Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 83 of 91
Found at i:18698395 original size:3 final size:3
Alignment explanation
Indices: 18698387--18698772 Score: 588
Period size: 3 Copynumber: 132.7 Consensus size: 3
18698377 TGGTTGACAA
18698387 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
18698435 TAT TAT TAT TAT TAT TATT TAT TAT TTT TA- TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
18698479 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18698526 TAT T-T TAT TA- TAT TAT TA- TAT TAT TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18698570 TAT TAT TA- TAT TAT TAT T-T TAT TAT TAT TAT TAT TA- TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
18698616 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
18698663 TA- TAT TCT TAT TAT TAT TAT TAT ATAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
18698707 TAT TAT TAT TA- TAT TAT T-T TAT TAT TAT TAT T-T TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* *
18698750 TAT TGT TAT TGT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
18698773 ATGCACTTAA
Statistics
Matches: 355, Mismatches: 8, Indels: 40
0.88 0.02 0.10
Matches are distributed among these distances:
2 32 0.09
3 311 0.88
4 12 0.03
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18699119 original size:18 final size:18
Alignment explanation
Indices: 18699096--18699135 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
18699086 AACAGATTGA
18699096 TTCTTCTATTTCTTTTCT
1 TTCTTCTATTTCTTTTCT
18699114 TTCTTCTATTTCTTTTCT
1 TTCTTCTATTTCTTTTCT
18699132 TTCT
1 TTCT
18699136 CAGGTATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (18 bp):
TTCTTCTATTTCTTTTCT
Found at i:18706370 original size:18 final size:19
Alignment explanation
Indices: 18706336--18706385 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
18706326 AATAAATTAT
** *
18706336 TTAATATATAGAAAGTAAG
1 TTAATATATAGTTAGTAAA
18706355 TTAAT-TATAGTTAGTAAA
1 TTAATATATAGTTAGTAAA
18706373 TTAATATATAGTT
1 TTAATATATAGTT
18706386 GATTAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (19 bp):
TTAATATATAGTTAGTAAA
Found at i:18706441 original size:23 final size:22
Alignment explanation
Indices: 18706382--18706465 Score: 60
Period size: 22 Copynumber: 3.8 Consensus size: 22
18706372 ATTAATATAT
* **
18706382 AGTTGATTAAAATATATTAATA
1 AGTTAATTAAAATATAGAAATA
* * *
18706404 AATTATTTAATATATAGAAAGTA
1 AGTTAATTAAAATATAGAAA-TA
**
18706427 AGTTAATTAAAATATATTAATA
1 AGTTAATTAAAATATAGAAATA
* * *
18706449 AATTATTTAATATATAG
1 AGTTAATTAAAATATAG
18706466 TTGGTAAATT
Statistics
Matches: 46, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
22 29 0.63
23 17 0.37
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
AGTTAATTAAAATATAGAAATA
Found at i:18706478 original size:45 final size:45
Alignment explanation
Indices: 18706387--18706483 Score: 149
Period size: 45 Copynumber: 2.1 Consensus size: 45
18706377 TATATAGTTG
*
18706387 ATTAAAATATATTAATAAATTATTTAATATATAGAAAGTAAGTTA
1 ATTAAAATATATTAATAAATTATTTAATATATAGAAAGTAAATTA
***
18706432 ATTAAAATATATTAATAAATTATTTAATATATAGTTGGTAAATTA
1 ATTAAAATATATTAATAAATTATTTAATATATAGAAAGTAAATTA
18706477 ATATAAA
1 AT-TAAA
18706484 TTATGAAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 43 0.91
46 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (45 bp):
ATTAAAATATATTAATAAATTATTTAATATATAGAAAGTAAATTA
Found at i:18707365 original size:53 final size:48
Alignment explanation
Indices: 18707300--18707422 Score: 153
Period size: 45 Copynumber: 2.5 Consensus size: 48
18707290 AAAAATCATA
*
18707300 AAATTATTTATTAATATATTTTAAAAAAATTACTAACTGACTTTCTATATATT
1 AAATAATTTATTAATATATTTT--AAAAA-T--TAACTGACTTTCTATATATT
* *
18707353 AAATAATTTATTAATATATTTT---AATTAACTTAGTTTCTATATATT
1 AAATAATTTATTAATATATTTTAAAAATTAACTGACTTTCTATATATT
18707398 AAATAATTTATTAATATATTTTAAA
1 AAATAATTTATTAATATATTTTAAA
18707423 GAACTTTTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
45 40 0.62
47 1 0.02
48 2 0.03
53 21 0.33
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (48 bp):
AAATAATTTATTAATATATTTTAAAAATTAACTGACTTTCTATATATT
Found at i:18707370 original size:22 final size:22
Alignment explanation
Indices: 18707345--18707422 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
18707335 ACTGACTTTC
18707345 TATATATTAAATAATTTATTAA
1 TATATATTAAATAATTTATTAA
* * * **
18707367 TATATTTTAATTAACTTAGTTTC
1 TATATATTAAATAATTTA-TTAA
18707390 TATATATTAAATAATTTATTAA
1 TATATATTAAATAATTTATTAA
*
18707412 TATATTTTAAA
1 TATATATTAAA
18707423 GAACTTTTTA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 27 0.61
23 17 0.39
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.53
Consensus pattern (22 bp):
TATATATTAAATAATTTATTAA
Found at i:18707428 original size:45 final size:45
Alignment explanation
Indices: 18707341--18707428 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
18707331 ACTAACTGAC
**
18707341 TTTCTATATATTAAATAATTTATTAATATATTTTAATTAACTTAG
1 TTTCTATATATTAAATAATTTATTAATATATTTTAAAGAACTTAG
18707386 TTTCTATATATTAAATAATTTATTAATATATTTTAAAGAACTT
1 TTTCTATATATTAAATAATTTATTAATATATTTTAAAGAACTT
18707429 TTTAGCAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (45 bp):
TTTCTATATATTAAATAATTTATTAATATATTTTAAAGAACTTAG
Found at i:18709244 original size:19 final size:18
Alignment explanation
Indices: 18709205--18709249 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
18709195 ACTTTTGATA
* *
18709205 TTTATTATAAAGTTTATT
1 TTTATTTTAAAGTTAATT
18709223 TTTATTTTAAAGTATAATT
1 TTTATTTTAAAGT-TAATT
18709242 TTTATTTT
1 TTTATTTT
18709250 GAAATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATTTTAAAGTTAATT
Found at i:18710408 original size:194 final size:193
Alignment explanation
Indices: 18710076--18710554 Score: 550
Period size: 194 Copynumber: 2.5 Consensus size: 193
18710066 AATATATATG
* *
18710076 GTGACGTTATGCATGATCATCATTCATAATATTATTAGGTAATGATATATTATGTCACTAAAAAT
1 GTGACGTTATGCATAAACATCATTCATAATATTATTAGGTAATGATATATTATGTCACTAAAAAT
** *
18710141 GTGACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATAAATTA
66 GTGACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAATCA
* ** * *
18710206 TGAATAACGAAATCTTATTTAATTTAGTGACGTAACAAACTGTCATAGAATATAAATTATAAA
131 TCAATAACGAAATCTTACATAATTTAGTGACATAACAAACTGTCATAGAATATAAATCATAAA
* *
18710269 GTGACGTTATGCATAAACGTCATTCATAATATTATTAGGTAACAT-TTATATTATGTCACTAAAA
1 GTGACGTTATGCATAAACATCATTCATAATATTATTAGGT-A-ATGATATATTATGTCACTAAAA
* * * * *
18710333 ATTTGACAATATCTCTTTCGTCACATATAGGTTGATTTTAATGTATTGTCCGTGACGATATAAAT
64 ATGTGACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAAT
* ** ** * * *
18710398 CATCAATAACGAAATTTTACATAATTTAGTGACATAATTAGTTGTCATTGAATATTAATCATATA
129 CATCAATAACGAAATCTTACATAATTTAGTGACATAACAAACTGTCATAGAATATAAATCATAAA
*** ** * * * * * * * *
18710463 GTGACGTTATATTTAAATGTCATCCATGCA-ACTATTAGGTGACGATATACTACGTCACTAACAA
1 GTGACGTTATGCATAAACATCATTCAT-AATATTATTAGGTAATGATATATTATGTCACTAAAAA
*
18710527 TGTGACAAT-TTTCTTTTCGTCACATATA
65 TGTGACAATATCTC-TTTCGTCACATATA
18710555 CAATGAAATT
Statistics
Matches: 241, Mismatches: 40, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
192 4 0.02
193 75 0.31
194 159 0.66
195 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (193 bp):
GTGACGTTATGCATAAACATCATTCATAATATTATTAGGTAATGATATATTATGTCACTAAAAAT
GTGACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAATCA
TCAATAACGAAATCTTACATAATTTAGTGACATAACAAACTGTCATAGAATATAAATCATAAA
Found at i:18716938 original size:3 final size:3
Alignment explanation
Indices: 18716926--18716956 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18716916 ATACATTAAC
18716926 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18716957 CATAAACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18719204 original size:3 final size:3
Alignment explanation
Indices: 18719196--18719231 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
18719186 TTTGGTTGCT
*
18719196 TAA TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18719232 ATATGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18719674 original size:135 final size:136
Alignment explanation
Indices: 18719404--18719683 Score: 402
Period size: 135 Copynumber: 2.1 Consensus size: 136
18719394 TGATTTAAAT
* * * * * **
18719404 TATCTCAAGTGAGATGACGCTAATCCTATTCCTTATGTGATGGAATCGAGCGAAGTGGTGATGCT
1 TATCTCGAGTGAGATGACGCTAATCCAATTCCTTATGTAATGGAATCGAGCAAAATGGTGACACT
* *
18719469 GATCCTGCTCATTATGTGATGGATTTAAACCTCAAGTGAAATGATATTAAAATTTGTGTTTCAAG
66 GATCCTACTCATTATGTGATGGATTTAAACCTCAAGTGAAATGATATTAAAATTTGAGTTTCAAG
18719534 GGAAAC
131 GGAAAC
* *
18719540 TATCTCGAGTGAGATGATGCTAATCCAATTCCTTCTGTAATGGAATCGAGCCAAAAT-GTGACAC
1 TATCTCGAGTGAGATGACGCTAATCCAATTCCTTATGTAATGGAATCGAG-CAAAATGGTGACAC
* * * *
18719604 TGATCC-ACTCCTTATGTGATGGATTTAAACCTCAAGTGAAATTATATTGAAGTTTGAGTTTCAA
65 TGATCCTACTCATTATGTGATGGATTTAAACCTCAAGTGAAATGATATTAAAATTTGAGTTTCAA
18719668 GGGAAAC
130 GGGAAAC
18719675 TATCTCGAG
1 TATCTCGAG
18719684 CCTGATCCAA
Statistics
Matches: 128, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
135 68 0.53
136 56 0.44
137 4 0.03
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (136 bp):
TATCTCGAGTGAGATGACGCTAATCCAATTCCTTATGTAATGGAATCGAGCAAAATGGTGACACT
GATCCTACTCATTATGTGATGGATTTAAACCTCAAGTGAAATGATATTAAAATTTGAGTTTCAAG
GGAAAC
Found at i:18725849 original size:2 final size:2
Alignment explanation
Indices: 18725842--18725870 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18725832 ATATAACATG
18725842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18725871 CTATTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18726130 original size:20 final size:20
Alignment explanation
Indices: 18726090--18726175 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
18726080 GAAGACTTTG
* *
18726090 GAGTTTCGAAAC-TTCACAA
1 GAGTTTCAAAACTTTCATAA
18726109 GAGTTTCAAAACTTTCATAA
1 GAGTTTCAAAACTTTCATAA
* *
18726129 GATTTTCAATACTTTCATAA
1 GAGTTTCAAAACTTTCATAA
*
18726149 GATTTTCAAAACTTTCATTAA
1 GAGTTTCAAAACTTTCA-TAA
18726170 -AGTTTC
1 GAGTTTC
18726176 GATACTTCGG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.19
20 45 0.76
21 3 0.05
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (20 bp):
GAGTTTCAAAACTTTCATAA
Found at i:18726181 original size:40 final size:40
Alignment explanation
Indices: 18726090--18726182 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
18726080 GAAGACTTTG
*
18726090 GAGTTTCGAAAC-TTCACAAGAGTTTCAAAACTTTCATAA
1 GAGTTTCGATACTTTCACAAGAGTTTCAAAACTTTCATAA
* * * *
18726129 GATTTTCAATACTTTCATAAGATTTTCAAAACTTTCATTAA
1 GAGTTTCGATACTTTCACAAGAGTTTCAAAACTTTCA-TAA
18726170 -AGTTTCGATACTT
1 GAGTTTCGATACTT
18726183 CGGGTTTTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
39 9 0.20
40 33 0.73
41 3 0.07
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (40 bp):
GAGTTTCGATACTTTCACAAGAGTTTCAAAACTTTCATAA
Found at i:18732506 original size:22 final size:22
Alignment explanation
Indices: 18732480--18732559 Score: 85
Period size: 23 Copynumber: 3.7 Consensus size: 22
18732470 ATAGGGCAGA
*
18732480 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
* *
18732502 GGGAACCGATTTCCCCTTTGAAG
1 GGGAACCGA-TACCCCCTTGAAG
*
18732525 GGGAACCGATTCCCCC-T--AG
1 GGGAACCGATACCCCCTTGAAG
*
18732544 GGGAATCGATACCCCC
1 GGGAACCGATACCCCC
18732560 CTGGGGTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 16 0.31
21 1 0.02
22 14 0.27
23 20 0.39
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:18732522 original size:23 final size:23
Alignment explanation
Indices: 18732480--18732541 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
18732470 ATAGGGCAGA
* *
18732480 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
*
18732502 GGGAACCGATTTCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
18732525 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
18732542 AGGGGAATCG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.21
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:18732561 original size:20 final size:19
Alignment explanation
Indices: 18732523--18732565 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18732513 TCCCCTTTGA
*
18732523 AGGGGAACCGATTCCCCCT
1 AGGGGAACCGATCCCCCCT
*
18732542 AGGGGAATCGATACCCCCCT
1 AGGGGAACCGAT-CCCCCCT
18732562 -GGGG
1 AGGGG
18732566 TTCTGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.14
Consensus pattern (19 bp):
AGGGGAACCGATCCCCCCT
Found at i:18733383 original size:15 final size:15
Alignment explanation
Indices: 18733363--18733400 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
18733353 AATCCTCATT
18733363 CTATTCCTGAAATTC
1 CTATTCCTGAAATTC
18733378 CTATTCCTGAAATTC
1 CTATTCCTGAAATTC
18733393 CTATTCCT
1 CTATTCCT
18733401 AATCCTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.42
Consensus pattern (15 bp):
CTATTCCTGAAATTC
Found at i:18739708 original size:3 final size:3
Alignment explanation
Indices: 18739700--18739757 Score: 82
Period size: 3 Copynumber: 19.7 Consensus size: 3
18739690 AGTCTACTCT
* *
18739700 TTA TTA TTA TTA TTA GTA TTA TCA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
18739747 TTA ATA TTA TT
1 TTA TTA TTA TT
18739758 GTCATTACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:18743169 original size:33 final size:35
Alignment explanation
Indices: 18743121--18743188 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
18743111 TTATTTTATC
* * *
18743121 TTTATCTATTCTTATTTTT-ATTTTGTCCATCTTT
1 TTTATCTATCCTTATTTTTCATTTTCTCAATCTTT
18743155 TTTAT-TATCCTTATTTTTCATTTTCTCAATCTTT
1 TTTATCTATCCTTATTTTTCATTTTCTCAATCTTT
18743189 GTTTCTTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.16, C:0.16, G:0.01, T:0.66
Consensus pattern (35 bp):
TTTATCTATCCTTATTTTTCATTTTCTCAATCTTT
Found at i:18743557 original size:14 final size:13
Alignment explanation
Indices: 18743538--18743594 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 13
18743528 TTTTTCATTG
18743538 AAAATAAAATAAAA
1 AAAATAAAA-AAAA
18743552 AAAATAAAAAAACA
1 AAAATAAAAAAA-A
* *
18743566 AAAGTAAAGAAAA
1 AAAATAAAAAAAA
* *
18743579 AAGACAAAAAAAA
1 AAAATAAAAAAAA
18743592 AAA
1 AAA
18743595 GAAAAAGAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
13 15 0.43
14 20 0.57
ACGTcount: A:0.84, C:0.04, G:0.05, T:0.07
Consensus pattern (13 bp):
AAAATAAAAAAAA
Found at i:18743602 original size:27 final size:27
Alignment explanation
Indices: 18743538--18743599 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
18743528 TTTTTCATTG
* * *
18743538 AAAATAAAATAAAAAAAATAAAAAAAC
1 AAAAGAAAAGAAAAAAAACAAAAAAAC
* *
18743565 AAAAGTAAAGAAAAAAGACAAAAAAA-
1 AAAAGAAAAGAAAAAAAACAAAAAAAC
18743591 AAAAGAAAA
1 AAAAGAAAA
18743600 AGAGAAATCC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (27 bp):
AAAAGAAAAGAAAAAAAACAAAAAAAC
Found at i:18745209 original size:21 final size:21
Alignment explanation
Indices: 18745185--18745230 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
18745175 TTTCAGAGAC
*
18745185 ACTTACCAAGATACTTCATCT
1 ACTTACCAAGATAATTCATCT
* *
18745206 ACTTACCAAGGTAATTCGTCT
1 ACTTACCAAGATAATTCATCT
18745227 ACTT
1 ACTT
18745231 CCACTTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (21 bp):
ACTTACCAAGATAATTCATCT
Found at i:18746838 original size:20 final size:23
Alignment explanation
Indices: 18746815--18746862 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
18746805 TAATTTAATA
18746815 TAGGA-TA-ATTCATTATCTT-T
1 TAGGATTAGATTCATTATCTTAT
*
18746835 TAGGATTAGATTCATTATTTTAT
1 TAGGATTAGATTCATTATCTTAT
18746858 TAGGA
1 TAGGA
18746863 ATTAAGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 5 0.21
21 2 0.08
22 11 0.46
23 6 0.25
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (23 bp):
TAGGATTAGATTCATTATCTTAT
Found at i:18747380 original size:16 final size:17
Alignment explanation
Indices: 18747340--18747381 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
18747330 TTTAACAATT
*
18747340 CTTATTTTTATTTTATC
1 CTTATTTTTATATTATC
* *
18747357 CATCTTTTT-TATTATC
1 CTTATTTTTATATTATC
18747373 CTTATTTTT
1 CTTATTTTT
18747382 CATTGTCTTA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (17 bp):
CTTATTTTTATATTATC
Found at i:18749566 original size:12 final size:13
Alignment explanation
Indices: 18749549--18749577 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18749539 AACATTAAGA
18749549 AATTAAATTT-AT
1 AATTAAATTTAAT
18749561 AATTAAATTTAAT
1 AATTAAATTTAAT
18749574 AATT
1 AATT
18749578 TATATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTAAATTTAAT
Found at i:18749675 original size:20 final size:20
Alignment explanation
Indices: 18749572--18749675 Score: 54
Period size: 20 Copynumber: 5.2 Consensus size: 20
18749562 ATTAAATTTA
* *
18749572 ATAATTT-ATATAATTTATAA
1 ATAATTTAATAT-ATATATAT
* *
18749592 ATTATTAAATATAT-TA-ATT
1 ATAATTTAATATATATATA-T
18749611 ATAATTT-ATATATATATAT
1 ATAATTTAATATATATATAT
** * * * *
18749630 AGTTAATAAAATTTGTATACAA
1 A--TAATTTAATATATATATAT
18749652 ATAATTTAATATATATATAT
1 ATAATTTAATATATATATAT
18749672 ATAA
1 ATAA
18749676 ATATTTATCA
Statistics
Matches: 60, Mismatches: 17, Indels: 14
0.66 0.19 0.15
Matches are distributed among these distances:
18 7 0.12
19 11 0.18
20 25 0.42
21 8 0.13
22 9 0.15
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (20 bp):
ATAATTTAATATATATATAT
Found at i:18751135 original size:15 final size:15
Alignment explanation
Indices: 18751117--18751147 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18751107 CCTTTTTCTC
18751117 ATGTGGATGATGATG
1 ATGTGGATGATGATG
*
18751132 ATGTTGATGATGATG
1 ATGTGGATGATGATG
18751147 A
1 A
18751148 GGATTGATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (15 bp):
ATGTGGATGATGATG
Found at i:18751887 original size:19 final size:19
Alignment explanation
Indices: 18751863--18751916 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
18751853 CTTTGACCAG
*
18751863 AAGTTTTGATACTTCACAA
1 AAGTTTTGAAACTTCACAA
** *
18751882 AAGTTTCAAAACTTTCATAA
1 AAGTTTTGAAAC-TTCACAA
18751902 AAGTTTTGAAACTTC
1 AAGTTTTGAAACTTC
18751917 CATTAAAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (19 bp):
AAGTTTTGAAACTTCACAA
Found at i:18751903 original size:20 final size:20
Alignment explanation
Indices: 18751875--18751936 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
18751865 GTTTTGATAC
*
18751875 TTCACAAAAGTTTCAAAACT
1 TTCATAAAAGTTTCAAAACT
**
18751895 TTCATAAAAGTTTTGAAACT
1 TTCATAAAAGTTTCAAAACT
* * *
18751915 TCCATTAAAGTTTCAATACT
1 TTCATAAAAGTTTCAAAACT
18751935 TT
1 TT
18751937 GGGTTTCAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (20 bp):
TTCATAAAAGTTTCAAAACT
Found at i:18752346 original size:15 final size:15
Alignment explanation
Indices: 18752326--18752359 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18752316 GTTGAACACT
18752326 TAAGACTTTGGGATA
1 TAAGACTTTGGGATA
*
18752341 TAAGACTTTGGGGTA
1 TAAGACTTTGGGATA
18752356 TAAG
1 TAAG
18752360 TCTTAGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (15 bp):
TAAGACTTTGGGATA
Found at i:18754306 original size:31 final size:30
Alignment explanation
Indices: 18754271--18754348 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
18754261 CGTCCCCAAC
*
18754271 AGGTCGCCATGCATTCCCCA-ACACCCCTACA
1 AGGTCGCCATGCACTCCCCAGACA--CCTACA
* **
18754302 AGGTCGCCAAGCACT-CCCAGTGACCTACA
1 AGGTCGCCATGCACTCCCCAGACACCTACA
18754331 AGGTCGCCATGCACTCCC
1 AGGTCGCCATGCACTCCC
18754349 AGCGACCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 20 0.50
30 6 0.15
31 14 0.35
ACGTcount: A:0.24, C:0.42, G:0.18, T:0.15
Consensus pattern (30 bp):
AGGTCGCCATGCACTCCCCAGACACCTACA
Found at i:18754333 original size:29 final size:29
Alignment explanation
Indices: 18754296--18754384 Score: 115
Period size: 29 Copynumber: 3.1 Consensus size: 29
18754286 CCCCAACACC
*
18754296 CCTACAAGGTCGCCAAGCACTCCCAGTGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
*
18754325 CCTACAAGGTCGCCATGCACTCCCAGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
*** * *
18754354 CCTTTTAGGTCGCCAAGCAGTCCCGGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
18754383 CC
1 CC
18754385 AAGCTTCACG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.22, C:0.39, G:0.22, T:0.16
Consensus pattern (29 bp):
CCTACAAGGTCGCCAAGCACTCCCAGCGA
Found at i:18754556 original size:33 final size:33
Alignment explanation
Indices: 18754519--18754585 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
18754509 TAATTGCATA
18754519 ATTATTGGTGAAATAATTGAGGCAGCCGGTGAC
1 ATTATTGGTGAAATAATTGAGGCAGCCGGTGAC
18754552 ATTATTGGTGAAATAATTGAGGCAGCCGGTGAC
1 ATTATTGGTGAAATAATTGAGGCAGCCGGTGAC
18754585 A
1 A
18754586 CCTAAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (33 bp):
ATTATTGGTGAAATAATTGAGGCAGCCGGTGAC
Found at i:18754710 original size:13 final size:13
Alignment explanation
Indices: 18754687--18754733 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
18754677 TAGCCGAGAA
18754687 AGAAA-GAAAGGG
1 AGAAAGGAAAGGG
*
18754699 AGAAAGGAAAGGA
1 AGAAAGGAAAGGG
*
18754712 AGAAGAAGAAAGGG
1 AGAA-AGGAAAGGG
18754726 AGATAAGG
1 AGA-AAGG
18754734 CTCTTGTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 12 0.43
15 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.02
Consensus pattern (13 bp):
AGAAAGGAAAGGG
Found at i:18754861 original size:22 final size:21
Alignment explanation
Indices: 18754836--18754876 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
18754826 GTTAATTAGT
*
18754836 TTGTTAATTTAGGGTTATATGA
1 TTGTTAATTTA-AGTTATATGA
*
18754858 TTGTTAGTTTAAGTTATAT
1 TTGTTAATTTAAGTTATAT
18754877 TATACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTGTTAATTTAAGTTATATGA
Found at i:18757407 original size:14 final size:14
Alignment explanation
Indices: 18757388--18757435 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
18757378 TTCAAGTCGT
18757388 AAATCATTACTATC
1 AAATCATTACTATC
18757402 AAATCATTAC--T-
1 AAATCATTACTATC
*
18757413 AAATCATTAATATC
1 AAATCATTACTATC
18757427 AAATCATTA
1 AAATCATTA
18757436 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:18757469 original size:48 final size:49
Alignment explanation
Indices: 18757407--18757518 Score: 181
Period size: 48 Copynumber: 2.3 Consensus size: 49
18757397 CTATCAAATC
*
18757407 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATT
1 ATTACT-AATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
* *
18757456 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
18757505 ATTACTAATCATTA
1 ATTACTAATCATTA
18757519 CTAAATCATT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 36 0.61
49 23 0.39
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
Found at i:18757535 original size:60 final size:60
Alignment explanation
Indices: 18757456--18757581 Score: 227
Period size: 60 Copynumber: 2.1 Consensus size: 60
18757446 ATAAATTATT
*
18757456 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
18757515 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
18757575 ATTACTA
1 ATTACTA
18757582 TCAAATCATT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
59 6 0.09
60 58 0.91
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:18757578 original size:49 final size:49
Alignment explanation
Indices: 18757515--18758223 Score: 765
Period size: 49 Copynumber: 13.3 Consensus size: 49
18757505 ATTACTAATC
* *
18757515 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
18757565 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
18757614 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T
18757672 CATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 -ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
18757723 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATATTTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* *
18757772 ATTACTAATCATTACTAAATTATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTAT
1 ATTACT-A--A-T-C------ATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-
18757837 TAAT
48 T--T
* * *
18757841 CATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTTATTATTAGTAAT
1 -ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAA-T----T-TCA-T--T
* *
18757901 CATTACTAAATCATTACTATCAAACCATTAAATATTAATAATAATTTCATT
1 -ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
18757952 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
18758001 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
18758050 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* *
18758099 ATTACTAATCATTACTAAATCATTAAT-ATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACT--ATCA--AATCATTAAA-AATT--A-A-TAA---TAATTTCATT
* *
18758159 ATTACTAATCATTACTATCAAATCA-TAAATATTAATAATAATTTCATC
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
18758207 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
18758224 AATTTTATAA
Statistics
Matches: 590, Mismatches: 18, Indels: 104
0.83 0.03 0.15
Matches are distributed among these distances:
48 26 0.04
49 290 0.49
50 19 0.03
51 9 0.02
52 7 0.01
53 10 0.02
54 4 0.01
55 6 0.01
56 8 0.01
57 4 0.01
58 5 0.01
59 7 0.01
60 178 0.30
61 1 0.00
65 1 0.00
66 3 0.01
67 2 0.00
68 1 0.00
69 1 0.00
70 8 0.01
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
Found at i:18757689 original size:60 final size:60
Alignment explanation
Indices: 18757614--18757739 Score: 245
Period size: 60 Copynumber: 2.1 Consensus size: 60
18757604 TAATTTCATT
18757614 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
18757673 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
18757733 ATTACTA
1 ATTACTA
18757740 TCAAATCATT
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
59 6 0.09
60 60 0.91
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.40
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:18757797 original size:60 final size:60
Alignment explanation
Indices: 18757723--18757968 Score: 404
Period size: 60 Copynumber: 4.1 Consensus size: 60
18757713 TAATTTCATT
* *
18757723 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATATTTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* * *
18757782 ATTACTAAATTATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTATTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* * *
18757842 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTTATTATTAGTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
18757902 ATTACTAAATCATTACTATCAAACCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
18757962 ATTACTA
1 ATTACTA
18757969 TCAAATCATT
Statistics
Matches: 174, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 6 0.03
60 168 0.97
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:18757816 original size:21 final size:21
Alignment explanation
Indices: 18757787--18757877 Score: 66
Period size: 21 Copynumber: 4.4 Consensus size: 21
18757777 TAATCATTAC
18757787 TAAATTATTACTATCAAATCAT
1 TAAA-TATTACTATCAAATCAT
* * *
18757809 TAAATATTAATAACAATTTCAT
1 TAAATATTACTATCAA-ATCAT
* * *
18757831 T-ATTATTA--ATC--ATTAC
1 TAAATATTACTATCAAATCAT
18757847 TAAATCATTACTATCAAATCAT
1 TAAAT-ATTACTATCAAATCAT
18757869 TAAATATTA
1 TAAATATTA
18757878 ATAACAATTT
Statistics
Matches: 51, Mismatches: 11, Indels: 15
0.66 0.14 0.19
Matches are distributed among these distances:
16 3 0.06
17 2 0.04
18 4 0.08
19 2 0.04
20 3 0.06
21 20 0.39
22 17 0.33
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTACTATCAAATCAT
Found at i:18758129 original size:60 final size:60
Alignment explanation
Indices: 18758050--18758175 Score: 227
Period size: 60 Copynumber: 2.1 Consensus size: 60
18758040 TAATTTCATT
*
18758050 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
18758109 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
18758169 ATTACTA
1 ATTACTA
18758176 TCAAATCATA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
59 6 0.09
60 58 0.91
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:18758191 original size:48 final size:49
Alignment explanation
Indices: 18758106--18758223 Score: 202
Period size: 48 Copynumber: 2.4 Consensus size: 49
18758096 ATTATTACTA
*
18758106 ATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTC
1 ATCATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTC
*
18758156 ATTATTACTAATCATTACTATCAAATCA-TAAATATTAATAATAATTTC
1 ATCATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
18758204 ATCATTACTAATCATTACTA
1 ATCATTACTAATCATTACTA
18758224 AATTTTATAA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
48 39 0.60
49 18 0.28
50 8 0.12
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (49 bp):
ATCATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
Found at i:18758268 original size:109 final size:107
Alignment explanation
Indices: 18757456--18758232 Score: 991
Period size: 109 Copynumber: 7.1 Consensus size: 107
18757446 ATAAATTATT
*
18757456 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAAT-ATTA-TATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA-T--
*
18757520 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
61 T--A-C-----TATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
18757575 ATTAC---------TATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTA
1 ATTACTAAATATTATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
18757631 TCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
66 TCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
18757673 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAAT-ATTA-TATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
*
18757738 TATCAAATCATTAAAAATTAATAATATTTTCATTATTACTAATC
64 TATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
18757782 ATTACTAAATTATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTATTAATCATTAC
1 ATTACTAAA-TATTA-TATCAAATCATTAAATATTAATAATAATTTC------A-T--T-ATTAC
* * * *
18757847 TAAATCATTACTATCAAATCATTAAATATTAATAACAATTTTATTATTAGTAATC
54 T-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
18757902 ATTACTAAATCATTACTATCAAACCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAAT-ATTA-TATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
18757967 TATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
64 TATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
18758011 ATTAC---------TATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTA
1 ATTACTAAATATTATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
18758067 TCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
66 TCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
18758109 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAAT-ATT-ATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
* *
18758174 TATCAAATCA-TAAATATTAATAATAATTTCATCATTACTAATC
64 TATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
18758217 ATTACTAAATTTTATA
1 ATTACTAAATATTATA
18758233 AATACATAGA
Statistics
Matches: 602, Mismatches: 21, Indels: 83
0.85 0.03 0.12
Matches are distributed among these distances:
98 144 0.24
103 1 0.00
104 1 0.00
106 4 0.01
107 2 0.00
108 42 0.07
109 292 0.49
110 7 0.01
111 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 1 0.00
118 1 0.00
119 12 0.02
120 91 0.15
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (107 bp):
ATTACTAAATATTATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
TCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:18761126 original size:14 final size:15
Alignment explanation
Indices: 18761097--18761126 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18761087 ATTATTAATC
18761097 TAATGATTTGATATT
1 TAATGATTTGATATT
18761112 TAATGATTT-ATATT
1 TAATGATTTGATATT
18761126 T
1 T
18761127 GATACTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (15 bp):
TAATGATTTGATATT
Found at i:18761140 original size:20 final size:21
Alignment explanation
Indices: 18761102--18761141 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
18761092 TAATCTAATG
* *
18761102 ATTTGATATTTAATGATTTAT
1 ATTTGATATCTAATCATTTAT
18761123 ATTTGATA-CTAATCATTTA
1 ATTTGATATCTAATCATTTA
18761142 GTAATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTTGATATCTAATCATTTAT
Found at i:18761709 original size:29 final size:30
Alignment explanation
Indices: 18761664--18761722 Score: 111
Period size: 29 Copynumber: 2.0 Consensus size: 30
18761654 ATTTTTTATA
18761664 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
18761694 TAATATAA-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
18761723 AAATTAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.29
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:18762180 original size:23 final size:23
Alignment explanation
Indices: 18762150--18762193 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
18762140 GCTTGGCTAC
18762150 AATCTCCCAGCTATGGATGCAGG
1 AATCTCCCAGCTATGGATGCAGG
18762173 AATCTCCCAGCTATGGATGCA
1 AATCTCCCAGCTATGGATGCA
18762194 ACCCATGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (23 bp):
AATCTCCCAGCTATGGATGCAGG
Found at i:18762215 original size:32 final size:32
Alignment explanation
Indices: 18762179--18762243 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
18762169 CAGGAATCTC
18762179 CCAGCTATGGATGCAACCCATGCACGAGGGAG
1 CCAGCTATGGATGCAACCCATGCACGAGGGAG
*
18762211 CCAGCTATGGATGCAACCTATGCACGAGGGAG
1 CCAGCTATGGATGCAACCCATGCACGAGGGAG
18762243 C
1 C
18762244 AGGGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.31, T:0.14
Consensus pattern (32 bp):
CCAGCTATGGATGCAACCCATGCACGAGGGAG
Found at i:18762398 original size:29 final size:29
Alignment explanation
Indices: 18762295--18762392 Score: 130
Period size: 29 Copynumber: 3.4 Consensus size: 29
18762285 TCGCCGAGAT
*
18762295 TGCTTGGCGACCTACAAGGT-GC-GGGAT
1 TGCTTGGCGACCTACAAGGTCGCTGGGAG
18762322 TGCTTGGCGACCTACAAGGTCGCTGGGAG
1 TGCTTGGCGACCTACAAGGTCGCTGGGAG
***
18762351 TG-TATGGCGACCTTGTAGGTCGCTGGGAG
1 TGCT-TGGCGACCTACAAGGTCGCTGGGAG
18762380 TGCTTGGCGACCT
1 TGCTTGGCGACCT
18762393 TGTAGGGGTG
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
27 20 0.32
28 3 0.05
29 39 0.62
30 1 0.02
ACGTcount: A:0.15, C:0.22, G:0.38, T:0.24
Consensus pattern (29 bp):
TGCTTGGCGACCTACAAGGTCGCTGGGAG
Found at i:18768300 original size:16 final size:17
Alignment explanation
Indices: 18768274--18768307 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18768264 ATTGATACTG
18768274 CCCCTACAGTATCGATA
1 CCCCTACAGTATCGATA
*
18768291 CCCC-ACAGTATTGATA
1 CCCCTACAGTATCGATA
18768307 C
1 C
18768308 TCATGGTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (17 bp):
CCCCTACAGTATCGATA
Found at i:18780198 original size:18 final size:19
Alignment explanation
Indices: 18780175--18780216 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
18780165 AAAAGTAAAA
*
18780175 TTTATCGGATATATTTTT-
1 TTTATCAGATATATTTTTG
18780193 TTTATCAGATATATTTTTG
1 TTTATCAGATATATTTTTG
18780212 TTTAT
1 TTTAT
18780217 GTCACATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTATCAGATATATTTTTG
Found at i:18780309 original size:83 final size:84
Alignment explanation
Indices: 18780208--18780375 Score: 284
Period size: 84 Copynumber: 2.0 Consensus size: 84
18780198 CAGATATATT
*
18780208 TTTGTTTATGTCACATG-TTCATTTATCGGACAAAAACTGTTTGTCTTTTTCGTCTTTGTCATAT
1 TTTGTTTATGTCACATGTTTCATTTATCGGACAAAAACTGGTTGTCTTTTTCGTCTTTGTCATAT
18780272 CCTTATTAACACAAGAATG
66 CCTTATTAACACAAGAATG
* * *
18780291 TTTGTTTATGTCACATGTTTCATTTATCGGACAAAAATTGGTTGTCTTTTTCTTCTTTGTCTTAT
1 TTTGTTTATGTCACATGTTTCATTTATCGGACAAAAACTGGTTGTCTTTTTCGTCTTTGTCATAT
*
18780356 CCTTGTTAACACAAGAATG
66 CCTTATTAACACAAGAATG
18780375 T
1 T
18780376 GCAAAGAGAG
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
83 17 0.22
84 62 0.78
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (84 bp):
TTTGTTTATGTCACATGTTTCATTTATCGGACAAAAACTGGTTGTCTTTTTCGTCTTTGTCATAT
CCTTATTAACACAAGAATG
Found at i:18780449 original size:21 final size:21
Alignment explanation
Indices: 18780423--18780471 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
18780413 GGTCGAAAAA
*
18780423 AATATTTTAAATATTATTATT
1 AATATTTTAAATATTAATATT
* * *
18780444 AGTATTTTTATTATTAATATT
1 AATATTTTAAATATTAATATT
18780465 AATATTT
1 AATATTT
18780472 CTTTATTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
AATATTTTAAATATTAATATT
Found at i:18780485 original size:21 final size:22
Alignment explanation
Indices: 18780434--18780486 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
18780424 ATATTTTAAA
* *
18780434 TATT-ATTATTAGTATTTTTAT
1 TATTAATTATTAATATTTCTAT
18780455 TATTAA-TATTAATATTTCT-T
1 TATTAATTATTAATATTTCTAT
18780475 TATTAATTATTA
1 TATTAATTATTA
18780487 TCTAACCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 20 0.71
22 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTAATTATTAATATTTCTAT
Found at i:18789678 original size:15 final size:16
Alignment explanation
Indices: 18789658--18789690 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
18789648 TTTTTCCGTC
18789658 ATTATTATTTAT-ATT
1 ATTATTATTTATAATT
18789673 ATTATTATTTATAATT
1 ATTATTATTTATAATT
18789689 AT
1 AT
18789691 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATTATTTATAATT
Found at i:18789744 original size:6 final size:6
Alignment explanation
Indices: 18789733--18789759 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18789723 AGTGAGCCCA
18789733 AAACCC AAACCC AAACCC AAACCC AAA
1 AAACCC AAACCC AAACCC AAACCC AAA
18789760 TTACAAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACCC
Found at i:18791492 original size:4 final size:4
Alignment explanation
Indices: 18791483--18791508 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18791473 GTTTGATATG
18791483 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
18791509 GACTTTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:18792848 original size:21 final size:21
Alignment explanation
Indices: 18792822--18792876 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
18792812 GGCATTCAAT
* *
18792822 GGGTATCGATACCTTGGA-AGG
1 GGGTATCGATACCTAGCATA-G
18792843 GGGTATCG-TACCCTAGCATAG
1 GGGTATCGATA-CCTAGCATAG
18792864 GGGTATCGATACC
1 GGGTATCGATACC
18792877 AGGGAAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 2 0.07
21 24 0.83
22 3 0.10
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (21 bp):
GGGTATCGATACCTAGCATAG
Found at i:18792971 original size:75 final size:76
Alignment explanation
Indices: 18792823--18792971 Score: 169
Period size: 75 Copynumber: 2.0 Consensus size: 76
18792813 GCATTCAATG
* * ** **
18792823 GGTATCGATACCTTGGAAGGGGGTATCGTACCCTAGCATAGGGGTATCGATACCAGGGAAACATC
1 GGTATCGATACCTAGAAAGGGGGTATCGTACCCTAG-ATAGGGGTATCGATACCAGCCAAACAAA
*
18792888 GATTCTAATTTT
65 GATGCTAATTTT
* *
18792900 GGTATCGATACC-AGAAAGGGGGTATCGATACCCTAG-TAGGGGTATCGATACTA-CCAAGTCAA
1 GGTATCGATACCTAGAAAGGGGGTATCG-TACCCTAGATAGGGGTATCGATACCAGCCAA-ACAA
18792962 AGATGCTAAT
64 AGATGCTAAT
18792972 ATAGATTGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
74 2 0.03
75 26 0.43
76 13 0.21
77 20 0.33
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (76 bp):
GGTATCGATACCTAGAAAGGGGGTATCGTACCCTAGATAGGGGTATCGATACCAGCCAAACAAAG
ATGCTAATTTT
Found at i:18793452 original size:45 final size:43
Alignment explanation
Indices: 18793402--18793625 Score: 259
Period size: 45 Copynumber: 5.0 Consensus size: 43
18793392 AAAGGATGCT
* *
18793402 ATAGTTGAAATGTATATGGGTACATTCTCAACAGAAAAATATGTC
1 ATAGTTGAAATGTATATGGGTACATTATCAACA-AAAAATAT-AC
* *
18793447 GTAGTTGAAATGTATATGGGTACATTATCAACAAAAAAGTATGC
1 ATAGTTGAAATGTATATGGGTACATTATCAACAAAAAA-TATAC
* *
18793491 ACTAGTTGAAATGTATATGGGGTACATTATCAACAGTAAAGTATAC
1 A-TAGTTGAAATGTATAT-GGGTACATTATCAACA-AAAAATATAC
*
18793537 TATAGTTGAAATGTATATAGGTACATTATCAACAAAAAAGTATAC
1 -ATAGTTGAAATGTATATGGGTACATTATCAACAAAAAA-TATAC
* ** *
18793582 TATTGTTGAAATACATATGGGTGCATTATCAACATAAAAATATA
1 -ATAGTTGAAATGTATATGGGTACATTATCAACA-AAAAATATA
18793626 TTTTTATTGA
Statistics
Matches: 157, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
44 9 0.06
45 103 0.66
46 41 0.26
47 4 0.03
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (43 bp):
ATAGTTGAAATGTATATGGGTACATTATCAACAAAAAATATAC
Found at i:18793552 original size:91 final size:90
Alignment explanation
Indices: 18793364--18793620 Score: 299
Period size: 91 Copynumber: 2.9 Consensus size: 90
18793354 TGAAAAATTA
* * * ** *
18793364 AAATGCATACGGGTGCATTATCAACACGAAAGGATGCTA-TAGTTGAAATGTATATGGGTACATT
1 AAATGTATATGGGTACATTATCAACAAAAAAGTATGC-ACTAGTTGAAATGTATATGGGTACATT
* * * *
18793428 CTCAACAGAAAAATATGTCGTAGTTG
65 ATCAACAGTAAAATATCTCATAGTTG
18793454 AAATGTATATGGGTACATTATCAACAAAAAAGTATGCACTAGTTGAAATGTATATGGGGTACATT
1 AAATGTATATGGGTACATTATCAACAAAAAAGTATGCACTAGTTGAAATGTATAT-GGGTACATT
*
18793519 ATCAACAGTAAAGTATACT-ATAGTTG
65 ATCAACAGTAAAATAT-CTCATAGTTG
* ** *
18793545 AAATGTATATAGGTACATTATCAACAAAAAAGTAT--ACTATTGTTGAAATACATATGGGTGCAT
1 AAATGTATATGGGTACATTATCAACAAAAAAGTATGCACTA--GTTGAAATGTATATGGGTACAT
18793608 TATCAACA-TAAAA
64 TATCAACAGTAAAA
18793621 ATATATTTTT
Statistics
Matches: 146, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
89 9 0.06
90 62 0.42
91 74 0.51
92 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (90 bp):
AAATGTATATGGGTACATTATCAACAAAAAAGTATGCACTAGTTGAAATGTATATGGGTACATTA
TCAACAGTAAAATATCTCATAGTTG
Found at i:18793636 original size:45 final size:46
Alignment explanation
Indices: 18793364--18793664 Score: 228
Period size: 45 Copynumber: 6.7 Consensus size: 46
18793354 TGAAAAATTA
* ** * *
18793364 AAATGCATACGGGTGCATTATCAACA-CGAAAGGATGCTA-TAGTTG
1 AAATGCATATGGGTGCATTATCAACATAAAAAGTATACTATTA-TTG
* * * * * **
18793409 AAATGTATATGGGTACATTCTCAACAGAAAAA-TAT-GTCGTAGTTG
1 AAATGCATATGGGTGCATTATCAACATAAAAAGTATACTATTA-TTG
* * * *
18793454 AAATGTATATGGGTACATTATCAACA-AAAAAGTATGC-ACTAGTTG
1 AAATGCATATGGGTGCATTATCAACATAAAAAGTATACTATTA-TTG
* *
18793499 AAATGTATATGGGGTACATTATCAACAGT--AAAGTATACTA-TAGTTG
1 AAATGCATAT-GGGTGCATTATCAACA-TAAAAAGTATACTATTA-TTG
* * * *
18793545 AAATGTATATAGGTACATTATCAACA-AAAAAGTATACTATTGTTG
1 AAATGCATATGGGTGCATTATCAACATAAAAAGTATACTATTATTG
* * *
18793590 AAATACATATGGGTGCATTATCAACATAAAAA-TATATTTTTATTG
1 AAATGCATATGGGTGCATTATCAACATAAAAAGTATACTATTATTG
* *
18793635 AAATGCATATGAGTGCATTATTAACATAAA
1 AAATGCATATGGGTGCATTATCAACATAAA
18793665 GGTATGTTAT
Statistics
Matches: 218, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
44 6 0.03
45 162 0.74
46 49 0.22
47 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (46 bp):
AAATGCATATGGGTGCATTATCAACATAAAAAGTATACTATTATTG
Found at i:18793645 original size:136 final size:136
Alignment explanation
Indices: 18793364--18793621 Score: 337
Period size: 136 Copynumber: 1.9 Consensus size: 136
18793354 TGAAAAATTA
* * * *
18793364 AAATGCATA-CGGGTGCATTATCAACACGAAAGGATGCTATAGTTGAAATGTATATGGGTACATT
1 AAATGCATATGGGGTACATTATCAACACGAAAGGATACTATAGTTGAAATGTATATAGGTACATT
* * **
18793428 CTCAACAGAAAAATATGTCGTAGTTGAAATGTATATGGGTACATTATCAACAAAAAAGTATGCAC
66 ATCAACAGAAAAATATGACGTAGTTGAAATACATATGGGTACATTATCAACAAAAAAGTATGCAC
18793493 TAGTTG
131 TAGTTG
* *
18793499 AAATGTATATGGGGTACATTATCAACA-GTAAAGTATACTATAGTTGAAATGTATATAGGTACAT
1 AAATGCATATGGGGTACATTATCAACACG-AAAGGATACTATAGTTGAAATGTATATAGGTACAT
*
18793563 TATCAACA-AAAAAGTAT-AC-TATTGTTGAAATACATATGGGTGCATTATCAACATAAAAA
65 TATCAACAGAAAAA-TATGACGTA--GTTGAAATACATATGGGTACATTATCAACA-AAAAA
18793622 TATATTTTTA
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
134 2 0.02
135 15 0.14
136 84 0.79
137 5 0.05
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.29
Consensus pattern (136 bp):
AAATGCATATGGGGTACATTATCAACACGAAAGGATACTATAGTTGAAATGTATATAGGTACATT
ATCAACAGAAAAATATGACGTAGTTGAAATACATATGGGTACATTATCAACAAAAAAGTATGCAC
TAGTTG
Found at i:18800300 original size:45 final size:45
Alignment explanation
Indices: 18800212--18800467 Score: 282
Period size: 45 Copynumber: 5.7 Consensus size: 45
18800202 TGAAAAATTA
* * * *
18800212 AAATGCATACGGGTGCATTATCAACATG-AAAGGATGCTATAGTTG
1 AAATGTATATGGGTACATTATCAACA-GAAAAGTATGCTATAGTTG
* * * * *
18800257 AAATGTATATGGGTATATTCTCAACAGAAACGTATGTTGTAGTTG
1 AAATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTG
*
18800302 AAATGTATATGGGTACATTATCAACATAAAAGTATGC-ACTAGTTG
1 AAATGTATATGGGTACATTATCAACAGAAAAGTATGCTA-TAGTTG
* * * * *
18800347 AAATGTATATGGGTACATTATCAATAGTAGAGTATACTATACTTG
1 AAATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTG
* * *
18800392 AAATGCATATGGGTACATTATCAACAGAAAAGTATACTATTGTTG
1 AAATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTG
* * * *
18800437 AAAAGCATATGGGTGCATTATCAACATAAAA
1 AAATGTATATGGGTACATTATCAACAGAAAA
18800468 ATACATTATT
Statistics
Matches: 178, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.01
45 176 0.99
46 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31
Consensus pattern (45 bp):
AAATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTG
Found at i:18800393 original size:90 final size:90
Alignment explanation
Indices: 18800212--18800511 Score: 295
Period size: 90 Copynumber: 3.3 Consensus size: 90
18800202 TGAAAAATTA
* * * * *
18800212 AAATGCATACGGGTGCATTATCAACATGAAAGGATGCTA-TAGTTGAAATGTATATGGGTATATT
1 AAATGCATATGGGTACATTATCAACATAAAAGTATGC-ACTAGTTGAAATGTATATGGGTACATT
* ** * *
18800276 CTCAACAGAAACGTATGTTGTAGTTG
65 ATCAACAGAAACGTATACTATACTTG
*
18800302 AAATGTATATGGGTACATTATCAACATAAAAGTATGCACTAGTTGAAATGTATATGGGTACATTA
1 AAATGCATATGGGTACATTATCAACATAAAAGTATGCACTAGTTGAAATGTATATGGGTACATTA
* *
18800367 TCAATAGTAGA-GTATACTATACTTG
66 TCAACAG-AAACGTATACTATACTTG
* * * *
18800392 AAATGCATATGGGTACATTATCAACAGAAAAGTAT--ACTATTGTTGAAAAGCATATGGGTGCAT
1 AAATGCATATGGGTACATTATCAACATAAAAGTATGCACTA--GTTGAAATGTATATGGGTACAT
* ** * *
18800455 TATCAACATAAAAATACATTATTA-TTG
64 TATCAACAGAAACGTATACTA-TACTTG
* * *
18800482 AAATGCATATGAGTGCATTATTAACATAAA
1 AAATGCATATGGGTACATTATCAACATAAA
18800512 TATATGTTAC
Statistics
Matches: 176, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
88 4 0.02
89 3 0.02
90 165 0.94
91 4 0.02
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (90 bp):
AAATGCATATGGGTACATTATCAACATAAAAGTATGCACTAGTTGAAATGTATATGGGTACATTA
TCAACAGAAACGTATACTATACTTG
Found at i:18800483 original size:45 final size:45
Alignment explanation
Indices: 18800299--18800511 Score: 191
Period size: 45 Copynumber: 4.7 Consensus size: 45
18800289 TATGTTGTAG
* * * *
18800299 TTGAAATGTATATGGGTACATTATCAACATAAAAGTATGCACTA--G
1 TTGAAATGCATATGGGTGCATTATCAACATAAAA--ATACACTATTA
* * * * * *
18800344 TTGAAATGTATATGGGTACATTATCAATAGT-AGAGTATACTA-TA
1 TTGAAATGCATATGGGTGCATTATCAACA-TAAAAATACACTATTA
* * * * *
18800388 CTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATTG
1 -TTGAAATGCATATGGGTGCATTATCAACATAAAAATACACTATTA
* *
18800434 TTGAAAAGCATATGGGTGCATTATCAACATAAAAATACATTATTA
1 TTGAAATGCATATGGGTGCATTATCAACATAAAAATACACTATTA
* *
18800479 TTGAAATGCATATGAGTGCATTATTAACATAAA
1 TTGAAATGCATATGGGTGCATTATCAACATAAA
18800512 TATATGTTAC
Statistics
Matches: 142, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
43 5 0.04
45 135 0.95
46 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.32
Consensus pattern (45 bp):
TTGAAATGCATATGGGTGCATTATCAACATAAAAATACACTATTA
Found at i:18800483 original size:135 final size:134
Alignment explanation
Indices: 18800248--18800502 Score: 314
Period size: 135 Copynumber: 1.9 Consensus size: 134
18800238 TGAAAGGATG
* * * * * ** * * *
18800248 CTATAGTTGAAATGTATATGGGTATATTCTCAACAGAAACGTATGTTGTAGTTGAAATGTATATG
1 CTATACTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAAAGCATATG
* * * *
18800313 GGTACATTATCAACATAAAAGTATGCACTAGTTGAAATGTATATGGGTACATTATCAATAGTAGA
66 GGTACATTATCAACATAAAAG-ATACACTAATTGAAATGCATATGAGTACATTATCAATAGTAGA
18800378 GTATA
130 GTATA
*
18800383 CTATACTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATTGTTGAAAAGCATATG
1 CTATACTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAAAGCATATG
* * *
18800448 GGTGCATTATCAACATAAAA-ATACATTATTATTGAAATGCATATGAGTGCATTAT
66 GGTACATTATCAACATAAAAGATACACTA--ATTGAAATGCATATGAGTACATTAT
18800503 TAACATAAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
133 6 0.06
135 94 0.94
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (134 bp):
CTATACTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAAAGCATATG
GGTACATTATCAACATAAAAGATACACTAATTGAAATGCATATGAGTACATTATCAATAGTAGAG
TATA
Found at i:18800955 original size:45 final size:45
Alignment explanation
Indices: 18800906--18801004 Score: 162
Period size: 45 Copynumber: 2.2 Consensus size: 45
18800896 AAAGAGAAAT
18800906 AAATTTTAAAACAAAAAGTTTTAAAGAAATTTTCAGATGATAAAA
1 AAATTTTAAAACAAAAAGTTTTAAAGAAATTTTCAGATGATAAAA
* * *
18800951 AAATTTTAAAATAAAAAGTTTTAAAGAAATTTTCATATGATAAAT
1 AAATTTTAAAACAAAAAGTTTTAAAGAAATTTTCAGATGATAAAA
*
18800996 AAATATTAA
1 AAATTTTAA
18801005 GTGATAGGAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (45 bp):
AAATTTTAAAACAAAAAGTTTTAAAGAAATTTTCAGATGATAAAA
Found at i:18810802 original size:36 final size:37
Alignment explanation
Indices: 18810756--18810993 Score: 226
Period size: 36 Copynumber: 6.6 Consensus size: 37
18810746 AGCAAAGTCA
*
18810756 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGAGATAGTGAAGCAAACC
* *
18810792 ATCTGAAGCCTTCACTGGAGA-ATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGAGATAGTGAAGCAAACC
* * *
18810828 ATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAATCA
1 ATCTGAAGCCTTCACCGAAGAGATAGTGAAGCAAACC
18810864 ATCTGAAGCCTTCACC--AGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGAG-ATAGTGAAGCAAACC
* *
18810900 ATCAT-AAGTCTTCACC--AGAGAGTAGTGAAGCAAAGC
1 ATC-TGAAGCCTTCACCGAAGAGA-TAGTGAAGCAAACC
* * * *
18810936 ATCTTAAGTCTTCACC-AAAAG-TAGTGAAGCAGATCC
1 ATCTGAAGCCTTCACCGAAGAGATAGTGAAGCA-AACC
* * * *
18810972 ATTTTAAGCCTTCTCAGAAGAG
1 ATCTGAAGCCTTCACCGAAGAG
18810994 TGTTGGAACG
Statistics
Matches: 175, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
34 3 0.02
35 13 0.07
36 151 0.86
37 8 0.05
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (37 bp):
ATCTGAAGCCTTCACCGAAGAGATAGTGAAGCAAACC
Found at i:18810855 original size:72 final size:71
Alignment explanation
Indices: 18810760--18810984 Score: 258
Period size: 72 Copynumber: 3.1 Consensus size: 71
18810750 AAGTCAATCT
* **
18810760 TAAGCCTTCACCGAAGAGA-AGTGAAGCAAACCATCTGAAGCCTTCACTGGAGAATAGTGAAGCA
1 TAAGCCTTCACCGGAGA-ATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGTGAAGCA
18810824 AACCATC
65 AACCATC
* *
18810831 TGAAGCCTTCACCGGAGAATAGTGAAGCAATCAATCTGAAGCCTTCACCAGAGAATAGTGAAGCA
1 T-AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGTGAAGCA
18810896 AACCATC
65 AACCATC
* * * * * *
18810903 ATAAGTCTTCACCAGAGAGTAGTGAAGCAAAGCATCTTAAGTCTTCACCA-A-AAGTAGTGAAGC
1 -TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAA-TAGTGAAGC
* *
18810966 AGATCCATTT
64 A-AACCA-TC
18810976 TAAGCCTTC
1 TAAGCCTTC
18810985 TCAGAAGAGT
Statistics
Matches: 132, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
70 2 0.02
71 13 0.10
72 115 0.87
73 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (71 bp):
TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAA
ACCATC
Found at i:18810981 original size:108 final size:107
Alignment explanation
Indices: 18810753--18810993 Score: 283
Period size: 108 Copynumber: 2.2 Consensus size: 107
18810743 TGGAGCAAAG
**
18810753 TCAATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAAGCCTTCACTGGAGAATAGT
1 TCAATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGT
*
18810818 GAAGCAAACCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAA
66 GAAGCAAACCATCTGAAGCCTTCACC-GAAAATAGTGAAGCAA
* * *
18810861 TCAATCTGAAGCCTTCACC--AGAGAATAGTGAAGCAAACCATCAT-AAGTCTTCACCAGAGAGT
1 TCAATCTTAAGCCTTCACCGAAGAG-A-AGTGAAGCAAACCATC-TGAAGCCTTCACCAGAGAAT
* * *
18810923 AGTGAAGCAAAGCATCTTAAGTCTTCACC-AAAAGTAGTGAAGCAGA
63 AGTGAAGCAAACCATCTGAAGCCTTCACCGAAAA-TAGTGAAGCA-A
* * * *
18810969 TCCATTTTAAGCCTTCTCAGAAGAG
1 TCAATCTTAAGCCTTCACCGAAGAG
18810994 TGTTGGAACG
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
106 7 0.06
107 11 0.10
108 89 0.79
109 1 0.01
110 4 0.04
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (107 bp):
TCAATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGT
GAAGCAAACCATCTGAAGCCTTCACCGAAAATAGTGAAGCAA
Found at i:18811500 original size:51 final size:51
Alignment explanation
Indices: 18811354--18811769 Score: 535
Period size: 51 Copynumber: 8.0 Consensus size: 51
18811344 GTGAAGCAAA
*
18811354 TGAAGATTATTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGA-TATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* * * * * *
18811406 TGAAGAGATGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTG
1 TGAAGATAT-TC-GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
*
18811459 TGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* * * * *
18811510 TAAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATT
1 TGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* *
18811561 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAAAAGGAGCGAACCCGTT
1 TGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* *
18811612 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCATT
1 TGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* * * *
18811663 TGAAGATGTTCGAGTTATATACTCCTTAAAGAAGGAGGGAGCGAACCCGTT
1 TGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* * * * * *
18811714 TGAAGAATATGTCTGAGTTCCATACTCCCTAGAGAAATAGGGAGCGAACCCATT
1 TGAAG-ATAT-TC-GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
18811768 TG
1 TG
18811770 TTGAAGATTG
Statistics
Matches: 322, Mismatches: 37, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
51 229 0.71
52 12 0.04
53 46 0.14
54 35 0.11
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (51 bp):
TGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
Found at i:18811643 original size:153 final size:155
Alignment explanation
Indices: 18811363--18811769 Score: 604
Period size: 153 Copynumber: 2.6 Consensus size: 155
18811353 ATGAAGATTA
* *
18811363 TTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTCTGAGTTCCA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATG-TGTCTGAGTTCCA
* *
18811427 TACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAA
65 TACTCCCTAGAGAAAAAGGGAGCGAACCCGTTTGAAGATATGCGAGTTCTATACTCCTTAAAGAA
*
18811492 AGAAGGAGCGAACCCGTTTAAAGATG
130 AGAAGGAGCGAACCCATTTAAAGATG
* * *
18811518 TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGAAGATGT-TC-GAGTTCTAT
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTGTCTGAGTTCCAT
* * * * *
18811581 ACTCCTTAAAGAAAAAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAA
66 ACTCCCTAGAGAAAAAGGGAGCGAACCCGTTTGAAGATATGCGAGTTCTATACTCCTTAAAGAAA
*
18811646 GAAGGAGCGAACCCATTTGAAGATG
131 GAAGGAGCGAACCCATTTAAAGATG
* * *
18811671 TTCGAGTTATATACTCCTTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAATATGTCTGAGTTCCA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAG-ATGTGTCTGAGTTCCA
* *
18811736 TACTCCCTAGAGAAATAGGGAGCGAACCCATTTG
65 TACTCCCTAGAGAAAAAGGGAGCGAACCCGTTTG
18811770 TTGAAGATTG
Statistics
Matches: 223, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
153 133 0.60
154 5 0.02
155 48 0.22
156 37 0.17
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (155 bp):
TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTGTCTGAGTTCCAT
ACTCCCTAGAGAAAAAGGGAGCGAACCCGTTTGAAGATATGCGAGTTCTATACTCCTTAAAGAAA
GAAGGAGCGAACCCATTTAAAGATG
Found at i:18811915 original size:55 final size:53
Alignment explanation
Indices: 18811746--18812081 Score: 358
Period size: 53 Copynumber: 6.2 Consensus size: 53
18811736 TACTCCCTAG
* *
18811746 AGAAATAGGGAGC-GA-ACCCATTTGTTGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACA-CGA-TTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* *
18811799 AGAAATAGGGAGCAGACACGATCGTTGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * * *
18811852 AGATATAGGGGGGAGACACGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTG-T-GAGTCTTATACTCTCTGA
* * * *
18811907 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGAGTCTTATACTCTCTGG
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * *
18811960 AGAAATAGGGAGTAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTG-T-GAGTCTTATACTCTCTGA
* * * * *
18812015 AGGAATAAGGAGCAGACACG-TT-TTCAAAAGATTTTCGAGT-TCTATACTCCCTGA
1 AGAAATAGGGAGCAGACACGATTGTT--GAAGATTGT-GAGTCT-TATACTCTCTGA
*
18812069 AGAAAGAGGGAGC
1 AGAAATAGGGAGC
18812082 GAACCCGTAG
Statistics
Matches: 244, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
53 124 0.51
54 35 0.14
55 85 0.35
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (53 bp):
AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
Found at i:18811922 original size:108 final size:108
Alignment explanation
Indices: 18811769--18812034 Score: 383
Period size: 108 Copynumber: 2.5 Consensus size: 108
18811759 GAACCCATTT
* *
18811769 GTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGTTGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGATGAAGATT
* * *
18811832 GTGGGTCTTATACTCTCTGAAGATATAGGGGGGAGACACGATA
66 GTGAGTCTTATACTCTCTGAAGAAATAGGGAGGAGACACGATA
* * *
18811875 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGATGAAGATT
* * * *
18811940 GTGAGTCTTATACTCTCTGGAGAAATAGGGAGTAGACCCGATT
66 GTGAGTCTTATACTCTCTGAAGAAATAGGGAGGAGACACGATA
* * *
18811983 GTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAAGGAGCAGACACG
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACG
18812035 TTTTCAAAAG
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
106 11 0.08
107 1 0.01
108 129 0.91
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (108 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGATGAAGATT
GTGAGTCTTATACTCTCTGAAGAAATAGGGAGGAGACACGATA
Found at i:18812046 original size:108 final size:106
Alignment explanation
Indices: 18811735--18812080 Score: 355
Period size: 108 Copynumber: 3.2 Consensus size: 106
18811725 TCTGAGTTCC
* *
18811735 ATACTCCCT-AGAGAAATAGGGAGCGAACCC-ATTTGTTGAAGATTG-T-GGGTCTTATACTCTC
1 ATACTCCCTGA-AGAAATAGGGAGAG-ACCCGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTC
* *
18811796 TGAAGAAATAGGGAGCAGACACG-ATCGTTGAAGATTGTGGGTCTT
63 TGAAGAAATAGGGAGCAGACACGTAT--TAGAAGATTGTGAGTCTT
* * * * *
18811841 ATACTCTCTGAAGATATAGGGGGGAGACACGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTG
1 ATACTCCCTGAAGAAATA-GGGAGAGACCCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG
* *
18811906 AAGAAATAGGGGGCAGACGCG-ATTGATGAAGATTGTGAGTCTT
65 AAGAAATAGGGAGCAGACACGTATT-A-GAAGATTGTGAGTCTT
* * *
18811949 ATACTCTCTGGAGAAATAGGGAGTAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTG
1 ATACTCCCTGAAGAAATAGGGAG-AGACCCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG
* * * * *
18812014 AAGGAATAAGGAGCAGACACGTTTTCAAAAGATTTTCGAGT-TCT
65 AAGAAATAGGGAGCAGACACGTATT-AGAAGATTGT-GAGTCT-T
*
18812058 ATACTCCCTGAAGAAAGAGGGAG
1 ATACTCCCTGAAGAAATAGGGAG
18812081 CGAACCCGTA
Statistics
Matches: 201, Mismatches: 28, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
106 30 0.15
107 12 0.06
108 131 0.65
109 28 0.14
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (106 bp):
ATACTCCCTGAAGAAATAGGGAGAGACCCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
AGAAATAGGGAGCAGACACGTATTAGAAGATTGTGAGTCTT
Found at i:18816342 original size:39 final size:39
Alignment explanation
Indices: 18816288--18816721 Score: 597
Period size: 39 Copynumber: 11.2 Consensus size: 39
18816278 TAGTTTCTTT
* ** * *
18816288 AAATCTTTTATTTCGAACGAAACTATCTTAAGCAAGATA
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
18816327 AAATCTTTTATTTCGAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
18816366 AAATCTTTTGTTTC-AAGGAAACTATCTCAAGCGAGACA
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
*
18816404 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAT-
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
*
18816442 AAATCTTCTGTTTCGA-GGAAACTATCTCAAGCGAGATA
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
*
18816480 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * *
18816519 AAATCTTCTGCTTCGAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * *
18816558 AAATCTATTGTCTCGAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * * *
18816597 AAATCTTATGTTTCAAGGGAAACTATCTCAAACAAGATA
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
18816636 AAATCTTTTGTTTCGAGGGAAACTATCTCAAACGAGA-C
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * *
18816674 AAATTTTTTGTTTCGAGAGAAACTATCTCAAGCGACATA
1 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
18816713 AAATCTTTT
1 AAATCTTTT
18816722 TCAAAAAACA
Statistics
Matches: 358, Mismatches: 33, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
37 21 0.06
38 101 0.28
39 236 0.66
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (39 bp):
AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
Found at i:18816815 original size:76 final size:77
Alignment explanation
Indices: 18816725--18816963 Score: 340
Period size: 76 Copynumber: 3.1 Consensus size: 77
18816715 ATCTTTTTCA
* *
18816725 AAAAACAATCTTGAGTGAAATGAAAT-GTCTTCTTTCGAGTAAAAACCGTCTCAAGCGAGACAAA
1 AAAAACAATCTTGAGTGAAATGAAATCATCTTGTTTCGAGTAAAAACCGTCTCAAGCGAGACAAA
18816789 TCTTGTTTTAAG
66 TCTTGTTTTAAG
* * * *
18816801 AAAAATAATCTTGAGTGAAATG-TATCATCTTGTTTTGATTAAAAACCGTCTCAAGCGAGACAAA
1 AAAAACAATCTTGAGTGAAATGAAATCATCTTGTTTCGAGTAAAAACCGTCTCAAGCGAGACAAA
18816865 TCTTGTTTTAAG
66 TCTTGTTTTAAG
* ** *
18816877 AAAAACAATCTTGAGTGAAAT-AAATCTTCTTGTTTCGAGTAAAAACTATCTCAAGTGAGACAAA
1 AAAAACAATCTTGAGTGAAATGAAATCATCTTGTTTCGAGTAAAAACCGTCTCAAGCGAGACAAA
* * *
18816941 GCATGTTTTAAT
66 TCTTGTTTTAAG
18816953 AAAAACAATCT
1 AAAAACAATCT
18816964 CAAGTGAGAT
Statistics
Matches: 144, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
75 2 0.01
76 142 0.99
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (77 bp):
AAAAACAATCTTGAGTGAAATGAAATCATCTTGTTTCGAGTAAAAACCGTCTCAAGCGAGACAAA
TCTTGTTTTAAG
Found at i:18816902 original size:36 final size:36
Alignment explanation
Indices: 18816786--18816904 Score: 103
Period size: 36 Copynumber: 3.2 Consensus size: 36
18816776 CAAGCGAGAC
*
18816786 AAATCTTGTTTTAAGAAAAATAATCTTGAGTGAAATGT
1 AAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAA--T
* ** ** ** * * *
18816824 ATCATCTTGTTTTGATTAAAAACCGTCTCAAGCGAGAC
1 A-AATCTTGTTTT-AAGAAAAACAATCTTGAGTGAAAT
18816862 AAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAAT
1 AAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAAT
18816898 AAATCTT
1 AAATCTT
18816905 CTTGTTTCGA
Statistics
Matches: 58, Mismatches: 21, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
36 22 0.38
37 10 0.17
38 2 0.03
39 10 0.17
40 14 0.24
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (36 bp):
AAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAAT
Found at i:18822597 original size:24 final size:25
Alignment explanation
Indices: 18822549--18822599 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
18822539 GGATTAATTA
** *
18822549 AAACCTAATTTTTGTCTAAATTATT
1 AAACCTAATTTTTGTAGAAAATATT
18822574 AAACCTAATTTTT-TAGAAAATATT
1 AAACCTAATTTTTGTAGAAAATATT
18822598 AA
1 AA
18822600 TTATTAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (25 bp):
AAACCTAATTTTTGTAGAAAATATT
Found at i:18822842 original size:24 final size:25
Alignment explanation
Indices: 18822771--18822842 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 25
18822761 ACTATGAAAC
*
18822771 AAAACAATTAAAAATAAACTTAATTA
1 AAAAC-ATTAAAAATAAACATAATTA
*
18822797 AAATA-ATTAAAACA-AAAGATAA-TA
1 AAA-ACATTAAAA-ATAAACATAATTA
18822821 AAAACATTAAAATATAAA-ATAA
1 AAAACATTAAAA-ATAAACATAA
18822843 AATAAAGACC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 1 0.03
24 17 0.44
25 16 0.41
26 4 0.10
27 1 0.03
ACGTcount: A:0.69, C:0.06, G:0.01, T:0.24
Consensus pattern (25 bp):
AAAACATTAAAAATAAACATAATTA
Found at i:18824318 original size:19 final size:19
Alignment explanation
Indices: 18824294--18824343 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
18824284 GGTGAACGGT
18824294 AAATAGATGGATTTGTGGA
1 AAATAGATGGATTTGTGGA
*
18824313 AAATAGATGGATTTGTGGG
1 AAATAGATGGATTTGTGGA
18824332 AAATAGATGGAT
1 AAATAGATGGAT
18824344 AAGTTTCCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (19 bp):
AAATAGATGGATTTGTGGA
Found at i:18828799 original size:31 final size:31
Alignment explanation
Indices: 18828761--18828852 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
18828751 GAGTCAAGGG
18828761 TTACCTATGTCTTTCGAGACATATGGATAGT
1 TTACCTATGTCTTTCGAGACATATGGATAGT
* * * *
18828792 TTACCTATGTCCTTAGGGACATATAGATAG-
1 TTACCTATGTCTTTCGAGACATATGGATAGT
*
18828822 TTACCTATGT-TCTTCGAAACATATGGATAGT
1 TTACCTATGTCT-TTCGAGACATATGGATAGT
18828853 GGTCAATCGG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
30 24 0.48
31 26 0.52
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (31 bp):
TTACCTATGTCTTTCGAGACATATGGATAGT
Found at i:18828828 original size:30 final size:30
Alignment explanation
Indices: 18828760--18828852 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 30
18828750 AGAGTCAAGG
* * *
18828760 GTTACCTATGTCTTTCGAGACATATGGATA
1 GTTACCTATGTCCTTAGAGACATATAGATA
*
18828790 GTTTACCTATGTCCTTAGGGACATATAGATA
1 G-TTACCTATGTCCTTAGAGACATATAGATA
* * * *
18828821 GTTACCTATGTTCTTCGAAACATATGGATA
1 GTTACCTATGTCCTTAGAGACATATAGATA
18828851 GT
1 GT
18828853 GGTCAATCGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 27 0.51
31 26 0.49
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (30 bp):
GTTACCTATGTCCTTAGAGACATATAGATA
Found at i:18831942 original size:7 final size:7
Alignment explanation
Indices: 18831930--18832026 Score: 176
Period size: 7 Copynumber: 13.9 Consensus size: 7
18831920 CGAGAACCAT
*
18831930 TTCTTCA
1 TTCTTCC
18831937 TTCTTCC
1 TTCTTCC
*
18831944 TTCTTCT
1 TTCTTCC
18831951 TTCTTCC
1 TTCTTCC
18831958 TTCTTCC
1 TTCTTCC
18831965 TTCTTCC
1 TTCTTCC
18831972 TTCTTCC
1 TTCTTCC
18831979 TTCTTCC
1 TTCTTCC
18831986 TTCTTCC
1 TTCTTCC
18831993 TTCTTCC
1 TTCTTCC
18832000 TTCTTCC
1 TTCTTCC
18832007 TTCTTCC
1 TTCTTCC
18832014 TTCTTCC
1 TTCTTCC
18832021 TTCTTC
1 TTCTTC
18832027 TTCCTCCTGT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 87 1.00
ACGTcount: A:0.01, C:0.40, G:0.00, T:0.59
Consensus pattern (7 bp):
TTCTTCC
Found at i:18834089 original size:30 final size:30
Alignment explanation
Indices: 18834021--18834089 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 30
18834011 AGATTCGAGG
* * * * *
18834021 GTTACCTATGTCTTTCGAGACATGTGGATA
1 GTTACCTACGTCCTTAGAGACATATGGACA
*
18834051 GTTTACCTACGTCCTTAGGGACATATGGACA
1 G-TTACCTACGTCCTTAGAGACATATGGACA
18834082 GTTACCTA
1 GTTACCTA
18834090 TGTTCTTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (30 bp):
GTTACCTACGTCCTTAGAGACATATGGACA
Found at i:18841272 original size:54 final size:54
Alignment explanation
Indices: 18841190--18841299 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
18841180 TACCTCCGTT
*
18841190 AGTTTTTCGTTGAGTGGCAGGTAACCTCCCGTCAACTCTTTTCTTCTCCTACTA
1 AGTTTTTCGCTGAGTGGCAGGTAACCTCCCGTCAACTCTTTTCTTCTCCTACTA
*
18841244 AGTTTTTCGCTGAGTGGCAGGTAACCTCCCGTCAACTCTTTTCTTCTTCTACTA
1 AGTTTTTCGCTGAGTGGCAGGTAACCTCCCGTCAACTCTTTTCTTCTCCTACTA
18841298 AG
1 AG
18841300 GTTGAAAACC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.38
Consensus pattern (54 bp):
AGTTTTTCGCTGAGTGGCAGGTAACCTCCCGTCAACTCTTTTCTTCTCCTACTA
Found at i:18841841 original size:55 final size:56
Alignment explanation
Indices: 18841684--18841881 Score: 199
Period size: 55 Copynumber: 3.6 Consensus size: 56
18841674 CCCTATTTCT
* ** * *
18841684 TAGATATA-TTCGA-TTCCGGAC-CCTTATTTTTATGCTTCTTAATGAAAATAAATGA
1 TAGATATACTT-GATTTCGGGACTCC-TATTTTTATGCTTCTTAATGGCAACAAATAA
* * *
18841739 TAGATATACTAGATTTC-GGAGCTCCTATTTTTAAGCTTCTTAATGGCAACAATTAA
1 TAGATATACTTGATTTCGGGA-CTCCTATTTTTATGCTTCTTAATGGCAACAAATAA
* *
18841795 TAGATATACTTGATTTCGGGAC-CCTATTTTTATGCTTATTAATGGCAACAACTAA
1 TAGATATACTTGATTTCGGGACTCCTATTTTTATGCTTCTTAATGGCAACAAATAA
* * * **
18841850 TATATATATTTAATTTCGAAACTCCTATTTTT
1 TAGATATACTTGATTTCGGGACTCCTATTTTT
18841882 TGAGAAGGTT
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
55 60 0.50
56 56 0.46
57 5 0.04
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (56 bp):
TAGATATACTTGATTTCGGGACTCCTATTTTTATGCTTCTTAATGGCAACAAATAA
Found at i:18842184 original size:56 final size:56
Alignment explanation
Indices: 18842124--18842274 Score: 212
Period size: 56 Copynumber: 2.7 Consensus size: 56
18842114 TCGGGGTCTT
* * *
18842124 TATTTTTATTCTTCTTAATGGCCACAACTGATAGATATACTCAATTTCGGAGTTCC
1 TATTTTTATGCTTCTTAATGGCAACAACTGATAGATATACTCAATTTCGGAGTCCC
* * * *
18842180 TATTTTTATGCTTCTTAATGGAAACAATTGATAAATATACTCGATTTCGGAGTCCC
1 TATTTTTATGCTTCTTAATGGCAACAACTGATAGATATACTCAATTTCGGAGTCCC
* * *
18842236 TATTTTTATGCTTATTAATAGCAAAAACTGATAGATATA
1 TATTTTTATGCTTCTTAATGGCAACAACTGATAGATATA
18842275 TTCGATTTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 82 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (56 bp):
TATTTTTATGCTTCTTAATGGCAACAACTGATAGATATACTCAATTTCGGAGTCCC
Found at i:18842280 original size:56 final size:55
Alignment explanation
Indices: 18842101--18842282 Score: 204
Period size: 56 Copynumber: 3.3 Consensus size: 55
18842091 TGATAAATAG
* * ** * * *
18842101 AGATATATTCGA-TTCGGGGTCTTTATTTTTATTCTTCTTAATGGCCACAACTGAT
1 AGATATACTCGATTTCGGAGTCCCTATTTTTATGCTTCTTAAT-GCAAAAACTGAT
* * * *
18842156 AGATATACTCAATTTCGGAGTTCCTATTTTTATGCTTCTTAATGGAAACAATTGAT
1 AGATATACTCGATTTCGGAGTCCCTATTTTTATGCTTCTTAATGCAAA-AACTGAT
* *
18842212 AAATATACTCGATTTCGGAGTCCCTATTTTTATGCTTATTAATAGCAAAAACTGAT
1 AGATATACTCGATTTCGGAGTCCCTATTTTTATGCTTCTTAAT-GCAAAAACTGAT
*
18842268 AGATATATTCGATTT
1 AGATATACTCGATTT
18842283 TAAACTCCTA
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
55 12 0.11
56 89 0.85
57 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (55 bp):
AGATATACTCGATTTCGGAGTCCCTATTTTTATGCTTCTTAATGCAAAAACTGAT
Found at i:18846950 original size:4 final size:4
Alignment explanation
Indices: 18846936--18847007 Score: 53
Period size: 4 Copynumber: 18.0 Consensus size: 4
18846926 TGAATTTGTT
* *
18846936 TTTA TTTTA TTTA TTTA TTTA TGTTT TTTA TGTT- TTTA TTAGA TTTA
1 TTTA -TTTA TTTA TTTA TTTA T-TTA TTTA T-TTA TTTA TT-TA TTTA
*
18846983 TTTA ATT- TTTA TTTA -TTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
18847008 ATCTAATATT
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
3 10 0.19
4 32 0.59
5 12 0.22
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:18847006 original size:34 final size:34
Alignment explanation
Indices: 18846932--18847007 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
18846922 TGTCTGAATT
** * *
18846932 TGTTTTTATTTTATTTATTTATTTATGTTTTTTA
1 TGTTTTTATTAGATTTATTTATTTATATTTATTA
*
18846966 TGTTTTTATTAGATTTATTTAATTTTTATTTATTA
1 TGTTTTTATTAGATTTATTT-ATTTATATTTATTA
18847001 T-TTTTTA
1 TGTTTTTA
18847008 ATCTAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 24 0.67
35 12 0.33
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (34 bp):
TGTTTTTATTAGATTTATTTATTTATATTTATTA
Found at i:18847007 original size:21 final size:20
Alignment explanation
Indices: 18846949--18847009 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
18846939 ATTTTATTTA
* *
18846949 TTTATTTATGTTTTTTATGTT
1 TTTATTTATATTTTTTA-ATT
*
18846970 TTTA-TTAGATTTATTTAATT
1 TTTATTTATATTT-TTTAATT
18846990 TTTATTTATTATTTTTTAAT
1 TTTATTTA-TATTTTTTAAT
18847010 CTAATATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 12 0.36
21 17 0.52
22 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTATTTATATTTTTTAATT
Found at i:18851713 original size:15 final size:15
Alignment explanation
Indices: 18851695--18851761 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
18851685 TTTTGTCCGA
18851695 ATTTATTTTTATTTT
1 ATTTATTTTTATTTT
*
18851710 ATTTATTTATATTTT
1 ATTTATTTTTATTTT
* **
18851725 -TTATGTTTTTATTGG
1 ATT-TATTTTTATTTT
*
18851740 ATTTA-TTTAATTTTT
1 ATTTATTTTTA-TTTT
18851755 ATTTATT
1 ATTTATT
18851762 ATTTTTTAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
14 6 0.15
15 30 0.77
16 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (15 bp):
ATTTATTTTTATTTT
Found at i:18851734 original size:30 final size:27
Alignment explanation
Indices: 18851696--18851766 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 27
18851686 TTTGTCCGAA
18851696 TTTA-TTTTTATTTTATTTATTTATATTT
1 TTTATTTTTTATTTTATTTATTTA-A-TT
**
18851724 TTTATGTTTTTATTGGATTTATTTAATT
1 TTTAT-TTTTTATTTTATTTATTTAATT
*
18851752 TTTATTTATTATTTT
1 TTTATTTTTTATTTT
18851767 TTAATCTAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 7 0.19
28 11 0.31
29 1 0.03
30 17 0.47
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (27 bp):
TTTATTTTTTATTTTATTTATTTAATT
Found at i:18851770 original size:21 final size:21
Alignment explanation
Indices: 18851711--18851771 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
18851701 TTTTATTTTA
18851711 TTTATTTA-TATTTTTT-A-T
1 TTTATTTATTATTTTTTAATT
*
18851729 GTT-TTTATTGGATTTATTTAATT
1 TTTATTTATT--ATTT-TTTAATT
18851752 TTTATTTATTATTTTTTAAT
1 TTTATTTATTATTTTTTAAT
18851772 CTAACATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
17 4 0.12
18 3 0.09
20 4 0.12
21 9 0.26
22 5 0.15
23 3 0.09
24 6 0.18
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTATTTATTATTTTTTAATT
Found at i:18863393 original size:19 final size:20
Alignment explanation
Indices: 18863350--18863395 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
18863340 TACTAAGCTG
* * *
18863350 GAAATTAATGTTTGAGTGTT
1 GAAATTGATGTTAGAATGTT
18863370 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
18863389 GAAATTG
1 GAAATTG
18863396 GTTTATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:18864855 original size:34 final size:34
Alignment explanation
Indices: 18864817--18864966 Score: 254
Period size: 34 Copynumber: 4.5 Consensus size: 34
18864807 AGCACTATAT
18864817 TGTGTAAGGACACTTAGTGCATATGGTACTATGG
1 TGTGTAAGGACACTTAGTGCATATGGTACTATGG
18864851 TGTGTAAGGACACTTAGTGCATATGGTACTATGG
1 TGTGTAAGGACACTTAGTGCATATGGTACTATGG
18864885 TGTGTAAGGACACTTAGTGCATATGGTACTATGG
1 TGTGTAAGGACACTTAGTGCATATGGTACTATGG
* *
18864919 TGTGTAAGGACACTTAGT--ATA--ATACTATAG
1 TGTGTAAGGACACTTAGTGCATATGGTACTATGG
18864949 TGTGTAAGGACACTTAGT
1 TGTGTAAGGACACTTAGT
18864967 ATAACACTGT
Statistics
Matches: 114, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
30 25 0.22
32 3 0.03
34 86 0.75
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (34 bp):
TGTGTAAGGACACTTAGTGCATATGGTACTATGG
Found at i:18864952 original size:30 final size:32
Alignment explanation
Indices: 18864817--18865022 Score: 217
Period size: 34 Copynumber: 6.4 Consensus size: 32
18864807 AGCACTATAT
18864817 TGTGTAAGGACACTTAGTGCATATGGTACTATGG
1 TGTGTAAGGACACTTAGT-CATA-GGTACTATGG
18864851 TGTGTAAGGACACTTAGTGCATATGGTACTATGG
1 TGTGTAAGGACACTTAGT-CATA-GGTACTATGG
18864885 TGTGTAAGGACACTTAGTGCATATGGTACTATGG
1 TGTGTAAGGACACTTAGT-CATA-GGTACTATGG
* *
18864919 TGTGTAAGGACACTTAGT-ATA-ATACTATAG
1 TGTGTAAGGACACTTAGTCATAGGTACTATGG
** * *
18864949 TGTGTAAGGACACTTAGT-ATA-ACACTGTAG
1 TGTGTAAGGACACTTAGTCATAGGTACTATGG
* * * * *
18864979 TGTGCAAGGACACTCAGT-GTA-GCATTATGG
1 TGTGTAAGGACACTTAGTCATAGGTACTATGG
18865009 TGTGTAAGGACACT
1 TGTGTAAGGACACT
18865023 ACGTGTGTAT
Statistics
Matches: 160, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
30 71 0.44
32 3 0.02
34 86 0.54
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (32 bp):
TGTGTAAGGACACTTAGTCATAGGTACTATGG
Found at i:18869284 original size:23 final size:23
Alignment explanation
Indices: 18869226--18869284 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
18869216 TGGCACTTCG
**
18869226 GTGCATTTCTATACGACATTTAT
1 GTGCATTTCTACGCGACATTTAT
18869249 GTGCATTTCTACGCGACATTTAT
1 GTGCATTTCTACGCGACATTTAT
18869272 GTGCATTTCTACG
1 GTGCATTTCTACG
18869285 TGGCACTTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (23 bp):
GTGCATTTCTACGCGACATTTAT
Found at i:18874029 original size:20 final size:21
Alignment explanation
Indices: 18874004--18874065 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 21
18873994 TTTTGGTGCA
*
18874004 GAGGGAATCGA-TCCCCCCCT
1 GAGGGAACCGATTCCCCCCCT
**
18874024 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCCT
18874045 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
18874066 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.29
21 8 0.23
22 1 0.03
23 16 0.46
ACGTcount: A:0.21, C:0.37, G:0.26, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCCT
Found at i:18874073 original size:21 final size:21
Alignment explanation
Indices: 18874047--18874086 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18874037 CCCCCTTTGA
*
18874047 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
18874068 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
18874087 TAGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:18876043 original size:17 final size:17
Alignment explanation
Indices: 18876021--18876063 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
18876011 TTTCAACATT
18876021 TTTGATATTT-TGGATTG
1 TTTGAT-TTTGTGGATTG
18876038 TTTGATTTTGTGGATTG
1 TTTGATTTTGTGGATTG
*
18876055 TTGGATTTT
1 TTTGATTTT
18876064 AATTTATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.26, T:0.60
Consensus pattern (17 bp):
TTTGATTTTGTGGATTG
Found at i:18876812 original size:76 final size:77
Alignment explanation
Indices: 18876661--18876867 Score: 267
Period size: 76 Copynumber: 2.7 Consensus size: 77
18876651 CAAAGCCAAA
* * * * * * **
18876661 AATTACAGATTGCTCAGAGGGAACCGATTCTCCCCATAGGAGAAACCGATT-CCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGTAGGAACCGATTCCCCCCTAAACAGT
18876725 TTTGGCCCCGAG
66 TTTGGCCCCGAG
*
18876737 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGTAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGTAGGAACCGATTCCCCCCTAAACAGT
*
18876802 TTT-GCTCCGAG
66 TTTGGCCCCGAG
* * * *
18876813 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGTGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGTAGGAACCGATTCCCCC
18876868 TTGTACAACG
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
75 17 0.15
76 84 0.73
77 14 0.12
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.21
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGTAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:18877808 original size:21 final size:20
Alignment explanation
Indices: 18877784--18877849 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
18877774 ATATGTAATC
*
18877784 CTTTGGAACATATATGCGGTT
1 CTTTGGAACATATAT-TGGTT
*
18877805 CTTTGAGACACATAT-TTGGTC
1 CTTTG-GA-ACATATATTGGTT
*
18877826 CTTTGGAATATATATATGGTT
1 CTTTGGAACATATAT-TGGTT
18877847 CTT
1 CTT
18877850 AAGGAGATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.14
20 3 0.08
21 20 0.54
22 3 0.08
23 6 0.16
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (20 bp):
CTTTGGAACATATATTGGTT
Found at i:18877937 original size:23 final size:23
Alignment explanation
Indices: 18877887--18877950 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
18877877 ACATTTTATA
* *
18877887 TGGCACTTCGGTGCATTTCTATG
1 TGGCACTTAGGTGCATTTCTACG
* * *
18877910 CGGCACTTATGTGCATTTCTGCG
1 TGGCACTTAGGTGCATTTCTACG
* *
18877933 TGGCACTTCGGTGTATTT
1 TGGCACTTAGGTGCATTT
18877951 TATATGAGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.12, C:0.22, G:0.27, T:0.39
Consensus pattern (23 bp):
TGGCACTTAGGTGCATTTCTACG
Found at i:18881763 original size:47 final size:47
Alignment explanation
Indices: 18881691--18881784 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
18881681 TCAAATATAA
* *
18881691 TAGATTGTATGCCCAAGTAAGTCTTTGAATGACAGGGTGTAATTGGC
1 TAGATTGTATGCCCAAGTAAATCTTTGAAGGACAGGGTGTAATTGGC
*
18881738 TAGATTGTATGCCCAAGTAAATCTTTGAAGGACATGGTGTAATTGGC
1 TAGATTGTATGCCCAAGTAAATCTTTGAAGGACAGGGTGTAATTGGC
18881785 ATGCCATAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.32
Consensus pattern (47 bp):
TAGATTGTATGCCCAAGTAAATCTTTGAAGGACAGGGTGTAATTGGC
Found at i:18881895 original size:30 final size:30
Alignment explanation
Indices: 18881822--18881934 Score: 109
Period size: 30 Copynumber: 3.6 Consensus size: 30
18881812 TCGGATTATC
* *
18881822 ACTATAATGTGTAAGGACACTTAGTGCATAAGGT
1 ACTATAGTGTGTAAGGACACTTAGTAC-T-A--T
* *
18881856 ACTACAGTGTGTTAGGACACTTAGTACTAT
1 ACTATAGTGTGTAAGGACACTTAGTACTAT
* * * * *
18881886 ACTATAGTGTATGAGGACACTTAATACAAC
1 ACTATAGTGTGTAAGGACACTTAGTACTAT
18881916 ACTATAGTGTGTAAGGACA
1 ACTATAGTGTGTAAGGACA
18881935 ATCAGTGTAG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
30 42 0.63
32 1 0.01
33 1 0.01
34 23 0.34
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (30 bp):
ACTATAGTGTGTAAGGACACTTAGTACTAT
Found at i:18882371 original size:18 final size:18
Alignment explanation
Indices: 18882348--18882384 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18882338 GCTTTAATAA
18882348 TCCATGAATATTTTCAGG
1 TCCATGAATATTTTCAGG
18882366 TCCATGAATATTTTCAGG
1 TCCATGAATATTTTCAGG
18882384 T
1 T
18882385 AACAGTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (18 bp):
TCCATGAATATTTTCAGG
Found at i:18887362 original size:20 final size:19
Alignment explanation
Indices: 18887324--18887369 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
18887314 CGTTTGGATG
*
18887324 GGGGAATGTGGGATTCCCC
1 GGGGAATGTGAGATTCCCC
18887343 GGGGAATGTGAGATTCCCC
1 GGGGAATGTGAGATTCCCC
*
18887362 CGGGAATG
1 GGGGAATG
18887370 GAATCCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.41, T:0.20
Consensus pattern (19 bp):
GGGGAATGTGAGATTCCCC
Found at i:18887970 original size:20 final size:20
Alignment explanation
Indices: 18887934--18887971 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18887924 ATCCTATTCC
**
18887934 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
18887954 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
18887972 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:18888396 original size:36 final size:38
Alignment explanation
Indices: 18888289--18888398 Score: 111
Period size: 38 Copynumber: 2.9 Consensus size: 38
18888279 AATAATATAG
* * *
18888289 TATAGTTTTT-GAAAAC-ATT-TTCGAAAAACGTATAACA
1 TATAGTTTTTAGAAAACGGTTATT-G-AAAACATATAATA
18888326 TATAGTTTTTAGAAAACGGTTATTGAAAACATATAATA
1 TATAGTTTTTAGAAAACGGTTATTGAAAACATATAATA
* * *
18888364 TATAGTTTTTA-AAAATCGTTTTTTGAAAATATATA
1 TATAGTTTTTAGAAAA-CGGTTATTGAAAACATATA
18888399 TAATATTATT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
37 14 0.22
38 44 0.70
39 3 0.05
40 2 0.03
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (38 bp):
TATAGTTTTTAGAAAACGGTTATTGAAAACATATAATA
Found at i:18888449 original size:59 final size:62
Alignment explanation
Indices: 18888383--18888534 Score: 196
Period size: 59 Copynumber: 2.5 Consensus size: 62
18888373 TAAAAATCGT
18888383 TTTTTGAAAATATATATAATATTA-TTTTGAAAATACAA-TTTAAAAACATATAT-TATT-TA-A
1 TTTTTGAAAATATATATAATA-TAGTTTTGAAAA-ACAATTTTAAAAA-ATATATATATTGTATA
* *
18888443 -TTTTGAAAACATAT-T-ATATAGTTTTG-AAAACAATTTTCAAAAATATATATATTGTATA
1 TTTTTGAAAATATATATAATATAGTTTTGAAAAACAATTTTAAAAAATATATATATTGTATA
18888501 TTTTTGAAAATATATATAATATAGTTTTGAAAAA
1 TTTTTGAAAATATATATAATATAGTTTTGAAAAA
18888535 AAACATTTTT
Statistics
Matches: 80, Mismatches: 3, Indels: 16
0.81 0.03 0.16
Matches are distributed among these distances:
55 10 0.12
56 16 0.20
57 10 0.12
58 2 0.03
59 26 0.32
60 1 0.01
61 11 0.14
62 4 0.05
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (62 bp):
TTTTTGAAAATATATATAATATAGTTTTGAAAAACAATTTTAAAAAATATATATATTGTATA
Found at i:18888452 original size:23 final size:22
Alignment explanation
Indices: 18888425--18888476 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
18888415 ATACAATTTA
*
18888425 AAAACATATATTATTTAATTTTG
1 AAAACA-ATATTATATAATTTTG
*
18888448 AAAAC-ATATTATATAGTTTTG
1 AAAACAATATTATATAATTTTG
18888469 AAAACAAT
1 AAAACAAT
18888477 TTTCAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 19 0.73
22 2 0.08
23 5 0.19
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (22 bp):
AAAACAATATTATATAATTTTG
Found at i:18888517 original size:23 final size:23
Alignment explanation
Indices: 18888482--18888533 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
18888472 ACAATTTTCA
* *
18888482 AAAATATATATATTGTATATTTTTG
1 AAAATATATATA--ATATAGTTTTG
18888507 AAAATATATATAATATAGTTTTG
1 AAAATATATATAATATAGTTTTG
18888530 AAAA
1 AAAA
18888534 AAAACATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.52
25 12 0.48
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
AAAATATATATAATATAGTTTTG
Done.