Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002062.1 Hibiscus syriacus cultivar Beakdansim tig00004205_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 357801
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:3922 original size:18 final size:20
Alignment explanation
Indices: 3885--3922 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
3875 TTTAATAAAC
*
3885 TATTGTATTTTTAATTTGAA
1 TATTGTATTTTTAATATGAA
3905 TATT-TATTTTT-ATATGAA
1 TATTGTATTTTTAATATGAA
3923 CCAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (20 bp):
TATTGTATTTTTAATATGAA
Found at i:8708 original size:68 final size:68
Alignment explanation
Indices: 8624--8758 Score: 270
Period size: 68 Copynumber: 2.0 Consensus size: 68
8614 TTTCATATAT
8624 GTATTCATGTCATTTCTCTTGTGATCATATAACTCATATCACTTACCATGTAACATGTGCATTTG
1 GTATTCATGTCATTTCTCTTGTGATCATATAACTCATATCACTTACCATGTAACATGTGCATTTG
8689 AAA
66 AAA
8692 GTATTCATGTCATTTCTCTTGTGATCATATAACTCATATCACTTACCATGTAACATGTGCATTTG
1 GTATTCATGTCATTTCTCTTGTGATCATATAACTCATATCACTTACCATGTAACATGTGCATTTG
8757 AA
66 AA
8759 TCTATTCACA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (68 bp):
GTATTCATGTCATTTCTCTTGTGATCATATAACTCATATCACTTACCATGTAACATGTGCATTTG
AAA
Found at i:13172 original size:68 final size:68
Alignment explanation
Indices: 13083--13217 Score: 234
Period size: 68 Copynumber: 2.0 Consensus size: 68
13073 ATATATTCAT
* * *
13083 GTATTCATGTCATTTCTCTTGTGATCATATAACTCATATCATTTACCATGTAACATATGTATTTG
1 GTATACATGTCATTTCTCTTGTGATCATATAACTCATATCACTTACCATGTAACATATGCATTTG
13148 AAA
66 AAA
*
13151 GTATACATGTCATTTCTCTTGTGATCATATAACTCATATCACTTACCATGTAACATGTGCATTTG
1 GTATACATGTCATTTCTCTTGTGATCATATAACTCATATCACTTACCATGTAACATATGCATTTG
13216 AA
66 AA
13218 TCTATTTACA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (68 bp):
GTATACATGTCATTTCTCTTGTGATCATATAACTCATATCACTTACCATGTAACATATGCATTTG
AAA
Found at i:15136 original size:22 final size:22
Alignment explanation
Indices: 15111--15158 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
15101 CGCTGAATAT
15111 TGAACGGTTCAACATTCAACGA
1 TGAACGGTTCAACATTCAACGA
*
15133 TGAACGGTTCAGCATTCAACGA
1 TGAACGGTTCAACATTCAACGA
15155 TGAA
1 TGAA
15159 TGATTCCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (22 bp):
TGAACGGTTCAACATTCAACGA
Found at i:16297 original size:24 final size:23
Alignment explanation
Indices: 16262--16307 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
16252 GATAAAATGT
16262 AACTTCTACACAAATAAAATTATA
1 AACTTCTACAC-AATAAAATTATA
*
16286 AACTCTCT-CACATTAAAATTAT
1 AACT-TCTACACAATAAAATTAT
16308 TGATTGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 7 0.35
25 3 0.15
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (23 bp):
AACTTCTACACAATAAAATTATA
Found at i:23538 original size:282 final size:282
Alignment explanation
Indices: 23027--23592 Score: 1096
Period size: 282 Copynumber: 2.0 Consensus size: 282
23017 AGCCTTTGCT
*
23027 TTCCTAGTGTTAAAATAGTCCACTTTACTGTGAGAGACATCTTATCTTCTTTGAAGTGCGGAGCA
1 TTCCTAATGTTAAAATAGTCCACTTTACTGTGAGAGACATCTTATCTTCTTTGAAGTGCGGAGCA
23092 CGACACCGTAGCCTTAATGGGAAATTTTCAACATTAACCTTTCTAAATTTGAGAATTTAAATATA
66 CGACACCGTAGCCTTAATGGGAAATTTTCAACATTAACCTTTCTAAATTTGAGAATTTAAATATA
23157 AGGTAATGGTAAATTTTCAATTTGACCTCCAAAAATAATAAAATTTCAGTTTAATCTCTTTAAAA
131 AGGTAATGGTAAATTTTCAATTTGACCTCCAAAAATAATAAAATTTCAGTTTAATCTCTTTAAAA
23222 ATGTTTAATTATATATTTTTTAATAAATTTGGGTTGTATCCAAGGTGATATCTATTTAAAGACTT
196 ATGTTTAATTATATATTTTTTAATAAATTTGGGTTGTATCCAAGGTGATATCTATTTAAAGACTT
*
23287 TCAATTATTTAATAATTAACAC
261 TCAATTATTTAATAATGAACAC
*
23309 TTCCTAATGTTAAAATAGTCCACTTTACTGTGAGAGACATCTTATCTTCTTTGAAGTGTGGAGCA
1 TTCCTAATGTTAAAATAGTCCACTTTACTGTGAGAGACATCTTATCTTCTTTGAAGTGCGGAGCA
23374 CGACACCGTAGCCTTAATGGGAAATTTTCAACATTAACCTTTCTAAATTTGAGAATTTAAATATA
66 CGACACCGTAGCCTTAATGGGAAATTTTCAACATTAACCTTTCTAAATTTGAGAATTTAAATATA
23439 AGGTAATGGTAAATTTTCAATTTGACCTCCAAAAATAATAAAATTTCAGTTTAATCTCTTTAAAA
131 AGGTAATGGTAAATTTTCAATTTGACCTCCAAAAATAATAAAATTTCAGTTTAATCTCTTTAAAA
23504 ATGTTTAATTATATATTTTTTAATAAATTTGGGTTGTATCCAAGGTGATATCTATTTAAAGACTT
196 ATGTTTAATTATATATTTTTTAATAAATTTGGGTTGTATCCAAGGTGATATCTATTTAAAGACTT
*
23569 TCAATTATTTGATAATGAACAC
261 TCAATTATTTAATAATGAACAC
23591 TT
1 TT
23593 ATATTTTGAC
Statistics
Matches: 280, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
282 280 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (282 bp):
TTCCTAATGTTAAAATAGTCCACTTTACTGTGAGAGACATCTTATCTTCTTTGAAGTGCGGAGCA
CGACACCGTAGCCTTAATGGGAAATTTTCAACATTAACCTTTCTAAATTTGAGAATTTAAATATA
AGGTAATGGTAAATTTTCAATTTGACCTCCAAAAATAATAAAATTTCAGTTTAATCTCTTTAAAA
ATGTTTAATTATATATTTTTTAATAAATTTGGGTTGTATCCAAGGTGATATCTATTTAAAGACTT
TCAATTATTTAATAATGAACAC
Found at i:28097 original size:18 final size:18
Alignment explanation
Indices: 28040--28141 Score: 52
Period size: 18 Copynumber: 5.5 Consensus size: 18
28030 TTAATTATAA
*
28040 ATATTTATAA-TATTATTT
1 ATATTTATAATTA-TATTC
* * *
28058 ATTTTTATAATT-TAAATG
1 ATATTTATAATTAT-ATTC
28076 ATATTTATAATTATATTC
1 ATATTTATAATTATATTC
28094 ATATATATATATATATATATAT-
1 ATAT-T-TATA-AT-TATAT-TC
*
28116 ATATTCAT-ATT-TATTC
1 ATATTTATAATTATATTC
28132 ATATATTATA
1 ATAT-TTATA
28142 TAAATATATC
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
15 1 0.02
16 7 0.11
17 5 0.08
18 30 0.46
19 3 0.05
20 6 0.09
21 3 0.05
22 9 0.14
23 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (18 bp):
ATATTTATAATTATATTC
Found at i:28101 original size:2 final size:2
Alignment explanation
Indices: 28094--28150 Score: 57
Period size: 2 Copynumber: 29.0 Consensus size: 2
28084 AATTATATTC
*
28094 AT AT AT AT AT AT AT AT AT AT AT AT AT -T CAT AT TT AT -T CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT -AT AT
*
28136 AT -T AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT
28151 CATACATATC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
1 3 0.07
2 41 0.89
3 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:29097 original size:219 final size:216
Alignment explanation
Indices: 28688--29378 Score: 904
Period size: 219 Copynumber: 3.2 Consensus size: 216
28678 GTTATATTGT
*
28688 AAAGTATCTATCTTTTTATAAAAGTGTCCATACTTATTTCACTGT-G-AAAATATTTATTATTAT
1 AAAGTATATATCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAAATATTTATTATTAT
*
28751 CTTTGGTT-ATATTGTTAAATTTAAATTCTAAATATATTTTATAAAATATCAAAAACAAAATAAT
66 CTTTTGTTAATATTGTTAAATTTAAATTCTAAATATATTTTATAAAATAT------C-AAATAAT
* * *
28815 TTTGTGTGTAAAT-AAAT-TTAAATTAATATTGTAGGTGG-GAACATGAAAAAAAC-ATTAAAAA
124 TTTTTGTGTAAATAAAATATTAAATTAATATTGTAGGTGGAAAACATG--AAACACTATT-AAAA
28876 AAAATTGAAACATAAATACATAACTTTAAAA
186 AAAATTGAAACATAAATACATAACTTTAAAA
* *
28907 AAAGTATTTATCATTTTTAT-AAAGTGTCCATACTTATTTAACTGTGGAAAACATATTTATTATT
1 AAAGTATATATC-TTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAA-ATATTTATTATT
28971 ATCTTTTGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATTTTT
64 ATCTTTTGTTAATATTGTTAAATTTAAATTCTAAAT-ATATTTTATAAAATATCAAATAATTTTT
29036 TGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATT
128 TGTGTAAATAAAA-TATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
29100 GAAACATAAAATTACATAACTTTAAAA
192 GAAACAT-AAA-TACATAACTTTAAAA
* **
29127 ATA-TATATATCATTTTTATAAAAGTGT-TTTACTTATTTCACTGTGGAAAAATA-TTATTATTA
1 AAAGTATATATC-TTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAAATATTTATTATTA
* * ** *
29189 TC-TTTGGTAATATTGTTAAATTTAAATTCTAAATTTTATAAATATAAATAAAATCAAATAATTT
65 TCTTTTGTTAATATTGTTAAATTTAAATTCTAAA-TATAT-TTTAT-AA-AATATCAAATAATTT
* *
29253 TTTGTGTAAATAAAATATTAAATTAATATTATAGGTGGAAAAACATGAAACACTATTAAAAAAAT
126 TTTGTGTAAATAAAATATTAAATTAATATTGTAGGTGG-AAAACATGAAACACTATTAAAAAAAA
* * *
29318 TTGAAACATACATAAATAACTTAAAAAA
190 TTGAAACATAAATACATAACTT-TAAAA
29346 AAAGTATATATCTTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCTTTTTATAAAAGTGTCCATAC
29379 GTAAATAAAG
Statistics
Matches: 425, Mismatches: 24, Indels: 45
0.86 0.05 0.09
Matches are distributed among these distances:
216 33 0.08
217 34 0.08
218 56 0.13
219 149 0.35
220 82 0.19
221 9 0.02
222 21 0.05
223 25 0.06
224 16 0.04
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (216 bp):
AAAGTATATATCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAAATATTTATTATTAT
CTTTTGTTAATATTGTTAAATTTAAATTCTAAATATATTTTATAAAATATCAAATAATTTTTTGT
GTAAATAAAATATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAA
CATAAATACATAACTTTAAAA
Found at i:30319 original size:22 final size:21
Alignment explanation
Indices: 30291--30338 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
30281 AAAATATGAT
30291 TAATAGGTGCGCTTATATAATG
1 TAATAGGT-CGCTTATATAATG
*
30313 TAATAGGTCGTTTATATAATG
1 TAATAGGTCGCTTATATAATG
30334 TAATA
1 TAATA
30339 TGATGTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (21 bp):
TAATAGGTCGCTTATATAATG
Found at i:30348 original size:31 final size:32
Alignment explanation
Indices: 30305--30371 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
30295 AGGTGCGCTT
*
30305 ATATAATGTAATAGGT-CGTTTATATAATGTA
1 ATATAATGTAATAGGTACGCTTATATAATGTA
*
30336 ATATGATGTAATAGGTAGCGCTTATATAATGTA
1 ATATAATGTAATAGGTA-CGCTTATATAATGTA
30369 ATA
1 ATA
30372 GGTATCGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 15 0.47
33 17 0.53
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (32 bp):
ATATAATGTAATAGGTACGCTTATATAATGTA
Found at i:30362 original size:23 final size:23
Alignment explanation
Indices: 30336--30399 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
30326 ATATAATGTA
*
30336 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
30359 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
30382 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
30400 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:30364 original size:54 final size:53
Alignment explanation
Indices: 30283--30394 Score: 190
Period size: 54 Copynumber: 2.1 Consensus size: 53
30273 TAGGTAAAAA
30283 AATATGATTAATAGGTGCGCTTATATAATGTAATAGG-TCGTTTATATAATGT
1 AATATGATTAATAGGTGCGCTTATATAATGTAATAGGATCGTTTATATAATGT
30335 AATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
1 AATATGAT-TAATAGGT-GCGCTTATATAATGTAATAGG-ATCGTTTATATAATGT
30391 AATA
1 AATA
30395 GGTAGTTGTA
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
52 8 0.14
53 8 0.14
54 21 0.38
56 19 0.34
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (53 bp):
AATATGATTAATAGGTGCGCTTATATAATGTAATAGGATCGTTTATATAATGT
Found at i:30800 original size:21 final size:21
Alignment explanation
Indices: 30757--30800 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
30747 ATAACTTTAA
*
30757 AAAAAGTATCGATCCTTTTAT
1 AAAAAGTATCGATCCTTTCAT
*
30778 AAAAAGTATGGA-CACTTTCAT
1 AAAAAGTATCGATC-CTTTCAT
30799 AA
1 AA
30801 TAGGTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (21 bp):
AAAAAGTATCGATCCTTTCAT
Found at i:30870 original size:23 final size:23
Alignment explanation
Indices: 30810--30873 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
30800 ATAGGTAAAA
* *
30810 ATATGATGTAATAGATAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
30833 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
30856 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
30874 TTGTAAAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:31382 original size:20 final size:19
Alignment explanation
Indices: 31359--31405 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
31349 CGATATACCA
31359 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
31379 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
31399 GGTAAAA
1 GGTAAAA
31406 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:32194 original size:21 final size:23
Alignment explanation
Indices: 32144--32205 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
32134 TAGGTTAAAA
*
32144 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
32167 ATATAATGTAATATGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
32189 -TATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
32206 TTGTAAAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 15 0.44
22 2 0.06
23 17 0.50
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:32647 original size:23 final size:23
Alignment explanation
Indices: 32616--32679 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
32606 ATAGGTAAAA
*
32616 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
32639 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
32662 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
32680 TTGTAAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:32965 original size:476 final size:477
Alignment explanation
Indices: 31619--34941 Score: 5393
Period size: 476 Copynumber: 7.1 Consensus size: 477
31609 ATACTTTCGT
*
31619 AAGTATCGAT-CATTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
1 AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
*
31683 TAGGTAGCGCTTATATAATGTAATAGGTA---TTTA-ATAA-ATAATAGGTAG-TGTAAAGTATC
66 TAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATC
* *
31742 TATCCTTTTTATAAAAGTGTCCATAC-TTTTTCATTGTGGAAAACATTAA-TTAAGGTTATCATT
131 TATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
* *
31805 TGAGTGAGTTTTAAAATATTAATTTAGTAATTATCGGCGTCTAATGATTTA-TTTTTACGTTACG
196 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC-
* *
31869 ATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATA-TTATTATTATCTTTGAT
260 ATATATA-TATTATTAAATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTTTGGT
*
31933 TAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATATTTTTT
323 TAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTT
31998 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
388 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
32063 AAACATAAATTACATAACTTTAAAA
453 AAACATAAATTACATAACTTTAAAA
*
32088 AGAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTTAAAAATATGATGT
1 A-AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGG-TAAAAATATGATGT
*
32153 AATAGGTAGCGCTTATATAATGTAATATGTATCG-TT-TATAATGTAATAGGTAGTTGTAAAGTA
64 AATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTA
* * *
32216 TCTAT--TTTTTTTAAAAGTGTTCATAC-TTTTTCATTGTGGAAAACATTAATTTAAGGTTATCT
129 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
32278 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
194 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
* *
32343 CGATATATATTATTATTAAATT-AAAATAATAAAC-ATATATTAC-TATTTATTATTATCTTTGA
259 C-ATATATA-TATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGG
32405 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
322 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
32470 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
387 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
32535 GAAACATAAATTACATAACTTTAAAA
452 GAAACATAAATTACATAACTTTAAAA
32561 AGAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTA
1 A-AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTA
*
32626 ATAGGTAGCGCTTATATAATGTAATATGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTAT
65 ATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTAT
32691 CTATCCTTTTTAT-AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
130 CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
32755 TTGAGTGAGTTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
195 TTGAGTGAG-TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
* *
32820 -ATATATATATTATTAAATAAAAAATAATAAAC-ATATATTACATATTTATTATTATCTTTGGTT
259 CATATATATATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGGTT
32883 AATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTT
324 AATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTT
32948 GTGTAAATGAAATTATTAAATTAATA-TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
389 GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTG
33012 AAACATAAATTACATAACTTT-AAA
453 AAACATAAATTACATAACTTTAAAA
33036 AAGTATCG-TCC---------------TGGACACTTTCAATATAATAGGTAAAAAATATGATGTA
1 AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGT-AAAAATATGATGTA
* *
33085 ATAGGTAACGC---TAT-ATGTAATAGGTATCTTTTATATAATGTAATAGGTAGTTGTAAA--A-
65 ATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTAT
* *
33143 GTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
130 CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
*
33208 TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGA-TTATTTTTTACGTTAC
195 TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC
* *
33272 GATATAT-TATTTTTAAATTAAAAACAATAAACATATATATTACAT-CTTATTATTATCTTTGGT
260 -ATATATATATTATTAAATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTTTGGT
33335 TAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATC-AATAATTTTT
323 TAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTT
* *
33399 TGTGTAAATAAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAAAAATTG
388 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
33464 -AAC-TAAATTACATAAC-TTAAAA
453 AAACATAAATTACATAACTTTAAAA
*
33486 AAGTATCCATCCTTTTTAT-AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
1 AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
33550 TAGGTAGCGCTTATATAATGTAATAGGTATCG-TTATATAATGTAATAGGTAGTTGTAAAGTATC
66 TAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATC
*
33614 TATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAA-TTAAGGTTA--TTT
131 TATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
*
33676 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGA-TTATTTTTTACGTTACG
196 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC-
* *
33740 ATATAT-TATTTTTAAATTAAAAACAATAAAC-ATATATTACATCTTTATTATTATCTTTGGTTA
260 ATATATATATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGGTTA
33803 ATATTGTTAAATTTAAATTCTAAATATTA-TTTATAAAATATCAAAACAATCAAATAATTTTTTG
325 ATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
* * *
33867 TGTAAATAAAATTATTAAATTAATATTATAGGTGAAAAACATGAAACACTATTAAAAAAATTGAA
390 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
33932 ACATAAATTACATAACTTTAAAAA
455 ACATAAATTACATAACTTT-AAAA
*
33956 AAGTATCCATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
1 AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
34021 TAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TATAATGTAATAGGTAGTTGTAAAGTATC
66 TAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATC
* *
34084 TATCCTTTTTATAAAAATGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTT
131 TATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
34149 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG
196 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC-
*
34214 ATATATATTATTAATAAATTAAAAACAATAAACATATATATTACATATTTATTA-TATC-TTGGT
260 ATATATA-TATTATTAAATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTTTGGT
34277 TAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAATATCAAAACAATCAAAT-ATTTT
323 TAATATTGTTAAATTTAAATTCTAAATATTATTTTAT-AAAATATCAAAACAATCAAATAATTTT
34341 TT-TGTAAATGAAATTATT-AATTAATATTGTAGGTGTGGAAAACATGAAACACTATT-AAAAAA
387 TTGTGTAAATGAAATTATTAAATTAATATTGTA-G-GTGGAAAACATGAAACACTATTAAAAAAA
34403 TTGAAACATAAATTA-ATAACTTTAAAA
450 TTGAAACATAAATTACATAACTTTAAAA
* *
34430 AGAGTATCGATCCTTTTTATAAAAATTATGGATACTTTCAATATAATAGGTAAAAATATGATGTA
1 A-AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTA
*
34495 ATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATATAATAGGTAGTTGTAAAGTAT
65 ATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTAT
** *
34560 CTATTATTTTTATAAAAGTGT-CATAC-TTTTTCACTGTAGAAAACATTAATTTAAGGTTATC-T
130 CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
* *
34622 TTGAGTGAG-TTTAAGATGTTAATTTAGTAATTATACGCGTCTAATGATTTATTTTTTACGTTAC
195 TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC
*
34686 -GATATATATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTT
260 ATATATATATTATTAAATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTTTGGTT
*
34750 AATATTGTTAAATTTAAATTCTAAATATTA-TTTATAAAATATCCAAACAATCAAATAA-TTTTT
324 AATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTT
* *
34813 GTGCAAATGAAA-TATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTA
389 GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTG
34877 AAACATAAATTACATAACTTTAAAA
453 AAACATAAATTACATAACTTTAAAA
*
34902 AAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
1 AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
34942 CATATTATAA
Statistics
Matches: 2710, Mismatches: 63, Indels: 160
0.92 0.02 0.05
Matches are distributed among these distances:
449 2 0.00
450 23 0.01
451 21 0.01
452 118 0.04
453 163 0.06
454 11 0.00
455 41 0.02
456 3 0.00
458 23 0.01
459 24 0.01
464 24 0.01
465 56 0.02
466 122 0.05
467 131 0.05
468 27 0.01
469 35 0.01
470 231 0.09
471 218 0.08
472 143 0.05
473 336 0.12
474 136 0.05
475 303 0.11
476 343 0.13
477 137 0.05
478 39 0.01
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (477 bp):
AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
TAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATC
TATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACA
TATATATATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGGTTAA
TATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
CATAAATTACATAACTTTAAAA
Found at i:33588 original size:22 final size:23
Alignment explanation
Indices: 33539--33601 Score: 101
Period size: 22 Copynumber: 2.8 Consensus size: 23
33529 ATAGGTAAAA
*
33539 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
33562 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
33584 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
33602 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 19 0.51
23 18 0.49
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:34060 original size:21 final size:23
Alignment explanation
Indices: 34010--34071 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
34000 ATAGGTAAAA
*
34010 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
34033 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
34055 -TATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
34072 TTGTAAAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 16 0.44
22 2 0.06
23 18 0.50
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:34516 original size:23 final size:23
Alignment explanation
Indices: 34485--34548 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
34475 ATAGGTAAAA
*
34485 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
34508 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
34531 ATATAATATAATAGGTAG
1 ATATAATGTAATAGGTAG
34549 TTGTAAAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:35157 original size:31 final size:31
Alignment explanation
Indices: 35122--35180 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
35112 ACTTTTAACC
35122 AGTCACGCCGTATATTAGCCGTTTTTTTTTT
1 AGTCACGCCGTATATTAGCCGTTTTTTTTTT
35153 AGTCACGCCGTATATTAGCCGTTTTTTT
1 AGTCACGCCGTATATTAGCCGTTTTTTT
35181 AGGCGCCGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (31 bp):
AGTCACGCCGTATATTAGCCGTTTTTTTTTT
Found at i:35913 original size:34 final size:34
Alignment explanation
Indices: 35870--35937 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
35860 GGAACAAATC
35870 TTTACCAATGGTGGCTGAATTGAAGGTTGTGGAT
1 TTTACCAATGGTGGCTGAATTGAAGGTTGTGGAT
35904 TTTACCAATGGTGGCTGAATTGAAGGTTGTGGAT
1 TTTACCAATGGTGGCTGAATTGAAGGTTGTGGAT
35938 CCATCGACGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.09, G:0.32, T:0.35
Consensus pattern (34 bp):
TTTACCAATGGTGGCTGAATTGAAGGTTGTGGAT
Found at i:42254 original size:23 final size:24
Alignment explanation
Indices: 42211--42256 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
42201 AGCAGTTGCT
*
42211 TCTCTATCATCATCCTCATTATCC
1 TCTCAATCATCATCCTCATTATCC
42235 TCTCAATCA-CAT-CTCTATTATC
1 TCTCAATCATCATCCTC-ATTATC
42257 ATATTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 9 0.45
24 8 0.40
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (24 bp):
TCTCAATCATCATCCTCATTATCC
Found at i:43243 original size:20 final size:21
Alignment explanation
Indices: 43201--43243 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
43191 GTTATTAAAA
*
43201 ATAATATAAAAAATAAAATAT
1 ATAATATAAAAAATAAAAGAT
*
43222 ATAA-ATAAAAAATTAAAGAT
1 ATAATATAAAAAATAAAAGAT
43242 AT
1 AT
43244 GAAAGATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
ATAATATAAAAAATAAAAGAT
Found at i:44918 original size:14 final size:15
Alignment explanation
Indices: 44770--44924 Score: 107
Period size: 15 Copynumber: 9.5 Consensus size: 15
44760 TAATAAGGTT
44770 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
44785 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
44800 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
44815 AATTATTATAAAATATGAA
1 ATTTATT-TTAAA-AT--A
44834 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
* *
44852 AATTATTTT-AATTA
1 ATTTATTTTAAAATA
*
44866 ATTTATTAATAAAATATGGA
1 ATTTATT--TTAAA-AT--A
44886 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
44904 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
44918 ATTTATT
1 ATTTATT
44925 AGTATGAATT
Statistics
Matches: 112, Mismatches: 12, Indels: 33
0.71 0.08 0.21
Matches are distributed among these distances:
14 22 0.20
15 51 0.46
16 5 0.04
17 4 0.04
18 3 0.03
19 1 0.01
20 5 0.04
21 8 0.07
22 6 0.05
23 7 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:45020 original size:32 final size:31
Alignment explanation
Indices: 44974--45231 Score: 309
Period size: 32 Copynumber: 8.7 Consensus size: 31
44964 TATTGTAGTT
44974 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
45006 GTATAGATTGATTTATTTT-AA-AA--TA-T-
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
45032 G-A--ATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
45060 GTATGGATTGATTTATTTT-AA-AA--TA-T-
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
45086 G---GATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
45114 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATG-ATTGATTTATTTTAAATAATTTATTA
*
45146 GTACGGATTGATTTATTTTAAATAATTTATTA
1 GTA-TGATTGATTTATTTTAAATAATTTATTA
45178 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATG-ATTGATTTATTTTAAATAATTTATTA
*
45210 GTACGGATTGATTTATTTTAAA
1 GTA-TGATTGATTTATTTTAAA
45232 ATATGGATTG
Statistics
Matches: 199, Mismatches: 4, Indels: 46
0.80 0.02 0.18
Matches are distributed among these distances:
22 27 0.14
23 4 0.02
24 4 0.02
25 1 0.01
26 6 0.03
27 4 0.02
28 6 0.03
29 1 0.01
30 4 0.02
31 6 0.03
32 134 0.67
33 2 0.01
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.52
Consensus pattern (31 bp):
GTATGATTGATTTATTTTAAATAATTTATTA
Found at i:45086 original size:22 final size:22
Alignment explanation
Indices: 45061--45103 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
45051 AATTTATTAG
45061 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
45083 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
45104 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:45111 original size:14 final size:14
Alignment explanation
Indices: 45092--45208 Score: 63
Period size: 14 Copynumber: 7.5 Consensus size: 14
45082 ATATGGATTG
45092 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
45106 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
45124 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* * *
45138 ATTTATTAGTACGGATTG
1 ATTTATT-TTA---AATA
45156 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
45170 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
45188 ATTTATTTTAAATA
1 ATTTATTTTAAATA
45202 ATTTATT
1 ATTTATT
45209 AGTACGGATT
Statistics
Matches: 77, Mismatches: 14, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
14 36 0.47
15 4 0.05
16 4 0.05
17 4 0.05
18 29 0.38
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.54
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:45193 original size:18 final size:18
Alignment explanation
Indices: 45106--45194 Score: 68
Period size: 18 Copynumber: 5.4 Consensus size: 18
45096 ATTTTAAATA
45106 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
45124 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
* *
45138 ATTTATTAGTACGGATTG
1 ATTTATTAGTATGAATTG
* *
45156 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
45170 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
45188 ATTTATT
1 ATTTATT
45195 TTAAATAATT
Statistics
Matches: 51, Mismatches: 12, Indels: 16
0.65 0.15 0.20
Matches are distributed among these distances:
14 19 0.37
15 1 0.02
16 4 0.08
17 1 0.02
18 26 0.51
ACGTcount: A:0.35, C:0.01, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:45249 original size:284 final size:284
Alignment explanation
Indices: 44904--45419 Score: 951
Period size: 284 Copynumber: 1.8 Consensus size: 284
44894 TTTTAAAATA
*
44904 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTACGAATTGATTTATTTTAAAATATAGATTGATTTATTATTG
44969 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGA
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGA
*
45034 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
131 ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
*
45099 TTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTAGTACGGATTGATTTATTT
196 TTAAATAATTTATTAGTACGAATTGATTTATTTTAAATAATTTATTAGTACGGATTGATTTATTT
45164 TAAATAATTTATTAGTATGAATTG
261 TAAATAATTTATTAGTATGAATTG
* *
45188 ATTTATTTTAAATAATTTATTAGTACGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTACGAATTGATTTATTTTAAAATATAGATTGATTTATTATTG
* *
45253 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTTATTTATTTTAAAATATGG
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGA
*
45318 ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTTATTTATT
131 ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
*
45383 TTAAATAATTTATTATTACGAATTGATTTATTTTAAA
196 TTAAATAATTTATTAGTACGAATTGATTTATTTTAAA
45420 ATATGGATTG
Statistics
Matches: 223, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
284 223 1.00
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.53
Consensus pattern (284 bp):
ATTTATTTTAAATAATTTATTAGTACGAATTGATTTATTTTAAAATATAGATTGATTTATTATTG
TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGA
ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
TTAAATAATTTATTAGTACGAATTGATTTATTTTAAATAATTTATTAGTACGGATTGATTTATTT
TAAATAATTTATTAGTATGAATTG
Found at i:45272 original size:80 final size:80
Alignment explanation
Indices: 45178--45328 Score: 266
Period size: 80 Copynumber: 1.9 Consensus size: 80
45168 TAATTTATTA
*
45178 GTATGAATTGATTTATTTTAAATAATTTATTAGTACGGATTGATTTATTTTAAAATATGGATTGA
1 GTATGAATTGATTTATTTTAAATAATTTATTAGTACAGATTGATTTATTTTAAAATATGGATTGA
45243 TTTATTATTGTAGTT
66 TTTATTATTGTAGTT
* * *
45258 GTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTTATTTATTTTAAAATATGGATTGA
1 GTATGAATTGATTTATTTTAAATAATTTATTAGTACAGATTGATTTATTTTAAAATATGGATTGA
45323 TTTATT
66 TTTATT
45329 TTAAATAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.52
Consensus pattern (80 bp):
GTATGAATTGATTTATTTTAAATAATTTATTAGTACAGATTGATTTATTTTAAAATATGGATTGA
TTTATTATTGTAGTT
Found at i:45308 original size:32 final size:32
Alignment explanation
Indices: 45258--45365 Score: 128
Period size: 32 Copynumber: 3.7 Consensus size: 32
45248 TATTGTAGTT
*
45258 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATAGATTGATTTATTTTAAATAATTTATTA
*
45290 GTATAGATTTATTTATTTT-AA-AA--TA-T-
1 GTATAGATTGATTTATTTTAAATAATTTATTA
45316 G----GATTGATTTATTTTAAATAATTTATTA
1 GTATAGATTGATTTATTTTAAATAATTTATTA
45344 GTATAGATTGATTTATTTTAAA
1 GTATAGATTGATTTATTTTAAA
45366 ATATGGATTT
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
22 13 0.21
23 2 0.03
24 2 0.03
26 3 0.05
27 2 0.03
28 3 0.05
30 2 0.03
31 2 0.03
32 34 0.54
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
GTATAGATTGATTTATTTTAAATAATTTATTA
Found at i:45428 original size:18 final size:17
Alignment explanation
Indices: 45352--45424 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 17
45342 TAGTATAGAT
45352 TGATTTATTTTAAAATA
1 TGATTTATTTTAAAATA
*
45369 TGGATTTATTTATTTTAAATA
1 T-GATTTA--T-TTTAAAATA
*
45390 --ATTTATTATTACGAAT-
1 TGATTTATT-TTA-AAATA
45406 TGATTTATTTTAAAATA
1 TGATTTATTTTAAAATA
45423 TG
1 TG
45425 GATTGATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
15 1 0.02
16 6 0.14
17 9 0.21
18 18 0.42
20 1 0.02
21 8 0.19
ACGTcount: A:0.37, C:0.01, G:0.08, T:0.53
Consensus pattern (17 bp):
TGATTTATTTTAAAATA
Found at i:45453 original size:54 final size:54
Alignment explanation
Indices: 44975--45451 Score: 553
Period size: 54 Copynumber: 8.6 Consensus size: 54
44965 ATTGTAGTTG
44975 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
* *
45029 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
45083 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GAATTGATTTATTTTAAATAATTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTT--A-AA---A
45143 TTAGTACGGATTGATTTATTTTAAATAATTTATTAGTAT-GAATTGATTTATTTTAAATAATTTA
1 -TA-T--GGATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTT--A-AA---A
* * * * ***
45207 TTAGTACGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTG
1 -TA-T--GGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTA-AAA
*
45259 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTTATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
45313 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
*
45367 TATGGATTTATTTATTTTAAATAATTTATTA-T-TACGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATA-G-ATTGATTTATTTTAAAA
45421 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
45452 TTGTAGTTGT
Statistics
Matches: 383, Mismatches: 19, Indels: 42
0.86 0.04 0.09
Matches are distributed among these distances:
48 15 0.04
49 2 0.01
50 3 0.01
51 2 0.01
52 4 0.01
53 4 0.01
54 238 0.62
55 8 0.02
56 1 0.00
57 8 0.02
58 7 0.02
59 2 0.01
60 3 0.01
61 2 0.01
62 3 0.01
63 2 0.01
64 79 0.21
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
Found at i:45501 original size:31 final size:31
Alignment explanation
Indices: 45466--45524 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
45456 AGTTGTATGG
* *
45466 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
45497 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
45525 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:51653 original size:2 final size:2
Alignment explanation
Indices: 51646--51674 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
51636 ACTAGACAAG
51646 TA TA 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 TA TA T
51675 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56708 original size:20 final size:20
Alignment explanation
Indices: 56683--56727 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
56673 GGATGCGTGT
56683 TTAACAAGTTGGTTAGATAC
1 TTAACAAGTTGGTTAGATAC
56703 TTAACAAGTTGGTTAGATAC
1 TTAACAAGTTGGTTAGATAC
56723 -TAACA
1 TTAACA
56728 TATGTTCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (20 bp):
TTAACAAGTTGGTTAGATAC
Found at i:57808 original size:21 final size:20
Alignment explanation
Indices: 57784--57831 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
57774 CAATTATATG
57784 ATCTGAAATAGA-AAAGTACA
1 ATCTGAAAT-GACAAAGTACA
* *
57804 TATCTAAAATGACATAGTACA
1 -ATCTGAAATGACAAAGTACA
57825 ATCTGAA
1 ATCTGAA
57832 TTATATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (20 bp):
ATCTGAAATGACAAAGTACA
Found at i:62170 original size:58 final size:58
Alignment explanation
Indices: 62099--62209 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 58
62089 CCATGTTCTG
* *
62099 CAGCAAGATTTTTACATATGATCAATCCTCAACCACTGGATCTTCCTAGCTCATCCTC
1 CAGCAAGAATTTTACATATAATCAATCCTCAACCACTGGATCTTCCTAGCTCATCCTC
*
62157 CAGCAAGAATTTTACATATAATCAATCTTCAACCACTGGATCTTCCTAGCTCA
1 CAGCAAGAATTTTACATATAATCAATCCTCAACCACTGGATCTTCCTAGCTCA
62210 GAGATTTAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.31
Consensus pattern (58 bp):
CAGCAAGAATTTTACATATAATCAATCCTCAACCACTGGATCTTCCTAGCTCATCCTC
Found at i:69068 original size:14 final size:14
Alignment explanation
Indices: 69049--69075 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
69039 TTATTTAGAT
69049 CATTTATATAAAAC
1 CATTTATATAAAAC
69063 CATTTATATAAAA
1 CATTTATATAAAA
69076 TCAAATTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (14 bp):
CATTTATATAAAAC
Found at i:71889 original size:23 final size:23
Alignment explanation
Indices: 71863--71910 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
71853 TCTTGATCAG
71863 TACCTTAAGGATGATTTTGAAAC
1 TACCTTAAGGATGATTTTGAAAC
71886 TACCTTAAGGATGATTTTGAAAC
1 TACCTTAAGGATGATTTTGAAAC
71909 TA
1 TA
71911 AGGAAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (23 bp):
TACCTTAAGGATGATTTTGAAAC
Found at i:82959 original size:19 final size:20
Alignment explanation
Indices: 82935--82984 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
82925 GATAAATTTA
*
82935 TTAATAATTTTATAATC-TT
1 TTAATAATTTTATAAGCATT
*
82954 TTAATAAATTTAATAAGCATT
1 TTAAT-AATTTTATAAGCATT
82975 TT-ATAATTTT
1 TTAATAATTTT
82985 TTAAATTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAATAATTTTATAAGCATT
Found at i:82961 original size:31 final size:31
Alignment explanation
Indices: 82921--82988 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
82911 ATTTATAGTA
* *
82921 TTTAGATAAATTTATTAATAATTTTATAATCT
1 TTTA-ATAAATTTAATAAGAATTTTATAATCT
* *
82953 TTTAATAAATTTAATAAGCATTTTATAATTT
1 TTTAATAAATTTAATAAGAATTTTATAATCT
82984 TTTAA
1 TTTAA
82989 ATTTCATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTAATAAATTTAATAAGAATTTTATAATCT
Found at i:83733 original size:11 final size:10
Alignment explanation
Indices: 83710--83791 Score: 55
Period size: 11 Copynumber: 8.1 Consensus size: 10
83700 TAAAGTTTAA
*
83710 AAAT-TTATA
1 AAATATTATT
83719 AAATACTTATT
1 AAATA-TTATT
83730 AAAT-TTATT
1 AAATATTATT
83739 AAAATATTA-T
1 -AAATATTATT
*
83749 AAATTATTAAT
1 AAA-TATTATT
83760 AAAT-TTATCT
1 AAATATTAT-T
* *
83770 AAATACTATA
1 AAATATTATT
83780 AAATAATTATT
1 AAAT-ATTATT
83791 A
1 A
83792 TATTATCGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
9 15 0.26
10 20 0.34
11 23 0.40
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (10 bp):
AAATATTATT
Found at i:83742 original size:31 final size:30
Alignment explanation
Indices: 83706--83791 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 30
83696 TCAATAAAGT
83706 TTAAAAATTTATAAAATACTTATTAAATTTA
1 TTAAAAATTTATAAAATA-TTATTAAATTTA
* *
83737 TT-AAAATATTATAAATTATTAATAAATTTA
1 TTAAAAAT-TTATAAAATATTATTAAATTTA
* *
83767 TCTAAATA-CTATAAAATAATTATTA
1 T-TAAAAATTTATAAAAT-ATTATTA
83792 TATTATCGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
30 24 0.53
31 18 0.40
32 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (30 bp):
TTAAAAATTTATAAAATATTATTAAATTTA
Found at i:83743 original size:21 final size:19
Alignment explanation
Indices: 83710--83758 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
83700 TAAAGTTTAA
83710 AAATTTA-TAAAATACTTATT
1 AAATTTATTAAAATA-TTA-T
83730 AAATTTATTAAAATATTAT
1 AAATTTATTAAAATATTAT
83749 AAA-TTATTAA
1 AAATTTATTAA
83759 TAAATTTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.25
19 4 0.14
20 10 0.36
21 7 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTTATTAAAATATTAT
Found at i:83762 original size:21 final size:21
Alignment explanation
Indices: 83710--83762 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
83700 TAAAGTTTAA
83710 AAATTT-ATAAAATACTTATT
1 AAATTTAATAAAATACTTATT
*
83730 AAATTTATTAAAATA-TTA-T
1 AAATTTAATAAAATACTTATT
83749 AAATTATTAATAAA
1 AAA-T-TTAATAAA
83763 TTTATCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 4 0.14
20 10 0.36
21 14 0.50
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTTAATAAAATACTTATT
Found at i:83798 original size:30 final size:32
Alignment explanation
Indices: 83715--83791 Score: 97
Period size: 30 Copynumber: 2.5 Consensus size: 32
83705 TTTAAAAATT
* *
83715 TATAAAATACTTATTAAATTTAT-TAAAATAT
1 TATAAAATAATTATTAAATTTATCTAAAATAC
* *
83746 TAT-AAATTATTAATAAATTTATCT-AAATAC
1 TATAAAATAATTATTAAATTTATCTAAAATAC
83776 TATAAAATAATTATTA
1 TATAAAATAATTATTA
83792 TATTATCGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 24 0.63
31 14 0.37
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (32 bp):
TATAAAATAATTATTAAATTTATCTAAAATAC
Found at i:84388 original size:13 final size:13
Alignment explanation
Indices: 84366--84455 Score: 59
Period size: 13 Copynumber: 7.2 Consensus size: 13
84356 ACGTAAAAAT
*
84366 TAAATGAATATAA
1 TAAATAAATATAA
84379 TAAATAAATATAA
1 TAAATAAATATAA
84392 T-AAT-AAT-TAA
1 TAAATAAATATAA
* *
84402 TAATATTAAT-TAT
1 TAA-ATAAATATAA
84415 TAAATATAATA-AA
1 TAAATA-AATATAA
*
84428 TAATTAAA-AT-A
1 TAAATAAATATAA
84439 TAAATAATATAGTAA
1 TAAATAA-ATA-TAA
84454 TA
1 TA
84456 TAGTAATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
10 4 0.07
11 12 0.20
12 10 0.16
13 31 0.51
14 1 0.02
15 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
TAAATAAATATAA
Found at i:84396 original size:16 final size:16
Alignment explanation
Indices: 84375--84447 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
84365 TTAAATGAAT
84375 ATAATAAATAAATATA
1 ATAATAAATAAATATA
*
84391 ATAAT-AATTAATAATA
1 ATAATAAATAAAT-ATA
* * *
84407 TTAATTATTAAATATA
1 ATAATAAATAAATATA
*
84423 ATAAATAATTAAAATATAA
1 AT-AATAAAT-AAATAT-A
84442 ATAATA
1 ATAATA
84448 TAGTAATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
15 6 0.13
16 16 0.35
17 11 0.24
18 10 0.22
19 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATAAATAAATATA
Found at i:84560 original size:11 final size:11
Alignment explanation
Indices: 84540--84577 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
84530 TAAAATATTA
84540 AATATAATAAAT
1 AATATAAT-AAT
84552 AAT-TAATAAT
1 AATATAATAAT
*
84562 AATATAATTAT
1 AATATAATAAT
84573 AATAT
1 AATAT
84578 TTTTGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 6 0.25
11 15 0.62
12 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATATAATAAT
Found at i:84562 original size:14 final size:14
Alignment explanation
Indices: 84542--84576 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
84532 AAATATTAAA
84542 TATAATAA-ATAAT
1 TATAATAATATAAT
84555 TAATAATAATATAAT
1 T-ATAATAATATAAT
84570 TATAATA
1 TATAATA
84577 TTTTTGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 13 0.65
15 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAATAATATAAT
Found at i:84774 original size:18 final size:18
Alignment explanation
Indices: 84748--84791 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
84738 AAATAGGACC
*
84748 CTCCGCTCCTATTCATCA
1 CTCCACTCCTATTCATCA
84766 CTCCACTCCTATTCATCA
1 CTCCACTCCTATTCATCA
*
84784 CTACACTC
1 CTCCACTC
84792 ATCCCTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.45, G:0.02, T:0.32
Consensus pattern (18 bp):
CTCCACTCCTATTCATCA
Found at i:86955 original size:22 final size:22
Alignment explanation
Indices: 86927--86980 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
86917 TACCCAAAAT
86927 AATAAAAATACTATTTTTATGC
1 AATAAAAATACTATTTTTATGC
86949 AATAAAAATACTATTTTTATGC
1 AATAAAAATACTATTTTTATGC
86971 AATAAAAATA
1 AATAAAAATA
86981 GTGATTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (22 bp):
AATAAAAATACTATTTTTATGC
Found at i:102651 original size:36 final size:36
Alignment explanation
Indices: 102580--102652 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
102570 GTTGGAAAAT
*
102580 ATTTATATATTTTCTTTAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAATCATAAA
*
102616 ATTTATATAGTTTT-TTTATAAAATTAAAAAT-ATAAA
1 ATTTATATA-TTTTCTTTAAAAAATT-AAAATCATAAA
102652 A
1 A
102653 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAAATTAAAATCATAAA
Found at i:105879 original size:12 final size:11
Alignment explanation
Indices: 105860--105909 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
105850 CCCCGCCCCG
105860 ATTATATATAT
1 ATTATATATAT
105871 A-TATATATAAT
1 ATTATATAT-AT
*
105882 ATTTTATATAT
1 ATTATATATAT
*
105893 TTTATAT-TA-
1 ATTATATATAT
105902 ATTATATA
1 ATTATATA
105910 ATACAAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
9 6 0.19
10 9 0.28
11 11 0.34
12 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATATATAT
Found at i:112122 original size:37 final size:35
Alignment explanation
Indices: 112040--112151 Score: 104
Period size: 37 Copynumber: 3.2 Consensus size: 35
112030 TGAAAGTATT
**
112040 AAAATGGTTTTC-AAGTTTGGT-AATCAATTT-TAAA
1 AAAATGGTTTTCAAAGTTTGGTAAAT--ATTTGTTGA
* *
112074 AAAATGGTTTTCAAATTTTGGTAAATATTTCTTTGA
1 AAAATGGTTTTCAAAGTTTGGTAAATATTT-GTTGA
* * *
112110 AAAATAGTTTTTCAAAGTTTGGTAGATGTTTGTTGA
1 AAAAT-GGTTTTCAAAGTTTGGTAAATATTTGTTGA
112146 AAAATG
1 AAAATG
112152 ATAATGAGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
34 16 0.25
35 9 0.14
36 19 0.29
37 21 0.32
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATATTTGTTGA
Found at i:116677 original size:21 final size:21
Alignment explanation
Indices: 116653--116713 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
116643 AACTTTGAAA
116653 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
116674 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
116688 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
116709 AAATG
1 AAATG
116714 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:116744 original size:37 final size:37
Alignment explanation
Indices: 116645--116763 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
116635 TGGTAACCAA
116645 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
116682 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
116717 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
116754 -GTTGAAAAAT
1 CTTTGAAAAAT
116764 GATAATGGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 30 0.39
36 18 0.24
37 28 0.37
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:123741 original size:28 final size:27
Alignment explanation
Indices: 123689--123755 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
123679 AACATTTTTT
** *
123689 TAATTTTCAAAAAATTGAAAATAAAAA
1 TAATTTTTTAAAAATTAAAAATAAAAA
123716 TAATTTTTTAAAAATTAAAAATTAAAAA
1 TAATTTTTTAAAAATTAAAAA-TAAAAA
123744 T-ATTTTTTAAAA
1 TAATTTTTTAAAA
123756 CCAAATTCGC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 29 0.81
28 7 0.19
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (27 bp):
TAATTTTTTAAAAATTAAAAATAAAAA
Found at i:125582 original size:31 final size:30
Alignment explanation
Indices: 125541--125634 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
125531 TTATAATAAA
*
125541 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAA-TAATAATAATTTT-TTAT
*
125571 TAATAAAATATAATAATCATAATTTTTTAT
1 TAATAAAATATAATAATAATAATTTTTTAT
* * *
125601 TTATAAAAT-T-ATAGAT-ATAATATTTTAA
1 TAATAAAATATAATA-ATAATAATTTTTTAT
125629 TAATAA
1 TAATAA
125635 TATTGACATA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
28 18 0.33
29 5 0.09
30 24 0.44
31 8 0.15
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TAATAAAATATAATAATAATAATTTTTTAT
Found at i:125634 original size:14 final size:14
Alignment explanation
Indices: 125552--125638 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
125542 AATAAATATA
**
125552 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
125567 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
125580 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
125594 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
125608 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
125622 ATTTTAATAATAAT
1 ATTTTAATAATAAT
125636 ATT
1 ATT
125639 GACATAATAA
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
13 10 0.19
14 38 0.72
15 5 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:125634 original size:28 final size:28
Alignment explanation
Indices: 125566--125634 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
125556 ATAATAATTT
*
125566 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
125593 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
125621 TATTTTAATAATAA
1 TATTTTAATAATAA
125635 TATTGACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:125671 original size:21 final size:21
Alignment explanation
Indices: 125646--125685 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
125636 ATTGACATAA
125646 TAAAGAGTGTCGACACATATT
1 TAAAGAGTGTCGACACATATT
*
125667 TAAAGAGTGTCGATACATA
1 TAAAGAGTGTCGACACATA
125686 ATGTAAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (21 bp):
TAAAGAGTGTCGACACATATT
Found at i:126087 original size:182 final size:182
Alignment explanation
Indices: 125714--126128 Score: 670
Period size: 183 Copynumber: 2.3 Consensus size: 182
125704 ATTAACCAAT
* * * **
125714 ATATTTTTACCTGTTATATTTTTATGGATCGATATATTTTTATAAAGTATCGACACTTTATTGGC
1 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACTTTATTACC
* * * *
125779 GCTATAACTTCTTTTCTTTTAAATTCTAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTC
66 GCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGAAACTTATAATAAAGTATCGACACTATC
* *
125844 AACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTC
131 AACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCGGTTTTGTC
125896 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACTTTATATAC
1 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACTTTAT-TAC
125961 CGCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGAAACTTATAATAAAGTATCGACACTAT
65 CGCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGAAACTTATAATAAAGTATCGACACTAT
* ** * *
126026 CAACATATCTGGTAGCGCTTTACTTGTTTTGTCATTTATAGATCGGTTTTGTC
130 CAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCGGTTTTGTC
126079 AT-TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
1 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
126129 GTCACTTTCA
Statistics
Matches: 216, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 106 0.49
183 110 0.51
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACTTTATTACC
GCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGAAACTTATAATAAAGTATCGACACTATC
AACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCGGTTTTGTC
Found at i:126363 original size:111 final size:112
Alignment explanation
Indices: 126008--126508 Score: 853
Period size: 112 Copynumber: 4.5 Consensus size: 112
125998 GAAACTTATA
* * * * *
126008 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACTTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
126073 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
126119 ATAAAGTATCGTCACTTTCAAGATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
126184 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
126231 ATAAAGTATCGACACTTTCAATATATCCGGTAGCTCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
126296 TTTGTCA-TTTTTTACCTGTTATTTTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
** * * *
126342 ATAAAGTATCGACACTTTCAATATATCTAGTAGAGTTTTACATGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
126407 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
126454 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
126509 TTTTTACCTG
Statistics
Matches: 364, Mismatches: 24, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
111 169 0.46
112 195 0.54
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:126396 original size:223 final size:222
Alignment explanation
Indices: 126008--126669 Score: 984
Period size: 223 Copynumber: 3.0 Consensus size: 222
125998 GAAACTTATA
* * * *
126008 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACTTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGA-CGGT
*
126073 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGTCACTTTC
65 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTC
* * * *
126138 AAGATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGTTTTGTCATTTTTTTACCTG
130 AATATATCCGGTAGAGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTG
126203 TTATATTGTTATGGATCGATACATTTTT
195 TTATATTGTTATGGATCGATACATTTTT
*
126231 ATAAAGTATCGACACTTTCAATATATCCGGTAGCTCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGA-CGGT
*
126296 TTTGTCATTTTTTACCTGTTATTTTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTC
65 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTC
** *
126361 AATATATCTAGTAGAGTTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTG
130 AATATATCCGGTAGAGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTG
126426 TTATATTGTTATGGATCGATACATTTTT
195 TTATATTGTTATGGATCGATACATTTTT
126454 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC--------A-----
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACGGTT
126506 -T-T--TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCA
66 TTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCA
*
126567 ATATATCCGGTAGCA-CTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTA
131 ATATATCCGGTAG-AGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTG
* * * *
126631 TTATATTGTTATAGATC-AAATTATTTTA
195 TTATATTGTTATGGATCGATA-CATTTTT
126659 ATAAAGTATCG
1 ATAAAGTATCG
126670 GCACAAACCG
Statistics
Matches: 412, Mismatches: 25, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
204 2 0.00
205 148 0.36
206 1 0.00
207 1 0.00
208 1 0.00
215 1 0.00
223 258 0.63
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (222 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACGGTT
TTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCA
ATATATCCGGTAGAGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGT
TATATTGTTATGGATCGATACATTTTT
Found at i:126522 original size:93 final size:93
Alignment explanation
Indices: 126405--126601 Score: 369
Period size: 93 Copynumber: 2.1 Consensus size: 93
126395 TTATAGACCG
126405 GTTTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
1 GTTTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
* *
126469 TTTCAATATATCCGGTAGCGCTTTACCT
66 TTTCAATATATCCGGTAGCACTTTACAT
126497 GTTTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
1 GTTTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
126562 TTTCAATATATCCGGTAGCACTTTACAT
66 TTTCAATATATCCGGTAGCACTTTACAT
126590 GTTTTGTCATTT
1 GTTTTGTCATTT
126602 ATAGACCGGT
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 9 0.09
93 93 0.91
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (93 bp):
GTTTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
TTTCAATATATCCGGTAGCACTTTACAT
Found at i:126540 original size:205 final size:203
Alignment explanation
Indices: 126294--126669 Score: 621
Period size: 205 Copynumber: 1.8 Consensus size: 203
126284 TTATAGACCG
*
126294 GTTTTGTCATTTTTTACCTGTTATTTTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
1 GTTTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
* *
126359 TCAATATATCTAGTAG-AGTTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTAC
66 TCAATATATCCAGTAGCA-CTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTAC
* * * *
126423 CTGTTATATTGTTATGGATC-GATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAG
130 CTATTATATTGTTATAGATCAAAT-CATTTTAATAAAGTATCGACACTTTCAATATATCCGGTAG
126487 CGCTTTACCT
194 CGCTTTACCT
126497 GTTTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
1 GTTTTGTCA--TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
*
126562 TTTCAATATATCCGGTAGCACTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTA
64 TTTCAATATATCCAGTAGCACTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTA
*
126627 CCTATTATATTGTTATAGATCAAATTATTTTAATAAAGTATCG
129 CCTATTATATTGTTATAGATCAAATCATTTTAATAAAGTATCG
126670 GCACAAACCG
Statistics
Matches: 160, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
203 9 0.06
205 148 0.93
206 3 0.02
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (203 bp):
GTTTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
TCAATATATCCAGTAGCACTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACC
TATTATATTGTTATAGATCAAATCATTTTAATAAAGTATCGACACTTTCAATATATCCGGTAGCG
CTTTACCT
Found at i:127144 original size:15 final size:16
Alignment explanation
Indices: 127108--127146 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
127098 AGAGCCTTTA
*
127108 AATCATTCAACATTTG
1 AATCATTCAACACTTG
*
127124 AATCATTCAACGCTT-
1 AATCATTCAACACTTG
127139 AATCATTC
1 AATCATTC
127147 TGTATTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (16 bp):
AATCATTCAACACTTG
Found at i:138171 original size:22 final size:22
Alignment explanation
Indices: 138143--138196 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
138133 TTTCTCTCAC
138143 CTTCTATCTT-TATTCTCTATTT
1 CTTCTAT-TTCTATTCTCTATTT
138165 CTTCTATTTCTATTCTCTATTT
1 CTTCTATTTCTATTCTCTATTT
138187 CTTCTATTTC
1 CTTCTATTTC
138197 CTTCAACCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (22 bp):
CTTCTATTTCTATTCTCTATTT
Found at i:146207 original size:10 final size:10
Alignment explanation
Indices: 146189--146220 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
146179 TTATTTGTTA
146189 TTTTT-TTTT
1 TTTTTCTTTT
146198 TTTTTCTTTT
1 TTTTTCTTTT
146208 TTTTTCTTTT
1 TTTTTCTTTT
146218 TTT
1 TTT
146221 CATGTAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:146316 original size:37 final size:35
Alignment explanation
Indices: 146253--146366 Score: 124
Period size: 37 Copynumber: 3.1 Consensus size: 35
146243 ATGCATTTTC
*
146253 TTTTTTACTTTA-GTATATATATATATATATATTAT
1 TTTTTTA-TTTATTTATATATATATATATATATTAT
*
146288 TTTTTTATTATCATTTATATATATATATATTTATTTACT
1 TTTTTTATT-T-ATTTATATATATATATATATA-TTA-T
*
146327 ATTTTTTATTTTTTTAT-TATATATATATTATATTAT
1 -TTTTTTATTTATTTATATATATATATA-TATATTAT
146363 TTTT
1 TTTT
146367 ACTTTTTATA
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
34 2 0.03
35 12 0.18
36 2 0.03
37 30 0.44
38 11 0.16
39 2 0.03
40 9 0.13
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (35 bp):
TTTTTTATTTATTTATATATATATATATATATTAT
Found at i:146322 original size:4 final size:4
Alignment explanation
Indices: 146284--146503 Score: 68
Period size: 4 Copynumber: 54.5 Consensus size: 4
146274 TATATATATA
* * * * *
146284 TTAT TTTT TTAT TATCAT TTAT ATAT ATAT ATAT TTAT TTA- CTAT TT-T
1 TTAT TTAT TTAT T-T-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * *
146332 TTAT TTTT TTAT TATAT ATAT ATTAT ATTA- TT-T TTAC TT-T TTAT ATTATT
1 TTAT TTAT TTAT T-TAT TTAT -TTAT -TTAT TTAT TTAT TTAT TTAT -TTA-T
* * * *
146382 TTAT TTA- TTGT TTAT TATAT TT-T TTCT TTTT TTAT TTATT TTAC TTA-
1 TTAT TTAT TTAT TTAT T-TAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT
* ** * *
146429 TTATT TTAT CT-T TGCT TTCT TTAT CTTAT CTTAT TTAA TTAT TT-T TT-T
1 TTA-T TTAT TTAT TTAT TTAT TTAT -TTAT -TTAT TTAT TTAT TTAT TTAT
*
146477 TTATT TTATT TTAA TTA- TTAT TTAT TT
1 TTA-T TTA-T TTAT TTAT TTAT TTAT TT
146504 TTACCTTTTT
Statistics
Matches: 169, Mismatches: 25, Indels: 44
0.71 0.11 0.18
Matches are distributed among these distances:
3 29 0.17
4 89 0.53
5 47 0.28
6 4 0.02
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:146348 original size:33 final size:34
Alignment explanation
Indices: 146305--146390 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
146295 TTATCATTTA
146305 TATATATATATATTTATT-TACTATTTTTTA-TTTT
1 TATAT-TATATATTTATTATACTA-TTTTTACTTTT
* * *
146339 TTTATTATATATATATTATATTATTTTTACTTTT
1 TATATTATATATTTATTATACTATTTTTACTTTT
*
146373 TATATTATTTTATTTATT
1 TATATTA-TATATTTATT
146391 GTTTATTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
33 17 0.40
34 18 0.42
35 8 0.19
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (34 bp):
TATATTATATATTTATTATACTATTTTTACTTTT
Found at i:146363 original size:41 final size:40
Alignment explanation
Indices: 146268--146429 Score: 137
Period size: 42 Copynumber: 4.1 Consensus size: 40
146258 TACTTTAGTA
146268 TATATATATATATA-TA-TTA-TTTTTTTA-TTATCATTTA-
1 TATATATATATATATTATTTACTTTTTTTATTTAT--TTTAT
146305 TATATATATATAT-TTATTTACTATTTTTTATTT-TTTTAT
1 TATATATATATATATTATTTACT-TTTTTTATTTATTTTAT
*
146344 TATATATATATTATATTATTTTTACTTTTTATA-TTATTTTAT
1 TATATATATA-TATATTA--TTTACTTTTTTTATTTATTTTAT
* * *
146386 T-TATTGTTTATTATATT-TTTTCTTTTTTTATTTATTTTACT
1 TATA-TATATA-TATATTATTTACTTTTTTTATTTATTTTA-T
146427 TAT
1 TAT
146430 TATTTTATCT
Statistics
Matches: 105, Mismatches: 5, Indels: 25
0.78 0.04 0.19
Matches are distributed among these distances:
37 15 0.14
38 7 0.07
39 22 0.21
40 19 0.18
41 11 0.10
42 25 0.24
43 6 0.06
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.69
Consensus pattern (40 bp):
TATATATATATATATTATTTACTTTTTTTATTTATTTTAT
Found at i:146381 original size:37 final size:35
Alignment explanation
Indices: 146268--146381 Score: 106
Period size: 37 Copynumber: 3.0 Consensus size: 35
146258 TACTTTAGTA
*
146268 TATATATATATATATATTATTTTTTTATTATCATTTAT
1 TATATATATAT-TATATTATTTTTTTTTTAT-A-TTAT
*
146306 ATATATATATATT-TATTTACTATTTTTTATTT-TTTTAT
1 -TATATATATATTATA-TTA-T-TTTTTT-TTTATATTAT
146344 TATATATATATTATATTATTTTTACTTTTTATATTAT
1 TATATATATATTATATTATTTTT--TTTTTATATTAT
146381 T
1 T
146382 TTATTTATTG
Statistics
Matches: 64, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
35 4 0.06
36 4 0.06
37 25 0.39
38 10 0.16
39 12 0.19
40 7 0.11
41 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (35 bp):
TATATATATATTATATTATTTTTTTTTTATATTAT
Found at i:146385 original size:5 final size:5
Alignment explanation
Indices: 146370--146504 Score: 59
Period size: 5 Copynumber: 26.8 Consensus size: 5
146360 TATTTTTACT
* * *
146370 TTTTA TATTA TTTTA -TTTA TTGTTTA TTATA TTTT- TTCTTT TTTTA
1 TTTTA TTTTA TTTTA TTTTA -T-TTTA TTTTA TTTTA TT-TTA TTTTA
* * * * *
146416 -TTTA TTTTA CTTATTA TTTTA TCTTTG CTTT- CTTTA TCTTA TCTTA
1 TTTTA TTTTA -TT-TTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA
* *
146462 -TTTA -ATTA TTTTT TTTTA TTTTA TTTTAA TTATTA -TTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TT-TTA TTTTA TTTT
146505 TACCTTTTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
4 23 0.23
5 56 0.55
6 14 0.14
7 9 0.09
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:146448 original size:40 final size:41
Alignment explanation
Indices: 146313--146464 Score: 104
Period size: 42 Copynumber: 3.7 Consensus size: 41
146303 TATATATATA
146313 TATATTTATTTACTATTTTTTAT-TT-TTTTA-TTATAT-ATATAT
1 TATATTT-TTT-CT-TTTTTTATATTATTTTACTTAT-TGAT-TAT
* * *
146355 TATATTATTTT-TACTTTTTATATTATTTTATTTATTGTTTAT
1 TATATT-TTTTCT-TTTTTTATATTATTTTACTTATTGATTAT
146397 TATATTTTTTCTTTTTTTAT-TTATTTTACTTATT-ATT-T
1 TATATTTTTTCTTTTTTTATATTATTTTACTTATTGATTAT
* * *
146435 TATCTTTGCTTTCTTTATCTTATCTTATTT
1 TATATTT--TTTCTTT-TTTTATATTATTT
146465 AATTATTTTT
Statistics
Matches: 93, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
38 7 0.08
39 2 0.02
40 29 0.31
41 18 0.19
42 31 0.33
43 6 0.06
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (41 bp):
TATATTTTTTCTTTTTTTATATTATTTTACTTATTGATTAT
Found at i:147369 original size:261 final size:263
Alignment explanation
Indices: 146903--147428 Score: 1020
Period size: 261 Copynumber: 2.0 Consensus size: 263
146893 GTAATTTTCA
146903 GTTGTCTTTTTAACTAAAAGGGTAAGTTTGAATTTTAAGGTAACTTTTTTTATCTTTATTACTTA
1 GTTGTCTTTTTAACTAAAAGGGTAAGTTTGAATTTTAAGGTAACTTTTTTTATCTTTATTACTTA
146968 CTTTTGATTATATTTTTTTAAATAAATAGTTGTATTGACGTTTTTAAATGATTTCAGATTTTTCA
66 CTTTTGATTATATTTTTTTAAATAAATAGTTGTATTGACGTTTTTAAATGATTTCAGATTTTTCA
147033 AAAGTGTTCATCTCATGCTCTATACCTGAGATCTGAACCCTTTTAAGTGGGGTGAAAGCGACGCC
131 AAAGTGTTCATCTCATGCTCTATACCTGAGATCTGAACCCTTTTAAGTGGGGTGAAAGCGACGCC
147098 TTCGTGGGAATTTATTCTCCGTATGGGCCTAGCAAGTAACCTTCGGGATTCATATACCTTATGTC
196 TTCGTGGGAATTTATTCTCCGTATGGGCCTAGCAAGTAACCTTCGGGATTCATATACCTTATGTC
147163 TTC
261 TTC
147166 GTTGTCTTTTTAACTAAAAGGGTAAG-TTG-ATTTTAAGGTAACTTTTTTTATCTTTATTACTTA
1 GTTGTCTTTTTAACTAAAAGGGTAAGTTTGAATTTTAAGGTAACTTTTTTTATCTTTATTACTTA
147229 CTTTTGATTATATTTTTTTAAATAAATAGTTGTATTGACGTTTTTAAATGATTTCAGATTTTTCA
66 CTTTTGATTATATTTTTTTAAATAAATAGTTGTATTGACGTTTTTAAATGATTTCAGATTTTTCA
* *
147294 AAAGTGTTCATCTCATGCTCTATATCTGAGCTCTGAACCCTTTTAAGTGGGGTGAAAGCGACGCC
131 AAAGTGTTCATCTCATGCTCTATACCTGAGATCTGAACCCTTTTAAGTGGGGTGAAAGCGACGCC
147359 TTCGTGGGAATTTATTCTCCGTATGGGCCTAGCAAGTAACCTTCGGGATTCATATACCTTATGTC
196 TTCGTGGGAATTTATTCTCCGTATGGGCCTAGCAAGTAACCTTCGGGATTCATATACCTTATGTC
147424 TTC
261 TTC
147427 GT
1 GT
147429 GTGAATTTAT
Statistics
Matches: 261, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
261 232 0.89
262 3 0.01
263 26 0.10
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (263 bp):
GTTGTCTTTTTAACTAAAAGGGTAAGTTTGAATTTTAAGGTAACTTTTTTTATCTTTATTACTTA
CTTTTGATTATATTTTTTTAAATAAATAGTTGTATTGACGTTTTTAAATGATTTCAGATTTTTCA
AAAGTGTTCATCTCATGCTCTATACCTGAGATCTGAACCCTTTTAAGTGGGGTGAAAGCGACGCC
TTCGTGGGAATTTATTCTCCGTATGGGCCTAGCAAGTAACCTTCGGGATTCATATACCTTATGTC
TTC
Found at i:149832 original size:15 final size:14
Alignment explanation
Indices: 149805--149846 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
149795 CAATCAGAAC
149805 AAAAAGAAAAAAGAG
1 AAAAA-AAAAAAGAG
149820 AAAAAAAACAAAGAG
1 AAAAAAAA-AAAGAG
149835 AAAATAAAAAAA
1 AAAA-AAAAAAA
149847 CAAAGGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 18 0.72
16 4 0.16
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAAAGAG
Found at i:149843 original size:19 final size:18
Alignment explanation
Indices: 149821--149857 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
149811 AAAAAAGAGA
149821 AAAAAAACAAAGAGAAAAT
1 AAAAAAACAAAG-GAAAAT
149840 AAAAAAACAAAGGAAAAT
1 AAAAAAACAAAGGAAAAT
149858 TGAAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.78, C:0.05, G:0.11, T:0.05
Consensus pattern (18 bp):
AAAAAAACAAAGGAAAAT
Found at i:150011 original size:69 final size:69
Alignment explanation
Indices: 149929--150066 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
149919 GATTCAAACT
*
149929 ATGAGATTGATCAAGCACAATCATTTTTGAATCACTGAATCACTTCACTCGAAGATCATAAAGCA
1 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAAAGCA
149994 TCAA
66 TCAA
*
149998 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAAAGCA
150063 TCAA
66 TCAA
150067 GAGATAGAGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAAAGCA
TCAA
Found at i:151028 original size:32 final size:32
Alignment explanation
Indices: 150992--151111 Score: 127
Period size: 32 Copynumber: 3.8 Consensus size: 32
150982 GGAACAATGA
150992 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTGAAGATTCAACATCAAATGTTG
* ** *
151024 GGGCATTTTTTTAGATTTAACATCAAATGTTG
1 GGGCATCTTTGAAGATTCAACATCAAATGTTG
* * *
151056 GGGCATTTTTTG-AGATTCAACATCGAATATTG
1 GGGCA-TCTTTGAAGATTCAACATCAAATGTTG
* *
151088 GGACATCTTT-AGGAATTCAACATC
1 GGGCATCTTTGAAG-ATTCAACATC
151112 CTGATGCAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
31 5 0.07
32 64 0.86
33 5 0.07
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (32 bp):
GGGCATCTTTGAAGATTCAACATCAAATGTTG
Found at i:151809 original size:106 final size:106
Alignment explanation
Indices: 151690--151960 Score: 416
Period size: 106 Copynumber: 2.6 Consensus size: 106
151680 ATCGTGCCAT
* * *
151690 TCGAGACAACACAAGTTCAACTCCACAACTAAGGGACGACTGGTTGTCAACAAACAATTTCCCAA
1 TCGAGACAACACAAGTTCAACTTCACAACAAAAGGACGACTGGTTGTCAACAAACAATTTCCCAA
*
151755 TTTTAGAGCCAATTTCAACTTCACAGCGAATGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGAC
* * *
151796 TCGAGACAACACAAGTTCAACTTCACAACGAAAGGATGGCTGGTTGTCAACAAACAATTTCCCAA
1 TCGAGACAACACAAGTTCAACTTCACAACAAAAGGACGACTGGTTGTCAACAAACAATTTCCCAA
*
151861 TTTCGGAGCCAATTTCAACTTCACAGCGAATGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGAC
* * * * * *
151902 TCGAGACAGCACAAGCTCAACTTCACAGCAAATGGCCGACTGGCTGTCAACAAACAATT
1 TCGAGACAACACAAGTTCAACTTCACAACAAAAGGACGACTGGTTGTCAACAAACAATT
151961 GGATATCGGA
Statistics
Matches: 149, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 149 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (106 bp):
TCGAGACAACACAAGTTCAACTTCACAACAAAAGGACGACTGGTTGTCAACAAACAATTTCCCAA
TTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGAC
Found at i:152353 original size:65 final size:64
Alignment explanation
Indices: 152213--152369 Score: 192
Period size: 64 Copynumber: 2.4 Consensus size: 64
152203 TTTTGGAACT
*
152213 AAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACATAAACATTTAAACATTTCCCTTGAAAT
1 AAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACATAAACATTTAAACATTTCCCTTGAAAC
* * * * **
152277 GAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACA-AAATC-TTTGAATATGTTTCCCTTGAA
1 AAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACATAAA-CATTT-AA-ACATTTCCCTTGAA
152340 AC
63 AC
* *
152342 AAATTTCGTCTCCCTTGAGACATTTTCT
1 AAATTTTGTCTCCCTTGAGACAGTTTCT
152370 TTTGGAACTA
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
63 6 0.08
64 36 0.46
65 36 0.46
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (64 bp):
AAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACATAAACATTTAAACATTTCCCTTGAAAC
Found at i:152468 original size:65 final size:65
Alignment explanation
Indices: 152382--152528 Score: 199
Period size: 65 Copynumber: 2.3 Consensus size: 65
152372 TGGAACTAAG
**
152382 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGATAGC-ATTTCCCTTGAAATG
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACA-AAATCATTGA-AGCTATTTCCCTTGAAACA
152445 AA
64 AA
* * *
152447 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCATTGAAGCTATTTCCCTTGAAACAAA
* *
152512 TTTCGTCTCCCTTGAGA
1 TTTTGTCTCTCTTGAGA
152529 CATTTTCTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
64 5 0.07
65 68 0.93
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (65 bp):
TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCATTGAAGCTATTTCCCTTGAAACAAA
Found at i:152471 original size:102 final size:102
Alignment explanation
Indices: 152280--152471 Score: 273
Period size: 102 Copynumber: 1.9 Consensus size: 102
152270 TTGAAATGAA
*
152280 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCATTGAATATGTTTCCCTTGAAACAAA
*
152345 TTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAG
66 TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
*
152382 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTG-ATA-GCATTTCCCTTGAAAT
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACA-AAATCATTGAATATG--TTTCCCTTGAAAC
* * * *
152444 GAATTTTGTCTCTCTTGAGATAGTTTCT
63 AAATTTCGTCTCCCTTGAGACAGTTTCT
152472 CTTGAAACAA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
100 1 0.01
101 3 0.04
102 73 0.91
103 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (102 bp):
TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCATTGAATATGTTTCCCTTGAAACAAA
TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
Found at i:152507 original size:167 final size:166
Alignment explanation
Indices: 152132--152655 Score: 827
Period size: 167 Copynumber: 3.2 Consensus size: 166
152122 ACAGTTTCCA
* * * * * * * *
152132 AGTTTCCCTTGAAACAAAATATTTAAATTTGTTTTCATTGAAACTAATTTCGTCTCCTTTGAGAC
1 AGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC
* * * * *
152197 ATTTTCTTTTGGAACTAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACATAAACATTTAAA
66 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAA
152262 CATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGAT
131 CATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGAT
152298 AGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC
1 AGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC
152363 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGATA
66 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGA-A
*
152428 GCATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGAT
130 ACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGAT
*
152465 AGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC
1 AGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC
*
152530 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGATATAGTTTCTCTTGAAACATAAACATTGAAA
66 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTG-AA
* **
152595 ACATTTCTCTTGAGTTGAATTTTGTCTCTCTTGAGAT
130 ACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGAT
*
152632 AGGTTC-CATTGAAACAAAAT-TTTG
1 AGTTTCTC-TTGAAACAAAATCTTTG
152656 TCTCCATTGA
Statistics
Matches: 334, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
166 120 0.36
167 213 0.64
168 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.42
Consensus pattern (166 bp):
AGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC
ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAA
CATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGAT
Found at i:152628 original size:102 final size:101
Alignment explanation
Indices: 152431--152813 Score: 391
Period size: 102 Copynumber: 3.8 Consensus size: 101
152421 ATTGATAGCA
* ** * * *
152431 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACA-AAATCTTTG-AATC
1 TTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAAC
* * ** * * * *
152494 TGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAT
65 -ATTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAG
** * * * *
152532 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGATATAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCATTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
**
152597 ATTTCTCTTGAGTTGAATTTTGTCTCTCTTGAGATAG
65 ATTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAG
*
152634 GTTCCATTGAAACAAAATTTTGTCTC-CATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
1 TTTCCATTGAAAC-AAATTTTGTCTCTC-TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
* *
152698 CATTTC-CATTGAAATGAATTTTGTCACTCATGAGATAG
64 CATTTCTC-TTGAAATGAATTTTGTCTCTCTTGAGATAG
* * *
152736 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTT-AAAGCATAAACTTTGAAAAC
1 TTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA-CATAAACATTGAAAAC
152800 AGTTT-TCTTTGAAA
65 A-TTTCTC-TTGAAA
152814 CAAAATCTTT
Statistics
Matches: 238, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
100 3 0.01
101 56 0.24
102 173 0.73
103 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (101 bp):
TTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
TTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAG
Found at i:152666 original size:37 final size:37
Alignment explanation
Indices: 152612--152684 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
152602 TCTTGAGTTG
*
152612 AATTTTGTCTCTCTTGAGATAGGTTC-CATTGAAACAA
1 AATTTTGTCTCTCTTGAGACAGGTTCTC-TTGAAACAA
*
152649 AATTTTGTCTC-CATTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCTC-TTGAGACAGGTTCTCTTGAAACA
152685 TAAACATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 1 0.03
37 30 0.94
38 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (37 bp):
AATTTTGTCTCTCTTGAGACAGGTTCTCTTGAAACAA
Found at i:152768 original size:36 final size:36
Alignment explanation
Indices: 152700--152775 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
152690 ATTGAAAACA
** * *
152700 TTTCCATTGAAATGAATTTTGTCACTCATGAGATAG
1 TTTCCATTGAAACAAATTTTGTCACCCATGAGACAG
* * *
152736 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCCATTGAAACAAATTTTGTCACCCATGAGACAG
152772 TTTC
1 TTTC
152776 TCTTAAAGCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
TTTCCATTGAAACAAATTTTGTCACCCATGAGACAG
Found at i:152895 original size:34 final size:36
Alignment explanation
Indices: 152841--152949 Score: 123
Period size: 36 Copynumber: 3.1 Consensus size: 36
152831 TTTTACGTGT
* * * *
152841 AACAAATATCGTCTCCCTTGAGACAGTTTCTTTTG-
1 AACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGA
* ** *
152876 GA-AGTTTTTGTCTCTCTTGAGATAGTTTCTCTTGA
1 AACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGA
*
152911 AACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
1 AACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGA
152947 AAC
1 AAC
152950 TTCAATCTTT
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
34 25 0.42
35 2 0.03
36 32 0.54
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (36 bp):
AACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGA
Found at i:153854 original size:19 final size:19
Alignment explanation
Indices: 153821--153857 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
153811 ATGACCAACA
*
153821 AAATCGCAATACGATCTCT
1 AAATCGCAACACGATCTCT
*
153840 AAATCGCAACGCGATCTC
1 AAATCGCAACACGATCTC
153858 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
AAATCGCAACACGATCTCT
Found at i:153906 original size:20 final size:20
Alignment explanation
Indices: 153883--153957 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
153873 GTTTCTAGAT
153883 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTTTGACTA
* * * *
153903 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTTTG-ACTA
* *
153923 TAGCAACGCGATTCTGACTA
1 TCGCAACGCGATTTTGACTA
*
153943 TCGCAATGCGATTTT
1 TCGCAACGCGATTTT
153958 ATAATATCGC
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 1 0.02
20 39 0.95
21 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (20 bp):
TCGCAACGCGATTTTGACTA
Found at i:153967 original size:21 final size:20
Alignment explanation
Indices: 153902--154037 Score: 105
Period size: 20 Copynumber: 6.7 Consensus size: 20
153892 GATTTTGACT
* *
153902 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATTATATAA
* * *
153922 ATAGCAACGCGATTCTGACT--
1 ATCGCAATGCGATTAT-A-TAA
*
153942 ATCGCAATGCGATTTTATAA
1 ATCGCAATGCGATTATATAA
* * *
153962 TATCGCAATGTGAATATGTAA
1 -ATCGCAATGCGATTATATAA
*
153983 ATCGCAATGCGATAATATAAA
1 ATCGCAATGCGATTATAT-AA
* *
154004 ATCGCAATGCGATAATACAA
1 ATCGCAATGCGATTATATAA
*
154024 ATCGCAATACGATT
1 ATCGCAATGCGATT
154038 TTCCAAATTC
Statistics
Matches: 91, Mismatches: 19, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 53 0.58
21 35 0.38
22 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (20 bp):
ATCGCAATGCGATTATATAA
Found at i:154003 original size:20 final size:20
Alignment explanation
Indices: 153942--154036 Score: 102
Period size: 21 Copynumber: 4.7 Consensus size: 20
153932 GATTCTGACT
**
153942 ATCGCAATGCGATTTTATAA
1 ATCGCAATGCGATAATATAA
* *
153962 TATCGCAATGTGA-ATATGTAA
1 -ATCGCAATGCGATA-ATATAA
153983 ATCGCAATGCGATAATATAAA
1 ATCGCAATGCGATAATAT-AA
*
154004 ATCGCAATGCGATAATACAA
1 ATCGCAATGCGATAATATAA
*
154024 ATCGCAATACGAT
1 ATCGCAATGCGAT
154037 TTTCCAAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
20 28 0.44
21 35 0.56
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (20 bp):
ATCGCAATGCGATAATATAA
Found at i:154026 original size:41 final size:41
Alignment explanation
Indices: 153942--154036 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
153932 GATTCTGACT
** * * **
153942 ATCGCAATGCGATTTTATAATATCGCAATGTGAATATGTAA
1 ATCGCAATGCGATAATATAAAATCGCAATGCGAATATACAA
153983 ATCGCAATGCGATAATATAAAATCGCAATGCG-ATAATACAA
1 ATCGCAATGCGATAATATAAAATCGCAATGCGAAT-ATACAA
*
154024 ATCGCAATACGAT
1 ATCGCAATGCGAT
154037 TTTCCAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 2 0.04
41 44 0.96
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (41 bp):
ATCGCAATGCGATAATATAAAATCGCAATGCGAATATACAA
Found at i:154028 original size:61 final size:61
Alignment explanation
Indices: 153901--154031 Score: 149
Period size: 61 Copynumber: 2.1 Consensus size: 61
153891 CGATTTTGAC
* ** ** *
153901 TATCGCAATGCGAATATGTAAATAGCAACGCGATTCTGACTATCGCAATGCGATTTTATAA
1 TATCGCAATGCGAATATGTAAATAGCAACGCGATTATGAAAATCGCAATGCGATAATACAA
* * *
153962 TATCGCAATGTGAATATGTAAATCGCAATGCGATAATAT-AAAATCGCAATGCGATAATACAA
1 TATCGCAATGCGAATATGTAAATAGCAACGCGAT--TATGAAAATCGCAATGCGATAATACAA
154024 -ATCGCAAT
1 TATCGCAAT
154032 ACGATTTTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
61 39 0.66
62 18 0.31
63 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (61 bp):
TATCGCAATGCGAATATGTAAATAGCAACGCGATTATGAAAATCGCAATGCGATAATACAA
Found at i:154507 original size:19 final size:20
Alignment explanation
Indices: 154482--154572 Score: 87
Period size: 19 Copynumber: 4.4 Consensus size: 20
154472 CTTATTTTGG
154482 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
154502 -TTTTTCACTATCGCAACAATAC
1 ATTTTTCACTATCGCAAC---AC
* * *
154524 GTTTTTCAAACTCTTGCAACAC
1 ATTTTTC--ACTATCGCAACAC
*
154546 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
154565 ATTTTTCA
1 ATTTTTCA
154573 AAATCGCGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
19 29 0.51
20 5 0.09
21 4 0.07
22 4 0.07
23 6 0.11
25 9 0.16
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.37
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:155168 original size:2 final size:2
Alignment explanation
Indices: 155163--155187 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
155153 TTTTTTAGAT
155163 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
155188 TATTTTTTAT
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:155211 original size:22 final size:21
Alignment explanation
Indices: 155177--155318 Score: 87
Period size: 22 Copynumber: 6.4 Consensus size: 21
155167 TATATATATA
*
155177 TATATATATATTATTTTTTAT
1 TATATATTTATTATTTTTTAT
* *
155198 TATCAGT-TTTATTAATTTATAT
1 TAT-A-TATTTATTATTTTTTAT
*
155220 ATATATATTTACTATTTTTTAT
1 -TATATATTTATTATTTTTTAT
* *
155242 T-T-TATTTATTTATTATATAT
1 TATATATTTA-TTATTTTTTAT
155262 ATATATTATTT-TTACTTTTTTAT
1 -TATA-TATTTATTA-TTTTTTAT
155285 TAT-TATTATTATTATTTGTTTTATT
1 TATATA-T-TTATTA-TT-TTTTA-T
155310 TATATATTT
1 TATATATTT
155319 TCTTTCTTTC
Statistics
Matches: 93, Mismatches: 12, Indels: 29
0.69 0.09 0.22
Matches are distributed among these distances:
19 6 0.06
20 11 0.12
21 7 0.08
22 35 0.38
23 15 0.16
24 12 0.13
25 5 0.05
26 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (21 bp):
TATATATTTATTATTTTTTAT
Found at i:155219 original size:44 final size:41
Alignment explanation
Indices: 155171--155299 Score: 129
Period size: 44 Copynumber: 3.1 Consensus size: 41
155161 ATTATATATA
155171 TATATATATATATATATTATTTTTTATTATCAGTTTTATTAATT
1 TATATATATATATATATTATTTTTTATTATCA--TTTATTAA-T
* * * *
155215 TATATATATATATTTACTATTTTTTATT-TTATTTATTTAT
1 TATATATATATATATATTATTTTTTATTATCATTTATTAAT
* *
155255 TATATATATATATTATTTTTACTTTTTTATTATTA-TTATT-AT
1 TATATATATATA-TA-TATTA-TTTTTTATTATCATTTATTAAT
155297 TAT
1 TAT
155300 TTGTTTTATT
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
40 13 0.18
41 8 0.11
42 8 0.11
43 16 0.22
44 29 0.39
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (41 bp):
TATATATATATATATATTATTTTTTATTATCATTTATTAAT
Found at i:155251 original size:9 final size:9
Alignment explanation
Indices: 155237--155441 Score: 65
Period size: 9 Copynumber: 22.3 Consensus size: 9
155227 TTTACTATTT
155237 TTTATTTTA
1 TTTATTTTA
155246 TTTA-TTTA
1 TTTATTTTA
*
155254 -TTATATATA
1 TTTAT-TTTA
*
155263 TATATTATT-
1 TTTATT-TTA
*
155272 TTTACTTT-
1 TTTATTTTA
155280 TTTATTATTA
1 TTTATT-TTA
155290 -TTATTATTA
1 TTTATT-TTA
*
155299 TTTGTTTTA
1 TTTATTTTA
*
155308 TTTA-TATA
1 TTTATTTTA
*
155316 TTT-TCTTTC
1 TTTAT-TTTA
*
155325 TTTCTTTT-
1 TTTATTTTA
155333 TTTATTTT-
1 TTTATTTTA
155341 TTTATATTTA
1 TTTAT-TTTA
*
155351 TTTTACTTACTA
1 -TTTA-TT-TTA
*
155363 TTTTATCTTTG
1 -TTTAT-TTTA
155374 TTT-TCTTTA
1 TTTAT-TTTA
155383 TCTTATCTTTTA
1 T-TTA--TTTTA
*
155395 TTTAATTTA
1 TTTATTTTA
*
155404 TTT-TTTTC
1 TTTATTTTA
*
155412 TTCATTTTAA
1 TTTATTTT-A
*
155422 TTTAATTTA
1 TTTATTTTA
155431 TTTA-TTTA
1 TTTATTTTA
155439 TTT
1 TTT
155442 CTTACCTTTT
Statistics
Matches: 151, Mismatches: 23, Indels: 45
0.69 0.11 0.21
Matches are distributed among these distances:
7 3 0.02
8 41 0.27
9 62 0.41
10 20 0.13
11 10 0.07
12 14 0.09
13 1 0.01
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (9 bp):
TTTATTTTA
Found at i:155272 original size:36 final size:37
Alignment explanation
Indices: 155140--155318 Score: 115
Period size: 44 Copynumber: 4.8 Consensus size: 37
155130 TTTACTTTAG
* ** * *
155140 TATATATTTTTATTTTTTTAGATTATATATATA-TATA
1 TATATATTATTA-TTTTTTATTTTATTTATTTATTATA
* *
155177 TATATATATATTATTTTTTATTATCAGTTTTATTAATTTATATA
1 TATATAT-TATTATTTTTTATT-TTA--TTTATT--TAT-TATA
*
155221 TATATATTTACTATTTTTTATTTTATTTATTTATTATA
1 TATATA-TTATTATTTTTTATTTTATTTATTTATTATA
*
155259 TATATA-TATTA-TTTTTACTTT-TTTA-TTATTAT-
1 TATATATTATTATTTTTTATTTTATTTATTTATTATA
* *
155291 TAT-TATTATT-TGTTTTA-TTTATATATTT
1 TATATATTATTATTTTTTATTTTATTTATTT
155319 TCTTTCTTTC
Statistics
Matches: 115, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
31 5 0.04
32 15 0.13
33 9 0.08
34 4 0.03
35 9 0.08
36 4 0.03
37 14 0.12
38 16 0.14
39 2 0.02
40 4 0.03
41 6 0.05
42 1 0.01
43 2 0.02
44 23 0.20
45 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (37 bp):
TATATATTATTATTTTTTATTTTATTTATTTATTATA
Found at i:160193 original size:18 final size:19
Alignment explanation
Indices: 160170--160224 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 19
160160 ACTGGCTGGA
160170 AAAAAACA-ATGAAATAAG
1 AAAAAACACATGAAATAAG
*
160188 AAAAAA-ACATGATATGAAG
1 AAAAAACACATGAAAT-AAG
* *
160207 -CAAAACAGATGAAATAAG
1 AAAAAACACATGAAATAAG
160225 GATTGAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 1 0.03
18 19 0.63
19 10 0.33
ACGTcount: A:0.65, C:0.07, G:0.15, T:0.13
Consensus pattern (19 bp):
AAAAAACACATGAAATAAG
Found at i:186016 original size:2 final size:2
Alignment explanation
Indices: 186009--186038 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
185999 CAGTTGCAGC
186009 AG 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 AG
186039 CGGAGGAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:188250 original size:26 final size:26
Alignment explanation
Indices: 188214--188308 Score: 181
Period size: 26 Copynumber: 3.7 Consensus size: 26
188204 AGTTACGCTA
*
188214 GAAATGAGAAGAGAGAAGCAAAAAAG
1 GAAATGAGAAGAGAGAAGCGAAAAAG
188240 GAAATGAGAAGAGAGAAGCGAAAAAG
1 GAAATGAGAAGAGAGAAGCGAAAAAG
188266 GAAATGAGAAGAGAGAAGCGAAAAAG
1 GAAATGAGAAGAGAGAAGCGAAAAAG
188292 GAAATGAGAAGAGAGAA
1 GAAATGAGAAGAGAGAA
188309 AAGGAATTTG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.59, C:0.03, G:0.34, T:0.04
Consensus pattern (26 bp):
GAAATGAGAAGAGAGAAGCGAAAAAG
Found at i:192327 original size:3 final size:3
Alignment explanation
Indices: 192319--192345 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
192309 AACTTGTAAT
192319 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
192346 GATTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:199278 original size:17 final size:18
Alignment explanation
Indices: 199256--199292 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
199246 AATAGGGGCC
*
199256 CTCCCTTGACGTT-TCAT
1 CTCCCTTGACCTTATCAT
199273 CTCCCTTGACCTTATCAT
1 CTCCCTTGACCTTATCAT
199291 CT
1 CT
199293 TCATCCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.14, C:0.38, G:0.08, T:0.41
Consensus pattern (18 bp):
CTCCCTTGACCTTATCAT
Found at i:200741 original size:176 final size:177
Alignment explanation
Indices: 200447--200799 Score: 699
Period size: 176 Copynumber: 2.0 Consensus size: 177
200437 ATTTTATTTT
200447 CGCTGATAATTTTACATTTCGTAAACCAAACGCAACATAACATCCACTTAAATTCTCAGTTTAGA
1 CGCTGATAATTTTACATTTCGTAAACCAAACGCAACATAACATCCACTTAAATTCTCAGTTTAGA
200512 GGTTCTTTTTTAAAAAGTCGAAATGGTTTGATTTGAAATTTGACACACTGAACACCGGCGGCTAA
66 GGTTCTTTTTTAAAAAGTCGAAATGGTTTGATTTGAAATTTGACACACTGAACACCGGCGGCTAA
200577 CCAGAATGTGACGCC-TTGCTTACAGCGTAGCTGACAAAACGTGTGA
131 CCAGAATGTGACGCCTTTGCTTACAGCGTAGCTGACAAAACGTGTGA
200623 CGCTGATAATTTTACATTTCGTAAACCAAACGCAACATAACATCCACTTAAATTCTCAGTTTAGA
1 CGCTGATAATTTTACATTTCGTAAACCAAACGCAACATAACATCCACTTAAATTCTCAGTTTAGA
200688 GGTTCTTTTTTAAAAAGTCGAAATGGTTTGATTTGAAATTTGACACACTGAACACCGGCGGCTAA
66 GGTTCTTTTTTAAAAAGTCGAAATGGTTTGATTTGAAATTTGACACACTGAACACCGGCGGCTAA
200753 CCAGAATGTGACGCCTTTGCTTACAGCGTAGCTGACAAAACGTGTGA
131 CCAGAATGTGACGCCTTTGCTTACAGCGTAGCTGACAAAACGTGTGA
200800 GCAAAAGATA
Statistics
Matches: 176, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
176 145 0.82
177 31 0.18
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (177 bp):
CGCTGATAATTTTACATTTCGTAAACCAAACGCAACATAACATCCACTTAAATTCTCAGTTTAGA
GGTTCTTTTTTAAAAAGTCGAAATGGTTTGATTTGAAATTTGACACACTGAACACCGGCGGCTAA
CCAGAATGTGACGCCTTTGCTTACAGCGTAGCTGACAAAACGTGTGA
Found at i:201519 original size:20 final size:21
Alignment explanation
Indices: 201466--201519 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 21
201456 TATAATTTTA
* *
201466 ATATTATCATT-TTGATAAGT
1 ATATTATTATTATTAATAAGT
* *
201486 A-ATTAATATAATTAATAA-T
1 ATATTATTATTATTAATAAGT
201505 ATATTATTATTATTA
1 ATATTATTATTATTA
201520 TTTTAATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
ATATTATTATTATTAATAAGT
Found at i:201523 original size:45 final size:43
Alignment explanation
Indices: 201467--201558 Score: 112
Period size: 45 Copynumber: 2.1 Consensus size: 43
201457 ATAATTTTAA
* * *
201467 TATTATCATTTTGATAAGTAATTAATATAATTAATAATATATTAT
1 TATTATCATTTTAATAAATAAATAATATAATTAATAATA-ATT-T
* * *
201512 TATTATTATTTTAATAAATAAATAGTATAATTTATAATAATTT
1 TATTATCATTTTAATAAATAAATAATATAATTAATAATAATTT
201555 TATT
1 TATT
201559 TTAATAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 5 0.12
44 3 0.07
45 33 0.80
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (43 bp):
TATTATCATTTTAATAAATAAATAATATAATTAATAATAATTT
Found at i:201583 original size:33 final size:37
Alignment explanation
Indices: 201512--201593 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 37
201502 AATATATTAT
*
201512 TATTATTATTTTAATAAATAAATAGTATAATTTATAATA
1 TATT-TTATTTTAATAAATAAATAG-ATAATCTATAATA
201551 -ATTTTATTTTAATAAAT-AATA-ATAATCT-TAATA
1 TATTTTATTTTAATAAATAAATAGATAATCTATAATA
*
201584 TTTTTTATTT
1 TATTTTATTT
201594 ATAAAATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
33 5 0.12
34 14 0.35
36 4 0.10
37 14 0.35
38 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (37 bp):
TATTTTATTTTAATAAATAAATAGATAATCTATAATA
Found at i:201664 original size:21 final size:21
Alignment explanation
Indices: 201640--201683 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
201630 ATAAATAACA
* **
201640 TTAAAAAATTATTCTAATATT
1 TTAAAAAATAATAATAATATT
201661 TTAAAAAATAATAATAATATT
1 TTAAAAAATAATAATAATATT
201682 TT
1 TT
201684 TTAATAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAAAATAATAATAATATT
Found at i:201695 original size:17 final size:16
Alignment explanation
Indices: 201669--201703 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
201659 TTTTAAAAAA
*
201669 TAATAATAATATTTTT
1 TAATAATAATATTATT
201685 TAATAAATAATATTATT
1 TAAT-AATAATATTATT
201702 TA
1 TA
201704 TTGTATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATAATAATATTATT
Found at i:202003 original size:77 final size:77
Alignment explanation
Indices: 201913--202064 Score: 304
Period size: 77 Copynumber: 2.0 Consensus size: 77
201903 CAGTGGGTCA
201913 TTTGTTTACACAAACACAAACTTTGTGATGGAAAATTGGAAACACTTAAAAGAGGTAAACATATT
1 TTTGTTTACACAAACACAAACTTTGTGATGGAAAATTGGAAACACTTAAAAGAGGTAAACATATT
201978 TAATCTTGCTAT
66 TAATCTTGCTAT
201990 TTTGTTTACACAAACACAAACTTTGTGATGGAAAATTGGAAACACTTAAAAGAGGTAAACATATT
1 TTTGTTTACACAAACACAAACTTTGTGATGGAAAATTGGAAACACTTAAAAGAGGTAAACATATT
202055 TAATCTTGCT
66 TAATCTTGCT
202065 TATAAAAATG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (77 bp):
TTTGTTTACACAAACACAAACTTTGTGATGGAAAATTGGAAACACTTAAAAGAGGTAAACATATT
TAATCTTGCTAT
Found at i:203747 original size:218 final size:219
Alignment explanation
Indices: 203362--203769 Score: 793
Period size: 218 Copynumber: 1.9 Consensus size: 219
203352 ATCTAACTTT
203362 TTCTTCTTTTTCTTCTTCTTCTCACCTGACATTCTGACTTTAAACAATTATCAAACTTTTAGGGC
1 TTCTTCTTTTTCTTCTTCTTCTCACCTGACATTCTGACTTTAAACAATTATCAAACTTTTAGGGC
203427 ACTTTCATTTTTGTTATCTAACTTTTAAAACTTGCAATACAGCCTTCAAACTTTTAGTTTGTTTT
66 ACTTTCATTTTTGTTATCTAACTTTTAAAACTTGCAATACAGCCTTCAAACTTTTAGTTTGTTTT
203492 CAGTTCTATCCTTGACGTTATCTCCCGTTAGTTTTTGCTGACATGACACATAACTCCTCCACTCC
131 CAGTTCTATCCTTGACGTTATCTCCCGTTAGTTTTTGCTGACATGACACATAACTCCTCCACTCC
203557 TGTTAACCCACCTCCTCCTCCTCA
196 TGTTAACCCACCTCCTCCTCCTCA
203581 TTCTTCTTTTTCTTCTTCTTCTCACCTGACATTCTGACTTTAAACAATTATCAAACTTTTAGGGC
1 TTCTTCTTTTTCTTCTTCTTCTCACCTGACATTCTGACTTTAAACAATTATCAAACTTTTAGGGC
203646 ACTTTCA-TTTT-TTATCTAACTTTTAAAAACTTGCAATACAGCCTTCAAACTTTTAGTTTGTTT
66 ACTTTCATTTTTGTTATCTAACTTTT-AAAACTTGCAATACAGCCTTCAAACTTTTAGTTTGTTT
203709 TCAGTTCTATCCTTGACGTTATCTCCCGTTAGTTTTTGCTGACATGACACATAACTCCTCC
130 TCAGTTCTATCCTTGACGTTATCTCCCGTTAGTTTTTGCTGACATGACACATAACTCCTCC
203770 TCCTCCTCCT
Statistics
Matches: 188, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
217 13 0.07
218 103 0.55
219 72 0.38
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.43
Consensus pattern (219 bp):
TTCTTCTTTTTCTTCTTCTTCTCACCTGACATTCTGACTTTAAACAATTATCAAACTTTTAGGGC
ACTTTCATTTTTGTTATCTAACTTTTAAAACTTGCAATACAGCCTTCAAACTTTTAGTTTGTTTT
CAGTTCTATCCTTGACGTTATCTCCCGTTAGTTTTTGCTGACATGACACATAACTCCTCCACTCC
TGTTAACCCACCTCCTCCTCCTCA
Done.