Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168041.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_293, 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: 38274
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Found at i:453 original size:26 final size:26
Alignment explanation
Indices: 423--482 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
413 TATAATTATT
423 ATTAATTATCTGAA-TATTGATTTTA
1 ATTAATTATCTGAATTATTGATTTTA
* * * *
448 ATTTAAATATTTTAATTATTGATTTTT
1 A-TTAATTATCTGAATTATTGATTTTA
475 ATTAATTA
1 ATTAATTA
483 ATAGATATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.04
26 16 0.57
27 11 0.39
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTAATTATCTGAATTATTGATTTTA
Found at i:1202 original size:16 final size:17
Alignment explanation
Indices: 1181--1213 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1171 TATTGATTTC
1181 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
1197 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
1214 TGAACTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:1340 original size:139 final size:143
Alignment explanation
Indices: 1151--1433 Score: 346
Period size: 139 Copynumber: 2.0 Consensus size: 143
1141 ACAATTGTTG
* * * * *
1151 TATGACCAAACAAAAGGTCATATTGATTTCAAATAGATAATTATTGAAATAGC-CATAATTATTT
1 TATGACAAAACAAAAGATCATAATGATTTCAAATAGATAATTATTCAAATA-CTCATAACTATTT
* * *
1215 GAACTAATTC-GTTAAACAGAATT-A-TTTTTTAAA-TC-ACTTATTAATTTTTGGAATATTAAT
65 GAACTAATTCAG-TAAACA-AATTAATTTTTTTAAACTCTACTTATTAATTTTTGAAATATCAAG
1275 AAATTACTATTATTTT
128 AAATTACTATTATTTT
*
1291 TATGACAAAACAAAAGATCATAATGATTT-AAATAGATAATTGTTCAAATACTCATAACTATTTG
1 TATGACAAAACAAAAGATCATAATGATTTCAAATAGATAATTATTCAAATACTCATAACTATTTG
* ** * *
1355 AATTTGTTCAGTAAACAAATTAATTTTTTTAAACTCTTGCTTATTCATTTTTGAAATATCAAGAA
66 AACTAATTCAGTAAACAAATTAATTTTTTTAAACTC-TACTTATTAATTTTTGAAATATCAAGAA
*
1420 ATTAGTATTATTTT
130 ATTACTATTATTTT
1434 ATTTTGGATA
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
138 5 0.04
139 43 0.36
140 36 0.30
141 2 0.02
143 35 0.29
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (143 bp):
TATGACAAAACAAAAGATCATAATGATTTCAAATAGATAATTATTCAAATACTCATAACTATTTG
AACTAATTCAGTAAACAAATTAATTTTTTTAAACTCTACTTATTAATTTTTGAAATATCAAGAAA
TTACTATTATTTT
Found at i:1639 original size:14 final size:15
Alignment explanation
Indices: 1603--1643 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
1593 TGTTAATAAC
*
1603 TAAAATTTTTAAAGT
1 TAAAATATTTAAAGT
*
1618 TTAAATATTTAAA-T
1 TAAAATATTTAAAGT
1632 TAAAATATTTAA
1 TAAAATATTTAA
1644 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TAAAATATTTAAAGT
Found at i:1649 original size:29 final size:28
Alignment explanation
Indices: 1603--1657 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
1593 TGTTAATAAC
*
1603 TAAAATTTTTAAAGTTTAAATATTTAAAT
1 TAAAATATTTAAAGTTT-AATATTTAAAT
** *
1632 TAAAATATTTAATTTTTATTATTTAA
1 TAAAATATTTAAAGTTTAATATTTAA
1658 TTATCGATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 8 0.36
29 14 0.64
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TAAAATATTTAAAGTTTAATATTTAAAT
Found at i:1706 original size:20 final size:19
Alignment explanation
Indices: 1672--1709 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1662 CGATATTTAT
1672 TAATAAATAAGCTATGAAA
1 TAATAAATAAGCTATGAAA
*
1691 TAATAATATAATCTATGAA
1 TAATAA-ATAAGCTATGAA
1710 TTGTGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (19 bp):
TAATAAATAAGCTATGAAA
Found at i:2331 original size:182 final size:178
Alignment explanation
Indices: 1899--2422 Score: 458
Period size: 180 Copynumber: 2.9 Consensus size: 178
1889 AATATTAACA
* * * * * *
1899 AATTT-AAATAGCTATGACTATTTGAACAATTGTATATTTAAAATCGTTATGACCTTTTGTTTTG
1 AATTTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATTGTTAT-AACTTTTGTTTT-
* * ** * * *
1963 TCATAAAATAATTGTTTTAGTTCATACAAGCTTATTCAAAATAAATAAAACTAATTTATTAATAT
64 TCATAAAACAATTCTTTTAGTTCATACAAAATTATTCAAAATAAAAAAAACTAATTAATTAACAT
* * * * * *
2028 TCCAAAAATTAATAACTAAGTGATTTAAAAAGTTAATTTGTTTATCGAAT
129 TCCAAAAATTAATAACTAAGAGATTTAAAAAGTAAATCTATTTATCAAAC
* * * * * * *
2078 TAGTTCAAATAGTCATG-TCCATTTGAAAAATTATCTATTTCAAATTGTTATGACTTTTTGCTTT
1 AATTTCAAATAGTTATGAT-TATTTGAACAATTATCTATTTAAAATTGTTATAAC-TTTTG-TTT
** * *
2142 TTCATAAAACAATTCTTTCT-GTTCATGGAAAATTATTCAAAATAAAAAAATATTGATTAATTAA
63 TTCATAAAACAATTCTTT-TAGTTCATACAAAATTATTCAAAATAAAAAAA-ACTAATTAATTAA
** * *
2206 CATTCTGAAAATTAATAAGTAAGAGATTTGAAAAGATAAATCTATTTA-CTAAAC
126 CATTCCAAAAATTAATAACTAAGAGATTTAAAAAG-TAAATCTATTTATC-AAAC
*
2260 AATTTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATTTTTATAAACTTTTGTTTTA
1 AATTTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATTGTTAT-AACTTTTGTTTT-
* * * * * * *
2325 TCATAAAACAATTGTTTTAG-T-ATA-AAAGCTTATGCAAAATAAAATAATACTACTTTATTAAT
64 TCATAAAACAATTCTTTTAGTTCATACAAA-ATTATTCAAAATAAAA-AAAACTAATTAATTAAC
* *
2387 ATTTCAAAAA-T--TAA-TAAGAGATTTAAAAAATAAATC
127 ATTCCAAAAATTAATAACTAAGAGATTTAAAAAGTAAATC
2423 AACTTACCAA
Statistics
Matches: 274, Mismatches: 57, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
175 6 0.02
176 14 0.05
177 3 0.01
179 8 0.03
180 112 0.41
181 53 0.19
182 75 0.27
183 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (178 bp):
AATTTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATTGTTATAACTTTTGTTTTTC
ATAAAACAATTCTTTTAGTTCATACAAAATTATTCAAAATAAAAAAAACTAATTAATTAACATTC
CAAAAATTAATAACTAAGAGATTTAAAAAGTAAATCTATTTATCAAAC
Found at i:2568 original size:65 final size:67
Alignment explanation
Indices: 2480--2609 Score: 178
Period size: 65 Copynumber: 2.0 Consensus size: 67
2470 TTTCAAATCA
* *
2480 TTATTACCTTTTATTTTGTCATAAAGCAATTG-TTTTCCAACATACAAGCCTA-TT-AAATAAAA
1 TTATTACCTTTTATTTTGTCATAAAACAATTGCCTTT-CAACATACAAGCCTATTTGAAATAAAA
2542 TTG
65 TTG
* *
2545 TTATTA-CTTTTCTTTCTGTCATAAAACAATTGCCTTTCAACATACAAGCTTATTTGAAATAAAA
1 TTATTACCTTTTATTT-TGTCATAAAACAATTGCCTTTCAACATACAAGCCTATTTGAAATAAAA
2609 T
65 T
2610 AATACTAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
64 8 0.14
65 35 0.61
66 5 0.09
67 9 0.16
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (67 bp):
TTATTACCTTTTATTTTGTCATAAAACAATTGCCTTTCAACATACAAGCCTATTTGAAATAAAAT
TG
Found at i:2709 original size:19 final size:19
Alignment explanation
Indices: 2673--2744 Score: 51
Period size: 19 Copynumber: 3.9 Consensus size: 19
2663 TATTTGCTAA
* *
2673 ACTAGTTTAAATAATTATG
1 ACTAGTTCAAACAATTATG
* *
2692 ACTAGTTCAAACAGTTATT
1 ACTAGTTCAAACAATTATG
**
2711 ACTA-TTTGAACAATTAT-
1 ACTAGTTCAAACAATTATG
* *
2728 -CTATTTCAAACTATTAT
1 ACTAGTTCAAACAATTAT
2745 AAATAAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
16 3 0.07
17 10 0.24
18 10 0.24
19 19 0.45
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (19 bp):
ACTAGTTCAAACAATTATG
Found at i:4596 original size:18 final size:18
Alignment explanation
Indices: 4575--4630 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
4565 TTTGAACACG
4575 TTTAAATAGTTATGACTA
1 TTTAAATAGTTATGACTA
* *
4593 TTTAAACAATTAT--CTA
1 TTTAAATAGTTATGACTA
*
4609 TTTCAAATTGTTATGACTA
1 TTT-AAATAGTTATGACTA
4628 TTT
1 TTT
4631 GTTTTGTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 11 0.37
19 6 0.20
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (18 bp):
TTTAAATAGTTATGACTA
Found at i:4625 original size:181 final size:175
Alignment explanation
Indices: 4245--5831 Score: 664
Period size: 181 Copynumber: 8.7 Consensus size: 175
4235 AATAGTTTAA
* * * *
4245 CTATTTCAAATCATTATGACCTTTT-TTTTGTAATAAAACAATTGTTT-TAGTT-AATATAA-AT
1 CTATTTCAAATAATTATGACTTTTTATTTTGTCA-AAAACAATTGTTTCTA-TTCAA-A-AAGCT
* * * * *
4306 TATTAAAAATAAAATAATACTAATTTATTAATATTTAAAAAATGAATGAGCAA-AAGAATTAAAA
62 TATT-TAAATAAAATAATATTAATTTATTAATATTCAAAAAATTAAT-A--AATAA-AATT-TAA
* * * *
4370 AAATGAATTT-GTTTACTGAAAAAGTTTAAATAGTTACGACTATCTAAACAATTAT
121 AAATAAATTTATTTTACTG-AAAAGTTTAAATAGTTATGACTATTTAAACAATTAT
* * ** *
4425 CCATTTCAACA-CATTATGACTTTTTATTTTGTCAAAAAGCAATTGGATCTATTCACGAAAGCTT
1 CTATTTCAA-ATAATTATGACTTTTTATTTTGTCAAAAA-CAATTGTTTCTATTCA-AAAAGCTT
*
4489 ATTTCAAATAAAATAATATAAATTTATTAATATTCAAAAAATTAATAAATAATAATTTAAACAAT
63 ATTT-AAATAAAATAATATTAATTTATTAATATTCAAAAAATTAATAAATAA-AATTTAAA-AAT
** *
4554 AAATTTATTTTTTTGAACACGTTTAAATAGTTATGACTATTTAAACAATTAT
125 AAATTTATTTTACTGAA-AAGTTTAAATAGTTATGACTATTTAAACAATTAT
** * * * * * * *
4606 CTATTTCAAATTGTTATGACTATTTGTTTTGTGATAAATCACTTGTTTCTGTTCATACAAGCTTA
1 CTATTTCAAATAATTATGACTTTTTATTTTGTCA-AAAACAATTGTTTCTATTCA-AAAAGCTTA
* * * *
4671 TTTAGAATAAAATAATATTAATTTATTAAAATTTC-AAAAATTAATAAGTAAAAGATTAAAAAGA
64 TTTA-AATAAAATAATATTAATTTATTAATA-TTCAAAAAATTAATAAATAAAA-TTTAAAAATA
* * *** * * *
4735 AATCTA-TTTACCAGGTGAGTTCAAATAGTTATGACTATTTGAACAAATAT
126 AATTTATTTTA-CTGAAAAGTTTAAATAGTTATGACTATTTAAACAATTAT
* * * *
4785 TTATTTCAAATAATTATGA-TCTTTTCTTTGGTCATAAAACAATTGTTTCTATTCATAAAAGTTT
1 CTATTTCAAATAATTATGACT-TTTTATTTTGTCA-AAAACAATTGTTTCTATTCA-AAAAGCTT
* * * *
4849 ATTTGAAATAAAATAATATTAATTTATTAATATTCTAAAAATTAATAAGTTGGAGATTTAAAAAA
63 ATTT-AAATAAAATAATATTAATTTATTAATATTCAAAAAATTAATAA-AT-AAAATTT-AAAAA
* * * * * * * * *
4914 TAAATCTA-TTTAGC-AAACAAGTTCAAATAGTCATGTCCATTTGAACTATTTT
124 TAAATTTATTTTA-CTGAA-AAGTTTAAATAGTTATGACTATTTAAACAATTAT
* * * *
4966 CTATTTCAAATCATTATGACATTTTGTTTTGTTGTAAAATAATACCAATGATTTAGAATAATTGG
1 CTATTTCAAATAATTATGAC-TTTT-TATT-TTGT-CAA-AA-A-C-A--A-TT-G--T--TT-C
* * * *
5031 TATTCATACAAA-ATTATTCAAAATAAAATAATACTAATTTATTACTATTTC-AAAAATTAAT--
49 TATTCA-A-AAAGCTTATT-TAAATAAAATAATATTAATTTATTAATA-TTCAAAAAATTAATAA
* * * * * *
5092 A-AGAATTTAAAAATAAATGTGTTTGT-C-GAATCAGTTCAAATAGTTAAGACTA-TTAGAACAA
110 ATAAAATTTAAAAATAAATTTATTT-TACTGAA-AAGTTTAAATAGTTATGACTATTTA-AACAA
5153 TTAT
172 TTAT
* * * * * * * * * * * * * **
5157 ATGTTTCAACTCATTCTAACTTTTTGTTTAGTCATAAAATATTTGTTTC-AGCTCATACATGCCA
1 CTATTTCAAATAATTATGACTTTTTATTTTGTCA-AAAACAATTGTTTCTA-TTCA-AAAAGCTT
* * * * * ** * *
5221 ATTTGAGATATAATAATACTAATTTATTAACATTTAAAAAATTAATAAGCAAGAAATTAAAAAGC
63 ATTT-AAATAAAATAATATTAATTTATTAATATTCAAAAAATTAATAAATAA-AATTTAAAAA-T
* * * * *
5286 ACAAATCAATTTACTGAACAAGTTAAAATTGTTATGACTATTTAAACAATTAT
125 A-AATTTATTTTACTGAA-AAGTTTAAATAGTTATGACTATTTAAACAATTAT
* * * * * * *
5339 ATATTTAAAATCATTATGACCTTTTATTTTATCATAAAACAGTTGTTTC-AGTGCATAAAAGCTT
1 CTATTTCAAATAATTATGACTTTTTATTTTGTCA-AAAACAATTGTTTCTA-TTCA-AAAAGCTT
* * * * *
5403 ATTCAAAATAAAATAATATT-ACTTATTAATATTTC-AAAAATTGATAAGTTAGAGATTTAAAAA
63 ATT-TAAATAAAATAATATTAATTTATTAATA-TTCAAAAAATTAATAA-ATA-AAATTTAAAAA
* * * * ** * *
5466 TAAA-TTAGTTTA-TCAAATCAGTTCAAATAATTACAACCATTTAAATAATTAT
124 TAAATTTATTTTACTGAAA--AGTTTAAATAGTTATGACTATTTAAACAATTAT
* * * * * * *
5518 CTATTTCAAATCATTATGAAC-TTTTGTTTGGTCATAAACTAATTGTTTTTTTTTTTTATCATAC
1 CTATTTCAAATAATTATG-ACTTTTTATTTTGTCAAAAAC-AATTG-----TTTCTAT-TCA-AA
* * * * * *
5582 AAGCCTATTCAAATTAAAATAAAACTAATTTACTAATATTTC-AAAAATTAA-AAAGTAGGAGAG
57 AAGCTTATTTAAA-TAAAATAATATTAATTTATTAATA-TTCAAAAAATTAATAAA-TA--A-AA
* *** * * * * *
5645 TTAAAAAATAAA-TCCGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAATAATTAT
116 TTTAAAAATAAATTTATTTTACTGAA-AAGTTTAAATAGTTATGACTATTTAAACAATTAT
* * * * * * * *
5705 ATATTTCAAATCATTATAAC-TTTTGTTATGTCATAAAACAATTATTTCTATTCATACAAGTTTA
1 CTATTTCAAATAATTATGACTTTTTATTTTGTCA-AAAACAATTGTTTCTATTCA-AAAAGCTTA
* * * * *
5769 TTAAAAATAAAATAATACT-ATTGTAATAATATTCTAAAAATTAATAACTAAGAGATTTAAAAA
64 TT-TAAATAAAATAATATTAATT-TATTAATATTCAAAAAATTAATAAATAA-A-ATTTAAAAA
5832 ATTAAATAAA
Statistics
Matches: 1085, Mismatches: 231, Indels: 183
0.72 0.15 0.12
Matches are distributed among these distances:
174 4 0.00
175 41 0.04
176 2 0.00
177 1 0.00
178 16 0.01
179 212 0.20
180 107 0.10
181 249 0.23
182 157 0.14
183 8 0.01
184 12 0.01
185 29 0.03
186 42 0.04
187 69 0.06
188 7 0.01
189 3 0.00
190 7 0.01
191 54 0.05
192 7 0.01
193 1 0.00
194 1 0.00
196 2 0.00
197 48 0.04
198 6 0.01
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (175 bp):
CTATTTCAAATAATTATGACTTTTTATTTTGTCAAAAACAATTGTTTCTATTCAAAAAGCTTATT
TAAATAAAATAATATTAATTTATTAATATTCAAAAAATTAATAAATAAAATTTAAAAATAAATTT
ATTTTACTGAAAAGTTTAAATAGTTATGACTATTTAAACAATTAT
Found at i:4944 original size:360 final size:357
Alignment explanation
Indices: 4246--5831 Score: 1233
Period size: 360 Copynumber: 4.4 Consensus size: 357
4236 ATAGTTTAAC
* * * *
4246 TATTTCAAATCATTATGACCTTTT-TTTTGTAATAAAACAATTGTTT-TAGTTAATATAA-ATTA
1 TATTTCAAATCATTATGA-CTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTA
* * * * * *
4308 TTAAAAATAAAATAATACTAATTTATTAATATTTAAAAAATGAATGAGCAAAAGAATTAAAAAAA
64 TTCAAAATAAAATAATACT-ATTTATTAATATTTCAAAAATTAATAAGTAAAAG-ATT-TAAAAA
* * * ** * * *
4373 TGAATTTGTTTA-CTGAAAAAGTTTAAATAGTTACGACTATCTAAACAATTATCCATTTCAACA-
126 T-AAATTATTTATCAG-ATCAGTTCAAATAGTTACGACTATTTAAACAATTATCTATTTCAA-AT
* * ** ** *
4436 CATTATG-ACTTTTTATTTTGTCA-AAAAGCAATTGGATCTATTCACGAAAGCTTATTTCAAATA
188 CATTATGAACTTTTTGTTTGGTCATAAAA-CAATTGTTTCTATTCATAAAAGCCTATTTCAAATA
* * * * *
4499 AAATAATA-TAAATTTATTAATATTCAAAAAATTAATAAATAATAATTTAAACAATAAATTTATT
252 AAATAATACT-AATTTATTAATATTTAAAAAATTAATAAGTAAGAATTTAAAAAATAAATCTA--
** * * *
4563 TTTTTGAACACGTTTAAATAGTTATGACTATTTAAACAATTATC
314 TTTACGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATA
** * * * *
4607 TATTTCAAATTGTTATGACTATTTGTTTTGTGATAAATCACTTGTTTCTGTTCATACAAGCTTAT
1 TATTTCAAATCATTATGACT-TTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTAT
* * * * *
4672 TTAGAATAAAATAATATTAATTTATTAAAATTTCAAAAATTAATAAGTAAAAGA-TTAAAAAGAA
65 TCAAAATAAAATAATACT-ATTTATTAATATTTCAAAAATTAATAAGTAAAAGATTTAAAAATAA
* * * * * * * *
4736 ATCTATTTACCAGGTGAGTTCAAATAGTTATGACTATTTGAACAAATATTTATTTCAAATAATTA
129 AT-TATTTATCAGATCAGTTCAAATAGTTACGACTATTTAAACAATTATCTATTTCAAATCATTA
* * ** *
4801 TGATC-TTTTCTTTGGTCATAAAACAATTGTTTCTATTCATAAAAGTTTATTTGAAATAAAATAA
193 TGAACTTTTTGTTTGGTCATAAAACAATTGTTTCTATTCATAAAAGCCTATTTCAAATAAAATAA
* ** *
4865 TATTAATTTATTAATATTCT-AAAAATTAATAAGTTGGAGATTTAAAAAATAAATCTATTTAGCA
258 TACTAATTTATTAATATT-TAAAAAATTAATAAGTAAGA-ATTTAAAAAATAAATCTATTTA-CG
* * * * * * *
4929 AACAAGTTCAAATAGTCATGTCCATTTGAACTATTTTC
320 AACAAGTTCAAATAGTTATGACTATTTAAACAATTATA
* * *
4967 TATTTCAAATCATTATGACATTTTGTTTTGTTGTAAAATAATACCAATGATTTAGAATAATTGGT
1 TATTTCAAATCATTATGAC-TTTTG--TT-TTGT--CATAA-AAC-A--A-TT-G--T--TT-CT
** *
5032 ATTCATACAAAATTATTCAAAATAAAATAATACTAATTTATTACTATTTCAAAAATTAATAAG--
49 ATTCATACAAGCTTATTCAAAATAAAATAATACT-ATTTATTAATATTTCAAAAATTAATAAGTA
* * *
5095 --A-ATTTAAAAATAAATGTGTTTGTC-GAATCAGTTCAAATAGTTAAGACTA-TTAGAACAATT
113 AAAGATTTAAAAATAAAT-TATTTATCAG-ATCAGTTCAAATAGTTACGACTATTTA-AACAATT
* * * * * * * * * *
5155 ATATGTTTCAACTCATTCT-AACTTTTTGTTTAGTCATAAAATATTTGTTTC-AGCTCATACATG
175 ATCTATTTCAAATCATTATGAACTTTTTGTTTGGTCATAAAACAATTGTTTCTA-TTCATAAAAG
* * * * * * *
5218 CCAATTTGAGATATAATAATACTAATTTATTAACATTTAAAAAATTAATAAGCAAGAAATTAAAA
239 CCTATTTCAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAAGAATTTAAAA
* * * *
5283 AGCACAAATCAATTTACTGAACAAGTTAAAATTGTTATGACTATTTAAACAATTATA
304 A--ATAAATCTATTTAC-GAACAAGTTCAAATAGTTATGACTATTTAAACAATTATA
* * * * * *
5340 TATTTAAAATCATTATGACCTTTTATTTTATCATAAAACAGTTGTTTC-AGTGCATAAAAGCTTA
1 TATTTCAAATCATTATGA-CTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTA
* * * * *
5404 TTCAAAATAAAATAATATTACTTATTAATATTTCAAAAATTGATAAGTTAGAGATTTAAAAATAA
64 TTCAAAATAAAATAATACTATTTATTAATATTTCAAAAATTAATAAGTAAAAGATTTAAAAATAA
* * * * *
5469 ATTAGTTTATCAAATCAGTTCAAATAATTACAACCATTTAAATAATTATCTATTTCAAATCATTA
129 ATTA-TTTATCAGATCAGTTCAAATAGTTACGACTATTTAAACAATTATCTATTTCAAATCATTA
* * *
5534 TGAAC-TTTTGTTTGGTCAT-AAACTAATTGTTTTTTTTTTTTATCATACAAGCCTA-TTCAAAT
193 TGAACTTTTTGTTTGGTCATAAAAC-AATTG-----TTTCTAT-TCATAAAAGCCTATTTCAAA-
* * * * * * **
5596 TAAAATAAAACTAATTTACTAATATTTCAAAAATTAAAAAGTAGGAGAGTTAAAAAATAAATCCG
250 TAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAAGA-ATTTAAAAAATAAATCTA
* * *
5661 TTTACCGAACCAGTTCAAATAGTTATGACTATTTGAATAATTATA
314 TTTA-CGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATA
* * * *
5706 TATTTCAAATCATTATAACTTTTGTTATGTCATAAAACAATTATTTCTATTCATACAAGTTTATT
1 TATTTCAAATCATTATGACTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATT
* * * *
5771 AAAAATAAAATAATACTATTGTAATAATA-TTCTAAAAATTAATAACTAAGAGATTTAAAAA
66 CAAAATAAAATAATACTATT-TATTAATATTTC-AAAAATTAATAAGTAAAAGATTTAAAAA
5832 ATTAAATAAA
Statistics
Matches: 970, Mismatches: 191, Indels: 123
0.76 0.15 0.10
Matches are distributed among these distances:
356 26 0.03
357 28 0.03
358 2 0.00
359 7 0.01
360 186 0.19
361 121 0.12
362 36 0.04
363 56 0.06
365 61 0.06
366 103 0.11
367 53 0.05
368 12 0.01
370 5 0.01
371 19 0.02
372 134 0.14
373 62 0.06
374 1 0.00
375 2 0.00
376 56 0.06
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (357 bp):
TATTTCAAATCATTATGACTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATT
CAAAATAAAATAATACTATTTATTAATATTTCAAAAATTAATAAGTAAAAGATTTAAAAATAAAT
TATTTATCAGATCAGTTCAAATAGTTACGACTATTTAAACAATTATCTATTTCAAATCATTATGA
ACTTTTTGTTTGGTCATAAAACAATTGTTTCTATTCATAAAAGCCTATTTCAAATAAAATAATAC
TAATTTATTAATATTTAAAAAATTAATAAGTAAGAATTTAAAAAATAAATCTATTTACGAACAAG
TTCAAATAGTTATGACTATTTAAACAATTATA
Found at i:5215 original size:551 final size:555
Alignment explanation
Indices: 4494--5546 Score: 1246
Period size: 551 Copynumber: 1.9 Consensus size: 555
4484 AGCTTATTTC
* *
4494 AAATAAAATAATATAAATTTATTAATATTCAAAAAATTAATAAATAATAATTTAAACAATAAATT
1 AAATAAAATAATATAAATTTATTAATATTCAAAAAATT-ATAAATAAGAATTTAAACAATAAATG
* * * * * * ** *
4559 TATTTTTTTGAACACGTTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATTGTTATG
65 TAGTTTGTCGAACACGTTCAAATAGTTAAGACTATTTAAACAATTATATATTTCAAATCATTATA
* * * * **
4624 ACTATTTGTTTTGTGATAAATCACTTGTTTCTGTTCATACAAGCTTATTT-AGAATAAAATAATA
130 ACTATTTGTTTAGTCATAAATCACTTGTTTCAGCTCATACAAGCCAATTTGAG-ATAAAATAATA
* * * * *
4688 TTAATTTATTAAAATTTCAAAAATTAATAAGTAA-AAGATTAAAAAG-AAATCTATTTACCAG-G
194 CTAATTTATTAAAATTTAAAAAATTAATAAGCAAGAA-ATTAAAAAGCAAATCAATTTA-CAGAA
** * * * * * *
4750 TGAGTTCAAATAGTTATGACTATTTGAACAAATATTTATTTCAAATAATTATGATCTTTTCTTTG
257 CAAGTTAAAATAGTTATGACTATTTAAACAAATATATATTTAAAATAATTATGACCTTTTATTTG
* * * ** *
4815 GTCATAAAACAATTGTTTCTA-TTCATAAAAGTTTATTTGAAATAAAATAATATTAATTTATTAA
322 ATCATAAAACAATTGTTTC-AGTGCATAAAAGCTTATTCAAAATAAAATAATATT-ACTTATTAA
*
4879 TA-TTCTAAAAATTAATAAGTTGGAGATTTAAAAAATAAATCTA-TTTAGCAAA-CAAGTTCAAA
385 TATTTC-AAAAATTAATAAGTTAGAGATTT-AAAAATAAAT-TAGTTTAGCAAATC-AGTTCAAA
* *** * *
4941 TAGTCATGTCCATTTGAACT-ATTTTCTATTTCAAATCATTATG-ACATTTTGTTTTGTTGTAAA
446 TAATCACAACCATTT-AAATAATTATCTATTTCAAATCATTATGAAC-TTTTGTTTTGTTGTAAA
5004 ATAATACCAATGATTTAGAATAATTGGTATTCATACAAAATTATTCA
509 ATAATACCAATGATTTAGAATAATTGGTATTCATACAAAATTATTCA
*
5051 AAATAAAATAATACT-AATTTATTACTATTTC-AAAAA-T-T-AATAAGAATTTAAA-AATAAAT
1 AAATAAAATAATA-TAAATTTATTAATA-TTCAAAAAATTATAAATAAGAATTTAAACAATAAAT
* *
5110 GT-GTTTGTCGAATCA-GTTCAAATAGTTAAGACTA-TTAGAACAATTATATGTTTCAACTCATT
64 GTAGTTTGTCGAA-CACGTTCAAATAGTTAAGACTATTTA-AACAATTATATATTTCAAATCATT
* * * * *
5172 CTAACTTTTTGTTTAGTCATAAAAT-ATTTGTTTCAGCTCATACATGCCAATTTGAGATATAATA
127 ATAACTATTTGTTTAGTCAT-AAATCACTTGTTTCAGCTCATACAAGCCAATTTGAGATAAAATA
* *
5236 ATACTAATTTATTAACATTTAAAAAATTAATAAGCAAGAAATTAAAAAGCACAAATCAATTTACT
191 ATACTAATTTATTAAAATTTAAAAAATTAATAAGCAAGAAATTAAAAAG--CAAATCAATTTACA
* * *
5301 GAACAAGTTAAAATTGTTATGACTATTTAAACAATTATATATTTAAAATCATTATGACCTTTTAT
254 GAACAAGTTAAAATAGTTATGACTATTTAAACAAATATATATTTAAAATAATTATGACCTTTTAT
* *
5366 TTTATCATAAAACAGTTGTTTCAGTGCATAAAAGCTTATTCAAAATAAAATAATATTACTTATTA
319 TTGATCATAAAACAATTGTTTCAGTGCATAAAAGCTTATTCAAAATAAAATAATATTACTTATTA
* *
5431 ATATTTCAAAAATTGATAAGTTAGAGATTTAAAAATAAATTAGTTTATCAAATCAGTTCAAATAA
384 ATATTTCAAAAATTAATAAGTTAGAGATTTAAAAATAAATTAGTTTAGCAAATCAGTTCAAATAA
*
5496 TTACAACCATTTAAATAATTATCTATTTCAAATCATTATGAACTTTTGTTT
449 TCACAACCATTTAAATAATTATCTATTTCAAATCATTATGAACTTTTGTTT
5547 GGTCATAAAC
Statistics
Matches: 418, Mismatches: 61, Indels: 39
0.81 0.12 0.08
Matches are distributed among these distances:
550 3 0.01
551 134 0.32
552 84 0.20
553 50 0.12
554 113 0.27
556 1 0.00
557 29 0.07
558 4 0.01
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (555 bp):
AAATAAAATAATATAAATTTATTAATATTCAAAAAATTATAAATAAGAATTTAAACAATAAATGT
AGTTTGTCGAACACGTTCAAATAGTTAAGACTATTTAAACAATTATATATTTCAAATCATTATAA
CTATTTGTTTAGTCATAAATCACTTGTTTCAGCTCATACAAGCCAATTTGAGATAAAATAATACT
AATTTATTAAAATTTAAAAAATTAATAAGCAAGAAATTAAAAAGCAAATCAATTTACAGAACAAG
TTAAAATAGTTATGACTATTTAAACAAATATATATTTAAAATAATTATGACCTTTTATTTGATCA
TAAAACAATTGTTTCAGTGCATAAAAGCTTATTCAAAATAAAATAATATTACTTATTAATATTTC
AAAAATTAATAAGTTAGAGATTTAAAAATAAATTAGTTTAGCAAATCAGTTCAAATAATCACAAC
CATTTAAATAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGTTGTAAAATAATACCAATG
ATTTAGAATAATTGGTATTCATACAAAATTATTCA
Found at i:6058 original size:24 final size:24
Alignment explanation
Indices: 6007--6070 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
5997 GATTTTTACT
*
6007 TAATTATTATTATA-T-ATTTATA
1 TAATTAATATTATATTAATTTATA
6029 TAATTAATATTATATTAATTTATA
1 TAATTAATATTATATTAATTTATA
6053 -ATATTAATAATTA-ATTAA
1 TA-ATTAAT-ATTATATTAA
6071 AAACCAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 13 0.35
23 2 0.05
24 18 0.49
25 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATTAATATTATATTAATTTATA
Found at i:6191 original size:18 final size:18
Alignment explanation
Indices: 6160--6228 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
6150 ATAATCTCTA
**
6160 TAATAATTCTTATAATAT
1 TAATAATTAATATAATAT
6178 TAATAATTAATATAAT-T
1 TAATAATTAATATAATAT
* *
6195 TATTCAATTAAACAATAATAT
1 TAAT-AATT-AA-TATAATAT
*
6216 TAATAATTTATAT
1 TAATAATTAATAT
6229 TCTTATTGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
17 4 0.10
18 20 0.50
19 3 0.08
20 9 0.22
21 4 0.10
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATTAATATAATAT
Found at i:6338 original size:18 final size:18
Alignment explanation
Indices: 6303--6339 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6293 ATTAATAAGA
6303 ACAATATATATAATTAAT
1 ACAATATATATAATTAAT
6321 ACAATTATATATAA-TAAT
1 ACAA-TATATATAATTAAT
6339 A
1 A
6340 TTTCATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ACAATATATATAATTAAT
Found at i:7627 original size:25 final size:25
Alignment explanation
Indices: 7588--7636 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
7578 ATATACATTT
7588 AGTTTTACTCTTAG-TTTTCCACAC
1 AGTTTTACTCTTAGTTTTTCCACAC
*
7612 AGTTTTATTTCTTAGTTTTTCCACA
1 AGTTTTA-CTCTTAGTTTTTCCACA
7637 TGGTATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 6 0.27
26 9 0.41
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.51
Consensus pattern (25 bp):
AGTTTTACTCTTAGTTTTTCCACAC
Found at i:8326 original size:20 final size:21
Alignment explanation
Indices: 8265--8328 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 21
8255 ATTATAGTTT
* *
8265 TTAATTTATT-ATATAATAAA
1 TTAATATATTAATATAATATA
8285 TTAATATATTATATAATAATATA
1 TTAATATATTA-AT-ATAATATA
8308 TT-ATATATTAATATAATATA
1 TTAATATATTAATATAATATA
8328 T
1 T
8329 ATTAAAATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 18 0.46
21 2 0.05
22 10 0.26
23 9 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATATATTAATATAATATA
Found at i:8330 original size:15 final size:15
Alignment explanation
Indices: 8271--8333 Score: 78
Period size: 15 Copynumber: 4.4 Consensus size: 15
8261 GTTTTTAATT
8271 TATT-ATATAATA-A
1 TATTAATATAATATA
*
8284 -ATTAATATATTATA
1 TATTAATATAATATA
* *
8298 TAATAATATATTATA
1 TATTAATATAATATA
8313 TATTAATATAATATA
1 TATTAATATAATATA
8328 TATTAA
1 TATTAA
8334 AATAGTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
12 3 0.07
13 7 0.16
14 1 0.02
15 32 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAATATAATATA
Found at i:8433 original size:15 final size:15
Alignment explanation
Indices: 8407--8470 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
8397 ATTATTTTAA
8407 ATATTT-AATTTATT
1 ATATTTAAATTTATT
8421 ATATTTAAATTTATT
1 ATATTTAAATTTATT
* *
8436 TTATATAAATTTAAATT
1 ATATTTAAATTT--ATT
8453 A-ATTTATAA-TTATT
1 ATATTTA-AATTTATT
8467 ATAT
1 ATAT
8471 AATAATTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
14 10 0.24
15 20 0.49
16 6 0.15
17 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTTAAATTTATT
Found at i:8449 original size:21 final size:20
Alignment explanation
Indices: 8409--8457 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
8399 TATTTTAAAT
* *
8409 ATTTAATTTATTATATTTAA
1 ATTTATTTTATTAAATTTAA
8429 ATTTATTTTATATAAATTTAA
1 ATTTATTTTAT-TAAATTTAA
*
8450 ATTAATTT
1 ATTTATTT
8458 ATAATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTATTTTATTAAATTTAA
Found at i:8458 original size:20 final size:21
Alignment explanation
Indices: 8409--8460 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
8399 TATTTTAAAT
*
8409 ATTTAATTTAT-TATATTTAA
1 ATTTAATTTATATAAATTTAA
*
8429 ATTTATTTTATATAAATTTAA
1 ATTTAATTTATATAAATTTAA
8450 A-TTAATTTATA
1 ATTTAATTTATA
8461 ATTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTAATTTATATAAATTTAA
Found at i:8466 original size:31 final size:32
Alignment explanation
Indices: 8418--8479 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
8408 TATTTAATTT
*
8418 ATTATATTTAAATTTATTTTAT-ATAAATTTAA
1 ATTATATTTAAATTTATTATATAAT-AATTTAA
8450 ATTA-ATTTATAA-TTATTATATAATAATTTA
1 ATTATATTTA-AATTTATTATATAATAATTTA
8480 TTACAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
ATTATATTTAAATTTATTATATAATAATTTAA
Found at i:8804 original size:19 final size:19
Alignment explanation
Indices: 8780--8816 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8770 TATTAGCCAA
*
8780 ACCAGTTTAAATAATTATG
1 ACCAGTTCAAATAATTATG
*
8799 ACCAGTTCAAATAGTTAT
1 ACCAGTTCAAATAATTAT
8817 TACTATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (19 bp):
ACCAGTTCAAATAATTATG
Found at i:11665 original size:13 final size:13
Alignment explanation
Indices: 11634--11667 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11624 TAATATAATT
*
11634 AATTAATAATAAT
1 AATTAATAATAAC
*
11647 ATTTAATAATAAC
1 AATTAATAATAAC
11660 AATTAATA
1 AATTAATA
11668 TTAAATTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAATAATAAC
Found at i:11681 original size:26 final size:25
Alignment explanation
Indices: 11652--11700 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
11642 ATAATATTTA
11652 ATAAT-AACAATTAATATTAAATTAGT
1 ATAATCAA-AATTAATA-TAAATTAGT
*
11678 ATAATCAAATTTAATATAAATTA
1 ATAATCAAAATTAATATAAATTA
11701 TCATATGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 12 0.57
27 2 0.10
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
ATAATCAAAATTAATATAAATTAGT
Found at i:12071 original size:21 final size:22
Alignment explanation
Indices: 12041--12093 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
12031 AACTATAAAT
*
12041 TATT-TTATTAGTGTA-ACTAA
1 TATTATTATTAGTGTATAATAA
*
12061 TATTATTATTA-TTTATAATAA
1 TATTATTATTAGTGTATAATAA
12082 TATTA-TATTAGT
1 TATTATTATTAGT
12094 ATATTATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (22 bp):
TATTATTATTAGTGTATAATAA
Found at i:12261 original size:30 final size:31
Alignment explanation
Indices: 12219--12277 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
12209 TATTTATACT
*
12219 TATTAATTATAATT-ATAATTATTATAATCC
1 TATTAATTATAATTGATAATTATAATAATCC
*
12249 TATT-ATTAATAATTGATATTTATAATAAT
1 TATTAATT-ATAATTGATAATTATAATAAT
12278 TTAATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 3 0.12
30 10 0.40
31 12 0.48
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (31 bp):
TATTAATTATAATTGATAATTATAATAATCC
Found at i:12395 original size:12 final size:12
Alignment explanation
Indices: 12378--12402 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12368 TATTTCCTTC
12378 TATTATAATTAT
1 TATTATAATTAT
12390 TATTATAATTAT
1 TATTATAATTAT
12402 T
1 T
12403 GGATTGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATAATTAT
Found at i:12611 original size:19 final size:19
Alignment explanation
Indices: 12584--12624 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
12574 ATAATTGTTG
* *
12584 TTTATAATAGTAAATATTA
1 TTTAAAATAGTAAATAATA
*
12603 TTTAAAATAGTTAATAATA
1 TTTAAAATAGTAAATAATA
12622 TTT
1 TTT
12625 TGAAAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTAAAATAGTAAATAATA
Found at i:12743 original size:3 final size:3
Alignment explanation
Indices: 12737--12802 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
12727 ATTAAATTAA
* * *
12737 ATT ATT ATT ATT AAT ATT ATT ATT ATAT ATT ATT ATA ATT ATT -GT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
*
12782 AAT ATT GATAT ATT ATT ATT A
1 ATT ATT -AT-T ATT ATT ATT A
12803 CCGATAATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
2 1 0.02
3 43 0.83
4 7 0.13
5 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:12769 original size:28 final size:28
Alignment explanation
Indices: 12737--12802 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
12727 ATTAAATTAA
*
12737 ATTATTATTATTAATAT-TATTATT-ATAT
1 ATTATTATTATT-AT-TGTAATATTGATAT
*
12765 ATTATTATAATTATTGTAATATTGATAT
1 ATTATTATTATTATTGTAATATTGATAT
12793 ATTATTATTA
1 ATTATTATTA
12803 CCGATAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 8 0.24
28 24 0.73
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (28 bp):
ATTATTATTATTATTGTAATATTGATAT
Found at i:12885 original size:23 final size:22
Alignment explanation
Indices: 12831--12917 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 22
12821 ATTCATTAAT
* * *
12831 TTTATAGTATAATAATGAAATA
1 TTTATAATATAATAATTATATA
*
12853 -TTATTA-ATAATAATTATATA
1 TTTATAATATAATAATTATATA
*
12873 TTTACTAATATAATAATATTATATG
1 TTTA-TAATATAAT-A-ATTATATA
12898 TTTATAAT-T-ATAATTA-ATA
1 TTTATAATATAATAATTATATA
12917 T
1 T
12918 CATCAATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
19 3 0.06
20 16 0.30
21 8 0.15
22 4 0.08
23 6 0.11
24 5 0.09
25 11 0.21
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.48
Consensus pattern (22 bp):
TTTATAATATAATAATTATATA
Found at i:13108 original size:19 final size:19
Alignment explanation
Indices: 13069--13108 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13059 ATTTTATATT
* *
13069 TTGTATATAAATATTTGAA
1 TTGTATATAAATAATTAAA
*
13088 TTGTATATAATTAATTAAA
1 TTGTATATAAATAATTAAA
13107 TT
1 TT
13109 AATTAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TTGTATATAAATAATTAAA
Found at i:13237 original size:16 final size:18
Alignment explanation
Indices: 13202--13247 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
13192 TCGTAGCAAT
13202 TATTTAATTAAATAACTA
1 TATTTAATTAAATAACTA
*
13220 TATTT-ATT-AATAAGTA
1 TATTTAATTAAATAACTA
13236 TA--TAATTAAATA
1 TATTTAATTAAATA
13248 TATATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 13 0.52
17 3 0.12
18 5 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
TATTTAATTAAATAACTA
Found at i:13254 original size:11 final size:11
Alignment explanation
Indices: 13234--13292 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
13224 TATTAATAAG
13234 TATATAATTAAA
1 TATAT-ATTAAA
13246 TATATATTAAA
1 TATATATTAAA
*
13257 TATTATGAATTAAT
1 TA-TAT--ATTAAA
13271 TATA-ATTAAA
1 TATATATTAAA
*
13281 TATGTATTAAA
1 TATATATTAAA
13292 T
1 T
13293 TAATTATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 8 0.20
11 15 0.38
12 8 0.20
13 2 0.05
14 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATATATTAAA
Found at i:13319 original size:26 final size:26
Alignment explanation
Indices: 13239--13307 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
13229 ATAAGTATAT
* *
13239 AATTAAATATATATTAAATAT-T-ATG
1 AATTAATTATA-ATTAAATATGTAATA
*
13264 AATTAATTATAATTAAATATGTATTA
1 AATTAATTATAATTAAATATGTAATA
13290 AATTAATTATAA-TAAATA
1 AATTAATTATAATTAAATA
13308 ATTTGAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 9 0.23
25 17 0.44
26 13 0.33
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (26 bp):
AATTAATTATAATTAAATATGTAATA
Found at i:13675 original size:25 final size:25
Alignment explanation
Indices: 13628--13675 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
13618 AAATAGAATT
*
13628 TATTTGAAATAATTTAAACATATAA
1 TATTTGAAATAATTTAAAAATATAA
*
13653 TATTTTAAAT-ATTTATAAAATAT
1 TATTTGAAATAATTTA-AAAATAT
13676 CATAGGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
TATTTGAAATAATTTAAAAATATAA
Found at i:15361 original size:177 final size:180
Alignment explanation
Indices: 15058--15469 Score: 431
Period size: 177 Copynumber: 2.3 Consensus size: 180
15048 AAGTAATATG
* * * ** **
15058 TTAATAGATTAGTATTATTTTATTCTAAACAACCTCGTATG-ATAAAAAATAATTGTTATATAAC
1 TTAATAAATTAGTATTATTTTATTCTAAATAAGCTTATATGAAT-TGAAATAATTGTTATATAAC
* * * * * * * *
15122 TAAAGAAAAGGTAATAACAATTTGAAACAGATAATTGTTGAGATGGCCATAATTATTTGAA-TTG
65 AAAACAAAAGGTAATAACAATTTGAAACAGACAATTATTCAAATAGCCATAACTATTTGAATTTG
*
15186 ATTCAGTAAACAAATTCA-CTTTTTAAA-TC-ACTTATAAATTTTTGAAATA
130 -TTCAGTAAACAAATTCATCTTTTTAAACTCTACTTATAAACTTTTGAAATA
* *
15235 TTAATAAATTAGTATTATTTTATTCTAAATAAGCTTATATGAATTGAAATAATTGTTTTATGACA
1 TTAATAAATTAGTATTATTTTATTCTAAATAAGCTTATATGAATTGAAATAATTGTTATATAACA
* * * * * *
15300 AAACAAAAGGTCATAACGATTTTAAATAGACAATTATTCAAATAGTCGTAACTATTTGAATTTGT
66 AAACAAAAGGTAATAACAATTTGAAACAGACAATTATTCAAATAGCCATAACTATTTGAATTTGT
* * * ** *
15365 TTAGTAAACAAATTTATTTTTTTAAACTCTTGTTTATTAACTTTTGAAATA
131 TCAGTAAACAAATTCATCTTTTTAAACTC-TACTTATAAACTTTTGAAATA
* ** * * *
15416 TTAAGAAATTAGTATTATTTTATT-TGGATAAGCTTTTATGAACTGAAACAATTG
1 TTAATAAATTAGTATTATTTTATTCTAAATAAGCTTATATGAATTGAAATAATTG
15470 CGAATGTTAA
Statistics
Matches: 193, Mismatches: 36, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
177 114 0.59
178 13 0.07
179 2 0.01
180 25 0.13
181 39 0.20
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (180 bp):
TTAATAAATTAGTATTATTTTATTCTAAATAAGCTTATATGAATTGAAATAATTGTTATATAACA
AAACAAAAGGTAATAACAATTTGAAACAGACAATTATTCAAATAGCCATAACTATTTGAATTTGT
TCAGTAAACAAATTCATCTTTTTAAACTCTACTTATAAACTTTTGAAATA
Found at i:16751 original size:180 final size:178
Alignment explanation
Indices: 16376--17046 Score: 562
Period size: 181 Copynumber: 3.7 Consensus size: 178
16366 ATCAATAATT
* * * ** ** *
16376 GGTTATAACGATTTAAAATAGATAATT-TTTCAAATAATAATAACTATTTGTACTTGTTCTGTAA
1 GGTTATAATGATTTGAAATAGATAATTATTT--AATAGTCTTAACTATTTG-AAATGTTCAGTAA
* * * **
16440 ATAGATTTATTTTTTTGAAATCTCATT-TTTATTAATATTTTG-AATGTTGCTAAATTAGTATTA
63 ACAGATTTA-TTTTTT-AAATCTC-TTAGTTATTAAT-TTTTGAAATATTATTAAATTAGTATTA
* * * * * *
16503 ATTTATTCTAAATAACCTTTTATGAACTAAAATAATTATTTTATAACCAAATAAAA
124 TTTTATTCCAAATAAACTTGTATGAAC-AAAATAATTATTTTATGACAAAATAAAA
** * * *
16559 TATTAGAATGATTTGAAATAGATAATTATTCTAATAGTCTTAACCATTTGAACTGATTC-GATAA
1 GGTTATAATGATTTGAAATAGATAATTATT-TAATAGTCTTAACTATTTGAAATG-TTCAG-TAA
*
16623 ACAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTATTAAATTAGTATTATTTT
63 ACAGATTTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTATTAAATTAGTATTATTTT
* * * *
16688 AATCCAAATAAGCTTGTACGAACAAAATAATTATTTTATGACAAAAGAAAA
128 ATTCCAAATAAACTTGTATGAACAAAATAATTATTTTATGACAAAATAAAA
* * * * * *
16739 GGTCATAATGATTTGAAATAGATAATCATTTATATAGTTTTAACTATTTGAATTTGTTCAGCAAT
1 GGTTATAATGATTTGAAATAGATAATTATTTA-ATAGTCTTAACTATTTGAA-ATGTTCAGTAAA
* * * * * * * *
16804 TAGATTTATTTTTTAATTTTATTAGTTATTAA-GTTTCAGAATATTATTAAATTAGTTTTAGTTT
64 CAGATTTATTTTTTAAATCTCTTAGTTATTAATTTTTGA-AATATTATTAAATTAGTATTATTTT
* * * * * ** * * *
16868 ATTTCGAATAAAATAGTATAAACAGAACCAATTGTTTGATGATAAAATAAAA
128 ATTCCAAATAAACTTGTATGAACA-AAATAATTATTTTATGACAAAATAAAA
* * ** *
16920 GGTTATAATGATTTGAAATAGATCATT-TTTAAAATAATCAAAACTATTTGAAATGGTTTAGTAA
1 GGTTATAATGATTTGAAATAGATAATTATTT--AATAGTCTTAACTATTTGAAAT-GTTCAGTAA
* * * * * *
16984 GCAGATTTACTTTTTAAATCTCTTACTGATTAATTTTTTAAATATTAATAAATTAGTATTATT
63 ACAGATTTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTATTAAATTAGTATTATT
17047 AATAATATTA
Statistics
Matches: 391, Mismatches: 82, Indels: 32
0.77 0.16 0.06
Matches are distributed among these distances:
179 6 0.02
180 149 0.38
181 169 0.43
182 15 0.04
183 49 0.13
184 2 0.01
185 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.44
Consensus pattern (178 bp):
GGTTATAATGATTTGAAATAGATAATTATTTAATAGTCTTAACTATTTGAAATGTTCAGTAAACA
GATTTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTATTAAATTAGTATTATTTTATT
CCAAATAAACTTGTATGAACAAAATAATTATTTTATGACAAAATAAAA
Found at i:16992 original size:181 final size:180
Alignment explanation
Indices: 16565--17044 Score: 410
Period size: 180 Copynumber: 2.7 Consensus size: 180
16555 AAAATATTAG
* * ** * * * * * *
16565 AATGATTTGAAATAGATAATTATTCT-AATAGTCTTAACCATTTGAACTGATTC-GATAAACAAA
1 AATGATTTGAAATAGATAATCATT-TAAATAATCAAAACTATTTGAAATGGTTCAG-CAAGCAGA
* ** *
16628 TTTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTATTAAATTAGTATTATTTTAATCC
64 TTTATTTTTTAAATCTATTAGTTATTAATTTCAGAAATATTATTAAATTAGTATTAGTTTAATCC
** * * * *
16693 AAATAAGCTTGTACGAACAAAATAATTATTTTATGACAAAAGAAAAGGTCAT
129 AAATAAAATAGTACAAACAAAACAATTATTTGATGACAAAAGAAAAGGTCAT
* * *** * * **
16745 AATGATTTGAAATAGATAATCATTTATATAGTTTTAACTATTTGAATTTGTTCAGCAATTAGATT
1 AATGATTTGAAATAGATAATCATTTAAATAATCAAAACTATTTGAAATGGTTCAGCAAGCAGATT
* * * * * *
16810 TATTTTTTAATTTTATTAGTTATTAAGTTTCAG-AATATTATTAAATTAGTTTTAGTTTATTTCG
66 TATTTTTTAAATCTATTAGTTATTAA-TTTCAGAAATATTATTAAATTAGTATTAGTTTAATCCA
* * * * * *
16874 AATAAAATAGTATAAACAGAACCAATTGTTTGATGATAAAATAAAAGGTTAT
130 AATAAAATAGTACAAACA-AAACAATTATTTGATGACAAAAGAAAAGGTCAT
* * * *
16926 AATGATTTGAAATAGATCAT-TTTTAAAATAATCAAAACTATTTGAAATGGTTTAGTAAGCAGAT
1 AATGATTTGAAATAGATAATCATTT-AAATAATCAAAACTATTTGAAATGGTTCAGCAAGCAGAT
* * * * *** *
16990 TTACTTTTTAAATCTCTTACTGATTAATTTTTTAAATATTAATAAATTAGTATTA
65 TTATTTTTTAAATCTATTAGTTATTAATTTCAGAAATATTATTAAATTAGTATTA
17045 TTAATAATAT
Statistics
Matches: 237, Mismatches: 57, Indels: 11
0.78 0.19 0.04
Matches are distributed among these distances:
179 1 0.00
180 118 0.50
181 118 0.50
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (180 bp):
AATGATTTGAAATAGATAATCATTTAAATAATCAAAACTATTTGAAATGGTTCAGCAAGCAGATT
TATTTTTTAAATCTATTAGTTATTAATTTCAGAAATATTATTAAATTAGTATTAGTTTAATCCAA
ATAAAATAGTACAAACAAAACAATTATTTGATGACAAAAGAAAAGGTCAT
Found at i:17069 original size:26 final size:24
Alignment explanation
Indices: 17024--17077 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 24
17014 TAATTTTTTA
17024 AATATTAATAAATTAGTATTATTAAT
1 AATATTAATAAATTA-TATT-TTAAT
17050 AATATTAATAACGATT-TATTTTAAT
1 AATATTAATAA--ATTATATTTTAAT
17075 AAT
1 AAT
17078 TAATTTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 8 0.31
26 15 0.58
28 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
AATATTAATAAATTATATTTTAAT
Found at i:17158 original size:23 final size:24
Alignment explanation
Indices: 17125--17170 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
17115 ATTTAATATT
17125 TATATTAATTAAT-TCAATAAATA
1 TATATTAATTAATATCAATAAATA
* *
17148 TATATTTATTAATATTAATAAAT
1 TATATTAATTAATATCAATAAAT
17171 TAATGTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TATATTAATTAATATCAATAAATA
Found at i:17233 original size:18 final size:19
Alignment explanation
Indices: 17210--17250 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
17200 AAACAAGTAA
*
17210 TAATTTATA-TATTTAAAT
1 TAATTTATATTAGTTAAAT
17228 TAATTTATATTAGTTAAAT
1 TAATTTATATTAGTTAAAT
17247 TAAT
1 TAAT
17251 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTTATATTAGTTAAAT
Found at i:17621 original size:22 final size:21
Alignment explanation
Indices: 17593--17638 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
17583 AATTAATCTA
17593 TATAATTAATAATTAAAAATAT
1 TATAATTAATAATTAAAAA-AT
* **
17615 TATAATTTATTTTTAAAAAAT
1 TATAATTAATAATTAAAAAAT
17636 TAT
1 TAT
17639 TTTAATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAATTAATAATTAAAAAAT
Found at i:17893 original size:19 final size:18
Alignment explanation
Indices: 17869--17908 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
17859 ATTCAGTTAT
17869 TAATATTTATAA-ATTAATA
1 TAATATTTA-AATATTAA-A
17888 TAATATTTAAATATTAAA
1 TAATATTTAAATATTAAA
17906 TAA
1 TAA
17909 ACTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATATTTAAATATTAAA
Found at i:19062 original size:44 final size:44
Alignment explanation
Indices: 19006--19090 Score: 154
Period size: 44 Copynumber: 1.9 Consensus size: 44
18996 ATATAATACA
19006 TTTTGTATTAAAATATTTTTAATATTAGAATTTGT-ATTAAAATT
1 TTTTGTATTAAAATATTTTTAATATTAGAATTT-TAATTAAAATT
19050 TTTTGTATTAAAATATTTTTAATATTAGAATTTTAATTAAA
1 TTTTGTATTAAAATATTTTTAATATTAGAATTTTAATTAAA
19091 TTTATTAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (44 bp):
TTTTGTATTAAAATATTTTTAATATTAGAATTTTAATTAAAATT
Found at i:19067 original size:29 final size:29
Alignment explanation
Indices: 19007--19063 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
18997 TATAATACAT
*
19007 TTTGTATTAAAATATTTTTAATATTAGAA
1 TTTGTATTAAAATATTTTTAATATTAAAA
*
19036 TTTGTATTAAAAT-TTTTT-GTATTAAAA
1 TTTGTATTAAAATATTTTTAATATTAAAA
19063 T
1 T
19064 ATTTTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 8 0.31
28 5 0.19
29 13 0.50
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (29 bp):
TTTGTATTAAAATATTTTTAATATTAAAA
Found at i:19564 original size:23 final size:23
Alignment explanation
Indices: 19532--19578 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
19522 GTTAAACTAT
*
19532 TATAACATTATTAATATGTAAAA
1 TATAAAATTATTAATATGTAAAA
* *
19555 TATAAAATTATTATTATTTAAAA
1 TATAAAATTATTAATATGTAAAA
19578 T
1 T
19579 CTATTTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TATAAAATTATTAATATGTAAAA
Found at i:19790 original size:13 final size:14
Alignment explanation
Indices: 19772--19835 Score: 69
Period size: 13 Copynumber: 4.6 Consensus size: 14
19762 CCCTTAGATT
19772 TAATATTATT-TTA
1 TAATATTATTATTA
19785 TAATATTATTATTA
1 TAATATTATTATTA
* *
19799 TAATAATAATAATT-
1 TAAT-ATTATTATTA
*
19813 TAATATTATTATAA
1 TAATATTATTATTA
19827 TAATTATTA
1 TAA-TATTA
19836 AATAATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
13 16 0.38
14 14 0.33
15 12 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATATTATTATTA
Found at i:19821 original size:22 final size:22
Alignment explanation
Indices: 19784--19839 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
19774 ATATTATTTT
*
19784 ATAATATTATTATTATAATAATA
1 ATAAT-TTAATATTATAATAATA
*
19807 ATAATTTAATATTATTATAATA
1 ATAATTTAATATTATAATAATA
* *
19829 ATTATTAAATA
1 ATAATTTAATA
19840 ATAATTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 24 0.83
23 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATTTAATATTATAATAATA
Found at i:19841 original size:25 final size:24
Alignment explanation
Indices: 19786--19842 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
19776 ATTATTTTAT
*
19786 AATATTATTATTATAATAATAATA
1 AATAATATTATTATAATAATAATA
* *
19810 ATTTAATATTATTATAATAATTATTA
1 A-ATAATATTATTATAATAA-TAATA
19836 AATAATA
1 AATAATA
19843 ATTTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 21 0.78
26 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AATAATATTATTATAATAATAATA
Found at i:20046 original size:21 final size:22
Alignment explanation
Indices: 20002--20047 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
19992 AAATTGATTA
*
20002 TTAAAATTAAATAAAATAATAT
1 TTAAAATTAAATAAAATAAGAT
*
20024 TTAAAA-TAAATAAAATTAGAT
1 TTAAAATTAAATAAAATAAGAT
20045 TTA
1 TTA
20048 TAACTAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAAATTAAATAAAATAAGAT
Found at i:20380 original size:25 final size:21
Alignment explanation
Indices: 20352--20437 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 21
20342 TAAATTGTAT
20352 AATAAATCTATTTATATATTTAATA
1 AATAAAT-TATTTATA-A-TT-ATA
20377 AATATAATTATTTATAATTATA
1 AATA-AATTATTTATAATTATA
20399 AAT-AATTA--TATAATTAT-
1 AATAAATTATTTATAATTATA
* *
20416 -ATAATTTATTTTATAAATATA
1 AATAAATTA-TTTATAATTATA
20437 A
1 A
20438 GTATAATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
16 2 0.04
17 4 0.08
18 9 0.17
20 13 0.25
22 6 0.12
23 2 0.04
24 1 0.02
25 12 0.23
26 3 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAAATTATTTATAATTATA
Found at i:20398 original size:16 final size:16
Alignment explanation
Indices: 20368--20463 Score: 63
Period size: 16 Copynumber: 5.8 Consensus size: 16
20358 TCTATTTATA
*
20368 TATTTAATAAATATAAT
1 TATTT-ATAATTATAAT
20385 TATTTATAATTATAAAT
1 TATTTATAATTAT-AAT
*
20402 AATTATATAATTAT-AT
1 TATT-TATAATTATAAT
* *
20418 AATTTAT-TTTATAAAT
1 TATTTATAATTAT-AAT
**
20434 ATAAGTATAATATATAA-
1 -TATTTATAAT-TATAAT
20451 TATTTATAATTAT
1 TATTTATAATTAT
20464 TTACTAATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
14 4 0.06
15 6 0.10
16 23 0.37
17 15 0.24
18 12 0.19
19 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (16 bp):
TATTTATAATTATAAT
Found at i:20405 original size:20 final size:20
Alignment explanation
Indices: 20380--20481 Score: 72
Period size: 20 Copynumber: 5.2 Consensus size: 20
20370 TTTAATAAAT
20380 ATAATTATTTATAATTATAA
1 ATAATTATTTATAATTATAA
20400 ATAATTA--TATAATTAT--
1 ATAATTATTTATAATTATAA
*
20416 ATAATTTATTTTATAAATATAA
1 ATAA-TTA-TTTATAATTATAA
* * * **
20438 GT-ATAATATATAA-TATTT
1 ATAATTATTTATAATTATAA
*
20456 ATAATTATTTACTAATTATTA
1 ATAATTATTTA-TAATTATAA
20477 ATAAT
1 ATAAT
20482 AATAATATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
16 4 0.06
17 3 0.05
18 13 0.21
19 12 0.19
20 20 0.32
21 10 0.16
22 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
ATAATTATTTATAATTATAA
Found at i:20471 original size:11 final size:10
Alignment explanation
Indices: 20379--20481 Score: 60
Period size: 10 Copynumber: 10.6 Consensus size: 10
20369 ATTTAATAAA
20379 TATAATTATT
1 TATAATTATT
*
20389 TATAATTATA
1 TATAATTATT
*
20399 AATAATTA--
1 TATAATTATT
20407 TATAATTA--
1 TATAATTATT
20415 TATAATTTATTT
1 TATAA-TTA-TT
**
20427 TATAAATATAAG
1 TAT-AAT-TATT
20439 TATAA-TA--
1 TATAATTATT
20446 TATAA-TATT
1 TATAATTATT
20455 TATAATTATT
1 TATAATTATT
20465 TACTAATTATT
1 TA-TAATTATT
*
20476 AATAAT
1 TATAAT
20482 AATAATATAA
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
7 7 0.09
8 12 0.16
9 10 0.13
10 26 0.34
11 11 0.14
12 7 0.09
13 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (10 bp):
TATAATTATT
Found at i:20497 original size:36 final size:35
Alignment explanation
Indices: 20380--20497 Score: 114
Period size: 39 Copynumber: 3.2 Consensus size: 35
20370 TTTAATAAAT
20380 ATAATTATTTATAATTATAAATAATTATATAAT-TA
1 ATAATTATTTATAATTATAAATAA-TATATAATATA
* *
20415 TATAATTTATTTTATAAATATAAGTATAATATATAATATTT
1 -ATAA-TTA-TTTATAATTATAA--ATAATATATAATA-TA
*
20456 ATAATTATTTACTAATTATTAATAATA-ATAATATA
1 ATAATTATTTA-TAATTATAAATAATATATAATATA
20491 ACTAATT
1 A-TAATT
20498 GAAATTATAT
Statistics
Matches: 69, Mismatches: 5, Indels: 16
0.77 0.06 0.18
Matches are distributed among these distances:
35 2 0.03
36 15 0.22
37 9 0.13
38 16 0.23
39 18 0.26
40 8 0.12
41 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (35 bp):
ATAATTATTTATAATTATAAATAATATATAATATA
Found at i:20531 original size:77 final size:76
Alignment explanation
Indices: 20379--20534 Score: 183
Period size: 77 Copynumber: 2.0 Consensus size: 76
20369 ATTTAATAAA
* **
20379 TATAATTATTTATAATTATAAATAATTATATAATTATATAATTTATTTTATAAATATAAGTATAA
1 TATAATTATTTATAATTATAAATAATTATATAATTATATAATTGAAATTATAAATATAAGTATAA
20444 TATATAATATT
66 TATATAATATT
* * * *
20455 TATAATTATTTACTAATTATTAATAA-TA-ATAA-TATAACTAATTGAAATTATATTATTTAATT
1 TATAATTATTTA-TAATTATAAATAATTATATAATTAT-A-TAATTGAAATTATA-AATATAAGT
*
20517 ATAATATATTATATT
62 ATAATATATAATATT
20532 TAT
1 TAT
20535 TAATATACAA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
74 3 0.04
75 5 0.07
76 25 0.37
77 35 0.51
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (76 bp):
TATAATTATTTATAATTATAAATAATTATATAATTATATAATTGAAATTATAAATATAAGTATAA
TATATAATATT
Found at i:20884 original size:17 final size:17
Alignment explanation
Indices: 20864--20913 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
20854 AATAATATTA
20864 ATTATAATATTATAAGT
1 ATTATAATATTATAAGT
*
20881 ATTATAATATTTTATAATT
1 ATTATAATA--TTATAAGT
*
20900 AAT-TAATATTATAA
1 ATTATAATATTATAA
20914 AATTAATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 9 0.31
18 5 0.17
19 9 0.31
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATTATAATATTATAAGT
Found at i:20908 original size:18 final size:18
Alignment explanation
Indices: 20868--20920 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
20858 ATATTAATTA
*
20868 TAATATTATAAGTATT-A-
1 TAATATTATAA-AATTAAT
* *
20885 TAATATTTTATAATTAAT
1 TAATATTATAAAATTAAT
20903 TAATATTATAAAATTAAT
1 TAATATTATAAAATTAAT
20921 GATAAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 3 0.10
17 10 0.34
18 16 0.55
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TAATATTATAAAATTAAT
Found at i:21056 original size:27 final size:27
Alignment explanation
Indices: 20992--21074 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
20982 TTTCAACAAT
*
20992 TATTA-ATTAATCAAATAGTAAAATAA
1 TATTATATTATTCAAATAGTAAAATAA
21018 TATTATATTATTCAAATA-TATAAATATA
1 TATTATATTATTCAAATAGTA-AAATA-A
* *
21046 TATTATA-TATT--ATTTGTAAAATAA
1 TATTATATTATTCAAATAGTAAAATAA
21070 TATTA
1 TATTA
21075 AATATTTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
24 6 0.12
25 7 0.14
26 9 0.18
27 20 0.40
28 8 0.16
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TATTATATTATTCAAATAGTAAAATAA
Found at i:22439 original size:23 final size:23
Alignment explanation
Indices: 22413--22483 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 23
22403 TACATATAAA
22413 ATTATTTTTATTAAGATAAATAT
1 ATTATTTTTATTAAGATAAATAT
*
22436 ATTA----TAATAAG-TATAATACT
1 ATTATTTTTATTAAGATA-AATA-T
*
22456 ATTATTTTTATGAAGATAAATAT
1 ATTATTTTTATTAAGATAAATAT
22479 ATTAT
1 ATTAT
22484 AATTATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
18 2 0.05
19 10 0.26
20 5 0.13
23 10 0.26
24 9 0.24
25 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (23 bp):
ATTATTTTTATTAAGATAAATAT
Found at i:22451 original size:40 final size:42
Alignment explanation
Indices: 22398--22486 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 42
22388 TCAATATTTA
*
22398 TATAATACATATAA-A-ATTATTTTTATTAAGATAAATATAT
1 TATAATACATATAATACATTATTTTTATGAAGATAAATATAT
22438 TATAATA-AGTATAATACTATTATTTTTATGAAGATAAATATAT
1 TATAATACA-TATAATAC-ATTATTTTTATGAAGATAAATATAT
22481 TATAAT
1 TATAAT
22487 TATAATATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
39 1 0.02
40 12 0.27
41 1 0.02
43 30 0.68
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.45
Consensus pattern (42 bp):
TATAATACATATAATACATTATTTTTATGAAGATAAATATAT
Found at i:22489 original size:23 final size:21
Alignment explanation
Indices: 22424--22491 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 21
22414 TTATTTTTAT
22424 TAAGATAAATATATTATA--A
1 TAAGATAAATATATTATATTA
*
22443 TAAG-TATAATACTATTATTTTTA
1 TAAGATA-AATA-TATTA-TATTA
22466 TGAAGATAAATATATTATAATTA
1 T-AAGATAAATATATTAT-ATTA
22489 TAA
1 TAA
22492 TATTAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
18 2 0.05
19 8 0.21
20 5 0.13
21 1 0.03
22 3 0.08
23 11 0.28
24 7 0.18
25 2 0.05
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (21 bp):
TAAGATAAATATATTATATTA
Found at i:23590 original size:19 final size:20
Alignment explanation
Indices: 23543--23590 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
23533 ATTAATAAAA
*
23543 ATTTATAATAAATTTATAATT
1 ATTTA-AATAAATATATAATT
*
23564 ATAT-AATAAATAT-TAATT
1 ATTTAAATAAATATATAATT
23582 ATTTAAATA
1 ATTTAAATA
23591 TTAAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.35
19 12 0.52
21 3 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTAAATAAATATATAATT
Found at i:23961 original size:17 final size:18
Alignment explanation
Indices: 23941--23984 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
23931 TTAATTTAGT
23941 ATATTAATTAA-ATAAAA
1 ATATTAATTAATATAAAA
* *
23958 ATATTTATTAATATAATA
1 ATATTAATTAATATAAAA
23976 A-ATTAATTA
1 ATATTAATTA
23985 TTAGTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTAATTAATATAAAA
Found at i:24437 original size:26 final size:29
Alignment explanation
Indices: 24386--24450 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 29
24376 ATATTCATTA
*
24386 ATTAATAATTAATTAAATAATGAATATTTT
1 ATTAATAATTAATTAAATAA-GAATATTTC
24416 ATTAATAATT-ATTAAAT-A-AATATTTC
1 ATTAATAATTAATTAAATAAGAATATTTC
*
24442 ATTATTAAT
1 ATTAATAAT
24451 ATTTCTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 15 0.45
28 1 0.03
29 7 0.21
30 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATTAATAATTAATTAAATAAGAATATTTC
Found at i:24571 original size:21 final size:21
Alignment explanation
Indices: 24512--24574 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
24502 TAATATGAAA
* *
24512 TATT-ATTATTTAATATTATTT
1 TATTAATTATTTAAAATTA-AT
**
24533 TATTAATTA-AAAATAATTAAT
1 TATTAATTATTTAA-AATTAAT
24554 TATTAATTATTTAAAATTAAT
1 TATTAATTATTTAAAATTAAT
24575 ATTTTAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTAATTATTTAAAATTAAT
Found at i:24597 original size:19 final size:20
Alignment explanation
Indices: 24573--24625 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
24563 TTTAAAATTA
*
24573 ATATTTTAATATTATTATT-
1 ATATTTTAATATTAGTATTG
*
24592 ATATTTTAATAATAGTATTG
1 ATATTTTAATATTAGTATTG
24612 A-ATTATTAATATTA
1 ATATT-TTAATATTA
24626 ATAATAATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 20 0.69
20 9 0.31
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
ATATTTTAATATTAGTATTG
Found at i:24956 original size:23 final size:25
Alignment explanation
Indices: 24908--24957 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
24898 TTAATTAAAA
*
24908 TATAAATATTTAATTAAATTATTAT
1 TATAAATACTTAATTAAATTATTAT
*
24933 TATAAATACTT-A-TAATTTATTAT
1 TATAAATACTTAATTAAATTATTAT
24956 TA
1 TA
24958 ATTATCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 1 0.04
25 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATAAATACTTAATTAAATTATTAT
Found at i:25872 original size:11 final size:12
Alignment explanation
Indices: 25851--25912 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 12
25841 TATATATGTT
*
25851 TATATTAAATTA
1 TATAATAAATTA
25863 TA-AATAAATTA
1 TATAATAAATTA
25874 TATAAT-AATTA
1 TATAATAAATTA
*
25885 CT-TAAT-ATTTA
1 -TATAATAAATTA
*
25896 TATAATATA-TA
1 TATAATAAATTA
25907 TATAAT
1 TATAAT
25913 TATTTTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
10 1 0.02
11 35 0.83
12 6 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TATAATAAATTA
Found at i:25912 original size:22 final size:22
Alignment explanation
Indices: 25871--25917 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
25861 TATAAATAAA
25871 TTATATAATAATTACTTAA-TAT
1 TTATATAATAATTAC-TAATTAT
25893 TTATATAATATATATA-TAATTAT
1 TTATATAATA-AT-TACTAATTAT
25916 TT
1 TT
25918 TTATTAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 13 0.59
23 7 0.32
24 2 0.09
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TTATATAATAATTACTAATTAT
Found at i:26297 original size:10 final size:10
Alignment explanation
Indices: 26261--26338 Score: 63
Period size: 10 Copynumber: 7.9 Consensus size: 10
26251 TATATTGACT
*
26261 ATTAGTTATA
1 ATTAATTATA
* *
26271 ATTAATATTTT
1 ATTAAT-TATA
26282 ATTAATTATA
1 ATTAATTATA
26292 ATTAATTATA
1 ATTAATTATA
26302 ATTAGA-TATA
1 ATTA-ATTATA
*
26312 ATTGATTA-A
1 ATTAATTATA
*
26321 A-TAAATATA
1 ATTAATTATA
*
26330 ATTTATTAT
1 ATTAATTAT
26339 TTTACTAATT
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
8 4 0.08
9 5 0.09
10 35 0.66
11 9 0.17
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (10 bp):
ATTAATTATA
Found at i:27326 original size:177 final size:178
Alignment explanation
Indices: 27136--27470 Score: 396
Period size: 180 Copynumber: 1.9 Consensus size: 178
27126 TGATAAACAA
* *
27136 ATTCATTTTTTAAATC-T-CTTATTAATTTTTAAAGTATTAATAAAATA-TAATTATATT-ATT-
1 ATTCATTTTTTAAATCTTACTTATTAA-TTTCAAAATATTAATAAAATAGT-ATTAT-TTGATTC
* * * *
27196 TCAAATAAGCTAGTATAG-ACAGAAACAATTGTTTTGTGATGAA-ACAAAAGGTCATAATGATTT
63 T-AAATAAGATAGTA-AGAACAGAAACAATTATTTTATGA-CAATACAAAAGGTCATAATGATTT
27259 GAAATAAATAATTATTCAAACAGTTATAACTATTTGCACTGGTCAAGCCAATTG
125 GAAATAAATAATTATTCAAACAGTTATAACTATTTGCACTGGTCAAGCCAATTG
* * *
27313 ATTCATTTTTTAAATCTATTACTTATTAATTTCAAAATGTTGATAAATTAGTATTATTTGATTCT
1 ATTCATTTTTTAAATC--TTACTTATTAATTTCAAAATATTAATAAAATAGTATTATTTGATTCT
* * * * * *
27378 GAATAAGATTGTACGAACGGAAATAATTATTTTATGACAATACAAATGGTCATAATGATTTGAAA
64 AAATAAGATAGTAAGAACAGAAACAATTATTTTATGACAATACAAAAGGTCATAATGATTTGAAA
* *
27443 TAAATAATTGTTCAAATAGTTATAACTA
129 TAAATAATTATTCAAACAGTTATAACTA
27471 ATTGAACTAG
Statistics
Matches: 132, Mismatches: 17, Indels: 15
0.80 0.10 0.09
Matches are distributed among these distances:
177 16 0.12
179 5 0.04
180 101 0.77
181 10 0.08
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (178 bp):
ATTCATTTTTTAAATCTTACTTATTAATTTCAAAATATTAATAAAATAGTATTATTTGATTCTAA
ATAAGATAGTAAGAACAGAAACAATTATTTTATGACAATACAAAAGGTCATAATGATTTGAAATA
AATAATTATTCAAACAGTTATAACTATTTGCACTGGTCAAGCCAATTG
Found at i:27641 original size:11 final size:11
Alignment explanation
Indices: 27627--27664 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
27617 TAATAGTCAT
27627 ATATTTAATTA
1 ATATTTAATTA
27638 ATATTTAATT-
1 ATATTTAATTA
27648 AT-TTTAATTA
1 ATATTTAATTA
27658 A-ATTTAA
1 ATATTTAA
27665 AAATTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.28
10 8 0.32
11 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATTTAATTA
Found at i:30669 original size:180 final size:179
Alignment explanation
Indices: 30323--30989 Score: 563
Period size: 180 Copynumber: 3.7 Consensus size: 179
30313 TTGAATCATT
* * * * * * * * * *
30323 AACAAAAAGTCATAATGTTTTAAAATAGATCATTATTTAGATAGTTATAACTATTTGAACAC-GG
1 AACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATTGTCATAACTATTT-AA-ACTTG
* * * * * * * * * *
30387 TT-GGCAAACAGATTCATTTTTTAATTC-CCTTACTCATTAATTTTCATAATATTAATAAAATAG
64 TTCGGTAAACAAATTTATTTTTTAAATCTTC-TACTTATTAATTGTCA-AAAATTAATAAATTAA
* * * * *
30450 TATTA-TTTATTTC-AAATAAGCTTATTTGAACTAAAACAATTGTTTTATTACAA
127 TATTATTTTA-ATCAAAATAACCTTATATAAAC-AAAACAATTGTTTTATGACAA
* ** ** *
30503 AACAAAAGGACATAATGATTTGAAATAGTTAATTATTCAAATTGTCATGGCTATTTCAACTTGTT
1 AACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATTGTCATAACTATTTAAACTTGTT
* *
30568 CGGTAAACATATTTATTTTTTAAATCTTCTACTTATTAATTGTCAAAAATTAATAAATTAATTTT
66 CGGTAAACAAATTTATTTTTTAAATCTTCTACTTATTAATTGTCAAAAATTAATAAATTAATATT
** *
30633 ATTTTAATCTGAATAACCTTATATAAACAGAAACAATTGTTTTATGGCAA
131 ATTTTAATCAAAATAACCTTATATAAACA-AAACAATTGTTTTATGACAA
* ** ** * * * *
30683 AACAAAAAGTCATAACAATTTGAAATAAATAATTATTCAAAGAGTTATAACGATTTGAACTTATT
1 AACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATTGTCATAACTATTTAAACTTGTT
* * * * * *
30748 CGATAAATAAATTTATTTTTTAAATCTTTTACTTATTAATTGTCTTAATATTAATAAATTTATAT
66 CGGTAAACAAATTTATTTTTTAAATCTTCTACTTATTAATTGTC-AAAAATTAATAAATTAATAT
* * * * * * *
30813 TATTTTATTCAAAATAAGCTTGTATGAACAAAAAAATTTATTTTATGATAA
130 TATTTTAATCAAAATAACCTTATATAAACAAAACAA-TTGTTTTATGACAA
* * * * * *
30864 AACAAAAGGTTATACTGATTTCAAATAAATAATTGTTCAAATTGTCATAATTATTTAAACTTGTC
1 AACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATTGTCATAACTATTTAAACTTGTT
* * * * *
30929 CGGTAAACAAATTCATTTTTTTAAATC-TCTTAATCATTAATTTTCAAAATATTGATAAATT
66 CGGTAAACAAATTTA-TTTTTTAAATCTTC-TACTTATTAATTGTCAAAA-ATTAATAAATT
30990 GGTATTAAAA
Statistics
Matches: 387, Mismatches: 89, Indels: 20
0.78 0.18 0.04
Matches are distributed among these distances:
178 2 0.01
179 24 0.06
180 211 0.55
181 117 0.30
182 33 0.09
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
AACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATTGTCATAACTATTTAAACTTGTT
CGGTAAACAAATTTATTTTTTAAATCTTCTACTTATTAATTGTCAAAAATTAATAAATTAATATT
ATTTTAATCAAAATAACCTTATATAAACAAAACAATTGTTTTATGACAA
Found at i:31221 original size:29 final size:28
Alignment explanation
Indices: 31170--31226 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
31160 AATATTGATA
31170 TAATTTATTAAAATTATATATAATATATT
1 TAATTTATTAAAATTATATATAAT-TATT
31199 TAATTTATTAAAATTAT-TGATAATTATT
1 TAATTTATTAAAATTATAT-ATAATTATT
31227 GTTAAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TAATTTATTAAAATTATATATAATTATT
Found at i:31325 original size:15 final size:15
Alignment explanation
Indices: 31296--31340 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
31286 AATATCAATG
31296 AAAATATTAAATTAAT
1 AAAATATT-AATTAAT
31312 AAAATATTAATTAAT
1 AAAATATTAATTAAT
*
31327 AATATTATTAATTA
1 AA-AATATTAATTA
31341 TCTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATATTAATTAAT
Found at i:31770 original size:25 final size:24
Alignment explanation
Indices: 31734--31787 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
31724 TATATTCTAG
31734 TATTAAATATAACTAGTAAAAATA
1 TATTAAATATAACTAGTAAAAATA
* * *
31758 TATTTAATAATAATTATTAAAAATA
1 TATTAAAT-ATAACTAGTAAAAATA
31783 T-TTAA
1 TATTAA
31788 CTAAATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TATTAAATATAACTAGTAAAAATA
Found at i:31995 original size:23 final size:24
Alignment explanation
Indices: 31944--31995 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
31934 TTAGAAGTAA
*
31944 CAAATAACTAATATTTGTACATTT
1 CAAATAACTAATATTTGTAAATTT
31968 C-AATAACTAATA-TT-TAAATGTT
1 CAAATAACTAATATTTGTAAAT-TT
31990 CAAATA
1 CAAATA
31996 GTCATAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.16
22 5 0.20
23 15 0.60
24 1 0.04
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (24 bp):
CAAATAACTAATATTTGTAAATTT
Found at i:32191 original size:27 final size:27
Alignment explanation
Indices: 32161--32215 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
32151 GATATTAGTT
32161 TAATAATAA-AATAATTATTGTTATTAA
1 TAATAATAACAATAATT-TTGTTATTAA
* *
32188 TAATTATAACAATACTTTTGTTATTAA
1 TAATAATAACAATAATTTTGTTATTAA
32215 T
1 T
32216 TAATTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (27 bp):
TAATAATAACAATAATTTTGTTATTAA
Found at i:32230 original size:13 final size:14
Alignment explanation
Indices: 32212--32251 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
32202 CTTTTGTTAT
32212 TAATTAATT-ATTA
1 TAATTAATTAATTA
32225 TAATT-ATTAATTA
1 TAATTAATTAATTA
32238 -AATTAATTAATTA
1 TAATTAATTAATTA
32251 T
1 T
32252 TTTCAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTAATTAATTA
Found at i:32231 original size:20 final size:20
Alignment explanation
Indices: 32208--32252 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
32198 AATACTTTTG
*
32208 TTATTAATT-AATTATTATAA
1 TTATTAATTAAATTAAT-TAA
32228 TTATTAATTAAATTAATTAA
1 TTATTAATTAAATTAATTAA
32248 TTATT
1 TTATT
32253 TTCAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTAATTAAATTAATTAA
Found at i:32386 original size:18 final size:18
Alignment explanation
Indices: 32350--32406 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
32340 CATAATAATT
* *
32350 TAATTTTACTAATATTAA
1 TAATTTTACTATTAATAA
*
32368 TAATTTTAGTATTAATAA
1 TAATTTTACTATTAATAA
* *
32386 TAAAATTTATTATTAATAA
1 T-AATTTTACTATTAATAA
32405 TA
1 TA
32407 TTTATAAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TAATTTTACTATTAATAA
Found at i:32402 original size:16 final size:16
Alignment explanation
Indices: 32377--32425 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
32367 ATAATTTTAG
32377 TATTAATAATAAAATT
1 TATTAATAATAAAATT
* *
32393 TATTATTAATAATATT
1 TATTAATAATAAAATT
* *
32409 TATAAGATAGTAAAATT
1 TATTA-ATAATAAAATT
32426 AATATTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (16 bp):
TATTAATAATAAAATT
Found at i:33551 original size:181 final size:181
Alignment explanation
Indices: 32477--33553 Score: 738
Period size: 181 Copynumber: 6.0 Consensus size: 181
32467 TTTTAATTAT
* * *
32477 TAATACTAATTTATTAATCTTTCAAAAATTAATAAG--AG--ATTT-AAAAATAAATATGTTTAC
1 TAATACTAA-TTATTAATATTTTAAAAATTAATAAGTAAGAAATTTAAAAAATAAATCTGTTTAC
** * * * * * * ** *
32537 AAAACCAA-TTCAAATAGTTATAACTATTAGAGCAATTGTATACTTCAAATTGTTATAACTTTTT
65 TGAA-CAAGTTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATCATTATAACCTTTT
* * *
32601 GTTTTGTCATAAAATAATTATTTCTGTTCAAACAAGCTTATTT-GAAATAAAA
129 GTTTTGTCATAAAATAATTATTTCTATTCATACAAGCTTTTTTCGAAATAAAA
* * * * * * *
32653 TAAAACTAATCTAATAATAGTCTAAAAATTAATAACTAAGAGATTTAAAAAATAAAAT-TGTTTG
1 TAATACTAAT-TATTAATATTTTAAAAATTAATAAGTAAGAAATTTAAAAAAT-AAATCTGTTTA
* * * * *
32717 CTGAACTAGTTCAAATAGTTAAAACTATATGAATAATTATCTATTTCAAATCATTATAACCTTTT
64 CTGAACAAGTTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATCATTATAACCTTTT
* * * * * * * *
32782 ATTTTATCATGAAACAA-TATTTTCAATTCATACTAGCTTATTTAG-AATAAAA
129 GTTTTGTCATAAAATAATTA-TTTCTATTCATACAAGCTTTTTTCGAAATAAAA
* * * * *
32834 TAA-AATAAATTTATTAAAATTTAAAAAATTAATAAGTAAGAGAA-TTAAAAAATAATTTTGTTT
1 TAATACT-AA-TTATTAATATTTTAAAAATTAATAAGTAAGA-AATTTAAAAAATAAATCTGTTT
* * ** *
32897 ACCT-AACCAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTT
63 A-CTGAACAAGTTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATCATTATAACCTT
* * * * * *
32961 TTGTTTTGTTATAAAACT-ATTATTTTTGTTCATATAAG-TTTGTTCGAAATAACA
127 TTGTTTTGTCATAAAA-TAATTATTTCTATTCATACAAGCTTTTTTCGAAATAAAA
* * *
33015 TAATACTAATCTATTAATATTTCAAGAATTAAT-A--AA-AAATTAAAAAAATAAATCTGTTTA-
1 TAATACTAAT-TATTAATATTTTAAAAATTAATAAGTAAGAAATTTAAAAAATAAATCTGTTTAC
* * * * * *
33075 TCAA-ATTGGTTC--A-AATTA-AGACTATTT-AAGCAATTATTTATGTCAAATCATTATGACTT
65 TGAACA--AGTTCAAATAATTATA-ACTATTTGAA-CAATTATCTATTTCAAATCATTATAACCT
* * * * * * * *
33134 TTTGTTCTGTTATAAGATAA-TAGTTTCTATTTATTCAAGC-TTATTCGGACTAAAA
126 TTTGTTTTGTCATAAAATAATTA-TTTCTATTCATACAAGCTTTTTTCGAAATAAAA
* * * * * * * *
33189 TAATACAAATTTACTAATATTTTGACAATTTATAAGTAAAAAATGTAAAAAATTAAATATGTTTA
1 TAATACTAA-TTATTAATATTTTAAAAATTAATAAGTAAGAAATTTAAAAAA-TAAATCTGTTTA
* * * *** * * * * * *
33254 CTGAACTAGATCAAACAGCCATGATTATTTGAATAGTTATCTATTTCAAATCGTTATGACCTTTT
64 CTGAACAAGTTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATCATTATAACCTTTT
* * * * * * * *
33319 CTTCTATCATAAAAAAATTATTTCAATTCATATAAAC-TTATTCGAAATAAAA
129 GTTTTGTCATAAAATAATTATTTCTATTCATACAAGCTTTTTTCGAAATAAAA
* * * * *
33371 TAATATTAAGTTATTAATATTTTGAAAATTAATAATTAAGAAATTTAAAAAATGAATCTGTTTAT
1 TAATACTAA-TTATTAATATTTTAAAAATTAATAAGTAAGAAATTTAAAAAATAAATCTGTTTAC
* * * ** *
33436 TGAACAAGTTTAAATAATTATAATTATTTGAACAATTATTTATTGGAAATCACTATAACCTTTTG
65 TGAACAAGTTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATCATTATAACCTTTTG
* * * * * *
33501 CTTTGTCATAAAATGATTTTTTTTGTTCATACAAGCTTTTTTTG-AATAAAA
130 TTTTGTCATAAAATAATTATTTCTATTCATACAAGCTTTTTTCGAAATAAAA
33552 TA
1 TA
33554 GATTAGTTAT
Statistics
Matches: 690, Mismatches: 167, Indels: 83
0.73 0.18 0.09
Matches are distributed among these distances:
173 5 0.01
174 99 0.14
175 5 0.01
176 31 0.04
177 24 0.03
178 14 0.02
179 14 0.02
180 23 0.03
181 339 0.49
182 132 0.19
183 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (181 bp):
TAATACTAATTATTAATATTTTAAAAATTAATAAGTAAGAAATTTAAAAAATAAATCTGTTTACT
GAACAAGTTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATCATTATAACCTTTTGT
TTTGTCATAAAATAATTATTTCTATTCATACAAGCTTTTTTCGAAATAAAA
Found at i:33698 original size:16 final size:16
Alignment explanation
Indices: 33677--33711 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33667 TACTATTGTT
* *
33677 TAAATTATTATTAATA
1 TAAATTATAACTAATA
33693 TAAATTATAACTAATA
1 TAAATTATAACTAATA
33709 TAA
1 TAA
33712 TAATTTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATTATAACTAATA
Found at i:33860 original size:9 final size:8
Alignment explanation
Indices: 33841--33916 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 8
33831 TATGTTAGTA
33841 ATAAT-TT
1 ATAATATT
33848 ATAATTATT
1 ATAA-TATT
33857 ATAATATT
1 ATAATATT
*
33865 ATTAT-TT
1 ATAATATT
33872 A-AAT-TT
1 ATAATATT
*
33878 ATACTA-T
1 ATAATATT
*
33885 ATAAAATT
1 ATAATATT
33893 AT--TATT
1 ATAATATT
33899 ATAATATT
1 ATAATATT
*
33907 TTAA-ATT
1 ATAATATT
33914 ATA
1 ATA
33917 TTATAAACCT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
6 10 0.19
7 19 0.35
8 19 0.35
9 6 0.11
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (8 bp):
ATAATATT
Found at i:33900 original size:21 final size:20
Alignment explanation
Indices: 33876--33922 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
33866 TTATTTAAAT
*
33876 TTATACTATATAAAATTATTA
1 TTATAATATATAAAATTA-TA
* *
33897 TTATAATATTTTAAATTATA
1 TTATAATATATAAAATTATA
33917 TTATAA
1 TTATAA
33923 ACCTTTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATAATATATAAAATTATA
Found at i:34031 original size:27 final size:27
Alignment explanation
Indices: 34000--34055 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
33990 ACATATTTAA
34000 TTAATATTAAAT-TTATGAA-TATTGATT
1 TTAAT-TTAAATATT-TGAATTATTGATT
*
34027 TTAATTTAAATATTTTAATTATTGATT
1 TTAATTTAAATATTTGAATTATTGATT
34054 TT
1 TT
34056 TATTAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
TTAATTTAAATATTTGAATTATTGATT
Found at i:35127 original size:181 final size:175
Alignment explanation
Indices: 34549--35162 Score: 571
Period size: 181 Copynumber: 3.4 Consensus size: 175
34539 AACTATACAT
* * * *
34549 TTGTTCAAATAGTCATAACTATTTAAA-TGGGTTCGATAAATAAAATTATTTTTTAAATTTCTTA
1 TTGTTCAAATAGTCATAACTATTTAAACTTGATTCGGTAAA-CAAATTATTTTTTAAA--TCTTA
* * *
34613 CTTATTAACTTTTGAAAGATTAATAAATTAATATTATTTTATTCTG--AAGCTTGTATGATAAAT
63 CTTATTAA-TTTTGAAATATTAATAAATTAATATTATTTT-TTTTGATAAGCTTTTATG--AAAT
* * * * *
34676 -AAACAATTGTTATATGACCAAACAAAAGGTAATATTGATTTCAAATAGATAA
124 GAAACAATTGTT-TTTGACAAAACAAAAGGTCATAATGATTTTAAATAGATAA
* * * * * * * * *
34728 TTGTTGAAATAGCCCTAATTATTTGAAC-TAATTCGGTAAATAGAATCATTTTTTAAA--TAACT
1 TTGTTCAAATAGTCATAACTATTTAAACTTGATTCGGTAAACA-AATTATTTTTTAAATCTTACT
* * * * * *
34790 TATTAATTTTTGGAATATTAATAAATTACTATTATTTTATTTCGAATAAGCTTTCATGAACTGGA
65 TATTAA-TTTTGAAATATTAATAAATTAATATTATTTT-TTTTG-ATAAGCTTTTATGAAATGAA
* *
34855 ACAATTGTTTTATGACAAAACAAGAGGTCATAATGACTTTAAATAGATAA
127 ACAATTGTTTT-TGACAAAACAAAAGGTCATAATGATTTTAAATAGATAA
* * * *
34905 TTATTCAAATAGTCATAACTATTTGAATTTG-TTCAGTAAACAAATTAATTTTTTTAAACTCTTA
1 TTGTTCAAATAGTCATAACTATTTAAACTTGATTCGGTAAACAAATT-A-TTTTTTAAA-TCTTA
* * *
34969 CTTATTAATATTTGAAATATTAATAATTTAGTATTATTTTGTTTTAGATAAGCTTTTATGAATTG
63 CTTATTAAT-TTTGAAATATTAATAAATTAATATTATTTT-TTTT-GATAAGCTTTTATGAAATG
* * *
35034 AAACAATTGCTTTTTGTCAAAACAAAAGGTCTTAATGATTTTAAATAAATAA
125 AAACAATTG-TTTTTGACAAAACAAAAGGTCATAATGATTTTAAATAGATAA
* *
35086 TTGTTCAAATAGTCATAACTATTTAAACTTGATT-GGTAAACAGATTTATTTTTTCATATCTTTT
1 TTGTTCAAATAGTCATAACTATTTAAACTTGATTCGGTAAACA-AATTATTTTTT-AAATC--TT
*
35150 GCTTATTAATTTT
62 ACTTATTAATTTT
35163 TTTAATGTTA
Statistics
Matches: 354, Mismatches: 60, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
175 42 0.12
176 7 0.02
177 74 0.21
178 20 0.06
179 43 0.12
180 9 0.03
181 138 0.39
182 21 0.06
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (175 bp):
TTGTTCAAATAGTCATAACTATTTAAACTTGATTCGGTAAACAAATTATTTTTTAAATCTTACTT
ATTAATTTTGAAATATTAATAAATTAATATTATTTTTTTTGATAAGCTTTTATGAAATGAAACAA
TTGTTTTTGACAAAACAAAAGGTCATAATGATTTTAAATAGATAA
Found at i:35867 original size:179 final size:180
Alignment explanation
Indices: 35475--35887 Score: 462
Period size: 180 Copynumber: 2.3 Consensus size: 180
35465 AATATTAACA
* * * *
35475 AATTTAAATAGCTATGACTATTTGAACAATTGTCTATTTAAAATCATTATGACCTTTTGTTTTGT
1 AATTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGT
* * ** *
35540 CATAAAACAATTGTTTTAGTTCATACAAGCTTATTCAAAATAAAATAAAACTAATTTATTAATAT
66 CATAAAAAAATTCTTTTAGTTCATACAAAATTATTCAAAATAAAATAAAACTAATTTATTAACAT
* * *
35605 TCCAAAAATTAATAACTAAGTAATTTAAAAAGTTAATTTGTTTATCAAATC
131 TCCAAAAATTAATAACTAAGTAATTTAAAAAATAAATCTGTTTATCAAA-C
* * * * *
35656 AATTCAAATAATCATG-TCCATTTTGAACAATTATCTATTTCAAATCGTTATGACCTTTT-TTTT
1 AATTCAAATAGTTATGAT-TA-TTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTT
* * * * *
35719 -TCATAAAAAAATTCTTTCT-GTTCATGCAAAATTATTCAAAATAAAA-AATATTGATTTATTAC
64 GTCATAAAAAAATTCTTT-TAGTTCATACAAAATTATTCAAAATAAAATAAAACTAATTTATTAA
*** *
35781 CATTTTGAAAATTAATAAGTAAG-AGATTTGAAAAAATAAATCTGTTTA-CTAAAC
128 CATTCCAAAAATTAATAACTAAGTA-ATTT-AAAAAATAAATCTGTTTATC-AAAC
*
35835 AAGTTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATTATTATGA
1 AA-TTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATCATTATGA
35888 TTAAAAGATT
Statistics
Matches: 192, Mismatches: 32, Indels: 18
0.79 0.13 0.07
Matches are distributed among these distances:
178 1 0.01
179 67 0.35
180 70 0.36
181 19 0.10
182 35 0.18
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
AATTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGT
CATAAAAAAATTCTTTTAGTTCATACAAAATTATTCAAAATAAAATAAAACTAATTTATTAACAT
TCCAAAAATTAATAACTAAGTAATTTAAAAAATAAATCTGTTTATCAAAC
Found at i:36226 original size:19 final size:19
Alignment explanation
Indices: 36202--36260 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
36192 CTCTACCATT
*
36202 TAATTATTTTTAATATTAA
1 TAATTATTATTAATATTAA
*
36221 TAATTATTATAAATATTTAA
1 TAATTATTATTAATA-TTAA
* * *
36241 AAATTAATATTATTATTAA
1 TAATTATTATTAATATTAA
36260 T
1 T
36261 TAGTGTAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATTATTATTAATATTAA
Found at i:36962 original size:16 final size:16
Alignment explanation
Indices: 36943--36973 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36933 ATAAGTAATT
36943 TAAAATTGATTATAAA
1 TAAAATTGATTATAAA
*
36959 TAAAATTGCTTATAA
1 TAAAATTGATTATAA
36974 GCATAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TAAAATTGATTATAAA
Found at i:37024 original size:22 final size:22
Alignment explanation
Indices: 36999--37042 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36989 AATAAACTAT
36999 TATTAATACT-ATAATTAATTAA
1 TATTAATA-TGATAATTAATTAA
* *
37021 TATTTATATGTTAATTAATTAA
1 TATTAATATGATAATTAATTAA
37043 CTAATTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTAATATGATAATTAATTAA
Found at i:37163 original size:25 final size:25
Alignment explanation
Indices: 37135--37192 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
37125 TTATTAAATA
37135 ATAATTATTA-AAATTATATATATTT
1 ATAATTATTATAAATTATA-ATATTT
*
37160 ATAATTTATTATAAATTATAGTATTT
1 ATAA-TTATTATAAATTATAATATTT
37186 A-AATTAT
1 ATAATTAT
37193 AGAATATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.13
25 6 0.20
26 12 0.40
27 8 0.27
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
ATAATTATTATAAATTATAATATTT
Found at i:37190 original size:14 final size:15
Alignment explanation
Indices: 37166--37194 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37156 ATTTATAATT
37166 TATTATAAATTATAG
1 TATTATAAATTATAG
37181 TATT-TAAATTATAG
1 TATTATAAATTATAG
37195 AATATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (15 bp):
TATTATAAATTATAG
Found at i:37276 original size:13 final size:13
Alignment explanation
Indices: 37153--37276 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
37143 TAAAATTATA
37153 TATATT-TATAAT
1 TATATTATATAAT
37165 T-TATTATA-AAT
1 TATATTATATAAT
* *
37176 TATAGTATTTAAAT
1 TATATTATAT-AAT
**
37190 TATAGAATATAAT
1 TATATTATATAAT
37203 T-TATTACTATAAT
1 TATATTA-TATAAT
*
37216 TA-AATATTATAAT
1 TATATTA-TATAAT
* * *
37229 TACATTAGATAAC
1 TATATTATATAAT
*
37242 AAT-TGTCATATAA-
1 TATAT-T-ATATAAT
*
37255 T-TGTTATATAAT
1 TATATTATATAAT
37267 TATATTATAT
1 TATATTATAT
37277 TTATTTGTAA
Statistics
Matches: 84, Mismatches: 16, Indels: 23
0.68 0.13 0.19
Matches are distributed among these distances:
11 14 0.17
12 15 0.18
13 36 0.43
14 19 0.23
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (13 bp):
TATATTATATAAT
Found at i:37891 original size:181 final size:177
Alignment explanation
Indices: 37439--37939 Score: 495
Period size: 181 Copynumber: 2.8 Consensus size: 177
37429 AGTTATGACT
* * * * * *
37439 ATTTTAACAATTATCTATTTCTAATCGTTATTACCTTTTGTTTTGTCATAGACCAATTGTTTCTA
1 ATTTAAAC-ATTATTTATTTCAAATCGTTATGA-CTTTTGTTTTGTCATAAAACAATTGTTTCTA
* * * *
37504 TGCATAAAAATTTATTCAAAATAAAATAATACTAATTTATTAAAATTTTAAAAATTAATAAGCAA
64 TTCA-AACAATTTATTCAAAATAAAATAATACTAATTTATTAATA-TTTAAAAATTAATAAGTAA
** * * ** * *
37569 CAGATTTAAAAACTAAATTTGTTTACCGAATGAGTTCAAATAATTATAACT
127 CAGATTTAAAAAAAAAAATTGTTTACCAAACAAGTTCAAATAATCATAACC
* * **
37620 ATTTAAACATTTATTTATTTCAAATCATTATGATCTTTTGTTTTGTCATAAGA-TGTATGTTTCT
1 ATTTAAACA-TTATTTATTTCAAATCGTTATGA-CTTTTGTTTTGTCATAAAACAAT-TGTTTCT
* * ** *
37684 GTTCATACAAGTTTATTCAAAATAAAATAATACTAATAAATTAATATTCTAAAAATTAATAAGTT
63 ATTCAAACAA-TTTATTCAAAATAAAATAATACTAATTTATTAATATT-TAAAAATTAATAAGTA
* * **
37749 AGAGATTTAAAAAAAAAAAATTGTTTACCAAACAAGTTTAAATAATCATGTCC
126 ACAGATTT-AAAAAAAAAAATTGTTTACCAAACAAGTTCAAATAATCATAACC
**
37802 ATTTGAAGTATTATTTATTTCAAATCGTTATGACATTTT-TTTTGTCATAAAACAATTGTTTCTA
1 ATTT-AAACATTATTTATTTCAAATCGTTATGAC-TTTTGTTTTGTCATAAAACAATTGTTTCTA
* *** * *
37866 TTCAAACAATCTAATTTTGAATAAAATAGTATTAATTTATTAATATTTCAAAAATTAATAAGTAA
64 TTCAAACAAT-TTATTCAAAATAAAATAATACTAATTTATTAATATTT-AAAAATTAATAAGTAA
*
37931 -AAATTTAAA
127 CAGATTTAAA
37940 TACTAAATAT
Statistics
Matches: 260, Mismatches: 50, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
179 3 0.01
180 14 0.05
181 176 0.68
182 64 0.25
183 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (177 bp):
ATTTAAACATTATTTATTTCAAATCGTTATGACTTTTGTTTTGTCATAAAACAATTGTTTCTATT
CAAACAATTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAATTAATAAGTAACAGA
TTTAAAAAAAAAAATTGTTTACCAAACAAGTTCAAATAATCATAACC
Done.