Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008855.1 Hibiscus syriacus cultivar Beakdansim tig00112072_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: 1316246
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:1956 original size:25 final size:25
Alignment explanation
Indices: 1927--1984 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
1917 ATTTCAAAGT
* *
1927 TATAATTATATAAAAATATATTATA
1 TATAAATAAATAAAAATATATTATA
* *
1952 TATAAATAAATAAAAATTTATTATT
1 TATAAATAAATAAAAATATATTATA
*
1977 TAGAAATA
1 TATAAATA
1985 TCAGAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
TATAAATAAATAAAAATATATTATA
Found at i:3697 original size:14 final size:14
Alignment explanation
Indices: 3675--3722 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
3665 ATAATATTTA
3675 ATAAAAAAAATAAT
1 ATAAAAAAAATAAT
*
3689 ATAATAAAAATAAT
1 ATAAAAAAAATAAT
* *
3703 TTTAAAAAAA-AAT
1 ATAAAAAAAATAAT
3716 A-AAAAAA
1 ATAAAAAA
3723 TCAATGTCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 5 0.18
13 3 0.11
14 20 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAAAAAAATAAT
Found at i:6592 original size:18 final size:18
Alignment explanation
Indices: 6571--6634 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
6561 AAGTCAACAG
*
6571 AAATATTAAAGGATAA-AA
1 AAATAATAAA-GATAATAA
6589 AAATAATAAAGATAATAA
1 AAATAATAAAGATAATAA
6607 AAATAAATAATA-ATAATAA
1 AAAT-AATAA-AGATAATAA
*
6626 TAATAATAA
1 AAATAATAA
6635 CAAAAATGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.12
18 20 0.49
19 15 0.37
20 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (18 bp):
AAATAATAAAGATAATAA
Found at i:6596 original size:3 final size:3
Alignment explanation
Indices: 6590--6634 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
6580 AGGATAAAAA
*
6590 AAT AAT AA- AGAT AAT AAA AAT AAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
6635 CAAAAATGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 1 0.03
3 32 0.86
4 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:6605 original size:9 final size:8
Alignment explanation
Indices: 6583--6634 Score: 50
Period size: 9 Copynumber: 5.9 Consensus size: 8
6573 ATATTAAAGG
*
6583 ATAAAAAA
1 ATAATAAA
6591 ATAATAAA
1 ATAATAAA
6599 GATAATAAAA
1 -ATAAT-AAA
6609 ATAAATAATA
1 AT-AATAA-A
6619 ATAATAATA
1 ATAATAA-A
6628 ATAATAA
1 ATAATAA
6635 CAAAAATGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
8 7 0.18
9 23 0.59
10 9 0.23
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (8 bp):
ATAATAAA
Found at i:6613 original size:15 final size:15
Alignment explanation
Indices: 6593--6670 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 15
6583 ATAAAAAAAT
6593 AATAAAGATAATAAA
1 AATAAAGATAATAAA
*
6608 AAT-AA-ATAATAAT
1 AATAAAGATAATAAA
6621 AATAATA-ATAATAACA
1 AATAA-AGATAATAA-A
* *
6637 AA-AATGGTAA-AAA
1 AATAAAGATAATAAA
6650 AATAAAGAGTAA-AAA
1 AATAAAGA-TAATAAA
6665 AATAAA
1 AATAAA
6671 CTAAGAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
13 13 0.25
14 8 0.16
15 28 0.55
16 2 0.04
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (15 bp):
AATAAAGATAATAAA
Found at i:7936 original size:39 final size:38
Alignment explanation
Indices: 7893--8147 Score: 156
Period size: 37 Copynumber: 6.9 Consensus size: 38
7883 TAATAATAAA
7893 TTAAAAAATTATTTTTTAAAACTATATATTATATGTTTT
1 TTAAAAAATTATTTTTTAAAACTATATATTATAT-TTTT
* * ** * *
7932 TTAAAAAA-TA-TTTTCAGAACCCTATAATATATATTT
1 TTAAAAAATTATTTTTTAAAACTATATATTATATTTTT
* * *
7968 TCAAATAAAGTA--ATTTAAAACTATATA--ATATTTTT
1 TTAAA-AAATTATTTTTTAAAACTATATATTATATTTTT
* * ** *
8003 TTCAAAAAGTATTTTCCAAAACTATAT-TTATA-TATT
1 TTAAAAAATTATTTTTTAAAACTATATATTATATTTTT
* **
8039 TT--CAAATTATTTTAAAAAACTATATATTATATATATTAT
1 TTAAAAAATTATTTTTTAAAACTATATATTATAT-T-TT-T
* ** *
8078 TT-CAAAA-TGGTTTTTAAAACTATATATTATATATTT
1 TTAAAAAATTATTTTTTAAAACTATATATTATATTTTT
** * *
8114 TTCGAAAATAATTTTTAAAAACTATATATTATAT
1 TTAAAAAATTATTTTTTAAAACTATATATTATAT
8148 ATGTATGTTT
Statistics
Matches: 167, Mismatches: 35, Indels: 29
0.72 0.15 0.13
Matches are distributed among these distances:
34 25 0.15
35 15 0.09
36 26 0.16
37 40 0.24
38 26 0.16
39 32 0.19
40 3 0.02
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.47
Consensus pattern (38 bp):
TTAAAAAATTATTTTTTAAAACTATATATTATATTTTT
Found at i:8010 original size:72 final size:73
Alignment explanation
Indices: 7907--8045 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 73
7897 AAAATTATTT
*
7907 TTTAAAACTATATATTATATGTTTTTTAAAAAATATTTT-CAGAACCCTATA-ATATATATTTTC
1 TTTAAAACTATATA-TATATGTTTTTTAAAAAATATTTTCCA-AA-ACTATATATATATATTTTC
7970 AAATAAAGTAA
63 AAATAAAGTAA
* *
7981 TTTAAAACTATATA-ATAT-TTTTTTCAAAAAGTATTTTCCAAAACTATATTTATATATTTTCAA
1 TTTAAAACTATATATATATGTTTTTT-AAAAAATATTTTCCAAAACTATATATATATATTTTCAA
8044 AT
65 AT
8046 TATTTTAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
71 11 0.19
72 32 0.54
73 2 0.03
74 14 0.24
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (73 bp):
TTTAAAACTATATATATATGTTTTTTAAAAAATATTTTCCAAAACTATATATATATATTTTCAAA
TAAAGTAA
Found at i:8216 original size:176 final size:175
Alignment explanation
Indices: 7984--8327 Score: 434
Period size: 176 Copynumber: 2.0 Consensus size: 175
7974 AAAGTAATTT
* * * *
7984 AAAACTATATAATATTTTTTTCAAAAAGTATTTTCCAAAACTATATTTATATATTTTCAAATTAT
1 AAAACTATATAACATTGTTTTCAAAAAGTATTTTCAAAAACTATATTTATATATTTTCAAA-AAT
* *
8049 -TT-TAAAAAACTATATATTATATATATTATTTCAAAATGGTTTT-TAAAACTATATATTATATA
65 GTTATAAAAAACTATATATTATATATA-T-TTTAAAAAT-GTTTTAAAAAACTATATATTATATA
*
8111 T-TTTTCGAAAATA-ATTTTTAAAAACTATATATTATATATGTATGTTTTC
127 TATTTTC-AAAA-ACATTTTCAAAAACTATATATTATATATGTATGTTTTC
*
8160 AAAACTATATAACA-TGTTTTC-AAAA-TGTTTTCAAAAACTATATAATATATATATTTTCAAAA
1 AAAACTATATAACATTGTTTTCAAAAAGTATTTTCAAAAACTATAT--T-TATATATTTTCAAAA
* *
8222 ATGTTATCAAAAATTATATATTATATATATTTTAAAAATGTTTTCAAAAAACTATATATTATATA
63 ATGTTATAAAAAACTATATATTATATATATTTTAAAAATGTTTT-AAAAAACTATATATTATATA
* *
8287 TATTTTCAAAAACGTTTTCAAAAATTATATATTATATATGT
127 TATTTTCAAAAACATTTTCAAAAACTATATATTATATATGT
8328 TTTCAAATTT
Statistics
Matches: 147, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
173 16 0.11
174 9 0.06
175 18 0.12
176 78 0.53
177 26 0.18
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.45
Consensus pattern (175 bp):
AAAACTATATAACATTGTTTTCAAAAAGTATTTTCAAAAACTATATTTATATATTTTCAAAAATG
TTATAAAAAACTATATATTATATATATTTTAAAAATGTTTTAAAAAACTATATATTATATATATT
TTCAAAAACATTTTCAAAAACTATATATTATATATGTATGTTTTC
Found at i:8223 original size:38 final size:38
Alignment explanation
Indices: 8176--8395 Score: 260
Period size: 38 Copynumber: 6.0 Consensus size: 38
8166 ATATAACATG
8176 TTTTC-AAAATGTTTTCAAAAACTATATAATATATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATAATATATATA
* * *
8213 TTTTCAAAAATGTTATCAAAAATTATATATTATATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATAATATATATA
*
8251 TTTT-AAAAATGTTTTCAAAAAACTATATATTATATATA
1 TTTTCAAAAATGTTTTC-AAAAACTATATAATATATATA
* * * *
8289 TTTTCAAAAACGTTTTCAAAAATTATATATTATATATG
1 TTTTCAAAAATGTTTTCAAAAACTATATAATATATATA
*
8327 TTTTC--AAAT-TTTT-TAAAAC--TATAATATATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATAATATATATA
**
8359 TTTTCGAAAACCGTTTTC-AAAACTATATAATATATAT
1 TTTTC-AAAAATGTTTTCAAAAACTATATAATATATAT
8396 TTTCAATTCC
Statistics
Matches: 158, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
32 16 0.10
34 4 0.03
35 6 0.04
36 12 0.08
37 16 0.10
38 93 0.59
39 11 0.07
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (38 bp):
TTTTCAAAAATGTTTTCAAAAACTATATAATATATATA
Found at i:8273 original size:138 final size:141
Alignment explanation
Indices: 8014--8287 Score: 346
Period size: 138 Copynumber: 2.0 Consensus size: 141
8004 TCAAAAAGTA
* * * *
8014 TTTTCCAAAACTATATTTATATATTTTCAAATTATTTTAAAAAACTATATATTATATATATTATT
1 TTTTCCAAAACTATATTAACATATTTTCAAAATATTTTAAAAAACTATATAATATATATATTATT
** * *
8079 TCAAAATGGTTTTTAAAACTATATATTATATATTTTTCGAAAATAATTTTTAAAAACTATATATT
66 TCAAAATGGTTTCAAAAACTATATATTATATATTTTTCAAAAATAATTTTAAAAAACTATATATT
8144 ATATATGTATG
131 ATATATGTATG
* * *
8155 TTTT-CAAAACTATA-TAACATGTTTTCAAAATGTTTTCAAAAACTATATAATATATATA-T-TT
1 TTTTCCAAAACTATATTAACATATTTTCAAAATATTTTAAAAAACTATATAATATATATATTATT
* *
8216 TCAAAAAT-GTTATCAAAAATTATATATTATATATATTTT-AAAAAT-GTTTTCAAAAAACTATA
66 TC-AAAATGGTT-TCAAAAACTATATATTATATAT-TTTTCAAAAATAATTTT-AAAAAACTATA
8278 TATTATATAT
127 TATTATATAT
8288 ATTTTCAAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
137 11 0.09
138 50 0.43
139 41 0.35
140 10 0.09
141 4 0.03
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (141 bp):
TTTTCCAAAACTATATTAACATATTTTCAAAATATTTTAAAAAACTATATAATATATATATTATT
TCAAAATGGTTTCAAAAACTATATATTATATATTTTTCAAAAATAATTTTAAAAAACTATATATT
ATATATGTATG
Found at i:9489 original size:259 final size:258
Alignment explanation
Indices: 9014--9497 Score: 607
Period size: 259 Copynumber: 1.9 Consensus size: 258
9004 CAGACCTCCT
*
9014 TCTTGACTTAAAGACCTCAGTTTAAACTTCAACCAGAAAGTAGTTCTTCGCTGCTACAATGCAGT
1 TCTTGACTTAAAGACCTCAGTTTAAACTTCAACCAGAAAGTAGTTCCTCGCTGCTACAATGCAGT
* * *
9079 TGATACGCCCTCAAGCTGAATGGAATCAAACTCGAAAGTCTCACTGATAGATAGCCCTTCTTACC
66 TGATACGCCATCAAGCTGAATGGAATCAAACTCGAAAGTCTCACTGATAGATAGCCCTCCTCACC
* ** * *
9144 TTGAGCTATATTGTAAACTTGTTATGTCCTTGAGCTGATTGGAAACGAACTCAAAGATTTTTGTT
131 TTGAGCTATACTGTAAACTTGGCATGTCCTTGAGCTGAATGGAAACGAACTCAAAGA-GTTTGTT
*
9209 GACAGATAACCCTCATCGCCTTGAGTTATGTTGTACTAGATTGAGAGATTGCCCCAGATCTTCC
195 GACAGATAACCCTCATCGCCTTGAGCTATGTTGTACTAGATTGAGAGATTGCCCCAGATCTTCC
* * * *
9273 TCTTGACTTAAAGACCTCGGTTTAAACTTCAACC-GAAAAGTAGTTCCTCGTTGCTACCATGCGG
1 TCTTGACTTAAAGACCTCAGTTTAAACTTCAACCAG-AAAGTAGTTCCTCGCTGCTACAATGCAG
* * * * * ***
9337 TTGATATGTCATCAAGCTGAATGGAATCGAACTCGATAATTTTTTGTTGATAGATAGCCCTCCTC
65 TTGATACGCCATCAAGCTGAATGGAATCAAACTCGA-AA-GTCTCACTGATAGATAGCCCTCCTC
* * * * * *
9402 GCCTTGAGCTATGCTGTAAATTTGGCATG-CCTTTGAGCTGAATGTAACCGAACTCGAAG-GTTT
128 ACCTTGAGCTATACTGTAAACTTGGCATGTCC-TTGAGCTGAATGGAAACGAACTCAAAGAGTTT
* * *
9465 GTTGATATATAGCCCTTC-TCGCCTTGAGCTATG
192 GTTGACAGATAACCC-TCATCGCCTTGAGCTATG
9498 CTAAATTTGA
Statistics
Matches: 189, Mismatches: 31, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
258 1 0.01
259 118 0.62
260 6 0.03
261 64 0.34
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (258 bp):
TCTTGACTTAAAGACCTCAGTTTAAACTTCAACCAGAAAGTAGTTCCTCGCTGCTACAATGCAGT
TGATACGCCATCAAGCTGAATGGAATCAAACTCGAAAGTCTCACTGATAGATAGCCCTCCTCACC
TTGAGCTATACTGTAAACTTGGCATGTCCTTGAGCTGAATGGAAACGAACTCAAAGAGTTTGTTG
ACAGATAACCCTCATCGCCTTGAGCTATGTTGTACTAGATTGAGAGATTGCCCCAGATCTTCC
Found at i:9575 original size:169 final size:168
Alignment explanation
Indices: 9351--9752 Score: 517
Period size: 169 Copynumber: 2.4 Consensus size: 168
9341 TATGTCATCA
* *
9351 AGCTGAATGGAATCGAACTCG-ATAATTTTTTGTTGATAGATAGCCCTCCTCGCCTTGAGCTATG
1 AGCTGAATGGAATCGAACTCGAAT-GTTTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATG
* * *
9415 CTGTAAATTTGGCATGCCTTTGAGCTGAATGTAACCGAACTCGAAGG-TTTGTTGATATATAGCC
65 CTGTAAATTTGACATGCCCTTGAGCTGAATGTAACCGAACTCGAAGGTTTTGTTGATAGATAGCC
* *
9479 CTTCTCGCCTTGAGCTATG-CTAAATTTGATATGCCCTTG
130 CTTCTCACCTTGAGCTATGTCTAAATTTG-GATGCCCTTG
* * *
9518 AGCTGAATGTAATCGAACTCGAATGTTTTTTTTGTTGACAGATAGCCCTTCTCGCCTT-ATGTTA
1 AGCTGAATGGAATCGAACTCGAATG--TTTTTTGTTGATAGATAGCCCTTCTCGCCTTGA-GCTA
* * * *
9582 TGCTGTGAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTTGAAGGCTTTTTGTTGATAGAT
63 TGCTGTAAATTTGACATGCCCTTGAGCTGAATGTAACCGAACTCGAAGG--TTTTGTTGATAGAT
* * *
9647 AGCCCTTCTCACCTTGAGCTATGTTGTGAATTTGGCTGCCCTTG
126 AGCCCTTCTCACCTTGAGCTATG-TCTAAATTTGGATGCCCTTG
* * *
9691 AGCTGAATGGAATCGAACTC-AAAGGTTTTTGTTGATAGATAGCCCTTCTTGCCTTGAGCTAT
1 AGCTGAATGGAATCGAACTCGAATGTTTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTAT
9753 ATTGTAATAG
Statistics
Matches: 202, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
167 20 0.10
168 3 0.01
169 75 0.37
170 32 0.16
171 1 0.00
172 37 0.18
173 27 0.13
174 7 0.03
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (168 bp):
AGCTGAATGGAATCGAACTCGAATGTTTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGACATGCCCTTGAGCTGAATGTAACCGAACTCGAAGGTTTTGTTGATAGATAGCCC
TTCTCACCTTGAGCTATGTCTAAATTTGGATGCCCTTG
Found at i:9636 original size:86 final size:85
Alignment explanation
Indices: 9351--9752 Score: 510
Period size: 86 Copynumber: 4.7 Consensus size: 85
9341 TATGTCATCA
* ** *
9351 AGCTGAATGGAATCGAACTCGATAATTTTTTGTTGATAGATAGCCCTCCTCGCCTTGAGCTATGC
1 AGCTGAATGTAATCGAACTCGA-AGGTTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
** *
9416 TGTAAATTTGGCATGCCTTTG
65 TGTAAATTTGATATGCCCTTG
* *
9437 AGCTGAATGTAACCGAACTCGAAGG--TTTGTTGATATATAGCCCTTCTCGCCTTGAGCTATGC-
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGCT
9499 -TAAATTTGATATGCCCTTG
66 GTAAATTTGATATGCCCTTG
* * *
9518 AGCTGAATGTAATCGAACTCGAATGTTTTTTTTGTTGACAGATAGCCCTTCTCGCCTT-ATGTTA
1 AGCTGAATGTAATCGAACTCGAA-G--GTTTTTGTTGATAGATAGCCCTTCTCGCCTTGA-GCTA
*
9582 TGCTGTGAATTTGATATGCCCTTG
62 TGCTGTAAATTTGATATGCCCTTG
* * *
9606 AGCTGAATGTAATCGAACTTGAAGGCTTTTTGTTGATAGATAGCCCTTCTCACCTTGAGCTATGT
1 AGCTGAATGTAATCGAACTCGAAGG-TTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
* **
9671 TGTGAATTTG-GCTGCCCTTG
65 TGTAAATTTGATATGCCCTTG
* * *
9691 AGCTGAATGGAATCGAACTCAAAGGTTTTTGTTGATAGATAGCCCTTCTTGCCTTGAGCTAT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTAT
9753 ATTGTAATAG
Statistics
Matches: 278, Mismatches: 28, Indels: 22
0.85 0.09 0.07
Matches are distributed among these distances:
81 38 0.14
82 1 0.00
83 35 0.13
84 35 0.13
85 32 0.12
86 95 0.34
87 2 0.01
88 40 0.14
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (85 bp):
AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGCT
GTAAATTTGATATGCCCTTG
Found at i:15165 original size:17 final size:17
Alignment explanation
Indices: 15139--15216 Score: 56
Period size: 17 Copynumber: 4.5 Consensus size: 17
15129 AAGTTAAAAT
*
15139 AAATATTAAAGGATAA-A
1 AAATAATAAA-GATAATA
15156 AAATAATAAAGATAATA
1 AAATAATAAAGATAATA
*
15173 AAAAAAT-AA-A-AATA
1 AAATAATAAAGATAATA
*
15187 AAGATAATAAAAATAAATTA
1 AA-ATAATAAAGAT-AA-TA
15207 ATAATAATAA
1 A-AATAATAA
15217 TAAAAACAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
14 6 0.12
15 5 0.10
16 9 0.18
17 17 0.34
19 2 0.04
20 10 0.20
21 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
AAATAATAAAGATAATA
Found at i:15172 original size:9 final size:8
Alignment explanation
Indices: 15151--15275 Score: 63
Period size: 8 Copynumber: 16.2 Consensus size: 8
15141 ATATTAAAGG
15151 ATAA-AAA
1 ATAATAAA
15158 ATAATAAA
1 ATAATAAA
15166 GATAATAAA
1 -ATAATAAA
*
15175 AAAAT-AA
1 ATAATAAA
15182 A-AATAAA
1 ATAATAAA
15189 GATAAT-AA
1 -ATAATAAA
15197 A-AATAAA
1 ATAATAAA
*
15204 TTAATAATA
1 ATAATAA-A
15213 ATAATAAA
1 ATAATAAA
15221 A-ACA-AAA
1 ATA-ATAAA
*
15228 A-AGTAAA
1 ATAATAAA
15235 A-AAT-AA
1 ATAATAAA
* *
15241 AGAGTAAA
1 ATAATAAA
*
15249 AAAATAAA
1 ATAATAAA
*
15257 ACTAAGAAA
1 A-TAATAAA
*
15266 ATATTAAA
1 ATAATAAA
15274 AT
1 AT
15276 TAAAAAACGA
Statistics
Matches: 93, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
6 9 0.10
7 26 0.28
8 34 0.37
9 24 0.26
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (8 bp):
ATAATAAA
Found at i:15188 original size:14 final size:14
Alignment explanation
Indices: 15169--15307 Score: 95
Period size: 15 Copynumber: 9.6 Consensus size: 14
15159 TAATAAAGAT
15169 AATAAAAAAATAAA
1 AATAAAAAAATAAA
*
15183 AATAAAGATAATAAA
1 AATAAA-AAAATAAA
*
15198 AATAAATTAATAATAAT
1 AATAAA--AA-AATAAA
15215 AATAAAAACAA-AAA
1 AATAAAAA-AATAAA
*
15229 AGT-AAAAAATAAA
1 AATAAAAAAATAAA
*
15242 GAGTAAAAAAATAAA
1 -AATAAAAAAATAAA
* *
15257 ACTAAGAAAATATTAA
1 AATAA-AAAA-ATAAA
* **
15273 AATTAAAAAACGAA
1 AATAAAAAAATAAA
*
15287 ATTAAAAAAAT-AA
1 AATAAAAAAATAAA
15300 AATAAAAA
1 AATAAAAA
15308 TGTTAAATTT
Statistics
Matches: 100, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
12 2 0.02
13 16 0.16
14 28 0.28
15 35 0.35
16 8 0.08
17 11 0.11
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (14 bp):
AATAAAAAAATAAA
Found at i:15209 original size:23 final size:22
Alignment explanation
Indices: 15156--15222 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
15146 AAAGGATAAA
15156 AAATAATAAAGATAATAAAAAAAT
1 AAATAATAAAGATAAT--AAAAAT
15180 AAA-AATAAAGATAATAAAAAT
1 AAATAATAAAGATAATAAAAAT
15201 AAATTAATAATA-ATAATAAAAA
1 AAA-TAATAA-AGATAATAAAAA
15223 CAAAAAAGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.22
23 27 0.68
24 4 0.10
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (22 bp):
AAATAATAAAGATAATAAAAAT
Found at i:15281 original size:53 final size:52
Alignment explanation
Indices: 15169--15282 Score: 133
Period size: 53 Copynumber: 2.2 Consensus size: 52
15159 TAATAAAGAT
* *
15169 AATAAAAAAATAAAAATAAAGATAATAAAAATAAATTAATAATAATAATAAA
1 AATAAAAAAATAAAAATAAAGATAATAAAAATAAACTAAGAATAATAATAAA
* * *
15221 AACAAAAAAGTAAAAAATAAAGAGTAA-AAAAATAAAACTAAGAA-AATATTAAA
1 AATAAAAAAAT-AAAAATAAAGA-TAATAAAAAT-AAACTAAGAATAATAATAAA
*
15274 ATTAAAAAA
1 AATAAAAAA
15283 CGAAATTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
52 9 0.17
53 32 0.62
54 11 0.21
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (52 bp):
AATAAAAAAATAAAAATAAAGATAATAAAAATAAACTAAGAATAATAATAAA
Found at i:16670 original size:38 final size:37
Alignment explanation
Indices: 16480--17085 Score: 474
Period size: 37 Copynumber: 16.4 Consensus size: 37
16470 TATTAAATAA
* * * *
16480 TTTTTTAAAACTATATATTATATGTTTTTTAGAAAATG
1 TTTTTAAAAACTATATATTATATATATTTT-CAAAATG
* *
16518 -TTTTCAAAACCA-ATA--ATATATATTTTC--AAT-
1 TTTTTAAAAACTATATATTATATATATTTTCAAAATG
*
16548 TTTTTTAAAAC--TATA-TA-ATATATTTTCAAAAATG
1 TTTTTAAAAACTATATATTATATATATTTTC-AAAATG
** *
16582 TTTTCCAAAAC--TATATT-TATATATTTTCAAAATA
1 TTTTTAAAAACTATATATTATATATATTTTCAAAATG
16616 TTTTTAAAAA--ACTATATTATATATATTTTCAAAATG
1 TTTTTAAAAACTA-TATATTATATATATTTTCAAAATG
* *
16652 TTTTTTAAAAACCATATATTATATATTTTTTTCAAAATG
1 -TTTTTAAAAACTATATATTATATA-TATTTTCAAAATG
16691 TTTTTTAAAAACTATATATTATATATATGTTTTCAAAATG
1 -TTTTTAAAAACTATATATTATATATA--TTTTCAAAATG
16731 TTTTTAAAAACTATATATTATATATATGATTTCAAAATG
1 TTTTTAAAAACTATATATTATATATAT--TTTCAAAATG
* * * * * *
16770 -TTTTCAAAACTATCTAATATGTATGTTTTTAAAATG
1 TTTTTAAAAACTATATATTATATATATTTTCAAAATG
* * *
16806 TTTTCAAAAACTATATAATATATATATTTTCAAAAATA
1 TTTTTAAAAACTATATATTATATATATTTTC-AAAATG
*
16844 TTTTTAAAAACTATATTTATATATATATATATTTTAAAAATG
1 TTTTTAAAAAC--TA--TATAT-TATATATATTTTCAAAATG
* * **
16886 TTTTAAAAAACTATATATTATTTATATTTTCAAAAAC
1 TTTTTAAAAACTATATATTATATATATTTTCAAAATG
*
16923 TTTTTCAAAAACTATATATTATATATGTTTTCAAAA--
1 TTTTT-AAAAACTATATATTATATATATTTTCAAAATG
* * * * * *
16959 TTTTTCAAAACTATAGAATATATATTTTTTTGAAAACCG
1 TTTTTAAAAACTATATATTATATA-TATTTTCAAAA-TG
16998 -TTTT-AAAACTATATA--ATATATATTTTCAAAAACTG
1 TTTTTAAAAACTATATATTATATATATTTTC-AAAA-TG
* *
17033 ATTTTTAAAAA--AGTATA-T-TATATGTTTTCGAAAACCG
1 -TTTTTAAAAACTA-TATATTATATATATTTTC-AAAA-TG
17070 TTTTCTAAAAACTATA
1 TTTT-TAAAAACTATA
17086 AAAATATTTA
Statistics
Matches: 475, Mismatches: 52, Indels: 82
0.78 0.09 0.13
Matches are distributed among these distances:
30 13 0.03
31 13 0.03
33 3 0.01
34 40 0.08
35 44 0.09
36 47 0.10
37 104 0.22
38 91 0.19
39 74 0.16
40 15 0.03
42 19 0.04
43 12 0.03
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTTTAAAAACTATATATTATATATATTTTCAAAATG
Found at i:16695 original size:39 final size:38
Alignment explanation
Indices: 16480--17055 Score: 434
Period size: 38 Copynumber: 15.6 Consensus size: 38
16470 TATTAAATAA
* * *
16480 TTTTTTAAAACTATATATTATATGTT-TTTTAGAAAATG
1 TTTTTAAAAACTATATATTATATATTATTTT-CAAAATG
* *
16518 -TTTTCAAAACCA-ATA--ATATA-TATTTTC--AAT-
1 TTTTTAAAAACTATATATTATATATTATTTTCAAAATG
*
16548 TTTTTTAAAAC--TATA-TA-ATA-TATTTTCAAAAATG
1 TTTTTAAAAACTATATATTATATATTATTTTC-AAAATG
** *
16582 TTTTCCAAAAC--TATATT-TATA-TATTTTCAAAATA
1 TTTTTAAAAACTATATATTATATATTATTTTCAAAATG
16616 TTTTTAAAAA--ACTATATTATATA-TATTTTCAAAATG
1 TTTTTAAAAACTA-TATATTATATATTATTTTCAAAATG
* *
16652 TTTTTTAAAAACCATATATTATATATTTTTTTCAAAATG
1 -TTTTTAAAAACTATATATTATATATTATTTTCAAAATG
*
16691 TTTTTTAAAAACTATATATTATATATATGTTTTCAAAATG
1 -TTTTTAAAAACTATATATTATATAT-TATTTTCAAAATG
16731 TTTTTAAAAACTATATATTATATA-TATGATTTCAAAATG
1 TTTTTAAAAACTATATATTATATATTAT--TTTCAAAATG
* * * *
16770 -TTTTCAAAACTATCTAATATGTATGT-TTTT-AAAATG
1 TTTTTAAAAACTATATATTATATAT-TATTTTCAAAATG
* * *
16806 TTTTCAAAAACTATATAATATATA-TATTTTCAAAAATA
1 TTTTTAAAAACTATATATTATATATTATTTTC-AAAATG
*
16844 TTTTTAAAAACTATATTTATATATATATATATTTTAAAAATG
1 TTTTTAAAAACTATA--TAT-TATATAT-TATTTTCAAAATG
* * **
16886 TTTTAAAAAACTATATATTATTTA-TATTTTCAAAAAC
1 TTTTTAAAAACTATATATTATATATTATTTTCAAAATG
*
16923 TTTTTCAAAAACTATATATTATATA-TGTTTTCAAAA--
1 TTTTT-AAAAACTATATATTATATATTATTTTCAAAATG
* * * * * *
16959 TTTTTCAAAACTATAGAATATATATTTTTTTGAAAACCG
1 TTTTTAAAAACTATATATTATATATTATTTTCAAAA-TG
16998 -TTTT-AAAACTATATA--ATATA-TATTTTCAAAAACTG
1 TTTTTAAAAACTATATATTATATATTATTTTC-AAAA-TG
17033 ATTTTTAAAAA--AGTATATTATAT
1 -TTTTTAAAAACTA-TATATTATAT
17056 GTTTTCGAAA
Statistics
Matches: 450, Mismatches: 45, Indels: 85
0.78 0.08 0.15
Matches are distributed among these distances:
30 13 0.03
31 13 0.03
33 4 0.01
34 39 0.09
35 45 0.10
36 44 0.10
37 76 0.17
38 85 0.19
39 82 0.18
40 18 0.04
41 6 0.01
42 19 0.04
43 6 0.01
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (38 bp):
TTTTTAAAAACTATATATTATATATTATTTTCAAAATG
Found at i:17114 original size:72 final size:72
Alignment explanation
Indices: 16979--17116 Score: 165
Period size: 72 Copynumber: 1.9 Consensus size: 72
16969 CTATAGAATA
* * * * * *
16979 TATATTTTTTTGAAAACCGTTTTAAAACTATATAATATATATTTTCAAAAACTGATTTTTAAAAA
1 TATATGTTTTCGAAAACCGTTTTAAAACTATATAATATATATTTACAAAAACTAACTTATAAAAA
17044 AGTATAT
66 AGTATAT
*
17051 TATATGTTTTCGAAAACCGTTTTCTAAAAACTATA-AA-A-ATATTTACAAAAATTAACTTATAA
1 TATATGTTTTCGAAAACCG-TTT-T-AAAACTATATAATATATATTTACAAAAACTAACTTATAA
17113 AAAA
63 AAAA
17117 ATTCCGGATG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
72 40 0.71
73 4 0.07
74 3 0.05
75 9 0.16
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (72 bp):
TATATGTTTTCGAAAACCGTTTTAAAACTATATAATATATATTTACAAAAACTAACTTATAAAAA
AGTATAT
Found at i:26163 original size:20 final size:21
Alignment explanation
Indices: 26109--26171 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
26099 GATTCCCCTG
26109 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
26133 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
26153 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
26172 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:33805 original size:58 final size:58
Alignment explanation
Indices: 33734--33850 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
33724 AACGACAACC
* * *
33734 AAAATTTTTAACCAATAAACATCAATTACTATTTAACAAAGTATGGCAGAATGGTACA
1 AAAATTTTCAACCAATAAACATCAATTACTATTTAACAAAGTATGGAAGAATGATACA
33792 AAAATTTTCAACCAATAAACATCAATTACTATTTAACAAAGTATGGAAGAATGATACA
1 AAAATTTTCAACCAATAAACATCAATTACTATTTAACAAAGTATGGAAGAATGATACA
33850 A
1 A
33851 CACCTCCCCC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (58 bp):
AAAATTTTCAACCAATAAACATCAATTACTATTTAACAAAGTATGGAAGAATGATACA
Found at i:40224 original size:21 final size:21
Alignment explanation
Indices: 40198--40252 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
40188 AGATGAACTA
40198 TGGCTTTGCAACAGTGTTACT
1 TGGCTTTGCAACAGTGTTACT
* *
40219 TGGCTTTGCAACATTGTTGCT
1 TGGCTTTGCAACAGTGTTACT
*
40240 TGGCTTTGTAACA
1 TGGCTTTGCAACA
40253 AATTTCCTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (21 bp):
TGGCTTTGCAACAGTGTTACT
Found at i:51082 original size:21 final size:20
Alignment explanation
Indices: 51056--51128 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 20
51046 AGTTAAGGGT
51056 TTATGTGGTCCTTCGGGATAA
1 TTATGTGGTCCTTCGGGA-AA
51077 TTATGTGG-CACTTCGGTGCAAA
1 TTATGTGGTC-CTTCGG-G-AAA
* *
51099 CCTATGTGATCCTTCGGGACAA
1 -TTATGTGGTCCTTCGGGA-AA
51121 TTATGTGG
1 TTATGTGG
51129 CGCTTTGGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
20 1 0.02
21 21 0.50
22 6 0.14
23 13 0.31
24 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (20 bp):
TTATGTGGTCCTTCGGGAAA
Found at i:58403 original size:2 final size:2
Alignment explanation
Indices: 58396--58428 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
58386 AAGATATACT
58396 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58429 CATTTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58758 original size:21 final size:21
Alignment explanation
Indices: 58732--58782 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
58722 CATAGAGTCT
58732 GTTCACATTCACTGGTTCAAA
1 GTTCACATTCACTGGTTCAAA
* *
58753 GTTCACATTCACTTGTTTAAA
1 GTTCACATTCACTGGTTCAAA
58774 GTTCACATT
1 GTTCACATT
58783 TTCATAACCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (21 bp):
GTTCACATTCACTGGTTCAAA
Found at i:59316 original size:22 final size:22
Alignment explanation
Indices: 59288--59361 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
59278 TACACTTTCA
59288 GTATCGATACCCTCCTCAACGG
1 GTATCGATACCCTCCTCAACGG
* *
59310 GTATCGATACTAC-CCTCTTA---
1 GTATCGATAC-CCTCCTC-AACGG
59330 GTATCGATACCCTCCTCAACGG
1 GTATCGATACCCTCCTCAACGG
59352 GTATCGATAC
1 GTATCGATAC
59362 TACCCTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
19 2 0.05
20 14 0.33
22 24 0.57
23 2 0.05
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.27
Consensus pattern (22 bp):
GTATCGATACCCTCCTCAACGG
Found at i:59319 original size:42 final size:41
Alignment explanation
Indices: 59248--59370 Score: 187
Period size: 42 Copynumber: 3.0 Consensus size: 41
59238 CTCAAAAATG
* * *
59248 GTATCGATACCATCC-C-ACTGGTATCGATACTACACTTTCA
1 GTATCGATACCCTCCTCAACGGGTATCGATACTACCCTTT-A
59288 GTATCGATACCCTCCTCAACGGGTATCGATACTACCCTCTTA
1 GTATCGATACCCTCCTCAACGGGTATCGATACTACCCT-TTA
59330 GTATCGATACCCTCCTCAACGGGTATCGATACTACCCTTTA
1 GTATCGATACCCTCCTCAACGGGTATCGATACTACCCTTTA
59371 AGAAATATGT
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
40 14 0.18
41 4 0.05
42 57 0.74
43 2 0.03
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (41 bp):
GTATCGATACCCTCCTCAACGGGTATCGATACTACCCTTTA
Found at i:59346 original size:20 final size:19
Alignment explanation
Indices: 59287--59348 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
59277 CTACACTTTC
59287 AGTATCGATACCCTCCTCA
1 AGTATCGATACCCTCCTCA
* *
59306 ACGGGTATCGATACTAC-CCTCTT
1 A---GTATCGATAC-CCTCCTC-A
59329 AGTATCGATACCCTCCTCA
1 AGTATCGATACCCTCCTCA
59348 A
1 A
59349 CGGGTATCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
19 3 0.09
20 14 0.42
22 14 0.42
23 2 0.06
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.27
Consensus pattern (19 bp):
AGTATCGATACCCTCCTCA
Found at i:60178 original size:36 final size:36
Alignment explanation
Indices: 60138--60256 Score: 150
Period size: 36 Copynumber: 3.3 Consensus size: 36
60128 GGGATGTTAC
* * *
60138 ACAATTTTTTTAAAAACCAATTTTGTCTCGCTTGAG
1 ACAATTTTTCTAAAAACAAATTTTGTCTCACTTGAG
*
60174 ACAATTTTCTCTAAAAACAAAGTTTTTTCTCACTTGAG
1 ACAATTTT-TCTAAAAACAAA-TTTTGTCTCACTTGAG
* * *
60212 ACAATTTCTCTCAAAACAAATTTAGTCTCACTTGAG
1 ACAATTTTTCTAAAAACAAATTTTGTCTCACTTGAG
60248 AC-ATTTTTC
1 ACAATTTTTC
60257 CTTTGTGATG
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
35 6 0.08
36 24 0.33
37 21 0.29
38 21 0.29
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (36 bp):
ACAATTTTTCTAAAAACAAATTTTGTCTCACTTGAG
Found at i:60213 original size:38 final size:37
Alignment explanation
Indices: 60138--60256 Score: 152
Period size: 37 Copynumber: 3.2 Consensus size: 37
60128 GGGATGTTAC
* * *
60138 ACAATTTT-TTTAAAAACCAATTTTGTCTCGCTTGAG
1 ACAATTTTCTCTAAAAACAAATTTTGTCTCACTTGAG
*
60174 ACAATTTTCTCTAAAAACAAAGTTTTTTCTCACTTGAG
1 ACAATTTTCTCTAAAAACAAA-TTTTGTCTCACTTGAG
* *
60212 ACAA-TTTCTCTCAAAACAAATTTAGTCTCACTTGAG
1 ACAATTTTCTCTAAAAACAAATTTTGTCTCACTTGAG
*
60248 ACATTTTTC
1 ACAATTTTC
60257 CTTTGTGATG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
36 25 0.35
37 29 0.40
38 18 0.25
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (37 bp):
ACAATTTTCTCTAAAAACAAATTTTGTCTCACTTGAG
Found at i:60883 original size:137 final size:137
Alignment explanation
Indices: 60637--61321 Score: 868
Period size: 137 Copynumber: 5.0 Consensus size: 137
60627 CTTGAAATAA
*
60637 ATTATCCCTAAAGATGGCCAAACATCCTCATCACGTAGGAACCGTGTCATCCACTGACCAGATCT
1 ATTATCCCTAAAGATGGCCAAACATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* * ** * ** * **
60702 CCTCATCATGTAGGAGCCGTGTCATCCTTAGATATTCATACTTCCTCATCGTGTAAGAACTATGT
66 CCTCATCACGTAGGAGCCGCGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTGT
*
60767 TATCTCT
131 TATCTCC
* * * **
60774 ATTATCCCTAAAGATTGTCAAACGTCCTCATCACGTAGGAACTATGTCATCCACCGACCAGATCT
1 ATTATCCCTAAAGATGGCCAAACATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* * * *
60839 CCTCATCACGTAGAAGCCGCATCATCCTTAGATAGCTAGACTTCCTCATCACGTAGGAACCGTGT
66 CCTCATCACGTAGGAGCCGCGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTGT
60904 TATCTCC
131 TATCTCC
* * **
60911 ATTATCCCTAAAGATGGTCAAACATCCTCATCACGTAAGAATTGTGTCATCCACCGACCAGATCT
1 ATTATCCCTAAAGATGGCCAAACATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* ** * * **
60976 CCTCATCACGTAGGAGTCGTATCATCCTTAGATAGCCAGACTTCCTCGTTGCGTAGGAACCGTGT
66 CCTCATCACGTAGGAGCCGCGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTGT
61041 TATCTCC
131 TATCTCC
* * *
61048 ATTATCCCTAAAGATAGCCAGACATCCTCATCACGTAGGAACCGTGTCATCCACCGACCATATCT
1 ATTATCCCTAAAGATGGCCAAACATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* ** * ** *
61113 CCTCATCATGTAGGAGCTACGTCATCCTTAGATAACCAGACTTTCTCATCATATAGGAACCGCGT
66 CCTCATCACGTAGGAGCCGCGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTGT
* *
61178 TATTTCT
131 TATCTCC
* * * **
61185 ATTATCCCTAAAGATGACC-AACGTCATCATCACGTAGGAACAATGTCATCCACCGACCAGATCT
1 ATTATCCCTAAAGATGGCCAAACATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* * * * *
61249 CCTCATTACGTAAGAGCAGCGTCATCTTTAGATAACCAGATTTCCTCATCACGTAGGAACCGTGT
66 CCTCATCACGTAGGAGCCGCGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTGT
*
61314 TGTCTCC
131 TATCTCC
61321 A
1 A
61322 AATTTACCTA
Statistics
Matches: 471, Mismatches: 77, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
136 98 0.21
137 373 0.79
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (137 bp):
ATTATCCCTAAAGATGGCCAAACATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
CCTCATCACGTAGGAGCCGCGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTGT
TATCTCC
Found at i:65052 original size:58 final size:59
Alignment explanation
Indices: 64990--65100 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 59
64980 GAAATATCAA
* *
64990 ATAAAAATTAAATTAAAAAT-AAATCAAA-GAAGGAAATATTAAATATT-GAAAATGTTAT
1 ATAAAAAAT-AATTAAAAATAAAAT-AAATGAAGAAAATATTAAATATTAGAAAATGTTAT
** *
65048 ATAAAAAATGTTTAAAAATAAAATAAATGAAGAAAATATTAAATTTTAGAAAA
1 ATAAAAAATAATTAAAAATAAAATAAATGAAGAAAATATTAAATATTAGAAAA
65101 GAAAAATAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 11 0.24
58 29 0.64
59 5 0.11
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (59 bp):
ATAAAAAATAATTAAAAATAAAATAAATGAAGAAAATATTAAATATTAGAAAATGTTAT
Found at i:65271 original size:18 final size:18
Alignment explanation
Indices: 65250--65292 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
65240 AGGGTTTTTA
*
65250 AAATAAAA-AATATTAATT
1 AAATAAAAGAA-AATAATT
65268 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAATAATT
65286 AAATAAA
1 AAATAAA
65293 TAATCTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAAAGAAAATAATT
Found at i:66922 original size:123 final size:123
Alignment explanation
Indices: 66708--66942 Score: 292
Period size: 123 Copynumber: 1.9 Consensus size: 123
66698 ATTGTAGGTG
* * *
66708 GCTCCTTCGTTGTGAAGCTGAGCTTTAAATTGGATATCCTTCATTGTGAACTTGAAATCCAATCT
1 GCTCATTCGCTGTGAAGCTGAGCTTTAAATTGGATATCCTTCATTGTGAACTTCAAATCCAATCT
* * *
66773 TGTAAATTGAATCGCTTTGAGATTAATATATTTCGC-TGTGAAGTTGAAATTATGGATA
66 TGAAAATTGAATCGCTTCGAGATTAATATACTTC-CATGTGAAGTTGAAATTATGGATA
* * * * * * *
66831 GCTCATTCGCTGTGAAGTTGAGTTTTGAATTGGATGTCCTTCGTTGTGAAGTTCAAATCTAATCT
1 GCTCATTCGCTGTGAAGCTGAGCTTTAAATTGGATATCCTTCATTGTGAACTTCAAATCCAATCT
* * * * *
66896 TGAAAATTGCATTGGTTCGAGTTTAATATCCTTCCATGTGAAGTTGA
66 TGAAAATTGAATCGCTTCGAGATTAATATACTTCCATGTGAAGTTGA
66943 CATTGACTCT
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
122 1 0.01
123 92 0.99
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (123 bp):
GCTCATTCGCTGTGAAGCTGAGCTTTAAATTGGATATCCTTCATTGTGAACTTCAAATCCAATCT
TGAAAATTGAATCGCTTCGAGATTAATATACTTCCATGTGAAGTTGAAATTATGGATA
Found at i:74388 original size:5 final size:5
Alignment explanation
Indices: 74380--74503 Score: 76
Period size: 5 Copynumber: 23.4 Consensus size: 5
74370 TCATAAAAGA
* * *
74380 AAAAT AAAA- AAAAT ATAAA- AAAAT ATTAA- AAGAG AAAAT AAAAAT
1 AAAAT AAAAT AAAAT A-AAAT AAAAT A-AAAT AAAAT AAAAT -AAAAT
*
74425 AAAAT AAAAT AAAAT AAAAT AAAA- AATAAGT GGAAAAAT AAAAAT AAAAC
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AA-T ---AAAAT -AAAAT AAAAT
*
74475 AAAAT AAAAT AAAGTAT TAAAT AAAAT AA
1 AAAAT AAAAT AAA--AT AAAAT AAAAT AA
74504 TAAATAATAG
Statistics
Matches: 96, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
4 10 0.10
5 61 0.64
6 16 0.17
7 4 0.04
8 1 0.01
9 2 0.02
10 2 0.02
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:74388 original size:11 final size:10
Alignment explanation
Indices: 74372--74487 Score: 79
Period size: 11 Copynumber: 10.5 Consensus size: 10
74362 ATTAAATTTC
74372 ATAAAAGAAAA
1 ATAAAA-AAAA
74383 ATAAAAAAAA
1 ATAAAAAAAA
74393 TATAAAAAAATA
1 -ATAAAAAAA-A
*
74405 TTAAAAGAGAAA
1 ATAAAA-A-AAA
74417 ATAAAAATAAA
1 ATAAAAA-AAA
*
74428 ATAAAATAAA
1 ATAAAAAAAA
74438 ATAAAATAAAAA
1 AT-AAA-AAAAA
**
74450 ATAAGTGGAAAA
1 ATAA--AAAAAA
74462 ATAAAAATAAA
1 ATAAAAA-AAA
* *
74473 ACAAAATAAA
1 ATAAAAAAAA
74483 ATAAA
1 ATAAA
74488 GTATTAAATA
Statistics
Matches: 84, Mismatches: 12, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
10 17 0.20
11 43 0.51
12 22 0.26
13 2 0.02
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (10 bp):
ATAAAAAAAA
Found at i:74497 original size:45 final size:42
Alignment explanation
Indices: 74338--74498 Score: 141
Period size: 45 Copynumber: 3.8 Consensus size: 42
74328 AAAATGTTTA
* * * *** * *
74338 AAAAATAAAATAAAT-GAAGAAAATATTAAATTTCATAAAAG
1 AAAAATAAAAAAAATAAAATAAAATATTAAATAAGAGAAAAT
74379 AAAAATAAAAAAAATATAAA-AAAATATT-AA-AAGAGAAAAT
1 AAAAATAAAAAAAATA-AAATAAAATATTAAATAAGAGAAAAT
** *
74419 AAAAATAAAATAAAATAAAATAAAATAAAAAATAAGTGGAAAAAT
1 AAAAATAAAA-AAAATAAAATAAAATATTAAATAAG-AG-AAAAT
*
74464 AAAAATAAAACAAAATAAAATAAAGTATTAAATAA
1 AAAAATAAAA-AAAATAAAATAAAATATTAAATAA
74499 AATAATAAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
40 18 0.18
41 28 0.29
42 10 0.10
43 5 0.05
44 1 0.01
45 36 0.37
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (42 bp):
AAAAATAAAAAAAATAAAATAAAATATTAAATAAGAGAAAAT
Found at i:74572 original size:18 final size:18
Alignment explanation
Indices: 74551--74593 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
74541 GTTGTTTTTA
74551 AAATAAAA-GATAAGAATT
1 AAATAAAAGGA-AAGAATT
*
74569 AAATAAAAGGAAATAATT
1 AAATAAAAGGAAAGAATT
74587 AAATAAA
1 AAATAAA
74594 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (18 bp):
AAATAAAAGGAAAGAATT
Found at i:76746 original size:22 final size:22
Alignment explanation
Indices: 76704--76746 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
76694 AACGCGTTCA
* *
76704 GATCGTTTCAAAATTGTGATTG
1 GATCGTTTCAAAATCGCGATTG
76726 GATCGTTTCAAAATCGCGATT
1 GATCGTTTCAAAATCGCGATT
76747 CGGTACATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (22 bp):
GATCGTTTCAAAATCGCGATTG
Found at i:79576 original size:3 final size:3
Alignment explanation
Indices: 79568--79644 Score: 127
Period size: 3 Copynumber: 25.7 Consensus size: 3
79558 TTAATATATT
* * *
79568 TAA TAA TAA TAG TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
79616 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
79645 TGGATAAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:80213 original size:113 final size:113
Alignment explanation
Indices: 79961--80853 Score: 1554
Period size: 113 Copynumber: 7.9 Consensus size: 113
79951 AGAATTATGC
* * * *
79961 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
80026 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
*
80073 AAAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
80138 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
* *
80186 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATAAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
80251 TATGAACTTTCTCTGGAAAAGCTGATCTCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
80299 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
80364 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
80412 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
80477 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
*
80525 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
80590 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
*
80638 AAAAGGTTGAACAAATTCTTGTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
80703 TATGAACTTTCTCTGGAAAAGCTGATCTCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
*
80751 AAAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* **
80816 TATGAACTTTCTCTGGAAAAGCTAATCTTTCAAATGAT
66 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGAT
80854 AGACTTGAAT
Statistics
Matches: 751, Mismatches: 29, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
112 68 0.09
113 683 0.91
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
Found at i:81889 original size:83 final size:82
Alignment explanation
Indices: 81702--82068 Score: 680
Period size: 82 Copynumber: 4.5 Consensus size: 82
81692 CATACCAAAC
*
81702 CAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
81767 GTTCTGTCCAACCAGAT
66 GTTCTGTCCAACCAGAT
*
81784 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
*
81849 GATTCTGTCCAATCAGAT
66 G-TTCTGTCCAACCAGAT
81867 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
81932 GTTCTGTCCAACCAGAT
66 GTTCTGTCCAACCAGAT
*
81949 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
82014 GGTTCTGTCCAACCAGAT
66 -GTTCTGTCCAACCAGAT
82032 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
82069 AGTCTCTTTC
Statistics
Matches: 277, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
82 143 0.52
83 134 0.48
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.28
Consensus pattern (82 bp):
CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
GTTCTGTCCAACCAGAT
Found at i:81974 original size:165 final size:165
Alignment explanation
Indices: 81702--82068 Score: 689
Period size: 165 Copynumber: 2.2 Consensus size: 165
81692 CATACCAAAC
*
81702 CAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
81767 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATC
66 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATC
* *
81832 TTCTAAACTCAATGCTTGATTCTGTCCAATCAGAT
131 TTCTAAACTCAATGATTGATTCTGTCCAACCAGAT
81867 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
81932 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATC
66 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATC
* *
81997 TTCTAAATTCAATGATTGGTTCTGTCCAACCAGAT
131 TTCTAAACTCAATGATTGATTCTGTCCAACCAGAT
82032 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
82069 AGTCTCTTTC
Statistics
Matches: 197, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
165 197 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.28
Consensus pattern (165 bp):
CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATC
TTCTAAACTCAATGATTGATTCTGTCCAACCAGAT
Found at i:82862 original size:19 final size:16
Alignment explanation
Indices: 82838--82901 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
82828 ATCATAGAAG
82838 AATAAATTGAATTTCCAAA
1 AATAAATTGAATTT-C--A
* *
82857 AATAAATTAAATCTCA
1 AATAAATTGAATTTCA
*
82873 AATAAATTGAATTTGA
1 AATAAATTGAATTTCA
*
82889 AATAAATAGAATT
1 AATAAATTGAATT
82902 GTATTCAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 26 0.67
18 1 0.03
19 12 0.31
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (16 bp):
AATAAATTGAATTTCA
Found at i:83224 original size:9 final size:9
Alignment explanation
Indices: 83210--83270 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
83200 ACCCTCCTTT
83210 TTCTTTTTC
1 TTCTTTTTC
83219 TTCTTTTTC
1 TTCTTTTTC
83228 -TCTTTTTTC
1 TTC-TTTTTC
83237 TT-TTTTT-
1 TTCTTTTTC
*
83244 TTCTATTTTT
1 TTCT-TTTTC
83254 TTC-TTTTC
1 TTCTTTTTC
83262 TTTCTTTTT
1 -TTCTTTTT
83271 TTTTCTTCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
7 2 0.05
8 12 0.27
9 22 0.50
10 8 0.18
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:83244 original size:19 final size:18
Alignment explanation
Indices: 83207--83277 Score: 83
Period size: 17 Copynumber: 4.0 Consensus size: 18
83197 TTGACCCTCC
*
83207 TTTTTC-TTTTTCTTCTT
1 TTTTTCTTTTTTTTTCTT
* *
83224 TTTCTCTTTTTTCTT-TT
1 TTTTTCTTTTTTTTTCTT
*
83241 TTTTTCTATTTTTTTCTT
1 TTTTTCTTTTTTTTTCTT
83259 TTCTTTCTTTTTTTTTCTT
1 TT-TTTCTTTTTTTTTCTT
83278 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
17 19 0.41
18 12 0.26
19 15 0.33
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTCTT
Found at i:83254 original size:29 final size:28
Alignment explanation
Indices: 83208--83278 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
83198 TGACCCTCCT
83208 TTTTCTTTTTCTTCTTTTTCTCTTT-TTTC
1 TTTT-TTTTTCTTCTTTTTCT-TTTCTTTC
*
83237 TTTTTTTTTCTATTTTTTTCTTTTCTTTC
1 TTTTTTTTTCT-TCTTTTTCTTTTCTTTC
83266 TTTTTTTTTCTTC
1 TTTTTTTTTCTTC
83279 AAGCATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
28 11 0.29
29 27 0.71
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (28 bp):
TTTTTTTTTCTTCTTTTTCTTTTCTTTC
Found at i:96060 original size:3 final size:3
Alignment explanation
Indices: 96052--96162 Score: 168
Period size: 3 Copynumber: 36.7 Consensus size: 3
96042 TTAATATATT
* * *
96052 TAA TAA TAA TAG TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
96100 TAA TAA TAA TAA TAA TAAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
96146 TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
96163 TGGATAAAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
3 94 0.97
4 3 0.03
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:107624 original size:22 final size:20
Alignment explanation
Indices: 107574--107633 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 20
107564 TTTTGGTGCA
* *
107574 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATTCCCCCTT
107594 GAGGGAACCGATTCCCCCTT
1 GAGGGAACCGATTCCCCCTT
107614 GAAGGGAAACCGATTCCCCC
1 G-AGGG-AACCGATTCCCCC
107634 CCCCACAGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 19 0.53
21 4 0.11
22 13 0.36
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:122699 original size:24 final size:24
Alignment explanation
Indices: 122653--122747 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 24
122643 TATAATTTCA
*
122653 AAAATATATAATAAATATAGTTTTTG
1 AAAACATATAAT--ATATAGTTTTTG
122679 AAAACATATAATATATAGTTTTT-
1 AAAACATATAATATATAGTTTTTG
* *
122702 -TAA-A-A-AA-A-ACAGTTTTTG
1 AAAACATATAATATATAGTTTTTG
*
122720 AAAACATATAATATATAGTTTTTA
1 AAAACATATAATATATAGTTTTTG
122744 AAAA
1 AAAA
122748 ATTGGTTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
17 8 0.14
18 1 0.02
19 4 0.07
20 2 0.04
21 2 0.04
22 4 0.07
23 1 0.02
24 23 0.41
26 11 0.20
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (24 bp):
AAAACATATAATATATAGTTTTTG
Found at i:122747 original size:39 final size:39
Alignment explanation
Indices: 122669--122925 Score: 271
Period size: 39 Copynumber: 6.7 Consensus size: 39
122659 TATAATAAAT
122669 ATAGTTTTTGAAAACATATAATATATAGTTTTTTAAAAAAA
1 ATAGTTTTTGAAAACATATAATATATAG-TTTTT-AAAAAA
*
122710 ACAGTTTTTGAAAACATATAATATATAGTTTTTAAAAAA
1 ATAGTTTTTGAAAACATATAATATATAGTTTTTAAAAAA
* * * * *
122749 TTGGTTTTTAAAAACATAT-ATA-GTA--TTTT-AAAAC
1 ATAGTTTTTGAAAACATATAATATATAGTTTTTAAAAAA
* *
122783 ATA-TTTTTGAAAGA-ATATAATATATAATTTTTAGAAAA
1 ATAGTTTTTGAAA-ACATATAATATATAGTTTTTAAAAAA
* *
122821 ATGGTTTTTGAAAACATATAATACATAGTTTTTAAAAAA
1 ATAGTTTTTGAAAACATATAATATATAGTTTTTAAAAAA
* * * *
122860 A-GGGTTTTGAAAACATATAA-ATATAGTTTTTGAAAAT
1 ATAGTTTTTGAAAACATATAATATATAGTTTTTAAAAAA
*
122897 ATATTATTTTGAAAACATATATATATATA
1 ATAGT-TTTTGAAAACATATA-ATATATA
122926 TATATATAGT
Statistics
Matches: 180, Mismatches: 24, Indels: 24
0.79 0.11 0.11
Matches are distributed among these distances:
33 12 0.07
34 9 0.05
35 6 0.03
37 21 0.12
38 27 0.15
39 67 0.37
40 6 0.03
41 32 0.18
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.41
Consensus pattern (39 bp):
ATAGTTTTTGAAAACATATAATATATAGTTTTTAAAAAA
Found at i:122849 original size:111 final size:112
Alignment explanation
Indices: 122673--122925 Score: 307
Period size: 111 Copynumber: 2.2 Consensus size: 112
122663 ATAAATATAG
* *
122673 TTTTTGAAAACATATAATATATAGTTTTTTAAAAAAAACAGTTTTTGAAAACATATAATATATAG
1 TTTTTGAAAACATATAATATATAGATTTTTAAAAAAAACAGTTTTTGAAAACATATAATACATAG
* *
122738 TTTTTAAAAAATTGGTTTTTAAAAACATATATAGTATTTTAAAACATA
66 TTTTTAAAAAA-AGGGTTTTAAAAACATATATAGTATTTTAAAACATA
* **
122786 TTTTTGAAAGA-ATATAATATATA-ATTTTT-AGAAAAATGGTTTTTGAAAACATATAATACATA
1 TTTTTGAAA-ACATATAATATATAGATTTTTAAAAAAAACAGTTTTTGAAAACATATAATACATA
* *
122848 GTTTTTAAAAAAAGGGTTTTGAAAACATATAAATA-TAGTTTTTGAAAATATA
65 GTTTTTAAAAAAAGGGTTTTAAAAACATAT--ATAGTA--TTTT-AAAACATA
122900 TTATTTTGAAAACATATATATATATA
1 -T-TTTTGAAAACATATA-ATATATA
122926 TATATATAGT
Statistics
Matches: 121, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
110 15 0.12
111 43 0.36
112 8 0.07
113 25 0.21
114 8 0.07
115 2 0.02
116 13 0.11
117 7 0.06
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.41
Consensus pattern (112 bp):
TTTTTGAAAACATATAATATATAGATTTTTAAAAAAAACAGTTTTTGAAAACATATAATACATAG
TTTTTAAAAAAAGGGTTTTAAAAACATATATAGTATTTTAAAACATA
Found at i:122888 original size:22 final size:21
Alignment explanation
Indices: 122863--122923 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 21
122853 TAAAAAAAGG
122863 GTTTTGAAAACATATAAATATA
1 GTTTTGAAAACATAT-AATATA
122885 GTTTTTG-AAA-ATAT-AT-TA
1 G-TTTTGAAAACATATAATATA
122903 -TTTTGAAAACATATATATATA
1 GTTTTGAAAACATATA-ATATA
122924 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
16 5 0.15
17 3 0.09
18 6 0.18
19 2 0.06
20 2 0.06
21 6 0.18
22 4 0.12
23 5 0.15
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (21 bp):
GTTTTGAAAACATATAATATA
Found at i:122898 original size:15 final size:16
Alignment explanation
Indices: 122878--122911 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
122868 GAAAACATAT
122878 AAATATAGT-TTTTGA
1 AAATATAGTATTTTGA
*
122893 AAATATATTATTTTGA
1 AAATATAGTATTTTGA
122909 AAA
1 AAA
122912 CATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
AAATATAGTATTTTGA
Found at i:122908 original size:16 final size:15
Alignment explanation
Indices: 122878--122916 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
122868 GAAAACATAT
*
122878 AAATATAGTTTTTGA
1 AAATATATTTTTTGA
122893 AAATATATTATTTTGA
1 AAATATATT-TTTTGA
*
122909 AAACATAT
1 AAATATAT
122917 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (15 bp):
AAATATATTTTTTGA
Found at i:123002 original size:31 final size:29
Alignment explanation
Indices: 122949--123006 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
122939 TTAAAAACAA
*
122949 TTTTTTAAATATAATATATATTATATAGT
1 TTTTTTAAATATAACATATATTATATAGT
*
122978 TTTTTTTAATATACACATATTATTATATA
1 TTTTTTAAATATA-ACATA-TATTATATA
123007 TTATCATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 12 0.48
30 4 0.16
31 9 0.36
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (29 bp):
TTTTTTAAATATAACATATATTATATAGT
Found at i:127785 original size:21 final size:22
Alignment explanation
Indices: 127750--127831 Score: 80
Period size: 21 Copynumber: 3.7 Consensus size: 22
127740 CAGAACTCAT
*
127750 GGGGGTATCGATTCCC-T-AAA
1 GGGGGAATCGATTCCCATCAAA
*
127770 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGATTCCCA-TCAAA
*
127794 GGGGGAATCGATTCCCCTTC-AA
1 GGGGGAATCGATT-CCCATCAAA
*
127816 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
127832 TCTTCACTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
20 2 0.04
21 15 0.29
22 14 0.27
23 13 0.25
24 8 0.15
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (22 bp):
GGGGGAATCGATTCCCATCAAA
Found at i:127803 original size:23 final size:23
Alignment explanation
Indices: 127750--127831 Score: 91
Period size: 22 Copynumber: 3.7 Consensus size: 23
127740 CAGAACTCAT
*
127750 GGGGGTATCGATTCCC--T-AAA
1 GGGGGAATCGATTCCCATTCAAA
*
127770 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGATTCCCATTCAAA
*
127794 GGGGGAATCGATTCCCCTTC-AA
1 GGGGGAATCGATTCCCATTCAAA
*
127816 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
127832 TCTTCACTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
20 2 0.04
21 12 0.23
22 17 0.32
23 17 0.32
24 5 0.09
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGATTCCCATTCAAA
Found at i:127836 original size:23 final size:22
Alignment explanation
Indices: 127750--127837 Score: 90
Period size: 23 Copynumber: 4.0 Consensus size: 22
127740 CAGAACTCAT
* *
127750 GGGGGTATCGATT-CCC-TAAA
1 GGGGGAATCGATTCCCCTTCAA
* *
127770 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGATTCCCCTTC-AA
127794 GGGGGAATCGATTCCCCTTCAA
1 GGGGGAATCGATTCCCCTTCAA
*
127816 GGGGGTATCGATTCCCTCTTCA
1 GGGGGAATCGATTCCC-CTTCA
127838 CTAAAACTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.04
21 9 0.16
22 19 0.34
23 22 0.39
24 4 0.07
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:131922 original size:117 final size:117
Alignment explanation
Indices: 131681--131922 Score: 269
Period size: 117 Copynumber: 2.1 Consensus size: 117
131671 ACTTTCAAAT
*
131681 ATAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATT
1 ATAAA-TTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATT
* * * * *
131746 TCATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTG
65 TCATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGATTATTT-ATTAG
* * * *
131800 A-AAATTTCTTTTTCAA-AGTTTTCAAATTTTATTTTTGAAAGCTCTAACTCTTTC-TCAACATT
1 ATAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATT
* * **
131862 TCATTTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAGATTATTT-TTAG
65 TCATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAGATTATTTATTAG
131914 CAATAAATT
1 --ATAAATT
131923 CATAAATCAA
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
114 3 0.03
116 44 0.42
117 53 0.51
118 3 0.03
119 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (117 bp):
ATAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGATTATTTATTAG
Found at i:134117 original size:18 final size:18
Alignment explanation
Indices: 134096--134130 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
134086 TTTCCTATTT
*
134096 TTATTTCCTTTCTTTGTC
1 TTATTTCCTTTATTTGTC
*
134114 TTATTTCTTTTATTTGT
1 TTATTTCCTTTATTTGT
134131 ATTTTTATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.14, G:0.06, T:0.71
Consensus pattern (18 bp):
TTATTTCCTTTATTTGTC
Found at i:136724 original size:24 final size:24
Alignment explanation
Indices: 136692--136748 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
136682 CAACTGTTGT
* *
136692 AAAAGCACAAACTCCATCTGCTGC
1 AAAAGCACAAACTCCATCTACTAC
* * *
136716 AAAAGCACAAGCTTCGTCTACTAC
1 AAAAGCACAAACTCCATCTACTAC
136740 AAAAGCACA
1 AAAAGCACA
136749 TGGCACTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.16
Consensus pattern (24 bp):
AAAAGCACAAACTCCATCTACTAC
Found at i:137615 original size:13 final size:12
Alignment explanation
Indices: 137599--137706 Score: 65
Period size: 13 Copynumber: 8.6 Consensus size: 12
137589 TTTGCGCTTT
137599 TTTCTTTGTTTTC
1 TTTCTTT-TTTTC
* **
137612 TTTCTCCTTGCTC
1 TTTCT-TTTTTTC
*
137625 TTTCTTTTTGCTC
1 TTTCTTTTT-TTC
*
137638 TTTGTTTTTTTC
1 TTTCTTTTTTTC
*
137650 TTTGCTTCTTTTC
1 TTT-CTTTTTTTC
*
137663 TCTCTTTTTTTC
1 TTTCTTTTTTTC
*
137675 TTTGCTCTTTTT-
1 TTT-CTTTTTTTC
* *
137687 TTGCTTGTTTTC
1 TTTCTTTTTTTC
137699 TTTGCTTT
1 TTT-CTTT
137707 GATTTGATCT
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
11 6 0.08
12 21 0.30
13 43 0.61
14 1 0.01
ACGTcount: A:0.00, C:0.20, G:0.08, T:0.71
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:137670 original size:25 final size:25
Alignment explanation
Indices: 137642--137705 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
137632 TTGCTCTTTG
137642 TTTTTTTCTTTGCTTCTTTTCTCT-C
1 TTTTTTTCTTTGCTTCTTTT-TCTGC
*
137667 TTTTTTTCTTTGC-TCTTTTTTTGC
1 TTTTTTTCTTTGCTTCTTTTTCTGC
*
137691 TTGTTTTCTTTGCTT
1 TTTTTTTCTTTGCTT
137706 TGATTTGATC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.54
25 14 0.40
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (25 bp):
TTTTTTTCTTTGCTTCTTTTTCTGC
Found at i:137675 original size:17 final size:16
Alignment explanation
Indices: 137655--137688 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
137645 TTTTCTTTGC
*
137655 TTCTTTTCTCTCTTTTT
1 TTCTTTGCTCT-TTTTT
137672 TTCTTTGCTCTTTTTT
1 TTCTTTGCTCTTTTTT
137688 T
1 T
137689 GCTTGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (16 bp):
TTCTTTGCTCTTTTTT
Found at i:137689 original size:11 final size:12
Alignment explanation
Indices: 137645--137704 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
137635 CTCTTTGTTT
137645 TTTTCTTTGCTTC
1 TTTTCTTTGC-TC
* *
137658 TTTTCTCT-CTTT
1 TTTTCTTTGC-TC
137670 TTTTCTTTGCTC
1 TTTTCTTTGCTC
*
137682 TTTT-TTTGCTTG
1 TTTTCTTTGC-TC
137694 TTTTCTTTGCT
1 TTTTCTTTGCT
137705 TTGATTTGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 5 0.13
12 21 0.54
13 13 0.33
ACGTcount: A:0.00, C:0.20, G:0.08, T:0.72
Consensus pattern (12 bp):
TTTTCTTTGCTC
Found at i:137698 original size:36 final size:38
Alignment explanation
Indices: 137627--137699 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 38
137617 CCTTGCTCTT
* *
137627 TCTTTTTGCTCTTTGTTTTTTTCTTTGCTTCTTTTCTC
1 TCTTTTTGCTCTTTGCTCTTTTCTTTGCTTCTTTTCTC
* *
137665 TCTTTTT-TTCTTTGCTCTTTT-TTTGCTTGTTTTCT
1 TCTTTTTGCTCTTTGCTCTTTTCTTTGCTTCTTTTCT
137700 TTGCTTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 13 0.42
37 11 0.35
38 7 0.23
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (38 bp):
TCTTTTTGCTCTTTGCTCTTTTCTTTGCTTCTTTTCTC
Found at i:139610 original size:32 final size:32
Alignment explanation
Indices: 139574--139635 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
139564 CATGCCTTAA
* *
139574 TTAAATAGTAATCTTACCCAAACATGCTCTAG
1 TTAAATAGTAACCCTACCCAAACATGCTCTAG
*
139606 TTAAATAGTAACCCTACCCAGACATGCTCT
1 TTAAATAGTAACCCTACCCAAACATGCTCT
139636 CTACCCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (32 bp):
TTAAATAGTAACCCTACCCAAACATGCTCTAG
Found at i:141351 original size:30 final size:29
Alignment explanation
Indices: 141316--141544 Score: 211
Period size: 30 Copynumber: 7.9 Consensus size: 29
141306 CTTGAGAACC
*
141316 AAAATAGCAAAAATAGAAACTTAAAGGACT
1 AAAATAG-AAAAACAGAAACTTAAAGGACT
* * *
141346 AAAATAGTAAAAACAAAAACATAAGGGACT
1 AAAATAG-AAAAACAGAAACTTAAAGGACT
* *
141376 AAAATAG-TAAA-A-AAACTTAAGGGACT
1 AAAATAGAAAAACAGAAACTTAAAGGACT
* * *
141402 AAAATAG-AATACAGACATTTAAAGGACT
1 AAAATAGAAAAACAGAAACTTAAAGGACT
* *
141430 AAAATAGAAAAATATAAACTT-AAGAGACT
1 AAAATAGAAAAACAGAAACTTAAAG-GACT
* *
141459 AAAATAGAAAAAACAAAAACTTAAGGGACT
1 AAAATAG-AAAAACAGAAACTTAAAGGACT
* *
141489 AAAATAACAAAAACAGAAAATTAAAGGACT
1 AAAAT-AGAAAAACAGAAACTTAAAGGACT
*
141519 AAAATA-ACAAAA-AAAAACTTAAAGGA
1 AAAATAGA-AAAACAGAAACTTAAAGGA
141545 TCGAAAAGTA
Statistics
Matches: 165, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
26 22 0.13
27 2 0.01
28 37 0.22
29 24 0.15
30 77 0.47
31 3 0.02
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.16
Consensus pattern (29 bp):
AAAATAGAAAAACAGAAACTTAAAGGACT
Found at i:142157 original size:2 final size:2
Alignment explanation
Indices: 142150--142182 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
142140 TCCAGAACGA
*
142150 AG AG AG AG AG AG AG A- AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
142183 TTGAGAACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:142168 original size:15 final size:15
Alignment explanation
Indices: 142148--142182 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
142138 TTTCCAGAAC
142148 GAAGAGAGAGAGAGA
1 GAAGAGAGAGAGAGA
142163 GAAGAGAGAGAGAGA
1 GAAGAGAGAGAGAGA
142178 -AAGAG
1 GAAGAG
142183 TTGAGAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (15 bp):
GAAGAGAGAGAGAGA
Found at i:142188 original size:13 final size:13
Alignment explanation
Indices: 142152--142182 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
142142 CAGAACGAAG
142152 AGAGAGAGAGAGA
1 AGAGAGAGAGAGA
142165 AGAGAGAGAGAGA
1 AGAGAGAGAGAGA
142178 A-AGAG
1 AGAGAG
142183 TTGAGAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (13 bp):
AGAGAGAGAGAGA
Found at i:143075 original size:3 final size:3
Alignment explanation
Indices: 143067--143095 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
143057 TAAACAAAAT
143067 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
143096 TTTTTGGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:144092 original size:35 final size:35
Alignment explanation
Indices: 144046--144121 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
144036 AAAACAGTCC
* *
144046 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
144081 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
144116 TCAATT
1 TCAATT
144122 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:144664 original size:130 final size:130
Alignment explanation
Indices: 144518--144765 Score: 433
Period size: 130 Copynumber: 1.9 Consensus size: 130
144508 TATTTATATA
* **
144518 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
*
144583 TTAGCACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
144648 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
144713 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
144766 GAAGAAAATT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 111 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:144796 original size:130 final size:129
Alignment explanation
Indices: 144532--144796 Score: 318
Period size: 130 Copynumber: 2.0 Consensus size: 129
144522 ATTTGGTCCT
* ** *
144532 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
*** * * **** *
144597 TGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
144662 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
144727 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
144791 -A
128 CA
144792 AAATT
1 AAATT
144797 TGGGTCTTGG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
130 101 0.89
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:145117 original size:28 final size:27
Alignment explanation
Indices: 145086--145148 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
145076 AGTTGATACA
*
145086 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
145114 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
145142 ATATTTT
1 ATATTTT
145149 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:145247 original size:16 final size:18
Alignment explanation
Indices: 145226--145258 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
145216 ATTTCTTATT
145226 AAAATA-AAAT-ATTCAA
1 AAAATATAAATGATTCAA
145242 AAAATATAAATGATTCA
1 AAAATATAAATGATTCA
145259 TACATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (18 bp):
AAAATATAAATGATTCAA
Found at i:151308 original size:21 final size:21
Alignment explanation
Indices: 151278--151484 Score: 151
Period size: 21 Copynumber: 10.0 Consensus size: 21
151268 GATTTACATA
*
151278 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
151299 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
151320 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
151341 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
151360 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
151383 TT--TGTTGCAATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * * *
151402 TTCGTGTTGCGATTTACTACAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
151425 TT--CGTTGCGATAGTCAAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
151444 TTCGCGTTACGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
151467 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
151485 AATCGCAACG
Statistics
Matches: 144, Mismatches: 30, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
19 39 0.27
21 80 0.56
23 25 0.17
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:151330 original size:42 final size:41
Alignment explanation
Indices: 151303--151484 Score: 258
Period size: 42 Copynumber: 4.4 Consensus size: 41
151293 TCCAAGTTCG
*
151303 CGTTGCGATAGTCGAAGTTCGCGTTGCGATT-TTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTATTCCAAATT
151343 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATT
* * * * *
151385 TGTTGCAATAGTCCAAGTTCGTGTTGCGATTTACTACAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATT
* *
151427 CGTTGCGATAGTCAAAGTTCGCGTTACGATTTATTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATT
151469 CGTTGCGATAGTCCAA
1 CGTTGCGATAGTCCAA
151485 AATCGCAACG
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 28 0.22
41 2 0.02
42 96 0.76
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (41 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCGATTATTCCAAATT
Found at i:151978 original size:21 final size:22
Alignment explanation
Indices: 151948--151992 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
151938 GTTATCTTGT
*
151948 AATTACAATTA-ATTGAAAA-TA
1 AATTAAAATTACA-TGAAAACTA
151969 AATTAAAATTACATGAAAACTA
1 AATTAAAATTACATGAAAACTA
151991 AA
1 AA
151993 CAAACCACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (22 bp):
AATTAAAATTACATGAAAACTA
Found at i:152387 original size:21 final size:21
Alignment explanation
Indices: 152363--152558 Score: 147
Period size: 21 Copynumber: 9.4 Consensus size: 21
152353 TTTAAAATAA
*
152363 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* *
152384 ATCGCAA--CGAACTTGAAAT
1 ATCGCAACGCGAACTTGGACT
* * *
152403 AAATCACAACGCGAACTTCGAGT
1 --ATCGCAACGCGAACTTGGACT
* *
152426 ATCGCAA--CAAACTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
152445 AAATCGCAACGCAAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
*
152468 ATCGCAA--CAAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
152487 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* * *
152508 ATCGCAA--CGAATTTGAAAT
1 ATCGCAACGCGAACTTGGACT
152527 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
*
152550 ATCACAACG
1 ATCGCAACG
152559 AATTTAGAAA
Statistics
Matches: 139, Mismatches: 22, Indels: 28
0.74 0.12 0.15
Matches are distributed among these distances:
19 45 0.32
21 65 0.47
23 29 0.21
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:152563 original size:42 final size:42
Alignment explanation
Indices: 152338--152560 Score: 306
Period size: 42 Copynumber: 5.4 Consensus size: 42
152328 TGCGATTTTG
* *
152338 GACTATCGCAACGAATTTAAAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTC
*
152380 GACTATCGCAACGAACTTGAAATAAATCACAACGCGAACTTC
1 GACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTC
* * * * *
152422 GAGTATCGCAACAAACTTGGAATAAATCGCAACGCAAACTTG
1 GACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTC
* * *
152464 GACTATCGCAACAAACTTGGACT--ATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTC
* *
152504 GACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTC
*
152546 GACTATCACAACGAA
1 GACTATCGCAACGAA
152561 TTTAGAAAAT
Statistics
Matches: 160, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
40 34 0.21
42 126 0.79
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTC
Found at i:160091 original size:38 final size:38
Alignment explanation
Indices: 160049--160134 Score: 172
Period size: 38 Copynumber: 2.3 Consensus size: 38
160039 TTTAACCAAT
160049 CTACCATGTCATCCGCCATGTTAATCTACCACCCTGGA
1 CTACCATGTCATCCGCCATGTTAATCTACCACCCTGGA
160087 CTACCATGTCATCCGCCATGTTAATCTACCACCCTGGA
1 CTACCATGTCATCCGCCATGTTAATCTACCACCCTGGA
160125 CTACCATGTC
1 CTACCATGTC
160135 TGCACCGTGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.23, C:0.37, G:0.13, T:0.27
Consensus pattern (38 bp):
CTACCATGTCATCCGCCATGTTAATCTACCACCCTGGA
Found at i:162600 original size:20 final size:21
Alignment explanation
Indices: 162572--162621 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 21
162562 CAATTATTAA
*
162572 ATATCTAATAATTTTA-ATTT
1 ATATATAATAATTTTACATTT
162592 ATATATAATAATTTTATGCATTT
1 ATATATAATAATTTTA--CATTT
162615 ATATATA
1 ATATATA
162622 GGGTTGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 15 0.58
23 11 0.42
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATATAATAATTTTACATTT
Found at i:162751 original size:28 final size:28
Alignment explanation
Indices: 162715--162768 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
162705 TAAAAGTTTA
* * *
162715 CGAGTTTAAAATTTTTAAGCTTAACTTG
1 CGAGGTTAAAATTGTTAAGCTCAACTTG
162743 CGAGGTTAAAATTGTTAAGCTCAACT
1 CGAGGTTAAAATTGTTAAGCTCAACT
162769 CGAAATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (28 bp):
CGAGGTTAAAATTGTTAAGCTCAACTTG
Found at i:166237 original size:37 final size:37
Alignment explanation
Indices: 166182--166289 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
166172 AAACAAACAT
*
166182 TAGAGTTTTAGTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
* * *
166219 TAGAATTTTACTAGGATTCAAACTCCTAAAAAAATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
166256 TAGAGTTTTACTATGATTCAAACTCCTAAAAATA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATA
166290 GGTTCCACAA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (37 bp):
TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
Found at i:166846 original size:2 final size:2
Alignment explanation
Indices: 166839--166863 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
166829 ATTTTTAGAT
166839 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
166864 TATTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:166895 original size:40 final size:34
Alignment explanation
Indices: 166851--166944 Score: 93
Period size: 40 Copynumber: 2.6 Consensus size: 34
166841 TATATATATA
166851 TATATATATATATTATTTTTTATTATCTGCTTTATTAATT
1 TATATATATATATTATTTTTT-TTA--TG-TTT-TT-ATT
*
166891 TATATATATAT-TTACTAGTTTTTTATGTTTTTATT
1 TATATATATATATTA-T-TTTTTTTATGTTTTTATT
166926 TAT-TATATATATTATTTTT
1 TATATATATATATTATTTTT
166945 ACTTTTTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
33 3 0.06
34 8 0.16
35 9 0.18
36 2 0.04
37 3 0.06
38 2 0.04
39 3 0.06
40 15 0.31
41 4 0.08
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (34 bp):
TATATATATATATTATTTTTTTTATGTTTTTATT
Found at i:166951 original size:38 final size:39
Alignment explanation
Indices: 166881--166954 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
166871 TATTATCTGC
*
166881 TTTATTAATTTATATATATATTTACTAGTTTTTTATGTT
1 TTTATTAATTTATATATATATTTACTACTTTTTTATGTT
* *
166920 TTTATTTA-TTATATATATTATTT-TTACTTTTTTAT
1 TTTATTAATTTATATATA-TATTTACTACTTTTTTAT
166955 TATTATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 19 0.61
39 12 0.39
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (39 bp):
TTTATTAATTTATATATATATTTACTACTTTTTTATGTT
Found at i:166961 original size:36 final size:37
Alignment explanation
Indices: 166890--166962 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 37
166880 CTTTATTAAT
* *
166890 TTATATATATATTTACTAGTTTTTTATGTTTTTATTTA
1 TTATATATATATTTACTACTTTTTTA-GTTATTATTTA
*
166928 TTATATATATTATTT-TTACTTTTTTA-TTATTATTT
1 TTATATATA-TATTTACTACTTTTTTAGTTATTATTT
166963 TATTTATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 8 0.26
38 18 0.58
39 5 0.16
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (37 bp):
TTATATATATATTTACTACTTTTTTAGTTATTATTTA
Found at i:167018 original size:49 final size:51
Alignment explanation
Indices: 166909--167016 Score: 123
Period size: 54 Copynumber: 2.1 Consensus size: 51
166899 TATTTACTAG
166909 TTTTTTATGTTTTTATTTATTATATATATTATTTTTACTTTTTTATTATTA
1 TTTTTTATGTTTTTATTTATTATATATATTATTTTTACTTTTTTATTATTA
* * * *
166960 TTTTATTTATTTGTTTTATTTA-TATATATTTTTTCTTTTTCTTTTTT-TTA-TA
1 -TTT-TTTATGT-TTTTATTTATTATATATATTAT-TTTTACTTTTTTATTATTA
167012 TTTTT
1 TTTTT
167017 ATATATATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
50 2 0.04
51 3 0.06
52 5 0.10
53 19 0.39
54 20 0.41
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (51 bp):
TTTTTTATGTTTTTATTTATTATATATATTATTTTTACTTTTTTATTATTA
Found at i:172573 original size:22 final size:21
Alignment explanation
Indices: 172531--172573 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
172521 GATGATTTTT
*
172531 CCTTTTTTTAATGGCCTCCTC
1 CCTTTTTTTAATGGCCCCCTC
172552 CCTTTTTTTAATGGACCCCCTC
1 CCTTTTTTTAATGG-CCCCCTC
172574 TTTGTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.12, C:0.35, G:0.09, T:0.44
Consensus pattern (21 bp):
CCTTTTTTTAATGGCCCCCTC
Found at i:172959 original size:26 final size:26
Alignment explanation
Indices: 172930--172988 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
172920 AAGGAATACC
*
172930 TGCAATCTAAAAATATATGTATGCAA
1 TGCAATCTAAAAATACATGTATGCAA
*
172956 TGCAATCTAAAAATACATGTATGTAA
1 TGCAATCTAAAAATACATGTATGCAA
172982 TGCAATC
1 TGCAATC
172989 AATCCCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.31
Consensus pattern (26 bp):
TGCAATCTAAAAATACATGTATGCAA
Found at i:173611 original size:23 final size:23
Alignment explanation
Indices: 173591--173646 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
173581 GGAGTATCGA
173591 TACACATTCAAGGAATGTATCAG
1 TACACATTCAAGGAATGTATCAG
173614 TACACATTCAAGGAATGTATCAG
1 TACACATTCAAGGAATGTATCAG
173637 TACACATTCA
1 TACACATTCA
173647 TAGAGTATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (23 bp):
TACACATTCAAGGAATGTATCAG
Found at i:175813 original size:16 final size:16
Alignment explanation
Indices: 175792--175823 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
175782 TGCATCACAG
*
175792 ATTTTATCTTTGTCAA
1 ATTTTAGCTTTGTCAA
175808 ATTTTAGCTTTGTCAA
1 ATTTTAGCTTTGTCAA
175824 CCCTCTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.12, G:0.09, T:0.53
Consensus pattern (16 bp):
ATTTTAGCTTTGTCAA
Found at i:179298 original size:18 final size:17
Alignment explanation
Indices: 179275--179308 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
179265 TAAAAGTCTC
*
179275 TTCTAATCATACATAGAT
1 TTCTAAACATA-ATAGAT
179293 TTCTAAACATAATAGA
1 TTCTAAACATAATAGA
179309 AATTGACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (17 bp):
TTCTAAACATAATAGAT
Found at i:181061 original size:101 final size:103
Alignment explanation
Indices: 180890--181126 Score: 282
Period size: 101 Copynumber: 2.3 Consensus size: 103
180880 TCATTTTCGA
* *
180890 ATTGACCTGATTTCCTCAACGAGAAGGAACAATGTTATATGAAAGCGGCCAGAACTCTTCAACAT
1 ATTGACCCGATTT-CTCAACGAGAAGGAACAACGTTATATGAAAGCGGCCAGAACTCTTCAACAT
* *
180955 GGATGAGCAGTGTCATCTTCAATACCAAATTATATTCAG
65 GGATGAGCAGTGTCATCTTCAACACCAAATTATATCCAG
* * * *
180994 ATTGACCCGATTTC-CAACGAGAGGGAACAACG-TATCTGAAAGTGGCCA-AGACTCTTTAACAT
1 ATTGACCCGATTTCTCAACGAGAAGGAACAACGTTATATGAAAGCGGCCAGA-ACTCTTCAACAT
* * * * * * *
181056 TGATGAGTATTTTCGTCTTCAACACTAAATTATCTCCAG
65 GGATGAGCAGTGTCATCTTCAACACCAAATTATATCCAG
*
181095 ATTGACCCGACTTCCTCAACGAGAAGGAACAA
1 ATTGACCCGA-TTTCTCAACGAGAAGGAACAA
181127 TGTCATCTTC
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
100 1 0.01
101 65 0.58
102 19 0.17
103 16 0.14
104 12 0.11
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (103 bp):
ATTGACCCGATTTCTCAACGAGAAGGAACAACGTTATATGAAAGCGGCCAGAACTCTTCAACATG
GATGAGCAGTGTCATCTTCAACACCAAATTATATCCAG
Found at i:181447 original size:13 final size:13
Alignment explanation
Indices: 181424--181462 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
181414 TTTCGTATGA
181424 AATTAATTATTATT
1 AATT-ATTATTATT
181438 AATTATTATTATT
1 AATTATTATTATT
*
181451 AAGTATTATTAT
1 AATTATTATTAT
181463 CATAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (13 bp):
AATTATTATTATT
Found at i:181627 original size:28 final size:28
Alignment explanation
Indices: 181587--181649 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
181577 AAATATAACC
181587 AAGCCCACCCGATTTTGATCCAGGAATA
1 AAGCCCACCCGATTTTGATCCAGGAATA
*
181615 AAGCCCGCCCGATTTTGATCCAGGAATA
1 AAGCCCACCCGATTTTGATCCAGGAATA
181643 AAGCCCA
1 AAGCCCA
181650 ATAGTAGACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (28 bp):
AAGCCCACCCGATTTTGATCCAGGAATA
Found at i:182377 original size:29 final size:28
Alignment explanation
Indices: 182330--182392 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
182320 TCGAAAAACC
182330 AAAAAGAAAAAAACAAGAGAA-AAAGAACG
1 AAAAAGAAAAAAACAAGAGAAGAAA-AA-G
** *
182359 AAAAAGAAAAACCCGAGAGAAGAAAAAG
1 AAAAAGAAAAAAACAAGAGAAGAAAAAG
182387 AAAAAG
1 AAAAAG
182393 CTCACCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 7 0.23
29 20 0.67
30 3 0.10
ACGTcount: A:0.73, C:0.08, G:0.19, T:0.00
Consensus pattern (28 bp):
AAAAAGAAAAAAACAAGAGAAGAAAAAG
Found at i:195522 original size:15 final size:12
Alignment explanation
Indices: 195485--195512 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
195475 TATATATTTT
195485 TAATATTTTTAA
1 TAATATTTTTAA
195497 TAATATTTTTAA
1 TAATATTTTTAA
195509 TAAT
1 TAAT
195513 TTAATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TAATATTTTTAA
Found at i:196737 original size:52 final size:52
Alignment explanation
Indices: 196680--196783 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
196670 TGAAAGATAG
196680 AGGTAAAGGGGATGAGGAGCAAGGTCTCAATGTTAAGGGAAAATAATATGGT
1 AGGTAAAGGGGATGAGGAGCAAGGTCTCAATGTTAAGGGAAAATAATATGGT
*
196732 AGGTAAAGGGGATGAGGAGCAAGGTCTCAATGTTAAGGGCAAATAATATGGT
1 AGGTAAAGGGGATGAGGAGCAAGGTCTCAATGTTAAGGGAAAATAATATGGT
196784 TTTAAAGGGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.21
Consensus pattern (52 bp):
AGGTAAAGGGGATGAGGAGCAAGGTCTCAATGTTAAGGGAAAATAATATGGT
Found at i:196981 original size:14 final size:14
Alignment explanation
Indices: 196962--196993 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
196952 GATGCATTTA
*
196962 GGCTCGTAATTTTT
1 GGCTCGCAATTTTT
196976 GGCTCGCAATTTTT
1 GGCTCGCAATTTTT
196990 GGCT
1 GGCT
196994 TTCAAATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.44
Consensus pattern (14 bp):
GGCTCGCAATTTTT
Found at i:197172 original size:38 final size:38
Alignment explanation
Indices: 197125--197207 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
197115 TTGAGAGCTC
197125 GCTCCTCATCTCCTCCACCTCTATCTTACATTTTTTCA
1 GCTCCTCATCTCCTCCACCTCTATCTTACATTTTTTCA
*
197163 GCTCCTCATCTCCTCCACCTTTATCTTACATTTTTTCA
1 GCTCCTCATCTCCTCCACCTCTATCTTACATTTTTTCA
197201 GCTCCTC
1 GCTCCTC
197208 GACAAGACCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.14, C:0.40, G:0.04, T:0.42
Consensus pattern (38 bp):
GCTCCTCATCTCCTCCACCTCTATCTTACATTTTTTCA
Found at i:197983 original size:21 final size:19
Alignment explanation
Indices: 197945--197990 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
197935 AATTAATCCT
197945 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
197965 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
197986 A-TAAT
1 ACTAAT
197991 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:209743 original size:21 final size:19
Alignment explanation
Indices: 209705--209750 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
209695 AATTAATCCT
209705 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
209725 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
209746 A-TAAT
1 ACTAAT
209751 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:219129 original size:21 final size:19
Alignment explanation
Indices: 219105--219152 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
219095 ATAAAAATTT
*
219105 TAAAAATAAACTAATCAAATA
1 TAAAAATAAACAAAT-AAA-A
*
219126 TAAAAATTAACAAATAAAA
1 TAAAAATAAACAAATAAAA
219145 TAAAAATA
1 TAAAAATA
219153 TATATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.33
20 3 0.12
21 13 0.54
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (19 bp):
TAAAAATAAACAAATAAAA
Found at i:219817 original size:3 final size:3
Alignment explanation
Indices: 219809--219916 Score: 216
Period size: 3 Copynumber: 36.0 Consensus size: 3
219799 TAAATGGTCA
219809 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
219857 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
219905 CCT CCT CCT CCT
1 CCT CCT CCT CCT
219917 GCTGCTGCTG
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 105 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CCT
Found at i:225355 original size:30 final size:27
Alignment explanation
Indices: 225294--225355 Score: 70
Period size: 30 Copynumber: 2.2 Consensus size: 27
225284 ATTTCGATAA
* *
225294 TATAATTTAAAAAATTAAATTTAATAC
1 TATAATTAAAAAAATTAAAATTAATAC
*
225321 TATAATTAATAAAAATTAAAAAATTAATAG
1 TATAATTAA-AAAAATT--AAAATTAATAC
225351 TATAA
1 TATAA
225356 ATATAACACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 8 0.28
28 7 0.24
30 14 0.48
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
TATAATTAAAAAAATTAAAATTAATAC
Found at i:226038 original size:13 final size:13
Alignment explanation
Indices: 226022--226052 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
226012 TAGACATAAT
*
226022 ATTTTGATTATTG
1 ATTTTGATTATTA
226035 ATTTTGATTATTA
1 ATTTTGATTATTA
226048 ATTTT
1 ATTTT
226053 AACGTACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (13 bp):
ATTTTGATTATTA
Found at i:226190 original size:20 final size:20
Alignment explanation
Indices: 226165--226206 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
226155 TACCTATGGA
226165 ATTTGATAGATATCCATGAG
1 ATTTGATAGATATCCATGAG
226185 ATTTGATAGATATCCATGAG
1 ATTTGATAGATATCCATGAG
226205 AT
1 AT
226207 AAATATTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (20 bp):
ATTTGATAGATATCCATGAG
Found at i:227859 original size:27 final size:28
Alignment explanation
Indices: 227829--227894 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
227819 ATTTACTATT
227829 GTTTAGAGTTT-TAAGTTAGAATTTAAA
1 GTTTAGAGTTTATAAGTTAGAATTTAAA
* * *
227856 GTTTAG-GTTTATATGTTAGGATTTAAG
1 GTTTAGAGTTTATAAGTTAGAATTTAAA
*
227883 GTTTAGAATTTA
1 GTTTAGAGTTTA
227895 GAGTAGGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.12
27 25 0.76
28 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (28 bp):
GTTTAGAGTTTATAAGTTAGAATTTAAA
Found at i:229012 original size:131 final size:131
Alignment explanation
Indices: 228746--229064 Score: 387
Period size: 131 Copynumber: 2.4 Consensus size: 131
228736 GATAATATTT
* * * * *
228746 AATTACTTCCAATCAAGAATAAATGACTTTTCGTGCATTAAAAC-ATCCATTTATTACTCCAATT
1 AATTATTTCCAATCGAGAATAAATGACATTTCATGCATTAAAACAAT-CATTTATTACCCCAATT
* * * * *
228810 TAAATAAAGAGATATTACTATTTCGTCCTAAAATTCAATATCGATTCAAGTGAAAACAACAATAT
65 GAAATAAAGAAATATTACTATTTCGTCCTAAAAATCAATATCAATTCAAGAGAAAACAACAATAT
*
228875 CT
130 CA
*
228877 AATTATTTTCAATCGAGAATAAATGACATTTCATGCATTAAAACAATCATTTATTACCCCAATTG
1 AATTATTTCCAATCGAGAATAAATGACATTTCATGCATTAAAACAATCATTTATTACCCCAATTG
* ** *
228942 AAATAAAGAAATATTACTATTTCGTCTTAAAAATCGGGT-T-AATTCGAGAGAAAACGAA-AATT
66 AAATAAAGAAATATTACTATTTCGTCCTAAAAATC-AATATCAATTCAAGAGAAAAC-AACAA-T
229004 ATCA
128 ATCA
* * *
229008 AATTATTTCCAATCGAGAATAAATGACCTCTCATGTC-TTAAAGCAATCATTTATTAC
1 AATTATTTCCAATCGAGAATAAATGACATTTCATG-CATTAAAACAATCATTTATTAC
229065 TCTGACCGAA
Statistics
Matches: 163, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
130 14 0.09
131 145 0.89
132 4 0.02
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.33
Consensus pattern (131 bp):
AATTATTTCCAATCGAGAATAAATGACATTTCATGCATTAAAACAATCATTTATTACCCCAATTG
AAATAAAGAAATATTACTATTTCGTCCTAAAAATCAATATCAATTCAAGAGAAAACAACAATATC
A
Found at i:229949 original size:2 final size:2
Alignment explanation
Indices: 229942--230013 Score: 62
Period size: 2 Copynumber: 37.5 Consensus size: 2
229932 TTTATTAATT
* * * *
229942 TA TA TA TA TA TA TA TA TA TA TA TT TA CTA T- TT TA TT TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
*
229984 T- TA T- TA TT TA T- TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
230014 TATTTTTACT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
1 4 0.07
2 50 0.89
3 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (2 bp):
TA
Found at i:230033 original size:17 final size:17
Alignment explanation
Indices: 229962--230057 Score: 62
Period size: 17 Copynumber: 5.8 Consensus size: 17
229952 TATATATATA
*
229962 TATTTACTA-TTTTATT
1 TATTTATTATTTTTATT
229978 TATTTATTA---TTATT
1 TATTTATTATTTTTATT
* * *
229992 TA-TTA-TATATATATA
1 TATTTATTATTTTTATT
*
230007 TATATATTATTTTTACTT
1 TATTTATTATTTTTA-TT
230025 T-TTTATTATTATTTTATT
1 TATTTATTA-T-TTTTATT
230043 TATTTATATATTTTT
1 TATTTAT-TATTTTT
230058 TCTTCTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
12 2 0.03
13 3 0.05
14 7 0.11
15 5 0.08
16 10 0.16
17 12 0.19
18 10 0.16
19 11 0.18
20 2 0.03
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTATTATTTTTATT
Found at i:230046 original size:4 final size:4
Alignment explanation
Indices: 229931--230194 Score: 63
Period size: 4 Copynumber: 66.0 Consensus size: 4
229921 TTTATTATCA
* * * * * * *
229931 ATTT ATTA ATTT ATAT ATAT ATAT ATAT ATAT ATTT A-CT ATTTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT
* * *
229979 ATTT A-TT A-TT ATTT ATTAT ATAT ATAT ATAT ATATT A-TT -TTT ACTTT
1 ATTT ATTT ATTT ATTT ATT-T ATTT ATTT ATTT AT-TT ATTT ATTT A-TTT
* * * *
230026 -TTT A-TT A-TT ATTTT ATTT ATTT ATAT ATTT -TTT CTTCT TTTT CTTT
1 ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT ATTT
* * * * * *
230072 ATTTT CTTT ATTT -TTT -TAT ATTT ATTTT ACTT A-CT ATTT -TAT CTTT
1 A-TTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT
* * * * *
230118 ACTTT CTTT ATCTT ATCTT ATCT -TTT ATTT AATTT GTTT -TTT CTTC
1 A-TTT ATTT AT-TT AT-TT ATTT ATTT ATTT -ATTT ATTT ATTT ATTT
230164 ATTTT AATTTT ATTT ATTT ATTT ATTT ATTT
1 A-TTT -A-TTT ATTT ATTT ATTT ATTT ATTT
230195 TTTTCTTACC
Statistics
Matches: 204, Mismatches: 31, Indels: 50
0.72 0.11 0.18
Matches are distributed among these distances:
3 38 0.19
4 119 0.58
5 42 0.21
6 5 0.02
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Done.