGAATAACTAATACTATAATAAAAATATAAAAAATATCATCATAATTCTAAAAATTAAATTA
* * *
24659302 AAAAATACT-TGACCTTAGTCTTATTTCTCAATACTAAGTATCCTAAATTGCACCCTCCACTTTT
66 AAAAA-A-TGTGACCTTAGTCATATTTCTCAATACTAAGCATCCTAAATTGCACCATCCACTTTT
** * *
24659366 TCATAAGATCAAATTCATCAATGATAGAATCTGTTGAAAATTATCGAGCTATCTCTTTTTCGATG
129 TCATAAGATCAAATTCATCAATGATAGAATCCATTGAAAATTATCGAACTATCTCTTTTTCGATA
*
24659431 TATGTTACCAAGCAAGTTG
194 TATGTCACCAAGCAAGTTG
24659450 AAA
1 AAA
24659453 GAAAATCATC
Statistics
Matches: 191, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
210 43 0.23
211 142 0.74
212 6 0.03
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (212 bp):
AAAAGAATAACTAATACTATAATAAAAATATAAAAAATATCATCATAATTCTAAAAATTAAATTA
AAAAAATGTGACCTTAGTCATATTTCTCAATACTAAGCATCCTAAATTGCACCATCCACTTTTTC
ATAAGATCAAATTCATCAATGATAGAATCCATTGAAAATTATCGAACTATCTCTTTTTCGATATA
TGTCACCAAGCAAGTTG
Found at i:24663805 original size:44 final size:44
Alignment explanation
Indices: 24663692--24663905 Score: 241
Period size: 44 Copynumber: 4.6 Consensus size: 44
24663682 TATGTATGAT
*
24663692 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
* *
24663735 CACTTATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGGTAAAGCTAC
1 CAC-T-T-A--T--CACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
*
24663786 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
*
24663830 CACTTATCACCTGTCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTAC
1 CAC-T-T-A----TCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
*
24663881 TACTTATCACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
24663906 AGTACTCAAA
Statistics
Matches: 147, Mismatches: 9, Indels: 29
0.79 0.05 0.16
Matches are distributed among these distances:
43 3 0.02
44 56 0.38
45 2 0.01
46 3 0.02
47 1 0.01
48 3 0.02
49 2 0.01
50 29 0.20
51 48 0.33
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
Found at i:24663847 original size:51 final size:51
Alignment explanation
Indices: 24663792--24663898 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
24663782 CTACCACTTA
*
24663792 TCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTA-TCACTTATCACCTG
1 TCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTACT-ACTTATCACCTG
*
24663843 TCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTACTACTTATCACTTG
1 TCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTACTACTTATCACCTG
24663894 TCACT
1 TCACT
24663899 GATCAGAAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 52 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (51 bp):
TCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTACTACTTATCACCTG
Found at i:24663865 original size:95 final size:94
Alignment explanation
Indices: 24663692--24663905 Score: 347
Period size: 95 Copynumber: 2.3 Consensus size: 94
24663682 TATGTATGAT
* *
24663692 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGCCACTTGTC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACCTGCCACTTGTC
* *
24663757 ACTGATCAGATAAGTGTAGGTAAAGCTAC
66 ACTGATCAAATAAGTGTAGCTAAAGCTAC
* *
24663786 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACCTGTCACTTGT
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACCTGCCACTTGT
*
24663851 CACTGATCAAATAAGTGTAGCTGAAGCTAC
65 CACTGATCAAATAAGTGTAGCTAAAGCTAC
*
24663881 TACTTATCACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
24663906 AGTACTCAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
94 35 0.32
95 76 0.68
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (94 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACCTGCCACTTGTC
ACTGATCAAATAAGTGTAGCTAAAGCTAC
Found at i:24677750 original size:23 final size:23
Alignment explanation
Indices: 24677719--24677769 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
24677709 ACCTACTTTC
* *
24677719 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
24677742 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCGGGATA
24677765 TTACA
1 TTACA
24677770 TTTCTCCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:24679357 original size:50 final size:50
Alignment explanation
Indices: 24679296--24679482 Score: 248
Period size: 50 Copynumber: 3.7 Consensus size: 50
24679286 ACTGCCAATT
* * * * ** * * *
24679296 CCATATCCCAGATATGGTCTTATATGAGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTAAATGGGACCTCTCATCTCGGTGCCAACG
*
24679346 CCATGTCCCAGACATGGTCTTAAAAGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTAAATGGGACCTCTCATCTCGGTGCCAACG
* *
24679396 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACA
1 CCATGTCCCAGACATGGTCTTAAATGGGACCTCTCATCTCGGTGCCAACG
**
24679446 CCATGTCCCAGACATGGTCTTACTTGGGACCTCTCAT
1 CCATGTCCCAGACATGGTCTTAAATGGGACCTCTCAT
24679483 AATCTCAATG
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 123 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTAAATGGGACCTCTCATCTCGGTGCCAACG
Found at i:24679415 original size:100 final size:102
Alignment explanation
Indices: 24679296--24679571 Score: 274
Period size: 100 Copynumber: 2.7 Consensus size: 102
24679286 ACTGCCAATT
* * * *
24679296 CCATATCCCAGATATGGTCTTATATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTATATGAGAGCTCTCATATCGGTGCCAATGCCATGTCCCAGACAT
*
24679361 GGTCTTAAAAGGGACCTCTC-ATCTC-GGTGCCAACG
66 GGTCTTAAAAGGGACCTCTCAATCTCAGATGCCAACG
* * * * **
24679396 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTATATGAGAGCTCTCATATCGGTGCCAATGCCATGTCCCAGACAT
*** *
24679461 GGTCTTACTTGGGACCTCTCATAATCTCAATGATGCCAATG
66 GGTCTTAAAAGGGACCTCTC--AATCTC-A-GATGCCAACG
* * * * * * *
24679502 CCATGTTCTAGACATGGTC-T-TATGCTG-GCTCACATATCGATGTCGATGCCATGTCCCAGACA
1 CCATGTCCCAGACATGGTCTTATATG-AGAGCTCTCATATCGGTGCCAATGCCATGTCCCAGACA
24679564 TGGTCTTA
65 TGGTCTTA
24679572 TACGAGATCG
Statistics
Matches: 142, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
100 72 0.51
103 5 0.04
104 38 0.27
105 2 0.01
106 25 0.18
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (102 bp):
CCATGTCCCAGACATGGTCTTATATGAGAGCTCTCATATCGGTGCCAATGCCATGTCCCAGACAT
GGTCTTAAAAGGGACCTCTCAATCTCAGATGCCAACG
Found at i:24689126 original size:16 final size:17
Alignment explanation
Indices: 24689094--24689127 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24689084 AGGGATGAAG
24689094 TTTGTTTGATGTTTATT
1 TTTGTTTGATGTTTATT
*
24689111 TTTGTTTGCT-TTTATT
1 TTTGTTTGATGTTTATT
24689127 T
1 T
24689128 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.09, C:0.03, G:0.15, T:0.74
Consensus pattern (17 bp):
TTTGTTTGATGTTTATT
Found at i:24691095 original size:50 final size:50
Alignment explanation
Indices: 24690980--24691228 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
24690970 GATAATAACA
* * ** * *
24690980 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
24691031 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
24691081 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
24691131 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG
* *
24691186 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
24691229 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 92 0.54
51 33 0.19
53 4 0.02
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:24691166 original size:100 final size:104
Alignment explanation
Indices: 24690979--24691228 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
24690969 TGATAATAAC
** * *
24690979 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
24691044 TCCCAGACATGGTCTTATAGGGGACCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
* *
24691081 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
24691145 CCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTC-T-TCATCTTAAGG
* *
24691186 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
24691229 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 48 0.37
101 36 0.27
103 4 0.03
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
Found at i:24691344 original size:13 final size:13
Alignment explanation
Indices: 24691323--24691354 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
24691313 GCTTGGATCA
*
24691323 TCATCAAATAAAT
1 TCATAAAATAAAT
24691336 TCATAAAATAAAT
1 TCATAAAATAAAT
24691349 TCATAA
1 TCATAA
24691355 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:24691601 original size:30 final size:30
Alignment explanation
Indices: 24691566--24691623 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
24691556 CCTCGACTCT
*
24691566 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
24691596 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
24691624 AATGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:24693611 original size:35 final size:35
Alignment explanation
Indices: 24693568--24693641 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
24693558 AAGAGAGCAT
*
24693568 CATTAGTAGAAGCTCTACTACCATTCTCGTGTGAG
1 CATTAGTAGAAGATCTACTACCATTCTCGTGTGAG
24693603 CATTAGTAGAAGATCTACTACCATTCTCGTGTGAG
1 CATTAGTAGAAGATCTACTACCATTCTCGTGTGAG
24693638 CATT
1 CATT
24693642 GAGACCGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (35 bp):
CATTAGTAGAAGATCTACTACCATTCTCGTGTGAG
Found at i:24704538 original size:32 final size:31
Alignment explanation
Indices: 24704467--24704544 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 31
24704457 AATATTGCAT
* * *
24704467 ATTAATTGAA-GGAGTTTATTTTTAAAAGAT
1 ATTAATTGAAGGGAGTTTATTTTAAAAAAAA
24704497 ATTAATTGAAGGGAGTTTATTTCTAAAAAAAA
1 ATTAATTGAAGGGAGTTTATTT-TAAAAAAAA
24704529 ATTAATTGAAGGGAGT
1 ATTAATTGAAGGGAGT
24704545 CTGTTCAACG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 10 0.23
31 11 0.26
32 22 0.51
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.37
Consensus pattern (31 bp):
ATTAATTGAAGGGAGTTTATTTTAAAAAAAA
Found at i:24706680 original size:212 final size:211
Alignment explanation
Indices: 24706303--24706732 Score: 736
Period size: 212 Copynumber: 2.0 Consensus size: 211
24706293 CAATATTCAA
24706303 AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
1 AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
* * *
24706368 AAAAAATGTGTCCTTAGTCCTATTTCTCAATACTAGGCATCCTAAATTGCACCATTCGTTTTTTC
66 AAAAAATGTGACCTTAGTCCTATTTCTCAATACTAAGCATCCTAAATTGCACCATTCGCTTTTTC
*
24706433 ATAAGATTGAATTCATTAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATGTA
131 ATAAGATTGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATGTA
24706498 TGTCACCAAGTAAGTT
196 TGTCACCAAGTAAGTT
24706514 AAAAGAATAACTAATACTATACTAAAAATATAAAAAAATATCATTATAATTCTAAAAATTAAATT
1 AAAAGAATAACTAATACTATACTAAAAATAT-AAAAAATATCATTATAATTCTAAAAATTAAATT
* *
24706579 AAAAGAACT-TGACCTTAGTCCTATTTCTCAATACTAAGCATCCTAAATTGCACCCTTCGCTTTT
65 AAAA-AAATGTGACCTTAGTCCTATTTCTCAATACTAAGCATCCTAAATTGCACCATTCGCTTTT
* * *
24706643 TCATAAGATTGAATTCATCAATGATAGAATTTGTTGAAAATTCTCGAGCTATCTCTTTTTCGGTG
129 TCATAAGATTGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATG
*
24706708 TATGTTACCAAGTAAGTT
194 TATGTCACCAAGTAAGTT
*
24706726 GAAAGAA
1 AAAAGAA
24706733 AATCATCCTC
Statistics
Matches: 206, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
211 31 0.15
212 172 0.83
213 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (211 bp):
AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
AAAAAATGTGACCTTAGTCCTATTTCTCAATACTAAGCATCCTAAATTGCACCATTCGCTTTTTC
ATAAGATTGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATGTA
TGTCACCAAGTAAGTT
Found at i:24708441 original size:13 final size:13
Alignment explanation
Indices: 24708423--24708449 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24708413 GAGTTGAAGC
24708423 TTTTTTATTTTAT
1 TTTTTTATTTTAT
24708436 TTTTTTATTTTAT
1 TTTTTTATTTTAT
24708449 T
1 T
24708450 CTGGTTCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:24713067 original size:21 final size:22
Alignment explanation
Indices: 24713043--24713092 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 22
24713033 GGAGTGTTCT
24713043 AAGCA-ATTAGACTGCGGAAGA
1 AAGCAGATTAGACTGCGGAAGA
24713064 AAGCCAGCGATTAGACTGCGGAAGA
1 AAG-CA--GATTAGACTGCGGAAGA
24713089 AAGC
1 AAGC
24713093 CCTGTAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.12
22 2 0.08
24 1 0.04
25 19 0.76
ACGTcount: A:0.40, C:0.18, G:0.30, T:0.12
Consensus pattern (22 bp):
AAGCAGATTAGACTGCGGAAGA
Found at i:24714028 original size:6 final size:6
Alignment explanation
Indices: 24713977--24714027 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
24713967 TTCAATCAAA
24713977 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT-
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
24714024 AAAA
1 AAAA
24714028 AAAGAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 4 0.09
6 41 0.91
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATC
Found at i:24714040 original size:29 final size:29
Alignment explanation
Indices: 24713974--24714095 Score: 95
Period size: 29 Copynumber: 4.1 Consensus size: 29
24713964 AGATTCAATC
*
24713974 AAAAAAATCAAAATCAAAATCAAAATCAA-A
1 AAAAAAATCAAAATCAAAAT-AAAA-AAAGA
**
24714004 ATCAAAATCAAAATCAAAATAAAAAAAGA
1 AAAAAAATCAAAATCAAAATAAAAAAAGA
* **
24714033 AAAAAAATCAAAGTCAAAA-GCAAAAAGA
1 AAAAAAATCAAAATCAAAATAAAAAAAGA
*** * *
24714061 GAAATCGATCAAAGTCAAAATAAAAATATGA
1 -AAAAAAATCAAAATCAAAATAAAAA-AAGA
24714092 AAAA
1 AAAA
24714096 GAGAAAAAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
28 9 0.12
29 37 0.51
30 24 0.33
31 3 0.04
ACGTcount: A:0.70, C:0.11, G:0.07, T:0.13
Consensus pattern (29 bp):
AAAAAAATCAAAATCAAAATAAAAAAAGA
Found at i:24715851 original size:87 final size:87
Alignment explanation
Indices: 24715703--24716031 Score: 532
Period size: 87 Copynumber: 3.8 Consensus size: 87
24715693 TAGTAAAAAT
* * *
24715703 CGAAAACAAAGACTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATATTGCCTTC
1 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
24715768 CTACGTTAACAGCGAAGCAGAC
66 CTACGTTAACAGCGAAGCAGAC
24715790 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
1 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
* *
24715855 CTGCGTTAACAACGAAGCAGAC
66 CTACGTTAACAGCGAAGCAGAC
* * * *
24715877 TGAAAACAAAGCCTTGCCTCCATCTGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTTCTTTC
1 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
** *
24715942 CTGTGTTAACAGTGAAGCAGAC
66 CTACGTTAACAGCGAAGCAGAC
* *
24715964 CGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGTTGGTTAAAGATAACAGATCTTGCCTTC
1 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
24716029 CTA
66 CTA
24716032 AGCACTAGCG
Statistics
Matches: 224, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 224 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (87 bp):
CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
CTACGTTAACAGCGAAGCAGAC
Found at i:24716319 original size:87 final size:85
Alignment explanation
Indices: 24716150--24716307 Score: 212
Period size: 84 Copynumber: 1.8 Consensus size: 85
24716140 AAATTACAAG
*
24716150 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGAAATCAATCATATCTCTCTGAAGTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAT--AAGAAATCAATCATATCTCCCTGAAGTTGCAG
*
24716215 TGGAGCAGATTAAAACAATAGA
64 TGGAGCAGATGAAAACAATAGA
* * * * *
24716237 TCTTATCTCTCTAAGCAGTAGTGGAGCAGAT-CG-CATCAGGTCTTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAGAAATCA-ATCATATCTCCCTGAAGTTGCAGT
24716300 GGAGCAGA
65 GGAGCAGA
24716308 CTGAGAAAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
83 4 0.06
84 30 0.47
87 30 0.47
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (85 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAGAAATCAATCATATCTCCCTGAAGTTGCAGTG
GAGCAGATGAAAACAATAGA
Found at i:24716325 original size:44 final size:42
Alignment explanation
Indices: 24716145--24716353 Score: 149
Period size: 44 Copynumber: 4.9 Consensus size: 42
24716135 GTTGGAAATT
** *
24716145 ACAAGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGATAGAAGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAG-A-AA
* * *
24716188 ATCAA-TCATATCTCTCTGAAGTTGCAGTGGAGCAGAT-TAAA
1 A-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAA
* ** * * *
24716229 ACAATAGATCTTATCTCTCT-AAGCAGTAGTGGAGCAGATCG-CA
1 AC-A-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAA
* *
24716272 TCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGAAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-AGAAA
* * *
24716316 ACAAGTCTTATCCCCCCTGAAGTTACAGTGGAGTAGAT
1 ACAAGTCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGAT
24716354 CGCAGCAGAT
Statistics
Matches: 129, Mismatches: 25, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
40 12 0.09
41 20 0.16
42 4 0.03
43 30 0.23
44 41 0.32
45 22 0.17
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (42 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAA
Found at i:24716427 original size:44 final size:44
Alignment explanation
Indices: 24716357--24716452 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
24716347 AGTAGATCGC
* *
24716357 AGCAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGC-GG
1 AGCAGATTGAAGCCAGAAATCGTATCTCCCTGAGATTACA-CTGG
* * *
24716401 AGCAGATTGAAGCTAGTAATCGTATCTCCCTGAGATTATACTGG
1 AGCAGATTGAAGCCAGAAATCGTATCTCCCTGAGATTACACTGG
24716445 AGCAGATT
1 AGCAGATT
24716453 AAAATAAAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.02
44 45 0.98
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
AGCAGATTGAAGCCAGAAATCGTATCTCCCTGAGATTACACTGG
Found at i:24716511 original size:142 final size:142
Alignment explanation
Indices: 24716332--24716787 Score: 723
Period size: 142 Copynumber: 3.2 Consensus size: 142
24716322 CTTATCCCCC
* * *
24716332 CTGAAGTTACAGTGGAGTAGATCGCAGCAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACA
1 CTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACA
* * * *
24716397 GCGGAGCAGATTGAAGCTAGTAATCGTATCTCCCTGAGATTATACTGGAGCAGATTAAAATAAAG
66 GCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
*
24716462 GGTCTTATCTCT
131 GATCTTATCTCT
* * * *
24716474 CTAAAGTTACAGTAAAGTAGATCGCATCAGTTTGAAGCCAGAAATCTCATCTCCCTGAGATTACA
1 CTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACA
* *
24716539 GCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAGTGGATTAAAATAAAG
66 GCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
24716604 GATCTTATCTCT
131 GATCTTATCTCT
*
24716616 CTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTAGCTCCCTGAGATTACA
1 CTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACA
* * * * *
24716681 ACGGAACAGATTAAAGCTAGTAATCCTATCTCCCTGAGAATACAGTGGAGCGGATTAATATAAAG
66 GCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
24716746 GATCTTATCTCT
131 GATCTTATCTCT
*
24716758 CTGAAGTTACAGTAGAGTAGATTGCATCAG
1 CTGAAGTTACAGTAGAGTAGATCGCATCAG
24716788 GTCTTATCTC
Statistics
Matches: 287, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
142 287 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (142 bp):
CTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACA
GCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
GATCTTATCTCT
Found at i:24717278 original size:50 final size:51
Alignment explanation
Indices: 24716852--24717278 Score: 305
Period size: 50 Copynumber: 8.5 Consensus size: 51
24716842 TTTCCAGGCG
* * *
24716852 ATGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCTGAC-
1 ATGCAGTGGAAAAGATTAAAGCCACAATCGGTGAATCTTACTTCCCTGGCA
** * * * * *
24716901 ATGGCAGTTCAAAAGATTAAAGCTACAAT-AGCGAATCTTACCTCCCAGGCA
1 AT-GCAGTGGAAAAGATTAAAGCCACAATCGGTGAATCTTACTTCCCTGGCA
* * * * * * *
24716952 ATGTAGTGGAACATATTAAAGCCAC-ATCGATGAATCTTGCTTCCCCGACA
1 ATGCAGTGGAAAAGATTAAAGCCACAATCGGTGAATCTTACTTCCCTGGCA
* * ** * * * * *
24717002 TTGTAGTTAAAAAGATTAAAGCCA-TAGCGGCGAATCTTACTTCTCTGGCG
1 ATGCAGTGGAAAAGATTAAAGCCACAATCGGTGAATCTTACTTCCCTGGCA
* * * * * *
24717052 ATGCAGCGGAACAGATTAAAGCCAC-ATCTGTGAATCTTGCTTCCCCGACA
1 ATGCAGTGGAAAAGATTAAAGCCACAATCGGTGAATCTTACTTCCCTGGCA
* ** * * ** * *
24717102 TTGCAGTTAAAAAGATTAAAGCCACAGT-AGAAAATCTTACTTCTCTGGCG
1 ATGCAGTGGAAAAGATTAAAGCCACAATCGGTGAATCTTACTTCCCTGGCA
* * * * *
24717152 ATGCAGCGGAACAGATTAAAGCCAC-ATCGGTGAATCTTATTTCCCCGACA
1 ATGCAGTGGAAAAGATTAAAGCCACAATCGGTGAATCTTACTTCCCTGGCA
* ** * *
24717202 TTGCAGTTAAAAAGATTAAAGCCACAAT-GGCGAATCTTACTTCCCTGGCG
1 ATGCAGTGGAAAAGATTAAAGCCACAATCGGTGAATCTTACTTCCCTGGCA
* *
24717252 GTGCAGTGGAATAGATTAAAGCCACAA
1 ATGCAGTGGAAAAGATTAAAGCCACAA
24717279 CAACGAATCT
Statistics
Matches: 277, Mismatches: 92, Indels: 17
0.72 0.24 0.04
Matches are distributed among these distances:
49 5 0.02
50 265 0.96
51 7 0.03
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (51 bp):
ATGCAGTGGAAAAGATTAAAGCCACAATCGGTGAATCTTACTTCCCTGGCA
Found at i:24717318 original size:100 final size:100
Alignment explanation
Indices: 24716848--24717277 Score: 608
Period size: 100 Copynumber: 4.3 Consensus size: 100
24716838 TATTTTTCCA
* * *
24716848 GGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATGGCAGTTCAA
1 GGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
* * *
24716913 AAGATTAAAGCTACAATAGCGAATCTTACCTCCCA
66 AAGATTAAAGCCACAATAGCGAATCTTACTTCCCT
* * * * *
24716948 GGCAATGTAGTGGAACATATTAAAGCCACATCGATGAATCTTGCTTCCCCGACATTGTAGTTAAA
1 GGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
* *** *
24717013 AAGATTAAAGCCATAGCGGCGAATCTTACTTCTCT
66 AAGATTAAAGCCACAATAGCGAATCTTACTTCCCT
* *
24717048 GGCGATGCAGCGGAACAGATTAAAGCCACATCTGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
1 GGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
* ** *
24717113 AAGATTAAAGCCACAGTAGAAAATCTTACTTCTCT
66 AAGATTAAAGCCACAATAGCGAATCTTACTTCCCT
* **
24717148 GGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTATTTCCCCGACATTGCAGTTAAA
1 GGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
*
24717213 AAGATTAAAGCCACAATGGCGAATCTTACTTCCCT
66 AAGATTAAAGCCACAATAGCGAATCTTACTTCCCT
* *
24717248 GGCGGTGCAGTGGAATAGATTAAAGCCACA
1 GGCGATGCAGTGGAACAGATTAAAGCCACA
24717278 ACAACGAATC
Statistics
Matches: 291, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 291 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
GGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
AAGATTAAAGCCACAATAGCGAATCTTACTTCCCT
Found at i:24718319 original size:13 final size:13
Alignment explanation
Indices: 24718301--24718327 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24718291 GAGTTGAAGA
24718301 TTTTTTATTTTAT
1 TTTTTTATTTTAT
24718314 TTTTTTATTTTAT
1 TTTTTTATTTTAT
24718327 T
1 T
24718328 CTGGTTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:24740129 original size:38 final size:37
Alignment explanation
Indices: 24740059--24740131 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
24740049 CTTTCATAAT
*
24740059 TTCACTTTTTCACTTTCAATCATAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCAATCATAATTCAATTCAAAA
24740096 TTCACTTTTCCA-TTTCTAAGTCGAT-ATTCAATTCAA
1 TTCACTTTTCCACTTTC-AA-TC-ATAATTCAATTCAA
24740132 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 13 0.41
39 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.44
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCAATCATAATTCAATTCAAAA
Found at i:24740275 original size:45 final size:45
Alignment explanation
Indices: 24740207--24740300 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
24740197 AATAGATACT
* *
24740207 CGGTGGATTCAGCACATAGCAACCACCTGATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTGACTAATCAATGATGTC
* * * *
24740252 CGGTGGAATCAGCATATATCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTGACTAATCAATGATGTC
24740297 CGGT
1 CGGT
24740301 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTGACTAATCAATGATGTC
Found at i:24752727 original size:27 final size:27
Alignment explanation
Indices: 24752696--24752747 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
24752686 ATTATAACAC
24752696 TCAGTTTGTGCAAGTGTACACAGTCGT
1 TCAGTTTGTGCAAGTGTACACAGTCGT
*
24752723 TCAGTTTTTGCAAGTGTACACAGTC
1 TCAGTTTGTGCAAGTGTACACAGTC
24752748 CACATAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (27 bp):
TCAGTTTGTGCAAGTGTACACAGTCGT
Found at i:24756814 original size:28 final size:28
Alignment explanation
Indices: 24756782--24756843 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
24756772 GTATTAATTT
*
24756782 TTTTCGAATTGGCAGGGGCACCACAAAC
1 TTTTCAAATTGGCAGGGGCACCACAAAC
24756810 TTTTCAAATTGGCAGGGGCACCACAAAC
1 TTTTCAAATTGGCAGGGGCACCACAAAC
24756838 TTTTCA
1 TTTTCA
24756844 TTATTCTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (28 bp):
TTTTCAAATTGGCAGGGGCACCACAAAC
Found at i:24765421 original size:8 final size:8
Alignment explanation
Indices: 24765408--24765436 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24765398 TTTTAAATGA
24765408 TATTTTAT
1 TATTTTAT
24765416 TATTTTAT
1 TATTTTAT
24765424 TATTTTAT
1 TATTTTAT
24765432 TATTT
1 TATTT
24765437 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:24770159 original size:42 final size:42
Alignment explanation
Indices: 24770111--24770484 Score: 507
Period size: 42 Copynumber: 8.9 Consensus size: 42
24770101 AGCGTTTACA
* *
24770111 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
*
24770153 AAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTG
1 -AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* *
24770196 AAAAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* * * *
24770238 AAAAAAA-GACGCTACAGAACATGTTCTTTAGTGTCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
*
24770279 AAAAAAAAACGCCGCTATAGAACATGTTCTTTAGCGGCGCTTAG
1 --AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* *
24770323 AAAAAAACACCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* *
24770365 GAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* * * * * *
24770407 GAAAACACGCCGTTAAAGACCATGTTCTTTAGCGGGGTTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* * *
24770449 AAAAAATCGCCGCTAAAGAACATGATGTTTAGCGGC
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
24770485 ATTTTTTTAC
Statistics
Matches: 300, Mismatches: 28, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
41 29 0.10
42 193 0.64
43 48 0.16
44 30 0.10
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
Found at i:24770855 original size:21 final size:21
Alignment explanation
Indices: 24770806--24770855 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
24770796 TTTTGGCCTG
*
24770806 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
24770827 TTCCGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
24770848 CTCTGCTT
1 CTCTGCTT
24770856 TAAGTTGTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.46, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:24776524 original size:25 final size:25
Alignment explanation
Indices: 24776493--24776597 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
24776483 TAATATATAT
*
24776493 TTATGTATTAAGTAAATTATGTAGG
1 TTATGTATTAAGTAAATTATGTAAG
*
24776518 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAATTATGTAAG
* *
24776544 TTTTGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
24776569 TTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
24776594 TTAT
1 TTAT
24776598 CAAAGTAATG
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 2 0.03
25 42 0.65
26 17 0.26
27 2 0.03
28 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:24776543 original size:9 final size:9
Alignment explanation
Indices: 24776504--24776754 Score: 157
Period size: 9 Copynumber: 28.8 Consensus size: 9
24776494 TATGTATTAA
*
24776504 GTAAATTAT
1 GTAAGTTAT
*
24776513 GTAGGTTAT
1 GTAAGTTAT
*
24776522 GTACGTGTA-
1 GTAAGT-TAT
24776531 -TAAGTTAT
1 GTAAGTTAT
*
24776539 GTAAGTTTT
1 GTAAGTTAT
*
24776548 GT-A-TTAA
1 GTAAGTTAT
**
24776555 GTAAACTAT
1 GTAAGTTAT
*
24776564 GTAAGTTGT
1 GTAAGTTAT
24776573 GT-A-TTAT
1 GTAAGTTAT
*
24776580 GTAACTTAT
1 GTAAGTTAT
24776589 GTAAGTTAT
1 GTAAGTTAT
** *
24776598 CAAAGTAAT
1 GTAAGTTAT
*
24776607 GTATGTTAT
1 GTAAGTTAT
24776616 GTAAG-T-T
1 GTAAGTTAT
24776623 GTAAGTTAT
1 GTAAGTTAT
*
24776632 -TATGTATTAT
1 GTAAG--TTAT
* * *
24776642 ATAACTTCT
1 GTAAGTTAT
24776651 GTAAGTTAT
1 GTAAGTTAT
24776660 GTAAGTTAT
1 GTAAGTTAT
*
24776669 GTAAGTTGT
1 GTAAGTTAT
*
24776678 GTAAGCTAT
1 GTAAGTTAT
* *
24776687 TTTAGTTAT
1 GTAAGTTAT
24776696 GTAAGCTT-T
1 GTAAG-TTAT
24776705 GT-A-TTAT
1 GTAAGTTAT
24776712 GTAAGTTAT
1 GTAAGTTAT
* *
24776721 GTAGGTTAA
1 GTAAGTTAT
*
24776730 GTAAGTTGT
1 GTAAGTTAT
*
24776739 GTAAATTAT
1 GTAAGTTAT
24776748 GTAAGTT
1 GTAAGTT
24776755 CTTGTACATA
Statistics
Matches: 181, Mismatches: 45, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 20 0.11
8 15 0.08
9 134 0.74
10 8 0.04
11 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:24776957 original size:53 final size:53
Alignment explanation
Indices: 24776899--24777034 Score: 193
Period size: 53 Copynumber: 2.6 Consensus size: 53
24776889 TTTATAGCGG
24776899 GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* * * *
24776952 TTAATGTA-ACTGAGTAACATATTTAAGTAAAAAATTTAACGAAATTTTAGTAA
1 GTAATGTATTC-AAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* **
24777005 GTAATGTATTTAAGTAATTTATTTAAGTAA
1 GTAATGTATTCAAGTAACATATTTAAGTAA
24777035 TATATTCAAG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 70 0.99
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (53 bp):
GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
Found at i:24777020 original size:13 final size:13
Alignment explanation
Indices: 24777002--24777053 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
24776992 GAAATTTTAG
*
24777002 TAAGTAATGTATT
1 TAAGTAATATATT
*
24777015 TAAGTAATTTATT
1 TAAGTAATATATT
24777028 TAAGTAATATATT
1 TAAGTAATATATT
*
24777041 CAAGTAATATATT
1 TAAGTAATATATT
24777054 AAGAGTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:24777242 original size:100 final size:99
Alignment explanation
Indices: 24777123--24777868 Score: 937
Period size: 100 Copynumber: 7.5 Consensus size: 99
24777113 ATACTTAAAA
24777123 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATG-TA-T-
1 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATGTTAGTA
24777185 TAAGTTAAATTAAATTGTAAAAATATTAACATATATAT
66 TAAGTTAAATTAAATTGTAAAAATATTAAC----ATAT
* * *
24777223 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATCTTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATG--TTAG
24777288 TAATAAGTTAAATTAAATTGTAAAAATATTAACATAT
64 T-ATAAGTTAAATTAAATTGTAAAAATATTAACATAT
*
24777325 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATG--TTAG
24777390 TAATAAGTTAAATTAAATTGTAAAAATATT-A-ATAT
64 T-ATAAGTTAAATTAAATTGTAAAAATATTAACATAT
*
24777425 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATG--TTAG
24777490 TAATAAGTTAAATTAAATTGTAAAAATATTAAC--AT
64 T-ATAAGTTAAATTAAATTGTAAAAATATTAACATAT
* ******** *
24777525 ATATATATTTAAGTCATGCGCGGGCGGAGA--TTGAAAAATTATATTCGAACAATATATGTATTA
1 ATATATATTTAAGTAATG-TAATATATAAATTTTGAAAAATTATATTCGAACAATATATG--TTA
24777588 GTAATAAGTTAAATTAAATTGTAAAAATATTAAC--AT
63 GT-ATAAGTTAAATTAAATTGTAAAAATATTAACATAT
* * *
24777624 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTCG
1 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATG--TTAG
24777689 TAATAAGTTAAATTAAATTGTAAAAATATTAAC--AT
64 T-ATAAGTTAAATTAAATTGTAAAAATATTAACATAT
* * *
24777724 ATATATATTTAAGTAATCTAACATATAAATTTTGAAAAAATATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATG--TTAG
* *
24777789 TAATAAGTAAAATTAAATTGTAAAAATATTAACACAT
64 T-ATAAGTTAAATTAAATTGTAAAAATATTAACATAT
*** *
24777826 ATATAT-TCCCA-TAATGTAATATATAAATTTTAAAAAATTATAT
1 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATAT
24777869 NNNNNNNNNN
Statistics
Matches: 591, Mismatches: 42, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
98 2 0.00
99 87 0.15
100 358 0.61
101 6 0.01
102 105 0.18
103 2 0.00
104 1 0.00
106 30 0.05
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (99 bp):
ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATGTTAGTA
TAAGTTAAATTAAATTGTAAAAATATTAACATAT
Found at i:24777652 original size:199 final size:199
Alignment explanation
Indices: 24777123--24777868 Score: 1035
Period size: 199 Copynumber: 3.7 Consensus size: 199
24777113 ATACTTAAAA
* *
24777123 ATATATATTTAAGTAATGTA-ATATATAAATTTTGAAAAATTATATTCGAACAATATATG---TA
1 ATATATATTTAAGTAATGCACATATA-AAA-ATTGAAAAATTATATTCGAACAATATATGTATTA
*
24777184 -T--TAAGTTAAATTAAATTGTAAAAATATTAACATATATATATATATATTTAAGTCATGTAATA
64 GTAATAAGTTAAATTAAATTGTAAAAATATTAAC------ATATATATATTTAAGTAATGTAATA
*
24777246 TATAAATTTTAAAAAATTATCTTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAA
123 TATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAA
24777311 AAATATTAACATAT
188 AAATATTAAC--AT
* * *
24777325 ATATATATTTAAGTAATGTA-ATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTA
1 ATATATATTTAAGTAATGCACATATA-AAA-ATTGAAAAATTATATTCGAACAATATATGTATTA
* *
24777389 GTAATAAGTTAAATTAAATTGTAAAAATATTAATATATATATATTTAAGTAATGTAACATATAAA
64 GTAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTAATGTAATATATAAA
*
24777454 TTTTGAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATAT
129 TTTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATAT
24777519 TAACAT
194 TAACAT
* * ****** *
24777525 ATATATATTTAAGTCATGCGCGGGCGGAGATTGAAAAATTATATTCGAACAATATATGTATTAGT
1 ATATATATTTAAGTAATGCACATATAAAAATTGAAAAATTATATTCGAACAATATATGTATTAGT
*
24777590 AATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTCATGTAATATATAAATT
66 AATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTAATGTAATATATAAATT
*
24777655 TTAAAAAATTATATTCGAACAATATATGTATTCGTAATAAGTTAAATTAAATTGTAAAAATATTA
131 TTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATTA
24777720 ACAT
196 ACAT
** *
24777724 ATATATATTTAAGTAAT-CTAACATATAAATTTTGAAAAAATATATTCGAACAATATATGTATTA
1 ATATATATTTAAGTAATGC--ACATATAAAAATTGAAAAATTATATTCGAACAATATATGTATTA
* * **
24777788 GTAATAAGTAAAATTAAATTGTAAAAATATTAACACATATATATTCCCA-TAATGTAATATATAA
64 GTAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATT-TAAGTAATGTAATATATAA
24777852 ATTTTAAAAAATTATAT
128 ATTTTAAAAAATTATAT
24777869 NNNNNNNNNN
Statistics
Matches: 495, Mismatches: 39, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
198 1 0.00
199 179 0.36
200 128 0.26
201 1 0.00
202 154 0.31
205 2 0.00
206 1 0.00
208 29 0.06
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (199 bp):
ATATATATTTAAGTAATGCACATATAAAAATTGAAAAATTATATTCGAACAATATATGTATTAGT
AATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTAATGTAATATATAAATT
TTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATTA
ACAT
Found at i:24777706 original size:299 final size:300
Alignment explanation
Indices: 24777123--24777832 Score: 1112
Period size: 299 Copynumber: 2.4 Consensus size: 300
24777113 ATACTTAAAA
*
24777123 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATG---TA-
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
* * *
24777184 T--TAAGTTAAATTAAATTGTAAAAATATTAACATATATATATATATATTTAAGTCATGTAATAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAAC------ATATATATATTTAAGTCATGGAAGAC
* *
24777247 ATAAATTTTAAAAAATTATCTTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAA
125 AGAAA-TTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAA
24777312 AATATTAACATATATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACA
189 AATATTAACA-ATATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACA
*
24777377 ATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATTAATAT
253 ATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
24777425 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
** * * *
24777490 TAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTCATGCGCGGGCGGAGA
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTCATG-GAAGACAGAAA
*
24777555 -TTGAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATT
130 TTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATT
*
24777619 AAC-ATATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATG
195 AACAATATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATG
*
24777683 TATTCGTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
260 TATTAGTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* *
24777724 ATATATATTTAAGTAATCTAACATATAAATTTTGAAAAAATATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
* *
24777789 TAATAAGTAAAATTAAATTGTAAAAATATTAACACATATATATT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATT
24777833 CCCATAATGT
Statistics
Matches: 382, Mismatches: 19, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
299 204 0.53
301 65 0.17
302 78 0.20
303 2 0.01
305 2 0.01
306 1 0.00
308 30 0.08
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (300 bp):
ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
TAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTCATGGAAGACAGAAAT
TTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATTA
ACAATATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGT
ATTAGTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
Found at i:24777737 original size:41 final size:41
Alignment explanation
Indices: 24777592--24777737 Score: 112
Period size: 46 Copynumber: 3.1 Consensus size: 41
24777582 GTATTAGTAA
24777592 TAAGTTAAATTAAATTGTAAAAATATTAACATATATATATT
1 TAAGTTAAATTAAATTGTAAAAATATTAACATATATATATT
* *
24777633 TAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTCGT
1 TAAG---T-TAA-AT-TAAATTGT--AAAA--ATATT--AAC-ATATATATA-T--T
24777690 AATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATT
1 --TAAGTTAAATTAAATTGTAAAAATATTAACATATATATATT
24777733 TAAGT
1 TAAGT
24777738 AATCTAACAT
Statistics
Matches: 83, Mismatches: 4, Indels: 36
0.67 0.03 0.29
Matches are distributed among these distances:
41 9 0.11
43 1 0.01
44 1 0.01
45 4 0.05
46 10 0.12
47 10 0.12
49 9 0.11
51 9 0.11
53 10 0.12
54 10 0.12
55 4 0.05
56 1 0.01
57 1 0.01
59 4 0.05
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (41 bp):
TAAGTTAAATTAAATTGTAAAAATATTAACATATATATATT
Found at i:24778359 original size:7 final size:7
Alignment explanation
Indices: 24778334--24778420 Score: 111
Period size: 7 Copynumber: 12.3 Consensus size: 7
24778324 CACTTCATTC
24778334 AACAGAA
1 AACAGAA
*
24778341 AATAGCAA
1 AACAG-AA
24778349 AACAGAA
1 AACAGAA
*
24778356 AACAAAA
1 AACAGAA
*
24778363 AATAGAA
1 AACAGAA
24778370 AACAGAA
1 AACAGAA
24778377 AACAGAA
1 AACAGAA
**
24778384 TGCAGAA
1 AACAGAA
24778391 AACAGAA
1 AACAGAA
24778398 AACAGAA
1 AACAGAA
*
24778405 AATAGAA
1 AACAGAA
24778412 AACAGAA
1 AACAGAA
24778419 AA
1 AA
24778421 TAAAGAAACA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
7 61 0.91
8 6 0.09
ACGTcount: A:0.70, C:0.11, G:0.14, T:0.05
Consensus pattern (7 bp):
AACAGAA
Found at i:24778363 original size:21 final size:21
Alignment explanation
Indices: 24778334--24778420 Score: 129
Period size: 21 Copynumber: 4.1 Consensus size: 21
24778324 CACTTCATTC
24778334 AACAGAAAATAGCAAAACAGAA
1 AACAGAAAATAG-AAAACAGAA
*
24778356 AACAAAAAATAGAAAACAGAA
1 AACAGAAAATAGAAAACAGAA
***
24778377 AACAGAATGCAGAAAACAGAA
1 AACAGAAAATAGAAAACAGAA
24778398 AACAGAAAATAGAAAACAGAA
1 AACAGAAAATAGAAAACAGAA
24778419 AA
1 AA
24778421 TAAAGAAACA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 46 0.81
22 11 0.19
ACGTcount: A:0.70, C:0.11, G:0.14, T:0.05
Consensus pattern (21 bp):
AACAGAAAATAGAAAACAGAA
Found at i:24778435 original size:15 final size:14
Alignment explanation
Indices: 24778354--24778435 Score: 65
Period size: 14 Copynumber: 5.8 Consensus size: 14
24778344 AGCAAAACAG
* *
24778354 AAAACAAAAAATAG
1 AAAACAGAAAATAA
* *
24778368 AAAACAGAAAACAG
1 AAAACAGAAAATAA
** * *
24778382 AATGCAGAAAACAG
1 AAAACAGAAAATAA
*
24778396 AAAACAGAAAATAG
1 AAAACAGAAAATAA
24778410 AAAACAGAAAATAA
1 AAAACAGAAAATAA
*
24778424 AGAAACATAAAA
1 A-AAACAGAAAA
24778436 ATGGTACAGA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
14 49 0.84
15 9 0.16
ACGTcount: A:0.72, C:0.10, G:0.12, T:0.06
Consensus pattern (14 bp):
AAAACAGAAAATAA
Found at i:24778466 original size:18 final size:19
Alignment explanation
Indices: 24778424--24778467 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
24778414 CAGAAAATAA
*
24778424 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
24778443 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
24778461 AGAAACA
1 AGAAACA
24778468 GAAATTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:24780093 original size:198 final size:198
Alignment explanation
Indices: 24779750--24780135 Score: 603
Period size: 198 Copynumber: 1.9 Consensus size: 198
24779740 CCCATTTGCA
* * * **
24779750 GCGTTTATATACCAGCGCCACTGGTAATATGATCAAACGCTGTCGTTTCCCGATCAGTTAACTCT
1 GCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGTAAACTAA
* * * * *
24779815 AAGTCATTGCGTTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGCGGCGTTT
66 AACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGCGGCGTGT
*
24779880 ACTAAAAGCGCCACTAAA-AGTAAATAAGAAAACGAAGCTGTTTTCCTAAACAATTTCTGTACTT
131 ACTAAAAGCGCCACTAAAGA-TAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCTGTACTT
24779944 TGTG
195 TGTG
* *
24779948 GCGTTTATATACTAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATTAGTAAACTAA
1 GCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGTAAACTAA
*
24780013 AACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAATAATTTTGCGGCGTGT
66 AACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGCGGCGTGT
* * *
24780078 ACTAAAAGTGCCACTAAAGATAAATAAGAAAACGGAGCCGTTTTCGTAAACAATTTCT
131 ACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCT
24780136 ATAAATTGCG
Statistics
Matches: 170, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
198 169 0.99
199 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (198 bp):
GCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGTAAACTAA
AACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGCGGCGTGT
ACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCTGTACTTT
GTG
Found at i:24780633 original size:47 final size:47
Alignment explanation
Indices: 24780542--24780633 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 47
24780532 GTTAATTTCG
* ** *
24780542 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGCTTTTTAA
* * * *
24780589 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGCTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGCTTTTT
24780634 TTATTTCTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGCTTTTTAA
Found at i:24780652 original size:17 final size:18
Alignment explanation
Indices: 24780630--24780670 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
24780620 AATTTTAGCT
*
24780630 TTTTTTA-TTTCTTTTTA
1 TTTTTTATTTTCATTTTA
24780647 TTTTTTATTTTCATTTTA
1 TTTTTTATTTTCATTTTA
24780665 TTTTTT
1 TTTTTT
24780671 GTAATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATTTTCATTTTA
Found at i:24780736 original size:16 final size:14
Alignment explanation
Indices: 24780707--24780733 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24780697 TTTACAATTC
24780707 CAAATTATTATATT
1 CAAATTATTATATT
24780721 CAAATTATTATAT
1 CAAATTATTATAT
24780734 ATTGCATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:24780973 original size:7 final size:7
Alignment explanation
Indices: 24780961--24781064 Score: 120
Period size: 7 Copynumber: 14.9 Consensus size: 7
24780951 AACCCAATAT
24780961 CCCTAAC
1 CCCTAAC
24780968 CCCTAAC
1 CCCTAAC
24780975 CCCTAAC
1 CCCTAAC
24780982 CCCTAAC
1 CCCTAAC
*
24780989 CCTTAAC
1 CCCTAAC
24780996 CCCTAAC
1 CCCTAAC
*
24781003 CCTTAAC
1 CCCTAAC
*
24781010 CCTTAAC
1 CCCTAAC
*
24781017 CCTTAA-
1 CCCTAAC
24781023 CCCTAAAC
1 CCCT-AAC
*
24781031 CCTTAAC
1 CCCTAAC
* *
24781038 CCATGAC
1 CCCTAAC
*
24781045 CTCTAAC
1 CCCTAAC
24781052 CCCTAAC
1 CCCTAAC
24781059 CCCTAA
1 CCCTAA
24781065 AACTTATTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
6 3 0.04
7 78 0.93
8 3 0.04
ACGTcount: A:0.30, C:0.49, G:0.01, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:24781173 original size:7 final size:7
Alignment explanation
Indices: 24781163--24781206 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
24781153 CTCTTAACAT
24781163 CTAACCC
1 CTAACCC
24781170 CTAA--C
1 CTAACCC
24781175 CTAACCC
1 CTAACCC
24781182 CTAACCC
1 CTAACCC
*
24781189 ATAACCC
1 CTAACCC
24781196 CTAACCC
1 CTAACCC
24781203 CTAA
1 CTAA
24781207 TGCATAAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.15
7 28 0.85
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (7 bp):
CTAACCC
Found at i:24781178 original size:33 final size:33
Alignment explanation
Indices: 24781141--24781206 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
24781131 TTTTATAAAT
* * *
24781141 CCTAAACCCTAACTCTTAACATCTAACCCCTAA
1 CCTAAACCCTAACCCATAACACCTAACCCCTAA
* *
24781174 CCTAACCCCTAACCCATAACCCCTAACCCCTAA
1 CCTAAACCCTAACCCATAACACCTAACCCCTAA
24781207 TGCATAAACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (33 bp):
CCTAAACCCTAACCCATAACACCTAACCCCTAA
Found at i:24781180 original size:12 final size:12
Alignment explanation
Indices: 24781163--24781201 Score: 60
Period size: 12 Copynumber: 3.1 Consensus size: 12
24781153 CTCTTAACAT
24781163 CTAACCCCTAAC
1 CTAACCCCTAAC
24781175 CTAACCCCTAACC
1 CTAACCCCTAA-C
24781188 CATAACCCCTAAC
1 C-TAACCCCTAAC
24781201 C
1 C
24781202 CCTAATGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.44
13 4 0.16
14 10 0.40
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.15
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:24781729 original size:114 final size:113
Alignment explanation
Indices: 24781594--24781811 Score: 246
Period size: 114 Copynumber: 1.9 Consensus size: 113
24781584 GCTTTACCGA
* *
24781594 AAACGCCGCTAATACTATTC-TTTAGCAGCGTTTTACCATAAACGCCACTAAT-TCTAATATACA
1 AAACGCCACTAATACTATTCTTTTA-CAGCGTTTTACCAAAAACGCCACTAATAT-TAATATACA
*
24781657 TCAAAACCAAACACTGCGTTTTGGTTAAGGCAT-TTTGCGGCGCTTCCAAAT
64 TCAAAACCAAACACTGCGTTTTCGTTAA-G-ATATTTGCGGCGCTTCCAAAT
* * *** * *
24781708 AAACGCCACTAATTA-TGTTCTTTTACGGCGTTTTTTTAAAAACGCCACTAATATTAATCTACCT
1 AAACGCCACTAA-TACTATTCTTTTACAGCGTTTTACCAAAAACGCCACTAATATTAATATACAT
* **
24781772 CAAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCGGCG
65 CAAAACCAAACACTGCGTTTTCGTTAAGATATTTGCGGCG
24781812 TTTTATCGTA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
112 2 0.02
113 10 0.11
114 68 0.78
115 7 0.08
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (113 bp):
AAACGCCACTAATACTATTCTTTTACAGCGTTTTACCAAAAACGCCACTAATATTAATATACATC
AAAACCAAACACTGCGTTTTCGTTAAGATATTTGCGGCGCTTCCAAAT
Found at i:24781825 original size:74 final size:75
Alignment explanation
Indices: 24781747--24781886 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 75
24781737 GTTTTTTTAA
* * *
24781747 AAACGCCACTAATAT-TAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATA-TTTGCGG
1 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGG
24781810 CGTTTTATCGT
65 CGTTTTATCGT
* *
24781821 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGC
24781886 G
66 G
24781887 CATAAAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
73 1 0.02
74 49 0.83
75 9 0.15
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (75 bp):
AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGC
GTTTTATCGT
Found at i:24781938 original size:188 final size:188
Alignment explanation
Indices: 24781621--24782021 Score: 640
Period size: 188 Copynumber: 2.1 Consensus size: 188
24781611 TTCTTTAGCA
*
24781621 GCGTTTTACCATAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
1 GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
* ** * *
24781686 GCATTTTGCGGCGCTTCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAAC
66 GCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCATTTTTCTAAAAAC
* *
24781751 GCCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACGGTGCGTTTTCATTAAGATATTTGCG
* * *
24781809 GCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAG
1 GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
*
24781874 GTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCATTTTTCTAAAAAC
66 GCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCATTTTTCTAAAAAC
* * *
24781939 GCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTTATTATGATATTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACGGTGCGTTTTCATTAAGATATTTGCG
* * *
24781997 GCGCTTTACCGAAAACGCCGCTAAT
1 GCGTTTTACCGTAAACGCCACTAAT
24782022 ACTATTCTTT
Statistics
Matches: 194, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
188 194 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (188 bp):
GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
GCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCATTTTTCTAAAAAC
GCCACTAATACTAATCTACCTCAAGACCAAACGGTGCGTTTTCATTAAGATATTTGCG
Found at i:24782103 original size:227 final size:227
Alignment explanation
Indices: 24781803--24782400 Score: 882
Period size: 227 Copynumber: 2.6 Consensus size: 227
24781793 CGTTAAGATA
* * * * **
24781803 TTTGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATAC-CTCAAAACCAAACGCTGCGTTTT
1 TTTGCGGCGTTTTATAGAAAACGCCACGAATTCTAATATACAAT-TGAACCAAACGCTGCGTTTT
* *
24781867 GGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCATTTTTC
65 GGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
* * * *
24781932 TAAAAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTTATTATGATATTTGCG
130 TAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCA
24781997 GCGCTTTACCG-AAAACGCCGCTAATACTATTCT
195 GCGCTTT-CCGTAAAACGCCGCTAATACTATTCT
24782030 TTTGCGGCGTTTTATAGAAAACGCCAC-AATGTCTAATATACAATTGAACCAAACGCTGCGTTTT
1 TTTGCGGCGTTTTATAGAAAACGCCACGAAT-TCTAATATACAATTGAACCAAACGCTGCGTTTT
**
24782094 GGTTAAGGTATTTTGCGGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
65 GGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
* * *
24782159 TAAAAACGCCACTAATATTAATCTACCTCAAGATAAAACGGTGCGTTTTCCTTAAGATATTTGCA
130 TAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCA
** *
24782224 GCGCTTTTTGTTAAACGCCGCTAATACTATTCT
195 GCGCTTTCCGTAAAACGCCGCTAATACTATTCT
* *
24782257 TTCGCGGCGTTTTTTATAAAAAAACGCCACGAATTCTAATATACAATTGAACC-AACGCTGCGTT
1 TTTGCGGCG--TTTTAT-AGAAAACGCCACGAATTCTAATATACAATTGAACCAAACGCTGCGTT
* *
24782321 TTGGTTAAGGTATTTTGCGGCGC-TTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTT
63 TTGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTT
*
24782385 TTTAGAAACGCCACTA
128 TTTAAAAACGCCACTA
24782401 GTTCTTCAGG
Statistics
Matches: 339, Mismatches: 25, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
226 4 0.01
227 208 0.61
228 54 0.16
229 40 0.12
230 30 0.09
231 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (227 bp):
TTTGCGGCGTTTTATAGAAAACGCCACGAATTCTAATATACAATTGAACCAAACGCTGCGTTTTG
GTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTT
AAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCAG
CGCTTTCCGTAAAACGCCGCTAATACTATTCT
Found at i:24782152 original size:114 final size:113
Alignment explanation
Indices: 24781807--24782405 Score: 540
Period size: 114 Copynumber: 5.3 Consensus size: 113
24781797 AAGATATTTG
* *
24781807 CGGCG-TTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTT
1 CGGCGTTTTTATAGAAAACGCCACTAATTCTAATATACCTC-AAACCAAACGCTGCGTTTTGGTT
* *
24781871 AAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTA
65 AAGGTATTTTGCGGCGC-TTACAATAAACGCCACTAATTATGTTCTTTTA
* * * * * * **
24781921 CGGCATTTTTCTA-AAAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTTATT
1 CGGCGTTTTTATAGAAAACGCCACTAATTCTAATATACCTCAA-ACCAAACGCTGCGTTTTGGTT
* * * * * *
24781985 ATGATA-TTTGCGGCGCTTTACCGA-AAACGCCGCTAA-TACTATTCTTTTG
65 AAGGTATTTTGCGGCGC-TTA-CAATAAACGCCACTAATTA-TGTTCTTTTA
* **
24782034 CGGCG-TTTTATAGAAAACGCCAC-AATGTCTAATATACAATTGAACCAAACGCTGCGTTTTGGT
1 CGGCGTTTTTATAGAAAACGCCACTAAT-TCTAATATAC-CTCAAACCAAACGCTGCGTTTTGGT
* *
24782097 TAAGGTATTTTGCGGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTA
64 TAAGGTATTTTGCGGCGCTTAC-AATAAACGCCACTAATTATGTTCTTTTA
* * ** * **
24782148 CGGCGTTTTTTTA-AAAACGCCACTAATAT-TAATCTACCTCAAGATAAAACGGTGCGTTTTCCT
1 CGGCGTTTTTATAGAAAACGCCACTAAT-TCTAATATACCTCAA-ACCAAACGCTGCGTTTTGGT
* * **** * * **
24782211 TAAGATA-TTTGCAGCGCTTTTTGTTAAACGCCGCTAA-TACTATTCTTTCG
64 TAAGGTATTTTGCGGCGC-TTACAATAAACGCCACTAATTA-TGTTCTTTTA
* * * **
24782261 CGGCGTTTTTTATAAAAAAACGCCACGAATTCTAATATACAATTGAACC-AACGCTGCGTTTTGG
1 CGGCG-TTTTTAT-AGAAAACGCCACTAATTCTAATATAC-CTCAAACCAAACGCTGCGTTTTGG
24782325 TTAAGGTATTTTGCGGCGCTTACAATAAACGCCACTAATTATGTTCTTTTA
63 TTAAGGTATTTTGCGGCGCTTACAATAAACGCCACTAATTATGTTCTTTTA
* *
24782376 CGGCGTTTTTTTAG-AAACGCCACTAGTTCT
1 CGGCGTTTTTATAGAAAACGCCACTAATTCT
24782406 TCAGGTTTTA
Statistics
Matches: 377, Mismatches: 85, Indels: 48
0.74 0.17 0.09
Matches are distributed among these distances:
112 28 0.07
113 114 0.30
114 137 0.36
115 64 0.17
116 32 0.08
117 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (113 bp):
CGGCGTTTTTATAGAAAACGCCACTAATTCTAATATACCTCAAACCAAACGCTGCGTTTTGGTTA
AGGTATTTTGCGGCGCTTACAATAAACGCCACTAATTATGTTCTTTTA
Found at i:24786594 original size:17 final size:17
Alignment explanation
Indices: 24786572--24786605 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24786562 CACTAACATT
*
24786572 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
24786589 AAAATGCAACGACAATA
1 AAAATGCAACGACAATA
24786606 TGCACAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:24791829 original size:21 final size:21
Alignment explanation
Indices: 24791800--24791846 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
24791790 AGTGATTGCG
24791800 TCTGATTCTAG-CGTGGATGCA
1 TCTGATTCT-GTCGTGGATGCA
* *
24791821 TCTGGTTCTGTTGTGGATGCA
1 TCTGATTCTGTCGTGGATGCA
24791842 TCTGA
1 TCTGA
24791847 GTGTGCTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.38
Consensus pattern (21 bp):
TCTGATTCTGTCGTGGATGCA
Found at i:24795594 original size:27 final size:27
Alignment explanation
Indices: 24795562--24795831 Score: 246
Period size: 27 Copynumber: 10.0 Consensus size: 27
24795552 TTTCATCTCT
**
24795562 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* ** *
24795589 TGGGGGTATTTTGGTTATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* *
24795616 T-GAGGGTATTTC-GATTATTTTACCTTA
1 TAG-GGGTATTTCAG-TCATTTTACCCTA
* * *
24795643 TGGGGGTATTTCAGTTATTCTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
24795670 TAGGGGTATTTCAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* *
24795697 TAGGGGTATTTCGGTCATTTTACCCAA
1 TAGGGGTATTTCAGTCATTTTACCCTA
** * *
24795724 TAGGGGTATTTTGGTTATTTTACCGTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
24795751 -ACGGGGTATTTTAGTCATTTTA-CCTA
1 TA-GGGGTATTTCAGTCATTTTACCCTA
* * * *
24795777 TAAGGGCATTTCGGTCATTTTACCTTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
24795804 T-GCGGGTATTTC-GATTATTTTACCCTA
1 TAG-GGGTATTTCAG-TCATTTTACCCTA
24795831 T
1 T
24795832 TTTAGGGTCT
Statistics
Matches: 203, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
26 23 0.11
27 178 0.88
28 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
TAGGGGTATTTCAGTCATTTTACCCTA
Found at i:24795704 original size:81 final size:81
Alignment explanation
Indices: 24795564--24795831 Score: 310
Period size: 81 Copynumber: 3.3 Consensus size: 81
24795554 TCATCTCTTA
** * * * *
24795564 GGGGTATAACAGTCATTTTACCCTATGGGGGTATTTTGGTTATTTTACCCTAT-GAGGGTATTTC
1 GGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTTAGTCATTTTACCCTATAG-GGGTATTTC
* *
24795628 GATTATTTTACCTTATG
65 GGTCATTTTACCTTATG
* *
24795645 GGGGTATTTCAGTTATTCTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCG
1 GGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTTAGTCATTTTACCCTATAGGGGTATTTCG
** *
24795710 GTCATTTTACCCAATA
66 GTCATTTTACCTTATG
** * * *
24795726 GGGGTATTTTGGTTATTTTACCGTA-ACGGGGTATTTTAGTCATTTTA-CCTATAAGGGCATTTC
1 GGGGTATTTCAGTTATTTTACCCTATA-GGGGTATTTTAGTCATTTTACCCTATAGGGGTATTTC
24795789 GGTCATTTTACCTTATG
65 GGTCATTTTACCTTATG
*
24795806 CGGGTATTTC-GATTATTTTACCCTAT
1 GGGGTATTTCAG-TTATTTTACCCTAT
24795832 TTTAGGGTCT
Statistics
Matches: 157, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 49 0.31
81 106 0.68
82 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (81 bp):
GGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTTAGTCATTTTACCCTATAGGGGTATTTCG
GTCATTTTACCTTATG
Found at i:24797278 original size:17 final size:16
Alignment explanation
Indices: 24797256--24797288 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
24797246 TCAAGGTCTC
24797256 CCTACAGTTTCCAGTTT
1 CCTACAGTTT-CAGTTT
24797273 CCTACAGTTTCAGTTT
1 CCTACAGTTTCAGTTT
24797289 ACTCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.42
Consensus pattern (16 bp):
CCTACAGTTTCAGTTT
Found at i:24797965 original size:34 final size:34
Alignment explanation
Indices: 24797902--24797967 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
24797892 ATCATCAGTA
* *
24797902 GGGCCTTTGCCCAAATTCAGTAATAGTATCAGCG
1 GGGCCTTGGCCCAAATTCAGTAACAGTATCAGCG
24797936 GGGCCTTGGCCCATAA-T-AGTAACAGGTATCAG
1 GGGCCTTGGCCCA-AATTCAGTAACA-GTATCAG
24797968 TCATGCAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.21
34 20 0.71
35 2 0.07
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (34 bp):
GGGCCTTGGCCCAAATTCAGTAACAGTATCAGCG
Found at i:24798461 original size:27 final size:27
Alignment explanation
Indices: 24798433--24798827 Score: 438
Period size: 27 Copynumber: 14.4 Consensus size: 27
24798423 TATAACAGTT
* *
24798433 ATTTTACCCAATGGGGGTATTTCGATT
1 ATTTTACCCTATGGGGGTATTTCGATC
* * * *
24798460 ATTTTACCTTATGGGGGTGTTTCGCTT
1 ATTTTACCCTATGGGGGTATTTCGATC
* * *
24798487 ATTCTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
24798514 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
*
24798541 ATTTTACCCTATGGGGCTATTTTATATTTC-AGTC
1 ATTTTACCCTATGGGG-------GTATTTCGA-TC
* *
24798575 ATTTTACCCTATGAGGGTCTTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
24798602 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
* ** *
24798629 ATTTTAACCTATACGGGTATTTCTATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
24798656 ATTTTACCTTATGAGGGTATTTC-AGTC
1 ATTTTACCCTATGGGGGTATTTCGA-TC
*
24798683 ATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
24798710 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
24798737 ATTTTACCCTAT-GGGTTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGATC
*
24798763 ATTTTACCCTAT-GGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
* **
24798789 ATTTTACCTTATGGGGGTATTTTAATC
1 ATTTTACCCTATGGGGGTATTTCGATC
24798816 ATTTTACCCTAT
1 ATTTTACCCTAT
24798828 TTTAGGGTAT
Statistics
Matches: 311, Mismatches: 45, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
26 47 0.15
27 238 0.77
28 2 0.01
33 1 0.00
34 23 0.07
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGATC
Found at i:24799561 original size:24 final size:25
Alignment explanation
Indices: 24799522--24799569 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
24799512 CTCCCTAAAT
*
24799522 CCCAATATTCTCTCCTCAAATCTCC
1 CCCAATATCCTCTCCTCAAATCTCC
*
24799547 CCCAATATCCT-TCCTCAATTCTC
1 CCCAATATCCTCTCCTCAAATCTC
24799570 TCTATGACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.23, C:0.44, G:0.00, T:0.33
Consensus pattern (25 bp):
CCCAATATCCTCTCCTCAAATCTCC
Found at i:24800043 original size:28 final size:28
Alignment explanation
Indices: 24800012--24800074 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
24800002 TAGCAACCAC
*
24800012 CATT-GCACGCACCACCCAGCAGCTCCCG
1 CATTAGCACGC-CCACCCAGCAGCTCACG
* *
24800040 CATTAGCTCGCCCACCCTGCAGCTCACG
1 CATTAGCACGCCCACCCAGCAGCTCACG
*
24800068 CACTAGC
1 CATTAGC
24800075 TCCCGCCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.21, C:0.48, G:0.17, T:0.14
Consensus pattern (28 bp):
CATTAGCACGCCCACCCAGCAGCTCACG
Found at i:24800075 original size:28 final size:28
Alignment explanation
Indices: 24800023--24800076 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
24800013 ATTGCACGCA
* *
24800023 CCACCCAGCAGCTCCCGCATTAGCTCGC
1 CCACCCAGCAGCTCACGCACTAGCTCGC
*
24800051 CCACCCTGCAGCTCACGCACTAGCTC
1 CCACCCAGCAGCTCACGCACTAGCTC
24800077 CCGCCAACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.19, C:0.50, G:0.17, T:0.15
Consensus pattern (28 bp):
CCACCCAGCAGCTCACGCACTAGCTCGC
Found at i:24802745 original size:2 final size:2
Alignment explanation
Indices: 24802738--24802767 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24802728 ATATGCTTAA
24802738 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24802768 CATATGTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24809968 original size:14 final size:14
Alignment explanation
Indices: 24809949--24809987 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
24809939 TTGTTTCACT
24809949 GAAAATGACTTCTA
1 GAAAATGACTTCTA
* * *
24809963 GAAAATGATTTTTG
1 GAAAATGACTTCTA
24809977 GAAAATGACTT
1 GAAAATGACTT
24809988 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGACTTCTA
Found at i:24810609 original size:26 final size:29
Alignment explanation
Indices: 24810578--24810641 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 29
24810568 ACTGTTCAAA
*
24810578 TAAAATTTAA-ATATTA-AATAATT-TAT
1 TAAAATTTAATAAATTATAATAATTATAT
*
24810604 TAAAA-TTAATAAATTATATTAATTATAT
1 TAAAATTTAATAAATTATAATAATTATAT
24810632 TAATAATTTA
1 TAA-AATTTA
24810642 TTATATGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 4 0.13
26 10 0.32
27 6 0.19
28 6 0.19
29 2 0.06
30 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TAAAATTTAATAAATTATAATAATTATAT
Found at i:24810623 original size:19 final size:19
Alignment explanation
Indices: 24810584--24810644 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
24810574 CAAATAAAAT
24810584 TTAAATATTAAATAATTTA
1 TTAAATATTAAATAATTTA
24810603 TTAAA-ATT-AATAAATTATA
1 TTAAATATTAAAT-AATT-TA
24810622 TTAATTATATT-AATAATTTA
1 TTAA--ATATTAAATAATTTA
24810642 TTA
1 TTA
24810645 TATGACTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.08
18 7 0.19
19 11 0.30
20 5 0.14
21 5 0.14
22 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAATATTAAATAATTTA
Found at i:24821230 original size:25 final size:25
Alignment explanation
Indices: 24821196--24821245 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
24821186 CCATACCTCC
*
24821196 CTCGGGGAGGCTTACCGGATAATAA
1 CTCGGGGAGGCTTACCGGACAATAA
24821221 CTCGGGGAGGCTTACCGGACAATAA
1 CTCGGGGAGGCTTACCGGACAATAA
24821246 AGTAATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.32, T:0.18
Consensus pattern (25 bp):
CTCGGGGAGGCTTACCGGACAATAA
Found at i:24825009 original size:189 final size:189
Alignment explanation
Indices: 24824679--24825062 Score: 581
Period size: 189 Copynumber: 2.0 Consensus size: 189
24824669 GATTCTGAGC
*
24824679 TTAACTCATGATTTTGGTTATAATGCTTAGCTGACAAGAGAGTGAAAGCTTTGACGTTCAGAAAA
1 TTAACTCATGATTTTGGTTATAATGCTTAGCTGACAAGAGAGTGAAAGCTTTGACGTTCAAAAAA
* * * *
24824744 GCTAAGTAGATGAGAAGGCAAAGAAGTGTCAAGTGAGTTTCTGCACACTATCCCTAAAATGCTAA
66 GCTAAGGAGAGGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCTAA
* *
24824809 GTATATTTAAGATCATATAGATATATGAGTATCCACCATTTTAGTTCTATAAGCATGAA
131 GTACATTTAAGATCATACAGATATATGAGTATCCACCATTTTAGTTCTATAAGCATGAA
* * * *
24824868 TTAACTTATGATTTTGGTTATAATGCTTAGCTGCCAAGAGATTGGAAGCTTTGACGTTCAAAAAA
1 TTAACTCATGATTTTGGTTATAATGCTTAGCTGACAAGAGAGTGAAAGCTTTGACGTTCAAAAAA
* * * **
24824933 GCTAAGCGA-AGGAGGAGGCAAGGAAGTGTCAAATGAGTTTCTGCACACTATACTTGGAATGCTA
66 GCTAAG-GAGAGGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCTA
* * *
24824997 AGTACGTTTAAGATCGTACAGATATATGAGTATCCACCATTTTAGTTCTGTAAGCATGAA
130 AGTACATTTAAGATCATACAGATATATGAGTATCCACCATTTTAGTTCTATAAGCATGAA
24825057 TTAACT
1 TTAACT
24825063 ATTATTTCAT
Statistics
Matches: 175, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
189 174 0.99
190 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (189 bp):
TTAACTCATGATTTTGGTTATAATGCTTAGCTGACAAGAGAGTGAAAGCTTTGACGTTCAAAAAA
GCTAAGGAGAGGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCTAA
GTACATTTAAGATCATACAGATATATGAGTATCCACCATTTTAGTTCTATAAGCATGAA
Found at i:24829010 original size:7 final size:7
Alignment explanation
Indices: 24828998--24829024 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24828988 ACCAGTAAAT
24828998 ATTAATA
1 ATTAATA
24829005 ATTAATA
1 ATTAATA
24829012 ATTAATA
1 ATTAATA
24829019 ATTAAT
1 ATTAAT
24829025 GACTCAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTAATA
Found at i:24836722 original size:15 final size:15
Alignment explanation
Indices: 24836687--24836722 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24836677 GCTTAATATT
24836687 TAAAATTTAAAAAAA
1 TAAAATTTAAAAAAA
* *
24836702 TTAAATTTAAAACAA
1 TAAAATTTAAAAAAA
24836717 TAAAAT
1 TAAAAT
24836723 ATATTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAATTTAAAAAAA
Found at i:24836900 original size:18 final size:18
Alignment explanation
Indices: 24836865--24836901 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24836855 TGATTTTTTG
* *
24836865 AATTCGAATAACTTGAAT
1 AATTCGAATAAATCGAAT
24836883 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
24836901 A
1 A
24836902 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:24837799 original size:9 final size:9
Alignment explanation
Indices: 24837785--24837821 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
24837775 TATAGTTTAA
24837785 TATTCGAAT
1 TATTCGAAT
24837794 TATTCGAAT
1 TATTCGAAT
* *
24837803 TACTCGAGT
1 TATTCGAAT
24837812 TATTCGAAT
1 TATTCGAAT
24837821 T
1 T
24837822 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24837893 original size:9 final size:9
Alignment explanation
Indices: 24837876--24837906 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24837866 TTGAGTTGAT
24837876 TCGAATAAC
1 TCGAATAAC
*
24837885 TCGATTAAC
1 TCGAATAAC
24837894 TCGAATAAC
1 TCGAATAAC
24837903 TCGA
1 TCGA
24837907 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:24838079 original size:16 final size:16
Alignment explanation
Indices: 24838058--24838101 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
24838048 ACTTTCCATC
24838058 AAACTTTTACTCCCCA
1 AAACTTTTACTCCCCA
** *
24838074 AAACTTTTTTTTCCCCT
1 AAAC-TTTTACTCCCCA
24838091 AAACTTTTACT
1 AAACTTTTACT
24838102 TCTCACCCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (16 bp):
AAACTTTTACTCCCCA
Found at i:24839209 original size:18 final size:18
Alignment explanation
Indices: 24839186--24839222 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24839176 TTGTTATTGT
24839186 AATATTGAAATTAATTAA
1 AATATTGAAATTAATTAA
24839204 AATATTGAAATTAATTAA
1 AATATTGAAATTAATTAA
24839222 A
1 A
24839223 TTAACTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AATATTGAAATTAATTAA
Found at i:24850557 original size:15 final size:15
Alignment explanation
Indices: 24850532--24850566 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24850522 AACTCTATTT
*
24850532 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
24850546 TAATTAATATTAAGA
1 TAATTAATATTAAGA
24850561 TAATTA
1 TAATTA
24850567 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:24857035 original size:7 final size:7
Alignment explanation
Indices: 24857023--24857093 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
24857013 CAACCCAATT
24857023 TTTATTA
1 TTTATTA
24857030 TTTATTTA
1 TTTA-TTA
24857038 TTTATTA
1 TTTATTA
* *
24857045 TTTTTTC
1 TTTATTA
*
24857052 TTTGCCTTA
1 TTT--ATTA
24857061 TTTATTAA
1 TTTATT-A
24857069 TTTA-T-
1 TTTATTA
24857074 TTTATTA
1 TTTATTA
24857081 TTTATTA
1 TTTATTA
*
24857088 CTTATT
1 TTTATT
24857094 TGGATATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
5 4 0.08
6 1 0.02
7 30 0.58
8 12 0.23
9 5 0.10
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:24858110 original size:101 final size:100
Alignment explanation
Indices: 24857921--24858111 Score: 226
Period size: 101 Copynumber: 1.9 Consensus size: 100
24857911 AAGAACATGT
* * * *
24857921 TGGGTTGAGTAACCAGGGTGGAGTGCTTGGGTGTCATCTCTCTTCGCGTCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCAGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCGATATG
* ** *
24857986 TTCTTAAGTAAAACTTATAATAAATTAGGAGTCTGC
66 TCCAAAAGTAAAAC-AATAATAAATTAGGAGTCTGC
* *
24858022 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCAGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTC-G-ATA
24858087 T-TCCAAAAGCATAAAA-AAT-ATAAAT
64 TGTCCAAAAG--TAAAACAATAATAAAT
24858112 AATAAATAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
101 60 0.79
102 8 0.11
103 3 0.04
104 5 0.07
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (100 bp):
TGGGCTGAGTAACCAGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCGATATG
TCCAAAAGTAAAACAATAATAAATTAGGAGTCTGC
Done.