Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008982.1 Hibiscus syriacus cultivar Beakdansim tig00112344_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: 2253222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:2380 original size:6 final size:6
Alignment explanation
Indices: 2369--2393 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2359 TGCAATGCGA
2369 AAATGC AAATGC AAATGC AAATGC A
1 AAATGC AAATGC AAATGC AAATGC A
2394 CGAGGTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AAATGC
Found at i:7801 original size:31 final size:32
Alignment explanation
Indices: 7747--7821 Score: 116
Period size: 31 Copynumber: 2.3 Consensus size: 32
7737 ATTGTCCTTA
*
7747 TATATATTTGTTTTTTAACAAGTTAGAAAATATT
1 TATATA-TT-TTTTTGAACAAGTTAGAAAATATT
7781 TATATATTTTTTTGAA-AAGTTAGAAAATATT
1 TATATATTTTTTTGAACAAGTTAGAAAATATT
7812 TATATATTTT
1 TATATATTTT
7822 CATTATAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
31 25 0.62
32 7 0.17
33 2 0.05
34 6 0.15
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.52
Consensus pattern (32 bp):
TATATATTTTTTTGAACAAGTTAGAAAATATT
Found at i:9303 original size:19 final size:19
Alignment explanation
Indices: 9279--9336 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
9269 ATGACCAACA
9279 AAATCGCAATGCGATCTCT
1 AAATCGCAATGCGATCTCT
9298 AAATCGCAATGCGATCTCT
1 AAATCGCAATGCGATCTCT
*
9317 AAATCGCAACGCGATCTCT
1 AAATCGCAATGCGATCTCT
9336 A
1 A
9337 GTATCGCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAATGCGATCTCT
Found at i:9404 original size:21 final size:20
Alignment explanation
Indices: 9351--9405 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
9341 CGCAAATCAG
* *
9351 TTTCCAGATTCGCGTTGCGA
1 TTTCCAAATTCGCATTGCGA
* *
9371 TTTACATATTCGCATTGCGA
1 TTTCCAAATTCGCATTGCGA
9391 TTTTCCAAATTCGCA
1 -TTTCCAAATTCGCA
9406 ACGCGATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (20 bp):
TTTCCAAATTCGCATTGCGA
Found at i:9493 original size:20 final size:20
Alignment explanation
Indices: 9421--9485 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
9411 ATAATACATA
*
9421 ATCGCAACACGATTCTGACT
1 ATCGCAACGCGATTCTGACT
9441 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
9461 ATTGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
9481 ATCGC
1 ATCGC
9486 GTTGCGATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:10017 original size:42 final size:42
Alignment explanation
Indices: 9970--10068 Score: 180
Period size: 44 Copynumber: 2.3 Consensus size: 42
9960 CACCTCACCC
9970 AGAGCCATCACCTGATCGACCACACTATATACCTCTACAACG
1 AGAGCCATCACCTGATCGACCACACTATATACCTCTACAACG
10012 AGAGCCATATCACCTGATCGACCACACTATATACCTCTACAACG
1 AGAGCC--ATCACCTGATCGACCACACTATATACCTCTACAACG
10056 AGAGCCATCACCT
1 AGAGCCATCACCT
10069 ATTCCATCAC
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
42 13 0.24
44 42 0.76
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.19
Consensus pattern (42 bp):
AGAGCCATCACCTGATCGACCACACTATATACCTCTACAACG
Found at i:10604 original size:20 final size:20
Alignment explanation
Indices: 10579--10647 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
10569 AAACTTAAAA
10579 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
10599 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
10619 ATCGCAACACGAATTTGACT
1 ATCGCAACGCGAAAATGACT
10639 ATCGCAACG
1 ATCGCAACG
10648 GGATAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:11983 original size:14 final size:14
Alignment explanation
Indices: 11964--11990 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11954 TCCCGTGGCA
11964 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
11978 TTTTCTTCGGGGA
1 TTTTCTTCGGGGA
11991 TTTCTTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.19, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:11996 original size:12 final size:13
Alignment explanation
Indices: 11965--11997 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
11955 CCCGTGGCAT
11965 TTTCTTCGGGGAC
1 TTTCTTCGGGGAC
11978 TTTTCTTCGGGGA-
1 -TTTCTTCGGGGAC
11991 TTTCTTC
1 TTTCTTC
11998 TTATTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
14 12 0.63
ACGTcount: A:0.06, C:0.21, G:0.24, T:0.48
Consensus pattern (13 bp):
TTTCTTCGGGGAC
Found at i:12257 original size:24 final size:24
Alignment explanation
Indices: 12190--12249 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
12180 CTGAAACATC
12190 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* * *
12214 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
12238 ATCAAATTTCGA
1 ATCAAAATTCGA
12250 ATACTGACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:13089 original size:20 final size:20
Alignment explanation
Indices: 13064--13150 Score: 111
Period size: 20 Copynumber: 4.3 Consensus size: 20
13054 GGAATTCAGT
* *
13064 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAAAATCGC
*
13084 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAAAATCGC
* *
13104 GTTACGATACTCAAAATCGC
1 GTTGCGATAGTCAAAATCGC
* *
13124 ATTGAGATAGTCAAAATCGC
1 GTTGCGATAGTCAAAATCGC
13144 GTTGCGA
1 GTTGCGA
13151 ATCTGGAAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (20 bp):
GTTGCGATAGTCAAAATCGC
Found at i:13188 original size:20 final size:19
Alignment explanation
Indices: 13165--13210 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13155 GGAAACTGAT
* *
13165 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
13185 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
13204 TTGCGAT
1 TTGCGAT
13211 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:13200 original size:19 final size:19
Alignment explanation
Indices: 13176--13212 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13166 TGCGATACTG
*
13176 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
13195 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
13213 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:14353 original size:21 final size:22
Alignment explanation
Indices: 14327--14385 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
14317 ATTAAATTTT
*
14327 TTATTATTTTATACTA-TTCAA
1 TTATTATTTTATAATAGTTCAA
*
14348 TTATTATTTTATAATAGTTTAA
1 TTATTATTTTATAATAGTTCAA
*
14370 TTAATTATCTTATAAT
1 TT-ATTATTTTATAAT
14386 TTTTATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 15 0.45
22 6 0.18
23 12 0.36
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (22 bp):
TTATTATTTTATAATAGTTCAA
Found at i:14945 original size:20 final size:21
Alignment explanation
Indices: 14920--14965 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14910 AAATAAAAAG
*
14920 ATAAAAAATA-ATAAAATAAA
1 ATAAAAAATATATAAAAGAAA
* *
14940 ATAAAACATATTTAAAAGAAA
1 ATAAAAAATATATAAAAGAAA
14961 ATAAA
1 ATAAA
14966 TTAAAGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
ATAAAAAATATATAAAAGAAA
Found at i:17188 original size:36 final size:36
Alignment explanation
Indices: 17106--17177 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
17096 GGTCTTGGGT
17106 TTCAAGAGAAACAATTTCAAAGGGTTTTTTTTTTTG
1 TTCAAGAGAAACAATTTCAAAGGGTTTTTTTTTTTG
17142 TTCAAGAGAAACAATTTCAAA-GGTTTTTTTTTTTG
1 TTCAAGAGAAACAATTTCAAAGGGTTTTTTTTTTTG
17177 T
1 T
17178 ATTTCAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 15 0.42
36 21 0.58
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (36 bp):
TTCAAGAGAAACAATTTCAAAGGGTTTTTTTTTTTG
Found at i:17303 original size:37 final size:36
Alignment explanation
Indices: 17262--17368 Score: 142
Period size: 36 Copynumber: 2.9 Consensus size: 36
17252 AGAGAAATTG
*
17262 TCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACCA
1 TCTCAAGAGAGACAAAA-TTTGTTTTAAGGGAAACCA
* **
17299 TCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTG
1 TCTCAAGAGAGACAAAATTTGTTTTAAGGGAAACCA
* * *
17335 TCTCAAGGGAGACGAAATTTGTTTTAAGGAAAAC
1 TCTCAAGAGAGACAAAATTTGTTTTAAGGGAAAC
17369 ATATTCAAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
36 45 0.73
37 17 0.27
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (36 bp):
TCTCAAGAGAGACAAAATTTGTTTTAAGGGAAACCA
Found at i:17426 original size:35 final size:36
Alignment explanation
Indices: 17387--17461 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
17377 AGATTTTGTT
17387 TCAAGAGAGA-AAAATTTGTTTTAAGAGAAAATATC
1 TCAAGAGAGACAAAATTTGTTTTAAGAGAAAATATC
* *
17422 TCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTTAAGAGAAAATATC
17458 TCAA
1 TCAA
17462 AGGTTGTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
35 10 0.27
36 27 0.73
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.28
Consensus pattern (36 bp):
TCAAGAGAGACAAAATTTGTTTTAAGAGAAAATATC
Found at i:17548 original size:29 final size:28
Alignment explanation
Indices: 17437--17548 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 28
17427 AGAGACAAAA
*
17437 TTTGTTTTAAGAGAAACTGTCTCAAAG-
1 TTTGTTTCAAGAGAAACTGTCTCAAAGT
* * * *
17464 GTTGTTTCAAGTGGAACTGAT-TCAAATAT
1 TTTGTTTCAAGAGAAACTG-TCTCAAA-GT
* *
17493 TTTGTGTTCCAAGGGAAACAT-TTTCAAAGT
1 TTTGT-TT-CAAGAGAAAC-TGTCTCAAAGT
17523 TTATGTTTCAAGAGAAACTGTCTCAA
1 TT-TGTTTCAAGAGAAACTGTCTCAA
17549 GGGAGACAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
27 20 0.31
28 2 0.03
29 18 0.28
30 8 0.12
31 16 0.25
32 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (28 bp):
TTTGTTTCAAGAGAAACTGTCTCAAAGT
Found at i:17619 original size:94 final size:96
Alignment explanation
Indices: 17502--17767 Score: 387
Period size: 94 Copynumber: 2.7 Consensus size: 96
17492 TTTTGTGTTC
** *
17502 CAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT
1 CAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT
*
17567 TCAAGGGAAACTATCTC-A-AAAATTCATTT
66 TCAAGAGAAACTATCTCAACAAAATTCATTT
17596 CACA-GGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
1 CA-AGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
17660 TTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTT
65 TTCAAGAGAAACTATCTC-----A-ACAAAATTCATTT
*
17698 CAAGGGAAATGTTTTCAATGTTCATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTT
1 CAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT
*
17762 TTAAGA
66 TCAAGA
17768 AAAATAATAT
Statistics
Matches: 156, Mismatches: 6, Indels: 13
0.89 0.03 0.07
Matches are distributed among these distances:
94 76 0.49
95 1 0.01
101 13 0.08
102 66 0.42
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (96 bp):
CAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT
TCAAGAGAAACTATCTCAACAAAATTCATTT
Found at i:17670 original size:37 final size:37
Alignment explanation
Indices: 17620--17692 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
17610 TCAATGTTTA
* *
17620 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
17657 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
17693 CATTTCAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
Found at i:17707 original size:102 final size:101
Alignment explanation
Indices: 17585--17767 Score: 323
Period size: 102 Copynumber: 1.8 Consensus size: 101
17575 AACTATCTCA
*
17585 AAAATTCATTTCACAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCACAGGAAATGTTTTCAATGTTCATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
17650 AAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
66 AAAA-TTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
17687 AAAATTCATTTCA-AGGGAAATGTTTTCAATGTTCATGTTTCAAGAGAAACTGTCTCAAGGGAGA
1 AAAATTCATTTCACA-GGAAATGTTTTCAATGTTCATGTTTCAAGAGAAACTGTCTCAAGGGAGA
*
17751 CAAAATTTGTTTTAAGA
65 CAAAATTTGTTTCAAGA
17768 AAAATAATAT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
101 12 0.15
102 66 0.85
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (101 bp):
AAAATTCATTTCACAGGAAATGTTTTCAATGTTCATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
AAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
Found at i:20930 original size:21 final size:20
Alignment explanation
Indices: 20879--20931 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
20869 GACTACCTTC
20879 ATTTGCTCCTCCAACTGCTTG
1 ATTTG-TCCTCCAACTGCTTG
* * *
20900 ATTTTCTCCTCCATCTTCTTTG
1 A-TTTGTCCTCCAACTGC-TTG
20922 ATTTGTCCTC
1 ATTTGTCCTC
20932 TTCGTCCGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.11, C:0.32, G:0.09, T:0.47
Consensus pattern (20 bp):
ATTTGTCCTCCAACTGCTTG
Found at i:23301 original size:13 final size:13
Alignment explanation
Indices: 23285--23309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23275 AAACAAATAA
23285 AATAATAAATCAT
1 AATAATAAATCAT
23298 AATAATAAATCA
1 AATAATAAATCA
23310 AATGGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAAATCAT
Found at i:25050 original size:21 final size:21
Alignment explanation
Indices: 25020--25240 Score: 197
Period size: 21 Copynumber: 10.6 Consensus size: 21
25010 GATTTACATA
*
25020 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
25041 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
25062 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
25083 TT--CGTTGCGATAATTCAAG
1 TTCGCGTTGCGATAGTCCAAG
**
25102 TTCGCGTTGCGATTTTTTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
25125 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
25144 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
25167 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
25186 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
25209 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
25228 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
25241 TTATTTCAAA
Statistics
Matches: 160, Mismatches: 26, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
19 40 0.25
21 95 0.59
23 25 0.16
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:25072 original size:42 final size:41
Alignment explanation
Indices: 25020--25265 Score: 327
Period size: 42 Copynumber: 5.9 Consensus size: 41
25010 GATTTACATA
* *
25020 TTCGCATTGCGA-TAGTCCAAGTTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTATTCCAAGTT--CGTTGCGATAGTCGAAG
* *
25062 TTCGCGTTGCGATT-TTCCAAATTCGTTGCGATAATTC-AAG
1 TTCGCGTTGCGATTATTCCAAGTTCGTTGCGAT-AGTCGAAG
*
25102 TTCGCGTTGCGATTTTTTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAG
*
25144 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAG
25186 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAG
* * *
25228 TTCGCGTTGCGATTTATTTCAAATTCATTGCGATAGTC
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTC
25266 CAAAATCGCA
Statistics
Matches: 187, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
40 24 0.13
41 8 0.04
42 154 0.82
43 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (41 bp):
TTCGCGTTGCGATTATTCCAAGTTCGTTGCGATAGTCGAAG
Found at i:25187 original size:84 final size:83
Alignment explanation
Indices: 25035--25265 Score: 376
Period size: 84 Copynumber: 2.8 Consensus size: 83
25025 ATTGCGATAG
*
25035 TCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAATT
1 TCCAAGTT--CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGAT-AGT
*
25098 CAAGTTCGCGTTGCGATTTTT
63 CAAGTTCGCGTTGCGATTTAT
25119 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGA
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC-A
25184 AGTTCGCGTTGCGATTTAT
65 AGTTCGCGTTGCGATTTAT
* *
25203 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTTCAAATTCATTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
25266 CAAAATCGCA
Statistics
Matches: 140, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
82 29 0.21
83 5 0.04
84 106 0.76
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (83 bp):
TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAA
GTTCGCGTTGCGATTTAT
Found at i:26020 original size:21 final size:21
Alignment explanation
Indices: 25996--26130 Score: 125
Period size: 21 Copynumber: 6.5 Consensus size: 21
25986 TGGAATAAAC
25996 CGCAACGCGAACTTGGACTAT
1 CGCAACGCGAACTTGGACTAT
* *
26017 CGCAA--CGAATTTGGAATAAAT
1 CGCAACGCGAACTTGGACT--AT
*
26038 CGCAACGCGAACTTCGACTAT
1 CGCAACGCGAACTTGGACTAT
* **
26059 CGCAA--CGAATTTGGAAAAT
1 CGCAACGCGAACTTGGACTAT
** *
26078 TACAACGCGAACTTCGACTAT
1 CGCAACGCGAACTTGGACTAT
*
26099 CGCAACACGAACTTGGACTAT
1 CGCAACGCGAACTTGGACTAT
*
26120 CGCAATGCGAA
1 CGCAACGCGAA
26131 TATGTAAATC
Statistics
Matches: 87, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
19 23 0.26
21 55 0.63
23 9 0.10
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (21 bp):
CGCAACGCGAACTTGGACTAT
Found at i:26095 original size:40 final size:42
Alignment explanation
Indices: 25969--26104 Score: 213
Period size: 42 Copynumber: 3.3 Consensus size: 42
25959 TGCGATTTTG
* * *
25969 GACTATCGCAACAAATTTGGAATAAACCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
26011 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
**
26053 GACTATCGCAACGAATTTGG-A-AAATTACAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
26093 GACTATCGCAAC
1 GACTATCGCAAC
26105 ACGAACTTGG
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 29 0.33
41 1 0.01
42 59 0.66
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:26130 original size:42 final size:40
Alignment explanation
Indices: 25969--26130 Score: 189
Period size: 42 Copynumber: 3.9 Consensus size: 40
25959 TGCGATTTTG
* * *
25969 GACTATCGCAACAAATTTGGAATAAACCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAAT--ATCGCAACGCGAACTTC
26011 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAAT--ATCGCAACGCGAACTTC
* **
26053 GACTATCGCAACGAATTTGGAAAATTACAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATATCGCAACGCGAACTTC
* * *
26093 GACTATCGCAACACGAACTTGGACTATCGCAATGCGAA
1 GACTATCGC-A-ACGAATTTGGAATATCGCAACGCGAA
26131 TATGTAAATC
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 24 0.23
41 1 0.01
42 81 0.76
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (40 bp):
GACTATCGCAACGAATTTGGAATATCGCAACGCGAACTTC
Found at i:26495 original size:44 final size:45
Alignment explanation
Indices: 26421--26507 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
26411 AGATACCACG
* *
26421 AACCGCAAACACTTCAATAAATGTGACATACATTT-TGTATCACA
1 AACCACAAACACTTCAATAAATGAGACATACATTTGTGTATCACA
*
26465 AACCACAAACACTTCAATAAATGAGGCATACATTTGTGTATCA
1 AACCACAAACACTTCAATAAATGAGACATACATTTGTGTATCA
26508 ACGTCTGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 32 0.82
45 7 0.18
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (45 bp):
AACCACAAACACTTCAATAAATGAGACATACATTTGTGTATCACA
Found at i:27091 original size:5 final size:5
Alignment explanation
Indices: 27060--27112 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
27050 CAAATAATTA
27060 AATAT AA-AT AAATAT AA-AT AA-AT AATAT AATAT AATATAT AATAT
1 AATAT AATAT -AATAT AATAT AATAT AATAT AATAT -A-ATAT AATAT
27105 AATAT AAT
1 AATAT AAT
27113 TACCCTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
4 10 0.23
5 25 0.58
6 4 0.09
7 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:27096 original size:17 final size:17
Alignment explanation
Indices: 27051--27112 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
27041 AAATTTAGTC
27051 AAATAAT-TAA-AT-AT
1 AAATAATATAATATAAT
27065 AAATAA-AT-ATA-AAT
1 AAATAATATAATATAAT
27079 AAATAATATAATATAAT
1 AAATAATATAATATAAT
*
27096 ATATAATATAATATAAT
1 AAATAATATAATATAAT
27113 TACCCTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
13 1 0.02
14 16 0.39
15 2 0.05
16 3 0.07
17 19 0.46
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATAATATAATATAAT
Found at i:29165 original size:21 final size:21
Alignment explanation
Indices: 29141--29181 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29131 GAAATATTAA
* *
29141 AAATATTAATGTTTTAGGTAG
1 AAATAATAATATTTTAGGTAG
29162 AAATAATAATATTTTAGGTA
1 AAATAATAATATTTTAGGTA
29182 ATTTTTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (21 bp):
AAATAATAATATTTTAGGTAG
Found at i:29460 original size:33 final size:33
Alignment explanation
Indices: 29422--29510 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 33
29412 CCAACACGTT
*
29422 GGGCATCCGAGGCCATCCGAACGAGCTATGCGA
1 GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
* * *
29455 TGGCATCCGAGGGCAACCGAGCGAGCTATGCGA
1 GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
* *
29488 GGGAATCCGA-G-CAACCGAGCGAG
1 GGGCATCCGAGGCCAACCGAACGAG
29511 GGTAGGTCGC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
31 12 0.24
32 1 0.02
33 37 0.74
ACGTcount: A:0.26, C:0.28, G:0.36, T:0.10
Consensus pattern (33 bp):
GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
Found at i:29584 original size:33 final size:33
Alignment explanation
Indices: 29543--29617 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
29533 GCGACCTACC
* *
29543 CTCGCTCGGTTGCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGCATGCCCTCGCATAG
*
29576 CTCGCTCGGTTGCCCTCGCATGCCCTCTCATAG
1 CTCGCTCGGTTGCCCTCGCATGCCCTCGCATAG
*
29609 CTCGTTCGG
1 CTCGCTCGG
29618 ATGGCTTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.08, C:0.40, G:0.24, T:0.28
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGCATGCCCTCGCATAG
Found at i:29633 original size:14 final size:14
Alignment explanation
Indices: 29609--29655 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
29599 CCTCTCATAG
*
29609 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
*
29623 TTCGGTCGGATGGC
1 CTCGGTCGGATGGC
29637 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
29651 CTCGG
1 CTCGG
29656 ATGCCCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.06, C:0.28, G:0.40, T:0.26
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:31565 original size:31 final size:30
Alignment explanation
Indices: 31519--31598 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
31509 TTCGATAATA
*
31519 TAATAATTATTTTATAGT-ATTTAGATAAATT
1 TAATAA-TATTTTATAATCATTTA-ATAAATT
* *
31550 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATCATTTAATAAATT
31581 TAATAAGTATTTTATAAT
1 TAATAA-TATTTTATAAT
31599 TTTTCAAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
30 1 0.02
31 36 0.86
32 5 0.12
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (30 bp):
TAATAATATTTTATAATCATTTAATAAATT
Found at i:31576 original size:19 final size:20
Alignment explanation
Indices: 31552--31601 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
31542 GATAAATTTA
*
31552 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
31571 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
31592 TT-ATAATTTT
1 TTAATAATTTT
31602 TCAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:31680 original size:3 final size:3
Alignment explanation
Indices: 31672--32529 Score: 814
Period size: 3 Copynumber: 291.7 Consensus size: 3
31662 ACATCAAAAA
*
31672 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC CTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
31720 TTC TTC -TC TTC -TC TTC TCTC TTTC TTC TTC -TC TTC CTC TTC TTC
1 TTC TTC TTC TTC TTC TTC T-TC -TTC TTC TTC TTC TTC TTC TTC TTC
*
31764 TTC TTC TTC -TC TTC TTC CTC TTC TTC -TC TTC -TC TT- TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
31808 -TC TTC TTC TTC TT- TTC TTTC CTC TTC TTTC TTC TCTC TTC -TC CTC
1 TTC TTC TTC TTC TTC TTC -TTC TTC TTC -TTC TTC T-TC TTC TTC TTC
* *
31853 TTC TTC -TC TTC TTC TTC -TC TTC -TC CTC TTA TTCC TTC TTC -TC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC
31895 TTC -TC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT- TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
31940 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC
31986 TTC TTC TTC TTC TTC TTC TTC TT- TTC TTC TTC TTC TCTC TTC -TC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC
***
32030 TTC TTC TTC TTC TTC TTC TT- TTC TTC TTC TTC TTTC TTGC AGAGG TT-
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TT-C --TTC TTC
* * ** * * ** ** ** **
32077 TTA TT- TGC ATTC TGAA ATG TTC GAC TTC GAC GAGC -TC TGTAGC GTGA
1 TTC TTC TTC -TTC T-TC TTC TTC TTC TTC TTC -TTC TTC T-T--C -TTC
* * * ** *** * * * *
32124 GTC CTA AGC TTC -TC AAGG ATC CTC CT- TTC -AC TCTC TTC TTC TTC
1 TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC T-TC TTC TTC TTC
32168 -TC TTC TTC TT- TTC TTC -TC TTC TTC TT- TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
32212 -TC TTC TTA TTC TTC TTC TT- TTC TTC -TC TTC TTC TTC TTC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
*
32255 TTTC TTC TTC TT- TCTC TTC TTC TTC TTC TTC TTC TTC TTC TTTC TTA
1 -TTC TTC TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC
32302 TTC TTC TTC TTC TTC TT- TTC TTC -TC TTC -TC TTC -TC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
32346 TTC TTC TTA TTC TTC TTTC TTC TT- TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
32391 TTC TTC TTC TTC TTC TT- TTC TTC TTC TTC TTC TT- TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
32437 -TC TTC TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
32481 TTC TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
32528 TT
1 TT
32530 TCTTGCAGAG
Statistics
Matches: 724, Mismatches: 61, Indels: 140
0.78 0.07 0.15
Matches are distributed among these distances:
2 83 0.11
3 590 0.81
4 48 0.07
5 1 0.00
6 1 0.00
7 1 0.00
ACGTcount: A:0.03, C:0.32, G:0.02, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:33688 original size:7 final size:7
Alignment explanation
Indices: 33676--33700 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33666 GCCAAGATGT
33676 CTCTAAG
1 CTCTAAG
33683 CTCTAAG
1 CTCTAAG
33690 CTCTAAG
1 CTCTAAG
33697 CTCT
1 CTCT
33701 GTGGATCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (7 bp):
CTCTAAG
Found at i:34933 original size:30 final size:29
Alignment explanation
Indices: 34891--34951 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
34881 ACATTTTAGC
*
34891 TAAATAAGTGACTTGATTGCTACAATTGA
1 TAAATAAATGACTTGATTGCTACAATTGA
* * *
34920 TAAATTAAATGACTTGGTTGTTATAATTGA
1 TAAA-TAAATGACTTGATTGCTACAATTGA
34950 TA
1 TA
34952 GACATAGTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (29 bp):
TAAATAAATGACTTGATTGCTACAATTGA
Found at i:37493 original size:24 final size:22
Alignment explanation
Indices: 37466--37515 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
37456 TACTATTTAA
37466 ATTATAATAAATAATTATAAATAT
1 ATTATAATAAAT-ATTATAAA-AT
** *
37490 ATTATTTTAAATATTTTAAAAT
1 ATTATAATAAATATTATAAAAT
37512 ATTA
1 ATTA
37516 ATATATTCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 7 0.30
24 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTATAATAAATATTATAAAAT
Found at i:41617 original size:21 final size:20
Alignment explanation
Indices: 41552--41617 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 20
41542 CTAAAATCAA
*
41552 ATTTGACATCAAAATTCTAAT
1 ATTTGATATCAAAATT-TAAT
* * *
41573 ACCTTGATATGAAATTTTAA-
1 A-TTTGATATCAAAATTTAAT
41593 ATTTGATATCATAAATTTAAT
1 ATTTGATATCA-AAATTTAAT
41614 ATTT
1 ATTT
41618 ATCAGTATTC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 8 0.23
20 8 0.23
21 8 0.23
22 11 0.31
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (20 bp):
ATTTGATATCAAAATTTAAT
Found at i:45355 original size:2 final size:2
Alignment explanation
Indices: 45273--45335 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
45263 CGAAAAAAAT
45273 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45315 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
45336 TTGTTGAATC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:56346 original size:21 final size:21
Alignment explanation
Indices: 56322--56363 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
56312 TAGTTTATTT
56322 TTAAACTTTATTTCAATTATC
1 TTAAACTTTATTTCAATTATC
56343 TTAAACTTTATTTCAATTATC
1 TTAAACTTTATTTCAATTATC
56364 GAACTTGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAACTTTATTTCAATTATC
Found at i:56396 original size:33 final size:33
Alignment explanation
Indices: 56351--56495 Score: 249
Period size: 33 Copynumber: 4.5 Consensus size: 33
56341 TCTTAAACTT
56351 TATTTCAA-TTATCGAACTTGGAAGTTTTTAAG
1 TATTTCAATTTATCGAACTTGGAAGTTTTTAAG
*
56383 TATTTGAATTTATCGAACTTGGAAGTTTTTAAG
1 TATTTCAATTTATCGAACTTGGAAGTTTTTAAG
56416 TATTTCAATTTATCGAACTTGGAAGTTTTTAAG
1 TATTTCAATTTATCGAACTTGGAAGTTTTTAAG
* *
56449 TATTTGAATTTATCGAACTTGGAAGTATTTAAG
1 TATTTCAATTTATCGAACTTGGAAGTTTTTAAG
56482 TATTTCAA-TTATCG
1 TATTTCAATTTATCG
56496 TAAACTTTGT
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
32 13 0.12
33 94 0.88
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (33 bp):
TATTTCAATTTATCGAACTTGGAAGTTTTTAAG
Found at i:59192 original size:24 final size:24
Alignment explanation
Indices: 59165--59216 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
59155 ATTGTTTTTT
59165 CTGCTTTCAATTTCCAGATTGGTC
1 CTGCTTTCAATTTCCAGATTGGTC
59189 CTGCTTTCAATTTCCAGATTGGTC
1 CTGCTTTCAATTTCCAGATTGGTC
59213 CTGC
1 CTGC
59217 AGCATCTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.40
Consensus pattern (24 bp):
CTGCTTTCAATTTCCAGATTGGTC
Found at i:73708 original size:22 final size:22
Alignment explanation
Indices: 73681--73723 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
73671 TTTTTTTTTT
73681 TTTTTTTATT-TAAAAAAAATA
1 TTTTTTTATTATAAAAAAAATA
*
73702 TTTTTTTATTATTAAAAAAATA
1 TTTTTTTATTATAAAAAAAATA
73724 AAATTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTTTTATTATAAAAAAAATA
Found at i:77920 original size:21 final size:21
Alignment explanation
Indices: 77903--77942 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
77893 TACAATATCA
77903 AAATTAACT-TTATAAATATAT
1 AAATTAA-TGTTATAAATATAT
*
77924 AGATTAATGTTATAAATAT
1 AAATTAATGTTATAAATAT
77943 TTTTTCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
AAATTAATGTTATAAATATAT
Found at i:79221 original size:21 final size:20
Alignment explanation
Indices: 79135--79292 Score: 88
Period size: 21 Copynumber: 7.8 Consensus size: 20
79125 AAATGACCAA
**
79135 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
79154 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
79174 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
79194 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
79215 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
79236 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
79256 CCAAAATCGCAACGCGAATATT
1 -CAAAATCGCAACGCG-ATTTT
79278 -AAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
79293 ACACATAAAT
Statistics
Matches: 105, Mismatches: 27, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
19 17 0.16
20 40 0.38
21 44 0.42
22 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:79283 original size:20 final size:20
Alignment explanation
Indices: 79195--79311 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
79185 ATCAGTTTCC
* *
79195 AAAATCGCAACGCGATTCTT
1 AAAATCGCAACGCGAATATT
* *
79215 GAAAATCGCAATGCG-ATAGT
1 -AAAATCGCAACGCGAATATT
** *
79235 ACAAATTCGCATTGCG-ATTTT
1 A-AAA-TCGCAACGCGAATATT
79256 CCAAAATCGCAACGCGAATATT
1 --AAAATCGCAACGCGAATATT
* *
79278 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATT
79297 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
79312 TATCCGTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
19 2 0.03
20 35 0.45
21 33 0.42
22 7 0.09
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATT
Found at i:79321 original size:20 final size:20
Alignment explanation
Indices: 79279--79488 Score: 210
Period size: 20 Copynumber: 10.5 Consensus size: 20
79269 GCGAATATTA
* *
79279 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
79299 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
79319 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
79339 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
79359 AAATCGCAATGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
79379 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
79399 AAATCGTAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
79419 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
79439 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
79459 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
79479 AAATCACAAC
1 AAATCGCAAC
79489 ACTGAAATTT
Statistics
Matches: 158, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.01
20 155 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:80207 original size:24 final size:24
Alignment explanation
Indices: 80168--80214 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
80158 AAATTTGGTC
80168 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
80192 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
80215 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:80404 original size:12 final size:12
Alignment explanation
Indices: 80387--80411 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80377 TCATAATCCT
80387 GAAGAAGAAAAA
1 GAAGAAGAAAAA
80399 GAAGAAGAAAAA
1 GAAGAAGAAAAA
80411 G
1 G
80412 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:82740 original size:33 final size:34
Alignment explanation
Indices: 82689--82889 Score: 204
Period size: 33 Copynumber: 5.9 Consensus size: 34
82679 CGGAAATTAC
*
82689 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
82722 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
82756 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
82789 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
82822 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
* *
82860 AATCGCAACGA-GAGAATCGCAATACGAAAT
1 AATCGCAACGATGAAAATCGCAATGCGAAAT
82890 TATAAACGCA
Statistics
Matches: 146, Mismatches: 9, Indels: 26
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 83 0.57
34 31 0.21
35 5 0.03
36 4 0.03
37 2 0.01
38 20 0.14
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:82794 original size:19 final size:19
Alignment explanation
Indices: 82703--82867 Score: 189
Period size: 19 Copynumber: 9.4 Consensus size: 19
82693 GCAACGAGAG
82703 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
82722 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
82736 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
82756 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
82770 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
82789 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
82808 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
82822 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
82841 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
82860 AATCGCAA
1 AATCGCAA
82868 CGAGAGAATC
Statistics
Matches: 124, Mismatches: 6, Indels: 32
0.77 0.04 0.20
Matches are distributed among these distances:
14 32 0.26
15 2 0.02
16 5 0.04
17 4 0.03
18 3 0.02
19 65 0.52
20 13 0.10
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:82905 original size:52 final size:52
Alignment explanation
Indices: 82731--82889 Score: 300
Period size: 52 Copynumber: 3.0 Consensus size: 52
82721 AAATCCCAAC
82731 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
82784 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
82836 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
82888 AT
1 AT
82890 TATAAACGCA
Statistics
Matches: 105, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 89 0.85
53 16 0.15
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:83000 original size:19 final size:19
Alignment explanation
Indices: 82914--82992 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
82904 GATTCTCTCG
82914 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
82934 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
82953 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
82967 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
82986 TTGCGAT
1 TTGCGAT
82993 AGTCATTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.13
17 7 0.13
19 17 0.33
20 15 0.29
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:83118 original size:14 final size:14
Alignment explanation
Indices: 83099--83135 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
83089 CATCAATTAC
83099 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
83113 ACAAATCATCTTTT
1 ACAAATCAACTTTT
83127 ACAAATCAA
1 ACAAATCAA
83136 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:85085 original size:19 final size:20
Alignment explanation
Indices: 85045--85091 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
85035 TAGTTTACTT
* *
85045 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
85065 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
85084 TCGCAACG
1 TCGCAACG
85092 ACAGAATCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.45, C:0.30, G:0.15, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:85101 original size:14 final size:14
Alignment explanation
Indices: 85082--85138 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
85072 GCGAAACCAA
*
85082 AATCGCAACGACAG
1 AATCGCAACGAAAG
85096 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
85113 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
85129 AATCGCAACG
1 AATCGCAACG
85139 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:85109 original size:33 final size:33
Alignment explanation
Indices: 85063--85155 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
85053 CGAAACTTAA
** *
85063 AATCGCAACGCGAAACCAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
85096 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
85129 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
85156 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:85120 original size:19 final size:19
Alignment explanation
Indices: 85096--85160 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
85086 GCAACGACAG
85096 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
85115 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
*
85129 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
85148 AATCGCAATGCGA
1 AATCGCAATGCGA
85161 TTTTGGTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 8 0.20
16 6 0.15
17 6 0.15
19 20 0.50
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:85178 original size:19 final size:19
Alignment explanation
Indices: 85156--85284 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
85146 AAAATCGCAA
85156 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
85175 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
85189 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
85208 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
85222 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
85241 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
85260 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
85280 TGCGA
1 TGCGA
85285 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:85198 original size:33 final size:33
Alignment explanation
Indices: 85156--85247 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
85146 AAAATCGCAA
85156 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
85189 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
85222 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
85248 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:85467 original size:93 final size:93
Alignment explanation
Indices: 85331--85612 Score: 541
Period size: 93 Copynumber: 3.1 Consensus size: 93
85321 ATGGATTGCA
85331 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
85395 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
85423 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
85488 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
85516 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
85581 TAGCAGAATTGGCAGCAACCGAA-TAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
85608 TTACT
1 TTACT
85613 AAGCAATCTA
Statistics
Matches: 188, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 12 0.06
93 176 0.94
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:87346 original size:19 final size:20
Alignment explanation
Indices: 87302--87363 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
87292 TTTTGGTTGA
*
87302 AATGAAAATCGCAACGAGAG
1 AATGACAATCGCAACGAGAG
** *
87322 AATGACTGTCGCAACGCGA-
1 AATGACAATCGCAACGAGAG
87341 AATGACAATCGCAACGAGAG
1 AATGACAATCGCAACGAGAG
87361 AAT
1 AAT
87364 CGCAACGCGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (20 bp):
AATGACAATCGCAACGAGAG
Found at i:87366 original size:14 final size:14
Alignment explanation
Indices: 87347--87403 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
87337 GCGAAATGAC
87347 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
87361 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
87380 AATCGCAACGAGAG
1 AATCGCAACGAGAG
87394 AATCGCAACG
1 AATCGCAACG
87404 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:87372 original size:33 final size:33
Alignment explanation
Indices: 87300--87420 Score: 179
Period size: 33 Copynumber: 3.5 Consensus size: 33
87290 TCTTTTGGTT
87300 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGC
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAACGC
*
87339 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
87372 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
87405 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
87421 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
33 57 0.71
36 1 0.01
38 1 0.01
39 21 0.26
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:87385 original size:19 final size:19
Alignment explanation
Indices: 87300--87425 Score: 101
Period size: 19 Copynumber: 7.1 Consensus size: 19
87290 TCTTTTGGTT
*
87300 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
***
87319 GAGAATGACTGTCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
87339 GAAATGACAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
87356 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
87372 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
87389 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
87405 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
87424 GA
1 GA
87426 TTTTGGTTTC
Statistics
Matches: 85, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.24
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 38 0.45
20 15 0.18
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:87456 original size:14 final size:14
Alignment explanation
Indices: 87437--87493 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
87427 TTTGGTTTCG
87437 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
87451 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
87470 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
87484 CGTTGCGATT
1 CGTTGCGATT
87494 GTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:87475 original size:19 final size:19
Alignment explanation
Indices: 87451--87539 Score: 71
Period size: 19 Copynumber: 4.9 Consensus size: 19
87441 GCGATTCTCT
87451 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
87470 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
87484 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*** *
87503 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
*
87523 TGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
87540 ATCTCGTTGC
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
14 10 0.19
16 2 0.04
17 3 0.06
19 25 0.46
20 14 0.26
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:87537 original size:20 final size:20
Alignment explanation
Indices: 87477--87551 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 20
87467 TCGCGTTGCG
87477 ATTCTCTCGTTGCGATTGTC
1 ATTCTCTCGTTGCGATTGTC
* **
87497 ATT-TCGCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTGTC
* *
87516 ATTCTCTTGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTGTC
*
87536 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
87552 CTCTTCTGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
19 16 0.37
20 15 0.35
21 12 0.28
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTGTC
Found at i:87539 original size:39 final size:33
Alignment explanation
Indices: 87421--87510 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
87411 AAAATCGCAA
**
87421 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
87454 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
87487 TGCGATTGTCATTTCGCGTTGCGA
1 TGCGATTTTCATTTCGCGTTGCGA
87511 CAGTCATTCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.09, C:0.22, G:0.26, T:0.43
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:87672 original size:33 final size:33
Alignment explanation
Indices: 87630--87700 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
87620 AATACTAACT
*
87630 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
87663 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
87696 TGAAA
1 TGAAA
87701 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:87933 original size:21 final size:22
Alignment explanation
Indices: 87882--87935 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
87872 TGGTTGTGAG
**
87882 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
87904 GGAAATCTTCGGAGAT-GGGAC
1 GGATTTCTTCGGAGATGGGGAC
87925 GGATTTCTTCG
1 GGATTTCTTCG
87936 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:88107 original size:20 final size:20
Alignment explanation
Indices: 88082--88275 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
88072 CTTTAAATAT
*
88082 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* *
88102 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
88124 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
88143 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
88163 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
88183 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
88203 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
88223 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
88243 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
88263 CGCGTTGCGATTT
1 CGCGTTGCGATTT
88276 TGGAAAATCG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.88
21 14 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:88275 original size:60 final size:60
Alignment explanation
Indices: 88082--88273 Score: 249
Period size: 60 Copynumber: 3.2 Consensus size: 60
88072 CTTTAAATAT
**
88082 CGCGTTGCGATATACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATATACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* *** *
88143 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATATACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * * ** *
88203 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATATACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
88263 CGCGTTGCGAT
1 CGCGTTGCGAT
88274 TTTGGAAAAT
Statistics
Matches: 111, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 82 0.74
61 29 0.26
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (60 bp):
CGCGTTGCGATATACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:88292 original size:21 final size:21
Alignment explanation
Indices: 88262--88344 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
88252 ATTTTCATAT
*
88262 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
88283 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
88304 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
88325 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
88345 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:88335 original size:42 final size:43
Alignment explanation
Indices: 88242--88340 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
88232 ATTTATGTGT
* *
88242 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
88283 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
88325 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
88341 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:90865 original size:37 final size:36
Alignment explanation
Indices: 90790--90866 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
90780 TTTTTATATT
*
90790 TTTAAGTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAAGTTTGTAAAAAAATTATATAAATATTATCAA
* * *
90826 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAAGTTTGTAAA-AAAATTATATAAATATTAT-CAA
90863 TTTA
1 TTTA
90867 TAATATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 25 0.71
37 10 0.29
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (36 bp):
TTTAAGTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:90886 original size:18 final size:18
Alignment explanation
Indices: 90842--90889 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
90832 TTTTTAAAGA
*
90842 AAATATATAAATATTTTAC
1 AAATATAT-AATATTATAC
*
90861 -AATTTATAATATTATAC
1 AAATATATAATATTATAC
90878 AAATATATAATA
1 AAATATATAATA
90890 AGGACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATAATATTATAC
Found at i:97457 original size:21 final size:21
Alignment explanation
Indices: 97433--97507 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
97423 AATACGATAG
97433 TCGACTATCGCAACACGAACT
1 TCGACTATCGCAACACGAACT
*
97454 TCGACTATCGCAACGCGAACT
1 TCGACTATCGCAACACGAACT
*
97475 TCGACTATCGCAATACGAACT
1 TCGACTATCGCAACACGAACT
97496 TCGACTATCGCA
1 TCGACTATCGCA
97508 TTGCGATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (21 bp):
TCGACTATCGCAACACGAACT
Found at i:97548 original size:21 final size:21
Alignment explanation
Indices: 97522--97575 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
97512 GATTTACATA
*
97522 TTCGCATTGTGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
97543 TTCGCATTGCGATAGTCTAAG
1 TTCGCATTGCGATAGTCCAAG
*
97564 TTCGCGTTGCGA
1 TTCGCATTGCGA
97576 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:97938 original size:6 final size:6
Alignment explanation
Indices: 97927--97964 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
97917 TCTCGTCTCG
97927 GGTCGT GGTCGT GGTCG- GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
97965 AATGGTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:97946 original size:17 final size:17
Alignment explanation
Indices: 97924--97960 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
97914 TATTCTCGTC
97924 TCGGGTCGTGGTCGTGG
1 TCGGGTCGTGGTCGTGG
97941 TCGGGTCGTGGTCGTGG
1 TCGGGTCGTGGTCGTGG
97958 TCG
1 TCG
97961 TGGTAATGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.51, T:0.30
Consensus pattern (17 bp):
TCGGGTCGTGGTCGTGG
Found at i:98148 original size:41 final size:41
Alignment explanation
Indices: 98103--98203 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
98093 AACGCGAACT
* * *
98103 TCGACTATCGCAATGCGAATATGTAAATCGTAATGCGATAG
1 TCGACTATCGCAACGCGAATATGTAAATCGCAATACGATAG
*
98144 TCGACTATCACAACGCGAATATGTAAATCGCAATACGATAG
1 TCGACTATCGCAACGCGAATATGTAAATCGCAATACGATAG
*
98185 TCGACTATCGCAACACGAA
1 TCGACTATCGCAACGCGAA
98204 CTTCGACTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.23
Consensus pattern (41 bp):
TCGACTATCGCAACGCGAATATGTAAATCGCAATACGATAG
Found at i:98285 original size:21 final size:21
Alignment explanation
Indices: 98088--98286 Score: 153
Period size: 21 Copynumber: 9.6 Consensus size: 21
98078 TTTGGAATAA
*
98088 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
98109 ATCGCAATGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
* *
98129 ATCGTAATGCGATA-GTCGACT
1 ATCGCAATGCGA-ACTTCGACT
* * *
98150 ATCACAACGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
* *
98170 ATCGCAATACGATA-GTCGACT
1 ATCGCAATGCGA-ACTTCGACT
**
98191 ATCGCAACACGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
98212 ATCGCAATGCGAACTTTGACT
1 ATCGCAATGCGAACTTCGACT
* *
98233 ATCGCAACGCGAACTTCGATT
1 ATCGCAATGCGAACTTCGACT
98254 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
98275 ATCGCATTGCGA
1 ATCGCAATGCGA
98287 TTTACATATT
Statistics
Matches: 141, Mismatches: 26, Indels: 22
0.75 0.14 0.12
Matches are distributed among these distances:
20 29 0.21
21 112 0.79
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:98321 original size:21 final size:21
Alignment explanation
Indices: 98295--98348 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
98285 GATTTACATA
*
98295 TTCGCATTGTGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
98316 TTCGCATTGCGATAGTCTAAG
1 TTCGCATTGCGATAGTCCAAG
*
98337 TTCGCGTTGCGA
1 TTCGCATTGCGA
98349 ATTTGGAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:99806 original size:2 final size:2
Alignment explanation
Indices: 99799--99848 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
99789 AGCGACTTTG
99799 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99841 TA TA TA TA
1 TA TA TA TA
99849 CTAAACATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100274 original size:17 final size:17
Alignment explanation
Indices: 100254--100286 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
100244 ATATTTATTT
100254 ATAT-AAAATATAATATA
1 ATATGAAAA-ATAATATA
100271 ATATGAAAAATAATAT
1 ATATGAAAAATAATAT
100287 TGTGATATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATGAAAAATAATATA
Found at i:100388 original size:17 final size:16
Alignment explanation
Indices: 100363--100398 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
100353 TTAAATATTA
100363 TTTTAAATAATAACAT
1 TTTTAAATAATAACAT
*
100379 TTTTACAATAATAATAT
1 TTTTA-AATAATAACAT
100396 TTT
1 TTT
100399 CACATCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTAAATAATAACAT
Found at i:100721 original size:31 final size:33
Alignment explanation
Indices: 100632--100727 Score: 115
Period size: 33 Copynumber: 3.0 Consensus size: 33
100622 GTTTGGCAAG
* * * * *
100632 ATTGGAAACTTCATCTTGGTCGGTGGCAAACTT
1 ATTGGAAAATTAATCTTGGTAGGTGGCCAACTC
* *
100665 ATTGAAAAATTAATCTTGGTTGGTGGCCAACTC
1 ATTGGAAAATTAATCTTGGTAGGTGGCCAACTC
100698 ATTGGAAAATT-AT-TTGGTAGGTGGCCAACT
1 ATTGGAAAATTAATCTTGGTAGGTGGCCAACT
100728 TATTTTTCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 16 0.29
32 2 0.04
33 37 0.67
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (33 bp):
ATTGGAAAATTAATCTTGGTAGGTGGCCAACTC
Found at i:107048 original size:29 final size:29
Alignment explanation
Indices: 107011--107081 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
107001 CACCTTTTCA
107011 AACTTTATTTCCCTGTCAGACACCCGTTG
1 AACTTTATTTCCCTGTCAGACACCCGTTG
* * *
107040 AACTCTATTTCCCTGTCAGACGCCTGTTG
1 AACTTTATTTCCCTGTCAGACACCCGTTG
107069 AACTTTATTTCCC
1 AACTTTATTTCCC
107082 GATCTCACAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.37
Consensus pattern (29 bp):
AACTTTATTTCCCTGTCAGACACCCGTTG
Found at i:111836 original size:19 final size:19
Alignment explanation
Indices: 111812--111848 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
111802 TCGTGTTAAT
*
111812 ACACGTTCTTTATATTTTG
1 ACACGTTATTTATATTTTG
111831 ACACGTTATTTATATTTT
1 ACACGTTATTTATATTTT
111849 TTAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.54
Consensus pattern (19 bp):
ACACGTTATTTATATTTTG
Found at i:115282 original size:22 final size:23
Alignment explanation
Indices: 115236--115290 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
115226 TCATTTAAAT
*
115236 AATAAACAAACAAAAACGAACAC
1 AATAAACAAACAAAAACAAACAC
* *
115259 AATAAACGAAC-AACACAAACAC
1 AATAAACAAACAAAAACAAACAC
*
115281 AAAAAACAAA
1 AATAAACAAA
115291 TTTATTCGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.71, C:0.22, G:0.04, T:0.04
Consensus pattern (23 bp):
AATAAACAAACAAAAACAAACAC
Found at i:115552 original size:14 final size:16
Alignment explanation
Indices: 115533--115564 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
115523 GCCCTCTGTT
115533 CGAACATA-AAT-GAA
1 CGAACATATAATCGAA
115547 CGAACATATAATCGAA
1 CGAACATATAATCGAA
115563 CG
1 CG
115565 TTCACAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.16, T:0.16
Consensus pattern (16 bp):
CGAACATATAATCGAA
Found at i:125299 original size:2 final size:2
Alignment explanation
Indices: 125292--125317 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
125282 TGGACTCTTC
125292 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
125318 GTCAAATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131212 original size:22 final size:20
Alignment explanation
Indices: 131187--131227 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
131177 ACACATTCCT
*
131187 TTTTAATATTATTAGTTTTGAG
1 TTTTAAAATT-TTA-TTTTGAG
131209 TTTTAAAATTTTATTTTGA
1 TTTTAAAATTTTATTTTGA
131228 TAAAACGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (20 bp):
TTTTAAAATTTTATTTTGAG
Found at i:132627 original size:15 final size:15
Alignment explanation
Indices: 132607--132644 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
132597 CCTCTAAATA
*
132607 ATTTAGTATTGACTG
1 ATTTAGTACTGACTG
132622 ATTTAGTACTGACTG
1 ATTTAGTACTGACTG
132637 ATTTAGTA
1 ATTTAGTA
132645 AAACAGTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (15 bp):
ATTTAGTACTGACTG
Found at i:137192 original size:21 final size:21
Alignment explanation
Indices: 137154--137196 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
137144 CATACAAGTT
* * *
137154 ATTTTTACTTCCTTTGTTTAG
1 ATTTTAACTACCTGTGTTTAG
137175 ATTTTAACTACCTGTGTTTAG
1 ATTTTAACTACCTGTGTTTAG
137196 A
1 A
137197 AGCATTACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (21 bp):
ATTTTAACTACCTGTGTTTAG
Found at i:142959 original size:19 final size:18
Alignment explanation
Indices: 142935--142976 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
142925 TAAAAAATCA
142935 TATTATAATAAATTATTAT
1 TATTATAATAAATT-TTAT
*
142954 TATTATAATAGATTTTAT
1 TATTATAATAAATTTTAT
142972 TATTA
1 TATTA
142977 AAAAGGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TATTATAATAAATTTTAT
Found at i:144247 original size:15 final size:14
Alignment explanation
Indices: 144214--144247 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
144204 TGCTGGGAAT
*
144214 TTAAAATATAGACA
1 TTAAAATATAGAAA
144228 TTAAAATATAGAAAA
1 TTAAAATATAG-AAA
144243 TTAAA
1 TTAAA
144248 GTGTTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (14 bp):
TTAAAATATAGAAA
Found at i:145601 original size:20 final size:20
Alignment explanation
Indices: 145556--145603 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
145546 GTATGAACAT
*
145556 TATCTATACTGATTGAAGTAG
1 TATCGATACTGATTGAAG-AG
145577 TATCGATACTGATGTGAAG-G
1 TATCGATACTGAT-TGAAGAG
145597 TATCGAT
1 TATCGAT
145604 GCTGTAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 8 0.32
21 12 0.48
22 5 0.20
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (20 bp):
TATCGATACTGATTGAAGAG
Found at i:148372 original size:23 final size:24
Alignment explanation
Indices: 148346--148416 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
148336 TTAGGATAAA
*
148346 TCTATGTGGTCTTTTGGGAC-AAT
1 TCTATGTGGTCTTTCGGGACAAAT
*
148369 TCTATGTGGTCCTTCGGGACAAAT
1 TCTATGTGGTCTTTCGGGACAAAT
* * *
148393 TCTACGCGGTCTTTCGAGACAAAT
1 TCTATGTGGTCTTTCGGGACAAAT
148417 CTACGTGACA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 18 0.44
24 23 0.56
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (24 bp):
TCTATGTGGTCTTTCGGGACAAAT
Found at i:151122 original size:20 final size:21
Alignment explanation
Indices: 151076--151123 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
151066 ATTTATTTCG
**
151076 AGGGATCAATCTTTTTCTCAA
1 AGGGATCAATCTTTTTCGAAA
151097 AGGGATCAATCTTTTT-GAAA
1 AGGGATCAATCTTTTTCGAAA
*
151117 ATGGATC
1 AGGGATC
151124 GATTCTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (21 bp):
AGGGATCAATCTTTTTCGAAA
Found at i:156358 original size:29 final size:30
Alignment explanation
Indices: 156325--156399 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
156315 TTCAATGTCC
* *
156325 AAGTGCCCAAAACTTAA-AAACAATAACGT
1 AAGTGACCAAAACTTAATAAAAAATAACGT
156354 AAGTGACCAAAACTTAATAAAAAATAACGT
1 AAGTGACCAAAACTTAATAAAAAATAACGT
* *
156384 AAGTGGCTAAAACTTA
1 AAGTGACCAAAACTTA
156400 TGTTTTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 16 0.39
30 25 0.61
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (30 bp):
AAGTGACCAAAACTTAATAAAAAATAACGT
Found at i:162269 original size:56 final size:54
Alignment explanation
Indices: 162167--162284 Score: 148
Period size: 56 Copynumber: 2.2 Consensus size: 54
162157 GGTAGAATGC
** * *
162167 AATATT-AACATTTTCGGTAGAAAAAATAACGTTTTAGGTAGCGTTTTACCGGA
1 AATATTAAACATTTTCGGTAGAAAAAATAACGTTTTAGAAAACGTTTTACCAGA
* *
162220 AATATTAAACATTTTCGGTAGAAAAAAAATAATGTTTTAGAAAATGTTTTACCAGA
1 AATATTAAACATTTTCGGTAG--AAAAAATAACGTTTTAGAAAACGTTTTACCAGA
*
162276 AATGTTAAA
1 AATATTAAA
162285 AATATTAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
53 6 0.11
54 14 0.25
56 35 0.64
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.34
Consensus pattern (54 bp):
AATATTAAACATTTTCGGTAGAAAAAATAACGTTTTAGAAAACGTTTTACCAGA
Found at i:162679 original size:2 final size:2
Alignment explanation
Indices: 162672--162705 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
162662 TAAAAATAAT
162672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
162706 TAATAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:162732 original size:35 final size:35
Alignment explanation
Indices: 162693--162759 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
162683 ATATATATAT
162693 ATATATATAATATTAATA-ATTTTAATTTAAATTAA
1 ATATATATAATATTAATATA-TTTAATTTAAATTAA
*
162728 ATATATATAATATTTATATATTTAATTTAAAT
1 ATATATATAATATTAATATATTTAATTTAAAT
162760 ATATATACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
ATATATATAATATTAATATATTTAATTTAAATTAA
Found at i:166558 original size:20 final size:20
Alignment explanation
Indices: 166514--166558 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
166504 AAAAATCATT
* *
166514 AAATTTATTATATTCTTATA
1 AAATTTATTATAATCATATA
166534 AAATTTATTATAAT-ATATA
1 AAATTTATTATAATCATATA
166553 ATAATT
1 A-AATT
166559 ATAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATTTATTATAATCATATA
Found at i:172996 original size:20 final size:20
Alignment explanation
Indices: 172973--173013 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
172963 TTGAAAATCG
172973 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
172993 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
173013 C
1 C
173014 CTATATCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:173011 original size:77 final size:77
Alignment explanation
Indices: 172918--173090 Score: 247
Period size: 77 Copynumber: 2.2 Consensus size: 77
172908 GAAATTCGCG
** * * *
172918 TTGCGATAGTTGTGTTTACCTATATCGGTAAATAACGTTGCGAATTTGAAAATCGCATTGCGATA
1 TTGCGATAGTACTGTTTACCTATATCGGTAAATAACATTGCAAATTTAAAAATCGCATTGCGATA
*
172983 GTACTGTTTACA
66 GTACTGCTTACA
* * *
172995 TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCAAATTTAAAAATCGCATTGCGATG
1 TTGCGATAGTACTGTTTACCTATATCGGTAAATAACATTGCAAATTTAAAAATCGCATTGCGATA
173060 GTACTGCTTACA
66 GTACTGCTTACA
* *
173072 TTGTGATAGTATTGTTTAC
1 TTGCGATAGTACTGTTTAC
173091 ATTGCAATAG
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 85 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (77 bp):
TTGCGATAGTACTGTTTACCTATATCGGTAAATAACATTGCAAATTTAAAAATCGCATTGCGATA
GTACTGCTTACA
Found at i:173073 original size:20 final size:20
Alignment explanation
Indices: 173050--173110 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
173040 TTAAAAATCG
* *
173050 CATTGCGATGGTACTGCTTA
1 CATTGCGATAGTACTGTTTA
* *
173070 CATTGTGATAGTATTGTTTA
1 CATTGCGATAGTACTGTTTA
*
173090 CATTGCAATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
173110 C
1 C
173111 CTATATCGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:173121 original size:97 final size:97
Alignment explanation
Indices: 172973--173187 Score: 333
Period size: 97 Copynumber: 2.2 Consensus size: 97
172963 TTGAAAATCG
* *
172973 CATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCAA
1 CATTGCGATAGTACTGTTTACATTGCAATAGTACTGTTTACCTATATCGGTAATTAGCATTACAA
*
173038 ATTTAAAAATCGC-ATTGCGATGGTACTGCTTA
66 ATTTAAAAATCGCGA-TGCGATAGTACTGCTTA
* * * *
173070 CATTGTGATAGTATTGTTTACATTGCAATAGTACTGTTTACCTATATCGGTAATTAGCGTTATAA
1 CATTGCGATAGTACTGTTTACATTGCAATAGTACTGTTTACCTATATCGGTAATTAGCATTACAA
* *
173135 ATTTGAAAATCGCGATGCGATAGTACTGTTTA
66 ATTTAAAAATCGCGATGCGATAGTACTGCTTA
173167 CATTGCGATAGTACTGTTTAC
1 CATTGCGATAGTACTGTTTAC
173188 CTATATGTGT
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 105 0.99
98 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (97 bp):
CATTGCGATAGTACTGTTTACATTGCAATAGTACTGTTTACCTATATCGGTAATTAGCATTACAA
ATTTAAAAATCGCGATGCGATAGTACTGCTTA
Found at i:173175 original size:20 final size:20
Alignment explanation
Indices: 173150--173187 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
173140 AAAATCGCGA
173150 TGCGATAGTACTGTTTACAT
1 TGCGATAGTACTGTTTACAT
173170 TGCGATAGTACTGTTTAC
1 TGCGATAGTACTGTTTAC
173188 CTATATGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (20 bp):
TGCGATAGTACTGTTTACAT
Found at i:173203 original size:77 final size:77
Alignment explanation
Indices: 173070--173398 Score: 509
Period size: 77 Copynumber: 4.3 Consensus size: 77
173060 GTACTGCTTA
* * * ***
173070 CATTGTGATAGTATTGTTTACATTGCAATAGTACTGTTTACCTATATCGGTAATTAGCGTTATAA
1 CATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
173135 ATTTGAAAATCG
66 ATTTGAAAATCG
173147 CGA-TGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATAT-GTGTAATTAGCGTTGC
1 C-ATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCG-GTAATTAGCGTTGC
*
173210 GAATTTGAAAATCT
64 GAATTTGAAAATCG
*
173224 CATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGA
1 CATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
173289 ATTTGAAAATCG
66 ATTTGAAAATCG
* * *
173301 CATTGCGATAGTACTATTTACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGA
1 CATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
173366 ATTTGAAAATCG
66 ATTTGAAAATCG
* *
173378 AATTGCGATAGTATTGTTTAC
1 CATTGCGATAGTACTGTTTAC
173399 CTATATCGGT
Statistics
Matches: 233, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
76 2 0.01
77 229 0.98
78 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (77 bp):
CATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
ATTTGAAAATCG
Found at i:173230 original size:174 final size:174
Alignment explanation
Indices: 172930--173264 Score: 521
Period size: 174 Copynumber: 1.9 Consensus size: 174
172920 GCGATAGTTG
* *
172930 TGTTTACCTATATCGGTAAATAACGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACA
1 TGTTTACCTATATCGGTAAATAACGTTACAAATTTGAAAATCGCATTGCGATAGTACTGTTTACA
*
172995 TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCAAATTTAAAAATCGCATTGCGATG
66 TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCAAATTTAAAAATCGCATTGCGATA
* *
173060 GTACTGCTTACATTGTGATAGTATTGTTTACATTGCAATAGTAC
131 GTACTGCTTACATTGCGATAGTACTGTTTACATTGCAATAGTAC
* * *
173104 TGTTTACCTATATCGGTAATTAGCGTTATAAATTTGAAAATCGCGA-TGCGATAGTACTGTTTAC
1 TGTTTACCTATATCGGTAAATAACGTTACAAATTTGAAAATCGC-ATTGCGATAGTACTGTTTAC
* * * *
173168 ATTGCGATAGTACTGTTTACCTATAT-GTGTAATTAGCGTTGCGAATTTGAAAATCTCATTGCGA
65 ATTGCGATAGTACTGTTTACCTATATCG-GTAATTAGCATTGCAAATTTAAAAATCGCATTGCGA
*
173232 TAGTACTGTTTACATTGCGATAGTACTGTTTAC
129 TAGTACTGCTTACATTGCGATAGTACTGTTTAC
173265 CTATATTGGT
Statistics
Matches: 146, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
173 1 0.01
174 144 0.99
175 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (174 bp):
TGTTTACCTATATCGGTAAATAACGTTACAAATTTGAAAATCGCATTGCGATAGTACTGTTTACA
TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCAAATTTAAAAATCGCATTGCGATA
GTACTGCTTACATTGCGATAGTACTGTTTACATTGCAATAGTAC
Found at i:173247 original size:20 final size:20
Alignment explanation
Indices: 173224--173264 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
173214 TTGAAAATCT
173224 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
173244 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
173264 C
1 C
173265 CTATATTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Done.