Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 167 of 320
Found at i:55238054 original size:106 final size:105
Alignment explanation
Indices: 55237851--55238054 Score: 241
Period size: 107 Copynumber: 1.9 Consensus size: 105
55237841 CATGCGAGAC
* * *
55237851 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGATATACAAGCTAGTGCAAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGAACATGCATCGGCCTC-GGATATACAAACTAGTGCAAGAC
* * * * * **
55237916 CTGTTTGGGACATGGCGTTAGCTTATTGTGTGCCGATAGAT
65 CTGTCTGGGACACGGCATCAACTTATAATGTGCCGATAGAT
* * *
55237957 GAGAGCCAGTGTAAGACCTGTCTGGAACATGGCATCGGCCTC-GATATATGAAACTCAGTGTAAG
1 GAGAGCCAGTGTAAGACATGTCTGGAACAT-GCATCGGCCTCGGATATA-CAAACT-AGTGCAAG
55238021 ACCTGTCTGGGACACGGCATCAACTT-TAATGTGC
63 ACCTGTCTGGGACACGGCATCAACTTATAATGTGC
55238055 TAGCTAATGT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
105 6 0.07
106 37 0.45
107 39 0.48
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (105 bp):
GAGAGCCAGTGTAAGACATGTCTGGAACATGCATCGGCCTCGGATATACAAACTAGTGCAAGACC
TGTCTGGGACACGGCATCAACTTATAATGTGCCGATAGAT
Found at i:55239346 original size:20 final size:21
Alignment explanation
Indices: 55239307--55239346 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
55239297 GTCATGTGAG
* *
55239307 CCACACGGGCATATTGCCCTT
1 CCACACGGACATAGTGCCCTT
55239328 CCACACGGACAT-GTGCCCT
1 CCACACGGACATAGTGCCCT
55239347 ATTTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (21 bp):
CCACACGGACATAGTGCCCTT
Found at i:55243387 original size:40 final size:40
Alignment explanation
Indices: 55243342--55243566 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
55243332 CTTGCACAAG
* * *
55243342 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
55243382 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * * *
55243422 GCCTTCGAGTTTTAGCCCGGATATAATCGCTAGCGCAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
55243462 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
55243502 GCCTTCGGATCTTAGCCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
55243543 GCCTTTGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
55243567 CATTCGAATA
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 29 0.19
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:55243455 original size:80 final size:79
Alignment explanation
Indices: 55243306--55243566 Score: 267
Period size: 80 Copynumber: 3.3 Consensus size: 79
55243296 CTCAAGTAAT
* * * * * * * *
55243306 CTTCTGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTC-GGTCTTAGCCCGGATATAGT
*
55243369 CACTAGCATAAATGC
65 CACTAGCACAAATGC
* * * *
55243384 CTTCGGGACTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGAGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATAT-AGCAACTAGCACAAATGCCTTCG-GTCTTAGCCCGGATATAG
* *
55243448 TCGCTAGCGCAAATGC
64 TCACTAGCACAAATGC
* * * *
55243464 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGCCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGG-TCTTAGCCCGGATATAGT
*
55243529 CACCTAGCACAAAAGC
65 CA-CTAGCACAAATGC
*
55243545 CTTTGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
55243567 CATTCGAATA
Statistics
Matches: 150, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
78 11 0.07
79 18 0.12
80 90 0.60
81 31 0.21
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGTCTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:55251484 original size:39 final size:40
Alignment explanation
Indices: 55251429--55251646 Score: 211
Period size: 38 Copynumber: 5.6 Consensus size: 40
55251419 ACTTCACAAG
* * * *
55251429 GCCTTC-GGTCTTAG-CCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
55251467 GCCTTCGGGACTTAG-CCGGATATA-TCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
55251505 GCCTTCGAG-TTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
55251544 GCCTTCGGGTCTTAG-CCGGATA-AG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
55251582 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
55251623 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
55251647 CATTCGAATA
Statistics
Matches: 149, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
37 7 0.05
38 56 0.38
39 49 0.33
40 7 0.05
41 27 0.18
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:55251544 original size:77 final size:80
Alignment explanation
Indices: 55251429--55251646 Score: 236
Period size: 77 Copynumber: 2.8 Consensus size: 80
55251419 ACTTCACAAG
* ** *
55251429 GCCTTCGG-TCTTAG-CCGGATGTGGTCA-CTAGCATAAATGCCTTCGGGACTTAGCCGGATATA
1 GCCTTCGGATCTTAGCCCGGATATAATCACCTAGCACAAATGCCTTCGGGACTTAGCCGGATATA
* *
55251491 TC-GCTAGCACAAAT
66 GCAACTAGCACAAAT
* *
55251505 GCCTTC-GAGT-TTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCGGATA-
1 GCCTTCGGA-TCTTAGCCCGGATATAATCACCTAGCACAAATGCCTTCGGGACTTAGCCGGATAT
* *
55251566 AGCAACTCGCACGAAT
65 AGCAACTAGCACAAAT
* * * *
55251582 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGATCTTAGCCCGGATATAATCACCTAGCACAAATGCCTTCGGGACTTAG-CCGGATAT
55251647 CATTCGAATA
Statistics
Matches: 117, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
75 1 0.01
76 12 0.10
77 57 0.49
78 16 0.14
79 24 0.21
80 7 0.06
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
GCCTTCGGATCTTAGCCCGGATATAATCACCTAGCACAAATGCCTTCGGGACTTAGCCGGATATA
GCAACTAGCACAAAT
Found at i:55264655 original size:18 final size:18
Alignment explanation
Indices: 55264628--55264676 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
55264618 TTGGGCTTAT
55264628 TGGG-CCACATAGGGGTG
1 TGGGCCCACATAGGGGTG
55264645 TGGGCCCACATAGGGGTG
1 TGGGCCCACATAGGGGTG
55264663 TGGGCCCACATAGG
1 TGGGCCCACATAGG
55264677 CCCACATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 4 0.13
18 27 0.87
ACGTcount: A:0.18, C:0.22, G:0.43, T:0.16
Consensus pattern (18 bp):
TGGGCCCACATAGGGGTG
Found at i:55264825 original size:27 final size:27
Alignment explanation
Indices: 55264782--55264882 Score: 150
Period size: 27 Copynumber: 3.7 Consensus size: 27
55264772 CGTACTTGAA
*
55264782 CCCTTATGAGACT-AAATGACTATTTTG
1 CCCTTATGAGA-TAAAATGACGATTTTG
* *
55264809 CCCTTATGCGATAAAATGACGATTTTT
1 CCCTTATGAGATAAAATGACGATTTTG
*
55264836 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGATAAAATGACGATTTTG
55264863 CCCTTATGAGATAAAATGAC
1 CCCTTATGAGATAAAATGAC
55264883 CAAAATATCC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 66 0.99
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (27 bp):
CCCTTATGAGATAAAATGACGATTTTG
Found at i:55264904 original size:27 final size:27
Alignment explanation
Indices: 55264899--55264965 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
55264889 ATCCCTATAC
*
55264899 GGTAAAATGACTGTAATACCCCTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAA
55264926 GGTAAAATGACTGTAATACCCCTGTAA
1 GGTAAAATGACTGTAATACCCCTGTAA
55264953 GGTAAAATGACTG
1 GGTAAAATGACTG
55264966 ATTTGCCCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACTGTAATACCCCTGTAA
Found at i:55264905 original size:54 final size:54
Alignment explanation
Indices: 55264795--55264909 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
55264785 TTATGAGACT
* * * ** * *
55264795 AAATGACTATTTTGCCCTTATGCGATAAAATGACGATTTTTCCCTTATGTGATA
1 AAATGACGATTTTGCCCTTATGAGATAAAATGACAAAATATCCCTTACGTGATA
55264849 AAATGACGATTTTGCCCTTATGAGATAAAATGACCAAAATATCCCTATACG-G-TA
1 AAATGACGATTTTGCCCTTATGAGATAAAATGA-CAAAATATCCCT-TACGTGATA
55264903 AAATGAC
1 AAATGAC
55264910 TGTAATACCC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 40 0.77
55 9 0.17
56 3 0.06
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (54 bp):
AAATGACGATTTTGCCCTTATGAGATAAAATGACAAAATATCCCTTACGTGATA
Found at i:55269351 original size:10 final size:10
Alignment explanation
Indices: 55269336--55269362 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
55269326 TCAAGCCATA
55269336 CCATTTACAC
1 CCATTTACAC
55269346 CCATTTACAC
1 CCATTTACAC
55269356 CCATTTA
1 CCATTTA
55269363 TGCCTATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (10 bp):
CCATTTACAC
Found at i:55269898 original size:20 final size:20
Alignment explanation
Indices: 55269869--55269908 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
55269859 CCAAAATGAG
55269869 GTAAGCTTGT-ATAAAGCTTA
1 GTAAGCTTGTAATAAA-CTTA
*
55269889 GTAAGTTTGTAATAAACTTA
1 GTAAGCTTGTAATAAACTTA
55269909 AACTTAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (20 bp):
GTAAGCTTGTAATAAACTTA
Found at i:55271837 original size:143 final size:143
Alignment explanation
Indices: 55271622--55271908 Score: 574
Period size: 143 Copynumber: 2.0 Consensus size: 143
55271612 GCGATTAACT
55271622 TTTCCAGCTTTTACAATTTAGTTCTTTTTCTTTAATTAACTATCTAAATGTTAAAATTTTTGGAT
1 TTTCCAGCTTTTACAATTTAGTTCTTTTTCTTTAATTAACTATCTAAATGTTAAAATTTTTGGAT
55271687 CAAACTTCAATACACCTATATAGCCACTCTATAAATATTTAATAAAAATATTTACTGGCTAGGTT
66 CAAACTTCAATACACCTATATAGCCACTCTATAAATATTTAATAAAAATATTTACTGGCTAGGTT
55271752 TATGGAAACAAGG
131 TATGGAAACAAGG
55271765 TTTCCAGCTTTTACAATTTAGTTCTTTTTCTTTAATTAACTATCTAAATGTTAAAATTTTTGGAT
1 TTTCCAGCTTTTACAATTTAGTTCTTTTTCTTTAATTAACTATCTAAATGTTAAAATTTTTGGAT
55271830 CAAACTTCAATACACCTATATAGCCACTCTATAAATATTTAATAAAAATATTTACTGGCTAGGTT
66 CAAACTTCAATACACCTATATAGCCACTCTATAAATATTTAATAAAAATATTTACTGGCTAGGTT
55271895 TATGGAAACAAGG
131 TATGGAAACAAGG
55271908 T
1 T
55271909 CCCAACAACT
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 144 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.41
Consensus pattern (143 bp):
TTTCCAGCTTTTACAATTTAGTTCTTTTTCTTTAATTAACTATCTAAATGTTAAAATTTTTGGAT
CAAACTTCAATACACCTATATAGCCACTCTATAAATATTTAATAAAAATATTTACTGGCTAGGTT
TATGGAAACAAGG
Found at i:55278121 original size:15 final size:15
Alignment explanation
Indices: 55278101--55278131 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
55278091 CACAATTATG
55278101 TCATCTTGATTAAAA
1 TCATCTTGATTAAAA
55278116 TCATCTTGATTAAAA
1 TCATCTTGATTAAAA
55278131 T
1 T
55278132 AAACTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (15 bp):
TCATCTTGATTAAAA
Found at i:55280314 original size:29 final size:29
Alignment explanation
Indices: 55280279--55280335 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
55280269 ATTTCACTCA
*
55280279 TATGGCCCATTAGGCCTAAATCACATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCG
55280308 TATGGCCCATTAGGCCCAAATCACATTC
1 TATGGCCCATTAGGCCCAAATCACATTC
55280336 ATAGTCATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTCG
Found at i:55280420 original size:17 final size:18
Alignment explanation
Indices: 55280398--55280431 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55280388 TGCTTATTCT
55280398 GGGCCC-TGTAGCCCATC
1 GGGCCCATGTAGCCCATC
*
55280415 GGGCCCATTTAGCCCAT
1 GGGCCCATGTAGCCCAT
55280432 TCTGGCCCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (18 bp):
GGGCCCATGTAGCCCATC
Found at i:55287664 original size:28 final size:28
Alignment explanation
Indices: 55287633--55287708 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 28
55287623 TGGCCTACTG
**
55287633 GGCCCAATCTTATTCATATGGCCCATTA
1 GGCCCAATCACATTCATATGGCCCATTA
* *
55287661 GGCCCAAATCACATTCGTATGGCCGATTA
1 GGCCC-AATCACATTCATATGGCCCATTA
55287690 GGCCCAAATCACATTCATA
1 GGCCC-AATCACATTCATA
55287709 GTCATGCTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (28 bp):
GGCCCAATCACATTCATATGGCCCATTA
Found at i:55287681 original size:29 final size:29
Alignment explanation
Indices: 55287644--55287708 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
55287634 GCCCAATCTT
55287644 ATTCATATGGCCCATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
* *
55287673 ATTCGTATGGCCGATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
55287702 ATTCATA
1 ATTCATA
55287709 GTCATGCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAC
Found at i:55290922 original size:72 final size:72
Alignment explanation
Indices: 55290782--55290927 Score: 184
Period size: 72 Copynumber: 2.0 Consensus size: 72
55290772 CACAAGCATT
* ** * * *
55290782 TGGGATTTTGGGCCAGGCCATGTGATCCACACGGCCAAGGAAAATTTGGGCCATGTAGACCACGC
1 TGGGATTTTGGGCCAGGCCATATGATCCACACAACCAAGGAAAAATTGGACCATGTAGACCACAC
*
55290847 GAGTGTG
66 GAGTATG
** * * *
55290854 TGGGATTTTGGGCCAGGCTGTATGATCCACACAACCAAGGAAAAATTGGACCGTGTGGGCCACAC
1 TGGGATTTTGGGCCAGGCCATATGATCCACACAACCAAGGAAAAATTGGACCATGTAGACCACAC
55290919 GAGTATG
66 GAGTATG
55290926 TG
1 TG
55290928 CACCTACACG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.21
Consensus pattern (72 bp):
TGGGATTTTGGGCCAGGCCATATGATCCACACAACCAAGGAAAAATTGGACCATGTAGACCACAC
GAGTATG
Found at i:55296647 original size:47 final size:47
Alignment explanation
Indices: 55296584--55296949 Score: 633
Period size: 47 Copynumber: 7.7 Consensus size: 47
55296574 ATGATAGTAT
55296584 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
55296631 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
55296678 TGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
55296725 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
55296772 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
55296819 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
55296868 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
55296917 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
55296950 CCCGAAGGGC
Statistics
Matches: 309, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 215 0.70
49 90 0.29
50 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:55297123 original size:37 final size:37
Alignment explanation
Indices: 55297067--55297145 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55297057 CCGAGCTCTA
* * *
55297067 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
55297104 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55297141 AAGAC
1 AAGAC
55297146 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55299092 original size:20 final size:20
Alignment explanation
Indices: 55299067--55299106 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
55299057 CTAAGTGTGC
55299067 GGGCAATAAGTGTTCACGGT
1 GGGCAATAAGTGTTCACGGT
55299087 GGGCAATAAGTGTTCACGGT
1 GGGCAATAAGTGTTCACGGT
55299107 TGTGAGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (20 bp):
GGGCAATAAGTGTTCACGGT
Found at i:55299109 original size:63 final size:63
Alignment explanation
Indices: 55299024--55299149 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
55299014 CTAAGTGTGC
55299024 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGT
1 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGT
55299087 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGT
1 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGT
55299150 TGTGAGATTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (63 bp):
GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGT
Found at i:55299148 original size:43 final size:43
Alignment explanation
Indices: 55299087--55299176 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
55299077 TGTTCACGGT
55299087 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
1 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
55299130 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
1 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
55299173 GGGC
1 GGGC
55299177 TTGAAATGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.22, C:0.14, G:0.37, T:0.27
Consensus pattern (43 bp):
GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
Found at i:55299197 original size:29 final size:29
Alignment explanation
Indices: 55299158--55299231 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
55299148 GTTGTGAGAT
* *
55299158 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
55299187 TGGCACCAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
55299216 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55299232 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:55299666 original size:40 final size:40
Alignment explanation
Indices: 55299543--55299898 Score: 369
Period size: 40 Copynumber: 8.9 Consensus size: 40
55299533 TCGAATGATG
** *
55299543 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
55299583 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
55299623 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
55299663 TCCGAGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
55299703 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
55299743 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
55299783 TCCGGGCTAAGTTCCGAAGGGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
55299823 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
55299863 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
55299899 CGTGTATTCG
Statistics
Matches: 268, Mismatches: 44, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
39 1 0.00
40 249 0.93
41 18 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:55303655 original size:49 final size:47
Alignment explanation
Indices: 55303409--55303727 Score: 557
Period size: 47 Copynumber: 6.7 Consensus size: 47
55303399 ATGATAGTAT
55303409 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
55303456 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
55303503 TGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
55303550 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
55303597 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
55303646 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
55303695 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
55303728 CCCGAAGGGC
Statistics
Matches: 264, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 170 0.64
49 90 0.34
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:55303901 original size:37 final size:37
Alignment explanation
Indices: 55303845--55303923 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55303835 CCGAGCTCTA
* * *
55303845 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
55303882 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55303919 AAGAC
1 AAGAC
55303924 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55310854 original size:40 final size:40
Alignment explanation
Indices: 55310806--55311111 Score: 551
Period size: 40 Copynumber: 7.7 Consensus size: 40
55310796 GCAAACACAT
* *
55310806 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
55310846 TTGCCTTC-GGTCTTAGCCCGGATATAACATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
55310885 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
55310925 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
55310965 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
55311005 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
55311045 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
55311085 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
55311112 ATCCAATGCT
Statistics
Matches: 256, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 35 0.14
40 221 0.86
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:55316055 original size:28 final size:28
Alignment explanation
Indices: 55316015--55316087 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
55316005 TTACGGCCAG
*
55316015 ATGGGCCATATGAATGTGATTTGGGCTTA
1 ATGGGCCATATGAATGTGA-TTGGGCCTA
*
55316044 ATGGGCC-TATGAATGAGATTGGGCCTA
1 ATGGGCCATATGAATGTGATTGGGCCTA
* *
55316071 GTGGGCCATATGCATGT
1 ATGGGCCATATGAATGT
55316088 ATGTAGACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 14 0.37
28 17 0.45
29 7 0.18
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (28 bp):
ATGGGCCATATGAATGTGATTGGGCCTA
Found at i:55316430 original size:27 final size:27
Alignment explanation
Indices: 55316377--55316451 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
55316367 ATAATAAAGG
* *
55316377 GAAATTACCAAAATACCCCTAATTTGT
1 GAAATTACCGAAATACCCCTAACTTGT
*
55316404 GAAATTACCGAAATA-CCCTCGACTTGT
1 GAAATTACCGAAATACCCCT-AACTTGT
* *
55316431 AAAATTACCGAAATGCCCCTA
1 GAAATTACCGAAATACCCCTA
55316452 TGGGCGAGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 4 0.10
27 32 0.80
28 4 0.10
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (27 bp):
GAAATTACCGAAATACCCCTAACTTGT
Found at i:55319257 original size:13 final size:13
Alignment explanation
Indices: 55319239--55319263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55319229 TTAATATGTG
55319239 TGAAAATTTAATA
1 TGAAAATTTAATA
55319252 TGAAAATTTAAT
1 TGAAAATTTAAT
55319264 CGTTTGTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
TGAAAATTTAATA
Found at i:55319394 original size:18 final size:18
Alignment explanation
Indices: 55319371--55319407 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
55319361 GAGAGGTCCT
55319371 TATGTTGTTAATATACCA
1 TATGTTGTTAATATACCA
55319389 TATGTTGTTAATATACCA
1 TATGTTGTTAATATACCA
55319407 T
1 T
55319408 TTACATGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (18 bp):
TATGTTGTTAATATACCA
Found at i:55325114 original size:45 final size:45
Alignment explanation
Indices: 55325061--55325188 Score: 161
Period size: 45 Copynumber: 2.8 Consensus size: 45
55325051 CTCCTGAGCT
55325061 GATGAACAGTAAGCTCTATTGAGCTAAAACGGTAAGCTCTATCGA
1 GATGAACAGTAAGCTCTATTGAGCTAAAACGGTAAGCTCTATCGA
* * * *
55325106 GATGAACAGTAAGCTC-ATACGAGTTGAAACGGTAAGCTCTATTGA
1 GATGAACAGTAAGCTCTAT-TGAGCTAAAACGGTAAGCTCTATCGA
* * *
55325151 GCTGAACAGTAAGCTCT-TTCGAGCTAAATCAGTAAGCT
1 GATGAACAGTAAGCTCTATT-GAGCTAAAACGGTAAGCT
55325189 TAAATGAGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
44 2 0.03
45 68 0.97
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (45 bp):
GATGAACAGTAAGCTCTATTGAGCTAAAACGGTAAGCTCTATCGA
Found at i:55325120 original size:22 final size:22
Alignment explanation
Indices: 55325063--55325213 Score: 128
Period size: 23 Copynumber: 6.7 Consensus size: 22
55325053 CCTGAGCTGA
*
55325063 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATCGAGC
* * *
55325085 TAAAACGGTAAGCTCTATCGAGA
1 T-GAACAGTAAGCTCTATCGAGC
*
55325108 TGAACAGTAAGCTC-ATACGAGT
1 TGAACAGTAAGCTCTAT-CGAGC
* *
55325130 TGAAACGGTAAGCTCTATTGAGC
1 TG-AACAGTAAGCTCTATCGAGC
*
55325153 TGAACAGTAAGCTCTTTCGAGC
1 TGAACAGTAAGCTCTATCGAGC
*
55325175 TAAATCAGTAAGCT-TAAAT-GAGC
1 TGAA-CAGTAAGCTCT--ATCGAGC
*
55325198 TGAAACAGTATGCTCT
1 TG-AACAGTAAGCTCT
55325214 TCTGACCTGT
Statistics
Matches: 103, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.02
22 39 0.38
23 56 0.54
24 6 0.06
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:55325197 original size:45 final size:44
Alignment explanation
Indices: 55325063--55325214 Score: 157
Period size: 45 Copynumber: 3.4 Consensus size: 44
55325053 CCTGAGCTGA
*
55325063 TGAACAGTAAGCTCTATT-GAGCTAAAACGGTAAGCTCT-ATCGAGA
1 TGAACAGTAAGCTCT-TTCGAGCT-AAACGGTAAGCTCTAAT-GAGC
* * * *
55325108 TGAACAGTAAGCTCATACGAGTTGAAACGGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTTTCGAGCT-AAACGGTAAGCTCTAATGAGC
*
55325153 TGAACAGTAAGCTCTTTCGAGCTAAATCAGTAAGCT-TAAATGAGC
1 TGAACAGTAAGCTCTTTCGAGCTAAA-CGGTAAGCTCT-AATGAGC
*
55325198 TGAAACAGTATGCTCTT
1 TG-AACAGTAAGCTCTT
55325215 CTGACCTGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
44 5 0.06
45 71 0.79
46 14 0.16
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (44 bp):
TGAACAGTAAGCTCTTTCGAGCTAAACGGTAAGCTCTAATGAGC
Found at i:55325202 original size:68 final size:68
Alignment explanation
Indices: 55325055--55325213 Score: 185
Period size: 68 Copynumber: 2.3 Consensus size: 68
55325045 AAGCTTCTCC
* *
55325055 TGAGCTGATGAACAGTAAGCTCTATTGAGCTAAAACGGTAAGCTCTATCGAGATGAACAGTAAGC
1 TGAGCTGA--AACAGTAAGCTCTATTGAGCTAAAACAGTAAGCTCTATCGAGATAAACAGTAAGC
*
55325120 TCATA
64 TCAAA
* * * * * *
55325125 CGAGTTGAAACGGTAAGCTCTATTGAGCT-GAACAGTAAGCTCTTTCGAGCTAAATCAGTAAGCT
1 TGAGCTGAAACAGTAAGCTCTATTGAGCTAAAACAGTAAGCTCTATCGAGATAAA-CAGTAAGCT
*
55325189 TAAA
65 CAAA
*
55325193 TGAGCTGAAACAGTATGCTCT
1 TGAGCTGAAACAGTAAGCTCT
55325214 TCTGACCTGT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
67 20 0.27
68 48 0.65
70 6 0.08
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (68 bp):
TGAGCTGAAACAGTAAGCTCTATTGAGCTAAAACAGTAAGCTCTATCGAGATAAACAGTAAGCTC
AAA
Found at i:55334741 original size:37 final size:36
Alignment explanation
Indices: 55334690--55334814 Score: 100
Period size: 36 Copynumber: 3.4 Consensus size: 36
55334680 ATTCTAAAAA
*
55334690 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
55334726 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
* *
55334763 TAAAGTGATTATCTT-A-A-TATTAAATTAATATAATAT
1 T-AA-T-ATTATCTTAATAGTATTATATTAATTTAATAT
*
55334799 TTATATTAAT-TTAATA
1 TAATATT-ATCTTAATA
55334815 TTGAACTGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
33 5 0.07
34 4 0.05
35 2 0.03
36 30 0.41
37 19 0.26
38 5 0.07
39 8 0.11
40 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.52
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:55334759 original size:5 final size:6
Alignment explanation
Indices: 55334749--55334816 Score: 56
Period size: 5 Copynumber: 11.7 Consensus size: 6
55334739 AATAGTATTT
*
55334749 TATTAA T-TTAA TATTAAA GTGATT-A TCTTAA TATTAA -ATTAA TA-TAA
1 TATTAA TATTAA TATT-AA -T-ATTAA TATTAA TATTAA TATTAA TATTAA
*
55334796 TATTTA TATTAA T-TTAA TATT
1 TATTAA TATTAA TATTAA TATT
55334817 GAACTGATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
5 22 0.44
6 21 0.42
7 3 0.06
8 1 0.02
9 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (6 bp):
TATTAA
Found at i:55334765 original size:11 final size:11
Alignment explanation
Indices: 55334690--55334816 Score: 58
Period size: 11 Copynumber: 11.6 Consensus size: 11
55334680 ATTCTAAAAA
*
55334690 TAATATTATTT
1 TAATATTAATT
55334701 TAATAGTTTAATAT
1 TAATA--TTAAT-T
55334715 TAA-ATTTAATT
1 TAATA-TTAATT
55334726 TAATACTT-ATCT
1 TAATA-TTAAT-T
*
55334738 TAATAGT-ATT
1 TAATATTAATT
55334748 T--TATTAATT
1 TAATATTAATT
55334757 TAATATTAA--
1 TAATATTAATT
*
55334766 -AGTGATT-ATCT
1 TAAT-ATTAAT-T
*
55334777 TAATATTAAAT
1 TAATATTAATT
55334788 TAATA-TAATAT
1 TAATATTAAT-T
*
55334799 TTATATTAATT
1 TAATATTAATT
55334810 TAATATT
1 TAATATT
55334817 GAACTGATTA
Statistics
Matches: 90, Mismatches: 10, Indels: 32
0.68 0.08 0.24
Matches are distributed among these distances:
8 6 0.07
9 7 0.08
10 5 0.06
11 41 0.46
12 22 0.24
13 5 0.06
14 4 0.04
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (11 bp):
TAATATTAATT
Found at i:55337572 original size:49 final size:49
Alignment explanation
Indices: 55337519--55337697 Score: 259
Period size: 49 Copynumber: 3.6 Consensus size: 49
55337509 CTGGTACGCA
* *
55337519 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* *
55337568 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGAACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** ** * *
55337617 TAGTAGCCCGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
55337667 TAGTAGCCTACACTTAGTACTACACACGTGA
1 TAGTAGCCTACACTTAGTACTACACACGTGA
55337698 TCGAAGTTAT
Statistics
Matches: 117, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 77 0.66
50 40 0.34
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:55337689 original size:99 final size:98
Alignment explanation
Indices: 55337519--55337697 Score: 268
Period size: 99 Copynumber: 1.8 Consensus size: 98
55337509 CTGGTACGCA
* * ** * *
55337519 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCCACACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCCTACACTTA
55337584 GTACTACACACGTGACCAATTATCCGGAACACG
66 GTACTACACACGTGACCAATTATCCGGAACACG
* * *
55337617 TAGTAGCCCGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCCACACTTAGTACTACACACGCGACC-AACCATCCGATACACGTAGTAGCCTACACTT
55337682 AGTACTACACACGTGA
65 AGTACTACACACGTGA
55337698 TCGAAGTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
98 29 0.41
99 42 0.59
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (98 bp):
TAGTAGCCCACACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCCTACACTTA
GTACTACACACGTGACCAATTATCCGGAACACG
Found at i:55348775 original size:33 final size:32
Alignment explanation
Indices: 55348729--55348841 Score: 111
Period size: 32 Copynumber: 3.5 Consensus size: 32
55348719 CGTACGGTTC
*
55348729 TGTGAAATGATAACAAATATCAACTTTTCATTT
1 TGTGAAATGATAACAAATATCAAC-TTTAATTT
*
55348762 TGTGAAATTATAACAAAT-TACAACTTTAATTT
1 TGTGAAATGATAACAAATAT-CAACTTTAATTT
* * * *** *
55348794 TATAAAATGATAACAAATATCGACTAGCATCT
1 TGTGAAATGATAACAAATATCAACTTTAATTT
*
55348826 TGTTAAATGATAACAA
1 TGTGAAATGATAACAA
55348842 TATTGCTCTT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
32 44 0.67
33 22 0.33
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (32 bp):
TGTGAAATGATAACAAATATCAACTTTAATTT
Found at i:55350260 original size:9 final size:10
Alignment explanation
Indices: 55350253--55350312 Score: 52
Period size: 11 Copynumber: 5.7 Consensus size: 10
55350243 AAGAGAAAAT
55350253 AAAGAAAAGA
1 AAAGAAAAGA
55350263 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
55350275 AAAGAAGA-A
1 AAAGAAAAGA
55350284 AAAGAAAATGA
1 AAAGAAAA-GA
55350295 AAATGAAATA-A
1 AAA-GAAA-AGA
55350306 AAAGAAA
1 AAAGAAA
55350313 TGAGAGGCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 8 0.19
10 8 0.19
11 16 0.38
12 9 0.21
13 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.05
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:55350277 original size:6 final size:5
Alignment explanation
Indices: 55350253--55350312 Score: 52
Period size: 5 Copynumber: 11.4 Consensus size: 5
55350243 AAGAGAAAAT
*
55350253 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AAATGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AAA-GA
55350301 AATA-A AAAGA AA
1 AA-AGA AAAGA AA
55350313 TGAGAGGCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
4 4 0.09
5 22 0.47
6 20 0.43
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.05
Consensus pattern (5 bp):
AAAGA
Found at i:55350307 original size:21 final size:22
Alignment explanation
Indices: 55350262--55350312 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
55350252 TAAAGAAAAG
55350262 AAAAGAAAAAGCAAAAGAAG-A
1 AAAAGAAAAAGCAAAAGAAGAA
*
55350283 AAAAGAAAATG-AAAATGAA-ATA
1 AAAAGAAAAAGCAAAA-GAAGA-A
55350305 AAAAGAAA
1 AAAAGAAA
55350313 TGAGAGGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.15
21 13 0.50
22 9 0.35
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (22 bp):
AAAAGAAAAAGCAAAAGAAGAA
Found at i:55350309 original size:31 final size:30
Alignment explanation
Indices: 55350253--55350311 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
55350243 AAGAGAAAAT
55350253 AAAGAAAAGAAAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAGAAAAGAAAAA-CAAAAGAAGAA
*
55350284 AAAGAAAATGAAAATGAAATA-AAAAGAA
1 AAAGAAAA-GAAAA-GAAAAACAAAAGAA
55350312 ATGAGAGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 15 0.60
32 5 0.20
33 5 0.20
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (30 bp):
AAAGAAAAGAAAAGAAAAACAAAAGAAGAA
Found at i:55350395 original size:11 final size:12
Alignment explanation
Indices: 55350363--55350393 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
55350353 TTGAGAGAAC
55350363 TTGAAAAAGCCT
1 TTGAAAAAGCCT
55350375 TTGAAAAAGCCT
1 TTGAAAAAGCCT
55350387 TTGAAAA
1 TTGAAAA
55350394 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:55350404 original size:12 final size:12
Alignment explanation
Indices: 55350396--55350420 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55350386 TTTGAAAAGC
55350396 AAAAAGAAAATG
1 AAAAAGAAAATG
55350408 AAAAAGAAAATG
1 AAAAAGAAAATG
55350420 A
1 A
55350421 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:55350417 original size:18 final size:18
Alignment explanation
Indices: 55350390--55350432 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
55350380 AAAGCCTTTG
55350390 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
55350409 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
55350427 AAAAGA
1 AAAAGA
55350433 GAACAAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:55350430 original size:30 final size:31
Alignment explanation
Indices: 55350396--55350477 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
55350386 TTTGAAAAGC
*
55350396 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
55350426 AAAAAGAGAA-CAAAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
55350456 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
55350478 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 9 0.21
30 24 0.56
31 10 0.23
ACGTcount: A:0.66, C:0.01, G:0.21, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:55352745 original size:30 final size:30
Alignment explanation
Indices: 55352711--55352807 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
55352701 AGCTCACTCC
55352711 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
55352741 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
55352771 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
55352801 TAGCTCA
1 TAGCTCA
55352808 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:55364321 original size:41 final size:41
Alignment explanation
Indices: 55364274--55364358 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
55364264 TATAGAACAC
55364274 AAATTAATTTTTAATAAAAATATTTCTTGAAAATATTAATA
1 AAATTAATTTTTAATAAAAATATTTCTTGAAAATATTAATA
55364315 AAATTAATTTTTAATAAAAATATTTCTTGAAAATATTAATA
1 AAATTAATTTTTAATAAAAATATTTCTTGAAAATATTAATA
55364356 AAA
1 AAA
55364359 AATCTAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (41 bp):
AAATTAATTTTTAATAAAAATATTTCTTGAAAATATTAATA
Found at i:55365055 original size:16 final size:16
Alignment explanation
Indices: 55365034--55365064 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55365024 ATTTTATTTG
55365034 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
*
55365050 AATAATAATTTTTAA
1 AATAATAAATTTTAA
55365065 TATATTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:55365065 original size:26 final size:26
Alignment explanation
Indices: 55365036--55365110 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
55365026 TTTATTTGAA
*
55365036 TAATAAATTTTAAAAATAATAATTTT
1 TAATAAATTTTAAAAATAATAATATT
* *
55365062 TAATATATTTTAATAA-AA-AATATT
1 TAATAAATTTTAAAAATAATAATATT
* * *
55365086 TATTACAATTATAAATATAATAATA
1 TAATA-AATTTTAAAAATAATAATA
55365111 ATAATTTTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
24 9 0.24
25 9 0.24
26 16 0.42
27 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (26 bp):
TAATAAATTTTAAAAATAATAATATT
Found at i:55366223 original size:41 final size:42
Alignment explanation
Indices: 55366166--55366254 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 42
55366156 TCAAATACAT
55366166 TTAAAACAAATATTAAAACAAGAAACAAA-TAAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAAATATA
* * * * * *
55366207 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAAATATA
*
55366249 ATAAAA
1 TTAAAA
55366255 ATTGATTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 25 0.62
42 15 0.38
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (42 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAAATATA
Found at i:55366256 original size:20 final size:20
Alignment explanation
Indices: 55366233--55366287 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
55366223 AACAATACAC
*
55366233 AAATTGAAAATATATAATAA
1 AAATTGAAAATATAAAATAA
** *
55366253 AAATTGATTATATTAAAATTA
1 AAATTGAAAATA-TAAAATAA
55366274 AAATT-AAAATATAA
1 AAATTGAAAATATAA
55366288 TTATAATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.11
20 14 0.50
21 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
AAATTGAAAATATAAAATAA
Found at i:55366271 original size:28 final size:29
Alignment explanation
Indices: 55366234--55366305 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
55366224 ACAATACACA
* *
55366234 AATTGAAAATATATAATAAAAAT-TGATTAT
1 AATT-AAAAT-TAAAATAAAAATATAATTAT
*
55366264 -ATTAAAATTAAAATTAAAATATAATTAT
1 AATTAAAATTAAAATAAAAATATAATTAT
*
55366292 AATTAAAAATAAAA
1 AATTAAAATTAAAA
55366306 AATATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 10 0.28
28 11 0.31
29 15 0.42
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (29 bp):
AATTAAAATTAAAATAAAAATATAATTAT
Found at i:55366275 original size:6 final size:6
Alignment explanation
Indices: 55366264--55366305 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
55366254 AATTGATTAT
* * *
55366264 ATTAAA ATTAAA ATTAAA A-TATA ATTATA ATTAAA AATAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
55366306 AATATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:55366289 original size:17 final size:16
Alignment explanation
Indices: 55366269--55366303 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
55366259 ATTATATTAA
55366269 AATTAAAATTAAAATAT
1 AATTAAAATTAAAA-AT
*
55366286 AATTATAATTAAAAAT
1 AATTAAAATTAAAAAT
55366302 AA
1 AA
55366304 AAAATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTAAAATTAAAAAT
Found at i:55366315 original size:23 final size:23
Alignment explanation
Indices: 55366264--55366309 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
55366254 AATTGATTAT
* * *
55366264 ATTAAAATTAAAATTAAAATATA
1 ATTATAATTAAAAATAAAAAATA
55366287 ATTATAATTAAAAATAAAAAATA
1 ATTATAATTAAAAATAAAAAATA
55366310 TATATATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
ATTATAATTAAAAATAAAAAATA
Found at i:55368091 original size:12 final size:13
Alignment explanation
Indices: 55368075--55368117 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
55368065 TAATAAATAA
55368075 ATAAATAATTTTT
1 ATAAATAATTTTT
55368088 -TAAATAAAATTTTT
1 ATAAAT--AATTTTT
*
55368102 ATTAATAATTTTT
1 ATAAATAATTTTT
55368115 ATA
1 ATA
55368118 GAAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 5 0.20
13 9 0.36
14 7 0.28
15 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAAATAATTTTT
Found at i:55369682 original size:18 final size:20
Alignment explanation
Indices: 55369646--55369692 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
55369636 AGTTGTAAGT
55369646 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
55369666 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
55369685 ATGATATA
1 AT-ATATA
55369693 ACCTGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:55370129 original size:50 final size:51
Alignment explanation
Indices: 55370045--55370384 Score: 277
Period size: 50 Copynumber: 6.7 Consensus size: 51
55370035 TGTGAGTCAT
* *
55370045 GTGTGTAGTACGAAGTGCAGGCTACTACGTGTACCATATTGATAGGTTGCA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCA
* * * * **
55370096 -TATGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TT-A-ACTTTGATCA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTG--CA
* ** * * *
55370145 CGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTTAAG-T-CA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCA
* *
55370195 TGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCA
* ** * * ** *
55370247 -TGTGTAGTACTAAGTGCAGGCTACTAAGCATACCCG-TTAACTTCGAT-CA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA-TAGGTTGCA
* * *
55370296 TGTATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCA
* * * *
55370348 -TGTGTAGTACTAAATGCAAGCTACTATGCGTACCAGA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
55370385 GAGCTTCGGT
Statistics
Matches: 222, Mismatches: 53, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
47 4 0.02
48 1 0.00
49 9 0.04
50 137 0.62
51 61 0.27
52 8 0.04
53 1 0.00
54 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (51 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCA
Found at i:55370237 original size:151 final size:151
Alignment explanation
Indices: 55370039--55370329 Score: 474
Period size: 151 Copynumber: 1.9 Consensus size: 151
55370029 ATTTGTTGTG
* *
55370039 AGTCATGTGTGTAGTACGAAGTGCAGGCTACTACGTGTACCATATTGATAGGTTGCATATGTAGT
1 AGTCATGTGTGTAGTACGAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATATGTAGT
* * * * *
55370104 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGTAGGCT
66 ACTAAGTGCAGGCTACTAAGCATACCCGTTAACTTCGATCACGTATGTAGTACTAAGTGCAGGCT
*
55370169 ACTACGTGTATTAGATGGTTA
131 ACTACATGTATTAGATGGTTA
* * *
55370190 AGTCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCATGTGTGTAGTACGAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATATGTAGT
*
55370255 ACTAAGTGCAGGCTACTAAGCATACCCGTTAACTTCGATCATGTATGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTAAGCATACCCGTTAACTTCGATCACGTATGTAGTACTAAGTGCAGGCT
55370320 ACTACATGTA
131 ACTACATGTA
55370330 CCAGATTGAT
Statistics
Matches: 128, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 128 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
AGTCATGTGTGTAGTACGAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATATGTAGT
ACTAAGTGCAGGCTACTAAGCATACCCGTTAACTTCGATCACGTATGTAGTACTAAGTGCAGGCT
ACTACATGTATTAGATGGTTA
Found at i:55370297 original size:101 final size:101
Alignment explanation
Indices: 55370192--55370373 Score: 319
Period size: 101 Copynumber: 1.8 Consensus size: 101
55370182 GATGGTTAAG
* * *
55370192 TCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCATGTATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
* *
55370257 TAAGTGCAGGCTACTAAGCATACCCGTTAACTTCGA
66 TAAATGCAAGCTACTAAGCATACCCGTTAACTTCGA
55370293 TCATGTATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCATGTATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
55370358 TAAATGCAAGCTACTA
66 TAAATGCAAGCTACTA
55370374 TGCGTACCAG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (101 bp):
TCATGTATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
TAAATGCAAGCTACTAAGCATACCCGTTAACTTCGA
Found at i:55370352 original size:151 final size:151
Alignment explanation
Indices: 55370046--55370384 Score: 462
Period size: 151 Copynumber: 2.2 Consensus size: 151
55370036 GTGAGTCATG
* * *
55370046 TGTGTAGTACGAAGTGCAGGCTACTACGTGTACCATATTGATAGGTTGCATATGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATATGTAGTACTAAGT
* * * * * *
55370111 GCAGGCTACTATGCGTACCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGT
66 GCAGGCTACTAAGCATACCCGTTAACTTCGATCACGTATGTAGTACTAAGTGCAGGCTACTACAT
** * **
55370176 GTATTAGATGGTTAAGTCATG
131 GTACCAGATGGATAAGTCACA
* *
55370197 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATATGTAGTACTAAGT
*
55370262 GCAGGCTACTAAGCATACCCGTTAACTTCGATCATGTATGTAGTACTAAGTGCAGGCTACTACAT
66 GCAGGCTACTAAGCATACCCGTTAACTTCGATCACGTATGTAGTACTAAGTGCAGGCTACTACAT
* * *
55370327 GTACCAGATTGATAGGTCGCA
131 GTACCAGATGGATAAGTCACA
* * * *
55370348 TGTGTAGTACTAAATGCAAGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
55370385 GAGCTTCGGT
Statistics
Matches: 163, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
151 163 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATATGTAGTACTAAGT
GCAGGCTACTAAGCATACCCGTTAACTTCGATCACGTATGTAGTACTAAGTGCAGGCTACTACAT
GTACCAGATGGATAAGTCACA
Found at i:55370605 original size:16 final size:16
Alignment explanation
Indices: 55370584--55370615 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
55370574 AGAATGGAGT
55370584 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
55370600 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
55370616 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:55377519 original size:75 final size:75
Alignment explanation
Indices: 55377451--55377591 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 75
55377441 AATATGAAGA
* * * *
55377451 ACATATAATGCAGGTAT-TAAAGGATGCTAGTGTATTAATTCAAAACATTAAACAAAGATGTATT
1 ACATATAATGCAAGTATCTAAA-GATGCAAATGTATTAATGCAAAACATTAAACAAAGATGTATT
55377515 TAATAAACAAG
65 TAATAAACAAG
* * * * *
55377526 ACATTTAATGCAAGTTTCTAAAGATGCAAATGTATTAATGCAAGACATTAATCAAAGATGCATTT
1 ACATATAATGCAAGTATCTAAAGATGCAAATGTATTAATGCAAAACATTAAACAAAGATGTATTT
55377591 A
66 A
55377592 TCTGACAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 52 0.93
76 4 0.07
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (75 bp):
ACATATAATGCAAGTATCTAAAGATGCAAATGTATTAATGCAAAACATTAAACAAAGATGTATTT
AATAAACAAG
Found at i:55379379 original size:24 final size:25
Alignment explanation
Indices: 55379334--55379381 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
55379324 ACACAAACGC
*
55379334 AGCTCTTCATGAGCCTCTTGATATA
1 AGCTCTTCATGAGCCTCCTGATATA
*
55379359 AGCTCTT-ATGAGCTTCCTGATAT
1 AGCTCTTCATGAGCCTCCTGATAT
55379382 GGCTCACTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (25 bp):
AGCTCTTCATGAGCCTCCTGATATA
Found at i:55381211 original size:25 final size:25
Alignment explanation
Indices: 55381174--55381242 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
55381164 CACGTGATTA
* * *
55381174 TGTATGTCACCTTTGTGGCATATTC
1 TGTATGTTACCTTTATGGCATACTC
* *
55381199 TGTATGTTGCCTTTATGGCGTACTC
1 TGTATGTTACCTTTATGGCATACTC
* *
55381224 TGTATGTTCCCCTTATGGC
1 TGTATGTTACCTTTATGGC
55381243 GTATTTTGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (25 bp):
TGTATGTTACCTTTATGGCATACTC
Found at i:55381243 original size:25 final size:25
Alignment explanation
Indices: 55381197--55381245 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
55381187 TGTGGCATAT
* *
55381197 TCTGTATGTTGCCTTTATGGCGTAC
1 TCTGTATGTTCCCCTTATGGCGTAC
55381222 TCTGTATGTTCCCCTTATGGCGTA
1 TCTGTATGTTCCCCTTATGGCGTA
55381246 TTTTGTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (25 bp):
TCTGTATGTTCCCCTTATGGCGTAC
Found at i:55387174 original size:23 final size:23
Alignment explanation
Indices: 55387123--55387180 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
55387113 AAAAATCTGA
*
55387123 AATAAAAAAATAAAATAGAAATT
1 AATAAAAAAATAAAATAGAAATG
**
55387146 TGTAAAAAAATGAAAATA-AAATG
1 AATAAAAAAAT-AAAATAGAAATG
*
55387169 AATAAATAAATA
1 AATAAAAAAATA
55387181 CAAAAAGGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.04
23 21 0.75
24 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (23 bp):
AATAAAAAAATAAAATAGAAATG
Found at i:55387357 original size:3 final size:3
Alignment explanation
Indices: 55387343--55387639 Score: 74
Period size: 3 Copynumber: 100.0 Consensus size: 3
55387333 AATGATATGT
* * * *
55387343 TAA TAA TGA TAA TAA TAA -AA TAA -AA -AA TAG TAA TAA TAG T-A TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
55387387 TTA TAA TAA TAGGA -AA CAA TAA TGA TAA -AA GAA -AA TAA TAG TAA
1 TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
55387431 TAA TGGAA GTAA TGAA -AA TAA TAA TAA TAGA -AA CAA TAGA -AA TAA
1 TAA T--AA -TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA
* * *
55387476 -AA GTAA TAA TAA -AA TAGA AAA TAA CAA TGA TACA TTAA TAA TAA TAA
1 TAA -TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A -TAA TAA TAA TAA
** * * * * * * *
55387523 T-A TACA TGC TAA TAA TAA CAA T-A TAA AAA AAA GAA -AA TGA CAC
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
55387566 T-A TAT TAA TAA AAA TAA TAA TAA TAGGT TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA
*
55387612 -AA -AGA TAA AAA TAA TAA TAA -AA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
55387640 AAAACACTAT
Statistics
Matches: 215, Mismatches: 46, Indels: 66
0.66 0.14 0.20
Matches are distributed among these distances:
2 32 0.15
3 159 0.74
4 16 0.07
5 7 0.03
6 1 0.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:55387597 original size:23 final size:23
Alignment explanation
Indices: 55387570--55387633 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
55387560 TGACACTATA
* *
55387570 TTAATAAAAATAATAATAATAGG
1 TTAATAAAAATAATAATAAAAAG
* *
55387593 TTAATAATAATAGTAATAAAAAG
1 TTAATAAAAATAATAATAAAAAG
55387616 ---ATAAAAATAATAATAAAA
1 TTAATAAAAATAATAATAAAA
55387634 TAATAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 16 0.46
23 19 0.54
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (23 bp):
TTAATAAAAATAATAATAAAAAG
Found at i:55387619 original size:17 final size:17
Alignment explanation
Indices: 55387343--55387639 Score: 78
Period size: 17 Copynumber: 17.0 Consensus size: 17
55387333 AATGATATGT
*
55387343 TAATAATGATAATAATAA
1 TAATAAT-AAAATAATAA
*
55387361 -AATAA-AAAATAGTAA
1 TAATAATAAAATAATAA
* * * *
55387376 TAATAGTATACTTATAA
1 TAATAATAAAATAATAA
*
55387393 TAATAGGA-AACAATAATGA
1 TAATA--ATAA-AATAATAA
* *
55387412 TAA-AAGAAAATAATAG
1 TAATAATAAAATAATAA
* *
55387428 TAATAATGGAAGTAATGAA
1 TAATAAT-AAAATAAT-AA
55387447 -AATAAT--AATAATAGA
1 TAATAATAAAATAATA-A
*
55387462 -AACAATAGAAATAA-AA
1 TAATAATA-AAATAATAA
*
55387478 GTAATAATAAAATAGAAAA
1 -TAATAATAAAATA-ATAA
* * * * *
55387497 TAACAATGATACATTAA
1 TAATAATAAAATAATAA
* **
55387514 TAATAATAATATACATGC
1 TAATAATAAAATA-ATAA
55387532 TAATAATAACAAT-ATAA
1 TAATAATAA-AATAATAA
* * *
55387549 AAAAAAGAAAATGACACT-A
1 TAATAATAAAAT-A-A-TAA
*
55387568 TATTAATAAAAATAATAA
1 TAATAAT-AAAATAATAA
* *
55387586 TAATAGGTTAATAATAATAG
1 TAATA--ATAA-AATAATAA
*
55387606 TAATAA-AAAGATAAAAA
1 TAATAATAAA-ATAATAA
55387623 TAATAATAAAATAATAA
1 TAATAATAAAATAATAA
55387640 AAAACACTAT
Statistics
Matches: 199, Mismatches: 50, Indels: 61
0.64 0.16 0.20
Matches are distributed among these distances:
14 1 0.01
15 19 0.10
16 19 0.10
17 66 0.33
18 54 0.27
19 21 0.11
20 19 0.10
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (17 bp):
TAATAATAAAATAATAA
Found at i:55387619 original size:20 final size:20
Alignment explanation
Indices: 55387596--55387642 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
55387586 TAATAGGTTA
* *
55387596 ATAATAATAGTAATAAAAAG
1 ATAAAAATAATAATAAAAAG
55387616 ATAAAAATAATAATAAAATA-
1 ATAAAAATAATAATAAAA-AG
55387636 ATAAAAA
1 ATAAAAA
55387643 ACACTATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (20 bp):
ATAAAAATAATAATAAAAAG
Found at i:55388045 original size:24 final size:26
Alignment explanation
Indices: 55388018--55388070 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
55388008 ATCTCGTGTA
*
55388018 TTTCTTGTA-TTGAAAGTCTCT-CTT
1 TTTCTTGTATTTGAAACTCTCTCCTT
*
55388042 TTTCTTGTATTTGAATCTCTCTCCTT
1 TTTCTTGTATTTGAAACTCTCTCCTT
55388068 TTT
1 TTT
55388071 TCTCCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 10 0.40
26 6 0.24
ACGTcount: A:0.13, C:0.19, G:0.09, T:0.58
Consensus pattern (26 bp):
TTTCTTGTATTTGAAACTCTCTCCTT
Found at i:55388196 original size:24 final size:24
Alignment explanation
Indices: 55388160--55388206 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
55388150 TTTTTGCAGG
*
55388160 CAAGTGGGGTGATGGAGTTAGTGA
1 CAAGTGGGATGATGGAGTTAGTGA
55388184 CAAGTGGGATGATGGAGTTAGTG
1 CAAGTGGGATGATGGAGTTAGTG
55388207 GTTGGTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.04, G:0.45, T:0.26
Consensus pattern (24 bp):
CAAGTGGGATGATGGAGTTAGTGA
Found at i:55389508 original size:31 final size:32
Alignment explanation
Indices: 55389462--55389524 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
55389452 ATTAAAATAC
*
55389462 ATTTAATATTTTTAATCTGTTGTAT-TTATAT
1 ATTTAATATTTTTAATCTGTTGCATCTTATAT
*
55389493 ATTTAA-ATTTATTAATCTTTTGCATCTTATAT
1 ATTTAATATTT-TTAATCTGTTGCATCTTATAT
55389525 CAAACATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 4 0.14
31 18 0.64
32 6 0.21
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (32 bp):
ATTTAATATTTTTAATCTGTTGCATCTTATAT
Found at i:55393007 original size:25 final size:26
Alignment explanation
Indices: 55392958--55393013 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
55392948 GTTTTACTTG
*
55392958 TTCATTTATTTATTAGTGAATATT-A
1 TTCATTTAATTATTAGTGAATATTAA
55392983 TTCATTTACATTATT-G-GAATCATTAA
1 TTCATTTA-ATTATTAGTGAAT-ATTAA
55393009 TTCAT
1 TTCAT
55393014 AATTCTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.15
25 12 0.44
26 11 0.41
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (26 bp):
TTCATTTAATTATTAGTGAATATTAA
Found at i:55393202 original size:3 final size:3
Alignment explanation
Indices: 55393196--55393342 Score: 72
Period size: 3 Copynumber: 49.7 Consensus size: 3
55393186 CATCATCATC
* * *
55393196 ATT ATT ATT ATT A-T ATT ATT ATTT ACTT -TT ATT ACT ATT ACT ATC
1 ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT ATT ATT
* * * * * ** * * *
55393241 ATT ATT ATT TTT AGT AGT AGT ATT ATT ATC ACC ATT CTT -TT GTT CTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
55393288 -GT ATT ATT GTT ATT CTTT ATT ATT ATT ATT ATT ATT ATT ATTT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
55393334 -TT ATT -TT AT
1 ATT ATT ATT AT
55393343 ATTTCTATCA
Statistics
Matches: 112, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
2 11 0.10
3 91 0.81
4 10 0.09
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:55393454 original size:19 final size:17
Alignment explanation
Indices: 55393416--55393454 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
55393406 CTCAATTTCT
*
55393416 TTTACTTGCTTTATTTA
1 TTTACTTGCTTTATTCA
55393433 TTTACTTGCTCATTATTCA
1 TTTACTTGCT--TTATTCA
55393452 TTT
1 TTT
55393455 GCTTTCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
19 9 0.47
ACGTcount: A:0.18, C:0.15, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTACTTGCTTTATTCA
Found at i:55393817 original size:4 final size:4
Alignment explanation
Indices: 55393810--55393835 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
55393800 TTCCTTTGTA
55393810 ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT
55393836 GCTTTCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:55399562 original size:15 final size:15
Alignment explanation
Indices: 55399542--55399585 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
55399532 CGCACTTTCA
55399542 TAATAATTACTATTT
1 TAATAATTACTATTT
55399557 TAATAATTA-TATTT
1 TAATAATTACTATTT
*
55399571 TCATCTAATTACTAT
1 T-A-ATAATTACTAT
55399586 GTATTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 6 0.24
15 10 0.40
16 6 0.24
17 3 0.12
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATAATTACTATTT
Found at i:55401053 original size:19 final size:20
Alignment explanation
Indices: 55401026--55401074 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
55401016 ATATAGAAAA
55401026 TTTGAAATTTTT-ATAAA-TAT
1 TTTG-AATTTTTGA-AAATTAT
55401046 TTTGAATTTTTGAAAATTAT
1 TTTGAATTTTTGAAAATTAT
55401066 TTTGAATTT
1 TTTGAATTT
55401075 CTTTTGCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (20 bp):
TTTGAATTTTTGAAAATTAT
Found at i:55412952 original size:18 final size:18
Alignment explanation
Indices: 55412931--55412966 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
55412921 ATGCACATAT
55412931 ATTCTTCGGGAGGCTCGA
1 ATTCTTCGGGAGGCTCGA
55412949 ATTCTTCGGGAGGCTCGA
1 ATTCTTCGGGAGGCTCGA
55412967 TCATTCAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (18 bp):
ATTCTTCGGGAGGCTCGA
Found at i:55422095 original size:42 final size:42
Alignment explanation
Indices: 55421982--55422127 Score: 168
Period size: 42 Copynumber: 3.5 Consensus size: 42
55421972 CAATGTCATG
* *
55421982 TCCCAGATATGGTCTTACAT-ATAATCTCGTATCGACGCCAATA
1 TCCCAGATATGGTCTTACATGA-AATCTCATATCGATGCC-ATA
* * * * *
55422025 GCCCAGCTATGGTCTTACACGAAGTCTCATATCGATACCATA
1 TCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCATA
* * * *
55422067 TCGCAAATATGGTCTTACATGAAATCTCATATTGATGTCATA
1 TCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCATA
55422109 TCCCAGATATGGTCTTACA
1 TCCCAGATATGGTCTTACA
55422128 CATAATCTTA
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 53 0.63
43 30 0.36
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
TCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCATA
Found at i:55424698 original size:88 final size:88
Alignment explanation
Indices: 55424562--55424731 Score: 270
Period size: 88 Copynumber: 1.9 Consensus size: 88
55424552 TTCATATTCG
* *
55424562 ATGGTCATCACTATCCCTTTTCATATTCAATGGTCGTCACCATCCCTTTTCATATTTGATGGTCG
1 ATGGTCATCACCATCCCTTTTCATATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCG
55424627 TCACCATCCCTTTTCATCAATTA
66 TCACCATCCCTTTTCATCAATTA
* * * *
55424650 ATGGTCATCACCATCCTTTTTTATAGTT-GATGGTCGTCACCATCCCTTTTCATAGTTGATTGTC
1 ATGGTCATCACCATCCCTTTTCATA-TTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTC
55424714 GTCACCATCCCTTTTCAT
65 GTCACCATCCCTTTTCAT
55424732 AGTTGATAGT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
88 73 0.97
89 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.41
Consensus pattern (88 bp):
ATGGTCATCACCATCCCTTTTCATATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCG
TCACCATCCCTTTTCATCAATTA
Found at i:55424752 original size:29 final size:29
Alignment explanation
Indices: 55424550--55424743 Score: 248
Period size: 29 Copynumber: 6.7 Consensus size: 29
55424540 TGGTCGTAAA
* *
55424550 TTTTCATA-TTCGATGGTCATCACTATCCC
1 TTTTCATAGTT-GATGGTCGTCACCATCCC
*
55424579 TTTTCATA-TTCAATGGTCGTCACCATCCC
1 TTTTCATAGTT-GATGGTCGTCACCATCCC
*
55424608 TTTTCATATTTGATGGTCGTCACCATCCC
1 TTTTCATAGTTGATGGTCGTCACCATCCC
* * * *
55424637 TTTTCATCAATTAATGGTCATCACCATCCT
1 TTTTCAT-AGTTGATGGTCGTCACCATCCC
*
55424667 TTTTTATAGTTGATGGTCGTCACCATCCC
1 TTTTCATAGTTGATGGTCGTCACCATCCC
*
55424696 TTTTCATAGTTGATTGTCGTCACCATCCC
1 TTTTCATAGTTGATGGTCGTCACCATCCC
*
55424725 TTTTCATAGTTGATAGTCG
1 TTTTCATAGTTGATGGTCG
55424744 AAACTATCCA
Statistics
Matches: 147, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
29 121 0.82
30 26 0.18
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (29 bp):
TTTTCATAGTTGATGGTCGTCACCATCCC
Found at i:55428150 original size:22 final size:22
Alignment explanation
Indices: 55428100--55428190 Score: 94
Period size: 22 Copynumber: 4.0 Consensus size: 22
55428090 GAGCTGATGG
* **
55428100 ACAGTAAACTCTATTGAGCTGAA
1 ACAGTAAGCTCTAACGAGCTG-A
55428123 ACAGTAAGCTCTAACGAGCTGA
1 ACAGTAAGCTCTAACGAGCTGA
*
55428145 ACAGTAAGCTC-ATACAAGCTGAGA
1 ACAGTAAGCTCTA-ACGAGCT--GA
*
55428169 ACAGTAAGCTCTTACGAGCTGA
1 ACAGTAAGCTCTAACGAGCTGA
55428191 TATATCGGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
21 1 0.02
22 20 0.34
23 18 0.31
24 19 0.33
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (22 bp):
ACAGTAAGCTCTAACGAGCTGA
Found at i:55428175 original size:24 final size:24
Alignment explanation
Indices: 55428072--55428208 Score: 104
Period size: 24 Copynumber: 5.7 Consensus size: 24
55428062 TTCAAGCTAT
* *
55428072 GAACAGTAAGCTCCTCCTGAGCTGA
1 GAACAGTAAGCTCATAC-GAGCTGA
* * *
55428097 TGGACAGTAAACTC-TATTGAGCTGA
1 -GAACAGTAAGCTCATA-CGAGCTGA
55428122 -AACAGTAAGCTC-TAACGAGCT--
1 GAACAGTAAGCTCAT-ACGAGCTGA
*
55428143 GAACAGTAAGCTCATACAAGCTGA
1 GAACAGTAAGCTCATACGAGCTGA
*
55428167 GAACAGTAAGCTCTTACGAGCTGA
1 GAACAGTAAGCTCATACGAGCTGA
* *
55428191 TATATCGGTAAGCTCATA
1 GA-A-CAGTAAGCTCATA
55428209 GGAGATGCAG
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
22 18 0.20
23 17 0.19
24 24 0.27
25 9 0.10
26 22 0.24
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (24 bp):
GAACAGTAAGCTCATACGAGCTGA
Found at i:55429852 original size:13 final size:13
Alignment explanation
Indices: 55429834--55429866 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
55429824 TTCATTTATT
55429834 AAAACTAAAAACA
1 AAAACTAAAAACA
55429847 AAAACT-AAAACA
1 AAAACTAAAAACA
55429859 AAAACTAA
1 AAAACTAA
55429867 CTAAAAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (13 bp):
AAAACTAAAAACA
Found at i:55444786 original size:27 final size:27
Alignment explanation
Indices: 55444756--55444809 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
55444746 CCAGATGATA
55444756 AGCGATGATCGCCATACAGAACACTTT
1 AGCGATGATCGCCATACAGAACACTTT
*
55444783 AGCGATGATTGCCATACAGAACACTTT
1 AGCGATGATCGCCATACAGAACACTTT
55444810 CTCCTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (27 bp):
AGCGATGATCGCCATACAGAACACTTT
Found at i:55454188 original size:31 final size:30
Alignment explanation
Indices: 55454107--55454225 Score: 96
Period size: 29 Copynumber: 4.0 Consensus size: 30
55454097 TGGTATCCAC
*
55454107 CACCGGTACAAAGTACATGATAAATATAAA
1 CACCGGTACAAAGTACCTGATAAATATAAA
* * * ** *
55454137 CACTGGCACATAGTGTCTGATATAATATGAA
1 CACCGGTACAAAGTACCTGATA-AATATAAA
* **
55454168 CACCGGTACAAAATACCTGAT-AATATAGT
1 CACCGGTACAAAGTACCTGATAAATATAAA
* * * *
55454197 CACTGGTACATAGTACTTGATACATATAA
1 CACCGGTACAAAGTACCTGATAAATATAA
55454226 TCATTGACAC
Statistics
Matches: 65, Mismatches: 22, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
29 22 0.34
30 21 0.32
31 22 0.34
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (30 bp):
CACCGGTACAAAGTACCTGATAAATATAAA
Found at i:55459072 original size:18 final size:18
Alignment explanation
Indices: 55459049--55459084 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
55459039 GAAATTTATA
55459049 TTAAAATCCCAGAAGGAT
1 TTAAAATCCCAGAAGGAT
*
55459067 TTAAAATCCCTGAAGGAT
1 TTAAAATCCCAGAAGGAT
55459085 ATAGAGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (18 bp):
TTAAAATCCCAGAAGGAT
Found at i:55466937 original size:36 final size:35
Alignment explanation
Indices: 55466897--55466975 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 35
55466887 AATAATAAGG
* * *
55466897 GATTCACACTTGAGT-AGGGTTCATACATGAGGTTTA
1 GATTCACACCTG-GTAAGGGTTCACAC-TGAGGTATA
*
55466933 GATTCACACCTGGTAAGGGTTCACACTTAGGTATA
1 GATTCACACCTGGTAAGGGTTCACACTGAGGTATA
55466968 GATTCACA
1 GATTCACA
55466976 TAATGGAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 17 0.45
36 21 0.55
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (35 bp):
GATTCACACCTGGTAAGGGTTCACACTGAGGTATA
Found at i:55466973 original size:18 final size:18
Alignment explanation
Indices: 55466926--55466975 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
55466916 TTCATACATG
*
55466926 AGGTTTAGATTCACACCT
1 AGGTATAGATTCACACCT
* *
55466944 -GGTA-AGGGTTCACACTT
1 AGGTATA-GATTCACACCT
55466961 AGGTATAGATTCACA
1 AGGTATAGATTCACA
55466976 TAATGGAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
16 1 0.04
17 12 0.48
18 11 0.44
19 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (18 bp):
AGGTATAGATTCACACCT
Found at i:55467126 original size:15 final size:15
Alignment explanation
Indices: 55467106--55467158 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
55467096 TGCACCCTTA
55467106 GGTAGCTCGCTCAAG
1 GGTAGCTCGCTCAAG
*
55467121 GGTAGCTCGCACAAG
1 GGTAGCTCGCTCAAG
* *
55467136 AGTATCTCGCAT-AAG
1 GGTAGCTCGC-TCAAG
55467151 GGTAGCTC
1 GGTAGCTC
55467159 ACAAAAGGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.21
Consensus pattern (15 bp):
GGTAGCTCGCTCAAG
Found at i:55468608 original size:23 final size:23
Alignment explanation
Indices: 55468565--55468618 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
55468555 AGCCTAGAAT
55468565 TTTTAATTCTAATTATTTTAA-TA
1 TTTT-ATTCTAATTATTTTAATTA
55468588 TTTTATT-TAATTAATTCTTAATTA
1 TTTTATTCTAATT-ATT-TTAATTA
55468612 TTTTATT
1 TTTTATT
55468619 ATCTAACCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.18
22 6 0.21
23 8 0.29
24 9 0.32
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTATTCTAATTATTTTAATTA
Found at i:55471467 original size:25 final size:23
Alignment explanation
Indices: 55471424--55471532 Score: 74
Period size: 24 Copynumber: 4.4 Consensus size: 23
55471414 AATTCATATT
*
55471424 TGGGAATGCTCATACGAGCACATAAA
1 TGGGAA-GCTCATAAGAGC-CAT-AA
55471450 TGGGAAGCTCATAAGAGCCATAA
1 TGGGAAGCTCATAAGAGCCATAA
* **
55471473 TCAGGAAGCTCATGCGAGCCAATAA
1 T-GGGAAGCTCATAAGAGCC-ATAA
* * **
55471498 CGGGTAGCTCCGAAGAGCCATTAA
1 TGGGAAGCTCATAAGAGCCA-TAA
*
55471522 TCAGGAAGCTC
1 T-GGGAAGCTC
55471533 TAGATAGCCA
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
23 4 0.06
24 33 0.51
25 22 0.34
26 6 0.09
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (23 bp):
TGGGAAGCTCATAAGAGCCATAA
Found at i:55471479 original size:24 final size:24
Alignment explanation
Indices: 55471426--55471666 Score: 97
Period size: 25 Copynumber: 9.7 Consensus size: 24
55471416 TTCATATTTG
* *
55471426 GGAATGCTCATACGAGCACATAAAT-G
1 GGAA-GCTCATAAGAGC-CAT-AATCA
55471452 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
** *
55471476 GGAAGCTCATGCGAGCCAATAA-CG
1 GGAAGCTCATAAGAGCC-ATAATCA
* **
55471500 GGTAGCTCCGAAGAGCCATTAATCA
1 GGAAGCTCATAAGAGCCA-TAATCA
* *
55471525 GGAAGCTC-TAGATAGCCATATATCT
1 GGAAGCTCATA-AGAGCCATA-ATCA
*
55471550 GGAAGTTC--AAGCAAGCCA-ATATC-
1 GGAAGCTCATAAG--AGCCATA-ATCA
* *
55471573 GAGAAGCTTCAGAA-AGCCATTAATTA
1 G-GAAGC-TCATAAGAGCCA-TAATCA
* *
55471599 GGAAGCTCACAAAGAGCCTTTAATC-
1 GGAAGCTCA-TAAGAGCC-ATAATCA
*
55471624 GTGAAGCTCACGAAGAGCCATATATCA
1 G-GAAGCTCA-TAAGAGCCATA-ATCA
55471651 GGATA-CTCATAAGAGC
1 GGA-AGCTCATAAGAGC
55471667 TGTGGTGTGT
Statistics
Matches: 168, Mismatches: 25, Indels: 45
0.71 0.11 0.19
Matches are distributed among these distances:
23 6 0.04
24 55 0.33
25 64 0.38
26 39 0.23
27 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:55471491 original size:49 final size:49
Alignment explanation
Indices: 55471426--55471532 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 49
55471416 TTCATATTTG
* *
55471426 GGAATGCTCATACGAG-CACATAAATGGGAAGCTCATAAGAGCCA-TAATCA
1 GGAA-GCTCATACGAGCCA-AT-AACGGGAAGCTCAGAAGAGCCATTAATCA
* * *
55471476 GGAAGCTCATGCGAGCCAATAACGGGTAGCTCCGAAGAGCCATTAATCA
1 GGAAGCTCATACGAGCCAATAACGGGAAGCTCAGAAGAGCCATTAATCA
55471525 GGAAGCTC
1 GGAAGCTC
55471533 TAGATAGCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
48 18 0.36
49 26 0.52
50 6 0.12
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (49 bp):
GGAAGCTCATACGAGCCAATAACGGGAAGCTCAGAAGAGCCATTAATCA
Found at i:55471591 original size:74 final size:73
Alignment explanation
Indices: 55471452--55471633 Score: 181
Period size: 74 Copynumber: 2.5 Consensus size: 73
55471442 CACATAAATG
* * * * *
55471452 GGAAGCTCATAAGAGCCATAATCAGGAAGCTCATGCGAGCCAATAACGGGTAGCTCCGAAGAGCC
1 GGAAGCTCATAAGAGCCATAATCAGGAAGCTCAAGCAAGCCAATAACGAGAAGCTCAGAAGAGCC
55471517 ATTAATCA
66 ATTAATCA
* * * *
55471525 GGAAGCTC-TAGATAGCCATATATCTGGAAGTTCAAGCAAGCCAATATCGAGAAGCTTCAGAA-A
1 GGAAGCTCATA-AGAGCCATA-ATCAGGAAGCTCAAGCAAGCCAATAACGAGAAGC-TCAGAAGA
*
55471588 GCCATTAATTA
63 GCCATTAATCA
* *
55471599 GGAAGCTCACAAAGAGCCTTTAATC-GTGAAGCTCA
1 GGAAGCTCA-TAAGAGCC-ATAATCAG-GAAGCTCA
55471634 CGAAGAGCCA
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
72 2 0.02
73 16 0.18
74 47 0.53
75 20 0.23
76 3 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (73 bp):
GGAAGCTCATAAGAGCCATAATCAGGAAGCTCAAGCAAGCCAATAACGAGAAGCTCAGAAGAGCC
ATTAATCA
Found at i:55471621 original size:26 final size:26
Alignment explanation
Indices: 55471587--55471644 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
55471577 AGCTTCAGAA
55471587 AGCCATTAATTAG-GAAGCTCACAAAG
1 AGCCATTAA-TAGTGAAGCTCACAAAG
* * *
55471613 AGCCTTTAATCGTGAAGCTCACGAAG
1 AGCCATTAATAGTGAAGCTCACAAAG
55471639 AGCCAT
1 AGCCAT
55471645 ATATCAGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (26 bp):
AGCCATTAATAGTGAAGCTCACAAAG
Found at i:55475935 original size:21 final size:20
Alignment explanation
Indices: 55475901--55475939 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
55475891 AAAATAATAA
55475901 AAAATATGTGGAAATAAATTG
1 AAAATATGTGGAAA-AAATTG
* *
55475922 AAAATATTTTGAAAAAAT
1 AAAATATGTGGAAAAAAT
55475940 GTATAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (20 bp):
AAAATATGTGGAAAAAATTG
Found at i:55476250 original size:8 final size:8
Alignment explanation
Indices: 55476239--55476309 Score: 92
Period size: 8 Copynumber: 9.1 Consensus size: 8
55476229 TATCAATTAA
55476239 TTAAAAAT
1 TTAAAAAT
55476247 TTAAAAAT
1 TTAAAAAT
55476255 TTAAAAAT
1 TTAAAAAT
*
55476263 TTAAAATT
1 TTAAAAAT
55476271 TTAAAAAT
1 TTAAAAAT
55476279 TTAAAAAT
1 TTAAAAAT
*
55476287 AT-AAAAT
1 TTAAAAAT
* *
55476294 TT-TATAT
1 TTAAAAAT
55476301 TTAAAAAT
1 TTAAAAAT
55476309 T
1 T
55476310 ACTACAAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
7 11 0.20
8 43 0.80
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTAAAAAT
Found at i:55476537 original size:39 final size:39
Alignment explanation
Indices: 55476494--55476573 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
55476484 TAAGTAAAAG
55476494 TAAAAATTAAATTGTTTTATTATGGAGACTAGATCAAAT
1 TAAAAATTAAATTGTTTTATTATGGAGACTAGATCAAAT
55476533 TAAAAATTAAATTGTTTTATTATGGAGACTAGATCAAAT
1 TAAAAATTAAATTGTTTTATTATGGAGACTAGATCAAAT
55476572 TA
1 TA
55476574 TCCATCCTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (39 bp):
TAAAAATTAAATTGTTTTATTATGGAGACTAGATCAAAT
Found at i:55482338 original size:40 final size:40
Alignment explanation
Indices: 55482294--55482374 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
55482284 CAAGATAACA
55482294 TAGGTATGAGGAAGCTCACACTTGGAATTTAGAGTAGGGG
1 TAGGTATGAGGAAGCTCACACTTGGAATTTAGAGTAGGGG
* *
55482334 TAGGTATGAGGAAGCTTACAGTTGGAATTTAGAGTAGGGG
1 TAGGTATGAGGAAGCTCACACTTGGAATTTAGAGTAGGGG
55482374 T
1 T
55482375 TTAGCTACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.07, G:0.36, T:0.27
Consensus pattern (40 bp):
TAGGTATGAGGAAGCTCACACTTGGAATTTAGAGTAGGGG
Found at i:55486023 original size:26 final size:27
Alignment explanation
Indices: 55485994--55486075 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 27
55485984 CGTCAAGCGC
*
55485994 ACTGGCGA-CCCCAGTTCGCCAGGCCT
1 ACTGGCGATCCCCACTTCGCCAGGCCT
** *
55486020 ACTGGCGATCCTTACTTTGCCAGGCCT
1 ACTGGCGATCCCCACTTCGCCAGGCCT
* ** * *
55486047 ATTGGCGATCCTTACTTCACCAAGCCT
1 ACTGGCGATCCCCACTTCGCCAGGCCT
55486074 AC
1 AC
55486076 CGGCAAACAC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 8 0.17
27 38 0.83
ACGTcount: A:0.18, C:0.37, G:0.21, T:0.24
Consensus pattern (27 bp):
ACTGGCGATCCCCACTTCGCCAGGCCT
Found at i:55486045 original size:27 final size:27
Alignment explanation
Indices: 55486011--55486063 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
55486001 ACCCCAGTTC
55486011 GCCAGGCCTACTGGCGATCCTTACTTT
1 GCCAGGCCTACTGGCGATCCTTACTTT
*
55486038 GCCAGGCCTATTGGCGATCCTTACTT
1 GCCAGGCCTACTGGCGATCCTTACTT
55486064 CACCAAGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.32, G:0.23, T:0.30
Consensus pattern (27 bp):
GCCAGGCCTACTGGCGATCCTTACTTT
Found at i:55486073 original size:27 final size:27
Alignment explanation
Indices: 55486016--55486075 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
55486006 AGTTCGCCAG
** *
55486016 GCCTACTGGCGATCCTTACTTTGCCAG
1 GCCTACTGGCGATCCTTACTTCACCAA
*
55486043 GCCTATTGGCGATCCTTACTTCACCAA
1 GCCTACTGGCGATCCTTACTTCACCAA
55486070 GCCTAC
1 GCCTAC
55486076 CGGCAAACAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.35, G:0.18, T:0.28
Consensus pattern (27 bp):
GCCTACTGGCGATCCTTACTTCACCAA
Found at i:55487859 original size:30 final size:30
Alignment explanation
Indices: 55487823--55487884 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
55487813 AATATCACAT
55487823 TAAAAACCCTAAGCATTTTGAGCCAAATTC
1 TAAAAACCCTAAGCATTTTGAGCCAAATTC
*
55487853 TAAAAACTCTAAGCATTTTGAGCCAAATTC
1 TAAAAACCCTAAGCATTTTGAGCCAAATTC
55487883 TA
1 TA
55487885 GTATGTATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (30 bp):
TAAAAACCCTAAGCATTTTGAGCCAAATTC
Found at i:55493445 original size:15 final size:15
Alignment explanation
Indices: 55493425--55493454 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55493415 TCACTCGCTT
55493425 TTTTTTTTATTTTAA
1 TTTTTTTTATTTTAA
*
55493440 TTTTTTTTCTTTTAA
1 TTTTTTTTATTTTAA
55493455 AGTTATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTTTATTTTAA
Found at i:55502290 original size:27 final size:27
Alignment explanation
Indices: 55502254--55502329 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
55502244 CGACGAGGGT
* * *
55502254 AATATAATCGACACACAGCCATGAGTA
1 AATATGATCGACACACAGCCATCAATA
* *
55502281 AATATGATCGACACAGAGTCATCAATA
1 AATATGATCGACACACAGCCATCAATA
* * *
55502308 AATATGATAGGCACATAGCCAT
1 AATATGATCGACACACAGCCAT
55502330 TGGTAGATAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
AATATGATCGACACACAGCCATCAATA
Found at i:55502392 original size:22 final size:22
Alignment explanation
Indices: 55502367--55502424 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
55502357 ATTCAACATA
55502367 GCACAGAGCTATATTTAGGTTG
1 GCACAGAGCTATATTTAGGTTG
55502389 GCACAGAGCTATATTTAGGTTG
1 GCACAGAGCTATATTTAGGTTG
55502411 GCACAGAGCTATAT
1 GCACAGAGCTATAT
55502425 GTTGGCACAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (22 bp):
GCACAGAGCTATATTTAGGTTG
Found at i:55502430 original size:18 final size:20
Alignment explanation
Indices: 55502367--55502437 Score: 92
Period size: 22 Copynumber: 3.5 Consensus size: 20
55502357 ATTCAACATA
55502367 GCACAGAGCTATATTTAGGTTG
1 GCACAGAGCTATA-TTA-GTTG
55502389 GCACAGAGCTATATTTAGGTTG
1 GCACAGAGCTATA-TTA-GTTG
55502411 GCACAGAGCTATA-T-GTTG
1 GCACAGAGCTATATTAGTTG
55502429 GCACAGAGC
1 GCACAGAGC
55502438 CATAATCAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
18 13 0.27
20 1 0.02
22 35 0.71
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (20 bp):
GCACAGAGCTATATTAGTTG
Found at i:55502796 original size:27 final size:26
Alignment explanation
Indices: 55502761--55503055 Score: 261
Period size: 27 Copynumber: 11.0 Consensus size: 26
55502751 ATTTTACCCT
*
55502761 ATAGGGGTATTTCGGTAATTTTATAA
1 ATAGGGGTATTTCGGTAATTTTACAA
*
55502787 ATAGGTGGTATTTTGGTAATTTTACAA
1 ATAGG-GGTATTTCGGTAATTTTACAA
* *
55502814 ACTGGGGGTATTTCGATAATTTTACCAA
1 A-TAGGGGTATTTCGGTAATTTTA-CAA
* * *
55502842 CT-GAAGGTATTTAGGTAATTTTACAA
1 ATAG-GGGTATTTCGGTAATTTTACAA
* *
55502868 ATCGAGGGTATTTCGATAATTTTACAA
1 ATAG-GGGTATTTCGGTAATTTTACAA
**
55502895 ACTAGGGGTATTTTAGTAATTTTACAA
1 A-TAGGGGTATTTCGGTAATTTTACAA
* *
55502922 ACTAGGGGTATTTCAGTAATTTTATAA
1 A-TAGGGGTATTTCGGTAATTTTACAA
* * *
55502949 ATTTGGGGTATTTTGGTAATTTTAAAA
1 A-TAGGGGTATTTCGGTAATTTTACAA
* ***
55502976 ATTGGGGGTATTTAAATAATTTTACAA
1 A-TAGGGGTATTTCGGTAATTTTACAA
* * *
55503003 ATTGGAGGTATTTTGATAATTTTACAA
1 ATAGG-GGTATTTCGGTAATTTTACAA
*
55503030 ATCA-GGGTATTTCAGTAATTTTACAA
1 AT-AGGGGTATTTCGGTAATTTTACAA
55503056 CCGGGGTCTT
Statistics
Matches: 225, Mismatches: 36, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
26 31 0.14
27 186 0.83
28 8 0.04
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.41
Consensus pattern (26 bp):
ATAGGGGTATTTCGGTAATTTTACAA
Found at i:55502834 original size:54 final size:52
Alignment explanation
Indices: 55502764--55503055 Score: 302
Period size: 54 Copynumber: 5.4 Consensus size: 52
55502754 TTACCCTATA
* *
55502764 GGGGTATTTCGGTAATTTTATAAATAGGTGGTATTTTGGTAATTTTACAAACTG
1 GGGGTATTTCGATAATTTTACAAATAGG-GGTATTTTGGTAATTTTACAAA-TG
* * *
55502818 GGGGTATTTCGATAATTTTACCAACT-GAAGGTATTTAGGTAATTTTACAAATCG
1 GGGGTATTTCGATAATTTTA-CAAATAG-GGGTATTTTGGTAATTTTACAAAT-G
* * *
55502872 AGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTA
1 GGGGTATTTCGATAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAA-TG
* * *
55502926 GGGGTATTTC-AGTAATTTTATAAATTTGGGGTATTTTGGTAATTTTAAAAATTG
1 GGGGTATTTCGA-TAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAA-TG
** * * *
55502980 GGGGTATTTAAATAATTTTACAAATTGGAGGTATTTTGATAATTTTACAAATC
1 GGGGTATTTCGATAATTTTACAAATAGG-GGTATTTTGGTAATTTTACAAATG
*
55503033 AGGGTATTTC-AGTAATTTTACAA
1 GGGGTATTTCGA-TAATTTTACAA
55503056 CCGGGGTCTT
Statistics
Matches: 202, Mismatches: 26, Indels: 21
0.81 0.10 0.08
Matches are distributed among these distances:
52 1 0.00
53 29 0.14
54 166 0.82
55 6 0.03
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (52 bp):
GGGGTATTTCGATAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAATG
Found at i:55502888 original size:81 final size:79
Alignment explanation
Indices: 55502766--55503055 Score: 289
Period size: 81 Copynumber: 3.6 Consensus size: 79
55502756 ACCCTATAGG
* * * * * *
55502766 GGTATTTCGGTAATTTTATAAATAGGTGGTATTTTGGTAATTTTACAAACTGGGGGTATTTCGAT
1 GGTATTTAGGTAATTTTACAAATCGG-GGTATTTCGATAATTTTACAAACTGGGGGTATTT-AAT
*
55502831 AATTTTACCAACTGAA
64 AATTTTACAAACTGAA
* *
55502847 GGTATTTAGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGT
1 GGTATTTAGGTAATTTTACAAATCG-GGGTATTTCGATAATTTTACAAACTGGGGGTA-TTTAAT
*
55502912 AATTTTACAAACT-AGG
64 AATTTTACAAACTGA-A
* * * * * *
55502928 GGTATTTCA-GTAATTTTATAAATTTGGGGTATTTTGGTAATTTTAAAAATTGGGGGTATTTAAA
1 GGTATTT-AGGTAATTTTACAAA-TCGGGGTATTTCGATAATTTTACAAACTGGGGGTATTT-AA
* *
55502992 TAATTTTACAAATTGGA
63 TAATTTTACAAACTGAA
* * *
55503009 GGTATTTTGATAATTTTACAAATCAGGGTATTTC-AGTAATTTTACAA
1 GGTATTTAGGTAATTTTACAAATCGGGGTATTTCGA-TAATTTTACAA
55503056 CCGGGGTCTT
Statistics
Matches: 171, Mismatches: 29, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
80 23 0.13
81 141 0.82
82 7 0.04
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.41
Consensus pattern (79 bp):
GGTATTTAGGTAATTTTACAAATCGGGGTATTTCGATAATTTTACAAACTGGGGGTATTTAATAA
TTTTACAAACTGAA
Done.