Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008397.1 Hibiscus syriacus cultivar Beakdansim tig00111166_pilon, whole genome shotgun sequence
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: 2560905
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 13
Found at i:2266536 original size:12 final size:12
Alignment explanation
Indices: 2266444--2266532 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
2266434 GGTCGCAGAA
*
2266444 GATGAAGCTGAC
1 GATGAAGATGAC
2266456 GATGAAGATGAC
1 GATGAAGATGAC
*
2266468 GATGATGATGAC
1 GATGAAGATGAC
* *
2266480 GATGAAGCTGGC
1 GATGAAGATGAC
*
2266492 GATGAAGATGAT
1 GATGAAGATGAC
* * *
2266504 GACGATGATGAT
1 GATGAAGATGAC
* *
2266516 GATGATGATGAA
1 GATGAAGATGAC
2266528 GATGA
1 GATGA
2266533 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:2266536 original size:18 final size:18
Alignment explanation
Indices: 2266441--2266532 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
2266431 AGCGGTCGCA
*
2266441 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
2266459 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
2266477 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
2266495 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
2266513 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
2266531 GA
1 GA
2266533 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:2270852 original size:25 final size:25
Alignment explanation
Indices: 2270818--2270882 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
2270808 TTATCATTAA
*
2270818 ATTTAAGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
2270843 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
2270868 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
2270883 TCTTTTGAGT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:2271259 original size:23 final size:23
Alignment explanation
Indices: 2271228--2271300 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2271218 ATAGGTAAAC
*
2271228 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2271251 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2271274 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2271297 ATAT
1 ATAT
2271301 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2271689 original size:23 final size:23
Alignment explanation
Indices: 2271658--2271730 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2271648 ATAGGTAAAA
*
2271658 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2271681 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2271704 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2271727 ATAT
1 ATAT
2271731 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2271901 original size:429 final size:430
Alignment explanation
Indices: 2271026--2272078 Score: 1970
Period size: 430 Copynumber: 2.5 Consensus size: 430
2271016 GTTAATGTTG
* * * *
2271026 TTAAATT-TAAATTATAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAA-AATCAAATAATTTTTTGTGCAA
2271090 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
2271155 AATTACATAACTTTT-AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
2271219 TAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
2271284 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
2271349 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
2271414 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
2271455 TTAAATTAAATATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
2271520 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAA
2271585 ATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 ATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
2271650 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
2271715 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
2271780 GGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
2271845 GTCTAATGATTTA-TTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
2271884 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
*
2271949 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAA
*
2272014 ATTACATAAC-TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 ATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
2272078 A
196 A
2272079 TAATGTAATA
Statistics
Matches: 610, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
428 54 0.09
429 271 0.44
430 285 0.47
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAA
ATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:2276816 original size:32 final size:32
Alignment explanation
Indices: 2276756--2276820 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
2276746 AAAATGATGT
* *
2276756 TGTGACATATGCTACATCATTCAAGATGATAA
1 TGTGACATATGCCACATCATCCAAGATGATAA
* * *
2276788 TGTGACATTTGCCACTTCATCCATGATGATAA
1 TGTGACATATGCCACATCATCCAAGATGATAA
2276820 T
1 T
2276821 TAACTTAGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (32 bp):
TGTGACATATGCCACATCATCCAAGATGATAA
Found at i:2277204 original size:38 final size:38
Alignment explanation
Indices: 2277162--2277245 Score: 91
Period size: 37 Copynumber: 2.2 Consensus size: 38
2277152 TTAAATTATT
* * * * *
2277162 TTAAATTTATTAATATTTTAATAT-ATAAAAATATCAAA
1 TTAAATTTATAAAAATATAAATATAATAAAAACAT-AAA
2277200 TTAAA-TTATAAAAATATAAATATAATAAAAACATAAA
1 TTAAATTTATAAAAATATAAATATAATAAAAACATAAA
*
2277237 ATAAATTTA
1 TTAAATTTA
2277246 AAAGTTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
37 21 0.55
38 17 0.45
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (38 bp):
TTAAATTTATAAAAATATAAATATAATAAAAACATAAA
Found at i:2277214 original size:14 final size:17
Alignment explanation
Indices: 2277207--2277240 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2277197 AAATTAAATT
2277207 ATAAAAATATAAATATA
1 ATAAAAATATAAATATA
*
2277224 ATAAAAACATAAA-ATA
1 ATAAAAATATAAATATA
2277240 A
1 A
2277241 ATTTAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAAATATAAATATA
Found at i:2277229 original size:17 final size:16
Alignment explanation
Indices: 2277202--2277240 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
2277192 ATATCAAATT
* *
2277202 AAATTATAAAAATATA
1 AAATAATAAAAACATA
2277218 AATATAATAAAAACATA
1 AA-ATAATAAAAACATA
2277235 AAATAA
1 AAATAA
2277241 ATTTAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATAAAAACATA
Found at i:2291870 original size:18 final size:18
Alignment explanation
Indices: 2291838--2291872 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2291828 CCGGTTCTTC
*
2291838 CGACCGGTCGGACCAGTT
1 CGACCGGTCGAACCAGTT
*
2291856 CGACCGGTTGAACCAGT
1 CGACCGGTCGAACCAGT
2291873 AAACCGATAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.17
Consensus pattern (18 bp):
CGACCGGTCGAACCAGTT
Found at i:2295672 original size:18 final size:18
Alignment explanation
Indices: 2295651--2295686 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2295641 CTTTATCCAA
*
2295651 CTCATCAGAGCTAGAAGT
1 CTCATAAGAGCTAGAAGT
2295669 CTCATAAGAGCTAGAAGT
1 CTCATAAGAGCTAGAAGT
2295687 TTCGCCTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (18 bp):
CTCATAAGAGCTAGAAGT
Found at i:2295901 original size:286 final size:286
Alignment explanation
Indices: 2295380--2296319 Score: 1248
Period size: 289 Copynumber: 3.3 Consensus size: 286
2295370 CGTTCTCTGA
* * * *
2295380 CTCATCAGAGCTAGAAGCTTGGCCTGTAGCTTCAGCTTCTGTGACCTGCACTCAAATCATTGAAA
1 CTCATAAGAGCTAGAAGTTTGACCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAA
* * * * * * * *
2295445 GATATTGTTCGTTTTGAGAAATGTAGTTCAGTATATACTAATATTA-TACTTAATCATTGCCAAA
66 GATATTGTTCATTTTGATAAAAGTACTTAAGTATATACTAATA-TACT--TTGACCTTTGCCAAA
*
2295509 ACAAAATGGAAGGTACACGGTAAACACAGTGCTAAAAAATAACTTTTCCTAGTTAATCAACCTTC
128 ACAAAATGGAAGGTACACGGTAAACACAGTGCT-AAAAATAACTTTTCCTAGTTAATCTACCTTC
* * *
2295574 TGCCTTGGTGTTGTACTAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGAAACTCATC
192 TGCCTTGGTTTTGTAATAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGTAACTCATC
* *
2295639 CCCTTTATCCAACTCATCAGAGCTAGAAGT
257 CTCTTTCTCCAACTCATCAGAGCTAGAAGT
* *
2295669 CTCATAAGAGCTAGAAGTTTCG-CCTGTAGCTTCAACTTCTGTGACCTGCGTTCAAATCATTGAA
1 CTCATAAGAGCTAGAAGTTT-GACCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAA
* *
2295733 AGATATTGTTCACTTTGATAAAAGTACTTTAGTATATACTAATATACTTTGACCTTTGCCAAAAC
65 AGATATTGTTCATTTTGATAAAAGTACTTAAGTATATACTAATATACTTTGACCTTTGCCAAAAC
* * *
2295798 AAAATGGAA-GTACACGGTAAACACAGTGCTAAGAAACAGCTTTTCCCAGTTAATCTACCTTCTG
130 AAAATGGAAGGTACACGGTAAACACAGTGCTAA-AAATAACTTTTCCTAGTTAATCTACCTTCTG
* *
2295862 CCTTGGTTTTGTAATAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGTATCTCGTCCT
194 CCTTGGTTTTGTAATAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGTAACTCATCCT
*
2295927 CTTTCTCCAACTCATCAGTGCTAGAAGT
259 CTTTCTCCAACTCATCAGAGCTAGAAGT
*
2295955 ATCATAAGAGCTAGAAGTTTGACCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAA
1 CTCATAAGAGCTAGAAGTTTGACCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAA
* ** * * * *
2296020 GATATAGTTCATTTTTTTAAATA-TACTTAAGCATGCTAAT-ATGATACTTTGACCTCTGCCAAA
66 GATATTGTTCATTTTGATAAA-AGTACTTAAGTAT-ATACTAAT-ATACTTTGACCTTTGCCAAA
* * * *
2296083 ACAAAATGGAATGTACA--GTATATACAGCGCTAAAAATAACTTTTCCTAGTTAATCT-CTCTAC
128 ACAAAATGGAAGGTACACGGTAAACACAGTGCTAAAAATAACTTTTCCTAGTTAATCTAC-CT--
* * * * *
2296145 CTCAAGACTTGGTTTTGTATTAGATTCATCAGCAATATCCCCACTGCCATCAAACTTGAGTAACT
190 -TC-TGCCTTGGTTTTGTAATAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGTAACT
*
2296210 CATCCTCTTTCTCCGACTCATCAGAGCTAGAAGT
253 CATCCTCTTTCTCCAACTCATCAGAGCTAGAAGT
* ** *
2296244 CTCATAAGAGCTAGAAGTTTGTCCAATAGCTTCAGCTTCTGTGACCTGCATTCAAAGCATTGAAA
1 CTCATAAGAGCTAGAAGTTTGACCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAA
2296309 GATATTGTTCA
66 GATATTGTTCA
2296320 AATTTTGAAA
Statistics
Matches: 579, Mismatches: 59, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
284 1 0.00
285 25 0.04
286 234 0.40
287 57 0.10
288 9 0.02
289 252 0.44
290 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (286 bp):
CTCATAAGAGCTAGAAGTTTGACCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAA
GATATTGTTCATTTTGATAAAAGTACTTAAGTATATACTAATATACTTTGACCTTTGCCAAAACA
AAATGGAAGGTACACGGTAAACACAGTGCTAAAAATAACTTTTCCTAGTTAATCTACCTTCTGCC
TTGGTTTTGTAATAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGTAACTCATCCTCT
TTCTCCAACTCATCAGAGCTAGAAGT
Found at i:2296231 original size:289 final size:281
Alignment explanation
Indices: 2295380--2296319 Score: 1213
Period size: 286 Copynumber: 3.3 Consensus size: 281
2295370 CGTTCTCTGA
* * *
2295380 CTCATCAGAGCTAGAAGCTTGGCCTGTAGCTTCAGCTTCTGTGACCTGCACTCAAATCATTGAAA
1 CTCATAAGAGCTAGAAG-TTTGCCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAA
* * * * * * *
2295445 GATATTGTTCGTTTTGAGAAATGTAGTTCAGTATATACTAATATTATAC-TTAATCATTGCCAAA
65 GATATTGTTCATTTTGATAAATATACTTAAG--TAT-CTAATA-TATACTTTGA-CCTTGCCAAA
*
2295509 ACAAAATGGAAGGTACACGGTAAACACAGTGCTAAAAAATAACTTTTCCTAGTTAATCAACCTTC
125 ACAAAATGGAA-GTACAC-GTAAACACAGTGCT-AAAAATAACTTTTCCTAGTTAATCTACCTTC
* * *
2295574 TGCCTTGGTGTTGTACTAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGAAACTCATC
187 TGCCTTGGTTTTGTAATAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGTAACTCATC
* *
2295639 CCCTTTATCCAACTCATCAGAGCTAGAAGT
252 CTCTTTCTCCAACTCATCAGAGCTAGAAGT
* *
2295669 CTCATAAGAGCTAGAAGTTTCGCCTGTAGCTTCAACTTCTGTGACCTGCGTTCAAATCATTGAAA
1 CTCATAAGAGCTAGAAGTTT-GCCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAA
* * * *
2295734 GATATTGTTCACTTTGATAAA-AGTACTTTAGTATATACTAATATACTTTGACCTTTGCCAAAAC
65 GATATTGTTCATTTTGATAAATA-TACTTAAGTATCTAAT-ATATACTTTGACC-TTGCCAAAAC
* * *
2295798 AAAATGGAAGTACACGGTAAACACAGTGCTAAGAAACAGCTTTTCCCAGTTAATCTACCTTCTGC
127 AAAATGGAAGTACAC-GTAAACACAGTGCTAA-AAATAACTTTTCCTAGTTAATCTACCTTCTGC
* *
2295863 CTTGGTTTTGTAATAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGTATCTCGTCCTC
190 CTTGGTTTTGTAATAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGTAACTCATCCTC
*
2295928 TTTCTCCAACTCATCAGTGCTAGAAGT
255 TTTCTCCAACTCATCAGAGCTAGAAGT
*
2295955 ATCATAAGAGCTAGAAGTTTGACCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAA
1 CTCATAAGAGCTAGAAGTTTG-CCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAA
* ** *
2296020 GATATAGTTCATTTTTTTAAATATACTTAAGCATGCTAATATGATACTTTGACCTCTGCCAAAAC
65 GATATTGTTCATTTTGATAAATATACTTAAGTAT-CTAATAT-ATACTTTGACCT-TGCCAAAAC
* * *
2296085 AAAATGGAATGTACA-GTATATACAGCGCTAAAAATAACTTTTCCTAGTTAATCT-CTCTACCTC
127 AAAATGGAA-GTACACGTAAACACAGTGCTAAAAATAACTTTTCCTAGTTAATCTAC-CT---TC
* * * * *
2296148 AAGACTTGGTTTTGTATTAGATTCATCAGCAATATCCCCACTGCCATCAAACTTGAGTAACTCAT
187 -TGCCTTGGTTTTGTAATAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGTAACTCAT
*
2296213 CCTCTTTCTCCGACTCATCAGAGCTAGAAGT
251 CCTCTTTCTCCAACTCATCAGAGCTAGAAGT
** *
2296244 CTCATAAGAGCTAGAAGTTTGTCCAATAGCTTCAGCTTCTGTGACCTGCATTCAAAGCATTGAAA
1 CTCATAAGAGCTAGAAGTTTG-CCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAA
2296309 GATATTGTTCA
65 GATATTGTTCA
2296320 AATTTTGAAA
Statistics
Matches: 575, Mismatches: 59, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
284 1 0.00
285 25 0.04
286 244 0.42
287 59 0.10
288 9 0.02
289 237 0.41
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (281 bp):
CTCATAAGAGCTAGAAGTTTGCCTGTAGCTTCAGCTTCTGTGACCTGCATTCAAATCATTGAAAG
ATATTGTTCATTTTGATAAATATACTTAAGTATCTAATATATACTTTGACCTTGCCAAAACAAAA
TGGAAGTACACGTAAACACAGTGCTAAAAATAACTTTTCCTAGTTAATCTACCTTCTGCCTTGGT
TTTGTAATAGATTCATCAACAATATCCCCGCTGCCATCAAACTTGAGTAACTCATCCTCTTTCTC
CAACTCATCAGAGCTAGAAGT
Found at i:2296247 original size:18 final size:18
Alignment explanation
Indices: 2296226--2296261 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2296216 CTTTCTCCGA
*
2296226 CTCATCAGAGCTAGAAGT
1 CTCATAAGAGCTAGAAGT
2296244 CTCATAAGAGCTAGAAGT
1 CTCATAAGAGCTAGAAGT
2296262 TTGTCCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (18 bp):
CTCATAAGAGCTAGAAGT
Found at i:2302457 original size:30 final size:30
Alignment explanation
Indices: 2302423--2302479 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
2302413 CTCTTTCTCT
*
2302423 TTCCCGTTCCATATCTCGCTCTCTATCCCG
1 TTCCCGTTCCATATCCCGCTCTCTATCCCG
* *
2302453 TTCCCGTTCCCTTTCCCGCTCTCTATC
1 TTCCCGTTCCATATCCCGCTCTCTATC
2302480 ATATTCTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.07, C:0.46, G:0.09, T:0.39
Consensus pattern (30 bp):
TTCCCGTTCCATATCCCGCTCTCTATCCCG
Found at i:2303420 original size:38 final size:39
Alignment explanation
Indices: 2303326--2303421 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 39
2303316 CCTAATTCTC
* * * *
2303326 AAATTATTTCACCCTAATATTTTAAATTCCTAATTTATT
1 AAATTATTTCACCATAACATTATAAATTACTAATTTATT
* * * *
2303365 AAACTATTTAACTATAACATTATAAATTATTAATTT-TT
1 AAATTATTTCACCATAACATTATAAATTACTAATTTATT
*
2303403 AAATTATTTCTCCATAACA
1 AAATTATTTCACCATAACA
2303422 ATCTAAATCA
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
38 17 0.38
39 28 0.62
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (39 bp):
AAATTATTTCACCATAACATTATAAATTACTAATTTATT
Found at i:2303487 original size:12 final size:13
Alignment explanation
Indices: 2303459--2303507 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
2303449 ACATTTTAAA
2303459 TTTT-ATTTTATT
1 TTTTAATTTTATT
2303471 TTTTAATTTTATT
1 TTTTAATTTTATT
*
2303484 TTTAATAAGTTTTATC
1 TTT--TAA-TTTTATT
2303500 TTTTAATT
1 TTTTAATT
2303508 ATATAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.12
13 13 0.41
14 3 0.09
15 3 0.09
16 9 0.28
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTAATTTTATT
Found at i:2307220 original size:3 final size:3
Alignment explanation
Indices: 2307212--2307240 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2307202 TATAAGGAAA
2307212 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
2307241 AATGGGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:2308741 original size:181 final size:183
Alignment explanation
Indices: 2308430--2308795 Score: 664
Period size: 181 Copynumber: 2.0 Consensus size: 183
2308420 ACGATTGTAC
2308430 ATTTTCCTTTTATAATTTATGAAGTGTCCTCATTTTTTTTTTCATTTTTATGAAGAAAAAAAAAT
1 ATTTTCCTTTTATAATTTATGAAGTGTCCTCATTTTTTTTTTCATTTTTATGAAGAAAAAAAAAT
*
2308495 CGTAGTTTTGAATTTTATTTACTTTGTCGATGATGAAACATCTTCTTCTAAATCCATCGATGGGA
66 AGTAGTTTTGAATTTTATTTACTTTGTCGATGATGAAACATCTTCTTCTAAATCCATCGATGGGA
*
2308560 TGGTGGAGAAGGGGAAATTGAACTATATATCTTGATTCCACGTTGATCGGATG
131 TGGTGGAGAAGGGGAAATTGAACTATATATCTTGATTACACGTTGATCGGATG
*
2308613 ATTTT-CTTTTATAATTTATGAAGTGTCCTCATTTTTTTTTTCATTTTTATGAAG-AAAACAAAT
1 ATTTTCCTTTTATAATTTATGAAGTGTCCTCATTTTTTTTTTCATTTTTATGAAGAAAAAAAAAT
*
2308676 AGTAGTTTTGAATTTTATTTGCTTTGTCGATGATGAAACATCTTCTTCTAAATCCATCGATGGGA
66 AGTAGTTTTGAATTTTATTTACTTTGTCGATGATGAAACATCTTCTTCTAAATCCATCGATGGGA
* *
2308741 TGGTGGAGAAGGGGGAATTGAACTATATATTTTGATTACACGTTGATCGGATG
131 TGGTGGAGAAGGGGAAATTGAACTATATATCTTGATTACACGTTGATCGGATG
2308794 AT
1 AT
2308796 GGATATTATA
Statistics
Matches: 177, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
181 123 0.69
182 49 0.28
183 5 0.03
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (183 bp):
ATTTTCCTTTTATAATTTATGAAGTGTCCTCATTTTTTTTTTCATTTTTATGAAGAAAAAAAAAT
AGTAGTTTTGAATTTTATTTACTTTGTCGATGATGAAACATCTTCTTCTAAATCCATCGATGGGA
TGGTGGAGAAGGGGAAATTGAACTATATATCTTGATTACACGTTGATCGGATG
Found at i:2318957 original size:20 final size:20
Alignment explanation
Indices: 2318912--2318957 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2318902 TTTATCCGGA
*
2318912 AAAAAATCCGGTATGTGGTT
1 AAAAAATCCGGTATGGGGTT
* *
2318932 TAAAAATCCGGTCTGGGGTT
1 AAAAAATCCGGTATGGGGTT
2318952 AAAAAA
1 AAAAAA
2318958 ATTAGATGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (20 bp):
AAAAAATCCGGTATGGGGTT
Found at i:2320829 original size:2 final size:2
Alignment explanation
Indices: 2320820--2321163 Score: 99
Period size: 2 Copynumber: 177.0 Consensus size: 2
2320810 AACTGAAAAA
2320820 AT AT -T AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
2320860 A- AGT TT AT AT AT AA ACT AT AT TT AT AT -T AT AA ACT AT AT A-
1 AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT
* * * * * *
2320900 AT -T AT -T AT A- AG CT AT AT AT AA AT -T AT GT TT AT GT GA- ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T
* * * * * *
2320939 AT AT AT AT AA ACT AT CT AT GT AT AA ACT AT A- AA AA AT AT AT AGT
1 AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T
* * *
2320983 TT AT A- AA AT AT -T AT TT AT AT -T A- AT AT AGT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * * * * *
2321022 AT AT GT AT GT AT AT AA ACT AT AT AT GT AT AA ACT AT AT A- AA AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT
* *
2321065 AT AT AGT TT AT AT AT -T AT A- AT TT AT AT -T A- AT AT AGT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * *
2321105 AT AT GT AT GT AT A- ACT A- AT AA AGT A- AT AT AT AG A- AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT
2321145 AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
2321164 TAAAGAAATA
Statistics
Matches: 248, Mismatches: 54, Indels: 80
0.65 0.14 0.21
Matches are distributed among these distances:
1 25 0.10
2 208 0.84
3 15 0.06
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2321035 original size:89 final size:89
Alignment explanation
Indices: 2320942--2321108 Score: 289
Period size: 89 Copynumber: 1.9 Consensus size: 89
2320932 GTGAACTATA
* *
2320942 TATATAAACTATCTATGTATAAACTATAAAAAATATATAGTTTATAAAATATTATTTATATTAAT
1 TATATAAACTATATATGTATAAACTATAAAAAATATATAGTTTATAAAATATAATTTATATTAAT
2321007 ATAGTATATATATATATATGTATG
66 ATAGTATATATATATATATGTATG
* * *
2321031 TATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATATATTATAATTTATATTAAT
1 TATATAAACTATATATGTATAAACTATAAAAAATATATAGTTTATAAAATATAATTTATATTAAT
2321096 ATAGTATATATAT
66 ATAGTATATATAT
2321109 GTATGTATAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (89 bp):
TATATAAACTATATATGTATAAACTATAAAAAATATATAGTTTATAAAATATAATTTATATTAAT
ATAGTATATATATATATATGTATG
Found at i:2321105 original size:29 final size:29
Alignment explanation
Indices: 2320976--2321108 Score: 85
Period size: 29 Copynumber: 4.5 Consensus size: 29
2320966 TATAAAAAAT
* * * *
2320976 ATATAGTTTATAAAATATTATTTATATTA
1 ATATAGTATATATATTATAATTTATATTA
* *
2321005 ATATAGTATATATA-TATATATGTAT-GT-
1 ATATAGTATATATATTATA-ATTTATATTA
* * **
2321032 ATATA-AACTATATATGTATAAACTATATAAAA
1 ATATAGTA-TATATAT-TAT-AA-TTTATATTA
*
2321064 TATATAGTTTATATATTATAATTTATATTA
1 -ATATAGTATATATATTATAATTTATATTA
2321094 ATATAGTATATATAT
1 ATATAGTATATATAT
2321109 GTATGTATAA
Statistics
Matches: 79, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
26 1 0.01
27 11 0.14
28 4 0.05
29 35 0.44
30 11 0.14
31 2 0.03
32 3 0.04
33 12 0.15
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (29 bp):
ATATAGTATATATATTATAATTTATATTA
Found at i:2321134 original size:89 final size:89
Alignment explanation
Indices: 2320942--2321135 Score: 273
Period size: 89 Copynumber: 2.2 Consensus size: 89
2320932 GTGAACTATA
* *
2320942 TATATAAACTATCTATGTATAAACTATAAAAAATATATAGTTTATAAAATATTATTTATATTAAT
1 TATATAAACTATATATGTATAAACTATAAAAAATATATAGTTTATAAAATATAATTTATATTAAT
* **
2321007 ATAGTATATATATATATATGTATG
66 ATAGTATATATATATATATATAAC
* * *
2321031 TATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATATATTATAATTTATATTAAT
1 TATATAAACTATATATGTATAAACTATAAAAAATATATAGTTTATAAAATATAATTTATATTAAT
* *
2321096 ATAGTATATATATGTATGTATAAC
66 ATAGTATATATATATATATATAAC
*
2321120 TA-ATAAAGTAATATAT
1 TATATAAACT-ATATAT
2321136 AGAATATATA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 6 0.06
89 87 0.94
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (89 bp):
TATATAAACTATATATGTATAAACTATAAAAAATATATAGTTTATAAAATATAATTTATATTAAT
ATAGTATATATATATATATATAAC
Found at i:2321160 original size:62 final size:62
Alignment explanation
Indices: 2321011--2321193 Score: 158
Period size: 66 Copynumber: 2.8 Consensus size: 62
2321001 ATTAATATAG
* *
2321011 TATATATATATATATGTATGTATATAAACTATATATGTATAAACTATATAAAATATATAGTTTA
1 TATATATATATATAT-TATATATATAAACTATATATGTATAAACTATATAAAATATATAG-TAA
* * *
2321075 TATATTATAATTTATATTAATATAGTATATA-TATGTATGTAT-AACTA-ATAAAGTAATATATA
1 TATA-TAT-ATATATATT-ATATA-TATAAACTATATATGTATAAACTATAT-AA--AATATATA
2321137 G-AA
59 GTAA
** *
2321140 TATATATATATATATTATATATATTAAAGAAATACTATGCATAAACTATATAAA
1 TATATATATATATATTATATATA-TAAA-CTATA-TATGTATAAACTATATAAA
2321194 GTAATAAATT
Statistics
Matches: 96, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
61 2 0.02
62 8 0.08
63 8 0.08
64 12 0.12
65 22 0.23
66 28 0.29
67 16 0.17
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (62 bp):
TATATATATATATATTATATATATAAACTATATATGTATAAACTATATAAAATATATAGTAA
Found at i:2321454 original size:5 final size:5
Alignment explanation
Indices: 2321444--2321476 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
2321434 TATAAACCAT
2321444 GTATA GTATA GTATA GTATA GTATA -TATA -TATA
1 GTATA GTATA GTATA GTATA GTATA GTATA GTATA
2321477 AACTAGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (5 bp):
GTATA
Found at i:2321698 original size:20 final size:21
Alignment explanation
Indices: 2321661--2321772 Score: 105
Period size: 20 Copynumber: 5.5 Consensus size: 21
2321651 TTTATAGTAC
*
2321661 ATGTATCATGTATGTATAAACT
1 ATGTAT-ATGTATATATAAACT
2321683 ATGTATA-GTATATATAAACT
1 ATGTATATGTATATATAAACT
*
2321703 ATG--TA--TATATATAACCT
1 ATGTATATGTATATATAAACT
2321720 ATAGTATATGTATATATACAATCT
1 AT-GTATATGTATATATA-AA-CT
*
2321744 ATTTATATGT-TATATAAACT
1 ATGTATATGTATATATAAACT
2321764 A--TATATGTA
1 ATGTATATGTA
2321773 ACCTATAGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
17 13 0.17
18 10 0.13
20 20 0.26
21 3 0.04
22 20 0.26
23 8 0.10
24 4 0.05
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (21 bp):
ATGTATATGTATATATAAACT
Found at i:2321710 original size:15 final size:18
Alignment explanation
Indices: 2321686--2321733 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
2321676 ATAAACTATG
2321686 TATAGTATATATA-AA-C
1 TATAGTATATATATAACC
2321702 TAT-GTATATATATAACC
1 TATAGTATATATATAACC
*
2321719 TATAGTATATGTATA
1 TATAGTATATATATA
2321734 TATACAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 9 0.32
16 5 0.18
17 4 0.14
18 10 0.36
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (18 bp):
TATAGTATATATATAACC
Found at i:2321722 original size:24 final size:21
Alignment explanation
Indices: 2321661--2321765 Score: 69
Period size: 22 Copynumber: 5.1 Consensus size: 21
2321651 TTTATAGTAC
* *
2321661 ATGTATCATGTATGTATAAACT
1 ATGTAT-ATATATATATAAACT
*
2321683 ATGTATA-GTATATATAAACT
1 ATGTATATATATATATAAACT
*
2321703 ATG----TATATATATAACCT
1 ATGTATATATATATATAAACT
*
2321720 ATAGTATATGTATATATACAATCT
1 AT-GTATATATATATATA-AA-CT
* *
2321744 ATTTATATGT-TATATAAACT
1 ATGTATATATATATATAAACT
2321764 AT
1 AT
2321766 ATATGTAACC
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
17 13 0.19
18 1 0.01
20 19 0.28
21 3 0.04
22 21 0.30
23 8 0.12
24 4 0.06
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.43
Consensus pattern (21 bp):
ATGTATATATATATATAAACT
Found at i:2321838 original size:21 final size:21
Alignment explanation
Indices: 2321812--2321864 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2321802 TAGTGTACTA
* *
2321812 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
*
2321833 TATAGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
*
2321854 TATATTTTATA
1 TATAGTTTATA
2321865 TTAATGTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:2321890 original size:22 final size:22
Alignment explanation
Indices: 2321791--2321893 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
2321781 TTTATAATCA
*
2321791 ATAGTTTATATTAGTGTACTAT
1 ATAGTTTATATTAATGTACTAT
* * *
2321813 ATAGTTTATACTTTAT-AAC-CT
1 ATAGTTTATA-TTAATGTACTAT
* * **
2321834 ATAGTATATAATTTATAAACTAT
1 ATAGTTTAT-ATTAATGTACTAT
2321857 AT--TTTATATTAATGTACTAT
1 ATAGTTTATATTAATGTACTAT
2321877 ATAGTTTATATTAATGT
1 ATAGTTTATATTAATGT
2321894 TAATTATATT
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
20 12 0.18
21 18 0.28
22 29 0.45
23 6 0.09
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.50
Consensus pattern (22 bp):
ATAGTTTATATTAATGTACTAT
Found at i:2321917 original size:31 final size:30
Alignment explanation
Indices: 2321876--2322060 Score: 153
Period size: 31 Copynumber: 5.8 Consensus size: 30
2321866 TAATGTACTA
*
2321876 TATAGTTTATATTAATGTTAATTATATTAAC
1 TATAGTTTATATTAATATTAATT-TATTAAC
* *
2321907 TATAATTTATATTAATATAGTATATAGTTTATAAAC
1 TATAGTTTATATT-A-ATA-T-TA-A-TTTATTAAC
2321943 TATA--TTATATTAATATTAATTATATTAAC
1 TATAGTTTATATTAATATTAATT-TATTAAC
*
2321972 TATAGTTTATAAACTATACTATGTAATTTA-TAAC
1 TATAGTTTAT--A-T-TAATAT-TAATTTATTAAC
2322006 ATATAGTTTATATTAATATTAATGTTA-TAGAC
1 -TATAGTTTATATTAATATTAAT-TTATTA-AC
*
2322038 TATATTTTATATTAATATTAATT
1 TATAGTTTATATTAATATTAATT
2322061 ATAAATTATA
Statistics
Matches: 130, Mismatches: 7, Indels: 35
0.76 0.04 0.20
Matches are distributed among these distances:
28 2 0.02
29 11 0.08
30 7 0.05
31 48 0.37
32 7 0.05
33 5 0.04
34 13 0.10
35 19 0.15
36 16 0.12
37 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (30 bp):
TATAGTTTATATTAATATTAATTTATTAAC
Found at i:2321965 original size:65 final size:65
Alignment explanation
Indices: 2321882--2322136 Score: 233
Period size: 65 Copynumber: 3.9 Consensus size: 65
2321872 ACTATATAGT
* * *
2321882 TTATATTAATGTTAATTATATTAACTATAATTTATATTAATATAGTATATAGTTTATAAACTATA
1 TTATATTAATATTAATTATATTAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
* * *
2321947 TTATATTAATATTAATTATATTAACTATAGTTTATA--AACTATACTATGTAATTTAT-AACATA
1 TTATATTAATATTAATTATATTAACTATAATTTATATTAA-TATAATATATAATTTATAAAC-TA
2322009 TA
64 TA
* *
2322011 GTTTATATTAATATTAATGT-TA-TAGACTATATTTTATATTAATATTAAT-TATAAATTATAAA
1 --TTATATTAATATTAAT-TATATTA-ACTATAATTTATATTAATA-TAATATATAATTTATAAA
2322073 CTATA
61 CTATA
* * * *
2322078 TTTTATTAA-AATAAGTTAATAGTAA-TATTAA-TTATATTAATATTAAT-TATAATATATAA
1 TTATATTAATATTAA-TT-ATATTAACTA-TAATTTATATTAATA-TAATATATAATTTATAA
2322137 TTATTATAAT
Statistics
Matches: 161, Mismatches: 14, Indels: 30
0.79 0.07 0.15
Matches are distributed among these distances:
63 5 0.03
64 23 0.14
65 73 0.45
66 35 0.22
67 17 0.11
68 8 0.05
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (65 bp):
TTATATTAATATTAATTATATTAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
Found at i:2322143 original size:31 final size:33
Alignment explanation
Indices: 2322013--2322162 Score: 110
Period size: 31 Copynumber: 4.8 Consensus size: 33
2322003 AACATATAGT
2322013 TTATATTAATATTAATGT-T-ATAG-ACTATATT-
1 TTATATTAATATTAAT-TATAATAGTA-TATATTA
* *
2322044 TTATATTAATATTAATTATAA-ATTATAAACTATA
1 TTATATTAATATTAATTATAATAGTATATA-T-TA
* * *
2322078 TTTTATTAA-AATAAGT-TAATAGTA-ATATTAA
1 TTATATTAATATTAATTATAATAGTATATATT-A
2322109 TTATATTAATATTAATTATAATA-TATA-ATTA
1 TTATATTAATATTAATTATAATAGTATATATTA
2322140 -T-TA-TAATATTAATTATAAATAGT
1 TTATATTAATATTAATTAT-AATAGT
2322163 GAATTAATAA
Statistics
Matches: 96, Mismatches: 10, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
28 13 0.14
29 6 0.06
30 4 0.04
31 32 0.33
32 18 0.19
33 15 0.16
34 8 0.08
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (33 bp):
TTATATTAATATTAATTATAATAGTATATATTA
Found at i:2322144 original size:16 final size:15
Alignment explanation
Indices: 2322100--2322155 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
2322090 AAGTTAATAG
2322100 TAATATTAATTA-TA
1 TAATATTAATTATTA
*
2322114 TTAATATTAATTATAA
1 -TAATATTAATTATTA
2322130 T-ATA-TAATTATTA
1 TAATATTAATTATTA
2322143 TAATATTAATTAT
1 TAATATTAATTAT
2322156 AAATAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
13 9 0.25
14 6 0.17
15 20 0.56
16 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATTAATTATTA
Found at i:2322146 original size:28 final size:27
Alignment explanation
Indices: 2322100--2322157 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
2322090 AAGTTAATAG
2322100 TAATATTAATTATATTAATATTAATTA
1 TAATATTAATTATATTAATATTAATTA
2322127 TAATATATAATTAT-TATAATATTAATTA
1 TAATAT-TAATTATAT-TAATATTAATTA
2322155 TAA
1 TAA
2322158 ATAGTGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TAATATTAATTATATTAATATTAATTA
Found at i:2322178 original size:28 final size:28
Alignment explanation
Indices: 2322100--2322178 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 28
2322090 AAGTTAATAG
*
2322100 TAATAT-TAATT-ATATTAATATTAATTA
1 TAATATATAATTAATA-TAAAATTAATTA
* *
2322127 TAATATATAATTATTATAATATTAATTA
1 TAATATATAATTAATATAAAATTAATTA
2322155 TAA-ATAGTGAATTAATA-AAAATTA
1 TAATATA-T-AATTAATATAAAATTA
2322179 TATAGGGATG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
27 9 0.20
28 27 0.60
29 9 0.20
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
TAATATATAATTAATATAAAATTAATTA
Found at i:2322467 original size:23 final size:21
Alignment explanation
Indices: 2322428--2322472 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
2322418 GCTCTCCGCT
*
2322428 TCTCTCAAATTCTCTGTCTTC
1 TCTCTAAAATTCTCTGTCTTC
*
2322449 TCTCTAAAAGTTCATCTGTGTTC
1 TCTCTAAAA-TTC-TCTGTCTTC
2322472 T
1 T
2322473 TCATTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.47
Consensus pattern (21 bp):
TCTCTAAAATTCTCTGTCTTC
Found at i:2322893 original size:6 final size:6
Alignment explanation
Indices: 2322884--2322947 Score: 60
Period size: 6 Copynumber: 10.8 Consensus size: 6
2322874 CCTAAACTAA
* ** * *
2322884 AACCCT AACCCT AACCTT AA-CCT AAAACT AAACCT GAACCCT AACCCC
1 AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT -AACCCT AACCCT
2322932 AACCC- AACCCT AACCC
1 AACCCT AACCCT AACCC
2322948 AAACTGAACC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
5 9 0.18
6 35 0.71
7 5 0.10
ACGTcount: A:0.39, C:0.45, G:0.02, T:0.14
Consensus pattern (6 bp):
AACCCT
Found at i:2322957 original size:17 final size:17
Alignment explanation
Indices: 2322849--2322964 Score: 65
Period size: 17 Copynumber: 6.6 Consensus size: 17
2322839 ATCTTCTGTC
*
2322849 ACCC-AACCCTAACTTGA
1 ACCCTAACCCAAAC-TGA
* *
2322866 ACCCAAACCCTAAACTAAA
1 ACCCTAACCC-AAACT-GA
* *
2322885 ACCCTAACCCTAACCTTA
1 ACCCTAACCC-AAACTGA
* *
2322903 A-CCTAAAACTAAACCTGA
1 ACCCT-AACCCAAA-CTGA
* **
2322921 ACCCTAACCCCAACCCA
1 ACCCTAACCCAAACTGA
2322938 ACCCTAACCCAAACTGA
1 ACCCTAACCCAAACTGA
*
2322955 ACCCGAACCC
1 ACCCTAACCC
2322965 GAATATGAAC
Statistics
Matches: 75, Mismatches: 18, Indels: 12
0.71 0.17 0.11
Matches are distributed among these distances:
17 34 0.45
18 20 0.27
19 21 0.28
ACGTcount: A:0.41, C:0.43, G:0.03, T:0.13
Consensus pattern (17 bp):
ACCCTAACCCAAACTGA
Found at i:2322975 original size:18 final size:18
Alignment explanation
Indices: 2322952--2322986 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2322942 TAACCCAAAC
2322952 TGAACCCGAACCCGAATA
1 TGAACCCGAACCCGAATA
* *
2322970 TGAACCTGAACCTGAAT
1 TGAACCCGAACCCGAAT
2322987 CCCAAACCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (18 bp):
TGAACCCGAACCCGAATA
Found at i:2323026 original size:19 final size:20
Alignment explanation
Indices: 2323002--2323041 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2322992 ACCCGAACCC
*
2323002 AAACCCAAATTCAAA-TCCA
1 AAACCCAAATCCAAATTCCA
*
2323021 AAACCCTAATCCAAATTCCA
1 AAACCCAAATCCAAATTCCA
2323041 A
1 A
2323042 CCCGAACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (20 bp):
AAACCCAAATCCAAATTCCA
Found at i:2323456 original size:102 final size:102
Alignment explanation
Indices: 2323280--2323515 Score: 400
Period size: 102 Copynumber: 2.3 Consensus size: 102
2323270 CTGAAGGAGG
* *
2323280 TAAATAAACTGTTTAATTTGTAGCTAATGTTGATTTGTTTTTGTTGTTGGTTGTTCATTCGGATT
1 TAAATAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATT
*
2323345 GCTTTTATAAGGTTGTTAGATGCCTTTATTTACAGTT
66 ACTTTTATAAGGTTGTTAGATGCCTTTATTTACAGTT
*
2323382 TAAATAAACTGTTTAATTTTTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATT
1 TAAATAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATT
* **
2323447 ATTTTTATAAGGTTGTTATCTGCCTTTATTTACAGTT
66 ACTTTTATAAGGTTGTTAGATGCCTTTATTTACAGTT
*
2323484 TAAATAAATTGTTTAATTTGTAGCTACTGTTG
1 TAAATAAACTGTTTAATTTGTAGCTACTGTTG
2323516 GTTGTTCATT
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 125 1.00
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.51
Consensus pattern (102 bp):
TAAATAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATT
ACTTTTATAAGGTTGTTAGATGCCTTTATTTACAGTT
Found at i:2326316 original size:31 final size:31
Alignment explanation
Indices: 2326281--2326595 Score: 585
Period size: 31 Copynumber: 10.2 Consensus size: 31
2326271 GGTCACAATA
2326281 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
2326312 TAAACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
2326343 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
2326374 TAAACTGTTCATATATGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
2326405 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
2326436 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
2326467 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
2326498 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
2326529 TAAACTATTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
2326560 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
2326591 TAAAC
1 TAAAC
2326596 CCTCAACTCT
Statistics
Matches: 274, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 274 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:2327213 original size:64 final size:65
Alignment explanation
Indices: 2327105--2327325 Score: 227
Period size: 64 Copynumber: 3.4 Consensus size: 65
2327095 TAATGAAAGT
* * ** * **
2327105 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-AATATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTAGTCAATATTAATGGG
* * *
2327169 ATGCATCGATGCACTCCTTATGCATCGATGCACT-AATTGCATTCGATGT-TTCATTATTAATGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-TAAATTGCATTCGATGTAGTCAATATTAATGG
2327232 G
65 G
* ** * **
2327233 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTA-TTTATTTTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTAGTCAATATTAATGGG
**
2327296 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
2327326 ACACCTTCAA
Statistics
Matches: 133, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
63 4 0.03
64 128 0.96
65 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTAGTCAATATTAATGGG
Found at i:2329124 original size:14 final size:14
Alignment explanation
Indices: 2329105--2329151 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
2329095 ATTTTTTCTT
2329105 TATATAAATTAAAC
1 TATATAAATTAAAC
2329119 TATAT-AATT----
1 TATATAAATTAAAC
2329128 TATATAAATTAAAC
1 TATATAAATTAAAC
*
2329142 TATATTAATT
1 TATATAAATT
2329152 TTTCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:2329130 original size:23 final size:24
Alignment explanation
Indices: 2329103--2329152 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
2329093 TTATTTTTTC
2329103 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
2329126 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
2329150 TTT
1 TTT
2329153 TTCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:2329420 original size:16 final size:16
Alignment explanation
Indices: 2329399--2329437 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2329389 CGGATCATTT
2329399 ATAGGTCAAATTAAAA
1 ATAGGTCAAATTAAAA
**
2329415 ATAGGTCAGGTTAAAA
1 ATAGGTCAAATTAAAA
*
2329431 ACAGGTC
1 ATAGGTC
2329438 GGGTTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (16 bp):
ATAGGTCAAATTAAAA
Found at i:2329437 original size:32 final size:32
Alignment explanation
Indices: 2329401--2329468 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
2329391 GATCATTTAT
*
2329401 AGGTCAAATTAAAAATAGGTCAGGTTAAAAAC
1 AGGTCAAATTAAAAACAGGTCAGGTTAAAAAC
***
2329433 AGGTCGGGTTAAAAACAGGTCAGGTTAAAAAC
1 AGGTCAAATTAAAAACAGGTCAGGTTAAAAAC
2329465 AGGT
1 AGGT
2329469 TGGGTAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (32 bp):
AGGTCAAATTAAAAACAGGTCAGGTTAAAAAC
Found at i:2329442 original size:16 final size:16
Alignment explanation
Indices: 2329409--2329468 Score: 102
Period size: 16 Copynumber: 3.8 Consensus size: 16
2329399 ATAGGTCAAA
*
2329409 TTAAAAATAGGTCAGG
1 TTAAAAACAGGTCAGG
*
2329425 TTAAAAACAGGTCGGG
1 TTAAAAACAGGTCAGG
2329441 TTAAAAACAGGTCAGG
1 TTAAAAACAGGTCAGG
2329457 TTAAAAACAGGT
1 TTAAAAACAGGT
2329469 TGGGTAATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.43, C:0.10, G:0.25, T:0.22
Consensus pattern (16 bp):
TTAAAAACAGGTCAGG
Found at i:2331448 original size:38 final size:39
Alignment explanation
Indices: 2331400--2331477 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
2331390 CGGGTTGAAA
2331400 TTTTTAAGTGTGATATTCGGGTCGAGTCGGG-TCGGGTT
1 TTTTTAAGTGTGATATTCGGGTCGAGTCGGGTTCGGGTT
*
2331438 TTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGGGTT
1 TTTTTAAGTGTGATATTCGGGTCGAGTCGGGTTCGGGTT
2331477 T
1 T
2331478 AGGGTGAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 30 0.79
39 8 0.21
ACGTcount: A:0.12, C:0.10, G:0.37, T:0.41
Consensus pattern (39 bp):
TTTTTAAGTGTGATATTCGGGTCGAGTCGGGTTCGGGTT
Found at i:2332068 original size:17 final size:17
Alignment explanation
Indices: 2332042--2332157 Score: 142
Period size: 17 Copynumber: 6.7 Consensus size: 17
2332032 TATGAAATTG
*
2332042 GATTCTAATTCCTGACA
1 GATTCCAATTCCTGACA
*
2332059 GATTCCAATTCCTTCACA
1 GATTCCAATTCC-TGACA
2332077 GATTCCAATTCCTGACA
1 GATTCCAATTCCTGACA
*
2332094 GATTTCAATTCCTGACA
1 GATTCCAATTCCTGACA
* * *
2332111 GATTTCAATTCCTAATA
1 GATTCCAATTCCTGACA
*
2332128 GATTCCAATTCCTTCACA
1 GATTCCAATTCC-TGACA
*
2332146 GATTCTAATTCC
1 GATTCCAATTCC
2332158 CTCATAAACA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
17 57 0.66
18 30 0.34
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (17 bp):
GATTCCAATTCCTGACA
Found at i:2332087 original size:35 final size:35
Alignment explanation
Indices: 2332042--2332157 Score: 162
Period size: 35 Copynumber: 3.3 Consensus size: 35
2332032 TATGAAATTG
*
2332042 GATTCTAATTCCTGACAGATTCCAATTCCTTCACA
1 GATTCCAATTCCTGACAGATTCCAATTCCTTCACA
* *
2332077 GATTCCAATTCCTGACAGATTTCAATTCC-TGACA
1 GATTCCAATTCCTGACAGATTCCAATTCCTTCACA
* * *
2332111 GATTTCAATTCCTAATAGATTCCAATTCCTTCACA
1 GATTCCAATTCCTGACAGATTCCAATTCCTTCACA
*
2332146 GATTCTAATTCC
1 GATTCCAATTCC
2332158 CTCATAAACA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
34 29 0.41
35 41 0.59
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (35 bp):
GATTCCAATTCCTGACAGATTCCAATTCCTTCACA
Found at i:2333136 original size:5 final size:5
Alignment explanation
Indices: 2333126--2333150 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2333116 AATTTTAAAT
2333126 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
2333151 ACTATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:2333497 original size:2 final size:2
Alignment explanation
Indices: 2333459--2333526 Score: 74
Period size: 2 Copynumber: 35.5 Consensus size: 2
2333449 TTAATACTAT
*
2333459 TA TA T- TA TA TA -A TCA TA TCA TA TA -A T- TA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA T-A TA TA TA TA TA TA TA TA TA TA TA
2333499 TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2333527 TATTAATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
1 5 0.09
2 48 0.84
3 4 0.07
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2335928 original size:20 final size:17
Alignment explanation
Indices: 2335903--2335946 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
2335893 GATCATGTTC
2335903 GGGTAGGATAAATACATGTG
1 GGGTAGGAT--AT-CATGTG
2335923 GGGTA-GATATCATGTG
1 GGGTAGGATATCATGTG
2335939 GGGTAGGA
1 GGGTAGGA
2335947 CTTTTATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 11 0.48
17 4 0.17
19 3 0.13
20 5 0.22
ACGTcount: A:0.30, C:0.05, G:0.41, T:0.25
Consensus pattern (17 bp):
GGGTAGGATATCATGTG
Found at i:2336388 original size:66 final size:66
Alignment explanation
Indices: 2336282--2336415 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
2336272 GACAACCTGC
2336282 AAGAAAACTATGTGTCACATTCGATCAAGAAGACATGACGCCCATAATCAAATACATCAAAAGTT
1 AAGAAAACTATGTGTCACATTCGATCAAGAAGACATGACGCCCATAATCAAATACATCAAAAGTT
2336347 A
66 A
2336348 AAGAAAACTATGTGTCACATTCGATCAAGAAGACATGACGCCCATAATCAAATACATCAAAAGTT
1 AAGAAAACTATGTGTCACATTCGATCAAGAAGACATGACGCCCATAATCAAATACATCAAAAGTT
2336413 A
66 A
2336414 AA
1 AA
2336416 CTTTTCAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (66 bp):
AAGAAAACTATGTGTCACATTCGATCAAGAAGACATGACGCCCATAATCAAATACATCAAAAGTT
A
Found at i:2338595 original size:14 final size:15
Alignment explanation
Indices: 2338570--2338598 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2338560 CCCAAAGGGC
2338570 CAGCTCTTTCATTCT
1 CAGCTCTTTCATTCT
2338585 CAGCT-TTTCATTCT
1 CAGCTCTTTCATTCT
2338599 TCTCTAACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.31, G:0.07, T:0.48
Consensus pattern (15 bp):
CAGCTCTTTCATTCT
Found at i:2339316 original size:3 final size:3
Alignment explanation
Indices: 2339298--2339372 Score: 105
Period size: 3 Copynumber: 24.7 Consensus size: 3
2339288 TGTAATATTA
* * * *
2339298 AAT AAT ATAT ATT AAT AAT AAT AAT TAT TAT TAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2339344 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2339373 CATTAAAATG
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:2339652 original size:16 final size:16
Alignment explanation
Indices: 2339631--2339661 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2339621 TATGAACTTC
2339631 TTCTTCTCATGATGAG
1 TTCTTCTCATGATGAG
*
2339647 TTCTTCTCATTATGA
1 TTCTTCTCATGATGA
2339662 ATTTCTCTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (16 bp):
TTCTTCTCATGATGAG
Found at i:2339842 original size:113 final size:113
Alignment explanation
Indices: 2339595--2340145 Score: 775
Period size: 113 Copynumber: 4.9 Consensus size: 113
2339585 TAGAGTCATT
* ** *
2339595 CAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTC-T--T-CTTC-TCATGATGAGTTCTTCTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA-GATGAGTTCTTCTC
* * * * * *
2339655 ATTATGAATTTC--TCTGGGAAAA-CTGACCCATCAAGTGATGGATTTGAG
65 ATTATGAA-CTCGAACT-GGAAAAGATAATCCATCAAGTGATAGATTTGAG
* * * *
2339703 CAAAAAGCTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* *
2339768 TTATGAACTCGAACTGGAAAAGATAATGCATCAATTGATAGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
2339816 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
2339881 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
2339929 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
2339994 TTATGAACTCGAACTGGAAAAGATAATCCATC-AG-GATAGA-TTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
2340039 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAAGTAATGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTC-AG--ATGAGTTCTTC
** * *
2340104 TCATTATGAACTTC-CTCTGGAAAAGCTGATCCATCAAGTGAT
63 TCATTATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGAT
2340146 GAATTTAAAT
Statistics
Matches: 404, Mismatches: 25, Indels: 21
0.90 0.06 0.05
Matches are distributed among these distances:
108 30 0.07
109 1 0.00
110 54 0.13
111 11 0.03
112 34 0.08
113 267 0.66
114 4 0.01
115 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
Found at i:2341187 original size:83 final size:82
Alignment explanation
Indices: 2340983--2341211 Score: 404
Period size: 82 Copynumber: 2.8 Consensus size: 82
2340973 TTGGGGTTCA
* * *
2340983 TACCAAACCAGATCAGATAACTCAAAGCACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
2341048 AAATTCAATAATTGTTT
66 AAATTCAATAATTGTTT
2341065 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
2341130 AAATTCAATGATTGGTTT
66 AAATTCAATAATT-GTTT
*
2341148 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTT
2341212 TCAGCTAATG
Statistics
Matches: 141, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
82 74 0.52
83 67 0.48
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (82 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATAATTGTTT
Found at i:2353800 original size:14 final size:14
Alignment explanation
Indices: 2353754--2353800 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
2353744 CTTTTCTTCG
2353754 ATATTGAAAAATAA
1 ATATTGAAAAATAA
*
2353768 ATGTT-AAAAATAA
1 ATATTGAAAAATAA
*
2353781 TTTATTGAAAAATAA
1 -ATATTGAAAAATAA
2353796 ATATT
1 ATATT
2353801 TATTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 8 0.30
14 11 0.41
15 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (14 bp):
ATATTGAAAAATAA
Found at i:2354403 original size:14 final size:15
Alignment explanation
Indices: 2354378--2354407 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2354368 CCCGAAGGGC
2354378 CAGCTCTTTCATTCT
1 CAGCTCTTTCATTCT
2354393 CAGCT-TTTCATTCT
1 CAGCTCTTTCATTCT
2354407 C
1 C
2354408 TCTCTAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.13, C:0.33, G:0.07, T:0.47
Consensus pattern (15 bp):
CAGCTCTTTCATTCT
Found at i:2355127 original size:3 final size:3
Alignment explanation
Indices: 2355109--2355183 Score: 78
Period size: 3 Copynumber: 24.7 Consensus size: 3
2355099 TGTAATATTA
* * * * * *
2355109 AAT AAT ATAT ATT AAT AAT AAT AAT AAT TAT TAT TAT TAT AAT TAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
2355155 AAT AAT AAT AAT TAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2355184 CATTAAAATG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
AAT
Found at i:2357571 original size:105 final size:105
Alignment explanation
Indices: 2356542--2357553 Score: 1747
Period size: 105 Copynumber: 9.6 Consensus size: 105
2356532 TTTAGAGTCA
*
2356542 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
2356607 GACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-CAACCATTTCTCAATTTCAGAGCC
* *
2356648 AATTTCAACTTCACAGCGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
2356713 GACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
* * *
2356753 AGTTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
2356818 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
* *
2356858 AGTTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
2356923 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
*
2356963 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
2357028 GACCACTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
* * * *
2357068 AGTTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACAACGAAGA
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
2357133 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
*
2357173 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
2357238 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
2357278 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
2357343 GACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
*
2357383 AATTTCAACTTCACAACGAAGGATATTGGACTCCCGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
2357448 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
* * * * * *
2357488 AATTTCAACTTCGCAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCAC-AGCGAAG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA-CGAAG
2357552 GG
65 GG
2357554 GCGGCTGACT
Statistics
Matches: 870, Mismatches: 35, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
104 1 0.00
105 791 0.91
106 78 0.09
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCC
Found at i:2359417 original size:2 final size:2
Alignment explanation
Indices: 2359410--2359442 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2359400 TTTTAATGTT
2359410 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2359443 TTGTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2360079 original size:4 final size:4
Alignment explanation
Indices: 2360070--2360095 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2360060 GTAATAGTAG
2360070 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
2360096 ACACACAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:2361482 original size:60 final size:58
Alignment explanation
Indices: 2361402--2361546 Score: 202
Period size: 60 Copynumber: 2.5 Consensus size: 58
2361392 GATGGATTTG
* * *
2361402 GGATTAAATTGAAATATTCAAAAGTTTAGGGATTAATTTAGAGTGAGGATTATAGTTTAA
1 GGATGAAATTGAAATATTCAAAAGTTTAGGGATTAATTTAGAATGA-GAATATAGTTT-A
*
2361462 GGATGAAATTGAAATGTTCAAAAGTTTAGGGATTAATTTAGAATGAGAATATAGTTTA
1 GGATGAAATTGAAATATTCAAAAGTTTAGGGATTAATTTAGAATGAGAATATAGTTTA
* *
2361520 GGAATGAAACTAAAATATTC-AAAGTTT
1 GG-ATGAAATTGAAATATTCAAAAGTTT
2361547 GATGATCAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
58 10 0.13
59 24 0.31
60 43 0.56
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (58 bp):
GGATGAAATTGAAATATTCAAAAGTTTAGGGATTAATTTAGAATGAGAATATAGTTTA
Found at i:2361506 original size:29 final size:29
Alignment explanation
Indices: 2361401--2361497 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
2361391 GGATGGATTT
*
2361401 GGGATTAAATTGAAATATTCAAAAGTTTA
1 GGGATTAAATTGAAATGTTCAAAAGTTTA
* * * *
2361430 GGGATTAATTTAGAGTGAGGATT--ATAGTTTA
1 GGGATTAAATT-GA--AATG-TTCAAAAGTTTA
* *
2361461 AGGATGAAATTGAAATGTTCAAAAGTTTA
1 GGGATTAAATTGAAATGTTCAAAAGTTTA
2361490 GGGATTAA
1 GGGATTAA
2361498 TTTAGAATGA
Statistics
Matches: 49, Mismatches: 13, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
27 2 0.04
28 2 0.04
29 23 0.47
30 4 0.08
31 15 0.31
32 1 0.02
33 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.34
Consensus pattern (29 bp):
GGGATTAAATTGAAATGTTCAAAAGTTTA
Found at i:2361874 original size:20 final size:20
Alignment explanation
Indices: 2361849--2361909 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
2361839 TTCTAGTAGC
2361849 CCCCTCAACAAAAGATCGAT
1 CCCCTCAACAAAAGATCGAT
* *
2361869 CCCCTCAATAAAAGATCAAT
1 CCCCTCAACAAAAGATCGAT
* * *
2361889 CCCTTCACCAAAGGATCGAT
1 CCCCTCAACAAAAGATCGAT
2361909 C
1 C
2361910 TATTGATGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.34, G:0.10, T:0.18
Consensus pattern (20 bp):
CCCCTCAACAAAAGATCGAT
Found at i:2363046 original size:63 final size:63
Alignment explanation
Indices: 2362968--2363095 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
2362958 ATGTTAAACG
2362968 GAATGGCATGATTACTTAGTGGGAGATTTGATGCTTCATCAATGTATTAATGGTTCACATTTA
1 GAATGGCATGATTACTTAGTGGGAGATTTGATGCTTCATCAATGTATTAATGGTTCACATTTA
2363031 GAATGGCATGATTACTTAGTGGGAGATTTGATGCTTCATCAATGTATTAATGGTTCACATTTA
1 GAATGGCATGATTACTTAGTGGGAGATTTGATGCTTCATCAATGTATTAATGGTTCACATTTA
2363094 GA
1 GA
2363096 GTTAAAAAGC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.38
Consensus pattern (63 bp):
GAATGGCATGATTACTTAGTGGGAGATTTGATGCTTCATCAATGTATTAATGGTTCACATTTA
Found at i:2365604 original size:36 final size:36
Alignment explanation
Indices: 2365564--2365641 Score: 156
Period size: 36 Copynumber: 2.2 Consensus size: 36
2365554 TCTTCGTCAT
2365564 CTTCATCTACCTCGTCATCCATGTTATCGCTATCAG
1 CTTCATCTACCTCGTCATCCATGTTATCGCTATCAG
2365600 CTTCATCTACCTCGTCATCCATGTTATCGCTATCAG
1 CTTCATCTACCTCGTCATCCATGTTATCGCTATCAG
2365636 CTTCAT
1 CTTCAT
2365642 GAATCTTGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.19, C:0.33, G:0.10, T:0.37
Consensus pattern (36 bp):
CTTCATCTACCTCGTCATCCATGTTATCGCTATCAG
Found at i:2366539 original size:54 final size:54
Alignment explanation
Indices: 2366453--2366576 Score: 196
Period size: 54 Copynumber: 2.3 Consensus size: 54
2366443 GTTGAACAAC
* * *
2366453 TTGTGCCTGCTGCTGCTGGTGTTGAATGTGCAATGCATGTGGC-GGTGGTTGTTG
1 TTGTGGCTGCTGCTGCTGGTGTTGAATGTGCAATGCATGTGACAGCT-GTTGTTG
*
2366507 TTGTTGCTGCTGCTGCTGGTGTTGAATGTGCAATGCATGTGACAGCTGTTGTTG
1 TTGTGGCTGCTGCTGCTGGTGTTGAATGTGCAATGCATGTGACAGCTGTTGTTG
2366561 TTGTGGCTGCTGCTGC
1 TTGTGGCTGCTGCTGC
2366577 GGTAACGACG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 62 0.97
55 2 0.03
ACGTcount: A:0.10, C:0.16, G:0.36, T:0.38
Consensus pattern (54 bp):
TTGTGGCTGCTGCTGCTGGTGTTGAATGTGCAATGCATGTGACAGCTGTTGTTG
Found at i:2369157 original size:22 final size:22
Alignment explanation
Indices: 2369117--2369158 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2369107 AAAATGGATG
*
2369117 GAGATTGAGGATGATTAAGAGA
1 GAGATTGAGGATGAATAAGAGA
2369139 GAGATTGA-GATAGAATAAGA
1 GAGATTGAGGAT-GAATAAGA
2369159 TGATGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.21
Consensus pattern (22 bp):
GAGATTGAGGATGAATAAGAGA
Found at i:2378466 original size:5 final size:5
Alignment explanation
Indices: 2378456--2378484 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2378446 CTAAAGGAAG
2378456 AACCA AACCA AACCA AACCA AACCA AACC
1 AACCA AACCA AACCA AACCA AACCA AACC
2378485 GGGGGTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.41, G:0.00, T:0.00
Consensus pattern (5 bp):
AACCA
Found at i:2384854 original size:20 final size:21
Alignment explanation
Indices: 2384829--2384921 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
2384819 TTTTCCCAAT
*
2384829 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2384849 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
2384870 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2384890 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2384911 TCGCAATGCGA
1 TCGCAATGCGA
2384922 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2384874 original size:41 final size:41
Alignment explanation
Indices: 2384829--2384921 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2384819 TTTTCCCAAT
2384829 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2384870 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2384911 TCGCAATGCGA
1 TCGCAATGCGA
2384922 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:2384934 original size:41 final size:41
Alignment explanation
Indices: 2384848--2384982 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
2384838 GAATAAGTAA
* *
2384848 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
2384889 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
2384930 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
2384971 TTCGCAACGCGA
1 ATCGCAACGCGA
2384983 TAATACATAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:2384956 original size:21 final size:20
Alignment explanation
Indices: 2384907--2384957 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2384897 GCGAATTGGG
* *
2384907 AAAATCGCAATGCGATACTG
1 AAAATCGCAATGCGATAATA
**
2384927 ACTATCGCAATGCGATAATAA
1 AAAATCGCAATGCGATAAT-A
2384948 AAAATCGCAA
1 AAAATCGCAA
2384958 CGAGATACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.20
Consensus pattern (20 bp):
AAAATCGCAATGCGATAATA
Found at i:2384983 original size:41 final size:41
Alignment explanation
Indices: 2384907--2384998 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
2384897 GCGAATTGGG
* * *
2384907 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* * *
2384948 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
*
2384989 ATAATCGCAA
1 AAAATCGCAA
2384999 TACGATTTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:2385200 original size:22 final size:22
Alignment explanation
Indices: 2385172--2385215 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2385162 CACTCTCTCA
*
2385172 CCCATCTCTGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2385194 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2385216 TATCTAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2386830 original size:18 final size:18
Alignment explanation
Indices: 2386804--2386848 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2386794 CTCCACTTCG
*
2386804 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
2386822 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
2386840 GAGCCATCA
1 GAGCCATCA
2386849 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2387370 original size:19 final size:20
Alignment explanation
Indices: 2387316--2387382 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
2387306 TAGTTTACTT
* *
2387316 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
2387336 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
2387356 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
2387375 TCGCAACG
1 TCGCAACG
2387383 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:2387390 original size:14 final size:14
Alignment explanation
Indices: 2387371--2387428 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2387361 ATGCGAAATG
*
2387371 AAAATCGCAACGAC
1 AAAATCGCAACGAA
2387385 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAA
2387401 ATGAAATCGCAACGAA
1 A--AAATCGCAACGAA
2387417 AAAATCGCAACG
1 AAAATCGCAACG
2387429 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 21 0.54
16 9 0.23
18 9 0.23
ACGTcount: A:0.50, C:0.22, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:2387413 original size:32 final size:33
Alignment explanation
Indices: 2387355--2387445 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
2387345 GGAAATGGCT
*
2387355 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
2387388 ATCGCAATGCGAAATG-AAATCGCAACGAAAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
*
2387420 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
2387446 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
Found at i:2387481 original size:14 final size:14
Alignment explanation
Indices: 2387462--2387519 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2387452 TTGTGTTTCG
2387462 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2387476 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2387492 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
2387508 CGTTGCGATTTT
1 CGTTGCGATTTT
2387520 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2387496 original size:32 final size:33
Alignment explanation
Indices: 2387457--2387535 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
2387447 GCGATTTGTG
2387457 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
2387489 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
2387522 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2387536 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:2387534 original size:19 final size:19
Alignment explanation
Indices: 2387476--2387593 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
2387466 GCGATTTTGT
2387476 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2387494 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
2387508 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
2387527 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
2387547 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2387566 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
2387586 TGTTGCGA
1 CGTTGCGA
2387594 AGTAAACTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:2387653 original size:94 final size:95
Alignment explanation
Indices: 2387547--2387735 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
2387537 GCCATTTCCG
2387547 CGTTGCGATAGTCATTTCGCGTTGCGATTTTAAGTTTCGTGTTGCG-AAGTAAACTATTCTTCTT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGAAAGTAAACTATTCTTCTT
2387611 CTGGAATGTTTATATATGTTGTCCTTTTAA
66 CTGGAATGTTTATATATGTTGTCCTTTTAA
2387641 CGTTGCGATAGTCATTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGAAAGTAAACTATTCTTCTT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGAAAGTAAACTATTCTTCTT
2387706 CTGGAATGTTTATATATGTTGTCCTTTTAA
66 CTGGAATGTTTATATATGTTGTCCTTTTAA
2387736 ATGTTTATAT
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 46 0.49
95 48 0.51
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (95 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGAAAGTAAACTATTCTTCTT
CTGGAATGTTTATATATGTTGTCCTTTTAA
Found at i:2389517 original size:19 final size:19
Alignment explanation
Indices: 2389495--2389562 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
2389485 ATCGTAACGA
*
2389495 GAAAATCGCATTGCGAAAT
1 GAAAATCGCAATGCGAAAT
2389514 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2389533 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
2389547 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
2389563 TTTTCATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 29 0.64
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:2389637 original size:20 final size:20
Alignment explanation
Indices: 2389582--2389637 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
2389572 CGCATTGCGA
* *
2389582 TTTCTCGTTGCGATAACCAT
1 TTTCGCGTTGCGATAGCCAT
2389602 TTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
2389622 TTTCGCGTTGCGATAG
1 TTTCGCGTTGCGATAG
2389638 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:2390719 original size:24 final size:23
Alignment explanation
Indices: 2390681--2390726 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
2390671 ATTCGAAATT
*
2390681 TTGGTCATACCCGGACTTTGATA
1 TTGGTCATACACGGACTTTGATA
*
2390704 TTGGTCAATACACGGATTTTGAT
1 TTGGTC-ATACACGGACTTTGAT
2390727 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCATACACGGACTTTGATA
Found at i:2390912 original size:12 final size:12
Alignment explanation
Indices: 2390895--2390919 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2390885 ATATAATCCT
2390895 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2390907 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2390919 G
1 G
2390920 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2393248 original size:33 final size:33
Alignment explanation
Indices: 2393195--2393320 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
2393185 CGGAAATACT
2393195 ATCGCAATGCG-AATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
2393227 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
2393259 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2393293 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2393321 CGAATTAATT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
32 12 0.14
33 71 0.85
34 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2393250 original size:19 final size:18
Alignment explanation
Indices: 2393195--2393325 Score: 88
Period size: 19 Copynumber: 7.8 Consensus size: 18
2393185 CGGAAATACT
2393195 ATCGCAATGCGAATGAAA
1 ATCGCAATGCGAATGAAA
*
2393213 ATCGCAA--CG-A-GAGA
1 ATCGCAATGCGAATGAAA
2393227 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCG-AATGAAA
* *
2393246 ATCGCAA--CG-CT-AAT
1 ATCGCAATGCGAATGAAA
*
2393260 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCG-AATGAAA
**
2393279 ATCGCAA--CG-A-GGGA
1 ATCGCAATGCGAATGAAA
2393293 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCG-AATGAAA
*
2393312 ATCGCAACGCGAAT
1 ATCGCAATGCGAAT
2393326 TAATTTCGCG
Statistics
Matches: 85, Mismatches: 13, Indels: 30
0.66 0.10 0.23
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 8 0.09
17 4 0.05
18 13 0.15
19 30 0.35
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (18 bp):
ATCGCAATGCGAATGAAA
Found at i:2393286 original size:66 final size:65
Alignment explanation
Indices: 2393196--2393326 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 65
2393186 GGAAATACTA
*
2393196 TCGCAATGCGAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
2393261 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCG-AATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
2393326 T
65 T
2393327 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 10 0.16
66 53 0.84
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (65 bp):
TCGCAATGCGAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:2393521 original size:14 final size:14
Alignment explanation
Indices: 2393502--2393538 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2393492 CATCAATTAA
2393502 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2393516 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2393530 ACAAATCAA
1 ACAAATCAA
2393539 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2397020 original size:20 final size:20
Alignment explanation
Indices: 2396990--2397049 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
2396980 CTTTTGGTTG
*
2396990 AAATGAAAATCACAACGAGA
1 AAATGAAAATCGCAACGAGA
* * *
2397010 TAATGAGAATCGCAACGCGA
1 AAATGAAAATCGCAACGAGA
**
2397030 AAATGACTATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
2397050 GAATCGCAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.13
Consensus pattern (20 bp):
AAATGAAAATCGCAACGAGA
Found at i:2397072 original size:33 final size:33
Alignment explanation
Indices: 2397014--2397112 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
2397004 ACGAGATAAT
*
2397014 GAGAATCGCAACGCGAAAATGACTATCGCAACGA
1 GAGAATCGCAACGCG-AAATGACTATCGCAACCA
*
2397048 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
2397081 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
2397113 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 44 0.75
34 15 0.25
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:2397106 original size:19 final size:19
Alignment explanation
Indices: 2396989--2397173 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
2396979 TCTTTTGGTT
* *
2396989 GAAATGAAAATCACAACGA
1 GAAATGAAAATCGCAACGC
*
2397008 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
2397028 GAAAATGACTATCGCAA--C
1 G-AAATGAAAATCGCAACGC
*
2397046 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
2397062 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
2397080 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2397095 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
* *
2397115 GAAATAAAAATTGCAACGC
1 GAAATGAAAATCGCAACGC
2397134 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2397153 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2397172 GA
1 GA
2397174 TTTTGGTTTC
Statistics
Matches: 135, Mismatches: 18, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
18 5 0.04
19 61 0.45
20 44 0.33
21 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2397131 original size:39 final size:38
Alignment explanation
Indices: 2397084--2397173 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
2397074 GCGACCAGAC
2397084 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
* *
2397123 AATTGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
2397161 AATCGCAATGCGA
1 AATCGCAACGCGA
2397174 TTTTGGTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 21 0.45
39 26 0.55
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:2397202 original size:19 final size:19
Alignment explanation
Indices: 2397169--2397235 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2397159 AAAATCGCAA
**
2397169 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
2397188 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
2397207 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
2397227 TGCGATTTT
1 TGCGATTTT
2397236 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:2397776 original size:20 final size:20
Alignment explanation
Indices: 2397751--2397803 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
2397741 GCACTATGTA
2397751 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
2397771 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
2397791 TATCTCGTTGCGA
1 AATCGCGTTGCGA
2397804 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:2397860 original size:21 final size:21
Alignment explanation
Indices: 2397834--2397889 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
2397824 ATAGTAAGTA
2397834 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
2397855 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
2397876 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
2397890 ACTTATTTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.16, C:0.27, G:0.18, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:2401536 original size:23 final size:23
Alignment explanation
Indices: 2401484--2401537 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
2401474 ACATTTTATA
2401484 TGGCACTTCAGTGCAATTCTACG
1 TGGCACTTCAGTGCAATTCTACG
* * * *
2401507 CGACACTTCAGTGTAATTCTACT
1 TGGCACTTCAGTGCAATTCTACG
2401530 TGGCACTT
1 TGGCACTT
2401538 TGGTGTATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (23 bp):
TGGCACTTCAGTGCAATTCTACG
Found at i:2402975 original size:23 final size:23
Alignment explanation
Indices: 2402949--2402992 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2402939 GAAGTATCAT
*
2402949 GTAGAATTGCACCGAAGTGCCGC
1 GTAGAATTACACCGAAGTGCCGC
*
2402972 GTAGAATTACACCGTAGTGCC
1 GTAGAATTACACCGAAGTGCC
2402993 ATATAAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
GTAGAATTACACCGAAGTGCCGC
Found at i:2403346 original size:25 final size:24
Alignment explanation
Indices: 2403318--2403379 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
2403308 CTTAATGCAT
* *
2403318 ATAATATGAATTCATGTCATGTATC
1 ATAATATGAATGCA-ATCATGTATC
2403343 ATAATATGAAATGCAATCATGTATC
1 ATAATATG-AATGCAATCATGTATC
*
2403368 AAAATATTGAAT
1 ATAATA-TGAAT
2403380 CTAGACTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (24 bp):
ATAATATGAATGCAATCATGTATC
Found at i:2409735 original size:23 final size:23
Alignment explanation
Indices: 2409679--2409735 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
2409669 GTATAAATGT
** *
2409679 ACCGAAGTGCCACGTAGAATTGC
1 ACCGAAGTGCTGCGTAGAATTAC
2409702 ACCGAAGTGCTGCGTAGAATTAC
1 ACCGAAGTGCTGCGTAGAATTAC
*
2409725 ACCGTAGTGCT
1 ACCGAAGTGCT
2409736 ATATAAGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (23 bp):
ACCGAAGTGCTGCGTAGAATTAC
Found at i:2412846 original size:18 final size:18
Alignment explanation
Indices: 2412820--2412854 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2412810 GGAGATCTTG
*
2412820 GTCGTTTTACACTACAAA
1 GTCGGTTTACACTACAAA
2412838 GTCGGTTTACACTACAA
1 GTCGGTTTACACTACAA
2412855 GGGCATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (18 bp):
GTCGGTTTACACTACAAA
Found at i:2419326 original size:391 final size:391
Alignment explanation
Indices: 2418588--2419371 Score: 1293
Period size: 391 Copynumber: 2.0 Consensus size: 391
2418578 TGTGGAAAAT
* *
2418588 GAGGTTGAACAAGAAGATTTTTCTGAAGCAGAATCAGCACATGATGAACAAGAACCATAGAGCTT
1 GAGGTTGAACAAGAAGATTTTTCTGAAGCAGAACCAGCACATGATGAACAAGAACCAGAGAGCTT
* ** *
2418653 TGAAGCTCCAACAACTCGTCAATCAGATCGTATGAAAAGGCGTCCCAATTGACGCTCAAATTATA
66 TGAAGCTCCAACAACTCGTCAATCAAATCGTATGAAAAAACATCCCAATTGACGCTCAAATTATA
* * *
2418718 TTATAGAATGAAATATTGCATACTACCTTTTAACAAAGGACGGTGAGCCATCAACATTCCAGGAG
131 TTATAGAAGGAAATATTGCATACTACCTTTTAAAAAAGGACAGTGAGCCATCAACATTCCAGGAG
*
2418783 GCAATAAACAGCTCAGATACTTCACTGTGGATGATGGCGATGCAAGAAGAAATTGAAGCCCTTCA
196 GCAATAAACAACTCAGATACTTCACTGTGGATGATGGCGATGCAAGAAGAAATTGAAGCCCTTCA
* *
2418848 TAAAAATAATACATGGGACCTTGTGTCACTACCACAAGGAAGGAAGCCAATTGGTAACAAATGGG
261 GAAAAATAATACATGAGACCTTGTGTCACTACCACAAGGAAGGAAGCCAATTGGTAACAAATGGG
*
2418913 TCTTCAAAATCAAGCAAAATGGTAACGATCAAGTTAAGAGGTATCGTGCAAGACAGGTGGTCAAA
326 TCTTCAAAATCAAGCAAAATGGTAAAGATCAAGTTAAGAGGTATCGTGCAAGACAGGTGGTCAAA
2418978 G
391 G
* *
2418979 GAGGTTGAACAAGGAGATTTTTCTTAAGCAGAACCAGCACATGATGAACAAGAACCAGAGAG-TT
1 GAGGTTGAACAAGAAGATTTTTCTGAAGCAGAACCAGCACATGATGAACAAGAACCAGAGAGCTT
* *
2419043 CTGAAGCTCCAACAACTCGTCAATCAAATTGTATGAAAAAACATCCCAATTGGCGCTCAAATTAT
66 -TGAAGCTCCAACAACTCGTCAATCAAATCGTATGAAAAAACATCCCAATTGACGCTCAAATTAT
* ** *
2419108 GTTATAGAAGGAAATATTGCATACTGTCTTTTAAAAAAGGACAGTGAGCCATCAACATTCCATGA
130 ATTATAGAAGGAAATATTGCATACTACCTTTTAAAAAAGGACAGTGAGCCATCAACATTCCAGGA
* *
2419173 GGCAATAAACAACTCAGATGCTTCACTGTGGATGATGGCGATGCAAGAAGAAATTGAAGCTCTTC
195 GGCAATAAACAACTCAGATACTTCACTGTGGATGATGGCGATGCAAGAAGAAATTGAAGCCCTTC
*
2419238 AGGAAAATAATACATGAGACCTTGTGTCACTACCACAAGGAAGGAAGCC-ATTGGTAACAAATGG
260 AGAAAAATAATACATGAGACCTTGTGTCACTACCACAAGGAAGGAAGCCAATTGGTAACAAATGG
* * *
2419302 GTCTTCAAAATCAAGCACAAATGGTAAAGATCAAGTTGAGAGGTATCGTGCAGGACTGGTGGTCA
325 GTCTTCAAAATCAAGCA-AAATGGTAAAGATCAAGTTAAGAGGTATCGTGCAAGACAGGTGGTCA
2419367 AAG
389 AAG
2419370 GA
1 GA
2419372 TATGTTCAAA
Statistics
Matches: 364, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
390 34 0.09
391 330 0.91
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (391 bp):
GAGGTTGAACAAGAAGATTTTTCTGAAGCAGAACCAGCACATGATGAACAAGAACCAGAGAGCTT
TGAAGCTCCAACAACTCGTCAATCAAATCGTATGAAAAAACATCCCAATTGACGCTCAAATTATA
TTATAGAAGGAAATATTGCATACTACCTTTTAAAAAAGGACAGTGAGCCATCAACATTCCAGGAG
GCAATAAACAACTCAGATACTTCACTGTGGATGATGGCGATGCAAGAAGAAATTGAAGCCCTTCA
GAAAAATAATACATGAGACCTTGTGTCACTACCACAAGGAAGGAAGCCAATTGGTAACAAATGGG
TCTTCAAAATCAAGCAAAATGGTAAAGATCAAGTTAAGAGGTATCGTGCAAGACAGGTGGTCAAA
G
Found at i:2422945 original size:141 final size:141
Alignment explanation
Indices: 2422685--2422968 Score: 421
Period size: 141 Copynumber: 2.0 Consensus size: 141
2422675 TCAAAATGCT
2422685 TGAAACTTCCATTTGCTTCACGTAAATGTTCAACTGGTGCAGGTCTCAAGCCAAAATCGTTCTTA
1 TGAAACTTCCATTTGCTTCACGTAAATGTTCAACTGGTGCAGGTCTCAAGCCAAAATCGTTCTTA
* * * * *
2422750 TCGTCAGAATTTTTCACCATTTGATTATTGATTTCCATGCTCGGAAATTTTGTAATTTCAGATTG
66 TCCTCAGAATTTTTCACCATTTGATGATCGATTTCCATGCTCGGAAACTCTGTAATTTCAGATTG
2422815 CTTTTCATTGA
131 CTTTTCATTGA
* * *
2422826 TGAAAGTTCCATTTGCTTCATGTAAATGTTCAACTGGTGCAGG-CGTCGAA-CCAAAATCTTTCT
1 TGAAACTTCCATTTGCTTCACGTAAATGTTCAACTGGTGCAGGTC-TC-AAGCCAAAATCGTTCT
* * *
2422889 TATCCTCGGAATTTTTCACCATTTGATGATCGATTTCCGTGCTCTGG-AGCTCTGTAATTTCAGA
64 TATCCTCAGAATTTTTCACCATTTGATGATCGATTTCCATGCTC-GGAAACTCTGTAATTTCAGA
2422953 TTGCTTTTCATTGA
128 TTGCTTTTCATTGA
2422967 TG
1 TG
2422969 GATTCAGTGC
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
140 1 0.01
141 124 0.96
142 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (141 bp):
TGAAACTTCCATTTGCTTCACGTAAATGTTCAACTGGTGCAGGTCTCAAGCCAAAATCGTTCTTA
TCCTCAGAATTTTTCACCATTTGATGATCGATTTCCATGCTCGGAAACTCTGTAATTTCAGATTG
CTTTTCATTGA
Found at i:2426113 original size:15 final size:17
Alignment explanation
Indices: 2426092--2426145 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 17
2426082 AAAAAACATT
2426092 TTATTATATTA-TATTA
1 TTATTATATTATTATTA
2426108 -TATTAT-TTATTATTA
1 TTATTATATTATTATTA
* *
2426123 TTATTAATATTTTTATTT
1 TTATT-ATATTATTATTA
2426141 TTATT
1 TTATT
2426146 TTTTATAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 3 0.09
15 11 0.34
16 4 0.12
17 2 0.06
18 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTATATTATTATTA
Found at i:2426114 original size:3 final size:3
Alignment explanation
Indices: 2426092--2426145 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
2426082 AAAAAACATT
* *
2426092 TTA TTA -TA TTA -TA TTA -TA TTA TTTA TTA TTA TTA TTA ATA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
2426135 TTA TTT TTA TT
1 TTA TTA TTA TT
2426146 TTTTATAGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
2 6 0.15
3 32 0.78
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2426114 original size:13 final size:14
Alignment explanation
Indices: 2426092--2426144 Score: 58
Period size: 13 Copynumber: 3.9 Consensus size: 14
2426082 AAAAAACATT
2426092 TTATTA-TATTATA
1 TTATTATTATTATA
2426105 TTA-TATTATT-TA
1 TTATTATTATTATA
2426117 TTATTATTATTAATA
1 TTATTATTATT-ATA
* *
2426132 TTTTTATTTTTAT
1 TTATTATTATTAT
2426145 TTTTTATAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 7 0.21
13 14 0.41
14 2 0.06
15 11 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:2430780 original size:110 final size:106
Alignment explanation
Indices: 2430618--2430821 Score: 363
Period size: 110 Copynumber: 1.9 Consensus size: 106
2430608 GATGGTAGTT
2430618 GCTCAACTTCACAGCGAAGGGGTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 GCTCAACTTCACAGCGAAGGGGTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
*
2430683 TCAACTTCATAGCGAAGGATATTAGACTCGAGACAACACAA
66 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAA
2430724 GCTCAACTTCACAGCGAAGGGGCAACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGG----TGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
2430789 AATTTCAACTTCACAGCGAAGGATATTAGACTC
62 AATTTCAACTTCACAGCGAAGGATATTAGACTC
2430822 AAAATGACAC
Statistics
Matches: 93, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
106 22 0.24
110 71 0.76
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (106 bp):
GCTCAACTTCACAGCGAAGGGGTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAA
Found at i:2431231 original size:124 final size:122
Alignment explanation
Indices: 2431090--2431561 Score: 398
Period size: 124 Copynumber: 3.8 Consensus size: 122
2431080 TACAACTTAT
* *
2431090 TTGGATTTCAACTTCACGACGAAGGATATCCAATTTCAA-GCTCAACTTCACGACGAAGGGGCCA
1 TTGGATTTCAACTTCACGAAGAAGGATATCCAA-TTCAAGGCTCAACTTCACAACGAAGGGGCCA
* * *
2431154 CCCGCGGTTTCAACTTCACGACGAAGGGAATCATGTATACAAGCAGCATACATCTCTAGA
65 CCCGCGGTTTCAACTTCACGACGAAGGGAATCATGT-CACTAGCAACATACATCT-TAGA
* * * *** * * * ****
2431214 TTGGATTTCAACTTCACGAAAAAGGATATCTAACTTAAATAAT-AAGTGTCTGTCAACAAACTTT
1 TTGGATTTCAACTTCACGAAGAAGGATATCCAA-TTCAAGGCTCAACT-TC--ACAACGAAGGGG
** ** * * * * *
2431278 CCAGTTTCAGAGTCAATTTCAACTTCACAACGAA-GG-AT-ATTGGC-CTCGGAACATCACAACT
62 CCA----C-CCG-CGGTTTCAACTTCACGACGAAGGGAATCA-TGTCACTAGCAACAT-ACATCT
*
2431339 TACA
119 TAGA
* * * *
2431343 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCAT
1 TTGGATTTCAACTTCACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAC
* *
2431408 CCACGGTTTCAACTTCACGACGAAGGGAATCATGCTCACTAGCAACATTCATCTTTAGA
66 CCGCGGTTTCAACTTCACGACGAAGGGAATCATG-TCACTAGCAACATACATC-TTAGA
* ** *
2431467 TTTGATTTCAACTTCACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGTTCCAT
1 TTGGATTTCAACTTCACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAC
*
2431532 CCGCGGTTTCAACTGCACGACGAAGGGAAT
66 CCGCGGTTTCAACTTCACGACGAAGGGAAT
2431562 TGTACCCACC
Statistics
Matches: 265, Mismatches: 64, Indels: 38
0.72 0.17 0.10
Matches are distributed among these distances:
120 18 0.07
121 2 0.01
122 4 0.02
123 5 0.02
124 136 0.51
125 3 0.01
126 8 0.03
127 8 0.03
128 7 0.03
129 42 0.16
130 6 0.02
131 5 0.02
132 3 0.01
133 18 0.07
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (122 bp):
TTGGATTTCAACTTCACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAC
CCGCGGTTTCAACTTCACGACGAAGGGAATCATGTCACTAGCAACATACATCTTAGA
Found at i:2431388 original size:253 final size:253
Alignment explanation
Indices: 2431023--2431496 Score: 695
Period size: 253 Copynumber: 1.9 Consensus size: 253
2431013 ACGAAGAGGC
** *
2431023 TTCCTAGTTTCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTCGAAATAATACAACTT
1 TTCCTAGTTTCAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTCGAAATAATACAACTT
* *
2431088 ATTTGGATTTCAACTTCACGACGAAGGATATCCAATTTCAAGCTCAACTTCACGACGAAGGGGCC
66 AATTGGATTTCAACTTCACGACGAAGGATATCCAATTTCAAGCTCAACTTCACAACGAAGGGGCC
* * *
2431153 ACCCGCGGTTTCAACTTCACGACGAAGGGAATCATG-TATACAAGCAGCATACATCTCTAGATTG
131 ACCCACGGTTTCAACTTCACGACGAAGGGAATCATGCT-CACAAGCAACATACATCTCTAGATTG
2431217 GATTTCAACTTCACGAAAAAGGATATCTAACTTAAATAATAAGTGTCTGTCAACAAACT
195 GATTTCAACTTCACGAAAAAGGATATCTAACTTAAATAATAAGTGTCTGTCAACAAACT
** * * *
2431276 TTCC-AGTTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGCCTCGGAA-CATCACAACT
1 TTCCTAGTTTCAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTCGAAATAAT-ACAACT
*
2431339 TACATTGGATTTCAACTTCACGACGAAGGATATCCAA-TTCAAGGCTCAACTTCACAACGAATGG
65 TA-ATTGGATTTCAACTTCACGACGAAGGATATCCAATTTCAA-GCTCAACTTCACAACGAAGGG
* * * * *
2431403 GTCATCCACGGTTTCAACTTCACGACGAAGGGAATCATGCTCACTAGCAACATTCATCTTTAGAT
128 GCCACCCACGGTTTCAACTTCACGACGAAGGGAATCATGCTCACAAGCAACATACATCTCTAGAT
* *
2431468 TTGATTTCAACTTCACGAAGAAGGATATC
193 TGGATTTCAACTTCACGAAAAAGGATATC
2431497 CAATTCAAGG
Statistics
Matches: 196, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
251 2 0.01
252 55 0.28
253 138 0.70
254 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (253 bp):
TTCCTAGTTTCAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTCGAAATAATACAACTT
AATTGGATTTCAACTTCACGACGAAGGATATCCAATTTCAAGCTCAACTTCACAACGAAGGGGCC
ACCCACGGTTTCAACTTCACGACGAAGGGAATCATGCTCACAAGCAACATACATCTCTAGATTGG
ATTTCAACTTCACGAAAAAGGATATCTAACTTAAATAATAAGTGTCTGTCAACAAACT
Found at i:2431576 original size:124 final size:124
Alignment explanation
Indices: 2431346--2431586 Score: 376
Period size: 124 Copynumber: 1.9 Consensus size: 124
2431336 ACTTACATTG
*
2431346 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCA
1 GATTTCAACTTCACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCA
* * * *
2431411 CGGTTTCAACTTCACGACGAAGGGAATCATGCTCACTAGCAACATTCATCTTTAGATTT
66 CGGTTTCAACTGCACGACGAAGGGAATCATACCCACCAGCAACATTCATCTTTAGATTT
*
2431470 GATTTCAACTTCACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA-GGTTCCATCC
1 GATTTCAACTTCACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGT-CATCC
* ** *
2431534 GCGGTTTCAACTGCACGACGAAGGGAATTGTACCCACCAGCAATATTCATCTT
65 ACGGTTTCAACTGCACGACGAAGGGAATCATACCCACCAGCAACATTCATCTT
2431587 CAAGAACAAG
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
123 3 0.03
124 103 0.97
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (124 bp):
GATTTCAACTTCACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCA
CGGTTTCAACTGCACGACGAAGGGAATCATACCCACCAGCAACATTCATCTTTAGATTT
Done.