Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009069.1 Hibiscus syriacus cultivar Beakdansim tig00112496_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 530156
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:3940 original size:26 final size:24
Alignment explanation
Indices: 3893--3941 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
3883 AATCATGTTT
*
3893 ACAGTTATAACATTTTTTTTACAA
1 ACAGTTATAACATTTTTATTACAA
*
3917 ACAGTTGTAACATATTTTGATTACA
1 ACAGTTATAACAT-TTTT-ATTACA
3942 TTTGTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (24 bp):
ACAGTTATAACATTTTTATTACAA
Found at i:4562 original size:31 final size:31
Alignment explanation
Indices: 4503--4562 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
4493 GAATGTTAAC
* * ** *
4503 GTTAGGTGGTTTGATTGATAGTATTTAAAAA
1 GTTAAGTGGTTTGATTGACAACACTTAAAAA
4534 GTTAAGTGGTTTGATTGACAACACTTAAA
1 GTTAAGTGGTTTGATTGACAACACTTAAA
4563 CAATTAACTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTAAGTGGTTTGATTGACAACACTTAAAAA
Found at i:5347 original size:11 final size:12
Alignment explanation
Indices: 5320--5345 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5310 TATTTTTTCA
5320 TTTAAATTCTTT
1 TTTAAATTCTTT
5332 TTTAAATTCTTT
1 TTTAAATTCTTT
5344 TT
1 TT
5346 AATCAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTAAATTCTTT
Found at i:14230 original size:13 final size:13
Alignment explanation
Indices: 14212--14243 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
14202 ACGATGTGTT
14212 TGCATCAGTAGCA
1 TGCATCAGTAGCA
14225 TGCATCAGTAGCA
1 TGCATCAGTAGCA
14238 TGCATC
1 TGCATC
14244 CCTTGCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (13 bp):
TGCATCAGTAGCA
Found at i:35764 original size:21 final size:20
Alignment explanation
Indices: 35740--35797 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
35730 TTCACTTTTT
*
35740 TAAAAATCAATAAAAATATAA
1 TAAAAATCAATAAAAAT-GAA
** *
35761 TAAAAAAGAATTAAAAGTGAA
1 TAAAAATCAA-TAAAAATGAA
*
35782 TAAAATTCAATAAAAA
1 TAAAAATCAATAAAAA
35798 AAATAATGTA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
20 5 0.18
21 17 0.61
22 6 0.21
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (20 bp):
TAAAAATCAATAAAAATGAA
Found at i:36379 original size:321 final size:326
Alignment explanation
Indices: 35876--36538 Score: 1061
Period size: 323 Copynumber: 2.0 Consensus size: 326
35866 ATATAAAATC
* *
35876 AAAATCAAAATAATTTTATTAAAAATAAATAAACATTATTAATTGTTGTTAAAAATAATAATTAA
1 AAAATCAAAATAATTTTATTAAAAATAAATAAACATTATCAACTGTTGTTAAAAATAATAATTAA
*
35941 TGAATAATAATTCAATTAATCACTCAATTGTAATTAAAAGTTTATTTTAATATTTTTTATATTTT
66 TGAATAATAATTCAATTAATCACTCAATTGTAATGAAAA---TA--TTAATATTTTTTATATTTT
* * * *
36006 TTAAATAATTAATTTAAAAGTCAATAATTTTTTTAAAAATATATGAAATTTATAA-TTTTTAAAT
126 TTAAACAATTAATTTAAAAGGCAATAAATTTCTTAAAAATATATGAAATTTATAATTTTTTAAAT
36070 TATAAAATA-TTATCATCATCATCATTTTGTAAAAAAAATACTAGTTATAAAACTTTTATAAAAT
191 TATAAAATATTTATCATCATCATCATTTTGTAAAAAAAATACTAGTTATAAAACTTTTATAAAAT
**
36134 TATTCATATTTTAAAATACTTACCCTCAAAGTTTTCTTATACTAGATTATATGTATTGTGTAATT
256 TATTCATATTTTAAAATACTTACCCTCAAAGTTTTC-TATACTAGATTATACATATTGTGTAATT
36199 TCATACA
320 TCATACA
*
36206 AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAACTGTTGTTAAAAAATAATAATTA
1 AAAATCAAAATAATTTTATTAAAAATAAATAAACATTATCAACTGTTGTT-AAAAATAATAATTA
* * *
36271 ATGAATAATAATTCATTTGATCCCTCAATTGTAATGAAAA-A-T-ATA-TTTTTATA-TTTTTAA
65 ATGAATAATAATTCAATTAATCACTCAATTGTAATGAAAATATTAATATTTTTTATATTTTTTAA
36331 ACAATTAATTTAAAAGGCAATAAATTTCTTAAAAATATATGAAATTTATAATTTTTTAAATTATA
130 ACAATTAATTTAAAAGGCAATAAATTTCTTAAAAATATATGAAATTTATAATTTTTTAAATTATA
* *
36396 AAATATTTATCATCATCATCATTTTGTAAAAGAAATATTAGTTATAAAACTTTTATAAAATTATT
195 AAATATTTATCATCATCATCATTTTGTAAAAAAAATACTAGTTATAAAACTTTTATAAAATTATT
*
36461 CATATTTTAAAATACTTACCCTCAAAGTTTTCTATACTAGATTATACATATTGTGTAATTTCATG
260 CATATTTTAAAATACTTACCCTCAAAGTTTTCTATACTAGATTATACATATTGTGTAATTTCATA
*
36526 TA
325 CA
36528 AAAATCAAAAT
1 AAAATCAAAAT
36539 TTATCGAGTT
Statistics
Matches: 313, Mismatches: 17, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
321 54 0.17
322 68 0.22
323 92 0.29
324 1 0.00
327 1 0.00
330 47 0.15
331 50 0.16
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (326 bp):
AAAATCAAAATAATTTTATTAAAAATAAATAAACATTATCAACTGTTGTTAAAAATAATAATTAA
TGAATAATAATTCAATTAATCACTCAATTGTAATGAAAATATTAATATTTTTTATATTTTTTAAA
CAATTAATTTAAAAGGCAATAAATTTCTTAAAAATATATGAAATTTATAATTTTTTAAATTATAA
AATATTTATCATCATCATCATTTTGTAAAAAAAATACTAGTTATAAAACTTTTATAAAATTATTC
ATATTTTAAAATACTTACCCTCAAAGTTTTCTATACTAGATTATACATATTGTGTAATTTCATAC
A
Found at i:39104 original size:20 final size:20
Alignment explanation
Indices: 39076--39129 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
39066 AATTGGGAAA
*
39076 ATCATAATGCGATACTGACT
1 ATCACAATGCGATACTGACT
*
39096 ATCACAATGCGATACTTACT
1 ATCACAATGCGATACTGACT
*
39116 ATCGCAATGCGATA
1 ATCACAATGCGATA
39130 ATACAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (20 bp):
ATCACAATGCGATACTGACT
Found at i:39210 original size:20 final size:20
Alignment explanation
Indices: 39138--39205 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
39128 TAATACAAAA
39138 TCGCAACGAGATACTGACTT
1 TCGCAACGAGATACTGACTT
39158 TCGCAACGAGATACTGACTT
1 TCGCAACGAGATACTGACTT
* *
39178 TCGCAACGCGATTCTGACTT
1 TCGCAACGAGATACTGACTT
39198 TCGCAACG
1 TCGCAACG
39206 CGATTTACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAACGAGATACTGACTT
Found at i:39780 original size:19 final size:19
Alignment explanation
Indices: 39756--39800 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
39746 GCAACGAGAG
*
39756 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
39775 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
39794 AATCGCA
1 AATCGCA
39801 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:39818 original size:19 final size:19
Alignment explanation
Indices: 39796--39941 Score: 105
Period size: 19 Copynumber: 8.1 Consensus size: 19
39786 GAAACCAAAA
*
39796 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
39815 TCGCGTTACGATTTTCATT
1 TCGCGTTGCGATTTTCATT
39834 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
39848 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
39867 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
39881 TCTCGTTGCGATAATCATT
1 TCGCGTTGCGATTTTCATT
*
39900 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
39920 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
39940 TC
1 TC
39942 AACAAAAAGA
Statistics
Matches: 99, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
14 19 0.19
16 4 0.04
17 5 0.05
19 39 0.39
20 31 0.31
21 1 0.01
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:39871 original size:33 final size:33
Alignment explanation
Indices: 39829--39916 Score: 149
Period size: 33 Copynumber: 2.6 Consensus size: 33
39819 GTTACGATTT
*
39829 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAA
*
39862 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAA
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAA
39895 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
39917 ATTATCTCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
33 37 0.71
34 15 0.29
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAA
Found at i:42140 original size:21 final size:21
Alignment explanation
Indices: 42083--42141 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
42073 CGAGAGTCCC
42083 CTCCCACCGTTCAAGAGGCCA
1 CTCCCACCGTTCAAGAGGCCA
** * * *
42104 CTATCATCGTTGAAGAGGTCA
1 CTCCCACCGTTCAAGAGGCCA
*
42125 CTCCCACCATTCAAGAG
1 CTCCCACCGTTCAAGAG
42142 CCCGATTCAC
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.20
Consensus pattern (21 bp):
CTCCCACCGTTCAAGAGGCCA
Found at i:43512 original size:14 final size:14
Alignment explanation
Indices: 43493--43528 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
43483 ATTGTTTAAT
43493 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
43507 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
43521 TGATTTGT
1 TGATTTGT
43529 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:43727 original size:33 final size:32
Alignment explanation
Indices: 43677--43803 Score: 132
Period size: 33 Copynumber: 3.9 Consensus size: 32
43667 ATTAAATTCG
*
43677 CGTTGCGTTTTTCATTTCGCATTACGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTACGATT-CCT
* * *
43710 CGTTGCGATTTTTATTTCGCATTGCGAAATT-CG
1 CGTTGCGATTTTCATTTCGCATTACG--ATTCCT
43743 CGTTGCGATTTTCATTTCGCATTGA-GATTCTCT
1 CGTTGCGATTTTCATTTCGCATT-ACGATTC-CT
** *
43776 TATTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTACGAT
43804 AGTAATTTCC
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
31 3 0.04
33 72 0.92
35 3 0.04
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTACGATTCCT
Found at i:43736 original size:19 final size:19
Alignment explanation
Indices: 43712--43823 Score: 73
Period size: 19 Copynumber: 6.4 Consensus size: 19
43702 GATTCCCTCG
*
43712 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
43731 TTGCGA-----AATTCGCG
1 TTGCGATTTTCATTTCGCA
43745 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
43764 TTGAGATTCTC--TT---A
1 TTGCGATTTTCATTTCGCA
43778 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
** *
43797 TTGCGATAGTAATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
43817 TTGCGAT
1 TTGCGAT
43824 AGACATTAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
14 22 0.31
16 2 0.03
17 2 0.03
19 34 0.48
20 11 0.15
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:43772 original size:66 final size:66
Alignment explanation
Indices: 43670--43802 Score: 205
Period size: 66 Copynumber: 2.0 Consensus size: 66
43660 ACGCGAAATT
* * *
43670 AAATTCGCGTTGCGTTTTTCATTTCGCATTACGATTCCCTCGTTGCGATTTTTATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTACGATTCCCTCATTGCGATTTTCATTTCGCATTGC
43735 G
66 G
* *
43736 AAATTCGCGTTGCGATTTTCATTTCGCATTGA-GATTCTCTTATTGCGATTTTCATTTCGCATTG
1 AAATTCGCGTTGCGATTTTCATTTCGCATT-ACGATTCCCTCATTGCGATTTTCATTTCGCATTG
43800 CG
65 CG
43802 A
1 A
43803 TAGTAATTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 60 0.98
67 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTACGATTCCCTCATTGCGATTTTCATTTCGCATTGC
G
Found at i:46097 original size:12 final size:12
Alignment explanation
Indices: 46080--46104 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46070 TCTTTGGGGA
46080 CTTTTTCTTCTT
1 CTTTTTCTTCTT
46092 CTTTTTCTTCTT
1 CTTTTTCTTCTT
46104 C
1 C
46105 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:46306 original size:24 final size:24
Alignment explanation
Indices: 46279--46332 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
46269 TTGAAACATC
*
46279 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
46303 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
46327 ATCAAA
1 ATCAAA
46333 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:47164 original size:20 final size:20
Alignment explanation
Indices: 47073--47167 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
47063 GATTATGTAT
* *
47073 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
47093 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
47113 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
47134 TATCGTGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
47154 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
47168 TTTACCAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.70
21 13 0.21
22 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:47185 original size:41 final size:41
Alignment explanation
Indices: 47094--47188 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
47084 GAAAGTCAGA
* * ** *
47094 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
*
47135 ATCGTGTTGCGATAGTCAGTATCGCATTGCGATTTTACCAAT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT-CCAAT
47177 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
47189 TTACTTATTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:47198 original size:20 final size:21
Alignment explanation
Indices: 47156--47207 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
47146 ATAGTCAGTA
47156 TCGCATTGCGATTTTACCAAT
1 TCGCATTGCGATTTTACCAAT
* **
47177 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
47197 TCGCATTGCGA
1 TCGCATTGCGA
47208 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACCAAT
Found at i:49120 original size:37 final size:37
Alignment explanation
Indices: 49079--49149 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
49069 AACATAACAT
49079 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
* * *
49116 TAGAGTTTTACTATGATTCAAATTTCTAAAAATA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATA
49150 GGATCATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
Found at i:49825 original size:25 final size:24
Alignment explanation
Indices: 49780--49826 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
49770 ATGTATTTTA
49780 TTTATTATTCTTATACCCTTTATT
1 TTTATTATTCTTATACCCTTTATT
*
49804 TTTATTTATT-TTATTACTCTTTA
1 TTTA-TTATTCTTA-TACCCTTTA
49827 CTTACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATTATTCTTATACCCTTTATT
Found at i:49844 original size:3 final size:3
Alignment explanation
Indices: 49832--49864 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
49822 CTTTACTTAC
*
49832 TAT T-T TAT TAT TAT TAG TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
49865 CTATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:50052 original size:16 final size:17
Alignment explanation
Indices: 50013--50061 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
50003 TTATATATTA
*
50013 TTATCATTATTATTTTT
1 TTATCATTATTATTTTC
*
50030 TTTTCATT-TTATTTTC
1 TTATCATTATTATTTTC
50046 TTATCA-TATTCATTTT
1 TTATCATTATT-ATTTT
50062 TATCTTCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 14 0.52
17 12 0.44
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATCATTATTATTTTC
Found at i:50105 original size:1 final size:1
Alignment explanation
Indices: 50099--50134 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
50089 ATTTCGGTCG
* *
50099 TTTTTTTTTTTTTTTTTTTTTTTATTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
50135 ATCTAACACG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.06, C:0.00, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:52934 original size:34 final size:34
Alignment explanation
Indices: 52886--52955 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
52876 AAAGAAAATA
*
52886 AAAAACAAATGAAAAAGCAAAGAGAAAAAGAA-AC
1 AAAAACAAAGGAAAAAGCAAAGA-AAAAAGAAGAC
* **
52920 AAAAACCAAGGAAAAAGTGAAGAAAAAAGAAGAC
1 AAAAACAAAGGAAAAAGCAAAGAAAAAAGAAGAC
52954 AA
1 AA
52956 GACACATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 8 0.26
34 23 0.74
ACGTcount: A:0.71, C:0.09, G:0.17, T:0.03
Consensus pattern (34 bp):
AAAAACAAAGGAAAAAGCAAAGAAAAAAGAAGAC
Found at i:54918 original size:110 final size:110
Alignment explanation
Indices: 54398--54908 Score: 860
Period size: 110 Copynumber: 4.6 Consensus size: 110
54388 GAAAAGCTGG
* *
54398 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGATATTAG
1 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
54463 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
66 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
* *
54508 CTGTCAACAAATAACTTTTCAGTTTCATTTAGAGTTAATTTCAACTTCACAGCGAAGGATATTGG
1 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
54573 ACTCAAGACAACACAAGCTCAAGTTCACAGCGAAGGGGCAACTGA
66 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
* * *
54618 CTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAATGATATTGG
1 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
*
54683 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGACGACTGA
66 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
* * * *
54728 CTGTCAACAAACAATTTTTCAATTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGG
1 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
*
54793 ACTCGAGACACCACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
66 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
* *
54838 CTGTTAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGA
1 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
54903 ACTCGA
66 ACTCGA
54909 AGCGACACAA
Statistics
Matches: 374, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 374 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (110 bp):
CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
Found at i:56047 original size:37 final size:37
Alignment explanation
Indices: 56006--56113 Score: 207
Period size: 37 Copynumber: 2.9 Consensus size: 37
55996 AACATAACAT
*
56006 TAGAGTTTTACTATGATTCAAACTCTTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
56043 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
56080 TAGAGTTTTACTATGATTCAAACTCCTAAAAATA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATA
56114 GGATCCATAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (37 bp):
TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
Found at i:56666 original size:2 final size:2
Alignment explanation
Indices: 56659--56696 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
56649 TACGCATTAT
56659 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56697 CATTTTTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56744 original size:3 final size:3
Alignment explanation
Indices: 56736--56831 Score: 60
Period size: 3 Copynumber: 31.7 Consensus size: 3
56726 AATATTATAT
* *
56736 TTA TTA TTA CATA TATA TATA TTA TTTA TTA TTC TTA -TA TTA TT- TT-
1 TTA TTA TTA -TTA T-TA T-TA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
56782 TTA TT- TT- TTA TTA CTCT- TTA CTTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -T-TA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
56827 TTA TT
1 TTA TT
56832 TATTTCTATT
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
2 11 0.14
3 49 0.64
4 16 0.21
5 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:56774 original size:22 final size:24
Alignment explanation
Indices: 56727--56835 Score: 77
Period size: 25 Copynumber: 4.6 Consensus size: 24
56717 TTTGTTGCAA
56727 ATATTA-TATTTATTATTACATAT
1 ATATTATTATTTATTATTACATAT
*
56750 ATATATATTATTTATTATT-CTTAT
1 ATAT-TATTATTTATTATTACATAT
* * *
56774 ATTATTTTTTATTTTTTATTAC-TCT
1 A-TA-TTATTATTTATTATTACATAT
* * *
56799 TTACTTACTA-TTATTATTA-TTAT
1 ATA-TTATTATTTATTATTACATAT
56822 -TATTATTATTTATT
1 ATATTATTATTTATT
56836 TCTATTTACC
Statistics
Matches: 68, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
21 5 0.07
22 7 0.10
23 14 0.21
24 13 0.19
25 27 0.40
26 2 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (24 bp):
ATATTATTATTTATTATTACATAT
Found at i:56778 original size:11 final size:11
Alignment explanation
Indices: 56728--56835 Score: 56
Period size: 12 Copynumber: 10.1 Consensus size: 11
56718 TTGTTGCAAA
56728 TATTATATTTAT
1 TATTATA-TTAT
*
56740 TATTACA-TA-
1 TATTATATTAT
56749 TA-TATA-TAT
1 TATTATATTAT
56758 TATT-TATTAT
1 TATTATATTAT
*
56768 TCTTATATTAT
1 TATTATATTAT
*
56779 T-TTTTATT-T
1 TATTATATTAT
56788 T-TTATTACTCT-T
1 TATTA-TA-T-TAT
56800 TACTTACTATTAT
1 TA-TTA-TATTAT
56813 TATTATTATTAT
1 TATTA-TATTAT
56825 TATTAT-TTAT
1 TATTATATTAT
56835 T
1 T
56836 TCTATTTACC
Statistics
Matches: 79, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
8 5 0.06
9 10 0.13
10 22 0.28
11 9 0.11
12 24 0.30
13 4 0.05
14 5 0.06
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATATTAT
Found at i:56900 original size:25 final size:25
Alignment explanation
Indices: 56848--56902 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
56838 TATTTACCCT
*
56848 TTTTTATTTTTTCCCTTCTATTTCA
1 TTTTTATTTTTTCCCTTATATTTCA
* *
56873 TTTTTATTTTTATTCCTTATCTTT-A
1 TTTTTATTTTT-TCCCTTATATTTCA
56898 TTTTT
1 TTTTT
56903 TATATTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTTATTTTTTCCCTTATATTTCA
Found at i:56902 original size:26 final size:26
Alignment explanation
Indices: 56847--56905 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
56837 CTATTTACCC
*
56847 TTTTTTATTTTTTCCCTTCTATTTCA
1 TTTTTTATTTTTTCCCTTATATTTCA
* *
56873 -TTTTTATTTTTATTCCTTATCTTT-A
1 TTTTTTATTTTT-TCCCTTATATTTCA
56898 TTTTTTAT
1 TTTTTTAT
56906 ATTCTTTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTTTATTTTTTCCCTTATATTTCA
Found at i:62172 original size:32 final size:33
Alignment explanation
Indices: 62125--62215 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
62115 CTAAAAAAAA
* *** *
62125 TTAAAGTTACGTTATATCGGTATCT-GATAATT
1 TTAAAGTTACTTTATATCAAAATCTAGATAACT
* *
62157 TTAAAGGTACTTTATATCAAAATCTATATAACT
1 TTAAAGTTACTTTATATCAAAATCTAGATAACT
*
62190 TTAAAGTTACTTTATATCAATATCTA
1 TTAAAGTTACTTTATATCAAAATCTA
62216 TGTAATTTCT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 20 0.41
33 29 0.59
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (33 bp):
TTAAAGTTACTTTATATCAAAATCTAGATAACT
Found at i:62195 original size:33 final size:33
Alignment explanation
Indices: 62151--62216 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
62141 TCGGTATCTG
*
62151 ATAATTTTAAAGGTACTTTATATCAAAATCTAT
1 ATAACTTTAAAGGTACTTTATATCAAAATCTAT
* *
62184 ATAACTTTAAAGTTACTTTATATCAATATCTAT
1 ATAACTTTAAAGGTACTTTATATCAAAATCTAT
62217 GTAATTTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (33 bp):
ATAACTTTAAAGGTACTTTATATCAAAATCTAT
Found at i:72105 original size:10 final size:10
Alignment explanation
Indices: 72092--72128 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
72082 ATATAATTAT
72092 ATATAAAAAA
1 ATATAAAAAA
72102 ATATAAAAAA
1 ATATAAAAAA
72112 ATATAAAAAA
1 ATATAAAAAA
72122 ATA-AAAA
1 ATATAAAA
72129 CTAACCGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.15
10 23 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
ATATAAAAAA
Found at i:76490 original size:23 final size:23
Alignment explanation
Indices: 76464--76532 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
76454 CACCACAACT
* *
76464 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
76487 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
76510 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
76533 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:76719 original size:103 final size:103
Alignment explanation
Indices: 76551--76752 Score: 359
Period size: 103 Copynumber: 2.0 Consensus size: 103
76541 TGTCCATAAG
* * *
76551 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACTAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
76616 TTCACACATGTTCCAAAGAATACACATATGTCCCAAAT
66 TTCACACATGTTCCAAAGAATACACATATGTCCCAAAT
*
76654 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
*
76719 TTCACACATGTTCCAAAGAATACATATATGTCCC
66 TTCACACATGTTCCAAAGAATACACATATGTCCC
76753 GAAGGACCGC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 94 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACACATATGTCCCAAAT
Found at i:78150 original size:21 final size:21
Alignment explanation
Indices: 78108--78168 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
78098 TTCGCTTGAG
*
78108 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
*
78130 GGGTACTGATTCCCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
78151 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
78169 CCCAGAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 23 0.64
22 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.31
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:79090 original size:16 final size:16
Alignment explanation
Indices: 79051--79093 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
79041 AACATCCGTT
*
79051 CTTATCACTCAAAATC
1 CTTATCAATCAAAATC
* *
79067 ATTAATCAATCAAATTC
1 CTT-ATCAATCAAAATC
79084 CTTATCAATC
1 CTTATCAATC
79094 TTTAATTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATC
Found at i:81823 original size:23 final size:23
Alignment explanation
Indices: 81797--81865 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
81787 CACCACAGCT
* *
81797 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
81820 CGTAGAATTGCACCGGAGTGTCG
1 CGTAGAATTGCACCGAAGTGCCA
*
81843 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
81866 TATAATAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:87866 original size:21 final size:21
Alignment explanation
Indices: 87824--87883 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
87814 TTCACTTGAG
*
87824 GGGTATCGATTCCTCATTGAAT
1 GGGTATCGATTCC-CCTTGAAT
87846 GGGTATCGATTCCCCTTGAAT
1 GGGTATCGATTCCCCTTGAAT
*
87867 GGGTACCGATTCCCCTT
1 GGGTATCGATTCCCCTT
87884 ACCCAGAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 23 0.64
22 13 0.36
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (21 bp):
GGGTATCGATTCCCCTTGAAT
Found at i:89371 original size:22 final size:23
Alignment explanation
Indices: 89339--89381 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
89329 CGCAAACCTC
* *
89339 AATTTGTTATTTTAATTAAAATT
1 AATTTGTTATTTAAAATAAAATT
89362 AATTT-TTATTTAAAATAAAA
1 AATTTGTTATTTAAAATAAAA
89382 AAACATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTTGTTATTTAAAATAAAATT
Found at i:92885 original size:6 final size:6
Alignment explanation
Indices: 92871--92904 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
92861 AATGACACCT
*
92871 TTTGTA TTTGCA TTTGGCA TTTGCA TTTGCA TTT
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTT
92905 CATGTATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.56
Consensus pattern (6 bp):
TTTGCA
Found at i:92894 original size:13 final size:12
Alignment explanation
Indices: 92871--92904 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
92861 AATGACACCT
*
92871 TTTGTATTTGCA
1 TTTGCATTTGCA
92883 TTTGGCATTTGCA
1 TTT-GCATTTGCA
92896 TTTGCATTT
1 TTTGCATTT
92905 CATGTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.56
Consensus pattern (12 bp):
TTTGCATTTGCA
Found at i:97076 original size:42 final size:42
Alignment explanation
Indices: 96984--97063 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
96974 CCTTAGTGTC
* * *
96984 ATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCC
1 ATCAGTAAGTCTTTCGAGCATGATGATGAAATCATTCGGGCA
* *
97026 ATCAGTAAGTCTTTTGAGCATGATGATTAAATCATTCG
1 ATCAGTAAGTCTTTCGAGCATGATGATGAAATCATTCG
97064 TGTAATTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
ATCAGTAAGTCTTTCGAGCATGATGATGAAATCATTCGGGCA
Found at i:97405 original size:42 final size:42
Alignment explanation
Indices: 97313--97516 Score: 126
Period size: 42 Copynumber: 4.6 Consensus size: 42
97303 CCTTCGGGCC
* * *
97313 ATCAGTAAGTCTTTCGAGCATGATGATGAAATTCTTCGTGTC
1 ATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTAGTGTA
*
97355 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAAG-GTA
1 ATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTT-AGTGTA
** * * * * **
97397 ATTTGTAAGCCTTCACGGAAG-A-GTAGTGAAGCAAACCCATCAGTAAGTGCC
1 ATCAGTAAGTCTT-TC-G-AGCATG-A-TGATG-AAATCC-T---T-AGTGTA
* * *
97448 ATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTC
1 ATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTAGTGTA
* *
97490 ATCTGTAAGTCTTTCGAGCAAGATGAT
1 ATCAGTAAGTCTTTCGAGCATGATGAT
97517 AAGTCCTCCG
Statistics
Matches: 124, Mismatches: 24, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
42 74 0.60
43 4 0.03
44 3 0.02
45 5 0.04
46 6 0.05
47 6 0.05
48 6 0.05
49 3 0.02
50 6 0.05
51 11 0.09
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (42 bp):
ATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTAGTGTA
Found at i:97451 original size:13 final size:13
Alignment explanation
Indices: 97433--97457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97423 TGAAGCAAAC
97433 CCATCAGTAAGTG
1 CCATCAGTAAGTG
97446 CCATCAGTAAGT
1 CCATCAGTAAGT
97458 CTTTCGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:98000 original size:53 final size:53
Alignment explanation
Indices: 97915--98217 Score: 383
Period size: 53 Copynumber: 5.7 Consensus size: 53
97905 TCACACCAGT
* *
97915 AGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGCAGA
1 AGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAGA
* * * *
97968 AGATTGTTCGAGTTCTACTCCCTGAAGTAAGAGGGAGAGAACCCGTAGGTAGA
1 AGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAGA
* * *
98021 AGATTGTTCGAGTTCTACTCCCTGAAGCAAAAAGGAGTGAACCCGTAAGCAGA
1 AGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAGA
* * * *
98074 AGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGTGAACTCGTAAACATA
1 AGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAGA
* * * **** *
98127 AGATTTTTCGAGTTCTACTCCCTGAAGCAACAGGGAGCGAACCTGTTTTTAAA
1 AGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAGA
*
98180 AGATTGTTCGAGTTCTTTAATCCCTGAA-CAAGAGGGAG
1 AGATTGTTCGAGTTC--TACTCCCTGAAGCAAGAGGGAG
98218 TGGATACGTC
Statistics
Matches: 220, Mismatches: 28, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
53 201 0.91
54 9 0.04
55 10 0.05
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (53 bp):
AGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAGA
Found at i:98938 original size:45 final size:45
Alignment explanation
Indices: 98878--98969 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
98868 TCAAAAAGGG
98878 TTACTTATTTCTATGTTTCCATTCTCAATTGTTTTTGTAATTTAC
1 TTACTTATTTCTATGTTTCCATTCTCAATTGTTTTTGTAATTTAC
*
98923 TTACTTATTTCTATGTTTCCATTTTCAATTGTTTTTGTAATTTAC
1 TTACTTATTTCTATGTTTCCATTCTCAATTGTTTTTGTAATTTAC
98968 TT
1 TT
98970 GTACATGTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.60
Consensus pattern (45 bp):
TTACTTATTTCTATGTTTCCATTCTCAATTGTTTTTGTAATTTAC
Found at i:100617 original size:27 final size:27
Alignment explanation
Indices: 100581--100639 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
100571 TGTGGTTTTC
100581 AAAATCTCACTTTTTTCATTTTAAGAA
1 AAAATCTCACTTTTTTCATTTTAAGAA
100608 AAAATCTCACTTTTTTCATTTTAAGAA
1 AAAATCTCACTTTTTTCATTTTAAGAA
100635 AAAAT
1 AAAAT
100640 TGTTTCGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.42
Consensus pattern (27 bp):
AAAATCTCACTTTTTTCATTTTAAGAA
Found at i:105410 original size:84 final size:85
Alignment explanation
Indices: 105220--105415 Score: 215
Period size: 84 Copynumber: 2.3 Consensus size: 85
105210 TAATCCATCA
* *
105220 TTACATATTTCATGTGA-TACATAAAAT-GATATTATCATAACTTACTTTGAATAATGAATCTTT
1 TTACATATTTCATGT-ACTACATAAAATCGATATTATAATAACTTACTTTGAATAATGAATCTTG
*
105283 TCTTATATGAATCATCTGACG
65 TCTTAAATGAATCATCTGACG
* * * * *
105304 TTATATATTTTATGCAAC-ACATAAAATCG-TATTATAATAATTTACTTTGAATAGTGAAT-TAT
1 TTACATATTTCATG-TACTACATAAAATCGATATTATAATAACTTACTTTGAATAATGAATCT-T
*
105366 GTCTTAAATGGATCATCT-ACCG
64 GTCTTAAATGAATCATCTGA-CG
* *
105388 TTACAAATTTCATGTACTACATACAATC
1 TTACATATTTCATGTACTACATAAAATC
105416 ATGCTATAAT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
83 4 0.04
84 87 0.95
85 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (85 bp):
TTACATATTTCATGTACTACATAAAATCGATATTATAATAACTTACTTTGAATAATGAATCTTGT
CTTAAATGAATCATCTGACG
Found at i:108529 original size:21 final size:21
Alignment explanation
Indices: 108505--108547 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
108495 ATAACTTAAA
*
108505 TCAAACGAATGCATAAAAAAT
1 TCAAACCAATGCATAAAAAAT
*
108526 TCAAGCCAATGCATAAAAAAT
1 TCAAACCAATGCATAAAAAAT
108547 T
1 T
108548 GAAATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.21
Consensus pattern (21 bp):
TCAAACCAATGCATAAAAAAT
Found at i:108937 original size:21 final size:20
Alignment explanation
Indices: 108851--109008 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
108841 AAATGACCAA
**
108851 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
108870 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
108890 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
108910 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
108931 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
108952 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
108972 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
108993 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
109009 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:109037 original size:20 final size:20
Alignment explanation
Indices: 108976--109204 Score: 203
Period size: 20 Copynumber: 11.4 Consensus size: 20
108966 GATTTTCCAG
* ** *
108976 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
108996 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
109016 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
109036 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
109056 AATAGCAACGCGTATCTGTA
1 AATCGCAACGCGTATCCGTA
*
109076 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
109096 TATCGCAACGCGTATTCGTA
1 AATCGCAACGCGTATCCGTA
* *
109116 AATTGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
109136 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
109156 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
109176 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
109196 AATCACAAC
1 AATCGCAAC
109205 ACTGAAATTT
Statistics
Matches: 169, Mismatches: 34, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
19 2 0.01
20 165 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:109751 original size:20 final size:20
Alignment explanation
Indices: 109723--109905 Score: 217
Period size: 20 Copynumber: 9.2 Consensus size: 20
109713 AGTAGTACGA
* *
109723 AACGCGTATTCGTAAACCGC
1 AACGCGTATCCGTAAATCGC
*
109743 AACGTGTATCCGTAAATCGC
1 AACGCGTATCCGTAAATCGC
109763 AACGCGTATCCGTAAATCGC
1 AACGCGTATCCGTAAATCGC
*
109783 AATGCGTATCCGTAAATCGC
1 AACGCGTATCCGTAAATCGC
*
109803 AACGCGTATCCATAAATCGC
1 AACGCGTATCCGTAAATCGC
*
109823 AACG-ATAATCCGTAAATCGC
1 AACGCGT-ATCCGTAAATCGC
* * *
109843 AACGAGAATCTGTAAATCGC
1 AACGCGTATCCGTAAATCGC
*
109863 AACG-ATAATCCGTAAATCGC
1 AACGCGT-ATCCGTAAATCGC
* * *
109883 AACGAGAATCTGTAAATCGC
1 AACGCGTATCCGTAAATCGC
109903 AAC
1 AAC
109906 ACTGAAATTT
Statistics
Matches: 141, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 140 0.99
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (20 bp):
AACGCGTATCCGTAAATCGC
Found at i:110365 original size:701 final size:701
Alignment explanation
Indices: 109022--110420 Score: 2717
Period size: 701 Copynumber: 2.0 Consensus size: 701
109012 CATAAATCGC
*
109022 AACGCGTATCCGTAAACCGCAACGTGTATCCGTAAATAGCAACGCGTATCTGTAAATCGCAATGC
1 AACGCGTATCCGTAAACCGCAACGTGTATCCGTAAATAGCAACGCGTATCCGTAAATCGCAATGC
* * * *
109087 GTATCCGTATATCGCAACGCGTATTCGTAAATTGCAACGATAATCCGTAAATCGCAACGAGAATC
66 GTATCCGTAAATCGCAACGCGTATCCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATC
109152 TGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAACACTGAAATTTTG
131 TGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAACACTGAAATTTTG
109217 GGTATATAACTACGCAACAGCAGCAAATCATAAACTAAATCCCTAAATCGCAACTCATTCCATCT
196 GGTATATAACTACGCAACAGCAGCAAATCATAAACTAAATCCCTAAATCGCAACTCATTCCATCT
109282 CCATCTATCACTCTCTCCGGCGACATCCGTTCCTATATCCAACGACATCCTTCCCAATCCGGCAA
261 CCATCTATCACTCTCTCCGGCGACATCCGTTCCTATATCCAACGACATCCTTCCCAATCCGGCAA
109347 CAGGTTTTAGTTTCGCAGCTCGTCTGTTTAGTAAATTAATTTACAACCATGAAATCATCTAATGT
326 CAGGTTTTAGTTTCGCAGCTCGTCTGTTTAGTAAATTAATTTACAACCATGAAATCATCTAATGT
109412 TGATCATGTTTGGATAGATTTGTGTTTTGGAGGGTCATGGGAGAATGTTCATGGTGTTTTACAAT
391 TGATCATGTTTGGATAGATTTGTGTTTTGGAGGGTCATGGGAGAATGTTCATGGTGTTTTACAAT
109477 ATATGCCTTTACCCATGAATCTTCAACTAAAATTGTCTTTACAAAAGTTAACTTATGAAACTCTA
456 ATATGCCTTTACCCATGAATCTTCAACTAAAATTGTCTTTACAAAAGTTAACTTATGAAACTCTA
109542 ATGCTACGTGTTTCAAAGAAATTGAATTTAGAGCCCCTAAGTGGATTTAGGCTATCTTATCAGAG
521 ATGCTACGTGTTTCAAAGAAATTGAATTTAGAGCCCCTAAGTGGATTTAGGCTATCTTATCAGAG
109607 AAATGGTAAAGTTTATTTGTTAACCGACAATGAAGATGTTGAACGATTCATTGCTTACATTAGTG
586 AAATGGTAAAGTTTATTTGTTAACCGACAATGAAGATGTTGAACGATTCATTGCTTACATTAGTG
109672 TTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGTACGA
651 TTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGTACGA
* *
109723 AACGCGTATTCGTAAACCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAATGC
1 AACGCGTATCCGTAAACCGCAACGTGTATCCGTAAATAGCAACGCGTATCCGTAAATCGCAATGC
109788 GTATCCGTAAATCGCAACGCGTATCCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATC
66 GTATCCGTAAATCGCAACGCGTATCCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATC
*
109853 TGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACACTGAAATTTTG
131 TGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAACACTGAAATTTTG
109918 GGTATATAACTACGCAACAGCAGCAAATCATAAACTAAATCCCTAAATCGCAACTCATTCCATCT
196 GGTATATAACTACGCAACAGCAGCAAATCATAAACTAAATCCCTAAATCGCAACTCATTCCATCT
109983 CCATCTATCACTCTCTCCGGCGACATCCGTTCCTATATCCAACGACATCCTTCCCAATCCGGCAA
261 CCATCTATCACTCTCTCCGGCGACATCCGTTCCTATATCCAACGACATCCTTCCCAATCCGGCAA
110048 CAGGTTTTAGTTTCGCAGCTCGTCTGTTTAGTAAATTAATTTACAACCATGAAATCATCTAATGT
326 CAGGTTTTAGTTTCGCAGCTCGTCTGTTTAGTAAATTAATTTACAACCATGAAATCATCTAATGT
*
110113 TGATCATGTTTGGATAGATTTGTGTTTTGGAGGGTCATGGGATAATGTTCATGGTGTTTTACAAT
391 TGATCATGTTTGGATAGATTTGTGTTTTGGAGGGTCATGGGAGAATGTTCATGGTGTTTTACAAT
110178 ATATGCCTTTACCCATGAATCTTCAACTAAAATTGTCTTTACAAAAGTTAACTTATGAAACTCTA
456 ATATGCCTTTACCCATGAATCTTCAACTAAAATTGTCTTTACAAAAGTTAACTTATGAAACTCTA
110243 ATGCTACGTGTTTCAAAGAAATTGAATTTAGAGCCCCTAAGTGGATTTAGGCTATCTTATCAGAG
521 ATGCTACGTGTTTCAAAGAAATTGAATTTAGAGCCCCTAAGTGGATTTAGGCTATCTTATCAGAG
110308 AAATGGTAAAGTTTATTTGTTAACCGACAATGAAGATGTTGAACGATTCATTGCTTACATTAGTG
586 AAATGGTAAAGTTTATTTGTTAACCGACAATGAAGATGTTGAACGATTCATTGCTTACATTAGTG
110373 TTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGTA
651 TTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGTA
110421 TTGTTGGGTC
Statistics
Matches: 689, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
701 689 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (701 bp):
AACGCGTATCCGTAAACCGCAACGTGTATCCGTAAATAGCAACGCGTATCCGTAAATCGCAATGC
GTATCCGTAAATCGCAACGCGTATCCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATC
TGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAACACTGAAATTTTG
GGTATATAACTACGCAACAGCAGCAAATCATAAACTAAATCCCTAAATCGCAACTCATTCCATCT
CCATCTATCACTCTCTCCGGCGACATCCGTTCCTATATCCAACGACATCCTTCCCAATCCGGCAA
CAGGTTTTAGTTTCGCAGCTCGTCTGTTTAGTAAATTAATTTACAACCATGAAATCATCTAATGT
TGATCATGTTTGGATAGATTTGTGTTTTGGAGGGTCATGGGAGAATGTTCATGGTGTTTTACAAT
ATATGCCTTTACCCATGAATCTTCAACTAAAATTGTCTTTACAAAAGTTAACTTATGAAACTCTA
ATGCTACGTGTTTCAAAGAAATTGAATTTAGAGCCCCTAAGTGGATTTAGGCTATCTTATCAGAG
AAATGGTAAAGTTTATTTGTTAACCGACAATGAAGATGTTGAACGATTCATTGCTTACATTAGTG
TTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGTACGA
Found at i:110637 original size:24 final size:24
Alignment explanation
Indices: 110598--110644 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
110588 AAATTTGGTC
110598 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
110622 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
110645 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:110836 original size:12 final size:12
Alignment explanation
Indices: 110819--110843 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110809 ATATAATCCT
110819 GAAGAAGAAAAA
1 GAAGAAGAAAAA
110831 GAAGAAGAAAAA
1 GAAGAAGAAAAA
110843 G
1 G
110844 TCCCGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:113234 original size:72 final size:72
Alignment explanation
Indices: 113141--113350 Score: 293
Period size: 72 Copynumber: 2.9 Consensus size: 72
113131 GCAACGAGAG
*
113141 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
113206 AAATGAA
66 AAATGAA
*
113213 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
113277 GAAATGAA
65 GAAATGAA
* * * * *
113285 AATCGCAACGAGAGAATCG-CAATGCGGAA-ATGAAAATCGCAATGC-GAAATGAAAATCGCATT
1 AATCGCAATGCGA-AAT-GAAAAT-CGCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAAT
113347 GCGA
63 GCGA
113351 TTCTCTCGTT
Statistics
Matches: 125, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
72 100 0.80
73 20 0.16
74 5 0.04
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCGCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:113262 original size:53 final size:52
Alignment explanation
Indices: 113127--113344 Score: 311
Period size: 53 Copynumber: 4.1 Consensus size: 52
113117 CGGAAATTAC
*
113127 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
113174 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
113232 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
113285 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
113338 AATCGCA
1 AATCGCA
113345 TTGCGATTCT
Statistics
Matches: 156, Mismatches: 3, Indels: 18
0.88 0.02 0.10
Matches are distributed among these distances:
47 8 0.05
49 1 0.01
50 1 0.01
52 14 0.09
53 116 0.74
55 2 0.01
56 1 0.01
58 13 0.08
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:113384 original size:53 final size:52
Alignment explanation
Indices: 113321--113436 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
113311 GAAATGAAAA
*
113321 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
113373 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
113426 TCGCATTGCGA
1 TCGCATTGCGA
113437 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:113451 original size:53 final size:53
Alignment explanation
Indices: 113340--113457 Score: 220
Period size: 53 Copynumber: 2.2 Consensus size: 53
113330 GAAATGAAAA
113340 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
113393 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
113445 TCCGCATTGCGAT
1 T-CGCATTGCGAT
113458 AGTCATTTTG
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 19 0.30
53 45 0.70
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:113465 original size:20 final size:19
Alignment explanation
Indices: 113359--113457 Score: 136
Period size: 20 Copynumber: 5.4 Consensus size: 19
113349 GATTCTCTCG
113359 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
113379 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
113398 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
113412 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
113431 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
113451 TTGCGAT
1 TTGCGAT
113458 AGTCATTTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 25 0.35
20 26 0.37
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:113597 original size:14 final size:14
Alignment explanation
Indices: 113563--113598 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
113553 CATCAATTAC
113563 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
113577 A-AAATCATCTTTT
1 ACAAATCAACTTTT
113590 ACAAATCAA
1 ACAAATCAA
113599 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.33
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:115569 original size:19 final size:19
Alignment explanation
Indices: 115527--115699 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
115517 TAGTTTACTT
* *
115527 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
115547 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
115566 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
115585 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
115604 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
115623 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
* *
115637 TTGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
115656 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
115670 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
115689 TCGCAATGCGA
1 TCGCAACGCGA
115700 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 81 0.64
20 12 0.10
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:115653 original size:33 final size:33
Alignment explanation
Indices: 115602--115694 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
115592 GCGAAACCAA
115602 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* * *
115635 AATTGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
115668 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
115695 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:115695 original size:52 final size:52
Alignment explanation
Indices: 115561--115699 Score: 138
Period size: 52 Copynumber: 2.7 Consensus size: 52
115551 AACGCGAAAT
* * * *
115561 GAGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGC
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
* ** * * **
115613 GA-AAT-GAAAATCGCAACGACAGAATTGCAATGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAACGA-A-AATCGCAATGCGAAACCAAAATCGCAACGA
*
115665 GAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGA
115700 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 17, Indels: 8
0.73 0.19 0.09
Matches are distributed among these distances:
50 8 0.12
51 4 0.06
52 41 0.62
53 4 0.06
54 9 0.14
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (52 bp):
GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
Found at i:115730 original size:14 final size:14
Alignment explanation
Indices: 115711--115769 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
115701 TTTGGTTTCG
115711 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
115725 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
115742 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
115758 CGTTGCGATTTT
1 CGTTGCGATTTT
115770 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:115737 original size:33 final size:33
Alignment explanation
Indices: 115695--115818 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
115685 AAAATCGCAA
*
115695 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
115728 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
115761 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
115794 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
115819 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:115749 original size:19 final size:18
Alignment explanation
Indices: 115695--115786 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
115685 AAAATCGCAA
115695 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
115714 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
115728 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
115747 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
115761 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
115780 TGCGATT
1 TGCGATT
115787 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:115796 original size:14 final size:14
Alignment explanation
Indices: 115744--115800 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
115734 TTTGGTTTCG
*
115744 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
115758 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
115777 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
115791 CGTTGCGATT
1 CGTTGCGATT
115801 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:117786 original size:21 final size:21
Alignment explanation
Indices: 117729--117793 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
117719 TCTTTTGGTT
117729 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
*** *
117750 G-AATGACTGTCACAACGAGA
1 GAAATGAAAATCGCAACGAGA
117770 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
117791 GAA
1 GAA
117794 TCGCAACGCT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.49, C:0.15, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:117957 original size:33 final size:33
Alignment explanation
Indices: 117915--117985 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
117905 AATACTAACT
117915 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
*
117948 TGAAAATCGCAACGAGAGAATCGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
117981 TGAAA
1 TGAAA
117986 TCTAAGTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.48, C:0.18, G:0.24, T:0.10
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:117961 original size:19 final size:19
Alignment explanation
Indices: 117937--117985 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 19
117927 CGAGAGAATA
117937 GCAACGCGAAATGAAAATC
1 GCAACGCGAAATGAAAATC
*
117956 GCAA--CG--A-GAGAATC
1 GCAACGCGAAATGAAAATC
117970 GCAACGCGAAATGAAA
1 GCAACGCGAAATGAAA
117986 TCTAAGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 10
0.66 0.06 0.29
Matches are distributed among these distances:
14 10 0.43
15 1 0.04
16 2 0.09
17 2 0.09
18 1 0.04
19 7 0.30
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.08
Consensus pattern (19 bp):
GCAACGCGAAATGAAAATC
Found at i:117971 original size:14 final size:14
Alignment explanation
Indices: 117919--117975 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
117909 CTAACTTGAA
117919 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
117933 AATAGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
117952 AATCGCAACGAGAG
1 AATCGCAACGAGAG
117966 AATCGCAACG
1 AATCGCAACG
117976 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.21, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:118390 original size:20 final size:20
Alignment explanation
Indices: 118365--118577 Score: 268
Period size: 20 Copynumber: 10.6 Consensus size: 20
118355 CTTTAAAAAT
118365 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
118385 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
118405 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
118426 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
118446 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
118466 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
118486 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
118506 CACGTTGCGGTTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
118526 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
118546 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
118566 CGCGTTGCGATT
1 CGCGTTGCGATT
118578 CTGGAAAATC
Statistics
Matches: 170, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
20 152 0.89
21 18 0.11
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:125068 original size:23 final size:23
Alignment explanation
Indices: 125042--125100 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
125032 AAGCACTACC
125042 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
125065 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
125088 TATTACATCATAT
1 TATTACATTATAT
125101 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:125544 original size:489 final size:490
Alignment explanation
Indices: 124628--125941 Score: 2496
Period size: 489 Copynumber: 2.7 Consensus size: 490
124618 TTATAATATG
124628 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* * *
124693 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTTATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
124758 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAAC-ATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
124822 TAACCAAATATAATAAT--ATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
124885 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
124950 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGA
125015 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACATATTACATTATATAA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACATATTACATTATATAA
125080 GCGCTACCTATTACATCATATTTTTACCTATTATA
456 GCGCTACCTATTACATCATATTTTTACCTATTATA
*
125115 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
125180 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
125244 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
125309 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
125374 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
125439 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGA
*
125504 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACCTATTACATTATATAA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACATATTACATTATATAA
125569 GCGCTACCTATTACATCATATTTTTACCTATTATA
456 GCGCTACCTATTACATCATATTTTTACCTATTATA
125604 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
125669 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAGAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
125734 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
125799 TAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
125862 ATCGTAAAGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
125927 CAAAAGATAACCTTA
326 CAAAAGATAACCTTA
125942 TACCTAAATA
Statistics
Matches: 812, Mismatches: 11, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
486 117 0.14
487 88 0.11
488 116 0.14
489 342 0.42
490 149 0.18
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (490 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGA
TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACATATTACATTATATAA
GCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:125553 original size:23 final size:23
Alignment explanation
Indices: 125527--125589 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
125517 ATATAAGCAC
125527 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
125550 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
125573 TACCTATTACATCATAT
1 TACCTATTACATTATAT
125590 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:125972 original size:25 final size:25
Alignment explanation
Indices: 125940--126000 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
125930 AAGATAACCT
125940 TATACCTAAATATGTAGTTATTGTA
1 TATACCTAAATATGTAGTTATTGTA
125965 TATACCTAAATATGTAGTTATTGTA
1 TATACCTAAATATGTAGTTATTGTA
*
125990 CATACCTAAAT
1 TATACCTAAAT
126001 TTAATGATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (25 bp):
TATACCTAAATATGTAGTTATTGTA
Found at i:128874 original size:184 final size:183
Alignment explanation
Indices: 128450--129038 Score: 1052
Period size: 183 Copynumber: 3.2 Consensus size: 183
128440 CGTTACTTAC
128450 AAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
1 AAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
* **
128515 ATATTTATACCGATTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCAAATGTGTAAA
66 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
* *
128580 TGTCGATACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATA
131 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATA
* *
128633 AAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTATAGACCTATTCGCTCATAAAATCGGT
1 AAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
*
128698 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
66 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
* *
128763 TGTCGACATTTTTTTTAAATGGTATCGACATATTTTTCTTCCAATCTGGACATA
131 TGTCGACA-CTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATA
* *
128817 AAGTACCGACACACTATTAGAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGGT
1 AAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
128882 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
66 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
*
128947 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCTAATCTGGACATA
131 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATA
129000 AAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTG
1 AAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTG
129039 AAAACTTTGT
Statistics
Matches: 385, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
183 210 0.55
184 175 0.45
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
AAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATA
Found at i:130247 original size:3 final size:3
Alignment explanation
Indices: 130239--130274 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
130229 ACTTGTTTGG
* *
130239 ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
130275 GTTAGCTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:130283 original size:12 final size:12
Alignment explanation
Indices: 130268--130322 Score: 83
Period size: 12 Copynumber: 4.6 Consensus size: 12
130258 TCGTCATCAT
*
130268 CTTCATCGTTAG
1 CTTCATCGTCAG
*
130280 CTTCATCGTCAT
1 CTTCATCGTCAG
*
130292 CTTCATCGTCAT
1 CTTCATCGTCAG
130304 CTTCATCGTCAG
1 CTTCATCGTCAG
130316 CTTCATC
1 CTTCATC
130323 TTCATTGACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.16, C:0.33, G:0.11, T:0.40
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:130297 original size:6 final size:6
Alignment explanation
Indices: 130240--130327 Score: 70
Period size: 6 Copynumber: 14.7 Consensus size: 6
130230 CTTGTTTGGA
* * * * * * *
130240 TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCGT T-AGCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATC-T TCATCT TCATCT
* * *
130288 TCATCT TCATCG TCATCT TCATCG TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
130328 TGACCGCTTG
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
5 2 0.03
6 63 0.94
7 2 0.03
ACGTcount: A:0.20, C:0.32, G:0.08, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:132252 original size:197 final size:198
Alignment explanation
Indices: 131835--132763 Score: 1611
Period size: 197 Copynumber: 4.7 Consensus size: 198
131825 TTATATACCA
*
131835 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTGTACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
131900 TTGGTTTTCGATGTTTTTGGGATCGACACTTTCTATATATGGATCGACACTTTATGGTTGCACCC
66 TTGGTTTTCGATG-TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
** * *
131965 TGTT-TTCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAGTGTCGACATATTATTTAC
130 TGTTGGCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAGTGTCGACACATTATTTAG
132029 ACAT
195 ACAT
* *
132033 ATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTATATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
132098 TTGGTTTTCGATGTTTTGGGATCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCT
66 TTGGTTTTCGATGTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCT
132162 GTTGGCCATTC-TTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAG
131 GTTGGCCATTCATTCTGGACCAAAAATATCGACACAAACT-AAAAAGTGTCGACACATTATTTAG
132226 ACAT
195 ACAT
132230 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
132294 TTGGTTTTCGATGTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTAC-CCCT
66 TTGGTTTTCGATGTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCT
*
132358 GTTGGCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACGTTATTTAG
131 GTTGGCCATTCATTCTGGACCAAAAATATCGACACAAACT-AAAAAGTGTCGACACATTATTTAG
132423 ACAT
195 ACAT
* *
132427 ATTCTCTTATAAAATCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
132492 TTGGTTTTCGATGTTTTTGGAATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
66 TTGGTTTTCGATG-TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
** *
132557 TGTTTTCCATTCATTCTGGACC-AAAATATCGACAC-AACTAAAAAGTGTAGACACATTATTTAG
130 TGTTGGCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAGTGTCGACACATTATTTAG
132620 ACAT
195 ACAT
132624 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
132689 TTGGTTTTCGATATTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
66 TTGGTTTTCGAT-GTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
132754 TGTTGGCCAT
130 TGTTGGCCAT
132764 ATTGTAAATT
Statistics
Matches: 697, Mismatches: 26, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
196 132 0.19
197 368 0.53
198 116 0.17
199 58 0.08
200 23 0.03
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (198 bp):
ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
TTGGTTTTCGATGTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCT
GTTGGCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAGTGTCGACACATTATTTAGA
CAT
Found at i:132884 original size:18 final size:18
Alignment explanation
Indices: 132861--132905 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
132851 TATCATTAAT
*
132861 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
132879 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
132898 AATTATAA
1 AATTATAA
132906 ATCTTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:132897 original size:19 final size:19
Alignment explanation
Indices: 132873--132921 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
132863 TTATATTCAC
132873 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
132892 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
*
132911 ATATAAAATTA
1 ATACAAAATTA
132922 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:134751 original size:32 final size:33
Alignment explanation
Indices: 134692--134756 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
134682 CATCTTAATA
*
134692 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
134725 TCACCCCTCAACA-CTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
134757 CCATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:134814 original size:21 final size:21
Alignment explanation
Indices: 134789--134853 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
134779 CCCCTTATGC
* *
134789 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
134810 CTCTCAAGTTTCTCTTTGACT
1 CTCTCAAGTTTCTCTTCGACT
*
134831 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
134852 CT
1 CT
134854 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:137008 original size:20 final size:20
Alignment explanation
Indices: 136966--137013 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
136956 TATTTTATCG
*
136966 GTTTTATCATTTTGATACCT
1 GTTTTATCATTTTGATACAT
*
136986 GTTTTATCATATTT-TTACAT
1 GTTTTATCAT-TTTGATACAT
*
137006 GTTATATC
1 GTTTTATC
137014 GTTGTGGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.56
Consensus pattern (20 bp):
GTTTTATCATTTTGATACAT
Found at i:137163 original size:20 final size:20
Alignment explanation
Indices: 137136--137182 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
137126 TCCGGTAACG
137136 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
137155 TTCTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
137176 TTTTACC
1 TTTTACC
137183 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:137170 original size:178 final size:179
Alignment explanation
Indices: 136925--137391 Score: 631
Period size: 178 Copynumber: 2.6 Consensus size: 179
136915 GATACTTACG
*** * * *
136925 AAAGTATCGACACTTTCAATATATCCGGTATTATTTTATCGGTTTTATCATTTTGATACCTGTTT
1 AAAGTATCGACACTTTC-A-ATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
* * *
136990 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
64 TATCATATTTTTACCTGTTATATCGTT-TGGATCGATACATTTTTTAAAAGTATCGACACATTAT
137055 AGG-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTT-TA-T
128 AGGAC-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
137105 AAAGTATCGACACTTTCAATATCCGGTAACGTTTTACCGGTTTTATCATTTTCTTACCGGTTTTA
1 AAAGTATCGACACTTTCAATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTTTA
* *
137170 TCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTATAG
66 TCATATTTTTACCTGTTATATCG-TTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAG
* *
137235 GACTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 GACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
137285 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCA-TTTCAATACTGGTT
1 AAAGTATCGACACTTTCAA--TATCCGGTAACGTTTTACCGGTTTTATCATTTTC-ATACCGGTT
* *
137349 TTGTCATAGTTTTACCTGTTATATCGTTTGGATCG--ACATTTTT
63 TTATCATATTTTTACCTGTTATATCGTTTGGATCGATACATTTTT
137392 AATTTGGATC
Statistics
Matches: 257, Mismatches: 23, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
178 138 0.54
179 14 0.05
180 35 0.14
181 13 0.05
182 57 0.22
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (179 bp):
AAAGTATCGACACTTTCAATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTTTA
TCATATTTTTACCTGTTATATCGTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAGG
ACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:143121 original size:31 final size:31
Alignment explanation
Indices: 143072--143140 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
143062 ATAGGGATTA
* * *
143072 AATACTTTGTTTGAATAAAACACTTGCTCTT
1 AATAATTTGCTTGAATAAAACACTTGCTCCT
* *
143103 AATAATTTGCTTGGATAAAAGACTTGCTCCT
1 AATAATTTGCTTGAATAAAACACTTGCTCCT
*
143134 AAGAATT
1 AATAATT
143141 CTCATAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (31 bp):
AATAATTTGCTTGAATAAAACACTTGCTCCT
Found at i:145275 original size:4 final size:4
Alignment explanation
Indices: 145266--145292 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
145256 TCAGTAACTT
145266 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
145293 TTTAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:170984 original size:10 final size:9
Alignment explanation
Indices: 170969--171047 Score: 77
Period size: 10 Copynumber: 8.3 Consensus size: 9
170959 CATGTTTTCA
170969 ACCGGTTCTG
1 ACCGGTT-TG
170979 ACCGGTTTG
1 ACCGGTTTG
*
170988 ACCGGTTTCA
1 ACCGGTTT-G
*
170998 ACCGGTTCG
1 ACCGGTTTG
171007 AACCGGTTTG
1 -ACCGGTTTG
* *
171017 ACAGGTCTG
1 ACCGGTTTG
171026 AACCGGTTTG
1 -ACCGGTTTG
*
171036 ACCGGTCTG
1 ACCGGTTTG
171045 ACC
1 ACC
171048 CGACCCGACC
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 28 0.49
10 29 0.51
ACGTcount: A:0.16, C:0.28, G:0.29, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:170993 original size:19 final size:19
Alignment explanation
Indices: 170968--171045 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 19
170958 ACATGTTTTC
*
170968 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
170988 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
*
171007 AACCGGTTTGACAGGTCTG
1 AACCGGTTTGACCGGTCTG
171026 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
171045 A
1 A
171046 CCCGACCCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
18 2 0.04
19 39 0.78
20 9 0.18
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:171011 original size:29 final size:28
Alignment explanation
Indices: 170964--171047 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 28
170954 TTTAACATGT
170964 TTTCAACCGGTTCTGACCGGTTTGACCGG
1 TTTCAACCGGTTC-GACCGGTTTGACCGG
*
170993 TTTCAACCGGTTCGAACCGGTTTGACAGG
1 TTTCAACCGGTTCG-ACCGGTTTGACCGG
* * * *
171022 TCTGAACCGGTTTGACCGGTCTGACC
1 TTTCAACCGGTTCGACCGGTTTGACC
171048 CGACCCGACC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.23
29 37 0.77
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (28 bp):
TTTCAACCGGTTCGACCGGTTTGACCGG
Found at i:178296 original size:9 final size:9
Alignment explanation
Indices: 178270--178328 Score: 64
Period size: 10 Copynumber: 6.2 Consensus size: 9
178260 CATGTTTTCA
178270 ACCGGTTCTG
1 ACCGGTT-TG
178280 ACCGGTTTG
1 ACCGGTTTG
* *
178289 ATCGGTTTCA
1 ACCGGTTT-G
178299 ACCGGTTTG
1 ACCGGTTTG
178308 AACCGGTTTG
1 -ACCGGTTTG
*
178318 ACCGGTCTG
1 ACCGGTTTG
178327 AC
1 AC
178329 TCGACCCGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
9 19 0.45
10 23 0.55
ACGTcount: A:0.15, C:0.25, G:0.29, T:0.31
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:178301 original size:29 final size:29
Alignment explanation
Indices: 178265--178323 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
178255 TTTAACATGT
*
178265 TTTCAACCGGTTCTG-ACCGGTTTGATCGG
1 TTTCAACCGGTT-TGAACCGGTTTGACCGG
178294 TTTCAACCGGTTTGAACCGGTTTGACCGG
1 TTTCAACCGGTTTGAACCGGTTTGACCGG
178323 T
1 T
178324 CTGACTCGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (29 bp):
TTTCAACCGGTTTGAACCGGTTTGACCGG
Found at i:178321 original size:19 final size:19
Alignment explanation
Indices: 178269--178323 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
178259 ACATGTTTTC
178269 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTTTG
* *
178289 -ATCGGTTTCAACCGGTTTG
1 AACCGGTTT-GACCGGTTTG
178308 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
178324 CTGACTCGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 1 0.03
19 21 0.72
20 7 0.24
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTTG
Found at i:180695 original size:34 final size:34
Alignment explanation
Indices: 180652--180719 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
180642 AATAAGTTAG
180652 TATGATTCTCTCTAACATGTTTACCTATTTAATA
1 TATGATTCTCTCTAACATGTTTACCTATTTAATA
180686 TATGATTCTCTCTAACATGTTTACCTATTTAATA
1 TATGATTCTCTCTAACATGTTTACCTATTTAATA
180720 ATAAGGTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (34 bp):
TATGATTCTCTCTAACATGTTTACCTATTTAATA
Found at i:180922 original size:2 final size:2
Alignment explanation
Indices: 180915--180942 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
180905 CGTAAAATCC
180915 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
180943 TGACGAGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:193310 original size:85 final size:83
Alignment explanation
Indices: 193177--193687 Score: 512
Period size: 83 Copynumber: 6.1 Consensus size: 83
193167 CGAACTCTTC
* *
193177 AGGTCTTTGGCTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCGGAGC
1 AGGTCTTTGG-TGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTCGGAGC
*
193242 TGAGTGTAAACGAACTCGA
65 TGAGTGTAATCGAACTCGA
* * * * * **
193261 GGGTCTTTTGGATGGCAGATAGCTCTTCTCGATTTAAGCTATGCTGCAAAT-ATTGTGCCTTTGA
1 AGGTC-TTTGG-TGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGA-TGTGCCTCGGA
193325 GCTGAGTGTAATCGAACTCGA
63 GCTGAGTGTAATCGAACTCGA
* * * * * * *
193346 AGGTC-TTGGTTGGTAGATAACCCTTATAGCCCTAAGTTATGGTGCAAATGATGTGCCTTGGAGC
1 AGGTCTTTGG-TGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTCGGAGC
** *
193410 TGAACGTAGTCGAACTCGA
65 TGAGTGTAATCGAACTCGA
* * * * * * * *
193429 AGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGC
1 AGGTCTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTG-CCTCGGAGC
*
193494 TGAGTGTAATCGAACTCGG
65 TGAGTGTAATCGAACTCGA
* * * * *
193513 GGGTC-TT--TGGCAG-TAGCCCTTCTCGACTTAAGCTGTGCTGCAAATGATGTGCCTTGGAGCT
1 AGGTCTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTCGGAGCT
* *
193574 GAGCGTAGTCGAACTCGA
66 GAGTGTAATCGAACTCGA
* * * * * *
193592 AGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAG
1 AGGTC-TTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTG-CCTCGGAG
*
193657 CTGAGTGTAATCGAACTCGG
64 CTGAGTGTAATCGAACTCGA
*
193677 GGGTCTTTGGT
1 AGGTCTTTGGT
193688 AGATAGCCTT
Statistics
Matches: 348, Mismatches: 68, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
79 27 0.08
80 29 0.08
81 7 0.02
83 110 0.32
84 73 0.21
85 102 0.29
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (83 bp):
AGGTCTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTCGGAGCT
GAGTGTAATCGAACTCGA
Found at i:193652 original size:164 final size:165
Alignment explanation
Indices: 193188--193702 Score: 671
Period size: 164 Copynumber: 3.1 Consensus size: 165
193178 GGTCTTTGGC
* * **
193188 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCGGAGCTGAGTGTAAAC
1 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* * * * * ** * * *
193253 GAACTCGAGGGTCTTTTGGATGGCAGATAGCTCTTCTCGATTTAAGCTATGCTGCAAAT-ATTGT
66 GAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA-TGT
* * **
193317 GCCTTTG-AGCTGAGTGTAATCGAACTCGAAGGTCTTGGT
129 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-T--T
* * * * * * * * *
193356 TGGTAGATAACCCTTATAGCCCTAAGTTATGGTGCAAATGATGTGCCTTGGAGCTGAACGTAGTC
1 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* *
193421 GAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGC
66 GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
193485 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
131 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
*
193520 TGGCAG-TAGCCCTTCTCGACTTAAGCTGTGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
1 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
193584 GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
66 GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
193649 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
131 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
*
193684 TGGTAGATAG-CCTTCTCGA
1 TGGCAGATAGCCCTTCTCGA
193703 GTTGGATATC
Statistics
Matches: 301, Mismatches: 42, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
163 62 0.21
164 104 0.35
165 3 0.01
166 37 0.12
167 31 0.10
168 64 0.21
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (165 bp):
TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
Found at i:194095 original size:106 final size:106
Alignment explanation
Indices: 193898--194774 Score: 1382
Period size: 106 Copynumber: 8.2 Consensus size: 106
193888 TCCTCCGTCG
* *
193898 TGAAATT--GAAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 TGAAATTGGGAAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTG
* *
193961 TCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTC
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
194003 TGAAATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
194068 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
194109 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
194174 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
194215 TGATATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGT
1 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
194280 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
194321 TGATATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGT
1 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
* * *
194386 CTGAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
194427 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGTGTTGT
1 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
194492 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * * *
194533 TGATATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
*
194598 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGTCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
194639 TGAAATTGAGAAGTTGTTTGTTGACAACTAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
* * * * * *
194704 CTGGAGTCCAATTTTCTTCGCTGCGAAGTTGAAATAGACTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
194745 TGAATGAAATT-GGAAAGTTGTTTGTTGACA
1 ----TGAAATTGGGAAA-TTGTTTGTTGACA
194775 TACAACTTTT
Statistics
Matches: 719, Mismatches: 46, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
105 7 0.01
106 685 0.95
107 4 0.01
109 3 0.00
110 20 0.03
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (106 bp):
TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:200259 original size:3 final size:3
Alignment explanation
Indices: 200253--200279 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
200243 AAATAAAAGA
200253 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
200280 TAAATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:211961 original size:2 final size:2
Alignment explanation
Indices: 211954--211990 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
211944 TTATATTGTA
211954 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
211991 CAATTAGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:220108 original size:18 final size:18
Alignment explanation
Indices: 220065--220110 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
220055 CATTTATCTT
220065 TTATTTTAATAAAAAAAA
1 TTATTTTAATAAAAAAAA
* *
220083 TCTCTTTTAATAAAAAATA
1 T-TATTTTAATAAAAAAAA
220102 TTATTTTAA
1 TTATTTTAA
220111 CAAATCATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATTTTAATAAAAAAAA
Found at i:225944 original size:17 final size:18
Alignment explanation
Indices: 225910--225944 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
225900 TTTTATAATT
225910 AATTTAAAAAATAAATAA
1 AATTTAAAAAATAAATAA
*
225928 AATTTAAATAA-AAATAA
1 AATTTAAAAAATAAATAA
225945 TATTCGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATTTAAAAAATAAATAA
Found at i:226863 original size:13 final size:15
Alignment explanation
Indices: 226835--226866 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
226825 TTTTGTATTC
226835 TTTTAATATAAATAT
1 TTTTAATATAAATAT
226850 TTTTAAT-T-AATAT
1 TTTTAATATAAATAT
226863 TTTT
1 TTTT
226867 GTGTGACGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAATATAAATAT
Found at i:228325 original size:20 final size:20
Alignment explanation
Indices: 228300--228369 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
228290 GTAATTCAGG
228300 ACATATATGCATCCTTTGGA
1 ACATATATGCATCCTTTGGA
** * *
228320 ACATATATG--TGGTAATCGGG
1 ACATATATGCATCCT--TTGGA
228340 ACATATATGCATCCTTTGGA
1 ACATATATGCATCCTTTGGA
228360 ACATATATGC
1 ACATATATGC
228370 GGTCATTCGG
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.05
20 34 0.89
22 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATATATGCATCCTTTGGA
Found at i:228329 original size:41 final size:41
Alignment explanation
Indices: 228284--228432 Score: 187
Period size: 40 Copynumber: 3.6 Consensus size: 41
228274 TCGATGGTTT
*
228284 TATGTGGTAATTCAGGACATATATGCATCCTTTGGAACATA
1 TATGTGGTAATTCGGGACATATATGCATCCTTTGGAACATA
228325 TATGTGGTAA-TCGGGACATATATGCATCCTTTGGAACATA
1 TATGTGGTAATTCGGGACATATATGCATCCTTTGGAACATA
* *
228365 TATGCGGTCATTCGGGACATATATTTGGTCAT--TTTGGAACATA
1 TATGTGGTAATTCGGGACATATA--T-G-CATCCTTTGGAACATA
* * *
228408 TATGTGGTTATTTGGGACATTTATG
1 TATGTGGTAATTCGGGACATATATG
228433 TGGTCCTTCG
Statistics
Matches: 96, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
40 38 0.40
41 23 0.24
43 31 0.32
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (41 bp):
TATGTGGTAATTCGGGACATATATGCATCCTTTGGAACATA
Found at i:228386 original size:21 final size:21
Alignment explanation
Indices: 228284--228465 Score: 118
Period size: 21 Copynumber: 8.7 Consensus size: 21
228274 TCGATGGTTT
* *
228284 TATGTGGTAATTCAGGACATA
1 TATGTGGTCATTCGGGACATA
** * * *
228305 TATG-CATCCTTTGGAACATA
1 TATGTGGTCATTCGGGACATA
*
228325 TATGTGGT-AATCGGGACATA
1 TATGTGGTCATTCGGGACATA
** * * *
228345 TATG-CATCCTTTGGAACATA
1 TATGTGGTCATTCGGGACATA
*
228365 TATGCGGTCATTCGGGACATA
1 TATGTGGTCATTCGGGACATA
* * *
228386 TATTTGGTCATTTTGGAACATA
1 TATGTGGTCA-TTCGGGACATA
* * *
228408 TATGTGGTTATTTGGGACATT
1 TATGTGGTCATTCGGGACATA
* *
228429 TATGTGGTCCTTCGGGACAAA
1 TATGTGGTCATTCGGGACATA
228450 CCTATGTGGTCATTCG
1 --TATGTGGTCATTCG
228466 AGATAAACTT
Statistics
Matches: 117, Mismatches: 38, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
19 1 0.01
20 37 0.32
21 49 0.42
22 17 0.15
23 13 0.11
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (21 bp):
TATGTGGTCATTCGGGACATA
Found at i:228493 original size:23 final size:23
Alignment explanation
Indices: 228428--228501 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
228418 TTTGGGACAT
* *
228428 TTATGTGGTCCTTCGGGACAAAC
1 TTATGTGGTCATTCGGGATAAAC
* *
228451 CTATGTGGTCATTCGAGATAAAC
1 TTATGTGGTCATTCGGGATAAAC
*
228474 TTATGTGGTCATTTGGGAT-AA-
1 TTATGTGGTCATTCGGGATAAAC
228495 TTATGTG
1 TTATGTG
228502 ACATTTCGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.16
22 2 0.05
23 35 0.80
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (23 bp):
TTATGTGGTCATTCGGGATAAAC
Found at i:228500 original size:21 final size:21
Alignment explanation
Indices: 228390--228501 Score: 73
Period size: 23 Copynumber: 5.1 Consensus size: 21
228380 GACATATATT
*
228390 TGGTCATTTTGGA-ACATATATG
1 TGGTCATTTGGGATA-AT-TATG
* * *
228412 TGGTTATTTGGGACATTTATG
1 TGGTCATTTGGGATAATTATG
* * * *
228433 TGGTCCTTCGGGACAAACCTATG
1 TGGTCATTTGGGA-TAA-TTATG
* *
228456 TGGTCATTCGAGATAAACTTATG
1 TGGTCATTTGGGAT-AA-TTATG
228479 TGGTCATTTGGGATAATTATG
1 TGGTCATTTGGGATAATTATG
228500 TG
1 TG
228502 ACATTTCGGT
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
21 21 0.30
22 15 0.21
23 35 0.49
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (21 bp):
TGGTCATTTGGGATAATTATG
Found at i:230079 original size:16 final size:15
Alignment explanation
Indices: 230044--230073 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
230034 AACTTAACTG
*
230044 ATATTAATTTTTTAA
1 ATATAAATTTTTTAA
230059 ATATAAATTTTTTAA
1 ATATAAATTTTTTAA
230074 CCTATACTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATAAATTTTTTAA
Found at i:244165 original size:11 final size:11
Alignment explanation
Indices: 244149--244245 Score: 54
Period size: 11 Copynumber: 8.3 Consensus size: 11
244139 TATTTTGCTT
244149 GAAAAAAAAAA
1 GAAAAAAAAAA
244160 GAAAAAATGAATAA
1 GAAAAAA--AA-AA
244174 -AAAATGAAAAAA
1 GAAAA--AAAAAA
*
244186 GAAAAAATAATA
1 GAAAAAA-AAAA
** *
244198 -AAAAATGAAT
1 GAAAAAAAAAA
244208 GAAAAAAGGAAAA
1 GAAAAAA--AAAA
*
244221 GGAAAAAAAAA
1 GAAAAAAAAAA
*
244232 GAAACAAAAAA
1 GAAAAAAAAAA
244243 GAA
1 GAA
244246 GGGTTCAAGA
Statistics
Matches: 65, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
10 1 0.02
11 35 0.54
12 5 0.08
13 20 0.31
14 2 0.03
15 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.13, T:0.07
Consensus pattern (11 bp):
GAAAAAAAAAA
Done.