Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 118 of 333
Found at i:38154326 original size:6 final size:6
Alignment explanation
Indices: 38154291--38154437 Score: 88
Period size: 6 Copynumber: 23.8 Consensus size: 6
38154281 AATTCTAATA
* *
38154291 CTGATT CTGATT CTGATT CT-ATCAC CTGATT TTGATT CTGATT CTG-TT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
* * * * * *
38154339 ACCTGATA CTGATT CTGATT TTG-TCAC CTAATT CTGATA CTGATT TTGATT
1 --CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
* *
38154390 CTGATT CTG-TT GCCTGATT CTGATT CTCATT TTGATT CT-AGTT CTGAT
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
38154438 AATGTTTCTT
Statistics
Matches: 107, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
5 8 0.07
6 83 0.78
7 10 0.09
8 6 0.06
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:38154332 original size:37 final size:37
Alignment explanation
Indices: 38154261--38154336 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
38154251 TACCTGATAT
*
38154261 TGATTTTGATTCTATCACCTAATTCTAATACTGATTC
1 TGATTCTGATTCTATCACCTAATTCTAATACTGATTC
* * * *
38154298 TGATTCTGATTCTATCACCTGATTTTGATTCTGATTC
1 TGATTCTGATTCTATCACCTAATTCTAATACTGATTC
38154335 TG
1 TG
38154337 TTACCTGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.47
Consensus pattern (37 bp):
TGATTCTGATTCTATCACCTAATTCTAATACTGATTC
Found at i:38154345 original size:19 final size:20
Alignment explanation
Indices: 38154323--38154416 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 20
38154313 CACCTGATTT
38154323 TGATTCTGATTCTG-TTACC
1 TGATTCTGATTCTGTTTACC
*
38154342 TGATACTGATTCTGATTTTGTCACC
1 TGATTCTGATTCTG---TT-T-ACC
* *
38154367 TAATTCTGATACTGATTT---
1 TGATTCTGATTCTG-TTTACC
*
38154385 TGATTCTGATTCTG-TTGCC
1 TGATTCTGATTCTGTTTACC
38154404 TGATTCTGATTCT
1 TGATTCTGATTCT
38154417 CATTTTGATT
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
16 2 0.03
18 12 0.20
19 26 0.44
22 1 0.02
23 3 0.05
24 1 0.02
25 14 0.24
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (20 bp):
TGATTCTGATTCTGTTTACC
Found at i:38154357 original size:62 final size:61
Alignment explanation
Indices: 38154232--38154434 Score: 194
Period size: 62 Copynumber: 3.3 Consensus size: 61
38154222 TTGCATTCAT
* * * * * * * * *
38154232 ATTCTAATTCTAATTCTGTTACCTGATATTGATTTTGATTCTATCACCTAATTCTAATACTG
1 ATTCTGATTCTAATTCT-ATACCTGATTTTGATTCTGATTCTGTTACCTGATTCTGATTCTG
* *
38154294 ATTCTGATTCTGATTCTATCACCTGATTTTGATTCTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTCTAATTCTAT-ACCTGATTTTGATTCTGATTCTGTTACCTGATTCTGATTCTG
* * * *
38154356 ATTTTG-TCACCTAATTCTGATA-CTGATTTTGATTCTGATTCTGTTGCCTGATTCTGATTCTC
1 ATTCTGAT--TCTAATTCT-ATACCTGATTTTGATTCTGATTCTGTTACCTGATTCTGATTCTG
* *
38154418 ATTTTGATTCTAGTTCT
1 ATTCTGATTCTAATTCT
38154435 GATAATGTTT
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
61 9 0.08
62 97 0.83
63 9 0.08
64 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (61 bp):
ATTCTGATTCTAATTCTATACCTGATTTTGATTCTGATTCTGTTACCTGATTCTGATTCTG
Found at i:38154382 original size:37 final size:38
Alignment explanation
Indices: 38154331--38154413 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 38
38154321 TTTGATTCTG
* *
38154331 ATTCTGTTACCTGATACTGATTCTGATTTTGTCACCTA
1 ATTCTGATACCTGATACTGATTCTGATTCTGTCACCTA
** ** *
38154369 ATTCTGATA-CTGATTTTGATTCTGATTCTGTTGCCTG
1 ATTCTGATACCTGATACTGATTCTGATTCTGTCACCTA
38154406 ATTCTGAT
1 ATTCTGAT
38154414 TCTCATTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 30 0.79
38 8 0.21
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (38 bp):
ATTCTGATACCTGATACTGATTCTGATTCTGTCACCTA
Found at i:38154386 original size:25 final size:25
Alignment explanation
Indices: 38154291--38154383 Score: 123
Period size: 25 Copynumber: 3.7 Consensus size: 25
38154281 AATTCTAATA
*
38154291 CTGATTCTGATTCTGATTCTATCAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
38154316 CTGATTTTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
38154341 CTGATACTGATTCTGATTTTGTCAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
38154366 CTAATTCTGATACTGATT
1 CTGATTCTGATTCTGATT
38154384 TTGATTCTGA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTCAC
Found at i:38154389 original size:87 final size:87
Alignment explanation
Indices: 38154232--38154416 Score: 262
Period size: 87 Copynumber: 2.1 Consensus size: 87
38154222 TTGCATTCAT
* * *
38154232 ATTCTAATTCTAATTCTGTTACCTGATATTGATTTTGATTCTATCACCTAATTCTAATACTGATT
1 ATTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTATCACCTAATTCTAATACTGATT
38154297 CTGATTCTGATTCTATCACCTG
66 CTGATTCTGATTCTATCACCTG
* * * * *
38154319 ATTTTGATTCTGATTCTGTTACCTGATACTGATTCTGATTTTGTCACCTAATTCTGATACTGATT
1 ATTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTATCACCTAATTCTAATACTGATT
* * **
38154384 TTGATTCTGATTCTGTTGCCTG
66 CTGATTCTGATTCTATCACCTG
38154406 ATTCTGATTCT
1 ATTCTGATTCT
38154417 CATTTTGATT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (87 bp):
ATTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTATCACCTAATTCTAATACTGATT
CTGATTCTGATTCTATCACCTG
Found at i:38154422 original size:37 final size:37
Alignment explanation
Indices: 38154348--38154428 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
38154338 TACCTGATAC
* *
38154348 TGATTCTGATTTTGTCACCTAATTCTGATACTGATTT
1 TGATTCTGATTCTGTCACCTAATTCTGATACTCATTT
** * *
38154385 TGATTCTGATTCTGTTGCCTGATTCTGATTCTCATTT
1 TGATTCTGATTCTGTCACCTAATTCTGATACTCATTT
38154422 TGATTCT
1 TGATTCT
38154429 AGTTCTGATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (37 bp):
TGATTCTGATTCTGTCACCTAATTCTGATACTCATTT
Found at i:38159453 original size:21 final size:22
Alignment explanation
Indices: 38159429--38159470 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
38159419 TGTTTTGGTA
*
38159429 TATGTTGGGTTATG-TTTTAAT
1 TATGTTAGGTTATGATTTTAAT
*
38159450 TATGTTATGTTATGATTTTAA
1 TATGTTAGGTTATGATTTTAA
38159471 GTTTCGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (22 bp):
TATGTTAGGTTATGATTTTAAT
Found at i:38160002 original size:52 final size:52
Alignment explanation
Indices: 38159945--38160044 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
38159935 CTATGTGTTC
* * * *
38159945 TTTGATGTTTACTGTTGAAATATGAAAGTTTGATGATAGATTTTCATGAAAG
1 TTTGATGATTAATGTTGAAATAAGAAAGTTTAATGATAGATTTTCATGAAAG
38159997 TTTGATGATTAATGTTGAAATAAGAAAGTTTAATGATAGATTTTCATG
1 TTTGATGATTAATGTTGAAATAAGAAAGTTTAATGATAGATTTTCATG
38160045 TTTTGTAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (52 bp):
TTTGATGATTAATGTTGAAATAAGAAAGTTTAATGATAGATTTTCATGAAAG
Found at i:38160024 original size:28 final size:27
Alignment explanation
Indices: 38159945--38160033 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 27
38159935 CTATGTGTTC
* *
38159945 TTTGATGTTTACTGTTGAAATATGAAAG
1 TTTGATGATTAATGTTGAAATA-GAAAG
**
38159973 TTTGATGA-TAGAT-TT-TCAT-GAAAG
1 TTTGATGATTA-ATGTTGAAATAGAAAG
38159997 TTTGATGATTAATGTTGAAATAAGAAAG
1 TTTGATGATTAATGTTGAAAT-AGAAAG
*
38160025 TTTAATGAT
1 TTTGATGAT
38160034 AGATTTTCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
24 15 0.31
25 4 0.08
26 4 0.08
27 4 0.08
28 21 0.44
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (27 bp):
TTTGATGATTAATGTTGAAATAGAAAG
Found at i:38160506 original size:29 final size:31
Alignment explanation
Indices: 38160457--38160515 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
38160447 AATGTGTATC
* *
38160457 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
38160486 TATTTATTATAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
38160516 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:38180611 original size:27 final size:27
Alignment explanation
Indices: 38180561--38180620 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
38180551 AGCTGCTAGA
*
38180561 AACAGTAAATGTGGCAAAGCCACCAGT
1 AACAGTAAATGTGACAAAGCCACCAGT
* * * *
38180588 AACAGTGAATGTGACATAGTCACCAAT
1 AACAGTAAATGTGACAAAGCCACCAGT
38180615 -ACAGTA
1 AACAGTA
38180621 CTTCCTCCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (27 bp):
AACAGTAAATGTGACAAAGCCACCAGT
Found at i:38180790 original size:27 final size:27
Alignment explanation
Indices: 38180760--38180924 Score: 212
Period size: 27 Copynumber: 6.2 Consensus size: 27
38180750 ATAATTGTCC
* * * * *
38180760 TTTTACCATACAGGGGTATTAAGTTTA
1 TTTTACCCTACAGGGGCATTACGGTCA
38180787 TTTTACCCTACAGGGGCATTACGGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
*
38180814 TTTTACCCTACAAGGGCATTACGGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
38180841 TTTTACCCTACAGGGGCATTACGGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
*
38180868 TTTTACCCTATAAGGGGCATT----TCA
1 TTTTACCCTA-CAGGGGCATTACGGTCA
* *
38180892 TTTTACCCTACAAGGGCATTACGGTAA
1 TTTTACCCTACAGGGGCATTACGGTCA
38180919 TTTTAC
1 TTTTAC
38180925 ACTATAAGGG
Statistics
Matches: 122, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
23 8 0.07
24 13 0.11
27 92 0.75
28 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
TTTTACCCTACAGGGGCATTACGGTCA
Found at i:38180914 original size:78 final size:78
Alignment explanation
Indices: 38180760--38180924 Score: 224
Period size: 78 Copynumber: 2.1 Consensus size: 78
38180750 ATAATTGTCC
* * * *
38180760 TTTTACCATACAGGGGTATTAAGTTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTAC
1 TTTTACCATACAGGGGCATTAAGGTCATTTTACCCTAAAGGGGCATT---GTCATTTTACCCTAC
*
38180825 AAGGGCATTACGGTCA
63 AAGGGCATTACGGTAA
* *
38180841 TTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAAGGGGCATT-TCATTTTACCCTACAA
1 TTTTACCATACAGGGGCATTAAGGTCATTTTACCCTA-AAGGGGCATTGTCATTTTACCCTACAA
38180905 GGGCATTACGGTAA
65 GGGCATTACGGTAA
38180919 TTTTAC
1 TTTTAC
38180925 ACTATAAGGG
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 35 0.46
81 32 0.42
82 9 0.12
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (78 bp):
TTTTACCATACAGGGGCATTAAGGTCATTTTACCCTAAAGGGGCATTGTCATTTTACCCTACAAG
GGCATTACGGTAA
Found at i:38180934 original size:105 final size:105
Alignment explanation
Indices: 38180786--38180988 Score: 262
Period size: 105 Copynumber: 1.9 Consensus size: 105
38180776 TATTAAGTTT
* * * * *
38180786 ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTA
1 ATTTTACCCTACAAGGGCATTACGGTAATTTTACACTACAAGGGCATTACAGTAATTTTACCCTA
* * * *
38180851 CAGGGGCATTACGGTCATTTTACCCTATAAGGGGCATTTC
66 CACGGGCATTACGGTAATTTTACACTACAAGGGGCATTTC
* * * **
38180891 ATTTTACCCTACAAGGGCATTACGGTAATTTTACACTATAAGGGTATTTCAGTAATTTTACGTTA
1 ATTTTACCCTACAAGGGCATTACGGTAATTTTACACTACAAGGGCATTACAGTAATTTTACCCTA
* *
38180956 CACGGGTATTTCGGTAATTTTACACTACAAGGG
66 CACGGGCATTACGGTAATTTTACACTACAAGGG
38180989 TATTTCGATA
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
105 82 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (105 bp):
ATTTTACCCTACAAGGGCATTACGGTAATTTTACACTACAAGGGCATTACAGTAATTTTACCCTA
CACGGGCATTACGGTAATTTTACACTACAAGGGGCATTTC
Found at i:38180995 original size:27 final size:27
Alignment explanation
Indices: 38180786--38180988 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
38180776 TATTAAGTTT
* *
38180786 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTA
*
38180813 ATTTTACCCTACAAGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTA
* *
38180840 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTA
* *
38180867 ATTTTACCCTATAAGGGGCATT----TC
1 ATTTTACCCTACAA-GGGCATTACGGTA
38180891 ATTTTACCCTACAAGGGCATTACGGTA
1 ATTTTACCCTACAAGGGCATTACGGTA
* * * * *
38180918 ATTTTACACTATAAGGGTATTTCAGTA
1 ATTTTACCCTACAAGGGCATTACGGTA
** * * *
38180945 ATTTTACGTTACACGGGTATTTCGGTA
1 ATTTTACCCTACAAGGGCATTACGGTA
*
38180972 ATTTTACACTACAAGGG
1 ATTTTACCCTACAAGGG
38180989 TATTTCGATA
Statistics
Matches: 152, Mismatches: 19, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
23 7 0.05
24 15 0.10
27 123 0.81
28 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGCATTACGGTA
Found at i:38181004 original size:27 final size:27
Alignment explanation
Indices: 38180891--38181006 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
38180881 GGGGCATTTC
* * * *
38180891 ATTTTACCCTACAAGGGCATTACGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
*
38180918 ATTTTACACTATAAGGGTATTTC-AGTA
1 ATTTTACACTACAAGGGTATTTCGA-TA
** * *
38180945 ATTTTACGTTACACGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
38180972 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
*
38180999 AGTTTACA
1 ATTTTACA
38181007 AACTGAGGGT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:38189737 original size:46 final size:46
Alignment explanation
Indices: 38189683--38189850 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 46
38189673 TATTGGGGCA
**
38189683 TCCGAACTCGTTGAGTTGAGTGAGAGTTCACTTATGGATGCTAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
*
38189729 TCCAAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCTAA-T--G
* * *
38189774 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
*
38189822 TCCGAACTCGGTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
38189851 GAGAGATGTA
Statistics
Matches: 101, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 53 0.52
47 27 0.27
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
Found at i:38189795 original size:47 final size:47
Alignment explanation
Indices: 38189735--38189897 Score: 185
Period size: 47 Copynumber: 3.5 Consensus size: 47
38189725 AATGTCCAAA
38189735 CTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAGGCATCCGAG
* * *
38189782 CTCATTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G--TCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGGCATCCGAG
* *
38189828 CTCGGTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAGGCATCCGAG
*
38189875 CTCGTTAAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
38189898 GCTTATGGGC
Statistics
Matches: 95, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
45 1 0.01
46 26 0.27
47 49 0.52
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAGGCATCCGAG
Found at i:38189838 original size:93 final size:93
Alignment explanation
Indices: 38189679--38189905 Score: 364
Period size: 93 Copynumber: 2.4 Consensus size: 93
38189669 AGGATATTGG
* ** * *
38189679 GGCATCCGAACTCGTTGAGTTGAGTGAGAGTTCACTTATGGATGCTAATGTCCAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGGTGAG
38189744 TTGAGTCCGAGTTCAAGAGATGTAACTA
66 TTGAGTCCGAGTTCAAGAGATGTAACTA
* *
38189772 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGGTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGGTGAG
*
38189837 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCAAGAGATGTAACTA
* *
38189865 GGCATCCGAGCTCGTTAAGTTGAGTCCGAGTTCGCTTATGG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38189906 GCGGGTTACA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 123 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGGTGAG
TTGAGTCCGAGTTCAAGAGATGTAACTA
Found at i:38196383 original size:43 final size:43
Alignment explanation
Indices: 38196321--38196454 Score: 160
Period size: 43 Copynumber: 3.1 Consensus size: 43
38196311 ACAAACATCG
*
38196321 CTAAAGAACATGACCTTTAGCGGTGCTTTTCTTAAAAACGCCA
1 CTAAAGAACATGACCTTTAGCGGCGCTTTTCTTAAAAACGCCA
* * ** * * *
38196364 CTAAAGAACATGACTTTTAGCGGCACTTTTGATACAAATGCCG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTTCTTAAAAACGCCA
* * *
38196407 CTAAAGAGCATGACCTTTAGCGGCGCTTTTCTCAAAAAACACCA
1 CTAAAGAACATGACCTTTAGCGGCGCTTTTCT-TAAAAACGCCA
38196451 CTAA
1 CTAA
38196455 TTTTAGTAGA
Statistics
Matches: 72, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
43 62 0.86
44 10 0.14
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
CTAAAGAACATGACCTTTAGCGGCGCTTTTCTTAAAAACGCCA
Found at i:38197186 original size:13 final size:14
Alignment explanation
Indices: 38197152--38197188 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
38197142 CGATGAATAT
38197152 ACCATTATAATTAA
1 ACCATTATAATTAA
*
38197166 ACCATTATGATTAA
1 ACCATTATAATTAA
38197180 A-CATTATAA
1 ACCATTATAA
38197189 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.35
Consensus pattern (14 bp):
ACCATTATAATTAA
Found at i:38201777 original size:49 final size:49
Alignment explanation
Indices: 38201720--38201951 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
38201710 CTAGTATGCA
*
38201720 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * ** * * *
38201769 TAGTAGCCTGCACTTAGTACTTCACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * * *
38201819 TAGTAGCCTGCACTTGGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
*
38201870 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* *
38201919 TAGTAGCCTGCACTTAGTACGACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
38201952 TCACCATAGA
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 71 0.47
50 45 0.30
51 36 0.24
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:38213494 original size:53 final size:54
Alignment explanation
Indices: 38213423--38213686 Score: 279
Period size: 53 Copynumber: 4.9 Consensus size: 54
38213413 TTTTCCTTTT
* * * * *
38213423 TGAACTTACCATTACCATGTATTGACATGGTCTTACGTGGTATCCTTT-CCATA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCATA
* * * * *
38213476 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCATA
* *
38213529 TAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGGTAT-CTTTGCCTTA
1 T-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCATA
* *
38213584 TGAACTCACCAATGCCATG-CTGCGACATGGTCTTACATGGGA-CCTTTGCCTTTATAA
1 TGAACTCACCAATGCCATGTCT-TGACATGGTCTTACATGGTATCCTTTGCC---AT-A
**
38213641 T-AACTCATTAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
38213687 AACCGTCACC
Statistics
Matches: 177, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
52 7 0.04
53 80 0.45
54 2 0.01
55 46 0.26
56 34 0.19
57 8 0.05
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCATA
Found at i:38213566 original size:108 final size:110
Alignment explanation
Indices: 38213437--38213686 Score: 393
Period size: 108 Copynumber: 2.3 Consensus size: 110
38213427 CTTACCATTA
* *
38213437 CCATGTATTGACATGGTCTTACGTGGTATCCTTT-CCATATGAACTCACCAATGCCATGCCTTG-
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCATATGAACTCACCAATGCCATG-C-TGC
* *
38213500 G-CATGGTCTTACATGGGACCTTTTCC-TTATAGTAACTCATCAATG
64 GACATGGTCTTACATGGGACCTTTGCCTTTATAATAACTCATCAATG
*
38213545 CCATGTCTTGACATGGTCTTACATGGTAT-CTTTGCCTTATGAACTCACCAATGCCATGCTGCGA
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCATATGAACTCACCAATGCCATGCTGCGA
*
38213609 CATGGTCTTACATGGGACCTTTGCCTTTATAATAACTCATTAATG
66 CATGGTCTTACATGGGACCTTTGCCTTTATAATAACTCATCAATG
38213654 CCATGTCTTGACATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
38213687 AACCGTCACC
Statistics
Matches: 131, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
106 2 0.02
107 6 0.05
108 74 0.56
109 46 0.35
110 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (110 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCATATGAACTCACCAATGCCATGCTGCGA
CATGGTCTTACATGGGACCTTTGCCTTTATAATAACTCATCAATG
Found at i:38217156 original size:9 final size:9
Alignment explanation
Indices: 38217142--38217304 Score: 108
Period size: 9 Copynumber: 18.1 Consensus size: 9
38217132 TTTGTATTAC
*
38217142 GTAAGTTAA
1 GTAAGTTAT
*
38217151 GTAAGTTTT
1 GTAAGTTAT
38217160 GTAAGTTAT
1 GTAAGTTAT
38217169 GTAAGTTAT
1 GTAAGTTAT
*
38217178 G-ATA-TGAT
1 GTA-AGTTAT
* *
38217186 ATACATTTAT
1 GTA-AGTTAT
38217196 GTAAGTTAT
1 GTAAGTTAT
38217205 GTAAGTTAT
1 GTAAGTTAT
*
38217214 G-ATA-TAAT
1 GTA-AGTTAT
* *
38217222 ATATATTTAT
1 GTA-AGTTAT
38217232 GT-A-TTAT
1 GTAAGTTAT
38217239 GTAAGTTAT
1 GTAAGTTAT
38217248 GTAAGTTAT
1 GTAAGTTAT
*
38217257 GATATATATTTAT
1 G---TA-AGTTAT
38217270 GT-A-TTAT
1 GTAAGTTAT
*
38217277 GTAAGTTTT
1 GTAAGTTAT
38217286 GTAAGTTAT
1 GTAAGTTAT
38217295 GTAAGTTAT
1 GTAAGTTAT
38217304 G
1 G
38217305 ATATGATATA
Statistics
Matches: 124, Mismatches: 16, Indels: 28
0.74 0.10 0.17
Matches are distributed among these distances:
7 12 0.10
8 12 0.10
9 82 0.66
10 10 0.08
12 2 0.02
13 6 0.05
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:38217206 original size:36 final size:34
Alignment explanation
Indices: 38217165--38217283 Score: 166
Period size: 36 Copynumber: 3.3 Consensus size: 34
38217155 GTTTTGTAAG
*
38217165 TTATGTAAGTTATGATATGATATACATTTATGTAA
1 TTATGTAAGTTATGATATGATATATATTTATGT-A
*
38217200 GTTATGTAAGTTATGATATAATATATATTTATGTA
1 -TTATGTAAGTTATGATATGATATATATTTATGTA
38217235 TTATGTAAGTTATGTAAGTTATGATATATATTTATGTA
1 TTATGTAAGTTATG--A--TATGATATATATTTATGTA
38217273 TTATGTAAGTT
1 TTATGTAAGTT
38217284 TTGTAAGTTA
Statistics
Matches: 76, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
34 14 0.18
35 1 0.01
36 32 0.42
38 29 0.38
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (34 bp):
TTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:38217289 original size:38 final size:38
Alignment explanation
Indices: 38217165--38217295 Score: 161
Period size: 38 Copynumber: 3.6 Consensus size: 38
38217155 GTTTTGTAAG
*
38217165 TTATGTAAGTTATG--A--TATGATATACATTTATGTAA
1 TTATGTAAGTTATGTAAGTTATGATATATATTTATGT-A
*
38217200 GTTATGTAAGTTATG--A--TATAATATATATTTATGTA
1 -TTATGTAAGTTATGTAAGTTATGATATATATTTATGTA
38217235 TTATGTAAGTTATGTAAGTTATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATATATTTATGTA
*
38217273 TTATGTAAGTTTTGTAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
38217296 TAAGTTATGA
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
34 14 0.16
35 1 0.01
36 32 0.37
38 40 0.46
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (38 bp):
TTATGTAAGTTATGTAAGTTATGATATATATTTATGTA
Found at i:38217347 original size:51 final size:47
Alignment explanation
Indices: 38217198--38217347 Score: 157
Period size: 47 Copynumber: 3.2 Consensus size: 47
38217188 ACATTTATGT
* * *
38217198 AAGTTATGTAAGTTATGATATA-ATAT-A-TATTTATGT-A-TTATGT
1 AAGTTATGTAAGTTATGATATATATTTAAGTA-TTATGTAAGTTGTGG
* * *
38217241 AAGTTATGTAAGTTATGATATATATTTATGTATTATGTAAGTTTTGT
1 AAGTTATGTAAGTTATGATATATATTTAAGTATTATGTAAGTTGTGG
38217288 AAGTTATGTAAGTTATGATATGATATATATAAGTTATTATGTAAGTTGTGG
1 AAGTTATGTAAGTTATGATAT-ATAT-T-TAAG-TATTATGTAAGTTGTGG
*
38217339 GAGTTATGT
1 AAGTTATGT
38217348 GTGCTCAATT
Statistics
Matches: 91, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
43 22 0.24
44 3 0.03
45 6 0.07
46 3 0.03
47 26 0.29
48 4 0.04
49 1 0.01
50 3 0.03
51 23 0.25
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (47 bp):
AAGTTATGTAAGTTATGATATATATTTAAGTATTATGTAAGTTGTGG
Found at i:38217738 original size:28 final size:27
Alignment explanation
Indices: 38217716--38217771 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
38217706 ATTTTTTTGA
38217716 AAAAAAATAGTAATTTTATTTTTATATT
1 AAAAAAATA-TAATTTTATTTTTATATT
*
38217744 AAAAAAATATTATTTTA-TTTTAT-TT
1 AAAAAAATATAATTTTATTTTTATATT
38217769 AAA
1 AAA
38217772 TTTCATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.19
26 6 0.22
27 7 0.26
28 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
AAAAAAATATAATTTTATTTTTATATT
Found at i:38220899 original size:17 final size:19
Alignment explanation
Indices: 38220857--38220900 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38220847 ATGAAATTTT
*
38220857 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
38220876 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
38220894 AA-TATTA
1 AATTATTA
38220901 CTGCAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:38223337 original size:25 final size:25
Alignment explanation
Indices: 38223308--38223355 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38223298 TTATAATATG
* * *
38223308 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38223333 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38223356 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38223439 original size:11 final size:11
Alignment explanation
Indices: 38223403--38223458 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
38223393 CATGGTATGT
38223403 ATGATATGCAC
1 ATGATATGCAC
* *
38223414 ATGACATG--T
1 ATGATATGCAC
38223423 ATGATATGCAC
1 ATGATATGCAC
*
38223434 ATGATATG--T
1 ATGATATGCAC
38223443 ATGATATGCAC
1 ATGATATGCAC
38223454 ATGAT
1 ATGAT
38223459 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:38223458 original size:20 final size:20
Alignment explanation
Indices: 38223392--38223458 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
38223382 ATTTTGATAA
*
38223392 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38223412 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
38223432 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38223452 ACATGAT
1 ACATGAT
38223459 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38223553 original size:23 final size:23
Alignment explanation
Indices: 38223508--38223578 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
38223498 AAGGAAGTGC
*
38223508 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTT-TGCCCCAGTTATT
38223532 AAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTTGCCCCAGTTATT
**
38223555 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
38223579 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
23 17 0.40
24 17 0.40
25 8 0.19
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATT
Found at i:38223807 original size:31 final size:31
Alignment explanation
Indices: 38223772--38223834 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
38223762 CGTTTACAGT
*
38223772 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
**
38223803 AAAGGCTTCGACCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
38223834 A
1 A
38223835 TTATGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:38227059 original size:49 final size:49
Alignment explanation
Indices: 38226900--38227590 Score: 1115
Period size: 47 Copynumber: 14.3 Consensus size: 49
38226890 GTGAACATGC
*
38226900 ATATATGTGATAAGGCCTAATGTCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
38226947 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
38226998 ATGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 A----TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
38227051 ATATATGTGATAAGGCC-AATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
38227099 ATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
38227146 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
38227195 ATATATGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
38227244 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
38227291 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTCAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
38227338 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
38227387 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
38227436 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
38227483 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * *
38227530 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
38227579 A-A-ATGTGATAAG
1 ATATATGTGATAAG
38227591 TCCCGAAGGG
Statistics
Matches: 610, Mismatches: 17, Indels: 34
0.92 0.03 0.05
Matches are distributed among these distances:
47 277 0.45
48 49 0.08
49 233 0.38
51 2 0.00
53 4 0.01
55 45 0.07
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:38227323 original size:22 final size:22
Alignment explanation
Indices: 38227295--38227370 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
38227285 AAGTCTATAT
38227295 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* * * ****
38227317 ATGTGATGAATGTCAAAGTGTATAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
38227342 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
38227364 ATGTGAT
1 ATGTGAT
38227371 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:38227365 original size:192 final size:192
Alignment explanation
Indices: 38226879--38227590 Score: 1173
Period size: 192 Copynumber: 3.7 Consensus size: 192
38226869 TTAGGATTCT
* *
38226879 ATGTGATGGATGTGAACA-TGC-ATATATGTGATAAGGCCTAATGTCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAA-AGT-CTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38226942 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGTATA
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA----TATA
38227007 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC-AAT
123 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
38227071 GGCCG
188 GGCCG
* *
38227076 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAA--GTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38227141 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
*
38227206 AAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
129 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
38227270 ATGTGATGAATGTGAAAGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTCAAAG
1 ATGTGATGAATGTGAAAGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38227335 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
38227400 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
131 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
38227462 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * *
38227527 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
38227590 G
131 G
38227591 TCCCGAAGGG
Statistics
Matches: 492, Mismatches: 18, Indels: 17
0.93 0.03 0.03
Matches are distributed among these distances:
190 10 0.02
191 1 0.00
192 280 0.57
193 64 0.13
194 25 0.05
196 1 0.00
197 19 0.04
199 92 0.19
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (192 bp):
ATGTGATGAATGTGAAAGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:38227778 original size:37 final size:37
Alignment explanation
Indices: 38227709--38227787 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
38227699 CCGAGCTCTA
* * * *
38227709 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
*
38227746 AAGACCCGATAACTTCGTATGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
38227783 AAGAC
1 AAGAC
38227788 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
Found at i:38230039 original size:17 final size:19
Alignment explanation
Indices: 38229997--38230040 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38229987 ATGAAATTTT
*
38229997 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
38230016 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
38230034 AA-TATTA
1 AATTATTA
38230041 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:38231143 original size:19 final size:20
Alignment explanation
Indices: 38231102--38231143 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38231092 ATTTTCTTTC
*
38231102 CTTCTCTCTTCTATTCCCCT
1 CTTCTCTCTTCTATTCACCT
*
38231122 CTTCTCTTTTCT-TTCACCT
1 CTTCTCTCTTCTATTCACCT
38231141 CTT
1 CTT
38231144 GCCGATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.05, C:0.40, G:0.00, T:0.55
Consensus pattern (20 bp):
CTTCTCTCTTCTATTCACCT
Found at i:38232473 original size:25 final size:25
Alignment explanation
Indices: 38232444--38232491 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38232434 TTATAATATG
* * *
38232444 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38232469 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38232492 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38232575 original size:11 final size:11
Alignment explanation
Indices: 38232538--38232594 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
38232528 ACATGGTATG
38232538 CATGATATGCA
1 CATGATATGCA
*
38232549 CATGACATG--
1 CATGATATGCA
*
38232558 TATGATATGCA
1 CATGATATGCA
38232569 CATGATATG--
1 CATGATATGCA
* *
38232578 TATGAGATGCA
1 CATGATATGCA
38232589 CATGAT
1 CATGAT
38232595 GTATTCATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
9 14 0.41
11 20 0.59
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (11 bp):
CATGATATGCA
Found at i:38232594 original size:20 final size:20
Alignment explanation
Indices: 38232528--38232594 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
38232518 ATTTTGATAA
* *
38232528 ACATGGTATGCATGATATGC
1 ACATGATATGTATGATATGC
*
38232548 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38232568 ACATGATATGTATGAGATGC
1 ACATGATATGTATGATATGC
38232588 ACATGAT
1 ACATGAT
38232595 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38232717 original size:23 final size:24
Alignment explanation
Indices: 38232644--38232737 Score: 140
Period size: 23 Copynumber: 4.0 Consensus size: 24
38232634 GAGGAAGTGC
38232644 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38232668 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38232691 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38232714 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
38232738 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
23 42 0.65
24 15 0.23
25 8 0.12
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:38232970 original size:31 final size:31
Alignment explanation
Indices: 38232932--38232992 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
38232922 GTTTACAGTA
*
38232932 AAGGCTTCGGCCCAGTAATATGAAATATGAG
1 AAGGCTTCGACCCAGTAATATGAAATATGAG
**
38232963 AAGGCTTCGACCCAGTGTTATGAAATATGA
1 AAGGCTTCGACCCAGTAATATGAAATATGA
38232993 ATTATGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (31 bp):
AAGGCTTCGACCCAGTAATATGAAATATGAG
Found at i:38234180 original size:26 final size:25
Alignment explanation
Indices: 38234147--38234198 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 25
38234137 ATCATATAAG
38234147 AAAATATTTAATATATAAATTTTAAA
1 AAAATATTTAATATATAAA-TTTAAA
38234173 AAAATATTTAATATATAAATTTAAA
1 AAAATATTTAATATATAAATTTAAA
38234198 A
1 A
38234199 CAATCAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAATATTTAATATATAAATTTAAA
Found at i:38234687 original size:40 final size:39
Alignment explanation
Indices: 38234642--38234765 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 39
38234632 TTTTTGCGGC
* *
38234642 GTTTTTGAAAAAGCACCGCTAATACT-ATATCTATAGTGGT
1 GTTTTT-AAAAAGCACCACTAATACTCAT-TCTATAGTGAT
* *
38234682 GTTTTTAAGAAAGCACTACTAATTCTCATTCTATAGTGAT
1 GTTTTTAA-AAAGCACCACTAATACTCATTCTATAGTGAT
** * * *
38234722 GTTTTTCAAAAAGTGCCATTAATGCTCGA-TCTATAGTGGT
1 GTTTTT-AAAAAGCACCACTAATACTC-ATTCTATAGTGAT
38234762 GTTT
1 GTTT
38234766 CTTTTCCAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.03
40 63 0.90
41 5 0.07
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (39 bp):
GTTTTTAAAAAGCACCACTAATACTCATTCTATAGTGAT
Found at i:38244971 original size:46 final size:46
Alignment explanation
Indices: 38244921--38245049 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
38244911 TGGTTGAGCA
*
38244921 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
38244967 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
38245013 CCCGAGCTCATTGAGTTGAGTCCGAATTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38245050 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:38252803 original size:85 final size:87
Alignment explanation
Indices: 38252699--38252873 Score: 257
Period size: 88 Copynumber: 2.0 Consensus size: 87
38252689 ATTGTCCCTT
*
38252699 ATACGAGCCCTCAAGGCT-AAAAAAAC-ATTAGAAACAAGTCAGGATTAAATTAGAAACATACT-
1 ATACGAGCCCTCAAGGCTAAAAAAAACAATTAGAAAAAAGTCAGGATTAAATTAGAAACATA-TA
*
38252761 GAATATTTCATAAAATAATGAAA
65 GAATATTTCAAAAAATAATGAAA
* * *
38252784 ATACGAGCCGTCAATGCTAAAAAAAACATATTAGAAAAAAGTCATGATTAAATTAGAAACATATA
1 ATACGAGCCCTCAAGGCTAAAAAAAACA-ATTAGAAAAAAGTCAGGATTAAATTAGAAACATATA
*
38252849 GAATTTTTCAAAAAATAATGAAA
65 GAATATTTCAAAAAATAATGAAA
38252872 AT
1 AT
38252874 TTTAAAAACT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
85 16 0.20
86 8 0.10
87 1 0.01
88 55 0.69
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (87 bp):
ATACGAGCCCTCAAGGCTAAAAAAAACAATTAGAAAAAAGTCAGGATTAAATTAGAAACATATAG
AATATTTCAAAAAATAATGAAA
Found at i:38254296 original size:48 final size:49
Alignment explanation
Indices: 38254207--38254375 Score: 140
Period size: 48 Copynumber: 3.6 Consensus size: 49
38254197 ATGAGATCCT
* * * * * * *
38254207 GTGTAAGACCATGTCTGAGACATGGCATTGACGTTGATATGTG-TGTGA
1 GTGTAAGACCATATCTGGGATATGGCATCGACATCGATATGTGATGTCA
* * *
38254255 GTGTAAGACCATATCTGGGATATGGCATCGGCATCGGTATGTGATTTCA
1 GTGTAAGACCATATCTGGGATATGGCATCGACATCGATATGTGATGTCA
* * *
38254304 -TGTAAGACCATATTTGGGATATGGCAT-----T-GATATGAGATTTC-
1 GTGTAAGACCATATCTGGGATATGGCATCGACATCGATATGTGATGTCA
* *
38254345 GTGTAAGACCATGTCTGGGACATGGCATCGA
1 GTGTAAGACCATATCTGGGATATGGCATCGA
38254376 TATGAGGTCC
Statistics
Matches: 100, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
42 35 0.35
43 1 0.01
48 61 0.61
49 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (49 bp):
GTGTAAGACCATATCTGGGATATGGCATCGACATCGATATGTGATGTCA
Found at i:38254344 original size:42 final size:42
Alignment explanation
Indices: 38254256--38254404 Score: 136
Period size: 42 Copynumber: 3.4 Consensus size: 42
38254246 TGTGTGTGAG
* *
38254256 TGTAAGACCATATCTGGGATATGGCATCGGCATCGGTATGTGATTTCA
1 TGTAAGACCATATCTGGGATATGGCAT-----T-GATATGAGATTTCA
* *
38254304 TGTAAGACCATATTTGGGATATGGCATTGATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
* * * * ** *
38254346 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGGTCCCG
1 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
*
38254388 TGTAAGACCATGTCTGG
1 TGTAAGACCATATCTGG
38254405 AACATGGAAT
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 63 0.70
43 1 0.01
48 26 0.29
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
Found at i:38254410 original size:42 final size:42
Alignment explanation
Indices: 38254304--38254411 Score: 144
Period size: 42 Copynumber: 2.6 Consensus size: 42
38254294 TGTGATTTCA
* * * * **
38254304 TGTAAGACCATATTTGGGATATGGCATTGATATGAGATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCCG
*
38254346 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGGTCCCG
1 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCCG
*
38254388 TGTAAGACCATGTCTGGAACATGG
1 TGTAAGACCATGTCTGGGACATGG
38254412 AATTGGCACC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCCG
Found at i:38254419 original size:90 final size:90
Alignment explanation
Indices: 38254325--38254511 Score: 196
Period size: 90 Copynumber: 2.1 Consensus size: 90
38254315 ATTTGGGATA
* * * * * * * ** *
38254325 TGGCATTGATATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCGATATG-AGGTCCCGT
1 TGGCATTGACATAAGACTTCATATAAGACCATATCAGGGACATGGCATCGATATGTA-AACCCAT
*
38254389 GTAAGACCATGTCTGGAACATGGAAT
65 GTAAGACCATGTCGGGAACATGGAAT
** * *
38254415 TGGCACCGACATAAGACTTCATATAAGACCATATCAGGGATATGGCATCGGTATGTAAACCCATG
1 TGGCATTGACATAAGACTTCATATAAGACCATATCAGGGACATGGCATCGATATGTAAACCCATG
* **
38254480 TAAGACCATGTCGGGGACATGGCTT
66 TAAGACCATGTCGGGAACATGGAAT
38254505 TGGCATT
1 TGGCATT
38254512 CTATGTGGTG
Statistics
Matches: 76, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
90 75 0.99
91 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (90 bp):
TGGCATTGACATAAGACTTCATATAAGACCATATCAGGGACATGGCATCGATATGTAAACCCATG
TAAGACCATGTCGGGAACATGGAAT
Found at i:38254609 original size:21 final size:22
Alignment explanation
Indices: 38254580--38254620 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38254570 ATTCAAGATT
*
38254580 ATGATTAAGAA-GTAGGGTAGA
1 ATGAGTAAGAATGTAGGGTAGA
*
38254601 ATGAGTAAGAATGTATGGTA
1 ATGAGTAAGAATGTAGGGTA
38254621 CAAGTATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (22 bp):
ATGAGTAAGAATGTAGGGTAGA
Found at i:38262983 original size:319 final size:319
Alignment explanation
Indices: 38262401--38263044 Score: 977
Period size: 319 Copynumber: 2.0 Consensus size: 319
38262391 CTAAGAACCA
* *
38262401 AGTACCTTCAGGATTACTACAGCCTATCATGGTTCCCGAGTGAAAATGGGACTGAATTACCATGA
1 AGTACCTTCAGGATTACTACAGCCAATCATGGTTCCCGAGTGAAAATGGGACCGAATTACCATGA
* * *
38262466 AATTCATAACGGGATTACCTTTGACACCGATTAAGAAAGATGCGGTGTGGGTCGTAGTTGATCGA
66 AATTCATAACGGGATTACATTTGACACCAAGTAAGAAAGATGCGGTGTGGGTCGTAGTTGATCGA
* * * * *
38262531 TTGACAAAGTTGGCTCACTTTATCTCGGTACGTAATAACTACTCGCTTGATAAATTGGCAGAGTT
131 TTGACAAAATTGGCTCAATTTATCTCGGTACATAACAACTACTCGATTGATAAATTGGCAGAGTT
* * * * * *
38262596 ATATATTTTTGAAATTCTGAGACTTCACGGAATACCTTTATCGATTATATCGTATAGAGATTTGA
196 ATATATTTTTGAAATTCTGACACTTCACGAAATACCCTTATCGATCATATCGGATAGAGATCTGA
* * *
38262661 GGTTTACCTCTCAGTTTTGGAAAAAGTTGCAAGAAGCCTTGGGCACGAGATTGAATTTT
261 GGTTTACCTCTCAGTTTTAGAAAAAGTTACAAGAAGCCTTAGGCACGAGATTGAATTTT
*
38262720 AGTACCTTCAGGATTACTACAGCCAATCATGGTTCCCGAGTGGAAATGGGACCGAATTACCATGA
1 AGTACCTTCAGGATTACTACAGCCAATCATGGTTCCCGAGTGAAAATGGGACCGAATTACCATGA
** * * * *
38262785 AATTTGTAATGGGTTTACATTTGACACTAAGTAAGAAAGATGCGGTGTGGGTCGTGGTTGATCGA
66 AATTCATAACGGGATTACATTTGACACCAAGTAAGAAAGATGCGGTGTGGGTCGTAGTTGATCGA
* * * *
38262850 TTGACAAAATCT-GCTCAATTTATCTCTGTACATACCGACTATTCGATTGATAAATTGGCTA-AG
131 TTGACAAAAT-TGGCTCAATTTATCTCGGTACATAACAACTACTCGATTGATAAATTGGC-AGAG
*
38262913 TTATATATTTTTGAAATTGTGACACTTCACGAAATACCCTTATCGATCATATCGGATAGAGATCT
194 TTATATATTTTTGAAATTCTGACACTTCACGAAATACCCTTATCGATCATATCGGATAGAGATCT
38262978 GAGGTTTACCTCTCAGTTTTAGAAAAAGTTACAAGAAGCCTTAGGCACGAGATTGAATTTT
259 GAGGTTTACCTCTCAGTTTTAGAAAAAGTTACAAGAAGCCTTAGGCACGAGATTGAATTTT
38263039 AGTACC
1 AGTACC
38263045 ACCTTTCATC
Statistics
Matches: 292, Mismatches: 31, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
319 290 0.99
320 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (319 bp):
AGTACCTTCAGGATTACTACAGCCAATCATGGTTCCCGAGTGAAAATGGGACCGAATTACCATGA
AATTCATAACGGGATTACATTTGACACCAAGTAAGAAAGATGCGGTGTGGGTCGTAGTTGATCGA
TTGACAAAATTGGCTCAATTTATCTCGGTACATAACAACTACTCGATTGATAAATTGGCAGAGTT
ATATATTTTTGAAATTCTGACACTTCACGAAATACCCTTATCGATCATATCGGATAGAGATCTGA
GGTTTACCTCTCAGTTTTAGAAAAAGTTACAAGAAGCCTTAGGCACGAGATTGAATTTT
Found at i:38265188 original size:48 final size:49
Alignment explanation
Indices: 38265073--38265238 Score: 151
Period size: 48 Copynumber: 3.4 Consensus size: 49
38265063 CCTGTATAAA
* * * * *
38265073 ACCATGTCTGGGACATGGCATC-AGCATCCGAGATGAGA-GCCAGTGTAAG
1 ACCATATCTGGGATATGGCATCGA-CAT-CGATATGTGATGCAAGTGTAAG
* * * *
38265122 ACCATGTCTGGGACATGGCATCGACGTTGATATGTG-TGCAAGTGTAAG
1 ACCATATCTGGGATATGGCATCGACATCGATATGTGATGCAAGTGTAAG
* * * ***
38265170 ACCATATATGGGATATGGCATCGGCATCGGTATGTGATTTTA-TGTAAG
1 ACCATATCTGGGATATGGCATCGACATCGATATGTGATGCAAGTGTAAG
38265218 ACCATATCTGGGATATGGCAT
1 ACCATATCTGGGATATGGCAT
38265239 TGATATGAGG
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
48 71 0.72
49 26 0.27
50 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (49 bp):
ACCATATCTGGGATATGGCATCGACATCGATATGTGATGCAAGTGTAAG
Found at i:38265259 original size:42 final size:42
Alignment explanation
Indices: 38265212--38265324 Score: 181
Period size: 42 Copynumber: 2.7 Consensus size: 42
38265202 TGTGATTTTA
*
38265212 TGTAAGACCATATCTGGGATATGGCATTGATATGAGGTCTCG
1 TGTAAGACCATGTCTGGGATATGGCATTGATATGAGGTCTCG
* **
38265254 TGTAAGACCATGTCTGGGACATGGCATCAATATGAGGTCTCG
1 TGTAAGACCATGTCTGGGATATGGCATTGATATGAGGTCTCG
*
38265296 TGTAAGACCATGTCTAGGATATGGCATTG
1 TGTAAGACCATGTCTGGGATATGGCATTG
38265325 GCACCGACAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGATATGGCATTGATATGAGGTCTCG
Found at i:38270521 original size:27 final size:27
Alignment explanation
Indices: 38270491--38270690 Score: 283
Period size: 27 Copynumber: 7.4 Consensus size: 27
38270481 GGGGAAAAAT
* * * *
38270491 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38270518 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
38270545 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
38270572 GGTAATTCTATCATACAGGCATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38270599 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
38270626 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38270653 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38270680 GGTAATTCTAC
1 GGTAATTCTAC
38270691 AACTTATCCA
Statistics
Matches: 152, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:38272479 original size:46 final size:45
Alignment explanation
Indices: 38272412--38272587 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
38272402 TGTAACCCGC
*
38272412 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCAT
* * *
38272458 CCATAAGTGAAATCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCAT
* * * * * *
38272508 --TTCA-CGAATTCGGACTCAACTCAATGAGTTTGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACA-TTGCAT
38272551 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38272588 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 60 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
Found at i:38283499 original size:41 final size:41
Alignment explanation
Indices: 38283434--38283518 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
38283424 GGTCTACATC
38283434 CACAAGCATGTGAAATAGCAACACGACCATGTTCTAGGCCA
1 CACAAGCATGTGAAATAGCAACACGACCATGTTCTAGGCCA
* * *
38283475 CACAGGCATGT-AAAGTAGCCACACGACCATGTTCTGGGCCA
1 CACAAGCATGTGAAA-TAGCAACACGACCATGTTCTAGGCCA
38283516 CAC
1 CAC
38283519 GGTCTAGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 3 0.08
41 37 0.93
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.16
Consensus pattern (41 bp):
CACAAGCATGTGAAATAGCAACACGACCATGTTCTAGGCCA
Found at i:38286682 original size:45 final size:45
Alignment explanation
Indices: 38286558--38286688 Score: 176
Period size: 45 Copynumber: 2.9 Consensus size: 45
38286548 AAAGACCTCG
* * *
38286558 ACCCACTATCAAGAATGATAGGAACC-CTGGTATATGATG-ACCTCG
1 ACCCACTATCAAGAATGATAGGAACCTC-GGTATA-AATGAATCTCA
* *
38286603 ACCCACTATCAAGGATGATAGGAACCTCGATATAAATGAATCTCA
1 ACCCACTATCAAGAATGATAGGAACCTCGGTATAAATGAATCTCA
*
38286648 ATCCACTATCAAGAATGATAGGAACCTCGGTATAAATGAAT
1 ACCCACTATCAAGAATGATAGGAACCTCGGTATAAATGAAT
38286689 GCCACACTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 3 0.04
45 72 0.95
46 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (45 bp):
ACCCACTATCAAGAATGATAGGAACCTCGGTATAAATGAATCTCA
Found at i:38289286 original size:50 final size:52
Alignment explanation
Indices: 38289230--38289326 Score: 153
Period size: 50 Copynumber: 1.9 Consensus size: 52
38289220 AATAAAGTTG
* *
38289230 TGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCAT-AATAAATTATGACA
1 TGCATTATGTAACTCCCATGTTAGTTAAAGTCTGCATCAATAAATTATGACA
*
38289280 TGCATTATGTAACTCCCATGTTAGTTAAAGTCTGCATCATTAAATTA
1 TGCATTATGTAACTCCCATGTTAGTTAAAGTCTGCATCAATAAATTA
38289327 AGTCATACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 25 0.60
51 9 0.21
52 8 0.19
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (52 bp):
TGCATTATGTAACTCCCATGTTAGTTAAAGTCTGCATCAATAAATTATGACA
Found at i:38289344 original size:52 final size:50
Alignment explanation
Indices: 38289238--38289346 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 50
38289228 TGTGCATTAT
* * * * * *
38289238 GTAACTCTCATGTTAGTTAAGTTTGCATAATAAATTATGACATGCATTAT
1 GTAACTCCCATGTTAGTTAAGTCTGCATAATAAATTAAGACATACAATAA
* *
38289288 GTAACTCCCATGTTAGTTAAAGTCTGCATCATTAAATTAAGTCATACAATAA
1 GTAACTCCCATGTTAGTT-AAGTCTGCAT-AATAAATTAAGACATACAATAA
38289340 GTAACTC
1 GTAACTC
38289347 ATTTGTTCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 17 0.35
51 9 0.18
52 23 0.47
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (50 bp):
GTAACTCCCATGTTAGTTAAGTCTGCATAATAAATTAAGACATACAATAA
Found at i:38304172 original size:93 final size:93
Alignment explanation
Indices: 38304060--38304230 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
38304050 GCCCATAAGT
* *
38304060 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38304125 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
38304153 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38304218 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38304231 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:38304227 original size:46 final size:46
Alignment explanation
Indices: 38304052--38304227 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38304042 TGTAACCCGC
* * *
38304052 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38304098 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
38304148 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
38304191 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38304228 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38304687 original size:30 final size:30
Alignment explanation
Indices: 38304653--38304712 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38304643 ATTCAATATG
38304653 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
38304683 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
38304713 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:38314777 original size:41 final size:41
Alignment explanation
Indices: 38314712--38314796 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
38314702 GGTCTACATC
38314712 CACAAGCATGTGAAATAGCAACACGACCATGTTCTAGGCCA
1 CACAAGCATGTGAAATAGCAACACGACCATGTTCTAGGCCA
* * *
38314753 CACAGGCATGT-AAAGTAGCCACACGACCATGTTCTGGGCCA
1 CACAAGCATGTGAAA-TAGCAACACGACCATGTTCTAGGCCA
38314794 CAC
1 CAC
38314797 GGTCTAGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 3 0.08
41 37 0.93
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.16
Consensus pattern (41 bp):
CACAAGCATGTGAAATAGCAACACGACCATGTTCTAGGCCA
Found at i:38317973 original size:45 final size:45
Alignment explanation
Indices: 38317873--38318004 Score: 185
Period size: 45 Copynumber: 2.9 Consensus size: 45
38317863 AAAGACCTCG
* * *
38317873 ACCCACTATCAAGAATGATAGGAACC-CTGGTATATGATGAACCTCG
1 ACCCACTATCAAGAATGATAGGAACCTC-GGTATA-AATGAATCTCA
* *
38317919 ACCCACTATCAAGGATGATAGGAACCTCGATATAAATGAATCTCA
1 ACCCACTATCAAGAATGATAGGAACCTCGGTATAAATGAATCTCA
*
38317964 ATCCACTATCAAGAATGATAGGAACCTCGGTATAAATGAAT
1 ACCCACTATCAAGAATGATAGGAACCTCGGTATAAATGAAT
38318005 GCCACACTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
45 46 0.60
46 30 0.39
47 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (45 bp):
ACCCACTATCAAGAATGATAGGAACCTCGGTATAAATGAATCTCA
Found at i:38320634 original size:50 final size:52
Alignment explanation
Indices: 38320578--38320674 Score: 153
Period size: 50 Copynumber: 1.9 Consensus size: 52
38320568 AATAAAGTTG
* *
38320578 TGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCAT-AATAAATTATGACA
1 TGCATTATGTAACTCCCATGTTAGTTAAAGTCTGCATCAATAAATTATGACA
*
38320628 TGCATTATGTAACTCCCATGTTAGTTAAAGTCTGCATCATTAAATTA
1 TGCATTATGTAACTCCCATGTTAGTTAAAGTCTGCATCAATAAATTA
38320675 AGTCATACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 25 0.60
51 9 0.21
52 8 0.19
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (52 bp):
TGCATTATGTAACTCCCATGTTAGTTAAAGTCTGCATCAATAAATTATGACA
Found at i:38320692 original size:52 final size:50
Alignment explanation
Indices: 38320586--38320694 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 50
38320576 TGTGCATTAT
* * * * * *
38320586 GTAACTCTCATGTTAGTTAAGTTTGCATAATAAATTATGACATGCATTAT
1 GTAACTCCCATGTTAGTTAAGTCTGCATAATAAATTAAGACATACAATAA
* *
38320636 GTAACTCCCATGTTAGTTAAAGTCTGCATCATTAAATTAAGTCATACAATAA
1 GTAACTCCCATGTTAGTT-AAGTCTGCAT-AATAAATTAAGACATACAATAA
38320688 GTAACTC
1 GTAACTC
38320695 ATTTGTTCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 17 0.35
51 9 0.18
52 23 0.47
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (50 bp):
GTAACTCCCATGTTAGTTAAGTCTGCATAATAAATTAAGACATACAATAA
Found at i:38326259 original size:15 final size:15
Alignment explanation
Indices: 38326239--38326282 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
38326229 TTTTTTTATT
38326239 TTTTTTTTAATTTTC
1 TTTTTTTTAATTTTC
**
38326254 TTTTTTCGAATTTTC
1 TTTTTTTTAATTTTC
*
38326269 TTTTTTTTTATTTT
1 TTTTTTTTAATTTT
38326283 TTTAACTTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTTTAATTTTC
Found at i:38327995 original size:40 final size:40
Alignment explanation
Indices: 38327950--38328258 Score: 476
Period size: 40 Copynumber: 7.8 Consensus size: 40
38327940 CAAGCTCAAT
* * * *
38327950 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
38327990 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* * *
38328030 TACCTTTGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
38328070 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
38328110 TGCCTTCGGGT-TTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
38328149 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
38328189 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* * *
38328229 TGCCTTCGGGTTTTCGCCCAGATATATCAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA
38328259 TTGCTCATGC
Statistics
Matches: 250, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
39 39 0.16
40 211 0.84
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:38328203 original size:159 final size:160
Alignment explanation
Indices: 38327950--38328258 Score: 512
Period size: 159 Copynumber: 1.9 Consensus size: 160
38327940 CAAGCTCAAT
* *
38327950 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* * *
38328015 ATCAACTTGCACAATTACCTTTGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGG
66 ATCAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGG
*
38328080 TTTTAGCCCGGATATATCAACTCGCACAAA
131 TTTTAGCCCAGATATATCAACTCGCACAAA
* * *
38328110 TGCCTTCGGGT-TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTTTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
*
38328174 ATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGG
66 ATCAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGG
*
38328239 TTTTCGCCCAGATATATCAA
131 TTTTAGCCCAGATATATCAA
38328259 TTGCTCATGC
Statistics
Matches: 138, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
159 127 0.92
160 11 0.08
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (160 bp):
TGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGG
TTTTAGCCCAGATATATCAACTCGCACAAA
Found at i:38336164 original size:40 final size:40
Alignment explanation
Indices: 38336119--38336427 Score: 476
Period size: 40 Copynumber: 7.8 Consensus size: 40
38336109 CAAGCTCAAT
* * * * *
38336119 TGCCTTCGGGTCTTAACCCGGGTACAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
38336159 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
38336199 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
38336239 TGCCTTCGGGT-TTAGCCCGGATATATCAACTCGTACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
38336278 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
38336318 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
38336358 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* **
38336398 TGCCTTCGGGTTTTAGCCTAGATATATCAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA
38336428 TTGCTCATGC
Statistics
Matches: 252, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 37 0.15
40 215 0.85
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:38336326 original size:159 final size:160
Alignment explanation
Indices: 38336119--38336427 Score: 512
Period size: 159 Copynumber: 1.9 Consensus size: 160
38336109 CAAGCTCAAT
* *
38336119 TGCCTTCGGGTCTTAACCCGGGTACAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATACAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* *
38336184 ATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGG
66 ATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGG
*
38336249 -TTTAGCCCGGATATATCAACTCGTACAAA
131 TTTTAGCCCAGATATATCAACTCGTACAAA
* * * * *
38336278 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTTTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATACAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
38336343 ATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGG
66 ATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGG
*
38336408 TTTTAGCCTAGATATATCAA
131 TTTTAGCCCAGATATATCAA
38336428 TTGCTCATGC
Statistics
Matches: 138, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
159 121 0.88
160 17 0.12
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (160 bp):
TGCCTTCGGGTCTTAACCCGGATACAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGG
TTTTAGCCCAGATATATCAACTCGTACAAA
Found at i:38338163 original size:14 final size:14
Alignment explanation
Indices: 38338116--38338163 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
38338106 GTACGAATGG
*
38338116 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
38338130 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
38338144 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
38338158 ATTGGT
1 AATGGT
38338164 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:38341960 original size:23 final size:22
Alignment explanation
Indices: 38341908--38341960 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38341898 TCCACGTCTT
*
38341908 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38341930 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38341953 TTTCTTTT
1 TTTCTTTT
38341961 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38346844 original size:30 final size:29
Alignment explanation
Indices: 38346749--38346845 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 29
38346739 AGCTCACTCC
* *
38346749 TAGCTC-ACTTTCAACTCACGAGGTAAACCT
1 TAGCTCAACTTT-AGCTCACGA-GTAAAGCT
* * * **
38346779 TAGCTCAACTTCAGCTTAAGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGTAAAG-CT
*
38346809 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAG-TAAAGCT
38346839 TAGCTCA
1 TAGCTCA
38346846 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 3 0.06
30 40 0.80
31 7 0.14
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
TAGCTCAACTTTAGCTCACGAGTAAAGCT
Found at i:38349006 original size:22 final size:22
Alignment explanation
Indices: 38348976--38349019 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
38348966 TTTGGTATTT
*
38348976 GGGAATTGGTATGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
38348998 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
38349020 TGGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.36, T:0.27
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:38356229 original size:15 final size:15
Alignment explanation
Indices: 38356209--38356256 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
38356199 TCAAAGATGG
38356209 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
38356224 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
38356238 GTTTATGGATATAAA
1 GTTTATGGATATGAA
38356253 GTTT
1 GTTT
38356257 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:38356243 original size:14 final size:14
Alignment explanation
Indices: 38356203--38356246 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
38356193 AAGGATTCAA
38356203 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
38356217 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
38356232 AGATGGGTTTATGG
1 AGATGGGTTTATGG
38356246 A
1 A
38356247 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:38356272 original size:29 final size:29
Alignment explanation
Indices: 38356203--38356262 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
38356193 AAGGATTCAA
*
38356203 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
38356232 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
38356261 AG
1 AG
38356263 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:38356930 original size:13 final size:14
Alignment explanation
Indices: 38356897--38356941 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
38356887 TTAAAGAAGC
38356897 AACTCATTAAATTA
1 AACTCATTAAATTA
*
38356911 AATTCATTAAA-TA
1 AACTCATTAAATTA
* *
38356924 AACTCATTTATTTA
1 AACTCATTAAATTA
38356938 AACT
1 AACT
38356942 AAGATGAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:38356988 original size:42 final size:42
Alignment explanation
Indices: 38356924--38357029 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
38356914 TCATTAAATA
38356924 AACTCATTTATTTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTTA-TTAAACTAAGATGAGTTGTATTAATGACCAGC
38356967 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
38357009 AACTCATTTATTAAACTAAGA
1 AACTCATTTATTAAACTAAGA
38357030 GGCTTAAATG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 53 0.84
43 10 0.16
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (42 bp):
AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
Found at i:38357491 original size:10 final size:10
Alignment explanation
Indices: 38357476--38357502 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38357466 TAAGTTGAAG
38357476 TTGAGCTGAT
1 TTGAGCTGAT
38357486 TTGAGCTGAT
1 TTGAGCTGAT
38357496 TTGAGCT
1 TTGAGCT
38357503 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:38357963 original size:18 final size:17
Alignment explanation
Indices: 38357929--38357963 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
38357919 TTACAACTTG
*
38357929 ATTTTTTTTAATTCGAA
1 ATTTTTTTTAATACGAA
38357946 ATTTTTTTTAACTACGAA
1 ATTTTTTTTAA-TACGAA
38357964 CCTATTTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (17 bp):
ATTTTTTTTAATACGAA
Found at i:38358602 original size:18 final size:20
Alignment explanation
Indices: 38358560--38358604 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
38358550 ATAGTCCATT
38358560 CATGAACTTAATGATTAAGTA
1 CATGAACTTAA-GATTAAGTA
38358581 -ATGAACTTAA-ATTAAG-A
1 CATGAACTTAAGATTAAGTA
38358598 CATGAAC
1 CATGAAC
38358605 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 12 0.52
20 10 0.43
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (20 bp):
CATGAACTTAAGATTAAGTA
Found at i:38359334 original size:10 final size:10
Alignment explanation
Indices: 38359321--38359355 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
38359311 AAGCTCGGTT
38359321 GAGCTCAAAC
1 GAGCTCAAAC
*
38359331 GAGCTGAAAC
1 GAGCTCAAAC
*
38359341 GAGCTCAAAT
1 GAGCTCAAAC
38359351 GAGCT
1 GAGCT
38359356 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:38359364 original size:20 final size:20
Alignment explanation
Indices: 38359318--38359365 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
38359308 AGTAAGCTCG
38359318 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
38359338 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
38359358 GTTGAGCT
1 GTTGAGCT
38359366 GGACAGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:38359394 original size:20 final size:20
Alignment explanation
Indices: 38359347--38359395 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
38359337 AAACGAGCTC
38359347 AAATGAGCTGAGTTGAGCTGG
1 AAATGAGCTGAG-TGAGCTGG
*
38359368 ACA-GAGCTCGAG-GAGCTGG
1 AAATGAGCT-GAGTGAGCTGG
38359387 AAATGAGCT
1 AAATGAGCT
38359396 AGGATCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (20 bp):
AAATGAGCTGAGTGAGCTGG
Found at i:38361883 original size:22 final size:22
Alignment explanation
Indices: 38361858--38361900 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38361848 GACTTATGGA
*
38361858 AATTCA-ATCTTGATAATTCGAC
1 AATTCAGATC-TGACAATTCGAC
38361880 AATTCAGATCTGACAATTCGA
1 AATTCAGATCTGACAATTCGA
38361901 GAAGCGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (22 bp):
AATTCAGATCTGACAATTCGAC
Found at i:38366726 original size:20 final size:20
Alignment explanation
Indices: 38366680--38366727 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
38366670 AGTAAGCTCG
*
38366680 GTTGAGTTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
38366700 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
38366720 GTTGAGCT
1 GTTGAGCT
38366728 GGACAGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:38366756 original size:20 final size:20
Alignment explanation
Indices: 38366709--38366757 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
38366699 AAACGAGCTC
38366709 AAATGAGCTGAGTTGAGCTGG
1 AAATGAGCTGAG-TGAGCTGG
*
38366730 ACA-GAGCTCGAG-GAGCTGG
1 AAATGAGCT-GAGTGAGCTGG
38366749 AAATGAGCT
1 AAATGAGCT
38366758 AGGATCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (20 bp):
AAATGAGCTGAGTGAGCTGG
Found at i:38368337 original size:18 final size:19
Alignment explanation
Indices: 38368314--38368352 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
38368304 TTTATCTCAA
*
38368314 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
38368332 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
38368351 TT
1 TT
38368353 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:38368391 original size:18 final size:16
Alignment explanation
Indices: 38368370--38368417 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
38368360 AAACTCTTTT
38368370 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTC-A-C
*
38368388 TCATTTTCTTTTTCAC
1 TCATTCTCTTTTTCAC
*
38368404 TCACTCTCTTTTTC
1 TCATTCTCTTTTTC
38368418 TTTTTCTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 13 0.48
17 1 0.04
18 13 0.48
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.58
Consensus pattern (16 bp):
TCATTCTCTTTTTCAC
Found at i:38368478 original size:42 final size:42
Alignment explanation
Indices: 38368429--38368517 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
38368419 TTTTCTTTAA
* * *
38368429 TTTCTTTGTTTCTTTTCTCGATTTCATTCAAGATTCTCTCAT
1 TTTCTTTGTTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
38368471 TTTCTTTGTTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
1 TTTCTTTGTTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
38368513 TTTCT
1 TTTCT
38368518 CTCATAATCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.15, C:0.24, G:0.06, T:0.56
Consensus pattern (42 bp):
TTTCTTTGTTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
Found at i:38368495 original size:21 final size:21
Alignment explanation
Indices: 38368428--38368495 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
38368418 TTTTTCTTTA
*
38368428 ATTTCTTTGTTTCTTTTCTCG
1 ATTTCTTTGTTTCTTCTCTCG
* *****
38368449 ATTTCATTCAAGATTCTCTC-
1 ATTTCTTTGTTTCTTCTCTCG
38368469 ATTTTCTTTGTTTCTTCTCTCG
1 A-TTTCTTTGTTTCTTCTCTCG
38368491 ATTTC
1 ATTTC
38368496 ATTCAAAATC
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.07, T:0.59
Consensus pattern (21 bp):
ATTTCTTTGTTTCTTCTCTCG
Found at i:38370986 original size:20 final size:20
Alignment explanation
Indices: 38370940--38370987 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
38370930 AGTAAGCTCG
*
38370940 GTTGAGTTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
***
38370960 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
38370980 GTTGAGCT
1 GTTGAGCT
38370988 GGACAAAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (20 bp):
GTTGAGCTCAAATGAGCTGA
Found at i:38377184 original size:50 final size:52
Alignment explanation
Indices: 38377071--38377191 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 52
38377061 ATGAACAAAT
* * * *
38377071 GAGTTACTTATTGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
* *
38377123 GAGTTAAATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
38377173 GAGTTACATAATGCATGAC
1 GAGTTACATAATGCATGAC
38377192 TTTATTAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 29 0.48
51 11 0.18
52 21 0.34
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:38377308 original size:39 final size:39
Alignment explanation
Indices: 38377210--38377335 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
38377200 ATGCAGAACA
* * *
38377210 CATATTAATGATGTTCAAATTATGACTTAATTAAAGACT
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
* *
38377249 CATTGCTAATGATGTTCAAACTATGACATAATTAATGACT
1 CA-TACTAATGATGTTCAAACTATGACATAATTAAAGACT
* *
38377289 CATACTAATGATGTTCAAACTACGACATAATTAAAGACA
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
*
38377328 CAAACTAA
1 CATACTAA
38377336 AATAACTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
39 42 0.55
40 34 0.45
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (39 bp):
CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
Found at i:38379053 original size:21 final size:20
Alignment explanation
Indices: 38379016--38379054 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38379006 GCTTTTTCAA
* *
38379016 TTTTTTTTCTTTCATTTCTC
1 TTTTTCTTCTCTCATTTCTC
38379036 TTTTTCTTCTCTCAATTTC
1 TTTTTCTTCTCTC-ATTTC
38379055 ATTCCATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTCTTCTCTCATTTCTC
Found at i:38382119 original size:43 final size:43
Alignment explanation
Indices: 38382071--38382397 Score: 528
Period size: 43 Copynumber: 7.6 Consensus size: 43
38382061 CCGGCATTAC
* * *
38382071 GCCTGCTAGGCACGAAGGCCCGAATATACGTCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
38382114 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGACATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
38382157 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
38382200 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCAGGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
38382243 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
38382286 GCCTGCTAGGCACGAAGTCCCGAATACACATCTCCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
38382329 GCCTCCTAAGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
38382372 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
38382398 TAATACCAGC
Statistics
Matches: 263, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 263 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:38382438 original size:38 final size:38
Alignment explanation
Indices: 38382390--38382497 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
38382380 GGCACGAAGG
* * * *
38382390 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
38382428 CCCTGATATAATACCAGCTCGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
38382466 CCCGGATATTTTACCAGCACGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG
38382498 TCTTTAAGCT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:38386945 original size:29 final size:29
Alignment explanation
Indices: 38386806--38386932 Score: 211
Period size: 29 Copynumber: 4.4 Consensus size: 29
38386796 TACATACATG
* *
38386806 CATATGGCCCACTAGGCCC-AATCACATT
1 CATATGGCCCATTAGGCCCAAATCACGTT
*
38386834 CATATGGCCCATTAGGCCCAAATCATGTT
1 CATATGGCCCATTAGGCCCAAATCACGTT
38386863 CATATGGCCCATTAGGCCCAAATCACGTT
1 CATATGGCCCATTAGGCCCAAATCACGTT
*
38386892 TATATGGCCCATTAGGCCCAAATCACGTT
1 CATATGGCCCATTAGGCCCAAATCACGTT
38386921 CATATGGCCCAT
1 CATATGGCCCAT
38386933 CCAGCCCGAA
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 18 0.20
29 74 0.80
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACGTT
Found at i:38386945 original size:58 final size:58
Alignment explanation
Indices: 38386806--38386949 Score: 206
Period size: 58 Copynumber: 2.5 Consensus size: 58
38386796 TACATACATG
*
38386806 CATATGGCCCA-CTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCATGTT
1 CATATGGCCCATCTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACGTT
* *
38386863 CATATGGCCCAT-TAGGCCCAAATCACGTTTATATGGCCCATTAGGCCCAAATCACGTT
1 CATATGGCCCATCTAGGCCC-AATCACATTCATATGGCCCATTAGGCCCAAATCACGTT
*
38386921 CATATGGCCCATCCA-GCCCGAATCA-ATTC
1 CATATGGCCCATCTAGGCCC-AATCACATTC
38386950 CAAGCCATGT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
57 20 0.26
58 56 0.73
59 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (58 bp):
CATATGGCCCATCTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACGTT
Found at i:38389214 original size:52 final size:51
Alignment explanation
Indices: 38389120--38389278 Score: 153
Period size: 50 Copynumber: 3.1 Consensus size: 51
38389110 TAAATGCATG
* * * * * *
38389120 TTTAA-GATGTAAACTAAACGAACA-AATGAGTTACTTATTGCATGACTTCA
1 TTTAATGATGCAAACTAAACTAACATGA-GAGTTACATAATGCATGACTTAA
* * * * *
38389170 TTTAATGATGCAAAATTTAACTAACATGGGAGTTACATAATGCATGTCATAA
1 TTTAATGATGC-AAACTAAACTAACATGAGAGTTACATAATGCATGACTTAA
* *
38389222 TTT-ATGATGCAAACTAAACTAACATGATAGTTACATAATGCATGACTTTA
1 TTTAATGATGCAAACTAAACTAACATGAGAGTTACATAATGCATGACTTAA
*
38389272 TTAAATG
1 TTTAATG
38389279 TAGAACACCT
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
50 40 0.47
51 14 0.16
52 32 0.37
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (51 bp):
TTTAATGATGCAAACTAAACTAACATGAGAGTTACATAATGCATGACTTAA
Found at i:38389371 original size:39 final size:39
Alignment explanation
Indices: 38389291--38389371 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
38389281 GAACACCTAA
* ** *
38389291 TAATGATGTTCAAACTATGATATAATTAAAGACTCATAC
1 TAATGATGTTCAAACTATGACATAATTAAAGAAACAAAC
38389330 TAATGATGTTCAAACTATGACATAATTAAAGAAACAAAC
1 TAATGATGTTCAAACTATGACATAATTAAAGAAACAAAC
38389369 TAA
1 TAA
38389372 AATAACATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (39 bp):
TAATGATGTTCAAACTATGACATAATTAAAGAAACAAAC
Found at i:38389947 original size:11 final size:11
Alignment explanation
Indices: 38389931--38389955 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38389921 GTCTAACCTT
38389931 AAAACGAATAC
1 AAAACGAATAC
38389942 AAAACGAATAC
1 AAAACGAATAC
38389953 AAA
1 AAA
38389956 GCAAGCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAACGAATAC
Found at i:38390525 original size:56 final size:55
Alignment explanation
Indices: 38390409--38390526 Score: 150
Period size: 55 Copynumber: 2.1 Consensus size: 55
38390399 TGCATGCTTT
* * * * *
38390409 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGCTTTGCTGCA
*
38390463 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGCCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATG-CTTTGCTGCA
38390519 CATTAAAT
1 CATTAAAT
38390527 CAGCAAGCAG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 3 0.06
55 27 0.50
56 24 0.44
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGCTTTGCTGCA
Found at i:38391175 original size:20 final size:20
Alignment explanation
Indices: 38391150--38391204 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
38391140 ACGAGTTAAA
* *
38391150 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
38391170 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
38391190 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
38391205 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:38392118 original size:16 final size:15
Alignment explanation
Indices: 38392092--38392121 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38392082 TTTCAATCCA
38392092 TCATCCCAATCAAAG
1 TCATCCCAATCAAAG
38392107 TCATCACCAATCAAA
1 TCATC-CCAATCAAA
38392122 AATTGATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
TCATCCCAATCAAAG
Found at i:38393574 original size:7 final size:8
Alignment explanation
Indices: 38393562--38393591 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
38393552 AGACTTTTCA
38393562 CTTTTTTT
1 CTTTTTTT
38393570 CTTTTTTTT
1 C-TTTTTTT
38393579 CTTTTTTT
1 CTTTTTTT
38393587 CTTTT
1 CTTTT
38393592 AACTCGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
CTTTTTTT
Found at i:38393575 original size:9 final size:9
Alignment explanation
Indices: 38393563--38393591 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
38393553 GACTTTTCAC
38393563 TTTTTTTCT
1 TTTTTTTCT
38393572 TTTTTTTC-
1 TTTTTTTCT
38393580 TTTTTTTCT
1 TTTTTTTCT
38393589 TTT
1 TTT
38393592 AACTCGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:38393641 original size:14 final size:13
Alignment explanation
Indices: 38393600--38393644 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
38393590 TTAACTCGAA
*
38393600 TTTTTTTGTCACTT
1 TTTTTTTTTCA-TT
*
38393614 CTTTTTTTTC-TT
1 TTTTTTTTTCATT
38393626 TTTTTTTTTCATT
1 TTTTTTTTTCATT
38393639 TTTTTT
1 TTTTTT
38393645 CGAATTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.41
13 8 0.30
14 8 0.30
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTCATT
Found at i:38394328 original size:11 final size:11
Alignment explanation
Indices: 38394312--38394336 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38394302 GTCTAACCTT
38394312 AAAACGAATAC
1 AAAACGAATAC
38394323 AAAACGAATAC
1 AAAACGAATAC
38394334 AAA
1 AAA
38394337 GCAAGCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAACGAATAC
Found at i:38394906 original size:56 final size:55
Alignment explanation
Indices: 38394790--38394907 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
38394780 TGCATGCTTT
* * * *
38394790 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
38394844 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
38394900 CATTAAAT
1 CATTAAAT
38394908 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:38395556 original size:20 final size:20
Alignment explanation
Indices: 38395531--38395585 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
38395521 ACGAGTTAAA
* *
38395531 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
38395551 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
38395571 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
38395586 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Done.