Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 401 of 770
Found at i:123298906 original size:18 final size:18
Alignment explanation
Indices: 123298880--123298914 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
123298870 GCGATGTGCC
123298880 AAACAATTTTAATGCTTG
1 AAACAATTTTAATGCTTG
* *
123298898 AAACCATTTTGATGCTT
1 AAACAATTTTAATGCTT
123298915 CCTATTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (18 bp):
AAACAATTTTAATGCTTG
Found at i:123301725 original size:43 final size:43
Alignment explanation
Indices: 123301663--123301747 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
123301653 ATGTGATTTT
** * *
123301663 GATATGTGTTTACAAGTAAGACCCCGTCTGGGACAG-TGGCATC
1 GATATGTGACTACAAGTAAGACCACGTCCGGGAC-GTTGGCATC
*
123301706 GATATGTGACTACATGTAAGACCACGTCCGGGACGTTGGCAT
1 GATATGTGACTACAAGTAAGACCACGTCCGGGACGTTGGCAT
123301748 TGTACGACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (43 bp):
GATATGTGACTACAAGTAAGACCACGTCCGGGACGTTGGCATC
Found at i:123303849 original size:24 final size:24
Alignment explanation
Indices: 123303817--123303868 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
123303807 ATAAGTTAGT
123303817 TTTTCTTGGTCCTTTTTATTTATG
1 TTTTCTTGGTCCTTTTTATTTATG
123303841 TTTTCTTGGTCCTTTTTATTTATG
1 TTTTCTTGGTCCTTTTTATTTATG
123303865 TTTT
1 TTTT
123303869 GGTTATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.08, C:0.12, G:0.12, T:0.69
Consensus pattern (24 bp):
TTTTCTTGGTCCTTTTTATTTATG
Found at i:123303877 original size:21 final size:23
Alignment explanation
Indices: 123303818--123303882 Score: 80
Period size: 24 Copynumber: 2.9 Consensus size: 23
123303808 TAAGTTAGTT
*
123303818 TTTCTTGGTCCTTTTTATTTATG
1 TTTCTTGGTCATTTTTATTTATG
*
123303841 TTTTCTTGGTCCTTTTTATTTATG
1 -TTTCTTGGTCATTTTTATTTATG
*
123303865 -TT-TTGGTTATTTTTATTT
1 TTTCTTGGTCATTTTTATTT
123303883 CTATTGTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 14 0.36
22 2 0.05
24 23 0.59
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.69
Consensus pattern (23 bp):
TTTCTTGGTCATTTTTATTTATG
Found at i:123305457 original size:40 final size:40
Alignment explanation
Indices: 123305413--123305591 Score: 190
Period size: 40 Copynumber: 4.5 Consensus size: 40
123305403 GCTACTCGTT
*
123305413 CAAATGCCTTCGGGACATAGACCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGTTATAGTAACTCGCA
123305453 CAAATGCCTTCGGGACTTA-ACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGA-CCGG-TTATAGTAACTCGCA
* * * *
123305493 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGTTA-TAGTAACTCGCA
* * * *
123305532 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGACCGGTTATAGTAAC-TCGCA
123305573 CAAA-GCCTTCGGGACTTAG
1 CAAATGCCTTCGGGACTTAG
123305592 CCCGAACATC
Statistics
Matches: 118, Mismatches: 11, Indels: 20
0.79 0.07 0.13
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 72 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGACCGGTTATAGTAACTCGCA
Found at i:123305531 original size:79 final size:80
Alignment explanation
Indices: 123305415--123305595 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
123305405 TACTCGTTCA
* * *
123305415 AATGCCTTCGGGACATAGACCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
123305479 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
* **
123305495 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAGCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
123305558 TATAGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
123305574 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
123305596 AACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 58 0.67
80 25 0.29
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:123306736 original size:58 final size:58
Alignment explanation
Indices: 123306640--123306751 Score: 147
Period size: 58 Copynumber: 1.9 Consensus size: 58
123306630 ATGAAAAAAA
123306640 AAAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
** ***
123306698 AAAAGAAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAGAAAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
123306752 GAAAAGGGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 2 0.04
58 42 0.89
59 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (58 bp):
AAAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:123308012 original size:40 final size:40
Alignment explanation
Indices: 123307946--123308112 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
123307936 AAATTGAATG
* * *
123307946 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
123307985 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
123308025 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
123308065 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
123308105 ATATCCGG
1 ATATCCGG
123308113 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:123315623 original size:27 final size:28
Alignment explanation
Indices: 123315567--123315636 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
123315557 AAATTTGTAC
123315567 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
123315595 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
123315622 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
123315637 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:123315647 original size:27 final size:27
Alignment explanation
Indices: 123315567--123315648 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
123315557 AAATTTGTAC
* *
123315567 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
123315595 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
123315622 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
123315649 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:123323339 original size:27 final size:28
Alignment explanation
Indices: 123323292--123323360 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
123323282 AAATTTGTAC
*
123323292 AGCA-TAAGTGTGCAAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
123323319 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
123323346 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
123323361 GACTCACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 28 0.72
28 11 0.28
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:123323371 original size:27 final size:27
Alignment explanation
Indices: 123323315--123323372 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
123323305 AAGTTTGATC
* * *
123323315 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
123323342 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
123323369 ATAT
1 ATAT
123323373 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:123325966 original size:19 final size:19
Alignment explanation
Indices: 123325942--123325985 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
123325932 GAAGTGTGGG
123325942 AAACACGAAGCCAAAATGT
1 AAACACGAAGCCAAAATGT
123325961 AAACACGAAGCCAAAATGT
1 AAACACGAAGCCAAAATGT
123325980 AAACAC
1 AAACAC
123325986 TGTAACAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.55, C:0.23, G:0.14, T:0.09
Consensus pattern (19 bp):
AAACACGAAGCCAAAATGT
Found at i:123328187 original size:39 final size:39
Alignment explanation
Indices: 123328056--123328246 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
123328046 GGATATAACG
* ** **
123328056 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
123328096 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
123328136 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
123328174 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
123328214 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
123328247 CATCATTTGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:123328191 original size:78 final size:80
Alignment explanation
Indices: 123328096--123328246 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
123328086 GGTTATAGCG
* * * *
123328096 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
123328158 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
123328174 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
123328239 AGCCCGGA
66 AGCCCGGA
123328247 CATCATTTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:123331528 original size:68 final size:66
Alignment explanation
Indices: 123331456--123331627 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
123331446 CATCATGTGT
* * * *
123331456 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
123331519 TGTAG
62 TGTAG
** * *
123331524 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
123331589 AG
65 AG
* * * *
123331591 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
123331628 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:123331561 original size:64 final size:64
Alignment explanation
Indices: 123331480--123331663 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
123331470 AGACATTATG
* * *
123331480 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
123331544 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
123331609 AA
63 AA
* * *
123331611 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
123331664 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:123340697 original size:57 final size:57
Alignment explanation
Indices: 123340636--123340751 Score: 144
Period size: 57 Copynumber: 2.0 Consensus size: 57
123340626 CACATACCTG
* * *
123340636 TATATAGCCCACTAGGCCC-AATCTCTTTCATATGGCCCATGAGGCCCAAATCACATT
1 TATATAGCCCACTAGGCCCAAATCACATTCATATGG-CCATGAGGCCCAAAACACATT
* * * * *
123340693 TATATGGCCTATTAGGCCCAAATCACATTCATATGGCCATTAGGCCCAAAAGACATT
1 TATATAGCCCACTAGGCCCAAATCACATTCATATGGCCATGAGGCCCAAAACACATT
123340750 TA
1 TA
123340752 CAATCATGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
57 36 0.72
58 14 0.28
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (57 bp):
TATATAGCCCACTAGGCCCAAATCACATTCATATGGCCATGAGGCCCAAAACACATT
Found at i:123340698 original size:29 final size:29
Alignment explanation
Indices: 123340636--123340751 Score: 130
Period size: 29 Copynumber: 4.1 Consensus size: 29
123340626 CACATACCTG
* * *
123340636 TATATAGCCCACTAGGCCC-AATCTC-TT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
123340663 TCATATGGCCCATGAGGCCCAAATCACATT
1 T-ATATGGCCCATTAGGCCCAAATCACATT
*
123340693 TATATGGCCTATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* **
123340722 CATATGG-CCATTAGGCCCAAAAGACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
123340750 TA
1 TA
123340752 CAATCATGCT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.01
28 34 0.45
29 37 0.49
30 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:123340990 original size:16 final size:16
Alignment explanation
Indices: 123340965--123341000 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
123340955 GTAGCCAAAC
123340965 TTTCAACTTTTCGGCA
1 TTTCAACTTTTCGGCA
*
123340981 TTTCAGCTTTTCGGCA
1 TTTCAACTTTTCGGCA
123340997 TTTC
1 TTTC
123341001 GGGATTTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.47
Consensus pattern (16 bp):
TTTCAACTTTTCGGCA
Found at i:123348605 original size:25 final size:25
Alignment explanation
Indices: 123348571--123348625 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
123348561 CACCAATACA
123348571 ACTCCTTTAAGTCGCGATACATTTT
1 ACTCCTTTAAGTCGCGATACATTTT
123348596 ACTCCTTTAAGTCGCGATACATTTT
1 ACTCCTTTAAGTCGCGATACATTTT
123348621 ACTCC
1 ACTCC
123348626 CTCCAGGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (25 bp):
ACTCCTTTAAGTCGCGATACATTTT
Found at i:123354551 original size:31 final size:32
Alignment explanation
Indices: 123354511--123354570 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
123354501 TACCTAAATG
*
123354511 GTACAACTTGAAAAGGTTATGTACACTTTTTT
1 GTACAACTTGAAAAGGTTAGGTACACTTTTTT
* *
123354543 GTAC-ACTTGGAAAGGTTAGGTATACTTT
1 GTACAACTTGAAAAGGTTAGGTACACTTT
123354571 GTGTATACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (32 bp):
GTACAACTTGAAAAGGTTAGGTACACTTTTTT
Found at i:123357056 original size:27 final size:27
Alignment explanation
Indices: 123357026--123357150 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
123357016 TTAGTTTACC
*
123357026 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * * *
123357053 AAATTACTAGAATACCCTTGATTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
123357080 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
123357107 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
*
123357134 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
123357151 TCAACCTGTA
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:123357092 original size:54 final size:54
Alignment explanation
Indices: 123357026--123357150 Score: 187
Period size: 54 Copynumber: 2.3 Consensus size: 54
123357016 TTAGTTTACC
* * *
123357026 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTATA
* * *
123357080 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTATA
*
123357134 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
123357151 TCAACCTGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTATA
Found at i:123357164 original size:27 final size:27
Alignment explanation
Indices: 123357026--123357206 Score: 107
Period size: 27 Copynumber: 6.7 Consensus size: 27
123357016 TTAGTTTACC
***
123357026 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-AACTTGTA
* * ** * *
123357053 AAATTACTAGAATACCCTTGATTTATA
1 AAATTACCAAAATACCCTCAACTTGTA
* ***
123357080 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-AACTTGTA
* * *
123357107 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-AACTTGTA
* *
123357134 AAATTACTAAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCTCAACTTGTA
*** *
123357161 AAATTATTGAAATACCCTCCACTTGTA
1 AAATTACCAAAATACCCTCAACTTGTA
*
123357188 AAATTACCAAAGTACCCTC
1 AAATTACCAAAATACCCTC
123357207 GATTTATAGA
Statistics
Matches: 124, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 123 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAACTTGTA
Found at i:123357174 original size:81 final size:81
Alignment explanation
Indices: 123357026--123357222 Score: 200
Period size: 81 Copynumber: 2.4 Consensus size: 81
123357016 TTAGTTTACC
* * ** **
123357026 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGATTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCAACCTATAAAATCACCAAA
***
123357091 ATACCC-CTGGTTTGTA
66 ATACCCTC-CACTTGTA
* * * ***
123357107 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCAACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCAACCTATAAAATCACCAAA
123357172 ATACCCTCCACTTGTA
66 ATACCCTCCACTTGTA
* * *
123357188 AAATTACCAAAGTA-CCCTCGATTTATAGAATTACT
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACT
123357223 GTTTTATCCT
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
80 4 0.04
81 90 0.95
82 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCAACCTATAAAATCACCAAA
ATACCCTCCACTTGTA
Found at i:123357464 original size:27 final size:27
Alignment explanation
Indices: 123357200--123357461 Score: 391
Period size: 27 Copynumber: 9.7 Consensus size: 27
123357190 ATTACCAAAG
*
123357200 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
123357227 TATCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
123357254 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
123357281 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
123357308 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
123357335 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
123357362 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
123357389 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
123357416 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
123357443 TACCCTCGATTTACA-AATT
1 TACCCTCGATTTACAGAATT
123357462 TACCGAAATA
Statistics
Matches: 212, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
26 4 0.02
27 208 0.98
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:123357492 original size:27 final size:27
Alignment explanation
Indices: 123357461--123357762 Score: 379
Period size: 27 Copynumber: 11.2 Consensus size: 27
123357451 ATTTACAAAT
123357461 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
* *
123357488 ATACCGAAATACCCTTGTAAGGTAGAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
* * * * *
123357515 ATACTGAAATACCCCTATAGGATAGAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
** *
123357542 TTACTAAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
123357569 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
* * *
123357596 ATACCAAAATACCCATGTAGGGTAGAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
**
123357623 TTACTAAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
*
123357650 TTACCGAAATACCCTTATAGGGTAGAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
* * *
123357677 ATACCGAAATACCCCTGCAGGGTAGAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
* *
123357704 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
* * * *
123357731 TTATCGAGATACCCTTGTGGGGTAAAA
1 TTACCGAAATACCCTTGTAGGGTAGAA
123357758 TTACC
1 TTACC
123357763 ATTTTACCCC
Statistics
Matches: 238, Mismatches: 37, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 238 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
TTACCGAAATACCCTTGTAGGGTAGAA
Found at i:123357754 original size:81 final size:81
Alignment explanation
Indices: 123357467--123357758 Score: 442
Period size: 81 Copynumber: 3.6 Consensus size: 81
123357457 AAATTTACCG
* * * * *
123357467 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
*
123357532 TAGGATAGAATTACTA
66 TAGGGTAGAATTACTA
* *
123357548 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCATG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
123357613 TAGGGTAGAATTACTA
66 TAGGGTAGAATTACTA
* *
123357629 AAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
* *
123357694 CAGGGTAGAATTACTG
66 TAGGGTAGAATTACTA
* * *
123357710 AAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGGGTA-AAAT
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAAT
123357759 TACCATTTTA
Statistics
Matches: 192, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
80 4 0.02
81 188 0.98
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
TAGGGTAGAATTACTA
Found at i:123358642 original size:24 final size:24
Alignment explanation
Indices: 123358606--123358675 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
123358596 GGGTCAACAT
* *
123358606 TGGCGCTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
123358630 TGGCACTATGTGTGCGGAATTAAA
1 TGGCACTATGTGTGCGGATTTGAA
*
123358654 TGGCACTATGTGTGCTGATTTG
1 TGGCACTATGTGTGCGGATTTG
123358676 GATGTTAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:123358912 original size:2 final size:2
Alignment explanation
Indices: 123358907--123358934 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
123358897 AAAAAAAAAA
123358907 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
123358935 TTAAACCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123360294 original size:6 final size:6
Alignment explanation
Indices: 123360285--123360468 Score: 115
Period size: 6 Copynumber: 29.8 Consensus size: 6
123360275 TTGCATTCAC
* * * * * *
123360285 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTCTA ATTCTG CTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TCTG
* * *
123360335 ATTCTG ATTCTG GTTCTC ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
123360384 ATTCTG -TTACCTA ATTCTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
123360434 ATTCTG ATTTTG ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
123360469 AGTTCCAATA
Statistics
Matches: 135, Mismatches: 30, Indels: 26
0.71 0.16 0.14
Matches are distributed among these distances:
5 7 0.05
6 109 0.81
7 14 0.10
8 5 0.04
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:123360351 original size:25 final size:25
Alignment explanation
Indices: 123360285--123360345 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
123360275 TTGCATTCAC
* *
123360285 ATTCTGATTCTAATTCTGTTACCTG
1 ATTCTGATTCTAATTCTGCTACCTA
*
123360310 ATACTGATTCTAATTCTGCTACCTA
1 ATTCTGATTCTAATTCTGCTACCTA
123360335 ATTCTGATTCT
1 ATTCTGATTCT
123360346 GGTTCTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTAATTCTGCTACCTA
Found at i:123360357 original size:37 final size:37
Alignment explanation
Indices: 123360307--123360388 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
123360297 ATTCTGTTAC
* * *
123360307 CTGATACTGATTCTAATTCTGCTACCTAATTCTGATT
1 CTGATTCTCATTCTAATTCTGCTACCTAATACTGATT
* * * *
123360344 CTGGTTCTCATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTCATTCTAATTCTGCTACCTAATACTGATT
123360381 CTGATTCT
1 CTGATTCT
123360389 GTTACCTAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (37 bp):
CTGATTCTCATTCTAATTCTGCTACCTAATACTGATT
Found at i:123360383 original size:25 final size:25
Alignment explanation
Indices: 123360353--123360411 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
123360343 TCTGGTTCTC
*
123360353 ATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGTTACCTAATACTG
*
123360378 ATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGTTACCTAATACTG
123360403 ATTCTGATT
1 ATTCTGATT
123360412 TTGATTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGTTACCTAATACTG
Found at i:123360400 original size:19 final size:19
Alignment explanation
Indices: 123360316--123360408 Score: 82
Period size: 19 Copynumber: 4.6 Consensus size: 19
123360306 CCTGATACTG
* *
123360316 ATTCTAATTCTGCTACCTA
1 ATTCTGATTCTGTTACCTA
*
123360335 ATTCTGATTCTGGTT--CTC
1 ATTCTGATTCT-GTTACCTA
123360353 ATTCTGATTCTGTTACCTGATA
1 ATTCTGATTCTGTTACC---TA
123360375 CTGATTCTGATTCTGTTACCTA
1 ---ATTCTGATTCTGTTACCTA
123360397 ATTCTGATTCTG
1 ATTCTGATTCTG
123360409 ATTTTGATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
17 3 0.05
18 13 0.21
19 23 0.38
20 2 0.03
22 3 0.05
25 17 0.28
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (19 bp):
ATTCTGATTCTGTTACCTA
Found at i:123360410 original size:37 final size:37
Alignment explanation
Indices: 123360369--123360456 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
123360359 ATTCTGTTAC
* *
123360369 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
* * *
123360406 CTGATTTTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
*
123360443 TTGATTCTGATTCT
1 CTGATTCTGATTCT
123360457 CATTTTGATT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:123361179 original size:40 final size:41
Alignment explanation
Indices: 123361120--123361230 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 41
123361110 GGTGTTACAA
* *
123361120 AAGCTATCT-TAGTCTCGCACAGTAAGTGCCATATATAGCCG
1 AAGCTATCTCTA-TATCGCACACTAAGTGCCATATATAGCCG
**
123361161 AAGCTA-CTCTGAT-TCGCACACTAAGTGCTTTATATAGCCG
1 AAGCTATCTCT-ATATCGCACACTAAGTGCCATATATAGCCG
*
123361201 AAGCTATCTCTATAT-GCACATTAAGTGCCA
1 AAGCTATCTCTATATCGCACACTAAGTGCCA
123361231 AACATAATCG
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
40 46 0.77
41 13 0.22
42 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (41 bp):
AAGCTATCTCTATATCGCACACTAAGTGCCATATATAGCCG
Found at i:123366418 original size:29 final size:28
Alignment explanation
Indices: 123366351--123366469 Score: 116
Period size: 29 Copynumber: 4.2 Consensus size: 28
123366341 TACATACATG
*
123366351 CATATGGCCCACTAGGCCCAATCTTATT
1 CATATGGCCCACTAGGCCCAATCATATT
* *
123366379 CAAATGCCCCATCT-GGCCCAATTCATATT
1 CATATGGCCCA-CTAGGCCCAA-TCATATT
* * *
123366408 CTTATGGCCCACTAGGACCAATTCACATT
1 CATATGGCCCACTAGGCCCAA-TCATATT
* *
123366437 CATATGGCTCATTAGGCCCAGATCATATT
1 CATATGGCCCACTAGGCCCA-ATCATATT
123366466 -ATAT
1 CATAT
123366470 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
28 22 0.30
29 51 0.69
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCAATCATATT
Found at i:123371370 original size:27 final size:28
Alignment explanation
Indices: 123371340--123371409 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
123371330 ATAATAAGTC
*
123371340 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
123371367 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
123371395 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
123371410 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:123379438 original size:27 final size:28
Alignment explanation
Indices: 123379408--123379477 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
123379398 ATAATAAGTC
*
123379408 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
123379435 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
123379463 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
123379478 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:123385224 original size:49 final size:47
Alignment explanation
Indices: 123385107--123385423 Score: 465
Period size: 47 Copynumber: 6.7 Consensus size: 47
123385097 GATTTTACGC
* * *
123385107 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
123385154 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
123385201 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
123385250 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCA-ATGT
123385299 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
123385346 GATGAATGTGAAGGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
123385393 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
123385424 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 154 0.62
48 9 0.04
49 87 0.35
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:123385231 original size:96 final size:93
Alignment explanation
Indices: 123385107--123385423 Score: 465
Period size: 96 Copynumber: 3.3 Consensus size: 93
123385097 GATTTTACGC
123385107 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
123385172 TATATGTGATAAGGCCGAATGGCCAATGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
123385201 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
123385266 TATATATATGTGATAAGGCCTAATGG-CAGATGT
61 TGTATATATGTGATAAGGCCGAATGGCCA-ATGT
* *
123385299 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
* * *
123385364 TATATGTGATAGGGCCGAGTGGCCAACGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
* *
123385393 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
123385424 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
94 62 0.30
95 9 0.04
96 87 0.43
97 7 0.03
98 39 0.19
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGT
Found at i:123387494 original size:40 final size:42
Alignment explanation
Indices: 123387354--123387549 Score: 265
Period size: 42 Copynumber: 4.8 Consensus size: 42
123387344 CTCGACGATG
123387354 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
*
123387396 ATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
* * * *
123387438 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTG-T-TAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
* * * *
123387478 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG--ATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
* *
123387518 ATCCGGGCTAAATCCCGAAGAGCATTCATGCT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
123387550 AGTGATGTAT
Statistics
Matches: 143, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 67 0.47
41 1 0.01
42 75 0.52
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (42 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
Found at i:123387550 original size:40 final size:40
Alignment explanation
Indices: 123387354--123387597 Score: 272
Period size: 40 Copynumber: 6.0 Consensus size: 40
123387344 CTCGACGATG
* *
123387354 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTG--ATAT
* * *
123387396 ATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTG--ATAT
* * * * *
123387438 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
* *
123387478 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
* * *
123387518 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
* * * * *
123387558 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
123387598 GTATTCGGGC
Statistics
Matches: 181, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 106 0.59
42 75 0.41
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
Found at i:123387639 original size:43 final size:43
Alignment explanation
Indices: 123387590--123387852 Score: 438
Period size: 43 Copynumber: 6.1 Consensus size: 43
123387580 CAGTCATGCT
*
123387590 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
* *
123387633 AGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
123387676 GGTGATATGTATTCGGG-CTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
*
123387718 GGTGATATGTATTCGGGTCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
123387761 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
* * * **
123387804 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
123387847 GGTGAT
1 GGTGAT
123387853 TCGAGCAAGG
Statistics
Matches: 210, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
42 41 0.20
43 169 0.80
ACGTcount: A:0.14, C:0.21, G:0.32, T:0.32
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
Found at i:123387782 original size:128 final size:129
Alignment explanation
Indices: 123387585--123387852 Score: 448
Period size: 128 Copynumber: 2.1 Consensus size: 129
123387575 AAGAGCAGTC
* *
123387585 ATGCTGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCAGTGATATGTATTCGGG
1 ATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCAGTGATATGTATTCGGG
* *
123387650 CCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG-CTTCGAGCCTAGCAGGCTTT
66 CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGTCTTCGAGCCTAGCAGGCTTA
* * *
123387713 GTGCCGGTGATATGTATTCGGGTCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG
1 ATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCAGTGATATGTATTCGGG
* *
123387778 CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTA
66 CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGTCTTCGAGCCTAGCAGGCTTA
123387842 ATGCCGGTGAT
1 ATGCCGGTGAT
123387853 TCGAGCAAGG
Statistics
Matches: 129, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
128 102 0.79
129 27 0.21
ACGTcount: A:0.14, C:0.21, G:0.32, T:0.32
Consensus pattern (129 bp):
ATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCAGTGATATGTATTCGGG
CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGTCTTCGAGCCTAGCAGGCTTA
Found at i:123391710 original size:49 final size:47
Alignment explanation
Indices: 123391593--123391909 Score: 456
Period size: 47 Copynumber: 6.7 Consensus size: 47
123391583 GATTTTACGC
* * *
123391593 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
123391640 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
123391687 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
123391736 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCA-ATGT
123391785 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
123391832 GATGAATGTGAAGGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
123391879 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
123391910 TCCCGAAGGG
Statistics
Matches: 248, Mismatches: 18, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
47 154 0.62
48 9 0.04
49 85 0.34
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:123391717 original size:96 final size:93
Alignment explanation
Indices: 123391593--123391909 Score: 456
Period size: 96 Copynumber: 3.3 Consensus size: 93
123391583 GATTTTACGC
123391593 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
123391658 TATATGTGATAAGGCCGAATGGCCAATGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
*
123391687 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
123391752 TATATATATGTGATAAGGCCTAATGG-CAGATGT
61 TGTATATATGTGATAAGGCCGAATGGCCA-ATGT
* *
123391785 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
* * *
123391850 TATATGTGATAGGGCCGAGTGGCCAACGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
* *
123391879 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
123391910 TCCCGAAGGG
Statistics
Matches: 202, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
94 62 0.31
95 9 0.04
96 85 0.42
97 7 0.03
98 39 0.19
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGT
Found at i:123395092 original size:26 final size:26
Alignment explanation
Indices: 123395056--123395107 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
123395046 AACCAAGAGC
*
123395056 TAGCAACTGAAAGAATAGAAGGAGGG
1 TAGCAACTGAAAGAATAGAACGAGGG
123395082 TAGCAACTGAAAGAATAGAACGAGGG
1 TAGCAACTGAAAGAATAGAACGAGGG
123395108 AAACATGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.33, T:0.12
Consensus pattern (26 bp):
TAGCAACTGAAAGAATAGAACGAGGG
Found at i:123397491 original size:39 final size:39
Alignment explanation
Indices: 123397434--123397513 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
123397424 TTTGCCAAAG
*
123397434 TATGATTTATGGGTTGTTTTGAACAATGTGATAATTAAA
1 TATGATTTATGGGCTGTTTTGAACAATGTGATAATTAAA
123397473 TATGATTTATGGGCTGTTTTGAACAATGTGATAATTAAA
1 TATGATTTATGGGCTGTTTTGAACAATGTGATAATTAAA
123397512 TA
1 TA
123397514 ATTGAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (39 bp):
TATGATTTATGGGCTGTTTTGAACAATGTGATAATTAAA
Found at i:123397934 original size:43 final size:42
Alignment explanation
Indices: 123397825--123398019 Score: 135
Period size: 43 Copynumber: 4.6 Consensus size: 42
123397815 TGAGATTCTA
* ** * *
123397825 TATAAGACCATATCTGGGATATGGCATCGGCATGCGATTTTG
1 TATAAGACCATATCTGGGATATGGCTTCGAAATGAGACTTTG
* *** *
123397867 TGTAAGACCCCGTCTGGGACATGGCTTCGAAAATGAGACTTTG
1 TATAAGACCATATCTGGGATATGGCTTCG-AAATGAGACTTTG
* * * *
123397910 TATAAGACCATATCCGGGATATGGCATT-GATATGAGACATTC
1 TATAAGACCATATCTGGGATATGGC-TTCGAAATGAGACTTTG
* * * * * **
123397952 TGTAAGACCATAGCTGGGCTATTGGCTTCGATATGTGATCCCATG
1 TATAAGACCATATCTGGGATA-TGGCTTCGAAATGAGA--CTTTG
123397997 --TAAGACCATATCTGGGATATGGC
1 TATAAGACCATATCTGGGATATGGC
123398020 ATTGGCATCT
Statistics
Matches: 118, Mismatches: 29, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
42 56 0.47
43 58 0.49
44 2 0.02
45 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
TATAAGACCATATCTGGGATATGGCTTCGAAATGAGACTTTG
Found at i:123397969 original size:85 final size:86
Alignment explanation
Indices: 123397825--123397982 Score: 187
Period size: 85 Copynumber: 1.8 Consensus size: 86
123397815 TGAGATTCTA
* * * ** * *
123397825 TATAAGACCATATCTGGGATATGGCATCGGCATGCGATTTTGTGTAAGACCCCGTCTGGGAC-A-
1 TATAAGACCATATCCGGGATATGGCATCGACATGAGACATTCTGTAAGACCCAGTCTGGG-CTAT
123397888 TGGCTTCGAAAATGAGACTTTG
65 TGGCTTCGAAAATGAGACTTTG
* * *
123397910 TATAAGACCATATCCGGGATATGGCATTGATATGAGACATTCTGTAAGACCATAG-CTGGGCTAT
1 TATAAGACCATATCCGGGATATGGCATCGACATGAGACATTCTGTAAGACC-CAGTCTGGGCTAT
123397974 TGGCTTCGA
65 TGGCTTCGA
123397983 TATGTGATCC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
84 1 0.02
85 49 0.82
86 10 0.17
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (86 bp):
TATAAGACCATATCCGGGATATGGCATCGACATGAGACATTCTGTAAGACCCAGTCTGGGCTATT
GGCTTCGAAAATGAGACTTTG
Found at i:123415417 original size:30 final size:30
Alignment explanation
Indices: 123415381--123415455 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
123415371 TGACATACAG
*
123415381 CCGTGTCACCAAGCCGTGTGTGTCACACGA
1 CCGTGTCACCAAGCCATGTGTGTCACACGA
* *
123415411 CCGTGTCTCCAAGCCATGTGTGTCATACGA
1 CCGTGTCACCAAGCCATGTGTGTCACACGA
*
123415441 CCGTGTCGCCAAGCC
1 CCGTGTCACCAAGCC
123415456 TAGGTGTAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.19, C:0.35, G:0.25, T:0.21
Consensus pattern (30 bp):
CCGTGTCACCAAGCCATGTGTGTCACACGA
Found at i:123429353 original size:42 final size:43
Alignment explanation
Indices: 123429253--123429353 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 43
123429243 CAATGTCAAC
* * *
123429253 GTCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGATATGGTCTTACACGAAATCAAATATCGATGCCACT
* * * *
123429296 ATCCCAGGTAGGGTCTTACACGAAATCAAATA-CGATGCTGA-T
1 GTCCCAGATATGGTCTTACACGAAATCAAATATCGATGC-CACT
*
123429338 GTCCCAGACATGGTCT
1 GTCCCAGATATGGTCT
123429354 GTAACACCCC
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
42 19 0.41
43 27 0.59
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
GTCCCAGATATGGTCTTACACGAAATCAAATATCGATGCCACT
Found at i:123435122 original size:23 final size:23
Alignment explanation
Indices: 123435096--123435148 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
123435086 TATTGCATCA
123435096 CATATCAT-ATACCAAAATCAAA-C
1 CATATCATCA-ACCAAAA-CAAAGC
**
123435119 CATAAGATCAACCAAAACAAAGC
1 CATATCATCAACCAAAACAAAGC
123435142 CATATCA
1 CATATCA
123435149 CATGGCTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 4 0.17
23 19 0.79
24 1 0.04
ACGTcount: A:0.53, C:0.26, G:0.04, T:0.17
Consensus pattern (23 bp):
CATATCATCAACCAAAACAAAGC
Found at i:123436440 original size:14 final size:13
Alignment explanation
Indices: 123436412--123436448 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
123436402 ATCCTGGAAT
123436412 ATTAA-AACAATA
1 ATTAAGAACAATA
123436424 ATTAAGAACACATA
1 ATTAAGAACA-ATA
123436438 ATTAAGAACAA
1 ATTAAGAACAA
123436449 ATCAAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:123441929 original size:40 final size:40
Alignment explanation
Indices: 123441884--123442051 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
123441874 CGGAATACAA
123441884 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACGAATGCCTTCGGGTCTTAGC
* * *
123441924 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *** *
123441964 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAAT-GCCTTCGGGTCTTAGC
** ** * *
123442004 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
123442044 CCGGATAT
1 CCGGATAT
123442052 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 101 0.94
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:123442034 original size:80 final size:80
Alignment explanation
Indices: 123441900--123442049 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 80
123441890 ATAACCACAT
* * * * *
123441900 GCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCC
1 GCACGAATGCCTTCGGGTCTTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCC
123441965 CGGATGTGGTCACTA
66 CGGATGTGGTCACTA
** * *
123441980 GCAC-AATGGCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 GCACGAAT-GCCTTCGGGTCTTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGC
123442044 CCGGAT
65 CCGGAT
123442050 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATGTGGTCACTA
Found at i:123445164 original size:24 final size:24
Alignment explanation
Indices: 123445138--123445356 Score: 375
Period size: 24 Copynumber: 9.1 Consensus size: 24
123445128 GAATGTGACT
* *
123445138 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
123445162 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
123445186 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
123445210 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
123445234 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
123445258 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
123445282 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
123445306 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
123445330 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
123445354 ATA
1 ATA
123445357 TGGTCTTTGC
Statistics
Matches: 190, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 190 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:123450433 original size:13 final size:13
Alignment explanation
Indices: 123450415--123450446 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
123450405 TCACAAACAT
*
123450415 ATATCGGAGTCAC
1 ATATCGGAGTAAC
123450428 ATATCGGAGTAAC
1 ATATCGGAGTAAC
123450441 ATATCG
1 ATATCG
123450447 ATGCCATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (13 bp):
ATATCGGAGTAAC
Found at i:123452800 original size:39 final size:39
Alignment explanation
Indices: 123452757--123452883 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
123452747 GGTCTTTAAC
** *
123452757 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* *
123452796 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
**
123452835 TTGGATATTTTTCCAGCATATAGCCTGC-GACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
123452873 CCGGATATTTT
1 CCGGATATTTT
123452884 CAATCTCATA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
38 19 0.25
39 58 0.75
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:123460789 original size:39 final size:39
Alignment explanation
Indices: 123460746--123460912 Score: 262
Period size: 39 Copynumber: 4.3 Consensus size: 39
123460736 GGTCTTTAAC
** * *
123460746 CCGGATATTTTTCCAGCACGTAGCATGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* *
123460785 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* *
123460824 CTGGATATTTTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
123460863 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
123460902 CCGGATATTTT
1 CCGGATATTTT
123460913 CAATCTCATA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 118 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:123464804 original size:16 final size:17
Alignment explanation
Indices: 123464783--123464815 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
123464773 CATATTGAAG
123464783 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
123464799 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
123464816 CTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:123468859 original size:40 final size:41
Alignment explanation
Indices: 123468765--123468985 Score: 246
Period size: 40 Copynumber: 5.6 Consensus size: 41
123468755 TATTCGAATG
*
123468765 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
123468806 ATAACTGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
123468846 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
123468886 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
123468926 ATATCCGGGCTAAGAT-CCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
123468965 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
123468986 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
37 2 0.01
38 13 0.08
39 16 0.10
40 93 0.60
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:123473442 original size:40 final size:40
Alignment explanation
Indices: 123473316--123473495 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
123473306 CGAATGGTAT
* * * *
123473316 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
*
123473357 CCGGGTTAAGTCCCGAAGGCATTTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTAAAA
* *
123473398 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * * *
123473438 CCGGGTAAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
123473478 CCGGG-CAATGTCCCGAAG
1 CCGGGTTAA-GTCCCGAAG
123473496 ACAATCGAGC
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 61 0.51
41 49 0.41
42 7 0.06
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:123473494 original size:80 final size:80
Alignment explanation
Indices: 123473316--123473535 Score: 201
Period size: 80 Copynumber: 2.7 Consensus size: 80
123473306 CGAATGGTAT
* * * * * * *
123473316 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAACCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGC-AAGTCCCGAAGGCATTCGTGC-AAGTCACTAAATCCGGGTAAATTCCCGAAGGCATAT
* *
123473381 TGTGCGAGTTACCAAAA
64 TGTGCGAATCACCAAAA
* * *
123473398 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTAAATTCCCGAAGGCA-ATT
1 CCGGG-CAAGTCCCGAAGGCATTCGTGCAAGTCACTAAATCCGGGTAAATTCCCGAAGGCATATT
* *
123473462 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * * * * *
123473478 CCGGGCAATGTCCCGAAGACAATCGAGCTAGTCGCTATATCCGGTTAAATT-CCGAAGG
1 CCGGGCAA-GTCCCGAAGGCATTCGTGCAAGTCACTAAATCCGGGTAAATTCCCGAAGG
123473536 TACGTGATTC
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 9 0.08
80 53 0.46
81 28 0.25
82 24 0.21
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCAAGTCCCGAAGGCATTCGTGCAAGTCACTAAATCCGGGTAAATTCCCGAAGGCATATTG
TGCGAATCACCAAAA
Found at i:123481608 original size:40 final size:40
Alignment explanation
Indices: 123481482--123481648 Score: 199
Period size: 40 Copynumber: 4.1 Consensus size: 40
123481472 CGAATGGTAT
* * * *
123481482 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
*
123481523 CCGGGTTAAGTCCCGAAGGCATTTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTAAAA
* *
123481564 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * * *
123481604 CCGGGTAAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
123481644 CCGGG
1 CCGGG
123481649 CAACGTCCCA
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
40 53 0.49
41 49 0.45
42 7 0.06
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:123490474 original size:30 final size:30
Alignment explanation
Indices: 123490438--123490538 Score: 127
Period size: 28 Copynumber: 3.5 Consensus size: 30
123490428 GACAAGATTG
* * *
123490438 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
123490468 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
123490496 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
123490525 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
123490539 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 23 0.37
29 20 0.32
30 19 0.31
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:123490532 original size:29 final size:29
Alignment explanation
Indices: 123490438--123490538 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
123490428 GACAAGATTG
* * * *
123490438 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTGAAAA-TATATA
*
123490468 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-TTGAAAATATATA
*
123490496 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATATATA
123490525 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
123490539 GATTCACTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 22 0.36
30 15 0.25
31 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAATATATA
Found at i:123492684 original size:40 final size:40
Alignment explanation
Indices: 123492558--123492706 Score: 181
Period size: 41 Copynumber: 3.7 Consensus size: 40
123492548 CGAATGGTAT
* * * *
123492558 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAAA
* *
123492599 CCGGGTTAAGTCCCGAAGGCATTTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCA-TTTGTGTGAGTTACTAAAA
* *
123492640 CCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAA
* * *
123492680 CCGGGTAAATTCCCGAAGGCAATTGTG
1 CCGGGTTAAGTCCCGAAGGCATTTGTG
123492707 CGAATCACTA
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
40 38 0.41
41 49 0.53
42 6 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAA
Found at i:123492696 original size:81 final size:81
Alignment explanation
Indices: 123492558--123492709 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 81
123492548 CGAATGGTAT
* * * *
123492558 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAACCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGTAAAGTCCCGAAGGCA-AT
123492623 TGTGCGAGTTACCAAAA
65 TGTGCGAGTTACCAAAA
* * * * *
123492640 CCGGGTTAAGTCCCGAAGGCATTCGTG-TGAGTTACTAAATCCGGGTAAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGTAAAGTCCCGAAGGCAATT
123492704 GTGCGA
66 GTGCGA
123492710 ATCACTATGA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 8 0.13
81 29 0.48
82 24 0.39
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGTAAAGTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:123496741 original size:80 final size:80
Alignment explanation
Indices: 123496601--123496801 Score: 230
Period size: 80 Copynumber: 2.5 Consensus size: 80
123496591 CGGAATACAA
* *
123496601 CCGGATATAATCACAC-GCACGAATGCCTTCGGGTCTTATCCCGGATATAACGACTTGCACAAAT
1 CCGGATATAA-CACACTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAAT
*
123496665 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * *
123496681 CCGGATATAACA-ACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAAT
1 CCGGATATAACACAC-TGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAA
*
123496744 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
* ** * *
123496761 CCGGATATAA-ATACTAGCATAAATGTCTTCGGGACTTAGCC
1 CCGGATATAACACACT-GCACGAATGCCTTCGGGTCTTAGCC
123496802 TGGGTATCAT
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.02
79 4 0.04
80 98 0.93
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
CCGGATATAACACACTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:123496777 original size:40 final size:40
Alignment explanation
Indices: 123496601--123496801 Score: 203
Period size: 40 Copynumber: 5.0 Consensus size: 40
123496591 CGGAATACAA
* *
123496601 CCGGATAT-AATCAC-ACGCACGAATGCCTTCGGGTCTTATC
1 CCGGATATAAAT-ACTA-GCACAAATGCCTTCGGGTCTTAGC
** * *
123496641 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAATACTAGCACAAATGCCTTCGGGTCTTAGC
* *
123496681 CCGGATATAACA-ACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-ATACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
123496721 CCGGATGT-AGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAAT-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
123496761 CCGGATATAAATACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAAATACTAGCACAAATGCCTTCGGGTCTTAGC
123496801 C
1 C
123496802 TGGGTATCAT
Statistics
Matches: 133, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 129 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAAATACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:123504053 original size:40 final size:40
Alignment explanation
Indices: 123503927--123504106 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
123503917 CGAATGGTAT
* * * *
123503927 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
*
123503968 CCGGGTTAAGTCCCGAAGGCATTTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTAAAA
* *
123504009 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * * *
123504049 CCGGGTAAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
123504089 CCGGG-CAATGTCCCGAAG
1 CCGGGTTAA-GTCCCGAAG
123504107 ACAATCGAGC
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 61 0.51
41 49 0.41
42 7 0.06
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:123504105 original size:80 final size:80
Alignment explanation
Indices: 123503927--123504146 Score: 201
Period size: 80 Copynumber: 2.7 Consensus size: 80
123503917 CGAATGGTAT
* * * * * * *
123503927 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAACCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGC-AAGTCCCGAAGGCATTCGTGC-AAGTCACTAAATCCGGGTAAATTCCCGAAGGCATAT
* *
123503992 TGTGCGAGTTACCAAAA
64 TGTGCGAATCACCAAAA
* * *
123504009 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTAAATTCCCGAAGGCA-ATT
1 CCGGG-CAAGTCCCGAAGGCATTCGTGCAAGTCACTAAATCCGGGTAAATTCCCGAAGGCATATT
* *
123504073 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * * * * *
123504089 CCGGGCAATGTCCCGAAGACAATCGAGCTAGTCGCTATATCCGGTTAAATT-CCGAAGG
1 CCGGGCAA-GTCCCGAAGGCATTCGTGCAAGTCACTAAATCCGGGTAAATTCCCGAAGG
123504147 TACGTGATTC
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 9 0.08
80 53 0.46
81 28 0.25
82 24 0.21
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCAAGTCCCGAAGGCATTCGTGCAAGTCACTAAATCCGGGTAAATTCCCGAAGGCATATTG
TGCGAATCACCAAAA
Found at i:123511740 original size:40 final size:40
Alignment explanation
Indices: 123511695--123511862 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
123511685 CGGAATATAA
123511695 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
123511735 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
123511775 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
123511815 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
123511855 CCGGATAT
1 CCGGATAT
123511863 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:123511845 original size:80 final size:80
Alignment explanation
Indices: 123511711--123511860 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
123511701 ATAACCACGT
* *
123511711 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
123511776 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
123511791 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
123511854 CCCGGAT
64 CCCGGAT
123511861 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:123518986 original size:15 final size:15
Alignment explanation
Indices: 123518950--123518999 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
123518940 CGATATTCTT
123518950 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
123518964 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
123518980 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
123518993 TTTGCAT
1 TTTGCAT
123519000 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:123527408 original size:206 final size:205
Alignment explanation
Indices: 123527047--123527768 Score: 876
Period size: 206 Copynumber: 3.5 Consensus size: 205
123527037 TATTCGACGG
* * *
123527047 GGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGA
1 GGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGA
* *
123527112 TTTGTCGTCTCTGCATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCAC-TTAATTGGAGAGCA
66 TTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAA-TGGAGAGCA
* *
123527176 GATACATTGCAGATCTGACCTTCAGATGATTAGACTGAAGTAAGATCCAAGATGATTTGGCATCC
130 GATACATAGCAGATCTGACCTTCAGATGATTAGACTGAAG-AAGATCCAAGATGATTAGGCATCC
123527241 TTGTGCTTGCAA
194 TTGTGCTTGCAA
* * *
123527253 GGAGCAAATCGAAGACATGGCTGATTTGGCTTTCATGTGTGTACGATGAAGCAAATCTAAGATGA
1 GGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGA
* * * *
123527318 TTTGTCGTCTTTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGGGCAG
66 TTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAG
* * * * * *
123527383 ACACATAGCAGATCTCACCTTCAGATGTTTACG-CTGAAGCAGATCCAAGATGA-CAGATCTTAT
131 ATACATAGCAGATCTGACCTTCAGATGATTA-GACTGAAGAAGATCCAAGATGATTAG-GC--A-
* * ** **
123527446 TTCTCTATATTTGGCGG
191 TCCT-TGTGCTT-GCAA
* * * ** *
123527463 GGAGTAAATCGAAGATATAGCTGATTTGACTTTCACGCATTTACGATGAAGCAAATCTAATATGA
1 GGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGA
* * * *
123527528 TTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTATGGCATCTCTACTTCAATAGAGAGCAG
66 TTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAG
* * * * *
123527593 ATACATAGCAGATCTGACCTTCAGACGATTAGACTAAAACAAGATCCAAGATGATTCGGCATCAT
131 ATACATAGCAGATCTGACCTTCAGATGATTAGACT-GAAGAAGATCCAAGATGATTAGGCATCCT
*
123527658 TGTGCTTACAA
195 TGTGCTTGCAA
* * * * * * *
123527669 GGAGTAAATC-AAAACATAGCTGATTTAGTTTTCACGTGCTTATGATGAAGCAAATTTAAGATGA
1 GGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGA
*
123527733 TTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAG
66 TTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAG
123527769 AAGCAGATTT
Statistics
Matches: 432, Mismatches: 73, Indels: 23
0.82 0.14 0.04
Matches are distributed among these distances:
204 1 0.00
205 92 0.21
206 158 0.37
207 9 0.02
208 5 0.01
209 6 0.01
210 144 0.33
211 16 0.04
212 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (205 bp):
GGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGA
TTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAG
ATACATAGCAGATCTGACCTTCAGATGATTAGACTGAAGAAGATCCAAGATGATTAGGCATCCTT
GTGCTTGCAA
Found at i:123527545 original size:210 final size:209
Alignment explanation
Indices: 123526970--123527768 Score: 849
Period size: 210 Copynumber: 3.8 Consensus size: 209
123526960 TAAGCCGCAG
* * *
123526970 CATAGAAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTA-GCTGAAGCAGATCCAAGATGACAGATCTTATTTCTC
* * * *
123527035 TGTATTCGACGGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTATGATGAAGCA
65 TGTATTTGGCGGGGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
* *
123527100 AATCTAAGATGATTTGTCGTCTCTGCATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCAC-TT
130 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTT
123527164 AATTGGAGAGCAGATA
195 AA-TGGAGAGCAGATA
* * * * ** * *
123527180 CATTGCAGATCTGACCTTCAGATGATTAGACTGAAGTAAGATCCAAGATGATTTG-GC--A-TCC
1 CATAGCAGATCTCACCTTCAGATGTTTAG-CTGAAG-CAGATCCAAGATGA-CAGATCTTATTTC
** ** * * * *
123527241 T-TGTGCTT-GCAAGGAGCAAATCGAAGACATGGCTGATTTGGCTTTCATGTGTGTACGATGAAG
63 TCTGTATTTGGCGGGGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAG
* *
123527304 CAAATCTAAGATGATTTGTCGTCTTTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACT
128 CAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
* * *
123527369 TTGATGGAGGGCAGACA
193 TTAATGGAGAGCAGATA
123527386 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATTTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTA-GCTGAAGCAGATCCAAGATGACAGATCTTATTTCTC
* * * **
123527451 TATATTTGGCGGGGAGTAAATCGAAGATATAGCTGATTTGACTTTCACGCATTTACGATGAAGCA
65 TGTATTTGGCGGGGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
* * * *
123527516 AATCTAATATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTATGGCATCTCTACTTC
130 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTT
*
123527581 AATAGAGAGCAGATA
195 AATGGAGAGCAGATA
* * * * * *
123527596 CATAGCAGATCTGACCTTCAGACGATTAGACTAAAACAAGATCCAAGATGATTCGGCATC--ATT
1 CATAGCAGATCTCACCTTCAGATGTTTAG-CTGAAGC-AGATCCAAGATGA--CAG-ATCTTATT
* ** * * * * * * *
123527659 GT-GCT-TA-----CAAGGAGTAAATC-AAAACATAGCTGATTTAGTTTTCACGTGCTTATGATG
61 -TCTCTGTATTTGGCGGGGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATG
* *
123527716 AAGCAAATTTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAG
125 AAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAG
123527769 AAGCAGATTT
Statistics
Matches: 490, Mismatches: 82, Indels: 39
0.80 0.13 0.06
Matches are distributed among these distances:
204 1 0.00
205 92 0.19
206 159 0.32
207 9 0.02
208 5 0.01
209 6 0.01
210 177 0.36
211 29 0.06
212 6 0.01
213 3 0.01
214 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (209 bp):
CATAGCAGATCTCACCTTCAGATGTTTAGCTGAAGCAGATCCAAGATGACAGATCTTATTTCTCT
GTATTTGGCGGGGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAA
ATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTA
ATGGAGAGCAGATA
Found at i:123528978 original size:25 final size:27
Alignment explanation
Indices: 123528941--123528993 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
123528931 TCAAACATGC
123528941 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
123528967 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
123528993 A
1 A
123528994 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:123530500 original size:26 final size:26
Alignment explanation
Indices: 123530462--123530519 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
123530452 CATGAAATTC
123530462 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
123530488 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
123530514 TTATCA
1 TTATCA
123530520 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:123537520 original size:26 final size:26
Alignment explanation
Indices: 123537482--123537539 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
123537472 CATGAAATTC
123537482 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
123537508 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
123537534 TTATCA
1 TTATCA
123537540 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:123539594 original size:29 final size:28
Alignment explanation
Indices: 123539556--123539658 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
123539546 GTGACGAGAT
* *
123539556 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
123539585 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
123539614 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
123539643 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
123539659 TGATCGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:123540695 original size:21 final size:21
Alignment explanation
Indices: 123540669--123540710 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
123540659 ATCGAAGTTT
123540669 GACGAGTCTATTTTCATATGG
1 GACGAGTCTATTTTCATATGG
123540690 GACGAGTCTATTTTCATATGG
1 GACGAGTCTATTTTCATATGG
123540711 AAGAAACGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (21 bp):
GACGAGTCTATTTTCATATGG
Found at i:123543383 original size:33 final size:31
Alignment explanation
Indices: 123543311--123543383 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
123543301 ATTGATATTG
*
123543311 TATTATT-C-TTTTTGTATGTCATGCATTAT
1 TATTATTACTTTTTTGTATATCATGCATTAT
*
123543340 T-TTATTACTTTTTTGTATATCATGTATTATT
1 TATTATTACTTTTTTGTATATCATGCATTA-T
123543371 TAATTATTACTTT
1 T-ATTATTACTTT
123543384 GTATGTTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 5 0.14
29 2 0.05
30 18 0.49
31 2 0.05
33 10 0.27
ACGTcount: A:0.23, C:0.08, G:0.07, T:0.62
Consensus pattern (31 bp):
TATTATTACTTTTTTGTATATCATGCATTAT
Found at i:123545301 original size:22 final size:22
Alignment explanation
Indices: 123545273--123545324 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
123545263 ATTTAAATTA
123545273 GATTGCATGCTTACAGAACATT
1 GATTGCATGCTTACAGAACATT
123545295 GATTGCATGCTTACAGAACATT
1 GATTGCATGCTTACAGAACATT
123545317 GATTGCAT
1 GATTGCAT
123545325 ACACACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (22 bp):
GATTGCATGCTTACAGAACATT
Found at i:123548225 original size:39 final size:40
Alignment explanation
Indices: 123548126--123548315 Score: 138
Period size: 40 Copynumber: 4.8 Consensus size: 40
123548116 CGAATGATGT
* * * * * *
123548126 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTAATAAAC
* * **
123548166 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAGT
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTAATAAAC
* *
123548206 CCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAAC
* ***
123548244 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATA-AAC
** * *
123548284 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
123548316 CGTTATGTCC
Statistics
Matches: 121, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
38 21 0.17
39 23 0.19
40 68 0.56
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAAC
Found at i:123548270 original size:78 final size:80
Alignment explanation
Indices: 123548124--123548275 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 80
123548114 TTCGAATGAT
* * * *
123548124 GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 GTCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
123548189 CGTGCGAGTTAATAA
66 CGTGCGAGTTAATAA
* **
123548204 GTCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 GTCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
123548266 TCGTGCGAGT
65 TCGTGCGAGT
123548276 CGCTATAACC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 1 0.02
78 36 0.56
79 15 0.23
80 12 0.19
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (80 bp):
GTCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTAATAA
Found at i:123548288 original size:78 final size:79
Alignment explanation
Indices: 123548126--123548306 Score: 201
Period size: 78 Copynumber: 2.3 Consensus size: 79
123548116 CGAATGATGT
* * * *
123548126 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
123548191 TGCGAGTTAATAAG
66 TGCGAGTTAATAAG
* **
123548205 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 -CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
123548267 CGTGCGAGTCGCT-ATAA-
64 CGTGCGAGT---TAATAAG
**
123548284 CCGGGCTTCGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
123548307 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 44 0.51
79 27 0.31
80 14 0.16
81 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCGAGTTAATAAG
Found at i:123551861 original size:51 final size:51
Alignment explanation
Indices: 123551786--123551885 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
123551776 AAGAAGGGAT
123551786 GAAATTATCGTCACATCCTCACGAGGATCCTTCTAACATCGA-GACGATGAC
1 GAAATTATCGTCACATCCTCACGAGGATCCTTCTAACATC-ACGACGATGAC
* *
123551837 GAAATTGTCGTCACATCCTGACGAGGATCCTTCTAACATCACGACGATG
1 GAAATTATCGTCACATCCTCACGAGGATCCTTCTAACATCACGACGATG
123551886 TGACAAAATC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 45 0.98
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (51 bp):
GAAATTATCGTCACATCCTCACGAGGATCCTTCTAACATCACGACGATGAC
Found at i:123555619 original size:13 final size:13
Alignment explanation
Indices: 123555601--123555649 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
123555591 CTTTCATATC
123555601 AAAAATAAAAATA
1 AAAAATAAAAATA
123555614 AAAAATAAAAATA
1 AAAAATAAAAATA
* *
123555627 AGCAAA-ACAAATA
1 A-AAAATAAAAATA
123555640 AAAAATAAAA
1 AAAAATAAAA
123555650 TCTAAACTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 3 0.10
13 24 0.80
14 3 0.10
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:123558439 original size:8 final size:8
Alignment explanation
Indices: 123558421--123558456 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
123558411 TATCAAAAAT
123558421 AAAAATAA
1 AAAAATAA
123558429 AAAAAGTAA
1 AAAAA-TAA
123558438 AATAAATAA
1 AA-AAATAA
123558447 AAAAATAA
1 AAAAATAA
123558455 AA
1 AA
123558457 TCTAACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 13 0.50
9 10 0.38
10 3 0.12
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (8 bp):
AAAAATAA
Found at i:123558446 original size:18 final size:17
Alignment explanation
Indices: 123558423--123558457 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
123558413 TCAAAAATAA
123558423 AAATAAAAAAAGTAAAAT
1 AAATAAAAAAA-TAAAAT
123558441 AAATAAAAAAATAAAAT
1 AAATAAAAAAATAAAAT
123558458 CTAACATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAATAAAAAAATAAAAT
Found at i:123558450 original size:17 final size:18
Alignment explanation
Indices: 123558423--123558457 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
123558413 TCAAAAATAA
*
123558423 AAATAAAAAAAGTAAAAT
1 AAATAAAAAAAATAAAAT
123558441 AAAT-AAAAAAATAAAAT
1 AAATAAAAAAAATAAAAT
123558458 CTAACATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATAAAAAAAATAAAAT
Found at i:123560154 original size:32 final size:32
Alignment explanation
Indices: 123560113--123560196 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
123560103 ATTATTTCCC
123560113 AATCGGTCCTTCCTTGTTATCCGCACTTTGTA
1 AATCGGTCCTTCCTTGTTATCCGCACTTTGTA
* **
123560145 AATCGGTCCTTTCTTGTTATCCGTGCTTTGTA
1 AATCGGTCCTTCCTTGTTATCCGCACTTTGTA
*
123560177 AATCAGTCCTTTCCCTTGTT
1 AATCGGTCC-TT-CCTTGTT
123560197 TCTATTCTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
32 37 0.82
33 2 0.04
34 6 0.13
ACGTcount: A:0.14, C:0.26, G:0.15, T:0.44
Consensus pattern (32 bp):
AATCGGTCCTTCCTTGTTATCCGCACTTTGTA
Found at i:123560325 original size:14 final size:15
Alignment explanation
Indices: 123560303--123560331 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
123560293 GTATTTATCA
123560303 TTTACTTTTTATTTT
1 TTTACTTTTTATTTT
123560318 TTTA-TTTTTATTTT
1 TTTACTTTTTATTTT
123560332 CTTCTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTACTTTTTATTTT
Found at i:123560380 original size:3 final size:3
Alignment explanation
Indices: 123560372--123560427 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
123560362 CTAATATTCT
123560372 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
123560420 TTA TTA TT
1 TTA TTA TT
123560428 CACTATGGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:123560735 original size:3 final size:3
Alignment explanation
Indices: 123560729--123560763 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
123560719 CATCATCATC
123560729 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
123560764 GGAGCTACTA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:123562534 original size:2 final size:2
Alignment explanation
Indices: 123562522--123562569 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
123562512 ACTTTAATAC
*
123562522 AT AT TT 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
123562564 AT AT AT
1 AT AT AT
123562570 CCCTTTCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:123565540 original size:43 final size:43
Alignment explanation
Indices: 123565491--123565578 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
123565481 CACCAGTATT
*
123565491 AAGCCTGCTAGGCACGAAGACCGGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGGCACG
*
123565534 AAGCCTGCTAGGCACGAAGACCCGAATATATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGGCACG
123565577 AA
1 AA
123565579 TGCTCTTCGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.34, C:0.30, G:0.24, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGGCACG
Found at i:123565616 original size:40 final size:40
Alignment explanation
Indices: 123565561--123565648 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
123565551 AGACCCGAAT
* *
123565561 ATATATCACCGGCACGAATGCTCTTCGGGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
123565601 ATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
123565641 ATATAACA
1 ATATAACA
123565649 TACTGAACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
ATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
Found at i:123568689 original size:46 final size:46
Alignment explanation
Indices: 123568636--123568810 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
123568626 TATTTGGGCA
123568636 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
123568682 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG-G
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAGCG
* *
123568727 CACCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
123568774 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
123568811 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 97 0.87
47 3 0.03
49 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:123568794 original size:92 final size:93
Alignment explanation
Indices: 123568632--123568802 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
123568622 GGGATATTTG
* *
123568632 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
123568697 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
123568725 GGCA-CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
123568789 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
123568803 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 71 0.95
93 4 0.05
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:123574425 original size:46 final size:46
Alignment explanation
Indices: 123574375--123574550 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
123574365 TGGTTGAGCA
123574375 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
123574421 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
123574466 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
123574514 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
123574551 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:123574531 original size:93 final size:93
Alignment explanation
Indices: 123574372--123574543 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
123574362 GGATGGTTGA
* *
123574372 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
123574437 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
123574465 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
123574530 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
123574544 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:123582108 original size:47 final size:47
Alignment explanation
Indices: 123581935--123582111 Score: 204
Period size: 47 Copynumber: 3.8 Consensus size: 47
123581925 GGTTGAGCAT
* *
123581935 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGGATGCGAACGC
* * *
123581981 CCGAACTCGTTGAGTTGAGTCCGAGTT--C--GTGAGATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGGATGCGAAC---GC
123582026 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGGATGCGAACGC
* *
123582075 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGG
123582112 CGGGTTACAN
Statistics
Matches: 110, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
45 1 0.01
46 27 0.25
47 62 0.56
49 3 0.03
51 6 0.05
52 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGGATGCGAACGC
Found at i:123586279 original size:47 final size:47
Alignment explanation
Indices: 123586134--123586437 Score: 141
Period size: 49 Copynumber: 6.5 Consensus size: 47
123586124 GACGAGGGCT
* * * * *
123586134 AGTGTAAGACGTGTC-CGGACATGCATCAGCCAC-ATTACGCTAGCC
1 AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATGATGGTAGCC
* * * *
123586179 AGTGTAAGACCATGTTTGAGACATGGCATC-GCGT-AGA-GATGAGT-GCC
1 AGTGTAAGA-CGTGTCTGGGACAT-GCATCAGCCTCA-ATGATG-GTAGCC
123586226 AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATGATGGTAGCC
1 AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATGATGGTAGCC
* * * * * * *
123586273 AATGTAA-ATGTGTCTGGGACACGTATCAG-CT-AA-GCTTCGT-GCT
1 AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATG-ATGGTAGCC
* * * * * *
123586316 AGTGTAAGACATATCTAGGACATGCATCAG--TACGTATACATGAG-AGCT
1 AGTGTAAGACGTGTCTGGGACATGCATCAGCCT-C-AAT-GATG-GTAGCC
* * * * * *
123586364 AGTGTAAGACCATGTCTGGGACATGACATCGGCCTCCATGAAGATAGCT
1 AGTGTAAGA-CGTGTCTGGGACATG-CATCAGCCTCAATGATGGTAGCC
*
123586413 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CGTGTCTGGGACATG
123586438 GCATTGGCAA
Statistics
Matches: 197, Mismatches: 38, Indels: 44
0.71 0.14 0.16
Matches are distributed among these distances:
43 10 0.05
44 21 0.11
45 16 0.08
46 41 0.21
47 36 0.18
48 20 0.10
49 44 0.22
50 7 0.04
51 1 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATGATGGTAGCC
Found at i:123589391 original size:40 final size:40
Alignment explanation
Indices: 123589325--123589491 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
123589315 AAATTGAATG
* * *
123589325 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
123589364 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
123589404 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
123589444 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
123589484 ATATCCGG
1 ATATCCGG
123589492 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:123597380 original size:40 final size:40
Alignment explanation
Indices: 123597336--123597448 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
123597326 TGCTGGAAAT
* * *
123597336 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* * *
123597376 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* *
123597416 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGC
123597449 ACGTGATTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.05
40 57 0.92
41 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:123600943 original size:22 final size:23
Alignment explanation
Indices: 123600889--123600940 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
123600879 TATAAAACCT
123600889 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
* *
123600911 AATAAAAAGTAGTCTTAAAGTAG
1 AATAAAAAGTAGTCTTAAAGAAA
123600934 AATAAAA
1 AATAAAA
123600941 GTAAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.21
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:123611549 original size:48 final size:47
Alignment explanation
Indices: 123611500--123611649 Score: 123
Period size: 48 Copynumber: 3.2 Consensus size: 47
123611490 TGTGTGAGCT
*
123611500 AGTGTAAGTCCATGTCTGGGACATGGCATCGGCATTGAGATGAGGGCT
1 AGTGTAAGTCCATGTCTGGGACATGGCATCGGCATTGAGATGA-GGCC
* * * *
123611548 AGTGTAAGAT--GTGTCTAGGACAT-GCATCAGCCACATT-ACGCT-A-GCC
1 AGTGTAAG-TCCATGTCTGGGACATGGCATC-G--GCATTGA-GATGAGGCC
* * *
123611594 AGTGTAAGACCATGTCTGGGACATGACATCGGCATAGAGATGAGTGCC
1 AGTGTAAGTCCATGTCTGGGACATGGCATCGGCATTGAGATGAG-GCC
123611642 AGTGTAAG
1 AGTGTAAG
123611650 ACGTATCTGG
Statistics
Matches: 78, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
45 5 0.06
46 17 0.22
47 24 0.31
48 25 0.32
49 7 0.09
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
AGTGTAAGTCCATGTCTGGGACATGGCATCGGCATTGAGATGAGGCC
Found at i:123611650 original size:48 final size:46
Alignment explanation
Indices: 123611500--123611862 Score: 154
Period size: 47 Copynumber: 7.7 Consensus size: 46
123611490 TGTGTGAGCT
* * * * *
123611500 AGTGTAAGTCCATGTCTGGGACATGGCATCGGCATTGAGATGAGGGCT
1 AGTGTAAG-ACATGTCTGGGACATGACATCGGCA-TAAGATGAGTGCC
** * * * * *
123611548 AGTGTAAGATGTGTCTAGGACATG-CATCAGC--CACATTACGCTAGCC
1 AGTGTAAGACATGTCTGGGACATGACATCGGCATAAGATGA-G-T-GCC
123611594 AGTGTAAGACCATGTCTGGGACATGACATCGGCATAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACATGACATCGGCATA-AGATGAGTGCC
* * * * *
123611642 AGTGTAAGACGTATCTGGGACATG-CATTGGCCTCAATGATG-GTATCC
1 AGTGTAAGACATGTCTGGGACATGACATCGGCAT-AA-GATGAGT-GCC
* * * ** *
123611689 AGTGTAAGACGTGTCTGGGACACGA-ATCGGC-TAAGCTTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGACATCGGCATAAGATGAGTGCC
* *** * * * *
123611733 AGTGTAAGAGATGTCTGGGGTGTG-CATCAGCACGTATACATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGACATCGGCA--TA-AGATGAGTGCC
* * * * *
123611781 AGTGTAAGACCATGTC-AGGACATGGCATTGGCCT-CGATGAAGATAGCC
1 AGTGTAAGA-CATGTCTGGGACATGACATCGGCATAAGATG-AG-T-GCC
123611829 AGTGTAAGACCATGTCTGGGACAT-AGCATCGGCA
1 AGTGTAAGA-CATGTCTGGGACATGA-CATCGGCA
123611863 ACTTAACCCA
Statistics
Matches: 233, Mismatches: 57, Indels: 49
0.69 0.17 0.14
Matches are distributed among these distances:
43 4 0.02
44 27 0.12
45 7 0.03
46 30 0.13
47 74 0.32
48 63 0.27
49 23 0.10
50 1 0.00
51 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGACATCGGCATAAGATGAGTGCC
Found at i:123611704 original size:94 final size:94
Alignment explanation
Indices: 123611500--123611719 Score: 264
Period size: 94 Copynumber: 2.4 Consensus size: 94
123611490 TGTGTGAGCT
* * * * * *
123611500 AGTGTAAGTCCATGTCTGGGACATGGCATCGGCATTGAGATGAGGGCTAGTGTAAGATGTGTCTA
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCATAGAGATGAGGGCCAGTGTAAGACGTATCTA
*
123611565 GGACATGCATCAGCCACATTACGCTAGCC
66 GGACATGCATCAGCCACATGACGCTAGCC
* *
123611594 AGTGTAAGACCATGTCTGGGACATGACATCGGCATAGAGATGAGTGCCAGTGTAAGACGTATCTG
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCATAGAGATGAGGGCCAGTGTAAGACGTATCTA
** * * * *
123611659 GGACATGCATTGGCCTCAATGATGGTATCC
66 GGACATGCATCAGCCAC-ATGACGCTAGCC
* *
123611689 AGTGTAAGA-CGTGTCTGGGACACGA-ATCGGC
1 AGTGTAAGACCATGTCTGGGACATGACATCGGC
123611720 TAAGCTTTGT
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
93 6 0.06
94 85 0.79
95 17 0.16
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTGGGACATGACATCGGCATAGAGATGAGGGCCAGTGTAAGACGTATCTA
GGACATGCATCAGCCACATGACGCTAGCC
Found at i:123615130 original size:40 final size:40
Alignment explanation
Indices: 123615075--123615186 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
123615065 TATTCGGATG
123615075 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* *
123615115 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* ** *
123615155 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGC
1 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
123615187 GGGTTATTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.02
40 63 0.98
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
Found at i:123615193 original size:40 final size:40
Alignment explanation
Indices: 123615091--123615271 Score: 231
Period size: 40 Copynumber: 4.5 Consensus size: 40
123615081 GGACTAAGAT
* * * * **
123615091 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAG-TC
*
123615131 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTGGTTATTATAACCGGGTTAAGTC
*
123615171 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
* * *
123615211 CCGAAGGTATTCGTACGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
123615251 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCTGGTT
123615272 GTTACATCCG
Statistics
Matches: 127, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 4 0.03
40 120 0.94
41 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
Found at i:123620365 original size:10 final size:9
Alignment explanation
Indices: 123620345--123620369 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
123620335 TCCATCCTAG
123620345 AAAAAATAA
1 AAAAAATAA
123620354 AAAAAATAA
1 AAAAAATAA
123620363 AAAAAAT
1 AAAAAAT
123620370 TCACCTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:123633334 original size:2 final size:2
Alignment explanation
Indices: 123633327--123633363 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
123633317 GAGACTAGTC
123633327 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
123633364 CACATGTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123635432 original size:38 final size:35
Alignment explanation
Indices: 123635373--123635490 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
123635363 TCAATCATGC
*
123635373 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
123635412 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
123635443 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
123635474 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
123635491 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Done.