Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 2 of 138
Found at i:139308 original size:34 final size:34
Alignment explanation
Indices: 139252--139440 Score: 148
Period size: 34 Copynumber: 5.5 Consensus size: 34
139242 AAAAACCTTT
* *
139252 AGATTCGTAA-AAATTAGAGATTCACAAAGTTTTC
1 AGATTCGCAAGAAATGA-AGATTCACAAAGTTTTC
* * * ** * *
139286 AAATTTGCAAGAATTGAAGATTCGTAGAGCTTTC
1 AGATTCGCAAGAAATGAAGATTCACAAAGTTTTC
* * ** *
139320 AGATTCACAAGAAATGAAGATTCGCAGGGCTTTC
1 AGATTCGCAAGAAATGAAGATTCACAAAGTTTTC
* * *
139354 AAATTCACAAGAAATGAAGATTTGCA-AAAATTTTC
1 AGATTCGCAAGAAATGAAGA-TT-CACAAAGTTTTC
* *
139389 AGATTCGCAAGAAATAAAGATTCACAAAATTTTC
1 AGATTCGCAAGAAATGAAGATTCACAAAGTTTTC
* *
139423 AGATTCGTAAGAATTGAA
1 AGATTCGCAAGAAATGAA
139441 AATTTGCAAG
Statistics
Matches: 124, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
33 2 0.02
34 93 0.75
35 28 0.23
36 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (34 bp):
AGATTCGCAAGAAATGAAGATTCACAAAGTTTTC
Found at i:139423 original size:69 final size:69
Alignment explanation
Indices: 139242--139449 Score: 197
Period size: 69 Copynumber: 3.0 Consensus size: 69
139232 TCAGATTCGT
* * *
139242 AAAAACCTTT-AGATTCGTAA-AAATTAGAGATTCACAAAGTTTTCAAATTTGCAAGAATTGAAG
1 AAAAA-CTTTCAGATTCGCAAGAAA-TAAAGATTCACAAAGTTTTCAAATTCGCAAGAATTGAAG
*
139305 ATTCG-
64 ATTTGC
* * * * * * ** * * *
139310 TAGAGCTTTCAGATTCACAAGAAATGAAGATTCGCAGGGCTTTCAAATTCACAAGAAATGAAGAT
1 AAAAACTTTCAGATTCGCAAGAAATAAAGATTCACAAAGTTTTCAAATTCGCAAGAATTGAAGAT
139375 TTGC
66 TTGC
* * * * *
139379 AAAAATTTTCAGATTCGCAAGAAATAAAGATTCACAAAATTTTCAGATTCGTAAGAATTGAAAAT
1 AAAAACTTTCAGATTCGCAAGAAATAAAGATTCACAAAGTTTTCAAATTCGCAAGAATTGAAGAT
139444 TTGC
66 TTGC
139448 AA
1 AA
139450 GACATTCAAA
Statistics
Matches: 106, Mismatches: 31, Indels: 5
0.75 0.22 0.04
Matches are distributed among these distances:
67 4 0.04
68 44 0.42
69 58 0.55
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (69 bp):
AAAAACTTTCAGATTCGCAAGAAATAAAGATTCACAAAGTTTTCAAATTCGCAAGAATTGAAGAT
TTGC
Found at i:139468 original size:17 final size:16
Alignment explanation
Indices: 139420--139495 Score: 53
Period size: 17 Copynumber: 4.5 Consensus size: 16
139410 TCACAAAATT
*
139420 TTCAGATTCGTAAGAA
1 TTCAAATTCGTAAGAA
* * *
139436 TTGAAAATTTGCAAGACA
1 TT-CAAATTCGTAAGA-A
139454 TTCAAATTCGTAAGAA
1 TTCAAATTCGTAAGAA
* * *
139470 TTGAAGACTCGTAAGACT
1 TTCAA-ATTCGTAAGA-A
139488 TTCAAATT
1 TTCAAATT
139496 GGAGATTCAT
Statistics
Matches: 44, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
16 7 0.16
17 30 0.68
18 7 0.16
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (16 bp):
TTCAAATTCGTAAGAA
Found at i:139486 original size:34 final size:34
Alignment explanation
Indices: 139420--139495 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
139410 TCACAAAATT
* * *
139420 TTCAGATTCGTAAGAATTGAAAATTTGCAAGACA
1 TTCAAATTCGTAAGAATTGAAAACTCGCAAGACA
* * *
139454 TTCAAATTCGTAAGAATTGAAGACTCGTAAGACT
1 TTCAAATTCGTAAGAATTGAAAACTCGCAAGACA
139488 TTCAAATT
1 TTCAAATT
139496 GGAGATTCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (34 bp):
TTCAAATTCGTAAGAATTGAAAACTCGCAAGACA
Found at i:140766 original size:12 final size:13
Alignment explanation
Indices: 140733--140769 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
140723 TTTCTCTCCA
140733 TTTTTATT-TTTC
1 TTTTTATTCTTTC
*
140745 TTTTTTTTCTTTC
1 TTTTTATTCTTTC
140758 -TTTTATTCTTTC
1 TTTTTATTCTTTC
140770 ACCCATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTATTCTTTC
Found at i:144620 original size:59 final size:59
Alignment explanation
Indices: 144533--144690 Score: 194
Period size: 60 Copynumber: 2.6 Consensus size: 59
144523 CATTTTTGAC
* *
144533 ATTTCTATATTCAAGGAAAATTGATACTTTCCACTTTTCCTTAA-AATG-TTTTTCTTGAAA
1 ATTT-TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAATAATGATTTTT-TT-AAA
** * *
144593 ATTTTATTTTTTAGGAAAATTGATACTTTCAACTCTTCCTTAATAATGCATTTTTTTTAA
1 ATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAATAATG-ATTTTTTTAAA
* *
144653 ATTTTATTTTCAAAGAAAATTGATACTTTTAACTTTTC
1 ATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTC
144691 TTCAAAAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
59 34 0.40
60 43 0.51
61 2 0.02
62 5 0.06
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.49
Consensus pattern (59 bp):
ATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAATAATGATTTTTTTAAA
Found at i:144707 original size:60 final size:60
Alignment explanation
Indices: 144533--144708 Score: 146
Period size: 59 Copynumber: 3.0 Consensus size: 60
144523 CATTTTTGAC
* * * * ** *
144533 ATTTCTATATTCAAGGAAAATTGATACTTTCCACTTTTCC-T--TAAAATGTTTTTCTTGAAA
1 ATTT-TATTTTCAAAGAAAATTGATACTTTCAACTCTTCCTTAATAAAAAATTTTT-TT-TAA
** * ***
144593 ATTTTATTTTTTAGGAAAATTGATACTTTCAACTCTTCCTTAATAATGCATTTTTTTTAA
1 ATTTTATTTTCAAAGAAAATTGATACTTTCAACTCTTCCTTAATAAAAAATTTTTTTTAA
* *
144653 ATTTTATTTTCAAAGAAAATTGATACTTTTAACT-TTTCTTCAA-AAAAAATTTTTTT
1 ATTTTATTTTCAAAGAAAATTGATACTTTCAACTCTTCCTT-AATAAAAAATTTTTTT
144709 GAATCTTTAT
Statistics
Matches: 94, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
59 45 0.48
60 39 0.41
61 2 0.02
62 8 0.09
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (60 bp):
ATTTTATTTTCAAAGAAAATTGATACTTTCAACTCTTCCTTAATAAAAAATTTTTTTTAA
Found at i:147053 original size:18 final size:18
Alignment explanation
Indices: 147028--147062 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
147018 TTAAATTGTT
147028 AGAAAAAAATAA-AAAAG
1 AGAAAAAAATAATAAAAG
147045 AGAATAAAAATAATAAAA
1 AGAA-AAAAATAATAAAA
147063 AATAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (18 bp):
AGAAAAAAATAATAAAAG
Found at i:147847 original size:2 final size:2
Alignment explanation
Indices: 147840--147872 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
147830 TTAGTTGTTT
147840 TA TA 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 TA TA T
147873 TTGACGTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:149842 original size:13 final size:13
Alignment explanation
Indices: 149826--149856 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
149816 ATCGCAAATC
149826 ATCATCATTATAA
1 ATCATCATTATAA
*
149839 ATCATCATTATCA
1 ATCATCATTATAA
149852 ATCAT
1 ATCAT
149857 TTATCATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (13 bp):
ATCATCATTATAA
Found at i:152325 original size:3 final size:3
Alignment explanation
Indices: 152319--152353 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
152309 GTTGTTGTTG
152319 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
152354 GCTTTACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:154868 original size:30 final size:30
Alignment explanation
Indices: 154817--154876 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
154807 TTATGCAATT
*
154817 TTATTTTTCATTTTAGCATATT-TTTAGTTA
1 TTATATTTCATTTTAGCATATTATTT-GTTA
*
154847 TTATATTTCATTGTTA-TATATTATTTGTTA
1 TTATATTTCATT-TTAGCATATTATTTGTTA
154877 ATATTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.63
Consensus pattern (30 bp):
TTATATTTCATTTTAGCATATTATTTGTTA
Found at i:155025 original size:15 final size:16
Alignment explanation
Indices: 154978--155041 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
154968 ACTAGTTTGG
154978 TAAATAATATTATCTTTTT
1 TAAAT-ATATTA--TTTTT
*
154997 TAACTA-ATTCATTTTT
1 TAAATATATT-ATTTTT
*
155013 TATAT-TATTA-TTTT
1 TAAATATATTATTTTT
155027 TAAATATATTATTTT
1 TAAATATATTATTTT
155042 ATGATATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
14 8 0.22
15 6 0.16
16 14 0.38
17 3 0.08
18 2 0.05
19 4 0.11
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (16 bp):
TAAATATATTATTTTT
Found at i:155026 original size:14 final size:15
Alignment explanation
Indices: 155009--155041 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
154999 ACTAATTCAT
*
155009 TTTTTATAT-TATTA
1 TTTTTAAATATATTA
155023 TTTTTAAATATATTA
1 TTTTTAAATATATTA
155038 TTTT
1 TTTT
155042 ATGATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTAAATATATTA
Found at i:155041 original size:30 final size:30
Alignment explanation
Indices: 154984--155041 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
154974 TTGGTAAATA
*
154984 ATATTATCTTTTTTAACTAATTCATTTTTT
1 ATATTATCTTTTTTAAATAATTCATTTTTT
155014 ATATTAT-TATTTTTAAATATATT-ATTTT
1 ATATTATCT-TTTTTAAATA-ATTCATTTT
155042 ATGATATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 21 0.84
31 3 0.12
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (30 bp):
ATATTATCTTTTTTAAATAATTCATTTTTT
Found at i:158100 original size:63 final size:62
Alignment explanation
Indices: 157945--158171 Score: 213
Period size: 62 Copynumber: 3.6 Consensus size: 62
157935 GTGTTTTTGG
* * * * *
157945 CCAAAAATGCGTTCAATAATCCATTCAAAAAATTTTGGAAAAAGATTATTAAAGGCATTTTCAA
1 CCAAAAATGCCTTCAATAATCCATACAAAAAATTTT-G-AAAAGATTATTGAAGGCATTTTTAT
* * * * * * * *
158009 CAAAAAAATACCTTCAATAATCCTTACAAAAAATTTTGAAACGCACTACTGAAGACGTTTTTAT
1 C-CAAAAATGCCTTCAATAATCCATACAAAAAATTTTGAAAAG-ATTATTGAAGGCATTTTTAT
* ** * *
158073 CCAAAAATGCCTTCAATAATCCATACAAAAATTTTTTG-AGTGATTATTGAAGGTATTTTTGT
1 CCAAAAATGCCTTCAATAATCCATACAAAAA-ATTTTGAAAAGATTATTGAAGGCATTTTTAT
* * *
158135 CCATAAACGTCTTCAATAATCCATACAAAAAATTTTG
1 CCAAAAATGCCTTCAATAATCCATACAAAAAATTTTG
158172 TTGATCACAT
Statistics
Matches: 131, Mismatches: 29, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
61 5 0.04
62 42 0.32
63 33 0.25
64 21 0.16
65 30 0.23
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (62 bp):
CCAAAAATGCCTTCAATAATCCATACAAAAAATTTTGAAAAGATTATTGAAGGCATTTTTAT
Found at i:163412 original size:232 final size:231
Alignment explanation
Indices: 162913--163788 Score: 755
Period size: 232 Copynumber: 3.7 Consensus size: 231
162903 AAACACATTT
* * * * **
162913 AATAATCCATGAATTATTGAAGGCT-TTTTTTGCTAGAAACACCTCCAATAACCCCATTCAATAT
1 AATAATTCATGAATTATT-CAGG-TATTTTTAGCCAGAAACA-CTTTAATAA-CCCATTCAATAT
* * *
162977 TTTGTTATA-GATTATTCAAGGCATTTTTTGAGCAAAAAATACCTTTAATAATCTCT-TGATAAA
62 TTTG-TAAAGGATTATTCAAGGCATTTTCT-AGCTAAAAATACCTTTAATAATCT-TAT-ATAAA
* * *
163040 AATTGAAAGGGATTATTCAAAGCAT-TTTT-T-GCCATAAACACCTTGAATAATCCCCTCTAAAT
123 AATTGAAAGGGATTATTC-AAG-ATGTTTTCTAGGCAAAAACACCTTGAATAAT-CCCTCTAAAA
* * * *
163102 GAATAATTTGTGGGTTATAGAAGGCATTTTTTG-TGATAAATGCTTTG
185 CAATAATTCGTGGGTTATAGAAGGCATTTTTGGCT-AAAAATGCTTTG
* * * ** * *
163149 AATAATCCATAAATTATTTAAGGCGTTTTTAGCCAGAAACGCATTTAATAACCCGTTTCAATATT
1 AATAATTCATGAATTA-TTCAGGTATTTTTAGCCAGAAACAC-TTTAATAACCC-ATTCAATATT
* *
163214 TTGTAAAGGATTATTCAAGGTATTTTCTAGCTAAAAACACCTTTAATAATCTTATCATAAAAATT
63 TTGTAAAGGATTATTCAAGGCATTTTCTAGCTAAAAATACCTTTAATAATCTTAT-ATAAAAATT
* * *
163279 GAAAGGGGATTATTCAAGATATTTTCTAGGTAAAAACACCTTGAAT-AT-TC-CTAAAACAA-AA
127 GAAA-GGGATTATTCAAGATGTTTTCTAGGCAAAAACACCTTGAATAATCCCTCTAAAACAATAA
163340 TTCGTGGGTTATAGAAGGCATTTTTGGCTAAAAATGCTTTG
191 TTCGTGGGTTATAGAAGGCATTTTTGGCTAAAAATGCTTTG
* **
163381 AATAATTCATGAATTATTCAGTGTATTTTTAGCCAGAAACACCTTCAATAACTCCATTTGATATT
1 AATAATTCATGAATTATTCAG-GTATTTTTAGCCAGAAACA-CTTTAATAAC-CCATTCAATATT
* * * * * *
163446 TTGTAAGGGATTATTCAAGGCATTTTCTAGGC-AAAAATGCCTTTGAATATTC-TAAAAAAAAAA
63 TTGTAAAGGATTATTCAAGGCATTTTCTA-GCTAAAAATACCTTT-AATAATCTTATATAAAAAT
* ** * * * * * * * * **
163509 AG-TTGGGATTATTGAAAACGTTTTTTA--CAGAAGATACCTTCAATAATCCCCTCTGAATGAAT
126 TGAAAGGGATTATTCAAGATGTTTTCTAGGCA-AAAACACCTTGAATAAT-CCCTCTAAAACAAT
* * ** * *
163571 AATTCATGGGTTATAGAAAGTGTTTTTGGCCAAAAAT-ATCTTG
189 AATTCGTGGGTTATAGAAGGCATTTTTGGCTAAAAATGCT-TTG
* *
163614 AATAA-TCTATGAATTATTCAAGGTATTTTTAGCCAGAAACACTTTCAATAGCCCATTCAATTTT
1 AATAATTC-ATGAATTATTC-AGGTATTTTTAGCCAGAAACACTTT-AATAACCCATTCAATATT
* * * * **
163678 TTGTAAAGGATTATTTAAGGCATTTTCTAGCTAAAAATGCCATCAATAATCCCATTATAAAAATT
63 TTGTAAAGGATTATTCAAGGCATTTTCTAGCTAAAAATACCTTTAATAATCTTA-TATAAAAATT
* *
163743 GAAAGGGATTATTCAATG-TGTTTTCTGGGCAAAAACGCCTTGAATA
127 GAAAGGGATTATTCAA-GATGTTTTCTAGGCAAAAACACCTTGAATA
163789 TTCTAAACAA
Statistics
Matches: 518, Mismatches: 89, Indels: 67
0.77 0.13 0.10
Matches are distributed among these distances:
227 1 0.00
228 11 0.02
229 20 0.04
231 20 0.04
232 181 0.35
233 101 0.19
234 23 0.04
235 61 0.12
236 83 0.16
237 17 0.03
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (231 bp):
AATAATTCATGAATTATTCAGGTATTTTTAGCCAGAAACACTTTAATAACCCATTCAATATTTTG
TAAAGGATTATTCAAGGCATTTTCTAGCTAAAAATACCTTTAATAATCTTATATAAAAATTGAAA
GGGATTATTCAAGATGTTTTCTAGGCAAAAACACCTTGAATAATCCCTCTAAAACAATAATTCGT
GGGTTATAGAAGGCATTTTTGGCTAAAAATGCTTTG
Found at i:163967 original size:294 final size:295
Alignment explanation
Indices: 163450--164035 Score: 709
Period size: 294 Copynumber: 2.0 Consensus size: 295
163440 GATATTTTGT
* **
163450 AAGGGATTATTCAAGGCATTTTCTAGGCAAAAATGCCTTTGAATATTCTAAAAAAAAAAAGTTGG
1 AAGGGATTATTCAAGGCATTTTCTAGGCAAAAACGCCTTTGAATATTCTAAAAAAAAAAAGTTAA
* * * ** *
163515 GATTATTGAAAACGTTTTTTACAGAAGATACCTTCAATAATCCCCTCTGAATGAATAATTCATGG
66 GATTATTGAAAACATTCTTTACAGAAAATACCTTCAATAATCCCCAATGAATGAATAATTCATAG
* * * *
163580 GTTATAGAAAGTGTTTTTGGCCAAAAATATCTTGAATAATCTATGAATTATTCAAGGTATTTTTA
131 GTTATAGAAAGTGTTTTTGGCCAAAAATACCTTGAATAATCCAAGAATTATTCAAGGCATTTTTA
* * *
163645 GCCAGAAACACTTTCAATAGCCCATTCAATTTTTTGTAAAGGATTATTTAAGGCA-TTTTCTAGC
196 GCCAGAAACACTTTCAATAACCCATTCAATATTTTGTAAAGGATTATTCAAGGCATTTTTC-AGC
*
163709 TAAAAATGC-CA-TCAATAATCCCATTATAAAAATTGA
260 TAAAAA--CACATTCAATAATCCCATCATAAAAATTGA
* ** * * **
163745 AAGGGATTATTCAATGTGTTTTCTGGGCAAAAACGCC-TTGAATATTCTAAACAAAAAATTTTAA
1 AAGGGATTATTCAAGGCATTTTCTAGGCAAAAACGCCTTTGAATATTCTAAAAAAAAAAAGTTAA
** * * **
163809 GATTATTGAAGGCATTCTTTATATAAAATGGCTTCAATAATCCCCAATGAATGAATAATTCATAG
66 GATTATTGAAAACATTCTTTACAGAAAATACCTTCAATAATCCCCAATGAATGAATAATTCATAG
* * * * * *
163874 GTTATATAAGGCT-TTTTTTGTC-AAAATGCCTTGAATAATCCAAGAATTATTTAAGGCATTTTT
131 GTTATAGAAAG-TGTTTTTGGCCAAAAATACCTTGAATAATCCAAGAATTATTCAAGGCATTTTT
* * *
163937 AGCCAGAAACGTCTTT-AATAACCACATTCAATATTTTGTAAAGGATTATTCAAGGTATTTTTCG
195 AGCCAGAAAC-ACTTTCAATAACC-CATTCAATATTTTGTAAAGGATTATTCAAGGCATTTTTCA
*
164001 GCTAAAAACACATTTAATAATCCCATCATAAAAAT
258 GCTAAAAACACATTCAATAATCCCATCATAAAAAT
164036 AATAGTGGAT
Statistics
Matches: 245, Mismatches: 40, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
292 1 0.00
293 53 0.22
294 153 0.62
295 38 0.16
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (295 bp):
AAGGGATTATTCAAGGCATTTTCTAGGCAAAAACGCCTTTGAATATTCTAAAAAAAAAAAGTTAA
GATTATTGAAAACATTCTTTACAGAAAATACCTTCAATAATCCCCAATGAATGAATAATTCATAG
GTTATAGAAAGTGTTTTTGGCCAAAAATACCTTGAATAATCCAAGAATTATTCAAGGCATTTTTA
GCCAGAAACACTTTCAATAACCCATTCAATATTTTGTAAAGGATTATTCAAGGCATTTTTCAGCT
AAAAACACATTCAATAATCCCATCATAAAAATTGA
Found at i:165539 original size:117 final size:115
Alignment explanation
Indices: 165333--165685 Score: 559
Period size: 117 Copynumber: 3.1 Consensus size: 115
165323 ATACAGAGGA
165333 GAAACTATATCCAAATTGTAAAAACTTCACAAAGTTTTCCTTTGTAATCTATTTGTTTCACATTA
1 GAAACTATATCCAAATTGTAAAAACTTCACAAAGTTTTCCTTTGTAATCTATTTGTTTCACATTA
* *
165398 AGTGTTTTAATGGTTGGACAAATAAATCTTTTAATACATTGTTAGAGGCTTT
66 AGTGTTTTAAT-ATTGGACAAATAAATCTTTCAATACATTGTTAGAGG-TTT
* * *
165450 GAAACTATATCTAAATTGCAAAAACTTCACAGAGTTTTCCTTTGTAATCTATTTGTTTCACATTA
1 GAAACTATATCCAAATTGTAAAAACTTCACAAAGTTTTCCTTTGTAATCTATTTGTTTCACATTA
* *
165515 AGTGTTTTAATCATTGGACAAATAAATCTTTCAATACATTGTTAAAGG--A
66 AGTGTTTTAAT-ATTGGACAAATAAATCTTTCAATACATTGTTAGAGGTTT
* *
165564 GAAACTATATCCAAATTGTAAAAACTTCACAAAGTTTTCCTTTGTAATCTATTTGTTTCACGTAA
1 GAAACTATATCCAAATTGTAAAAACTTCACAAAGTTTTCCTTTGTAATCTATTTGTTTCACATTA
165629 AGT-TTTTAATAGTTGGACAAATAAATCTTTCAATACATTGTTAGAGGTTTT
66 AGTGTTTTAATA-TTGGACAAATAAATCTTTCAATACATTGTTAGAGG-TTT
165680 GAAACT
1 GAAACT
165686 TGCTCTTCCA
Statistics
Matches: 217, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
112 1 0.00
113 41 0.19
114 63 0.29
116 6 0.03
117 106 0.49
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (115 bp):
GAAACTATATCCAAATTGTAAAAACTTCACAAAGTTTTCCTTTGTAATCTATTTGTTTCACATTA
AGTGTTTTAATATTGGACAAATAAATCTTTCAATACATTGTTAGAGGTTT
Found at i:171308 original size:68 final size:68
Alignment explanation
Indices: 171161--171290 Score: 188
Period size: 68 Copynumber: 1.9 Consensus size: 68
171151 GCATTACACT
* * * * * *
171161 AATGAATAGGATGTTTATAATATTATTTTTACTTGTATATAAATGGATGATTGCCTTTTATATAT
1 AATGAATAAGATGTTTATAAAATTATTTCTACTGGTATATAAATGGATGATTACCTTTTACATAT
171226 ATG
66 ATG
*
171229 AATGAATAAGATGTTTATAAAATTATTTCTACTGGTATATGAATGGATGATTACCTTATTAC
1 AATGAATAAGATGTTTATAAAATTATTTCTACTGGTATATAAATGGATGATTACCTT-TTAC
171291 CTTCTGTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
68 51 0.94
69 3 0.06
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (68 bp):
AATGAATAAGATGTTTATAAAATTATTTCTACTGGTATATAAATGGATGATTACCTTTTACATAT
ATG
Found at i:172235 original size:55 final size:55
Alignment explanation
Indices: 172117--172255 Score: 181
Period size: 55 Copynumber: 2.5 Consensus size: 55
172107 AATATAATAA
* *
172117 AAAAATTAAAACATATAAGTATATACTGACAATCTCTAACCATCGGTATAGGTAT
1 AAAAATTAAAACATACAAGTCTATACTGACAATCTCTAACCATCGGTATAGGTAT
*** * * *
172172 ATCCATTAAAGCATACAATTCTATACTGACAGTCTCTAACCATCGGTATAGGTA-
1 AAAAATTAAAACATACAAGTCTATACTGACAATCTCTAACCATCGGTATAGGTAT
*
172226 AGAAAATTAAAAAATACAAGTCTATACTGA
1 A-AAAATTAAAACATACAAGTCTATACTGA
172256 AGGATACTAA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
54 1 0.01
55 68 0.99
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.28
Consensus pattern (55 bp):
AAAAATTAAAACATACAAGTCTATACTGACAATCTCTAACCATCGGTATAGGTAT
Found at i:173294 original size:26 final size:26
Alignment explanation
Indices: 173250--173299 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
173240 TCTAGTTTTT
173250 ATTTGCATAAAAAAAGAGACATTTGC
1 ATTTGCATAAAAAAAGAGACATTTGC
** *
173276 ATTTGCATATGAAAGGAGACATTT
1 ATTTGCATAAAAAAAGAGACATTT
173300 TCATAGTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (26 bp):
ATTTGCATAAAAAAAGAGACATTTGC
Found at i:176734 original size:51 final size:51
Alignment explanation
Indices: 176678--176776 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
176668 TGGATAAAAT
*
176678 GATGTTAAGAGATTTTTAAGATTTAATTCCAAAATCAATTCA-CATTAACAC
1 GATGTTAAGAGATTTTTAAAATTTAATTCCAAAATCAATT-AGCATTAACAC
* * *
176729 GATGTTGAGAGATTTTTAAAATTTAATTCTATAATCAATTAGCATTAA
1 GATGTTAAGAGATTTTTAAAATTTAATTCCAAAATCAATTAGCATTAA
176777 AAATGATGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.02
51 42 0.98
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Consensus pattern (51 bp):
GATGTTAAGAGATTTTTAAAATTTAATTCCAAAATCAATTAGCATTAACAC
Found at i:177543 original size:18 final size:16
Alignment explanation
Indices: 177516--177583 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 16
177506 CAATCACAAG
*
177516 TTTTTTTTTTATTTTAA
1 TTTTTATTTTATTTT-A
177533 TTTTTGATTTTATTTTA
1 TTTTT-ATTTTATTTTA
*
177550 TTTTTTATTTACATTTTGA
1 -TTTTTATTT-TATTTT-A
*
177569 TCTTTATTTTATTTT
1 TTTTTATTTTATTTT
177584 TTGTTTTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 15 0.35
18 27 0.63
19 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:177556 original size:30 final size:30
Alignment explanation
Indices: 177516--177614 Score: 107
Period size: 30 Copynumber: 3.3 Consensus size: 30
177506 CAATCACAAG
177516 TTTT-TTTTTTATTTTAATTTTTGATTTTA
1 TTTTATTTTTTATTTTAATTTTTGATTTTA
177545 TTTTATTTTTTA-TTTACA-TTTTGATCTTTA
1 TTTTATTTTTTATTTTA-ATTTTTGAT-TTTA
* * * *
177575 TTTTATTTTTTGTTTT-CTTATTGATTTTT
1 TTTTATTTTTTATTTTAATTTTTGATTTTA
177604 TATTTATTTTT
1 T-TTTATTTTT
177615 ATTAAGTAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
29 19 0.32
30 38 0.63
31 3 0.05
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.77
Consensus pattern (30 bp):
TTTTATTTTTTATTTTAATTTTTGATTTTA
Found at i:179060 original size:3 final size:3
Alignment explanation
Indices: 179054--179098 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
179044 AATAATAATA
*
179054 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA AT- ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
179099 AAATATCTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:182435 original size:41 final size:41
Alignment explanation
Indices: 182390--182471 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
182380 CTTTATGTTT
*
182390 TAATTCAACTATTAAGGATATCTTTTATATAATTATCATAA
1 TAATTCAACTATTAAGGATATCTTTTATACAATTATCATAA
182431 TAATTCAACTATTAAGGATATCTTTTATACAATTATCATAA
1 TAATTCAACTATTAAGGATATCTTTTATACAATTATCATAA
182472 ATTCTTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (41 bp):
TAATTCAACTATTAAGGATATCTTTTATACAATTATCATAA
Found at i:184009 original size:63 final size:63
Alignment explanation
Indices: 183908--184034 Score: 202
Period size: 63 Copynumber: 2.0 Consensus size: 63
183898 AGGGATCTTT
* * *
183908 CTTATAATTGGATGTTTTTCACCATGCTCATTAGGACCTCCAACTC-GAGTGAAATACATCACA
1 CTTATAATTGGATGCTTTTCACCATGCTCATCAAGACCTCCAACTCAG-GTGAAATACATCACA
*
183971 CTTATAATTGGATGCTTTTCACCATGCTCATCAAGACCTCTAACTCAGGTGAAATACATCACA
1 CTTATAATTGGATGCTTTTCACCATGCTCATCAAGACCTCCAACTCAGGTGAAATACATCACA
184034 C
1 C
184035 ATGATGACTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 58 0.98
64 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (63 bp):
CTTATAATTGGATGCTTTTCACCATGCTCATCAAGACCTCCAACTCAGGTGAAATACATCACA
Found at i:190076 original size:2 final size:2
Alignment explanation
Indices: 190069--190097 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
190059 TCCTAAAAGG
190069 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
190098 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:190110 original size:16 final size:16
Alignment explanation
Indices: 190075--190129 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
190065 AAGGTATATA
* * *
190075 TATATATATATATATA
1 TATATATGTATGTATG
* *
190091 TATATATGTGTGTGTG
1 TATATATGTATGTATG
*
190107 TATATGTGTATGTATG
1 TATATATGTATGTATG
190123 TATATAT
1 TATATAT
190130 TCACAAAAGT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (16 bp):
TATATATGTATGTATG
Found at i:191535 original size:2 final size:2
Alignment explanation
Indices: 191528--191552 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
191518 CAAATTGTTA
191528 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
191553 AAGGCATGTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:192450 original size:18 final size:20
Alignment explanation
Indices: 192415--192451 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
192405 CGTTAATAAA
*
192415 TTTTTTACTATTTATTACTT
1 TTTTTTACTATATATTACTT
192435 TTTTTTA-TATAT-TTACT
1 TTTTTTACTATATATTACT
192452 AAATCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 4 0.25
20 7 0.44
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTTACTATATATTACTT
Found at i:193846 original size:235 final size:234
Alignment explanation
Indices: 193551--195015 Score: 742
Period size: 229 Copynumber: 6.3 Consensus size: 234
193541 TTTTTCTTAC
* * * *
193551 TTTTTTATATTTAGTAGCTATTTTTATATATTTATAAAAATAATAATTAATAAAAATTTTACATT
1 TTTTTTA-ATTT-TTAGCTA-TTTTATATATATATAAAAACAATAATTAATTAAAATTTTACATT
* * * *
193616 GTCTACTTAAATATTTACATTACAATAATATTTTCTTATAGTTGTTTTTACCTTTAATTACATTT
63 GTCAACTTAATTATTTATATTACAATAATATTTTATTATAGTTGTTTTTACCTTTAATTACATTT
* *
193681 AAAATTATCATAACTTTTTTTTAGTGTATTATGACACTTCTTA-TCAATTTTATGCTAAATGATA
128 AGAATTATCATAACTTTTTTTTAGTGTATTATGACACTTCTTACT-TATTTTATGCTAAATGATA
193745 CTAATTTTACATTTTTTTCTCACTTGTTTACTTTA-CA-AATTTA
192 CTAATTTTA-A-TTTTTTCTCACTTGTTTACTTTACCATAATTTA
* * ** * *
193788 TTTTTTAATTTCTAGCTATTATATATATATATAGTAAGAATAATTAATTTAAAATTTTACATTAT
1 TTTTTTAATTTTTAGCTATTTTATATATATATAAAAACAATAATTAA-TTAAAATTTTACATTGT
* * * * * *
193853 CATCATAATTATTTA-ACTTACAATAATATATTT-TTACA----TTTATA--TTTTACTACATTT
65 CAACTTAATTATTTATA-TTACAATAATAT-TTTATTATAGTTGTTTTTACCTTTAATTACATTT
* * * * * * *
193910 AGAATTAGT-ACAATTTTTTTTTAGTGTGTTACGACACTTCTTACTTATTTTATTCAAAATAATA
128 AGAATTA-TCATAACTTTTTTTTAGTGTATTATGACACTTCTTACTTATTTTATGCTAAATGATA
* *
193974 CTAACTTTATGATATTTT-TCACTTGTTTA-TGTTA--ATAATTTA
192 CTAA-TTT-TAATTTTTTCTCACTTGTTTACT-TTACCATAATTTA
* * * *
194016 TTTTTTAATTTTTAGC-------TAT-T-TACAAGAACATTAATTAATTAAAATTTTATATTGTC
1 TTTTTTAATTTTTAGCTATTTTATATATATATAAAAACAATAATTAATTAAAATTTTACATTGTC
* * * * ** * * *
194072 AACATAATTCTTTATTTTACAATAATATCTTATTAT-GGCGATTTTTACTTTTCATTATATTTAG
66 AACTTAATTATTTATATTACAATAATATTTTATTATAGTTG-TTTTTACCTTTAATTACATTTAG
* * * * * * * ** * *
194136 AATTGTCATAACTCTTTCTTAATGGATTATGATACTTTTTTTTTTCATTTTACG-TCAAATTATA
130 AATTATCATAACTTTTTTTTAGTGTATTATGACAC-TTCTTACTT-ATTTTATGCT-AAATGATA
* * * * *
194200 CTAATTTTATATTTGTTCTCATTTATTTACATTATC--AATTTA
192 CTAATTTTA-ATTTTTTCTCACTTGTTTACTTTACCATAATTTA
* * * * *
194242 -TTTTTAA-TTTTAACTATTTTCCTTAGATATTTACAAAACAATAATTAATTAAAATTTTACGTT
1 TTTTTTAATTTTTAGCTATTTT--ATATATATATA-AAAACAATAATTAATTAAAATTTTACATT
** * * * * ** * *
194305 ACCAA-TATCATTATTTATATTACAATAATATATTATTAT-GATTATTCTTAATTTTTATTACGT
63 GTCAACT-TAATTATTTATATTACAATAATATTTTATTATAG-TTGTTTTTACCTTTAATTACAT
* * * * **
194368 TTAAAATTGTCAT-AC---TTTTTAGTGTATTATGACAATTCATACTTATTTTA-AATAAATGAT
126 TTAGAATTATCATAACTTTTTTTTAGTGTATTATGACACTTCTTACTTATTTTATGCTAAATGAT
* * *
194428 ACTAATTTTATGTTTTTTCTCACTTGTTTACGTAACCAATAAGTTT-
191 ACTAATTTTA-ATTTTTTCTCACTTGTTTACTTTACC-ATAA-TTTA
* *
194474 TTCTTTTCAATTTTTAGCTATTTTTCTTATATATTTACAAAA-AATAATTAATTAAAATTTTACA
1 TT-TTTT-AATTTTTAGCTA-TTTT-ATATATATATA-AAAACAATAATTAATTAAAATTTTACA
* * * * *
194538 TTGGT-AACTTAATTATTTATTTTACAATAATTTTTTTTTATAATTGTTTTTATCTTTAATTACA
61 TT-GTCAACTTAATTATTTATATTACAATAATATTTTATTATAGTTGTTTTTACCTTTAATTACA
* * * ** *
194602 TTTAGAATTATC-TTAGTTTTTTCTTAGTGT-CT-TG----TT-TTACCCATTTTACG-TCAAAT
125 TTTAGAATTATCATAACTTTTTT-TTAGTGTATTATGACACTTCTTACTTATTTTATGCT-AAAT
* * * * *
194658 TATACTAATTTTACTTTTTTTCTAACTT-TTTGACATTA-C-TTATTT-
188 GATACTAATTTTA-ATTTTTTCTCACTTGTTT-ACTTTACCATAATTTA
* * * ** ** * * ** *
194703 TTTTTTCAATTTTTATCTATTTTCCT-TATATTTTTAAA-AATTGTTAGTTAAAATTTAATGTTA
1 TTTTTT-AATTTTTAGCTATTTT-ATATATATATAAAAACAATAATTAATTAAAATTTTACATTG
* * * * * * * *
194766 CCAACATAACTATTTATGTTACAATAATATTTTCTTACGATAATT-CTTTT--CTTCT-ATTATA
64 TCAACTTAATTATTTATATTACAATAATATTTTATT---ATAGTTGTTTTTACCTT-TAATTACA
* * * ** * ** *
194827 TTTAAAATTGTCAT-AGTTTTTTCTTAGTGTATTACAACACTTTTTAC--A-CATATGCCAAATG
125 TTTAGAATTATCATAACTTTTTT-TTAGTGTATTATGACACTTCTTACTTATTTTATGCTAAATG
* *
194888 ATAATAATTTTATATTTTTTCTCACTTGTTTACGTT---ATGAATTTA
189 ATACTAATTTTA-ATTTTTTCTCACTTGTTTACTTTACCAT-AATTTA
* *
194933 TTTTTTTAATTTTTAGCTATTCTCTTATATATATATATATAAAATAAAAATTAATTAAAATTTTA
1 -TTTTTTAATTTTTAGCTA---T-TT-TATATATATATA-AAAACAATAATTAATTAAAATTTTA
* * * *
194998 AATTATCATCATAATTAT
59 CATTGTCAACTTAATTAT
195016 ATAATAATAA
Statistics
Matches: 948, Mismatches: 191, Indels: 178
0.72 0.15 0.14
Matches are distributed among these distances:
217 2 0.00
218 43 0.05
219 13 0.01
220 1 0.00
221 3 0.00
222 5 0.01
223 1 0.00
224 42 0.04
225 105 0.11
226 45 0.05
227 12 0.01
228 58 0.06
229 150 0.16
230 30 0.03
231 19 0.02
232 35 0.04
233 41 0.04
234 34 0.04
235 139 0.15
236 118 0.12
237 41 0.04
238 4 0.00
239 7 0.01
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (234 bp):
TTTTTTAATTTTTAGCTATTTTATATATATATAAAAACAATAATTAATTAAAATTTTACATTGTC
AACTTAATTATTTATATTACAATAATATTTTATTATAGTTGTTTTTACCTTTAATTACATTTAGA
ATTATCATAACTTTTTTTTAGTGTATTATGACACTTCTTACTTATTTTATGCTAAATGATACTAA
TTTTAATTTTTTCTCACTTGTTTACTTTACCATAATTTA
Found at i:193897 original size:16 final size:16
Alignment explanation
Indices: 193879--193910 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
193869 CTTACAATAA
193879 TATATTTT--TACATT
1 TATATTTTACTACATT
193893 TATATTTTACTACATT
1 TATATTTTACTACATT
193909 TA
1 TA
193911 GAATTAGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
16 8 0.50
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATTTTACTACATT
Found at i:195022 original size:3 final size:3
Alignment explanation
Indices: 195016--195066 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
195006 TCATAATTAT
*
195016 ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
195064 ATA
1 ATA
195067 TATTTTTACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:199072 original size:129 final size:130
Alignment explanation
Indices: 198770--199137 Score: 363
Period size: 131 Copynumber: 2.8 Consensus size: 130
198760 TCTTTTCTTT
* * * * ** * * *
198770 TCTTTTTTTTAACTTTAGCATTCTACTTTCTCAAAATT-TTTCTTTTTTTTTTTGCTTGGAATTC
1 TCTTTTTGTCAACTTTAGCATTATTCTTTCT-TGAATTCTATCTTTTTTTATTTACTT-GAATTC
* * * * * **
198834 TAATTGAAGCTTTGTTCTCTTTTTGCCCTAGATTCTCATTTTCCAAATGCATGTCTTTCTTTTTT
64 TAACTGAAGCTTTATTCACTTTTTGCCCCAGACTCTCA-TCCCCAAATGCATGTCTTTCTTTTTT
*
198899 TGC
128 TAC
* *
198902 TCTTTTTTTCAACTTTAGCATTCTTCTTTCTTGAATTCTATC-TTTTTTATTTACTTGTAATTCT
1 TCTTTTTGTCAACTTTAGCATTATTCTTTCTTGAATTCTATCTTTTTTTATTTACTTG-AATTCT
*
198966 AACTGAAGCTTTATTCACTTTTTGCCCCAGACTCTCATCCCCGAGA-GCATGTCTTT-TTTTCTT
65 AACTGAAGCTTTATTCACTTTTTGCCCCAGACTCTCATCCCC-AAATGCATGTCTTTCTTTT-TT
199029 TAC
128 TAC
*
199032 TC-TTTTGTCAACTTTAGCATTATTCTTTCTTGAATTCTATCTTCTTTTATATTTTTAATTGAGA
1 TCTTTTTGTCAACTTTAGCATTATTCTTTCTTGAATTCTATCTT-TTTT-TA--TTTACTTGA-A
* * *
199096 TTCTATCTAAAGCTTTA-TCACTTTTTATCCCCA-ACTCTCATC
61 TTCTAACTGAAGCTTTATTCACTTTTT-GCCCCAGACTCTCATC
199138 TTCAAGGTGC
Statistics
Matches: 203, Mismatches: 22, Indels: 21
0.83 0.09 0.09
Matches are distributed among these distances:
129 41 0.20
130 21 0.10
131 60 0.30
132 34 0.17
133 19 0.09
134 28 0.14
ACGTcount: A:0.19, C:0.21, G:0.08, T:0.52
Consensus pattern (130 bp):
TCTTTTTGTCAACTTTAGCATTATTCTTTCTTGAATTCTATCTTTTTTTATTTACTTGAATTCTA
ACTGAAGCTTTATTCACTTTTTGCCCCAGACTCTCATCCCCAAATGCATGTCTTTCTTTTTTTAC
Found at i:201156 original size:77 final size:77
Alignment explanation
Indices: 201015--201157 Score: 241
Period size: 77 Copynumber: 1.9 Consensus size: 77
201005 CTGAAGTCTT
* **
201015 TTCTTTTTAATTTCCTATGTTTCCTTCTCTTCATCCAACTTATGTTTTATAATGTTCATGTTTTT
1 TTCTTTTTAATCTCCTATGTTTCCTTCTCTTCATCCAACTTATGTTTTATAATGTTCACATTTTT
201080 AGGGACCCTCTC
66 AGGGACCCTCTC
* *
201092 TTCTTTTTAATCTCCTATGTTTCCTTCTCTTCTTCTAACTTATGTTTTATAATGTTCACATTTTT
1 TTCTTTTTAATCTCCTATGTTTCCTTCTCTTCATCCAACTTATGTTTTATAATGTTCACATTTTT
201157 A
66 A
201158 AAGACCCTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 61 1.00
ACGTcount: A:0.17, C:0.21, G:0.07, T:0.55
Consensus pattern (77 bp):
TTCTTTTTAATCTCCTATGTTTCCTTCTCTTCATCCAACTTATGTTTTATAATGTTCACATTTTT
AGGGACCCTCTC
Found at i:202247 original size:17 final size:17
Alignment explanation
Indices: 202225--202257 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
202215 TAATGAATTG
202225 ATGAACTATAAGCAAAT
1 ATGAACTATAAGCAAAT
*
202242 ATGAACTATAATCAAA
1 ATGAACTATAAGCAAA
202258 ATAAAGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
ATGAACTATAAGCAAAT
Found at i:211230 original size:3 final size:3
Alignment explanation
Indices: 211224--211263 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
211214 TCATTTCTTT
* * *
211224 TTA TTA TTA TTG TTA TTA TTA CTA TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
211264 CACTACTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:212764 original size:17 final size:17
Alignment explanation
Indices: 212738--212784 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
212728 CATTCTCAGA
* *
212738 TATTTTATTTTTTTTCT
1 TATTTAATTTTTGTTCT
212755 TATTTAATTTTTGTTCT
1 TATTTAATTTTTGTTCT
*
212772 AATTCTAATTTTT
1 TATT-TAATTTTT
212785 AATTTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.72
Consensus pattern (17 bp):
TATTTAATTTTTGTTCT
Found at i:213103 original size:3 final size:3
Alignment explanation
Indices: 213095--213137 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
213085 ATTCTCGACG
213095 ATC ATC ATC ATC ATC ATC AT- ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
213138 TATTATTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:213120 original size:20 final size:20
Alignment explanation
Indices: 213095--213134 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
213085 ATTCTCGACG
213095 ATCATCATCATCATCATCAT
1 ATCATCATCATCATCATCAT
213115 ATCATCATCATCATCATCAT
1 ATCATCATCATCATCATCAT
213135 CATTATTATT
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:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (20 bp):
ATCATCATCATCATCATCAT
Found at i:218145 original size:34 final size:34
Alignment explanation
Indices: 218107--218173 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
218097 ATATGTATAA
218107 ATAGACA-CATATTTGAAT-TATTATGTCTATACAT
1 ATAGACATC-TATTTGAATGTA-TATGTCTATACAT
*
218141 ATAGACATCTATTTGGATGTATATGTCTATACA
1 ATAGACATCTATTTGAATGTATATGTCTATACA
218174 AAGAGATGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (34 bp):
ATAGACATCTATTTGAATGTATATGTCTATACAT
Found at i:226365 original size:22 final size:23
Alignment explanation
Indices: 226317--226366 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
226307 GATTTAAATA
* *
226317 AAATTTATTATGTAAAATTTATG
1 AAATTTATTATGTAAAAATAATG
* *
226340 AAATTTTTTAT-TAAAAATAATT
1 AAATTTATTATGTAAAAATAATG
226362 AAATT
1 AAATT
226367 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AAATTTATTATGTAAAAATAATG
Found at i:226464 original size:15 final size:13
Alignment explanation
Indices: 226434--226479 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
226424 AAATTTATAT
*
226434 ATATTTTTAATTA
1 ATATTTTTAATAA
226447 ATATTTTTAATAA
1 ATATTTTTAATAA
* *
226460 A-AATATTAATAA
1 ATATTTTTAATAA
226472 A-ATTTTTA
1 ATATTTTTA
226480 TCTTTAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 15 0.54
13 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATTTTTAATAA
Found at i:226580 original size:21 final size:22
Alignment explanation
Indices: 226543--226587 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
226533 CTTTTATATA
226543 TTATTAATATTCATA-TTAAAT
1 TTATTAATATTCATATTTAAAT
*
226564 TTATTAATCTATC-TATTTAAAT
1 TTATTAATAT-TCATATTTAAAT
226586 TT
1 TT
226588 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATTAATATTCATATTTAAAT
Found at i:228956 original size:18 final size:20
Alignment explanation
Indices: 228933--228981 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
228923 ATCATCTTCC
*
228933 TCTTCATTTTC-TTTCCC-T
1 TCTTCATTTTCGTTGCCCTT
228951 TCTTCATTTTCGTTGCCCTT
1 TCTTCATTTTCGTTGCCCTT
228971 TCTTTCATTTT
1 TC-TTCATTTT
228982 ATCTTTATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 11 0.41
19 5 0.19
20 3 0.11
21 8 0.30
ACGTcount: A:0.06, C:0.29, G:0.04, T:0.61
Consensus pattern (20 bp):
TCTTCATTTTCGTTGCCCTT
Found at i:229317 original size:16 final size:17
Alignment explanation
Indices: 229291--229325 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
229281 CATGTATTAT
*
229291 TTTAGTTCATTCATTCA
1 TTTAGTTCATTCACTCA
229308 TTTA-TTCATTCACTCA
1 TTTAGTTCATTCACTCA
229324 TT
1 TT
229326 GTGTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAGTTCATTCACTCA
Found at i:233530 original size:17 final size:17
Alignment explanation
Indices: 233490--233541 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
233480 ATAATTCACT
*
233490 AAAATATCACAACTTCAA
1 AAAAT-TCACAACTTTAA
*
233508 ACAATTCACAACTTTAA
1 AAAATTCACAACTTTAA
* *
233525 AAAATTTATAACTTTAA
1 AAAATTCACAACTTTAA
233542 GCATAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTCACAACTTTAA
Found at i:236075 original size:30 final size:29
Alignment explanation
Indices: 236039--236630 Score: 249
Period size: 30 Copynumber: 20.4 Consensus size: 29
236029 AAAATTTTTA
* *
236039 ATTTTAGGGTTTAGACGGTTTAGGATTTCG
1 ATTTTAGGGTTTAGAAGGTTTAGGGTTT-G
* * *
236069 ATTTTAGGGTTAAG-A-GTTTAGGATTTT
1 ATTTTAGGGTTTAGAAGGTTTAGGGTTTG
* * *
236096 AGTTTTAGGGTTTAAAAAGTTTAGGGTTTT
1 A-TTTTAGGGTTTAGAAGGTTTAGGGTTTG
*
236126 ACTTTTAGGGTTT-GAAGGGTTTAGGGTTTT
1 A-TTTTAGGGTTTAGAA-GGTTTAGGGTTTG
*
236156 AGTTTTAAGGTTT-GAAGAGTTTAGGGTTTTG
1 A-TTTTAGGGTTTAGAAG-GTTTAGGG-TTTG
* * *
236187 ATTTTAGGATTT-G--GGATTTAAGGTTTT
1 ATTTTAGGGTTTAGAAGG-TTTAGGGTTTG
*
236214 AGTTTTAGGGTTTA-AAGGATCTAGGGTTTCG
1 A-TTTTAGGGTTTAGAAGG-TTTAGGGTTT-G
* *
236245 ATTTTAGGGTTTGGAGGGTTTAGGGTTTCG
1 ATTTTAGGGTTTAGAAGGTTTAGGGTTT-G
* * *
236275 ATTTTAGTGTTT----GG---ATGGTTTA
1 ATTTTAGGGTTTAGAAGGTTTAGGGTTTG
* *
236297 ATTTTAGGGTTTA-AAGGGTTTAAGGCTTCG
1 ATTTTAGGGTTTAGAA-GGTTT-AGGGTTTG
* * *
236327 ATTTTAAGGTTT-GAAGGGTTTTAAGGTTACG
1 ATTTTAGGGTTTAGAA-GG-TTTAGGGTT-TG
*
236358 ATTTTAGGGTTTAGAGGGTTTTAGGGTTTTG
1 ATTTTAGGGTTTAGAAGG-TTTAGGG-TTTG
* * *
236389 ATTTTAGAGTTT-G-GGGTTTAGTGTTTTG
1 ATTTTAGGGTTTAGAAGGTTTAG-GGTTTG
* *** * *
236417 ATTATAAAATTTA-AAGGATTTAAGGTTTCA
1 ATTTTAGGGTTTAGAAGG-TTTAGGGTTT-G
*
236447 ATTTTAGGGTTT----GG---AGGGTTTA
1 ATTTTAGGGTTTAGAAGGTTTAGGGTTTG
* *
236469 ATTTTAAGGTTTA-AAGGGTTTAGGGCTTCG
1 ATTTTAGGGTTTAGAA-GGTTTAGGG-TTTG
* * *
236499 ATTTTAAGG-TTAGGAGGGTTTTAAGGTTTCG
1 ATTTTAGGGTTTA-GAAGG-TTTAGGGTTT-G
* *
236530 ATTTTAGGGTTTATAGGGTTTTAGGGTTTTG
1 ATTTTAGGGTTTAGAAGG-TTTAGGG-TTTG
* *
236561 ATTTTAGAGTTTAG--GGTTTAGTGTTTTG
1 ATTTTAGGGTTTAGAAGGTTTAG-GGTTTG
* * *
236589 ATTATAAGGTTTA-AAGGGATTAGGGTTTTG
1 ATTTTAGGGTTTAGAA-GGTTTAGGG-TTTG
236619 ATTTTAGGGTTT
1 ATTTTAGGGTTT
236631 TAAGGGTTTT
Statistics
Matches: 441, Mismatches: 71, Indels: 100
0.72 0.12 0.16
Matches are distributed among these distances:
22 23 0.05
23 12 0.03
26 6 0.01
27 8 0.02
28 76 0.17
29 25 0.06
30 196 0.44
31 85 0.19
32 10 0.02
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (29 bp):
ATTTTAGGGTTTAGAAGGTTTAGGGTTTG
Found at i:236107 original size:58 final size:57
Alignment explanation
Indices: 236034--236296 Score: 228
Period size: 58 Copynumber: 4.5 Consensus size: 57
236024 GCTTAAAAAT
* * * *
236034 TTTTAATTTTAGGGTTTAGACGGTTTAGGATTTCGATTTTAGGGTTAAGAGTTTAGG
1 TTTTAGTTTTAGGGTTTAGAAGGTTTAGGGTTTCGATTTTAGGGTTAAGGGTTTAGG
* * *
236091 ATTTTAGTTTTAGGGTTTAAAAAGTTTAGGGTTT-TACTTTTAGGGTTTGAAGGGTTTAGGG
1 -TTTTAGTTTTAGGGTTTAGAAGGTTTAGGGTTTCGA-TTTTAGGG-TT-AAGGGTTTA-GG
* * * *
236152 TTTTAGTTTTAAGGTTT-GAAGAGTTTAGGGTTTTGATTTTAGGATT-TGGGATTTAAGG
1 TTTTAGTTTTAGGGTTTAGAAG-GTTTAGGGTTTCGATTTTAGGGTTAAGGG-TTT-AGG
* *
236210 TTTTAGTTTTAGGGTTTA-AAGGATCTAGGGTTTCGATTTTAGGGTTTGGAGGGTTTAGG
1 TTTTAGTTTTAGGGTTTAGAAGG-TTTAGGGTTTCGATTTTAGGG-TT-AAGGGTTTAGG
* * * * *
236269 GTTTCGATTTTAGTGTTTGGATGGTTTA
1 TTTTAG-TTTTAGGGTTTAGAAGGTTTA
236297 ATTTTAGGGT
Statistics
Matches: 166, Mismatches: 24, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
57 5 0.03
58 78 0.47
59 16 0.10
60 58 0.35
61 9 0.05
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (57 bp):
TTTTAGTTTTAGGGTTTAGAAGGTTTAGGGTTTCGATTTTAGGGTTAAGGGTTTAGG
Found at i:236150 original size:16 final size:16
Alignment explanation
Indices: 236129--236184 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
236119 GGGTTTTACT
236129 TTTAGGGTTTGAAGGG
1 TTTAGGGTTTGAAGGG
* *
236145 TTTAGGGTTT-TA-GT
1 TTTAGGGTTTGAAGGG
* *
236159 TTTAAGGTTTGAAGAG
1 TTTAGGGTTTGAAGGG
236175 TTTAGGGTTT
1 TTTAGGGTTT
236185 TGATTTTAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
14 10 0.32
15 2 0.06
16 19 0.61
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (16 bp):
TTTAGGGTTTGAAGGG
Found at i:236254 original size:14 final size:14
Alignment explanation
Indices: 236235--236286 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
236225 TTAAAGGATC
236235 TAGGGTTTCGATTT
1 TAGGGTTTCGATTT
* *
236249 TAGGGTTTGGAGGGTT
1 TAGGGTTTCGA--TTT
236265 TAGGGTTTCGATTT
1 TAGGGTTTCGATTT
*
236279 TAGTGTTT
1 TAGGGTTT
236287 GGATGGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 19 0.61
16 12 0.39
ACGTcount: A:0.13, C:0.04, G:0.35, T:0.48
Consensus pattern (14 bp):
TAGGGTTTCGATTT
Found at i:236256 original size:88 final size:85
Alignment explanation
Indices: 236034--236626 Score: 356
Period size: 88 Copynumber: 6.9 Consensus size: 85
236024 GCTTAAAAAT
* * * * * *
236034 TTTTAATTTTAGGGTTTAGACGGTTTAGGATTTCGATTTT-AGGGTT-AAGAGTTTAGGATTT-T
1 TTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGAAGAGTTTAGGGTTTCG
**
236096 AGTTTTAGGGTTTAAAAAGTTTAGGG
66 A-TTTTA-GGTTT--GGA-TTTA-GG
* * * *
236122 TTTTACTTTTAGGGTTTGAAGGGTTTAGGGTTT-TAGTTTTAAGGTTTGAAGAGTTTAGGGTTTT
1 TTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGA-TTTTAAGGTTTGAAGAGTTTAGGGTTTC
236186 GATTTTAGGATTTGGGATTTAAGG
65 GATTTTAGG-TTT-GGATTT-AGG
* * * * * *
236210 TTTTAGTTTTAGGGTTTAAAGGATCTAGGGTTTCGATTTTAGGGTTTGGAGGGTTTAGGGTTTCG
1 TTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGAAGAGTTTAGGGTTTCG
236275 ATTTTAGTGTTTGGA--T-GG
66 ATTTTAG-GTTTGGATTTAGG
* * * * *
236293 -TTTAATTTTAGGGTTTAAAGGGTTTAAGGCTTCGATTTTAAGGTTTGAAGGGTTTTAAGGTTAC
1 TTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGAAGAG-TTTAGGGTTTC
*
236357 GATTTTAGGGTTTAGAGGGTTTTAGGG
65 GATTTTA-GGTTT----GGATTTA-GG
* * * * * * ** * *
236384 TTTTGATTTTAGAGTTT--GGGGTTTAGTGTTTTGATTATAAAATTTAAAG-GATTTAAGGTTTC
1 TTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGAAGAG-TTTAGGGTTTC
*
236446 AATTTTAGGGTTTGG----AGG
65 GATTTTA-GGTTTGGATTTAGG
* * * * * * *
236464 GTTTAATTTTAAGGTTTAAAGGGTTTAGGGCTTCGATTTTAAGGTTAGGAGGGTTTTAAGGTTTC
1 TTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGAAGAG-TTTAGGGTTTC
*
236529 GATTTTAGGGTTTATAGGGTTTTAGGG
65 GATTTTA-GG-TT-T--GGATTTA-GG
* * * * * * * * *
236556 TTTTGATTTTAGAGTTT--AGGGTTTAGTGTTTTGATTATAAGGTTTAAAGGGATTAGGGTTTTG
1 TTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGAAGAGTTTAGGGTTTCG
236619 ATTTTAGG
66 ATTTTAGG
236627 GTTTTAAGGG
Statistics
Matches: 399, Mismatches: 75, Indels: 62
0.74 0.14 0.12
Matches are distributed among these distances:
80 15 0.04
81 1 0.00
82 67 0.17
83 43 0.11
84 3 0.01
85 4 0.01
87 8 0.02
88 103 0.26
89 50 0.13
90 72 0.18
91 4 0.01
92 29 0.07
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (85 bp):
TTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGAAGAGTTTAGGGTTTCG
ATTTTAGGTTTGGATTTAGG
Found at i:236296 original size:118 final size:115
Alignment explanation
Indices: 236039--236458 Score: 301
Period size: 118 Copynumber: 3.6 Consensus size: 115
236029 AAAATTTTTA
* * * *
236039 ATTTTAGGGTTTAGACGGTTTAGGATTTCGATTTTAGG-GTTAAGAGTTT-AGGATTTTAGTTTT
1 ATTTTA-GGTTTGGA-GGTTTAGGATTTTGATTTTAGGATTTAGGA-TTTAAGG-TTTTAGTTTT
* * * *
236102 AGGGTTTAAA-AAGTTTAGGGTTT-TACTTTTAGGGTTTGAAGGGTTTAGGGTTTT
62 AGGGTTTAAAGGA-TTTAGGGTTTCGA-TTTTAGGGTTTGGAGGGTTTAGGGTTTG
* * *
236156 AGTTTTAAGGTTTGAAGAGTTTAGGGTTTTGATTTTAGGATTTGGGATTTAAGGTTTTAGTTTTA
1 A-TTTT-AGGTTTGGAG-GTTTAGGATTTTGATTTTAGGATTTAGGATTTAAGGTTTTAGTTTTA
*
236221 GGGTTTAAAGGATCTAGGGTTTCGATTTTAGGGTTTGGAGGGTTTAGGGTTTCG
63 GGGTTTAAAGGATTTAGGGTTTCGATTTTAGGGTTTGGAGGGTTTAGGGTTT-G
* * * * *
236275 ATTTTAGTGTTTGGA----T-GG--TTTAATTTTAGGGTTTAAAGGGTTTAAGG-CTTCGATTTT
1 ATTTTAG-GTTTGGAGGTTTAGGATTTTGATTTTAGGATTT--AGGATTTAAGGTTTTAG-TTTT
* * * * * *
236332 AAGGTTTGAAGGGTTTTAAGGTTACGATTTTAGGGTTTAGAGGGTTTTAGGGTTTTG
62 AGGGTTT-AAAGGATTTAGGGTTTCGATTTTAGGGTTTGGAGGG-TTTAGGG-TTTG
* ** * *
236389 ATTTTAGAGTTTGG-GGTTTAGTG-TTTTGATTATAAAATTTAAAGGATTTAAGGTTTCAATTTT
1 ATTTTAG-GTTTGGAGGTTTAG-GATTTTGATTTTAGGATTT--AGGATTTAAGGTTTTAGTTTT
236452 AGGGTTT
62 AGGGTTT
236459 GGAGGGTTTA
Statistics
Matches: 242, Mismatches: 38, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
110 14 0.06
111 3 0.01
112 21 0.09
113 31 0.13
114 21 0.09
115 3 0.01
117 5 0.02
118 98 0.40
119 12 0.05
120 33 0.14
121 1 0.00
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (115 bp):
ATTTTAGGTTTGGAGGTTTAGGATTTTGATTTTAGGATTTAGGATTTAAGGTTTTAGTTTTAGGG
TTTAAAGGATTTAGGGTTTCGATTTTAGGGTTTGGAGGGTTTAGGGTTTG
Found at i:236339 original size:52 final size:52
Alignment explanation
Indices: 236236--236519 Score: 185
Period size: 52 Copynumber: 5.1 Consensus size: 52
236226 TAAAGGATCT
* **
236236 AGGGTTTCGATTTTAGGGTTTGGAGGGTTTAGGGTTTCGATTTT-AGTGTTTGG
1 AGGGTTT-AATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAG-GTTTGG
* * * *
236289 ATGGTTTAATTTTAGGGTTTAAAGGGTTTAAGGCTTCGATTTTAAGGTTTGA
1 AGGGTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGG
* *
236341 AGGGTTTTAAGGTTACGATTTTAGGGTTTAGAGGGTTTTAGGGTTTTGATTTT-AGAGTTTGGGG
1 AGGG---T----TTA--ATTTTAGGGTTTAAAGGG-TTTAGGGTTTCGATTTTAAG-GTTT--GG
* * * *** * * * *
236405 TTTAGTGTTTTGATTATAAAATTTAAAGGATTTAAGGTTTCAATTTTAGGGTTTGG
1 ---AG-GGTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGG
* * *
236461 AGGGTTTAATTTTAAGGTTTAAAGGGTTTAGGGCTTCGATTTTAAGGTTAGG
1 AGGGTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGG
236513 AGGGTTT
1 AGGGTTT
236520 TAAGGTTTCG
Statistics
Matches: 176, Mismatches: 36, Indels: 39
0.70 0.14 0.16
Matches are distributed among these distances:
52 85 0.48
53 10 0.06
55 1 0.01
56 2 0.01
58 18 0.10
59 16 0.09
61 21 0.12
62 18 0.10
64 1 0.01
65 1 0.01
67 2 0.01
68 1 0.01
ACGTcount: A:0.22, C:0.03, G:0.31, T:0.44
Consensus pattern (52 bp):
AGGGTTTAATTTTAGGGTTTAAAGGGTTTAGGGTTTCGATTTTAAGGTTTGG
Found at i:236360 original size:31 final size:29
Alignment explanation
Indices: 236297--236647 Score: 190
Period size: 31 Copynumber: 11.9 Consensus size: 29
236287 GGATGGTTTA
* *
236297 ATTTTAGGGTTTAAAGGGTTTAAGGCTTCG
1 ATTTTAAGGTTT-AAGGGTTTAAGGTTTCG
*
236327 ATTTTAAGGTTTGAAGGGTTTTAAGGTTACG
1 ATTTTAAGGTTT-AAGGG-TTTAAGGTTTCG
* * *
236358 ATTTTAGGGTTTAGAGGGTTTTAGGGTTTTG
1 ATTTTAAGGTTTA-AGGG-TTTAAGGTTTCG
* *
236389 ATTTT-AGAGTTT-GGGGTTT-AGTGTTTTG
1 ATTTTAAG-GTTTAAGGGTTTAAG-GTTTCG
* ** * *
236417 ATTATAAAATTTAAAGGATTTAAGGTTTCA
1 ATTTTAAGGTTT-AAGGGTTTAAGGTTTCG
* * *
236447 ATTTTAGGGTTT---GG---AGGGTTT-A
1 ATTTTAAGGTTTAAGGGTTTAAGGTTTCG
* *
236469 ATTTTAAGGTTTAAAGGGTTTAGGGCTTCG
1 ATTTTAAGGTTT-AAGGGTTTAAGGTTTCG
236499 ATTTTAAGG-TTAGGAGGGTTTTAAGGTTTCG
1 ATTTTAAGGTTTA--AGGG-TTTAAGGTTTCG
* * *
236530 ATTTTAGGGTTTATAGGGTTTTAGGGTTTTG
1 ATTTTAAGGTTTA-AGGG-TTTAAGGTTTCG
*
236561 ATTTT-AGAGTTT-AGGGTTT-AGTGTTTTG
1 ATTTTAAG-GTTTAAGGGTTTAAG-GTTTCG
* * * *
236589 ATTATAAGGTTTAAAGGGATTAGGGTTTTG
1 ATTTTAAGGTTT-AAGGGTTTAAGGTTTCG
*
236619 ATTTTAGGGTTTTAAGGGTTTTAAGGTTT
1 ATTTTAAGG-TTTAAGGG-TTTAAGGTTT
236648 AAAAAAAAAC
Statistics
Matches: 251, Mismatches: 42, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
22 12 0.05
23 6 0.02
26 3 0.01
27 2 0.01
28 34 0.14
29 18 0.07
30 73 0.29
31 100 0.40
32 3 0.01
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.46
Consensus pattern (29 bp):
ATTTTAAGGTTTAAGGGTTTAAGGTTTCG
Found at i:236471 original size:22 final size:22
Alignment explanation
Indices: 236424--236490 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
236414 TTGATTATAA
*
236424 AATTTAAAGGATTT-AA-GGTTT
1 AATTTTAAGG-TTTAAAGGGTTT
* **
236445 CAATTTTAGGGTTTGGAGGGTTT
1 -AATTTTAAGGTTTAAAGGGTTT
236468 AATTTTAAGGTTTAAAGGGTTT
1 AATTTTAAGGTTTAAAGGGTTT
236490 A
1 A
236491 GGGCTTCGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 3 0.08
22 29 0.78
23 5 0.14
ACGTcount: A:0.30, C:0.01, G:0.25, T:0.43
Consensus pattern (22 bp):
AATTTTAAGGTTTAAAGGGTTT
Found at i:236482 original size:172 final size:173
Alignment explanation
Indices: 236259--236639 Score: 597
Period size: 172 Copynumber: 2.2 Consensus size: 173
236249 TAGGGTTTGG
* * *
236259 AGGG-TTTAGGGTTTCGATTTTAGTGTTTGGATGGTTTAATTTTAGGGTTTAAAGGGTTTAAGGC
1 AGGGATTTAGGGTTTCGATTTTAGGGTTTGGAGGGTTTAATTTTAAGGTTTAAAGGGTTTAAGGC
*
236323 TTCGATTTTAAGGTTTGAAGGGTTTTAAGGTTACGATTTTAGGGTTTAGAGGGTTTTAGGGTTTT
66 TTCGATTTTAAGGTTAGAAGGGTTTTAAGGTTACGATTTTAGGGTTTAGAGGGTTTTAGGGTTTT
*
236388 GATTTTAGAGTTTGGGGTTTAGTGTTTTGATTATAAAATTTAA
131 GATTTTAGAGTTTAGGGTTTAGTGTTTTGATTATAAAATTTAA
* * *
236431 A-GGATTTAAGGTTTCAATTTTAGGGTTTGGAGGGTTTAATTTTAAGGTTTAAAGGGTTTAGGGC
1 AGGGATTTAGGGTTTCGATTTTAGGGTTTGGAGGGTTTAATTTTAAGGTTTAAAGGGTTTAAGGC
* * *
236495 TTCGATTTTAAGGTTAGGAGGGTTTTAAGGTTTCGATTTTAGGGTTTATAGGGTTTTAGGGTTTT
66 TTCGATTTTAAGGTTAGAAGGGTTTTAAGGTTACGATTTTAGGGTTTAGAGGGTTTTAGGGTTTT
**
236560 GATTTTAGAGTTTAGGGTTTAGTGTTTTGATTATAAGGTTTAA
131 GATTTTAGAGTTTAGGGTTTAGTGTTTTGATTATAAAATTTAA
* **
236603 AGGGA-TTAGGGTTTTGATTTTAGGGTTTTAAGGGTTT
1 AGGGATTTAGGGTTTCGATTTTAGGGTTTGGAGGGTTT
236640 TAAGGTTTAA
Statistics
Matches: 189, Mismatches: 18, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
171 2 0.01
172 184 0.97
173 3 0.02
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (173 bp):
AGGGATTTAGGGTTTCGATTTTAGGGTTTGGAGGGTTTAATTTTAAGGTTTAAAGGGTTTAAGGC
TTCGATTTTAAGGTTAGAAGGGTTTTAAGGTTACGATTTTAGGGTTTAGAGGGTTTTAGGGTTTT
GATTTTAGAGTTTAGGGTTTAGTGTTTTGATTATAAAATTTAA
Found at i:236556 original size:8 final size:8
Alignment explanation
Indices: 236531--236647 Score: 54
Period size: 8 Copynumber: 15.4 Consensus size: 8
236521 AAGGTTTCGA
236531 TTTTAGGG
1 TTTTAGGG
236539 TTTATAGGG
1 TTT-TAGGG
236548 TTTTAGGG
1 TTTTAGGG
*
236556 TTTT--GA
1 TTTTAGGG
*
236562 TTTTAGAG
1 TTTTAGGG
236570 -TTTAGGG
1 TTTTAGGG
*
236577 -TTTAGTG
1 TTTTAGGG
*
236584 TTTT--GA
1 TTTTAGGG
* *
236590 TTATAAGG
1 TTTTAGGG
*
236598 TTTAAAGGG
1 TTT-TAGGG
*
236607 -ATTAGGG
1 TTTTAGGG
*
236614 TTTT--GA
1 TTTTAGGG
236620 TTTTAGGG
1 TTTTAGGG
236628 TTTTAAGGG
1 TTTT-AGGG
*
236637 TTTTAAGG
1 TTTTAGGG
236645 TTT
1 TTT
236648 AAAAAAAAAC
Statistics
Matches: 80, Mismatches: 18, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
6 13 0.16
7 16 0.20
8 32 0.40
9 19 0.24
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.50
Consensus pattern (8 bp):
TTTTAGGG
Found at i:236567 original size:14 final size:14
Alignment explanation
Indices: 236517--236631 Score: 59
Period size: 14 Copynumber: 7.9 Consensus size: 14
236507 GTTAGGAGGG
* *
236517 TTTTAAGGTTTCGA
1 TTTTAGGGTTTTGA
*
236531 TTTTAGGGTTTATAGGG
1 TTTTAGGGTTT-T--GA
236548 TTTTAGGGTTTTGA
1 TTTTAGGGTTTTGA
* * *
236562 TTTTAGAGTTTAGG
1 TTTTAGGGTTTTGA
* *
236576 GTTTAGTGTTTTGA
1 TTTTAGGGTTTTGA
* * * *
236590 TTATAAGGTTTAAAGG
1 TTTTAGGGTTT--TGA
**
236606 GATTAGGGTTTTGA
1 TTTTAGGGTTTTGA
236620 TTTTAGGGTTTT
1 TTTTAGGGTTTT
236632 AAGGGTTTTA
Statistics
Matches: 71, Mismatches: 25, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
14 50 0.70
16 9 0.13
17 12 0.17
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTTAGGGTTTTGA
Found at i:237021 original size:3 final size:3
Alignment explanation
Indices: 237015--237066 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
237005 AATCATTTTT
* * *
237015 TTA TTA TTG CTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
237063 TTA T
1 TTA T
237067 AAAACAACAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:237947 original size:24 final size:24
Alignment explanation
Indices: 237896--237950 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
237886 GCTGGGTTGT
*
237896 TTAGGCGTGAGAGCTTGGCACTTC
1 TTAGGCATGAGAGCTTGGCACTTC
*
237920 -TAGGCATGAGAGACTTGG-AGTTC
1 TTAGGCATGAGAG-CTTGGCACTTC
237943 TTAGGCAT
1 TTAGGCAT
237951 CAATAGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (24 bp):
TTAGGCATGAGAGCTTGGCACTTC
Found at i:238700 original size:33 final size:32
Alignment explanation
Indices: 238639--238736 Score: 81
Period size: 34 Copynumber: 3.0 Consensus size: 32
238629 ATTGAATCAC
* *
238639 AAGTCAAAAAATAATGAGATCGGGATTGAACCGT
1 AAGTCAAAAAATAACGAGATCCGGATTGAA-C-T
**
238673 AAGTCAAAAAATAACGAGA-CCTTATTGAACT
1 AAGTCAAAAAATAACGAGATCCGGATTGAACT
* ** *
238704 GAGTCAGAAAAATAAAAATGATCGGGATTGAAC
1 AAGTCA-AAAAATAACGA-GATCCGGATTGAAC
238737 CGTGAGTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
31 6 0.12
32 10 0.20
33 9 0.18
34 26 0.51
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (32 bp):
AAGTCAAAAAATAACGAGATCCGGATTGAACT
Found at i:238834 original size:37 final size:35
Alignment explanation
Indices: 238746--238840 Score: 91
Period size: 35 Copynumber: 2.7 Consensus size: 35
238736 CCGTGAGTAA
* * ** **
238746 AAAAAATAAAAATGACTGGGATTAAATTACAAGTC
1 AAAAAATAAAAACGATTAAGATTAAACCACAAGTC
**
238781 AAAAAATAATGACGATTAAGATTAAACCACAAGTC
1 AAAAAATAAAAACGATTAAGATTAAACCACAAGTC
*
238816 AAAAAAATAAAAAGCGATTAGGATT
1 -AAAAAATAAAAA-CGATTAAGATT
238841 GAATTGTGAG
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
35 27 0.57
36 10 0.21
37 10 0.21
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (35 bp):
AAAAAATAAAAACGATTAAGATTAAACCACAAGTC
Found at i:238917 original size:35 final size:35
Alignment explanation
Indices: 238864--238962 Score: 126
Period size: 35 Copynumber: 2.8 Consensus size: 35
238854 AAAAAAATGT
* * * *
238864 CCAAGATTGAACCTCGAGTCAGAAAATAACAACGA
1 CCAAGATTGAATCGCGAGTCAAAAAATAACAACAA
238899 CCAAGATTGAATCGCGAGTCAAAAAATAACAACAA
1 CCAAGATTGAATCGCGAGTCAAAAAATAACAACAA
* * * *
238934 CTATGATTAAATAGCGAGTCAAAAAATAA
1 CCAAGATTGAATCGCGAGTCAAAAAATAA
238963 TGACGATTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.17
Consensus pattern (35 bp):
CCAAGATTGAATCGCGAGTCAAAAAATAACAACAA
Found at i:238989 original size:35 final size:35
Alignment explanation
Indices: 238867--239173 Score: 110
Period size: 35 Copynumber: 8.7 Consensus size: 35
238857 AAAATGTCCA
* * **
238867 AGATTGAACC-TCGAGTCAGAAAATAACAACGACCA
1 AGATTGAACCAT-GAGTCAAAAAATAACGACGACTG
* ** * *
238902 AGATTGAATCGCGAGTCAAAAAATAACAACAACT-
1 AGATTGAACCATGAGTCAAAAAATAACGACGACTG
** * * *
238936 ATGATT-AAATAGCGAGTCAAAAAATAATGACGA-TT
1 A-GATTGAACCA-TGAGTCAAAAAATAACGACGACTG
* * *
238971 ATGATTGAACCATTAGTCAAGAAATAACGATGACTG
1 A-GATTGAACCATGAGTCAAAAAATAACGACGACTG
* * ** *
239007 AGATTGAACCATGAATTAAAAAATAAAAAC-AATGG
1 AGATTGAACCATGAGTCAAAAAATAACGACGACT-G
* * ** * *
239042 AGATTGAACCGTGCGTCAAAAAATAAAAATGA-TT
1 AGATTGAACCATGAGTCAAAAAATAACGACGACTG
* * * *
239076 AGGATTAAACCATGAGTCAGAAAATAA--AAGTAATTG
1 A-GATTGAACCATGAGTCAAAAAATAACGACG--ACTG
* * ** *
239112 GGATTAAACCACAAGTCAAAGAATAAAC-ACGACTG
1 AGATTGAACCATGAGTCAAAAAAT-AACGACGACTG
* *
239147 GGATTGAATCATGAGTCAGAAAAATAA
1 AGATTGAACCATGAGTCA-AAAAATAA
239174 AAAATGACCA
Statistics
Matches: 206, Mismatches: 51, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
33 2 0.01
34 7 0.03
35 181 0.88
36 14 0.07
37 2 0.01
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (35 bp):
AGATTGAACCATGAGTCAAAAAATAACGACGACTG
Found at i:239208 original size:72 final size:70
Alignment explanation
Indices: 239123--239261 Score: 183
Period size: 72 Copynumber: 2.0 Consensus size: 70
239113 GATTAAACCA
*
239123 CAAGTCAAAGAATAA-ACACGACTGGGATTGAA-TCATGAGTCAGAAAAATAAAAAATGACCAGG
1 CAAGTCAAAGAATAACA-ACGACTGGGATTGAACT-ATGAGTCAG-AAAAT-AAAAATGACCAAG
239186 ATTAAATGT
62 ATTAAATGT
* * * *
239195 CAAGTCAAAGAATAACAATGACTGGGTTTGAACTATGAGTTAGAAAATAAAAATGACTAAGATTA
1 CAAGTCAAAGAATAACAACGACTGGGATTGAACTATGAGTCAGAAAATAAAAATGACCAAGATTA
239260 AA
66 AA
239262 CCATAAGTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
70 17 0.28
71 5 0.08
72 36 0.60
73 2 0.03
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (70 bp):
CAAGTCAAAGAATAACAACGACTGGGATTGAACTATGAGTCAGAAAATAAAAATGACCAAGATTA
AATGT
Found at i:239281 original size:177 final size:175
Alignment explanation
Indices: 239057--239456 Score: 421
Period size: 177 Copynumber: 2.3 Consensus size: 175
239047 GAACCGTGCG
* * * * **
239057 TCAAAAAATAAAAATGATTAGGATTAAACCATGAGTCAGAAAATAAAAGTAATTGGGATTAAACC
1 TCAAAAAATAAAAATGACTAAGATTAAACCATAAGTCA-AAAATAAAAATAACCGGGATTAAACC
* * * *
239122 ACAAGTCAAAGAATAAACACGACTGGGATTGAATCATGAGTCAGAAAAATAAAAA-ATGACCAGG
65 ACAAGTCAAAAAATAAACACGACTAGAATTGAACCATGAGTCAGAAAAATAAAAACA--ACCAGG
* * * *
239186 ATTAAA-TGTCAAGTCAAAG-AATAACAATGACTGGGTTTGAACT-ATGA
128 ATTAAACAGT-AAGTCAAAGAAATAAAAATGACTGGGATTAAACTGA-GA
* * * *
239233 GTTAGAAAATAAAAATGACTAAGATTAAACCATAAGTTAAAGAATAAAAATGACCGGGATTAAAC
1 -TCAAAAAATAAAAATGACTAAGATTAAACCATAAGTCAAA-AATAAAAATAACCGGGATTAAAC
** ** * * *
239298 TGCAAGTCAAAAAATAATGATGATTAGAATTGAACCATGAGTCAGAAAAATAAAAACAATCAGGA
64 CACAAGTCAAAAAATAAACACGACTAGAATTGAACCATGAGTCAGAAAAATAAAAACAACCAGGA
* * *
239363 TTAAACAGTAAGTTAGAGAAATAAAAATGATTGGGATTAAACTGAGA
129 TTAAACAGTAAGTCAAAGAAATAAAAATGACTGGGATTAAACTGAGA
** *
239410 TCAAAAAATAAAAATGACCGAGATTAAACCACAAGTCAAAAAATAAA
1 TCAAAAAATAAAAATGACTAAGATTAAACCATAAGTC-AAAAATAAA
239457 TGTGACCAGG
Statistics
Matches: 183, Mismatches: 34, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
176 57 0.31
177 124 0.68
178 2 0.01
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (175 bp):
TCAAAAAATAAAAATGACTAAGATTAAACCATAAGTCAAAAATAAAAATAACCGGGATTAAACCA
CAAGTCAAAAAATAAACACGACTAGAATTGAACCATGAGTCAGAAAAATAAAAACAACCAGGATT
AAACAGTAAGTCAAAGAAATAAAAATGACTGGGATTAAACTGAGA
Found at i:239294 original size:35 final size:35
Alignment explanation
Indices: 238973--239456 Score: 244
Period size: 35 Copynumber: 13.7 Consensus size: 35
238963 TGACGATTAT
* * * ** *
238973 GATTGAACCATTAGTCAAGAAATAACGATGACTGA
1 GATTAAACCATAAGTCAAAAAATAAAAATGACTGG
* * * *
239008 GATTGAACCATGAA-TTAAAAAATAAAAA-CAATGG
1 GATTAAACCAT-AAGTCAAAAAATAAAAATGACTGG
* * ** * *
239042 AGATTGAACCGTGCGTCAAAAAATAAAAATGATTAG
1 -GATTAAACCATAAGTCAAAAAATAAAAATGACTGG
* * * * *
239078 GATTAAACCATGAGTCAGAAAATAAAAGTAATTGG
1 GATTAAACCATAAGTCAAAAAATAAAAATGACTGG
* * * *
239113 GATTAAACCACAAGTCAAAGAATAAACACGACTGG
1 GATTAAACCATAAGTCAAAAAATAAAAATGACTGG
* * * **
239148 GATTGAATCATGAGTCAGAAAAATAAAAAATGACCAG
1 GATTAAACCATAAGTCA-AAAAAT-AAAAATGACTGG
** * *
239185 GATTAAA-TGTCAAGTCAAAGAATAACAATGACTGG
1 GATTAAACCAT-AAGTCAAAAAATAAAAATGACTGG
* * * * * * **
239220 GTTTGAACTATGAGTTAGAAAATAAAAATGACTAA
1 GATTAAACCATAAGTCAAAAAATAAAAATGACTGG
* * *
239255 GATTAAACCATAAGTTAAAGAATAAAAATGACCGG
1 GATTAAACCATAAGTCAAAAAATAAAAATGACTGG
*** ** * *
239290 GATTAAACTGCAAGTCAAAAAATAATGATGATTAG
1 GATTAAACCATAAGTCAAAAAATAAAAATGACTGG
* * * * * *
239325 AATTGAACCATGAGTCAGAAAAATAAAAA-CAATCAG
1 GATTAAACCATAAGTCA-AAAAATAAAAATGACT-GG
* * *
239361 GATTAAA-CAGTAAGTTAGAGAAATAAAAATGATTGG
1 GATTAAACCA-TAAGTCA-AAAAATAAAAATGACTGG
* * *
239397 GATTAAA-C-TGAGATCAAAAAATAAAAATGACCGA
1 GATTAAACCATAAG-TCAAAAAATAAAAATGACTGG
*
239431 GATTAAACCACAAGTCAAAAAATAAA
1 GATTAAACCATAAGTCAAAAAATAAA
239457 TGTGACCAGG
Statistics
Matches: 331, Mismatches: 103, Indels: 30
0.71 0.22 0.06
Matches are distributed among these distances:
34 27 0.08
35 223 0.67
36 60 0.18
37 21 0.06
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (35 bp):
GATTAAACCATAAGTCAAAAAATAAAAATGACTGG
Found at i:239304 original size:105 final size:107
Alignment explanation
Indices: 239168--239427 Score: 273
Period size: 105 Copynumber: 2.4 Consensus size: 107
239158 TGAGTCAGAA
* * * * ** *
239168 AAATAAAAAATGACCAGGATTAAA-TGTCAAGTCAAAGAATAACAATGACTGGGTTTGAACTATG
1 AAAT-AAAAATGACCGGGATTAAACTG-CAAGTCAAAAAATAAAAATGACTAGAATTGAACCATG
* **
239232 AGTTAG-AAAATAAAAATGA-CTAAGATTAAACCA-TAAGTTAAAG
64 AGTCAGAAAAATAAAAACAATC-AAGATTAAA-CAGTAAGTTAAAG
** *
239275 -AATAAAAATGACCGGGATTAAACTGCAAGTCAAAAAATAATGATGATTAGAATTGAACCATGAG
1 AAATAAAAATGACCGGGATTAAACTGCAAGTCAAAAAATAAAAATGACTAGAATTGAACCATGAG
* *
239339 TCAGAAAAATAAAAACAATCAGGATTAAACAGTAAGTTAGAG
66 TCAGAAAAATAAAAACAATCAAGATTAAACAGTAAGTTAAAG
**
239381 AAATAAAAATGATTGGGATTAAACTG--AGATCAAAAAATAAAAATGAC
1 AAATAAAAATGACCGGGATTAAACTGCAAG-TCAAAAAATAAAAATGAC
239428 CGAGATTAAA
Statistics
Matches: 128, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
105 56 0.44
106 48 0.38
107 24 0.19
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (107 bp):
AAATAAAAATGACCGGGATTAAACTGCAAGTCAAAAAATAAAAATGACTAGAATTGAACCATGAG
TCAGAAAAATAAAAACAATCAAGATTAAACAGTAAGTTAAAG
Found at i:239440 original size:106 final size:105
Alignment explanation
Indices: 239255--239456 Score: 241
Period size: 106 Copynumber: 1.9 Consensus size: 105
239245 AAATGACTAA
**
239255 GATTAAACCATAAGTTAAAGAATAAAAATGACCGGGATTAAACTGCAAGTCAAAAAATAATGATG
1 GATTAAACCATAAGTTAAAGAATAAAAATGACCGGGATTAAACTGCAAGTCAAAAAATAAAAATG
** * **
239320 ATTAGAATTGAACCATGAGTCAGAAAAATAAAAACAATCAG
66 ACGAGAATTAAACCACAAGTCA-AAAAATAAAAACAATCAG
* **
239361 GATTAAA-CAGTAAGTTAGAGAAATAAAAATGATTGGGATTAAACTG--AGATCAAAAAATAAAA
1 GATTAAACCA-TAAGTTAAAG-AATAAAAATGACCGGGATTAAACTGCAAG-TCAAAAAATAAAA
239423 ATGACCGAG-ATTAAACCACAAGTCAAAAAATAAA
63 ATGA-CGAGAATTAAACCACAAGTCAAAAAATAAA
239457 TGTGACCAGG
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
105 13 0.16
106 44 0.54
107 25 0.30
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.20
Consensus pattern (105 bp):
GATTAAACCATAAGTTAAAGAATAAAAATGACCGGGATTAAACTGCAAGTCAAAAAATAAAAATG
ACGAGAATTAAACCACAAGTCAAAAAATAAAAACAATCAG
Found at i:239479 original size:141 final size:140
Alignment explanation
Indices: 239232--239491 Score: 312
Period size: 141 Copynumber: 1.9 Consensus size: 140
239222 TTGAACTATG
* * *
239232 AGTTAGAAAATAAAAATGACTAAGATTAAACCATAAGTTAAAGAATAAAAATGACCGGGATTAAA
1 AGTTAGAAAATAAAAATGACTAAGATTAAACCATAAGTCAAAAAATAAAAATGACCGAGATTAAA
** ** *
239297 CTGCAAGTCAAAAAATAATGATGATTAGAATTGAACCATGAGTCAGAAAAATAAAAACAATCAGG
66 CCACAAGTCAAAAAATAATGATGACCAGAACTGAACCATGAGTCA-AAAAATAAAAACAATCAGG
239362 ATTAAACAGTA
130 ATTAAACAGTA
* ** *
239373 AGTTAGAGAAATAAAAATGATTGGGATTAAA-C-TGAGATCAAAAAATAAAAATGACCGAGATTA
1 AGTTAGA-AAATAAAAATGACTAAGATTAAACCATAAG-TCAAAAAATAAAAATGACCGAGATTA
* **
239436 AACCACAAGTCAAAAAATAAATG-TGACCAGGACT-AAGTTATGAGTCAAAAAATAAA
64 AACCACAAGTCAAAAAAT-AATGATGACCAGAACTGAA-CCATGAGTCAAAAAATAAA
239492 GGATTGGGTA
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
140 14 0.14
141 62 0.62
142 24 0.24
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.21
Consensus pattern (140 bp):
AGTTAGAAAATAAAAATGACTAAGATTAAACCATAAGTCAAAAAATAAAAATGACCGAGATTAAA
CCACAAGTCAAAAAATAATGATGACCAGAACTGAACCATGAGTCAAAAAATAAAAACAATCAGGA
TTAAACAGTA
Found at i:247865 original size:13 final size:13
Alignment explanation
Indices: 247844--247875 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
247834 AACATCATCG
*
247844 AAATCTTGCTGCC
1 AAATTTTGCTGCC
247857 AAATTTTGCTGCC
1 AAATTTTGCTGCC
247870 AAATTT
1 AAATTT
247876 GTTTGGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (13 bp):
AAATTTTGCTGCC
Found at i:248583 original size:236 final size:235
Alignment explanation
Indices: 247868--248906 Score: 1107
Period size: 236 Copynumber: 4.4 Consensus size: 235
247858 AATTTTGCTG
* **
247868 CCAAATTTGTTTGGTGGAAAATATTTTTGTGAC-ATTTTTTATTTTAGGCAACGTTATAA--TTG
1 CCAAATTTATTTGGTGGAAAAT-TTTTTGTGACTATTTTTTATTTTAGGTGACGTTATAATTTTG
* * * *
247930 TCACCAATTTAAAATTTTATTTGTGACAAATTTTTTCTAATAGATTTTAGGTGACATTATTAATT
65 TCACTAATTTAAAATTTTATCTGTGACAAATTTTTTCTAATAGATTTTAGATAACATTATTAATT
* * * * *
247995 TTTATCATAAATTGAACACTTTAATTAACTATAAATGACATTGCAATTTCGTTACATCAATGTAT
130 TTTAT-ACAAATTGAATACTTTAATTAACTATTAATGACATTGCAATTTCGTCACATCAATTTAT
* ** *
248060 GGTGTTATATGACGATATTATAAATGTCACAAACTTTTATCA
194 AGTGTTATATGACGATAACATAAATGTCACAAACTTTTACCA
* * *
248102 CCAAATTTATTTAGTGGAAAA-TTTTTGTGA-TGTTTTTTATTTTAGGTGACGTT-TACATTTTT
1 CCAAATTTATTTGGTGGAAAATTTTTTGTGACTATTTTTTATTTTAGGTGACGTTATA-ATTTTG
** * **
248164 TCACTAATTTAAAATTTTATCTGTGATGAA-TTTTTCTAATAGATTTTAGATGATGTTATTAATT
65 TCACTAATTTAAAATTTTATCTGTGACAAATTTTTTCTAATAGATTTTAGATAACATTATTAATT
* * * * * * *
248228 TTTGT-CATAAATGTAATACTTTAGTTAACTATTAATGACATTGCAATTTTGTCACCTTTACTTT
130 TTTATACA-AATTG-AATACTTTAATTAACTATTAATGACATTGCAATTTCGTCA-CATCAATTT
* * **
248292 AT-GATATTATATGACAATAACATAAATGTCACAAACTTTTACTG
192 ATAG-TGTTATATGACGATAACATAAATGTCACAAACTTTTACCA
* * * * * * * *
248336 TCAATTTTATTTGGTGAAAAATTTTTTGTGACTTTTTTTTATTTTAAGTGACATTATAAATGTGT
1 CCAAATTTATTTGGTGGAAAATTTTTTGTGACTATTTTTTATTTTAGGTGACGTTATAATTTTGT
* * * **
248401 CACTAATTTAAAATTTTATCTGTGACAGATGTTTTCTAATAGATTTTAGGTAATGTTATTAATTT
66 CACTAATTTAAAATTTTATCTGTGACAAATTTTTTCTAATAGATTTTAGATAACATTATTAATTT
* * *
248466 TTATAGCAGATTGAATACTTTAGTTAATTATTAATGACATTGCAATTTCGTCA-AGTCAATTTAT
131 TTATA-CAAATTGAATACTTTAATTAACTATTAATGACATTGCAATTTCGTCACA-TCAATTTAT
* * *
248530 AGTGTTATATAATGATAACATAAATGTCATAAACTTTTACCA
194 AGTGTTATATGACGATAACATAAATGTCACAAACTTTTACCA
** * * ** *
248572 CCAAATTTATTTAATGGAAAATTTTTTATGAC-ATTTTTTTAATCTTAAATAACGTTATAATTTT
1 CCAAATTTATTTGGTGGAAAATTTTTTGTGACTA-TTTTTT-ATTTTAGGTGACGTTATAATTTT
* * * * * *
248636 GTCACCAATTTAAATTTTTATTTGTGACAAATTTTTTGTGATAGGTTTTAGATAACATTATTAAT
64 GTCACTAATTTAAAATTTTATCTGTGACAAATTTTTTCTAATAGATTTTAGATAACATTATTAAT
* * ** * * *
248701 TTTGT-CACAAATTGAATTCTTTAATTAACTATTAATGACATTATAATTTCATTACATTAATGTT
129 TTT-TATACAAATTGAATACTTTAATTAACTATTAATGACATTGCAATTTCGTCACATCAAT-TT
*
248765 TTA-TGTTATATGACGATAACATAAATGTCACAAACTTTTACCA
192 ATAGTGTTATATGACGATAACATAAATGTCACAAACTTTTACCA
* * * * * *
248808 TCAATTTTATTTGGTGAAAAATTTTTTATTAC-AGTTTTTATTTTAGGTGACGTTATAATTTTGT
1 CCAAATTTATTTGGTGGAAAATTTTTTGTGACTATTTTTTATTTTAGGTGACGTTATAATTTTGT
* **
248872 CACTAATTTAAAATTTTATCTATGATGAATTTTTT
66 CACTAATTTAAAATTTTATCTGTGACAAATTTTTT
248907 TGATAAATTT
Statistics
Matches: 666, Mismatches: 118, Indels: 42
0.81 0.14 0.05
Matches are distributed among these distances:
231 3 0.00
232 33 0.05
233 71 0.11
234 154 0.23
235 14 0.02
236 229 0.34
237 156 0.23
238 4 0.01
239 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.46
Consensus pattern (235 bp):
CCAAATTTATTTGGTGGAAAATTTTTTGTGACTATTTTTTATTTTAGGTGACGTTATAATTTTGT
CACTAATTTAAAATTTTATCTGTGACAAATTTTTTCTAATAGATTTTAGATAACATTATTAATTT
TTATACAAATTGAATACTTTAATTAACTATTAATGACATTGCAATTTCGTCACATCAATTTATAG
TGTTATATGACGATAACATAAATGTCACAAACTTTTACCA
Found at i:253495 original size:203 final size:200
Alignment explanation
Indices: 253086--253833 Score: 723
Period size: 203 Copynumber: 3.7 Consensus size: 200
253076 TTAATAACGT
* ** * *
253086 TAATTATGTCACTAATACTATGATGATTTATTTTTCATCACTAATATATCATATTTAATCATTTA
1 TAATTATGTCACCAATACTATGATGATTTACCTTTCATCACTAATATATCAGATTTTATCATTTA
* * * * * *
253151 TTTTATGATGATTATAGCCTTTAATGACATTTTTTCATAAATAGCTAACAAAAACTAACATCACA
66 TTTTATGACGATTATAACCTTCAATGACATTTTTTTATAAATAGCTGACGAAAACTAACATCA-A
* * * ** *
253216 AAAAAGAAAAGCATAATGTGACGTTTGATTTTATTTTCACGTTTGACGTTATCTTACAATCATTT
130 AAAAA-AAAAGCATAAGGTGATGTTTGATTTTATTGTCATATTTGACATTATCTTACAATCATTT
253281 GTGATGA
194 GTGATGA
* * * * *
253288 TAATTATGTTACCAACACTATGACGATTTACCTTTCGTCACTAATATATCAGATTTTATTATTTA
1 TAATTATGTCACCAATACTATGATGATTTACCTTTCATCACTAATATATCAGATTTTATCATTTA
* ** * * * *
253353 TTTTGTGACGATTATAACCTTCAATGATGTTCTTCTTTATAAATAGCTGATGAGAATTAACGTCA
66 TTTTATGACGATTATAACCTTCAATGACATT-TT-TTTATAAATAGCTGACGAAAACTAACATCA
* *
253418 TATAAAAAAAAGCATAAGGTGATGTTTGATTTTATTGTCATATTTGACATTATCTTATAATCATT
129 -AAAAAAAAAAGCATAAGGTGATGTTTGATTTTATTGTCATATTTGACATTATCTTACAATCATT
*
253483 TGTGACGA
193 TGTGATGA
* * * * * * ** *
253491 TAATTGTGTTACCAAAATTGTGATGATTTA-TTTATTTTCACTAATATATAAGATTTTATCATTT
1 TAATTATGTCACCAATACTATGATGATTTACCTT-TCATCACTAATATATCAGATTTTATCATTT
* * *
253555 ATTTTATGACAATTATAGCCTTTAATGACATTTTTGTTTATAAATAGCTGACGAAAACTAACAT-
65 ATTTTATGACGATTATAACCTTCAATGACA-TTTT-TTTATAAATAGCTGACGAAAACTAACATC
* * * * * * *
253619 AACAAAAATTAATGCATAAGTTGATGCTTGATTTTATTGTAATAGTAGACATTATCTTACAATCA
128 AA-AAAAA-AAAAGCATAAGGTGATGTTTGATTTTATTGTCATATTTGACATTATCTTACAATCA
*
253684 -TTGATGATAA
191 TTTG-TGATGA
* * * * * *
253694 TAATTTTGTCACTAATATTATGGTGATTTACCATTT-ATCACTAATATATTAGATTTTCTCATTT
1 TAATTATGTCACCAATACTATGATGATTTACC-TTTCATCACTAATATATCAGATTTTATCATTT
* * * * * * **
253758 -TTTTGTGATGAATATAACCTTCAATAACTTTTTTTTTTCATAAATAGCTAACGAAAACTAATGT
65 ATTTTATGACGATTATAACCTTCAATGAC--ATTTTTTT-ATAAATAGCTGACGAAAACTAACAT
*
253822 CACAAAAAAAAA
127 CAAAAAAAAAAA
253834 TATAGAGTGA
Statistics
Matches: 444, Mismatches: 89, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
201 1 0.00
202 116 0.26
203 293 0.66
204 32 0.07
205 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (200 bp):
TAATTATGTCACCAATACTATGATGATTTACCTTTCATCACTAATATATCAGATTTTATCATTTA
TTTTATGACGATTATAACCTTCAATGACATTTTTTTATAAATAGCTGACGAAAACTAACATCAAA
AAAAAAAAGCATAAGGTGATGTTTGATTTTATTGTCATATTTGACATTATCTTACAATCATTTGT
GATGA
Found at i:258327 original size:90 final size:88
Alignment explanation
Indices: 258231--258407 Score: 205
Period size: 90 Copynumber: 2.0 Consensus size: 88
258221 GTTTTGGATT
* * * * * * *
258231 TTAGGGTTTTG-GTTTGAGTTTTGAAGGTTTATGGTATTGGA-TTTAGGGTTTTAAGGTTTTAAA
1 TTAGGGTTTTGAGTTTAAGGTTCG-AGGTTTAGGGT-TTGAATTTTAGGGTTTAAAAGTTTT--A
*
258294 AGTTTTTAATTTTAGGGTTTGAAGGGA
62 AGGTTTTAATTTTAGGGTTTGAAGGGA
* * *
258321 TTAGGGTTTTGATTTTAAGGTTCGAGGTTTAGGGTTTTAATTTTAGGGTTTAAAAGTTTTAGGGT
1 TTAGGGTTTTGAGTTTAAGGTTCGAGGTTTAGGGTTTGAATTTTAGGGTTTAAAAGTTTTAAGGT
258386 TTTAATTTTAGGGTTTGAAGGG
66 TTTAATTTTAGGGTTTGAAGGG
258408 TTTAAAGTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
88 25 0.34
89 3 0.04
90 38 0.51
91 8 0.11
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (88 bp):
TTAGGGTTTTGAGTTTAAGGTTCGAGGTTTAGGGTTTGAATTTTAGGGTTTAAAAGTTTTAAGGT
TTTAATTTTAGGGTTTGAAGGGA
Found at i:258384 original size:30 final size:29
Alignment explanation
Indices: 258297--258445 Score: 140
Period size: 30 Copynumber: 5.1 Consensus size: 29
258287 TTTTAAAAGT
* *
258297 TTTTAATTTTAGGGTTTGAAGGGATTAGGG
1 TTTTAATTTTAGGGTTT-AAAGGTTTAGGG
* * **
258327 TTTTGATTTTAAGG-TTCGAGGTTTAGGG
1 TTTTAATTTTAGGGTTTAAAGGTTTAGGG
*
258355 TTTTAATTTTAGGGTTTAAAAGTTTTAGGG
1 TTTTAATTTTAGGGTTT-AAAGGTTTAGGG
* **
258385 TTTTAATTTTAGGGTTTGAAGGGTTTAAAG
1 TTTTAATTTTAGGGTTT-AAAGGTTTAGGG
* * *
258415 TTTTAGTTTTAGGGTTTTAA-TTTTAGGG
1 TTTTAATTTTAGGGTTTAAAGGTTTAGGG
258443 TTT
1 TTT
258446 AGAGGGTTTA
Statistics
Matches: 95, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
28 28 0.29
29 5 0.05
30 62 0.65
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.50
Consensus pattern (29 bp):
TTTTAATTTTAGGGTTTAAAGGTTTAGGG
Found at i:258401 original size:22 final size:23
Alignment explanation
Indices: 258376--258454 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
258366 GGGTTTAAAA
258376 GTTT-TAGGGTTTTAATTTTAGG
1 GTTTATAGGGTTTTAATTTTAGG
*
258398 GTTTGA-AGGGTTTAAAGTTTTA--
1 GTTT-ATAGGGTTTTAA-TTTTAGG
258420 GTTT-TAGGGTTTTAATTTTAGG
1 GTTTATAGGGTTTTAATTTTAGG
*
258442 GTTTAGAGGGTTT
1 GTTTATAGGGTTT
258455 AGGTTTACAT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
20 5 0.11
21 9 0.19
22 12 0.26
23 16 0.34
24 5 0.11
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (23 bp):
GTTTATAGGGTTTTAATTTTAGG
Found at i:258455 original size:22 final size:22
Alignment explanation
Indices: 258381--258455 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
258371 TAAAAGTTTT
258381 AGGGTTTTAATTTTAGGGTTT-G
1 AGGG-TTTAATTTTAGGGTTTAG
*
258403 AAGGGTTTAAAGTTTTA-GTTTTAG
1 -AGGGTTT-AA-TTTTAGGGTTTAG
*
258427 -GGTTTTAATTTTAGGGTTTAG
1 AGGGTTTAATTTTAGGGTTTAG
258448 AGGGTTTA
1 AGGGTTTA
258456 GGTTTACATT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
20 5 0.12
21 8 0.19
22 14 0.33
23 10 0.23
24 6 0.14
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (22 bp):
AGGGTTTAATTTTAGGGTTTAG
Found at i:258456 original size:30 final size:30
Alignment explanation
Indices: 258422--258573 Score: 161
Period size: 30 Copynumber: 5.2 Consensus size: 30
258412 AAGTTTTAGT
*
258422 TTTAGGGTTTTAATTTTAGGGTTTAGAGGG
1 TTTAAGGTTTTAATTTTAGGGTTTAGAGGG
* *
258452 TTT-AGG-TTTACATTTTAAGGTTTAGAGAG
1 TTTAAGGTTTTA-ATTTTAGGGTTTAGAGGG
**
258481 TTTAAGGTTTCGATTTTAGGGTTT-GA-GG
1 TTTAAGGTTTTAATTTTAGGGTTTAGAGGG
* *
258509 TAT-AGAGTTTTAATTTTAGGGTTTAAAGGG
1 TTTAAG-GTTTTAATTTTAGGGTTTAGAGGG
* * *
258539 TTTAAGGTTTTGATTTTAGGGTTTGGAGAG
1 TTTAAGGTTTTAATTTTAGGGTTTAGAGGG
258569 TTTAA
1 TTTAA
258574 TTTAGGGTTT
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
27 2 0.02
28 23 0.23
29 24 0.24
30 46 0.46
31 4 0.04
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (30 bp):
TTTAAGGTTTTAATTTTAGGGTTTAGAGGG
Found at i:258486 original size:16 final size:16
Alignment explanation
Indices: 258436--258490 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
258426 GGGTTTTAAT
* *
258436 TTTAGGGTTTAGAGGG
1 TTTAAGGTTTAGAGAG
* *
258452 TTT-AGGTTT--ACAT
1 TTTAAGGTTTAGAGAG
258465 TTTAAGGTTTAGAGAG
1 TTTAAGGTTTAGAGAG
258481 TTTAAGGTTT
1 TTTAAGGTTT
258491 CGATTTTAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 4 0.13
14 6 0.20
15 5 0.17
16 15 0.50
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (16 bp):
TTTAAGGTTTAGAGAG
Found at i:258577 original size:21 final size:21
Alignment explanation
Indices: 258553--258593 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
258543 AGGTTTTGAT
**
258553 TTTAGGGTTTGGAGAGTTTAA
1 TTTAGGGTTTAAAGAGTTTAA
258574 TTTAGGGTTTAAAGAGTTTA
1 TTTAGGGTTTAAAGAGTTTA
258594 GGGCTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (21 bp):
TTTAGGGTTTAAAGAGTTTAA
Found at i:258578 original size:51 final size:55
Alignment explanation
Indices: 258463--258615 Score: 179
Period size: 58 Copynumber: 2.8 Consensus size: 55
258453 TTAGGTTTAC
* * *
258463 ATTTTAAGGTTTAGAGAGTTTAAGGTTTCGATTTTAGGGTTTGAGGTATAGAGTTTTA
1 ATTTTAGGGTTTAAAGAGTTTAAGGTTTTGATTTTAGGGTTT-AGG--TAGAGTTTTA
*
258521 ATTTTAGGGTTTAAAGGGTTTAAGGTTTTGATTTTAGGGTTT-GG-AGAG-TTTA
1 ATTTTAGGGTTTAAAGAGTTTAAGGTTTTGATTTTAGGGTTTAGGTAGAGTTTTA
* * * *
258573 A-TTTAGGGTTTAAAGAGTTTAGGGCTTTAATTTTAAGGTTTAG
1 ATTTTAGGGTTTAAAGAGTTTAAGGTTTTGATTTTAGGGTTTAG
258616 AGGCTTTTAA
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
51 35 0.41
52 6 0.07
53 4 0.05
56 2 0.02
58 38 0.45
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.45
Consensus pattern (55 bp):
ATTTTAGGGTTTAAAGAGTTTAAGGTTTTGATTTTAGGGTTTAGGTAGAGTTTTA
Found at i:258697 original size:14 final size:14
Alignment explanation
Indices: 258680--258730 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
258670 GGGTTTGGGG
258680 TTTAGAGTTTTGAT
1 TTTAGAGTTTTGAT
* **
258694 TTTA-AGATTTGGG
1 TTTAGAGTTTTGAT
*
258707 TTTAGGGTTTTGAT
1 TTTAGAGTTTTGAT
*
258721 TTTAGGGTTT
1 TTTAGAGTTT
258731 AAAGGGTTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (14 bp):
TTTAGAGTTTTGAT
Found at i:258707 original size:27 final size:28
Alignment explanation
Indices: 258621--258726 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 28
258611 TTTAGAGGCT
*
258621 TTTAAAGTTTTGATTTTAGGATTTGGAGGG
1 TTTAGAGTTTTGATTTTAGGATTT-G-GGG
* *
258651 TTTTAG-GATTTTGATTTTTGGGTTTGGGG
1 -TTTAGAG-TTTTGATTTTAGGATTTGGGG
*
258680 TTTAGAGTTTTGATTTTAAGATTT-GGG
1 TTTAGAGTTTTGATTTTAGGATTTGGGG
*
258707 TTTAGGGTTTTGATTTTAGG
1 TTTAGAGTTTTGATTTTAGG
258727 GTTTAAAGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
27 21 0.32
28 19 0.29
29 4 0.06
30 2 0.03
31 19 0.29
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (28 bp):
TTTAGAGTTTTGATTTTAGGATTTGGGG
Found at i:258740 original size:30 final size:30
Alignment explanation
Indices: 258704--258777 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
258694 TTTAAGATTT
* *
258704 GGGTTTAGGGTTTTGATTTTAGGGTTTAAA
1 GGGTTTAGGGTTTCGATTTTAGAGTTTAAA
* *
258734 GGGTTTAAGGTTTCGATTTTAGAGTTTGAA
1 GGGTTTAGGGTTTCGATTTTAGAGTTTAAA
258764 GGGTTTTAGGGTTT
1 GGG-TTTAGGGTTT
258778 AAAGAAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (30 bp):
GGGTTTAGGGTTTCGATTTTAGAGTTTAAA
Found at i:259169 original size:3 final size:3
Alignment explanation
Indices: 259163--259207 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
259153 TTTATTGTTG
* * *
259163 TTA TTA TCA TTA TCA TTA TTA TTA TTA TTA TT- TTT TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
259208 AAAACAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:259290 original size:30 final size:31
Alignment explanation
Indices: 259248--259305 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
259238 TAAAAGTTTT
* *
259248 TAAATATGTATAAATAATA-ATA-ATAAAGC
1 TAAAAATGTATAAACAATATATATATAAAGC
259277 TAAAAATGATATAAACAATATATATATAA
1 TAAAAATG-TATAAACAATATATATATAA
259306 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.29
30 10 0.42
31 3 0.12
32 4 0.17
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.31
Consensus pattern (31 bp):
TAAAAATGTATAAACAATATATATATAAAGC
Found at i:262644 original size:33 final size:33
Alignment explanation
Indices: 262606--262686 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
262596 TATCACCAAC
* *
262606 AAATTTTAACAAATATATAACCAAAACCTAAAT
1 AAATTTTAACAAATATAAAACCAAAACCCAAAT
* *
262639 AAATTTTAACAAACATAAAACTAAAACCCAAAT
1 AAATTTTAACAAATATAAAACCAAAACCCAAAT
* *
262672 AAATTTCATCAAATA
1 AAATTTTAACAAATA
262687 ATTAACTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (33 bp):
AAATTTTAACAAATATAAAACCAAAACCCAAAT
Found at i:262972 original size:5 final size:5
Alignment explanation
Indices: 262962--262995 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
262952 AGTGTGAGAA
262962 GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG GGGA
1 GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG GGGA
262996 TAATTAGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.79, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:265068 original size:3 final size:3
Alignment explanation
Indices: 265062--265104 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
265052 TATTATTCTT
*
265062 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT A-A AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
265105 TTGTAATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 3 0.08
3 33 0.92
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:265467 original size:4 final size:4
Alignment explanation
Indices: 265460--265485 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
265450 TGCCTTGAGG
265460 TCCC TCCC TCCC TCCC TCCC TCCC TC
1 TCCC TCCC TCCC TCCC TCCC TCCC TC
265486 TCTCTCTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (4 bp):
TCCC
Found at i:265490 original size:2 final size:2
Alignment explanation
Indices: 265483--265528 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
265473 CCCTCCCTCC
265483 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
265525 CT CT
1 CT CT
265529 TTTGGGCTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:270922 original size:15 final size:15
Alignment explanation
Indices: 270897--270938 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
270887 AGAATATACT
*
270897 ACTACCACTACTACA
1 ACTACTACTACTACA
* *
270912 ACTACTGCTACAACA
1 ACTACTACTACTACA
270927 ACTACTACTACT
1 ACTACTACTACT
270939 TGCATGGTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (15 bp):
ACTACTACTACTACA
Found at i:279508 original size:39 final size:41
Alignment explanation
Indices: 279454--279551 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
279444 TGCACTTGTA
279454 GCAAAAATAGGAAAGATT-CCT-CATACATTTTCCATGGAG
1 GCAAAAATAGGAAAGATTACCTCCATACATTTTCCATGGAG
* ** * *
279493 GCAAAAATAGGAAAGATTACCTCCGTATGTTTTGCATGGGG
1 GCAAAAATAGGAAAGATTACCTCCATACATTTTCCATGGAG
279534 GCAAAAATAGGAAAGATT
1 GCAAAAATAGGAAAGATT
279552 GCAAAGTTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
39 18 0.35
40 3 0.06
41 31 0.60
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (41 bp):
GCAAAAATAGGAAAGATTACCTCCATACATTTTCCATGGAG
Found at i:281267 original size:22 final size:22
Alignment explanation
Indices: 281242--281285 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
281232 ATTTTCTGTC
*
281242 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
281264 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
281286 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:285330 original size:22 final size:22
Alignment explanation
Indices: 285305--285348 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
285295 ATTTTCTATC
*
285305 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
285327 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
285349 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:289970 original size:3 final size:3
Alignment explanation
Indices: 289962--290001 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
289952 AAAAGAAATA
*
289962 AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
290002 TTATTATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:290680 original size:13 final size:13
Alignment explanation
Indices: 290662--290700 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
290652 CCTTTGTTTC
290662 TTTCATTTTTTAT
1 TTTCATTTTTTAT
290675 TTTCA-TTTTTAT
1 TTTCATTTTTTAT
*
290687 TTTTATTTTATTAT
1 TTTCATTTT-TTAT
290701 GGTATGATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 11 0.48
13 8 0.35
14 4 0.17
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCATTTTTTAT
Found at i:294689 original size:45 final size:45
Alignment explanation
Indices: 294638--294725 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
294628 TGTTTTTGTT
294638 TTTCATTAGAGCCTACAAATAGTTTTTGGTTTTCCATCTGATTTC
1 TTTCATTAGAGCCTACAAATAGTTTTTGGTTTTCCATCTGATTTC
294683 TTTCATTAGAGCCTACAAATAGTTTTTGGTTTTCCATCTGATT
1 TTTCATTAGAGCCTACAAATAGTTTTTGGTTTTCCATCTGATT
294726 CCTATCAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.47
Consensus pattern (45 bp):
TTTCATTAGAGCCTACAAATAGTTTTTGGTTTTCCATCTGATTTC
Found at i:305747 original size:25 final size:25
Alignment explanation
Indices: 305719--305768 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
305709 AAATTTTAAG
*
305719 TATGTCTGTCATTAGTAGTCGTGTA
1 TATGTCTGTCATTAGTACTCGTGTA
305744 TATGTCTGTCATTAGTACTCGTGTA
1 TATGTCTGTCATTAGTACTCGTGTA
305769 CATATGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (25 bp):
TATGTCTGTCATTAGTACTCGTGTA
Found at i:310064 original size:2 final size:2
Alignment explanation
Indices: 310057--310088 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
310047 CTGGATTTTG
310057 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
310089 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:314683 original size:16 final size:19
Alignment explanation
Indices: 314662--314710 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
314652 TTTTATGTAT
314662 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
314679 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
314697 TGTATATATTTATT
1 TGTAT-TATTTATT
314711 TATTTATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:315857 original size:17 final size:16
Alignment explanation
Indices: 315814--315862 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
315804 GTTTATGTAA
315814 TATTCTTTTTATTTAT
1 TATTCTTTTTATTTAT
* *
315830 TTTTACTTTTTTTTTAT
1 TATT-CTTTTTATTTAT
*
315847 TATTCTATTTTCTTTA
1 TATTCT-TTTTATTTA
315863 AATAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTCTTTTTATTTAT
Found at i:316152 original size:57 final size:57
Alignment explanation
Indices: 315883--316451 Score: 846
Period size: 57 Copynumber: 9.8 Consensus size: 57
315873 AAAAATTCTA
*
315883 AAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTTC
1 AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAA-TTTC
*
315942 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGGAAAATAAATTTAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---A-G-AAATAAATTT-C
316005 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
316063 CAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA-AAATTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
316118 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 -AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
316176 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAATTTCC
1 -AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT-C
316234 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTC
*
316291 CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
*
316349 AAAAAAATGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTC
1 AAAAAAAT-ATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTC
* *
316409 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
316452 AAAAAAAAAA
Statistics
Matches: 479, Mismatches: 10, Indels: 42
0.90 0.02 0.08
Matches are distributed among these distances:
55 7 0.01
56 47 0.10
57 149 0.31
58 119 0.25
59 85 0.18
60 13 0.03
61 5 0.01
62 3 0.01
63 12 0.03
64 39 0.08
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.35
Consensus pattern (57 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
Found at i:316221 original size:115 final size:115
Alignment explanation
Indices: 315882--316451 Score: 868
Period size: 115 Copynumber: 4.9 Consensus size: 115
315872 AAAAAATTCT
* *
315882 AAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTTCAAAA
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAA-TTTCCAAA
*
315946 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGGAAAATAAATTTA
63 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---A-G-AAATAAATTTC
316004 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
316069 ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA-AAATTTC
65 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
316118 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC-CAAAAA
316183 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAATTTC
65 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
316233 CAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCCAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCCAAAAA
316297 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
65 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
*
316349 -AAAAAAATGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCCA
1 AAAAAAAAT-ATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCCA
*
316411 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
61 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
316452 AAAAAAAAAA
Statistics
Matches: 427, Mismatches: 8, Indels: 30
0.92 0.02 0.06
Matches are distributed among these distances:
113 51 0.12
114 74 0.17
115 111 0.26
116 41 0.10
117 2 0.00
118 49 0.11
120 29 0.07
121 17 0.04
122 52 0.12
123 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.35
Consensus pattern (115 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
Found at i:316273 original size:27 final size:27
Alignment explanation
Indices: 316242--316330 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
316232 CCAAAAAAAT
316242 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
316269 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
316299 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
316326 ATTTT
1 ATTTT
316331 CCTTAGAAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:320282 original size:16 final size:15
Alignment explanation
Indices: 320263--320292 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
320253 AAAAAAAGGG
320263 AAAAAAATGAAAAAAT
1 AAAAAAAT-AAAAAAT
320279 AAAAAAATAAAAAA
1 AAAAAAATAAAAAA
320293 GAGATTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:321571 original size:40 final size:39
Alignment explanation
Indices: 321527--322087 Score: 899
Period size: 39 Copynumber: 14.0 Consensus size: 39
321517 GTCTAGGAGT
321527 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
321567 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
321608 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
321648 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
321687 ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-TGCCTCTGTTTAGAGGAGCA
*
321727 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
321769 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
321809 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
321851 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
321890 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
321929 ATTTACTTTTCAAAGTCG-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
* *
321967 ATTTACTTTTCCAAAGTCGTTGCCTCTGTTTAGAGAAGTA
1 ATTTACTTTT-CAAAGTCGTTGCCTCTGTTTAGAGGAGCA
* *
322007 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
322048 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGC
322088 TTTGGTAAAA
Statistics
Matches: 493, Mismatches: 14, Indels: 27
0.92 0.03 0.05
Matches are distributed among these distances:
38 30 0.06
39 140 0.28
40 139 0.28
41 117 0.24
42 67 0.14
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (39 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:322127 original size:24 final size:23
Alignment explanation
Indices: 322094--322142 Score: 89
Period size: 24 Copynumber: 2.1 Consensus size: 23
322084 GAGCTTTGGT
322094 AAAAAAAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAACAAAAAA
322117 AAAAAACAAAAAAAAAACAAAAAA
1 AAAAAA-AAAAAAAAAACAAAAAA
322141 AA
1 AA
322143 CCAAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAAAAAACAAAAAA
Found at i:322147 original size:10 final size:10
Alignment explanation
Indices: 322115--322150 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
322105 AAAAACAAAA
*
322115 AAAAAAAACA
1 AAAAAAAACC
*
322125 AAAAAAAAAC
1 AAAAAAAACC
322135 AAAAAAAACC
1 AAAAAAAACC
322145 AAAAAA
1 AAAAAA
322151 TGTTGAGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACC
Found at i:322150 original size:1 final size:1
Alignment explanation
Indices: 322094--322142 Score: 71
Period size: 1 Copynumber: 49.0 Consensus size: 1
322084 GAGCTTTGGT
* * *
322094 AAAAAAAAAAAAAAAACAAAAAAAAAAAACAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
322143 CCAAAAAATG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:322381 original size:28 final size:27
Alignment explanation
Indices: 322329--322390 Score: 63
Period size: 28 Copynumber: 2.2 Consensus size: 27
322319 TCTTCTTTTG
* *
322329 TATTTTATGTATTGTATTATTTATTAT
1 TATTTTATGTATTATATTATGTATTAT
322356 TATTATTATGTATTA-ATATATGTATTTATT
1 TATT-TTATGTATTATAT-TATGTA-TTA-T
322386 TATTT
1 TATTT
322391 ATTTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 6 0.21
28 14 0.48
29 4 0.14
30 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (27 bp):
TATTTTATGTATTATATTATGTATTAT
Found at i:322398 original size:16 final size:15
Alignment explanation
Indices: 322332--322467 Score: 57
Period size: 16 Copynumber: 8.7 Consensus size: 15
322322 TCTTTTGTAT
*
322332 TTTATGTATTGTATTA
1 TTTATTTATT-TATTA
322348 TTTA-TTATTATTATTA
1 TTTATTTA-T-TTATTA
* * *
322364 TGTATTAATATATGTA
1 TTTATTTATTTAT-TA
322380 TTTATTTATTTATTTA
1 TTTATTTATTTA-TTA
* *
322396 TTT-TTT-GTTAATA
1 TTTATTTATTTATTA
322409 TTTATGTGTATTTTATTA
1 TTTAT-T-TA-TTTATTA
* *
322427 TTTATGTATATATATA
1 TTTATTTATTTAT-TA
*
322443 TATATTT-TTT-TTA
1 TTTATTTATTTATTA
*
322456 TCTTTTTTATTT
1 T-TTATTTATTT
322468 TATTCATTTT
Statistics
Matches: 89, Mismatches: 18, Indels: 27
0.66 0.13 0.20
Matches are distributed among these distances:
13 8 0.09
14 9 0.10
15 18 0.20
16 40 0.45
17 4 0.04
18 10 0.11
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTATTTATTTATTA
Found at i:322463 original size:63 final size:64
Alignment explanation
Indices: 322350--322519 Score: 145
Period size: 66 Copynumber: 2.6 Consensus size: 64
322340 TTGTATTATT
* *
322350 TATTATTATTA-TTATGTAT-TAATATATGTATTTATTTATTTATTTATTTTT-TGTTAAT-ATT
1 TATT-TTATTATTTATGTATAT-ATATATATA-TT-TTT-TTTATCTATTTTTATGTTAATCATT
322411 TATGTG
61 T-T-TG
* *
322417 TATTTTATTATTTATGTATATATATATATATTTTTTTTATCT-TTTTTATTTTATTCATTTTTG
1 TATTTTATTATTTATGTATATATATATATATTTTTTTTATCTATTTTTATGTTAATCATTTTTG
* *
322480 TATTTTTACTTATCTAAT-TATATATCTGATATATTTTTTT
1 TA-TTTTA-TTAT-TTATGTATATATAT-ATATATTTTTTT
322520 ATTATTATTT
Statistics
Matches: 89, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
63 9 0.10
64 17 0.19
65 19 0.21
66 23 0.26
67 20 0.22
68 1 0.01
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (64 bp):
TATTTTATTATTTATGTATATATATATATATTTTTTTTATCTATTTTTATGTTAATCATTTTTG
Found at i:323458 original size:17 final size:15
Alignment explanation
Indices: 323423--323467 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
323413 TAGGTTTTTT
*
323423 TTTTTTTTTTTTGAA
1 TTTTTTTTCTTTGAA
323438 TTTTTTTTCTTTGAA
1 TTTTTTTTCTTTGAA
323453 TGTTTTATTTCTTTG
1 T-TTTT-TTTCTTTG
323468 TTTATTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 15 0.56
16 4 0.15
17 8 0.30
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.76
Consensus pattern (15 bp):
TTTTTTTTCTTTGAA
Found at i:323650 original size:59 final size:59
Alignment explanation
Indices: 323587--324103 Score: 716
Period size: 59 Copynumber: 8.7 Consensus size: 59
323577 AAAAATTCTA
323587 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTTC
1 AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTTC
*
323646 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAA-TTGC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTTC
* * *
323703 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TCAGAAATAAA-TTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTTC
*
323760 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTCC
1 --AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTTC
323820 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAA-TTTC
1 -AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTTC
* *
323878 CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCTAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG--AAATAAATTT-T-C
323943 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTTC
** * *
324001 AAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCGAAATTTCC
1 AAAAAAA-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAT--AAATTTTC
324062 AAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCC
324104 CTCCAAAAAA
Statistics
Matches: 421, Mismatches: 17, Indels: 39
0.88 0.04 0.08
Matches are distributed among these distances:
56 1 0.00
57 100 0.24
58 55 0.13
59 147 0.35
60 50 0.12
61 14 0.03
62 8 0.02
63 2 0.00
64 1 0.00
65 43 0.10
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (59 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTTC
Found at i:323803 original size:116 final size:117
Alignment explanation
Indices: 323587--324103 Score: 748
Period size: 116 Copynumber: 4.4 Consensus size: 117
323577 AAAAATTCTA
323587 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAA
1 AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAA
*
323652 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTGCC
65 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCC
* *
323704 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TCAGAAATAAA-TTTCAAAAAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTTC--AAAA
323766 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTCC
63 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCC
*
323820 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAA-TTTCCAAAAA
1 -AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAA
*
323884 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCTAA
65 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG-AAAATAAATTTC--C
323943 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTCAAAAAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTTCAAAAAA
**
324007 AGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
65 A-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAT--AAATTTCC
324062 AAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCC
324104 CTCCAAAAAA
Statistics
Matches: 369, Mismatches: 11, Indels: 38
0.88 0.03 0.09
Matches are distributed among these distances:
114 7 0.02
115 41 0.11
116 105 0.28
118 51 0.14
119 50 0.14
120 1 0.00
121 20 0.05
122 50 0.14
123 11 0.03
124 33 0.09
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (117 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAA
TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCC
Found at i:323859 original size:27 final size:27
Alignment explanation
Indices: 323829--323917 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
323819 CAAAAAAAAT
323829 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
323856 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
323886 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
323913 ATTTT
1 ATTTT
323918 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Done.