Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 62 of 213
Found at i:16796219 original size:22 final size:22
Alignment explanation
Indices: 16796191--16796236 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
16796181 ATTGTTGTAT
16796191 AATTTTAAGATTTATTTTTTAA
1 AATTTTAAGATTTATTTTTTAA
16796213 AATTTTAAGATTTATTTTTTAA
1 AATTTTAAGATTTATTTTTTAA
16796235 AA
1 AA
16796237 AGGCTAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
AATTTTAAGATTTATTTTTTAA
Found at i:16804394 original size:26 final size:25
Alignment explanation
Indices: 16804365--16804449 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 25
16804355 CTGTTATTAA
16804365 ATTTTAATAAGATTATTATTAAACAT
1 ATTTTAATAA-ATTATTATTAAACAT
** * *
16804391 ATTTTAATAAAAAATAAGTTAATCAT
1 ATTTTAATAAATTATTA-TTAAACAT
* *
16804417 ATTTTAACATAATTATTATTAAATAT
1 ATTTTAATA-AATTATTATTAAACAT
*
16804443 AATTTAA
1 ATTTTAA
16804450 GAAAATAATA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
25 4 0.09
26 37 0.80
27 5 0.11
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (25 bp):
ATTTTAATAAATTATTATTAAACAT
Found at i:16804537 original size:39 final size:38
Alignment explanation
Indices: 16804454--16804537 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 38
16804444 ATTTAAGAAA
* * * *
16804454 ATAATATATGAATTAATAACATCCTTAATATAATTATT
1 ATAAAATATGAATTAATAAAATCATAAATATAATTATT
16804492 ATTAAAATATGAATTAATAAAAATCATAATATATAATT-TT
1 A-TAAAATATGAATTAAT-AAAATCATAA-ATATAATTATT
16804532 ATAAAA
1 ATAAAA
16804538 ATAATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
38 1 0.03
39 20 0.51
40 10 0.26
41 8 0.21
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (38 bp):
ATAAAATATGAATTAATAAAATCATAAATATAATTATT
Found at i:16812565 original size:42 final size:42
Alignment explanation
Indices: 16812513--16812612 Score: 148
Period size: 42 Copynumber: 2.4 Consensus size: 42
16812503 GCTCTCGGTA
16812513 TCGCACACTTAGTGCCCGTTATTCAACATC-TCCATTTTAATT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGT-CATTTTAATT
* * * *
16812555 TCGCACACTTAGTGCCCTTTATTTAACCTCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
16812597 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
16812613 GTTCATATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 52 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
Found at i:16830605 original size:19 final size:18
Alignment explanation
Indices: 16830581--16830630 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
16830571 AATACTTAGC
**
16830581 TTGAATTAAAAAAGTGTTT
1 TTGAATTAAAAAA-TACTT
*
16830600 TTGAATTGAAAAATACTT
1 TTGAATTAAAAAATACTT
16830618 TTGAATCTAAAAA
1 TTGAAT-TAAAAA
16830631 CAAAAATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (18 bp):
TTGAATTAAAAAATACTT
Found at i:16831454 original size:72 final size:72
Alignment explanation
Indices: 16831337--16831480 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
16831327 TCAAATCTAG
16831337 GAAAGGAAAATCGTAACTATATGAGGGTAAGAGTATAGCTTGACGTCAAAAAGCCTTTGAAAAGG
1 GAAAGGAAAATCGTAACTATATGAGGGTAAGAGTATAGCTTGACGTCAAAAAGCCTTTGAAAAGG
16831402 AAGAAGC
66 AAGAAGC
16831409 GAAAGGAAAATCGTAACTATATGAGGGTAAGAGTATAGCTTGACGTCAAAAAGCCTTTGAAAAGG
1 GAAAGGAAAATCGTAACTATATGAGGGTAAGAGTATAGCTTGACGTCAAAAAGCCTTTGAAAAGG
16831474 AAGAAGC
66 AAGAAGC
16831481 AGGTTTTATG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.19
Consensus pattern (72 bp):
GAAAGGAAAATCGTAACTATATGAGGGTAAGAGTATAGCTTGACGTCAAAAAGCCTTTGAAAAGG
AAGAAGC
Found at i:16833718 original size:43 final size:43
Alignment explanation
Indices: 16833663--16833930 Score: 335
Period size: 43 Copynumber: 6.2 Consensus size: 43
16833653 GACTAATACA
* * *
16833663 TTTAGCGACGTTTTTGGTAAAAGCGTCGCTATAGATCAAGGTC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
*
16833706 TTTAGTGGCGTTTTTGCGCT--AAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTG-G-TAAAAGCGCCGCTATAGATCAGGGTC
*
16833749 TTTAGCGGCGTTTTTGGTAGAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
16833792 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
* *
16833835 TTTAGTGGCGTTTTTGCG-CAAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTG-GTAAAAGCGCCGCTATAGATCAGGGTC
* * ** * * * * *
16833878 TTTATCGGCGCTTTTACTAAAAACGCCGCAATAGACCATGATC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
*
16833921 TATAGCGGCG
1 TTTAGCGGCG
16833931 CTTCGGTCAC
Statistics
Matches: 198, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 193 0.97
44 2 0.01
45 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTC
Found at i:16833905 original size:129 final size:129
Alignment explanation
Indices: 16833663--16833930 Score: 401
Period size: 129 Copynumber: 2.1 Consensus size: 129
16833653 GACTAATACA
* * *
16833663 TTTAGCGACGTTTTTGGTAAAAGCGTCGCTATAGATCAAGGTCTTTAGTGGCGTTTTTGCGCTAA
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCGTTTTTGCGCAAA
* ** * * * * *
16833728 GCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTGGTAGAAGCGCCGCTATAGATCAGGGTC
66 GCGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTACTAAAAACGCCGCAATAGACCAGGATC
*
16833792 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTCTTTAGTGGCGTTTTTGCGCAAA
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCGTTTTTGCGCAAA
* *
16833857 GCGCCGCTATAGATCAGGGTCTTTATCGGCGCTTTTACTAAAAACGCCGCAATAGACCATGATC
66 GCGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTACTAAAAACGCCGCAATAGACCAGGATC
*
16833921 TATAGCGGCG
1 TTTAGCGGCG
16833931 CTTCGGTCAC
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 124 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (129 bp):
TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCGTTTTTGCGCAAA
GCGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTACTAAAAACGCCGCAATAGACCAGGATC
Found at i:16833931 original size:43 final size:42
Alignment explanation
Indices: 16833883--16834002 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 42
16833873 GGGTCTTTAT
16833883 CGGCGCTTTTACTAAAAACGCCGC-AATAGACCATGATCTATAG
1 CGGCGCTTTTAC-AAAAACGCCGCTAA-AGACCATGATCTATAG
* * * *
16833926 CGGCGCTTCGGT-CACAAACGCCACTAAAGACCCTGATCTATAG
1 CGGCGCTT--TTACAAAAACGCCGCTAAAGACCATGATCTATAG
16833969 CGGCGCTTTTTACCAAAAACGCCGCTAAAGACCA
1 CGGCGC-TTTTA-CAAAAACGCCGCTAAAGACCA
16834003 ACACCTTTAG
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.02
43 38 0.60
44 23 0.37
45 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (42 bp):
CGGCGCTTTTACAAAAACGCCGCTAAAGACCATGATCTATAG
Found at i:16834187 original size:10 final size:9
Alignment explanation
Indices: 16834156--16834185 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
16834146 TTAAACAAAT
16834156 AATATAATA
1 AATATAATA
16834165 AATATCAATA
1 AATAT-AATA
16834175 AATATAATA
1 AATATAATA
16834184 AA
1 AA
16834186 ATTCGTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
AATATAATA
Found at i:16834378 original size:21 final size:21
Alignment explanation
Indices: 16834349--16834460 Score: 89
Period size: 21 Copynumber: 5.3 Consensus size: 21
16834339 TTTGACGCTG
*
16834349 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
* **
16834370 CTCTACTTCCCTCACTTTAGC
1 CTCTACTTCCCTCGCTGCAGC
* * *
16834391 CTTTGCTTCCCTCACTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
* * *
16834412 CTGTACTTCTCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
* * * *
16834433 CTCTGCTTCTCTTGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
*
16834454 ATCTACT
1 CTCTACT
16834461 CTAAGCTGCT
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 73 1.00
ACGTcount: A:0.08, C:0.43, G:0.14, T:0.35
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:16834440 original size:42 final size:42
Alignment explanation
Indices: 16834349--16834441 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
16834339 TTTGACGCTG
* **
16834349 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCACTTTAGC
1 CTCTGCTTCCCTCACTGCAGCCTCTACTTCCCTCACTGCAGC
* * * * *
16834391 CTTTGCTTCCCTCACTGCAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCACTGCAGCCTCTACTTCCCTCACTGCAGC
16834433 CTCTGCTTC
1 CTCTGCTTC
16834442 TCTTGCTGCC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.08, C:0.44, G:0.14, T:0.34
Consensus pattern (42 bp):
CTCTGCTTCCCTCACTGCAGCCTCTACTTCCCTCACTGCAGC
Found at i:16834543 original size:66 final size:66
Alignment explanation
Indices: 16834471--16834601 Score: 201
Period size: 66 Copynumber: 2.0 Consensus size: 66
16834461 CTAAGCTGCT
* *
16834471 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATATC-TTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG
16834535 TA
65 TA
* * *
16834537 GCTGGAGTTCTTCATATCTTCTTTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GCTGGAGTTCTTCATATCTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
16834602 GTAATTTGCT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 58 0.98
67 1 0.02
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (66 bp):
GCTGGAGTTCTTCATATCTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:16840058 original size:16 final size:16
Alignment explanation
Indices: 16840037--16840080 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
16840027 ACTAAGCTAC
*
16840037 GTAAGTTATGTATTTT
1 GTAAGTTATGTATTAT
*
16840053 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
* *
16840069 GAAAATTATGTA
1 GTAAGTTATGTA
16840081 AGTTGTGTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:16840117 original size:9 final size:9
Alignment explanation
Indices: 16840105--16840404 Score: 69
Period size: 9 Copynumber: 35.3 Consensus size: 9
16840095 CAAATTATGC
16840105 TATGTAAGT
1 TATGTAAGT
*
16840114 TATGTATGT
1 TATGTAAGT
** *
16840123 CGTATAAGT
1 TATGTAAGT
16840132 TATGTAAG-
1 TATGTAAGT
16840140 T-TGTAAGT
1 TATGTAAGT
16840148 TATGTAAGT
1 TATGTAAGT
*
16840157 TAT-TTA-T
1 TATGTAAGT
* *
16840164 TATGAAAAT
1 TATGTAAGT
*
16840173 TAAGTAAGT
1 TATGTAAGT
*
16840182 TATGTAATT
1 TATGTAAGT
*
16840191 TACG-AA-T
1 TATGTAAGT
* **
16840198 AAT-TAAAAA
1 TATGT-AAGT
*
16840207 AATTGTAAGT
1 TA-TGTAAGT
16840217 TATGTAAG-
1 TATGTAAGT
16840225 T-TGTAAGT
1 TATGTAAGT
*
16840233 TATGTATA-A
1 TATGTA-AGT
*
16840242 CAT-TAA-T
1 TATGTAAGT
**
16840249 TAACTAAGT
1 TATGTAAGT
*
16840258 TATGTAATT
1 TATGTAAGT
*
16840267 TATGTATA-A
1 TATGTA-AGT
16840276 TACTGAGTAA-T
1 TA-T--GTAAGT
16840287 TAAT-TAAGT
1 T-ATGTAAGT
*
16840296 TATGTAATT
1 TATGTAAGT
16840305 TATGT-A--
1 TATGTAAGT
*
16840311 TAT-TAACT
1 TATGTAAGT
*
16840319 AAT-TAAGT
1 TATGTAAGT
*
16840327 TATGTAATT
1 TATGTAAGT
16840336 TATG-AA-T
1 TATGTAAGT
* **
16840343 AAT-TAAAAA
1 TATGT-AAGT
*
16840352 AATGTAAGT
1 TATGTAAGT
16840361 TATGTAAGT
1 TATGTAAGT
*
16840370 TATTTAAG-
1 TATGTAAGT
16840378 T-TGTAAGT
1 TATGTAAGT
16840386 TATGTAAG-
1 TATGTAAGT
16840394 T-TGTAAGT
1 TATGTAAGT
16840402 TAT
1 TAT
16840405 ATGTATAATA
Statistics
Matches: 213, Mismatches: 45, Indels: 66
0.66 0.14 0.20
Matches are distributed among these distances:
5 1 0.00
6 4 0.02
7 34 0.16
8 38 0.18
9 120 0.56
10 8 0.04
11 4 0.02
12 4 0.02
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.43
Consensus pattern (9 bp):
TATGTAAGT
Found at i:16840148 original size:16 final size:16
Alignment explanation
Indices: 16840107--16840238 Score: 70
Period size: 16 Copynumber: 7.8 Consensus size: 16
16840097 AATTATGCTA
*
16840107 TGTAAGTTATGTATGT
1 TGTAAGTTATGTAAGT
*
16840123 CGTATAAGTTATGTAAGT
1 --TGTAAGTTATGTAAGT
16840141 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
* * * *
16840157 TATTTA-TTATGAAAAT
1 T-GTAAGTTATGTAAGT
*
16840173 TAAGTAAGTTATGTAATT
1 T--GTAAGTTATGTAAGT
*** *
16840191 TACGAATAA-TTAAAAAAAT
1 T--G--TAAGTTATGTAAGT
16840210 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
16840226 TGTAAGTTATGTA
1 TGTAAGTTATGTA
16840239 TAACATTAAT
Statistics
Matches: 88, Mismatches: 20, Indels: 14
0.72 0.16 0.11
Matches are distributed among these distances:
15 3 0.03
16 44 0.50
17 6 0.07
18 25 0.28
19 7 0.08
20 3 0.03
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:16840236 original size:69 final size:68
Alignment explanation
Indices: 16840141--16840370 Score: 184
Period size: 69 Copynumber: 3.2 Consensus size: 68
16840131 TTATGTAAGT
* * *
16840141 TGTAAGTTATGTAAGTTATTTA-TTATGA-AAATTAAGTAAGTTATGTAATTTACGAATAATTAA
1 TGTAAGTTATGTAAG-T-TTAAGTTATGACAAATTAACTAAGTTATGTAATTTATGAATAATTAA
16840204 AAAAA
64 AAAAA
*
16840209 TTGTAAGTTATGTAAGTTGTAAGTTATGTATAACATTAATTAACTAAGTTATGTAATTTATGTAT
1 -TGTAAGTTATGTAAGTT-TAAGTTATG----ACA--AATTAACTAAGTTATGTAATTTATGAAT
**
16840274 AATACTGAGTAATTAA
58 AAT--T-A--AAAAAA
* ** * *
16840290 T-TAAGTTATGTAA-TTTATG-TAT-ATTAACTAATTAAGTTATGTAATTTATGAATAATTAAAA
1 TGTAAGTTATGTAAGTTTAAGTTATGACAAATTAACTAAGTTATGTAATTTATGAATAATTAAAA
16840351 AAA
66 AAA
16840354 TGTAAGTTATGTAAGTT
1 TGTAAGTTATGTAAGTT
16840371 ATTTAAGTTG
Statistics
Matches: 131, Mismatches: 14, Indels: 35
0.73 0.08 0.19
Matches are distributed among these distances:
64 5 0.04
65 12 0.09
66 3 0.02
67 2 0.02
68 3 0.02
69 48 0.37
71 1 0.01
73 1 0.01
74 1 0.01
76 31 0.24
77 3 0.02
78 3 0.02
79 13 0.10
80 1 0.01
81 4 0.03
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.43
Consensus pattern (68 bp):
TGTAAGTTATGTAAGTTTAAGTTATGACAAATTAACTAAGTTATGTAATTTATGAATAATTAAAA
AAA
Found at i:16840325 original size:31 final size:31
Alignment explanation
Indices: 16840283--16840648 Score: 252
Period size: 31 Copynumber: 11.8 Consensus size: 31
16840273 TAATACTGAG
16840283 TAATTAATTAAGTTATGTAATTTATGTATAT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
* *
16840314 TAACTAATTAAGTTATGTAATTTATGAATAAT
1 TAATTAATTAAGTTATGTAATTTATGTAT-AT
** * *
16840346 TAAAAAAATGTAAGTTATGTAAGTTATTTA-AGTT
1 T-AATTAAT-TAAGTTATGTAATTTATGTATA--T
*
16840380 GTAAGTT-ATGTAAG-T-TGTAAGTTATATGTATAA
1 -TAA-TTAAT-TAAGTTATGTAA-TT-TATGTATAT
* *
16840413 T-ATTAATTGCAATTTTTTGTAATTTATGTATCA-
1 TAATTAATT--AA-GTTATGTAATTTATGTAT-AT
*
16840446 T-ATTAATGTAAGTTATGTAACTTATGTATAT
1 TAATTAAT-TAAGTTATGTAATTTATGTATAT
16840477 TAATTAATTAAGTTATGTAATTTAT-T-TA-
1 TAATTAATTAAGTTATGTAATTTATGTATAT
*
16840505 TAA-T-ATT-A---ATGTAATTTATGTATGT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
*
16840530 TAATTAATTAAGTTATGTAACTTATGTATAT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
*
16840561 TAATTAACTAAGTTATGTAATTTATGTATCA-
1 TAATTAATTAAGTTATGTAATTTATGTAT-AT
* *
16840592 T-ATTAATGTAATTTATGTATATTAAT-TA-AT
1 TAATTAAT-TAAGTTATGTA-ATTTATGTATAT
* *
16840622 TAATGTAACTTATG-TATGTAAATTATG
1 TAAT-TAA-TTAAGTTATGTAATTTATG
16840649 ATTTATAAAC
Statistics
Matches: 269, Mismatches: 29, Indels: 74
0.72 0.08 0.20
Matches are distributed among these distances:
22 11 0.04
23 1 0.00
24 1 0.00
25 4 0.01
26 4 0.01
27 4 0.01
28 4 0.01
29 3 0.01
30 15 0.06
31 125 0.46
32 31 0.12
33 22 0.08
34 37 0.14
35 7 0.03
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.48
Consensus pattern (31 bp):
TAATTAATTAAGTTATGTAATTTATGTATAT
Found at i:16840384 original size:16 final size:16
Alignment explanation
Indices: 16840353--16840404 Score: 77
Period size: 16 Copynumber: 3.1 Consensus size: 16
16840343 AATTAAAAAA
16840353 ATGTAAGTTATGTAAGTT
1 ATGTAAG-T-TGTAAGTT
*
16840371 ATTTAAGTTGTAAGTT
1 ATGTAAGTTGTAAGTT
16840387 ATGTAAGTTGTAAGTT
1 ATGTAAGTTGTAAGTT
16840403 AT
1 AT
16840405 ATGTATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 25 0.78
17 1 0.03
18 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (16 bp):
ATGTAAGTTGTAAGTT
Found at i:16840517 original size:53 final size:54
Alignment explanation
Indices: 16840460--16840638 Score: 179
Period size: 53 Copynumber: 3.3 Consensus size: 54
16840450 AATGTAAGTT
16840460 ATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATTTATAAT-ATTA
1 ATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATTTATAATAATTA
* * * * *
16840513 ATGTAATTTATGTATGTTAATTAATTAAGTTATGTAACTTATGTATATTAATTA
1 ATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATTTATAATAATTA
* * * *
16840567 A-CTAAGTTATGTA-ATTTATGT-ATCATA-TTAATGTAATTTATGTATATTAATTAATTA
1 ATGTAACTTATGTATATTAAT-TAATTA-AGTT-ATGTAATTTAT-T-TA-TAA-TAATTA
16840624 ATGTAACTTATGTAT
1 ATGTAACTTATGTAT
16840639 GTAAATTATG
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
52 9 0.09
53 66 0.65
54 5 0.05
55 2 0.02
56 2 0.02
57 7 0.07
58 10 0.10
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (54 bp):
ATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATTTATAATAATTA
Found at i:16840525 original size:84 final size:82
Alignment explanation
Indices: 16840430--16840638 Score: 316
Period size: 84 Copynumber: 2.5 Consensus size: 82
16840420 TGCAATTTTT
*
16840430 TGTAATTTATGTATCATATTAATGTAAGTTATGTAACTTATGTATATTAATTAATTAAGTTATGT
1 TGTAATTTATGTAT-ATATTAAT-TAAGTTATGTAACTTATGTATATTAATTAACTAAGTTATGT
*
16840495 AATTTATTTATAATATTAA
64 AATTTATGTATAATATTAA
*
16840514 TGTAATTTATGTATGTTAATTAATTAAGTTATGTAACTTATGTATATTAATTAACTAAGTTATGT
1 TGTAATTTATGTAT-AT-ATTAATTAAGTTATGTAACTTATGTATATTAATTAACTAAGTTATGT
*
16840579 AATTTATGTATCATATTAA
64 AATTTATGTATAATATTAA
16840598 TGTAATTTATG--TATATTAATTAA-TTAATGTAACTTATGTAT
1 TGTAATTTATGTATATATTAATTAAGTT-ATGTAACTTATGTAT
16840639 GTAAATTATG
Statistics
Matches: 117, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
79 2 0.02
80 24 0.21
81 1 0.01
82 1 0.01
84 83 0.71
85 6 0.05
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (82 bp):
TGTAATTTATGTATATATTAATTAAGTTATGTAACTTATGTATATTAATTAACTAAGTTATGTAA
TTTATGTATAATATTAA
Found at i:16840625 original size:22 final size:22
Alignment explanation
Indices: 16840430--16840625 Score: 82
Period size: 22 Copynumber: 9.3 Consensus size: 22
16840420 TGCAATTTTT
*
16840430 TGTAATTTATGTATCATATTAA
1 TGTAATTTATGTATAATATTAA
* *
16840452 TGTAAGTTATG--TAA-CTT-A
1 TGTAATTTATGTATAATATTAA
* *
16840470 TGTATATTAAT-TAATTAA-GTT-A
1 TGTA-ATTTATGT-A-TAATATTAA
*
16840492 TGTAATTTATTTATAATATTAA
1 TGTAATTTATGTATAATATTAA
**
16840514 TGTAATTTATGTATGTTAATTAA
1 TGTAATTTATGTATAAT-ATTAA
* *
16840537 T-TAAGTTATG--TAA-CTT-A
1 TGTAATTTATGTATAATATTAA
* *
16840554 TGTATATTAAT-TAACTAA-GTT-A
1 TGTA-ATTTATGT-A-TAATATTAA
*
16840576 TGTAATTTATGTATCATATTAA
1 TGTAATTTATGTATAATATTAA
*
16840598 TGTAATTTATGTATATTAATTAA
1 TGTAATTTATGTATAAT-ATTAA
16840621 T-TAAT
1 TGTAAT
16840626 GTAACTTATG
Statistics
Matches: 132, Mismatches: 23, Indels: 38
0.68 0.12 0.20
Matches are distributed among these distances:
17 2 0.02
18 9 0.07
19 10 0.08
20 8 0.06
21 16 0.12
22 75 0.57
23 12 0.09
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (22 bp):
TGTAATTTATGTATAATATTAA
Found at i:16840725 original size:29 final size:29
Alignment explanation
Indices: 16840692--16840762 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
16840682 AATATAATTT
16840692 TAATTATTCATTATGTAAGTTAAGATCGA
1 TAATTATTCATTATGTAAGTTAAGATCGA
*
16840721 TAATTAGTCATTATGTAAGTTAAGATCGA
1 TAATTATTCATTATGTAAGTTAAGATCGA
16840750 TAATTATTCATTA
1 TAATTATTCATTA
16840763 ATTTGAAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (29 bp):
TAATTATTCATTATGTAAGTTAAGATCGA
Found at i:16843320 original size:27 final size:27
Alignment explanation
Indices: 16843288--16843339 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
16843278 TCTTACTTTT
* *
16843288 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
16843315 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
16843340 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:16843430 original size:8 final size:10
Alignment explanation
Indices: 16843407--16843443 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
16843397 TAATAACTAT
16843407 ATATATATCC
1 ATATATATCC
*
16843417 ATATATATTC
1 ATATATATCC
16843427 ATATATATCC
1 ATATATATCC
16843437 ATATATA
1 ATATATA
16843444 AGTAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:16844461 original size:82 final size:82
Alignment explanation
Indices: 16844342--16844518 Score: 327
Period size: 82 Copynumber: 2.2 Consensus size: 82
16844332 GCTACCGGAA
* *
16844342 AAAATGCCACTAACTTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
16844407 TTGCGGCGTTTTACCTT
66 TTGCGGCGTTTTACCTT
16844424 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
*
16844489 TTGCGGCGTTTTCCCTT
66 TTGCGGCGTTTTACCTT
16844506 AAAACGCCACTAA
1 AAAACGCCACTAA
16844519 TAGAGTACAC
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 92 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (82 bp):
AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
TTGCGGCGTTTTACCTT
Found at i:16844749 original size:41 final size:41
Alignment explanation
Indices: 16844658--16844851 Score: 178
Period size: 41 Copynumber: 4.7 Consensus size: 41
16844648 AACACGAACT
* * * * *
16844658 TTAGCGGCGCTTAG-CAAAAAATGCCGCTAAAGA-ACAGAGAA
1 TTAGCGGCGCTCAGAC-AAAAACGCCACTAATGATAC-GAGCA
* * *
16844699 TTAGTGGCGCTCAAATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
* * * * *
16844740 TTACCGGCGCTTAGACAAAAACGCCGCTAAAGAATA-GAGAA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATG-ATACGAGCA
* *
16844781 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
* * *
16844822 TTAGCGGCGCTTATACAAAAACGCCGCTAA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAA
16844852 AGGTTTAAAA
Statistics
Matches: 121, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
40 3 0.02
41 113 0.93
42 5 0.04
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (41 bp):
TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
Found at i:16844799 original size:82 final size:82
Alignment explanation
Indices: 16844662--16844853 Score: 323
Period size: 82 Copynumber: 2.3 Consensus size: 82
16844652 CGAACTTTAG
*
16844662 CGGCGCTTAG-CAAAAAATGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAAATAAAAACGCCAC
1 CGGCGCTTAGAC-AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAAATAAAAACGCCAC
16844726 TAATGATACGAGCATTAC
65 TAATGATACGAGCATTAC
* *
16844744 CGGCGCTTAGACAAAAACGCCGCTAAAGAATAGAGAATTAGTGGCGCTCAGATAAAAACGCCACT
1 CGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAAATAAAAACGCCACT
*
16844809 AATGATACGAGCATTAG
66 AATGATACGAGCATTAC
*
16844826 CGGCGCTTATACAAAAACGCCGCTAAAG
1 CGGCGCTTAGACAAAAACGCCGCTAAAG
16844854 GTTTAAAAAA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
82 103 0.99
83 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (82 bp):
CGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAAATAAAAACGCCACT
AATGATACGAGCATTAC
Found at i:16846229 original size:89 final size:86
Alignment explanation
Indices: 16846126--16846292 Score: 228
Period size: 89 Copynumber: 1.9 Consensus size: 86
16846116 TTTGTTTCCA
* * *
16846126 AAATTAAAAGTAAAT-AAATTCCGTTTCGGGATTTATTCTCGCCGTTCAACGGATTTTATTCCAT
1 AAATTAAAAGTAAATAAAATT-CGTTTCGAGATTGATTCTCACCGTTCAAC-GATTTTATTCCA-
*
16846190 TATTTTGATTTTATTTCCAAACGGG
63 AATTTT-ATTTTATTTCCAAACGGG
* * *
16846215 AAATTAAAGGTAAATAAAATTCGTTTCGAGATTGATTCTCATCGTTTAACGATTTTATTCCAAAT
1 AAATTAAAAGTAAATAAAATTCGTTTCGAGATTGATTCTCACCGTTCAACGATTTTATTCCAAAT
16846280 TTTATTTTATTTC
66 TTTATTTTATTTC
16846293 TAAAAACGAG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 10 0.14
87 5 0.07
88 12 0.17
89 38 0.54
90 5 0.07
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.43
Consensus pattern (86 bp):
AAATTAAAAGTAAATAAAATTCGTTTCGAGATTGATTCTCACCGTTCAACGATTTTATTCCAAAT
TTTATTTTATTTCCAAACGGG
Found at i:16846471 original size:86 final size:85
Alignment explanation
Indices: 16846356--16846512 Score: 262
Period size: 86 Copynumber: 1.8 Consensus size: 85
16846346 TTTACTACAT
* *
16846356 TTTGATTTGTTGCCAAAAACTAGAAATTAAATTAAATAAAATTTGTTTCGAGATTTATTCCCACT
1 TTTGATTTGTTGCCAAAAACTAGAAATTAAATTAAATAAAATTTATTTCGAGATTTATTCCCACC
16846421 GTTTAATAAGATTGATTTGA
66 GTTTAATAAGATTGATTTGA
*
16846441 TTTGATTTTGTTGCCAAAAA-TGAGAAATTAAATTAAATAAAATTTATTTCGGGATTTATTCCCA
1 TTTGA-TTTGTTGCCAAAAACT-AGAAATTAAATTAAATAAAATTTATTTCGAGATTTATTCCCA
16846505 CCGTTTAA
64 CCGTTTAA
16846513 CAAGCTTTTA
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
85 6 0.09
86 61 0.91
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (85 bp):
TTTGATTTGTTGCCAAAAACTAGAAATTAAATTAAATAAAATTTATTTCGAGATTTATTCCCACC
GTTTAATAAGATTGATTTGA
Found at i:16846550 original size:74 final size:74
Alignment explanation
Indices: 16846471--16846682 Score: 217
Period size: 84 Copynumber: 2.7 Consensus size: 74
16846461 TGAGAAATTA
* *
16846471 AATTAAATAAAATTTATTTCGGGATTTATTCCCACCGTTTAACAAGCTTTTATTTTGTTTCCAAA
1 AATTAAATAAAATTTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTTGTTTCCAAA
16846536 TTAGAATAG
66 TTAGAATAG
* * * * *
16846545 AATTAAATAAAATCTATTTTGAGATTCATTCCCGCCATTTAACAAGATTTTATTTTATTTGATTT
1 AATTAAATAAAATTTATTTCGGGATTTATTCCCGCCGTTTAACAAG-----A---T-TTT-ATTT
* * *
16846610 TGTTTTCAAATTCGAATTG
56 TGTTTCCAAATTAGAATAG
* * *
16846629 AATTAAATAAAATTTGTTTCGGAATTTATTCCCGCCGTTTGACAAGATTTTATT
1 AATTAAATAAAATTTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATT
16846683 CAATATTATT
Statistics
Matches: 110, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
74 43 0.39
75 3 0.03
76 1 0.01
79 1 0.01
82 1 0.01
83 3 0.03
84 58 0.53
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (74 bp):
AATTAAATAAAATTTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTTGTTTCCAAA
TTAGAATAG
Found at i:16846660 original size:84 final size:84
Alignment explanation
Indices: 16846522--16846703 Score: 233
Period size: 84 Copynumber: 2.2 Consensus size: 84
16846512 ACAAGCTTTT
*
16846522 ATTTTGTTTCCAAATTAGAATAGAATTAAATAAAATCTATTTTGAGATTCATTCCCGCCATTTAA
1 ATTTTGTTTCCAAATTAGAATAGAATTAAATAAAATCTATTTGGAGATTCATTCCCGCCATTTAA
16846587 CAAGATTTTATTTTATTTG
66 CAAGATTTTATTTTATTTG
* * * * * * * *
16846606 ATTTTGTTTTCAAATTCGAATTGAATTAAATAAAATTTGTTTCGGA-ATTTATTCCCGCCGTTTG
1 ATTTTGTTTCCAAATTAGAATAGAATTAAATAAAATCTATTT-GGAGATTCATTCCCGCCATTTA
**
16846670 ACAAGATTTTATTCAATATT-
65 ACAAGATTTTATTTTAT-TTG
16846690 ATTTTGTTTCCAAA
1 ATTTTGTTTCCAAA
16846704 CAAAGACATA
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
84 80 0.95
85 4 0.05
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (84 bp):
ATTTTGTTTCCAAATTAGAATAGAATTAAATAAAATCTATTTGGAGATTCATTCCCGCCATTTAA
CAAGATTTTATTTTATTTG
Found at i:16853446 original size:19 final size:19
Alignment explanation
Indices: 16853424--16853461 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
16853414 ATTTGAAATG
16853424 TTTTATAATAT-TTTTTTAA
1 TTTTA-AATATATTTTTTAA
16853443 TTTTAAATATATTTTTTAA
1 TTTTAAATATATTTTTTAA
16853462 ATTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTAAATATATTTTTTAA
Found at i:16853459 original size:13 final size:12
Alignment explanation
Indices: 16853443--16853477 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
16853433 ATTTTTTTAA
16853443 TTTTAAATATATT
1 TTTTAAAT-TATT
16853456 TTTTAAATTATT
1 TTTTAAATTATT
16853468 TTTTAAATTA
1 TTTTAAATTA
16853478 AATATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTAAATTATT
Found at i:16853480 original size:17 final size:17
Alignment explanation
Indices: 16853430--16853491 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
16853420 AATGTTTTAT
* *
16853430 AATATTTTTTTAATTTTA
1 AATATTATTTTAA-ATTA
16853448 AATA-TATTTT---TTA
1 AATATTATTTTAAATTA
16853461 AATTATT-TTTTAAATTA
1 AA-TATTATTTTAAATTA
16853478 AATATTATTTTAAA
1 AATATTATTTTAAA
16853492 ATTTTAAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 5 0.14
14 6 0.16
15 1 0.03
16 4 0.11
17 17 0.46
18 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATATTATTTTAAATTA
Found at i:16853494 original size:30 final size:31
Alignment explanation
Indices: 16853435--16853494 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
16853425 TTTATAATAT
* *
16853435 TTTTTTAATTTTAAATATATTTTTTAAATTA
1 TTTTTTAATATTAAATATATTTTTAAAATTA
16853466 TTTTTTAA-ATTAAATAT-TATTTTAAAATT
1 TTTTTTAATATTAAATATAT-TTTTAAAATT
16853495 TTAAGTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 17 0.65
31 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTTAATATTAAATATATTTTTAAAATTA
Found at i:16853585 original size:9 final size:9
Alignment explanation
Indices: 16853571--16853627 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
16853561 TTTATTATAC
16853571 TTTAAATAT
1 TTTAAATAT
16853580 TTT-AA-AT
1 TTTAAATAT
16853587 TTTAAATAT
1 TTTAAATAT
16853596 TTT-AAT-T
1 TTTAAATAT
16853603 TTTATAATAT
1 TTTA-AATAT
* *
16853613 TTTAATTTT
1 TTTAAATAT
16853622 TTTAAA
1 TTTAAA
16853628 AATATTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
7 9 0.22
8 7 0.17
9 19 0.47
10 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTAAATAT
Found at i:16853613 original size:17 final size:16
Alignment explanation
Indices: 16853571--16853622 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
16853561 TTTATTATAC
*
16853571 TTTAAATATTTTAAAT
1 TTTAAATATTTTAATT
16853587 TTTAAATATTTTAATT
1 TTTAAATATTTTAATT
16853603 TTTATAATATTTTAATT
1 TTTA-AATATTTTAATT
16853620 TTT
1 TTT
16853623 TTAAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTAAATATTTTAATT
Found at i:16853805 original size:16 final size:17
Alignment explanation
Indices: 16853780--16853813 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16853770 TTTTTTAAAA
*
16853780 TTAAATTATTAA-ATTT
1 TTAAAATATTAATATTT
16853796 TTAAAATATTAATATTT
1 TTAAAATATTAATATTT
16853813 T
1 T
16853814 AATTTGGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATATTAATATTT
Found at i:16853818 original size:23 final size:23
Alignment explanation
Indices: 16853769--16853815 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16853759 ATTCAGTACC
*
16853769 ATTTTTTAAAATTAAATTATTAA
1 ATTTTTAAAAATTAAATTATTAA
16853792 ATTTTTAAAATATTAATATT-TTAA
1 ATTTTTAAAA-ATTAA-ATTATTAA
16853816 TTTGGGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 9 0.43
25 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTTAAAAATTAAATTATTAA
Found at i:16865708 original size:89 final size:86
Alignment explanation
Indices: 16865605--16865771 Score: 228
Period size: 89 Copynumber: 1.9 Consensus size: 86
16865595 TTTGTTTCCA
* * *
16865605 AAATTAAAAGTAAAT-AAATTCCGTTTCGGGATTTATTCTCGCCGTTCAACGGATTTTATTCCAT
1 AAATTAAAAGTAAATAAAATT-CGTTTCGAGATTGATTCTCACCGTTCAAC-GATTTTATTCCA-
*
16865669 TATTTTGATTTTATTTCCAAACGGG
63 AATTTT-ATTTTATTTCCAAACGGG
* * *
16865694 AAATTAAAGGTAAATAAAATTCGTTTCGAGATTGATTCTCATCGTTTAACGATTTTATTCCAAAT
1 AAATTAAAAGTAAATAAAATTCGTTTCGAGATTGATTCTCACCGTTCAACGATTTTATTCCAAAT
16865759 TTTATTTTATTTC
66 TTTATTTTATTTC
16865772 TAAAAACGAG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 10 0.14
87 5 0.07
88 12 0.17
89 38 0.54
90 5 0.07
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.43
Consensus pattern (86 bp):
AAATTAAAAGTAAATAAAATTCGTTTCGAGATTGATTCTCACCGTTCAACGATTTTATTCCAAAT
TTTATTTTATTTCCAAACGGG
Found at i:16865950 original size:86 final size:85
Alignment explanation
Indices: 16865835--16865991 Score: 262
Period size: 86 Copynumber: 1.8 Consensus size: 85
16865825 TTTACTACAT
* *
16865835 TTTGATTTGTTGCCAAAAACTAGAAATTAAATTAAATAAAATTTGTTTCGAGATTTATTCCCACT
1 TTTGATTTGTTGCCAAAAACTAGAAATTAAATTAAATAAAATTTATTTCGAGATTTATTCCCACC
16865900 GTTTAATAAGATTGATTTGA
66 GTTTAATAAGATTGATTTGA
*
16865920 TTTGATTTTGTTGCCAAAAA-TGAGAAATTAAATTAAATAAAATTTATTTCGGGATTTATTCCCA
1 TTTGA-TTTGTTGCCAAAAACT-AGAAATTAAATTAAATAAAATTTATTTCGAGATTTATTCCCA
16865984 CCGTTTAA
64 CCGTTTAA
16865992 CAAGCTTTTA
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
85 6 0.09
86 61 0.91
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (85 bp):
TTTGATTTGTTGCCAAAAACTAGAAATTAAATTAAATAAAATTTATTTCGAGATTTATTCCCACC
GTTTAATAAGATTGATTTGA
Found at i:16866029 original size:74 final size:74
Alignment explanation
Indices: 16865950--16866161 Score: 217
Period size: 84 Copynumber: 2.7 Consensus size: 74
16865940 TGAGAAATTA
* *
16865950 AATTAAATAAAATTTATTTCGGGATTTATTCCCACCGTTTAACAAGCTTTTATTTTGTTTCCAAA
1 AATTAAATAAAATTTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTTGTTTCCAAA
16866015 TTAGAATAG
66 TTAGAATAG
* * * * *
16866024 AATTAAATAAAATCTATTTTGAGATTCATTCCCGCCATTTAACAAGATTTTATTTTATTTGATTT
1 AATTAAATAAAATTTATTTCGGGATTTATTCCCGCCGTTTAACAAG-----A---T-TTT-ATTT
* * *
16866089 TGTTTTCAAATTCGAATTG
56 TGTTTCCAAATTAGAATAG
* * *
16866108 AATTAAATAAAATTTGTTTCGGAATTTATTCCCGCCGTTTGACAAGATTTTATT
1 AATTAAATAAAATTTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATT
16866162 CAATATTATT
Statistics
Matches: 110, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
74 43 0.39
75 3 0.03
76 1 0.01
79 1 0.01
82 1 0.01
83 3 0.03
84 58 0.53
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (74 bp):
AATTAAATAAAATTTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTTGTTTCCAAA
TTAGAATAG
Found at i:16866139 original size:84 final size:84
Alignment explanation
Indices: 16866001--16866182 Score: 233
Period size: 84 Copynumber: 2.2 Consensus size: 84
16865991 ACAAGCTTTT
*
16866001 ATTTTGTTTCCAAATTAGAATAGAATTAAATAAAATCTATTTTGAGATTCATTCCCGCCATTTAA
1 ATTTTGTTTCCAAATTAGAATAGAATTAAATAAAATCTATTTGGAGATTCATTCCCGCCATTTAA
16866066 CAAGATTTTATTTTATTTG
66 CAAGATTTTATTTTATTTG
* * * * * * * *
16866085 ATTTTGTTTTCAAATTCGAATTGAATTAAATAAAATTTGTTTCGGA-ATTTATTCCCGCCGTTTG
1 ATTTTGTTTCCAAATTAGAATAGAATTAAATAAAATCTATTT-GGAGATTCATTCCCGCCATTTA
**
16866149 ACAAGATTTTATTCAATATT-
65 ACAAGATTTTATTTTAT-TTG
16866169 ATTTTGTTTCCAAA
1 ATTTTGTTTCCAAA
16866183 CAAAGACATA
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
84 80 0.95
85 4 0.05
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (84 bp):
ATTTTGTTTCCAAATTAGAATAGAATTAAATAAAATCTATTTGGAGATTCATTCCCGCCATTTAA
CAAGATTTTATTTTATTTG
Found at i:16873040 original size:33 final size:33
Alignment explanation
Indices: 16872993--16873057 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
16872983 TTTATAATAT
* *
16872993 TTTTTTAATTTTAAATATATATTTTTTAAATTTA
1 TTTTTTAATATTAAATAT-TATTTTTAAAATTTA
16873027 TTTTTTAA-ATTAAATATTATTTTTAAAATTT
1 TTTTTTAATATTAAATATTATTTTTAAAATTT
16873058 TAAGTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 8 0.28
34 8 0.28
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (33 bp):
TTTTTTAATATTAAATATTATTTTTAAAATTTA
Found at i:16873041 original size:18 final size:19
Alignment explanation
Indices: 16873018--16873056 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
16873008 TATATATTTT
*
16873018 TTAAAT-TTATTTTTTAAA
1 TTAAATATTATTTTTAAAA
16873036 TTAAATATTATTTTTAAAA
1 TTAAATATTATTTTTAAAA
16873055 TT
1 TT
16873057 TTAAGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAAATATTATTTTTAAAA
Found at i:16873053 original size:13 final size:14
Alignment explanation
Indices: 16873001--16873038 Score: 60
Period size: 13 Copynumber: 2.7 Consensus size: 14
16872991 ATTTTTTTAA
16873001 TTTTAAATATATATT
1 TTTTAAAT-TATATT
16873016 TTTTAAATT-TATT
1 TTTTAAATTATATT
16873029 TTTTAAATTA
1 TTTTAAATTA
16873039 AATATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.59
14 1 0.05
15 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTAAATTATATT
Found at i:16873159 original size:16 final size:16
Alignment explanation
Indices: 16873138--16873191 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
16873128 TTTATTATAC
16873138 TTTAAATATTTTAAAT
1 TTTAAATATTTTAAAT
*
16873154 TTTAAATATTTTTAATTT
1 TTTAAATA-TTTTAA-AT
*
16873172 TTTATAATATTTTTAAT
1 TTTA-AATATTTTAAAT
16873189 TTT
1 TTT
16873192 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.25
17 10 0.31
18 10 0.31
19 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAAATATTTTAAAT
Found at i:16873188 original size:9 final size:9
Alignment explanation
Indices: 16873142--16873196 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
16873132 TTATACTTTA
16873142 AATA-TTTT
1 AATATTTTT
*
16873150 AA-ATTTTA
1 AATATTTTT
16873158 AATATTTTT
1 AATATTTTT
*
16873167 AATTTTTTAT
1 AATATTTT-T
16873177 AATATTTTT
1 AATATTTTT
*
16873186 AATTTTTTT
1 AATATTTTT
16873195 AA
1 AA
16873197 AATATATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
7 1 0.03
8 7 0.18
9 23 0.59
10 8 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
AATATTTTT
Found at i:16873195 original size:20 final size:18
Alignment explanation
Indices: 16873138--16873193 Score: 80
Period size: 19 Copynumber: 3.2 Consensus size: 18
16873128 TTTATTATAC
*
16873138 TTTAAATA-TTTTAA-AT
1 TTTAAATATTTTTAATTT
16873154 TTTAAATATTTTTAATTT
1 TTTAAATATTTTTAATTT
16873172 TTTATAATATTTTTAATTT
1 TTTA-AATATTTTTAATTT
16873191 TTT
1 TTT
16873194 TAAAATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 8 0.22
17 6 0.17
18 5 0.14
19 17 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAAATATTTTTAATTT
Found at i:16873200 original size:20 final size:19
Alignment explanation
Indices: 16873141--16873201 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
16873131 ATTATACTTT
*
16873141 AAATA-TTTTAA-ATTTT-
1 AAATATTTTTAATTTTTTA
16873157 AAATATTTTTAATTTTTTA
1 AAATATTTTTAATTTTTTA
*
16873176 TAATATTTTTAATTTTTTTA
1 AAATATTTTTAA-TTTTTTA
16873196 AAATAT
1 AAATAT
16873202 ATTATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 5 0.13
17 6 0.16
18 4 0.11
19 11 0.29
20 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AAATATTTTTAATTTTTTA
Found at i:16873310 original size:29 final size:30
Alignment explanation
Indices: 16873250--16873313 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
16873240 GTTTTATAAT
*** *
16873250 ATTTTAAATATATATTTTAATTTTTTTTTA
1 ATTTTAAATATATATTTTAATAAATTATTA
*
16873280 ATTTTAAATATAT-TTTTTATAAATTATTA
1 ATTTTAAATATATATTTTAATAAATTATTA
16873309 ATTTT
1 ATTTT
16873314 TTAAATTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTTTAAATATATATTTTAATAAATTATTA
Found at i:16873365 original size:21 final size:22
Alignment explanation
Indices: 16873341--16873381 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16873331 ATATTCAGAC
*
16873341 ATTTTTTAAAATTAA-ATTTAA
1 ATTTTTAAAAATTAATATTTAA
16873362 ATTTTTAAAAATTAATATTT
1 ATTTTTAAAAATTAATATTT
16873382 TATTTGGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTTTAAAAATTAATATTTAA
Found at i:16876003 original size:24 final size:25
Alignment explanation
Indices: 16875976--16876024 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
16875966 TAACAGGTGA
*
16875976 CTCTGAAGAGCTAT-TATCAGGAAG
1 CTCTGAAGAGCCATATATCAGGAAG
* *
16876000 CTCTGGATAGCCATATATCAGGAAG
1 CTCTGAAGAGCCATATATCAGGAAG
16876025 TTCAAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
CTCTGAAGAGCCATATATCAGGAAG
Found at i:16880717 original size:21 final size:22
Alignment explanation
Indices: 16880693--16880753 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
16880683 TTTTATATTA
16880693 TTAAAAAATAATATTTAAAA-T
1 TTAAAAAATAATATTTAAAATT
16880714 TT-AAAAA-AATATTTAAAATTT
1 TTAAAAAATAATATTTAAAA-TT
16880735 TTAAAAAATAAT-TTTAAAA
1 TTAAAAAATAATATTTAAAA
16880754 ATATTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.31
20 5 0.14
21 5 0.14
22 12 0.33
23 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAAAATAATATTTAAAATT
Found at i:16880724 original size:19 final size:20
Alignment explanation
Indices: 16880696--16880789 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 20
16880686 TATATTATTA
16880696 AAAAATAATATTTAAAA-TTT
1 AAAAA-AATATTTAAAATTTT
16880716 AAAAAAATATTTAAAATTTT
1 AAAAAAATATTTAAAATTTT
*
16880736 -TAAAAA-A--T--AATTTT
1 AAAAAAATATTTAAAATTTT
*
16880750 AAAAATATTTATTTAAAATTTT
1 AAAAA-A-ATATTTAAAATTTT
16880772 AAAAAATATATTATAAAA
1 AAAAAA-ATATT-TAAAA
16880790 CCTTTCAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
14 6 0.10
15 3 0.05
16 2 0.03
18 2 0.03
19 16 0.27
20 9 0.15
21 6 0.10
22 16 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAAAATATTTAAAATTTT
Found at i:16880783 original size:21 final size:23
Alignment explanation
Indices: 16880744--16880789 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
16880734 TTTAAAAAAT
*
16880744 AATTTTAAAAATATTTATT-TAA
1 AATTTTAAAAATATATATTATAA
16880766 AATTTTAAAAA-ATATATTATAA
1 AATTTTAAAAATATATATTATAA
16880788 AA
1 AA
16880790 CCTTTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTTAAAAATATATATTATAA
Found at i:16880846 original size:9 final size:8
Alignment explanation
Indices: 16880826--16880889 Score: 51
Period size: 8 Copynumber: 8.0 Consensus size: 8
16880816 TTAAATCAAT
16880826 AATAAAAA
1 AATAAAAA
16880834 AATAAACAA
1 AATAAA-AA
*
16880843 AAT-AAAT
1 AATAAAAA
*
16880850 AAT-GAAA
1 AATAAAAA
16880857 AATAAAAA
1 AATAAAAA
*
16880865 AAGTAAATA
1 AA-TAAAAA
* *
16880874 AGTAAATA
1 AATAAAAA
16880882 AATAAAAA
1 AATAAAAA
16880890 CTTTAAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
7 9 0.20
8 25 0.56
9 11 0.24
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (8 bp):
AATAAAAA
Found at i:16880861 original size:23 final size:23
Alignment explanation
Indices: 16880831--16880889 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
16880821 TCAATAATAA
16880831 AAAAATAAACAAAA-TAAATAATG
1 AAAAATAAA-AAAAGTAAATAATG
*
16880854 AAAAATAAAAAAAGTAAATAAGTA
1 AAAAATAAAAAAAGTAAATAA-TG
16880878 AATAAATAAAAA
1 AA-AAATAAAAA
16880890 CTTTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 4 0.12
23 16 0.50
24 3 0.09
25 9 0.28
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (23 bp):
AAAAATAAAAAAAGTAAATAATG
Found at i:16880908 original size:11 final size:11
Alignment explanation
Indices: 16880894--16880918 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16880884 TAAAAACTTT
16880894 AAAAAAAAGAA
1 AAAAAAAAGAA
16880905 AAAAAAAAGAA
1 AAAAAAAAGAA
16880916 AAA
1 AAA
16880919 GGACAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:16890486 original size:20 final size:21
Alignment explanation
Indices: 16890438--16890497 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
16890428 CACAATACAT
16890438 TATT-TTTTAAATTATTATAAA
1 TATTGTTTTAAA-TATTATAAA
*
16890459 TA-TGTTTTAAAT-TTATCAA
1 TATTGTTTTAAATATTATAAA
16890478 TATTGTTTTAAATATATATA
1 TATTGTTTTAAATAT-TATA
16890498 TAATTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 8 0.24
20 12 0.36
21 10 0.30
22 3 0.09
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (21 bp):
TATTGTTTTAAATATTATAAA
Found at i:16894112 original size:113 final size:111
Alignment explanation
Indices: 16893960--16894459 Score: 816
Period size: 113 Copynumber: 4.5 Consensus size: 111
16893950 CGAAAAAGAA
* * *
16893960 AAAAAACAAAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCATCCAGTACACAGTACAAA
1 AAAAAA-ATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
16894025 GAAAAAAAAAATTTATTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
65 G--AAAAAAAATTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
*
16894073 AAAAAAATAAAAAAAAATTTTGGGTGATGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAATAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
*
16894138 GAAAAAAAATTTATTCTTTTTCATGTCAGAATCAGATAAAAAAATACG
65 GAAAAAAAATTTATT-TTTTTCGTGTCAGAATCAGATAAAAAAATACG
16894186 AAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAAT-AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
16894251 GAAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
65 G-AAAAAAAATTTA-TTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
*
16894300 AAAAAAATGAAAAAAAATTTGGGTGCTGGCCTGTCAA--G--GGCACCCAGTACACAGTACAAAG
1 AAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
*
16894361 AAAAAAAATTTAGTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
66 AAAAAAAATTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
16894406 -AAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
1 AAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
16894460 AATTTTAAAA
Statistics
Matches: 367, Mismatches: 10, Indels: 24
0.92 0.02 0.06
Matches are distributed among these distances:
105 35 0.10
106 10 0.03
107 23 0.06
108 12 0.03
109 36 0.10
111 15 0.04
112 30 0.08
113 144 0.39
114 60 0.16
115 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (111 bp):
AAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
AAAAAAAATTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
Found at i:16895948 original size:113 final size:113
Alignment explanation
Indices: 16895722--16896531 Score: 974
Period size: 113 Copynumber: 7.2 Consensus size: 113
16895712 TATATATGAT
* * * *
16895722 TGTACTGGGTGTCGGCCATTGACAGACCAGCAACCAAAAAAATTTTTTATTTATTTTTCTTCGTA
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGC-ACC--CAAAA-TTTTTA-TTATTTTTTTTCGTA
***
16895787 TTTTTTTATCTGATTCTGACAC-AAAAAAAT-AAT-TTTTTTTCCTTTGTACTG
61 TTTTTTTATCTGATTCTGACACGAAAAAAATAAATAAAATTTT-CTTTGTACTG
16895838 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTATTATTATTTTTTTTCGTATTTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT-TTATTATTTTTTTTCGTATTTT
****
16895903 TTTATCTGATTCTGACACGAAAAAAAT-AATTTTTTTTTCTTTGTACTG
65 TTTATCTGATTCTGACACGAAAAAAATAAATAAAATTTTCTTTGTACTG
* *
16895951 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTAATTTTTTTTCGTATTCT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTATT-ATTTTTTTTCGTATTTT
* *
16896016 TTTATCTGATTCTGACACGAAAAAAATAAAAAAAAATTTCTTTGTACTG
65 TTTATCTGATTCTGACACGAAAAAAATAAATAAAATTTTCTTTGTACTG
* * *
16896065 TGTACTGGGTGCCGGCCATTAACAGGCCAACACCCAAAATTTTT-TTTTTATTTTTTACGTA-TT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTATTATT-TTTTTT-CGTATTT
* **
16896128 TTTTATCTGATTCTGACATGAAAAAAATAAA-AAAA-AAT-TTTGTACTG
64 TTTTATCTGATTCTGACACGAAAAAAATAAATAAAATTTTCTTTGTACTG
*
16896175 TGTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTATTATTA-TTTTTTTCGTATTTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT-TTATTATTTTTTTTCGTATTTT
* *
16896239 TTTATCTGATTTTGACACGAAAAAAA-ATAA-AAAA-TTT-TTT-T-CTT
65 TTTATCTGATTCTGACACGAAAAAAATA-AATAAAATTTTCTTTGTACTG
* * * * *
16896283 TGTATTGGGTGCCGGCCATTGACAGGGCAGCACCCAAAATTTTTTTTAATTTTTTTCGTATTCTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTATTATTTTTTTTCGTATTTTT
16896348 TTATCTGATTCTGACACGAAAAAAATAAAAATAAAAAAATTTTCTTTGTACTG
66 TTATCTGATTCTGACACGAAAAAAAT--AAAT---AAAATTTTCTTTGTACTG
* *
16896401 TGTACTGGGTGCCGGCCATTAACAGGCCAGCACCCAAAAATTTTT-TTTTATTTTTTTCGTATTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAATTTTTATTAT-TTTTTTTCGTATTT
* * **
16896465 TTTTATCTGATTCTAACATGAAAAAAAAATAAA-AAAAAATT-TTTGTACTG
64 TTTTATCTGATTCTGACACG--AAAAAAATAAATAAAATTTTCTTTGTACTG
*
16896515 TGTACTGGGTGCTGGCC
1 TGTACTGGGTGCCGGCC
16896532 TGTCAATGGG
Statistics
Matches: 621, Mismatches: 46, Indels: 56
0.86 0.06 0.08
Matches are distributed among these distances:
107 5 0.01
108 80 0.13
109 6 0.01
110 93 0.15
111 5 0.01
112 51 0.08
113 152 0.24
114 97 0.16
115 12 0.02
116 32 0.05
117 1 0.00
118 36 0.06
119 43 0.07
121 8 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (113 bp):
TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTATTATTTTTTTTCGTATTTTT
TTATCTGATTCTGACACGAAAAAAATAAATAAAATTTTCTTTGTACTG
Found at i:16902628 original size:21 final size:21
Alignment explanation
Indices: 16902603--16902646 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
16902593 TTTTGTTACA
16902603 ATGGCTTCTACAGATTCATCC
1 ATGGCTTCTACAGATTCATCC
16902624 ATGGCTTCTACAGATTCATCC
1 ATGGCTTCTACAGATTCATCC
16902645 AT
1 AT
16902647 TCTTTGGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (21 bp):
ATGGCTTCTACAGATTCATCC
Found at i:16907404 original size:23 final size:23
Alignment explanation
Indices: 16907356--16907404 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
16907346 AAGCGGCAGC
* *
16907356 GAAACAACATTAAAAGCAATAGT
1 GAAACAACATTAAAAGCAACAAT
*
16907379 GAAACAACATTACAAA-CGACAAT
1 GAAACAACATTA-AAAGCAACAAT
16907402 GAA
1 GAA
16907405 TCAGCACCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.57, C:0.16, G:0.12, T:0.14
Consensus pattern (23 bp):
GAAACAACATTAAAAGCAACAAT
Found at i:16921576 original size:17 final size:17
Alignment explanation
Indices: 16921535--16921579 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
16921525 TAAAACCTCA
*
16921535 ATAAATGAAT-AT-TCG
1 ATAAATTAATAATCTCG
16921550 ATAAATTAATAATCTCG
1 ATAAATTAATAATCTCG
16921567 ATTAAA-TAATAAT
1 A-TAAATTAATAAT
16921580 TTTTTTCGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 9 0.35
16 2 0.08
17 11 0.42
18 4 0.15
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (17 bp):
ATAAATTAATAATCTCG
Found at i:16923494 original size:43 final size:43
Alignment explanation
Indices: 16923425--16923676 Score: 290
Period size: 43 Copynumber: 5.9 Consensus size: 43
16923415 TTTTAGAAAT
*
16923425 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* *
16923468 AAACGCCGCTATAGATCAGGATCTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * *
16923511 AAACGCCGCTATAGATCAGGACCTATAGCGGCGCTTCT-ACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* ** * * **
16923553 AAACGCCGCTATAGCTTGGGATCTTTAGAGGCGCTTTTCTAAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * ** *
16923596 AAATGCCGCTATAGCTCAAGACCTTTAGCGGAACTTTTACCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * *
16923639 AAACGTCGCTATAGATCAAAGACCTTTAGCGACGCTTT
1 AAACGCCGCTATAGATC-AGGACCTTTAGCGGCGCTTT
16923677 GATTACAAAC
Statistics
Matches: 173, Mismatches: 34, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
42 34 0.20
43 122 0.71
44 17 0.10
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:16923589 original size:85 final size:85
Alignment explanation
Indices: 16923425--16923656 Score: 295
Period size: 85 Copynumber: 2.7 Consensus size: 85
16923415 TTTTAGAAAT
* *
16923425 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-ACACAAACGCCGCTATAGATCAGGAT
*
16923490 CTTTAGCAGCGCTTTTCCCAC
65 CTTTAGCAGCGCTTTTCCAAC
* * * * **
16923511 AAACGCCGCTATAGATCAGGACCTATAGCGGCGCTTCTACACAAACGCCGCTATAGCTTGGGATC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTACACAAACGCCGCTATAGATCAGGATC
*
16923576 TTTAG-AGGCGCTTTTCTAAC
66 TTTAGCA-GCGCTTTTCCAAC
* * ** *
16923596 AAATGCCGCTATAGCTCAAGACCTTTAGCGGAACTTTTACCACAAACGTCGCTATAGATCA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTA-CACAAACGCCGCTATAGATCA
16923657 AAGACCTTTA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
84 1 0.01
85 71 0.57
86 52 0.42
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTACACAAACGCCGCTATAGATCAGGATC
TTTAGCAGCGCTTTTCCAAC
Found at i:16923786 original size:16 final size:16
Alignment explanation
Indices: 16923765--16923798 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16923755 AAATATTAAA
*
16923765 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
16923781 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
16923797 TA
1 TA
16923799 ATTAGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:16924059 original size:15 final size:15
Alignment explanation
Indices: 16924039--16924068 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16924029 ATCTTCATCT
16924039 TCATCTTCATCTTCA
1 TCATCTTCATCTTCA
*
16924054 TCATCTTCTTCTTCA
1 TCATCTTCATCTTCA
16924069 CTTTCAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (15 bp):
TCATCTTCATCTTCA
Found at i:16924063 original size:18 final size:18
Alignment explanation
Indices: 16924029--16924064 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16924019 GAAATGGATT
*
16924029 ATCTTCATCTTCATCTTC
1 ATCTTCATCATCATCTTC
*
16924047 ATCTTCATCATCTTCTTC
1 ATCTTCATCATCATCTTC
16924065 TTCACTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (18 bp):
ATCTTCATCATCATCTTC
Found at i:16924067 original size:6 final size:6
Alignment explanation
Indices: 16924029--16924055 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16924019 GAAATGGATT
16924029 ATCTTC ATCTTC ATCTTC ATCTTC ATC
1 ATCTTC ATCTTC ATCTTC ATCTTC ATC
16924056 ATCTTCTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.48
Consensus pattern (6 bp):
ATCTTC
Found at i:16928432 original size:47 final size:47
Alignment explanation
Indices: 16928380--16928481 Score: 152
Period size: 47 Copynumber: 2.1 Consensus size: 47
16928370 ATGCATAGGT
* *
16928380 TTTTTTAAGTTATATTTATAAAAATTAGATAAAATTAAAAA-TTTAAG
1 TTTTTTAAGTAATATTTATAAAAAATAGATAAAATTAAAAAGTTT-AG
*
16928427 TTTTTTAAGTAATATTTTTAAAAAATAGATAAAATTAAAAAGTTTAG
1 TTTTTTAAGTAATATTTATAAAAAATAGATAAAATTAAAAAGTTTAG
16928474 TGTTTTTA
1 T-TTTTTA
16928482 TTTCATTTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
47 41 0.82
48 9 0.18
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (47 bp):
TTTTTTAAGTAATATTTATAAAAAATAGATAAAATTAAAAAGTTTAG
Found at i:16928510 original size:15 final size:17
Alignment explanation
Indices: 16928476--16928516 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
16928466 AAGTTTAGTG
16928476 TTTTTATTTCATTTTCA
1 TTTTTATTTCATTTTCA
*
16928493 TTTTT-TTT-ATTTTTA
1 TTTTTATTTCATTTTCA
16928508 -TTTTATTTC
1 TTTTTATTTC
16928517 TTATAAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 3 0.14
17 5 0.24
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTATTTCATTTTCA
Found at i:16929000 original size:14 final size:14
Alignment explanation
Indices: 16928981--16929007 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16928971 CTTAATTAAA
16928981 CCATAATCCCTAAT
1 CCATAATCCCTAAT
16928995 CCATAATCCCTAA
1 CCATAATCCCTAA
16929008 ACCCATATAT
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:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:16929264 original size:22 final size:21
Alignment explanation
Indices: 16929216--16929281 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
16929206 AACCCTAAAT
*
16929216 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCTAAACCCCTAAC
** *
16929237 ATCTAACTCATAAACCCCTGAC
1 CCCTAACTC-TAAACCCCTAAC
16929259 CCCTAAGC-CTTAAACCCC-AAC
1 CCCTAA-CTC-TAAACCCCTAAC
16929280 CC
1 CC
16929282 TTAATTAAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 11 0.31
22 23 0.66
23 1 0.03
ACGTcount: A:0.32, C:0.45, G:0.03, T:0.20
Consensus pattern (21 bp):
CCCTAACTCTAAACCCCTAAC
Found at i:16929311 original size:17 final size:17
Alignment explanation
Indices: 16929285--16929327 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
16929275 CCAACCCTTA
*
16929285 ATTAAACCATAATCCCT
1 ATTAATCCATAATCCCT
16929302 ATTAATCCATAATCCCT
1 ATTAATCCATAATCCCT
16929319 A--AATCCATA
1 ATTAATCCATA
16929328 TATACTCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 8 0.32
17 17 0.68
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTAATCCATAATCCCT
Found at i:16929342 original size:19 final size:19
Alignment explanation
Indices: 16929318--16929354 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16929308 CCATAATCCC
*
16929318 TAAATCCATATATACTCCT
1 TAAATCCATAAATACTCCT
16929337 TAAATCCATAAATACTCC
1 TAAATCCATAAATACTCC
16929355 CTAACTAAAA
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:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAATCCATAAATACTCCT
Found at i:16929908 original size:114 final size:114
Alignment explanation
Indices: 16929707--16930244 Score: 889
Period size: 114 Copynumber: 4.7 Consensus size: 114
16929697 ATTAAACACT
* * ** *
16929707 GCTAAATCCCCGAAAGCGCAAAAAAAAGCGTCGTTTTGGCTTAGGTTTTTTGCGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
** * * *
16929772 AAAACGCCGCTAAAGCCCTGAGCATTAACGGCGCTTTCTTAAAAACGCA
66 AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
16929821 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
16929886 AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
66 AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
* * *
16929935 GCTAAATCCCCGAAAGCTCAC-AAACTGCGTCGTTTTGTATTAAGTTTTTTGTGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
* *
16929999 AAAACGCCGCTAAAGCCTTGAGCATTAGCGGCACTTTATTAAAAACGCC
66 AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
16930048 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
* * *
16930113 AAAACGCCGCTAAAGCTTAGAGCATTAGCGGCGCTTTCTTAAAAATGCC
66 AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
*
16930162 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
*
16930227 AAAACGCCGCTAATGCTT
66 AAAACGCCGCTAAAGCTT
16930245 ATTGTTAGCG
Statistics
Matches: 398, Mismatches: 25, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
113 108 0.27
114 290 0.73
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (114 bp):
GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
Found at i:16930129 original size:227 final size:227
Alignment explanation
Indices: 16929707--16930239 Score: 904
Period size: 227 Copynumber: 2.3 Consensus size: 227
16929697 ATTAAACACT
* * ** * *
16929707 GCTAAATCCCCGAAAGCGCAAAAAAAAGCGTCGTTTTGGCTTAGGTTTTTTGCGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTC-ACAAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCA
* *
16929772 AAAACGCCGCTAAAGCCCTGAGCATTAACGGCGCTTTCTTAAAAACGCAGCTAAATCCCCGAAAG
65 AAAACGCCGCTAAAGCCCTGAGCATTAACGGCACTTTATTAAAAACGCAGCTAAATCCCCGAAAG
16929837 CTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGC
130 CTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGC
*
16929902 TTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
195 TTAGAGCATTAGCGGCGCTTTATTAAAAACGCC
* *
16929935 GCTAAATCCCCGAAAGCTCACAAACTGCGTCGTTTTGTATTAAGTTTTTTGTGGCGCTTTCTCAA
1 GCTAAATCCCCGAAAGCTCACAAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCAA
* * *
16930000 AAACGCCGCTAAAGCCTTGAGCATTAGCGGCACTTTATTAAAAACGCCGCTAAATCCCCGAAAGC
66 AAACGCCGCTAAAGCCCTGAGCATTAACGGCACTTTATTAAAAACGCAGCTAAATCCCCGAAAGC
16930065 TCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCT
131 TCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCT
* *
16930130 TAGAGCATTAGCGGCGCTTTCTTAAAAATGCC
196 TAGAGCATTAGCGGCGCTTTATTAAAAACGCC
16930162 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCAC-AAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCA
16930227 AAAACGCCGCTAA
65 AAAACGCCGCTAA
16930240 TGCTTATTGT
Statistics
Matches: 286, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
227 214 0.75
228 72 0.25
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (227 bp):
GCTAAATCCCCGAAAGCTCACAAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCAA
AAACGCCGCTAAAGCCCTGAGCATTAACGGCACTTTATTAAAAACGCAGCTAAATCCCCGAAAGC
TCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCT
TAGAGCATTAGCGGCGCTTTATTAAAAACGCC
Found at i:16930549 original size:38 final size:35
Alignment explanation
Indices: 16930495--16930568 Score: 103
Period size: 35 Copynumber: 2.0 Consensus size: 35
16930485 TTTTGAAACC
*
16930495 ATTAACTCTTTTTTTTTTTTGGTTACATGAACCAATTA
1 ATTAACTC--TTTCTTTTTT-GTTACATGAACCAATTA
*
16930533 ATTAACTGTTTCTTTTTTGTTACATGAACCAATTA
1 ATTAACTCTTTCTTTTTTGTTACATGAACCAATTA
16930568 A
1 A
16930569 CTCCGATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 18 0.53
36 9 0.26
38 7 0.21
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (35 bp):
ATTAACTCTTTCTTTTTTGTTACATGAACCAATTA
Found at i:16930695 original size:27 final size:27
Alignment explanation
Indices: 16930648--16930711 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
16930638 AAATATTTTC
16930648 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
*
16930674 TAAATTAATAAAATATTTATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
*
16930701 TAAACTAATAA
1 TAAATTAATAA
16930712 CCTCGATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCGA
Found at i:16935959 original size:15 final size:15
Alignment explanation
Indices: 16935939--16935967 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16935929 ATCGTCATCA
16935939 TCATCTTCTTCTTCT
1 TCATCTTCTTCTTCT
16935954 TCATCTTCTTCTTC
1 TCATCTTCTTCTTC
16935968 AATGATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.34, G:0.00, T:0.59
Consensus pattern (15 bp):
TCATCTTCTTCTTCT
Found at i:16941319 original size:32 final size:31
Alignment explanation
Indices: 16941274--16941369 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
16941264 CTTAGATAAT
16941274 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
16941305 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
16941337 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
16941368 TT
1 TT
16941370 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:16941942 original size:21 final size:21
Alignment explanation
Indices: 16941916--16941995 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
16941906 TTAAATAAAA
16941916 GCAAAAAAAACAGCAAAAAGC
1 GCAAAAAAAACAGCAAAAAGC
* * *
16941937 GCAAAAAAGAGAGTAAAAAGC
1 GCAAAAAAAACAGCAAAAAGC
*
16941958 GCAAAAAAAAAAAGCAAAAA--
1 GC-AAAAAAAACAGCAAAAAGC
*
16941978 GCAAAAAAAGC-GCAAAAA
1 GCAAAAAAAACAGCAAAAA
16941996 AAAAGTTGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
18 7 0.14
19 7 0.14
20 2 0.04
21 20 0.40
22 14 0.28
ACGTcount: A:0.69, C:0.14, G:0.16, T:0.01
Consensus pattern (21 bp):
GCAAAAAAAACAGCAAAAAGC
Found at i:16945071 original size:32 final size:31
Alignment explanation
Indices: 16945026--16945121 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
16945016 CTTAGATAAT
16945026 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
16945057 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
16945089 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
16945120 TT
1 TT
16945122 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:16945432 original size:4 final size:4
Alignment explanation
Indices: 16945423--16945453 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
16945413 ATCTATCATT
16945423 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
16945454 ACTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:16955447 original size:14 final size:16
Alignment explanation
Indices: 16955424--16955460 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
16955414 AAGAAGAAAG
16955424 AATA-AAATAT-TAAA
1 AATAGAAATATATAAA
16955438 AA-AGAAATATATAAA
1 AATAGAAATATATAAA
16955453 AATAGAAA
1 AATAGAAA
16955461 ACAATACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.05
14 8 0.40
15 6 0.30
16 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (16 bp):
AATAGAAATATATAAA
Found at i:16956170 original size:20 final size:19
Alignment explanation
Indices: 16956145--16956187 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
16956135 AAAATTACAA
16956145 AAAATTTAATAAATAAAAAT
1 AAAATTTAA-AAATAAAAAT
* *
16956165 AAAATTCTAAAACTAAAACT
1 AAAATT-TAAAAATAAAAAT
16956185 AAA
1 AAA
16956188 GGCTAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATTTAAAAATAAAAAT
Found at i:16956292 original size:9 final size:9
Alignment explanation
Indices: 16956280--16956327 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
16956270 AATTCAGTTT
*
16956280 ATTCGGGTG
1 ATTCGGGTA
16956289 ATTCGGGTA
1 ATTCGGGTA
16956298 ATTCGGGTA
1 ATTCGGGTA
* *
16956307 ATTTGAGTA
1 ATTCGGGTA
*
16956316 ATTCGGTTA
1 ATTCGGGTA
16956325 ATT
1 ATT
16956328 AGGTTAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.23, C:0.08, G:0.29, T:0.40
Consensus pattern (9 bp):
ATTCGGGTA
Found at i:16956676 original size:32 final size:32
Alignment explanation
Indices: 16956640--16956703 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
16956630 ATTATGCCAC
16956640 TAAAAAATTTA-GTGATACAATAGTAAGATATA
1 TAAAAAATTTACG-GATACAATAGTAAGATATA
16956672 TAAAAAATTTACGGATACAATAGTAAGATATA
1 TAAAAAATTTACGGATACAATAGTAAGATATA
16956704 ATATACTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.97
33 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (32 bp):
TAAAAAATTTACGGATACAATAGTAAGATATA
Found at i:16957525 original size:19 final size:21
Alignment explanation
Indices: 16957496--16957534 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
16957486 ATTTAAATTA
16957496 AAAATAATATT-TTTTATTTT
1 AAAATAATATTATTTTATTTT
16957516 AAAA-AATATTATTTTATTT
1 AAAATAATATTATTTTATTT
16957535 AGTGAAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AAAATAATATTATTTTATTTT
Found at i:16957560 original size:107 final size:108
Alignment explanation
Indices: 16957402--16957676 Score: 283
Period size: 110 Copynumber: 2.6 Consensus size: 108
16957392 TTTATTTTAA
* * * * *
16957402 TTTT-TTTT-AAAAATGTTATTTTATTTGGCGGACCCATTTTAAATGGCGCCATCAGTGTAA-T-
1 TTTTATTTTAAAAAATATTATTTTATTTAGTGAACCCATTTTAAATGGCGCCATCAATGTAACTA
* * * *
16957463 CTACC-TTTTTTTAAATTTTTTTAATTTA-AATTAAAAATAATATT
66 CCACCATGTTTTT---TTTTTTAAATTTAGAATTAAAAATAAAATT
** * * *
16957507 TTTTATTTTAAAAAATATTATTTTATTTAGTGAAGTCATTTTGAATGGTGCCATTAATGTAACCT
1 TTTTATTTTAAAAAATATTATTTTATTTAGTGAACCCATTTTAAATGGCGCCATCAATGTAA-CT
*
16957572 ACCACCATGTTTTTTTTTTTAAATTTAGAATTAAAATTAAAATT
65 ACCACCATGTTTTTTTTTTTAAATTTAGAATTAAAAATAAAATT
* * * * *
16957616 TTTTAATTTTAAAAAATATTATCTTATTTAGTGGAGCCATTCTAAATGGCGCCACCAATGT
1 TTTT-ATTTTAAAAAATATTATTTTATTTAGTGAACCCATTTTAAATGGCGCCATCAATGT
16957677 TATCATCGTG
Statistics
Matches: 139, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
105 4 0.03
106 4 0.03
107 42 0.30
108 12 0.09
109 19 0.14
110 52 0.37
111 6 0.04
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (108 bp):
TTTTATTTTAAAAAATATTATTTTATTTAGTGAACCCATTTTAAATGGCGCCATCAATGTAACTA
CCACCATGTTTTTTTTTTTAAATTTAGAATTAAAAATAAAATT
Found at i:16959419 original size:42 final size:42
Alignment explanation
Indices: 16959372--16959501 Score: 129
Period size: 42 Copynumber: 3.1 Consensus size: 42
16959362 CACAGGAGCA
* * *
16959372 CATAAGTGCTAAACAGAAACCCGTAAGGGTTGAATTGAAGCT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAATTGAAGCT
* **
16959414 CATAAGAGCTGAAGGGAAACCCATAAGGGTTAAATTGAAGCT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAATTGAAGCT
* * * * *
16959456 CAAAAGAGCTGAA-TGAAAACCCA-ATAGGGTTAAACTGAAACT
1 CATAAGAGCTAAACAG-AAACCCATA-AGGGTTAAATTGAAGCT
16959498 CATA
1 CATA
16959502 TGAGTTAACT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 73 0.97
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.19
Consensus pattern (42 bp):
CATAAGAGCTAAACAGAAACCCATAAGGGTTAAATTGAAGCT
Found at i:16959426 original size:21 final size:21
Alignment explanation
Indices: 16959402--16959469 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
16959392 CCGTAAGGGT
16959402 TGAATTGAAGCTCATAAGAGC
1 TGAATTGAAGCTCATAAGAGC
** * * * *
16959423 TGAAGGGAAACCCATAAGGGT
1 TGAATTGAAGCTCATAAGAGC
* *
16959444 TAAATTGAAGCTCAAAAGAGC
1 TGAATTGAAGCTCATAAGAGC
16959465 TGAAT
1 TGAAT
16959470 GAAAACCCAA
Statistics
Matches: 32, Mismatches: 15, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (21 bp):
TGAATTGAAGCTCATAAGAGC
Found at i:16966990 original size:3 final size:3
Alignment explanation
Indices: 16966982--16967090 Score: 139
Period size: 3 Copynumber: 36.3 Consensus size: 3
16966972 TTATAAAAAT
16966982 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
16967030 ATA ATA ATA ATA GTA ATA GTA ATA GTA ATA GTA ATA ATGA A-G ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* *
16967075 AGA ATG ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
16967091 CAGCGAATAT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 1 0.01
3 87 0.97
4 2 0.02
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:16967340 original size:20 final size:19
Alignment explanation
Indices: 16967317--16967354 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16967307 GAAAATAAGT
*
16967317 ATAGGTAAATAAATAAAATA
1 ATAGATAAATAAA-AAAATA
16967337 ATAGATAAATAAAAAAAT
1 ATAGATAAATAAAAAAAT
16967355 GCCTTGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (19 bp):
ATAGATAAATAAAAAAATA
Found at i:16967349 original size:24 final size:25
Alignment explanation
Indices: 16967286--16967355 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
16967276 TTGAAGGAAT
*
16967286 AATAATAAATAAAT-AATAAATGAA
1 AATAATAGATAAATAAATAAATGAA
**
16967310 AAT-A-AGTATAGGTAAATAAAT-AA
1 AATAATAG-ATAAATAAATAAATGAA
*
16967333 AATAATAGATAAATAAAAAAATG
1 AATAATAGATAAATAAATAAATG
16967356 CCTTGGATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
22 1 0.03
23 10 0.29
24 22 0.63
25 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (25 bp):
AATAATAGATAAATAAATAAATGAA
Found at i:16968061 original size:5 final size:5
Alignment explanation
Indices: 16968051--16968087 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
16968041 GAAACAAACA
16968051 AAAAT AAAAT -AAAT -AAAT AAAAT AAAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
16968088 TAAGTAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.27
5 17 0.57
6 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:16968743 original size:50 final size:49
Alignment explanation
Indices: 16968662--16968991 Score: 221
Period size: 50 Copynumber: 6.7 Consensus size: 49
16968652 TACTACATCT
* * *
16968662 TCAGAGGAAATAAGATTCGCTGTCTTTAGCTTTAATCTATTTTTCTGCAACG
1 TCAGA-GAAGTAAGATTCGCTGT-TGTAGCTTTAATCTA-TTTACTGCAACG
* * *
16968714 TCAGAGAAGTAAAATTTGCTGTTGTAGCTTTAA-CT-TGCTTCACTGCAACA
1 TCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTAT--TT-ACTGCAACG
* * * * *
16968764 TCGGGGAAGTAAGATTCGCTGTTATAGC--T--TC-A-AT-CTGTAACG
1 TCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTACTGCAACG
** * * * *
16968806 TTGGAGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGCTTTACTGTAATG
1 TCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCT-ATTTACTGCAACG
*
16968856 TCAGAGAAGTAAGATTCGCTGTTGTCA-CTTCAATCTCATTTACTGCAACG
1 TCAGAGAAGTAAGATTCGCTGTTGT-AGCTTTAATCT-ATTTACTGCAACG
* * * * * *
16968906 TCAGAGAAGTAAGATCCGTTGTTGTAACTTCAATCTTATTTAACTGTATCG
1 TCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATC-TATTT-ACTGCAACG
* * ** *
16968957 TCTGGGAAACAAGATTCGCTGTCTTTAGCTTTAAT
1 TCAGAGAAGTAAGATTCGCTGT-TGTAGCTTTAAT
16968992 TTGTTCCACT
Statistics
Matches: 220, Mismatches: 40, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
42 31 0.14
44 1 0.00
46 2 0.01
47 2 0.01
48 1 0.00
49 6 0.03
50 124 0.56
51 39 0.18
52 14 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (49 bp):
TCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTACTGCAACG
Found at i:16968867 original size:92 final size:92
Alignment explanation
Indices: 16968717--16968891 Score: 228
Period size: 92 Copynumber: 1.9 Consensus size: 92
16968707 TGCAACGTCA
* * * *
16968717 GAGAAGTAAAATTTGCTGTTGTAGCTTTAACTTGCTTCACTGCAACATCGGGGAAGTAAGATTCG
1 GAGAAGTAAAATTCGCTGTTGTAGCTTCAACTTGCTTCACTGCAACATCAGAGAAGTAAGATTCG
16968782 CTGTTAT-AGCTTCAATCTGTAACGTTG
66 CTGTTATCA-CTTCAATCTGTAACGTTG
* * * **
16968809 GAGAAGTAAGATTCGCTGTTGTAGCTTCAA-TCTGCTTTACTGTAATGTCAGAGAAGTAAGATTC
1 GAGAAGTAAAATTCGCTGTTGTAGCTTCAACT-TGCTTCACTGCAACATCAGAGAAGTAAGATTC
*
16968873 GCTGTTGTCACTTCAATCT
65 GCTGTTATCACTTCAATCT
16968892 CATTTACTGC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
91 1 0.01
92 69 0.97
93 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (92 bp):
GAGAAGTAAAATTCGCTGTTGTAGCTTCAACTTGCTTCACTGCAACATCAGAGAAGTAAGATTCG
CTGTTATCACTTCAATCTGTAACGTTG
Found at i:16969168 original size:46 final size:46
Alignment explanation
Indices: 16969092--16969270 Score: 243
Period size: 46 Copynumber: 3.9 Consensus size: 46
16969082 TTCCACTGCA
* * * *
16969092 ACGCCAAGGAAATGAGATTCGCTACACTCAGCTTTAATCTACCATG
1 ACGCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTACTACG
* * *
16969138 ACGTCATGGAAATGATATTCGCTGCCCTCAGCTTTAATCTACTACG
1 ACGCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTACTACG
* *
16969184 ATGCCATGGAAATGAGATTCGCTGA-CCTCAGCTTTAATCTAGTACG
1 ACGCCATGGAAATGAGATTCGCT-ACCCTCAGCTTTAATCTACTACG
* *
16969230 ACGCCATAGAAATGAGATTCGCTACCTTCAGCTTTAATCTA
1 ACGCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTA
16969271 TTCCACTGCA
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 115 0.99
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (46 bp):
ACGCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTACTACG
Found at i:16969290 original size:92 final size:92
Alignment explanation
Indices: 16969065--16969290 Score: 231
Period size: 92 Copynumber: 2.4 Consensus size: 92
16969055 AAATTCATTG
* *
16969065 CCCTCAGCTTCAATTTATTCCACTGCAACGCCAAGGAAATGAGATTCGCTACACTCAGCTTTAAT
1 CCCTCAGCTTTAATCTATTCCACTGCAACGCC-----AATGAGATTCGCTACACTCAGCTTTAAT
* * * * *
16969130 CTACCATGACGTCATGGAAATGATATTCGCTG
61 CTACCACGACGCCATAGAAATGAGATTCGCTA
* * * * **
16969162 CCCTCAGCTTTAATCTACTACGA-TGCCATGGAAATGAGATTCGCTGAC-CTCAGCTTTAATCTA
1 CCCTCAGCTTTAATCTA-TTCCACTGCAACGCCAATGAGATTCGCT-ACACTCAGCTTTAATCTA
**
16969225 GTACGACGCCATAGAAATGAGATTCGCTA
64 CCACGACGCCATAGAAATGAGATTCGCTA
*
16969254 CCTTCAGCTTTAATCTATTCCACTGCAACGCCAATGA
1 CCCTCAGCTTTAATCTATTCCACTGCAACGCCAATGA
16969291 AATGATATTG
Statistics
Matches: 104, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
91 3 0.03
92 76 0.73
93 2 0.02
97 20 0.19
98 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (92 bp):
CCCTCAGCTTTAATCTATTCCACTGCAACGCCAATGAGATTCGCTACACTCAGCTTTAATCTACC
ACGACGCCATAGAAATGAGATTCGCTA
Found at i:16971852 original size:8 final size:8
Alignment explanation
Indices: 16971839--16971874 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
16971829 ACCGAATGAG
16971839 AAAAAAAT
1 AAAAAAAT
16971847 -AAAAAAT
1 AAAAAAAT
16971854 AAAAAAAT
1 AAAAAAAT
*
16971862 AAAAGAAT
1 AAAAAAAT
16971870 AAAAA
1 AAAAA
16971875 TAAAAACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:16971860 original size:16 final size:16
Alignment explanation
Indices: 16971839--16971874 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
16971829 ACCGAATGAG
16971839 AAAAAAATAAAA-AAT
1 AAAAAAATAAAAGAAT
16971854 AAAAAAATAAAAGAAT
1 AAAAAAATAAAAGAAT
16971870 AAAAA
1 AAAAA
16971875 TAAAAACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAAATAAAAGAAT
Found at i:16971875 original size:14 final size:14
Alignment explanation
Indices: 16971837--16971879 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
16971827 GAACCGAATG
16971837 AGAA-AAAAATAAA
1 AGAATAAAAATAAA
16971850 A-AATAAAAAAATAAA
1 AGAAT--AAAAATAAA
16971865 AGAATAAAAATAAA
1 AGAATAAAAATAAA
16971879 A
1 A
16971880 ACTCAACAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.08
13 1 0.04
14 10 0.38
15 10 0.38
16 3 0.12
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (14 bp):
AGAATAAAAATAAA
Found at i:16972499 original size:18 final size:20
Alignment explanation
Indices: 16972472--16972516 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
16972462 GTTTAATGGT
*
16972472 TTGGGCCTGT-ATCT-GTTA
1 TTGGGTCTGTAATCTGGTTA
*
16972490 TTGGGTCTGTAATTTGGTTA
1 TTGGGTCTGTAATCTGGTTA
16972510 TTGGGTC
1 TTGGGTC
16972517 AATTGGGCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 3 0.13
20 11 0.48
ACGTcount: A:0.11, C:0.11, G:0.31, T:0.47
Consensus pattern (20 bp):
TTGGGTCTGTAATCTGGTTA
Found at i:16973485 original size:99 final size:99
Alignment explanation
Indices: 16973229--16973810 Score: 961
Period size: 99 Copynumber: 5.9 Consensus size: 99
16973219 TACAATGTTG
* * * *
16973229 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGAAAGTAAGATCC
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGG-AAGTAAGATCC
*
16973293 GCCTTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATC-TTTTAATTGCAATATCA
* * * * *
16973329 GGGAAATCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGAAAGTAAGATCC
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGG-AAGTAAGATCC
*
16973393 GCCTTTGTGGCTTCAATCTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
* * *
16973428 GGGAAACCAGATCTGCCATTGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
16973493 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
* *
16973527 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCA
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
*
16973592 CCGTTGTGGCTTCAATCTTTTAATTGTAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
*
16973626 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
16973691 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
16973725 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
16973790 CCGTTGTGGCTTCAATCTTTT
66 CCGTTGTGGCTTCAATCTTTT
16973811 TACTTTCAAC
Statistics
Matches: 464, Mismatches: 17, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
99 379 0.82
100 85 0.18
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (99 bp):
GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
Found at i:16978933 original size:50 final size:50
Alignment explanation
Indices: 16978858--16978953 Score: 192
Period size: 50 Copynumber: 1.9 Consensus size: 50
16978848 TTGCTTTATG
16978858 ATTTCCAGCTCAGAAGGGACGACGCGCAAATGCTCCTCTATCGATTGACT
1 ATTTCCAGCTCAGAAGGGACGACGCGCAAATGCTCCTCTATCGATTGACT
16978908 ATTTCCAGCTCAGAAGGGACGACGCGCAAATGCTCCTCTATCGATT
1 ATTTCCAGCTCAGAAGGGACGACGCGCAAATGCTCCTCTATCGATT
16978954 TCCAGCCCAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (50 bp):
ATTTCCAGCTCAGAAGGGACGACGCGCAAATGCTCCTCTATCGATTGACT
Found at i:16982784 original size:9 final size:8
Alignment explanation
Indices: 16982770--16982813 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
16982760 ACCGAATGAG
16982770 AAAAAAAT
1 AAAAAAAT
16982778 AAAAAAAT
1 AAAAAAAT
16982786 AAAAAAAT
1 AAAAAAAT
16982794 AAAAAAA-
1 AAAAAAAT
*
16982801 ATAAAAAT
1 AAAAAAAT
16982809 AAAAA
1 AAAAA
16982814 CTCAACAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:16983430 original size:18 final size:20
Alignment explanation
Indices: 16983403--16983447 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
16983393 GTTTAATGGT
*
16983403 TTGGGCCTGT-ATCT-GTTA
1 TTGGGTCTGTAATCTGGTTA
*
16983421 TTGGGTCTGTAATTTGGTTA
1 TTGGGTCTGTAATCTGGTTA
16983441 TTGGGTC
1 TTGGGTC
16983448 AATTGGGCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 3 0.13
20 11 0.48
ACGTcount: A:0.11, C:0.11, G:0.31, T:0.47
Consensus pattern (20 bp):
TTGGGTCTGTAATCTGGTTA
Found at i:16983679 original size:12 final size:12
Alignment explanation
Indices: 16983662--16983686 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16983652 GACAAAAAAA
16983662 ATCTGAAGGGAT
1 ATCTGAAGGGAT
16983674 ATCTGAAGGGAT
1 ATCTGAAGGGAT
16983686 A
1 A
16983687 GTCTCAATTT
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:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (12 bp):
ATCTGAAGGGAT
Found at i:16993854 original size:16 final size:16
Alignment explanation
Indices: 16993833--16993866 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16993823 TTTTATGATG
* *
16993833 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
16993849 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
16993865 AA
1 AA
16993867 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:16995372 original size:3 final size:3
Alignment explanation
Indices: 16995353--16995428 Score: 64
Period size: 3 Copynumber: 25.3 Consensus size: 3
16995343 TTATAAAAAT
* * * * *
16995353 ATA ATA ACA ATA GTA ATA ATA ATA ATA TTA ATA ATA ATA GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
16995401 ATA ATGA A-G ATA AGA ATG ATA ATA ATA A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
16995429 CAGCGAATAT
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
2 1 0.02
3 52 0.95
4 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:16998317 original size:47 final size:47
Alignment explanation
Indices: 16998247--16998787 Score: 425
Period size: 47 Copynumber: 11.5 Consensus size: 47
16998237 ACAACATAGG
* * * *
16998247 TTGGGCAGCATATATATAAACCAAATTGGACAACATTTTTACACCAAAA
1 TTGGACAGCAT-T-TATACACCAAATTGGACAGCATTTATACACCAAAA
* * *
16998296 TTGGACAGCATATATACACCAAATTGGATAGCATTTATACATCAAAA
1 TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
* * * *
16998343 TTGGACAGCATATATACACCGAATTAGACAACATTTATACACCAAAA
1 TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
* * * * * * *
16998390 TGGGACAGTATTTATACACCAATTTGGGCAGCATATATATATC-AAA
1 TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
* * * *
16998436 TTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACC-AAA
1 TTGGACAGCATTTATACACC-AAATTGGACAGCATTTATACACCAAAA
* * * * *
16998483 TTAGG-CAGCATTTATACATCAAAATTGAACTGCATTTATATACTAAAA
1 TT-GGACAGCATTTATACA-CCAAATTGGACAGCATTTATACACCAAAA
* * * * * *
16998531 TTGGACAGCATTTATACATCAATTTGGGCAGCATATATATATC-AAA
1 TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
* * * * *
16998577 TTGGACAACATTTTTACACCAAAATTGGACTGCATATAGACACC-AAA
1 TTGGACAGCATTTATACACC-AAATTGGACAGCATTTATACACCAAAA
* *
16998624 TTAGG-CAGCATTTATACATCAAAATTGGACAGCATTTATACACTAAAA
1 TT-GGACAGCATTTATACA-CCAAATTGGACAGCATTTATACACCAAAA
* * * * * * *
16998672 TTGGACATCATTTATACATCAATTTGGGCAGCATATATATATC-AAA
1 TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
** * ** * *
16998718 TTATACAGCATTTTTACACCAAAATTGGATTGCATATAGACACC-AAA
1 TTGGACAGCATTTATACACC-AAATTGGACAGCATTTATACACCAAAA
* *
16998765 TTAGG-CAACATTTATACATCAAA
1 TT-GGACAGCATTTATACACCAAA
16998788 ATTTGACATG
Statistics
Matches: 390, Mismatches: 90, Indels: 27
0.77 0.18 0.05
Matches are distributed among these distances:
46 61 0.16
47 278 0.71
48 41 0.11
49 10 0.03
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (47 bp):
TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
Found at i:16998422 original size:70 final size:70
Alignment explanation
Indices: 16998247--16998787 Score: 499
Period size: 70 Copynumber: 7.7 Consensus size: 70
16998237 ACAACATAGG
* * * * * * *
16998247 TTGGGCAGCATATATATAAACCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATA
1 TTGGACAGCAT-T-TATACACCAAATTGGGCAGCATATATACACC-AAATTGGACAGCATTTATA
16998312 CACC-AAA
63 CACCAAAA
* * * * * *
16998319 TTGGATAGCATTTATACATCAAAATTGGACAGCATATATACACCGAATTAGACAACATTTATACA
1 TTGGACAGCATTTATACA-CCAAATTGGGCAGCATATATACACCAAATTGGACAGCATTTATACA
16998384 CCAAAA
65 CCAAAA
* * * * * *
16998390 TGGGACAGTATTTATACACCAATTTGGGCAGCATATATATATCAAATTGGACAGCATTTTTACAC
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACACCAAATTGGACAGCATTTATACAC
16998455 CAAAA
66 CAAAA
* * * * * * * * *
16998460 TTGGACTGCATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGAACTGCATTTATATA
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACA-CCAAATTGGACAGCATTTATACA
*
16998525 CTAAAA
65 CCAAAA
* * * * * *
16998531 TTGGACAGCATTTATACATCAATTTGGGCAGCATATATATATCAAATTGGACAACATTTTTACAC
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACACCAAATTGGACAGCATTTATACAC
16998596 CAAAA
66 CAAAA
* * * * * *
16998601 TTGGACTGCATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGGACAGCATTTATACA
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACA-CCAAATTGGACAGCATTTATACA
*
16998666 CTAAAA
65 CCAAAA
* * * * * ** *
16998672 TTGGACATCATTTATACATCAATTTGGGCAGCATATATATATCAAATTATACAGCATTTTTACAC
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACACCAAATTGGACAGCATTTATACAC
16998737 CAAAA
66 CAAAA
** * * * * * *
16998742 TTGGATTGCATATAGACACCAAATTAGGCAACATTTATACATCAAA
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACACCAAA
16998788 ATTTGACATG
Statistics
Matches: 371, Mismatches: 94, Indels: 10
0.78 0.20 0.02
Matches are distributed among these distances:
70 211 0.57
71 151 0.41
72 9 0.02
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (70 bp):
TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACACCAAATTGGACAGCATTTATACAC
CAAAA
Found at i:16998547 original size:141 final size:141
Alignment explanation
Indices: 16998293--16998790 Score: 727
Period size: 141 Copynumber: 3.5 Consensus size: 141
16998283 TTTTACACCA
* * * * * *
16998293 AAATTGGACAGCATATATACACC-AAATTGGA-TAGCATTTATACATCAAAATT-GGACAGCATA
1 AAATTGGACAGCATTTTTACACCAAAATTGGACT-GCATATAGACA-CCAAATTAGG-CAGCATT
** * * * * *
16998355 TATACA-CCGAATT-AGACAACATTTATACACCAAAATGGGACAGTATTTATACACCAATTTGGG
63 TATACATCAAAATTGA-ACAGCATTTATACACTAAAATTGGACAGCATTTATACATCAATTTGGG
16998418 CAGCATATATATATC
127 CAGCATATATATATC
16998433 AAATTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
1 AAATTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
* *
16998498 ACATCAAAATTGAACTGCATTTATATACTAAAATTGGACAGCATTTATACATCAATTTGGGCAGC
66 ACATCAAAATTGAACAGCATTTATACACTAAAATTGGACAGCATTTATACATCAATTTGGGCAGC
16998563 ATATATATATC
131 ATATATATATC
*
16998574 AAATTGGACAACATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
1 AAATTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
* *
16998639 ACATCAAAATTGGACAGCATTTATACACTAAAATTGGACATCATTTATACATCAATTTGGGCAGC
66 ACATCAAAATTGAACAGCATTTATACACTAAAATTGGACAGCATTTATACATCAATTTGGGCAGC
16998704 ATATATATATC
131 ATATATATATC
** * *
16998715 AAATTATACAGCATTTTTACACCAAAATTGGATTGCATATAGACACCAAATTAGGCAACATTTAT
1 AAATTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
16998780 ACATCAAAATT
66 ACATCAAAATT
16998791 TGACATGAAC
Statistics
Matches: 328, Mismatches: 25, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
140 39 0.12
141 287 0.88
142 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (141 bp):
AAATTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
ACATCAAAATTGAACAGCATTTATACACTAAAATTGGACAGCATTTATACATCAATTTGGGCAGC
ATATATATATC
Found at i:16999639 original size:43 final size:44
Alignment explanation
Indices: 16999573--16999685 Score: 110
Period size: 43 Copynumber: 2.6 Consensus size: 44
16999563 TTATCGTACA
**
16999573 ATGCCGAC-GTCCCACAC-GTGGTCTTACAT-GCAATCATGTAA-CG
1 ATGCC-ACTGTCCCACACAG-GGTCTTACATCGCAATCA-CAAATCG
* * * *
16999616 ATGCCATTGTCCCACACAGGGTCTTA-TTCGTAATTACAAATCG
1 ATGCCACTGTCCCACACAGGGTCTTACATCGCAATCACAAATCG
16999659 ATGCCACTGTCCCACACAGGGTCTTAC
1 ATGCCACTGTCCCACACAGGGTCTTAC
16999686 TCGAAAACAC
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
42 4 0.07
43 53 0.91
44 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGCCACTGTCCCACACAGGGTCTTACATCGCAATCACAAATCG
Found at i:17000573 original size:38 final size:38
Alignment explanation
Indices: 17000487--17000563 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
17000477 CTTTTCTATT
17000487 TCTTTGTCTTTGAATTTTGACAATTACAAGAATAACTA
1 TCTTTGTCTTTGAATTTTGACAATTACAAGAATAACTA
17000525 TCTTTGTCTTTGAATTTTGACAATTACAAGAATAACTA
1 TCTTTGTCTTTGAATTTTGACAATTACAAGAATAACTA
17000563 T
1 T
17000564 GGCTTTCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (38 bp):
TCTTTGTCTTTGAATTTTGACAATTACAAGAATAACTA
Found at i:17006091 original size:24 final size:24
Alignment explanation
Indices: 17006040--17006592 Score: 447
Period size: 24 Copynumber: 23.3 Consensus size: 24
17006030 ACAACATAGG
* *
17006040 TTGGGCAGCATATATATAAACC-AAA
1 TTGGACAGCAT-T-TATACACCAAAA
* *
17006065 TTGGACAACATTTTTACACCAAAA
1 TTGGACAGCATTTATACACCAAAA
*
17006089 TTGGACAGCATATATACACC-AAA
1 TTGGACAGCATTTATACACCAAAA
* *
17006112 TTGGACAACATTTATACATCAAAA
1 TTGGACAGCATTTATACACCAAAA
*
17006136 TTGGACAGCATTTATACATCAAAA
1 TTGGACAGCATTTATACACCAAAA
*
17006160 TTGGACAGCATATATACACC-AAA
1 TTGGACAGCATTTATACACCAAAA
* *
17006183 TTAGACAACATTTATACACCAAAA
1 TTGGACAGCATTTATACACCAAAA
*
17006207 TTGGACAGCATTTATACACC-AAT
1 TTGGACAGCATTTATACACCAAAA
* * *
17006230 TTGGGCAGCATATATATATATC-AAA
1 TTGGACAGCAT-T-TATACACCAAAA
* * *
17006255 GTGGACAACATTTTTACACCAAAA
1 TTGGACAGCATTTATACACCAAAA
* * *
17006279 TTGGACTGCATATAGACACC-AAA
1 TTGGACAGCATTTATACACCAAAA
*
17006302 TTAGG-CAGCATTTATACATCAAAA
1 TT-GGACAGCATTTATACACCAAAA
* *
17006326 TTGAATC-GCATTTATACACTAAAA
1 TTGGA-CAGCATTTATACACCAAAA
* *
17006350 TTGGACAGCATTTATACATC-AAT
1 TTGGACAGCATTTATACACCAAAA
* * * *
17006373 TTGGGCAGCATATATATATC-AAA
1 TTGGACAGCATTTATACACCAAAA
* *
17006396 TTGGACAACATTTTTACACCAAAA
1 TTGGACAGCATTTATACACCAAAA
* * *
17006420 TTGGACTGCATATAGACACC-AAA
1 TTGGACAGCATTTATACACCAAAA
* *
17006443 TTAGG-TAGCATTTATACATCAAAA
1 TT-GGACAGCATTTATACACCAAAA
* * *
17006467 TTGGACAACATTTATACATC-AAT
1 TTGGACAGCATTTATACACCAAAA
* * **
17006490 TTGGGCAGCATATATATATA-TTAAA
1 TTGGACAGCAT-T-TATACACCAAAA
*
17006515 TTGGACAGCATTTTTACACCAAAA
1 TTGGACAGCATTTATACACCAAAA
* *
17006539 TTGGACTA-CATATAGACACC-AAA
1 TTGGAC-AGCATTTATACACCAAAA
*
17006562 TTAGG-CAGCATTTATACATCAAAA
1 TT-GGACAGCATTTATACACCAAAA
*
17006586 TTTGACA
1 TTGGACA
17006593 CGAATCGAAT
Statistics
Matches: 418, Mismatches: 86, Indels: 49
0.76 0.16 0.09
Matches are distributed among these distances:
22 1 0.00
23 164 0.39
24 209 0.50
25 44 0.11
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (24 bp):
TTGGACAGCATTTATACACCAAAA
Done.