Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 77 of 193
Found at i:25185938 original size:24 final size:24
Alignment explanation
Indices: 25185911--25185957 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25185901 AAGCCTAATT
*
25185911 CTAATCAATGTAT-AATATATTATG
1 CTAATAAAT-TATAAATATATTATG
*
25185935 CTAATAAATTCTAAATATATTAT
1 CTAATAAATTATAAATATATTAT
25185958 ACAACTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (24 bp):
CTAATAAATTATAAATATATTATG
Found at i:25194432 original size:16 final size:16
Alignment explanation
Indices: 25194411--25194449 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
25194401 CGAAGGCATC
25194411 CACACAATTTTTATCA
1 CACACAATTTTTATCA
25194427 CACACAATTTTTATCA
1 CACACAATTTTTATCA
*
25194443 AACACAA
1 CACACAA
25194450 AAGGAACATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.31
Consensus pattern (16 bp):
CACACAATTTTTATCA
Found at i:25201220 original size:28 final size:27
Alignment explanation
Indices: 25201178--25201230 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
25201168 TAAAAACCAC
*
25201178 CGAATAAAATAAATGTAAAAAATCTGT
1 CGAATAAAAAAAATGTAAAAAATCTGT
* *
25201205 CGAATAAAAAATAATGTGATAAATCT
1 CGAATAAAAAA-AATGTAAAAAATCT
25201231 CCAATCTCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (27 bp):
CGAATAAAAAAAATGTAAAAAATCTGT
Found at i:25206185 original size:21 final size:19
Alignment explanation
Indices: 25206145--25206190 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
25206135 TGGAAAATCG
* *
25206145 TTTAGTTTAAAAATTTATA
1 TTTAGTTTAAAAAATAATA
25206164 TTTAGATTTAAAAACATAATA
1 TTTAG-TTTAAAAA-ATAATA
25206185 TTTAGT
1 TTTAGT
25206191 AAGATGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 9 0.39
21 9 0.39
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
TTTAGTTTAAAAAATAATA
Found at i:25208310 original size:14 final size:13
Alignment explanation
Indices: 25208292--25208316 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25208282 ATCTGTTTAT
25208292 TTTTTTAGTTTTC
1 TTTTTTAGTTTTC
25208305 TTTTTTAGTTTT
1 TTTTTTAGTTTT
25208317 TTAAGTGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.04, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTTTAGTTTTC
Found at i:25213991 original size:20 final size:21
Alignment explanation
Indices: 25213955--25213993 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25213945 ATTTTTATTA
*
25213955 TTTACTTTTGTTTGTTTCACT
1 TTTACTTTTGATTGTTTCACT
25213976 TTTACTTTT-ATTGTTTCA
1 TTTACTTTTGATTGTTTCA
25213994 AACTCCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTGATTGTTTCACT
Found at i:25216339 original size:23 final size:23
Alignment explanation
Indices: 25216313--25216359 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
25216303 TGTCTTTTAA
*
25216313 TGCTAGATCATTTTTATTCTTAT
1 TGCTAGATCATTTTGATTCTTAT
*
25216336 TGCTAGATTATTTTGATTCTTAT
1 TGCTAGATCATTTTGATTCTTAT
25216359 T
1 T
25216360 TTATGATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.57
Consensus pattern (23 bp):
TGCTAGATCATTTTGATTCTTAT
Found at i:25217574 original size:29 final size:29
Alignment explanation
Indices: 25217542--25217622 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
25217532 GATCATAGAT
*
25217542 AATAGTTCACACATAATCAGTTCGCATAC
1 AATAGTTCACATATAATCAGTTCGCATAC
* *
25217571 AATAGTTCACATATGATCAGTTCGCATGC
1 AATAGTTCACATATAATCAGTTCGCATAC
*
25217600 AATAGTTTACATATAATCAGTTC
1 AATAGTTCACATATAATCAGTTC
25217623 AATCTAGTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (29 bp):
AATAGTTCACATATAATCAGTTCGCATAC
Found at i:25218406 original size:34 final size:34
Alignment explanation
Indices: 25218368--25218440 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
25218358 AGTAAACAAC
* *
25218368 ATTTGGGTAAGGTAAAAGGTAAAAAATTTAAAAT
1 ATTTGGGTAAGATAAAAGGTAAAAAATTAAAAAT
25218402 ATTTGGGTAAGATAAAAGGTAAAAAATTAAAAAT
1 ATTTGGGTAAGATAAAAGGTAAAAAATTAAAAAT
25218436 ATTTG
1 ATTTG
25218441 AGTTTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (34 bp):
ATTTGGGTAAGATAAAAGGTAAAAAATTAAAAAT
Found at i:25218695 original size:23 final size:23
Alignment explanation
Indices: 25218651--25218696 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25218641 AAAAAAAATT
**
25218651 TAACTCGATTCGTTTAACTCGAA
1 TAACTCGATTCGAATAACTCGAA
* *
25218674 TAACTTGATTCGAATAATTCGAA
1 TAACTCGATTCGAATAACTCGAA
25218697 ATCGAATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (23 bp):
TAACTCGATTCGAATAACTCGAA
Found at i:25219155 original size:21 final size:21
Alignment explanation
Indices: 25219131--25219171 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25219121 TAAGGGTTTA
* *
25219131 CACAACATGTGAAAGTGTTCG
1 CACAACATCTGAAAGAGTTCG
25219152 CACAACATCTGAAAGAGTTC
1 CACAACATCTGAAAGAGTTC
25219172 ACATATACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (21 bp):
CACAACATCTGAAAGAGTTCG
Found at i:25222432 original size:40 final size:40
Alignment explanation
Indices: 25222378--25222466 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
25222368 CATCTGAACT
*
25222378 ATCACATCAGCTGTTTATGTTAACCGTTAGTCAACTAACG
1 ATCACATCAACTGTTTATGTTAACCGTTAGTCAACTAACG
* * ** *
25222418 ATCACGTCAACTGTTTATGTTGATTGTTAGTTAACTAACG
1 ATCACATCAACTGTTTATGTTAACCGTTAGTCAACTAACG
**
25222458 GCCACATCA
1 ATCACATCA
25222467 GCAAGACCGT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (40 bp):
ATCACATCAACTGTTTATGTTAACCGTTAGTCAACTAACG
Found at i:25229919 original size:5 final size:5
Alignment explanation
Indices: 25229909--25229933 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25229899 AATTAAATCT
25229909 CATCA CATCA CATCA CATCA CATCA
1 CATCA CATCA CATCA CATCA CATCA
25229934 ATATACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CATCA
Found at i:25235513 original size:21 final size:21
Alignment explanation
Indices: 25235487--25235528 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25235477 ATATACATCA
*
25235487 TCACTGTTCATGGATTTGACT
1 TCACTGTTCATGGACTTGACT
*
25235508 TCACTGTTTATGGACTTGACT
1 TCACTGTTCATGGACTTGACT
25235529 CTACTATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (21 bp):
TCACTGTTCATGGACTTGACT
Found at i:25236668 original size:28 final size:30
Alignment explanation
Indices: 25236623--25236691 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
25236613 TTAAACTAAT
* * *
25236623 AATAAT-AAAATTATATTTTATTC-ATAAA
1 AATAATAAAAATTACATTTAATCCTATAAA
*
25236651 AATAATAAAAATT-CATTTAATCCTTTAAA
1 AATAATAAAAATTACATTTAATCCTATAAA
*
25236680 AATTATAAAAAT
1 AATAATAAAAAT
25236692 ATAAATTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 13 0.38
29 21 0.62
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (30 bp):
AATAATAAAAATTACATTTAATCCTATAAA
Found at i:25236699 original size:15 final size:17
Alignment explanation
Indices: 25236678--25236718 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
25236668 TAATCCTTTA
25236678 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
25236694 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
25236710 AAAATTATA
1 AAAATTATA
25236719 TTTTTACTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:25237850 original size:15 final size:15
Alignment explanation
Indices: 25237811--25237850 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
25237801 TTGTAACCTC
25237811 AAATCTTAAACCCAT
1 AAATCTTAAACCCAT
* *
25237826 -AATCTCAAACCCTT
1 AAATCTTAAACCCAT
25237840 AAATCTTAAAC
1 AAATCTTAAAC
25237851 TTAAGCCTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATCTTAAACCCAT
Found at i:25250876 original size:35 final size:35
Alignment explanation
Indices: 25250830--25250902 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
25250820 AGTTTCATGG
25250830 TAACCGGTCTGCATGCTCTTTGGCAACCGTCGATA
1 TAACCGGTCTGCATGCTCTTTGGCAACCGTCGATA
25250865 TAACCGGTCTGCATGCTCTTTGGCAACCGTCGATA
1 TAACCGGTCTGCATGCTCTTTGGCAACCGTCGATA
25250900 TAA
1 TAA
25250903 AGTGGGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (35 bp):
TAACCGGTCTGCATGCTCTTTGGCAACCGTCGATA
Found at i:25252963 original size:23 final size:23
Alignment explanation
Indices: 25252933--25253373 Score: 434
Period size: 23 Copynumber: 19.6 Consensus size: 23
25252923 ATCTTAATTC
*
25252933 TTTAAGCACAAATCACGTTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25252956 TTCAAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
25252979 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* **
25253002 TTCAAGCACAAATCATTTTAATA
1 TTTAAGCACAAATCACATTAATA
25253025 TTTAAGCA-AAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25253047 TTTAAGCACAAATCGCATTGATA
1 TTTAAGCACAAATCACATTAATA
25253070 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25253093 TTTAAGGATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
25253116 TTTAAGAACAAGTCAAATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25253139 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* ** *
25253162 TTTGAGCACTTATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
25253185 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
25253208 TTT------AAAGCACGTTAGTA
1 TTTAAGCACAAATCACATTAATA
** * *
25253225 TTTAAATATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
**
25253248 TTTAA--ACACGTCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25253269 TTTAAACA-AAAGTCGCATTAATA
1 TTTAAGCACAAA-TCACATTAATA
* * *
25253292 TTTGAGCAAAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25253315 CTTAAGCACATATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
25253338 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
25253361 TTTAAGCATAAAT
1 TTTAAGCACAAAT
25253374 ATAAGAACAC
Statistics
Matches: 344, Mismatches: 63, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
17 14 0.04
21 17 0.05
22 21 0.06
23 289 0.84
24 3 0.01
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:25253238 original size:40 final size:39
Alignment explanation
Indices: 25253183--25253258 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
25253173 ATCATATTAA
*
25253183 TATTTAAGCATAAATCACATTAATATTTAAAGCACGTTAG
1 TATTTAAACATAAATCACATTAATATTTAAA-CACGTTAG
* *
25253223 TATTTAAATATAAATCATATTAATATTTAAACACGT
1 TATTTAAACATAAATCACATTAATATTTAAACACGT
25253259 CACATTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 5 0.15
40 28 0.85
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.38
Consensus pattern (39 bp):
TATTTAAACATAAATCACATTAATATTTAAACACGTTAG
Found at i:25254252 original size:16 final size:16
Alignment explanation
Indices: 25254228--25254269 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
25254218 GGTTCATTGA
25254228 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
* *
25254244 AATGTAATAGAGTTGT
1 AATGGAATAGAGCTGT
25254260 AATGGAATAG
1 AATGGAATAG
25254270 GGTTTGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.29, T:0.29
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:25254471 original size:26 final size:25
Alignment explanation
Indices: 25254439--25254524 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 25
25254429 ATTGTTATTA
25254439 AATTTAATAAGATTATTATTAAATAT
1 AATTTAATAA-ATTATTATTAAATAT
** *
25254465 AATTTAATAAA--AAAATTAATTAT
1 AATTTAATAAATTATTATTAAATAT
* * *
25254488 ATTTTAACATAATTATTATTAAATAC
1 AATTTAATA-AATTATTATTAAATAT
25254514 AATTTAATAAA
1 AATTTAATAAA
25254525 ATAATATATA
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
23 16 0.35
24 2 0.04
25 3 0.07
26 25 0.54
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (25 bp):
AATTTAATAAATTATTATTAAATAT
Found at i:25254545 original size:49 final size:48
Alignment explanation
Indices: 25254450--25254546 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 48
25254440 ATTTAATAAG
* *
25254450 ATTATTATTAAATATAATTTAATAAAAAAATTAATTATATTTTAACATA
1 ATTATTATTAAATACAATTTAATAAAAAAATTAATTATA-TGTAACATA
25254499 ATTATTATTAAATACAATTTAATAAAATAATATATAATT-TA-GTAACAT
1 ATTATTATTAAATACAATTTAATAAAA-AA-AT-TAATTATATGTAACAT
25254547 TTTTAATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
49 32 0.74
50 2 0.05
51 4 0.09
52 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (48 bp):
ATTATTATTAAATACAATTTAATAAAAAAATTAATTATATGTAACATA
Found at i:25265235 original size:21 final size:21
Alignment explanation
Indices: 25265209--25265270 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
25265199 TCTTACTGAT
*
25265209 ACAAGTGATAATTCTACCGAC
1 ACAAGTGATACTTCTACCGAC
*
25265230 ACAAGTGACT-CTTCTACCGAT
1 ACAAGTGA-TACTTCTACCGAC
**
25265251 ACAAGTCTTACTTCTACCGA
1 ACAAGTGATACTTCTACCGA
25265271 TACTAAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (21 bp):
ACAAGTGATACTTCTACCGAC
Found at i:25268953 original size:36 final size:36
Alignment explanation
Indices: 25268880--25268953 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
25268870 TAATCAGTCG
* * **
25268880 CATGACATGAAGAACATACCCACATATTTTCTGTCA
1 CATGACATGAAAAACATACCCACATACTCACTGTCA
* *
25268916 CATGACATGAAAAACATACCCACGTACTCACTTTCA
1 CATGACATGAAAAACATACCCACATACTCACTGTCA
25268952 CA
1 CA
25268954 ACAATTATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.24
Consensus pattern (36 bp):
CATGACATGAAAAACATACCCACATACTCACTGTCA
Found at i:25269543 original size:23 final size:23
Alignment explanation
Indices: 25269023--25269536 Score: 623
Period size: 23 Copynumber: 22.3 Consensus size: 23
25269013 ATCTTAATTC
* *
25269023 TTTAAGCACAAACCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
25269046 TTAAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
25269069 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
25269092 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
25269115 TTTGAGCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* **
25269138 TTTGAGTGCAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
25269161 TTTGAGTACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25269184 TTTAAGCAAAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
25269207 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
25269230 TTTAAGCACAAACCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25269253 TTTTTAAGCATAAATCACAGTAATA
1 --TTTAAGCACAAATCACATTAATA
* *
25269278 TTTAAGCATAAGTCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* **
25269301 TTTGAGCACAAATCGTATTAATA
1 TTTAAGCACAAATCACATTAATA
25269324 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25269347 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
25269370 TTCAAGCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
25269393 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
25269416 TTTAAGCAAAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25269439 TTTAAACACAAGTCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* **
25269462 TTTAATCACAAATCATTTTAATA
1 TTTAAGCACAAATCACATTAATA
* *
25269485 CTTAAGCACAAATCACATTGATA
1 TTTAAGCACAAATCACATTAATA
* * *
25269508 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
25269531 TATAAG
1 TTTAAG
25269537 TATAAATATA
Statistics
Matches: 425, Mismatches: 64, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
23 405 0.95
25 20 0.05
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:25292965 original size:27 final size:28
Alignment explanation
Indices: 25292929--25292986 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
25292919 AAGCCTGAGG
25292929 AGAAGAAGGA-AATTGAAT-AAGAGAAGGA
1 AGAAGAAGGAGAA--GAATGAAGAGAAGGA
*
25292957 AGAAG-AGGAGAAGAATGAAGAGAATGA
1 AGAAGAAGGAGAAGAATGAAGAGAAGGA
25292984 AGA
1 AGA
25292987 TGCCCCGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 4 0.15
27 16 0.59
28 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.34, T:0.09
Consensus pattern (28 bp):
AGAAGAAGGAGAAGAATGAAGAGAAGGA
Found at i:25293410 original size:18 final size:18
Alignment explanation
Indices: 25293384--25293437 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
25293374 ATGCATAGCA
* *
25293384 TTTAGTTGTCATTACATT
1 TTTATTTGTCACTACATT
*
25293402 TTTATTTGTCACTGCA-T
1 TTTATTTGTCACTACATT
* *
25293419 TTTATTTGTTAGTACATT
1 TTTATTTGTCACTACATT
25293437 T
1 T
25293438 GCATTGTAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTATTTGTCACTACATT
Found at i:25293436 original size:17 final size:17
Alignment explanation
Indices: 25293384--25293437 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
25293374 ATGCATAGCA
* *
25293384 TTTAGTTGTCATTACATT
1 TTTATTTGTCACTACA-T
*
25293402 TTTATTTGTCACTGCAT
1 TTTATTTGTCACTACAT
* *
25293419 TTTATTTGTTAGTACAT
1 TTTATTTGTCACTACAT
25293436 TT
1 TT
25293438 GCATTGTAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (17 bp):
TTTATTTGTCACTACAT
Found at i:25299052 original size:4 final size:4
Alignment explanation
Indices: 25299043--25299072 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
25299033 CACCTTTGAC
25299043 TTTA TTTA -TTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
25299073 TCATGCATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:25299097 original size:10 final size:10
Alignment explanation
Indices: 25299069--25299102 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
25299059 TTATTTATTT
25299069 ATTTTCATGC
1 ATTTTCATGC
*
25299079 A-TCTCATGC
1 ATTTTCATGC
25299088 ATTTTCATGC
1 ATTTTCATGC
25299098 ATTTT
1 ATTTT
25299103 AGTTCTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.50
Consensus pattern (10 bp):
ATTTTCATGC
Found at i:25299270 original size:20 final size:20
Alignment explanation
Indices: 25299233--25299302 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
25299223 TGCAATTTGG
* *
25299233 TATCGATACTGGTT-TAAAAT
1 TATCGATACT-CTTATAAAAA
*
25299253 TATCGATACTTTTATAAACAA
1 TATCGATACTCTTATAAA-AA
* *
25299274 TATTGATACTCGTATAAAAA
1 TATCGATACTCTTATAAAAA
*
25299294 TATCAATAC
1 TATCGATAC
25299303 CACTTGGCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.05
20 23 0.56
21 16 0.39
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (20 bp):
TATCGATACTCTTATAAAAA
Found at i:25302872 original size:23 final size:22
Alignment explanation
Indices: 25302839--25302889 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
25302829 CTTTATTTGA
25302839 TAAAATA-TTTTGATATAATAAAT
1 TAAAATATTTTTGA-AT-ATAAAT
*
25302862 TAAAATGTTTTTGAATATAAAT
1 TAAAATATTTTTGAATATAAAT
25302884 TAAAAT
1 TAAAAT
25302890 TTATCAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.46
23 8 0.31
24 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (22 bp):
TAAAATATTTTTGAATATAAAT
Found at i:25302884 original size:22 final size:24
Alignment explanation
Indices: 25302846--25302889 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
25302836 TGATAAAATA
25302846 TTTTGATATAATAAATTAAAATGT
1 TTTTGATATAATAAATTAAAATGT
25302870 TTTTGA-AT-ATAAATTAAAAT
1 TTTTGATATAATAAATTAAAAT
25302890 TTATCAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
23 2 0.10
24 6 0.30
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (24 bp):
TTTTGATATAATAAATTAAAATGT
Found at i:25316225 original size:18 final size:18
Alignment explanation
Indices: 25316159--25316226 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 18
25316149 TTTTTGTTTT
25316159 TTATGAAATAAAAATATAAAA
1 TTATGAAAT-AAAAT-T-AAA
*
25316180 TTTATAGAAATATAAAACTAAA
1 -TTAT-G-AA-ATAAAATTAAA
25316202 -TATGAAATAAAATTAAA
1 TTATGAAATAAAATTAAA
25316219 TTATGAAA
1 TTATGAAA
25316227 GCTATAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
17 10 0.25
18 9 0.22
19 1 0.03
20 3 0.08
22 7 0.17
23 2 0.05
24 6 0.15
25 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (18 bp):
TTATGAAATAAAATTAAA
Found at i:25316248 original size:15 final size:16
Alignment explanation
Indices: 25316215--25316249 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
25316205 GAAATAAAAT
*
25316215 TAAATTATGAAAGCTA
1 TAAATTATGAAAACTA
25316231 TAAATTAT-AAAACTA
1 TAAATTATGAAAACTA
25316246 TAAA
1 TAAA
25316250 ATTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (16 bp):
TAAATTATGAAAACTA
Found at i:25316263 original size:14 final size:16
Alignment explanation
Indices: 25316166--25316264 Score: 51
Period size: 17 Copynumber: 5.9 Consensus size: 16
25316156 TTTTTATGAA
25316166 ATAAAAATATAAAATTT
1 ATAAAAATATAAAA-TT
*
25316183 ATAGAAATATAAAACTAAAT
1 ATAAAAATATAAAA-T---T
* *
25316203 ATGAAATAAAATTAAATT
1 AT-AAA-AATATAAAATT
**
25316221 ATGAAAGCTAT-AAATT
1 AT-AAAAATATAAAATT
*
25316237 ATAAAACTATAAAATT
1 ATAAAAATATAAAATT
25316253 A-AAAAAT-TAAAA
1 ATAAAAATATAAAA
25316265 ATGGAGTCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
14 5 0.08
15 12 0.18
16 13 0.20
17 16 0.24
18 7 0.11
20 3 0.05
21 3 0.05
22 7 0.11
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (16 bp):
ATAAAAATATAAAATT
Found at i:25316736 original size:18 final size:18
Alignment explanation
Indices: 25316703--25316755 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
25316693 GTTAGGATGC
25316703 AAATAAATTT--TTAATT
1 AAATAAATTTAATTAATT
25316719 AAATAAATTTAATTAATT
1 AAATAAATTTAATTAATT
*
25316737 AAA-AATTTTAAATTAATT
1 AAATAAATTT-AATTAATT
25316755 A
1 A
25316756 TAACTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 10 0.30
17 5 0.15
18 18 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAAATTTAATTAATT
Found at i:25320195 original size:4 final size:4
Alignment explanation
Indices: 25320188--25320219 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
25320178 TATATATATA
*
25320188 TATG TATG TATG TATG TATG TATG TATT TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
25320220 CATTGATGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:25320454 original size:39 final size:40
Alignment explanation
Indices: 25320363--25320457 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
25320353 GAATTCTTGT
* *
25320363 AAAGGTCGAAAAGGATGTTATCTGAAAGGATATCAAATGA
1 AAAGGTCGAAAAGGATGTTATCCGAAAGGATAGCAAATGA
* **
25320403 AATGGTTTAAAAGGATGTTATCCGAAAGGATAGC-AATGA
1 AAAGGTCGAAAAGGATGTTATCCGAAAGGATAGCAAATGA
25320442 AAAGGTCGAAAAGGAT
1 AAAGGTCGAAAAGGAT
25320458 AGCAATGAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 18 0.38
40 29 0.62
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.22
Consensus pattern (40 bp):
AAAGGTCGAAAAGGATGTTATCCGAAAGGATAGCAAATGA
Found at i:25320456 original size:24 final size:24
Alignment explanation
Indices: 25320427--25320474 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
25320417 ATGTTATCCG
25320427 AAAGGATAGCAATGAAAAGGTCGA
1 AAAGGATAGCAATGAAAAGGTCGA
25320451 AAAGGATAGCAATGAAAAGGTCGA
1 AAAGGATAGCAATGAAAAGGTCGA
25320475 TATCTCATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.29, T:0.12
Consensus pattern (24 bp):
AAAGGATAGCAATGAAAAGGTCGA
Found at i:25321595 original size:21 final size:21
Alignment explanation
Indices: 25321571--25321641 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
25321561 TTTGTTTTAC
*
25321571 CGGTAGAAGTCTAAATTGTAT
1 CGGTAGAACTCTAAATTGTAT
* * *
25321592 CGGTATAACTCAAAATTGTAC
1 CGGTAGAACTCTAAATTGTAT
* * *
25321613 CAGTAGAACTCTCAATTCTAT
1 CGGTAGAACTCTAAATTGTAT
25321634 CGGTAGAA
1 CGGTAGAA
25321642 TTTTGTAGCT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (21 bp):
CGGTAGAACTCTAAATTGTAT
Found at i:25326197 original size:40 final size:40
Alignment explanation
Indices: 25326147--25326280 Score: 180
Period size: 40 Copynumber: 3.4 Consensus size: 40
25326137 ACCGAATTCT
*
25326147 TGAAAAGGTTGAAAAGGATGTTATTCGAAAGGATATCAAA
1 TGAAAAGGTTGAAAATGATGTTATTCGAAAGGATATCAAA
* * *
25326187 TGAAATGGTTGAAAATGATGTTATCCGAAAGGATATCAAG
1 TGAAAAGGTTGAAAATGATGTTATTCGAAAGGATATCAAA
* * * *
25326227 CGAAAAGGTTGAAAATGATGTTATTCAAAATGATAT-TAA
1 TGAAAAGGTTGAAAATGATGTTATTCGAAAGGATATCAAA
*
25326266 TGAAAAGGTCGAAAA
1 TGAAAAGGTTGAAAA
25326281 AGATAACAAT
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 14 0.17
40 67 0.83
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (40 bp):
TGAAAAGGTTGAAAATGATGTTATTCGAAAGGATATCAAA
Found at i:25328968 original size:6 final size:6
Alignment explanation
Indices: 25328947--25328988 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
25328937 AAACTCGTTT
*
25328947 AACCTA AACCCTA AACCCA AA-CCA AACCCA ATACCCA AACCC
1 AACCCA AACCC-A AACCCA AACCCA AACCCA A-ACCCA AACCC
25328989 TAGCACAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 5 0.16
6 15 0.47
7 12 0.38
ACGTcount: A:0.48, C:0.45, G:0.00, T:0.07
Consensus pattern (6 bp):
AACCCA
Found at i:25328968 original size:13 final size:12
Alignment explanation
Indices: 25328947--25328988 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
25328937 AAACTCGTTT
*
25328947 AACCTAAACCCTA
1 AACCCAAACCC-A
25328960 AACCCAAA-CCA
1 AACCCAAACCCA
25328971 AACCCAATACCCA
1 AACCCAA-ACCCA
25328984 AACCC
1 AACCC
25328989 TAGCACAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 8 0.31
12 3 0.12
13 15 0.58
ACGTcount: A:0.48, C:0.45, G:0.00, T:0.07
Consensus pattern (12 bp):
AACCCAAACCCA
Found at i:25328975 original size:18 final size:19
Alignment explanation
Indices: 25328947--25328987 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
25328937 AAACTCGTTT
25328947 AACCTAAACCCTAA-ACCCA
1 AACCTAAACCC-AATACCCA
25328966 AACC-AAACCCAATACCCA
1 AACCTAAACCCAATACCCA
25328984 AACC
1 AACC
25328988 CTAGCACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.10
18 15 0.71
19 4 0.19
ACGTcount: A:0.49, C:0.44, G:0.00, T:0.07
Consensus pattern (19 bp):
AACCTAAACCCAATACCCA
Found at i:25329099 original size:23 final size:23
Alignment explanation
Indices: 25329073--25329130 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
25329063 AACCCGACCC
*
25329073 ATTGACTTTGATCA-AACCGAACT
1 ATTGACTTTGA-CAGAACCAAACT
*
25329096 ATTGACTTTGACAGAACTAAACT
1 ATTGACTTTGACAGAACCAAACT
*
25329119 GTTGACTTTGAC
1 ATTGACTTTGAC
25329131 CGACCGTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 2 0.06
23 29 0.94
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (23 bp):
ATTGACTTTGACAGAACCAAACT
Found at i:25340782 original size:28 final size:30
Alignment explanation
Indices: 25340736--25340791 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
25340726 TTTTTTTATA
**
25340736 AATATAATAAACATATAAATTATAAAAATG
1 AATATAATAAACATATAAAAAATAAAAATG
*
25340766 AATA-AATAAA-ATTTAAAAAATAAAAA
1 AATATAATAAACATATAAAAAATAAAAA
25340792 ATACATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.57
29 6 0.26
30 4 0.17
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (30 bp):
AATATAATAAACATATAAAAAATAAAAATG
Found at i:25341221 original size:18 final size:18
Alignment explanation
Indices: 25341179--25341227 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
25341169 AAAAATGTTT
*
25341179 ATTTTTTTGAA-TTTAAAT
1 ATTTTTTT-AATTTTAAAG
*
25341197 A-TATTTTAATTTTAAAG
1 ATTTTTTTAATTTTAAAG
25341214 ATTTTTTTAATTTT
1 ATTTTTTTAATTTT
25341228 TAGAATAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 2 0.08
17 12 0.46
18 12 0.46
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (18 bp):
ATTTTTTTAATTTTAAAG
Found at i:25347600 original size:114 final size:113
Alignment explanation
Indices: 25347393--25347681 Score: 371
Period size: 114 Copynumber: 2.5 Consensus size: 113
25347383 ATTTGTTTTA
* * * * *
25347393 ACCCACTTCTTTGTACCTCACTAGGAAGATGGGATTTGAAATCTCACTTCACTCTACTATATCCT
1 ACCCACTTCTCTGTACCTCAC-AGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTATCCT
* *
25347458 CAAGGACGTTGAGCTCGGCTTCGCTGTTTTGATTCAACATACTATCTTG
65 CAAGGACGATGAGCTCGGCTTCACTGTTTTGATTCAACATACTATCTTG
*
25347507 ACCCACTTCTCTGTACCTCATCAGGAAGATGGGATTTGAAGTCTCACCCCACTCCACTGTATCCT
1 ACCCACTTCTCTGTACCTCA-CAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTATCCT
* * * * * *
25347572 CAGGGACGATGAGCTCGGCTTTATTGTTTTGATTTAACATACTGTTTTG
65 CAAGGACGATGAGCTCGGCTTCACTGTTTTGATTCAACATACTATCTTG
* * * * * *
25347621 ACCCAATTCTCTGTACCTCACCAGGAAAATGAGATTTGAAGTTTCACTCCATTCCATTGTA
1 ACCCACTTCTCTGTACCTCA-CAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTA
25347682 ACTTCGAGGT
Statistics
Matches: 152, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
114 151 0.99
115 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (113 bp):
ACCCACTTCTCTGTACCTCACAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTATCCTC
AAGGACGATGAGCTCGGCTTCACTGTTTTGATTCAACATACTATCTTG
Found at i:25348225 original size:99 final size:99
Alignment explanation
Indices: 25347942--25348706 Score: 715
Period size: 99 Copynumber: 7.8 Consensus size: 99
25347932 CCAGATTCGT
* * * ** * *
25347942 CGTTGGGACCTCAATCTTTCTCC-TCAGATCTTCATGGTTTCAGATTCGTCGTTGTGGCCTCAAT
1 CGTTGCGACCTCAACCTTTC-CCTTCATATCTTCATGGTACCAGATTCGCCGTTGCGGCCTCAAT
** * **
25348006 CCTTCCCATCATGT-TTCTAAGGTACAAGGTTTGC
65 CCTTCCCATCACATCTTCTAAGGTACAGGGTTCAC
* * * * * *** * * *
25348040 CGTTACGGCCTCAACCTTTCCCCTTTATAT-TTCTATGGTACTAGATCCGTAATTGTGGTCTCGA
1 CGTTGCGACCTCAACCTTT-CCCTTCATATCTTC-ATGGTACCAGATTCGCCGTTGCGGCCTCAA
* * * * *
25348104 TCTTTTCTATCACGTCTT-TAAGGTACCA-GGTTCGC
64 TCCTTCCCATCACATCTTCTAAGGTA-CAGGGTTCAC
* * * *
25348139 CGTTGCGACCTCAACCTTTCCTTTCATATCTTCATGGTACCAGATTCACCGTTGCGGCTTCAATT
1 CGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCCGTTGCGGCCTCAATC
* *
25348204 CTTCCCATCACATCTTCTAAGGTATAGGGTTTAC
66 CTTCCCATCACATCTTCTAAGGTACAGGGTTCAC
* * * ** **
25348238 CGTTGC-AGCCTTAACCTTTCCCTTCATATCTTCATGGTACCAAATTCACATTTGCGGTTTCAAT
1 CGTTGCGA-CCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCCGTTGCGGCCTCAAT
25348302 CCTT-CCAGT-ACATCTTCTAAGGTACAGGGTTCAC
65 CCTTCCCA-TCACATCTTCTAAGGTACAGGGTTCAC
* * * * * * * * * * *
25348336 TGCTACGGCCTCAACCTTTCCTTTTATATCTTCAT-ATCACTAGATTCGTCGTTGCGACCTTAAT
1 CGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGT-ACCAGATTCGCCGTTGCGGCCTCAAT
* * *
25348400 TCTTCCCATCACATCTTCTATGGTACAAGGTTCAC
65 CCTTCCCATCACATCTTCTAAGGTACAGGGTTCAC
* * * * ** *
25348435 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTTATAGTAACAGATTCGTTGTTGTGGCCTCAATC
1 CGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCCGTTGCGGCCTCAATC
25348500 CTTCCCATCACATCTTCTAAGGTACAGGGTTCAC
66 CTTCCCATCACATCTTCTAAGGTACAGGGTTCAC
* * * * *
25348534 CGTTGCGGCCTCAACCTTTCCCTTAATATCTTCATGGTACCGGATTCCCCATTGCGGCCTCAATC
1 CGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCCGTTGCGGCCTCAATC
*
25348599 CTTCCCATCACATCTTCTAAGGTACAGGGTTCGC
66 CTTCCCATCACATCTTCTAAGGTACAGGGTTCAC
* * * * * *
25348633 CGTTGCGACCTCAATCTTTCCCTTCA-ATTTTTAGGGTATCAGATTCACCGTTGCGGCCTCAAT-
1 CGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCCGTTGCGGCCTCAATC
25348696 CTTCCCTATCA
66 CTTCCC-ATCA
25348707 AACCTGTAGA
Statistics
Matches: 543, Mismatches: 108, Indels: 32
0.80 0.16 0.05
Matches are distributed among these distances:
97 7 0.01
98 170 0.31
99 361 0.66
100 5 0.01
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (99 bp):
CGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCCGTTGCGGCCTCAATC
CTTCCCATCACATCTTCTAAGGTACAGGGTTCAC
Found at i:25348687 original size:296 final size:294
Alignment explanation
Indices: 25348110--25348706 Score: 720
Period size: 296 Copynumber: 2.0 Consensus size: 294
25348100 TCGATCTTTT
* * * * *
25348110 CTATCACGTCTTTAAGGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCTTTCATATCTTCATG
1 CTATCACATCTTTAAGGTACAAGGTTCACCGTTGCGACCTCAACCTTTCCCTTCATATCTTCATA
* * * * *
25348175 GTACCAGATTCACCGTTGCGGCTTCAATTCTTCCCATCACATCTTCTAAGGTATAGGGTTTACCG
66 GTAACAGATTCACCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAGGGTTCACCG
* * **
25348240 TTGCAGCCTTAACCTTTCCCTTCATATCTTCATGGTACCAAATTCACATTTGCGGTTTCAATCCT
131 TTGCAGCCTCAACCTTTCCCTTAATATCTTCATGGTACCAAATTCACATTTGCGGCCTCAATCCT
* * * *
25348305 TCCAGTACATCTTCTAAGGTACAGGGTTCACTGCTACGGCCTCAACCTTTCCTTTTATATCTTCA
196 TCCAGTACATCTTCTAAGGTACAGGGTTCACCGCTACGACCTCAACCTTTCCCTTCATATCTTCA
** *
25348370 TATCACTAGATTCGTCGTTGCGACCTTAATTCTTCC
261 TAT-ACTAGATTCACCGTTGCGACCTCAA-TCTTCC
* * *
25348406 C-ATCACATCTTCTATGGTACAAGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTTAT
1 CTATCACATCTT-TAAGGTACAAGGTTCACCGTTGCGACCTCAACCTTTCCCTTCATATCTTCAT
*** *
25348470 AGTAACAGATTCGTTGTTGTGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAGGGTTCACC
65 AGTAACAGATTCACCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAGGGTTCACC
* ** *
25348535 GTTGCGGCCTCAACCTTTCCCTTAATATCTTCATGGTACCGGATTCCCCA-TTGCGGCCTCAATC
130 GTTGCAGCCTCAACCTTTCCCTTAATATCTTCATGGTACCAAATT-CACATTTGCGGCCTCAATC
* * * * *
25348599 CTTCCCA-TCACATCTTCTAAGGTACAGGGTTCGCCGTTGCGACCTCAATCTTTCCCTTCA-ATT
194 CTT-CCAGT-ACATCTTCTAAGGTACAGGGTTCACCGCTACGACCTCAACCTTTCCCTTCATATC
* *
25348662 TTTAGGGTAT-C-AGATTCACCGTTGCGGCCTCAATCTTCC
257 TTCA---TATACTAGATTCACCGTTGCGACCTCAATCTTCC
25348701 CTATCA
1 CTATCA
25348707 AACCTGTAGA
Statistics
Matches: 254, Mismatches: 39, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
295 16 0.06
296 185 0.73
297 50 0.20
299 3 0.01
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (294 bp):
CTATCACATCTTTAAGGTACAAGGTTCACCGTTGCGACCTCAACCTTTCCCTTCATATCTTCATA
GTAACAGATTCACCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAGGGTTCACCG
TTGCAGCCTCAACCTTTCCCTTAATATCTTCATGGTACCAAATTCACATTTGCGGCCTCAATCCT
TCCAGTACATCTTCTAAGGTACAGGGTTCACCGCTACGACCTCAACCTTTCCCTTCATATCTTCA
TATACTAGATTCACCGTTGCGACCTCAATCTTCC
Found at i:25370805 original size:15 final size:15
Alignment explanation
Indices: 25370787--25370840 Score: 90
Period size: 15 Copynumber: 3.6 Consensus size: 15
25370777 AAGGAAGGGT
*
25370787 AAGAAGAAGAAGAAA
1 AAGAGGAAGAAGAAA
25370802 AAGAGGAAGAAGAAA
1 AAGAGGAAGAAGAAA
*
25370817 AAGAGGAAGAATAAA
1 AAGAGGAAGAAGAAA
25370832 AAGAGGAAG
1 AAGAGGAAG
25370841 TTTTTGTCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (15 bp):
AAGAGGAAGAAGAAA
Found at i:25383790 original size:15 final size:16
Alignment explanation
Indices: 25383770--25383803 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
25383760 GCAGAAGGAG
*
25383770 AAGGAAGAAGAAG-AA
1 AAGGAAGAAAAAGCAA
25383785 AAGGAAGAAAAAGCAA
1 AAGGAAGAAAAAGCAA
25383801 AAG
1 AAG
25383804 AGAATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (16 bp):
AAGGAAGAAAAAGCAA
Found at i:25384178 original size:6 final size:6
Alignment explanation
Indices: 25384167--25384192 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25384157 GTGAGCGCCC
25384167 AAAGAA AAAGAA AAAGAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA
25384193 CAAAGGTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:25387521 original size:689 final size:690
Alignment explanation
Indices: 25384414--25388553 Score: 7307
Period size: 690 Copynumber: 6.0 Consensus size: 690
25384404 GTGAAATGGA
* * * *
25384414 AATGTAATTACACCCACGTATTTGAATTTTGCTTGTTTCTTTTGTTAATGAGAATATGCAAAATT
1 AATGCAATTACACCCACGTATTTGAATTCTGCTTGTATCTTTTGTGAATGAGAATATGCAAAATT
25384479 TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGTTGAT
66 TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGTTGAT
* *
25384544 GTGTAAATTGAATGGATGCGAATGGATAGTGAGTCTTCAATTTTTGAATGAATGATTGGAATTGC
131 GTGTAAATTGGATGGATGCGAATGGATAGTGAGTCTTCTATTTTTGAATGAATGATTGGAATTGC
* * *
25384609 TTCAGTAATGAATAGATAGTGTGAATGTTTGAATCTTGAACTAACTGACTAGTTGCAGCGACATG
196 TTCAGTAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTGACCAGTTGCAGCGACATT
* * *
25384674 GTATGAATAAAAGATACTCCAATCTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGCA
261 GTATAAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGCA
*
25384739 GGTTTAGAAAAATCATCTAGCTAAAGGCTGTCACCACAAGAGTGTGCGTCAGTGCAATTACATAC
326 GGTTTAGAAAAATCATCTAGCCAAAGGCTGTCACCACAAGAGTGTGCGTCAGTGCAATTACATAC
*
25384804 CTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAATGATA
391 CTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAATGACA
25384869 TCTCTTAGTTACCT-AAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAGAATTTTTTTT
456 TCTCTTAGTTACCTGAAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAGAATTTTTTTT
25384933 ATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATTGATG
521 ATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATTGATG
25384998 AAGTTGCAATTTTAATTATTCATGCCTATAAATTGTCGGTGCATTATTCTATCATGTGAATACAA
586 AAGTTGCAATTTTAATTATTCATGCCTATAAATTGTCGGTGCATTATTCTATCATGTGAATACAA
25385063 TTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
651 TTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
*
25385103 AATGCAATTACACCCACGTATTTGAATTCTGCTTGTATCTTTTGTGAATGAGAATATGCAGAATT
1 AATGCAATTACACCCACGTATTTGAATTCTGCTTGTATCTTTTGTGAATGAGAATATGCAAAATT
25385168 TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGTTGAT
66 TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGTTGAT
*
25385233 GTGTAAATTGGATGGATGCGAACGGATAGTGAGTCTTCTATTTTTGAATGAATGATTGGAATTGC
131 GTGTAAATTGGATGGATGCGAATGGATAGTGAGTCTTCTATTTTTGAATGAATGATTGGAATTGC
* * *
25385298 TTCAGTAATGAATAGATAGTGTGGATGTTTGAATCTTGAACTAACTGACCAGTTGTAGCGACATT
196 TTCAGTAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTGACCAGTTGCAGCGACATT
25385363 GTATAAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGCA
261 GTATAAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGCA
*
25385428 GGTTTAGAAAAATCATCTAGCTAAAGGCTGTCACCACAAGAGTGTGCGTCAGTGCAATTACATAC
326 GGTTTAGAAAAATCATCTAGCCAAAGGCTGTCACCACAAGAGTGTGCGTCAGTGCAATTACATAC
*
25385493 CTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAATGATA
391 CTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAATGACA
25385558 TCTCTTAGTTACCTGAAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAGAATTTTTTTT
456 TCTCTTAGTTACCTGAAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAGAATTTTTTTT
25385623 ATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATTGATG
521 ATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATTGATG
25385688 AAGTTGCAATTTTAATTATTCATGCCTATAAATTGTCGGTGCATTATTCTATCATGTGAATACAA
586 AAGTTGCAATTTTAATTATTCATGCCTATAAATTGTCGGTGCATTATTCTATCATGTGAATACAA
25385753 TTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
651 TTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
*
25385793 AATGCAATTACACCCACGTATTTGAATTCTGCTTGTATCTTTTGTGAATGAGAATATGCAGAATT
1 AATGCAATTACACCCACGTATTTGAATTCTGCTTGTATCTTTTGTGAATGAGAATATGCAAAATT
*
25385858 TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTACTTGGAATGTTGAT
66 TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGTTGAT
*
25385923 GTGTAAATTGGATGGATGCGAATGGATAGTGAGTCTTCTATTTTTGAATGAACGATTGGAATTGC
131 GTGTAAATTGGATGGATGCGAATGGATAGTGAGTCTTCTATTTTTGAATGAATGATTGGAATTGC
* *
25385988 TTCAGTAATGAATGGATAGTGTGGATGTTTGAATCTTGAACTAACTGACCAGTTGTAGCGACATT
196 TTCAGTAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTGACCAGTTGCAGCGACATT
25386053 GTATAAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGCA
261 GTATAAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGCA
* *
25386118 GGTTTAGAAAAATCATCTAGCTAAAGGCTGTCACCACAAGAGTGTGCGTCAGTGTAATTACATAC
326 GGTTTAGAAAAATCATCTAGCCAAAGGCTGTCACCACAAGAGTGTGCGTCAGTGCAATTACATAC
* *
25386183 CTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAAGAACAAAGGTAGAGTAATGCAATGATA
391 CTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAATGACA
25386248 TCTCTTAGTTACCTGAAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAGAATTTTTTTT
456 TCTCTTAGTTACCTGAAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAGAATTTTTTTT
25386313 ATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATTGATG
521 ATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATTGATG
25386378 AAGTTGCAATTTTAATTATTCATGCCTATAAATTGTCGGTGCATTATTCTATCATGTGAATACAA
586 AAGTTGCAATTTTAATTATTCATGCCTATAAATTGTCGGTGCATTATTCTATCATGTGAATACAA
25386443 TTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
651 TTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
*
25386483 AATGCAATTACACCCACGTATTTGAATTCTGCTTGTATCTTTTGTGAATGAGAATATGCAGAATT
1 AATGCAATTACACCCACGTATTTGAATTCTGCTTGTATCTTTTGTGAATGAGAATATGCAAAATT
25386548 TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGTTGAT
66 TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGTTGAT
25386613 GTGTAAATTGGATGGATGCGAATGGATAGTGAGTCTTCTATTTTTGAATGAATGATTGGAATTGC
131 GTGTAAATTGGATGGATGCGAATGGATAGTGAGTCTTCTATTTTTGAATGAATGATTGGAATTGC
* *
25386678 TTCAGTAATGAATGGATAGTGTGGATGTTTGAATCTTGAACTAACTGACCAGTTGTAGCGACATT
196 TTCAGTAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTGACCAGTTGCAGCGACATT
25386743 GTATAAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGCA
261 GTATAAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGCA
* * * ** **
25386808 GGTTTAGAAAAATCATCAAGCCAAAGGCTGTCATCGA-AAGAGTGTGTGTTGGCCCAATTACATA
326 GGTTTAGAAAAATCATCTAGCCAAAGGCTGTCA-CCACAAGAGTGTGCGTCAGTGCAATTACATA
25386872 CCTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAATGAC
390 CCTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAATGAC
* * * * *
25386937 ATCTCTCAGTTACTTGAAAAAGAATGATGAGAAAAAGAAAGAGAAAAGAAAA-TA-ATTTTTTTT
455 ATCTCTTAGTTACCTGAAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAGAATTTTTTT
*
25387000 TATTGCTATAAATGCTAAATTGGTTTAAGGAAGATTAAGATTCATTTCATAATAATTACATTGAT
520 TATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATTGAT
*
25387065 GAAGTTGCATTTTTAATTATTCATGCCTATATAAATTGTCGGTGCATTATTCTATCATGTGAATA
585 GAAGTTGCAATTTTAATTATTCATGCC--TATAAATTGTCGGTGCATTATTCTATCATGTGAATA
* *
25387130 CAATTTATGCATTAGGATTTTAGAAAATTCAAGTTGTGAGAAT
648 CAATTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
* * * * * *
25387173 AATACAATTACACCCACATATTTTAATTCTTCTTGCT-TCTTTTGT-TACGAGAATATGCAAAAT
1 AATGCAATTACACCCACGTATTTGAATTCTGCTTG-TATCTTTTGTGAATGAGAATATGCAAAAT
* * *
25387236 TGT-AACAGAAATGTGCCCACAATTTTTATTTTTATGTGTAAATCTTGATTTGCTTGGAATGCTA
65 T-TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGTTG
25387300 ATGTGTAAATTGGATGGATGCGAATGGATAGTGAGTCTTCTATTTTTGAATGAATGATTGGAATT
129 ATGTGTAAATTGGATGGATGCGAATGGATAGTGAGTCTTCTATTTTTGAATGAATGATTGGAATT
*
25387365 GCTTCAGTAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTGACCAGTTGCAGTGACA
194 GCTTCAGTAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTGACCAGTTGCAGCGACA
* *
25387430 TTGTATGAATAAAAGACACTCCAATGTGAGTGCATTTTGACTTTTCAAGGGAGAACACTCTGCTG
259 TTGTATAAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTG
* * *
25387495 CAGGTTTAGAAAAATCATCTAGCCAAAGGCTGTCACCGCAAGACTGTGTGTC-G-GCCTAATTAC
324 CAGGTTTAGAAAAATCATCTAGCCAAAGGCTGTCACCACAAGAGTGTGCGTCAGTG-C-AATTAC
25387558 ATACCTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAAT
387 ATACCTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAAT
* *
25387623 GACATCTCTCAGTTACCTGAAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAATG-A-AATTTT
452 GACATCTCTTAGTTACCTGAAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAGAATTTT
25387686 TTTTATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATT
517 TTTTATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATT
* * *
25387751 GATGAAGTTGCAGTTTTAATTATTCATGCCTATAATTTATCGGTGCATTATTCTATCATGTGAAT
582 GATGAAGTTGCAATTTTAATTATTCATGCCTATAAATTGTCGGTGCATTATTCTATCATGTGAAT
*
25387816 ACAATTTATGCATTAGGATTTCAGAAAATTCAAGTTGTGAGAAT
647 ACAATTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
* * * *
25387860 AGTGCAATTACACCCACGTATTTGAATTCTGCTTGTTTCTTTTGTTAATGAGATTATGCAAAATT
1 AATGCAATTACACCCACGTATTTGAATTCTGCTTGTATCTTTTGTGAATGAGAATATGCAAAATT
* *
25387925 TCAATAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGCTGAT
66 TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGTTGAT
*
25387990 GTGTAAATTGGATGGATGCGAATGGATAGTGGGTCTTCTATTTTTGAATGAATGATTGGAATTGC
131 GTGTAAATTGGATGGATGCGAATGGATAGTGAGTCTTCTATTTTTGAATGAATGATTGGAATTGC
25388055 TTCAGTAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTGACCAGTTGCAGCGACATT
196 TTCAGTAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTGACCAGTTGCAGCGACATT
* *
25388120 GTATGAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGTA
261 GTATAAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGCA
* * * *
25388185 GGTTTAGAAAAATCATCTAGCCAAAGGCTGTCACCGCAAGAGTGTGTGTCGGTGTAATTACATAC
326 GGTTTAGAAAAATCATCTAGCCAAAGGCTGTCACCACAAGAGTGTGCGTCAGTGCAATTACATAC
* *
25388250 CTCCTGGGGGTTTGTTGCACCCTATCGTTACTGCCCAGGAACAAGGGTAGAGTAATGCAATGACA
391 CTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAATGACA
25388315 TCTCTTAGTTACCTG--AAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAGAAATATTTTT
456 TCTCTTAGTTACCTGAAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAG-AAT-TTTTT
*
25388378 TTATTGCAATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATTGA
519 TTATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATTGA
* * *
25388443 TGAAGTTGCAATTTTAATTATTCATGCCTACAAATTGTCGGCGCATTATTTTATCATGTGAATAC
584 TGAAGTTGCAATTTTAATTATTCATGCCTATAAATTGTCGGTGCATTATTCTATCATGTGAATAC
25388508 AATTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
649 AATTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
25388550 AATG
1 AATG
25388554 ATTGCGATGA
Statistics
Matches: 3329, Mismatches: 103, Indels: 37
0.96 0.03 0.01
Matches are distributed among these distances:
686 35 0.01
687 116 0.03
688 504 0.15
689 990 0.30
690 1681 0.50
691 3 0.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (690 bp):
AATGCAATTACACCCACGTATTTGAATTCTGCTTGTATCTTTTGTGAATGAGAATATGCAAAATT
TCAACAGAAATGTGCCCACAATTTTTATTTTTATGCGTAAATCTTGATTTGCTTGGAATGTTGAT
GTGTAAATTGGATGGATGCGAATGGATAGTGAGTCTTCTATTTTTGAATGAATGATTGGAATTGC
TTCAGTAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTGACCAGTTGCAGCGACATT
GTATAAATAAAAGACACTCCAATGTGAGTGCATTGTGACTTTTCAAGGGAGAACACTCTGCTGCA
GGTTTAGAAAAATCATCTAGCCAAAGGCTGTCACCACAAGAGTGTGCGTCAGTGCAATTACATAC
CTCCTGGGGGTTTGTTGCACCCCATCGTTACTGCCCAGGAACAAAGGTAGAGTAATGCAATGACA
TCTCTTAGTTACCTGAAAAAAAATGATGAGAAAAAGAAAGAGAAAAGAAAAGAAGAATTTTTTTT
ATTGCTATAAATGCTAAATTGGTTCAAGGAAGATTAAGATTCATTTCATAATAATTACATTGATG
AAGTTGCAATTTTAATTATTCATGCCTATAAATTGTCGGTGCATTATTCTATCATGTGAATACAA
TTTATGCATTAGGATTTCAAAAAATTCAAGTTGTGAGAAT
Found at i:25411309 original size:12 final size:12
Alignment explanation
Indices: 25411292--25411316 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25411282 GATAGTATTG
25411292 GTGTTGAATCTT
1 GTGTTGAATCTT
25411304 GTGTTGAATCTT
1 GTGTTGAATCTT
25411316 G
1 G
25411317 AACTAACTGA
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:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (12 bp):
GTGTTGAATCTT
Found at i:25413852 original size:17 final size:18
Alignment explanation
Indices: 25413830--25413870 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
25413820 TTGTAATTAC
*
25413830 ATTGTCATC-ACATTTTA
1 ATTGTCACCTACATTTTA
25413847 ATTGTC-CCTACATTTTA
1 ATTGTCACCTACATTTTA
*
25413864 TTTGTCA
1 ATTGTCA
25413871 ATGCATTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.49
Consensus pattern (18 bp):
ATTGTCACCTACATTTTA
Found at i:25414485 original size:15 final size:13
Alignment explanation
Indices: 25414456--25414489 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
25414446 TCCCTTAGTC
25414456 GAAAAAAAAGAAA
1 GAAAAAAAAGAAA
25414469 GAAAGAAAAAGAGAA
1 GAAA-AAAAAGA-AA
25414484 GAAAAA
1 GAAAAA
25414490 GGGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 9 0.47
15 6 0.32
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAGAAA
Found at i:25436171 original size:13 final size:14
Alignment explanation
Indices: 25436153--25436182 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25436143 GTCAATGCAA
25436153 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
25436166 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
25436180 TCA
1 TCA
25436183 ATGTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:25441677 original size:21 final size:20
Alignment explanation
Indices: 25441635--25441678 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
25441625 CAATTCAGAA
*
25441635 ATAGTTGTAGATTTCTATCG
1 ATAGTTGTAGATTTCTACCG
25441655 ATAGTTG-AGATGGTTCTACCG
1 ATAGTTGTAGAT--TTCTACCG
25441676 ATA
1 ATA
25441679 CAAGAGTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 7 0.33
21 10 0.48
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (20 bp):
ATAGTTGTAGATTTCTACCG
Found at i:25442364 original size:42 final size:43
Alignment explanation
Indices: 25442317--25442594 Score: 355
Period size: 43 Copynumber: 6.5 Consensus size: 43
25442307 CATATAACAA
** *
25442317 CCGAGTCATAAGTCTTCC-TTTAAACATAATATCATGCTCATC
1 CCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCTCATC
*
25442359 CCGAGTCACGAGTCTTCC-TTTAAACATAATCTCATTCTCATC
1 CCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCTCATC
* * *
25442401 CCGAGTCATGAGTCTTCC-TTTAAACATAATCTCATGCTCTTT
1 CCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCTCATC
* * * *
25442443 TCGAGTCACGAGTCTTCCTTTTAAAAATAATCTCATGCTCTTT
1 CCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCTCATC
* * * *
25442486 CCGAGTCACGAGTTTTCCTTTTAAACATAATCTCATTCTCTTT
1 CCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCTCATC
*
25442529 TCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCTCATC
1 CCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCTCATC
* * * *
25442572 CTGAGACATGAGTCTTCCATTTA
1 CCGAGTCACGAGTCTTCCTTTTA
25442595 TATATCAAGT
Statistics
Matches: 210, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
42 92 0.44
43 118 0.56
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (43 bp):
CCGAGTCACGAGTCTTCCTTTTAAACATAATCTCATGCTCATC
Found at i:25442536 original size:86 final size:85
Alignment explanation
Indices: 25442317--25442594 Score: 405
Period size: 86 Copynumber: 3.3 Consensus size: 85
25442307 CATATAACAA
* * * **
25442317 CCGAGTCATAAGTCTTCCTTTAAACATAATATCATGCTCATCCCGAGTCACGAGTCTTCC-TTTA
1 CCGAGTCATGAGTCTTCCTTTAAACATAATCTCATGCTCTTTTCGAGTCACGAGTCTTCCTTTTA
*
25442381 AACATAATCTCATTCTCATC
66 AACATAATCTCATGCTCATC
25442401 CCGAGTCATGAGTCTTCCTTTAAACATAATCTCATGCTCTTTTCGAGTCACGAGTCTTCCTTTTA
1 CCGAGTCATGAGTCTTCCTTTAAACATAATCTCATGCTCTTTTCGAGTCACGAGTCTTCCTTTTA
* * *
25442466 AAAATAATCTCATGCTCTTT
66 AACATAATCTCATGCTCATC
* * *
25442486 CCGAGTCACGAGTTTTCCTTTTAAACATAATCTCATTCTCTTTTCGAGTCACGAGTCTTCCTTTT
1 CCGAGTCATGAGTCTTCC-TTTAAACATAATCTCATGCTCTTTTCGAGTCACGAGTCTTCCTTTT
25442551 AAACATAATCTCATGCTCATC
65 AAACATAATCTCATGCTCATC
* *
25442572 CTGAGACATGAGTCTTCCATTTA
1 CCGAGTCATGAGTCTTCC-TTTA
25442595 TATATCAAGT
Statistics
Matches: 172, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
84 55 0.32
85 36 0.21
86 81 0.47
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (85 bp):
CCGAGTCATGAGTCTTCCTTTAAACATAATCTCATGCTCTTTTCGAGTCACGAGTCTTCCTTTTA
AACATAATCTCATGCTCATC
Found at i:25452644 original size:23 final size:22
Alignment explanation
Indices: 25452599--25452644 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
25452589 ATAATATAAT
*
25452599 ATAAAGGAAATAAAAAGTGTTA
1 ATAAAGGAAATAAAAAGTCTTA
* *
25452621 ATAATGGAGAATAAAATGTCTTA
1 ATAAAGGA-AATAAAAAGTCTTA
25452644 A
1 A
25452645 AATATTCAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.54, C:0.02, G:0.17, T:0.26
Consensus pattern (22 bp):
ATAAAGGAAATAAAAAGTCTTA
Found at i:25453361 original size:23 final size:23
Alignment explanation
Indices: 25453331--25453430 Score: 139
Period size: 23 Copynumber: 4.4 Consensus size: 23
25453321 ACATGATAGG
*
25453331 AATGAATGGTCTTTGTGGCAACC
1 AATGAATGGCCTTTGTGGCAACC
*
25453354 AATGAATGGCATTTGTGGCAA-C
1 AATGAATGGCCTTTGTGGCAACC
25453376 AATGAATGGCCTTTGTGGCAACC
1 AATGAATGGCCTTTGTGGCAACC
* * *
25453399 AGTGATTGGCCTTTGTGGCAAAC
1 AATGAATGGCCTTTGTGGCAACC
*
25453422 AAAGAATGG
1 AATGAATGG
25453431 TCTTCATGGT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
22 21 0.31
23 46 0.69
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (23 bp):
AATGAATGGCCTTTGTGGCAACC
Found at i:25453395 original size:45 final size:46
Alignment explanation
Indices: 25453331--25453430 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 46
25453321 ACATGATAGG
*
25453331 AATGAATGGTCTTTGTGGCAACCAATGAATGGCATTTGTGGC-AAC
1 AATGAATGGCCTTTGTGGCAACCAATGAATGGCATTTGTGGCAAAC
* * *
25453376 AATGAATGGCCTTTGTGGCAACCAGTGATTGGCCTTTGTGGCAAAC
1 AATGAATGGCCTTTGTGGCAACCAATGAATGGCATTTGTGGCAAAC
*
25453422 AAAGAATGG
1 AATGAATGG
25453431 TCTTCATGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 38 0.78
46 11 0.22
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (46 bp):
AATGAATGGCCTTTGTGGCAACCAATGAATGGCATTTGTGGCAAAC
Found at i:25458688 original size:19 final size:19
Alignment explanation
Indices: 25458664--25458728 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
25458654 TGAAACAGAG
25458664 CAGTGACCCTCCAACGAAC
1 CAGTGACCCTCCAACGAAC
*** * * *
25458683 CAGTGATGTTCATAACTAGAG
1 CAGTGACCCTC-CAACGA-AC
25458704 CAGTGACCCTCCAACGAAC
1 CAGTGACCCTCCAACGAAC
25458723 CAGTGA
1 CAGTGA
25458729 TGTTCATAAC
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 15 0.47
20 8 0.25
21 9 0.28
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.17
Consensus pattern (19 bp):
CAGTGACCCTCCAACGAAC
Found at i:25458715 original size:40 final size:40
Alignment explanation
Indices: 25458660--25458749 Score: 164
Period size: 40 Copynumber: 2.2 Consensus size: 40
25458650 CTTGTGAAAC
25458660 AGAGCAGTGACCCTCCAACGAACCAGTGATGTTCATAACT
1 AGAGCAGTGACCCTCCAACGAACCAGTGATGTTCATAACT
25458700 AGAGCAGTGACCCTCCAACGAACCAGTGATGTTCATAACT
1 AGAGCAGTGACCCTCCAACGAACCAGTGATGTTCATAACT
25458740 A-AGGCAGTGA
1 AGA-GCAGTGA
25458750 AGGAATGCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 1 0.02
40 48 0.98
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (40 bp):
AGAGCAGTGACCCTCCAACGAACCAGTGATGTTCATAACT
Found at i:25463936 original size:11 final size:11
Alignment explanation
Indices: 25463920--25463958 Score: 78
Period size: 11 Copynumber: 3.5 Consensus size: 11
25463910 CGAATTAATC
25463920 AAATTGAAATG
1 AAATTGAAATG
25463931 AAATTGAAATG
1 AAATTGAAATG
25463942 AAATTGAAATG
1 AAATTGAAATG
25463953 AAATTG
1 AAATTG
25463959 GAAGTGAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (11 bp):
AAATTGAAATG
Found at i:25464656 original size:81 final size:80
Alignment explanation
Indices: 25464544--25464725 Score: 247
Period size: 81 Copynumber: 2.2 Consensus size: 80
25464534 TTTGCATACA
*
25464544 TTGTAGATTCTCATCAACTTGTGTCAGCAGCATCGTGAGCGGGTGATATAGACTGTAGCGATGGC
1 TTGT-GATTCTCATCAGCTTGTGTCAGCAGCATCGTGAGCGGGTGATATAGACTGTAGCGATGGC
25464609 TGAGGTCTCGAATATG
65 TGAGGTCTCGAATATG
* * * *
25464625 TTGTGGATTCTCATCAGCTTGTGTGAGCAGCATCGTGAGTGGGTGATATAGACTGTAGCGGTGGT
1 TTGT-GATTCTCATCAGCTTGTGTCAGCAGCATCGTGAGCGGGTGATATAGACTGTAGCGATGGC
* * *
25464690 TGATGTCTTGCATATG
65 TGAGGTCTCGAATATG
* *
25464706 TTGCTTATTTTCATCAGCTT
1 TTG-TGATTCTCATCAGCTT
25464726 ATGCAAGCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 88 0.99
82 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35
Consensus pattern (80 bp):
TTGTGATTCTCATCAGCTTGTGTCAGCAGCATCGTGAGCGGGTGATATAGACTGTAGCGATGGCT
GAGGTCTCGAATATG
Found at i:25475765 original size:32 final size:32
Alignment explanation
Indices: 25475724--25475785 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
25475714 CATTTGGAGC
* *
25475724 ATTTGAAACATCGTCGGTTTCAATTCAAAAGA
1 ATTTGAAACATCGCCGATTTCAATTCAAAAGA
25475756 ATTTGAAACATCGCCGATTTCAATTCAAAA
1 ATTTGAAACATCGCCGATTTCAATTCAAAA
25475786 TTTACATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.31
Consensus pattern (32 bp):
ATTTGAAACATCGCCGATTTCAATTCAAAAGA
Found at i:25478376 original size:28 final size:27
Alignment explanation
Indices: 25478359--25478546 Score: 92
Period size: 28 Copynumber: 6.8 Consensus size: 27
25478349 GAGTAATGCT
* *
25478359 TCTTTCGAGCTAGAAACAAAACAACGC
1 TCTTTCGAGCCAGAAACAGAACAACGC
* *
25478386 TCTTTCGAGCCAGAAACAGAATATCGC
1 TCTTTCGAGCCAGAAACAGAACAACGC
* ** * * *
25478413 TCTTTTTGAGCCAGAATTAGAATATCGT
1 TC-TTTCGAGCCAGAAACAGAACAACGC
* * * * *
25478441 TCTTTTCGAGCCTGAATATA-AATATCAC
1 TC-TTTCGAGCCAGAA-ACAGAACAACGC
** * *
25478469 TCTTTTCGAGCCAGAATTAGAATAGCGC
1 TC-TTTCGAGCCAGAAACAGAACAACGC
* * **
25478497 TCTTTCCGAGCCAGAATCAGAATATTGC
1 TCTTT-CGAGCCAGAAACAGAACAACGC
25478525 TCTTTTCGAGCCA-AAATCAGAA
1 TC-TTTCGAGCCAGAAA-CAGAA
25478547 TATCTCTCTT
Statistics
Matches: 134, Mismatches: 21, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
27 32 0.24
28 97 0.72
29 5 0.04
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (27 bp):
TCTTTCGAGCCAGAAACAGAACAACGC
Found at i:25478389 original size:27 final size:27
Alignment explanation
Indices: 25478359--25478428 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
25478349 GAGTAATGCT
*
25478359 TCTTTCGAGCTAGAAACAAAACAACGC
1 TCTTTCGAGCCAGAAACAAAACAACGC
* * *
25478386 TCTTTCGAGCCAGAAACAGAATATCGC
1 TCTTTCGAGCCAGAAACAAAACAACGC
*
25478413 TCTTTTTGAGCCAGAA
1 TC-TTTCGAGCCAGAA
25478429 TTAGAATATC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 25 0.68
28 12 0.32
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (27 bp):
TCTTTCGAGCCAGAAACAAAACAACGC
Found at i:25478547 original size:28 final size:28
Alignment explanation
Indices: 25478383--25478571 Score: 179
Period size: 28 Copynumber: 6.8 Consensus size: 28
25478373 AACAAAACAA
25478383 CGCTC-TTTCGAGCCAGAAA-CAGAATAT
1 CGCTCTTTTCGAGCCA-AAATCAGAATAT
* * *
25478410 CGCTCTTTTTGAGCCAGAATTAGAATAT
1 CGCTCTTTTCGAGCCAAAATCAGAATAT
* *
25478438 CGTTCTTTTCGAGCCTGAATAT-A-AATAT
1 CGCTCTTTTCGAGCC--AAAATCAGAATAT
* * * *
25478466 CACTCTTTTCGAGCCAGAATTAGAATAG
1 CGCTCTTTTCGAGCCAAAATCAGAATAT
* *
25478494 CGCTCTTTCCGAGCCAGAATCAGAATAT
1 CGCTCTTTTCGAGCCAAAATCAGAATAT
*
25478522 TGCTCTTTTCGAGCCAAAATCAGAATAT
1 CGCTCTTTTCGAGCCAAAATCAGAATAT
* * * *
25478550 CTCTCTTTCCGAACCATAATCA
1 CGCTCTTTTCGAGCCAAAATCA
25478572 AAGTAGTTAT
Statistics
Matches: 132, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.02
27 8 0.06
28 117 0.89
29 1 0.01
30 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (28 bp):
CGCTCTTTTCGAGCCAAAATCAGAATAT
Found at i:25478549 original size:84 final size:83
Alignment explanation
Indices: 25478388--25478557 Score: 216
Period size: 84 Copynumber: 2.0 Consensus size: 83
25478378 AACAACGCTC
* ** * *
25478388 TTTCGAGCCAGAAACAGAATATCGCTCTTTTTGAGCCAGAATTAGAATATCGTTCTTTTCGAGCC
1 TTTCGAGCCAGAAACAGAATAGCGCTCTTTCCGAGCCAGAATCAGAATATCGCTCTTTTCGAGCC
*
25478453 TGAATATAAATATCACTCT
66 -GAAAATAAATATCACTCT
** *
25478472 TTTCGAGCCAGAATTAGAATAGCGCTCTTTCCGAGCCAGAATCAGAATATTGCTCTTTTCGAGCC
1 TTTCGAGCCAGAAACAGAATAGCGCTCTTTCCGAGCCAGAATCAGAATATCGCTCTTTTCGAGCC
*
25478537 -AAAATCAGAATATCTCTCT
66 GAAAAT-A-AATATCACTCT
25478556 TT
1 TT
25478558 CCGAACCATA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 4 0.05
83 1 0.01
84 69 0.93
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (83 bp):
TTTCGAGCCAGAAACAGAATAGCGCTCTTTCCGAGCCAGAATCAGAATATCGCTCTTTTCGAGCC
GAAAATAAATATCACTCT
Found at i:25478558 original size:56 final size:56
Alignment explanation
Indices: 25478385--25478571 Score: 218
Period size: 56 Copynumber: 3.4 Consensus size: 56
25478375 CAAAACAACG
* *
25478385 CTCTTT-CGAGCCAGAAACAGAATATCGCTCTTTTTGAGCCAGAATTAGAATATCGT
1 CTCTTTCCGAGCCAGAATCAGAATATCGCTCTTTTCGAGCCAGAATTAGAATATC-T
* * * * * *
25478441 -TCTTTTCGAGCCTGAAT-ATAAATATCACTCTTTTCGAGCCAGAATTAGAATAGCG
1 CTCTTTCCGAGCCAGAATCA-GAATATCGCTCTTTTCGAGCCAGAATTAGAATATCT
* * *
25478496 CTCTTTCCGAGCCAGAATCAGAATATTGCTCTTTTCGAGCCAAAATCAGAATATCT
1 CTCTTTCCGAGCCAGAATCAGAATATCGCTCTTTTCGAGCCAGAATTAGAATATCT
* *
25478552 CTCTTTCCGAACCATAATCA
1 CTCTTTCCGAGCCAGAATCA
25478572 AAGTAGTTAT
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
55 6 0.06
56 102 0.94
57 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (56 bp):
CTCTTTCCGAGCCAGAATCAGAATATCGCTCTTTTCGAGCCAGAATTAGAATATCT
Found at i:25482152 original size:18 final size:18
Alignment explanation
Indices: 25482129--25482163 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25482119 AATCGAGTTG
*
25482129 ACTCGAATAATTCGATTA
1 ACTCGAATAACTCGATTA
25482147 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
25482164 TGCTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:25482647 original size:6 final size:6
Alignment explanation
Indices: 25482636--25482662 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
25482626 TAACCCTATT
25482636 ATTGTC ATTGTC ATTGTC ATTGTC ATT
1 ATTGTC ATTGTC ATTGTC ATTGTC ATT
25482663 ATTATTATTA
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:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
ATTGTC
Found at i:25489857 original size:18 final size:18
Alignment explanation
Indices: 25489834--25489885 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
25489824 GCGCAGCCTG
25489834 ACCAGATGCAATCACAGA
1 ACCAGATGCAATCACAGA
* * *
25489852 ACCAGATGCAGTCATATA
1 ACCAGATGCAATCACAGA
* *
25489870 ATCAGATGCAACCACA
1 ACCAGATGCAATCACA
25489886 TGTTTGAATG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (18 bp):
ACCAGATGCAATCACAGA
Found at i:25496005 original size:4 final size:5
Alignment explanation
Indices: 25495999--25496058 Score: 59
Period size: 5 Copynumber: 11.2 Consensus size: 5
25495989 AAAGCAGAAG
*
25495999 AAAGA AAAGA AAAGA AAAGA AGAAGAA AAAGA AAAG- AAGGAA AAAGA
1 AAAGA AAAGA AAAGA AAAGA A-AAG-A AAAGA AAAGA AAAG-A AAAGA
25496046 AGAAGA AGAAGA A
1 A-AAGA A-AAGA A
25496059 GTTGTCTCGA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
4 3 0.06
5 23 0.48
6 20 0.42
7 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:25496020 original size:22 final size:22
Alignment explanation
Indices: 25495994--25496058 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
25495984 GTATTAAAGC
25495994 AGAAGAAAGAAAAGAAAAGAAA
1 AGAAGAAAGAAAAGAAAAGAAA
25496016 AGAAG-AAGAAAAAGAAAAG-AA
1 AGAAGAAAG-AAAAGAAAAGAAA
*
25496037 GGAA-AAAGAAGAAGAAGAAGAA
1 AGAAGAAAGAA-AAGAA-AAGAA
25496059 GTTGTCTCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 2 0.05
21 16 0.43
22 18 0.49
23 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AGAAGAAAGAAAAGAAAAGAAA
Found at i:25496023 original size:3 final size:3
Alignment explanation
Indices: 25495994--25496059 Score: 68
Period size: 3 Copynumber: 22.7 Consensus size: 3
25495984 GTATTAAAGC
*
25495994 AGA AGAA AGA A-A AGA A-A AGA A-A AGA AGA AGA AAA AGA A-A AGA
1 AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
25496036 AGGA AAA AGA AGA AGA AGA AGA AG
1 A-GA AGA AGA AGA AGA AGA AGA AG
25496060 TTGTCTCGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 8 0.15
3 39 0.74
4 6 0.11
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:25496043 original size:27 final size:27
Alignment explanation
Indices: 25495994--25496058 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
25495984 GTATTAAAGC
25495994 AGAAGAAAGAAAAGAAAAGAAAAGAAGA
1 AGAA-AAAGAAAAGAAAAGAAAAGAAGA
*
25496022 AGAAAAAGAAAAG-AAGGAAAAAGAAGA
1 AGAAAAAGAAAAGAAAAG-AAAAGAAGA
*
25496049 AGAAGAAGAA
1 AGAAAAAGAA
25496059 GTTGTCTCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.09
27 27 0.79
28 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (27 bp):
AGAAAAAGAAAAGAAAAGAAAAGAAGA
Found at i:25518035 original size:19 final size:19
Alignment explanation
Indices: 25518011--25518049 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
25518001 AAGATGTAGA
25518011 GCATTTCTTCTTCAGGGAC
1 GCATTTCTTCTTCAGGGAC
25518030 GCATTTCTTCTTCAGGGAC
1 GCATTTCTTCTTCAGGGAC
25518049 G
1 G
25518050 TAGCGACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (19 bp):
GCATTTCTTCTTCAGGGAC
Found at i:25529821 original size:10 final size:10
Alignment explanation
Indices: 25529806--25529867 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
25529796 AATATATATA
25529806 TTCTTTCTTT
1 TTCTTTCTTT
25529816 TTCTTTCTTT
1 TTCTTTCTTT
* ***
25529826 TTGTCAATTT
1 TTCTTTCTTT
25529836 TT-TTTCCTTT
1 TTCTTT-CTTT
25529846 TT-TTTCTTT
1 TTCTTTCTTT
25529855 TTC--TCTTT
1 TTCTTTCTTT
25529863 TTCTT
1 TTCTT
25529868 ATGCAACTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
8 8 0.20
9 7 0.17
10 26 0.63
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:25530481 original size:17 final size:17
Alignment explanation
Indices: 25530438--25530487 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
25530428 CAAATGCTAA
25530438 ACAAATAAAATACAATG
1 ACAAATAAAATACAATG
*
25530455 ACAACA-AAAATGCAATG
1 ACAA-ATAAAATACAATG
*
25530472 ACAATTAAAATA-AATG
1 ACAAATAAAATACAATG
25530488 CATGCAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.14
17 23 0.82
18 1 0.04
ACGTcount: A:0.62, C:0.12, G:0.08, T:0.18
Consensus pattern (17 bp):
ACAAATAAAATACAATG
Found at i:25562963 original size:18 final size:19
Alignment explanation
Indices: 25562940--25563011 Score: 61
Period size: 18 Copynumber: 4.2 Consensus size: 19
25562930 TTAAAGTTAA
25562940 TGAGCTCGCT-ACTTCT-TG
1 TGAGCTCGCTCACTT-TATG
25562958 TGAGCTCG-TCACTTTATG
1 TGAGCTCGCTCACTTTATG
25562976 TGAGCTCGC-CA--TT-TG
1 TGAGCTCGCTCACTTTATG
* *
25562991 TGAGCTCAC-CAATTTATG
1 TGAGCTCGCTCACTTTATG
25563009 TGA
1 TGA
25563012 CCTCACCACT
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
15 12 0.26
16 2 0.04
17 4 0.09
18 29 0.62
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (19 bp):
TGAGCTCGCTCACTTTATG
Found at i:25567345 original size:264 final size:264
Alignment explanation
Indices: 25566875--25567401 Score: 1018
Period size: 264 Copynumber: 2.0 Consensus size: 264
25566865 ACTGTGGTAC
*
25566875 TTGATCTGAGCAACTATTACGTTGTCCCTTAATGGAGTTGGCTTGACATCAGTATTCACAACCTC
1 TTGATCTGAGAAACTATTACGTTGTCCCTTAATGGAGTTGGCTTGACATCAGTATTCACAACCTC
*
25566940 CCACAAGTCAAAAGCTTGCAGGTAGATTTTTATCTTGACAACCTAGATATAGTAGTTTTCACCAT
66 CCACAAGTCAAAAGCTTGCAGGTAGATTTTCATCTTGACAACCTAGATATAGTAGTTTTCACCAT
*
25567005 TGAACGGAATGGTAAAGGTGGTGAGAAACTTGTGGAAGCCATTACACCTCAAAAGGAATAACCAC
131 TGAACAGAATGGTAAAGGTGGTGAGAAACTTGTGGAAGCCATTACACCTCAAAAGGAATAACCAC
25567070 TGCCCTTAAGAACCTGGCTCTAATACCATTGTTGGAATTTTTACACTCGAACACTCAAAAAAAAT
196 TGCCCTTAAGAACCTGGCTCTAATACCATTGTTGGAATTTTTACACTCGAACACTCAAAAAAAAT
25567135 TACG
261 TACG
25567139 TTGATCTGAGAAACTATTACGTTGTCCCTTAATGGAGTTGGCTTGACATCAGTATTCACAACCTC
1 TTGATCTGAGAAACTATTACGTTGTCCCTTAATGGAGTTGGCTTGACATCAGTATTCACAACCTC
25567204 CCACAAGTCAAAAGCTTGCAGGTAGATTTTCATCTTGACAACCTAGATATAGTAGTTTTCACCAT
66 CCACAAGTCAAAAGCTTGCAGGTAGATTTTCATCTTGACAACCTAGATATAGTAGTTTTCACCAT
25567269 TGAACAGAATGGTAAAGGTGGTGAGAAACTTGTGGAAGCCATTACACCTCAAAAGGAATAACCAC
131 TGAACAGAATGGTAAAGGTGGTGAGAAACTTGTGGAAGCCATTACACCTCAAAAGGAATAACCAC
*
25567334 TGCCCTTAAGAACCTGGCTCTAATACCATTGTTGGAATTTTTACCCTCGAACACTCAAAAAAAAT
196 TGCCCTTAAGAACCTGGCTCTAATACCATTGTTGGAATTTTTACACTCGAACACTCAAAAAAAAT
25567399 TAC
261 TAC
25567402 AGAGAAGAAA
Statistics
Matches: 259, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
264 259 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (264 bp):
TTGATCTGAGAAACTATTACGTTGTCCCTTAATGGAGTTGGCTTGACATCAGTATTCACAACCTC
CCACAAGTCAAAAGCTTGCAGGTAGATTTTCATCTTGACAACCTAGATATAGTAGTTTTCACCAT
TGAACAGAATGGTAAAGGTGGTGAGAAACTTGTGGAAGCCATTACACCTCAAAAGGAATAACCAC
TGCCCTTAAGAACCTGGCTCTAATACCATTGTTGGAATTTTTACACTCGAACACTCAAAAAAAAT
TACG
Found at i:25569921 original size:40 final size:40
Alignment explanation
Indices: 25569874--25570001 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 40
25569864 CAGACAGTGT
25569874 TGCCAATAATGTGGTCAAGCCACCAGTAATGCTGATAAAC
1 TGCCAATAATGTGGTCAAGCCACCAGTAATGCTGATAAAC
** * *** *
25569914 TGCCAATAATGAAGACAAGTTGCCAGTATTG-TAGATAAAC
1 TGCCAATAATGTGGTCAAGCCACCAGTAATGCT-GATAAAC
* * * * *
25569954 TACCAGTAATGTGGTCAAGCCACCAATAGTGCAGATAAAC
1 TGCCAATAATGTGGTCAAGCCACCAGTAATGCTGATAAAC
*
25569994 TGTCAATA
1 TGCCAATA
25570002 GTCCAAACAA
Statistics
Matches: 65, Mismatches: 21, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
39 1 0.02
40 64 0.98
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (40 bp):
TGCCAATAATGTGGTCAAGCCACCAGTAATGCTGATAAAC
Found at i:25576322 original size:25 final size:25
Alignment explanation
Indices: 25576288--25576387 Score: 200
Period size: 25 Copynumber: 4.0 Consensus size: 25
25576278 TGATAGAGCA
25576288 AACAAAGTGTTGCTGACCTATTCAG
1 AACAAAGTGTTGCTGACCTATTCAG
25576313 AACAAAGTGTTGCTGACCTATTCAG
1 AACAAAGTGTTGCTGACCTATTCAG
25576338 AACAAAGTGTTGCTGACCTATTCAG
1 AACAAAGTGTTGCTGACCTATTCAG
25576363 AACAAAGTGTTGCTGACCTATTCAG
1 AACAAAGTGTTGCTGACCTATTCAG
25576388 CAATTCTAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 75 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (25 bp):
AACAAAGTGTTGCTGACCTATTCAG
Found at i:25578163 original size:36 final size:36
Alignment explanation
Indices: 25578123--25578196 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
25578113 ATAGTGGTTG
25578123 TCACATTTCCATATGTTGCAGCGTGATCCTTCCCTT
1 TCACATTTCCATATGTTGCAGCGTGATCCTTCCCTT
25578159 TCACATTTCCATATGTTGCAGCGTGATCCTTCCCTT
1 TCACATTTCCATATGTTGCAGCGTGATCCTTCCCTT
25578195 TC
1 TC
25578197 TTTCGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.16, C:0.31, G:0.14, T:0.39
Consensus pattern (36 bp):
TCACATTTCCATATGTTGCAGCGTGATCCTTCCCTT
Found at i:25579612 original size:20 final size:19
Alignment explanation
Indices: 25579564--25579614 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
25579554 TTTAAAAATT
25579564 TAATTT-ATTTGTTTAAGAA
1 TAATTTAATTT-TTTAAGAA
*
25579583 TAATTTAATTTTTTAATAA
1 TAATTTAATTTTTTAAGAA
25579602 TAATTTAAATTTT
1 TAATTT-AATTTT
25579615 AGTTTTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TAATTTAATTTTTTAAGAA
Found at i:25581307 original size:36 final size:33
Alignment explanation
Indices: 25581267--25581340 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 33
25581257 ATATATACCA
25581267 ATATATACGTTTATTTATTTTTTATATACTGCATAC
1 ATATATACGTTTA-TT-TTTTTTATATAC-GCATAC
** * *
25581303 ATATATTTGTTTATTTTTTTTCTATACGCATAT
1 ATATATACGTTTATTTTTTTTATATACGCATAC
25581336 ATATA
1 ATATA
25581341 CATATGGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 10 0.29
34 11 0.32
35 2 0.06
36 11 0.32
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.55
Consensus pattern (33 bp):
ATATATACGTTTATTTTTTTTATATACGCATAC
Found at i:25582079 original size:30 final size:30
Alignment explanation
Indices: 25582045--25582375 Score: 243
Period size: 30 Copynumber: 11.2 Consensus size: 30
25582035 TTTTCTTTGG
* *
25582045 AAATTATATTTTGACTCTCT-AACTTTTTTA
1 AAATTACATTTTGAC-CTCTAAACTTTTCTA
* *
25582075 AAATTACATTTTGACC-CCAAACATTTCTA
1 AAATTACATTTTGACCTCTAAACTTTTCTA
** *
25582104 AAATTTTATTTTAACC-CTTAAACTTTTCTA
1 AAATTACATTTTGACCTC-TAAACTTTTCTA
* *
25582134 AAATTACATTTTGACCCCTAAACTTTTTTA
1 AAATTACATTTTGACCTCTAAACTTTTCTA
* *
25582164 AAATTGCATTTTAACC-CTTAAACTTTTCTA
1 AAATTACATTTTGACCTC-TAAACTTTTCTA
* * * *
25582194 AAATTTCATTTTGACCCCTAAGCTTCTCTA
1 AAATTACATTTTGACCTCTAAACTTTTCTA
* * *
25582224 AAATCACATTTTAACC-CTTAAACTCTTCTA
1 AAATTACATTTTGACCTC-TAAACTTTTCTA
* * * *
25582254 ACATTACATTATGACCCCTAAAC-TTTCTTT
1 AAATTACATTTTGACCTCTAAACTTTTC-TA
* * *
25582284 AAATCACATTTT-ACC-CTAAACTTATCCA
1 AAATTACATTTTGACCTCTAAACTTTTCTA
* * * *
25582312 GAATCACATTTTAACC-C-AAAC-TTTCCA
1 AAATTACATTTTGACCTCTAAACTTTTCTA
* *
25582339 AAATTACATTTTTACCCCTAAACTTTTTCTA
1 AAATTACATTTTGACCTCTAAAC-TTTTCTA
*
25582370 GAATTA
1 AAATTA
25582376 TGTTTTAACC
Statistics
Matches: 242, Mismatches: 45, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
27 18 0.07
28 23 0.10
29 42 0.17
30 146 0.60
31 13 0.05
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTACATTTTGACCTCTAAACTTTTCTA
Found at i:25582189 original size:60 final size:60
Alignment explanation
Indices: 25582065--25582375 Score: 339
Period size: 60 Copynumber: 5.3 Consensus size: 60
25582055 TTGACTCTCT
* * **
25582065 AACTTTTTTAAAATTACATTTTGACCCC-AAACATTTCTAAAATTTTATTTTAACCCTTA
1 AACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCTTA
* *
25582124 AACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTTTAAAATTGCATTTTAACCCTTA
1 AACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCTTA
* * * *
25582184 AACTTTTCTAAAATTTCATTTTGACCCCTAAGCTTCTCTAAAATCACATTTTAACCCTTA
1 AACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCTTA
* * * * *
25582244 AACTCTTCTAACATTACATTATGACCCCTAAAC-TTTCTTTAAATCACATTTT-ACCC-TA
1 AACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTC-TAAAATTACATTTTAACCCTTA
* * * * * * * *
25582302 AACTTATCCAGAATCACATTTT-AACCC-AAAC-TTTCCAAAATTACATTTTTACCCCTA
1 AACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCTTA
*
25582359 AACTTTTTCTAGAATTA
1 AAC-TTTTCTAAAATTA
25582376 TGTTTTAACC
Statistics
Matches: 215, Mismatches: 32, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
55 11 0.05
56 12 0.06
57 9 0.04
58 27 0.13
59 34 0.16
60 122 0.57
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (60 bp):
AACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCTTA
Found at i:25582233 original size:90 final size:89
Alignment explanation
Indices: 25582052--25582374 Score: 309
Period size: 90 Copynumber: 3.7 Consensus size: 89
25582042 TGGAAATTAT
* * * *
25582052 ATTTTGACTCTCT-AACTTTTTTAAAATTACATTTTGACCCC-AAACATTTCTAAAATTTTATTT
1 ATTTTGAC-CCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTTCATTT
* * *
25582115 TAACCCTTAAACTTTTCTAAAATTAC
65 T-ACCCCTAAACTTATCTAAAATCAC
* * * *
25582141 ATTTTGACCCCTAAACTTTTTTAAAATTGCATTTTAACCCTTAAACTTTTCTAAAATTTCATTTT
1 ATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTTCATTTT
* *
25582206 GACCCCTAAGCTTCTCTAAAATCAC
66 -ACCCCTAAACTTATCTAAAATCAC
* * * * * * **
25582231 ATTTTAACCCTTAAACTCTTCTAACATTACATTATGACCCCTAAAC-TTTCTTTAAATCACATTT
1 ATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTC-TAAAATTTCATTT
* *
25582295 TA-CCCTAAACTTATCCAGAATCAC
65 TACCCCTAAACTTATCTAAAATCAC
* * * *
25582319 ATTTT-AACCC-AAAC-TTTCCAAAATTACATTTTTACCCCTAAACTTTTTCTAGAATT
1 ATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAAC-TTTTCTAAAATT
25582375 ATGTTTTAAC
Statistics
Matches: 192, Mismatches: 37, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
85 24 0.12
86 8 0.04
87 7 0.04
88 26 0.14
89 38 0.20
90 89 0.46
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (89 bp):
ATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTTCATTTT
ACCCCTAAACTTATCTAAAATCAC
Found at i:25588062 original size:17 final size:17
Alignment explanation
Indices: 25588042--25588079 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
25588032 TAAAAAACAT
25588042 AAAAGAAAA-AGAAAAAG
1 AAAAGAAAAGA-AAAAAG
*
25588059 AAAAGAGAAGAAAAAAG
1 AAAAGAAAAGAAAAAAG
25588076 AAAA
1 AAAA
25588080 AGGAGAGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAAAAAG
Found at i:25588568 original size:112 final size:109
Alignment explanation
Indices: 25588370--25588680 Score: 337
Period size: 112 Copynumber: 2.8 Consensus size: 109
25588360 TTATGTGGGT
* * * * * *
25588370 TATTTTTAATCTTTTCATTCGTACGAGTTTTACCTCCAATAAACTTTAATTTTATCCGCCTTGCA
1 TATTTTTAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAA-TTCAATTTTATCCACCTTAC-
**
25588435 AACCTGTTCAAGCATTTTTGCATTGAAATAATGGTCAGTGGACCAA
64 AACCTGTTCAAGCATTTTTGCATTGAAATAACAGTCAGTGGACCAA
* *
25588481 TGATTTTTAATCTTTTCATTCATTCGACCTTTGCCTCCAATACAATTCAATTTTATCCACCTTAC
1 T-ATTTTTAATCTTTTCATTCATACGAGCTTTGCCTCCAATA-AATTCAATTTTATCCACCTTAC
* ** * *
25588546 AACCTTATTCAAGCACGTTTGCATTGAAATAACAGTTAGTGGACTAA
64 AACC-TGTTCAAGCATTTTTGCATTGAAATAACAGTCAGTGGACCAA
* ** *
25588593 TA-----ATTCTTTTCATTCACGCAAGCTTTGCCTCCAATAAAATTCAATTTTAT-CACCTTACA
1 TATTTTTAATCTTTTCATTCATACGAGCTTTGCCTCCAAT-AAATTCAATTTTATCCACCTTACA
*
25588652 ACCCTGTTCAAGCATTTTTACATTGAAAT
65 A-CCTGTTCAAGCATTTTTGCATTGAAAT
25588681 GATAGTTAGT
Statistics
Matches: 171, Mismatches: 24, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
105 31 0.18
106 43 0.25
107 1 0.01
111 6 0.04
112 88 0.51
113 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (109 bp):
TATTTTTAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAATTCAATTTTATCCACCTTACAA
CCTGTTCAAGCATTTTTGCATTGAAATAACAGTCAGTGGACCAA
Found at i:25589574 original size:78 final size:78
Alignment explanation
Indices: 25589454--25591187 Score: 559
Period size: 78 Copynumber: 22.3 Consensus size: 78
25589444 GAAGATTCTG
* * * * * * * *
25589454 ATCTCTTACCTCGATCATGGGGCAGATCATAGCCATCTGATCTTTTACCCCGAGCTTAAGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
*
25589519 TCACCATTAGCCA
66 TCACCATCAGCCA
* * * ** * * *
25589532 ATCTCTTACCCCAAGCCAGGGGTAGATTGTAGCCATCCGATCTTTTACCCCTAGCCT-AGTGTAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAG-GCAG
*
25589596 ATCACCATCAACCA
65 ATCACCATCAGCCA
* * * * *
25589610 AGCTCTTACCCCAAGCCTAGGGCAGATTACAGCCATCAGATATTTTACCCCGAGCTTGAGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
*
25589675 TTACCATCAGCCA
66 TCACCATCAGCCA
* * * * * * *
25589688 ATCTTTTACCTCGAG-CTTGGGCAGGTTACAGCCATCAGATCTGTTACCCCGAGCTTGAGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
25589752 TCACCATCAGCCA
66 TCACCATCAGCCA
* * * *
25589765 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
*
25589830 TCACCATCAACCA
66 TCACCATCAGCCA
* ** * * * *
25589843 ATCTCTTACCCCGAGCCTGAGGCAGATTACAATCATCCGATCTTTTACCCCAATCAT-AGGGTAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGA-GGCAG
* * ** *
25589907 ATCACAACCATTCG
65 ATCACCATCAGCCA
* * ** * * * * * *
25589921 ATCTTTTACCCCGAGCTTGGAACAGATCACCA-TCAACCAATCTCTTACCCCGAGCTTG-GGTAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAG
* *
25589984 ATTGTAGCCAT---CCG
65 A-T-CA-CCATCAGCCA
* * * * * * * *
25589998 ATCTTTTTACCTCGAGCTTGGAGCAGATTACCA-TCAACCAATCTCTTACCCCGAGCTTTG-GGC
1 ATC-TCTTACCCCGAGCCTGGGGCAGATTA-CAGCCATCCGATCTTTTACCCCGAGC-TTGAGGC
* * * *
25590061 AGAT-AGCAACCATCCG
63 AGATCA-CCATCAGCCA
* * * * * * * * * * *
25590077 ATCTTTTACCCCGAGCTTGGAGCGGATCACCA-TCAGCCAATCTCTTACCCCGAGCCTG-GAGTA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCATCCGATCTTTTACCCCGAGCTTGAG-GCA
25590140 GATTACAGCCATCAG---
64 GA-T-CA-CCATCAGCCA
* * ** * * *
25590155 ATCTTTTACCTCGAGCCTAAGGCAGATCACAGCCATCAGATCTTTTACCCCGAGCCT-AGGGCAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGA-GGCAG
*
25590219 ATCATCATCAGCCA
65 ATCACCATCAGCCA
** * * * ** * * *
25590233 ATCTCTTACCTTGAACCTAGGGCAAATTGTAGCCATCTGATCTCTTACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
* * * * *
25590298 TTACAACCATCCG
66 TCACCATCAGCCA
* *** * * * * * * ** *
25590311 ATCTTTTACCCCGATAATGAGGCAAATCACTA-CCAACCAATCTCTTACTCCGCGA-CAGGGGGC
1 ATCTCTTACCCCGAGCCTGGGGCAGATTAC-AGCCATCCGATCTTTTAC-CC-CGAGCTTGAGGC
**** * * *
25590374 AGATTGTAACCATCCG
63 AGATCACCATCAGCCA
* * * * * * *
25590390 ATCTTTTATCCCGAG-CTTGGACAGA-T-CA-CCATCAGCTAATCTCTTACCCCGAGCCTGAGGC
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATC--C-GATCTTTTACCCCGAGCTTGAGGC
25590451 AGATTACAGCCATCAG---
63 AGA-T-CA-CCATCAGCCA
* * ** * * * * * * * * *
25590467 ATCTTTTACCCC---TCTAAGGTAGATCACCA-TCAGCCAATCTCTTA-TCCGAAGCCT-AGGGT
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCATCCGATCTTTTACCCCG-AGCTTGA-GGC
* *
25590526 AGAGTGTAGCCAT---CCG
63 AGA-T-CA-CCATCAGCCA
* * * * * * * * *
25590542 ATCTTTTACCCCGAGCTTGGGGCAGATCACCA-TCAACCAATCTCTTACCCCGAGCCTG-GGATA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCATCCGATCTTTTACCCCGAGCTTGAGG-CA
** * * ** *
25590605 GATTGCAACCATTCG
64 GATCACCATCAGCCA
* * * * * * * ** *
25590620 ATCTTTTACCCCGATCAC-GGGGCAGATCACTGCCAGCCAATCTCTTACCCC-ACGACAGGGGGC
1 ATCTCTTACCCCGAGC-CTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGA-G-CTTGAGGC
** * * *
25590683 AGATTGCAACCATCCA
63 AGATCACCATCAGCCA
* * * * * * * * *
25590699 ATCTTTTACCTCGATCATGGGGCAGATCACAGCCATCCGATCTTTTACCTCGAGCTTAAGGAAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
25590764 TCACCATCAGCCA
66 TCACCATCAGCCA
** * ** **
25590777 ATCTCTTA-CCCGAGCCTAAGGCAAATCGCAGCCATCTAATCTTTTACCCCGAGCTTG-GGTCAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGG-CAG
*
25590840 ATCACCATCAACCA
65 ATCACCATCAGCCA
* * * ** *
25590854 ATCTCTTATCCCGAGCTTGGGGCAGATTGCAGCCATCTAATCTTTTACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
25590919 TTGCAGCCATCAG---
66 -T-CA-CCATCAGCCA
* * * * * * * * * *
25590932 ATCTTTTACCCCGAGCCTGAGGCAAATCATCA-TCAACCAATCTCTTACCCAGAGCCTG-GGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCATCCGATCTTTTACCCCGAGCTTGAGG-CA
25590995 GATTGCAGCCAT---CCA
64 GA-T-CA-CCATCAGCCA
* ** * ** * * * *
25591010 ATCTCTTACCTCGAGCCT-GGGCAGATTGTAACCATCTAATCTTTTA-CCCGATCATAAGGTAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
* * *
25591073 TCACTACCAGCTA
66 TCACCATCAGCCA
** * * * * *
25591086 ATCTCTTACTCCACGA-CAGGGGGCAGATTGCAACCATCCAATCTTTTACCTCGAGCCTG-GGCA
1 ATCTCTTAC-CC-CGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCA
*
25591149 AATCACCATCAGCCA
64 GATCACCATCAGCCA
* *
25591164 ATCTCTTACCTCGAGCCTAGGGCA
1 ATCTCTTACCCCGAGCCTGGGGCA
25591188 AATCATCATC
Statistics
Matches: 1289, Mismatches: 286, Indels: 163
0.74 0.16 0.09
Matches are distributed among these distances:
73 2 0.00
74 6 0.00
75 58 0.04
76 38 0.03
77 205 0.16
78 824 0.64
79 131 0.10
80 13 0.01
81 12 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.24
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
TCACCATCAGCCA
Found at i:25589658 original size:39 final size:39
Alignment explanation
Indices: 25589615--25591058 Score: 479
Period size: 39 Copynumber: 37.2 Consensus size: 39
25589605 AACCAAGCTC
* * *
25589615 TTACCCCAAGCCTAGGGCAGATTACAGCCATCAGATATT
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATCAGATCTT
25589654 TTACCCCGAG-CTTGAGGCAGATT--A-CCATCAGCCAATCTT
1 TTACCCCGAGCCTTG-GGCAGATTACAGCCATCAG---ATCTT
* * *
25589693 TTACCTCGAG-CTTGGGCAGGTTACAGCCATCAGATCTG
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATCAGATCTT
* *
25589731 TTACCCCGAG-CTTGAGGCA-AAT-CA-CCATCAGCCAATCTC
1 TTACCCCGAGCCTTG-GGCAGATTACAGCCATCAG---ATCTT
* *
25589770 TTACCCCGAG-CTTGGGGCAGATTGCAGCCATCCGATCTT
1 TTACCCCGAGCCTT-GGGCAGATTACAGCCATCAGATCTT
* * * * * *
25589809 TTACCCCGAGCCTGGGGCAGATCACCATCAACCA-ATCTC
1 TTACCCCGAGCCTTGGGCAGATTA-CAGCCATCAGATCTT
** *
25589848 TTACCCCGAGCC-TGAGGCAGATTACAATCATCCGATCTT
1 TTACCCCGAGCCTTG-GGCAGATTACAGCCATCAGATCTT
* * * * * * *
25589887 TTACCCCAATCATAGGGTAGATCACAACCATTC-GATCTT
1 TTACCCCGAGCCTTGGGCAGATTACAGCCA-TCAGATCTT
* * * * * *
25589926 TTACCCCGAG-CTTGGAACAGATCACCATCAACCA-ATCTC
1 TTACCCCGAGCCTTGG-GCAGATTA-CAGCCATCAGATCTT
* ** *
25589965 TTACCCCGAG-CTTGGGTAGATTGTAGCCATCCGATCTTT
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATCAGATC-TT
* * * * *
25590004 TTACCTCGAG-CTTGGAGCAGATTACCATCAACCA-ATCTC
1 TTACCCCGAGCCTTGG-GCAGATTA-CAGCCATCAGATCTT
* * *
25590043 TTACCCCGAGCTTTGGGCAGA-TAGCAACCATCCGATCTT
1 TTACCCCGAGCCTTGGGCAGATTA-CAGCCATCAGATCTT
* *
25590082 TTACCCCGAG-CTTGGAGCGGA-T-CA-CCATCAGCCAATCTC
1 TTACCCCGAGCCTTGG-GCAGATTACAGCCATCAG---ATCTT
*
25590121 TTACCCCGAGCC-TGGAGTAGATTACAGCCATCAGATCTT
1 TTACCCCGAGCCTTGG-GCAGATTACAGCCATCAGATCTT
* ** *
25590160 TTACCTCGAGCCTAAGGCAGATCACAGCCATCAGATCTT
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATCAGATCTT
* * *
25590199 TTACCCCGAGCCTAGGGCAGA-T-CA-TCATCAGCCAATCTC
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATCAG---ATCTT
** * * * ** * *
25590238 TTACCTTGAACCTAGGGCAAATTGTAGCCATCTGATCTC
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATCAGATCTT
* *
25590277 TTACCCCGAG-CTTGGGGCAGATTACAACCATCCGATCTT
1 TTACCCCGAGCCTT-GGGCAGATTACAGCCATCAGATCTT
*** * * * *
25590316 TTACCCCGA-TAATGAGGCAAATCACTA-CCAACCA-ATCTC
1 TTACCCCGAGCCTTG-GGCAGATTAC-AGCC-ATCAGATCTT
*** ** * *
25590355 TTACTCCGCGA-CAGGGGGCAGATTGTAACCATCCGATCTT
1 TTAC-CC-CGAGCCTTGGGCAGATTACAGCCATCAGATCTT
* * *
25590395 TTATCCCGAG-CTTGGACAGA-T-CA-CCATCAGCTAATCTC
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATCAG---ATCTT
25590433 TTACCCCGAGCC-TGAGGCAGATTACAGCCATCAGATCTT
1 TTACCCCGAGCCTTG-GGCAGATTACAGCCATCAGATCTT
* ** * *
25590472 TTACCCC---TCTAAGGTAGA-T-CA-CCATCAGCCAATCTC
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATCAG---ATCTT
* * * * ** *
25590508 TTA-TCCGAAGCCTAGGGTAGAGTGTAGCCATCCGATCTT
1 TTACCCCG-AGCCTTGGGCAGATTACAGCCATCAGATCTT
* * * * *
25590547 TTACCCCGAG-CTTGGGGCAGATCACCATCAACCA-ATCTC
1 TTACCCCGAGCCTT-GGGCAGATTA-CAGCCATCAGATCTT
* * *
25590586 TTACCCCGAGCC-TGGGATAGATTGCAACCATTC-GATCTT
1 TTACCCCGAGCCTTGGG-CAGATTACAGCCA-TCAGATCTT
* * * * * *
25590625 TTACCCCGATCAC-GGGGCAGATCACTGCCAGCCA-ATCTC
1 TTACCCCGAGC-CTTGGGCAGATTACAGCCA-TCAGATCTT
*** * *
25590664 TTACCCC-ACGACAGGGGGCAGATTGCAACCATCCA-ATCTT
1 TTACCCCGA-G-CCTTGGGCAGATTACAGCCAT-CAGATCTT
* * * * * *
25590704 TTACCTCGATCATGGGGCAGATCACAGCCATCCGATCTT
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATCAGATCTT
* * * * *
25590743 TTACCTCGAG-CTTAAGG-AAAAT-CA-CCATCAGCCAATCTC
1 TTACCCCGAGCCTT-GGGCAGATTACAGCCATCAG---ATCTT
** * **
25590782 TTA-CCCGAGCCTAAGGCAAATCGCAGCCATCTA-ATCTT
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATC-AGATCTT
* * * * *
25590820 TTACCCCGAG-CTTGGGTCAGATCACCATCAACCA-ATCTC
1 TTACCCCGAGCCTTGGG-CAGATTA-CAGCCATCAGATCTT
* *
25590859 TTATCCCGAG-CTTGGGGCAGATTGCAGCCATCTA-ATCTT
1 TTACCCCGAGCCTT-GGGCAGATTACAGCCATC-AGATCTT
*
25590898 TTACCCCGAG-CTTGGGGCAGATTGCAGCCATCAGATCTT
1 TTACCCCGAGCCTT-GGGCAGATTACAGCCATCAGATCTT
* * * * * *
25590937 TTACCCCGAGCC-TGAGGCAAATCATCATCAACCA-ATCTC
1 TTACCCCGAGCCTTG-GGCAGATTA-CAGCCATCAGATCTT
* * *
25590976 TTACCCAGAGCC-TGGGCCAGATTGCAGCCATCCA-ATCTC
1 TTACCCCGAGCCTTGGG-CAGATTACAGCCAT-CAGATCTT
* ** *
25591015 TTACCTCGAGCC-TGGGCAGATTGTAACCATCTA-ATCTT
1 TTACCCCGAGCCTTGGGCAGATTACAGCCATC-AGATCTT
25591053 TTACCC
1 TTACCC
25591059 GATCATAAGG
Statistics
Matches: 1055, Mismatches: 240, Indels: 221
0.70 0.16 0.15
Matches are distributed among these distances:
33 7 0.01
34 2 0.00
35 9 0.01
36 46 0.04
37 15 0.01
38 149 0.14
39 653 0.62
40 112 0.11
41 30 0.03
42 32 0.03
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (39 bp):
TTACCCCGAGCCTTGGGCAGATTACAGCCATCAGATCTT
Found at i:25590822 original size:77 final size:78
Alignment explanation
Indices: 25590719--25590910 Score: 244
Period size: 77 Copynumber: 2.5 Consensus size: 78
25590709 TCGATCATGG
* ** * *
25590719 GGCAGATCACAGCCATCCGATCTTTTACCTCGAGCTTAAGG-AAAATCACCATCAGCCAATCTCT
1 GGCAGATCGCAGCCATCTAATCTTTTACCCCGAGCTT-AGGTAAAATCACCATCAACCAATCTCT
25590783 TA-CCCGAGCCTAA
65 TATCCCGAGCCTAA
* * * *
25590796 GGCAAATCGCAGCCATCTAATCTTTTACCCCGAGCTTGGGTCAGATCACCATCAACCAATCTCTT
1 GGCAGATCGCAGCCATCTAATCTTTTACCCCGAGCTTAGGTAAAATCACCATCAACCAATCTCTT
* **
25590861 ATCCCGAGCTTGG
66 ATCCCGAGCCTAA
*
25590874 GGCAGATTGCAGCCATCTAATCTTTTACCCCGAGCTT
1 GGCAGATCGCAGCCATCTAATCTTTTACCCCGAGCTT
25590911 GGGGCAGATT
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
76 2 0.02
77 54 0.55
78 43 0.43
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (78 bp):
GGCAGATCGCAGCCATCTAATCTTTTACCCCGAGCTTAGGTAAAATCACCATCAACCAATCTCTT
ATCCCGAGCCTAA
Found at i:25591188 original size:39 final size:38
Alignment explanation
Indices: 25591123--25591212 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
25591113 TTGCAACCAT
*
25591123 CCAATCTTTTACCTCGAGCCTGGGCAAATCACCATCAG
1 CCAATCTCTTACCTCGAGCCTGGGCAAATCACCATCAG
*
25591161 CCAATCTCTTACCTCGAGCCTAGGGCAAATCATCATCAG
1 CCAATCTCTTACCTCGAGCCT-GGGCAAATCACCATCAG
25591200 CCAATCTCTTACC
1 CCAATCTCTTACC
25591213 CTGACCCTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 20 0.41
39 29 0.59
ACGTcount: A:0.27, C:0.36, G:0.13, T:0.24
Consensus pattern (38 bp):
CCAATCTCTTACCTCGAGCCTGGGCAAATCACCATCAG
Found at i:25591308 original size:78 final size:78
Alignment explanation
Indices: 25591164--25591327 Score: 186
Period size: 78 Copynumber: 2.1 Consensus size: 78
25591154 CCATCAGCCA
* * * *
25591164 ATCTCTTACCTCGAGCCTAGGGCAAATCATCATCAGCCAATCTCTTACCCTGACCCTGAGGTAGA
1 ATCTTTTACCTCGAGCCTAGGGCAAATCACCATCAGCCAATCTATTACCCTGACCCTGAGGCAGA
* * *
25591229 TTGTAGCCATTCG
66 TTGCAACCATCCG
* * * * * * *
25591242 ATCTTTTACCTCGAGCTTGGGGCAAATCACCATTAGCCAATTTATT-TCCTCGAGCCTGGGGCAG
1 ATCTTTTACCTCGAGCCTAGGGCAAATCACCATCAGCCAATCTATTACCCT-GACCCTGAGGCAG
25591306 ATTGCAACCATCCG
65 ATTGCAACCATCCG
25591320 ATCTTTTA
1 ATCTTTTA
25591328 TCCCGATCAC
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
77 3 0.04
78 68 0.96
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (78 bp):
ATCTTTTACCTCGAGCCTAGGGCAAATCACCATCAGCCAATCTATTACCCTGACCCTGAGGCAGA
TTGCAACCATCCG
Found at i:25591405 original size:79 final size:78
Alignment explanation
Indices: 25591300--25591448 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 78
25591290 CTCGAGCCTG
* **
25591300 GGGCAGATTGCAACCATCCGATCTTTTA-TCCCGATCACGAGGCAGATCACTGCCAGCCAATCTC
1 GGGCAGATTGCAACCATCCGAACTTTTACT-CCGATCACGAGGCAGA-CACAACCAGCCAATCTC
25591364 TTACCCCACGAGAGC
64 TTACCCCACGAGAGC
* * * * *
25591379 GGGCAGATTGTAACCATCCGAACTTTTACTCCGATCATGGGGCAGACACAATCATCCAATCTCTT
1 GGGCAGATTGCAACCATCCGAACTTTTACTCCGATCACGAGGCAGACACAACCAGCCAATCTCTT
25591444 ACCCC
66 ACCCC
25591449 TATCATGTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 20 0.33
79 40 0.66
80 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (78 bp):
GGGCAGATTGCAACCATCCGAACTTTTACTCCGATCACGAGGCAGACACAACCAGCCAATCTCTT
ACCCCACGAGAGC
Found at i:25591424 original size:39 final size:39
Alignment explanation
Indices: 25591298--25591551 Score: 196
Period size: 39 Copynumber: 6.5 Consensus size: 39
25591288 TCCTCGAGCC
* * * *
25591298 TGGGGCAGATTGCAACCATCCGATCTTTTATCCCGATCA
1 TGGGGCAGATTGAAACCATCCAATCTCTTACCCCGATCA
* * * ** *
25591337 CGAGGCAGA-TCACTGCCAGCCAATCTCTTACCCC-A-CGA
1 TGGGGCAGATTGA-AACCATCCAATCTCTTACCCCGATC-A
* * * *
25591375 GAGCGGGCAGATTGTAACCATCCGAA-CTTTTACTCCGATCA
1 -TG-GGGCAGATTGAAACCATCC-AATCTCTTACCCCGATCA
* * *
25591416 TGGGGCAGA--CACAATCATCCAATCTCTTACCCCTATCA
1 TGGGGCAGATTGA-AACCATCCAATCTCTTACCCCGATCA
* ** *
25591454 TGTGAAAGATTGAAACCATCTAATCTCTTACCCCGATCA
1 TGGGGCAGATTGAAACCATCCAATCTCTTACCCCGATCA
* *
25591493 TGGGGCAAATTGAAACCATTCAATCTCTTACCCCGATCA
1 TGGGGCAGATTGAAACCATCCAATCTCTTACCCCGATCA
*
25591532 TGGGGCAAATTGAAACCATC
1 TGGGGCAGATTGAAACCATC
25591552 ATCTAATATT
Statistics
Matches: 163, Mismatches: 40, Indels: 24
0.72 0.18 0.11
Matches are distributed among these distances:
37 3 0.02
38 28 0.17
39 105 0.64
40 21 0.13
41 5 0.03
42 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (39 bp):
TGGGGCAGATTGAAACCATCCAATCTCTTACCCCGATCA
Found at i:25593223 original size:30 final size:30
Alignment explanation
Indices: 25593124--25593406 Score: 194
Period size: 30 Copynumber: 9.6 Consensus size: 30
25593114 ATTTTCTTTG
*
25593124 AAAATGACATTTTAACCCTCT-AACTTTTC-
1 AAAATTACATTTTAACCCT-TAAACTTTTCT
* * ** *
25593153 AAAATTATATTTTGACCCCCAAA-ATTTCT
1 AAAATTACATTTTAACCCTTAAACTTTTCT
* *
25593182 AAAATTTCATTTTAACCCTTAAACTTTTCC
1 AAAATTACATTTTAACCCTTAAACTTTTCT
*
25593212 AAAATTGCATTTTAATCCC-TAAACTTCTTC-
1 AAAATTACATTTTAA-CCCTTAAACTT-TTCT
* ** * *
25593242 AAAATCATGTTTTAACCCCTAAACTCTTCT
1 AAAATTACATTTTAACCCTTAAACTTTTCT
* * * *
25593272 AAAATTGCATTATGACCCTTAAGC-TTTCTT
1 AAAATTACATTTTAACCCTTAAACTTTTC-T
*
25593302 AAAATCACATTTTAACCC-TAAACTTCTTC-
1 AAAATTACATTTTAACCCTTAAACTT-TTCT
* * *
25593331 AAAATCACACTTTGACCC--AAAC-TTTCTT
1 AAAATTACATTTTAACCCTTAAACTTTTC-T
*
25593359 AAAATTACATTTT-ACCCTTAAGCTTTTTCT
1 AAAATTACATTTTAACCCTTAAAC-TTTTCT
**
25593389 AAAATTATGTTTTAACCC
1 AAAATTACATTTTAACCC
25593407 CGTATTCTTT
Statistics
Matches: 197, Mismatches: 40, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
26 3 0.02
27 5 0.03
28 19 0.10
29 67 0.34
30 86 0.44
31 17 0.09
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTTAAACTTTTCT
Found at i:25593334 original size:89 final size:86
Alignment explanation
Indices: 25593124--25593393 Score: 285
Period size: 89 Copynumber: 3.1 Consensus size: 86
25593114 ATTTTCTTTG
* * * *
25593124 AAAATGACATTTTAACCCTCTAACTT-TTCAAAATTATATTTTGACCCCCAAAATTTCTAAAATT
1 AAAATCACATTTTAACCCT-AAACTTCTTCAAAATCATATTTTGA-CCCCAAACTTTCTAAAATT
* * *
25593188 TCATTTTAACCCTTAAACTTTTCC
64 ACA-TTTAACCCTTAAGCTTTTCT
** * *
25593212 AAAATTGCATTTTAATCCCTAAACTTCTTCAAAATCATGTTTTAACCCCTAAACTCTTCTAAAAT
1 AAAATCACATTTTAA-CCCTAAACTTCTTCAAAATCATATTTTGACCCC-AAACT-TTCTAAAAT
* *
25593277 TGCATTATGACCCTTAAGC-TTTCTT
63 TACATT-TAACCCTTAAGCTTTTC-T
* *
25593302 AAAATCACATTTTAACCCTAAACTTCTTCAAAATCACACTTTGA-CCCAAACTTTCTTAAAATTA
1 AAAATCACATTTTAACCCTAAACTTCTTCAAAATCATATTTTGACCCCAAACTTTC-TAAAATTA
*
25593366 CATTTTACCCTTAAGCTTTTTCT
65 CATTTAACCCTTAAGC-TTTTCT
25593389 AAAAT
1 AAAAT
25593394 TATGTTTTAA
Statistics
Matches: 154, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
86 14 0.09
87 22 0.14
88 29 0.19
89 54 0.35
90 35 0.23
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (86 bp):
AAAATCACATTTTAACCCTAAACTTCTTCAAAATCATATTTTGACCCCAAACTTTCTAAAATTAC
ATTTAACCCTTAAGCTTTTCT
Found at i:25595384 original size:2 final size:2
Alignment explanation
Indices: 25595371--25595442 Score: 135
Period size: 2 Copynumber: 36.0 Consensus size: 2
25595361 TACTTGTATG
*
25595371 AT AT AA 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 AT
25595413 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
25595443 TATTCAAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25618168 original size:17 final size:17
Alignment explanation
Indices: 25618142--25618177 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25618132 TAGGTAGTAA
*
25618142 AAGAAAAAGAAGAATAG
1 AAGAAAAAGAAGAAGAG
*
25618159 AAGAAGAAGAAGAAGAG
1 AAGAAAAAGAAGAAGAG
25618176 AA
1 AA
25618178 AATTTTAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (17 bp):
AAGAAAAAGAAGAAGAG
Found at i:25619477 original size:12 final size:12
Alignment explanation
Indices: 25619460--25619486 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25619450 CTTGATTAAC
25619460 CATATCCTACTA
1 CATATCCTACTA
25619472 CATATCCTACTA
1 CATATCCTACTA
25619484 CAT
1 CAT
25619487 GGATTGTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (12 bp):
CATATCCTACTA
Found at i:25619502 original size:24 final size:24
Alignment explanation
Indices: 25619473--25619529 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
25619463 ATCCTACTAC
* *
25619473 ATATCCTACTACATGGATTGTGGT
1 ATATCCAACTACATGGATTATGGT
25619497 ATATCCAACTACATGGATTATGGT
1 ATATCCAACTACATGGATTATGGT
25619521 ATATCCAAC
1 ATATCCAAC
25619530 ATTAGTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (24 bp):
ATATCCAACTACATGGATTATGGT
Found at i:25622174 original size:29 final size:28
Alignment explanation
Indices: 25622141--25622198 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
25622131 CAAAATTTTA
*
25622141 ATTAAAGTTA-AAATTAACCCCTAAACTTT
1 ATTAAAATTACAAATT-ACCCCTAAA-TTT
*
25622170 ATTAAAATTACAAATTAGCCCTAAATTT
1 ATTAAAATTACAAATTACCCCTAAATTT
25622198 A
1 A
25622199 CAAATTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.15
29 17 0.65
30 5 0.19
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (28 bp):
ATTAAAATTACAAATTACCCCTAAATTT
Found at i:25626060 original size:29 final size:30
Alignment explanation
Indices: 25626005--25626062 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
25625995 AATTAAAGGT
*
25626005 CAAATTAGCTCCCAAACTTCATTAAAATTA
1 CAAATTAGCTCCCAAACTTCATCAAAATTA
*
25626035 CAAATTAG-TCCCTAAATTTCA-CAAAATT
1 CAAATTAGCTCCC-AAACTTCATCAAAATT
25626063 TCCAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.31
Consensus pattern (30 bp):
CAAATTAGCTCCCAAACTTCATCAAAATTA
Found at i:25626416 original size:30 final size:31
Alignment explanation
Indices: 25626351--25626416 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
25626341 TGTTAATGAA
*
25626351 TGACTAATTTGTCACTTTTCGATAACGTTAG
1 TGACTAATTTATCACTTTTCGATAACGTTAG
* *
25626382 TGACTAATTTATTATTTTTCGA-AA-GTTGAG
1 TGACTAATTTATCACTTTTCGATAACGTT-AG
25626412 TGACT
1 TGACT
25626417 GTTGGTGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 3 0.10
30 9 0.29
31 19 0.61
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (31 bp):
TGACTAATTTATCACTTTTCGATAACGTTAG
Found at i:25648828 original size:17 final size:17
Alignment explanation
Indices: 25648803--25648845 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
25648793 AGTTGTCTTT
25648803 CTCGCAATGTAAACGTC
1 CTCGCAATGTAAACGTC
* *
25648820 CTCGTAATGTAAACGTT
1 CTCGCAATGTAAACGTC
*
25648837 CTTGCAATG
1 CTCGCAATG
25648846 CTACTTAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (17 bp):
CTCGCAATGTAAACGTC
Found at i:25688927 original size:22 final size:23
Alignment explanation
Indices: 25688885--25688927 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
25688875 TTCCTATAAT
25688885 GGAGAAAAAAGGAAGGTGAGAAA
1 GGAGAAAAAAGGAAGGTGAGAAA
* *
25688908 GGAGAAATAAGG-GGGTGAGA
1 GGAGAAAAAAGGAAGGTGAGA
25688928 TGGAATGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.44, T:0.07
Consensus pattern (23 bp):
GGAGAAAAAAGGAAGGTGAGAAA
Found at i:25693574 original size:21 final size:22
Alignment explanation
Indices: 25693544--25693585 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
25693534 CACTATATGT
25693544 TTTCTTACTCATGATTCTTTTG
1 TTTCTTACTCATGATTCTTTTG
**
25693566 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGATTCTTTT
25693586 CTTTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGATTCTTTTG
Found at i:25699079 original size:3 final size:3
Alignment explanation
Indices: 25699029--25699063 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
25699019 AATTAGAAAC
25699029 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
25699064 TAACTTAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:25700004 original size:8 final size:8
Alignment explanation
Indices: 25699991--25700024 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
25699981 GTGTGACCCT
25699991 TTTTTTTA
1 TTTTTTTA
*
25699999 TTTTTTGA
1 TTTTTTTA
25700007 TTTGTTTTA
1 TTT-TTTTA
25700016 TTTTTTTA
1 TTTTTTTA
25700024 T
1 T
25700025 GATTTTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:25702925 original size:18 final size:18
Alignment explanation
Indices: 25702877--25702930 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
25702867 TCTTTAAACA
*
25702877 TCCTATTCT-TCTCA-CT
1 TCCTTTTCTCTCTCACCT
25702893 TCCTTATTTCTTCTCTCACCT
1 TCC-T-TTTC-TCTCTCACCT
25702914 TCCTTTTCTCTC-CACCT
1 TCCTTTTCTCTCTCACCT
25702931 AGGAAATCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
16 3 0.09
17 6 0.19
18 7 0.22
19 5 0.16
20 6 0.19
21 5 0.16
ACGTcount: A:0.09, C:0.41, G:0.00, T:0.50
Consensus pattern (18 bp):
TCCTTTTCTCTCTCACCT
Done.