Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005904.1 Hibiscus syriacus cultivar Beakdansim tig00013869_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 87775
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:6817 original size:3 final size:3
Alignment explanation
Indices: 6809--6848 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6799 TCCGAGTAGT
6809 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6849 ATATATATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6882 original size:16 final size:16
Alignment explanation
Indices: 6858--6888 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6848 TATATATATA
6858 ATATAATGGATTATTT
1 ATATAATGGATTATTT
*
6874 ATATTATGGATTATT
1 ATATAATGGATTATT
6889 AGATTTTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (16 bp):
ATATAATGGATTATTT
Found at i:8247 original size:60 final size:59
Alignment explanation
Indices: 8182--8332 Score: 194
Period size: 60 Copynumber: 2.5 Consensus size: 59
8172 AATGATCCCA
* * * * *
8182 AAACTTTTAAATATTCTAATTGCATCCCTAAACTATGACTCTGATTCTAAATTAGTCCTT
1 AAACTTTTGAATATTCTAATTTCATCCCTAAACTATGACCCTCATTCTAAATTAGT-CAT
* * *
8242 AAACTTTTGAACATTCTAATTTCATCCCTAAACTATGACCCTCTTTCTAAATTGGTCAT
1 AAACTTTTGAATATTCTAATTTCATCCCTAAACTATGACCCTCATTCTAAATTAGTCAT
* * *
8301 CAACTTTTGAATGTTCAAATTTCATCCCTAAA
1 AAACTTTTGAATATTCTAATTTCATCCCTAAA
8333 TCCACCCAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 30 0.38
60 49 0.62
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (59 bp):
AAACTTTTGAATATTCTAATTTCATCCCTAAACTATGACCCTCATTCTAAATTAGTCAT
Found at i:8273 original size:29 final size:29
Alignment explanation
Indices: 8176--8275 Score: 78
Period size: 29 Copynumber: 3.4 Consensus size: 29
8166 TTTTAAAATG
* * * *
8176 ATCCCAAAACTTTTAAATATTCTAATTGC
1 ATCCCTAAACTTTTGAACATTCTAATTTC
* * *
8205 ATCCCTAAAC-TATGACTCTGATTCTAAATT-
1 ATCCCTAAACTTTTGA-AC--ATTCTAATTTC
*
8235 AGTCCTTAAACTTTTGAACATTCTAATTTC
1 A-TCCCTAAACTTTTGAACATTCTAATTTC
8265 ATCCCTAAACT
1 ATCCCTAAACT
8276 ATGACCCTCT
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
28 3 0.06
29 27 0.51
30 2 0.04
31 17 0.32
32 4 0.08
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (29 bp):
ATCCCTAAACTTTTGAACATTCTAATTTC
Found at i:8555 original size:60 final size:59
Alignment explanation
Indices: 8490--8644 Score: 152
Period size: 60 Copynumber: 2.6 Consensus size: 59
8480 ATAATGTTCA
* **
8490 AAAAGTTTGGAGACCAATTTAGAATGAGTGTCATAGTTTCGGGATGAAAATAAAATGTTT
1 AAAAGTTTGGAGACCAATTTAGAATGA-TGTCATAGTTTAGGGATGAAAATAAAACATTT
* *** * *
8550 AAAAGTTT-AAGGACTTGTTTAGAATGATGTGCATAGTTTAGGGGTGAAATTAAAACATTT
1 AAAAGTTTGGA-GACCAATTTAGAATGATGT-CATAGTTTAGGGATGAAAATAAAACATTT
* *
8610 AAAAGTTTAGG-GACCAATTTAAAATAATTGTCATA
1 AAAAGTTT-GGAGACCAATTTAGAATGA-TGTCATA
8645 ATTTGAGGAC
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
59 4 0.05
60 68 0.91
61 3 0.04
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.33
Consensus pattern (59 bp):
AAAAGTTTGGAGACCAATTTAGAATGATGTCATAGTTTAGGGATGAAAATAAAACATTT
Found at i:9057 original size:2 final size:2
Alignment explanation
Indices: 9050--9089 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9040 TGAATGGACG
9050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9090 TGTTTTCTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15128 original size:11 final size:11
Alignment explanation
Indices: 15112--15139 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
15102 GATCAACAAA
15112 AAATAATAAAT
1 AAATAATAAAT
15123 AAATAATAAAT
1 AAATAATAAAT
15134 AAATAA
1 AAATAA
15140 CAGTGAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:17237 original size:103 final size:103
Alignment explanation
Indices: 17095--17316 Score: 444
Period size: 103 Copynumber: 2.2 Consensus size: 103
17085 AACGAAACGC
17095 CTTCAATATTTTATAAAAACACTTTTAACTCGAAATATTTGATAAAAGTATAAAAACACATTTAG
1 CTTCAATATTTTATAAAAACACTTTTAACTCGAAATATTTGATAAAAGTATAAAAACACATTTAG
17160 TTAAATATAGAAATAATATGAATATAGAACAATTACAT
66 TTAAATATAGAAATAATATGAATATAGAACAATTACAT
17198 CTTCAATATTTTATAAAAACACTTTTAACTCGAAATATTTGATAAAAGTATAAAAACACATTTAG
1 CTTCAATATTTTATAAAAACACTTTTAACTCGAAATATTTGATAAAAGTATAAAAACACATTTAG
17263 TTAAATATAGAAATAATATGAATATAGAACAATTACAT
66 TTAAATATAGAAATAATATGAATATAGAACAATTACAT
17301 CTTCAATATTTTATAA
1 CTTCAATATTTTATAA
17317 TTAAGAAAAT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 119 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (103 bp):
CTTCAATATTTTATAAAAACACTTTTAACTCGAAATATTTGATAAAAGTATAAAAACACATTTAG
TTAAATATAGAAATAATATGAATATAGAACAATTACAT
Found at i:22226 original size:24 final size:24
Alignment explanation
Indices: 22199--22271 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
22189 TTCAGGCTCC
** *
22199 TTCTCCTCGACTTCATTTGCAGCA
1 TTCTCCTCGACGGCATCTGCAGCA
* *
22223 TTCTCCTTGCCGGCATCTGCAGCA
1 TTCTCCTCGACGGCATCTGCAGCA
* *
22247 TTCTCCTTGCCGGCATCTGCAGCA
1 TTCTCCTCGACGGCATCTGCAGCA
22271 T
1 T
22272 CTTCCTCACC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.14, C:0.36, G:0.18, T:0.33
Consensus pattern (24 bp):
TTCTCCTCGACGGCATCTGCAGCA
Found at i:22277 original size:24 final size:24
Alignment explanation
Indices: 22216--22271 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
22206 CGACTTCATT
22216 TGCAGCATTCTCCTTGCCGGCATC
1 TGCAGCATTCTCCTTGCCGGCATC
22240 TGCAGCATTCTCCTTGCCGGCATC
1 TGCAGCATTCTCCTTGCCGGCATC
22264 TGCAGCAT
1 TGCAGCAT
22272 CTTCCTCACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.14, C:0.36, G:0.21, T:0.29
Consensus pattern (24 bp):
TGCAGCATTCTCCTTGCCGGCATC
Found at i:24586 original size:23 final size:23
Alignment explanation
Indices: 24550--24596 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
24540 TAATAATAAT
* * *
24550 TATGTCTTTGTGACATGTTTATC
1 TATGTCATTATGACATATTTATC
24573 TATGTCATTATGACATATTTATC
1 TATGTCATTATGACATATTTATC
24596 T
1 T
24597 CTACTTTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (23 bp):
TATGTCATTATGACATATTTATC
Found at i:39919 original size:33 final size:34
Alignment explanation
Indices: 39873--39958 Score: 120
Period size: 35 Copynumber: 2.5 Consensus size: 34
39863 TGAGAGTCGG
*
39873 TATCTAGCAGGCTTGGAATT-AGTTAAGAGCCGA
1 TATCTAGCAGGCTTAGAATTCAGTTAAGAGCCGA
*
39906 TATCTAGCCGGCTTAGAATTCCAGTTAAGAGCCGA
1 TATCTAGCAGGCTTAGAATT-CAGTTAAGAGCCGA
* *
39941 TACCTAGCAGGTTTAGAA
1 TATCTAGCAGGCTTAGAA
39959 CTACAGTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 18 0.39
35 28 0.61
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (34 bp):
TATCTAGCAGGCTTAGAATTCAGTTAAGAGCCGA
Found at i:44433 original size:20 final size:20
Alignment explanation
Indices: 44388--44433 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
44378 CACGCTTTTG
*
44388 AATAAATATAAGTTTATTAT
1 AATAAATATAAGATTATTAT
*
44408 ATTAAAT-TAAGATTATTAAT
1 AATAAATATAAGATTATT-AT
44428 AATAAA
1 AATAAA
44434 ATGCAATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
AATAAATATAAGATTATTAT
Found at i:45938 original size:16 final size:16
Alignment explanation
Indices: 45917--45948 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45907 ATTTGTTTGT
45917 AGAAAATCAATATAAA
1 AGAAAATCAATATAAA
45933 AGAAAATCAATATAAA
1 AGAAAATCAATATAAA
45949 GCTGTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (16 bp):
AGAAAATCAATATAAA
Found at i:46221 original size:12 final size:12
Alignment explanation
Indices: 46200--46345 Score: 71
Period size: 12 Copynumber: 12.4 Consensus size: 12
46190 AAAATATTGA
46200 AATATATTTATT
1 AATATATTTATT
*
46212 AATATGTTTATT
1 AATATATTTATT
46224 -ATATAATATTATT
1 AATAT-AT-TTATT
**
46237 -A-ATA-TTACA
1 AATATATTTATT
46246 AATATA-TTATT
1 AATATATTTATT
* *
46257 ATTATATAATATAT
1 AATATAT-TTAT-T
*
46271 AATATAATTA-T
1 AATATATTTATT
46282 AATAT-TTATATT
1 AATATATT-TATT
46294 AATA-ATATTATT
1 AATATAT-TTATT
46306 AAT-TATTAATATT
1 AATATATT--TATT
*
46319 --TATATATATT
1 AATATATTTATT
*
46329 AATATATATATT
1 AATATATTTATT
46341 AATAT
1 AATAT
46346 TAATATAATA
Statistics
Matches: 104, Mismatches: 13, Indels: 34
0.69 0.09 0.23
Matches are distributed among these distances:
9 3 0.03
10 6 0.06
11 26 0.25
12 47 0.45
13 16 0.15
14 6 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (12 bp):
AATATATTTATT
Found at i:46250 original size:23 final size:21
Alignment explanation
Indices: 46224--46280 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
46214 TATGTTTATT
46224 ATATAATATTATTAATATTACAA
1 ATATAATATTATTAATA-TA-AA
* *
46247 ATATATTATTATT-ATATAAT
1 ATATAATATTATTAATATAAA
*
46267 ATATAATATAATTA
1 ATATAATATTATTA
46281 TAATATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 12 0.41
21 2 0.07
22 3 0.10
23 12 0.41
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATAATATTATTAATATAAA
Found at i:46319 original size:31 final size:31
Alignment explanation
Indices: 46229--46363 Score: 117
Period size: 31 Copynumber: 4.5 Consensus size: 31
46219 TTATTATATA
* ** *
46229 ATATTATTAATATTACAAATATATTATTA-TT
1 ATATTAATAATATTATTAAT-TATTAATATTT
*
46260 ATA-TAAT-ATATAATATAATTA-TAATATTT
1 ATATTAATAATATTAT-TAATTATTAATATTT
46289 ATATTAATAATATTATTAATTATTAATATTT
1 ATATTAATAATATTATTAATTATTAATATTT
* *
46320 ATATATATTAATA-TA-T-A-TATTAATATTA
1 ATAT-TAATAATATTATTAATTATTAATATTT
46348 ATA-TAATAATATTATT
1 ATATTAATAATATTATT
46364 TGAATTAATA
Statistics
Matches: 87, Mismatches: 9, Indels: 19
0.76 0.08 0.17
Matches are distributed among these distances:
26 7 0.08
27 2 0.02
28 18 0.21
29 13 0.15
30 17 0.20
31 23 0.26
32 7 0.08
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
ATATTAATAATATTATTAATTATTAATATTT
Found at i:46323 original size:6 final size:6
Alignment explanation
Indices: 46233--46425 Score: 83
Period size: 6 Copynumber: 32.7 Consensus size: 6
46223 TATATAATAT
* * *
46233 TATTAA TATTACA AATATAT TATTAT TATATAA TATATAA TA-TAA T-TATAA
1 TATTAA TATTA-A TAT-TAA TATTAA TAT-TAA TAT-TAA TATTAA TAT-TAA
* * * *
46284 TATTTA TATTAA TAATAT TATTAA TTATTAA TATTTA TA-T-A TATTAA
1 TATTAA TATTAA TATTAA TATTAA -TATTAA TATTAA TATTAA TATTAA
*
46331 TA-TATA TATTAA TATTAA TATAATAA TATT-A T-TTGA -ATTAA TATT--
1 TATTA-A TATTAA TATTAA TAT--TAA TATTAA TATTAA TATTAA TATTAA
* *
46376 TTTTAA -ATATAA TATT-A TATTTAA TA--AA TATTAA TA-TAA TTTATAA
1 TATTAA TAT-TAA TATTAA TA-TTAA TATTAA TATTAA TATTAA TAT-TAA
46422 TATT
1 TATT
46426 TTTATTTCAA
Statistics
Matches: 145, Mismatches: 16, Indels: 52
0.68 0.08 0.24
Matches are distributed among these distances:
4 12 0.08
5 22 0.15
6 68 0.47
7 35 0.24
8 8 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
TATTAA
Found at i:46364 original size:76 final size:74
Alignment explanation
Indices: 46231--46430 Score: 192
Period size: 76 Copynumber: 2.8 Consensus size: 74
46221 ATTATATAAT
* * * * *
46231 ATTATTAATATTACAAATATATTATTAT-TATA-TAATATATAATATAATTATAATATTTATATT
1 ATTATTAATATT-TATATATATTAATATATATATTAATAT-TAATATAATAATATTATTTATATT
46294 AATAATATTATTA
64 AAT-AT-TTATTA
46307 ATTATTAATATTTATATATATTAATATATATATTAATATTAATATAATAATATTATTTGA-ATTA
1 ATTATTAATATTTATATATATTAATATATATATTAATATTAATATAATAATATTATTT-ATATTA
*
46371 ATATTTTTTA
65 ATATTTATTA
* *
46381 AATA-TAATA--T-TATAT-TTAATA-A-ATATTAATA-TAAT-TTATAATATT-TTTAT
1 ATTATTAATATTTATATATATTAATATATATATTAATATTAATATAATAATATTATTTAT
46431 TTCAAGAGAA
Statistics
Matches: 112, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
63 1 0.01
64 3 0.03
65 9 0.08
66 4 0.04
67 9 0.08
68 1 0.01
69 6 0.05
70 5 0.04
71 1 0.01
73 5 0.04
74 8 0.07
75 14 0.12
76 39 0.35
77 7 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (74 bp):
ATTATTAATATTTATATATATTAATATATATATTAATATTAATATAATAATATTATTTATATTAA
TATTTATTA
Found at i:46390 original size:16 final size:16
Alignment explanation
Indices: 46329--46408 Score: 65
Period size: 16 Copynumber: 4.8 Consensus size: 16
46319 TATATATATT
46329 AATATATATATTAATATTA
1 AATATA-ATATT-AT-TTA
*
46348 ATATAATAATATTATTTG
1 A-AT-ATAATATTATTTA
*
46366 AAT-TAATATTTTTTA
1 AATATAATATTATTTA
*
46381 AATATAATATTATATTT
1 AATATAATATTAT-TTA
46398 AATA-AATATTA
1 AATATAATATTA
46409 ATATAATTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
15 13 0.25
16 15 0.29
17 8 0.15
18 3 0.06
19 3 0.06
20 7 0.13
21 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (16 bp):
AATATAATATTATTTA
Found at i:46422 original size:22 final size:21
Alignment explanation
Indices: 46369--46423 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
46359 TTATTTGAAT
**
46369 TAATATTTTTTAAATATAATA
1 TAATATTTAATAAATATAATA
*
46390 TTATATTTAATAAATATTAATA
1 TAATATTTAATAAATA-TAATA
46412 TAAT-TTATAATA
1 TAATATT-TAATA
46424 TTTTTATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATATTTAATAAATATAATA
Found at i:46825 original size:20 final size:20
Alignment explanation
Indices: 46731--47097 Score: 433
Period size: 20 Copynumber: 18.4 Consensus size: 20
46721 GATTTTCCAT
* ** *
46731 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
46751 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
46771 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
46791 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
46811 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
46831 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
46851 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
46871 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
46891 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
46911 AATCGCAACGC-TATCCGTA
1 AATCGCAACGCGTATCCGTA
*
46930 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
46950 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
46970 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
46990 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
47010 AATCGCAACG-ATAATCC-TA
1 AATCGCAACGCGT-ATCCGTA
* * *
47029 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
47049 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
47069 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
47089 AATCACAAC
1 AATCGCAAC
47098 ACTTAAATTT
Statistics
Matches: 301, Mismatches: 34, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
19 37 0.12
20 260 0.86
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:46978 original size:99 final size:99
Alignment explanation
Indices: 46750--47097 Score: 454
Period size: 99 Copynumber: 3.5 Consensus size: 99
46740 GCGAATATGA
* *
46750 AAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAAT
1 AAATCGCAACGCGTATC-CGTAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAAT
**
46814 CGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
65 CGCAACGC-TATCCGTAAATCGCAATGCGTATCCGT
*
46850 ATATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAA-CTGCAACGTGTATCCGTAAAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATC-GCAACGTGTATCCGTAAAT
46914 CGCAACGCTATCCGTAAATCGCAATGCGTATCCGT
65 CGCAACGCTATCCGTAAATCGCAATGCGTATCCGT
* *
46949 AAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGTAAATCGCAACGCGTATCCGTAAAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGTAAATCGCAACGTGTATCCGTAAAT
* * * * *
47013 CGCAACGATAATCC-TAAATCGCAACGAGAATCTGT
65 CGCAACGCT-ATCCGTAAATCGCAATGCGTATCCGT
* * * * *
47048 AAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTAAATCGCAAC
47098 ACTTAAATTT
Statistics
Matches: 223, Mismatches: 18, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
98 2 0.01
99 150 0.67
100 69 0.31
101 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (99 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAATC
GCAACGCTATCCGTAAATCGCAATGCGTATCCGT
Found at i:47801 original size:24 final size:24
Alignment explanation
Indices: 47774--47820 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
47764 GAAATTGGTC
47774 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
*
47798 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
47821 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:50320 original size:33 final size:33
Alignment explanation
Indices: 50269--50530 Score: 155
Period size: 32 Copynumber: 7.7 Consensus size: 33
50259 CGGAAAATAC
*
50269 AATCGCAACGCGAAATGAAAATCCCAAC-ATGA-
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAG
*
50301 AATCGCAATGCGGAAATG-AAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCCCAACGAGAG
* * *
50334 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAG
* * * * * *
50366 AAT-GAAAAT-CG-CACGACAGAATCGCAATGCGAAATTA
1 AATCG-CAATGCGAAATGA-A-AATCCCAA--CGAGA--G
* *
50403 AATCGCAATGCG-AATGAAAATCGCAATGCGAAATG
1 AATCGCAATGCGAAATGAAAATCCCAA--CGAGA-G
* *
50438 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG
1 -AATCGCAATGCGAAATGAAAATCCCAA--CGAGA-G
* *
50475 AAATCGCAATGCGAAATG-AAATCGCAACGAAAG
1 -AATCGCAATGCGAAATGAAAATCCCAACGAGAG
50508 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
50531 GCAATGCGAA
Statistics
Matches: 199, Mismatches: 14, Indels: 33
0.81 0.06 0.13
Matches are distributed among these distances:
30 3 0.02
31 4 0.02
32 58 0.29
33 36 0.18
34 7 0.04
35 1 0.01
36 36 0.18
37 48 0.24
38 6 0.03
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAG
Found at i:50513 original size:14 final size:17
Alignment explanation
Indices: 50269--50574 Score: 261
Period size: 19 Copynumber: 17.9 Consensus size: 17
50259 CGGAAAATAC
50269 AATCGCAACGCGAAATGAA
1 AATCGCAA-GCGAAATG-A
*
50288 AATCCCAA-C---ATGA
1 AATCGCAAGCGAAATGA
50301 AATCGCAATGCGGAAATGA
1 AATCGCAA-GC-GAAATGA
*
50320 AATCGCAA-CGAGA-G-
1 AATCGCAAGCGAAATGA
50334 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCGAAATG-A
50353 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCGAAATG-A
*
50372 AATCGC-A-CGACA-G-
1 AATCGCAAGCGAAATGA
*
50385 AATCGCAATGCGAAATTA
1 AATCGCAA-GCGAAATGA
50403 AATCGCAATGCG-AATGAA
1 AATCGCAA-GCGAAATG-A
50421 AATCGCAATGCGAAATGA
1 AATCGCAA-GCGAAATGA
50439 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCGAAATG-A
50458 AATCGCAATGCGAAATGA
1 AATCGCAA-GCGAAATGA
50476 AATCGCAATGCGAAATGA
1 AATCGCAA-GCGAAATGA
50494 AATCGCAA-CGAAA-G-
1 AATCGCAAGCGAAATGA
50508 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCGAAATG-A
50527 AATCGCAATGCGAAATGA
1 AATCGCAA-GCGAAATGA
*
50545 AATCGCAA-CGAGAT--
1 AATCGCAAGCGAAATGA
50559 AATCGCAATGCGAAAT
1 AATCGCAA-GCGAAAT
50575 TATAAACGCA
Statistics
Matches: 251, Mismatches: 10, Indels: 55
0.79 0.03 0.17
Matches are distributed among these distances:
13 14 0.06
14 28 0.11
15 4 0.02
16 35 0.14
17 7 0.03
18 80 0.32
19 83 0.33
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (17 bp):
AATCGCAAGCGAAATGA
Found at i:50551 original size:51 final size:54
Alignment explanation
Indices: 50269--50574 Score: 341
Period size: 51 Copynumber: 5.9 Consensus size: 54
50259 CGGAAAATAC
* *
50269 AATCGCAACGCGAAATGAAAATCCCAA-C---ATGAAATCGCAATGCGGAAATG-A
1 AATCGCAATGCGAAATG-AAATCGCAAGCGAAATGAAATCGCAATGC-GAAATGAA
*
50320 AATCGCAA--CGAGA-G-AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAATCGCAA-GCGAAATG-AAATCGCAATGCGAAATGAA
* *
50372 AATCGC-A--CGACA-G-AATCGCAATGCGAAATTAAATCGCAATGCG-AATGAA
1 AATCGCAATGCGAAATGAAATCGCAA-GCGAAATGAAATCGCAATGCGAAATGAA
50421 AATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAAATCGCAA-GCGAAATG-AAATCGCAATGCGAAATGAA
50476 AATCGCAATGCGAAATGAAATCGCAA-CGAAA-G-AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAATCGCAAGCGAAATGAAATCGCAATGCGAAATGAA
*
50527 AATCGCAATGCGAAATGAAATCGCAA-CGAGAT--AATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAATCGCAAGCGAAATGAAATCGCAATGCGAAAT
50575 TATAAACGCA
Statistics
Matches: 232, Mismatches: 7, Indels: 32
0.86 0.03 0.12
Matches are distributed among these distances:
46 7 0.03
48 2 0.01
49 16 0.07
50 31 0.13
51 86 0.37
52 24 0.10
53 6 0.03
54 16 0.07
55 40 0.17
56 4 0.02
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (54 bp):
AATCGCAATGCGAAATGAAATCGCAAGCGAAATGAAATCGCAATGCGAAATGAA
Found at i:50565 original size:174 final size:171
Alignment explanation
Indices: 50269--50590 Score: 506
Period size: 174 Copynumber: 1.9 Consensus size: 171
50259 CGGAAAATAC
*
50269 AATCGCAACGCGAAATGAAAATCCCAACATGAAATCGCAATGCGGAAATGAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCCCAACATGAAATCGCAATGCGGAAATGAAATCGCAACGAAAG
50334 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCACGACAGAATCGCAATGCGAA
66 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCACGACAGAATCGCAATGCGAA
*
50399 ATTA-AATCGCAATGCGAATGAAAATCGCAATGCGAAATGA
131 ATTATAAACGCAATGCGAATGAAAATCGCAATGCGAAATGA
* *
50439 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAATGC-GAAATGAAATCGCAAC
1 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAATCGCAATGCGGAAATGAAATCGCAAC
* *
50503 GAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCGCAACGAGATAATCGCAA
61 GAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC-ACGACAGAATCGCAA
*
50567 TGCGAAATTATAAACGCATTGCGA
125 TGCGAAATTATAAACGCAATGCGA
50591 TTTTCATTTC
Statistics
Matches: 138, Mismatches: 7, Indels: 9
0.90 0.05 0.06
Matches are distributed among these distances:
170 25 0.18
172 1 0.01
173 7 0.05
174 79 0.57
175 26 0.19
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.16
Consensus pattern (171 bp):
AATCGCAACGCGAAATGAAAATCCCAACATGAAATCGCAATGCGGAAATGAAATCGCAACGAAAG
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCACGACAGAATCGCAATGCGAA
ATTATAAACGCAATGCGAATGAAAATCGCAATGCGAAATGA
Found at i:50567 original size:32 final size:35
Alignment explanation
Indices: 50297--50574 Score: 277
Period size: 32 Copynumber: 8.1 Consensus size: 35
50287 AAATCCCAAC
*
50297 ATGAAATCGCAATGCGGAAATG-AAATCGCAA--CGAG
1 ATGAAATCGCAA-GC-G-AATGAAAATCGCAATGCGAA
50332 A-G-AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
50367 ATGAAAATCGC-A-CGACA-G--AATCGCAATGCGAA
1 ATG-AAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
*
50399 ATTAAATCGCAATGCGAATGAAAATCGCAATGCGAA
1 ATGAAATCGCAA-GCGAATGAAAATCGCAATGCGAA
50435 ATGAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
50472 ATGAAATCGCAATGCGAAATG-AAATCGCAA--CGAA
1 ATGAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
50506 A-G-AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
50541 ATGAAATCGCAA-CG-A-GATAATCGCAATGCGAA
1 ATGAAATCGCAAGCGAATGAAAATCGCAATGCGAA
50573 AT
1 AT
50575 TATAAACGCA
Statistics
Matches: 220, Mismatches: 4, Indels: 41
0.83 0.02 0.15
Matches are distributed among these distances:
31 7 0.03
32 58 0.26
33 32 0.15
34 12 0.05
35 15 0.07
36 40 0.18
37 50 0.23
38 6 0.03
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (35 bp):
ATGAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:50584 original size:19 final size:18
Alignment explanation
Indices: 50297--50574 Score: 340
Period size: 18 Copynumber: 16.1 Consensus size: 18
50287 AAATCCCAAC
50297 ATGAAATCGCAATGCGGAA
1 ATGAAATCGCAATGC-GAA
*
50316 ATGAAATCGCAA--CGAG
1 ATGAAATCGCAATGCGAA
50332 A-G-AATCGCAATGCGAA
1 ATGAAATCGCAATGCGAA
50348 ATGAAAATCGCAATGCGAA
1 ATG-AAATCGCAATGCGAA
*
50367 ATGAAAATCGC-A--CGAC
1 ATG-AAATCGCAATGCGAA
50383 A-G-AATCGCAATGCGAA
1 ATGAAATCGCAATGCGAA
*
50399 ATTAAATCGCAATGCG-A
1 ATGAAATCGCAATGCGAA
50416 ATGAAAATCGCAATGCGAA
1 ATG-AAATCGCAATGCGAA
50435 ATGAAATCGCAATGCGAA
1 ATGAAATCGCAATGCGAA
50453 ATGAAAATCGCAATGCGAA
1 ATG-AAATCGCAATGCGAA
50472 ATGAAATCGCAATGCGAA
1 ATGAAATCGCAATGCGAA
50490 ATGAAATCGCAA--CGAA
1 ATGAAATCGCAATGCGAA
50506 A-G-AATCGCAATGCGAA
1 ATGAAATCGCAATGCGAA
50522 ATGAAAATCGCAATGCGAA
1 ATG-AAATCGCAATGCGAA
*
50541 ATGAAATCGCAA--CGAG
1 ATGAAATCGCAATGCGAA
50557 AT--AATCGCAATGCGAA
1 ATGAAATCGCAATGCGAA
50573 AT
1 AT
50575 TATAAACGCA
Statistics
Matches: 231, Mismatches: 8, Indels: 43
0.82 0.03 0.15
Matches are distributed among these distances:
13 6 0.03
14 25 0.11
15 3 0.01
16 35 0.15
17 6 0.03
18 80 0.35
19 76 0.33
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (18 bp):
ATGAAATCGCAATGCGAA
Found at i:50690 original size:19 final size:19
Alignment explanation
Indices: 50581--50682 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
50571 AAATTATAAA
50581 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
50600 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
50620 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
50636 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
50653 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
50672 CGCATTGCGAT
1 CGCATTGCGAT
50683 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:50809 original size:14 final size:14
Alignment explanation
Indices: 50780--50819 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
50770 TTCGCATCAA
*
50780 TTACACAATCAACTT
1 TTACA-AATCATCTT
50795 TTACAAATCATCTT
1 TTACAAATCATCTT
50809 TTACAAATCAT
1 TTACAAATCAT
50820 TAAACAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (14 bp):
TTACAAATCATCTT
Found at i:52772 original size:14 final size:14
Alignment explanation
Indices: 52753--52809 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
52743 CGCGAAATGA
*
52753 AATCGCAACGACAG
1 AATCGCAACGAAAG
52767 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
52784 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
52800 AATCGCAACG
1 AATCGCAACG
52810 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:52791 original size:19 final size:19
Alignment explanation
Indices: 52698--52831 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
52688 TAGTTTACTT
* *
52698 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
52718 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
52737 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
52755 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
52769 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
52788 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
52802 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
52821 TCGCAATGCGA
1 TCGCAACGCGA
52832 TTTTGGTTTC
Statistics
Matches: 96, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.17
15 1 0.01
16 14 0.15
17 7 0.07
18 9 0.09
19 37 0.39
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:52792 original size:51 final size:47
Alignment explanation
Indices: 52716--52809 Score: 125
Period size: 51 Copynumber: 1.9 Consensus size: 47
52706 CGAAACTTAA
52716 AATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAATCGCAACGACAG
1 AATCGCAACGCGAAACCAAAATCGCAA--CGAAA-G-AATCGCAACGACAG
* **
52767 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAACG
1 AATCGCAACGCGAAACCAAAATCGCAACGAAAGAATCGCAACG
52810 CGAAATGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 10 0.25
48 1 0.03
49 5 0.12
51 24 0.60
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (47 bp):
AATCGCAACGCGAAACCAAAATCGCAACGAAAGAATCGCAACGACAG
Found at i:52794 original size:33 final size:33
Alignment explanation
Indices: 52735--52826 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
52725 GCGAAACCAA
*
52735 AATCGCAACGCGAAATG-AAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
52767 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
52800 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
52827 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 16 0.29
33 40 0.71
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:52849 original size:19 final size:19
Alignment explanation
Indices: 52827--52955 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
52817 AAAATCGCAA
52827 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
52846 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
52860 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
52879 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
52893 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
52912 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
52931 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
52951 TGCGA
1 TGCGA
52956 AAGTAACTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:52869 original size:33 final size:33
Alignment explanation
Indices: 52827--52918 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
52817 AAAATCGCAA
52827 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
52860 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
52893 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
52919 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:53153 original size:90 final size:92
Alignment explanation
Indices: 52998--53462 Score: 843
Period size: 90 Copynumber: 5.1 Consensus size: 92
52988 TTGAATGGAT
52998 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
53062 AGTTTAGCAGAATTGGCAGCAACCGAAC
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
53090 AAATTTACTTTCAACC-AAA-ACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
53153 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
53180 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
53245 AGTTTAGCAGAATTGGCAGCAACCGAAC
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
53273 AAATTTACTTTCAACCAAAAGACAAAAC-AAGACAAATATATTTCACAGTGTTAAAGAATATACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
53337 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
*
53364 AAA-TTACTTTCAACCAAAAGACAAAACAAAGACAAA-CTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
*
53427 GTTTAGCAGAATTGGCAGCAACCGAAT
66 GTTTAGCAGAATTGGCAGCAACCGAAC
53454 AAATTTACT
1 AAATTTACT
53463 AAGCAATCTA
Statistics
Matches: 363, Mismatches: 4, Indels: 13
0.96 0.01 0.03
Matches are distributed among these distances:
90 160 0.44
91 78 0.21
92 44 0.12
93 81 0.22
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (92 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:53373 original size:183 final size:182
Alignment explanation
Indices: 52998--53462 Score: 864
Period size: 183 Copynumber: 2.6 Consensus size: 182
52988 TTGAATGGAT
52998 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
53063 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAACAAAACAAAGACAAATAT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAACAAAACAAAGACAAATAT
53128 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
53180 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
53245 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAAC-AAGACAAA
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAA-ACAAAACAAAGACAAA
*
53309 TATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
128 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
53364 AAA-TTACTTTCAACCAAAAGACAAAACAAAGACAA-ACTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
*
53427 GTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
53463 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 2, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
181 63 0.23
182 36 0.13
183 104 0.37
184 68 0.24
185 7 0.03
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (182 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAACAAAACAAAGACAAATAT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:55177 original size:14 final size:14
Alignment explanation
Indices: 55158--55247 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
55148 TTGAAATGAA
55158 AATCGCAACGAGAG
1 AATCGCAACGAGAG
55172 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
55189 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
55205 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
55224 AATCGCAACGAGAG
1 AATCGCAACGAGAG
55238 AATCGCAACG
1 AATCGCAACG
55248 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:55195 original size:33 final size:33
Alignment explanation
Indices: 55150--55264 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
55140 TCTTTTGGTT
55150 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
55183 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
55216 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
55249 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
55265 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:55196 original size:19 final size:18
Alignment explanation
Indices: 55157--55269 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
55147 GTTGAAATGA
55157 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
55172 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
55189 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
55205 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
55222 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
55238 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
55255 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
55270 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:55300 original size:14 final size:14
Alignment explanation
Indices: 55281--55335 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
55271 TTTGGTTTCG
55281 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
55295 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
55314 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
55328 CGTTGCGA
1 CGTTGCGA
55336 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:55313 original size:33 final size:33
Alignment explanation
Indices: 55265--55335 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
55255 AAAATCGCAA
**
55265 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
55298 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
55331 TGCGA
1 TGCGA
55336 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:55343 original size:33 final size:33
Alignment explanation
Indices: 55276--55357 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
55266 GCGATTTTGG
***
55276 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
55309 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
55342 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
55358 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:55362 original size:20 final size:20
Alignment explanation
Indices: 55288--55376 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
55278 TCGCGTTGCG
55288 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
55308 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
55321 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
55341 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
55361 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
55377 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:55498 original size:33 final size:33
Alignment explanation
Indices: 55456--55526 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
55446 AATACTAACT
*
55456 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
55489 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
55522 TGAAA
1 TGAAA
55527 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:55933 original size:20 final size:20
Alignment explanation
Indices: 55908--56100 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
55898 CTTTAAATAT
55908 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
55928 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
55950 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
55969 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
55989 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
56009 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
56029 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
56049 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
56069 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
56089 CGCGTTGCGATT
1 CGCGTTGCGATT
56101 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:56095 original size:60 final size:60
Alignment explanation
Indices: 55908--56100 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
55898 CTTTAAATAT
**
55908 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
55969 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
56029 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
56089 CGCGTTGCGATT
1 CGCGTTGCGATT
56101 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:56181 original size:20 final size:20
Alignment explanation
Indices: 56156--56207 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
56146 AAGAATCGCG
*
56156 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
56176 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
56196 TTGCGATTCTGG
1 TTGCGATTCTGG
56208 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:56479 original size:14 final size:14
Alignment explanation
Indices: 56460--56492 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
56450 CAAAAATTGT
56460 AAAATGTTTT-TCAG
1 AAAATGTTTTCT-AG
56474 AAAATGTTTTCTAG
1 AAAATGTTTTCTAG
56488 AAAAT
1 AAAAT
56493 ATAATTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (14 bp):
AAAATGTTTTCTAG
Found at i:56888 original size:27 final size:26
Alignment explanation
Indices: 56858--56915 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
56848 TTAGAAACCC
*
56858 TTAATCAAA-TAATTTTAAAAAATATAT
1 TTAATAAAATTAATTTT-AAAAAT-TAT
56885 TTAATAAAATTTAATTTTAAAAATTAT
1 TTAATAAAA-TTAATTTTAAAAATTAT
56912 TTAA
1 TTAA
56916 AATAAACATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 15 0.54
28 6 0.21
29 7 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TTAATAAAATTAATTTTAAAAATTAT
Found at i:56903 original size:16 final size:15
Alignment explanation
Indices: 56866--56907 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
56856 CCTTAATCAA
56866 ATAATTTTAAAAAAT
1 ATAATTTTAAAAAAT
56881 AT-A-TTTAATAAAAT
1 ATAATTTTAA-AAAAT
*
56895 TTAATTTTAAAAA
1 ATAATTTTAAAAA
56908 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
13 5 0.22
14 7 0.30
15 6 0.26
16 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTTTAAAAAAT
Found at i:57634 original size:45 final size:46
Alignment explanation
Indices: 57538--57644 Score: 155
Period size: 45 Copynumber: 2.3 Consensus size: 46
57528 ATGCACATAC
* *
57538 CATGCATCGATGCACTCAGGTTTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGGTTGTTATGAAAACATCGAATGCACTT
* *
57584 GATGCATCGATGCACTCGGGCTTGTT-TG-AAACATCGAATGCACTT
1 CATGCATCGATGCACTCAGG-TTGTTATGAAAACATCGAATGCACTT
57629 CATGCATCGATGCACT
1 CATGCATCGATGCACT
57645 AAGGGTCCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 31 0.56
46 20 0.36
47 4 0.07
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (46 bp):
CATGCATCGATGCACTCAGGTTGTTATGAAAACATCGAATGCACTT
Found at i:62090 original size:23 final size:21
Alignment explanation
Indices: 62040--62098 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 21
62030 ATCCCTTTAT
*
62040 ATGTGCATCGATACATCATGA
1 ATGTGCATCGATGCATCATGA
62061 A-GATGCATCGATGCACTCATTGA
1 ATG-TGCATCGATGCA-TCA-TGA
62084 ATGTGCATCGATGCA
1 ATGTGCATCGATGCA
62099 AAAAAGCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.03
21 12 0.36
22 3 0.09
23 16 0.48
24 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (21 bp):
ATGTGCATCGATGCATCATGA
Found at i:64881 original size:84 final size:83
Alignment explanation
Indices: 64793--64954 Score: 220
Period size: 84 Copynumber: 1.9 Consensus size: 83
64783 AATGCATTAT
* * *
64793 ATGCATCAATGCACATA-TCATGCATCGATGCACTC-AGATTTTTATGAAAACATCGAATGCATT
1 ATGCATCAATGCACA-AGCCATGCATCGATGCACTCGAGATTGTT-TG-AAACATCGAATGCACT
64856 TAATGCATCGATGCACAAGCC
63 TAATGCATCGATGCACAAGCC
* * * *
64877 ATGCATCGATGCACAAGCCATGCATCGATGCACTCGGGCTTGTTTGAAACATCGAATGCACTTCA
1 ATGCATCAATGCACAAGCCATGCATCGATGCACTCGAGATTGTTTGAAACATCGAATGCACTTAA
64942 TGCATCGATGCAC
66 TGCATCGATGCAC
64955 TCTTAGTGCA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
83 31 0.45
84 33 0.48
85 5 0.07
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (83 bp):
ATGCATCAATGCACAAGCCATGCATCGATGCACTCGAGATTGTTTGAAACATCGAATGCACTTAA
TGCATCGATGCACAAGCC
Found at i:64882 original size:19 final size:19
Alignment explanation
Indices: 64858--64909 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
64848 AATGCATTTA
64858 ATGCATCGATGCACAAGCC
1 ATGCATCGATGCACAAGCC
64877 ATGCATCGATGCACAAGCC
1 ATGCATCGATGCACAAGCC
64896 ATGCATCGATGCAC
1 ATGCATCGATGCAC
64910 TCGGGCTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (19 bp):
ATGCATCGATGCACAAGCC
Found at i:67248 original size:19 final size:19
Alignment explanation
Indices: 67191--67292 Score: 141
Period size: 20 Copynumber: 5.1 Consensus size: 19
67181 CCGTTAGACA
*
67191 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTA-CCCCT-G
*
67212 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTG-TACCCCTG
67232 GGGGGAATCTGTACCCCTG
1 GGGGGAATCTGTACCCCTG
67251 GGGGGAATCTGTACCCCATG
1 GGGGGAATCTGTACCCC-TG
67271 GGGGGAATCTGTACCCACTG
1 GGGGGAATCTGTACCC-CTG
67291 GG
1 GG
67293 TAATCTGATT
Statistics
Matches: 75, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
19 24 0.32
20 34 0.45
21 16 0.21
22 1 0.01
ACGTcount: A:0.16, C:0.26, G:0.38, T:0.20
Consensus pattern (19 bp):
GGGGGAATCTGTACCCCTG
Found at i:67273 original size:39 final size:39
Alignment explanation
Indices: 67191--67292 Score: 150
Period size: 39 Copynumber: 2.5 Consensus size: 39
67181 CCGTTAGACA
* * *
67191 GGGGGAATCGGTACCCCCTGGGGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTA-CCCCT-GGGGGGAATCTGTACCCCATG
67232 GGGGGAATCTGTACCCCTGGGGGGAATCTGTACCCCATG
1 GGGGGAATCTGTACCCCTGGGGGGAATCTGTACCCCATG
67271 GGGGGAATCTGTACCCACTGGG
1 GGGGGAATCTGTACCC-CTGGG
67293 TAATCTGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 35 0.61
40 10 0.18
41 12 0.21
ACGTcount: A:0.16, C:0.26, G:0.38, T:0.20
Consensus pattern (39 bp):
GGGGGAATCTGTACCCCTGGGGGGAATCTGTACCCCATG
Found at i:68732 original size:19 final size:20
Alignment explanation
Indices: 68689--68735 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
68679 TCTAAATCAT
*
68689 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
68709 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
68728 TTTTCAAA
1 TTTTCAAA
68736 TGAAAATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.28, C:0.13, G:0.06, T:0.53
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:68759 original size:23 final size:24
Alignment explanation
Indices: 68714--68759 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
68704 TTTGGCTTTC
*
68714 AAAATCTATTTTTGTTTTCAAATG
1 AAAATCTATTTTCGTTTTCAAATG
68738 AAAATC-ATTTTCGATTTT-AAAT
1 AAAATCTATTTTCG-TTTTCAAAT
68760 TTTGAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.48
Consensus pattern (24 bp):
AAAATCTATTTTCGTTTTCAAATG
Found at i:68799 original size:23 final size:23
Alignment explanation
Indices: 68773--68820 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
68763 GAAATCAGTT
68773 TCTTATATTTGGAGTTCATGGCC
1 TCTTATATTTGGAGTTCATGGCC
68796 TCTTATATTTGGAGTTCATGGCC
1 TCTTATATTTGGAGTTCATGGCC
68819 TC
1 TC
68821 AAACTCCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.44
Consensus pattern (23 bp):
TCTTATATTTGGAGTTCATGGCC
Found at i:70073 original size:21 final size:20
Alignment explanation
Indices: 70036--70098 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
70026 CCGTTAGACA
*
70036 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
70056 GGGGGAATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCT-G
*
70077 GGGGGAATCTATACCCCCTG
1 GGGGGAATCTGTACCCCCTG
70097 GG
1 GG
70099 CAATCTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 21 0.52
21 19 0.47
ACGTcount: A:0.16, C:0.29, G:0.38, T:0.17
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:77803 original size:12 final size:12
Alignment explanation
Indices: 77783--77837 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
77773 AAAAACCTGA
*
77783 AAAAT-ACAAGG
1 AAAATAACAAGT
77794 AAAATAACAAGT
1 AAAATAACAAGT
77806 AAAACTATACAA--
1 AAAA-TA-ACAAGT
77818 AAAATAAACAAGT
1 AAAAT-AACAAGT
77831 AAAATAA
1 AAAATAA
77838 AAATGTTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
11 10 0.27
12 16 0.43
13 7 0.19
14 4 0.11
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAATAACAAGT
Found at i:86487 original size:18 final size:19
Alignment explanation
Indices: 86464--86500 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
86454 TTTGTTCAAA
86464 GTTGGTTAT-GTTGTTAAG
1 GTTGGTTATGGTTGTTAAG
*
86482 GTTGGTTTTGGTTGTTAAG
1 GTTGGTTATGGTTGTTAAG
86501 CCCGGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (19 bp):
GTTGGTTATGGTTGTTAAG
Done.