Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 109 of 129
Found at i:18227673 original size:5 final size:5
Alignment explanation
Indices: 18227639--18227663 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18227629 TAACACACAC
18227639 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
18227664 GAAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:18230166 original size:285 final size:285
Alignment explanation
Indices: 18229656--18230227 Score: 982
Period size: 285 Copynumber: 2.0 Consensus size: 285
18229646 TCAAGATGAC
18229656 TTATTGGTTCAACCTAATGTCCAAGAAAAGGCAACGACGCAATGAAGAGAATGCTCGAACAAGAG
1 TTATTGGTTCAACCTAATGTCCAAGAAAAGGCAACGACGCAATGAAGAGAATGCTCGAACAAGAG
** *
18229721 GTGAGCGAGTTTTGAGCACGGAAGAGCTGTGTACTCAGATCGACTTCGAACTTCAAAATTCACTT
66 GTGAGCGAGTTTTGAGCACAAAAGAGCTGTGTACTCAGATCGACTTCGAACTTCAAAATCCACTT
* * *
18229786 GTTTTCTTTTTCTCTCAGGTCGATCCATCTTCTATGGTTGACCTTCTTTCCTCTTTGGTCGCTCC
131 GCTTTCTTTTTCTCTCAGGTCGATCCATCTTCTATGGTTGACCTTCCTTCCTCTTTGGTCACTCC
*
18229851 CCCTTCTGGGATTAAATCTTTTCCACCTCCTACCAACTTTACTCTTCCTCTTTAATTAATTTTTT
196 CCCTTCTGGGATTAAATCTTTTCCACCTCCTACCAACTTTACTCTTCCTCTTTAATTAATTTTTC
18229916 TTAACATCTCATCTCTCCTAAGAGG
261 TTAACATCTCATCTCTCCTAAGAGG
* * *
18229941 TTATTGGTTCAACCTAATGTCCAAGAAAGGGCAACGACGTAATGAAGAGAATGTTCGAACAAGAG
1 TTATTGGTTCAACCTAATGTCCAAGAAAAGGCAACGACGCAATGAAGAGAATGCTCGAACAAGAG
* *
18230006 GTGAGCGAGTTTTGAGCACAAAAGAGTTGTGTACTCAGATCGACTTCGAACTTTAAAATCCACTT
66 GTGAGCGAGTTTTGAGCACAAAAGAGCTGTGTACTCAGATCGACTTCGAACTTCAAAATCCACTT
*
18230071 GCTTTCTTTTTCTCTCAGGTCGATCCATCTTCTATGGTTGACCTTCCTTCCTCTTTGGTCATTCC
131 GCTTTCTTTTTCTCTCAGGTCGATCCATCTTCTATGGTTGACCTTCCTTCCTCTTTGGTCACTCC
* * * *
18230136 CCCTTCTTGGATTCAATCTTTTCCACCTCCTACCACCTTTACTCTTCCTTTTTAATTAATTTTTC
196 CCCTTCTGGGATTAAATCTTTTCCACCTCCTACCAACTTTACTCTTCCTCTTTAATTAATTTTTC
*
18230201 TTAACATCTCATCTCTCTTAAGAGG
261 TTAACATCTCATCTCTCCTAAGAGG
18230226 TT
1 TT
18230228 TTTACCTCAT
Statistics
Matches: 269, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
285 269 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (285 bp):
TTATTGGTTCAACCTAATGTCCAAGAAAAGGCAACGACGCAATGAAGAGAATGCTCGAACAAGAG
GTGAGCGAGTTTTGAGCACAAAAGAGCTGTGTACTCAGATCGACTTCGAACTTCAAAATCCACTT
GCTTTCTTTTTCTCTCAGGTCGATCCATCTTCTATGGTTGACCTTCCTTCCTCTTTGGTCACTCC
CCCTTCTGGGATTAAATCTTTTCCACCTCCTACCAACTTTACTCTTCCTCTTTAATTAATTTTTC
TTAACATCTCATCTCTCCTAAGAGG
Found at i:18239640 original size:18 final size:18
Alignment explanation
Indices: 18239594--18239646 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
18239584 TTTTGTGTCG
*
18239594 ATATAAATTATAATATATA
1 ATATAAA-TATAAAATATA
* **
18239613 ATTTTCATATAAAATATA
1 ATATAAATATAAAATATA
18239631 ATATAAATATATAAAT
1 ATATAAATATA-AAAT
18239647 TTTAATATTT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAAATATAAAATATA
Found at i:18244707 original size:18 final size:19
Alignment explanation
Indices: 18244666--18244708 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
18244656 TTATTATTTA
* *
18244666 ATATTTAATTTAAGATATT
1 ATATTTAATTAAAAATATT
18244685 A-ATTTAA-TAAAAATATT
1 ATATTTAATTAAAAATATT
18244702 ATATTTA
1 ATATTTA
18244709 TGAATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 11 0.52
19 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATTTAATTAAAAATATT
Found at i:18244721 original size:24 final size:22
Alignment explanation
Indices: 18244689--18244744 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
18244679 GATATTAATT
*
18244689 TAATAAAAATATTATATTTATGAA
1 TAATAAAAATA-TA-ATTTATAAA
*
18244713 TAATTAAAATATAATTTATAAA
1 TAATAAAAATATAATTTATAAA
18244735 T-ATAAAAATA
1 TAATAAAAATA
18244745 AGATATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.28
22 9 0.31
23 2 0.07
24 10 0.34
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TAATAAAAATATAATTTATAAA
Found at i:18244725 original size:21 final size:21
Alignment explanation
Indices: 18244691--18244744 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
18244681 TATTAATTTA
*
18244691 ATAAAAATATTATATTTATGAAT
1 ATAAAAATA-TA-ATTTATAAAT
*
18244714 AATTAAAATATAATTTATAAAT
1 -ATAAAAATATAATTTATAAAT
18244736 ATAAAAATA
1 ATAAAAATA
18244745 AGATATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.30
22 9 0.33
23 2 0.07
24 8 0.30
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAAAAATATAATTTATAAAT
Found at i:18245351 original size:23 final size:23
Alignment explanation
Indices: 18245320--18245364 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
18245310 GACAATTGCC
* *
18245320 ACATATCTTGCATTTAATAAATAT
1 ACATATCTT-AATTTAACAAATAT
18245344 ACAT-TCTTAATTTAACAAATA
1 ACATATCTTAATTTAACAAATA
18245365 ATTAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 4 0.21
24 4 0.21
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (23 bp):
ACATATCTTAATTTAACAAATAT
Found at i:18247628 original size:24 final size:24
Alignment explanation
Indices: 18247597--18247644 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18247587 AAGTACGATT
18247597 GCTCCATGGACTGTTGCCCTCGCC
1 GCTCCATGGACTGTTGCCCTCGCC
18247621 GCTCCATGGACTGTTGCCCTCGCC
1 GCTCCATGGACTGTTGCCCTCGCC
18247645 CTATCCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.42, G:0.25, T:0.25
Consensus pattern (24 bp):
GCTCCATGGACTGTTGCCCTCGCC
Found at i:18249662 original size:210 final size:211
Alignment explanation
Indices: 18249152--18249790 Score: 820
Period size: 210 Copynumber: 3.0 Consensus size: 211
18249142 TTAAAATTTT
* *
18249152 AATTTTAAATTTATTAAATATTATTTTTTCAAAT-ATTCTTATTAATCAATTGAATTAATTTTCA
1 AATTTTAAATTTATTAAATATTATTTTTT-AAATAATT-ATATTAATCAATTGAATTAATTTTAA
*
18249216 AATTTATTGACTCGGCATTATTAGTTCTATGATTCTTTTTCCTTTGGCTGATTCCAAGCTGCAGA
64 AATTTATTGATTCGGCATTATTAGTTCTATGATTC-TTTTCCTTTGGCTGATTCCAAGCTGCAGA
* *
18249281 ATATTTAAAAAAAAAAAAACAAAAGGGTGACAAGTTGATTGTTTTTT-GTTCTTTTAGTTAACAA
128 ATATTT---AAAAAAACAA-AAAA--GTGACAAGTTGATTGTTTTTTAG-TCTTTTAGTTAACAT
18249345 CATCTGTAAGCAATTTTTTAATAAAATTACA
186 CA-C--TAAGCAATTTTTT--TAAAATTACA
* * *
18249376 AATTTTAAAATTTATTAAGTATTATTTTTAAAATAATTATATTAATCAATTGAATTAATTTTTAA
1 AATTTT-AAATTTATTAAATATTATTTTTTAAATAATTATATTAATCAATTGAATTAATTTTAAA
* * * * *
18249441 ATTTATTGATTCGGCATTACTAGTTCTATGGTTCTTTTCCTTTGGCTGATTGCAAGCTGTAGAAC
65 ATTTATTGATTCGGCATTATTAGTTCTATGATTCTTTTCCTTTGGCTGATTCCAAGCTGCAGAAT
* * * * *
18249506 ATTTAAAAAAACAAAAATGTAATAAGTTGATTGTCTTTTTAGTCTTGTAGATAACATCACTAAGC
130 ATTTAAAAAAACAAAAAAGTGACAAGTTGATTGT-TTTTTAGTCTTTTAGTTAACATCACTAAGC
*
18249571 AATTTTTTT-TAATTAC-
194 AATTTTTTTAAAATTACA
* *
18249587 AATTTTAAATTTATTAAATATTATTTTTTAAATAATTATATCAATTAATTGAATTAATTTTAAAA
1 AATTTTAAATTTATTAAATATTATTTTTTAAATAATTATATTAATCAATTGAATTAATTTTAAAA
* * * *
18249652 TTTATTGATTCGGCATGATTAGTACTATGATTCTTTTCCTTCGGCTGATTCCAAGCTGCCGAATA
66 TTTATTGATTCGGCATTATTAGTTCTATGATTCTTTTCCTTTGGCTGATTCCAAGCTGCAGAATA
* * * *
18249717 TTAAAAAAAAAAAAAAGAGTGACAAGTTGGTTG-TTTTTAGTCTTTTAGTTAACGTCACTAAGCA
131 TTTAAAAAAACAAAAA-AGTGACAAGTTGATTGTTTTTTAGTCTTTTAGTTAACATCACTAAGCA
18249781 ATTTTTTTAA
195 ATTTTTTTAA
18249791 TCATTTATAA
Statistics
Matches: 367, Mismatches: 42, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
209 36 0.10
210 124 0.34
211 18 0.05
212 6 0.02
213 1 0.00
215 13 0.04
217 15 0.04
218 19 0.05
219 4 0.01
220 9 0.02
223 32 0.09
224 66 0.18
225 24 0.07
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.44
Consensus pattern (211 bp):
AATTTTAAATTTATTAAATATTATTTTTTAAATAATTATATTAATCAATTGAATTAATTTTAAAA
TTTATTGATTCGGCATTATTAGTTCTATGATTCTTTTCCTTTGGCTGATTCCAAGCTGCAGAATA
TTTAAAAAAACAAAAAAGTGACAAGTTGATTGTTTTTTAGTCTTTTAGTTAACATCACTAAGCAA
TTTTTTTAAAATTACA
Found at i:18250265 original size:4 final size:4
Alignment explanation
Indices: 18250256--18250282 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18250246 AGTATTTTCT
18250256 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
18250283 TGAACGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:18254879 original size:2 final size:2
Alignment explanation
Indices: 18254872--18254899 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18254862 GTTTTCATTC
18254872 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18254900 GACACACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18254959 original size:16 final size:16
Alignment explanation
Indices: 18254926--18254955 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18254916 AACTTATATC
18254926 ATTATAATATTTTTTA
1 ATTATAATATTTTTTA
18254942 ATTAT-ATATTTTTT
1 ATTATAATATTTTTT
18254956 TAATCATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTATAATATTTTTTA
Found at i:18257934 original size:45 final size:46
Alignment explanation
Indices: 18257885--18257986 Score: 125
Period size: 49 Copynumber: 2.2 Consensus size: 46
18257875 ATGAAAACAT
* *
18257885 CAAGAAAATT-TTACCTATATAAATAAAAAAGTAATGTCACTTTAA
1 CAAGAAAATTGTTACCTATATAAACAAAAAAGTAATATCACTTTAA
* * *
18257930 CAAGAAAAATTGGGTTATCTATATAAACATAAAAGTAATATCGCTTTAA
1 CAAG-AAAATT--GTTACCTATATAAACAAAAAAGTAATATCACTTTAA
18257979 CAAGAAAA
1 CAAGAAAA
18257987 ATTGAGGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
45 4 0.08
46 6 0.12
48 4 0.08
49 34 0.71
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (46 bp):
CAAGAAAATTGTTACCTATATAAACAAAAAAGTAATATCACTTTAA
Found at i:18257955 original size:49 final size:50
Alignment explanation
Indices: 18257899--18257995 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 50
18257889 AAAATTTTAC
* *
18257899 CTATATAAATAAAAAAGTAATGTCACTTTAACAAGAAAAATTG-GGTTAT
1 CTATATAAACAAAAAAGTAATATCACTTTAACAAGAAAAATTGAGGTTAT
* *
18257948 CTATATAAACATAAAAGTAATATCGCTTTAACAAGAAAAATTGAGGTT
1 CTATATAAACAAAAAAGTAATATCACTTTAACAAGAAAAATTGAGGTT
18257996 TCTTTGTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 39 0.91
50 4 0.09
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (50 bp):
CTATATAAACAAAAAAGTAATATCACTTTAACAAGAAAAATTGAGGTTAT
Found at i:18258416 original size:19 final size:18
Alignment explanation
Indices: 18258375--18258486 Score: 55
Period size: 19 Copynumber: 5.8 Consensus size: 18
18258365 CTTATTCTGA
***
18258375 ATAATTATTTTAAATAAAA
1 ATAATTA-TTTAAATAGTC
18258394 ATAATTATTATAAATAGTC
1 ATAATTATT-TAAATAGTC
* * *
18258413 ATAACTATTTGAATA-TAA
1 ATAATTATTTAAATAGT-C
*
18258431 ATAAATTATTGTTCATATAAGTC
1 AT-AATTA-T-TT-AAAT-AGTC
* *
18258454 ATGATTATATAAATAGTC
1 ATAATTATTTAAATAGTC
*
18258472 ATAAGTATTTAAATA
1 ATAATTATTTAAATA
18258487 AAAATTTATA
Statistics
Matches: 69, Mismatches: 16, Indels: 17
0.68 0.16 0.17
Matches are distributed among these distances:
17 1 0.01
18 25 0.36
19 28 0.41
20 2 0.03
21 3 0.04
22 6 0.09
23 3 0.04
24 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.41
Consensus pattern (18 bp):
ATAATTATTTAAATAGTC
Found at i:18261108 original size:222 final size:219
Alignment explanation
Indices: 18260720--18261561 Score: 845
Period size: 222 Copynumber: 3.7 Consensus size: 219
18260710 AAAGTAGTCG
* * * * *
18260720 TAAATTAATTTTCAAATCTATTGATTCGGCATTATTAGTTTTA-TGTTCCTTTCCATTTAGCTGA
1 TAAATTAATTTTCAAATTTATTGATTCGGCATTATTAGTTCTATTGTTCTTTTCC-TTTGGTTGA
* * *
18260784 TTCCTAGCTGTAAAACAGCAAAAAAAAAAAAAAACAAAAGAGTCACGAGTTGATTGTTTATTAGT
65 TTCC-AGCTGT-AAACAG-----TAAAAAAAAAACAAAAGAGTGACGAGTTGATTGTTTTTTAGT
* *
18260849 CTTTTAGTTAACGTCACTAAGCAATTTTTTAATAAAATTATAAAATTT-AATTTTAGATTTATTA
123 CATTTAGTTAACGTCACTAAGCAATTTTTTAATAAAATTATAAAATTTAAATTTTAAATTTATTA
18260913 AATATTATTTTTAAAATAATAGTATTAATTAAT
188 AATATTATTTTTAAAATAATA-TATTAATTAAT
*
18260946 TAAATTAATTTTCAAATTTATTGATTCGGCATTATTAGTTCTATTGTTATTTTCCTTTGGTTGAT
1 TAAATTAATTTTCAAATTTATTGATTCGGCATTATTAGTTCTATTGTTCTTTTCCTTTGGTTGAT
* * *
18261011 TCCACGCTGTAAGACAGTAAAAAATAAAATAAAAGACTGACGACTTGATTGTTTTTTAGTCATTT
66 TCCA-GCTGTAA-ACAGTAAAAAA-AAAACAAAAGAGTGACGAGTTGATTGTTTTTTAGTCATTT
*
18261076 AGTTAACGTCACTAAGCAATTTTTTAATAAAATTACAAAATTTAAAATTTTGATTTTAATTCAAA
128 AGTTAACGTCACTAAGCAATTTTTTAATAAAATTATAAAATTT--AA-----A--TT--TT-AAA
* *
18261141 TTTATTAAATATTATTTTTAAAATAATCCTATTATTTAAT
181 TTTATTAAATATTATTTTTAAAATAAT-ATATTAATTAAT
* * *
18261181 TAAATTAATTTTCAAATTTATTTATTCGGCATTATT-GTTCTATTATTCTTTTTCTTTGGCTGAT
1 TAAATTAATTTTCAAATTTATTGATTCGGCATTATTAGTTCTATTGTTCTTTTCCTTT-G--G-T
*
18261245 TGCCCGATTCCAAGCTGTAAACAGTAAAAAAAAAACAAAAGAGTGACGAGTTGAAT-TTTTTTAG
62 T----GATTCC-AGCTGTAAACAGTAAAAAAAAAACAAAAGAGTGACGAGTTGATTGTTTTTTAG
* * * *
18261309 TCATTTAGTTATCGTCACTAA-CTAATTTTTTAATAGAATTACAAATTTTAAATTTTAAATTTAT
122 TCATTTAGTTAACGTCACTAAGC-AATTTTTTAATAAAATTATAAAATTTAAATTTTAAATTTAT
* *
18261373 TAAATATTATTTTAAAAATAATCATATTAATCAAT
186 TAAATATTATTTTTAAAATAAT-ATATTAATTAAT
* * ** ** *** *
18261408 TAAATTAATTTTTAAATTTATTGATTTGTAATTATTAGTAT-TA-TGATTCTTTTGTTTTCACTA
1 TAAATTAATTTTCAAATTTATTGATTCGGCATTATTAGT-TCTATTG-TTCTTTTCCTTTGGTTG
* ** * * *
18261471 ATTTCAAGCTGCTAAGTA-AAAAAGAAAAAACAAAAGAGTGACAAGTTGATTGTTTTTTAGTCTT
64 A-TTCCAGCTG-TAAACAGTAAAA-AAAAAACAAAAGAGTGACGAGTTGATTGTTTTTTAGTCAT
* **
18261535 TTAGTTAACGTCAATGGGCAATTTTTT
126 TTAGTTAACGTCACTAAGCAATTTTTT
18261562 TTAATCATTT
Statistics
Matches: 525, Mismatches: 55, Indels: 76
0.80 0.08 0.12
Matches are distributed among these distances:
220 10 0.02
221 38 0.07
222 108 0.21
223 1 0.00
224 1 0.00
225 4 0.01
226 61 0.12
227 80 0.15
228 16 0.03
229 1 0.00
230 3 0.01
232 3 0.01
234 20 0.04
235 75 0.14
237 3 0.01
238 3 0.01
239 52 0.10
240 21 0.04
241 11 0.02
242 13 0.02
243 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (219 bp):
TAAATTAATTTTCAAATTTATTGATTCGGCATTATTAGTTCTATTGTTCTTTTCCTTTGGTTGAT
TCCAGCTGTAAACAGTAAAAAAAAAACAAAAGAGTGACGAGTTGATTGTTTTTTAGTCATTTAGT
TAACGTCACTAAGCAATTTTTTAATAAAATTATAAAATTTAAATTTTAAATTTATTAAATATTAT
TTTTAAAATAATATATTAATTAAT
Found at i:18261188 original size:235 final size:223
Alignment explanation
Indices: 18260808--18261433 Score: 741
Period size: 235 Copynumber: 2.7 Consensus size: 223
18260798 ACAGCAAAAA
* * * *
18260808 AAAAAAAAAACAAAAGAGTCACGAGTTG-ATTGTTTATTAGTCTTTTAGTTAACGTCACTAAGC-
1 AAAAAAAAAACAAAAGACTGACGACTTGAATT-TTT-TTAGTCATTTAGTTAACGTCACTAA-CT
* *
18260871 AATTTTTTAATAAAATTATAAAATTT--AATTTTAGATTTATTAAATATTATTTTTAAAATAAT-
63 AATTTTTTAATAAAATTA-CAAATTTAAAATTTTAAATTTATTAAATATTATTTTTAAAATAATC
*
18260933 AGTATTAATTAATTAAATTAATTTTCAAATTTATTGATTCGGCATTATTAGTTCTATTGTTATTT
127 A-TATTAATTAATTAAATTAATTTTCAAATTTATTGATTCGGCATTATT-GTTCTATTATTATTT
*
18260998 TCCTTT-G-G-TT-GATTCCACGCTGTAAGACAGT
190 TCCTTTGGCGATTCGATTCCAAGCTGTAA-ACAGT
* *
18261029 AAAAAATAAAATAAAAGACTGACGACTTGATTGTTTTTTAGTCATTTAGTTAACGTCACTAAGC-
1 AAAAAA-AAAACAAAAGACTGACGACTTGAAT-TTTTTTAGTCATTTAGTTAACGTCACTAA-CT
18261093 AATTTTTTAATAAAATTACAAAATTTAAAATTTTGATTTTAATTCAAATTTATTAAATATTATTT
63 AATTTTTTAATAAAATTAC-AAATTT-AAA-----A--TT--TT-AAATTTATTAAATATTATTT
* * *
18261158 TTAAAATAATCCTATTATTTAATTAAATTAATTTTCAAATTTATTTATTCGGCATTATTGTTCTA
116 TTAAAATAATCATATTAATTAATTAAATTAATTTTCAAATTTATTGATTCGGCATTATTGTTCTA
* *
18261223 TTATTCTTTTTCTTTGGCTGATTGCCCGATTCCAAGCTGTAAACAGT
181 TTATTATTTTCCTTTGGC-GATT---CGATTCCAAGCTGTAAACAGT
* * *
18261270 AAAAAAAAAACAAAAGAGTGACGAGTTGAATTTTTTTAGTCATTTAGTTATCGTCACTAACTAAT
1 AAAAAAAAAACAAAAGACTGACGACTTGAATTTTTTTAGTCATTTAGTTAACGTCACTAACTAAT
* * *
18261335 TTTTTAATAGAATTACAAATTTTAAATTTTAAATTTATTAAATATTATTTTAAAAATAATCATAT
66 TTTTTAATAAAATTACAAATTTAAAATTTTAAATTTATTAAATATTATTTTTAAAATAATCATAT
* *
18261400 TAATCAATTAAATTAATTTTTAAATTTATTGATT
131 TAATTAATTAAATTAATTTTCAAATTTATTGATT
18261434 TGTAATTATT
Statistics
Matches: 350, Mismatches: 28, Indels: 48
0.82 0.07 0.11
Matches are distributed among these distances:
221 6 0.02
222 68 0.19
223 4 0.01
224 1 0.00
225 1 0.00
227 63 0.18
228 2 0.01
230 3 0.01
232 3 0.01
234 20 0.06
235 75 0.21
237 3 0.01
238 9 0.03
239 46 0.13
240 21 0.06
241 11 0.03
242 14 0.04
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (223 bp):
AAAAAAAAAACAAAAGACTGACGACTTGAATTTTTTTAGTCATTTAGTTAACGTCACTAACTAAT
TTTTTAATAAAATTACAAATTTAAAATTTTAAATTTATTAAATATTATTTTTAAAATAATCATAT
TAATTAATTAAATTAATTTTCAAATTTATTGATTCGGCATTATTGTTCTATTATTATTTTCCTTT
GGCGATTCGATTCCAAGCTGTAAACAGT
Found at i:18262735 original size:14 final size:14
Alignment explanation
Indices: 18262718--18262746 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18262708 TTTATTACCC
18262718 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
18262732 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
18262746 T
1 T
18262747 GAAAGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:18263814 original size:3 final size:3
Alignment explanation
Indices: 18263806--18263852 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
18263796 ATAAAATATA
* * * *
18263806 AAT AAT AAT AAT ATT AGT -AT AAT AAT AAT AAT GAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18263853 CATATAGATA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 1 0.03
3 35 0.97
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:18266500 original size:25 final size:25
Alignment explanation
Indices: 18266472--18266522 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
18266462 AGATCGACTT
18266472 GATAACCAATAGAGATTAAAAAAAA
1 GATAACCAATAGAGATTAAAAAAAA
18266497 GATAACCAATAGAGATTAAAAAAAA
1 GATAACCAATAGAGATTAAAAAAAA
18266522 G
1 G
18266523 TAAGAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.63, C:0.08, G:0.14, T:0.16
Consensus pattern (25 bp):
GATAACCAATAGAGATTAAAAAAAA
Found at i:18269421 original size:8 final size:8
Alignment explanation
Indices: 18269398--18269433 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
18269388 TTTTTTTAAT
18269398 AAAAAAT-
1 AAAAAATA
*
18269405 AATAAATA
1 AAAAAATA
18269413 AAAAAATA
1 AAAAAATA
18269421 AAAAAATA
1 AAAAAATA
18269429 AAAAA
1 AAAAA
18269434 TAAGTGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAAATA
Found at i:18269434 original size:15 final size:15
Alignment explanation
Indices: 18269395--18269436 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
18269385 TGATTTTTTT
*
18269395 AATAAAAAAT-AATA
1 AATAAAAAATAAAAA
18269409 AATAAAAAAATAAAAA
1 AAT-AAAAAATAAAAA
18269425 AATAAAAAATAA
1 AATAAAAAATAA
18269437 GTGTTTAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 3 0.12
15 16 0.64
16 6 0.24
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAAAAAATAAAAA
Found at i:18270434 original size:60 final size:59
Alignment explanation
Indices: 18270305--18270434 Score: 138
Period size: 61 Copynumber: 2.2 Consensus size: 59
18270295 TTTCTTTCAG
* *
18270305 AAAACAAAAAGAAAAAAATTTTCTAAATAGGCCCAAATGGTGAAAAATTTAAAATTTAAAA
1 AAAATAAAAAGAAAAAAATTTTCTAAATAGACCCAAATGGTGAAAAATTTAAAA--TAAAA
* * * * *
18270366 AAAATAAAAA-AAGAAAATATTTCTAAATTGACGCAAATGGTGGAAATTTTAATAA-AAAA
1 AAAATAAAAAGAAAAAAAT-TTTCTAAATAGACCCAAATGGTGAAAAATTTAA-AATAAAA
18270425 ATAAATAAAA
1 A-AAATAAAA
18270435 TTTCTAAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
59 5 0.08
60 15 0.25
61 37 0.63
62 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (59 bp):
AAAATAAAAAGAAAAAAATTTTCTAAATAGACCCAAATGGTGAAAAATTTAAAATAAAA
Found at i:18274018 original size:17 final size:17
Alignment explanation
Indices: 18274005--18274047 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
18273995 TCAAAGATAG
18274005 AAAGAAAAAG-AAGAGAA
1 AAAGAAAAAGCAAGAG-A
*
18274022 AAAAAAAAAGCAAGAGA
1 AAAGAAAAAGCAAGAGA
18274039 AAAGAAAAA
1 AAAGAAAAA
18274048 TACATGCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAGCAAGAGA
Found at i:18274036 original size:18 final size:18
Alignment explanation
Indices: 18274009--18274047 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
18273999 AGATAGAAAG
18274009 AAAAAGAAGAGAAAA-AA
1 AAAAAGAAGAGAAAAGAA
18274026 AAAAAGCAAGAGAAAAGAA
1 AAAAAG-AAGAGAAAAGAA
18274045 AAA
1 AAA
18274048 TACATGCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 9 0.45
19 5 0.25
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAGAAGAGAAAAGAA
Found at i:18274432 original size:12 final size:11
Alignment explanation
Indices: 18274414--18274452 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
18274404 GGACAAGAAT
*
18274414 GAAAAAAAAGT
1 GAAAAAAAAGA
18274425 GAAAAAAAAGA
1 GAAAAAAAAGA
18274436 GAAAAAGAAAGA
1 GAAAAA-AAAGA
18274448 -AAAAA
1 GAAAAA
18274453 GGAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (11 bp):
GAAAAAAAAGA
Found at i:18274442 original size:19 final size:18
Alignment explanation
Indices: 18274428--18274468 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
18274418 AAAAAGTGAA
18274428 AAAAAAGAGAAAAAGAAAG
1 AAAAAAG-GAAAAAGAAAG
*
18274447 AAAAAAGGAAAAA-AATG
1 AAAAAAGGAAAAAGAAAG
18274464 AAAAA
1 AAAAA
18274469 TGAAATAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 6 0.29
19 7 0.33
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAAAGGAAAAAGAAAG
Found at i:18274468 original size:10 final size:10
Alignment explanation
Indices: 18274411--18274468 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
18274401 GATGGACAAG
18274411 AATGAAAAAA
1 AATGAAAAAA
18274421 AAGTGAAAAAA
1 AA-TGAAAAAA
*
18274432 AA-G-AGAAA
1 AATGAAAAAA
18274440 AA-GAAAGAAA
1 AATGAAA-AAA
* *
18274450 AAAGGAAAAA
1 AATGAAAAAA
18274460 AATGAAAAA
1 AATGAAAAA
18274469 TGAAATAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
8 7 0.18
9 2 0.05
10 17 0.44
11 13 0.33
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (10 bp):
AATGAAAAAA
Found at i:18275214 original size:63 final size:62
Alignment explanation
Indices: 18275130--18275251 Score: 172
Period size: 62 Copynumber: 2.0 Consensus size: 62
18275120 GTAGATCAAC
* * * *
18275130 GGATGAAATTTATTTTAAAATGGCTAATGCTAATAAGTCTATGAGTGGTGACCAAATGATGGA
1 GGATAAAATTTATTTTAAAATGGCTAAT-CTAAGAAGCCTATAAGTGGTGACCAAATGATGGA
* * *
18275193 GGATAAAATTTGTTTTAAAATGGCTAGTCTAAGAAGCCTATAAGTGGTGACTAAATGAT
1 GGATAAAATTTATTTTAAAATGGCTAATCTAAGAAGCCTATAAGTGGTGACCAAATGAT
18275252 AGAAGACGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
62 27 0.52
63 25 0.48
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (62 bp):
GGATAAAATTTATTTTAAAATGGCTAATCTAAGAAGCCTATAAGTGGTGACCAAATGATGGA
Found at i:18275570 original size:20 final size:20
Alignment explanation
Indices: 18275545--18275596 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
18275535 ATGGTTGAGA
*
18275545 GTTTGCATCATTAAAAAAGT
1 GTTTGCATCATTAAAAAAGC
*
18275565 GTTTGCATCATTAAGAAAGC
1 GTTTGCATCATTAAAAAAGC
*
18275585 ATTTGCATCATT
1 GTTTGCATCATT
18275597 GATCATGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
GTTTGCATCATTAAAAAAGC
Found at i:18275760 original size:21 final size:21
Alignment explanation
Indices: 18275709--18276039 Score: 205
Period size: 21 Copynumber: 14.9 Consensus size: 21
18275699 AGTGTGAATC
*
18275709 CTCAAATGAGAATCTTTAAGAAAT
1 CTCAAATGAGAATCTTT--G-AGT
18275733 CCTCAAATGAGAATCTTTGAGT
1 -CTCAAATGAGAATCTTTGAGT
*
18275755 CTCAAACGAGAATCTTTGAGT
1 CTCAAATGAGAATCTTTGAGT
* * *
18275776 CTTAAATAAGAATCTTTAAGAAAT
1 CTCAAATGAGAATCTTT--G-AGT
18275800 CTTCAAATGAGAATCTTTGAGT
1 C-TCAAATGAGAATCTTTGAGT
* * * *
18275822 CTTAAATGAAAACCTTTAAGAAAT
1 CTCAAATGAGAATCTTT--G-AGT
* *
18275846 CCTTAAATGAGAACCTTTGAGTT
1 -CTCAAATGAGAATCTTTGAG-T
* * *
18275869 TTCAAATAAAAATCTTTGAGT
1 CTCAAATGAGAATCTTTGAGT
* * *
18275890 TTCAAATAAAAATCTTTGAGT
1 CTCAAATGAGAATCTTTGAGT
* * *
18275911 TTCAAATAAAAATCTTTGAGT
1 CTCAAATGAGAATCTTTGAGT
* * *
18275932 TTTAAATGAGAAACTTTGAGT
1 CTCAAATGAGAATCTTTGAGT
* * *
18275953 CTTAAATGAGAATCTTTAAAAAAT
1 CTCAAATGAGAATCTTT---GAGT
*
18275977 CTTCAAATGAGAATATTTGAGTT
1 C-TCAAATGAGAATCTTTGAG-T
* *
18276000 TTCAAATGAGAAACTTTGAGT
1 CTCAAATGAGAATCTTTGAGT
*
18276021 ATTCAAATGA-AACTCTTTG
1 -CTCAAATGAGAA-TCTTTG
18276040 GATGTAAACC
Statistics
Matches: 254, Mismatches: 36, Indels: 35
0.78 0.11 0.11
Matches are distributed among these distances:
21 125 0.49
22 53 0.21
23 7 0.03
24 8 0.03
25 61 0.24
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (21 bp):
CTCAAATGAGAATCTTTGAGT
Found at i:18275806 original size:46 final size:47
Alignment explanation
Indices: 18275705--18276016 Score: 246
Period size: 46 Copynumber: 6.9 Consensus size: 47
18275695 TAAAAGTGTG
* * * *
18275705 AATCCTCAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCTTT--G-
1 AATCTTCAAATGAGAATCTTT--G-AGTCTTCAAATAAGAATCTTTAAGA
* *
18275752 AGTC-TCAAACGAGAATCTTTGAGTCTT-AAATAAGAATCTTTAAGA
1 AATCTTCAAATGAGAATCTTTGAGTCTTCAAATAAGAATCTTTAAGA
*
18275797 AATCTTCAAATGAGAATCTTTGAGTCTT-AAATGAA-AACCTTTAAGA
1 AATCTTCAAATGAGAATCTTTGAGTCTTCAAAT-AAGAATCTTTAAGA
* * *
18275843 AATCCTT-AAATGAGAACCTTTGAGTTTTCAAATAAAAATCTTT--G-
1 AAT-CTTCAAATGAGAATCTTTGAGTCTTCAAATAAGAATCTTTAAGA
* * * *
18275887 AGT-TTCAAATAAAAATCTTTGAGT-TTCAAATAAAAATCTTT--G-
1 AATCTTCAAATGAGAATCTTTGAGTCTTCAAATAAGAATCTTTAAGA
* * * * *
18275929 AGT-TTTAAATGAGAAACTTTGAGTCTT-AAATGAGAATCTTTAAAA
1 AATCTTCAAATGAGAATCTTTGAGTCTTCAAATAAGAATCTTTAAGA
* * * *
18275974 AATCTTCAAATGAGAATATTTGAGTTTTCAAATGAGAAACTTT
1 AATCTTCAAATGAGAATCTTTGAGTCTTCAAATAAGAATCTTT
18276017 GAGTATTCAA
Statistics
Matches: 222, Mismatches: 28, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
42 65 0.29
43 21 0.09
44 4 0.02
45 6 0.03
46 95 0.43
47 31 0.14
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (47 bp):
AATCTTCAAATGAGAATCTTTGAGTCTTCAAATAAGAATCTTTAAGA
Found at i:18276113 original size:75 final size:75
Alignment explanation
Indices: 18276030--18276243 Score: 266
Period size: 75 Copynumber: 2.9 Consensus size: 75
18276020 TATTCAAATG
* * * *
18276030 AAACTCTTTGGATGTAAACCCCAAATTTATCGAAAATGAATTTTCAAATTCCAATGTGAATCTTC
1 AAACTCTTTGGATGTGAACCCCAAATTTGTCGAAAATGAATCTTCAAATTCAAATGTGAATCTTC
*
18276095 AAAAAGCTTT
66 AAAAAGATTT
* * * ** *
18276105 AAACTCTTTAGATGTGAATCCCAAATTTGTTGAATCTGAATCTTCAAATTCAAATGTGAATTTTC
1 AAACTCTTTGGATGTGAACCCCAAATTTGTCGAAAATGAATCTTCAAATTCAAATGTGAATCTTC
18276170 AAAAAGATTT
66 AAAAAGATTT
* * * * ** *
18276180 AAACTCTTTGGATGTGAACCCTAAATTTGTCGGAAGTGAATCTTAAAATTTGAATGAGAATCTT
1 AAACTCTTTGGATGTGAACCCCAAATTTGTCGAAAATGAATCTTCAAATTCAAATGTGAATCTT
18276244 TGATAAAAAC
Statistics
Matches: 116, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 116 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (75 bp):
AAACTCTTTGGATGTGAACCCCAAATTTGTCGAAAATGAATCTTCAAATTCAAATGTGAATCTTC
AAAAAGATTT
Found at i:18276957 original size:9 final size:9
Alignment explanation
Indices: 18276945--18276977 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
18276935 TTTAAAAAAT
18276945 AAAATTAAA
1 AAAATTAAA
18276954 AAAATTAAAA
1 AAAATT-AAA
18276964 AAAATTAAA
1 AAAATTAAA
18276973 AAAAT
1 AAAAT
18276978 AGGTGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAATTAAA
Found at i:18276966 original size:10 final size:10
Alignment explanation
Indices: 18276940--18276976 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
18276930 AAAATTTTAA
18276940 AAAATAAAATT
1 AAAA-AAAATT
18276951 -AAAAAAATT
1 AAAAAAAATT
18276960 AAAAAAAATT
1 AAAAAAAATT
18276970 AAAAAAA
1 AAAAAAA
18276977 TAGGTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 6 0.24
10 19 0.76
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:18276969 original size:19 final size:20
Alignment explanation
Indices: 18276940--18276977 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
18276930 AAAATTTTAA
18276940 AAAATAAAATTAAAAAAATT
1 AAAATAAAATTAAAAAAATT
18276960 AAAA-AAAATTAAAAAAAT
1 AAAATAAAATTAAAAAAAT
18276978 AGGTGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAATAAAATTAAAAAAATT
Found at i:18278122 original size:12 final size:13
Alignment explanation
Indices: 18278097--18278126 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18278087 TGAAAAATTT
18278097 AAAAATTCCAAAA
1 AAAAATTCCAAAA
18278110 AAAAATTCCAAAA
1 AAAAATTCCAAAA
18278123 AAAA
1 AAAA
18278127 GAAAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAATTCCAAAA
Found at i:18278123 original size:68 final size:67
Alignment explanation
Indices: 18278042--18278189 Score: 158
Period size: 68 Copynumber: 2.2 Consensus size: 67
18278032 TTTTCTTTTC
* *
18278042 AAAAATTAAAAAAAATAA-AAAGA-ATTTTTAAATAGGCCCAAATGATGAAAAATTTAAAAATTC
1 AAAAATTAAAAAAAA-AAGAAA-ATATTTCTAAATAGACCCAAATGATGAAAAATTTAAAAA-TC
18278105 CAAAA
63 CAAAA
** * ** * *
18278110 AAAAATTCCAAAAAAAAGAAAATATTTCTAAATTGACGTAAATGGTGAAAAATTTAGAAATCCAA
1 AAAAATTAAAAAAAAAAGAAAATATTTCTAAATAGACCCAAATGATGAAAAATTTAAAAATCCAA
*
18278175 TA
66 AA
18278177 AAAAA-TAAAAAAA
1 AAAAATTAAAAAAA
18278190 TTTCTAAATA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
66 6 0.09
67 14 0.21
68 46 0.70
ACGTcount: A:0.61, C:0.07, G:0.08, T:0.23
Consensus pattern (67 bp):
AAAAATTAAAAAAAAAAGAAAATATTTCTAAATAGACCCAAATGATGAAAAATTTAAAAATCCAA
AA
Found at i:18284794 original size:24 final size:26
Alignment explanation
Indices: 18284766--18284817 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
18284756 TTACTCACAG
18284766 ATTGAATGCAG-AAA-ACACAATAAC
1 ATTGAATGCAGAAAACACACAATAAC
*
18284790 ATTGAATGCGGAAAACACACAATAAC
1 ATTGAATGCAGAAAACACACAATAAC
18284816 AT
1 AT
18284818 GGTGTTTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.40
25 3 0.12
26 12 0.48
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.17
Consensus pattern (26 bp):
ATTGAATGCAGAAAACACACAATAAC
Found at i:18285585 original size:31 final size:30
Alignment explanation
Indices: 18285530--18285587 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
18285520 TTTTAAAAAA
*
18285530 ATTTATTTATTAATGAAATTTTATTATTTG
1 ATTTATTCATTAATGAAATTTTATTATTTG
18285560 ATTTACTTCATTAAT-AAATTATTATTAT
1 ATTTA-TTCATTAATGAAATT-TTATTAT
18285588 CTGACAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (30 bp):
ATTTATTCATTAATGAAATTTTATTATTTG
Found at i:18287584 original size:2 final size:2
Alignment explanation
Indices: 18287579--18287608 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18287569 TCTCTCTCTC
*
18287579 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18287609 CAACTAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:18289108 original size:13 final size:13
Alignment explanation
Indices: 18289086--18289123 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
18289076 ATAATAAAAT
18289086 TATT-ATTTAATA
1 TATTAATTTAATA
* *
18289098 TTTTAATTTAAGA
1 TATTAATTTAATA
18289111 TATTAATTTAATA
1 TATTAATTTAATA
18289124 AAAATATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 3 0.14
13 18 0.86
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TATTAATTTAATA
Found at i:18289266 original size:12 final size:13
Alignment explanation
Indices: 18289242--18289271 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
18289232 ATAATTTATA
18289242 AATATATAAATTT
1 AATATATAAATTT
18289255 AATATA-AAATTT
1 AATATATAAATTT
18289267 AATAT
1 AATAT
18289272 TTTAATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATATAAATTT
Found at i:18295991 original size:40 final size:40
Alignment explanation
Indices: 18295947--18296030 Score: 93
Period size: 39 Copynumber: 2.1 Consensus size: 40
18295937 ACCTAATTAC
*
18295947 AACAAAACAAATGTATTT-GA-AGGATTTTGGTGAACCTTTA
1 AACAAAACAAATGCATTTCGAGA-G-TTTTGGTGAACCTTTA
** *
18295987 AAC-AATTAAATGCATTTCGAGAGTTTTGGTGAACCTTTG
1 AACAAAACAAATGCATTTCGAGAGTTTTGGTGAACCTTTA
18296026 AACAA
1 AACAA
18296031 TCTTAGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
39 29 0.78
40 7 0.19
41 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (40 bp):
AACAAAACAAATGCATTTCGAGAGTTTTGGTGAACCTTTA
Found at i:18298742 original size:108 final size:105
Alignment explanation
Indices: 18298573--18298777 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 105
18298563 ATTGATAAAC
* * *
18298573 TGTAGTGATTGATCACATGGAACTGCTAACATTTTTAAGAAAAAAACATAGTCTTTATTGAAAAC
1 TGTAGTAATTGATCACATGGAACTGATAACATTTTTAAGAAAAAAACATAATCTTTATTGAAAAC
*
18298638 ACGAAATTTTTTTTTTTTCAAAATTCAACAAAGACTTAATTAT
66 ACGAAA--ATTTTTTTTTC-AAATTCAACAAAGACTTAATTAT
* *
18298681 TGTAGTAATTGATCACATGGAACTGATAACATTTTTAAGATAAAAAA-ATAATTTTTCTTGAAAA
1 TGTAGTAATTGATCACATGGAACTGATAACATTTTTAAGA-AAAAAACATAATCTTTATTGAAAA
*
18298745 CATGAAAATTTTTTTTTCAAATTCAACAAAGAC
65 CACGAAAATTTTTTTTTCAAATTCAACAAAGAC
18298778 GCCTTTTCTA
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
105 15 0.17
106 10 0.11
108 58 0.65
109 6 0.07
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (105 bp):
TGTAGTAATTGATCACATGGAACTGATAACATTTTTAAGAAAAAAACATAATCTTTATTGAAAAC
ACGAAAATTTTTTTTTCAAATTCAACAAAGACTTAATTAT
Found at i:18299224 original size:16 final size:16
Alignment explanation
Indices: 18299203--18299236 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
18299193 GGGGTTTACC
18299203 ACCCCTTCCAACCTTT
1 ACCCCTTCCAACCTTT
18299219 ACCCCTTCCAACCTTT
1 ACCCCTTCCAACCTTT
18299235 AC
1 AC
18299237 GTCTACCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.50, G:0.00, T:0.29
Consensus pattern (16 bp):
ACCCCTTCCAACCTTT
Found at i:18299946 original size:3 final size:3
Alignment explanation
Indices: 18299933--18299981 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
18299923 AATTTTGTTT
18299933 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18299980 TT
1 TT
18299982 TCTTTAGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18302258 original size:22 final size:22
Alignment explanation
Indices: 18302227--18302277 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
18302217 TTTGATATCT
*
18302227 ATTGCTTATGAAATGCAATTAC
1 ATTGCCTATGAAATGCAATTAC
18302249 ATTGCCTATGAAATGCAATTAC
1 ATTGCCTATGAAATGCAATTAC
18302271 ATTGCCT
1 ATTGCCT
18302278 TATTCCAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (22 bp):
ATTGCCTATGAAATGCAATTAC
Found at i:18305223 original size:127 final size:127
Alignment explanation
Indices: 18304911--18305226 Score: 300
Period size: 127 Copynumber: 2.5 Consensus size: 127
18304901 TGTCAATTTA
* * * *
18304911 CAAAATTTAAATTGAACTTTTTCAATTTTATGCTAACTTAACAATGACAATATTTTT-TACTAAA
1 CAAATTTTAAATTGAACTTTTTAAATTTTATGTTAACTTAACAATGACAATGTTTTTGT--TAAA
* * * * * *
18304975 AAACATAATATTTGTCTTCAAAGATGACATTTTTATGTAAAAAAGCATAGTTTTTGTCAGTTTGT
64 AAACA-AATATTTATCTTCAAAGATAACATTTTTATGTAAAAAAGCACAATTTTTGTCAGTATAT
** * ****
18305040 CAAATTTTAAATTGAACTTTGAAAATTTCATGTTAA-TTAACAATGATGGCGTTTTTTGTTAAAA
1 CAAATTTTAAATTGAACTTTTTAAATTTTATGTTAACTTAACAATGACAATG-TTTTTGTTAAAA
* * * * * *
18305104 ATGC-AGTGTTTATCTAT-AAAGATAATATTTTTATGTTAAAAA-CACAATTTTTGTTAGTATAT
65 A-ACAAATATTTATCT-TCAAAGATAACATTTTTATGTAAAAAAGCACAATTTTTGTCAGTATAT
* * *
18305166 CATATTTTAAATTGAATTTTTTTTAATTTTATGTTAACTTAACAATGACAATGTTTTTGTT
1 CAAATTTTAAATTGAA-CTTTTTAAATTTTATGTTAACTTAACAATGACAATGTTTTTGTT
18305227 TTAATTCAAA
Statistics
Matches: 148, Mismatches: 33, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
126 30 0.20
127 53 0.36
128 28 0.19
129 36 0.24
130 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (127 bp):
CAAATTTTAAATTGAACTTTTTAAATTTTATGTTAACTTAACAATGACAATGTTTTTGTTAAAAA
ACAAATATTTATCTTCAAAGATAACATTTTTATGTAAAAAAGCACAATTTTTGTCAGTATAT
Found at i:18305367 original size:27 final size:28
Alignment explanation
Indices: 18305306--18305371 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
18305296 ATTAGAAACT
* *
18305306 AAATATAATTTTTGTAATTTAAAAAAGT
1 AAATATAATATTTGTAATTTAAAAAAGA
*
18305334 AATTATAATATTTG-AATATT-AAAAAGA
1 AAATATAATATTTGTAAT-TTAAAAAAGA
18305361 AAATATAATAT
1 AAATATAATAT
18305372 CCATAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 19 0.58
28 14 0.42
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (28 bp):
AAATATAATATTTGTAATTTAAAAAAGA
Found at i:18308093 original size:3 final size:3
Alignment explanation
Indices: 18308085--18308119 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18308075 TTTTAATTTA
18308085 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18308120 CATTTATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18308208 original size:22 final size:22
Alignment explanation
Indices: 18308155--18308208 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
18308145 AAAAATAACA
*
18308155 AAAAAGAAAAATTAGTTAAAATT
1 AAAAA-AAAAATTAATTAAAATT
*
18308178 AAATTAAAAAATTAATT-AAATT
1 AAA-AAAAAAATTAATTAAAATT
*
18308200 ACAAAAAAA
1 AAAAAAAAA
18308209 GGGGTAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 5 0.19
22 7 0.27
23 13 0.50
24 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAAAAAAAATTAATTAAAATT
Found at i:18313250 original size:15 final size:15
Alignment explanation
Indices: 18313230--18313260 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18313220 CCTATAAAAA
*
18313230 AATTACATTTGCATC
1 AATTACATGTGCATC
18313245 AATTACATGTGCATC
1 AATTACATGTGCATC
18313260 A
1 A
18313261 TTAGAAAGAC
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:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (15 bp):
AATTACATGTGCATC
Found at i:18313306 original size:13 final size:13
Alignment explanation
Indices: 18313288--18313313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18313278 CTAGATGTTG
18313288 TAAAAATAAAAAA
1 TAAAAATAAAAAA
18313301 TAAAAATAAAAAA
1 TAAAAATAAAAAA
18313314 ACATCTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:18314068 original size:22 final size:22
Alignment explanation
Indices: 18313978--18314068 Score: 58
Period size: 22 Copynumber: 4.1 Consensus size: 22
18313968 CTAAGCTTAT
* * *
18313978 ATTAGCTAACACCTAAGCCCAA
1 ATTAGCTGACATCTAAGCCCAG
* * * *
18314000 ATCAGTTGACATCCAAGCCTAG
1 ATTAGCTGACATCTAAGCCCAG
* * **
18314022 ATTAACT-AGCACTTTAAGCATAG
1 ATTAGCTGA-CA-TCTAAGCCCAG
18314045 ATTAGCTGACATCTAAGCCCAG
1 ATTAGCTGACATCTAAGCCCAG
18314067 AT
1 AT
18314069 CAATTGGTAC
Statistics
Matches: 49, Mismatches: 17, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
21 1 0.02
22 31 0.63
23 16 0.33
24 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.24
Consensus pattern (22 bp):
ATTAGCTGACATCTAAGCCCAG
Found at i:18314187 original size:23 final size:23
Alignment explanation
Indices: 18314130--18314189 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
18314120 TTTTAAGCCT
* * * *
18314130 AGTTTAGCTAGTACTTTAAACTC
1 AGTTTAGCTGGCACATTAAACCC
18314153 AGTTTAGCTGGCACATTAAACCC
1 AGTTTAGCTGGCACATTAAACCC
*
18314176 AGTTTAGTTGGCAC
1 AGTTTAGCTGGCAC
18314190 CTAAGCCCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (23 bp):
AGTTTAGCTGGCACATTAAACCC
Found at i:18314620 original size:126 final size:126
Alignment explanation
Indices: 18314387--18314637 Score: 299
Period size: 126 Copynumber: 2.0 Consensus size: 126
18314377 ACCTCTGAGT
* * * *
18314387 AAAACATTTTAAATTTTTAAAGTTTCAATGCCTCTGATATGAGGAGCATTCAAAGATGTTAAGAT
1 AAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAACATAAGGAGCATTCAAAGATGTTAAGAT
* * * * *
18314452 TTGTAAAACTTTCAAGCATAATCTCTAAAATTTTCGGGCATAATTTTCAAGACATTCAAGC
66 TTGTAAAACTATCAAGCATAACCTCTAAAACTCTCGGACATAATTTTCAAGACATTCAAGC
* * * *
18314513 AAAATATTTTAAATTTTCAAAGTTTTAATGCCTCTAACATAATGAGCATTCAAAGATGTTGAGAT
1 AAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAACATAAGGAGCATTCAAAGATGTTAAGAT
* * * * * *
18314578 TTGTAAGACCTAT-AGGCATAGCCTCTAAGAC-CTCTGGACATAATTTTTAAGACTTTCAAG
66 TTGTAA-AACTATCAAGCATAACCTCTAAAACTCTC-GGACATAATTTTCAAGACATTCAAG
18314638 TATAATCTGT
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
125 2 0.02
126 98 0.94
127 4 0.04
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (126 bp):
AAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAACATAAGGAGCATTCAAAGATGTTAAGAT
TTGTAAAACTATCAAGCATAACCTCTAAAACTCTCGGACATAATTTTCAAGACATTCAAGC
Found at i:18315328 original size:99 final size:99
Alignment explanation
Indices: 18315152--18315351 Score: 278
Period size: 99 Copynumber: 2.0 Consensus size: 99
18315142 TAATAAAACG
* * *
18315152 CACCTTCTAAAATGCACCAAGCCCTAAACCTAGCCAAAACACAAGAAGCACAAGTGCCATAACCA
1 CACCTTCTAAAATGCACCAAGCCCTAAACCCAGCAAAAACACAAGAAGCACAAGCGCCATAACCA
* *
18315217 ATACCACCAGTTGCCACACCACTTACCCATTCCC
66 ACACCACCAGTTGCCACACCACCTACCCATTCCC
* *
18315251 CACCTTCTAAAATGCACCAAGCTCC-AAACCCAGCAAAAACACAAGAAGCACCCA-CGCCATACC
1 CACCTTCTAAAATGCACCAAGC-CCTAAACCCAGCAAAAACACAAGAAGCA-CAAGCGCCATAAC
* * *
18315314 CAACATCACTAGTTGCCACACCACCTACCCGTTCCC
64 CAACACCACCAGTTGCCACACCACCTACCCATTCCC
18315350 CA
1 CA
18315352 AATCTAGTCC
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
99 85 0.96
100 4 0.04
ACGTcount: A:0.36, C:0.41, G:0.09, T:0.14
Consensus pattern (99 bp):
CACCTTCTAAAATGCACCAAGCCCTAAACCCAGCAAAAACACAAGAAGCACAAGCGCCATAACCA
ACACCACCAGTTGCCACACCACCTACCCATTCCC
Found at i:18325914 original size:17 final size:17
Alignment explanation
Indices: 18325894--18325943 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
18325884 AAATTTTTGT
18325894 AAATATGAAATTCTTAC
1 AAATATGAAATTCTTAC
* * *
18325911 AAATCTGAAACTCTTGC
1 AAATATGAAATTCTTAC
*
18325928 AAAAATTGAAATTCTT
1 AAATA-TGAAATTCTT
18325944 GTAAACTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (17 bp):
AAATATGAAATTCTTAC
Found at i:18326491 original size:129 final size:128
Alignment explanation
Indices: 18326145--18326505 Score: 375
Period size: 130 Copynumber: 2.8 Consensus size: 128
18326135 GTTCGCTTAT
* ** * * *
18326145 TTTTTATCTCGACTCAGTCAGCTCATTTTGTTTTTTTGACTTGCAGTTCATTCCTAGTCACTTGT
1 TTTTGATCTCGACTCAGTCAAATCATTTTATTTTTTTGACTTGCAGTTCAATCCTAATCACTTGT
* * * * * *
18326210 TTTGATCTCAGCATAGTCCATATCATTTTATTTTTTTAACCTGCAATTCAATCTCGGTCACCTA
66 TTTGATTTCGGC-TAGTCCAGATCATTTTATTTTTCTAACCTGCAATTCAATCTCGATAACCTA
* * * * * * *
18326274 TTTTGATCTC-AGCTTAATCCAAATCATTTTATTTTTCTAACTTACGGTTCAATCCTAATCATTT
1 TTTTGATCTCGA-CTCAGT-CAAATCATTTTATTTTTTTGACTTGCAGTTCAATCCTAATCACTT
* * *** * *
18326338 GTTTTGATTTCGGCTCAGTCCAGATAATTTTATTTTTCTAACTTGTGTTTTAATTTCGATAACCT
64 GTTTTGATTTCGGCT-AGTCCAGATCATTTTATTTTTCTAACCTGCAATTCAATCTCGATAACCT
18326403 A
128 A
* * *
18326404 TTTTGATCTCGACTCAGTACAAATCA-TTTATTTTTTTGACTTGCAATTCAATCCTAATCACCTA
1 TTTTGATCTCGACTCAGT-CAAATCATTTTATTTTTTTGACTTGCAGTTCAATCCTAATCACTTG
* *
18326468 TTTTGCTTTCGGCTAGGTGCAGATCATTTTATTTTTCT
65 TTTTGATTTCGGCTA-GTCCAGATCATTTTATTTTTCT
18326506 GACGCAGTTC
Statistics
Matches: 187, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
128 2 0.01
129 77 0.41
130 107 0.57
131 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (128 bp):
TTTTGATCTCGACTCAGTCAAATCATTTTATTTTTTTGACTTGCAGTTCAATCCTAATCACTTGT
TTTGATTTCGGCTAGTCCAGATCATTTTATTTTTCTAACCTGCAATTCAATCTCGATAACCTA
Found at i:18326812 original size:65 final size:65
Alignment explanation
Indices: 18326167--18326885 Score: 313
Period size: 65 Copynumber: 11.2 Consensus size: 65
18326157 CTCAGTCAGC
* * * * * *
18326167 TCATTTTGTTTTTTTGACTTGCAGTTCATTC-CTAGTCACTTGTTTTGATCTCAGCATAGTCCAT
1 TCATTTTATTTTTCTAACTTGCAGTTCAATCTC-AGTCACTTGTTTTGATCTCAGCTTAGTCCAG
18326231 A
65 A
* * * * * * * *
18326232 TCATTTTATTTTTTTAACCTGCAATTCAATCTCGGTCACCTATTTTGATCTCAGCTTAATCCAAA
1 TCATTTTATTTTTCTAACTTGCAGTTCAATCTCAGTCACTTGTTTTGATCTCAGCTTAGTCCAGA
* * * * * * *
18326297 TCATTTTATTTTTCTAACTTACGGTTCAATC-CTAATCATTTGTTTTGATTTCGGCTCAGTCCAG
1 TCATTTTATTTTTCTAACTTGCAGTTCAATCTC-AGTCACTTGTTTTGATCTCAGCTTAGTCCAG
18326361 A
65 A
* * * * * * * * *
18326362 TAATTTTATTTTTCTAACTTG-TGTTTTAATTTC-GATAACCTATTTTGATCTC-GACTCAGTAC
1 TCATTTTATTTTTCTAACTTGCAG-TTCAATCTCAG-TCACTTGTTTTGATCTCAG-CTTAGTCC
*
18326424 AAA
63 AGA
* * * * * * * * * *
18326427 TCA-TTTATTTTTTTGACTTGCAATTCAATC-CTAATCACCTATTTTGCTTTCGGC-TAGGTGCA
1 TCATTTTATTTTTCTAACTTGCAGTTCAATCTC-AGTCACTTGTTTTGATCTCAGCTTA-GTCCA
18326489 GA
64 GA
* * * * * ** * *
18326491 TCATTTTATTTTTCTGAC--GCAGTTCAGTCTTAGTTATTTGTTTTGAT-TTTGGTTTGATCCAG
1 TCATTTTATTTTTCTAACTTGCAGTTCAATCTCAGTCACTTGTTTTGATCTCAGCTTAG-TCCAG
*
18326553 T
65 A
* * * *
18326554 TCATTTTATTTTTCTAACTTGCGGTTTAATCTCAGTCATCTAT-TTTT-ATCT-TGACTTAGTAC
1 TCATTTTATTTTTCTAACTTGCAGTTCAATCTCAGTCA-CT-TGTTTTGATCTCAG-CTTAGTCC
18326616 AGA
63 AGA
* * * * * *
18326619 TCA-TTTATTTTTCTAACTTG-TGATTTAA-CCCTAGTCA-TCTGTTTTGATATCTA-CTCAATC
1 TCATTTTATTTTTCTAACTTGCAG-TTCAATCTC-AGTCACT-TGTTTTGATCTC-AGCTTAGTC
*
18326679 TAGA
62 CAGA
* * * * * * * **
18326683 TTATTTTATTTTTCTGAC-T--A--ACGAT-TCAGGGTCACTTATTTTGATCTTAGCTCAGTTTA
1 TCATTTTATTTTTCTAACTTGCAGTTCAATCTCA--GTCACTTGTTTTGATCTCAGCTTAGTCCA
18326742 GA
64 GA
* * * *
18326744 TCATTTTATTTTTTTGACTTGCAGTTCAATCTCAGTCACTTGTTTTGATCTCAGTTTAGTCCAAA
1 TCATTTTATTTTTCTAACTTGCAGTTCAATCTCAGTCACTTGTTTTGATCTCAGCTTAGTCCAGA
* * * * * * *
18326809 TCATTTTATTTTTTTTAACTCGC-GATTTAATCTCAATCACCTATTTTGATCTC-GACTCAGTCC
1 TCATTTTA-TTTTTCTAACTTGCAG-TTCAATCTCAGTCACTTGTTTTGATCTCAG-CTTAGTCC
*
18326872 GGA
63 AGA
*
18326875 TTATTTTATTT
1 TCATTTTATTT
18326886 CTTGTTTCGC
Statistics
Matches: 489, Mismatches: 123, Indels: 84
0.70 0.18 0.12
Matches are distributed among these distances:
59 1 0.00
60 3 0.01
61 38 0.08
62 7 0.01
63 50 0.10
64 87 0.18
65 235 0.48
66 64 0.13
67 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (65 bp):
TCATTTTATTTTTCTAACTTGCAGTTCAATCTCAGTCACTTGTTTTGATCTCAGCTTAGTCCAGA
Found at i:18326871 original size:66 final size:66
Alignment explanation
Indices: 18326714--18326885 Score: 161
Period size: 66 Copynumber: 2.6 Consensus size: 66
18326704 CGATTCAGGG
* * ** * * *
18326714 TCACTTATTTTGATCTTAGCTCAGTTTAGATCATTTTA-TTTTTTTGACTTGCAGTTCAATCTCA
1 TCACCTATTTTGATCTCAGCTCAGTCCAAATCATTTTATTTTTTTTAACTCGCAGTTCAATCTCA
*
18326778 G
66 A
* * * * *
18326779 TCACTTGTTTTGATCTCAGTTTAGTCCAAATCATTTTATTTTTTTTAACTCGC-GATTTAATCTC
1 TCACCTATTTTGATCTCAGCTCAGTCCAAATCATTTTATTTTTTTTAACTCGCAG-TTCAATCTC
18326843 AA
65 AA
** *
18326845 TCACCTATTTTGATCTC-GACTCAGTCCGGATTATTTTATTT
1 TCACCTATTTTGATCTCAG-CTCAGTCCAAATCATTTTATTT
18326886 CTTGTTTCGC
Statistics
Matches: 86, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
65 33 0.38
66 53 0.62
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (66 bp):
TCACCTATTTTGATCTCAGCTCAGTCCAAATCATTTTATTTTTTTTAACTCGCAGTTCAATCTCA
A
Found at i:18328784 original size:7 final size:7
Alignment explanation
Indices: 18328736--18328765 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
18328726 AGTATTGAAG
18328736 TTTAAAT
1 TTTAAAT
18328743 TTTAAAT
1 TTTAAAT
18328750 TTTAAAT
1 TTTAAAT
18328757 TTTAAAT
1 TTTAAAT
18328764 TT
1 TT
18328766 ATTATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTAAAT
Found at i:18332887 original size:3 final size:3
Alignment explanation
Indices: 18332879--18332940 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
18332869 TGGTTTGACA
18332879 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
18332927 ATC ATC ATC ATC AT
1 ATC ATC ATC ATC AT
18332941 TATTATTATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:18334594 original size:17 final size:18
Alignment explanation
Indices: 18334569--18334611 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
18334559 TTCGGTTTAC
*
18334569 AAAAAAAAAAAAGA-AAG
1 AAAAGAAAAAAAGAGAAG
18334586 AAAAG-AAAAAAGAGAAG
1 AAAAGAAAAAAAGAGAAG
18334603 AAACAGAAA
1 AAA-AGAAA
18334612 TCTTCAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.36
17 10 0.45
18 2 0.09
19 2 0.09
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAGAGAAG
Found at i:18334596 original size:18 final size:17
Alignment explanation
Indices: 18334569--18334611 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
18334559 TTCGGTTTAC
18334569 AAAA-AAAAAAAAGAAAG
1 AAAAGAAAAAAAAG-AAG
*
18334586 AAAAGAAAAAAGAGAAG
1 AAAAGAAAAAAAAGAAG
18334603 AAACAGAAA
1 AAA-AGAAA
18334612 TCTTCAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAGAAG
Found at i:18335573 original size:15 final size:15
Alignment explanation
Indices: 18335553--18335597 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
18335543 AACACTAAAT
18335553 CTTAAATCCAAACCC
1 CTTAAATCCAAACCC
18335568 CTTAAATCCAAA-CC
1 CTTAAATCCAAACCC
*
18335582 CTTAAATCAAAACCC
1 CTTAAATCCAAACCC
18335597 C
1 C
18335598 AAACCTCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (15 bp):
CTTAAATCCAAACCC
Found at i:18335585 original size:14 final size:14
Alignment explanation
Indices: 18335553--18335596 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
18335543 AACACTAAAT
18335553 CTTAAATCCAAACCC
1 CTTAAATCCAAA-CC
18335568 CTTAAATCCAAACC
1 CTTAAATCCAAACC
*
18335582 CTTAAATCAAAACC
1 CTTAAATCCAAACC
18335596 C
1 C
18335597 CAAACCTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.20
Consensus pattern (14 bp):
CTTAAATCCAAACC
Found at i:18335734 original size:22 final size:21
Alignment explanation
Indices: 18335698--18335747 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
18335688 ACCTTCTAAA
18335698 CCTTAAAACCAAACCCTAAAAC
1 CCTTAAAACCAAACCC-AAAAC
*
18335720 CCTTAAAACTC-AACCCAAAAT
1 CCTTAAAAC-CAAACCCAAAAC
18335741 CC-TAAAA
1 CCTTAAAA
18335748 TCTGAATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 6 0.23
22 14 0.54
23 1 0.04
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (21 bp):
CCTTAAAACCAAACCCAAAAC
Found at i:18347103 original size:12 final size:11
Alignment explanation
Indices: 18347070--18347121 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
18347060 ATATTTTGCT
18347070 TAAAAAA-ATA
1 TAAAAAATATA
18347080 -AAAAATATATA
1 TAAAAA-ATATA
18347091 TACAAAAATATA
1 TA-AAAAATATA
*
18347103 TAAAAAATGTA
1 TAAAAAATATA
18347114 -AAAAAATA
1 TAAAAAATA
18347122 CAAAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 5 0.14
10 8 0.22
11 11 0.31
12 8 0.22
13 4 0.11
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (11 bp):
TAAAAAATATA
Found at i:18347136 original size:21 final size:20
Alignment explanation
Indices: 18347070--18347140 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 20
18347060 ATATTTTGCT
18347070 TAAAAAAATAAAAAATATATA
1 TAAAAAAATAAAAAATA-ATA
* *
18347091 TACAAAAATATATAAAA-AATG
1 TA-AAAAA-ATAAAAAATAATA
*
18347112 TAAAAAAATACAAAAATAAAA
1 TAAAAAAATA-AAAAATAATA
18347133 TAAAAAAA
1 TAAAAAAA
18347141 GTGATTCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 3 0.07
20 9 0.22
21 16 0.39
22 6 0.15
23 7 0.17
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (20 bp):
TAAAAAAATAAAAAATAATA
Found at i:18348396 original size:109 final size:110
Alignment explanation
Indices: 18348222--18348783 Score: 610
Period size: 109 Copynumber: 5.2 Consensus size: 110
18348212 TAGTTACCCT
* * * *
18348222 ACTTACGGATTAATCCCAGTCACTTTTA-TTTTTCTAACTTGCGATTCAATCCCAGTCGTCATTA
1 ACTTACGGTTTAATCCCAGTCACTTTTATTTTTTCTGACTTGCGATTCAATCCCAGTCATCGTTA
18348286 ATCTTTGACTCGTGGTTTAATCCCAG-TCATTCCTAT-GTTTTTG
66 ATCTTTGACTCGTGGTTTAATCCCAGATCATTCCTATAGTTTTTG
* * * * *
18348329 ACTTACAGTTTAATCCTAGTCACTTTTATTTATTTCTGACTTGCGGTTCAATCCCAATCATTGTT
1 ACTTACGGTTTAATCCCAGTCACTTTTATTT-TTTCTGACTTGCGATTCAATCCCAGTCATCGTT
* * * * * *
18348394 AATCTCTGACTTGTGGTTTAAACCC-GATTATTCATATAGCTTTTCG
65 AATCTTTGACTCGTGGTTTAATCCCAGATCATTCCTATAG-TTTTTG
* * * * *
18348440 ACTTACGATTTAATCCTAGTCACTTTTATTTTTT-TGACTTGCGGTTCATTCCCAGTCATCATTA
1 ACTTACGGTTTAATCCCAGTCACTTTTATTTTTTCTGACTTGCGATTCAATCCCAGTCATCGTTA
* * * * **
18348504 ATCTTTGACTTGTGGTTTAATCTCAG-TCATTTCTGTTAGTTACCTG
66 ATCTTTGACTCGTGGTTTAATCCCAGATCATTCCT-ATAGTT-TTTG
* * * *
18348550 ACTTGCGGTTTAATCCCAGTCATTTTTA-TTTTTCTGACTTGCGATTCATTCCTAGTCATCGTTA
1 ACTTACGGTTTAATCCCAGTCACTTTTATTTTTTCTGACTTGCGATTCAATCCCAGTCATCGTTA
* * **
18348614 ATCTTTGACTCGTGGTTCAATCCC-GATCATTTCTATTAGTTACCTG
66 ATCTTTGACTCGTGGTTTAATCCCAGATCATTCCTA-TAGTT-TTTG
*
18348660 ACTTACGGTTTAATCCCAGTCACTTTTATTTTTT-TAACTTGC-ATTCAATCCCAGTCATCGTTA
1 ACTTACGGTTTAATCCCAGTCACTTTTATTTTTTCTGACTTGCGATTCAATCCCAGTCATCGTTA
* *
18348723 ATCTTTGACTCGTGGTTTAAT--CATGATCATTCATAT-GTTTTCG
66 ATCTTTGACTCGTGGTTTAATCCCA-GATCATTCCTATAGTTTTTG
** *
18348766 ACTTGTGGTTCAATCCCA
1 ACTTACGGTTTAATCCCA
18348784 ATCATTGTTA
Statistics
Matches: 385, Mismatches: 56, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
106 16 0.04
107 29 0.08
108 4 0.01
109 165 0.43
110 132 0.34
111 39 0.10
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (110 bp):
ACTTACGGTTTAATCCCAGTCACTTTTATTTTTTCTGACTTGCGATTCAATCCCAGTCATCGTTA
ATCTTTGACTCGTGGTTTAATCCCAGATCATTCCTATAGTTTTTG
Found at i:18348515 original size:35 final size:35
Alignment explanation
Indices: 18348472--18348924 Score: 118
Period size: 35 Copynumber: 12.5 Consensus size: 35
18348462 CTTTTATTTT
* *
18348472 TTTGACTTGCGGTTCATTCCCAGTCATCATTAATC
1 TTTGACTTGCGGTTCAATCCCAGTCATCGTTAATC
* * * *
18348507 TTTGACTTGTGGTTTAATCTCAGTCATTTCTGTTAGT-
1 TTTGACTTGCGGTTCAATCCCAGTCA--TC-GTTAATC
* * ** * *
18348544 TACCTGACTTGCGGTTTAATCCCAGTCATTTTTATTT
1 T--TTGACTTGCGGTTCAATCCCAGTCATCGTTAATC
* * *
18348581 TTCTGACTTGCGATTCATTCCTAGTCATCGTTAATC
1 TT-TGACTTGCGGTTCAATCCCAGTCATCGTTAATC
* * * *
18348617 TTTGACTCGTGGTTCAATCCC-GATCATTTCTATTAGT-
1 TTTGACTTGCGGTTCAATCCCAG-TCA--TC-GTTAATC
* * * * * *
18348654 TACCTGACTTACGGTTTAATCCCAGTCA-CTTTTATTTT
1 T--TTGACTTGCGGTTCAATCCCAGTCATC-GTTA-ATC
* *
18348692 TTTAACTTGC-ATTCAATCCCAGTCATCGTTAATC
1 TTTGACTTGCGGTTCAATCCCAGTCATCGTTAATC
* * * * * *
18348726 TTTGACTCGTGGTTTAAT--CA-TGATCATTCATATGT
1 TTTGACTTGCGGTTCAATCCCAGTCATCGTT-A-AT-C
* * *
18348761 TTTCGACTTGTGGTTCAATCCCAATCATTGTTAATC
1 TTT-GACTTGCGGTTCAATCCCAGTCATCGTTAATC
* * * * * *
18348797 TCTGACTCGTGGTTTAAACCCAGTCATTC-TTATAGC
1 TTTGACTTGCGGTTCAATCCCAGTCA-TCGTTA-ATC
* * * * * *
18348833 TTTTCGACTTGCGATTTAATTCCAGTCA-CTTTTATTT
1 -TTT-GACTTGCGGTTCAATCCCAGTCATC-GTTAATC
* * * *
18348870 TTCTAACTTACAGTTCAGTCCTC-GTCATCGTTAATC
1 TT-TGACTTGCGGTTCAATCC-CAGTCATCGTTAATC
* *
18348906 TTTGACTCGTGGTTCAATC
1 TTTGACTTGCGGTTCAATC
18348925 TTGGTCATTT
Statistics
Matches: 295, Mismatches: 89, Indels: 68
0.65 0.20 0.15
Matches are distributed among these distances:
32 6 0.02
33 3 0.01
34 11 0.04
35 96 0.33
36 84 0.28
37 16 0.05
38 33 0.11
39 45 0.15
40 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (35 bp):
TTTGACTTGCGGTTCAATCCCAGTCATCGTTAATC
Found at i:18348525 original size:71 final size:70
Alignment explanation
Indices: 18348231--18348829 Score: 237
Period size: 71 Copynumber: 8.3 Consensus size: 70
18348221 TACTTACGGA
* * * * *
18348231 TTAATCCCAGTCACTTTTATTTTTCTAACTTGCGATTCAATCCCAGTCGTCATTAATCTTTGACT
1 TTAATCCTAGTCA-TTTTATTTTTTTGACTTGCGGTTCAATCCCAGTCATCATTAATCTTTGACT
*
18348296 CGTGGT
65 TGTGGT
* * * * * * * * *
18348302 TTAATCCCAGTCATTCCTATGTTTTTGACTTACAGTTTAATCCTAGTCACTTTTATTTAT-TTCT
1 TTAATCCTAGTCATT-TTATTTTTTTGACTTGCGGTTCAATCCCAGTCA---TCATTAATCTT-T
*
18348366 GACTTGCGGT
61 GACTTGTGGT
* * * * * * * * * * *
18348376 TCAATCCCAATCATTGTTA-ATCTCTGACTTGTGGTTTAAACCC-GATTATTCA-TATAGCTTTT
1 TTAATCCTAGTCATT-TTATTTTTTTGACTTGCGGTTCAATCCCAG-TCA-TCATTA-ATC-TTT
** *
18348438 CGACTTACGAT
61 -GACTTGTGGT
*
18348449 TTAATCCTAGTCACTTTTATTTTTTTGACTTGCGGTTCATTCCCAGTCATCATTAATCTTTGACT
1 TTAATCCTAGTCA-TTTTATTTTTTTGACTTGCGGTTCAATCCCAGTCATCATTAATCTTTGACT
18348514 TGTGGT
65 TGTGGT
* ** * ** * *
18348520 TTAAT-CTCAGTCATTTCTGTTAGTTACCTGACTTGCGGTTTAATCCCAGTCATTTTTATTTTTC
1 TTAATCCT-AGTCATTT-TATT--TT-TTTGACTTGCGGTTCAATCCCAGTCATCATTAATCTT-
* *
18348584 TGACTTGCGAT
60 TGACTTGTGGT
* * * * * * * *
18348595 TCATTCCTAGTCATCGTTA-ATCTTTGACTCGTGGTTCAATCCC-GATCATTTCTATTAGT-TAC
1 TTAATCCTAGTCAT-TTTATTTTTTTGACTTGCGGTTCAATCCCAG-TCA--TC-ATTAATCT--
* **
18348657 CTGACTTACGGT
59 TTGACTTGTGGT
* * * *
18348669 TTAATCCCAGTCACTTTTATTTTTTTAACTTGC-ATTCAATCCCAGTCATCGTTAATCTTTGACT
1 TTAATCCTAGTCA-TTTTATTTTTTTGACTTGCGGTTCAATCCCAGTCATCATTAATCTTTGACT
*
18348733 CGTGGT
65 TGTGGT
* * * * * * ** *
18348739 TTAATCAT-GATCATTCATATGTTTTCGACTTGTGGTTCAATCCCAATCATTGTTAATCTCTGAC
1 TTAATCCTAG-TCATT-TTATTTTTTTGACTTGCGGTTCAATCCCAGTCATCATTAATCTTTGAC
*
18348803 TCGTGGT
64 TTGTGGT
* *
18348810 TTAAACCCAGTCATTCTTAT
1 TTAATCCTAGTCATT-TTAT
18348830 AGCTTTTCGA
Statistics
Matches: 386, Mismatches: 106, Indels: 72
0.68 0.19 0.13
Matches are distributed among these distances:
69 3 0.01
70 38 0.10
71 130 0.34
72 10 0.03
73 52 0.13
74 120 0.31
75 30 0.08
76 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (70 bp):
TTAATCCTAGTCATTTTATTTTTTTGACTTGCGGTTCAATCCCAGTCATCATTAATCTTTGACTT
GTGGT
Found at i:18348598 original size:110 final size:108
Alignment explanation
Indices: 18348185--18348744 Score: 619
Period size: 110 Copynumber: 5.1 Consensus size: 108
18348175 TTCTCCCGAT
* * *
18348185 TCGTGGTTCAATCCCGGTCATTTCTATTAGTTACCCT-ACTTACGGATTAATCCCAGTCACTTTT
1 TCGTGGTTTAAT-CCAGTCATTTCT-TTAGTTA-CCTGACTTACGGTTTAATCCCAGTCACTTTT
* * *
18348249 ATTTTTCTAACTTGCGATTCAATCCCAGTCGTCATTAATCTTTGAC
63 ATTTTTCTGACTTGCGATTCAATCCCAGTCATCGTTAATCTTTGAC
* * ** * *
18348295 TCGTGGTTTAATCCCAGTCATTCCTAT-GTT-TTTGACTTACAGTTTAATCCTAGTCACTTTTAT
1 TCGTGGTTTAAT-CCAGTCATTTCTTTAGTTACCTGACTTACGGTTTAATCCCAGTCACTTTTA-
* * * *
18348358 TTATTTCTGACTTGCGGTTCAATCCCAATCATTGTTAATCTCTGAC
64 TT-TTTCTGACTTGCGATTCAATCCCAGTCATCGTTAATCTTTGAC
* * * * * ** * *
18348404 TTGTGGTTTAAACCCGATTA-TTCATATAGCTTTTC-GACTTACGATTTAATCCTAGTCACTTTT
1 TCGTGGTTTAATCCAG-TCATTTC-TTTAG-TTACCTGACTTACGGTTTAATCCCAGTCACTTTT
* * * *
18348467 ATTTTTTTGACTTGCGGTTCATTCCCAGTCATCATTAATCTTTGAC
63 ATTTTTCTGACTTGCGATTCAATCCCAGTCATCGTTAATCTTTGAC
* * *
18348513 TTGTGGTTTAATCTCAGTCATTTCTGTTAGTTACCTGACTTGCGGTTTAATCCCAGTCATTTTTA
1 TCGTGGTTTAATC-CAGTCATTTCT-TTAGTTACCTGACTTACGGTTTAATCCCAGTCACTTTTA
* *
18348578 TTTTTCTGACTTGCGATTCATTCCTAGTCATCGTTAATCTTTGAC
64 TTTTTCTGACTTGCGATTCAATCCCAGTCATCGTTAATCTTTGAC
* *
18348623 TCGTGGTTCAATCCCGATCATTTCTATTAGTTACCTGACTTACGGTTTAATCCCAGTCACTTTTA
1 TCGTGGTTTAATCCAG-TCATTTCT-TTAGTTACCTGACTTACGGTTTAATCCCAGTCACTTTTA
* *
18348688 TTTTTTTAACTTGC-ATTCAATCCCAGTCATCGTTAATCTTTGAC
64 TTTTTCTGACTTGCGATTCAATCCCAGTCATCGTTAATCTTTGAC
18348732 TCGTGGTTTAATC
1 TCGTGGTTTAATC
18348745 ATGATCATTC
Statistics
Matches: 382, Mismatches: 55, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
106 1 0.00
107 25 0.07
108 10 0.03
109 149 0.39
110 167 0.44
111 29 0.08
112 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (108 bp):
TCGTGGTTTAATCCAGTCATTTCTTTAGTTACCTGACTTACGGTTTAATCCCAGTCACTTTTATT
TTTCTGACTTGCGATTCAATCCCAGTCATCGTTAATCTTTGAC
Found at i:18348905 original size:289 final size:291
Alignment explanation
Indices: 18348470--18349043 Score: 771
Period size: 289 Copynumber: 2.0 Consensus size: 291
18348460 CACTTTTATT
* * * * * * *
18348470 TTTTTGACTTGCGGTTCATTCCCAGTCATCATTAATCTTTGACTTGTGGTTTAATCTCAGTCATT
1 TTTTCGACTTGCGGTTCAATCCCAATCATCATTAATCTCTGACTCGTGGTTTAAACCCAGTCATT
* * * * *
18348535 TCTGTTAGTTACCTGACTTGCGGTTTAATCCCAGTCATTTTTATTTTTCTGACTTGCGATTCATT
66 TCTGTTAGTTACCTGACTTGCGATTTAATCCCAGTCACTTTTATTTTTCTAACTTACGATTCAGT
*
18348600 CCTAGTCATCGTTAATCTTTGACTCGTGGTTCAATCCCGATCATTTCTATTAGTTACCTGACTTA
131 CCTAGTCATCGTTAATCTTTGACTCGTGGTTCAATCCCGATCATTTATATTAGTTACCTGACTTA
* *
18348665 CGGTTTAATCCCAGTCACTTTTATTTTTTTAACTTGC-ATTCAATCCCAGTCATCGTTAATCTTT
196 CGGTCTAATCCCAGTCACTTTTATTTTTTTAACTTGCTATTCAATCCCAGTCATCATTAATCTTT
* *
18348729 GACTCGTGGTTTAATCATGATCATTCATATG
261 GACTCGTGGTTCAATCACGATCATTCATATG
* **
18348760 TTTTCGACTTGTGGTTCAATCCCAATCATTGTTAATCTCTGACTCGTGGTTTAAACCCAGTCA-T
1 TTTTCGACTTGCGGTTCAATCCCAATCATCATTAATCTCTGACTCGTGGTTTAAACCCAGTCATT
** *
18348824 TCT-TATAGCTTTTC-GACTTGCGATTTAATTCCAGTCACTTTTATTTTTCTAACTTAC-AGTTC
66 TCTGT-TAG-TTACCTGACTTGCGATTTAATCCCAGTCACTTTTATTTTTCTAACTTACGA-TTC
* ** * *
18348886 AGTCCTCGTCATCGTTAATCTTTGACTCGTGGTTCAATCTTGGTCATTTATGTTAGTTACCTGAC
128 AGTCCTAGTCATCGTTAATCTTTGACTCGTGGTTCAATCCCGATCATTTATATTAGTTACCTGAC
* * * * * *
18348951 TTACGGTCTAATCTCAGTCTCTTTTATTTTTTTGACTTGCTGTTCAGTCTCAGTCATCATTAATC
193 TTACGGTCTAATCCCAGTCACTTTTATTTTTTTAACTTGCTATTCAATCCCAGTCATCATTAATC
*
18349016 TTTGACTCGTGGTTCAATCCCGATCATT
258 TTTGACTCGTGGTTCAATCACGATCATT
18349044 TCTATTAGTT
Statistics
Matches: 245, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
288 2 0.01
289 142 0.58
290 101 0.41
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (291 bp):
TTTTCGACTTGCGGTTCAATCCCAATCATCATTAATCTCTGACTCGTGGTTTAAACCCAGTCATT
TCTGTTAGTTACCTGACTTGCGATTTAATCCCAGTCACTTTTATTTTTCTAACTTACGATTCAGT
CCTAGTCATCGTTAATCTTTGACTCGTGGTTCAATCCCGATCATTTATATTAGTTACCTGACTTA
CGGTCTAATCCCAGTCACTTTTATTTTTTTAACTTGCTATTCAATCCCAGTCATCATTAATCTTT
GACTCGTGGTTCAATCACGATCATTCATATG
Found at i:18348996 original size:110 final size:110
Alignment explanation
Indices: 18348855--18349064 Score: 305
Period size: 110 Copynumber: 1.9 Consensus size: 110
18348845 GATTTAATTC
*
18348855 CAGTCACTTTTATTTTTCTAACTTACAGTTCAGTCCTC-GTCATCGTTAATCTTTGACTCGTGGT
1 CAGTCACTTTTATTTTTCTAACTTACAGTTCAGT-CTCAGTCATCATTAATCTTTGACTCGTGGT
** * *
18348919 TCAATCTTGGTCATTTATGTTAGTTACCTGACTTACGGTCTAATCT
65 TCAATCCCGATCATTTATATTAGTTACCTGACTTACGGTCTAATCT
* * * * *
18348965 CAGTCTCTTTTATTTTTTTGACTTGCTGTTCAGTCTCAGTCATCATTAATCTTTGACTCGTGGTT
1 CAGTCACTTTTATTTTTCTAACTTACAGTTCAGTCTCAGTCATCATTAATCTTTGACTCGTGGTT
*
18349030 CAATCCCGATCATTTCTATTAGTTACCTGACTTAC
66 CAATCCCGATCATTTATATTAGTTACCTGACTTAC
18349065 AGTTTAGTCC
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 3 0.03
110 85 0.97
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (110 bp):
CAGTCACTTTTATTTTTCTAACTTACAGTTCAGTCTCAGTCATCATTAATCTTTGACTCGTGGTT
CAATCCCGATCATTTATATTAGTTACCTGACTTACGGTCTAATCT
Found at i:18349089 original size:110 final size:110
Alignment explanation
Indices: 18348867--18349127 Score: 287
Period size: 110 Copynumber: 2.4 Consensus size: 110
18348857 GTCACTTTTA
*** ** *
18348867 TTTTTCTAACTTACAGTTCAGTCCTCGTCATCGTTAATCTTTGACTCGTGGTTCAATCTTGGTCA
1 TTTTTCTAACTTGTGGTTCAGT-CTCGTCATCGTTAATCTTTGACTCGTGGTTCAATCCCGATCA
* * * **
18348932 TTTATGTTAGTTACCTGACTTACGGTCTAATCTCAGTCTCTTTTAT
65 TTTATATTAGTTACCTGACTTACAGTCTAATCCCAGTCTCTCCTAT
* *
18348978 TTTTT-TGACTTGCT-GTTCAGTCTCAGTCATCATTAATCTTTGACTCGTGGTTCAATCCCGATC
1 TTTTTCTAACTTG-TGGTTCAGTCTC-GTCATCGTTAATCTTTGACTCGTGGTTCAATCCCGATC
* * *
18349041 ATTTCTATTAGTTACCTGACTTACAGTTTAGTCCC-GATCAT-TCCTAT
64 ATTTATATTAGTTACCTGACTTACAGTCTAATCCCAG-TC-TCTCCTAT
*
18349088 TTTTTCTAACTTGTGGTTTAGTCTCGGTCATCGTTAATCT
1 TTTTTCTAACTTGTGGTTCAGTCTC-GTCATCGTTAATCT
18349128 CTCACTTATG
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
109 4 0.03
110 87 0.70
111 34 0.27
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.45
Consensus pattern (110 bp):
TTTTTCTAACTTGTGGTTCAGTCTCGTCATCGTTAATCTTTGACTCGTGGTTCAATCCCGATCAT
TTATATTAGTTACCTGACTTACAGTCTAATCCCAGTCTCTCCTAT
Found at i:18349380 original size:72 final size:73
Alignment explanation
Indices: 18349238--18349382 Score: 170
Period size: 72 Copynumber: 2.0 Consensus size: 73
18349228 TCGTTAATCT
* * * * *
18349238 CTGACTTGTGATTTAGTCCTGGTCATTTTTATAGTTTTCTAGCTTGCGATTTAATCTCAGTCGTT
1 CTGACTTGTGATTTAATCCTAGTCACTTTTATA-TTTTCTAGCTTGCGATTTAATCCCAGTCGTC
*
18349303 TTTATTTTC
65 CTTATTTTC
* *
18349312 CTGACTTGT-AGTTTAATCCTAGTCACTTTTAT-TTTTCTCA-CTTGCGGTTTAATCCCATTCGT
1 CTGACTTGTGA-TTTAATCCTAGTCACTTTTATATTTTCT-AGCTTGCGATTTAATCCCAGTCGT
18349374 CCTTATTTT
64 CCTTATTTT
18349383 TTGACTCACA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
72 32 0.52
73 2 0.03
74 27 0.44
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (73 bp):
CTGACTTGTGATTTAATCCTAGTCACTTTTATATTTTCTAGCTTGCGATTTAATCCCAGTCGTCC
TTATTTTC
Found at i:18350778 original size:18 final size:17
Alignment explanation
Indices: 18350733--18350779 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
18350723 AAAATTTATT
* *
18350733 TTTTTTATATATTATTA
1 TTTTTTATATTTTAGTA
18350750 TTTTTGT-TATTTTAAGTA
1 TTTTT-TATATTTT-AGTA
18350768 TTTTTTATATTT
1 TTTTTTATATTT
18350780 ATGCATGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTTTATATTTTAGTA
Found at i:18351190 original size:15 final size:16
Alignment explanation
Indices: 18351150--18351190 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
18351140 CATTAATTCT
18351150 TAAATCCAAA-CCCCA
1 TAAATCCAAATCCCCA
*
18351165 TAAATCCAAATCCCTA
1 TAAATCCAAATCCCCA
18351181 -AAATCCAAAT
1 TAAATCCAAAT
18351191 TCTTAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAATCCAAATCCCCA
Found at i:18351198 original size:14 final size:14
Alignment explanation
Indices: 18351148--18351199 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
18351138 AACATTAATT
*
18351148 CTTAAATCCAAACCC
1 CTTAAATCCAAA-TC
*
18351163 CATAAATCCAAATCC
1 CTTAAATCCAAAT-C
* *
18351178 CTAAAATCCAAATT
1 CTTAAATCCAAATC
18351192 CTTAAATC
1 CTTAAATC
18351200 AAAACCCCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 7 0.23
15 23 0.77
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (14 bp):
CTTAAATCCAAATC
Found at i:18351198 original size:29 final size:28
Alignment explanation
Indices: 18351165--18351241 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
18351155 CCAAACCCCA
18351165 TAAATCCAAATCCCTAAAATCCAAATTCT
1 TAAATCCAAATCCCTAAAATCC-AATTCT
* * *
18351194 TAAAT-CAAAACCCCAAACAT-CAATTTT
1 TAAATCCAAATCCCTAAA-ATCCAATTCT
*
18351221 TAAAACCAAAAT-CCTAAAATC
1 TAAATCC-AAATCCCTAAAATC
18351242 TCCAAACTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
27 11 0.29
28 17 0.45
29 10 0.26
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (28 bp):
TAAATCCAAATCCCTAAAATCCAATTCT
Found at i:18351331 original size:30 final size:31
Alignment explanation
Indices: 18351277--18351339 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
18351267 AACCTTCCAT
* * *
18351277 ACCTTAAAATCCAAGCCTTAAAACCCTCTAA
1 ACCTTAAAATCCAAACCCTAAAACCCTCAAA
18351308 ACCTTAAAA-CCAAACCCTAAAACCCTCAAA
1 ACCTTAAAATCCAAACCCTAAAACCCTCAAA
18351338 AC
1 AC
18351340 TCAACCCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.69
31 9 0.31
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.17
Consensus pattern (31 bp):
ACCTTAAAATCCAAACCCTAAAACCCTCAAA
Found at i:18358074 original size:2 final size:2
Alignment explanation
Indices: 18358067--18358094 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18358057 AGGCATCAAC
18358067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18358095 TTGGGGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18362969 original size:30 final size:29
Alignment explanation
Indices: 18362934--18363013 Score: 101
Period size: 30 Copynumber: 2.8 Consensus size: 29
18362924 CTTACAAATA
18362934 ATATTATATTAATAAATATATATTATTAT
1 ATATTATATTAATAAATATATATTATTAT
* * *
18362963 ACTATTATATTATTTAATAAATATTATTAT
1 A-TATTATATTAATAAATATATATTATTAT
18362993 A-A-TATATTAATAAATAATATA
1 ATATTATATTAATAAAT-ATATA
18363014 AAGAATAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.26
28 5 0.12
29 1 0.02
30 26 0.60
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
ATATTATATTAATAAATATATATTATTAT
Found at i:18363005 original size:23 final size:22
Alignment explanation
Indices: 18362965--18363008 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18362955 ATTATTATAC
*
18362965 TATTATATTATTTAATAAATAT
1 TATTATAATATTTAATAAATAT
18362987 TATTATAATATATTAATAAATA
1 TATTATAATAT-TTAATAAATA
18363009 ATATAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTATAATATTTAATAAATAT
Found at i:18363072 original size:19 final size:19
Alignment explanation
Indices: 18363050--18363087 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18363040 GTATTTTTTG
18363050 TATTAACATAATATT-TTAA
1 TATTAA-ATAATATTATTAA
*
18363069 TATTAAATATTATTATTAA
1 TATTAAATAATATTATTAA
18363088 AATATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTAAATAATATTATTAA
Found at i:18363275 original size:14 final size:13
Alignment explanation
Indices: 18363251--18363277 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18363241 TAATTTTAAA
18363251 AAAATTATTTTTT
1 AAAATTATTTTTT
18363264 AAAATTATTTTTT
1 AAAATTATTTTTT
18363277 A
1 A
18363278 CAAAATAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AAAATTATTTTTT
Found at i:18379789 original size:16 final size:17
Alignment explanation
Indices: 18379768--18379799 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18379758 ATTTATTTTA
18379768 TTTTATTT-AAATAAAT
1 TTTTATTTCAAATAAAT
18379784 TTTTATTTCAAATAAA
1 TTTTATTTCAAATAAA
18379800 AGATTGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTATTTCAAATAAAT
Found at i:18381278 original size:29 final size:29
Alignment explanation
Indices: 18381226--18381289 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
18381216 AAACAAGAAA
*
18381226 AAAAAACTCAACACCAAATATGTTGATAAC
1 AAAAAACTCAACA-CAAAAATGTTGATAAC
18381256 AAAAAACTCAACA-AAAAACTGTTGATAAC
1 AAAAAACTCAACACAAAAA-TGTTGATAAC
*
18381285 GAAAA
1 AAAAA
18381290 GCTATTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 4 0.13
29 14 0.45
30 13 0.42
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (29 bp):
AAAAAACTCAACACAAAAATGTTGATAAC
Found at i:18387887 original size:5 final size:5
Alignment explanation
Indices: 18387879--18388013 Score: 57
Period size: 5 Copynumber: 25.6 Consensus size: 5
18387869 ATGACAAACC
* *
18387879 AAATA AAAT- AAATA AACATA AATTA AAATA AAATAA AAATA AAA-A TAAGTA
1 AAATA AAATA AAATA AA-ATA AAATA AAATA AAAT-A AAATA AAATA -AAATA
* * * *
18387930 GAACA AAATAA TAAATA AGAT- AAATA CAAATAA AAGATA AATCATG AAATA
1 AAATA AAAT-A -AAATA AAATA AAATA -AAAT-A AA-ATA AA--ATA AAATA
18387981 AAA-A AAA-A AAATAA ATAATA AAAGT- AAATA AAA
1 AAATA AAATA AAAT-A A-AATA AAA-TA AAATA AAA
18388014 AATTATTGGA
Statistics
Matches: 100, Mismatches: 13, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
4 17 0.17
5 42 0.42
6 27 0.27
7 14 0.14
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:18387901 original size:10 final size:9
Alignment explanation
Indices: 18387879--18388013 Score: 68
Period size: 9 Copynumber: 14.9 Consensus size: 9
18387869 ATGACAAACC
18387879 AAATAAAAT
1 AAATAAAAT
18387888 AAATAAACAT
1 AAATAAA-AT
18387898 AAATTAAAAT
1 AAA-TAAAAT
*
18387908 AAA-ATAA-
1 AAATAAAAT
18387915 AAATAAAAAT
1 AAAT-AAAAT
* * *
18387925 AAGTAGAAC
1 AAATAAAAT
*
18387934 AAA-ATAAT
1 AAATAAAAT
*
18387942 AAATAAGAT
1 AAATAAAAT
18387951 AAATACAAAT
1 AAATA-AAAT
*
18387961 -AA-AAGAT
1 AAATAAAAT
18387968 AAATCATGAAAT
1 AAAT-A--AAAT
* *
18387980 AAAAAAAAA
1 AAATAAAAT
18387989 AAAT-AAAT
1 AAATAAAAT
18387997 -AATAAAAGT
1 AAATAAAA-T
18388006 AAATAAAA
1 AAATAAAA
18388014 AATTATTGGA
Statistics
Matches: 94, Mismatches: 17, Indels: 29
0.67 0.12 0.21
Matches are distributed among these distances:
7 9 0.10
8 18 0.19
9 32 0.34
10 24 0.26
11 5 0.05
12 6 0.06
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:18387905 original size:15 final size:15
Alignment explanation
Indices: 18387879--18388013 Score: 57
Period size: 16 Copynumber: 8.5 Consensus size: 15
18387869 ATGACAAACC
18387879 AAATAAAAT-AAATA
1 AAATAAAATAAAATA
*
18387893 AACATAAATTAAAATA
1 AA-ATAAAATAAAATA
18387909 AAATAAAAATAAAA-A
1 AAAT-AAAATAAAATA
* * *
18387924 TAAGTAGAACAAAATAA
1 -AAATAAAATAAAAT-A
*
18387941 TAAATAAGAT-AAATA
1 -AAATAAAATAAAATA
*
18387956 CAAATAAAAGATAAATCATG
1 -AAAT-AAA-ATAAA--ATA
18387976 AAATAAAA-AAAA-A
1 AAATAAAATAAAATA
18387989 AAATAAATAATAAAAGT-
1 AAAT-AA-AATAAAA-TA
18388006 AAATAAAA
1 AAATAAAA
18388014 AATTATTGGA
Statistics
Matches: 92, Mismatches: 13, Indels: 31
0.68 0.10 0.23
Matches are distributed among these distances:
13 4 0.04
14 5 0.05
15 25 0.27
16 33 0.36
17 14 0.15
18 5 0.05
19 4 0.04
20 2 0.02
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (15 bp):
AAATAAAATAAAATA
Found at i:18387923 original size:17 final size:17
Alignment explanation
Indices: 18387888--18388014 Score: 50
Period size: 17 Copynumber: 7.2 Consensus size: 17
18387878 CAAATAAAAT
* *
18387888 AAATAAACAT-AAATTA
1 AAATAAAAATAAAATAA
18387904 AAAT-AAAATAAAAATAA
1 AAATAAAAAT-AAAATAA
*
18387921 AAATAAGTAGAACAAAATAA
1 AAATAA--A-AATAAAATAA
* *
18387941 TAAAT-AAGAT-AAATAC
1 -AAATAAAAATAAAATAA
18387957 AAATAAAAGATAAATCATGAA
1 AAATAAAA-ATAAA--AT-AA
*
18387978 ATAA-AAAAAAAAAATAA
1 A-AATAAAAATAAAATAA
*
18387995 ATAATAAAAGT-AAATAA
1 A-AATAAAAATAAAATAA
18388012 AAA
1 AAA
18388015 ATTATTGGAC
Statistics
Matches: 85, Mismatches: 11, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
15 8 0.09
16 13 0.15
17 25 0.29
18 10 0.12
20 15 0.18
21 12 0.14
22 2 0.02
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATAAAAATAAAATAA
Found at i:18387989 original size:25 final size:25
Alignment explanation
Indices: 18387903--18388015 Score: 75
Period size: 25 Copynumber: 4.3 Consensus size: 25
18387893 AACATAAATT
*
18387903 AAAATAAAATAAA-AATAAAAATAAGTA
1 AAAAAAAAATAAATAAT-AAAATAA--A
* * *
18387930 GAACAAAATAATAAATAAGATAAATACA
1 -AA-AAAAAAATAAATAATA-AAATAAA
* * * *
18387958 AATAAAAGATAAATCATGAAATAAA
1 AAAAAAAAATAAATAATAAAATAAA
18387983 AAAAAAAAATAAATAATAAAAGTAAA
1 AAAAAAAAATAAATAATAAAA-TAAA
*
18388009 TAAAAAA
1 AAAAAAA
18388016 TTATTGGACT
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
25 23 0.35
26 20 0.31
27 2 0.03
28 3 0.05
29 10 0.15
30 7 0.11
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (25 bp):
AAAAAAAAATAAATAATAAAATAAA
Found at i:18389562 original size:14 final size:15
Alignment explanation
Indices: 18389545--18389573 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18389535 TAAAAATTAA
18389545 TTAAATA-ATTTTAT
1 TTAAATATATTTTAT
18389559 TTAAATATATTTTAT
1 TTAAATATATTTTAT
18389574 AATTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAAATATATTTTAT
Found at i:18393521 original size:2 final size:2
Alignment explanation
Indices: 18393516--18393540 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18393506 TCTCTCTCTC
18393516 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18393541 CTTTTCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18396981 original size:66 final size:66
Alignment explanation
Indices: 18396875--18397009 Score: 216
Period size: 66 Copynumber: 2.0 Consensus size: 66
18396865 TTCACTACCC
18396875 TTTGAACCAATTAAGAGGCCAATATATGACCAAATTAAAGAGTCTGAATAAAGTAGACCAGATTG
1 TTTGAACCAATTAAGAGGCCAATATATGACCAAATTAAAGAGTCTGAATAAAGTAGACCAGATTG
18396940 A
66 A
* * * * * *
18396941 TTTGAACCAATTATGAGGCCTATGTGTGACCAAGTTAAAGAGTCTGAATAAAGTAGACTAGATTG
1 TTTGAACCAATTAAGAGGCCAATATATGACCAAATTAAAGAGTCTGAATAAAGTAGACCAGATTG
18397006 A
66 A
18397007 TTT
1 TTT
18397010 AAACTTTTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (66 bp):
TTTGAACCAATTAAGAGGCCAATATATGACCAAATTAAAGAGTCTGAATAAAGTAGACCAGATTG
A
Found at i:18399794 original size:7 final size:7
Alignment explanation
Indices: 18399784--18399825 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
18399774 TTCAAAACAA
18399784 AAAAAAT
1 AAAAAAT
18399791 -AAAAAT
1 AAAAAAT
18399797 AAAAAAT
1 AAAAAAT
18399804 AAAAACA-
1 AAAAA-AT
18399811 AATAAAAT
1 AA-AAAAT
18399819 AAAAAAT
1 AAAAAAT
18399826 CTAATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 6 0.19
7 19 0.61
8 6 0.19
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:18399802 original size:13 final size:14
Alignment explanation
Indices: 18399777--18399823 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
18399767 TCACAACTTC
18399777 AAAACAAAAAAAATA
1 AAAAC-AAAAAAATA
*
18399792 AAAA-TAAAAAATA
1 AAAACAAAAAAATA
18399805 AAAACAAATAAAATA
1 AAAACAAA-AAAATA
18399820 AAAA
1 AAAA
18399824 ATCTAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 12 0.43
14 2 0.07
15 14 0.50
ACGTcount: A:0.85, C:0.04, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAACAAAAAAATA
Found at i:18399807 original size:22 final size:22
Alignment explanation
Indices: 18399777--18399825 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
18399767 TCACAACTTC
*
18399777 AAAACAAAAA-AAATAAAAATAA
1 AAAATAAAAACAAAT-AAAATAA
18399799 AAAATAAAAACAAATAAAATAA
1 AAAATAAAAACAAATAAAATAA
18399821 AAAAT
1 AAAAT
18399826 CTAATAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.12
Consensus pattern (22 bp):
AAAATAAAAACAAATAAAATAA
Found at i:18399887 original size:10 final size:9
Alignment explanation
Indices: 18399858--18399899 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
18399848 TCGCGGCTTC
*
18399858 AAATCAAAA
1 AAATAAAAA
18399867 AAAT--AAA
1 AAATAAAAA
18399874 AAATAAAAA
1 AAATAAAAA
18399883 CAAATAAAAA
1 -AAATAAAAA
18399893 AAATAAA
1 AAATAAA
18399900 CAAACGGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.23
9 14 0.47
10 9 0.30
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (9 bp):
AAATAAAAA
Found at i:18399889 original size:17 final size:17
Alignment explanation
Indices: 18399858--18399903 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
18399848 TCGCGGCTTC
*
18399858 AAATCAAAA-AAATAAA
1 AAATAAAAACAAATAAA
18399874 AAATAAAAACAAATAAA
1 AAATAAAAACAAATAAA
18399891 AAA-AATAAACAAA
1 AAATAA-AAACAAA
18399904 CGGAATGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.11
Consensus pattern (17 bp):
AAATAAAAACAAATAAA
Found at i:18401400 original size:2 final size:2
Alignment explanation
Indices: 18401393--18401420 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18401383 CTGTGTACTC
18401393 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18401421 GGTGGTCCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18407862 original size:18 final size:18
Alignment explanation
Indices: 18407841--18407907 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
18407831 AATATTATTT
18407841 TTTAATATAAATATAAAA
1 TTTAATATAAATATAAAA
*
18407859 TTT-A-ATAAATATATAA
1 TTTAATATAAATATAAAA
*
18407875 TTAAATATATAAT-TAAAA
1 TTTAATATA-AATATAAAA
** *
18407893 AATAATATATATATA
1 TTTAATATAAATATA
18407908 TATATATATC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
16 13 0.34
17 4 0.11
18 18 0.47
19 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTAATATAAATATAAAA
Found at i:18407868 original size:16 final size:16
Alignment explanation
Indices: 18407842--18407881 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
18407832 ATATTATTTT
18407842 TTAATATAAATATAAAA
1 TTAA-ATAAATATAAAA
* *
18407859 TTTAATAAATATATAA
1 TTAAATAAATATAAAA
18407875 TTAAATA
1 TTAAATA
18407882 TATAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:18407879 original size:28 final size:29
Alignment explanation
Indices: 18407843--18407913 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
18407833 TATTATTTTT
*
18407843 TAATATAAATATAAAATTTAATAAAT-ATA
1 TAATATAAATATAAAA-TTAAAAAATAATA
*
18407872 TAAT-TAAATATATAATTAAAAAATAATA
1 TAATATAAATATAAAATTAAAAAATAATA
*
18407900 TATATATATATATA
1 TA-ATATAAATATA
18407914 TATCGAGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 8 0.22
28 15 0.42
29 6 0.17
30 7 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
TAATATAAATATAAAATTAAAAAATAATA
Found at i:18411084 original size:19 final size:19
Alignment explanation
Indices: 18411057--18411105 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
18411047 GAAAATGGAT
* *
18411057 TTTCAAAAAATCTTAAAGG
1 TTTCCAAAAATCTTAAAAG
18411076 TTTCCAAAAATCTTAAAAG
1 TTTCCAAAAATCTTAAAAG
18411095 TTTCCAAAAAT
1 TTTCCAAAAAT
18411106 AGGTATTTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (19 bp):
TTTCCAAAAATCTTAAAAG
Found at i:18412703 original size:3 final size:3
Alignment explanation
Indices: 18412695--18412742 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
18412685 AAAGGTTCTT
18412695 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18412743 CTACTACTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18413084 original size:6 final size:6
Alignment explanation
Indices: 18413073--18413099 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18413063 GTTTTCACAC
18413073 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
18413100 CAAATAAATA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:18414181 original size:16 final size:16
Alignment explanation
Indices: 18414162--18414196 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18414152 ATGGGGATAG
*
18414162 GTGCATGTAAGGGTTA
1 GTGCATATAAGGGTTA
*
18414178 GTGCGTATAAGGGTTA
1 GTGCATATAAGGGTTA
18414194 GTG
1 GTG
18414197 TAGGTTGGAG
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:0.23, C:0.06, G:0.40, T:0.31
Consensus pattern (16 bp):
GTGCATATAAGGGTTA
Found at i:18415013 original size:5 final size:5
Alignment explanation
Indices: 18414999--18415048 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
18414989 TGCAAAATGA
* *
18414999 AAAAT AAAAT GAAAT AAAA- AATAAT AGCAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AA-AAT A-AAAT AAAAT AAAAT AAAAT AAAA
18415049 AAGACTAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 2 0.05
5 31 0.82
6 5 0.13
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:18415785 original size:22 final size:22
Alignment explanation
Indices: 18415760--18415827 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 22
18415750 GTTTTATCCA
18415760 AAAGTCTTAGAGATTATGCTTG
1 AAAGTCTTAGAGATTATGCTTG
* * **
18415782 AAAGTTTTAAAGATTATGCCCG
1 AAAGTCTTAGAGATTATGCTTG
*
18415804 AAAGTCTTAGAAATTATGCTTG
1 AAAGTCTTAGAGATTATGCTTG
18415826 AA
1 AA
18415828 GGTCATATAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (22 bp):
AAAGTCTTAGAGATTATGCTTG
Found at i:18416075 original size:40 final size:40
Alignment explanation
Indices: 18415990--18416076 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
18415980 AGGTATTTGA
* * *
18415990 AAATCATTCAAAAATTTAAGATTTAGCCCATAAGTTTTGG
1 AAATCATTCAAAAATTTAAGATTTAGACCATAAGTCTTGC
*
18416030 AAATCATTCAAAGATTTAAGATTTTA-ACCA-AAGGTCTTGC
1 AAATCATTCAAAAATTTAAGA-TTTAGACCATAA-GTCTTGC
*
18416070 CAATCAT
1 AAATCAT
18416077 GTGTTCATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 2 0.05
40 34 0.85
41 4 0.10
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (40 bp):
AAATCATTCAAAAATTTAAGATTTAGACCATAAGTCTTGC
Found at i:18418044 original size:24 final size:24
Alignment explanation
Indices: 18418015--18418076 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
18418005 TCCCCTTTTC
*
18418015 CTTTTTCTTTTCTTTTGTTCTTCCT
1 CTTTTT-TTTTCTTTTATTCTTCCT
* *
18418040 CTTTTTTTTTC-TTTATTCCTCTT
1 CTTTTTTTTTCTTTTATTCTTCCT
18418063 CTTTTTTTTTCTTT
1 CTTTTTTTTTCTTT
18418077 CTTTGTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.61
24 7 0.21
25 6 0.18
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (24 bp):
CTTTTTTTTTCTTTTATTCTTCCT
Found at i:18418045 original size:20 final size:18
Alignment explanation
Indices: 18418020--18418092 Score: 69
Period size: 20 Copynumber: 3.9 Consensus size: 18
18418010 TTTTCCTTTT
*
18418020 TCTTTTCTTTTGTTCTTCC
1 TCTTTT-TTTTTTTCTTCC
*
18418039 TCTTTTTTTTTCTTTATTCC
1 TC-TTTTTTTT-TTTCTTCC
18418059 TCTTCTTTTTTTTTCTT--
1 TCTT-TTTTTTTTTCTTCC
18418076 TCTTTGTTTTTTTTCTT
1 TCTTT-TTTTTTTTCTT
18418093 TTATCAAGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 1 0.02
17 15 0.32
19 13 0.28
20 18 0.38
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (18 bp):
TCTTTTTTTTTTTCTTCC
Found at i:18418080 original size:14 final size:13
Alignment explanation
Indices: 18418016--18418094 Score: 59
Period size: 13 Copynumber: 5.8 Consensus size: 13
18418006 CCCCTTTTCC
18418016 TTTTTCTTTTCTTT
1 TTTTTCTTTT-TTT
* *
18418030 TGTTCTTCCTCTTTT
1 T-TT-TTCTTTTTTT
* *
18418045 TTTTTCTTTATTC
1 TTTTTCTTTTTTT
* *
18418058 CTCTTCTTTTTTT
1 TTTTTCTTTTTTT
*
18418071 TTCTTTCTTTGTTT
1 TT-TTTCTTTTTTT
18418085 TTTTTCTTTT
1 TTTTTCTTTT
18418095 ATCAAGATTA
Statistics
Matches: 48, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
13 23 0.48
14 14 0.29
15 6 0.12
16 5 0.10
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:18418156 original size:3 final size:3
Alignment explanation
Indices: 18418148--18418192 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
18418138 AAAGGTTCTT
18418148 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18418193 CATATTATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18418517 original size:6 final size:6
Alignment explanation
Indices: 18418477--18418502 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18418467 GTTTCCACAC
18418477 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
18418503 TACTAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Done.