Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 157 of 211
Found at i:46492187 original size:89 final size:89
Alignment explanation
Indices: 46491981--46492188 Score: 229
Period size: 89 Copynumber: 2.3 Consensus size: 89
46491971 ACGAGAAAGT
* * * * **
46491981 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAATAGATCTTGTCTTCATGTATT
1 AGATCCTGCCTTCCCATACTAGTAGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC
** *
46492046 GGCGTGAAGTAGATCAGAGATACC
66 GGCGTGAAACAGATCAAAGATACC
* * * * *
46492070 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTTTTCATGTACC
1 AGATCCTGCCTTCCCATACTAGTAGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC
**
46492135 GGCGTGAAACAGATCAAAGATAGT
66 GGCGTGAAACAGATCAAAGATACC
* * *
46492159 AGGTCCTGTCTTCCTATA-TCAGTAGCGAAG
1 AGATCCTGCCTTCCCATACT-AGTAGCGAAG
46492189 TGGATCGAAT
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 1 0.01
89 101 0.99
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (89 bp):
AGATCCTGCCTTCCCATACTAGTAGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC
GGCGTGAAACAGATCAAAGATACC
Found at i:46495214 original size:27 final size:27
Alignment explanation
Indices: 46495163--46495214 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
46495153 AGAATAATAA
* *
46495163 ATTTTATATACAATAAATATTTTAATT
1 ATTTTATATAAAATAAATATATTAATT
* *
46495190 ATTTTATATAAAATAACTCTATTAA
1 ATTTTATATAAAATAAATATATTAA
46495215 ATATATATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTTATATAAAATAAATATATTAATT
Found at i:46496174 original size:3 final size:3
Alignment explanation
Indices: 46496166--46496195 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
46496156 TTAGTGCCGG
46496166 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46496196 TTGTTTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:46497519 original size:18 final size:18
Alignment explanation
Indices: 46497466--46497520 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
46497456 AATATTTTTA
*
46497466 TATTATTTAATTTTAATATAT
1 TATTTTTTAA-TTT-ATA-AT
46497487 TATTCTTTT--TTTATAAT
1 TATT-TTTTAATTTATAAT
46497504 TATTTTTTAATTTATAA
1 TATTTTTTAATTTATAA
46497521 AACTTCGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
16 4 0.13
17 6 0.20
18 10 0.33
19 3 0.10
21 4 0.13
22 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTTTAATTTATAAT
Found at i:46499501 original size:19 final size:18
Alignment explanation
Indices: 46499474--46499509 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
46499464 AATTTGAAAC
46499474 AAAACAGAAAATTTTGGT
1 AAAACAGAAAATTTTGGT
46499492 AAAACTAGAAAATTTTGG
1 AAAAC-AGAAAATTTTGG
46499510 AAATAAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.28
Consensus pattern (18 bp):
AAAACAGAAAATTTTGGT
Found at i:46505090 original size:51 final size:50
Alignment explanation
Indices: 46505029--46505235 Score: 181
Period size: 51 Copynumber: 4.1 Consensus size: 50
46505019 GCACGGATTG
**
46505029 TGTGTAGGCTACTATGTAAAAGTGAAAGTGAT-GGTCACGTGTGTAGTACTA
1 TGTGTAGGCTACTATGT-ACCG-GAAAGTGATAGGTCACGTGTGTAGTACTA
* *
46505080 TGTGTAGGCTACTACGTGTACCGG-AA-TGATAGGTCGCATGTGTAGTACTA
1 TGTGTAGGCTACTA--TGTACCGGAAAGTGATAGGTCACGTGTGTAGTACTA
* * * * *
46505130 TGTGCAGGCTACTATGCGTACCGGATAGT-TTCGATCACGTGTGTAGTACTA
1 TGTGTAGGCTACTAT--GTACCGGAAAGTGATAGGTCACGTGTGTAGTACTA
* ** * *
46505181 TGTGTAGGCTACTACGTGTATCGGATGGTAAT-GGTCACATGTGTAGTACTA
1 TGTGTAGGCTACTA--TGTACCGGAAAGTGATAGGTCACGTGTGTAGTACTA
46505232 TGTG
1 TGTG
46505236 AACCGAACAT
Statistics
Matches: 129, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
48 1 0.01
49 4 0.03
50 39 0.30
51 77 0.60
52 4 0.03
53 4 0.03
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32
Consensus pattern (50 bp):
TGTGTAGGCTACTATGTACCGGAAAGTGATAGGTCACGTGTGTAGTACTA
Found at i:46505306 original size:45 final size:45
Alignment explanation
Indices: 46505237--46505331 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
46505227 TACTATGTGA
* *
46505237 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
46505282 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
46505327 ACCGA
1 ACCGA
46505332 GTATCTGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:46507338 original size:16 final size:17
Alignment explanation
Indices: 46507273--46507340 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 17
46507263 GACCAGTTAA
46507273 CGGAGGTGGCGAGCTAG
1 CGGAGGTGGCGAGCTAG
* *
46507290 CGGA-ATGGTGAGCTAG
1 CGGAGGTGGCGAGCTAG
** *
46507306 TAGAGTTGGCGAGCTAG
1 CGGAGGTGGCGAGCTAG
46507323 CGGAGGTGGC-AGCTAG
1 CGGAGGTGGCGAGCTAG
46507339 CG
1 CG
46507341 AAGTGACAAG
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 20 0.49
17 21 0.51
ACGTcount: A:0.21, C:0.16, G:0.47, T:0.16
Consensus pattern (17 bp):
CGGAGGTGGCGAGCTAG
Found at i:46509234 original size:17 final size:17
Alignment explanation
Indices: 46509209--46509287 Score: 79
Period size: 17 Copynumber: 4.7 Consensus size: 17
46509199 AGTTAGCAGA
* *
46509209 GTGGTGAGCTAGTGAAG
1 GTGGCGAGCTAGCGAAG
* *
46509226 GTGGCGAGCTAGTGGAG
1 GTGGCGAGCTAGCGAAG
* *
46509243 TTGGCGAACTAGCGAAG
1 GTGGCGAGCTAGCGAAG
* *
46509260 GTGGTGAGCTAGCGGA-
1 GTGGCGAGCTAGCGAAG
46509276 GTGGCGAGCTAG
1 GTGGCGAGCTAG
46509288 AAGAGGTTGC
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 11 0.22
17 40 0.78
ACGTcount: A:0.22, C:0.13, G:0.47, T:0.19
Consensus pattern (17 bp):
GTGGCGAGCTAGCGAAG
Found at i:46509269 original size:34 final size:33
Alignment explanation
Indices: 46509202--46509287 Score: 100
Period size: 34 Copynumber: 2.6 Consensus size: 33
46509192 TATGGTGAGT
* * * *
46509202 TAGCAGAGTGGTGAGCTAGTGAAGGTGGCGAGC
1 TAGCGGAGTGGCGAACTAGCGAAGGTGGCGAGC
* *
46509235 TAGTGGAGTTGGCGAACTAGCGAAGGTGGTGAGC
1 TAGCGGAG-TGGCGAACTAGCGAAGGTGGCGAGC
*
46509269 TAGCGGAGTGGCGAGCTAG
1 TAGCGGAGTGGCGAACTAG
46509288 AAGAGGTTGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 16 0.36
34 28 0.64
ACGTcount: A:0.23, C:0.13, G:0.45, T:0.19
Consensus pattern (33 bp):
TAGCGGAGTGGCGAACTAGCGAAGGTGGCGAGC
Found at i:46509305 original size:50 final size:51
Alignment explanation
Indices: 46509209--46509308 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 51
46509199 AGTTAGCAGA
* **
46509209 GTGGTGAGCTAGTGAAGGTGGCGAGCTAGTGGAGTTGGCGAACTAGCGAAG
1 GTGGTGAGCTAGCGAAGGTGGCGAGCTAGAAGAGTTGGCGAACTAGCGAAG
*
46509260 GTGGTGAGCTAGCGGA-GTGGCGAGCTAGAAGAGGTT-GC-AAGCTAGCGAA
1 GTGGTGAGCTAGCGAAGGTGGCGAGCTAGAAGA-GTTGGCGAA-CTAGCGAA
46509309 CGCTAGCGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
49 2 0.05
50 24 0.56
51 17 0.40
ACGTcount: A:0.25, C:0.13, G:0.44, T:0.18
Consensus pattern (51 bp):
GTGGTGAGCTAGCGAAGGTGGCGAGCTAGAAGAGTTGGCGAACTAGCGAAG
Found at i:46509821 original size:23 final size:23
Alignment explanation
Indices: 46509771--46509823 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
46509761 AAAATTAGGT
46509771 GAGTTGTACAGCAAAACTTTGAC
1 GAGTTGTACAGCAAAACTTTGAC
*
46509794 TAGTTGTACAGCGAAAA-TTT-AGC
1 GAGTTGTACAGC-AAAACTTTGA-C
46509817 GAGTTGT
1 GAGTTGT
46509824 GCTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 21 0.81
24 4 0.15
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (23 bp):
GAGTTGTACAGCAAAACTTTGAC
Found at i:46510200 original size:108 final size:107
Alignment explanation
Indices: 46510063--46510580 Score: 429
Period size: 108 Copynumber: 4.8 Consensus size: 107
46510053 AAGATTCTGG
** *
46510063 AAATCTTGTAAGTATAAGGCTGAAATCTTAAATCAGTGAGCTGCAAGATTCAAAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAAT-AG-GAACTGCAAGATTCAAAAAATCTTGTAA
* * *
46510128 GTATAAGGTTGCGATCTTAAATTGGA-GAGCCATAGGATT-TAGA
64 GTATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGA-A
* * * * ** *
46510171 AAATCTTATAAGTATAAGGTTGCGGTCTTAAATTGGCAAACCACAA-ATTCAGAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG--AACTGCAAGATTCAAAAAATCTTGTAA
* * * * * *
46510235 GGATAAGGCTACGATCTTAAATT-GACGAGTCGCAAGATTTGAA
64 GTATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA
** * * * *
46510278 AAATCTTGTATCTATAAGGGTGTGATCGTAAATTGGCAACTTGCAAGATTCAAAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG-AAC-TGCAAGATTCAAAAAATCTTGTAA
* * * * *
46510343 GTATAAGGCTT-TGATATTAAA-TCGACAAGCTACAAGATTCGAA
64 GTATAAGG-TTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA
* * * * * *
46510386 AAATCTTGTAAGTATAAGGTTGTGATCTTAAATAGGAAAATTGTAGGATTCAAAAAATCTTATAA
1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG--AACTGCAAGATTCAAAAAATCTTGTAA
* * * *
46510451 GTATAAGGTTGCAATTTTAAATTGG-CAAGCCGCAAGATTCGAA
64 GTATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA
* * * * * * *
46510494 AAATCTTTTAAATATAAAGCTACGATCTTAAATCGGCGACTGTCGAGATTCAAAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG-AACTG-CAAGATTCAAAAAATCTTGTAA
** *
46510559 GTATAAGACTGCAATCTTAAAT
64 GTATAAGGTTGCGATCTTAAAT
46510581 CGATGAGCCA
Statistics
Matches: 327, Mismatches: 71, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
106 6 0.02
107 86 0.26
108 230 0.70
109 5 0.02
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (107 bp):
AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGGAACTGCAAGATTCAAAAAATCTTGTAAGT
ATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA
Found at i:46510582 original size:54 final size:54
Alignment explanation
Indices: 46510030--46510580 Score: 372
Period size: 54 Copynumber: 10.2 Consensus size: 54
46510020 ATGAGAAAGT
** * ***
46510030 TGCGATCTTAAACCGACAACTG-CAAGATTCTGGAAATCTTGTAAGTATAAGGC
1 TGCGATCTTAAATTGGCAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC
** * * *
46510083 TGAAATCTTAAATCAGTG-AGCTG-CAAGATTCAAAAAATCTTGTAAGTATAAGGT
1 TGCGATCTTAAAT-TG-GCAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC
* * * * *
46510137 TGCGATCTTAAATTGG-AGA--GCCATAGGATTTAGAAAATCTTATAAGTATAAGGT
1 TGCGATCTTAAATTGGCA-ACTGTCA-A-GATTCAAAAAATCTTGTAAGTATAAGGC
* ** * *
46510191 TGCGGTCTTAAATTGGCAAAC-CACAA-ATTCAGAAAATCTTGTAAGGATAAGGC
1 TGCGATCTTAAATTGGC-AACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC
* * * * ** ** *
46510244 TACGATCTTAAATTGACGAGTCG-CAAGATTTGAAAAATCTTGTATCTATAAGGG
1 TGCGATCTTAAATTGGCAACT-GTCAAGATTCAAAAAATCTTGTAAGTATAAGGC
* *
46510298 TGTGATCGTAAATTGGCAACT-TGCAAGATTCAAAAAATCTTGTAAGTATAAGGC
1 TGCGATCTTAAATTGGCAACTGT-CAAGATTCAAAAAATCTTGTAAGTATAAGGC
** * * * * * *
46510352 TTTGATATTAAATCGACAAGCT-ACAAGATTCGAAAAATCTTGTAAGTATAAGGT
1 TGCGATCTTAAATTGGCAA-CTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC
* * * * * * *
46510406 TGTGATCTTAAATAGGAAAATTGT-AGGATTCAAAAAATCTTATAAGTATAAGGT
1 TGCGATCTTAAATTGG-CAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC
* * * * * * *
46510460 TGCAATTTTAAATTGGCAAGCCG-CAAGATTCGAAAAATCTTTTAAATATAAAGC
1 TGCGATCTTAAATTGGCAA-CTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC
* * * * *
46510514 TACGATCTTAAATCGGCGACTGTCGAGATTCAAAAAATCTTGTAAGTATAAGAC
1 TGCGATCTTAAATTGGCAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC
*
46510568 TGCAATCTTAAAT
1 TGCGATCTTAAAT
46510581 CGATGAGCCA
Statistics
Matches: 385, Mismatches: 93, Indels: 39
0.74 0.18 0.08
Matches are distributed among these distances:
51 1 0.00
52 5 0.01
53 56 0.15
54 314 0.82
55 6 0.02
56 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (54 bp):
TGCGATCTTAAATTGGCAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC
Found at i:46510731 original size:29 final size:28
Alignment explanation
Indices: 46510698--46510779 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 28
46510688 GTAAGTAGCT
* *
46510698 AATTGAGCGAAGAAGAAAACCATGGAGTG
1 AATTGAG-GAAGGAGAAAATCATGGAGTG
46510727 AATTGAGGGAAGGAGAAAATCATGGAGTG
1 AATTGA-GGAAGGAGAAAATCATGGAGTG
46510756 AATTGAGGAAAGGAGAAAATCATG
1 AATTGAGG-AAGGAGAAAATCATG
46510780 CCATTTTCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.04
29 46 0.94
30 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.33, T:0.16
Consensus pattern (28 bp):
AATTGAGGAAGGAGAAAATCATGGAGTG
Found at i:46512216 original size:3 final size:3
Alignment explanation
Indices: 46512208--46512241 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
46512198 AAGATGAAAC
*
46512208 TAA TAA TAA TTAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
46512242 CACTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:46514254 original size:218 final size:217
Alignment explanation
Indices: 46513758--46514594 Score: 1248
Period size: 218 Copynumber: 3.8 Consensus size: 217
46513748 CTAGTCGGCC
46513758 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* *
46513823 ACTACAACCTCAGGGTGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA
66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA
* * ** * * *
46513888 GATTTGCTTCTTC-AGTCTGCCTCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGC
131 GATTTGCATCTTCGA-TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGC
* * *
46513952 TCCACTGCAACCTCAGGGAGATA
195 TCCGCTGCAACTTTAGGGAGATA
* * * *
46513975 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTTC
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* ** * *
46514040 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTATAACTTCAGGGAGATAA
66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA
*
46514105 GATTTGTCATCTTCGATCTGCCCCACTGCAACTTC-AGGGTGATAAAACCTGCTTACTCAGTCTG
131 GATTTG-CATCTTCGATCTGCCCCACTGCAACTTCAAGGG-GATAAGACCTGCTTACTCAGTCTG
46514169 CTCCGCTGCAACTTTAGGGAGATA
194 CTCCGCTGCAACTTTAGGGAGATA
* *
46514193 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAATATCTATTACTTTAATCCGCTCT
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* * * * *
46514258 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAAATCA
66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA
* * *
46514323 GATTTGTCATCTTCGGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTACTTACTTAGTCTGC
131 GATTTG-CATCTTCGATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGC
46514388 TCCGCTGCAACTTTAGGGAGATA
195 TCCGCTGCAACTTTAGGGAGATA
*
46514411 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAAATCTATTACTTTAATCCGCTCC
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* * *
46514476 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCC-CTGCAACCTCAGGGAGACAA
66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA
* * * *
46514540 GATTTGCTTTCTTCGATCAGCCCCACTGCAACTTTAGGGGGATAAGACCTGCTTA
131 GATTTGC-ATCTTCGATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTA
46514595 ATAAACTGAA
Statistics
Matches: 565, Mismatches: 50, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
216 1 0.00
217 191 0.34
218 368 0.65
219 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (217 bp):
AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA
GATTTGCATCTTCGATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCT
CCGCTGCAACTTTAGGGAGATA
Found at i:46514519 original size:44 final size:44
Alignment explanation
Indices: 46513779--46514586 Score: 383
Period size: 44 Copynumber: 18.5 Consensus size: 44
46513769 GATCCACTCT
* * *
46513779 ACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TATCTACTTCAATCTGCTCC
* * * * * *
46513823 ACTACAACCTCAGGGTGATAGGATTATCGACTTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
* * * *
46513867 ACTGCAACCTCAGGGAAATAAGATT-TGCTTCTTCAGTCTGC-CTC
1 ACTGCAACTTCAGGGAGATAAGATTAT-CTACTTCAATCTGCTC-C
** * * * *
46513911 ACTGTGACTTCAAGGG-GATAAGACTTGTTTTC-TCAGTCTGCTCC
1 ACTGCAACTTC-AGGGAGATAAGA-TTATCTACTTCAATCTGCTCC
* * * * * *
46513955 ACTGCAACCTCAGGGAGATAAG---ACCTGA-TGCGATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATTATCT-ACTTCAATCTGCTCC
* * * * *
46513996 ACTGTAACTTCAGAGAGATAAGATCTAT-TACTTTAATCCGCTTC
1 ACTGCAACTTCAGGGAGATAAGAT-TATCTACTTCAATCTGCTCC
* * ** *
46514040 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
** * * *
46514084 ACTATAACTTCAGGGAGATAAGATT-TGTCATCTTCGATCTGCCCC
1 ACTGCAACTTCAGGGAGATAAGATTATCT-A-CTTCAATCTGCTCC
* * * * *
46514129 ACTGCAACTTCAGGGTGATAAAACCT-GCTTAC-TCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTATC-TACTTCAATCTGCTCC
* * * * * * ** *
46514173 GCTGCAACTTTAGGGAGATAAGACT-T-GA-TGCGATCCACTCT
1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
* * * * *
46514214 ACTGCAACTTCAGAGAGATAATATCTAT-TACTTTAATCCGCTCT
1 ACTGCAACTTCAGGGAGATAAGAT-TATCTACTTCAATCTGCTCC
* * **
46514258 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
* * * * ** *
46514302 ACTGTAACTTCAGGGAAATCAGATT-TGTCATCTTCGGTCTGCCCC
1 ACTGCAACTTCAGGGAGATAAGATTATCT-A-CTTCAATCTGCTCC
* *
46514347 ACTGCAACTTCAAGGG-GATAAGACCTA-CTTACTT-AGTCTGCTCC
1 ACTGCAACTTC-AGGGAGATAAGA-TTATC-TACTTCAATCTGCTCC
* * * * * * ** *
46514391 GCTGCAACTTTAGGGAGATAAGACT-T-GA-TGCGATCCACTCT
1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
* * * *
46514432 ACTGCAACTTCAGAGAGATAAAATCTAT-TACTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TATCTACTTCAATCTGCTCC
* * *
46514476 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
* * * * * *
46514520 -CTGCAACCTCAGGGAGACAAGATT-TGCTTTCTTCGATCAGCCCC
1 ACTGCAACTTCAGGGAGATAAGATTAT-C-TACTTCAATCTGCTCC
* *
46514564 ACTGCAACTTTAGGGGGATAAGA
1 ACTGCAACTTCAGGGAGATAAGA
46514587 CCTGCTTAAT
Statistics
Matches: 561, Mismatches: 162, Indels: 81
0.70 0.20 0.10
Matches are distributed among these distances:
40 2 0.00
41 77 0.14
42 3 0.01
43 54 0.10
44 325 0.58
45 89 0.16
46 9 0.02
47 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
Found at i:46514568 original size:435 final size:435
Alignment explanation
Indices: 46513758--46514594 Score: 1300
Period size: 435 Copynumber: 1.9 Consensus size: 435
46513748 CTAGTCGGCC
46513758 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
*
46513823 ACTACAACCTCAGGGTGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA
66 ACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA
* * ** * ** *
46513888 GATTTGCTTCTTCAGTCTGCCTCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCT
131 GATTTGCATCTTCAGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTACTTACTCAGTCTGCT
* * *
46513953 CCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
196 CCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAA
* *
46514018 ATCTATTACTTTAATCCGCTTCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTC
261 ATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTC
* * * * *
46514083 CACTATAACTTCAGGGAGATAAGATTTGTCATCTTCGATCTGCCCCACTGCAACTTCAGGGTGAT
326 CACTACAACCTCAGGGAGACAAGATTTGTCATCTTCGATCAGCCCCACTGCAACTTCAGGGGGAT
46514148 AAAACCTGCTTACTCAGTCTGCTCCGCTGCAACTTTAGGGAGATA
391 AAAACCTGCTTACTCAGTCTGCTCCGCTGCAACTTTAGGGAGATA
* *
46514193 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAATATCTATTACTTTAATCCGCTCT
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* * * * * *
46514258 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAAATCA
66 ACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA
* *
46514323 GATTTGTCATCTTCGGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTACTTACTTAGTCTGC
131 GATTTG-CATCTTCAGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTACTTACTCAGTCTGC
* * * *
46514388 TCCGCTGCAACTTTAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAA
195 TCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAA
*
46514453 AATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCT
260 AATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACT
* * *
46514518 CC-CTGCAACCTCAGGGAGACAAGATTTG-CTTTCTTCGATCAGCCCCACTGCAACTTTAGGGGG
325 CCACTACAACCTCAGGGAGACAAGATTTGTC-ATCTTCGATCAGCCCCACTGCAACTTCAGGGGG
*
46514581 ATAAGACCTGCTTA
389 ATAAAACCTGCTTA
46514595 ATAAACTGAA
Statistics
Matches: 362, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
434 1 0.00
435 191 0.53
436 170 0.47
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (435 bp):
AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
ACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA
GATTTGCATCTTCAGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTACTTACTCAGTCTGCT
CCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAA
ATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTC
CACTACAACCTCAGGGAGACAAGATTTGTCATCTTCGATCAGCCCCACTGCAACTTCAGGGGGAT
AAAACCTGCTTACTCAGTCTGCTCCGCTGCAACTTTAGGGAGATA
Found at i:46516683 original size:16 final size:17
Alignment explanation
Indices: 46516650--46516683 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
46516640 ATATTATGAA
46516650 AATAAAACTAGAATAAT
1 AATAAAACTAGAATAAT
46516667 AATAAAACTAG-ATAAT
1 AATAAAACTAGAATAAT
46516683 A
1 A
46516684 TTCTAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AATAAAACTAGAATAAT
Found at i:46520525 original size:29 final size:29
Alignment explanation
Indices: 46520485--46520641 Score: 181
Period size: 29 Copynumber: 5.4 Consensus size: 29
46520475 TCATCGACCA
* * *
46520485 ATGAAAGGGGATAGTTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * * *
46520514 ATGAAAAGGGAT-GGTGACGACCATCAAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
46520543 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * *
46520572 ATGAAACGAGATAGCTTCAACTAGCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
*
46520601 ATGAAAAGGGATAGCTCCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
46520630 ATGAAAAGGGAT
1 ATGAAAAGGGAT
46520642 GGTGACGACC
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.02
29 101 0.96
30 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGATT
Found at i:46520554 original size:58 final size:58
Alignment explanation
Indices: 46520485--46520728 Score: 231
Period size: 58 Copynumber: 4.2 Consensus size: 58
46520475 TCATCGACCA
* * *
46520485 ATGAAAGGGGATAGTTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT
* * * * * * * * *
46520543 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAACGAGATAGCT-TCAACTAGCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGAT-GGTGACGACCATCAAAT
* *
46520601 ATGAAAAGGGATAGCTCCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT
* * * * * * *** *
46520659 ATCAAAAGGAAT-GGTGACGACCATCGATTAATGAAAAAGGATGGTTTTGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT-ATGAAAAGGGATGGTGACGACCATCAAAT
46520718 ATGAAAAGGGA
1 ATGAAAAGGGA
46520729 CGGTTACGAC
Statistics
Matches: 147, Mismatches: 35, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
57 4 0.03
58 109 0.74
59 34 0.23
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT
Found at i:46520650 original size:29 final size:28
Alignment explanation
Indices: 46520507--46520742 Score: 175
Period size: 29 Copynumber: 8.1 Consensus size: 28
46520497 AGTTTCGGCT
46520507 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGT-ACGACC
* * * * *
46520536 ATCAAATATGAAAAGGGATAGCTTCGACT
1 ATCGATTATGAAAAGGGAT-GGTACGACC
* * * * * *
46520565 ATCGATTATGAAACGAGATAGCTTCAACT
1 ATCGATTATGAAAAGGGAT-GGTACGACC
* * * *
46520594 AGCGATTATGAAAAGGGATAGCTCCGACT
1 ATCGATTATGAAAAGGGAT-GGTACGACC
46520623 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGT-ACGACC
* * * *
46520652 ATCAACTATCAAAAGGAATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGT-ACGACC
* **
46520681 ATCGATTAATGAAAAAGGATGGTTTTGACC
1 ATCGATT-ATGAAAAGGGATGG-TACGACC
* *
46520711 ATCGAATATGAAAAGGGACGGTTACGACC
1 ATCGATTATGAAAAGGGATGG-TACGACC
46520740 ATC
1 ATC
46520743 ATTTAGCACA
Statistics
Matches: 168, Mismatches: 35, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
28 2 0.01
29 142 0.85
30 23 0.14
31 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (28 bp):
ATCGATTATGAAAAGGGATGGTACGACC
Found at i:46524681 original size:13 final size:13
Alignment explanation
Indices: 46524642--46524693 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
46524632 TTTAAAGTTG
46524642 TTGTTCATTTTGATA
1 TTGTTCATTTT--TA
* *
46524657 TTGTTTAGTTTTA
1 TTGTTCATTTTTA
46524670 TTGTTCATTTTTA
1 TTGTTCATTTTTA
*
46524683 -TATTCATTTTT
1 TTGTTCATTTTT
46524694 GTTAATTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
12 10 0.31
13 13 0.41
15 9 0.28
ACGTcount: A:0.17, C:0.06, G:0.10, T:0.67
Consensus pattern (13 bp):
TTGTTCATTTTTA
Found at i:46528096 original size:26 final size:22
Alignment explanation
Indices: 46528067--46528119 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
46528057 AAATTATTAA
46528067 ATATATGAAAAAATAGAAATATGT
1 ATATAT-AAAAAATA-AAATATGT
*
46528091 ATATATAAAAATTAAAATATGT
1 ATATATAAAAAATAAAATATGT
*
46528113 ATGTATA
1 ATATATA
46528120 TAGGTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 14 0.52
23 7 0.26
24 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (22 bp):
ATATATAAAAAATAAAATATGT
Found at i:46528536 original size:18 final size:19
Alignment explanation
Indices: 46528515--46528563 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
46528505 GATATTATGC
46528515 GTATATAT-AT-ATATGTAA
1 GTATATATAATAATA-GTAA
46528533 GTATA-ATAATAATAGTAA
1 GTATATATAATAATAGTAA
46528551 GTA-ATATAATAAT
1 GTATATATAATAAT
46528564 TAATAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.11
18 22 0.79
19 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (19 bp):
GTATATATAATAATAGTAA
Found at i:46528543 original size:3 final size:3
Alignment explanation
Indices: 46528535--46528587 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
46528525 ATATGTAAGT
*
46528535 ATA ATA ATA ATA GTA AGTA AT- ATA ATA ATTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
46528581 AGTA ATA
1 A-TA ATA
46528588 GTAGCAACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 33 0.75
4 9 0.20
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:46528558 original size:31 final size:31
Alignment explanation
Indices: 46528530--46528587 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
46528520 TATATATATG
*
46528530 TAAGT-ATAATAATAATAGTAAGTAATATAA
1 TAAGTAATAATAATAATAATAAGTAATATAA
*
46528560 TAATTAATAATAATAATAATAAGTAATA
1 TAAGTAATAATAATAATAATAAGTAATA
46528588 GTAGCAACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (31 bp):
TAAGTAATAATAATAATAATAAGTAATATAA
Found at i:46528586 original size:16 final size:16
Alignment explanation
Indices: 46528536--46528587 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
46528526 TATGTAAGTA
*
46528536 TAATAATAATAGTAAG
1 TAATAATAATAATAAG
46528552 TAAT-ATAATAATTAA-
1 TAATAATAATAA-TAAG
46528567 TAATAATAATAATAAG
1 TAATAATAATAATAAG
46528583 TAATA
1 TAATA
46528588 GTAGCAACGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 13 0.41
16 19 0.59
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TAATAATAATAATAAG
Found at i:46530033 original size:89 final size:89
Alignment explanation
Indices: 46529926--46531271 Score: 1316
Period size: 89 Copynumber: 15.1 Consensus size: 89
46529916 ACCAATATGG
* * * * *
46529926 GAAGACAATATCTACTATCTTTGATTTACTTCACTGCCAGTACATGAAGACAAGATTTGCTTTCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
* *
46529991 TCGATCTACTTCACGCCAATATAT
66 TTGATCTACTTCACGCCAATACAT
* *
46530015 G-AGTACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATC
1 GAAG-ACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATC
*
46530079 TTTGATCTACTTCACTG-CAAGTACAA
65 TTTGATCTACTTCAC-GCCAA-TACAT
* * * *
46530105 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACGTGGAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
* * *
46530169 TCGATCTACTTCATGCCAATATAT
66 TTGATCTACTTCACGCCAATACAT
* * * * * *
46530193 GAAGATAAGATCTGCTATCCTCTGATCTACTTCA-TGCTAGTACATGGAGACAAGATCTGCTTTG
1 GAAGACAAGATCTGCTAT-CTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATC
**
46530257 TTTGATCTAC-TC-CGCCACCAGTACGG
65 TTTGATCTACTTCACGCCA--A-TACAT
* * * * *
46530283 GAAGATAAGATCTACTATCTTTGATCTACTTCA-TGCCAATACATGAAGACAAGATCTGCTTTAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
* ** *
46530347 TTGATCTACTTCGCTGCCTGTACAG
66 TTGATCTACTTCAC-GCCAATACAT
** * * ** ***
46530372 GAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
46530437 TTGATCTACTTCACGCCAATACAT
66 TTGATCTACTTCACGCCAATACAT
* * ** ** * *** *
46530461 GAAGACAAGATCTGTTTTCTTCAATCTACTTCACCACCAATATGGGATGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
46530526 TTGATCTACTTCACGCCAATACAT
66 TTGATCTACTTCACGCCAATACAT
* * * * * *
46530550 GAAGACAAGATCTACTTTCTTCGATCTACTTCAC-GCCAATATATGAATACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
* *
46530614 TTGATCTACTTCACTGCCAGTACAG
66 TTGATCTACTTCAC-GCCAATACAT
* * * *
46530639 GAAGACAAGATCTGTTATCTTTGATCTATTTCACTGCCAGTACAGGAAGACAAGATCTGCTATGT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
*
46530704 TCGATCTACTTCACGCCAATACAT
66 TTGATCTACTTCACGCCAATACAT
* * * * *
46530728 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAAGATCTACAATCC
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTAT-C
* * * *
46530792 TCTGATCTACTTCATGCTAGTACAT
65 TTTGATCTACTTCACGCCAATACAT
* * * ** ***
46530817 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
* * *
46530882 TTAATCTGCTTCATGCCAATACAT
66 TTGATCTACTTCACGCCAATACAT
* * * * * * ** *
46530906 GAAGACAAGATCTACTTTATTTGATCTACTTCGCTGCCAGTACAAGAAGACAAGATTTATTTTCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
* * **
46530971 TCGATCTACTT--CGCCACCTGTAT
66 TTGATCTACTTCACGCCA-ATACAT
* *
46530994 GGGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTT
1 --GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTAT
* * * *
46531058 ATTTGATCTACTTCGCTGCCAGTACAG
64 CTTTGATCTACTTCAC-GCCAATACAT
* * * * **
46531085 GAAGACAAGATCTGTTTTCTTTGATTTACTTCGCCACCA--ACATGGGAAGACAAGATCTGCTAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACAT--GAAGACAAGATCTGCTAT
* *
46531148 CTTCGATCTACTTCACACCAATACAT
64 CTTTGATCTACTTCACGCCAATACAT
* ** * *** * *
46531174 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACTAGTATGGGCAGACAAGATTTGCTATCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
* *
46531239 TTGATCTACTTCACTGCCAGTACAG
66 TTGATCTACTTCAC-GCCAATACAT
46531264 GAAGACAA
1 GAAGACAA
46531272 ATTCGTTGCC
Statistics
Matches: 1054, Mismatches: 173, Indels: 59
0.82 0.13 0.05
Matches are distributed among these distances:
87 8 0.01
88 94 0.09
89 709 0.67
90 229 0.22
91 7 0.01
92 7 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (89 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT
TTGATCTACTTCACGCCAATACAT
Found at i:46530102 original size:134 final size:133
Alignment explanation
Indices: 46529896--46531271 Score: 1289
Period size: 134 Copynumber: 10.3 Consensus size: 133
46529886 ATAAGACTTG
* ** ** * * *
46529896 TATCTTCGATCTACTTCGCCACCAATATGGGAAGACAATATCTACTATCTTTGATTTACTTCACT
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * * *
46529961 GCCAGTACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCACGCCAATATATG-AGTACAAGA
66 G-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAG-ACAAGA
46530025 TCTGC
129 TCTGC
* * *
46530030 TATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCACT
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * * * *
46530095 GCAAGTACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACGTGGAGACAAGAT
66 GCAA-TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGAT
46530160 CTGC
130 CTGC
* * * *
46530164 TATCTTCGATCTACTTCA-TGCCAATATATGAAGATAAGATCTGCTATCCTCTGATCTACTTCA-
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTAT-CTTTGATCTACTTCAC
* * * * * * * ** *
46530227 TGCTAGTACATGGAGACAAGATCTGCTTTGTTTGATCTACTCCGCCACCAGTACGGGAAGATAAG
65 TGC-AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAGTACATGAAGACAAG
*
46530292 ATCTAC
128 ATCTGC
* * * * *
46530298 TATCTTTGATCTACTTCA-TGCCAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCT
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
** * ** * ***
46530362 GCCTGTACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGA
66 G-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCCAGTACATGAAGACAAGA
46530427 TCTGC
129 TCTGC
* * * * **
46530432 TATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCACC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-C
** *** * * * *
46530496 ACCAATATGGGATGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGAT
65 TGCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGAT
*
46530561 CTAC
130 CTGC
* * * *
46530565 TTTCTTCGATCTACTTCAC-GCCAATATATGAATACAAGATCTGCTATCTTTGATCTACTTCACT
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * * * *
46530629 GCCAGTACAGGAAGACAAGATCTG-TTATCTTTGATCTATTTCACTGCCAGTACAGGAAGACAAG
66 G-CAATACATGAAGACAAGATCTGCTT-TCTTCGATCTACTTCAC-GCCAGTACATGAAGACAAG
46530693 ATCTGC
128 ATCTGC
* * * *
46530699 TATGTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACA
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * ** * * *
46530763 CCAATACATGAAGACAAGATCTACAATCCTCTGATCTACTTCATGCTAGTACATGAAGACAAGAT
66 GCAATACATGAAGACAAGATCTGCTTTCTTC-GATCTACTTCACGCCAGTACATGAAGACAAGAT
46530828 CTGC
130 CTGC
* * ** * ** * *
46530832 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTAATCTGCTTCA-T
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * * * *
46530896 GCCAATACATGAAGACAAGATCTACTTTATTTGATCTACTTCGCTGCCAGTACAAGAAGACAAGA
66 G-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-GCCAGTACATGAAGACAAGA
* **
46530961 TTTAT
129 TCTGC
* * ** ** **
46530966 TTTCTTCGATCTACTTCGCCACCTGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * * *
46531030 GCCAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGA
66 G-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-GCCAGTACATGAAGACAAGA
*
46531095 TCTGT
129 TCTGC
* * * * ** * ** * *
46531100 TTTCTTTGATTTACTTCGCCACCAACATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACA
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * *** *
46531165 CCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-CACTAGTATGGGCAGACAAGA
66 GCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC-C-AGTACATGAAGACAAGA
*
46531229 TTTGC
129 TCTGC
* *
46531234 TATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAA
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAA
46531272 ATTCGTTGCC
Statistics
Matches: 1047, Mismatches: 173, Indels: 44
0.83 0.14 0.03
Matches are distributed among these distances:
132 3 0.00
133 252 0.24
134 788 0.75
135 4 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (133 bp):
TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
GCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATC
TGC
Found at i:46530737 original size:579 final size:579
Alignment explanation
Indices: 46529898--46531271 Score: 2142
Period size: 579 Copynumber: 2.4 Consensus size: 579
46529888 AAGACTTGTA
* *
46529898 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAATATCTACTATCTTTGATTTACTTCACTGC
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGATTTACTTCAC-GC
* * *
46529963 CAGTACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCACGCCAATATATGAGTACAAGATCT
65 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATCT
46530028 GCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCA
130 GCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCA
* * * *
46530093 CTGCAAGTACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACGTGGAGACAAG
195 CTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
** * * * *
46530158 ATCTGCTATCTTCGATCTACTTCATGCCAATATATGAAGATAAGATCTGCTATCCTCTGATCTAC
260 ATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTAC
* * *
46530223 TTCATGCTAGTACATGGAGACAAGATCTGCTTTGTTTGATCTACTCCGCCACCAGTACGGGAAGA
325 TTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAAGA
* * *
46530288 TAAGATCTACTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGATC
390 CAAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTACTTTATTTGATC
* *
46530353 TACTTCGCTGCCTGTACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGG
455 TACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGG
*
46530418 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
520 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
46530478 TCTTCAATCTACTTCACCACCAATATGGGATGACAAGATCTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGATTTACTTCACGCC
*
46530543 AATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATCTG
66 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATCTG
*
46530608 CTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTATTTCAC
131 CTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCAC
*
46530673 TGCCAGTACAGGAAGACAAGATCTGCTATGTTCGATCTACTTCACGCCAATACATGAAGACAAGA
196 TGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
46530738 TCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTACT
261 TCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTACT
* *
46530803 TCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
326 TCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAAGAC
* *
46530868 AAGATCTGCTATCTTTAATCTGCTTCATGCCAATACATGAAGACAAGATCTACTTTATTTGATCT
391 AAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTACTTTATTTGATCT
* * *
46530933 ACTTCGCTGCCAGTACAAGAAGACAAGATTTATTTTCTTCGATCTACTTCGCCACCTGTATGGGA
456 ACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGGA
46530998 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
521 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * ** * ** * *
46531057 TATTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGTTTTCTTTGATTTACTT--CGCC
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGATTTACTTCACGCC
* * * *
46531120 ACCA-ACATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGA
66 A--ATACAT--GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGA
* ** * ** * * *
46531184 TCTGCTATCTTCGATCTACTTCACCACTAGTATGGGCAGACAAGATTTGCTATCTTTGATCTACT
127 TCTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACT
46531249 TCACTGCCAGTACAGGAAGACAA
192 TCACTGCCAGTACAGGAAGACAA
46531272 ATTCGTTGCC
Statistics
Matches: 724, Mismatches: 66, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
577 5 0.01
578 4 0.01
579 532 0.73
580 183 0.25
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (579 bp):
TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGATTTACTTCACGCC
AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATCTG
CTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCAC
TGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
TCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTACT
TCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAAGAC
AAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTACTTTATTTGATCT
ACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGGA
AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:46532598 original size:28 final size:28
Alignment explanation
Indices: 46532566--46532629 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
46532556 TTATCCTCTC
46532566 CATTTTACTTTTTCCA-TTTTTCATTTC-T
1 CATTTTAC-TTTT-CATTTTTTCATTTCAT
*
46532594 CATTTCACTTTTCATTTTTTCATTTCAT
1 CATTTTACTTTTCATTTTTTCATTTCAT
46532622 CATTTTAC
1 CATTTTAC
46532630 GACTCAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 15 0.47
28 15 0.47
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (28 bp):
CATTTTACTTTTCATTTTTTCATTTCAT
Found at i:46532605 original size:20 final size:20
Alignment explanation
Indices: 46532583--46532620 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46532573 CTTTTTCCAT
46532583 TTTTCA-TTTCTCATTTCAC
1 TTTTCATTTTCTCATTTCAC
*
46532602 TTTTCATTTTTTCATTTCA
1 TTTTCATTTTCTCATTTCA
46532621 TCATTTTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTCATTTTCTCATTTCAC
Found at i:46537443 original size:22 final size:23
Alignment explanation
Indices: 46537399--46537451 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
46537389 AAATTATTAA
*
46537399 ATATATGAAAAAATAGAATTATGT
1 ATATAT-AAAAAATAGAAATATGT
*
46537423 ATATATAAAAATTA-AAATATGT
1 ATATATAAAAAATAGAAATATGT
*
46537445 ATGTATA
1 ATATATA
46537452 TAGGTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 13 0.50
23 7 0.27
24 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (23 bp):
ATATATAAAAAATAGAAATATGT
Found at i:46537868 original size:3 final size:3
Alignment explanation
Indices: 46537860--46537909 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
46537850 ATATGTACGT
*
46537860 ATA ATA ATA GTA AGTA AT- ATA ATA ATA ATTA ATA ATA ATA ATA AGTA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA
46537907 ATA
1 ATA
46537910 GTAGCAACGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 2 0.05
3 30 0.73
4 9 0.22
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:46537908 original size:13 final size:12
Alignment explanation
Indices: 46537860--46537909 Score: 57
Period size: 13 Copynumber: 4.0 Consensus size: 12
46537850 ATATGTACGT
*
46537860 ATAATAATAGTA
1 ATAATAATAATA
46537872 AGTAAT-ATAATA
1 A-TAATAATAATA
46537884 ATAATTAATAATA
1 ATAA-TAATAATA
46537897 ATAATAAGTAATA
1 ATAATAA-TAATA
46537910 GTAGCAACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
11 3 0.09
12 11 0.33
13 19 0.58
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
ATAATAATAATA
Found at i:46548952 original size:27 final size:25
Alignment explanation
Indices: 46548916--46549013 Score: 88
Period size: 27 Copynumber: 3.7 Consensus size: 25
46548906 AACACCAGAA
46548916 AAAGGAAGCCTTTGTGGCAATATATG
1 AAAGGAAGCCTTTGTGG-AATATATG
* *
46548942 AAACGGAAGCCTTTGTAGAGATTTATG
1 AAA-GGAAGCCTTTGTGGA-ATATATG
* *
46548969 ATAAGGAAGCCTTTGTGGTGATCTATG
1 A-AAGGAAGCCTTTGTGG-AATATATG
* *
46548996 AAGGGGATGCCTTTGTGG
1 AA-AGGAAGCCTTTGTGG
46549014 TGCACTCTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 5 0.08
27 53 0.88
28 2 0.03
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.30
Consensus pattern (25 bp):
AAAGGAAGCCTTTGTGGAATATATG
Found at i:46560213 original size:19 final size:19
Alignment explanation
Indices: 46560189--46560227 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
46560179 TCCAGGGAAG
*
46560189 TACTTTCAGAAATACTCTA
1 TACTTTCAAAAATACTCTA
46560208 TACTTTCAAAAATACTCTA
1 TACTTTCAAAAATACTCTA
46560227 T
1 T
46560228 CACAAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (19 bp):
TACTTTCAAAAATACTCTA
Found at i:46570624 original size:21 final size:23
Alignment explanation
Indices: 46570570--46570624 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
46570560 AAATTGATTT
*
46570570 ATGATATGAATTCTTGAAATGAGA
1 ATGATATG-ATTCTTGAAAGGAGA
*
46570594 ATGAGA-GATT-TTGAAAGGA-A
1 ATGATATGATTCTTGAAAGGAGA
46570614 ATGATATGATT
1 ATGATATGATT
46570625 GAGTTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.22
21 12 0.44
22 3 0.11
23 1 0.04
24 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.33
Consensus pattern (23 bp):
ATGATATGATTCTTGAAAGGAGA
Found at i:46575123 original size:27 final size:27
Alignment explanation
Indices: 46575059--46575124 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
46575049 AAAAAAGGAG
*
46575059 GCCTTTGTGGAAATCTATGAAAAGAAA
1 GCCTTTGTGGCAATCTATGAAAAGAAA
* ** *
46575086 GCCTTTGTGGCATTCTATGAATGGAAT
1 GCCTTTGTGGCAATCTATGAAAAGAAA
46575113 GCCTTTGTGGCA
1 GCCTTTGTGGCA
46575125 CAGTCTAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (27 bp):
GCCTTTGTGGCAATCTATGAAAAGAAA
Found at i:46581785 original size:25 final size:26
Alignment explanation
Indices: 46581753--46581803 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
46581743 AAGTTTAAGA
46581753 ATGTATATATA-T-TATATAAAGAAAT
1 ATGTATATATACTATATATAAA-AAAT
46581778 ATGTATATATACTATATATAAAAAAT
1 ATGTATATATACTATATATAAAAAAT
46581804 GCGTGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 11 0.46
26 5 0.21
27 8 0.33
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (26 bp):
ATGTATATATACTATATATAAAAAAT
Found at i:46581818 original size:25 final size:26
Alignment explanation
Indices: 46581754--46581818 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 26
46581744 AGTTTAAGAA
* *
46581754 TGTATATATATTATATAAAGAAATATG
1 TGTATAAATA-TATATAAAGAAATACG
* * *
46581781 TATATATACTATATATAAA-AAATGCG
1 TGTATA-AATATATATAAAGAAATACG
46581807 TGTATAAATATA
1 TGTATAAATATA
46581819 AAAATAGTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
25 5 0.17
26 10 0.33
27 13 0.43
28 2 0.07
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38
Consensus pattern (26 bp):
TGTATAAATATATATAAAGAAATACG
Found at i:46582544 original size:19 final size:19
Alignment explanation
Indices: 46582510--46582551 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
46582500 TAAAAAAATC
*
46582510 CTTTGTATTCTCTGTATTTT
1 CTTTCTATTCTCTGTA-TTT
46582530 CTTTCTATT-TCTGTATTT
1 CTTTCTATTCTCTGTATTT
46582548 CTTT
1 CTTT
46582552 ACACCGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 6 0.29
20 8 0.38
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.67
Consensus pattern (19 bp):
CTTTCTATTCTCTGTATTT
Found at i:46585079 original size:13 final size:13
Alignment explanation
Indices: 46585040--46585082 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
46585030 TTTTTGGTGC
*
46585040 TATATATATTTGT
1 TATATATAGTTGT
* *
46585053 TGTTTATAGCTTGT
1 TATATATAG-TTGT
46585067 TATATATAGTTGT
1 TATATATAGTTGT
46585080 TAT
1 TAT
46585083 TTTTAGTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (13 bp):
TATATATAGTTGT
Found at i:46593268 original size:29 final size:29
Alignment explanation
Indices: 46593192--46593262 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
46593182 AATGATAACT
*
46593192 TAAGTGAGTAAAACATAACATGTCAAAAC
1 TAAGTGACTAAAACATAACATGTCAAAAC
46593221 TAAGTGACTAAAACATAACATGTCAAAAC
1 TAAGTGACTAAAACATAACATGTCAAAAC
46593250 TAAGTGACTAAAA
1 TAAGTGACTAAAA
46593263 TGTAACCTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.52, C:0.14, G:0.13, T:0.21
Consensus pattern (29 bp):
TAAGTGACTAAAACATAACATGTCAAAAC
Found at i:46597943 original size:56 final size:56
Alignment explanation
Indices: 46597852--46597974 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
46597842 GAGATTGGCG
* * *
46597852 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
46597909 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
46597964 CTGAGTGTGCG
1 CTAAGTGTGCG
46597975 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:46597961 original size:27 final size:28
Alignment explanation
Indices: 46597852--46597974 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
46597842 GAGATTGGCG
* * * *
46597852 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
46597881 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46597909 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46597937 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
46597964 CTGAGTGTGCG
1 CTAAGTGTGCG
46597975 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:46597985 original size:27 final size:27
Alignment explanation
Indices: 46597877--46597987 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
46597867 TAAATTGTAC
* * *
46597877 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
46597905 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
46597933 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
46597960 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
46597987 A
1 A
46597988 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:46603122 original size:56 final size:56
Alignment explanation
Indices: 46603031--46603153 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
46603021 GAGATTGGCG
* * *
46603031 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATTTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
46603088 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
46603143 CTGAGTGTGCG
1 CTAAGTGTGCG
46603154 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:46603140 original size:27 final size:28
Alignment explanation
Indices: 46603031--46603153 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
46603021 GAGATTGGCG
* * * *
46603031 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
46603060 CTAAGTGTGCGAGTTTGATTATTTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46603088 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46603116 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
46603143 CTGAGTGTGCG
1 CTAAGTGTGCG
46603154 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:46603164 original size:27 final size:27
Alignment explanation
Indices: 46603056--46603166 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
46603046 TAAATTGTAC
* * *
46603056 AGCACTAAGTGTGCGAGTTTGATTATTT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
46603084 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
46603112 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
46603139 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
46603166 A
1 A
46603167 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:46608307 original size:56 final size:56
Alignment explanation
Indices: 46608216--46608338 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
46608206 GAGATTGGCG
* * *
46608216 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
46608273 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
46608328 CTGAGTGTGCG
1 CTAAGTGTGCG
46608339 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:46608325 original size:27 final size:28
Alignment explanation
Indices: 46608216--46608338 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
46608206 GAGATTGGCG
* * * *
46608216 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
46608245 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46608273 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46608301 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
46608328 CTGAGTGTGCG
1 CTAAGTGTGCG
46608339 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:46608349 original size:27 final size:27
Alignment explanation
Indices: 46608241--46608351 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
46608231 TAAATTGTAC
* * *
46608241 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
46608269 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
46608297 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
46608324 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
46608351 A
1 A
46608352 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:46616501 original size:56 final size:56
Alignment explanation
Indices: 46616410--46616532 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
46616400 GAGATTGGCG
* * *
46616410 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
46616467 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
46616522 CTGAGTGTGCG
1 CTAAGTGTGCG
46616533 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:46616519 original size:27 final size:28
Alignment explanation
Indices: 46616410--46616532 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
46616400 GAGATTGGCG
* * * *
46616410 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
46616439 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46616467 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46616495 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
46616522 CTGAGTGTGCG
1 CTAAGTGTGCG
46616533 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:46616543 original size:27 final size:27
Alignment explanation
Indices: 46616435--46616545 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
46616425 TAAATTGTAC
* * *
46616435 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
46616463 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
46616491 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
46616518 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
46616545 A
1 A
46616546 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:46619280 original size:40 final size:39
Alignment explanation
Indices: 46619222--46619361 Score: 144
Period size: 37 Copynumber: 3.6 Consensus size: 39
46619212 ACACACCAGT
* *
46619222 TTGGCACCCAAT-TCCTCATCAGATAATTCGAAGTAGTAAA
1 TTGGCACCCAGTGT-CTCATC-GATAATCCGAAGTAGTAAA
* *
46619262 TTGGCACCCAGTGTCTCATCGGTTAAACCG-A--AGTAAA
1 TTGGCACCCAGTGTCTCATC-GATAATCCGAAGTAGTAAA
*
46619299 TTGGCACCCAGTGCCTCATCGAATAAATCCGAAGTAGTAAA
1 TTGGCACCCAGTGTCTCATCG-AT-AATCCGAAGTAGTAAA
* *
46619340 TTGACACCTAGTGTCTCATCGA
1 TTGGCACCCAGTGTCTCATCGA
46619362 CTCGAAGTCG
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
36 1 0.01
37 26 0.31
38 5 0.06
39 2 0.02
40 24 0.29
41 25 0.30
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (39 bp):
TTGGCACCCAGTGTCTCATCGATAATCCGAAGTAGTAAA
Found at i:46619358 original size:41 final size:40
Alignment explanation
Indices: 46619250--46619361 Score: 149
Period size: 37 Copynumber: 2.9 Consensus size: 40
46619240 TCAGATAATT
**
46619250 CGAAGTAGTAAATTGGCACCCAGTGTCTCATCGGTTAAAC
1 CGAAGTAGTAAATTGGCACCCAGTGTCTCATCGAATAAAC
*
46619290 CG-A--AGTAAATTGGCACCCAGTGCCTCATCGAATAAATC
1 CGAAGTAGTAAATTGGCACCCAGTGTCTCATCGAATAAA-C
* *
46619328 CGAAGTAGTAAATTGACACCTAGTGTCTCATCGA
1 CGAAGTAGTAAATTGGCACCCAGTGTCTCATCGA
46619362 CTCGAAGTCG
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
37 30 0.48
38 3 0.05
39 2 0.03
40 2 0.03
41 25 0.40
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (40 bp):
CGAAGTAGTAAATTGGCACCCAGTGTCTCATCGAATAAAC
Found at i:46620263 original size:12 final size:12
Alignment explanation
Indices: 46620237--46620291 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
46620227 CTTGCGTCTG
**
46620237 TTTCTTTCTCCT
1 TTTCTTTCTTTT
46620249 TTTCTTTCTTTT
1 TTTCTTTCTTTT
46620261 TTT-TTTCTTTCT
1 TTTCTTTCTTT-T
*
46620273 TTCCTTTCTTTT
1 TTTCTTTCTTTT
*
46620285 TTCCTTT
1 TTTCTTT
46620292 TGGCATAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 7 0.18
12 24 0.63
13 7 0.18
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTTTCTTTT
Found at i:46620273 original size:19 final size:20
Alignment explanation
Indices: 46620249--46620287 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46620239 TCTTTCTCCT
*
46620249 TTTCTTT-CTTTTTTTTTTC
1 TTTCTTTCCTTTCTTTTTTC
46620268 TTTCTTTCCTTTCTTTTTTC
1 TTTCTTTCCTTTCTTTTTTC
46620288 CTTTTGGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTTCCTTTCTTTTTTC
Found at i:46621767 original size:13 final size:13
Alignment explanation
Indices: 46621733--46621902 Score: 111
Period size: 13 Copynumber: 12.8 Consensus size: 13
46621723 CCAATGTTTC
* *
46621733 ATTTTATATATCT
1 ATTTCATATAACT
46621746 ATTTCCATATAACT
1 ATTT-CATATAACT
46621760 GA-TTCATATAA-T
1 -ATTTCATATAACT
*
46621772 CATTTCATATATCT
1 -ATTTCATATAACT
46621786 ATTTCCATATAACT
1 ATTT-CATATAACT
46621800 GA-TTCATATAA-T
1 -ATTTCATATAACT
*
46621812 CATTTCATATATCT
1 -ATTTCATATAACT
* *
46621826 ACTTCTATATAAAT
1 ATTTC-ATATAACT
* *
46621840 GA-TTCGTATAACC
1 -ATTTCATATAACT
*
46621853 ATCTT-ATATATCT
1 AT-TTCATATAACT
46621866 ATTTCCATATAACT
1 ATTT-CATATAACT
46621880 GA-TTCATATAACT
1 -ATTTCATATAACT
46621893 ATTTCATATA
1 ATTTCATATA
46621903 TTCATTATTC
Statistics
Matches: 124, Mismatches: 17, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
12 8 0.06
13 71 0.57
14 41 0.33
15 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.45
Consensus pattern (13 bp):
ATTTCATATAACT
Found at i:46621768 original size:27 final size:27
Alignment explanation
Indices: 46621733--46621903 Score: 101
Period size: 27 Copynumber: 6.4 Consensus size: 27
46621723 CCAATGTTTC
*
46621733 ATTTTATATATCTATTTCCATATAACTG
1 ATTTCATATATCTATTT-CATATAACTG
*
46621761 A-TTCATATAATC-ATTTCATATATCT-
1 ATTTCATAT-ATCTATTTCATATAACTG
* *
46621786 ATTTCCATATAACTGA-TTCATATAA-TC
1 ATTT-CATATATCT-ATTTCATATAACTG
* *
46621813 ATTTCATATATCTACTTCTATATAAATG
1 ATTTCATATATCTATTTC-ATATAACTG
* * * *
46621841 A-TTCGTATAACCATCTT-ATATATCT-
1 ATTTCATATATCTAT-TTCATATAACTG
*
46621866 ATTTCCATATAACTGA-TTCATATAACT-
1 ATTT-CATATATCT-ATTTCATATAACTG
46621893 ATTTCATATAT
1 ATTTCATATAT
46621904 TCATTATTCA
Statistics
Matches: 113, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
25 3 0.03
26 40 0.35
27 60 0.53
28 10 0.09
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (27 bp):
ATTTCATATATCTATTTCATATAACTG
Found at i:46621775 original size:40 final size:40
Alignment explanation
Indices: 46621731--46621903 Score: 260
Period size: 40 Copynumber: 4.3 Consensus size: 40
46621721 ATCCAATGTT
*
46621731 TCATTTTATATATCTATTTCCATATAACTGATTCATATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
46621771 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
* * * *
46621811 TCATTTCATATATCTACTTCTATATAAATGATTCGTATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
*
46621851 CCATCTT-ATATATCTATTTCCATATAACTGATTCATATAA
1 TCAT-TTCATATATCTATTTCCATATAACTGATTCATATAA
46621891 -CTATTTCATATAT
1 TC-ATTTCATATAT
46621904 TCATTATTCA
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.03
40 115 0.96
41 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.46
Consensus pattern (40 bp):
TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
Found at i:46624378 original size:25 final size:25
Alignment explanation
Indices: 46624342--46624495 Score: 111
Period size: 25 Copynumber: 6.2 Consensus size: 25
46624332 ACCAAACAAA
*
46624342 GCCTTTGTGGCAAGTTATCTGAAAG
1 GCCTATGTGGCAAGTTATCTGAAAG
*
46624367 GCCTATGCGGCATA-TTATCTGGAAA-
1 GCCTATGTGGCA-AGTTATCT-GAAAG
* *
46624392 GCCTTTGTGGCGAGTTATCTGAAAG
1 GCCTATGTGGCAAGTTATCTGAAAG
*
46624417 GCCTATGTGGCATA-TTATTTGGAAA-
1 GCCTATGTGGCA-AGTTATCT-GAAAG
* * * *
46624442 ACCTTTGTGGCAAGTTACCTAAAAG
1 GCCTATGTGGCAAGTTATCTGAAAG
* * * *
46624467 ACCAATGTGGCATA-TTATTTGAAAA
1 GCCTATGTGGCA-AGTTATCTGAAAG
46624492 GCCT
1 GCCT
46624496 TAGTCGTGAA
Statistics
Matches: 99, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
24 9 0.09
25 79 0.80
26 11 0.11
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (25 bp):
GCCTATGTGGCAAGTTATCTGAAAG
Found at i:46624414 original size:50 final size:50
Alignment explanation
Indices: 46624339--46624542 Score: 234
Period size: 50 Copynumber: 4.1 Consensus size: 50
46624329 CAAACCAAAC
*
46624339 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATCTGG
1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGG
* *
46624389 AAAGCCTTTGTGGCGAGTTATCTGAAAGGCCTATGTGGCATATTATTTGG
1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGG
* * * * * * *
46624439 AAAACCTTTGTGGCAAGTTACCTAAAAGACCAATGTGGCATATTATTTGA
1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGG
* * *
46624489 AAAGCCTTAGTCGTG-AAGTTATCTAGAAA-GCCTTTGCGGCA-AGTCATTTGG
1 AAAGCCTTTGT-G-GCAAGTTATCT-GAAAGGCCTATGCGGCATA-TTATTTGG
46624540 AAA
1 AAA
46624543 ACTTGTATGG
Statistics
Matches: 130, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
50 100 0.77
51 26 0.20
52 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (50 bp):
AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGG
Found at i:46629790 original size:18 final size:17
Alignment explanation
Indices: 46629748--46629791 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
46629738 TGCCGTTCGT
46629748 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
46629765 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
46629784 TTTCAAAA
1 TTTCAAAA
46629792 AGTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:46636701 original size:7 final size:7
Alignment explanation
Indices: 46636685--46636772 Score: 97
Period size: 7 Copynumber: 11.9 Consensus size: 7
46636675 CAACCCAATT
46636685 TTTATT-
1 TTTATTA
46636691 TTTATTA
1 TTTATTA
46636698 TTTATTA
1 TTTATTA
46636705 TTTATTA
1 TTTATTA
46636712 TTTATTA
1 TTTATTA
*
46636719 TTTATTC
1 TTTATTA
46636726 TTTAATTTA
1 TTT-A-TTA
46636735 TTTATTA
1 TTTATTA
46636742 CTTTAATTTA
1 -TTT-A-TTA
46636752 TTTTATTA
1 -TTTATTA
46636760 TTTATTA
1 TTTATTA
*
46636767 CTTATT
1 TTTATT
46636773 TGGATATTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
6 6 0.08
7 45 0.62
8 8 0.11
9 7 0.10
10 6 0.08
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:46636709 original size:4 final size:4
Alignment explanation
Indices: 46636685--46636765 Score: 57
Period size: 4 Copynumber: 20.5 Consensus size: 4
46636675 CAACCCAATT
* *
46636685 TTTA TTTT TATTA TTTA -TTA TTTA -TTA TTTA -TTA TTTA TTCT- TTAA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA
46636731 TTTA TTTA -TTA CTTTAA TTTA TTT- TATTA TTTA TT
1 TTTA TTTA TTTA -TTT-A TTTA TTTA T-TTA TTTA TT
46636766 ACTTATTTGG
Statistics
Matches: 62, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
3 13 0.21
4 38 0.61
5 10 0.16
6 1 0.02
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:46637825 original size:10 final size:10
Alignment explanation
Indices: 46637779--46637825 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
46637769 TTCCTAAAGT
*
46637779 ATAAAAA-AT
1 ATAAAAATAA
46637788 ATAAATAATAA
1 ATAAA-AATAA
*
46637799 ATAAATATAA
1 ATAAAAATAA
*
46637809 ATCAAAATAA
1 ATAAAAATAA
46637819 ATAAAAA
1 ATAAAAA
46637826 AAGAAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 5 0.16
10 20 0.65
11 6 0.19
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:46638429 original size:15 final size:15
Alignment explanation
Indices: 46638404--46638438 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
46638394 GACTCTATTT
*
46638404 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
46638418 TAATTAATATTAAGA
1 TAATTAATATTAAGA
46638433 TAATTA
1 TAATTA
46638439 TTAAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:46638481 original size:10 final size:10
Alignment explanation
Indices: 46638468--46638510 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
46638458 AGGATTTAAT
46638468 TTTATTTATC
1 TTTATTTATC
46638478 TTTATTTATC
1 TTTATTTATC
* * **
46638488 TTCAATTAAA
1 TTTATTTATC
46638498 TTTATTTATC
1 TTTATTTATC
46638508 TTT
1 TTT
46638511 TGGGAATTTA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTATTTATC
Found at i:46640272 original size:18 final size:19
Alignment explanation
Indices: 46640232--46640272 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
46640222 CATGATGTTT
*
46640232 ACCCATGTGGGCCCATACG
1 ACCCATGTGGGCCCACACG
*
46640251 -CCCATGT-GGCCCACATG
1 ACCCATGTGGGCCCACACG
46640268 ACCCA
1 ACCCA
46640273 AATTGGCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.22, C:0.41, G:0.22, T:0.15
Consensus pattern (19 bp):
ACCCATGTGGGCCCACACG
Found at i:46646897 original size:20 final size:21
Alignment explanation
Indices: 46646872--46646910 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
46646862 ATTCTAAAAA
46646872 TAATATTAT-TTTAATATATT
1 TAATATTATATTTAATATATT
46646892 TAATATTATATTTAATATA
1 TAATATTATATTTAATATA
46646911 ATATTTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTATATTTAATATATT
Found at i:46646903 original size:12 final size:12
Alignment explanation
Indices: 46646886--46646917 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
46646876 ATTATTTTAA
46646886 TATATTTAATAT
1 TATATTTAATAT
46646898 TATATTTAATAT
1 TATATTTAATAT
*
46646910 AATATTTA
1 TATATTTA
46646918 TCTTATAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATATTTAATAT
Found at i:46646966 original size:61 final size:59
Alignment explanation
Indices: 46646874--46647006 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 59
46646864 TCTAAAAATA
* * *
46646874 ATATTATTTTAAT-ATATTTAATATTATATTTAATA-TAATATTTATCTTATAGACAAATATT
1 ATATTAATTTAATAATATTTAATAATAGATTTAA-ACTAATATTTATC-T-T-GACAAATATT
* *
46646935 CTATTAA-TTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGATAAATATT
1 ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGACAAATATT
46646993 ATATTAATTTAATA
1 ATATTAATTTAATA
46647007 TTAAAGTGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
58 15 0.24
59 7 0.11
60 7 0.11
61 34 0.54
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (59 bp):
ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGACAAATATT
Found at i:46647584 original size:25 final size:25
Alignment explanation
Indices: 46647554--46647605 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
46647544 CCTAGAAGGG
46647554 AATTGAATGATAGTTAGACAATTTT
1 AATTGAATGATAGTTAGACAATTTT
46647579 AATTGAATGATAGTTAGACAATTTT
1 AATTGAATGATAGTTAGACAATTTT
46647604 AA
1 AA
46647606 GTATTATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (25 bp):
AATTGAATGATAGTTAGACAATTTT
Found at i:46650235 original size:19 final size:19
Alignment explanation
Indices: 46650211--46650249 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
46650201 CAATGTAGCC
46650211 ATTGAGAAAAACAGTCTTA
1 ATTGAGAAAAACAGTCTTA
* *
46650230 ATTGAGAAACATAGTCTTA
1 ATTGAGAAAAACAGTCTTA
46650249 A
1 A
46650250 CATCCATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (19 bp):
ATTGAGAAAAACAGTCTTA
Found at i:46655553 original size:35 final size:35
Alignment explanation
Indices: 46655506--46655636 Score: 111
Period size: 35 Copynumber: 3.6 Consensus size: 35
46655496 ATATTTGTCG
*
46655506 GTTTAT-TCGACTAGCGCTGGGCACAACTTTCATCA
1 GTTTATCT-GACTAGCGCTGGGCACAACTTTCGTCA
* * *
46655541 GTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCG
1 GTTTATCTGACTAGCGCTGGGCACA--ACT-T-TC-GTCA
* * * *
46655581 GTTTATCCGGCTAGCACTGGGTACAACTTTCGTCA
1 GTTTATCTGACTAGCGCTGGGCACAACTTTCGTCA
* *
46655616 GTTTATTTGACTAGTGCTGGG
1 GTTTATCTGACTAGCGCTGGG
46655637 TACATCGTTA
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
35 41 0.55
36 3 0.04
37 3 0.04
38 3 0.04
39 2 0.03
40 22 0.30
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (35 bp):
GTTTATCTGACTAGCGCTGGGCACAACTTTCGTCA
Found at i:46655585 original size:75 final size:75
Alignment explanation
Indices: 46655462--46655745 Score: 345
Period size: 75 Copynumber: 3.8 Consensus size: 75
46655452 AACGAATATT
** * * * *
46655462 ATCAGTTTATCTTCCTAGTGTTGGGCACA-CGATTATATTTGTCGGTTTATTCGACTAGCGCTGG
1 ATCAGTTTATCTGACTAGTGCTGGGCACATC-ATTATATCTGTCGGTTTATCCGACTAGCACTGG
*
46655526 GCACAACTTTC
65 GTACAACTTTC
*
46655537 ATCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGGCTAGCACTGGG
1 ATCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGG
46655602 TACAACTTTC
66 TACAACTTTC
* * * * * * *
46655612 GTCAGTTTATTTGACTAGTGCTGGGTACATCGTTATATCTATCGGTTGATCCAACTAGCACTGGG
1 ATCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGG
* *
46655677 TGCAACTTTT
66 TACAACTTTC
* * * * * *
46655687 TTCAGTTTATATGACTAGTGATGGGCACATCAATATATATGTCGGTTTATCTGACTAGC
1 ATCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGC
46655746 GTGGGGCGCA
Statistics
Matches: 179, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
75 178 0.99
76 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (75 bp):
ATCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGG
TACAACTTTC
Found at i:46662328 original size:47 final size:47
Alignment explanation
Indices: 46662259--46662357 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
46662249 TTATTGGACG
* * *
46662259 TTTATCTATGATTTTGGTGGCTTGTCCACGATATTGATTGTTGGCAA
1 TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
* *
46662306 TTTATCTGCGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAG
1 TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
46662353 TTTAT
1 TTTAT
46662358 AAGTGTTACT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.45
Consensus pattern (47 bp):
TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
Found at i:46664605 original size:20 final size:21
Alignment explanation
Indices: 46664559--46664605 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
46664549 TTTTTTTTAA
46664559 TCTATTT-ATTTATTTTTCTT
1 TCTATTTCATTTATTTTTCTT
*
46664579 TC-CTTTCATTT-TTTTTCTT
1 TCTATTTCATTTATTTTTCTT
46664598 TCTATTTC
1 TCTATTTC
46664606 TTTCATTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (21 bp):
TCTATTTCATTTATTTTTCTT
Found at i:46666650 original size:42 final size:42
Alignment explanation
Indices: 46666543--46666702 Score: 135
Period size: 42 Copynumber: 3.8 Consensus size: 42
46666533 TCATGTTTAC
* * * * *
46666543 TTTCCGTTTAGCTCTCACGAGCTTTTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGGG
* * ** * *
46666585 TTTCTGTTCAGTTCT-ATTAAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTCA-CGAGCTTCTGTTCAACCCATATGGG
* *
46666627 TTCCCGTTCAGCTCTTACGAGCTT-TCGTTCAACCCATATGGG
1 TTTCCGTTCAGCTCTCACGAGCTTCT-GTTCAACCCATATGGG
** * *
46666669 TTTCTATTTAGCTCTCATGAGCTTCTGTTCAACC
1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACC
46666703 TTCAGGCTTC
Statistics
Matches: 92, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 2 0.02
42 88 0.96
43 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.42
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGGG
Found at i:46666692 original size:84 final size:84
Alignment explanation
Indices: 46666546--46666702 Score: 199
Period size: 84 Copynumber: 1.9 Consensus size: 84
46666536 TGTTTACTTT
* * * * * *
46666546 CCGTTTAGCTCTCACGAGCTTTTGTTTAACTCATATGAGTTTCTGTTCAGTTCTATTAAGCTTCT
1 CCGTTCAGCTCTCACGAGCTTTCGTTCAACCCATATGAGTTTCTATTCAGCTCTATTAAGCTTCT
*
46666611 GTTTAACCCTTATGGGTTC
66 GTTCAACCCTTATGGGTTC
* * * *
46666630 CCGTTCAGCTCTTACGAGCTTTCGTTCAACCCATATGGGTTTCTATTTAGCTCTCA-TGAGCTTC
1 CCGTTCAGCTCTCACGAGCTTTCGTTCAACCCATATGAGTTTCTATTCAGCTCT-ATTAAGCTTC
46666694 TGTTCAACC
65 TGTTCAACC
46666703 TTCAGGCTTC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 60 0.98
85 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.41
Consensus pattern (84 bp):
CCGTTCAGCTCTCACGAGCTTTCGTTCAACCCATATGAGTTTCTATTCAGCTCTATTAAGCTTCT
GTTCAACCCTTATGGGTTC
Found at i:46669169 original size:16 final size:16
Alignment explanation
Indices: 46669148--46669180 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46669138 ATTAAATAAC
46669148 TAAAATAAACAAACAA
1 TAAAATAAACAAACAA
46669164 TAAAATAAACAAACAA
1 TAAAATAAACAAACAA
46669180 T
1 T
46669181 TAAACCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (16 bp):
TAAAATAAACAAACAA
Found at i:46678157 original size:26 final size:26
Alignment explanation
Indices: 46678119--46678175 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
46678109 CGGCTATGGC
46678119 AACATAGAGAGTCCACC-GAGACAGTA
1 AACATAGAGAGTCCACCAG-GACAGTA
* *
46678145 AACATA-AGAAGTCCGCCAGGACATTA
1 AACATAGAG-AGTCCACCAGGACAGTA
46678171 AACAT
1 AACAT
46678176 GGAACCTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 24 0.89
27 1 0.04
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (26 bp):
AACATAGAGAGTCCACCAGGACAGTA
Found at i:46682260 original size:16 final size:14
Alignment explanation
Indices: 46682223--46682261 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
46682213 GCGAAAAATA
46682223 AATAATAAAAAAAG
1 AATAATAAAAAAAG
46682237 AA-AATAAAAAAACG
1 AATAATAAAAAAA-G
46682251 AATAATTAAAA
1 AATAA-TAAAA
46682262 GAATGATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 5 0.23
15 2 0.09
16 5 0.23
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (14 bp):
AATAATAAAAAAAG
Found at i:46683529 original size:39 final size:39
Alignment explanation
Indices: 46683464--46683551 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
46683454 GTGTTGTTTG
*
46683464 AAATTATA-TTTAAGTATTTAAATAAATTATATTAAGTT
1 AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT
* * * *
46683502 AACTTATATTTTAAGTCTCTAAGTAAATTATGTTAAGTT
1 AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT
46683541 AAATTATATTT
1 AAATTATATTT
46683552 GAGCCTTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 7 0.16
39 36 0.84
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (39 bp):
AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT
Found at i:46691882 original size:13 final size:13
Alignment explanation
Indices: 46691864--46691936 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
46691854 CATAAGTATA
*
46691864 TTCATATAAACAC
1 TTCATATAAACAT
*
46691877 TTCATATAACCAT
1 TTCATATAAACAT
*
46691890 TTCATAT-ATCTAT
1 TTCATATAAAC-AT
46691903 TTCCATATAAACAT
1 TT-CATATAAACAT
**
46691917 TTCATATATCCAT
1 TTCATATAAACAT
46691930 TTCATAT
1 TTCATAT
46691937 TACCATTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
12 2 0.04
13 38 0.75
14 9 0.18
15 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (13 bp):
TTCATATAAACAT
Found at i:46691893 original size:40 final size:40
Alignment explanation
Indices: 46691849--46691933 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
46691839 AAATGTCCCT
*
46691849 TTTCACATAAGTATATT-CATATAAACACTTCATATAACCA
1 TTTCACATAACTAT-TTCCATATAAACACTTCATATAACCA
* * * *
46691889 TTTCATATATCTATTTCCATATAAACATTTCATATATCCA
1 TTTCACATAACTATTTCCATATAAACACTTCATATAACCA
46691929 TTTCA
1 TTTCA
46691934 TATTACCATT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 37 0.95
ACGTcount: A:0.38, C:0.20, G:0.01, T:0.41
Consensus pattern (40 bp):
TTTCACATAACTATTTCCATATAAACACTTCATATAACCA
Found at i:46691909 original size:27 final size:26
Alignment explanation
Indices: 46691877--46691945 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 26
46691867 ATATAAACAC
*
46691877 TTCATATAACCATTTCATATATCTAT
1 TTCATATAACCATTTCATATATCCAT
*
46691903 TTCCATATAAACATTTCATATATCCAT
1 TT-CATATAACCATTTCATATATCCAT
*
46691930 TTCATATTACCATTTC
1 TTCATATAACCATTTC
46691946 TGTTTACTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.37
27 24 0.63
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (26 bp):
TTCATATAACCATTTCATATATCCAT
Found at i:46691942 original size:13 final size:13
Alignment explanation
Indices: 46691877--46691945 Score: 61
Period size: 13 Copynumber: 5.2 Consensus size: 13
46691867 ATATAAACAC
*
46691877 TTCATATAACCAT
1 TTCATATTACCAT
*
46691890 TTCATA-TATCTAT
1 TTCATATTA-CCAT
* *
46691903 TTCCATATAAACAT
1 TT-CATATTACCAT
46691917 TTCATA-TATCCAT
1 TTCATATTA-CCAT
46691930 TTCATATTACCAT
1 TTCATATTACCAT
46691943 TTC
1 TTC
46691946 TGTTTACTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
12 2 0.05
13 31 0.70
14 10 0.23
15 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCATATTACCAT
Found at i:46691945 original size:40 final size:40
Alignment explanation
Indices: 46691866--46691945 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
46691856 TAAGTATATT
*
46691866 CATATAAACACTTCATATAACCATTTCATATATCTATTTC
1 CATATAAACACTTCATATAACCATTTCATATATCCATTTC
* *
46691906 CATATAAACATTTCATATATCCATTTCATAT-TACCATTTC
1 CATATAAACACTTCATATAACCATTTCATATAT-CCATTTC
46691946 TGTTTACTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.03
40 35 0.97
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (40 bp):
CATATAAACACTTCATATAACCATTTCATATATCCATTTC
Found at i:46698447 original size:51 final size:51
Alignment explanation
Indices: 46698335--46698512 Score: 164
Period size: 51 Copynumber: 3.5 Consensus size: 51
46698325 AGGTCACGTT
* * * * * * *
46698335 TGTAGTGCTATGTGCAGGCTACTACGTGTATCGGAATG-ATA-GGTCGCATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATGAAAATGATCACATG
* ***
46698385 TGTAGTACTATGTGAAGGCTACTATGCGTACCGGAT-AGCTTCGATCACATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAAT-GATCACATG
* * * * *
46698436 TGTAGTACTATGTGCAGGCTATTACGTGTATCGGATGAAAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCACATG
*
46698487 TGTAATACTATGTGCAGGCTACTATG
1 TGTAGTACTATGTGCAGGCTACTATG
46698513 TGAACTAGGT
Statistics
Matches: 102, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 2 0.02
50 29 0.28
51 69 0.68
52 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCACATG
Found at i:46698889 original size:19 final size:19
Alignment explanation
Indices: 46698865--46698907 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
46698855 CAAAAAAATG
46698865 GTGAAAATTGAATTAGAGA
1 GTGAAAATTGAATTAGAGA
46698884 GTGAAAATTGAATTAGAGA
1 GTGAAAATTGAATTAGAGA
46698903 GTGAA
1 GTGAA
46698908 TAATATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.26
Consensus pattern (19 bp):
GTGAAAATTGAATTAGAGA
Found at i:46703215 original size:51 final size:51
Alignment explanation
Indices: 46703072--46703254 Score: 165
Period size: 51 Copynumber: 3.6 Consensus size: 51
46703062 AGTTGCTAGG
* * * *
46703072 TCACGTGTGTAGTGCTATGTGCATGCTACTACGTGTATCAGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATGATAGA
* * * * * * * *
46703122 TCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATA-GCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATG-ATAGA
* ** *
46703173 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-ATGATAGA
* *
46703224 TCACATGTGTAATACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
46703255 TGTGAACCGG
Statistics
Matches: 104, Mismatches: 25, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
50 34 0.33
51 68 0.65
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATGATAGA
Found at i:46703264 original size:102 final size:101
Alignment explanation
Indices: 46703072--46703264 Score: 271
Period size: 101 Copynumber: 1.9 Consensus size: 101
46703062 AGTTGCTAGG
* * * * * *
46703072 TCACGTGTGTAGTGCTATGTGCATGCTACTACGTGTATCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAATAC
* *
46703137 TATGTGTAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
*
46703173 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATC-GGATGAAAATGGTCACATGTGTAAT
1 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATG-AAA-GGTCACATGTGTAAT
*
46703237 ACTATGTGCAGGCTACTATGTGAACCGG
64 ACTATGTGCAGGCTACTATGCGAACCGG
46703265 GTATCATTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
100 4 0.05
101 38 0.47
102 38 0.47
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAATAC
TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
Found at i:46708366 original size:19 final size:19
Alignment explanation
Indices: 46708313--46708377 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
46708303 GAAGATTGGT
* *
46708313 ACATTTTGTTCATATGGGGA
1 ACATTTTGTTGATA-AGGGA
* *
46708333 CCATTTT-TAGATAAGGGA
1 ACATTTTGTTGATAAGGGA
46708351 ACATTTTGTTGATAA-GGA
1 ACATTTTGTTGATAAGGGA
46708369 CACATTTTG
1 -ACATTTTG
46708378 AGGATATTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 13 0.35
19 18 0.49
20 6 0.16
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (19 bp):
ACATTTTGTTGATAAGGGA
Found at i:46708383 original size:19 final size:19
Alignment explanation
Indices: 46708329--46708379 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
46708319 TGTTCATATG
*
46708329 GGGAC-CATTTTTAGATAA
1 GGGACACATTTTGAGATAA
*
46708347 GGGA-ACATTTTGTTGATAA
1 GGGACACATTTTG-AGATAA
46708366 -GGACACATTTTGAG
1 GGGACACATTTTGAG
46708380 GATATTGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (19 bp):
GGGACACATTTTGAGATAA
Found at i:46715635 original size:18 final size:19
Alignment explanation
Indices: 46715603--46715641 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
46715593 ATCAAGAGAA
*
46715603 TTTTTTGGTGATTTTTTTCT
1 TTTTTTGGT-ATTTTTCTCT
46715623 TTTTTTGGT-TTTTTCTCT
1 TTTTTTGGTATTTTTCTCT
46715641 T
1 T
46715642 CAAAAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.03, C:0.08, G:0.13, T:0.77
Consensus pattern (19 bp):
TTTTTTGGTATTTTTCTCT
Found at i:46718883 original size:15 final size:15
Alignment explanation
Indices: 46718860--46718899 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
46718850 GTATATATAT
*
46718860 ATAATAATAAAAATA
1 ATAAGAATAAAAATA
*
46718875 ATAAGAATAAGAATA
1 ATAAGAATAAAAATA
46718890 ATAAGAATAA
1 ATAAGAATAA
46718900 CTTAATAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
ATAAGAATAAAAATA
Found at i:46719907 original size:44 final size:44
Alignment explanation
Indices: 46719857--46719968 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
46719847 GATATGCTCT
* * *
46719857 CTGCAACTTTAGAGAGATAAGATCTA-TCACTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-TATTCACTTTAATCCACTCCA
** ** *
46719901 CTGCAACTTCAGGGAGATTGGATTATTGGCTTTAATCTACTCCA
1 CTGCAACTTCAGGGAGATAAGATTATTCACTTTAATCCACTCCA
46719945 CTGCAACTTCAGGGAGATAAGATT
1 CTGCAACTTCAGGGAGATAAGATT
46719969 CGCTATCTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.04
44 55 0.96
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTATTCACTTTAATCCACTCCA
Found at i:46720241 original size:169 final size:169
Alignment explanation
Indices: 46720043--46720666 Score: 991
Period size: 169 Copynumber: 3.7 Consensus size: 169
46720033 TGTTCTATTG
* * * * *
46720043 TAATGCCAAAGAGATAGGATTCCCTGCCCACAGCTTTAATCTGCTTCTCTTCAGCTACTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
*
46720108 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGA
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA
46720173 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
131 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
*
46720212 TAATGCCAAAGAGATAGGATTCGCTGCCCATAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
* * *
46720277 GTTAACGCCAGGGAGATAAGATCCGCTG-CCTCCAGCTTTAATCTGCTCCGTTGCAACGCTAGGG
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCT-CAGCTTTAATCTGCTCCGCTGCAACGCTAGGG
46720341 AAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTC-
130 AAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCAC-CA
* *
46720381 TAATGCGAAAGAGATAGGATTCGCTGCCCACAGCTTTATTCCGCTCCACTTCAGCTATTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
* *
46720446 CTTAACGCCAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTGCAACGCTAGGGA
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA
* * * * *
46720511 AACAATATTCGCTACATTTAGCTTTAATTTGTTCCACTA
131 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
* * *
46720550 TAATGCCAAAGAGATAGGATTTGCTACCCACAGCTTTAATCCACTCCACTTCAGCTATTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
* * *
46720615 CTTAATGCCAGGGAGATAAAATTCGCTGCCCTCAGCCTTAATCTGCTCCGCT
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCT
46720667 ATAACATCAG
Statistics
Matches: 418, Mismatches: 33, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
168 3 0.01
169 411 0.98
170 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (169 bp):
TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA
AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
Found at i:46720748 original size:37 final size:37
Alignment explanation
Indices: 46720698--46720896 Score: 152
Period size: 44 Copynumber: 5.1 Consensus size: 37
46720688 TCGCAATCTT
* *
46720698 CAACCTATTCCACTGTTAACCAGGGAGATAGGATTCA
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA
* *
46720735 CAACCTATTCCACTGCTGACCAGGGAGATATGA--CT
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA
* * *
46720770 C-ACCTATTCTATTGCTGACCAGGGAGATAGGACTTATAATA
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGA--T-T--CA
** *
46720811 TTCAACCTATTCCACTATTGACCAGGGAGATAGGACTCACAATCTT
1 --CAACCTATTCCACTGCTGACCAGGGAGATAGGA-T-----TC-A
*
46720857 CAACCTATTCCACTACTGACCAGGGAGATAGGATTCA
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA
46720894 CAA
1 CAA
46720897 TCTTCAGCCT
Statistics
Matches: 129, Mismatches: 18, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
34 28 0.22
35 2 0.02
37 33 0.26
38 2 0.02
43 3 0.02
44 59 0.46
47 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (37 bp):
CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA
Found at i:46720786 original size:34 final size:34
Alignment explanation
Indices: 46720700--46720803 Score: 127
Period size: 34 Copynumber: 3.0 Consensus size: 34
46720690 GCAATCTTCA
* * *
46720700 ACCTATTCCACTGTTAACCAGGGAGATAGGATTCAC
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA--CTC
*
46720736 AACCTATTCCACTGCTGACCAGGGAGATATGACTC
1 -ACCTATTCCACTGCTGACCAGGGAGATAGGACTC
* *
46720771 ACCTATTCTATTGCTGACCAGGGAGATAGGACT
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACT
46720804 TATAATATTC
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
34 30 0.50
35 2 0.03
37 28 0.47
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (34 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGACTC
Found at i:46720834 original size:44 final size:43
Alignment explanation
Indices: 46720785--46720932 Score: 208
Period size: 44 Copynumber: 3.4 Consensus size: 43
46720775 ATTCTATTGC
* *
46720785 TGACCAGGGAGATAGGACTTATAATATTCAACCTATTCCACTA
1 TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA
*
46720828 TTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTA
1 -TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA
*
46720872 CTGACCAGGGAGATAGGA-TTCACAATCTTCAGCCTATTCCACTGA
1 -TGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACT-A
*
46720917 TGTCCAGGGAGATAGG
1 TGACCAGGGAGATAGG
46720933 GCTGGGGTTA
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
43 1 0.01
44 93 0.98
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (43 bp):
TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA
Found at i:46728766 original size:14 final size:12
Alignment explanation
Indices: 46728736--46728777 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
46728726 AATGGCATAG
46728736 AAATAATATAAAC
1 AAATAA-ATAAAC
46728749 AAATAAATAAAC
1 AAATAAATAAAC
*
46728761 -AA-AAATAAAA
1 AAATAAATAAAC
46728771 AAATAAA
1 AAATAAA
46728778 CAATCACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 7 0.27
11 4 0.15
12 9 0.35
13 6 0.23
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:46729245 original size:28 final size:31
Alignment explanation
Indices: 46729213--46729270 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 31
46729203 TTTTTTTAAA
*
46729213 TGTATGTATAT-TATTATAA-AA-AATAATG
1 TGTATGTATATATATAATAATAATAATAATG
46729241 TGTATGTATATATATAATAATAATAATAAT
1 TGTATGTATATATATAATAATAATAATAAT
46729271 AATAATAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
29 7 0.27
30 2 0.08
31 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (31 bp):
TGTATGTATATATATAATAATAATAATAATG
Found at i:46729262 original size:3 final size:3
Alignment explanation
Indices: 46729254--46729278 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
46729244 ATGTATATAT
46729254 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
46729279 CTTAATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:46730708 original size:13 final size:13
Alignment explanation
Indices: 46730690--46730714 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46730680 CAAATAAAAA
46730690 ATAAATAAATATG
1 ATAAATAAATATG
46730703 ATAAATAAATAT
1 ATAAATAAATAT
46730715 AACAATAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATAAATAAATATG
Found at i:46730753 original size:12 final size:12
Alignment explanation
Indices: 46730736--46730760 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46730726 AAAGATTGGA
46730736 AAAATAAAGAAG
1 AAAATAAAGAAG
46730748 AAAATAAAGAAG
1 AAAATAAAGAAG
46730760 A
1 A
46730761 TATATGGAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAATAAAGAAG
Found at i:46735533 original size:21 final size:21
Alignment explanation
Indices: 46735507--46735546 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46735497 ATGTATAATT
*
46735507 TATTT-AGATATTTTTAATATA
1 TATTTAAGA-ATTTTAAATATA
46735528 TATTTAAGAATTTTAAATA
1 TATTTAAGAATTTTAAATA
46735547 AAATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TATTTAAGAATTTTAAATATA
Found at i:46736213 original size:23 final size:23
Alignment explanation
Indices: 46736183--46736227 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
46736173 AAACGCTATT
46736183 AAAATAAAATTTTAAAAAATGAG
1 AAAATAAAATTTTAAAAAATGAG
46736206 AAAATAAAATTTTAAAAAATGA
1 AAAATAAAATTTTAAAAAATGA
46736228 CACTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (23 bp):
AAAATAAAATTTTAAAAAATGAG
Found at i:46747171 original size:14 final size:13
Alignment explanation
Indices: 46747152--46747194 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
46747142 TTCAAAAAAT
46747152 ATATATAATATATA
1 ATATATAATAT-TA
46747166 ATATATAACTATTA
1 ATATATAA-TATTA
*
46747180 ATAGA-AATATTA
1 ATATATAATATTA
46747192 ATA
1 ATA
46747195 CGTATATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 14 0.52
15 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATATAATATTA
Found at i:46750492 original size:16 final size:17
Alignment explanation
Indices: 46750471--46750504 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46750461 ACATAATTAT
*
46750471 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
46750487 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
46750504 T
1 T
46750505 TAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:46756340 original size:10 final size:10
Alignment explanation
Indices: 46756312--46756347 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
46756302 TTACAAAACT
46756312 AATACAAAAA
1 AATACAAAAA
46756322 AATA-AAAAA
1 AATACAAAAA
*
46756331 AATACCAAAA
1 AATACAAAAA
46756341 AATACAA
1 AATACAA
46756348 GCATTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (10 bp):
AATACAAAAA
Found at i:46756456 original size:27 final size:27
Alignment explanation
Indices: 46756393--46756462 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
46756383 GTGGAGGGAC
* * *
46756393 TGCCACAAGTGGCACCAAAGGTGCTAG
1 TGCCACAGGCGGCACCAAAGGTGCCAG
** * *
46756420 TGGTAGAGGCGGCACCAAAGGTGCCAT
1 TGCCACAGGCGGCACCAAAGGTGCCAG
46756447 TGCCACAGGCGGCACC
1 TGCCACAGGCGGCACC
46756463 GCCCCCCTTA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.29, G:0.33, T:0.13
Consensus pattern (27 bp):
TGCCACAGGCGGCACCAAAGGTGCCAG
Found at i:46756932 original size:30 final size:30
Alignment explanation
Indices: 46756893--46757027 Score: 157
Period size: 30 Copynumber: 4.4 Consensus size: 30
46756883 AAATTAAATA
46756893 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
* * *
46756923 AAATGATAAAACATA-AATAATAACATAAATAAT
1 AAATAATAAAACATAGAAT-GT-ACAT-AA-CAT
* *
46756956 AAAATAATAAGACATAGTATGTACATAACAT
1 -AAATAATAAAACATAGAATGTACATAACAT
46756987 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
46757017 AAA-AATTAAAA
1 AAATAA-TAAAA
46757028 TCAAAACCAA
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
29 5 0.06
30 51 0.58
31 6 0.07
32 4 0.05
33 6 0.07
34 14 0.16
35 2 0.02
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:46756947 original size:12 final size:12
Alignment explanation
Indices: 46756916--46756962 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
46756906 TAGAATGTAC
46756916 ATAACATAAATGA
1 ATAACATAAAT-A
*
46756929 TAAAACATAAATA
1 -ATAACATAAATA
46756942 ATAACATAAATA
1 ATAACATAAATA
*
46756954 ATAAAATAA
1 ATAACATAA
46756963 TAAGACATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
12 19 0.63
13 1 0.03
14 10 0.33
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (12 bp):
ATAACATAAATA
Done.