Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004398.1 Hibiscus syriacus cultivar Beakdansim tig00009644_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: 93313
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:714 original size:21 final size:20
Alignment explanation
Indices: 667--719 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
657 ACCATCTCCG
* **
667 CAGGTTACATTCCTAGCCTT
1 CAGGTTATATTCCTAGCCAC
687 CAGGGTTATATTCCTAGCCCAC
1 CA-GGTTATATTCCTAG-CCAC
709 CAGGTTATATT
1 CAGGTTATATT
720 AGCCTGCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 22 0.79
22 4 0.14
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (20 bp):
CAGGTTATATTCCTAGCCAC
Found at i:1274 original size:34 final size:34
Alignment explanation
Indices: 1236--1308 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
1226 TTAAATGTTT
*
1236 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
1 TTAAAATACAAATTAAAGTATTCGAAATTTAAAA
*
1270 TTAAAATACAAATTAAAGTATTCGAAATTTAACA
1 TTAAAATACAAATTAAAGTATTCGAAATTTAAAA
1304 TTAAA
1 TTAAA
1309 TTCAACTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.34
Consensus pattern (34 bp):
TTAAAATACAAATTAAAGTATTCGAAATTTAAAA
Found at i:2104 original size:137 final size:138
Alignment explanation
Indices: 1683--2720 Score: 1271
Period size: 138 Copynumber: 7.7 Consensus size: 138
1673 CCATCCATCT
*
1683 ATAGTTCCCC-GGGGACATGTGTGACATAATA-GGCAATGATAACATATTCT-TGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * * * *
1745 GGATGTCGCACCCCCGGGAACGCGCTTTAACAACTTTGCCAAGTCCCCT-A-AAA-AATA-ATA-
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
**
1805 TTCCATGA
131 TGACATGA
* * * *
1813 ATAGTTCCCCAGGGGATATGAGTGACATAATAGGTCAATGATAACATATTCTCTAACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
1878 GGAAGGAGGGCCCCCCTAGGAA--CG-------CACTTT--CAAGTCCCCTCAGAAATAATAGGT
66 GGAAGGCGCG-CCCCC-GGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGT
*
1932 ACTGCCATGA
129 ACTGACATGA
*
1942 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTGAC-AAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * * * *
2006 AGAAGGCGC-CCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTTCCTTAAAAAAATAATAGGCA
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCT-CAGAAATAATAGGTA
2070 CTGACATGA
130 CTGACATGA
* * *
2079 ATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAATATCTTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*** *
2144 GGAAGGCGC-CCCCCCATAACACGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
2208 TGCCATGA
131 TGACATGA
* * * *
2216 ATAGTTCCCTGGGGGACATAAGTGACATAATAGGGTAATGATAACAGATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
2281 GAAAGGCGCGCCCTCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
2346 TAACATGA
131 TGACATGA
* * * * * * *
2354 ATAGTTCCCTGGGGGACATGAGTAATATAATAGGGTAATAATAATATATTCTCTGATAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
2419 GGAAGGTGC-CCCCTGGGAACGCG---------CTTT--CAAGTCCCCTCAGAAATAATAGGTAT
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
2472 TGTCATGA
131 TGACATGA
* * *
2480 ATAGTTCCTCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACTAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
2545 GGAAGGTGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGTTAT
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
2610 TGACATGA
131 TGACATGA
* *
2618 ATAGTTCCCTGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTTTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
2683 AGAAGGCGCGCCCCCGGGAACGTGCTTTCACCACTTTG
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTG
2721 GGTACTAACA
Statistics
Matches: 780, Mismatches: 92, Indels: 64
0.83 0.10 0.07
Matches are distributed among these distances:
124 10 0.01
125 5 0.01
126 108 0.14
127 19 0.02
128 19 0.02
129 60 0.08
130 10 0.01
131 19 0.02
132 18 0.02
133 18 0.02
134 11 0.01
135 4 0.01
136 12 0.02
137 171 0.22
138 296 0.38
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (138 bp):
ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
TGACATGA
Found at i:2565 original size:264 final size:264
Alignment explanation
Indices: 1683--2814 Score: 1343
Period size: 264 Copynumber: 4.3 Consensus size: 264
1673 CCATCCATCT
* *
1683 ATAGTTCCCCGGGGACATGTGTGACATAATA-GGCAATGATAACATATTCT-TGACAAAATAATG
1 ATAGTTCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATG
* * * * * *
1746 GATGTCGCACCCCCGGGAACGCGCTTTAACAACTTTGCCAAGTCCCCT-A-AAA-AATA-ATA-T
66 GAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACT
** * * *
1806 TCCATGAATAGTTCCCCAGGGGATATGAGTGACATAATAGGTCAATGATAACATATTCTCTAACA
131 GACATGAATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACA
* *
1871 AAATAATGGAAGGAGGGCCCCCCTAGGAACGCACTTTCAAGTCCCCTCAGAAATAATAGGTACTG
196 AAATAATGGAA-G-GCGCCCCCCCAGGAACGCACTTTCAAGTCCCCTCAGAAATAATAGGTACTG
1936 CCATGA
259 CCATGA
*
1942 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTGAC-AAATAAT
1 ATAGTT-CCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * * * *
2006 AGAAGGCGC-CCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTTCCTTAAAAAAATAATAGGCA
65 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCT-CAGAAATAATAGGTA
* *
2070 CTGACATGAATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAATATCTTCTCTGA
129 CTGACATGAATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
**
2135 CAAAATAATGGAAGGCGCCCCCCCATAACACGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATA
194 CAAAATAATGGAAGGCGCCCCCCCAGGA-ACG-------CACTTT--CAAGTCCCCTCAGAAATA
2200 ATAGGTACTGCCATGA
249 ATAGGTACTGCCATGA
* * *
2216 ATAGTTCCCTGGGGGACATAAGTGACATAATAGGGTAATGATAACAGATTCTCTGACAAAATAAT
1 ATAGTTCCC-GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
2281 GAAAGGCGCGCCCTCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
65 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
* ** * * * * * *
2346 TAACATGAATAGTTCCCTGGGGGACATGAGTAATATAATAGGGTAATAATAATATATTCTCTGAT
130 TGACATGAATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
* ** * * *
2411 AAAATAATGGAAGGTG-CCCCCTGGGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTATTGT
195 AAAATAATGGAAGGCGCCCCCCCAGGAACGCACTTTCAAGTCCCCTCAGAAATAATAGGTACTGC
2475 CATGA
260 CATGA
* *
2480 ATAGTTCCTCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACTAAATAAT
1 ATAGTTCC-CGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
2545 GGAAGGTGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGTTAT
65 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
** *
2610 TGACATGAATAGTTCCCTGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTTTCTGAC
130 TGACATGAATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
* * * ** * * **
2675 AAAATAATAGAAGGCGCGCCCCCGGGAACGTGCTTTC-A--CCACT------T--TGGGTACTAA
195 AAAATAATGGAAGGCGCCCCCCCAGGAACGCACTTTCAAGTCCCCTCAGAAATAATAGGTACTGC
2729 CATGA
260 CATGA
* * * * *
2734 ATAGTGCTCCCGAGGGACATGAGTGATATAATAGAGAAATGATAACATATTATCTGACAAAATAA
1 ATAGT--TCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
2799 TGGAAGGCGCGCCCCC
64 TGGAAGGCGCGCCCCC
2815 AGAAACGTGC
Statistics
Matches: 759, Mismatches: 88, Indels: 56
0.84 0.10 0.06
Matches are distributed among these distances:
254 16 0.02
255 63 0.08
256 4 0.01
259 6 0.01
260 58 0.08
261 31 0.04
262 9 0.01
263 3 0.00
264 236 0.31
265 23 0.03
266 75 0.10
272 6 0.01
273 6 0.01
274 89 0.12
275 98 0.13
276 36 0.05
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (264 bp):
ATAGTTCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATG
GAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACT
GACATGAATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACA
AAATAATGGAAGGCGCCCCCCCAGGAACGCACTTTCAAGTCCCCTCAGAAATAATAGGTACTGCC
ATGA
Found at i:7470 original size:3 final size:3
Alignment explanation
Indices: 7462--7491 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7452 GTCATTAACC
7462 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7492 TGCCATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12316 original size:6 final size:6
Alignment explanation
Indices: 12307--12545 Score: 388
Period size: 6 Copynumber: 39.8 Consensus size: 6
12297 AACACAATTA
*
12307 TCATTG TCATTA TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
1 TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
12355 TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
1 TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
12403 TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
1 TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
* *
12451 TCATTG TCATTG TCATTG TCATTG TCATTT TCATTG TCATTG TCATTA
1 TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
* * * * * * *
12499 TCATTA TCATTA TCATTA TCATTA TCATTA TCATTA TCATTA TCATT
1 TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATT
12546 CACTGTTCAT
Statistics
Matches: 228, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 228 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.51
Consensus pattern (6 bp):
TCATTG
Found at i:16437 original size:30 final size:30
Alignment explanation
Indices: 16403--16490 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
16393 AAATTTTAAC
*
16403 TAGTGACTAAAATGTAAGA-TTTAAAAAGTT
1 TAGTGACTAAAATATAA-ACTTTAAAAAGTT
* *
16433 TAGTGGCTAAAGTATAAACTTTAAAAAGTT
1 TAGTGACTAAAATATAAACTTTAAAAAGTT
* * **
16463 TAGGGACTGAAATTATAATTTTTAAAAA
1 TAGTGACT-AAAATATAAACTTTAAAAA
16491 TTATATATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 1 0.02
30 31 0.65
31 16 0.33
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (30 bp):
TAGTGACTAAAATATAAACTTTAAAAAGTT
Found at i:23565 original size:31 final size:31
Alignment explanation
Indices: 23524--23593 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
23514 TAAAAAAACA
* * *
23524 TAAGTTTTGGTCACTTATGTTATTGTTTTTT
1 TAAGTTTTGGTCACTTACGTTATCGTTTTAT
*
23555 TATGTTTTGGTCACTTACGTTATCGTTTTAT
1 TAAGTTTTGGTCACTTACGTTATCGTTTTAT
23586 TAAGTTTT
1 TAAGTTTT
23594 TGTTACTTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.17, C:0.09, G:0.16, T:0.59
Consensus pattern (31 bp):
TAAGTTTTGGTCACTTACGTTATCGTTTTAT
Found at i:26142 original size:25 final size:24
Alignment explanation
Indices: 26114--26160 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
26104 ATCAAAAATC
26114 AATTCAATTAAAAAATTATTATCCA
1 AATTCAATTAAAAAATT-TTATCCA
** *
26139 AATTCGTTTATAAAATTTTATC
1 AATTCAATTAAAAAATTTTATC
26161 ATATATAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (24 bp):
AATTCAATTAAAAAATTTTATCCA
Found at i:26264 original size:105 final size:105
Alignment explanation
Indices: 26152--26353 Score: 350
Period size: 105 Copynumber: 1.9 Consensus size: 105
26142 TCGTTTATAA
*
26152 AATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAAGTAATTTTAAAAAATCATCATTTC
1 AATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTTAAAAAATCATCATTTC
* *
26217 TCTAAATAATTTTCAACCATTTTCTATTAAATGACAATAT
66 CCTAAATAATTTTCAACCACTTTCTATTAAATGACAATAT
* * *
26257 AATTTTATCATATATAGTATACAATTATAATAAATCCCTAAGTAATTTTAAAAAATCATCATTTC
1 AATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTTAAAAAATCATCATTTC
26322 CCTAAATAATTTTCAACCACTTTCTATTAAAT
66 CCTAAATAATTTTCAACCACTTTCTATTAAAT
26354 TTAGTTTAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 91 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (105 bp):
AATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTTAAAAAATCATCATTTC
CCTAAATAATTTTCAACCACTTTCTATTAAATGACAATAT
Found at i:26723 original size:148 final size:148
Alignment explanation
Indices: 26253--26862 Score: 952
Period size: 149 Copynumber: 4.1 Consensus size: 148
26243 TTAAATGACA
* * *
26253 ATATAATTTTATCATATATAGTATACAATTATAATAAATCCCTAAGTAATTTTAAAAAATCATCA
1 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAA-TTT---AAATCATCA
* *
26318 TTTCCCTAAATAATTTTCAACCACTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAA
62 TTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAA
*
26383 AAGGTTATAAGGCAAATTCATTT
127 AA-ATTATAAGGCAAATTCATTT
* *
26406 ATATAATTTTATCATATATATTAGAAAATTACAATAAATTCCTAAGTAATTTAAATCATCATTTC
1 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTAAATCATCATTTC
* * *
26471 TCTAAATAATTTTCAAACATTTTCTATTAAATTTAATTTAATAAAACATCAATTCAACTAAAAAA
66 TCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACT-AAAAA
* *
26536 TTATAAGGTAAATTAATTT
130 TTATAAGGCAAATTCATTT
*
26555 ATATAATTTTATCATATATAGTAGAAAATTAGAATAAATCCCTAAGTAATTTAAATCATCATTTC
1 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTAAATCATCATTTC
*
26620 TCTAAGTAATTTTCAACCATTTTCTATT-AATTTAGTTTAATCAAACATCAATTCAACTAAACAA
66 TCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAAA-AA
26684 TTATAAGGCAAATTCATTT
130 TTATAAGGCAAATTCATTT
* ** *
26703 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAAAAAAATTAAATCATCATTTC
1 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTAAATCATCATTTC
* *
26768 TCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACACCAATTCAACTAAAACT
66 TCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAAT
*
26833 TATAAGACAAATTCATTT
131 TATAAGGCAAATTCATTT
26851 ATATAATTTTAT
1 ATATAATTTTAT
26863 GATTTCTCTA
Statistics
Matches: 423, Mismatches: 31, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
147 3 0.01
148 165 0.39
149 204 0.48
150 4 0.01
152 3 0.01
153 44 0.10
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.40
Consensus pattern (148 bp):
ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTAAATCATCATTTC
TCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAAT
TATAAGGCAAATTCATTT
Found at i:26792 original size:297 final size:299
Alignment explanation
Indices: 26253--26862 Score: 985
Period size: 297 Copynumber: 2.0 Consensus size: 299
26243 TTAAATGACA
* * *
26253 ATATAATTTTATCATATATAGTATACAATTATAATAAATCCCTAAGTAATTTTAAAAAATCATCA
1 ATATAATTTTATCATATATAGTAGAAAATTAGAATAAATCCCTAAGTAATTTT--AAAATCATCA
26318 TTTCCCTAAATAATTTTCAACCACTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAA
64 TTTCCCTAAATAATTTTCAACCACTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAA
* *
26383 AAGGTTATAAGGCAAATTCATTTATATAATTTTATCATATATATTAGAAAATTACAATAAATTCC
129 AAGATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCC
** *
26448 TAAGTAATTTAAATCATCATTTCTCTAAATAATTTTCAAACATTTTCTATTAAATTTAATTTAAT
194 TAAAAAAATTAAATCATCATTTCTCTAAATAATTTTCAAACATTTTCTATTAAATTTAATTTAAT
* **
26513 AAAACATCAATTCAACTAAAAAATTATAAGGTAAATTAATTT
259 AAAACACCAATTCAACT-AAAAATTATAAGACAAATTAATTT
26555 ATATAATTTTATCATATATAGTAGAAAATTAGAATAAATCCCTAAGTAA-TTT-AAATCATCATT
1 ATATAATTTTATCATATATAGTAGAAAATTAGAATAAATCCCTAAGTAATTTTAAAATCATCATT
* * *
26618 TCTCTAAGTAATTTTCAACCATTTTCTATT-AATTTAGTTTAATCAAACATCAATTCAACTAAAC
66 TCCCTAAATAATTTTCAACCACTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAAA-
26682 A-ATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCT
130 AGATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCT
* * *
26746 AAAAAAATTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATC
195 AAAAAAATTAAATCATCATTTCTCTAAATAATTTTCAAACATTTTCTATTAAATTTAATTTAATA
* *
26811 AAACACCAATTCAACTAAAACTTATAAGACAAATTCATTT
260 AAACACCAATTCAACTAAAAATTATAAGACAAATTAATTT
26851 ATATAATTTTAT
1 ATATAATTTTAT
26863 GATTTCTCTA
Statistics
Matches: 288, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
296 32 0.11
297 168 0.58
298 39 0.14
301 3 0.01
302 46 0.16
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.40
Consensus pattern (299 bp):
ATATAATTTTATCATATATAGTAGAAAATTAGAATAAATCCCTAAGTAATTTTAAAATCATCATT
TCCCTAAATAATTTTCAACCACTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAAAA
GATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTA
AAAAAATTAAATCATCATTTCTCTAAATAATTTTCAAACATTTTCTATTAAATTTAATTTAATAA
AACACCAATTCAACTAAAAATTATAAGACAAATTAATTT
Found at i:26885 original size:101 final size:102
Alignment explanation
Indices: 26763--26964 Score: 361
Period size: 101 Copynumber: 2.0 Consensus size: 102
26753 TTAAATCATC
26763 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACACCAATTCAACT-
1 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACACCAATTCAACTA
*
26827 AAAACTTATAAGACAAATTCATTTATATAATTTTATG
66 AAAAATTATAAGACAAATTCATTTATATAATTTTATG
* *
26864 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAAGTA
1 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACACCAATTCAACTA
*
26929 AAAAATTATAAGGCAAATTCATTTATATAATTTTAT
66 AAAAATTATAAGACAAATTCATTTATATAATTTTAT
26965 CGTATATAAT
Statistics
Matches: 96, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 62 0.65
102 34 0.35
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.42
Consensus pattern (102 bp):
ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACACCAATTCAACTA
AAAAATTATAAGACAAATTCATTTATATAATTTTATG
Found at i:26980 original size:547 final size:547
Alignment explanation
Indices: 26021--27349 Score: 1932
Period size: 547 Copynumber: 2.4 Consensus size: 547
26011 ACAAAGCCGT
* *
26021 AATTACAATAAATCCCTAAGTAATTTTAAAAAATCATCATTTATCTAAATAATTTTCAGCCATTT
1 AATTACAATAAATCCCTAAGTAA-TTT---AAATCATCATTTCTCTAAATAATTTTCAACCATTT
* * * ** *
26086 TCTATTAAATTTAGTTTAATCAAAAATCAATTCAATTAAAAAATTATTATCCAAATTCGTTTATA
62 TCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATA
* * *
26151 AAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAAGTAATTTTAAAAAATCATCATTT
127 TAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAA-AAAATTT---AAATCATCATTT
* * **
26216 CTCTAAATAATTTTCAACCATTTTCTATTAAATGACAATATAATTTTATCATATATAGTATACAA
188 CTCTAAATAATTTTCAACCATTTTCTATTAAAT-----TATAATTTAATCATATACACAATACAA
* * * *
26281 TTATAATAAATCCCTAAGTAATTTTAAAAAATCATCATTTCCCTAAATAATTTTCAACCACTTTC
248 CTAAAATAAATCACAAAGTAATTTTAAAAAATCATCATTTCCCTAAATAATTTTCAACCACTTTC
**
26346 TATTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAGGTTATAAGGCAAATTCATTTATATA
313 TATTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATA
* *
26411 ATTTTATCATATATATTAGAAAATTACAATAAATTCCTAAGTAATTTAAATCATCATTTCTCTAA
378 ATTTTATCATATATAATAGAAAATTACAATAAATCCCTAAGTAATTTAAATCATCATTTCTCTAA
26476 ATAATTTTCAAACATTTTCTATTAAATTTAATTTAAT-AAAACATCAATTCAACTAAAAAATTAT
443 ATAATTTTCAAACATTTTCTATTAAATTTAATTTAATCAAAA-ATCAATTCAACTAAAAAATTAT
*
26540 AAGGTAAATTAATTTATATAATTTTATCATATATAGTAGAA
507 AAGGCAAATTAATTTATATAATTTTATCATATATAGTAGAA
* *
26581 AATTAGAATAAATCCCTAAGTAATTTAAATCATCATTTCTCTAAGTAATTTTCAACCATTTTCTA
1 AATTACAATAAATCCCTAAGTAATTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTA
*
26646 TT-AATTTAGTTTAATCAAACATCAATTCAACTAAACAATTATAAGGCAAATTCATTTATATAAT
66 TTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAAT
*
26710 TTTATCATATATAGTAGAAAATTACAATAAATTCCTAAAAAAATTAAATCATCATTTCTCTAAAT
131 TTTATCATATATAGTAGAAAATTACAATAAATTCCTAAAAAATTTAAATCATCATTTCTCTAAAT
* *
26775 AATTTTCAACCATTTTCTATTAAATT-TAGTTTAATCA-A-ACACCAATTCAACTAAAACTTATA
196 AATTTTCAACCATTTTCTATTAAATTATAATTTAATCATATACA-CAATACAACTAAAA--TA-A
* * * * ** * * * *
26837 A-GACAAATTCATTTATATAATTTTATGATTTCTCTAAATAATTTTCAACCATTTTCTATTAAAT
257 ATCACAAAGTAATTT-TAAAAAATCATCATTTCCCTAAATAATTTTCAACCACTTTCTATTAAAT
*
26901 TTAGTTTAATCAAACATCAATTCAAGTAAAAAATTATAAGGCAAATTCATTTATATAATTTTATC
321 TTAGTTTAATCAAACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAATTTTATC
* *
26966 GTATATAATAGAAAATTACAATAAATCCCTAAGTAGTTTAAATCATCATTTCTCTAAATAATTTT
386 ATATATAATAGAAAATTACAATAAATCCCTAAGTAATTTAAATCATCATTTCTCTAAATAATTTT
* *
27031 CAACCATTTTCTATTAAATTTAGTTTAATCAAAAATCAATTCAACTAAAAAATTATAAGGCAAAT
451 CAAACATTTTCTATTAAATTTAATTTAATCAAAAATCAATTCAACTAAAAAATTATAAGGCAAAT
*
27096 TCATTTATATAATTTTATCATATATAGTAGAA
516 TAATTTATATAATTTTATCATATATAGTAGAA
* * * * *
27128 AATTACAATAAATTCCTAGGTAATTTAAATCATCATCTCTCTAAATAAATTTCAACCATTTTCTT
1 AATTACAATAAATCCCTAAGTAATTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTA
* *
27193 TTAAATTTAGTTTAATCAAACATCAATTCAACTAAATAATTATAAGGCAATTTCATTTATATAAT
66 TTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAAT
**
27258 TTTATCATATATAGTAGAAAATTACAATAAATTCCTAAGTAATTTAAATCATCATTTCTCTAAAT
131 TTTATCATATATAGTAGAAAATTACAATAAATTCCTAAAAAATTTAAATCATCATTTCTCTAAAT
*
27323 AATTTTCAACCATTTCCTATTACAATT
196 AATTTTCAACCATTTTCTATTA-AATT
27350 CAACTAAAAC
Statistics
Matches: 702, Mismatches: 59, Indels: 27
0.89 0.07 0.03
Matches are distributed among these distances:
543 2 0.00
544 10 0.01
545 9 0.01
546 11 0.02
547 315 0.45
548 147 0.21
549 4 0.01
551 45 0.06
554 4 0.01
555 92 0.13
556 38 0.05
559 3 0.00
560 22 0.03
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (547 bp):
AATTACAATAAATCCCTAAGTAATTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTA
TTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAAT
TTTATCATATATAGTAGAAAATTACAATAAATTCCTAAAAAATTTAAATCATCATTTCTCTAAAT
AATTTTCAACCATTTTCTATTAAATTATAATTTAATCATATACACAATACAACTAAAATAAATCA
CAAAGTAATTTTAAAAAATCATCATTTCCCTAAATAATTTTCAACCACTTTCTATTAAATTTAGT
TTAATCAAACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATA
TAATAGAAAATTACAATAAATCCCTAAGTAATTTAAATCATCATTTCTCTAAATAATTTTCAAAC
ATTTTCTATTAAATTTAATTTAATCAAAAATCAATTCAACTAAAAAATTATAAGGCAAATTAATT
TATATAATTTTATCATATATAGTAGAA
Found at i:27055 original size:250 final size:250
Alignment explanation
Indices: 26615--27113 Score: 856
Period size: 250 Copynumber: 2.0 Consensus size: 250
26605 TTAAATCATC
*
26615 ATTTCTCTAAGTAATTTTCAACCATTTTCTATTAATTTAGTTTAATCAAACATCAATTCAACTAA
1 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAATTTAGTTTAATCAAACATCAATTCAACTAA
* * *
26680 ACAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCC
66 AAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAATAGAAAATTACAATAAATCCC
26745 TAAAAAAATTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAAT
131 TAAAAAAATTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAAT
* *
26810 CAAACACCAATTCAACT-AAAACTTATAAGACAAATTCATTTATATAATTTTATG
196 CAAAAACCAATTCAACTAAAAAATTATAAGACAAATTCATTTATATAATTTTATG
*
26864 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAAGTA
1 ATTTCTCTAAATAATTTTCAACCATTTTCTATT-AATTTAGTTTAATCAAACATCAATTCAACTA
*
26929 AAAAATTATAAGGCAAATTCATTTATATAATTTTATCGTATATAATAGAAAATTACAATAAATCC
65 AAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAATAGAAAATTACAATAAATCC
** **
26994 CTAAGTAGTTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAA
130 CTAAAAAAATTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAA
* *
27059 TCAAAAATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAATTTTAT
195 TCAAAAACCAATTCAACTAAAAAATTATAAGACAAATTCATTTATATAATTTTAT
27114 CATATATAGT
Statistics
Matches: 234, Mismatches: 14, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
249 32 0.14
250 168 0.72
251 34 0.15
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (250 bp):
ATTTCTCTAAATAATTTTCAACCATTTTCTATTAATTTAGTTTAATCAAACATCAATTCAACTAA
AAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAATAGAAAATTACAATAAATCCC
TAAAAAAATTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAAT
CAAAAACCAATTCAACTAAAAAATTATAAGACAAATTCATTTATATAATTTTATG
Found at i:27134 original size:149 final size:149
Alignment explanation
Indices: 26864--27349 Score: 846
Period size: 149 Copynumber: 3.3 Consensus size: 149
26854 TAATTTTATG
*
26864 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAAGTA
1 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTA
* * *
26929 AAAAATTATAAGGCAAATTCATTTATATAATTTTATCGTATATAATAGAAAATTACAATAAATCC
66 AAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTC
*
26994 CTAAGTAGTTTAAATCATC
131 CTAAGTAATTTAAATCATC
*
27013 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAAAATCAATTCAACTA
1 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTA
27078 AAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTC
66 AAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTC
*
27143 CTAGGTAATTTAAATCATC
131 CTAAGTAATTTAAATCATC
* * *
27162 ATCTCTCTAAATAAATTTCAACCATTTTCTTTTAAATTTAGTTTAATCAAACATCAATTCAACTA
1 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTA
* *
27227 AATAATTATAAGGCAATTTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTC
66 AAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTC
27292 CTAAGTAATTTAAATCATC
131 CTAAGTAATTTAAATCATC
*
27311 ATTTCTCTAAATAATTTTCAACCATTTCCTATTACAATT
1 ATTTCTCTAAATAATTTTCAACCATTTTCTATTA-AATT
27350 CAACTAAAAC
Statistics
Matches: 318, Mismatches: 18, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
149 314 0.99
150 4 0.01
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (149 bp):
ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTA
AAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTAGAAAATTACAATAAATTC
CTAAGTAATTTAAATCATC
Found at i:27213 original size:399 final size:399
Alignment explanation
Indices: 26466--27262 Score: 1362
Period size: 399 Copynumber: 2.0 Consensus size: 399
26456 TTAAATCATC
26466 ATTTCTCTAAATAATTTTCAAACATTTTCTATTAAATTTAATTTAATAAAACATCAATTCAACTA
1 ATTTCTCTAAATAATTTTCAAACATTTTCTATTAAATTTAATTTAATAAAACATCAATTCAACTA
* * *
26531 AAAAATTATAAGGTAAATTAATTTATATAATTTTATCATATATAGTAGAAAATTAGAATAAATCC
66 AAAAATTATAAGGCAAATTAATTTATATAATTTTATCATATATAATAGAAAATTACAATAAATCC
*
26596 CTAAGTAATTTAAATCATCATTTCTCTAAGTAATTTTCAACCATTTTCTATTAATTTAGTTTAAT
131 CTAAGTAATTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAATTTAGTTTAAT
* *
26661 CAAACATCAATTCAACTAAACAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTA
196 CAAAAATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTA
* *
26726 GAAAATTACAATAAATTCCTAAAAAAATTAAATCATCATTTCTCTAAATAATTTTCAACCATTTT
261 GAAAATTACAATAAATTCCTAAAAAAATTAAATCATCATCTCTCTAAATAAATTTCAACCATTTT
*
26791 CTATTAAATTTAGTTTAATCAAACACCAATTCAACTAAA-ACTTATAAGACAAATTCATTTATAT
326 CTATTAAATTTAGTTTAATCAAACACCAATTCAACTAAATAATTATAAGACAAATTCATTTATAT
26855 AATTTTATG
391 AATTTTATG
* * * *
26864 ATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAAGTA
1 ATTTCTCTAAATAATTTTCAAACATTTTCTATTAAATTTAATTTAATAAAACATCAATTCAACTA
* *
26929 AAAAATTATAAGGCAAATTCATTTATATAATTTTATCGTATATAATAGAAAATTACAATAAATCC
66 AAAAATTATAAGGCAAATTAATTTATATAATTTTATCATATATAATAGAAAATTACAATAAATCC
*
26994 CTAAGTAGTTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAA
131 CTAAGTAATTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATT-AATTTAGTTTAA
27059 TCAAAAATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGT
195 TCAAAAATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGT
*** *
27124 AGAAAATTACAATAAATTCCTAGGTAATTTAAATCATCATCTCTCTAAATAAATTTCAACCATTT
260 AGAAAATTACAATAAATTCCTAAAAAAATTAAATCATCATCTCTCTAAATAAATTTCAACCATTT
* * * *
27189 TCTTTTAAATTTAGTTTAATCAAACATCAATTCAACTAAATAATTATAAGGCAATTTCATTTATA
325 TCTATTAAATTTAGTTTAATCAAACACCAATTCAACTAAATAATTATAAGACAAATTCATTTATA
27254 TAATTTTAT
390 TAATTTTAT
27263 CATATATAGT
Statistics
Matches: 373, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
398 171 0.46
399 172 0.46
400 30 0.08
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (399 bp):
ATTTCTCTAAATAATTTTCAAACATTTTCTATTAAATTTAATTTAATAAAACATCAATTCAACTA
AAAAATTATAAGGCAAATTAATTTATATAATTTTATCATATATAATAGAAAATTACAATAAATCC
CTAAGTAATTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAATTTAGTTTAAT
CAAAAATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGTA
GAAAATTACAATAAATTCCTAAAAAAATTAAATCATCATCTCTCTAAATAAATTTCAACCATTTT
CTATTAAATTTAGTTTAATCAAACACCAATTCAACTAAATAATTATAAGACAAATTCATTTATAT
AATTTTATG
Found at i:27351 original size:129 final size:129
Alignment explanation
Indices: 27216--27473 Score: 428
Period size: 129 Copynumber: 2.0 Consensus size: 129
27206 AATCAAACAT
* * *
27216 CAATTCAACTAAATA-ATTATAAGGCAATTTCATTTATATAATTTTATCATATATAGTAGAAAAT
1 CAATTCAACTAAA-ACATTATAAGACAAATTCATTTATATAATTTTATCATATATAATAGAAAAT
*
27280 TACAATAAATTCCTAAGTAATTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTCCTATTA
65 TACAATAAATTCCTAAGTAATTTAAATAATCATTTCTCTAAATAATTTTCAACCATTTCCTATTA
* *
27345 CAATTCAACTAAAACATTATAAGACAAATTCATTTATATACTTTTATCATATATAATATAAAATT
1 CAATTCAACTAAAACATTATAAGACAAATTCATTTATATAATTTTATCATATATAATAGAAAATT
* *
27410 ACAATAAATTCCTAAGTAATTTAAATAATCGTTTCTCTAAATAATTTTCAACCATTTTCTATTA
66 ACAATAAATTCCTAAGTAATTTAAATAATCATTTCTCTAAATAATTTTCAACCATTTCCTATTA
27474 AATGACAATA
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
128 1 0.01
129 119 0.99
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (129 bp):
CAATTCAACTAAAACATTATAAGACAAATTCATTTATATAATTTTATCATATATAATAGAAAATT
ACAATAAATTCCTAAGTAATTTAAATAATCATTTCTCTAAATAATTTTCAACCATTTCCTATTA
Found at i:27404 original size:149 final size:144
Alignment explanation
Indices: 26952--27405 Score: 411
Period size: 149 Copynumber: 3.0 Consensus size: 144
26942 CAAATTCATT
* * * *
26952 TATATAATTTTATCGTATATAATAGAAAATTACAATAAATCCCTAAGTAGTTTAAATCATCATTT
1 TATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAAGTAATTTAAATCATCATTT
** * * *
27017 CTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCA-A-AAATC-AATTCAACTAA
66 CTCTAAATAATTTTCAACCATTTTCTATTAAATTTAAATAAAACATATAAA-CAAATTCAA-TTA
* * * * *
27079 AAAATTATAAGGCAAATTCATT
129 TAACTT-TTA-TC--A-T-ATA
* *
27101 TATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAGGTAATTTAAATCATCATCT
1 TATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAAGTAATTTAAATCATCATTT
* * * *
27166 CTCTAAATAAATTTCAACCATTTTCTTTTAAATTTAGTTTAATCAAACATCAATTCAACTAAA-T
66 CTCTAAATAATTTTCAACCATTTTCTATTAAATTTA----AATAAAACAT--A-TAAAC-AAATT
**
27230 -AATTATAAGGCAATT-TCAT-T-
123 CAATTATAA--CTTTTATCATATA
27250 TATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAAGTAATTTAAATCATCATTT
1 TATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAAGTAATTTAAATCATCATTT
* * * *
27315 CTCTAAATAATTTTCAACCATTTCCTATTACAATTCAACTAAAACATTATAAGACAAATTCATTT
66 CTCTAAATAATTTTCAACCATTTTCTATTA-AATTTAAATAAAACA-TATAA-ACAAATTCAATT
27380 ATATACTTTTATCATATA
128 ATA-ACTTTTATCATATA
27398 TAATATAA
1 T-ATATAA
27406 AATTACAATA
Statistics
Matches: 250, Mismatches: 32, Indels: 46
0.76 0.10 0.14
Matches are distributed among these distances:
144 5 0.02
145 7 0.03
146 17 0.07
147 3 0.01
148 1 0.00
149 189 0.76
150 6 0.02
152 1 0.00
153 6 0.02
155 1 0.00
156 5 0.02
157 4 0.02
158 3 0.01
159 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (144 bp):
TATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAAGTAATTTAAATCATCATTT
CTCTAAATAATTTTCAACCATTTTCTATTAAATTTAAATAAAACATATAAACAAATTCAATTATA
ACTTTTATCATATA
Found at i:27500 original size:101 final size:103
Alignment explanation
Indices: 27380--27581 Score: 300
Period size: 101 Copynumber: 2.0 Consensus size: 103
27370 AAATTCATTT
* * * *
27380 ATATACTTTTATCATATATAATATAAAATTACAATAAATTCCTAAGTAA-TTT-AAATAATCGTT
1 ATATAATTTTATCATATATAATAGAAAATTACAATAAATCCCTAAGTAATTTTAAAATAATCATT
* *
27443 TCTCTAAATAATTTTCAACCATTTTCTATTAAATGACA
66 TATATAAATAATTTTCAACCATTTTCTATTAAATGACA
* *
27481 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTTAAAAAATCATCA
1 ATATAATTTTATCATATATAATAGAAAATTACAATAAATCCCTAAGTAATTTT--AAAATAATCA
27546 TTTATATAAATAATTTTCAACCATTTTCTATTAAAT
64 TTTATATAAATAATTTTCAACCATTTTCTATTAAAT
27582 TTAGTTTAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
101 45 0.51
102 3 0.03
105 41 0.46
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (103 bp):
ATATAATTTTATCATATATAATAGAAAATTACAATAAATCCCTAAGTAATTTTAAAATAATCATT
TATATAAATAATTTTCAACCATTTTCTATTAAATGACA
Found at i:27664 original size:153 final size:150
Alignment explanation
Indices: 27481--27839 Score: 569
Period size: 149 Copynumber: 2.4 Consensus size: 150
27471 TTAAATGACA
27481 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTTAAAAAATCATCA
1 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTT---AAATCATCA
27546 TTTATATAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAAAATCAATTCAACTAA
63 TTTATATAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAAAATCAATTCAACTAA
27611 AAAATTATAAGGCAAATTCATTT
128 AAAATTATAAGGCAAATTCATTT
*
27634 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATTCCTAAGTAA-TTTAAATCATCATTT
1 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTTAAATCATCATTT
* * * * * * *
27698 CTCTAAATAATTTTCAACCATTTTCTTTTAAATTTTGTTTAATCAAACATCAATTGAACTAAATA
66 ATATAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAAAATCAATTCAACTAAAAA
27763 ATTATAAGGCAAATTCATTT
131 ATTATAAGGCAAATTCATTT
* ** *
27783 ATATAATTTGATCATATATAGTAGAAAATTACGTTAAATCCATAAGTAA-TTTAAATC
1 ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTTAAATC
27840 GGCAAAAGTG
Statistics
Matches: 193, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
149 142 0.74
152 3 0.02
153 48 0.25
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (150 bp):
ATATAATTTTATCATATATAGTAGAAAATTACAATAAATCCCTAAGTAATTTTAAATCATCATTT
ATATAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCAAAAATCAATTCAACTAAAAA
ATTATAAGGCAAATTCATTT
Found at i:28197 original size:38 final size:38
Alignment explanation
Indices: 28146--28222 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
28136 CGCTGACTGC
*
28146 TGCACCCAAATCATGGTGTCATTATTGGGCACTAATAA
1 TGCACCCAAATCATGGTGCCATTATTGGGCACTAATAA
*
28184 TGCACCCGAATCATGGTGCCATTATTGGGCACTAATAA
1 TGCACCCAAATCATGGTGCCATTATTGGGCACTAATAA
28222 T
1 T
28223 TTAAACGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (38 bp):
TGCACCCAAATCATGGTGCCATTATTGGGCACTAATAA
Found at i:28673 original size:102 final size:101
Alignment explanation
Indices: 28527--28819 Score: 324
Period size: 102 Copynumber: 2.9 Consensus size: 101
28517 GTAATTTTTA
* * *
28527 TTTTTATTTTTAAAT-TATAATTATTAGACTATTTATTTTGATTTTACATATTAAGTTGTATTTG
1 TTTTTA-TTGTAAATATA-AATTATTAGACTATTTATTTTGATTTTACAGATTAAATTGTATTTG
* * * *
28591 GGTAGTTTGGTAAGTTTAGTTTAAATTATATTTTTTA-T
64 AGTGGTTTGGTAAGTTTAGTTTAAA-TATATTGTTTAGG
* * ** *
28629 TTTTTATTG-AGTAATATAAATTATTAGACTGA-TTATGTTAATTTTAGGGATTAAATCGTATTT
1 TTTTTATTGTA--AATATAAATTATTAGACT-ATTTATTTTGATTTTACAGATTAAATTGTATTT
*
28692 GAGTGGTTTGGTAAGTTTAGTATGAAATATATTGTTTAGGG
63 GAGTGGTTTGGTAAGTTTAGT-TTAAATATATTGTTTA-GG
* * *
28733 TTTTTATTGTAAATATAAAGTAATTAGACTATTTATTTTGATTTTACAGATTAAACTGTATTCGA
1 TTTTTATTGTAAATATAAA-TTATTAGACTATTTATTTTGATTTTACAGATTAAATTGTATTTGA
*
28798 GTGGTTTGGTAAGTTTAATTTA
65 GTGGTTTGGTAAGTTTAGTTTA
28820 GTTTTTTTTG
Statistics
Matches: 158, Mismatches: 23, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
100 1 0.01
101 2 0.01
102 74 0.47
103 18 0.11
104 62 0.39
105 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (101 bp):
TTTTTATTGTAAATATAAATTATTAGACTATTTATTTTGATTTTACAGATTAAATTGTATTTGAG
TGGTTTGGTAAGTTTAGTTTAAATATATTGTTTAGG
Found at i:31253 original size:27 final size:27
Alignment explanation
Indices: 31144--31388 Score: 213
Period size: 27 Copynumber: 8.7 Consensus size: 27
31134 TTAATATCCA
* ** *
31144 TCATTCAACTATTAATATCCATCATAT
1 TCATTCAACTATTGATATTAATCACAT
*
31171 T-ATTTCAAATATTGATATTAATCACAT
1 TCA-TTCAACTATTGATATTAATCACAT
* *
31198 TAATTCAACTATTGATATTATTCACAT
1 TCATTCAACTATTGATATTAATCACAT
* *
31225 TCATTCGACTATTGATATTAATCATAT
1 TCATTCAACTATTGATATTAATCACAT
* * * *
31252 TCATTAAAATATATCGTCAACAAATATTCATCATAT
1 TCATTCAACTAT-T-G-------ATATTAATCACAT
* * *
31288 TAATTCAATTATTGATATTAATCATAT
1 TCATTCAACTATTGATATTAATCACAT
* * *
31315 TAATTCAATTATTGATATTATTCACAT
1 TCATTCAACTATTGATATTAATCACAT
*
31342 TCATTCAACTATTGATATTATTCACAT
1 TCATTCAACTATTGATATTAATCACAT
31369 TCATTCAACTATTGATATTA
1 TCATTCAACTATTGATATTA
31389 TCCATCATAT
Statistics
Matches: 184, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.01
27 157 0.85
28 2 0.01
29 1 0.01
34 1 0.01
35 1 0.01
36 21 0.11
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.44
Consensus pattern (27 bp):
TCATTCAACTATTGATATTAATCACAT
Found at i:31298 original size:9 final size:10
Alignment explanation
Indices: 31282--31348 Score: 56
Period size: 9 Copynumber: 7.3 Consensus size: 10
31272 CAAATATTCA
31282 TCATATTAAT
1 TCATATTAAT
31292 TCA-ATT-AT
1 TCATATTAAT
*
31300 TGATATTAA-
1 TCATATTAAT
31309 TCATATTAAT
1 TCATATTAAT
31319 TCA-ATT-AT
1 TCATATTAAT
*
31327 TGATATT-AT
1 TCATATTAAT
* *
31336 TCACATTCAT
1 TCATATTAAT
31346 TCA
1 TCA
31349 ACTATTGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
8 8 0.17
9 27 0.57
10 12 0.26
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.48
Consensus pattern (10 bp):
TCATATTAAT
Found at i:31307 original size:18 final size:18
Alignment explanation
Indices: 31282--31389 Score: 71
Period size: 18 Copynumber: 6.0 Consensus size: 18
31272 CAAATATTCA
31282 TCATATTAATTCA-ATTAT
1 TCATATT-ATTCATATTAT
* *
31300 TGATATTAATCATATTAAT
1 TCATATTATTCATATT-AT
*
31319 TCA-ATTATTGATATTAT
1 TCATATTATTCATATTAT
* *
31336 TCACATTCATTCA-ACTAT
1 TCATATT-ATTCATATTAT
* *
31354 TGATATTATTCACATTCAT
1 TCATATTATTCATATT-AT
* *
31373 TCA-ACTATTGATATTAT
1 TCATATTATTCATATTAT
31390 CCATCATATG
Statistics
Matches: 70, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
17 16 0.23
18 42 0.60
19 12 0.17
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (18 bp):
TCATATTATTCATATTAT
Found at i:31371 original size:117 final size:117
Alignment explanation
Indices: 31157--31373 Score: 362
Period size: 117 Copynumber: 1.9 Consensus size: 117
31147 TTCAACTATT
*
31157 AATATCCATCATATTATTTCAAATATTGATATTAATCACATTAATTCAACTATTGATATTATTCA
1 AATATCCATCATATTAATTCAAATATTGATATTAATCACATTAATTCAACTATTGATATTATTCA
* *
31222 CATTCATTCGACTATTGATATTAATCATATTCATTAAAATATATCGTCAACA
66 CATTCATTCAACTATTGATATTAATCACATTCATTAAAATATATCGTCAACA
* * * *
31274 AATATTCATCATATTAATTCAATTATTGATATTAATCATATTAATTCAATTATTGATATTATTCA
1 AATATCCATCATATTAATTCAAATATTGATATTAATCACATTAATTCAACTATTGATATTATTCA
*
31339 CATTCATTCAACTATTGATATTATTCACATTCATT
66 CATTCATTCAACTATTGATATTAATCACATTCATT
31374 CAACTATTGA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 92 1.00
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (117 bp):
AATATCCATCATATTAATTCAAATATTGATATTAATCACATTAATTCAACTATTGATATTATTCA
CATTCATTCAACTATTGATATTAATCACATTCATTAAAATATATCGTCAACA
Found at i:33116 original size:38 final size:38
Alignment explanation
Indices: 33057--33167 Score: 143
Period size: 38 Copynumber: 2.9 Consensus size: 38
33047 AATCACCAAA
* * *
33057 CACCAACCTACCCGGGATATTAATGGATAATTAATAAC
1 CACCAACCTATCCGAGTTATTAATGGATAATTAATAAC
*
33095 CACCAACCTATCCGAGTTATTAATGGATAATTATTAAC
1 CACCAACCTATCCGAGTTATTAATGGATAATTAATAAC
* * *
33133 CACCAACCTAT-TGATATTATTAATCGATAATTAAT
1 CACCAACCTATCCGA-GTTATTAATGGATAATTAAT
33168 GCTGCAATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
37 2 0.03
38 62 0.97
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (38 bp):
CACCAACCTATCCGAGTTATTAATGGATAATTAATAAC
Found at i:33371 original size:13 final size:13
Alignment explanation
Indices: 33353--33400 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
33343 TTAATTACTG
33353 TTGTCATTATTTT
1 TTGTCATTATTTT
**
33366 TTGTCATTATAAT
1 TTGTCATTATTTT
**
33379 TAAT-ATTATTTT
1 TTGTCATTATTTT
33391 TTGTCATTAT
1 TTGTCATTAT
33401 AATAAATATT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
12 8 0.31
13 18 0.69
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (13 bp):
TTGTCATTATTTT
Found at i:33386 original size:25 final size:25
Alignment explanation
Indices: 33358--33416 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
33348 TACTGTTGTC
*
33358 ATTATTTTTTGTCATTATAATTAAT
1 ATTATTTTTTGTCATTATAATAAAT
33383 ATTATTTTTTGTCATTATAATAAAT
1 ATTATTTTTTGTCATTATAATAAAT
33408 ATTATTTTT
1 ATTATTTTT
33417 ATACTACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (25 bp):
ATTATTTTTTGTCATTATAATAAAT
Found at i:33922 original size:203 final size:204
Alignment explanation
Indices: 33572--33940 Score: 562
Period size: 203 Copynumber: 1.8 Consensus size: 204
33562 GTTGATGTTA
* * * *
33572 TTACTCACCTCTTTTTTACCTACAACAACATATTGAAAATAATATTTTAATAATCTTTCCGAAAT
1 TTACTCACCTCTTTTTTACCTACAACAAAATATTGAAAATAATATTTTAAAAACCTTCCCGAAAT
* * *
33637 AGAGATATATTATTCAAATACGAATAAAATTTTATTCCAATAATACTTACATATTATAGATTGAA
66 AAACATATATTATTCAAATACGAATAAAATTTTATTCCAATAATACTTACAGATTATAGATTGAA
33702 AGAAAATTTCGTTCAAAATTTTC-CTTACTATTCTTCCGACAAGTTGATGTTATAAAAAAACCTT
131 AGAAAATTTCGTTCAAAATTTTCTC-TACTATTCTTCCGACAAGTTGATGTTATAAAAAAACCTT
33766 CTCGAATTTC
195 CTCGAATTTC
* **
33776 TTACTCACTTCTTTTTTACCTACAACAAAATATT-AAAATCCTATTTTAAAAACCTTCCCGAAAT
1 TTACTCACCTCTTTTTTACCTACAACAAAATATTGAAAATAATATTTTAAAAACCTTCCCGAAAT
* * * * *
33840 AAACATATTTTATTCGAATACGAATATAATTTTATTCGAATAATACTTACAGATTATAGATTGGA
66 AAACATATATTATTCAAATACGAATAAAATTTTATTCCAATAATACTTACAGATTATAGATTGAA
* *
33905 AGAAAGTTTCGTTCAAAATTTTTTCTACTATTCTTC
131 AGAAAATTTCGTTCAAAATTTTCTCTACTATTCTTC
33941 TCGGATGCTT
Statistics
Matches: 147, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
203 114 0.78
204 33 0.22
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (204 bp):
TTACTCACCTCTTTTTTACCTACAACAAAATATTGAAAATAATATTTTAAAAACCTTCCCGAAAT
AAACATATATTATTCAAATACGAATAAAATTTTATTCCAATAATACTTACAGATTATAGATTGAA
AGAAAATTTCGTTCAAAATTTTCTCTACTATTCTTCCGACAAGTTGATGTTATAAAAAAACCTTC
TCGAATTTC
Found at i:38453 original size:14 final size:16
Alignment explanation
Indices: 38434--38467 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
38424 AATTATCTAC
38434 AAAATAAAAT-AAAT-
1 AAAATAAAATGAAATG
38448 AAAATAAAATGAAATG
1 AAAATAAAATGAAATG
38464 AAAA
1 AAAA
38468 ATTAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 4 0.22
16 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAATAAAATGAAATG
Found at i:48502 original size:22 final size:20
Alignment explanation
Indices: 48461--48503 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
48451 ACACTACCAC
*
48461 CATTCCATTTTCACATCATT
1 CATTCCATTTTCACAACATT
48481 CATTCCATTTTGCCACAACATT
1 CATTCCATTTT--CACAACATT
48503 C
1 C
48504 TCATTTGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.40
Consensus pattern (20 bp):
CATTCCATTTTCACAACATT
Found at i:54826 original size:68 final size:68
Alignment explanation
Indices: 54652--54830 Score: 261
Period size: 68 Copynumber: 2.6 Consensus size: 68
54642 TATTTAACCG
* * * *
54652 TTCATCTAACTGGCA-AAATTGACACATTCCTACCAATTCCACAGTTAGGCCTCAAAGGCACTTA
1 TTCATCTAACTGGCATAAA-TGACACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTA
54716 GCCT
65 GCCT
* * *
54720 TTCATCTAACTGGCATAAATGACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
54785 TCT
66 CCT
*
54788 TTCATCTAACTGGCATAAATGACACATTTCTATTAAATGCACA
1 TTCATCTAACTGGCATAAATGACACATTTCTATCAAATGCACA
54831 AATAGGACTA
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
68 95 0.97
69 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:55183 original size:58 final size:58
Alignment explanation
Indices: 55058--55175 Score: 150
Period size: 58 Copynumber: 2.0 Consensus size: 58
55048 TTTCCCATAT
* * * *
55058 GGAAATTCATACACTTAGTATGAGTTTCATATCTTTTTGCACATAAAGTGCCCAATAC
1 GGAAATTCATAAACTTAGTATGAATTTCATAACTTTTTGCACATAAAGTGCCCAAAAC
* *
55116 GGAAATTCATAAACTTAGTATGAATTTCTTAACTTTTTTGCACACT-TAGTG-CCAAAAC
1 GGAAATTCATAAACTTAGTATGAATTTCATAAC-TTTTTGCACA-TAAAGTGCCCAAAAC
55174 GG
1 GG
55176 TTATTCATCC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 37 0.71
59 14 0.27
60 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (58 bp):
GGAAATTCATAAACTTAGTATGAATTTCATAACTTTTTGCACATAAAGTGCCCAAAAC
Found at i:55220 original size:54 final size:54
Alignment explanation
Indices: 55154--55814 Score: 957
Period size: 54 Copynumber: 12.3 Consensus size: 54
55144 TTAACTTTTT
* * *
55154 TGCACACTTAGTGCCAAAACGGTTATTCATCCACATATGATGAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
* *
55208 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
* * * *
55262 TGCACACTTAGTGCCGAAACGGTTATTCATCTATATAGAATGAATTCTGTGGAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
* ** *
55316 TGCACACTTAGTGCCGAAGCGGTTATTCATCCACATAGGATGAATTATGTGGAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
* *
55370 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGTGGAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
** *
55424 TGCACACTTAGTATCGAAACGGTTATTCATCCATATAGGATGAATTCCGTGGAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
*
55478 TGCACACTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
* * * *
55532 TGCACACTTAGTGTCAAAATGGTTATTCATCTACATAGGATGAATTCCGTGGAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
*
55586 TGCACACTTAGTGCCAAAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
1 TGCACACTTAGTGCC-GAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
* * * *
55641 TGAACACTAAGTGTCGAAACGGTTATTCATCCATATAGGATGAATTCCGTGGAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
** ** ** *
55695 TGCACACTTAGTGTTGAAACAATTATTCATCCACATAGGATGAATTCTATAGAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
** *
55749 T--ACACTTAGTGTTGAAACGGTTATTCATCCACATAGGATGAATTCCGTAGAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
55801 TGCACACTTAGTGC
1 TGCACACTTAGTGC
55815 ATATTTGGTA
Statistics
Matches: 555, Mismatches: 49, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
52 48 0.09
54 458 0.83
55 49 0.09
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (54 bp):
TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGGAA
Found at i:56254 original size:95 final size:96
Alignment explanation
Indices: 56144--56349 Score: 265
Period size: 95 Copynumber: 2.2 Consensus size: 96
56134 TCGATAGTAC
* * * * *
56144 TACCCTGGTACCGATAAAT-CTATACTATGGTATCGATACCCCCTTCTGATATCGATACCAATTT
1 TACCATGGTATCGATAAATACCATACTATGGTACCGATACCCCCTTCCGATATCGATACCAATTT
* *
56208 TATG-TTCGATGTTACATGGCATCGATACCCT
66 TA-GCTTCAATGATACATGGCATCGATACCCT
* * *
56239 TACCATGGTATCGAT-ACTACCATACTATGGTACCGATACCCTCTTCCGGTATCGATACCAATTT
1 TACCATGGTATCGATAAATACCATACTATGGTACCGATACCCCCTTCCGATATCGATACCAATTT
* * *
56303 TAGCTTCAATGATGCTTGGTATCGATACCCT
66 TAGCTTCAATGATACATGGCATCGATACCCT
56334 TACCATGGTATCGATA
1 TACCATGGTATCGATA
56350 TTACCTCATC
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
94 3 0.03
95 92 0.97
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (96 bp):
TACCATGGTATCGATAAATACCATACTATGGTACCGATACCCCCTTCCGATATCGATACCAATTT
TAGCTTCAATGATACATGGCATCGATACCCT
Found at i:62208 original size:20 final size:22
Alignment explanation
Indices: 62179--62238 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
62169 CAGAACCCAT
62179 GGGGGTATCGATTCCCTAC-A-
1 GGGGGTATCGATTCCCTACAAG
* * *
62199 GGGGGAATCGGTTCCCCTTCAAG
1 GGGGGTATCGATT-CCCTACAAG
62222 GGGGGTATCGATTCCCT
1 GGGGGTATCGATTCCCT
62239 CTGCACTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 11 0.34
21 5 0.16
22 5 0.16
23 11 0.34
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (22 bp):
GGGGGTATCGATTCCCTACAAG
Found at i:69694 original size:149 final size:144
Alignment explanation
Indices: 69562--69990 Score: 504
Period size: 149 Copynumber: 2.9 Consensus size: 144
69552 ATCAAACATC
* * * *
69562 AATTCAACTAAAAAATTATAAGGCAAATTCATTTATATCTCTAAATAATTTTCAATCATTTTCTA
1 AATTCAA-TAAAAAATTATAA-GTAAATTCA-TCATTTCTCTAAATAATTTTCAACCATTTTCTA
69627 TTAAATTTAGTTTAATCAAACATCAATTCAACTAAAACAATTATAAGGCAAATTCATTTATATAA
63 TTAAATTTAGTTTAATCAAACATCAATTCAACTAAAA-AATTATAAGGCAAATTCATTTATATAA
* *
69692 TTTTATCATATATAGCAGAA
127 TTTTATC-T-TATATCAAAA
*** * * *
69712 AATTACAATAAATTCCTAAATAATTTAAA-TCATCATTTCTCTAAATAATTTTCTACCATTTTCT
1 AATT-CAATAAA-AAAT-TATAA-GTAAATTCATCATTTCTCTAAATAATTTTCAACCATTTTCT
*
69776 ATTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAAATTATAAGACAAATTCATTTATATAA
62 ATTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAA
* *
69841 TTTTATCATATATAATAGAA
127 TTTTATCTTATATCA-A-AA
* * *
69861 AATT--ATAATAAATTCCTAAGTAATTTAAAGCATCATTTCTCTAAATAATTTTCAACCATTTTC
1 AATTCAATAAAAAATT-ATAAGTAAATT----CATCATTTCTCTAAATAATTTTCAACCATTTTC
* *
69924 TATTAAATTTAGTTTAATCAAACATCAATTCAATTAAAAAATTATAAGGCAAATTCATTAATATA
61 TATTAAATTTAGTTTAATCAAACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATA
69989 AT
126 AT
69991 AATAAATAGT
Statistics
Matches: 240, Mismatches: 28, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
144 3 0.01
145 5 0.02
146 4 0.02
147 5 0.02
149 135 0.56
150 74 0.31
151 7 0.03
152 7 0.03
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (144 bp):
AATTCAATAAAAAATTATAAGTAAATTCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTA
AATTTAGTTTAATCAAACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATATAATTTT
ATCTTATATCAAAA
Found at i:69783 original size:239 final size:238
Alignment explanation
Indices: 69361--69838 Score: 823
Period size: 239 Copynumber: 2.0 Consensus size: 238
69351 AATCATCATT
*
69361 TCTCTAAATAATTTTCAACCATTTTCTCTTAAATTTAGTTTAAGCAAACATCAATTCAACTAAAA
1 TCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAAGCAAACATCAATTCAACTAAAA
* * **
69426 ATTTATAAGGCAAATTCATTTATATAATTTTATCGTATATAGTGGAAAATTACAATAAATCCTTA
66 AATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGCAGAAAATTACAATAAATCCTTA
* * *
69491 AGTAATTTAAATCATCATTTCTTTAAATAATTTTCAACCATTTTCTGTTAAATTTAGTTTAATCA
131 AATAATTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCA
*
69556 AACATCAATTCAACTAAAAAATTATAAGGCAAATTCATTTATA
196 AACATCAATTCAACTAAAAAATTATAAGACAAATTCATTTATA
* *
69599 TCTCTAAATAATTTTCAATCATTTTCTATTAAATTTAGTTTAATCAAACATCAATTCAACTAAAA
1 TCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAAGCAAACATCAATTCAACTAAAA
69664 CAATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGCAGAAAATTACAATAAATTCC-
66 -AATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGCAGAAAATTACAATAAA-TCCT
*
69728 TAAATAATTTAAATCATCATTTCTCTAAATAATTTTCTACCATTTTCTATTAAATTTAGTTTAAT
129 TAAATAATTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAAT
69793 CAAACATCAATTCAACTAAAAAATTATAAGACAAATTCATTTATA
194 CAAACATCAATTCAACTAAAAAATTATAAGACAAATTCATTTATA
69838 T
1 T
69839 AATTTTATCA
Statistics
Matches: 226, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
238 62 0.27
239 161 0.71
240 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (238 bp):
TCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAAGCAAACATCAATTCAACTAAAA
AATTATAAGGCAAATTCATTTATATAATTTTATCATATATAGCAGAAAATTACAATAAATCCTTA
AATAATTTAAATCATCATTTCTCTAAATAATTTTCAACCATTTTCTATTAAATTTAGTTTAATCA
AACATCAATTCAACTAAAAAATTATAAGACAAATTCATTTATA
Found at i:75090 original size:20 final size:20
Alignment explanation
Indices: 75065--75104 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
75055 TGGGTTTCAT
75065 TTACACATTAGAACATTGAA
1 TTACACATTAGAACATTGAA
75085 TTACACATTAGAACATTGAA
1 TTACACATTAGAACATTGAA
75105 CCGGCGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
TTACACATTAGAACATTGAA
Found at i:77475 original size:42 final size:41
Alignment explanation
Indices: 77413--77529 Score: 171
Period size: 42 Copynumber: 2.8 Consensus size: 41
77403 TCTCGAATTC
* * *
77413 CCGTGTTTATTTCACGTAATTCGTTTTTCGGAAAATGTTTTT
1 CCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAAT-ATTTT
*
77455 CCGTGTTTGTTTCACATAATTCGTTTTCCGGAAAATATTTT
1 CCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTT
*
77496 CTCGTGTTTGTTTCACGTAATTAGTTTTCCGGAA
1 C-CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
77530 TGTAATTAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 5 0.07
42 63 0.93
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (41 bp):
CCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTT
Found at i:77910 original size:23 final size:23
Alignment explanation
Indices: 77884--77928 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
77874 AATAATATTT
77884 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
77907 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
77929 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:78054 original size:30 final size:30
Alignment explanation
Indices: 77995--78056 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
77985 TAAAATATAA
* *
77995 ATAAAAATTAATATTTTTATTAATAAAATT
1 ATAAAAATTAATATTTTAATAAATAAAATT
78025 ATAAAAA-TAATATTTAATAATAAAT-AAATT
1 ATAAAAATTAATATTT--TAATAAATAAAATT
78055 AT
1 AT
78057 TTTAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 8 0.29
30 14 0.50
31 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
ATAAAAATTAATATTTTAATAAATAAAATT
Found at i:78071 original size:49 final size:50
Alignment explanation
Indices: 78018--78116 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
78008 TTTTTATTAA
*
78018 TAAAATTATAAAAATAA-TATTTAATAATAAATAA-ATTATTT-TAATATTT
1 TAAAATAATAAAAATAAGT-TTT-ATAATAAATAATATTATTTATAATATTT
* * * *
78067 TAAAATAATAATATTAAGTTTTATGATAAATAATATTATTTATTATATTT
1 TAAAATAATAAAAATAAGTTTTATAATAAATAATATTATTTATAATATTT
78117 AATATTTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 10 0.24
49 24 0.57
50 8 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (50 bp):
TAAAATAATAAAAATAAGTTTTATAATAAATAATATTATTTATAATATTT
Found at i:78258 original size:14 final size:14
Alignment explanation
Indices: 78241--78272 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
78231 TCATTTTACG
*
78241 GAAAATATTTTCCA
1 GAAAACATTTTCCA
78255 GAAAACATTTTCCA
1 GAAAACATTTTCCA
78269 GAAA
1 GAAA
78273 TGTAATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (14 bp):
GAAAACATTTTCCA
Found at i:78344 original size:36 final size:35
Alignment explanation
Indices: 78284--78351 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
78274 GTAATTCATT
*
78284 TTCCAAAATTTAAATTCTAGTAATTCATTTTTCAG
1 TTCCAAAATTTAAATTCTAATAATTCATTTTTCAG
*
78319 TTCCAATAATTTAAATT-TCAATAATTTATTTTT
1 TTCCAA-AATTTAAATTCT-AATAATTCATTTTT
78352 AAAAAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 7 0.24
36 22 0.76
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (35 bp):
TTCCAAAATTTAAATTCTAATAATTCATTTTTCAG
Found at i:79984 original size:31 final size:31
Alignment explanation
Indices: 79915--79986 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
79905 AGCATTTTTA
*
79915 AATTATAAAATAATTATTAAATTTATCAAATT
1 AATTATAAAATAAGTATTAAATTTAT-AAATT
*
79947 AA-TATAAAATAAGTATTTTAATATTAT-AA-T
1 AATTATAAAATAAGTA-TTAAAT-TTATAAATT
79977 AATTATAAAA
1 AATTATAAAA
79987 ACTGATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
30 3 0.09
31 21 0.60
32 7 0.20
33 4 0.11
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (31 bp):
AATTATAAAATAAGTATTAAATTTATAAATT
Found at i:85299 original size:6 final size:6
Alignment explanation
Indices: 85288--85341 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
85278 GATTCATCTA
85288 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
85336 ATATTT
1 ATATTT
85342 TAATTAATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATATTT
Found at i:90635 original size:3 final size:3
Alignment explanation
Indices: 90627--90805 Score: 112
Period size: 3 Copynumber: 60.7 Consensus size: 3
90617 TTTAATCCTT
90627 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
90673 TTA -TA TTTA CTA TT- TGT- TTA TT- TTA TTA -TA TTT TTA TT- TTA
1 TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
90714 TTA TTTA TTA TTT TTG TTA ATA TT- TTG TT- TATA CGTTA TTA TT- TATA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA --TTA TTA TTA T-TA
* * *
90761 TATA TTA -TA TTA TTTC TTT TTA TTA TTA TTA TTA CTA TTA TTA TT
1 T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
90806 TTCTTTTTAT
Statistics
Matches: 143, Mismatches: 14, Indels: 38
0.73 0.07 0.19
Matches are distributed among these distances:
2 20 0.14
3 108 0.76
4 12 0.08
5 2 0.01
6 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:90838 original size:32 final size:31
Alignment explanation
Indices: 90749--90839 Score: 82
Period size: 32 Copynumber: 2.9 Consensus size: 31
90739 TGTTTATACG
*
90749 TTATTA-T-TTATATATATTATATTATTTCTTT
1 TTATTACTATTATATATATTTTA-T-TTTCTTT
*
90780 TTATTATTATTAT-TACTATTATTATTTTCTTT
1 TTATTACTATTATATA-TATT-TTATTTTCTTT
90812 TTATT-CTACTTATATATATTTCTATTTT
1 TTATTACTA-TTATATATATTT-TATTTT
90840 TTATTTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
31 9 0.18
32 29 0.57
33 11 0.22
34 2 0.04
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (31 bp):
TTATTACTATTATATATATTTTATTTTCTTT
Found at i:90839 original size:26 final size:24
Alignment explanation
Indices: 90784--90839 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 24
90774 TTCTTTTTAT
90784 TATTATTATTACTATTATTATTTTC
1 TATT-TTATTACTATTATTATTTTC
90809 T-TTTTATT-CTACTTATATATATTTC
1 TATTTTATTACTA-TTAT-TAT-TTTC
90834 TATTTT
1 TATTTT
90840 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.11
23 9 0.33
24 5 0.19
25 6 0.22
26 4 0.15
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (24 bp):
TATTTTATTACTATTATTATTTTC
Found at i:91055 original size:37 final size:36
Alignment explanation
Indices: 90967--91064 Score: 91
Period size: 37 Copynumber: 2.8 Consensus size: 36
90957 TATATATATA
*
90967 TTATTTTTATTC-TTTTTTACTGTTTTTCTTCTATT
1 TTATTTTTATTCTTTTTTTACTGTTTTTATTCTATT
* *
91002 TGT-TTTTCT-TTGTTTTTATTATTG-TTTTATTCTTATT
1 T-TATTTT-TATTCTTTTT-TTACTGTTTTTATTC-TATT
91039 TTATTTTTATTCTTTTTTT--TGTTTTT
1 TTATTTTTATTCTTTTTTTACTGTTTTT
91065 TATATTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
34 2 0.04
35 11 0.22
36 17 0.33
37 21 0.41
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (36 bp):
TTATTTTTATTCTTTTTTTACTGTTTTTATTCTATT
Found at i:91063 original size:17 final size:18
Alignment explanation
Indices: 91023--91063 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
91013 GTTTTTATTA
91023 TTGTTTTATTCTTATTTT
1 TTGTTTTATTCTTATTTT
*
91041 AT-TTTTATTCTT-TTTT
1 TTGTTTTATTCTTATTTT
91057 TTGTTTT
1 TTGTTTT
91064 TTATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 5 0.25
17 14 0.70
18 1 0.05
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (18 bp):
TTGTTTTATTCTTATTTT
Found at i:91065 original size:25 final size:28
Alignment explanation
Indices: 91014--91074 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
91004 TTTTTCTTTG
91014 TTTTTATTATTGTTTTATTCTTATTTTA
1 TTTTTATTATTGTTTTATTCTTATTTTA
* * *
91042 TTTTTATTCTT-TTTT-TTGTTTTTTATA
1 TTTTTATTATTGTTTTATTCTTATTT-TA
91069 TTTTTA
1 TTTTTA
91075 CTCATGTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 7 0.24
27 12 0.41
28 10 0.34
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (28 bp):
TTTTTATTATTGTTTTATTCTTATTTTA
Done.