Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold231
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: 1009718
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 2 of 7
Found at i:164066 original size:110 final size:112
Alignment explanation
Indices: 163905--164124 Score: 354
Period size: 110 Copynumber: 2.0 Consensus size: 112
163895 ATTGCTTGGA
* *
163905 ATGATTTATACCAAACCATTACGAAGAAAAGTTCAAATTTTTATAAAAATATTATCAATAAAAAA
1 ATGATTTATACCAAACC--TACGAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAAAAAA
*
163970 TTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCTACCATGGC
64 TTATAATTTTTTAAAAAATATTAAAGCTTGATGTGACTTCTACCATGGC
*
164019 ATGATTTATACCAAACC-A-GAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAATAAATT
1 ATGATTTATACCAAACCTACGAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAAAAAATT
* *
164082 ATAATTTTTTAAAAAATATTAAAGCTTGATGTGATTTTTACCA
66 ATAATTTTTTAAAAAATATTAAAGCTTGATGTGACTTCTACCA
164125 AACTTTTCAG
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
110 82 0.82
111 1 0.01
114 17 0.17
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (112 bp):
ATGATTTATACCAAACCTACGAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAAAAAATT
ATAATTTTTTAAAAAATATTAAAGCTTGATGTGACTTCTACCATGGC
Found at i:164246 original size:268 final size:267
Alignment explanation
Indices: 163770--164282 Score: 945
Period size: 268 Copynumber: 1.9 Consensus size: 267
163760 AAATCATTAC
163770 GAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAAAAAATTATAATTTTTTAAAAATATTA
1 GAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAAAAAATTATAATTTTTTAAAAATATTA
* *
163835 AAGTTTGATGTGACTTCTACCAAGCTTTTCAGACAAAAAATTATAATTTCGAAAAAAATTATTGC
66 AAGCTTGATGTGACTTCTACCAAACTTTTCAGACAAAAAATTATAATTTCGAAAAAAATTATTGC
163900 TTGGAATGATTTATACCAAACCATTACGAAGAAAAGTTCAAATTTTTATAAAAATATTATCAATA
131 TTGGAATGATTTATACCAAACCATTACGAAGAAAAGTTCAAATTTTTATAAAAATATTATCAATA
*
163965 AAAAATTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCTACCATGGCATGATTTATAC
196 AAAAATTATAATTTTTTAAAAAATATTAAAATTTGATGTGACTTCTACCATGGCATGATTTATAC
164030 CAAACCA
261 CAAACCA
*
164037 GAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAATAAATTATAATTTTTTAAAAAATATT
1 GAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAAAAAATTATAATTTTTT-AAAAATATT
* * *
164102 AAAGCTTGATGTGATTTTTACCAAACTTTTCAGACAAAAAATTATAATTTCGAAAAACATTATTG
65 AAAGCTTGATGTGACTTCTACCAAACTTTTCAGACAAAAAATTATAATTTCGAAAAAAATTATTG
*
164167 CTTGGCATGATTTATACCAAACCATTACGAAGAAAAGTTCAAATTTTTATAAAAATATTATCAAT
130 CTTGGAATGATTTATACCAAACCATTACGAAGAAAAGTTCAAATTTTTATAAAAATATTATCAAT
164232 AAAAAATTATAATTTTTTAAAAAATATTAAAATTTGATGTGACTTCTACCA
195 AAAAAATTATAATTTTTTAAAAAATATTAAAATTTGATGTGACTTCTACCA
164283 AACTTTTCGA
Statistics
Matches: 237, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
267 54 0.23
268 183 0.77
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (267 bp):
GAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAAAAAATTATAATTTTTTAAAAATATTA
AAGCTTGATGTGACTTCTACCAAACTTTTCAGACAAAAAATTATAATTTCGAAAAAAATTATTGC
TTGGAATGATTTATACCAAACCATTACGAAGAAAAGTTCAAATTTTTATAAAAATATTATCAATA
AAAAATTATAATTTTTTAAAAAATATTAAAATTTGATGTGACTTCTACCATGGCATGATTTATAC
CAAACCA
Found at i:164269 original size:158 final size:157
Alignment explanation
Indices: 164015--164570 Score: 889
Period size: 158 Copynumber: 3.6 Consensus size: 157
164005 ACTTCTACCA
164015 TGGCATGATTTATACCAAACC---A-GAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAA
1 TGGCATGATTTATACCAAACCATTACGAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAA
* * * *
164076 TAAATTATAATTTTTTAAAAAATATTAAAGCTTGATGTGATTTTTACCAAACTTTTCAGACAAAA
66 AAAATTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCTACCAAACTTTTCAGACAAAA
164141 AATTATAATTTCGAAAAACATTATTGCT
131 AATTATAATTTCGAAAAA-ATTATTGCT
* *
164169 TGGCATGATTTATACCAAACCATTACGAAGAAAAGTTCAAATTTTTATAAAAATATTATCAATAA
1 TGGCATGATTTATACCAAACCATTACGAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAA
*
164234 AAAATTATAATTTTTTAAAAAATATTAAAATTTGATGTGACTTCTACCAAACTTTTC-GAACAAA
66 AAAATTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCTACCAAACTTTTCAG-ACAAA
*
164298 AAATTATAATTTCAAAAAAAATTATTGCT
130 AAATTATAATTTC-GAAAAAATTATTGCT
*
164327 TGGCATGATTTATGCCAAACCATTACGAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAA
1 TGGCATGATTTATACCAAACCATTACGAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAA
*
164392 AAAATTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCCACCAAACTTTTCAGACAAAA
66 AAAATTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCTACCAAACTTTTCAGACAAAA
*
164457 AATTATAATTTCGAAAAAA--ATT-AT
131 AATTATAATTTCGAAAAAATTATTGCT
*
164481 T-GCATGATTTATACCAAACCATTACGAAGAAAAGTTAAAATTTTCAGAAAAATATTATCAATAA
1 TGGCATGATTTATACCAAACCATTACGAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAA
* *
164545 AAAGTTATAA-TTTTTGAAAAATATTA
66 AAAATTATAATTTTTTAAAAAATATTA
164571 TTAATTAACG
Statistics
Matches: 376, Mismatches: 19, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
152 15 0.04
153 70 0.19
154 23 0.06
155 3 0.01
157 8 0.02
158 251 0.67
159 6 0.02
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (157 bp):
TGGCATGATTTATACCAAACCATTACGAAGAAAAGTTAAAATTTTTAGAAAAATATTATCAATAA
AAAATTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCTACCAAACTTTTCAGACAAAA
AATTATAATTTCGAAAAAATTATTGCT
Found at i:164641 original size:214 final size:216
Alignment explanation
Indices: 164390--164850 Score: 610
Period size: 219 Copynumber: 2.1 Consensus size: 216
164380 TATTATCAAT
164390 AAAAAATTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCCACCAAACTTTTCAGACAA
1 AAAAAATTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCCACCAAACTTTTCAGA-AA
* * *
164455 AAAA-TTATAATTTCGAAAAAAATTA-TTG-CATGATTTATACCAAACCATTACGAAGAAAAGTT
65 AAAATTTATAATGTCAAAAAAAATTATTTGACATGACTTATACC-AACCATTACGAAGAAAAGTT
* * * * *
164517 AAAATTTTCAGAAAAATATTATCAA-TAAAAAGTTATAATTTTTGAAAAATATTATTAATTAACG
129 AAAATTTTCAGAAAAATACTATCAACGAAAAAATTATAATTTTTAAAAAATATTAATAATTAACG
*
164581 TGATTTGTATTAAATTATTCA-GA
194 TGATTTATATTAAATTATT-ATGA
* * ** *
164604 GAAAAAA-TATATTTTTTTAAAAAATATTAATGTTTGATGTGACTTTTACGAAACTTTTCAGAAA
1 -AAAAAATTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCCACCAAACTTTTCAGAAA
*
164668 AAAATTTATAATGTCAAAAAAAATTATTTTTTGACGTGACTTATACCAACCATTACGAAGAAAAG
65 AAAATTTATAATGTCAAAAAAAATTA---TTTGACATGACTTATACCAACCATTACGAAGAAAAG
* * * * *
164733 TTTAAATTTTCATAAAGATACTATCAACGAAAAAATTATAATTTTTAAAAAATATTAATATTTGA
127 TTAAAATTTTCAGAAAAATACTATCAACGAAAAAATTATAATTTTTAAAAAATATTAATAATTAA
*
164798 TGTGATTTATATTAAATTATTATGA
192 CGTGATTTATATTAAATTATTATGA
* *
164823 AAAAAATTAAAATTTTTAAAAAAATATT
1 AAAAAATTATAATTTTTTAAAAAATATT
164851 CAGCGGAAAA
Statistics
Matches: 213, Mismatches: 24, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
213 6 0.03
214 69 0.32
215 6 0.03
218 51 0.24
219 81 0.38
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (216 bp):
AAAAAATTATAATTTTTTAAAAAATATTAAAGTTTGATGTGACTTCCACCAAACTTTTCAGAAAA
AAATTTATAATGTCAAAAAAAATTATTTGACATGACTTATACCAACCATTACGAAGAAAAGTTAA
AATTTTCAGAAAAATACTATCAACGAAAAAATTATAATTTTTAAAAAATATTAATAATTAACGTG
ATTTATATTAAATTATTATGA
Found at i:171731 original size:15 final size:15
Alignment explanation
Indices: 171694--171775 Score: 60
Period size: 15 Copynumber: 5.2 Consensus size: 15
171684 ACTAATAAAT
171694 TTTTTTCTCTTTTTC
1 TTTTTTCTCTTTTTC
171709 TTTCTTTC-CTTTTTC
1 TTT-TTTCTCTTTTTC
*
171724 TTCTTTTCTCCCTTCTCTC
1 TT-TTTTCT--CTT-TTTC
* *
171743 TTTTTTTTTCCTTTT-
1 -TTTTTTCTCTTTTTC
*
171758 TTTTTTCTCTCTTTC
1 TTTTTTCTCTTTTTC
171773 TTT
1 TTT
171776 CTATCTCTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
14 11 0.21
15 19 0.37
16 7 0.13
17 2 0.04
18 3 0.06
19 8 0.15
20 2 0.04
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTCTCTTTTTC
Found at i:171739 original size:26 final size:24
Alignment explanation
Indices: 171695--171758 Score: 58
Period size: 26 Copynumber: 2.6 Consensus size: 24
171685 CTAATAAATT
* *
171695 TTTTTC-TCTTTTTCTTTCTTTCC
1 TTTTTCTTCTTTTTCCTTCTCTCC
*
171718 TTTTTCTTCTTTTCTCCCTTCTCTCT
1 TTTTTCTTCTTTT-T-CCTTCTCTCC
*
171744 TTTTTTTTCCTTTTT
1 TTTTTCTT-CTTTTT
171759 TTTTTCTCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 6 0.18
24 6 0.18
25 1 0.03
26 15 0.45
27 5 0.15
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTCTTCTTTTTCCTTCTCTCC
Found at i:172873 original size:15 final size:14
Alignment explanation
Indices: 172853--172882 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
172843 TGTGGAGGTA
172853 AATTTTTTTATAAAT
1 AATTTTTTT-TAAAT
172868 AATTTTTTTTAAAT
1 AATTTTTTTTAAAT
172882 A
1 A
172883 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTTTTTTAAAT
Found at i:172991 original size:32 final size:31
Alignment explanation
Indices: 172939--173017 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 31
172929 TAATAAATAA
* *
172939 AAATAAGTAATATATTAAAATTTATATTAAAT
1 AAATAATTAAAATATTAAAATTTATA-TAAAT
*
172971 AAATTATTAAAATATTAAAATTTATATAAAT
1 AAATAATTAAAATATTAAAATTTATATAAAT
*
173002 ATATAATTAAAA-ATTA
1 AAATAATTAAAATATTA
173018 TTTTGATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 4 0.10
31 15 0.36
32 23 0.55
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (31 bp):
AAATAATTAAAATATTAAAATTTATATAAAT
Found at i:173001 original size:18 final size:18
Alignment explanation
Indices: 172950--173003 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
172940 AATAAGTAAT
*
172950 ATATTAAAATTTATATTA
1 ATATTAAAATTTATATAA
172968 A-A-T-AAA-TTAT-TAAA
1 ATATTAAAATTTATAT-AA
172982 ATATTAAAATTTATATAA
1 ATATTAAAATTTATATAA
173000 ATAT
1 ATAT
173004 ATAATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 12
0.69 0.02 0.29
Matches are distributed among these distances:
13 1 0.03
14 6 0.21
15 4 0.14
16 2 0.07
17 4 0.14
18 11 0.38
19 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATTAAAATTTATATAA
Found at i:173324 original size:10 final size:11
Alignment explanation
Indices: 173305--173360 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
173295 TAAACATAAC
173305 ATAATATAAAA
1 ATAATATAAAA
173316 ATAAT-TAAAA
1 ATAATATAAAA
*
173326 ATTAATGTAATATA
1 A-TAATATAA-A-A
* *
173340 AAAATATAAAC
1 ATAATATAAAA
173351 ATAATATAAA
1 ATAATATAAA
173361 TATATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 6 0.16
11 18 0.49
12 4 0.11
13 7 0.19
14 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:173341 original size:27 final size:26
Alignment explanation
Indices: 173295--173393 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 26
173285 TTTTTTTATA
* *
173295 TAAACATAACATAATATAAAAATAAT
1 TAAAAATAATATAATATAAAAATAAT
*
173321 TAAAAATTAATGTAATATAAAAAT-A-
1 TAAAAA-TAATATAATATAAAAATAAT
* *
173346 TAAACATAATATAAATATATAAATATAT
1 TAAAAATAATAT-AATATAAAAATA-AT
* * *
173374 TAAAATTTATATAAAATAAA
1 TAAAAATAATATAATATAAA
173394 TTATTAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
24 5 0.09
25 15 0.26
26 6 0.11
27 22 0.39
28 9 0.16
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (26 bp):
TAAAAATAATATAATATAAAAATAAT
Found at i:173355 original size:19 final size:19
Alignment explanation
Indices: 173307--173368 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
173297 AACATAACAT
173307 AATATAAAAATAAT-TAAA
1 AATATAAAAATAATATAAA
**
173325 AAT-T-AATGTAATATAAA
1 AATATAAAAATAATATAAA
*
173342 AATATAAACATAATATAAA
1 AATATAAAAATAATATAAA
*
173361 TATATAAA
1 AATATAAA
173369 TATATTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.17
17 8 0.22
18 4 0.11
19 18 0.50
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AATATAAAAATAATATAAA
Found at i:173386 original size:20 final size:19
Alignment explanation
Indices: 173361--173425 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
173351 ATAATATAAA
173361 TATATAAATATATTAAAATT
1 TATAT-AATATATTAAAATT
173381 TATATAA-A-A-T-AAA-T
1 TATATAATATATTAAAATT
*
173395 TAT-TAATATTTTAAAATT
1 TATATAATATATTAAAATT
173413 TATATAAATATAT
1 TATAT-AATATAT
173426 AATATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 3 0.08
14 5 0.14
15 3 0.08
16 2 0.06
17 4 0.11
18 5 0.14
19 3 0.08
20 11 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATAATATATTAAAATT
Found at i:173409 original size:32 final size:33
Alignment explanation
Indices: 173351--173439 Score: 119
Period size: 32 Copynumber: 2.7 Consensus size: 33
173341 AAATATAAAC
* * *
173351 ATAATATAAATATATAAATATATTAAAATTTAT
1 ATAAAATAAATATATTAATATTTTAAAATTTAT
173384 ATAAAATAAAT-TATTAATATTTTAAAATTTAT
1 ATAAAATAAATATATTAATATTTTAAAATTTAT
173416 ATAAATATATAATATATTAA-ATTT
1 ATAAA-ATA-AATATATTAATATTT
173440 AACTATAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
32 24 0.48
33 13 0.26
34 7 0.14
35 6 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATAAAATAAATATATTAATATTTTAAAATTTAT
Found at i:173449 original size:27 final size:27
Alignment explanation
Indices: 173354--173405 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 27
173344 TATAAACATA
173354 ATATAAATATATAAATATATTAAAATTT
1 ATATAAATATAT-AATATATTAAAATTT
*
173382 ATATAAA-ATA-AAT-TATTAATATTT
1 ATATAAATATATAATATATTAAAATTT
173406 TAAAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 10 0.43
25 3 0.13
27 3 0.13
28 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
ATATAAATATATAATATATTAAAATTT
Found at i:173723 original size:21 final size:21
Alignment explanation
Indices: 173694--173755 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
173684 AGTTTATTAA
*
173694 ATATGAAATTAATTTAATTTT
1 ATATTAAATTAATTTAATTTT
* *
173715 ATATTAAATTTATTTAATTAT
1 ATATTAAATTAATTTAATTTT
* * *
173736 AT-TTTAATTGATTTATTTTT
1 ATATTAAATTAATTTAATTTT
173756 TTAATTTATA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATATTAAATTAATTTAATTTT
Found at i:173772 original size:28 final size:28
Alignment explanation
Indices: 173722--173779 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
173712 TTTATATTAA
*
173722 ATTTATTTAATTATATTTTAATTGATTT
1 ATTTATTTAATTATATTTAAATTGATTT
* *
173750 ATTTTTTTAATT-TATATTAAATTTATTT
1 ATTTATTTAATTATAT-TTAAATTGATTT
173778 AT
1 AT
173780 ATGATTATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (28 bp):
ATTTATTTAATTATATTTAAATTGATTT
Found at i:173773 original size:24 final size:24
Alignment explanation
Indices: 173705--173779 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 24
173695 TATGAAATTA
173705 ATTTAATTTTATATTAAATTTATTT
1 ATTTAA-TTTATATTAAATTTATTT
* *
173730 AATTATATTT-TAATT-GATTTATTT
1 ATTTA-ATTTAT-ATTAAATTTATTT
*
173754 TTTTAATTTATATTAAATTTATTT
1 ATTTAATTTATATTAAATTTATTT
173778 AT
1 AT
173780 ATGATTATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
23 7 0.17
24 22 0.55
25 10 0.25
26 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (24 bp):
ATTTAATTTATATTAAATTTATTT
Found at i:173855 original size:16 final size:16
Alignment explanation
Indices: 173807--173862 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
173797 ATTAAATAAT
*
173807 TAATTTTATATTAAATA
1 TAATTTTATA-TAATTA
* *
173824 T-ATTTAATTATGATTA
1 TAATTTTA-TATAATTA
173840 TAATTTTATATAATTA
1 TAATTTTATATAATTA
173856 TAATTTT
1 TAATTTT
173863 TTTAAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 24 0.75
17 8 0.25
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TAATTTTATATAATTA
Found at i:173990 original size:16 final size:16
Alignment explanation
Indices: 173972--174008 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
173962 AAATAACGTA
173972 TTTATTATAATTATAAT
1 TTTA-TATAATTATAAT
173989 TTTATATAATTATAACT
1 TTTATATAATTATAA-T
174006 TTT
1 TTT
174009 TAAGACGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATATAATTATAAT
Found at i:174083 original size:37 final size:40
Alignment explanation
Indices: 174032--174106 Score: 120
Period size: 37 Copynumber: 1.9 Consensus size: 40
174022 ATTTGAAGTA
*
174032 ATTTATATTCAATTTTTT-AAAAATT-T-ATTTTTTTATG
1 ATTTATATTAAATTTTTTAAAAAATTATAATTTTTTTATG
174069 ATTTATATTAAATTTTTTAAAAAATTATAATTTTTTTA
1 ATTTATATTAAATTTTTTAAAAAATTATAATTTTTTTA
174107 AAAAATAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 17 0.50
38 7 0.21
39 1 0.03
40 9 0.26
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (40 bp):
ATTTATATTAAATTTTTTAAAAAATTATAATTTTTTTATG
Found at i:174102 original size:18 final size:18
Alignment explanation
Indices: 174075--174112 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
174065 TATGATTTAT
174075 ATTAAA-TTTTTTAAAAA
1 ATTAAATTTTTTTAAAAA
174092 ATTATAATTTTTTTAAAAA
1 ATTA-AATTTTTTTAAAAA
174111 AT
1 AT
174113 AATATTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 2 0.11
19 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTAAATTTTTTTAAAAA
Found at i:174224 original size:61 final size:61
Alignment explanation
Indices: 174129--174276 Score: 156
Period size: 61 Copynumber: 2.4 Consensus size: 61
174119 ACTTAATGTG
174129 AATAATATTATAATTTAAAAAAATATAAATTATTTGACGTGACCTACACCAAA-TTTTCA-AA
1 AATAAT-TTATAATTTAAAAAAA-ATAAATTATTTGACGTGACCTACACCAAATTTTTCAGAA
* * * * * * *
174190 AATAATTTGTAATTTAAAAAAAATGATTCGTATTTGATGTGACTTATACGAAATTTTTCAGAA
1 AATAATTTATAATTTAAAAAAAATAAAT--TATTTGACGTGACCTACACCAAATTTTTCAGAA
* * *
174253 AAAAAATTATAATTTTAAAAAAAT
1 AATAATTTATAATTTAAAAAAAAT
174277 TATTAAATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.06
60 15 0.21
61 25 0.35
62 6 0.08
63 22 0.31
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (61 bp):
AATAATTTATAATTTAAAAAAAATAAATTATTTGACGTGACCTACACCAAATTTTTCAGAA
Found at i:174287 original size:18 final size:17
Alignment explanation
Indices: 174252--174287 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
174242 ATTTTTCAGA
*
174252 AAAAAAATTATAATTTT
1 AAAAAAATTATAAATTT
174269 AAAAAAATTATTAAATTT
1 AAAAAAATTA-TAAATTT
174287 A
1 A
174288 TACAACAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAAAATTATAAATTT
Found at i:174501 original size:25 final size:23
Alignment explanation
Indices: 174465--174512 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
174455 AAATATATAT
* *
174465 CAAAAAGAATATATAGCAGAAAAC
1 CAAAAAAAATATATACCA-AAAAC
174489 CAAAAAAATATATATACCAAAAAC
1 CAAAAAAA-ATATATACCAAAAAC
174513 ACTTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.65, C:0.15, G:0.06, T:0.15
Consensus pattern (23 bp):
CAAAAAAAATATATACCAAAAAC
Found at i:175180 original size:10 final size:10
Alignment explanation
Indices: 175064--175211 Score: 78
Period size: 10 Copynumber: 15.0 Consensus size: 10
175054 ATAAAAATTA
175064 ATATAAATAT
1 ATATAAATAT
*
175074 GATA-CAA-AT
1 -ATATAAATAT
175083 ATATAAATAT
1 ATATAAATAT
* *
175093 -TTTAAATAG
1 ATATAAATAT
*
175102 ATATAAATAA
1 ATATAAATAT
*
175112 ATAATTAATAT
1 AT-ATAAATAT
*
175123 ATAAAAATTTAT
1 ATATAAA--TAT
* *
175135 ACATAAATTTAC
1 ATATAAA--TAT
175147 ATATAAAT-T
1 ATATAAATAT
175156 -TAT-AATAT
1 ATATAAATAT
*
175164 -TTTAAATAT
1 ATATAAATAT
*
175173 ATAAAAATAT
1 ATATAAATAT
*
175183 -TATAAATAC
1 ATATAAATAT
*
175192 ATATATATAT
1 ATATAAATAT
175202 ATATAAATAT
1 ATATAAATAT
175212 TAAAAAATAA
Statistics
Matches: 104, Mismatches: 23, Indels: 21
0.70 0.16 0.14
Matches are distributed among these distances:
7 3 0.03
8 9 0.09
9 23 0.22
10 40 0.38
11 11 0.11
12 18 0.17
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (10 bp):
ATATAAATAT
Found at i:175295 original size:25 final size:26
Alignment explanation
Indices: 175248--175311 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
175238 ATTTTAACAC
* *
175248 AAATATATAAATATAAAAAA-TTTAC
1 AAATATAAAAATATAAAAAATTTTAA
* * *
175273 TAATATAAAAATATATAATATTTTAA
1 AAATATAAAAATATAAAAAATTTTAA
175299 AAATATAAAAATA
1 AAATATAAAAATA
175312 ACATCAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 16 0.50
26 16 0.50
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
AAATATAAAAATATAAAAAATTTTAA
Found at i:175470 original size:24 final size:24
Alignment explanation
Indices: 175443--175488 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
175433 AATTTATATA
175443 ATTAAAAATAAATA-TATATAAAAT
1 ATTAAAAA-AAATATTATATAAAAT
* *
175467 ATTATATAAAATATTATATAAA
1 ATTAAAAAAAATATTATATAAA
175489 TCATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATTAAAAAAAATATTATATAAAAT
Found at i:175473 original size:16 final size:16
Alignment explanation
Indices: 175419--175474 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
175409 ATTGATATAT
175419 ATTA-ATATATTAAAA
1 ATTATATATATTAAAA
175434 ATT-TATATAATTAAAA
1 ATTATATAT-ATTAAAA
*
175450 A-TAAATATATATAAAA
1 ATTATATATAT-TAAAA
175466 TATTATATA
1 -ATTATATA
175475 AAATATTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 10 0.30
16 17 0.52
17 1 0.03
18 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTATATATATTAAAA
Found at i:175474 original size:12 final size:12
Alignment explanation
Indices: 175452--175488 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
175442 AATTAAAAAT
175452 AAATA-TATATA
1 AAATATTATATA
175463 AAATATTATATA
1 AAATATTATATA
175475 AAATATTATATA
1 AAATATTATATA
175487 AA
1 AA
175489 TCATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATATTATATA
Found at i:175518 original size:11 final size:10
Alignment explanation
Indices: 175497--175536 Score: 55
Period size: 9 Copynumber: 4.0 Consensus size: 10
175487 AATCATAATT
*
175497 TTTTTCCTTC
1 TTTTTCTTTC
175507 TTTTTCCTTTC
1 TTTTT-CTTTC
175518 TTTTTCTTT-
1 TTTTTCTTTC
175527 TTTTTCTTTC
1 TTTTTCTTTC
175537 CCTCTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 9 0.33
10 9 0.33
11 9 0.33
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:175530 original size:20 final size:20
Alignment explanation
Indices: 175497--175536 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
175487 AATCATAATT
175497 TTTTTCCTTCTTTTTCCTTTC
1 TTTTTCCTTCTTTTT-CTTTC
*
175518 TTTTT-CTTTTTTTTCTTTC
1 TTTTTCCTTCTTTTTCTTTC
175537 CCTCTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTCCTTCTTTTTCTTTC
Found at i:175542 original size:23 final size:23
Alignment explanation
Indices: 175516--175559 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
175506 CTTTTTCCTT
175516 TCTTTTTCTTTTTT-TTCTTTCCC
1 TCTTTTT-TTTTTTCTTCTTTCCC
175539 TCTTTTTTTTTTTCTTCTTTC
1 TCTTTTTTTTTTTCTTCTTTC
175560 TCTAATTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (23 bp):
TCTTTTTTTTTTTCTTCTTTCCC
Found at i:175557 original size:15 final size:16
Alignment explanation
Indices: 175495--175558 Score: 62
Period size: 15 Copynumber: 4.1 Consensus size: 16
175485 TAAATCATAA
*
175495 TTTTTTTCCTTCTT-T
1 TTTTTTTCTTTCTTCT
**
175510 TTCCTTTCTTT-TTCT
1 TTTTTTTCTTTCTTCT
*
175525 TTTTTTTCTTTCCCTCT
1 TTTTTTTCTTT-CTTCT
175542 TTTTTTT-TTTCTTCT
1 TTTTTTTCTTTCTTCT
175557 TT
1 TT
175559 CTCTAATTCC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
14 2 0.05
15 24 0.62
16 3 0.08
17 10 0.26
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTCTTTCTTCT
Found at i:175789 original size:21 final size:20
Alignment explanation
Indices: 175765--175821 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
175755 TTTAGGTAAA
175765 ATTATAATTTTTAAAAAATGT
1 ATTATAATTTTTAAAAAAT-T
175786 ATTA-AATTTTTTAAAAAATT
1 ATTATAA-TTTTTAAAAAATT
* *
175806 ATAAT-TTTTTTAAAAA
1 ATTATAATTTTTAAAAA
175822 TTACTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 10 0.31
20 6 0.19
21 16 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTATAATTTTTAAAAAATT
Found at i:175830 original size:18 final size:18
Alignment explanation
Indices: 175762--175824 Score: 83
Period size: 18 Copynumber: 3.4 Consensus size: 18
175752 TTTTTTAGGT
175762 AAAATTATAA-TTTTTAA
1 AAAATTATAATTTTTTAA
175779 AAAATGTATTAAATTTTTTAA
1 AAAAT-TA-T-AATTTTTTAA
*
175800 AAAATTATAATTTTTTTA
1 AAAATTATAATTTTTTAA
175818 AAAATTA
1 AAAATTA
175825 CTATTTAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
17 5 0.12
18 18 0.44
19 2 0.05
20 4 0.10
21 12 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAAATTATAATTTTTTAA
Found at i:179661 original size:17 final size:18
Alignment explanation
Indices: 179634--179667 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
179624 AAAAATAATA
179634 TTTTGATAATATCTAAAC
1 TTTTGATAATATCTAAAC
*
179652 TTTT-ATAATATTTAAA
1 TTTTGATAATATCTAAA
179668 ATTATATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTTGATAATATCTAAAC
Found at i:179688 original size:52 final size:48
Alignment explanation
Indices: 179627--179745 Score: 139
Period size: 52 Copynumber: 2.4 Consensus size: 48
179617 AATATTTAAA
* * * *
179627 AATAATATTTTGATAATATCTAAACTTTTATAATATTTAAAATTATATTGTT
1 AATAATATTTTAATAATATCTAAA-TCTAATAATATCTAAAA--ATATT-TT
*
179679 AATAATATTTTAATAATATCTAAATCTAATTATATCTAAAAATATTTT
1 AATAATATTTTAATAATATCTAAATCTAATAATATCTAAAAATATTTT
179727 AATAATATATTTAAATAAT
1 AATAATAT-TTT-AATAAT
179746 TATTTTCGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
48 10 0.17
49 8 0.13
50 6 0.10
51 13 0.22
52 23 0.38
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (48 bp):
AATAATATTTTAATAATATCTAAATCTAATAATATCTAAAAATATTTT
Found at i:179738 original size:13 final size:13
Alignment explanation
Indices: 179720--179783 Score: 53
Period size: 13 Copynumber: 5.0 Consensus size: 13
179710 ATATCTAAAA
179720 ATATTTTAATAAT
1 ATATTTTAATAAT
*
179733 ATATTTAAATAAT
1 ATATTTTAATAAT
**
179746 -TATTTTCGT-AT
1 ATATTTTAATAAT
*
179757 -TATTTCAAAATAAT
1 ATATTT--TAATAAT
179771 ATATTTTAATAAT
1 ATATTTTAATAAT
179784 CATAAAACAA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
11 7 0.18
12 6 0.15
13 19 0.49
14 2 0.05
15 5 0.13
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (13 bp):
ATATTTTAATAAT
Found at i:181950 original size:2 final size:2
Alignment explanation
Indices: 181943--181967 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
181933 TCATTCTGCC
181943 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
181968 CACCGAATGG
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:182649 original size:2 final size:2
Alignment explanation
Indices: 182642--182669 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
182632 GGTCCTTAAA
182642 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
182670 TCATGCTTTC
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:184069 original size:21 final size:21
Alignment explanation
Indices: 184044--184089 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
184034 AATTTCAAAA
184044 TAAATTGAATATGAAAATAT-T
1 TAAATT-AATATGAAAATATCT
* *
184065 TAAATTAATTTGATAATATCT
1 TAAATTAATATGAAAATATCT
184086 TAAA
1 TAAA
184090 AACTTTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (21 bp):
TAAATTAATATGAAAATATCT
Found at i:185247 original size:20 final size:19
Alignment explanation
Indices: 185222--185288 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 19
185212 AACTAATAAA
185222 ATAAAATTATAAGTTTTATT
1 ATAAAATTATAA-TTTTATT
*
185242 ATAAAAGATATATAATTATATT
1 AT-AAA-AT-TATAATTTTATT
* *
185264 A-AAAAATATAAATTTTATG
1 ATAAAATTAT-AATTTTATT
185283 ATAAAA
1 ATAAAA
185289 AATTATTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 3 0.08
19 9 0.24
20 9 0.24
21 3 0.08
22 9 0.24
23 5 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
ATAAAATTATAATTTTATT
Found at i:185281 original size:21 final size:21
Alignment explanation
Indices: 185224--185291 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
185214 CTAATAAAAT
* *
185224 AAAATTATAAGTTTTAT-TATA
1 AAAAATATAAATTTTATAT-TA
*
185245 AAAGATATATAA--TTATATTA
1 AAAAATATA-AATTTTATATTA
185265 AAAAATATAAATTTTATGA-TA
1 AAAAATATAAATTTTAT-ATTA
185286 AAAAAT
1 AAAAAT
185292 TATTCGAGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.05
20 14 0.37
21 20 0.53
22 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAAATATAAATTTTATATTA
Found at i:185289 original size:20 final size:20
Alignment explanation
Indices: 185222--185289 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
185212 AACTAATAAA
* *
185222 ATAAAATTATAAGTTTTATT
1 ATAAAAATATAAATTTTATT
*
185242 ATAAAAGATATATAATTATATT
1 ATAAAA-ATATA-AATTTTATT
*
185264 A-AAAAATATAAATTTTATG
1 ATAAAAATATAAATTTTATT
185283 ATAAAAA
1 ATAAAAA
185290 ATTATTCGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 8 0.20
20 16 0.40
21 8 0.20
22 8 0.20
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
ATAAAAATATAAATTTTATT
Found at i:190047 original size:29 final size:30
Alignment explanation
Indices: 189988--190073 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 30
189978 TTAACTAAAA
*
189988 ATGAATGAATGATAATCT--TTTTTAAAGGTT
1 ATGAATGAATGA-AATATAATTTTTAAA-GTT
*
190018 ATTAATG-AT-AAATATAATTTTTATAAGTT
1 ATGAATGAATGAAATATAATTTTTA-AAGTT
* *
190047 ATGGATGAATGAAATGTAATTTTTAAA
1 ATGAATGAATGAAATATAATTTTTAAA
190074 AGTGTTACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
27 4 0.09
28 1 0.02
29 16 0.35
30 12 0.26
31 13 0.28
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (30 bp):
ATGAATGAATGAAATATAATTTTTAAAGTT
Found at i:190440 original size:23 final size:23
Alignment explanation
Indices: 190410--190457 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
190400 AAATTAAATT
*
190410 ATTAATTGAGTATAGAACTAGAA
1 ATTAATTGAGTATAGAACTAAAA
190433 ATTAATTGAGTATAGAACTAAAA
1 ATTAATTGAGTATAGAACTAAAA
190456 AT
1 AT
190458 GCCAACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (23 bp):
ATTAATTGAGTATAGAACTAAAA
Found at i:191087 original size:19 final size:18
Alignment explanation
Indices: 191053--191090 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
191043 GATAAAGTTA
191053 ATCATATTCTTGATCATT
1 ATCATATTCTTGATCATT
191071 ATCATCATTCCTT-ATCATT
1 ATCAT-ATT-CTTGATCATT
191090 A
1 A
191091 ACATGCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 10 0.56
20 3 0.17
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (18 bp):
ATCATATTCTTGATCATT
Found at i:195919 original size:3 final size:3
Alignment explanation
Indices: 195911--195942 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
195901 GTAATGAAAT
195911 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
195943 GTTTATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:211681 original size:2 final size:2
Alignment explanation
Indices: 211674--211706 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
211664 AATAAAAGAG
*
211674 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
211707 GATACATTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:215539 original size:18 final size:16
Alignment explanation
Indices: 215499--215547 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 16
215489 AGTAAGAATC
215499 AAACTTTT-ATTTTTT
1 AAACTTTTGATTTTTT
215514 AAACTTTTAGAGTTTTTT
1 AAACTTTT-GA-TTTTTT
215532 AATA-TTTTGATTTTTT
1 AA-ACTTTTGATTTTTT
215548 TTTCTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.27
16 6 0.20
17 3 0.10
18 12 0.40
19 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (16 bp):
AAACTTTTGATTTTTT
Found at i:218916 original size:21 final size:20
Alignment explanation
Indices: 218883--218944 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
218873 TTAAGGTGAC
218883 ATTTATATTTTAAAATATTTA
1 ATTTATATTTTAAAAT-TTTA
218904 ATTTA-ATTATTAAAATTTT-
1 ATTTATATT-TTAAAATTTTA
*
218923 ATTT-T-GTTTAAAATTTTA
1 ATTTATATTTTAAAATTTTA
218941 ATTT
1 ATTT
218945 TTAGTCGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 10 0.27
18 5 0.14
19 4 0.11
20 6 0.16
21 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTATATTTTAAAATTTTA
Found at i:220248 original size:26 final size:26
Alignment explanation
Indices: 220213--220266 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
220203 TTTGCTAGTA
* *
220213 AATATGTAG-ATCAATTATATAAATAC
1 AATATGTAGAATC-ATAATAAAAATAC
*
220239 AATATTTAGAATCATAATAAAAATAC
1 AATATGTAGAATCATAATAAAAATAC
220265 AA
1 AA
220267 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.31
Consensus pattern (26 bp):
AATATGTAGAATCATAATAAAAATAC
Found at i:220271 original size:12 final size:13
Alignment explanation
Indices: 220254--220286 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
220244 TTAGAATCAT
*
220254 AATAAAAAT-ACA
1 AATAAAAATAAAA
220266 AATAAAAATAAAA
1 AATAAAAATAAAA
220279 AATAAAAA
1 AATAAAAA
220287 AACTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:220754 original size:33 final size:32
Alignment explanation
Indices: 220717--220794 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
220707 TTATAAGATA
*
220717 AATTAAAATATAACAAAAAATAATTTAAAAAAT
1 AATTAAAATATAAC-AAAAATAATTCAAAAAAT
* * * *
220750 AATTAAAACATGACAAATATAGTTCAAAAAAT
1 AATTAAAATATAACAAAAATAATTCAAAAAAT
220782 AA-TATAAATATAA
1 AATTA-AAATATAA
220795 TTTTTAATCC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
31 2 0.05
32 23 0.62
33 12 0.32
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (32 bp):
AATTAAAATATAACAAAAATAATTCAAAAAAT
Found at i:220757 original size:22 final size:22
Alignment explanation
Indices: 220705--220757 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
220695 AAATTATGTG
* *
220705 AATTATAAGATAAATTAAAATAT
1 AATTA-AAAATAAATTAAAAAAT
** *
220728 AACAAAAAATAATTTAAAAAAT
1 AATTAAAAATAAATTAAAAAAT
220750 AATTAAAA
1 AATTAAAA
220758 CATGACAAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
AATTAAAAATAAATTAAAAAAT
Found at i:227210 original size:25 final size:25
Alignment explanation
Indices: 227182--227243 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
227172 TATATTAAAT
*
227182 TTTAAATAA-ATAAAAAATTTAATTA
1 TTTAAATAATATAAAAAA-TTAATCA
**
227207 TTTATTTAATATAAAAAATTAATCA
1 TTTAAATAATATAAAAAATTAATCA
227232 -TTAAATATATAT
1 TTTAAATA-ATAT
227244 CAACTAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 5 0.17
25 17 0.57
26 8 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTAAATAATATAAAAAATTAATCA
Found at i:227861 original size:30 final size:31
Alignment explanation
Indices: 227817--227883 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
227807 CTTAAAAATC
*
227817 AATATATATAATTTACTTAAATAAAATATAA-
1 AATATATATAATTTAATT-AATAAAATATAAT
*
227848 AATATAT-TAATTTAATTAATGAAATATAAT
1 AATATATATAATTTAATTAATAAAATATAAT
227878 AATATA
1 AATATA
227884 AAAAATTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 11 0.33
30 15 0.45
31 7 0.21
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (31 bp):
AATATATATAATTTAATTAATAAAATATAAT
Found at i:228087 original size:23 final size:22
Alignment explanation
Indices: 228060--228104 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
228050 AAAATGGACT
228060 ATTATATGACCATGACACTAACA
1 ATTATATGACCATGAC-CTAACA
* * *
228083 ATTATTTTACCATGGCCTAACA
1 ATTATATGACCATGACCTAACA
228105 TGCTACATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (22 bp):
ATTATATGACCATGACCTAACA
Found at i:231239 original size:3 final size:3
Alignment explanation
Indices: 231231--231273 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
231221 CTAAAATGAA
231231 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
231274 CTAGCATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:233595 original size:32 final size:32
Alignment explanation
Indices: 233559--233648 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 32
233549 AATTTAGGAA
*
233559 TAATTATGTCCAACATTCATCAAGTTTATAAG
1 TAATTATGTCCAACATTCATCAAATTTATAAG
* * * *
233591 TAATTTTGTTCAATATTCATCAAATTTATGAG
1 TAATTATGTCCAACATTCATCAAATTTATAAG
* * *
233623 TCATTATGT-CTA-ATTCATTAAATTTA
1 TAATTATGTCCAACATTCATCAAATTTA
233649 CAATTAGTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 13 0.27
31 2 0.04
32 34 0.69
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (32 bp):
TAATTATGTCCAACATTCATCAAATTTATAAG
Found at i:234674 original size:2 final size:2
Alignment explanation
Indices: 234669--234708 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
234659 GCATGTGTGG
* *
234669 AT AT AT AC AT AC 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 AT AT AT AT AT AT
234709 GAAAGCAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:234731 original size:128 final size:127
Alignment explanation
Indices: 234569--234934 Score: 637
Period size: 128 Copynumber: 2.9 Consensus size: 127
234559 TTTACAAAAC
*
234569 ATATATATATATAT-AAGCCATAGTTTGTTTGTTTAACTAACAATATTTTTATAGTAATTAGAGT
1 ATATATATATATATAAAGCAATAGTTTGTTTGTTTAACTAACAATATTTTTATAGTAATTAGAGT
234633 TGAAATTGATAGTAGGTGAAAAGAAAGCATGTGTGGATATATACATACATATATATATATAT
66 TGAAATTGATAGTAGGTGAAAAGAAAGCATGTGTGGATATATACATACATATATATATATAT
*
234695 ATATATATATATATGAAAGCAATAGTTTGTTTGTTTAACTAACAATATTTTTATAGTAATTAGAA
1 ATATATATATATAT-AAAGCAATAGTTTGTTTGTTTAACTAACAATATTTTTATAGTAATTAGAG
* * *
234760 TTGAAATTGATAGTAAGTGGAAAGGAAGCATGTGTGGATATATACATACATATATATATATAT
65 TTGAAATTGATAGTAGGTGAAAAGAAAGCATGTGTGGATATATACATACATATATATATATAT
*
234823 ATATATATATATATATAAGCAATAGTTTGTTTGTTTAACTATCAATATTTTTATAGTAATTAGAG
1 ATATATATATATATA-AAGCAATAGTTTGTTTGTTTAACTAACAATATTTTTATAGTAATTAGAG
*
234888 TTGAAATTGATAGTAGGT-AAAAAAAAGCATGTGTGGATATATACATA
65 TTGAAATTGATAGTAGGTGAAAAGAAAGCATGTGTGGATATATACATA
234935 TTAGTTGATG
Statistics
Matches: 226, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
126 14 0.06
127 27 0.12
128 185 0.82
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (127 bp):
ATATATATATATATAAAGCAATAGTTTGTTTGTTTAACTAACAATATTTTTATAGTAATTAGAGT
TGAAATTGATAGTAGGTGAAAAGAAAGCATGTGTGGATATATACATACATATATATATATAT
Found at i:234802 original size:2 final size:2
Alignment explanation
Indices: 234797--234839 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
234787 GCATGTGTGG
* *
234797 AT AT AT AC AT AC AT 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 AT AT AT AT AT AT AT
234839 A
1 A
234840 AGCAATAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:236013 original size:6 final size:6
Alignment explanation
Indices: 236004--236046 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
235994 AAAAAGAAAA
* *
236004 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAAAT AAAGAT G
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT G
236047 GAAATGAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.16
Consensus pattern (6 bp):
GAAGAT
Found at i:236027 original size:18 final size:18
Alignment explanation
Indices: 235999--236055 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
235989 AAGAAAAAAA
235999 GAAAA-GAAGATGAAGAT
1 GAAAATGAAGATGAAGAT
*
236016 GAAGATGAAGATGAAGAT
1 GAAAATGAAGATGAAGAT
*
236034 GAAAATAAAGATGGAA-AT
1 GAAAATGAAGAT-GAAGAT
236052 GAAA
1 GAAA
236056 CTAGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.11
18 28 0.80
19 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAATGAAGATGAAGAT
Found at i:240113 original size:27 final size:27
Alignment explanation
Indices: 240074--240127 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
240064 TTTCAGGCTA
*
240074 GGTATGATTGGATGCCTATTAAAACCT
1 GGTATGATCGGATGCCTATTAAAACCT
240101 GGTATGATCGGATGCCTATTAAAACCT
1 GGTATGATCGGATGCCTATTAAAACCT
240128 ATGTCTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (27 bp):
GGTATGATCGGATGCCTATTAAAACCT
Found at i:241828 original size:18 final size:18
Alignment explanation
Indices: 241805--241840 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
241795 GAAATAGTGG
241805 TATGAGCATCACAAACTC
1 TATGAGCATCACAAACTC
*
241823 TATGAGCATCACGAACTC
1 TATGAGCATCACAAACTC
241841 ATTTATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (18 bp):
TATGAGCATCACAAACTC
Found at i:243434 original size:19 final size:19
Alignment explanation
Indices: 243410--243455 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
243400 TGATACATTC
243410 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
*
243429 TATCGATACAAAATTTATG
1 TATCGATACAAAACTTATG
243448 TATCGATA
1 TATCGATA
243456 TATTTACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (19 bp):
TATCGATACAAAACTTATG
Found at i:248354 original size:28 final size:28
Alignment explanation
Indices: 248280--249262 Score: 623
Period size: 32 Copynumber: 32.9 Consensus size: 28
248270 GCTTCTAAAA
*
248280 AAAGGGTGCCACTAACTTATGTGGGCTTTG
1 AAAGGGTGCCACTGAC-T-TGTGGGCTTTG
* *
248310 AAAGAGGATACCACTGACTTGTAGGCTTTG
1 AAAG-GG-TGCCACTGACTTGTGGGCTTTG
* * *
248340 AAGGGGTACCACTGACTTGTGGGCTGTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
248368 AAGGGGTGCCACTGACTTGTAGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
248396 AAAAGAGTTACCACCGACTTGTGTGGGCTTTG
1 -AAAG-GGTGCCACTGAC-T-TGTGGGCTTTG
*
248428 AAAGGGTGCCACCGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
*
248456 AAAGGGTATGCCACTAACTTGTGGGCTTTG
1 AAAGGG--TGCCACTGACTTGTGGGCTTTG
*
248486 AAAGGGTGCCACTGACTTGTGGACTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
**
248514 AAAGAATGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
248542 AAAGGGTGCCATTGATTTATGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
248570 AAAGGGTATGCCACCGACTTGTGGCCTTTG
1 AAAGGG--TGCCACTGACTTGTGGGCTTTG
* * * *
248600 AAAGGATGCCACTAACTCGTGGTCTTTTG
1 AAAGGGTGCCACTGACTTGTGGGC-TTTG
* *
248629 -AAGAGATGCCACTGACTTGTGGGCTTTAA
1 AAAG-GGTGCCACTGACTTGTGGGCTTT-G
* *
248658 AAAGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAG-GGTGCCACTGAC-T-TGTGGGCTTTG
*
248689 AAAAGGTGCCACTGACTTGTGGGCTTTTG
1 AAAGGGTGCCACTGACTTGTGGGC-TTTG
* *
248718 -AAGAGATGACACTGACTTGTGGGCTTTG
1 AAAG-GGTGCCACTGACTTGTGGGCTTTG
* *
248746 AAAAGAGTTGCCACCGACTTGTGTGGGCTTTG
1 -AAAG-GGTGCCACTGAC-T-TGTGGGCTTTG
* *
248778 AGAAGGATGCCACTGACTTGTGGGCTTTC
1 A-AAGGGTGCCACTGACTTGTGGGCTTTG
* * * *
248807 AAAAGATGCCAC-CACTTGTAGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
248834 AAATAAGTTGCCA-TCGACTTGTGTGGGCTTTG
1 -AA-AGGGTGCCACT-GAC-T-TGTGGGCTTTG
* * **
248866 AAATGGGTTACAACCAACTTATGTGGGCTTTG
1 AAA-GGG-TGCCACTGAC-T-TGTGGGCTTTG
**
248898 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA-GGG-TGCCACTGAC-T-TGTGGGCTTTG
*
248930 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-GGG-TGCCACTGAC-T-TGTGGGCTTTG
*
248962 AAATGGGTTGCCACCGACTTGTGTGGTCTTTG
1 AAA-GGG-TGCCACTGACTTGTG-GG-CTTTG
* *
248994 AAATGAGTTGCCA-TCGACTTGTGTGGGCTTTC
1 AAA-G-GGTGCCACT-GAC-T-TGTGGGCTTTG
* * * **
249026 AAATGAGTTACCACCGACTTGTGTGGGCTTAA
1 AAA-G-GGTGCCACTGAC-T-TGTGGGCTTTG
249058 AAAGGGGTGCCACTGACTTGTAAGGGCTTTG
1 AAA-GGGTGCCACTGACTTGT--GGGCTTTG
* *
249089 AAATGGGTTGCCACCGACTTATGTGGG-TGTTC
1 AAA-GGG-TGCCACTGAC-T-TGTGGGCT-TTG
* * **
249121 AAATGAGTTGCCACCGACTTGTGTGTGCTTAAA
1 AAA-G-GGTGCCACTGACTTGTG-G-GCTT-TG
* *
249154 AAAGAGTGCCACTGACTTGTAGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* * **
249182 GAAGGGTGTCACTGACTTGT-GGCTTAA
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
249209 AAAGGATGCCA-TGAAATTGTGGACTTTG
1 AAAGGGTGCCACTG-ACTTGTGGGCTTTG
* *
249237 GAAGGTTGCCACTGACTTGTGGGCTT
1 AAAGGGTGCCACTGACTTGTGGGCTT
249263 AAAAAAGATG
Statistics
Matches: 784, Mismatches: 116, Indels: 108
0.78 0.12 0.11
Matches are distributed among these distances:
26 2 0.00
27 30 0.04
28 221 0.28
29 78 0.10
30 135 0.17
31 68 0.09
32 233 0.30
33 10 0.01
34 7 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (28 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:248638 original size:29 final size:29
Alignment explanation
Indices: 248299--248832 Score: 336
Period size: 28 Copynumber: 18.3 Consensus size: 29
248289 CACTAACTTA
*
248299 TGTGGGC-TTTGAAAGAGGATACCACTGACT
1 TGTGGGCTTTTG-AAGA-GATGCCACTGACT
* * * *
248329 TGTAGGC-TTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTTGAAGAGATGCCACTGACT
* * *
248357 TGTGGGC-TGTGAAGGGGTGCCACTGACT
1 TGTGGGCTTTTGAAGAGATGCCACTGACT
* * * *
248385 TGTAGGC-TTTGAAAAGAGTTACCACCGACTT
1 TGTGGGCTTTTG--AAGAGATGCCACTGAC-T
* *
248416 GTGTGGGC-TTTGAA-AGGGTGCCACCGACT
1 -TGTGGGCTTTTGAAGA-GATGCCACTGACT
* *
248445 TGTGGGC-TTTGAAAGGGTATGCCACTAACT
1 TGTGGGCTTTTG-AAGAG-ATGCCACTGACT
*
248475 TGTGGGC-TTTGAA-AGGGTGCCACTGACT
1 TGTGGGCTTTTGAAGA-GATGCCACTGACT
*
248503 TGTGGAC-TTTGAA-AGAATGCCACTGACT
1 TGTGGGCTTTTGAAGAG-ATGCCACTGACT
* * *
248531 TGTGGGC-TTTGAA-AGGGTGCCATTGATT
1 TGTGGGCTTTTGAAGA-GATGCCACTGACT
* * *
248559 TATGGGC-TTTGAAAGGGTATGCCACCGACT
1 TGTGGGCTTTTG-AAGAG-ATGCCACTGACT
* *
248589 TGT-GGCCTTTGAA-AGGATGCCACTAACT
1 TGTGGGCTTTTGAAGA-GATGCCACTGACT
* *
248617 CGTGGTCTTTTGAAGAGATGCCACTGACT
1 TGTGGGCTTTTGAAGAGATGCCACTGACT
** * *
248646 TGTGGGCTTTAAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTT-TGAAGAGATGCCACTGAC-T
* *
248677 GTGTGGGC-TTTGAAAAGGTGCCACTGACT
1 -TGTGGGCTTTTGAAGAGATGCCACTGACT
*
248706 TGTGGGCTTTTGAAGAGATGACACTGACT
1 TGTGGGCTTTTGAAGAGATGCCACTGACT
* *
248735 TGTGGGC-TTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTTG--AAGAGATGCCACTGAC-T
*
248766 GTGTGGGCTTTGAGAAG-GATGCCACTGACT
1 -TGTGGGCTTT-TGAAGAGATGCCACTGACT
* * *
248796 TGTGGGC-TTTCAAAAGATGCCAC-CACT
1 TGTGGGCTTTTGAAGAGATGCCACTGACT
*
248823 TGTAGGCTTT
1 TGTGGGCTTT
248833 GAAATAAGTT
Statistics
Matches: 407, Mismatches: 67, Indels: 62
0.76 0.12 0.12
Matches are distributed among these distances:
27 12 0.03
28 158 0.39
29 82 0.20
30 110 0.27
31 15 0.04
32 27 0.07
33 2 0.00
34 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTTGAAGAGATGCCACTGACT
Found at i:249274 original size:28 final size:28
Alignment explanation
Indices: 249129--249313 Score: 106
Period size: 28 Copynumber: 6.6 Consensus size: 28
249119 TCAAATGAGT
*
249129 TGCCACCGACTTGTGTGTGCTTAAAAAAGA
1 TGCCACTGACTTGTG-G-GCTTAAAAAAGA
* *** * *
249159 GTGCCACTGACTTGTAGGCTTTGGAAGGG
1 -TGCCACTGACTTGTGGGCTTAAAAAAGA
* *
249188 TGTCACTGACTTGT-GGCTTAAAAAGGA
1 TGCCACTGACTTGTGGGCTTAAAAAAGA
* * *** * *
249215 TGCCA-TGAAATTGTGGACTTTGGAAGGT
1 TGCCACTG-ACTTGTGGGCTTAAAAAAGA
249243 TGCCACTGACTTGTGGGCTTAAAAAAGA
1 TGCCACTGACTTGTGGGCTTAAAAAAGA
** * * *
249271 TGCCACAAAGTTGTAGACTT-AAAAAGA
1 TGCCACTGACTTGTGGGCTTAAAAAAGA
* *
249298 TGCCACGGAGTTGTGG
1 TGCCACTGACTTGTGG
249314 ACTTTAAAGG
Statistics
Matches: 117, Mismatches: 34, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
26 2 0.02
27 38 0.32
28 54 0.46
29 9 0.08
30 1 0.01
31 13 0.11
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTAAAAAAGA
Found at i:249290 original size:56 final size:55
Alignment explanation
Indices: 249127--249290 Score: 186
Period size: 55 Copynumber: 2.9 Consensus size: 55
249117 GTTCAAATGA
* * * *
249127 GTTGCCACCGACTTGTGTGTGCTTAAAAAAGAGTGCCACTGACTTGTAGGCTTTGGAAG
1 GTTGCCACTGACTTGTG-G-GCTTAAAAAAGA-TGCCAC-AAATTGTAGACTTTGGAAG
* * * * *
249186 GGTGTCACTGACTTGT-GGCTTAAAAAGGATGCCATGAAATTGTGGACTTTGGAAG
1 GTTGCCACTGACTTGTGGGCTTAAAAAAGATGCCA-CAAATTGTAGACTTTGGAAG
249241 GTTGCCACTGACTTGTGGGCTTAAAAAAGATGCCACAAAGTTGTAGACTT
1 GTTGCCACTGACTTGTGGGCTTAAAAAAGATGCCACAAA-TTGTAGACTT
249291 AAAAAGATGC
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
55 37 0.42
56 37 0.42
57 1 0.01
59 13 0.15
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (55 bp):
GTTGCCACTGACTTGTGGGCTTAAAAAAGATGCCACAAATTGTAGACTTTGGAAG
Found at i:249302 original size:27 final size:27
Alignment explanation
Indices: 249198--249564 Score: 306
Period size: 27 Copynumber: 13.4 Consensus size: 27
249188 TGTCACTGAC
* * *
249198 TTGTGG-CTTAAAAAGGATGCCATGAAA
1 TTGTGGACTTAAAAA-GATGCCACGGAG
** * * * *
249225 TTGTGGACTTTGGAAGGTTGCCACTGAC
1 TTGTGGAC-TTAAAAAGATGCCACGGAG
* **
249253 TTGTGGGCTTAAAAAAGATGCCACAAAG
1 TTGTGGACTT-AAAAAGATGCCACGGAG
*
249281 TTGTAGACTTAAAAAGATGCCACGGAG
1 TTGTGGACTTAAAAAGATGCCACGGAG
* * * * * *
249308 TTGTGGACTTTAAAGGGTGCGATGAAG
1 TTGTGGACTTAAAAAGATGCCACGGAG
* *
249335 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAAGATGCCACGGAG
*
249362 TTGTGGACTTTAAAAGAATGCCACGGAG
1 TTGTGGACTTAAAAAG-ATGCCACGGAG
** *
249390 TTGTGGACTTGAAACGGATCCCACGGAG
1 TTGTGGACTT-AAAAAGATGCCACGGAG
* * *
249418 TTATGGACTTAAAAAGGTGCCACAGAG
1 TTGTGGACTTAAAAAGATGCCACGGAG
* *
249445 TTGTGGACTTAAAAGGATGCCACAGAG
1 TTGTGGACTTAAAAAGATGCCACGGAG
** * *
249472 TTGTAAACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAAGATGCCACGGAG
* *
249499 -TGATGGACTTTAAAAAAATGCCACAGAG
1 TTG-TGGAC-TTAAAAAGATGCCACGGAG
*
249527 TTGTGGACTTTAAAAGAGTGCCACGGAG
1 TTGTGGACTTAAAAAGA-TGCCACGGAG
*
249555 TTGTAGACTT
1 TTGTGGACTT
249565 TGAAAAGAAA
Statistics
Matches: 270, Mismatches: 61, Indels: 17
0.78 0.18 0.05
Matches are distributed among these distances:
26 2 0.01
27 149 0.55
28 110 0.41
29 9 0.03
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (27 bp):
TTGTGGACTTAAAAAGATGCCACGGAG
Found at i:249564 original size:137 final size:137
Alignment explanation
Indices: 249265--249564 Score: 392
Period size: 137 Copynumber: 2.2 Consensus size: 137
249255 GTGGGCTTAA
** * * * *
249265 AAAAGA-TGCCACAAAGTTGTAGACTTAAAAAGATGCCACGGAGTTGTGGACTTTAAAGGGTGCG
1 AAAAGAGTGCCACGGAGTTGTAGACTTAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGATGCC
* ** * *
249329 ATGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGT
66 AAGAAGTTGTAAACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAATGCCACAGAGTTGT
249394 GGACTTG
131 GGACTTG
* * * * *
249401 AAACG-GATCCCACGGAGTTATGGACTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGATGC
1 AAAAGAG-TGCCACGGAGTTGTAGACTTAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGATGC
249465 CACAG-AGTTGTAAACTTAAAAGGGTGCCACGGAG-TGATGGACTTTAAAAAAATGCCACAGAGT
65 CA-AGAAGTTGTAAACTTAAAAGGGTGCCACGGAGTTG-TGGACTTTAAAAAAATGCCACAGAGT
*
249528 TGTGGACTTT
128 TGTGGACTTG
249538 AAAAGAGTGCCACGGAGTTGTAGACTT
1 AAAAGAGTGCCACGGAGTTGTAGACTT
249565 TGAAAAGAAA
Statistics
Matches: 138, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
136 6 0.04
137 130 0.94
138 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (137 bp):
AAAAGAGTGCCACGGAGTTGTAGACTTAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGATGCC
AAGAAGTTGTAAACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAATGCCACAGAGTTGT
GGACTTG
Found at i:264661 original size:26 final size:26
Alignment explanation
Indices: 264575--264661 Score: 66
Period size: 29 Copynumber: 3.1 Consensus size: 26
264565 TGATCAAGTT
*
264575 AAAATTAATTAAAATTTTATAGAAATATGA
1 AAAATTAA-TAATATTTTATA-AAA-AT-A
* * * *
264605 ATAATAAATAATATTTAAAAATAAATGTA
1 AAAATTAATAATATTTTATAA-AAA--TA
264634 AAAATTAATAATATTTTATAAAAATA
1 AAAATTAATAATATTTTATAAAAATA
264660 AA
1 AA
264662 TATTTGTCTA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
26 4 0.09
28 5 0.11
29 29 0.64
30 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (26 bp):
AAAATTAATAATATTTTATAAAAATA
Found at i:265266 original size:23 final size:25
Alignment explanation
Indices: 265230--265276 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
265220 TTTAAGTTTG
*
265230 AGTTATTTTAAATT-AAG-TATTTA
1 AGTTATTTCAAATTCAAGTTATTTA
*
265253 AGTTATTTCGAATTCAAGTTATTT
1 AGTTATTTCAAATTCAAGTTATTT
265277 CGAATTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 3 0.15
25 5 0.25
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (25 bp):
AGTTATTTCAAATTCAAGTTATTTA
Found at i:265273 original size:16 final size:16
Alignment explanation
Indices: 265252--265282 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
265242 TTAAGTATTT
265252 AAGTTATTTCGAATTC
1 AAGTTATTTCGAATTC
265268 AAGTTATTTCGAATT
1 AAGTTATTTCGAATT
265283 TGGATTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (16 bp):
AAGTTATTTCGAATTC
Found at i:267082 original size:34 final size:34
Alignment explanation
Indices: 267036--267252 Score: 280
Period size: 34 Copynumber: 6.4 Consensus size: 34
267026 GTAAAAACCA
*
267036 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
267070 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
267104 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
267138 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
267171 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
267205 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
267238 CCATTTAATCAACAA
1 CCATTTAATCAACAA
267253 AAAGTGTTTT
Statistics
Matches: 161, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
33 44 0.27
34 115 0.71
35 2 0.01
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:267150 original size:68 final size:67
Alignment explanation
Indices: 267034--267252 Score: 321
Period size: 67 Copynumber: 3.3 Consensus size: 67
267024 TGGTAAAAAC
* * *
267034 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
267099 AT
66 AT
* * *
267101 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
267166 AAT
65 AAT
* * * * * *
267169 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
267234 AT
66 AT
267236 CACCATTTAATCAACAA
1 CACCATTTAATCAACAA
267253 AAAGTGTTTT
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 74 0.55
68 61 0.45
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:267833 original size:23 final size:25
Alignment explanation
Indices: 267807--267857 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
267797 CATGACAAAA
*
267807 ACACAACATAGAAAAT-A-ATTAAT
1 ACACAACATAAAAAATAATATTAAT
267830 ACACAACATAAAAAATAATATTAAT
1 ACACAACATAAAAAATAATATTAAT
267855 ACA
1 ACA
267858 ATGCAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 15 0.60
24 1 0.04
25 9 0.36
ACGTcount: A:0.63, C:0.14, G:0.02, T:0.22
Consensus pattern (25 bp):
ACACAACATAAAAAATAATATTAAT
Found at i:268480 original size:15 final size:15
Alignment explanation
Indices: 268460--268502 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
268450 AATTTTTTTT
268460 CTTTTTCTTTCTTTC
1 CTTTTTCTTTCTTTC
*
268475 CTTTTTCTTT-TTTT
1 CTTTTTCTTTCTTTC
**
268489 CTCCTTCTTTCTTT
1 CTTTTTCTTTCTTT
268503 TTTTCAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
CTTTTTCTTTCTTTC
Found at i:268496 original size:25 final size:24
Alignment explanation
Indices: 268452--268506 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
268442 GAATACATAA
*
268452 TTTTTTTTCTTTTTCTTTCTTTCC
1 TTTTTTTTCTTTTTCCTTCTTTCC
268476 TTTTTCTTT-TTTTCTCCTTCTTT-C
1 TTTTT-TTTCTTTT-TCCTTCTTTCC
268500 TTTTTTT
1 TTTTTTT
268507 CAACTCTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.07
24 15 0.54
25 11 0.39
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTTTTCTTTTTCCTTCTTTCC
Found at i:268501 original size:18 final size:17
Alignment explanation
Indices: 268452--268507 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 17
268442 GAATACATAA
268452 TTTTTTT-T-CTTTTTC
1 TTTTTTTCTCCTTTTTC
*
268467 -TTTCTT-TCCTTTTTC
1 TTTTTTTCTCCTTTTTC
268482 TTTTTTTCTCCTTCTTTC
1 TTTTTTTCTCCTT-TTTC
268500 TTTTTTTC
1 TTTTTTTC
268508 AACTCTTCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 6 0.17
15 7 0.20
16 5 0.14
17 5 0.14
18 12 0.34
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTCTCCTTTTTC
Found at i:269184 original size:15 final size:17
Alignment explanation
Indices: 269161--269236 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 17
269151 AGATTTTTAT
*
269161 AAATTTAAATTA-A-AA
1 AAATATAAATTATATAA
269176 AAATATAAATTATATAA
1 AAATATAAATTATATAA
269193 AAATTATAAAATTATATATA
1 AAA-TAT-AAATTATATA-A
269213 AAATTATAAAATTATATATA
1 AAA-TAT-AAATTATATA-A
269233 AAAT
1 AAAT
269237 TAATTTAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
15 11 0.20
16 1 0.02
17 5 0.09
18 3 0.05
19 11 0.20
20 24 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATATAAATTATATAA
Found at i:269202 original size:28 final size:27
Alignment explanation
Indices: 269171--269228 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
269161 AAATTTAAAT
*
269171 TAAAA-AAATATAAATTATATAAAAATTA
1 TAAAATAAATATAAAAT-TAT-AAAATTA
*
269199 TAAAATTATATATAAAATTATAAAATTA
1 TAAAA-TAAATATAAAATTATAAAATTA
269227 TA
1 TA
269229 TATAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 14 0.54
29 3 0.12
30 9 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAAATAAATATAAAATTATAAAATTA
Found at i:269205 original size:8 final size:8
Alignment explanation
Indices: 269167--269228 Score: 51
Period size: 8 Copynumber: 8.0 Consensus size: 8
269157 TTATAAATTT
*
269167 AAATTAAA
1 AAATTATA
*
269175 AAAATATA
1 AAATTATA
*
269183 AATTATATAA
1 AAAT-TAT-A
269193 AAATTATA
1 AAATTATA
269201 AAATTAT-
1 AAATTATA
269208 --A-TATA
1 AAATTATA
269213 AAATTATA
1 AAATTATA
269221 AAATTATA
1 AAATTATA
269229 TATAAAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
4 3 0.07
5 1 0.02
7 1 0.02
8 28 0.65
9 6 0.14
10 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATTATA
Found at i:269214 original size:12 final size:12
Alignment explanation
Indices: 269186--269238 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 12
269176 AAATATAAAT
269186 TATATAAAA--A
1 TATATAAAATTA
269196 T-TATAAAATTA
1 TATATAAAATTA
269207 TATAT-AAA--A
1 TATATAAAATTA
269216 T-TATAAAATTA
1 TATATAAAATTA
269227 TATATAAAATTA
1 TATATAAAATTA
269239 ATTTAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
8 3 0.08
9 12 0.33
10 1 0.03
11 7 0.19
12 13 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TATATAAAATTA
Found at i:269252 original size:21 final size:20
Alignment explanation
Indices: 269182--269238 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
269172 AAAAAAATAT
269182 AAATTATATA-AAAATTATA
1 AAATTATATATAAAATTATA
269201 AAATTATATATAAAATTATA
1 AAATTATATATAAAATTATA
269221 AAATTATATATAAAATTA
1 AAATTATATATAAAATTA
269239 ATTTAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 10 0.27
20 27 0.73
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTATATATAAAATTATA
Found at i:272811 original size:15 final size:15
Alignment explanation
Indices: 272793--272822 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
272783 TTTAATTAAA
272793 TTAAACTTCTTACTT
1 TTAAACTTCTTACTT
272808 TTAAACTTCTTACTT
1 TTAAACTTCTTACTT
272823 ATACATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAACTTCTTACTT
Found at i:273478 original size:8 final size:7
Alignment explanation
Indices: 273451--273475 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
273441 AATATCAAAA
273451 TTAATTT
1 TTAATTT
273458 TTAATTT
1 TTAATTT
273465 TTAATTT
1 TTAATTT
273472 TTAA
1 TTAA
273476 ATTGATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTAATTT
Found at i:273728 original size:23 final size:24
Alignment explanation
Indices: 273679--273731 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
273669 TTTTATATGT
* * *
273679 ATTTTATTTATTTAATATTTAAAA
1 ATTTTAGTTATTAAATACTTAAAA
*
273703 ATTTTAGTTATTAAATACTT-ATA
1 ATTTTAGTTATTAAATACTTAAAA
273726 ATTTTA
1 ATTTTA
273732 AAAATGTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTAGTTATTAAATACTTAAAA
Found at i:274739 original size:17 final size:17
Alignment explanation
Indices: 274714--274753 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
274704 ATTCATATTG
*
274714 TATTAATATTATTTTTTA
1 TATT-ATATTATATTTTA
274732 TATTATATTATATTTTA
1 TATTATATTATATTTTA
274749 -ATTAT
1 TATTAT
274754 TTTTCATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 12 0.57
18 4 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATATTATATTTTA
Found at i:275457 original size:27 final size:27
Alignment explanation
Indices: 275419--275471 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
275409 CTGTGCCGTC
* *
275419 AATTTTGAAATTTAATTTGAAACAGTA
1 AATTATGAAATTCAATTTGAAACAGTA
*
275446 AATTATGAAATTCAATTTGAACCAGT
1 AATTATGAAATTCAATTTGAAACAGT
275472 GAAGGTTGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (27 bp):
AATTATGAAATTCAATTTGAAACAGTA
Found at i:280906 original size:10 final size:10
Alignment explanation
Indices: 280891--280941 Score: 63
Period size: 10 Copynumber: 5.3 Consensus size: 10
280881 TTTTGTTGAG
280891 TTTATATTAT
1 TTTATATTAT
280901 TTTATATTA-
1 TTTATATTAT
280910 -TT-TATTAT
1 TTTATATTAT
280918 TTTATATTAT
1 TTTATATTAT
*
280928 ATTTTTATTAT
1 -TTTATATTAT
280939 TTT
1 TTT
280942 TTATGTATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
7 5 0.14
8 2 0.06
9 2 0.06
10 18 0.50
11 9 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATATTAT
Found at i:280917 original size:17 final size:17
Alignment explanation
Indices: 280895--280927 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
280885 GTTGAGTTTA
280895 TATTATTTTATATTATT
1 TATTATTTTATATTATT
280912 TATTATTTTATATTAT
1 TATTATTTTATATTAT
280928 ATTTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTATTTTATATTATT
Found at i:280922 original size:22 final size:21
Alignment explanation
Indices: 280892--280941 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
280882 TTTGTTGAGT
* *
280892 TTATATTATTTTATATTATTTA
1 TTATTTTATATTATATT-TTTA
280914 TTATTTTATATTATATTTTTA
1 TTATTTTATATTATATTTTTA
280935 TTATTTT
1 TTATTTT
280942 TTATGTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATTTTATATTATATTTTTA
Found at i:283390 original size:10 final size:10
Alignment explanation
Indices: 283375--283425 Score: 58
Period size: 9 Copynumber: 5.6 Consensus size: 10
283365 TTAATTAATA
283375 ATATTTTATT
1 ATATTTTATT
*
283385 ATATTTTATA
1 ATATTTTATT
283395 ATA-TTT-TT
1 ATATTTTATT
283403 ATA-TTTATT
1 ATATTTTATT
283412 -TATTTTATT
1 ATATTTTATT
283421 -TATTT
1 ATATTT
283426 GATATTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
8 9 0.24
9 16 0.43
10 12 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATATTTTATT
Found at i:283406 original size:18 final size:20
Alignment explanation
Indices: 283372--283425 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 20
283362 AACTTAATTA
283372 ATAATATTTTATTATATTTT
1 ATAATATTTTATTATATTTT
283392 ATAATA-TTT-TTATA-TTT
1 ATAATATTTTATTATATTTT
*
283409 AT-TTATTTTATT-TATTT
1 ATAATATTTTATTATATTT
283426 GATATTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 2 0.07
17 10 0.33
18 9 0.30
19 3 0.10
20 6 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATAATATTTTATTATATTTT
Found at i:283430 original size:24 final size:27
Alignment explanation
Indices: 283379--283442 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 27
283369 TTAATAATAT
*
283379 TTTATTATATTTTATAATATTTTTATA
1 TTTATTATATTTTATAATATTTTGATA
*
283406 TTTATT-TATTTTAT-TTA-TTTGATA
1 TTTATTATATTTTATAATATTTTGATA
*
283430 TTTA-TAAATTTTA
1 TTTATTATATTTTA
283443 GATATTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 1 0.03
24 16 0.48
25 2 0.06
26 8 0.24
27 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTATTATATTTTATAATATTTTGATA
Found at i:283448 original size:24 final size:24
Alignment explanation
Indices: 283403--283448 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
283393 TAATATTTTT
** **
283403 ATATTTATTTATTTTATTTATTTG
1 ATATTTATAAATTTTAGATATTTG
283427 ATATTTATAAATTTTAGATATT
1 ATATTTATAAATTTTAGATATT
283449 AAATATCTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATAAATTTTAGATATTTG
Found at i:283969 original size:13 final size:13
Alignment explanation
Indices: 283919--284022 Score: 55
Period size: 13 Copynumber: 8.4 Consensus size: 13
283909 ATAAATATCG
283919 TAATATTTAT--T
1 TAATATTTATAAT
283930 TAATAATTT-TAA-
1 TAAT-ATTTATAAT
* * *
283942 TAGTTTTTATTAT
1 TAATATTTATAAT
283955 TAATATTTATAAT
1 TAATATTTATAAT
283968 TAATATTTA-ATAT
1 TAATATTTATA-AT
283981 T-A-A-TTATAA-
1 TAATATTTATAAT
283990 TAATATTTATTATAT
1 TAATATTTA-TA-AT
* *
284005 TTATAATTATAAT
1 TAATATTTATAAT
*
284018 AAATA
1 TAATA
284023 AATATGATAT
Statistics
Matches: 70, Mismatches: 10, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
9 1 0.01
10 5 0.07
11 11 0.16
12 14 0.20
13 29 0.41
14 3 0.04
15 7 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (13 bp):
TAATATTTATAAT
Found at i:283990 original size:6 final size:6
Alignment explanation
Indices: 283961--284055 Score: 51
Period size: 6 Copynumber: 16.5 Consensus size: 6
283951 TTATTAATAT
* *
283961 TTATAA TTA-ATA TT-TAA -TATTAA TTATAA TAAT-A TT-T-A TTATAT
1 TTATAA TTATA-A TTATAA TTA-TAA TTATAA TTATAA TTATAA TTATAA
* * * * *
284005 TTATAA TTATAA TAAATAA ATATGA -TATAA TTAAAA TTATAT TTATAA
1 TTATAA TTATAA T-TATAA TTATAA TTATAA TTATAA TTATAA TTATAA
284053 TTA
1 TTA
284056 CATTTTAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 18
0.68 0.13 0.18
Matches are distributed among these distances:
4 5 0.07
5 9 0.13
6 47 0.70
7 6 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (6 bp):
TTATAA
Found at i:283995 original size:15 final size:15
Alignment explanation
Indices: 283975--284019 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
283965 AATTAATATT
283975 TAATATTAATTATAA
1 TAATATTAATTATAA
*
283990 TAATATTTATTAT-A
1 TAATATTAATTATAA
*
284004 T-TTA-TAATTATAA
1 TAATATTAATTATAA
284017 TAA
1 TAA
284020 ATAAATATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
12 6 0.25
13 4 0.17
14 2 0.08
15 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATATTAATTATAA
Found at i:284857 original size:12 final size:12
Alignment explanation
Indices: 284823--284863 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
284813 TTGTGCGAGT
284823 AGAAGAGGAAGA
1 AGAAGAGGAAGA
284835 AGAAGCA-GAAGA
1 AGAAG-AGGAAGA
284847 AGAAGAGGAAGA
1 AGAAGAGGAAGA
*
284859 GGAAG
1 AGAAG
284864 TCCAGGCTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 24 0.92
13 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.41, T:0.00
Consensus pattern (12 bp):
AGAAGAGGAAGA
Found at i:287450 original size:3 final size:3
Alignment explanation
Indices: 287442--287467 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
287432 TACCCACAGA
287442 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
287468 AACGATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:289172 original size:175 final size:169
Alignment explanation
Indices: 288950--289450 Score: 533
Period size: 175 Copynumber: 2.9 Consensus size: 169
288940 AACTTTCATG
* *
288950 TAAAATATAATAGTTTCTCAAGC-TAAAAAAATTATTTTACATAATTTTAGATTTTTAAATTTTT
1 TAAAATATGATAGTTTCTTAAGCAT-AAAAAATTATTTTACATAATTTTAGATTTTTAAATTTTT
*
289014 AAATATTTAACATATAATTTTAGATATTTTATTAATAAAATATATTTTCGAGTCAAAATATTATG
65 AAATATTTAACA-ATAATTTTAGATATTTTAATAATAAAATATATTTTCGAGT-AAAA-ATTATG
*
289079 AAATAATAAGTTTCAAAGAAAAAATGTAAATTGACAATTTCATAT
127 AAATAATAAGTTT-AAA-AAAAAATATAAATTGACAATTTCATAT
* *
289124 TAAAATATGACAGTTTCTTAAGCATAAAACAATTATTTTACATAATTTTAGATTTTAAAAATTTT
1 TAAAATATGATAGTTTCTTAAGCATAAAA-AATTATTTTACATAATTTTAGATTTT-TAAATTTT
** ** *
289189 TAAATATTT-ACAAGGTAATTTTAGATATTTTAATAATAAAATGCATTTACTAAATTAAAAATTT
64 TAAATATTTAACAA--TAATTTTAGATATTTTAATAATAAAATATATTT--TCGAGTAAAAA-TT
** * * * * **
289253 ACAAAATTACAAGTCTT-AAAAAAAATATATATTGACATTTTGGTAT
124 ATGAAATAATAAGT-TTAAAAAAAAATATAAATTGACAATTTCATAT
* * * * ** *
289299 TAGAATATGATAATTTCTTAAGTATAAAAATTTATTTTTTATAATTTTA-AATTTTAATATTTTT
1 TAAAATATGATAGTTTCTTAAGCATAAAAAATTATTTTACATAATTTTAGATTTTTAA-ATTTTT
* * *
289363 AAATATTTATCGAATAATTATAAATATTTTAATAATAAAATATATTTATCGAGTAAAAAATTCAT
65 AAATATTTAAC-AATAATTTTAGATATTTTAATAATAAAATATATTT-TCGAGT-AAAAATT-AT
*
289428 GAAATAATAAATTTAAAAAAAAA
126 GAAATAATAAGTTTAAAAAAAAA
289451 ATATCTTAAA
Statistics
Matches: 270, Mismatches: 42, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
172 9 0.03
173 69 0.26
174 43 0.16
175 79 0.29
176 49 0.18
177 16 0.06
178 5 0.02
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (169 bp):
TAAAATATGATAGTTTCTTAAGCATAAAAAATTATTTTACATAATTTTAGATTTTTAAATTTTTA
AATATTTAACAATAATTTTAGATATTTTAATAATAAAATATATTTTCGAGTAAAAATTATGAAAT
AATAAGTTTAAAAAAAAATATAAATTGACAATTTCATAT
Found at i:289386 original size:21 final size:20
Alignment explanation
Indices: 289362--289414 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 20
289352 TTAATATTTT
289362 TAAATATTTATCGAATAATTA
1 TAAATATTTATCGAATAA-TA
289383 TAAATATTT-T--AATAATA
1 TAAATATTTATCGAATAATA
*
289400 AAATATATTTATCGA
1 TAA-ATATTTATCGA
289415 GTAAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
17 4 0.15
18 11 0.41
19 1 0.04
20 1 0.04
21 10 0.37
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (20 bp):
TAAATATTTATCGAATAATA
Found at i:289609 original size:14 final size:14
Alignment explanation
Indices: 289563--289611 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
289553 ACTCGAGCAA
*
289563 AATAGTATTATTTT
1 AATAATATTATTTT
*
289577 AATAA-ATAATTTT
1 AATAATATTATTTT
289590 AAAATAATATTATTTT
1 --AATAATATTATTTT
289606 AATAAT
1 AATAAT
289612 CTATTTCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 7 0.24
14 10 0.34
15 5 0.17
16 7 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
AATAATATTATTTT
Found at i:290328 original size:9 final size:9
Alignment explanation
Indices: 290314--290374 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
290304 GAATCTTAAA
290314 TATTTTATT
1 TATTTTATT
290323 TATTTTTAATT
1 TA-TTTT-ATT
** *
290334 T-TTAAAAT
1 TATTTTATT
*
290342 TAATTTATT
1 TATTTTATT
290351 TATTTTATT
1 TATTTTATT
290360 TATTTTATT
1 TATTTTATT
290369 TATTTT
1 TATTTT
290375 TAAATTATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
8 3 0.07
9 30 0.73
10 4 0.10
11 4 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTTTATT
Found at i:290391 original size:37 final size:37
Alignment explanation
Indices: 290314--290409 Score: 101
Period size: 37 Copynumber: 2.6 Consensus size: 37
290304 GAATCTTAAA
* *
290314 TATTTTATTTATTTTTAATTTTTAAAATTAATTTATT
1 TATTTTATTTATTTTTAATTTTTAAAATTAATATAAT
*
290351 TATTTTATTTATTTTATTTATTTTT-AAATT-ATATAAT
1 TATTTTATTTA-TTT-TTAATTTTTAAAATTAATATAAT
*
290388 TA-TTTA-ATATTTTTATATTTTT
1 TATTTTATTTATTTTTA-ATTTTT
290410 GTAGATTCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
33 2 0.04
34 9 0.18
35 2 0.04
36 4 0.08
37 18 0.35
38 8 0.16
39 8 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (37 bp):
TATTTTATTTATTTTTAATTTTTAAAATTAATATAAT
Found at i:290670 original size:7 final size:7
Alignment explanation
Indices: 290658--290682 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
290648 TAGATTTGAA
290658 GAAGCTT
1 GAAGCTT
290665 GAAGCTT
1 GAAGCTT
290672 GAAGCTT
1 GAAGCTT
290679 GAAG
1 GAAG
290683 ACCGAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (7 bp):
GAAGCTT
Found at i:292531 original size:23 final size:23
Alignment explanation
Indices: 292476--292535 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
292466 ATTAATTAAT
*
292476 TTTTTA-ATTAATTAATTATATTA
1 TTTTTATATT-ATTATTTATATTA
*
292499 -TTTTATTATTATTATTTTTATTA
1 TTTTTA-TATTATTATTTATATTA
292522 TTTTTATATT-TTAT
1 TTTTTATATTATTAT
292536 GAAATGATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 9 0.28
23 15 0.47
24 8 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTTATATTATTATTTATATTA
Found at i:294277 original size:17 final size:17
Alignment explanation
Indices: 294255--294287 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
294245 TAATGTCATT
*
294255 CCATTAATTGAGTAACA
1 CCATTAATTCAGTAACA
294272 CCATTAATTCAGTAAC
1 CCATTAATTCAGTAAC
294288 TGTCATAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (17 bp):
CCATTAATTCAGTAACA
Found at i:296401 original size:25 final size:25
Alignment explanation
Indices: 296373--296421 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
296363 AATTAACTAA
*
296373 TTATTATA-TAAATATATAAGTTTAT
1 TTATTATATTAAATAAATAA-TTTAT
296398 TTATTATATTAAATAAATAATTTA
1 TTATTATATTAAATAAATAATTTA
296422 AAACTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTATTATATTAAATAAATAATTTAT
Found at i:298653 original size:2 final size:2
Alignment explanation
Indices: 298646--298683 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
298636 GCCTTCGACA
*
298646 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
298684 TCTTTAGTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:315220 original size:24 final size:23
Alignment explanation
Indices: 315189--315258 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
315179 ATTAAATTTA
315189 AATATTAATTTTATTATTTATAAT
1 AATATTAATTTTATT-TTTATAAT
* *
315213 AATATTAAATATTATTTTTATATT
1 AATATT-AATTTTATTTTTATAAT
315237 AATATT--TTTATATTTTTATAAT
1 AATATTAATTT-TATTTTTATAAT
315259 TAAATTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.05
22 11 0.28
24 19 0.47
25 8 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
AATATTAATTTTATTTTTATAAT
Found at i:315727 original size:3 final size:3
Alignment explanation
Indices: 315719--315747 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
315709 AAATTTAAAT
315719 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
315748 GTTGAGGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:317847 original size:2 final size:2
Alignment explanation
Indices: 317840--317878 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
317830 TGGGTTTTCA
317840 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
317879 TTTACTTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:324775 original size:35 final size:36
Alignment explanation
Indices: 324736--324805 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
324726 ATTAAGCAGA
*
324736 ATATTTTTCAAGGATTACACATAAAA-AAATTTAGT
1 ATATTTTTAAAGGATTACACATAAAATAAATTTAGT
* *
324771 ATATTTTTAAAGGATTATACGTAAAATAAATTTAG
1 ATATTTTTAAAGGATTACACATAAAATAAATTTAG
324806 ATGAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 23 0.74
36 8 0.26
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.39
Consensus pattern (36 bp):
ATATTTTTAAAGGATTACACATAAAATAAATTTAGT
Done.