Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 175 of 214
Found at i:51421218 original size:22 final size:22
Alignment explanation
Indices: 51421193--51421234 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
51421183 TTTAAGAGAT
*
51421193 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
51421215 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
51421235 TTTATGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:51423280 original size:22 final size:23
Alignment explanation
Indices: 51423235--51423282 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
51423225 AGTATGCAAC
*
51423235 CCACCCCAATCCAGCCCAACACA
1 CCACCCCAATCCAACCCAACACA
* *
51423258 CCACCCGAA-CCAACCCTACACA
1 CCACCCCAATCCAACCCAACACA
51423280 CCA
1 CCA
51423283 TGTGGGGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.35, C:0.56, G:0.04, T:0.04
Consensus pattern (23 bp):
CCACCCCAATCCAACCCAACACA
Found at i:51423669 original size:27 final size:26
Alignment explanation
Indices: 51423613--51423712 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 26
51423603 TTACCCTATA
* *
51423613 AGGGTATTTCAGTAAATTTCCAAACTG
1 AGGGTATTTCAGTAATTTTACAAA-TG
*
51423640 AGGGTATTTCAGTAATTTTGCAAAT-
1 AGGGTATTTCAGTAATTTTACAAATG
* *
51423665 AGAGGTACTTC-GATAATTTTACAAGTCG
1 AG-GGTATTTCAG-TAATTTTACAAAT-G
* *
51423693 AAGGTATTTCAATAATTTTA
1 AGGGTATTTCAGTAATTTTA
51423713 TAAACCAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
25 3 0.05
26 19 0.32
27 37 0.62
28 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (26 bp):
AGGGTATTTCAGTAATTTTACAAATG
Found at i:51424450 original size:18 final size:19
Alignment explanation
Indices: 51424408--51424450 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
51424398 GGGTGTTACA
51424408 ATAATAGTATAAATTATTT
1 ATAATAGTATAAATTATTT
*
51424427 AAAATA-TATAAAGTTATTT
1 ATAATAGTATAAA-TTATTT
51424446 -TAATA
1 ATAATA
51424451 ATTTTATTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
ATAATAGTATAAATTATTT
Found at i:51426681 original size:5 final size:5
Alignment explanation
Indices: 51426671--51426697 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
51426661 AAAATAATCG
51426671 ATTTA ATTTA ATTTA ATTTA ATTTA AT
1 ATTTA ATTTA ATTTA ATTTA ATTTA AT
51426698 CACTTTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:51427089 original size:19 final size:17
Alignment explanation
Indices: 51427057--51427091 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
51427047 CGGGTCCATT
51427057 TCGACTTGTTTTGGGTC
1 TCGACTTGTTTTGGGTC
51427074 TCGATCTTGATTTTGGGT
1 TCGA-CTTG-TTTTGGGT
51427092 TATCGAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.09, C:0.14, G:0.29, T:0.49
Consensus pattern (17 bp):
TCGACTTGTTTTGGGTC
Found at i:51428124 original size:21 final size:20
Alignment explanation
Indices: 51428084--51428141 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
51428074 CGAATATACC
*
51428084 AACAGAAGCTCGAA-AGCTG
1 AACAGAAGCTCTAAGAGCTG
51428103 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTC-TAAGAGCTG
51428124 AACAGAAGCTCGTAAGAG
1 AACAGAAGCTC-TAAGAG
51428142 TTGATCCACT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 22 0.63
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (20 bp):
AACAGAAGCTCTAAGAGCTG
Found at i:51430874 original size:17 final size:16
Alignment explanation
Indices: 51430847--51430931 Score: 50
Period size: 17 Copynumber: 5.2 Consensus size: 16
51430837 ATAATATTAT
*
51430847 TTTAATAAATTTAATA
1 TTTAATTAATTTAATA
*
51430863 TTTAAGTTAATTTGATA
1 TTTAA-TTAATTTAATA
* *
51430880 CTT-ATCT--TTATAGTA
1 TTTAAT-TAATT-TAATA
*
51430895 TTTTATTAATTTAATA
1 TTTAATTAATTTAATA
* *
51430911 TTAAATTTAATCTAATA
1 TTTAA-TTAATTTAATA
51430928 TTTA
1 TTTA
51430932 TCTTGATATG
Statistics
Matches: 51, Mismatches: 11, Indels: 13
0.68 0.15 0.17
Matches are distributed among these distances:
14 2 0.04
15 7 0.14
16 16 0.31
17 26 0.51
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (16 bp):
TTTAATTAATTTAATA
Found at i:51430908 original size:48 final size:49
Alignment explanation
Indices: 51430840--51430964 Score: 155
Period size: 48 Copynumber: 2.6 Consensus size: 49
51430830 TTAAAAAATA
* * * * *
51430840 ATAT-TATTTTAATAAATTTAATATTTAAGTTAATTTGATACTTATCTTT
1 ATATGTATTTT-ATTAATTTAATATTAAAGTTAATCTAATACTTATCTTG
* *
51430889 ATA-GTATTTTATTAATTTAATATTAAATTTAATCTAATATTTATCTTG
1 ATATGTATTTTATTAATTTAATATTAAAGTTAATCTAATACTTATCTTG
*
51430937 ATATGTATTATATTAATTTAATATTAAA
1 ATATGTATTTTATTAATTTAATATTAAA
51430965 ATAATTAAGT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 34 0.52
49 32 0.48
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (49 bp):
ATATGTATTTTATTAATTTAATATTAAAGTTAATCTAATACTTATCTTG
Found at i:51439307 original size:13 final size:13
Alignment explanation
Indices: 51439289--51439313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51439279 AAGTTTTTTA
51439289 TTTTTAATTAATG
1 TTTTTAATTAATG
51439302 TTTTTAATTAAT
1 TTTTTAATTAAT
51439314 AAATATATTG
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:51439439 original size:17 final size:19
Alignment explanation
Indices: 51439408--51439446 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
51439398 TTTCCAATTA
51439408 TATAAAAATATATATTT-T
1 TATAAAAATATATATTTAT
*
51439426 TATAAAATTA-ATATTTAT
1 TATAAAAATATATATTTAT
51439444 TAT
1 TAT
51439447 TATGTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATAAAAATATATATTTAT
Found at i:51439678 original size:13 final size:13
Alignment explanation
Indices: 51439660--51439728 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 13
51439650 ATATGTGAAA
51439660 TATTTCAAATAAT
1 TATTTCAAATAAT
51439673 TATTTCAAATATCAT
1 TATTTCAAATA--AT
* * *
51439688 TATGTTTATATGTGAAA
1 TAT-TTCA-A-AT-AAT
51439705 TATTTCAAATAAT
1 TATTTCAAATAAT
51439718 TATTTCAAATA
1 TATTTCAAATA
51439729 TCATAATGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
13 24 0.55
14 1 0.02
15 6 0.14
16 6 0.14
17 5 0.11
18 1 0.02
19 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (13 bp):
TATTTCAAATAAT
Found at i:51439706 original size:23 final size:23
Alignment explanation
Indices: 51439679--51439775 Score: 101
Period size: 23 Copynumber: 4.3 Consensus size: 23
51439669 TAATTATTTC
*
51439679 AAATATCATTATGTTTATATGTG
1 AAATATCATAATGTTTATATGTG
** *
51439702 AAATATTTCA-AATAATTAT-T-TC
1 AAATA--TCATAATGTTTATATGTG
51439724 AAATATCATAATGTTTATATGTG
1 AAATATCATAATGTTTATATGTG
* *
51439747 AAATATCATTATGTTTATAAGTG
1 AAATATCATAATGTTTATATGTG
51439770 AAATAT
1 AAATAT
51439776 TTCAAATACA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.05
21 7 0.12
22 7 0.12
23 34 0.57
24 6 0.10
25 3 0.05
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.44
Consensus pattern (23 bp):
AAATATCATAATGTTTATATGTG
Found at i:51439711 original size:45 final size:45
Alignment explanation
Indices: 51439647--51439752 Score: 203
Period size: 45 Copynumber: 2.4 Consensus size: 45
51439637 TTTCAAATAT
*
51439647 TTTATATGTGAAATATTTCAAATAATTATTTCAAATATCATTATG
1 TTTATATGTGAAATATTTCAAATAATTATTTCAAATATCATAATG
51439692 TTTATATGTGAAATATTTCAAATAATTATTTCAAATATCATAATG
1 TTTATATGTGAAATATTTCAAATAATTATTTCAAATATCATAATG
51439737 TTTATATGTGAAATAT
1 TTTATATGTGAAATAT
51439753 CATTATGTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (45 bp):
TTTATATGTGAAATATTTCAAATAATTATTTCAAATATCATAATG
Found at i:51440241 original size:22 final size:22
Alignment explanation
Indices: 51440211--51440253 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
51440201 ACACCAAAAC
*
51440211 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
51440233 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
51440254 AGCACCGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:51440481 original size:129 final size:130
Alignment explanation
Indices: 51440314--51440627 Score: 355
Period size: 129 Copynumber: 2.4 Consensus size: 130
51440304 TTTTAGAAAT
* ** *
51440314 AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCACAAACGCCGTTAAAGACCAAGAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
** * * * * *
51440379 CTTTAGTGGCGCTGTCCTCACAAACGCCACTATAGACCATGAACTTTAGCGGCGCTTTT-GTCAC
66 CTTTAGCAGCGCTGTCCTCACAAACGCCACTAAAGAACATGAACTTTAGCGGCACTTTTAATCAA
* * * * *
51440443 AAACGCCGCTATAGACCATGGCCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGACCATGGC
1 AAACGCCGCTATAGAACATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* ** * * *
51440508 CTTTAGCAGCGCTTTTGTCACAAACGCCGCTAAAGAACGTGACCTTTAGCGGCACTTTTAATCAA
66 CTTTAGCAGCGCTGTCCTCACAAACGCCACTAAAGAACATGAACTTTAGCGGCACTTTTAATCAA
* * * * *
51440573 AAATGCCACTATAGAACA-AACCTTTAGCGGCGCTTCTCGCCA-AAACGCCGCTAAA
1 AAACGCCGCTATAGAACATGACCTTTAGCGACGCTTTTC-CCACAAACGCCGCTAAA
51440628 AACATATCAT
Statistics
Matches: 154, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
129 133 0.86
130 21 0.14
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (130 bp):
AAACGCCGCTATAGAACATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
CTTTAGCAGCGCTGTCCTCACAAACGCCACTAAAGAACATGAACTTTAGCGGCACTTTTAATCAA
Found at i:51440566 original size:43 final size:43
Alignment explanation
Indices: 51440314--51440627 Score: 299
Period size: 43 Copynumber: 7.3 Consensus size: 43
51440304 TTTTAGAAAT
** * *
51440314 AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* * * * *
51440357 AAACGCCGTTAAAGACCAAGACCTTTAGTGGCGCTGTCCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* * * *
51440400 AAACGCCACTATAGACCATGAACTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* * * *
51440443 AAACGCCGCTATAGACCATGGCCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* * * *
51440486 AAACGCCGCTATAGACCATGGCCTTTAGCAGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* * * * *
51440529 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCACTTTTAATCAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT-CTCAC
* * * * * * *
51440573 AAATGCCACTATAGAACA-AACCTTTAGCGGCGCTTCTCGC-C
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
51440614 AAAACGCCGCTAAA
1 -AAACGCCGCTAAA
51440628 AACATATCAT
Statistics
Matches: 220, Mismatches: 49, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
42 11 0.05
43 192 0.87
44 17 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
Found at i:51445549 original size:11 final size:11
Alignment explanation
Indices: 51445535--51445594 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 11
51445525 AAAATAAAAG
*
51445535 TTTAAAATCTT
1 TTTAAAATCAT
51445546 TTTAAAAT--T
1 TTTAAAATCAT
* *
51445555 TTTAAAA-AAA
1 TTTAAAATCAT
51445565 TTTAAAATC-T
1 TTTAAAATCAT
51445575 TTTAAAATTCAT
1 TTTAAAA-TCAT
51445587 TTTAAAAT
1 TTTAAAAT
51445595 TTTAAATCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
9 8 0.20
10 14 0.34
11 11 0.27
12 8 0.20
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTAAAATCAT
Found at i:51445593 original size:29 final size:29
Alignment explanation
Indices: 51445528--51445602 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 29
51445518 TATTATAAAA
51445528 ATAAAAGTTTAAAATCTTTTTAAAATTTTT
1 ATAAAA-TTTAAAATCTTTTTAAAATTTTT
*
51445558 AAAAAAATTTAAAATC-TTTTAAAATTCATTT
1 -ATAAAATTTAAAATCTTTTTAAAATT--TTT
*
51445589 -TAAAATTTTAAATC
1 ATAAAATTTAAAATC
51445603 ACGAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.56
30 9 0.23
31 8 0.21
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (29 bp):
ATAAAATTTAAAATCTTTTTAAAATTTTT
Found at i:51445599 original size:30 final size:30
Alignment explanation
Indices: 51445528--51445600 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
51445518 TATTATAAAA
*
51445528 ATAAAAGTTTAAAATCTTTTTAAAATTTTT
1 ATAAAAATTTAAAATCTTTTTAAAATTTTT
*
51445558 AAAAAAATTTAAAATC-TTTTAAAATTCATTT
1 ATAAAAATTTAAAATCTTTTTAAAATT--TTT
*
51445589 -TAAAATTTTAAA
1 ATAAAAATTTAAA
51445601 TCACGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 10 0.27
30 24 0.65
31 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (30 bp):
ATAAAAATTTAAAATCTTTTTAAAATTTTT
Found at i:51445600 original size:20 final size:20
Alignment explanation
Indices: 51445535--51445597 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
51445525 AAAATAAAAG
*
51445535 TTTAAAATCTTTTTAAAATT
1 TTTAAAATCATTTTAAAATT
* *
51445555 TTTAAAA-AAATTTAAAATCT
1 TTTAAAATCATTTTAAAAT-T
51445575 TTTAAAATTCATTTTAAAATT
1 TTTAAAA-TCATTTTAAAATT
51445596 TT
1 TT
51445598 AAATCACGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 8 0.23
20 15 0.43
21 3 0.09
22 9 0.26
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAATCATTTTAAAATT
Found at i:51447084 original size:105 final size:104
Alignment explanation
Indices: 51446913--51447273 Score: 519
Period size: 104 Copynumber: 3.5 Consensus size: 104
51446903 GGTGGATCCC
* * *
51446913 GCACTTAGCAA-CACCACTGAATTGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
** * *
51446977 TAGCAACCCCCTTTTTCATTTCAAAGATATGGTGGAATCA
66 TAGCAACCCCCTTTCACATTT-AAAAATACGGTGGAATCA
** **
51447017 GCACTTAGCAACCACCAATGGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
*
51447082 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGACTCA
66 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
** * **
51447121 GCACACAGCAACCACCAAT-AAGTAGGGGAATCAACACTTAGCAACCCCTCGGGGGAATCAGCAC
1 GCACTTAGCAACCACCAATGAA-TAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCAC
*
51447185 TTAGCAACCCCCTTTCACATTTAAAAATACGATGGAATCA
65 TTAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
*
51447225 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCT
51447274 TTATATGTAA
Statistics
Matches: 229, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
104 162 0.71
105 67 0.29
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (104 bp):
GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
Found at i:51447633 original size:30 final size:31
Alignment explanation
Indices: 51447602--51447661 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
51447592 TCCACCACCC
51447602 AACTATTTGAAAAATTACAATTTT-TCCCCCA
1 AACT-TTTGAAAAATTACAATTTTGTCCCCCA
* * *
51447633 AACTTTTGCATAATTACAGTTTTGTCCCC
1 AACTTTTGAAAAATTACAATTTTGTCCCC
51447662 AAGCTCGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (31 bp):
AACTTTTGAAAAATTACAATTTTGTCCCCCA
Found at i:51449750 original size:41 final size:41
Alignment explanation
Indices: 51449691--51449798 Score: 180
Period size: 41 Copynumber: 2.6 Consensus size: 41
51449681 AGATTTTATT
*
51449691 ATTAGCGGCGCTTCTTCAAAAACGTCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTACGAGC
* *
51449732 ATTAGTGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTACGAGC
*
51449773 ATTAGCGGCGCTTGTTCAAAAACGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCC
51449799 ACTATAGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTACGAGC
Found at i:51454076 original size:21 final size:21
Alignment explanation
Indices: 51454052--51454107 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
51454042 CTGAACAATT
*
51454052 AAGAAAAAGA-GAAATACAAAA
1 AAGAAAAAGATCAAAT-CAAAA
*
51454073 AAG-AATAGATCAAATCAAAA
1 AAGAAAAAGATCAAATCAAAA
*
51454093 AAGAAATAGAATCAA
1 AAGAAAAAG-ATCAA
51454108 CGATTTGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.11
Consensus pattern (21 bp):
AAGAAAAAGATCAAATCAAAA
Found at i:51454093 original size:20 final size:23
Alignment explanation
Indices: 51454063--51454107 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
51454053 AGAAAAAGAG
51454063 AAATACAAAAAAG-AATAG-ATC
1 AAATACAAAAAAGAAATAGAATC
51454084 AAAT-CAAAAAAGAAATAGAATC
1 AAATACAAAAAAGAAATAGAATC
51454106 AA
1 AA
51454108 CGATTTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (23 bp):
AAATACAAAAAAGAAATAGAATC
Found at i:51456999 original size:34 final size:35
Alignment explanation
Indices: 51456906--51457001 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 35
51456896 GTCCAAAAAG
* * *
51456906 AAATAATACATGAACAGGAGAGATTCCTTGCAACA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
* *
51456941 AAATAATGCGTGAATAGGAGAGATTCCCTGCAA-G
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
* * * *
51456975 AAATGATGTGTGAACAAGAAAGATTCC
1 AAATAATGCGTGAACAGGAGAGATTCC
51457002 TTCCAATTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 22 0.43
35 29 0.57
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.21
Consensus pattern (35 bp):
AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
Found at i:51457466 original size:26 final size:27
Alignment explanation
Indices: 51457400--51457468 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
51457390 TAAAAAAATA
51457400 ACCAAAATATTATAAATTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTATTT
*
51457427 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTATTT
51457454 ACCAAAATA-TATAAA
1 ACCAAAATATTATAAA
51457469 AAAAACCTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 5 0.12
27 35 0.88
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (27 bp):
ACCAAAATATTATAAATTTTTTTATTT
Found at i:51457546 original size:27 final size:27
Alignment explanation
Indices: 51457515--51457572 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
51457505 CCTTGGTCAG
* *
51457515 GCCAAAGCCATTGGGGGCACCAAAGGT
1 GCCAAAGCCATTGGCGACACCAAAGGT
*
51457542 GCCAAAGCCATTGGCGACACCAATGGT
1 GCCAAAGCCATTGGCGACACCAAAGGT
51457569 GCCA
1 GCCA
51457573 TACTGATTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.12
Consensus pattern (27 bp):
GCCAAAGCCATTGGCGACACCAAAGGT
Found at i:51457701 original size:11 final size:11
Alignment explanation
Indices: 51457670--51457710 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
51457660 AGGTGCTGCG
*
51457670 GAAAAGGAA-A
1 GAAAAAGAAGA
51457680 GAAAAAG-AGA
1 GAAAAAGAAGA
*
51457690 GAAAGAGAAGA
1 GAAAAAGAAGA
51457701 GAAAAAGAAG
1 GAAAAAGAAG
51457711 GTATTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
9 1 0.04
10 13 0.50
11 12 0.46
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAGA
Found at i:51457845 original size:3 final size:3
Alignment explanation
Indices: 51457839--51457876 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
51457829 ATTATTATTA
51457839 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
51457877 AGTATTAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:51458692 original size:18 final size:18
Alignment explanation
Indices: 51458669--51458706 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
51458659 GGTTGGTGGT
*
51458669 GAAGAAGAATGTGCTGGC
1 GAAGAAGAAGGTGCTGGC
*
51458687 GAAGAAGAAGGTGGTGGC
1 GAAGAAGAAGGTGCTGGC
51458705 GA
1 GA
51458707 TCATTGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.45, T:0.13
Consensus pattern (18 bp):
GAAGAAGAAGGTGCTGGC
Found at i:51463458 original size:13 final size:13
Alignment explanation
Indices: 51463432--51463466 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
51463422 TCAATAAAAA
*
51463432 TATATTATTTTTT
1 TATATTATTATTT
*
51463445 TATTTTATTATTT
1 TATATTATTATTT
51463458 TATATTATT
1 TATATTATT
51463467 TCAGTACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATATTATTATTT
Found at i:51463765 original size:27 final size:27
Alignment explanation
Indices: 51463727--51463778 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
51463717 CCATATATTA
*
51463727 GTGCCGCCTTTTTATTCCTCTCCATTG
1 GTGCCGCCTTTTTATTCCCCTCCATTG
51463754 GTGCCGCCTTTTTATTCCCCTCCAT
1 GTGCCGCCTTTTTATTCCCCTCCAT
51463779 CACCCTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.08, C:0.37, G:0.13, T:0.42
Consensus pattern (27 bp):
GTGCCGCCTTTTTATTCCCCTCCATTG
Found at i:51464560 original size:23 final size:23
Alignment explanation
Indices: 51464534--51464682 Score: 72
Period size: 22 Copynumber: 6.9 Consensus size: 23
51464524 TCCCTCTTCT
51464534 TTTTTTTTTCTCTTCTCCTTTCC
1 TTTTTTTTTCTCTTCTCCTTTCC
* *
51464557 -TTTTCTTTC-CTTCT--TTTTC
1 TTTTTTTTTCTCTTCTCCTTTCC
* *
51464576 TTTCTTTTT-TCTTCTTCTTTCC
1 TTTTTTTTTCTCTTCTCCTTTCC
* * * *
51464598 TCTTCTTCT-TCTT-T-C--T-A
1 TTTTTTTTTCTCTTCTCCTTTCC
*
51464615 TTTTTTCTTCTCTTCTCCTTTCC
1 TTTTTTTTTCTCTTCTCCTTTCC
* *
51464638 TTTTTCTTTCT-TTCCTCTCCTTCC
1 TTTTTTTTTCTCTT-CTC-CTTTCC
51464662 TTTCTTTCTTTCTC-TCTCCTT
1 TTT-TTT-TTTCTCTTCTCCTT
51464683 CTCCCCCCCC
Statistics
Matches: 91, Mismatches: 20, Indels: 29
0.65 0.14 0.21
Matches are distributed among these distances:
17 5 0.05
18 5 0.05
19 5 0.05
20 13 0.14
21 6 0.07
22 24 0.26
23 12 0.13
24 10 0.11
25 5 0.05
26 6 0.07
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTTTTTTCTCTTCTCCTTTCC
Found at i:51464575 original size:20 final size:21
Alignment explanation
Indices: 51464523--51464682 Score: 74
Period size: 19 Copynumber: 7.8 Consensus size: 21
51464513 TTTTCCTTCC
*
51464523 TTCCCTCTTCTTT--TTTT-T
1 TTCCTTCTTCTTTCCTTTTCT
*
51464541 TTCTCTTCTCCTTTCCTTTTCT
1 TTC-CTTCTTCTTTCCTTTTCT
*
51464563 TTCCTTCTT-TTT-CTTTCTTT
1 TTCCTTCTTCTTTCCTTT-TCT
* *
51464583 TTTCTTCTTCTTTCCTCTTC-
1 TTCCTTCTTCTTTCCTTTTCT
51464603 TT-CTTCTTTCTATT--TTTTC-
1 TTCCTTC-TTCT-TTCCTTTTCT
*
51464622 TTCTCTTCTCCTTTCCTTTTTCT
1 TTC-CTTCTTCTTTCC-TTTTCT
* *
51464645 TTCTTTCCTCTCCTTCC-TTTCT
1 TTCCTT-CT-TCTTTCCTTTTCT
* *
51464667 TTCTTTC-TCTCTCCTT
1 TTCCTTCTTCTTTCCTT
51464683 CTCCCCCCCC
Statistics
Matches: 110, Mismatches: 14, Indels: 34
0.70 0.09 0.22
Matches are distributed among these distances:
18 3 0.03
19 29 0.26
20 23 0.21
21 20 0.18
22 25 0.23
23 5 0.05
24 5 0.05
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCCTTCTTCTTTCCTTTTCT
Found at i:51464579 original size:4 final size:4
Alignment explanation
Indices: 51464558--51464674 Score: 61
Period size: 4 Copynumber: 29.2 Consensus size: 4
51464548 CTCCTTTCCT
*
51464558 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC -TTC -TTC TTTCC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C T-TTC
* *
51464603 -TTC -TTC TTTC TATTT TTTC TTCTC TTCTCC TTTC CTT- TTTC TTTC
1 TTTC TTTC TTTC T-TTC TTTC TT-TC TT-T-C TTTC TTTC TTTC TTTC
* *
51464648 TTTCC TCTCC TTCC TTTC TTTC TTTC T
1 TTT-C T-TTC TTTC TTTC TTTC TTTC T
51464675 CTCTCCTTCT
Statistics
Matches: 93, Mismatches: 7, Indels: 26
0.74 0.06 0.21
Matches are distributed among these distances:
3 21 0.23
4 49 0.53
5 17 0.18
6 6 0.06
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:51464605 original size:57 final size:55
Alignment explanation
Indices: 51464544--51464686 Score: 136
Period size: 57 Copynumber: 2.6 Consensus size: 55
51464534 TTTTTTTTTC
* *
51464544 TCTTCTCCTTTCCT-TTTCTTTCCTTCT-TT-TTCTTTCTTTTTTCTTCTTCTTTCCTCT
1 TCTTCTCCTTT-CTATTT-TTT-CTTCTCTTCTCCTTTCCTTTTTC-T-TTCTTTCCTCT
*
51464601 TCTTCTTCTTTCTATTTTTTCTTCTCTTCTCCTTTCCTTTTTCTTTCTTTCCTC-
1 TCTTCTCCTTTCTATTTTTTCTTCTCTTCTCCTTTCCTTTTTCTTTCTTTCCTCT
* *
51464655 TCCT-TCCTTTCT-TTCTTTCTCTCTCCTTCTCC
1 TCTTCTCCTTTCTATTTTTTCT-TCT-CTTCTCC
51464687 CCCCCCACCT
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
52 7 0.09
53 10 0.13
54 10 0.13
55 15 0.20
56 8 0.11
57 25 0.33
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (55 bp):
TCTTCTCCTTTCTATTTTTTCTTCTCTTCTCCTTTCCTTTTTCTTTCTTTCCTCT
Found at i:51464613 original size:10 final size:10
Alignment explanation
Indices: 51464544--51464649 Score: 69
Period size: 10 Copynumber: 10.4 Consensus size: 10
51464534 TTTTTTTTTC
*
51464544 TCTTCTCCTT
1 TCTTCTTCTT
51464554 TCCTT-TTCTT
1 T-CTTCTTCTT
51464564 TCCTTCTT-TT
1 T-CTTCTTCTT
*
51464574 TCTTTCTTTTT
1 TC-TTCTTCTT
51464585 TCTTCTTCTT
1 TCTTCTTCTT
*
51464595 TCCTCTTC-T
1 TCTTCTTCTT
51464604 TCTTCTTTCTAT
1 TCTTC-TTCT-T
51464616 T-TT-TTCTT
1 TCTTCTTCTT
*
51464624 CTCTTCTCCTT
1 -TCTTCTTCTT
*
51464635 TCCTTTTTCTT
1 T-CTTCTTCTT
51464646 TCTT
1 TCTT
51464650 TCCTCTCCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
8 1 0.01
9 11 0.14
10 41 0.53
11 23 0.29
12 2 0.03
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (10 bp):
TCTTCTTCTT
Found at i:51464645 original size:35 final size:34
Alignment explanation
Indices: 51464559--51464650 Score: 113
Period size: 35 Copynumber: 2.8 Consensus size: 34
51464549 TCCTTTCCTT
51464559 TTCTTT-C-CTTCTTTTTCTTTC-TTTTTTCTTC
1 TTCTTTCCTCTTCTTTTTCTTTCTTTTTTTCTTC
*
51464590 TTCTTTCCTCTTCTTCTTCTTTCTATTTTTTCTTC
1 TTCTTTCCTCTTCTTTTTCTTTCT-TTTTTTCTTC
51464625 -TCTTCTCCT-TTCCTTTTTCTTTCTTT
1 TTCTT-TCCTCTT-CTTTTTCTTTCTTT
51464651 CCTCTCCTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
31 6 0.11
32 1 0.02
33 13 0.25
34 8 0.15
35 25 0.47
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (34 bp):
TTCTTTCCTCTTCTTTTTCTTTCTTTTTTTCTTC
Found at i:51464684 original size:18 final size:22
Alignment explanation
Indices: 51464618--51464683 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
51464608 CTTTCTATTT
*
51464618 TTTCTTCTCTTCTCCTTTCCTT--
1 TTTCTT-TCTT-TCCTCTCCTTCC
51464640 TTTCTTTCTTTCCTCTCCTTCC
1 TTTCTTTCTTTCCTCTCCTTCC
51464662 TTTCTTTCTTTCTCTCTCCTTC
1 TTTCTTTCTTTC-CTCTCCTTC
51464684 TCCCCCCCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
20 9 0.22
21 4 0.10
22 18 0.45
23 9 0.22
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTCTTTCTTTCCTCTCCTTCC
Found at i:51464684 original size:81 final size:80
Alignment explanation
Indices: 51464530--51464681 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 80
51464520 TCCTTCCCTC
* * * * * *
51464530 TTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCTTCTTCTT
1 TTCTTTTTTTCTTCTCTTCTCCTTTCCTTTTCTTTCCTTCCTCTCCTTCCTTTTTTCTTCTTCTC
51464595 TCCTCTTCTTCTTCT
66 TCCTCTTCTTCTTCT
*
51464610 TTCTATTTTTTCTTCTCTTCTCCTTTCCTTTTTCTTTCTTTCCTCTCCTTCCTTTCTTTCTT-TC
1 TTCT-TTTTTTCTTCTCTTCTCCTTTCC-TTTTCTTTCCTTCCTCTCCTTCCTTT-TTTCTTCT-
51464674 TCTCTCCT
62 TCTCTCCT
51464682 TCTCCCCCCC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
80 4 0.07
81 22 0.36
82 22 0.36
83 13 0.21
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (80 bp):
TTCTTTTTTTCTTCTCTTCTCCTTTCCTTTTCTTTCCTTCCTCTCCTTCCTTTTTTCTTCTTCTC
TCCTCTTCTTCTTCT
Found at i:51464838 original size:21 final size:20
Alignment explanation
Indices: 51464797--51464837 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
51464787 TTTTTTTTGT
51464797 ATATTTTGATAAATAAAAAA
1 ATATTTTGATAAATAAAAAA
*
51464817 ATATTTTGGTAAATAAAAAA
1 ATATTTTGATAAATAAAAAA
51464837 A
1 A
51464838 AGTTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (20 bp):
ATATTTTGATAAATAAAAAA
Found at i:51465163 original size:22 final size:24
Alignment explanation
Indices: 51465117--51465163 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
51465107 TTTAAAATAT
*
51465117 ATATTCTATTTAAATTATTATAAA
1 ATATTCTATTTAAATTATCATAAA
*
51465141 ATATT-TATTTATA-TATCATAAA
1 ATATTCTATTTAAATTATCATAAA
51465163 A
1 A
51465164 ATTAAACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
ATATTCTATTTAAATTATCATAAA
Found at i:51466693 original size:16 final size:17
Alignment explanation
Indices: 51466661--51466694 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
51466651 TAAGGAAATG
51466661 TGATTTATTTATGAAAA
1 TGATTTATTTATGAAAA
51466678 TGATTTATTT-TGAAAA
1 TGATTTATTTATGAAAA
51466694 T
1 T
51466695 TATGTACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
TGATTTATTTATGAAAA
Found at i:51476276 original size:5 final size:5
Alignment explanation
Indices: 51476266--51476290 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
51476256 AAATTGGTTT
51476266 CAATC CAATC CAATC CAATC CAATC
1 CAATC CAATC CAATC CAATC CAATC
51476291 AGAGTAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CAATC
Found at i:51478145 original size:28 final size:28
Alignment explanation
Indices: 51478059--51478145 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
51478049 CTTCATTTAT
* *
51478059 AAAAAATGTTTAGGTACCAAATTAGGGAA
1 AAAAAATGTTTAGATACCAAATT-GAGAA
* *
51478088 AAAAGA-GTTTAGATACC-ACTTGTA-ACA
1 AAAAAATGTTTAGATACCAAATTG-AGA-A
*
51478115 AAAAAATGTTTAGATACCAAAATGAGAA
1 AAAAAATGTTTAGATACCAAATTGAGAA
51478143 AAA
1 AAA
51478146 TGACATAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
26 2 0.04
27 9 0.20
28 26 0.57
29 9 0.20
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.23
Consensus pattern (28 bp):
AAAAAATGTTTAGATACCAAATTGAGAA
Found at i:51480348 original size:35 final size:35
Alignment explanation
Indices: 51480309--51480385 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
51480299 AAGACAAAAG
51480309 CATCAATATGCTTGCCTCTAACCGAATACATGCAA
1 CATCAATATGCTTGCCTCTAACCGAATACATGCAA
51480344 CATCAATATGCTTGCCTCTAACCGAATACATGCAA
1 CATCAATATGCTTGCCTCTAACCGAATACATGCAA
*
51480379 CACCAAT
1 CATCAAT
51480386 CTTCTTCCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (35 bp):
CATCAATATGCTTGCCTCTAACCGAATACATGCAA
Found at i:51483525 original size:47 final size:47
Alignment explanation
Indices: 51483425--51483754 Score: 507
Period size: 47 Copynumber: 6.9 Consensus size: 47
51483415 TAGTATGGCG
*
51483425 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
51483474 TAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
51483521 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
51483570 TAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
51483617 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
51483664 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
51483711 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
51483755 TCCCGAAGGG
Statistics
Matches: 260, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 187 0.72
49 73 0.28
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:51483589 original size:96 final size:96
Alignment explanation
Indices: 51483425--51483752 Score: 529
Period size: 96 Copynumber: 3.5 Consensus size: 96
51483415 TAGTATGGCG
*
51483425 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCAATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
51483490 GAATGTGAAAGTGTATATATGTGATAAGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
51483521 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
51483586 GAATGTGAAAGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
* *
51483617 TAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
* *
51483680 GAATGTGAAAGTGTATATATGTGACAGGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * *
51483711 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
51483753 AGTCCCGAAG
Statistics
Matches: 217, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
94 92 0.42
95 1 0.00
96 124 0.57
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:51483685 original size:143 final size:141
Alignment explanation
Indices: 51483425--51483754 Score: 525
Period size: 143 Copynumber: 2.3 Consensus size: 141
51483415 TAGTATGGCG
* *
51483425 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCAATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGATAAGGCCTAATAGCCAATGTGAT
51483490 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
64 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
51483555 ATATGTGATAGGGCC
127 ATATGTGACAGGGCC
*
51483570 TAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCAATGTGATGA
51483635 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
51483700 GTGACAGGGCC
131 GTGACAGGGCC
* * * * * * *
51483711 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAG
51483755 TCCCGAAGGG
Statistics
Matches: 174, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
141 54 0.31
143 94 0.54
145 26 0.15
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
TAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCAATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGACAGGGCC
Found at i:51483929 original size:37 final size:37
Alignment explanation
Indices: 51483873--51483951 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
51483863 CAGAGCTCTA
* * *
51483873 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAAATTATGTCCGGGT
*
51483910 AAGACCCGATAACTTCGTGTGGAAATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAAATTATGTCCGGGT
51483947 AAGAC
1 AAGAC
51483952 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:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAAATTATGTCCGGGT
Found at i:51486562 original size:47 final size:47
Alignment explanation
Indices: 51486484--51486659 Score: 246
Period size: 47 Copynumber: 3.7 Consensus size: 47
51486474 CCCTTCGGGA
* * * * *
51486484 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
* * *
51486531 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
51486578 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
51486625 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
51486660 AGAATCCTAA
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 1 0.01
47 115 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
Found at i:51488889 original size:29 final size:27
Alignment explanation
Indices: 51488871--51488940 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
51488861 ATATTAAGTC
51488871 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
51488898 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
51488926 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
51488941 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:51488934 original size:28 final size:28
Alignment explanation
Indices: 51488871--51488968 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
51488861 ATATTAAGTC
*
51488871 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51488898 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51488926 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
51488955 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51488969 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51497044 original size:47 final size:47
Alignment explanation
Indices: 51496966--51497373 Score: 636
Period size: 47 Copynumber: 8.6 Consensus size: 47
51496956 CCCTTCGGGA
* * * * * *
51496966 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51497013 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51497060 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51497107 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51497156 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51497205 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51497252 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51497299 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51497348 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
51497374 CACAATTATC
Statistics
Matches: 337, Mismatches: 20, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
47 197 0.58
49 140 0.42
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51497163 original size:96 final size:94
Alignment explanation
Indices: 51496966--51497373 Score: 636
Period size: 96 Copynumber: 4.3 Consensus size: 94
51496956 CCCTTCGGGA
* * * * * * * *
51496966 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
51497031 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
51497060 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
51497125 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
51497156 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51497221 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
51497252 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
51497317 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
51497348 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
51497374 CACAATTATC
Statistics
Matches: 290, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
94 90 0.31
96 155 0.53
98 45 0.16
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:51497304 original size:192 final size:192
Alignment explanation
Indices: 51496966--51497374 Score: 727
Period size: 192 Copynumber: 2.2 Consensus size: 192
51496956 CCCTTCGGGA
* *
51496966 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATTGGCCACTCGGCCCTATCACATATATAC
51497029 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
51497094 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
51497156 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATTGGCCACTCGGCCCTATCACATATATAC
* *
51497221 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTTACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
51497286 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51497348 CTTATCACATATATATACA--TTCACATC
1 CTTATCACATATATATACACTTTCACATC
51497375 ACAATTATCC
Statistics
Matches: 209, Mismatches: 8, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
190 17 0.08
191 1 0.00
192 191 0.91
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (192 bp):
CTTATCACATATATATACACTTTCACATCCATCACATTGGCCACTCGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51501157 original size:37 final size:37
Alignment explanation
Indices: 51501095--51501172 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
51501085 TATTACGAAA
* * *
51501095 TCTTACCCGGACATAATCTCTACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
51501132 TCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCT-CCACACGAAGTCATCGGG
51501169 TCTT
1 TCTT
51501173 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:51502437 original size:41 final size:41
Alignment explanation
Indices: 51502371--51502611 Score: 254
Period size: 41 Copynumber: 5.9 Consensus size: 41
51502361 CTTACCTTTC
* **
51502371 GGGT-CTTTAGCGGTGTTTTCAAAAAAGCGCCGCTAATGCT
1 GGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT
51502411 GGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT
1 GGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT
* * * *
51502452 AGGTGCTTTAGTGACGTTTTTG-AAAAGACGCCGCTAATGTT
1 GGGTGCTTTAGCGGCGTTTTTGAAAAAG-CGCCGCTAATGCT
* * * * * * * **
51502493 TGGTGTTTTAACAGTGTTTTTGAGAAGGCGCCATTAATGCT
1 GGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT
* * * *
51502534 TGGTGTTTTAGCGGCGTTTTTGAGAAAGTGCCGCTAATGCT
1 GGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT
*
51502575 AGGG-GCTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAA
1 -GGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
51502612 AAACATTTTA
Statistics
Matches: 166, Mismatches: 31, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
40 9 0.05
41 152 0.92
42 5 0.03
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (41 bp):
GGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT
Found at i:51503012 original size:21 final size:20
Alignment explanation
Indices: 51502978--51503040 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
51502968 GTATGAATTA
*
51502978 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
51502998 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
*
51503019 AGAGG-TTAAGGGTTTAGGGGTT
1 -G-GGATTAA-GGTTTAAGGGTT
51503041 AGACGTTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 4 0.11
21 18 0.49
22 13 0.35
23 2 0.05
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.37
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:51503020 original size:7 final size:7
Alignment explanation
Indices: 51503010--51503062 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
51503000 GATTTAAGGT
51503010 TTAGGGG
1 TTAGGGG
*
51503017 TTAGAGG
1 TTAGGGG
*
51503024 TTAAGGGT
1 TT-AGGGG
51503032 TTAGGGG
1 TTAGGGG
**
51503039 TTAGACG
1 TTAGGGG
51503046 TTAGGGG
1 TTAGGGG
51503053 TTAGGGG
1 TTAGGGG
51503060 TTA
1 TTA
51503063 AGATACTATT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.21, C:0.02, G:0.45, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:51503035 original size:22 final size:22
Alignment explanation
Indices: 51503003--51503062 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
51502993 GGGTTGGGAT
*
51503003 TTAA-GGTTTAGGGGTTAGAGG
1 TTAAGGGTTTAGGGGTTAGACG
51503024 TTAAGGGTTTAGGGGTTAGACG
1 TTAAGGGTTTAGGGGTTAGACG
*
51503046 TT-AGGGGTTAGGGGTTA
1 TTAAGGGTTTAGGGGTTA
51503063 AGATACTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.22, C:0.02, G:0.43, T:0.33
Consensus pattern (22 bp):
TTAAGGGTTTAGGGGTTAGACG
Found at i:51503172 original size:29 final size:29
Alignment explanation
Indices: 51503139--51503203 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
51503129 TTAAGGGTTG
* *
51503139 GGGTTTAAGGTTTAGGGGTTAGAGGTTTA
1 GGGTTTAAGGTTTAGGGATTAGAAGTTTA
* *
51503168 GGGTTCAAGGTTTATGGATTAGAAGTTTA
1 GGGTTTAAGGTTTAGGGATTAGAAGTTTA
51503197 GGGTTTA
1 GGGTTTA
51503204 GATTAATTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.02, G:0.37, T:0.38
Consensus pattern (29 bp):
GGGTTTAAGGTTTAGGGATTAGAAGTTTA
Found at i:51503204 original size:7 final size:7
Alignment explanation
Indices: 51503072--51503204 Score: 65
Period size: 7 Copynumber: 18.7 Consensus size: 7
51503062 AAGATACTAT
*
51503072 TTTAAGG
1 TTTAGGG
51503079 TTTAGGG
1 TTTAGGG
51503086 ATTCT-GGG
1 -TT-TAGGG
*
51503094 TTTAGGA
1 TTTAGGG
* *
51503101 TTTATGA
1 TTTAGGG
*
51503108 TTTATGG
1 TTTAGGG
*
51503115 TTTATGG
1 TTTAGGG
*
51503122 -TTACGG
1 TTTAGGG
51503128 TTTAAGGG
1 TTT-AGGG
*
51503136 -TTGGGG
1 TTTAGGG
*
51503142 TTTAAGG
1 TTTAGGG
51503149 TTTAGGG
1 TTTAGGG
*
51503156 GTTAGAGG
1 TTTAG-GG
51503164 TTTAGGG
1 TTTAGGG
* *
51503171 TTCAAGG
1 TTTAGGG
*
51503178 TTTATGG
1 TTTAGGG
* *
51503185 ATTAGAAG
1 TTTAG-GG
51503193 TTTAGGG
1 TTTAGGG
51503200 TTTAG
1 TTTAG
51503205 ATTAATTAGT
Statistics
Matches: 97, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
6 9 0.09
7 68 0.70
8 19 0.20
9 1 0.01
ACGTcount: A:0.21, C:0.02, G:0.35, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:51503204 original size:15 final size:15
Alignment explanation
Indices: 51503126--51503205 Score: 76
Period size: 14 Copynumber: 5.5 Consensus size: 15
51503116 TTATGGTTAC
* *
51503126 GGTTTA-AGGGTTGG
1 GGTTTAGAGGTTTAG
51503140 GGTTTA-AGGTTTAG
1 GGTTTAGAGGTTTAG
*
51503154 GGGTTAGAGGTTTAG
1 GGTTTAGAGGTTTAG
* *
51503169 GGTTCA-AGGTTTAT
1 GGTTTAGAGGTTTAG
* *
51503183 GGATTAGAAGTTTAG
1 GGTTTAGAGGTTTAG
51503198 GGTTTAGA
1 GGTTTAGA
51503206 TTAATTAGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
14 28 0.53
15 25 0.47
ACGTcount: A:0.23, C:0.01, G:0.39, T:0.38
Consensus pattern (15 bp):
GGTTTAGAGGTTTAG
Found at i:51516798 original size:5 final size:5
Alignment explanation
Indices: 51516788--51516844 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
51516778 AAGTAAATAT
51516788 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
51516838 TATTA TA
1 TATTA TA
51516845 ATTAAAACAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:51516921 original size:11 final size:11
Alignment explanation
Indices: 51516866--51516950 Score: 59
Period size: 13 Copynumber: 7.2 Consensus size: 11
51516856 AAATAAATGA
51516866 AAGAAAAAGA-
1 AAGAAAAAGAG
51516876 ATAG-AAAA-AG
1 A-AGAAAAAGAG
51516886 AAGAACAAAGTAG
1 AAGAA-AAAG-AG
*
51516899 AACGAAACAGAG
1 AA-GAAAAAGAG
51516911 AAGAAAAAGAGAG
1 AAG-AAAA-AGAG
51516924 AAAGAAAAAGAG
1 -AAGAAAAAGAG
51516936 AAGGAAAAAGCAG
1 AA-GAAAAAG-AG
51516949 AA
1 AA
51516951 ACAATTAGGG
Statistics
Matches: 61, Mismatches: 2, Indels: 21
0.73 0.02 0.25
Matches are distributed among these distances:
9 3 0.05
10 7 0.11
11 8 0.13
12 18 0.30
13 19 0.31
14 6 0.10
ACGTcount: A:0.68, C:0.05, G:0.25, T:0.02
Consensus pattern (11 bp):
AAGAAAAAGAG
Found at i:51516930 original size:14 final size:13
Alignment explanation
Indices: 51516907--51516945 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
51516897 AGAACGAAAC
51516907 AGAGAAGAAAAAG
1 AGAGAAGAAAAAG
51516920 AGAGAAAGAAAAAG
1 AGAG-AAGAAAAAG
*
51516934 AGA-AGGAAAAAG
1 AGAGAAGAAAAAG
51516946 CAGAAACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 8 0.33
13 4 0.17
14 12 0.50
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAAAAG
Found at i:51516950 original size:25 final size:24
Alignment explanation
Indices: 51516880--51516951 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
51516870 AAAAGAATAG
* *
51516880 AAAA-AGAAGAACAAAGTAGAACGA
1 AAAAGAGAAGAA-AAAGCAGAAAGA
* *
51516904 AACAGAGAAGAAAAAGAGAGAAAGA
1 AAAAGAGAAGAAAAAG-CAGAAAGA
51516929 AAAAGAGAAGGAAAAAGCAGAAA
1 AAAAGAGAA-GAAAAAGCAGAAA
51516952 CAATTAGGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 7 0.17
25 26 0.65
26 7 0.17
ACGTcount: A:0.68, C:0.06, G:0.25, T:0.01
Consensus pattern (24 bp):
AAAAGAGAAGAAAAAGCAGAAAGA
Found at i:51530600 original size:30 final size:30
Alignment explanation
Indices: 51530566--51530624 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
51530556 ATACAACAAT
51530566 ATAAAAATA-TAAATATGTACATATATATAA
1 ATAAAAA-AGTAAATATGTACATATATATAA
* * *
51530596 ATAAAAAAGTAGATATGTATATGTATATA
1 ATAAAAAAGTAAATATGTACATATATATA
51530625 TATTATAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (30 bp):
ATAAAAAAGTAAATATGTACATATATATAA
Found at i:51534740 original size:15 final size:15
Alignment explanation
Indices: 51534722--51534756 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
51534712 TGAAATTATA
*
51534722 TATATTATATATATT
1 TATATTAAATATATT
51534737 TATATTAAATATATT
1 TATATTAAATATATT
51534752 T-TATT
1 TATATT
51534757 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATTAAATATATT
Found at i:51535294 original size:33 final size:33
Alignment explanation
Indices: 51535216--51535300 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
51535206 GTATTTTCAA
*
51535216 TAATTATGAATAAATTATATTAAAATATTTTTATT
1 TAATTAT-ATTAAATTAT-TTAAAATATTTTTATT
51535251 T--TTATATTAAATTATTTAAAATA-TTTTATTT
1 TAATTATATTAAATTATTTAAAATATTTTTA-TT
*
51535282 TAATTATATTAAAATATTT
1 TAATTATATTAAATTATTT
51535301 TATATTAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
30 5 0.11
31 11 0.24
32 9 0.20
33 19 0.42
35 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (33 bp):
TAATTATATTAAATTATTTAAAATATTTTTATT
Found at i:51535326 original size:25 final size:25
Alignment explanation
Indices: 51535250--51535318 Score: 115
Period size: 24 Copynumber: 2.8 Consensus size: 25
51535240 ATATTTTTAT
51535250 TTTTATATTAAATTAT-TTAAAATA
1 TTTTATATTAAATTATATTAAAATA
*
51535274 TTTTAT-TTTAATTATATTAAAATA
1 TTTTATATTAAATTATATTAAAATA
51535298 TTTTATATTAAATTATATTAA
1 TTTTATATTAAATTATATTAA
51535319 GAGATTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.20
24 20 0.49
25 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTTATATTAAATTATATTAAAATA
Found at i:51538177 original size:12 final size:12
Alignment explanation
Indices: 51538156--51538188 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51538146 GAACGATATA
*
51538156 AAAAGGAAAAAG
1 AAAAGAAAAAAG
51538168 AAAAGAAAAAAG
1 AAAAGAAAAAAG
51538180 AAAA-AAAAA
1 AAAAGAAAAA
51538189 TATCTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:51538182 original size:18 final size:17
Alignment explanation
Indices: 51538155--51538188 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
51538145 TGAACGATAT
*
51538155 AAAAAGGAAAAAGAAAAG
1 AAAAAAGAAAAA-AAAAG
51538173 AAAAAAGAAAAAAAAA
1 AAAAAAGAAAAAAAAA
51538189 TATCTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAAG
Found at i:51547042 original size:15 final size:16
Alignment explanation
Indices: 51547018--51547057 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
51547008 AACACAAAAC
*
51547018 CTTTTTCTTTTTT-TA
1 CTTTTACTTTTTTATA
51547033 CTTTTACTTTTTTATA
1 CTTTTACTTTTTTATA
51547049 -TTTTA-TTTT
1 CTTTTACTTTT
51547058 GCCTTCGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (16 bp):
CTTTTACTTTTTTATA
Found at i:51551587 original size:73 final size:72
Alignment explanation
Indices: 51551469--51551672 Score: 291
Period size: 73 Copynumber: 2.8 Consensus size: 72
51551459 TTAGTAAATA
* * * * *
51551469 GATGGCTTGAGATCCAACATGTGTTGTGGATTCTTTGGAGCTTGTGTGAGCGGCATCAAATCATT
1 GATGGCTTGAGATCCAACACGTGTTGCGGATTCTTTGAAGCTTGTGTGAACAGCATCAAATCATT
*
51551534 CTTTATT
66 CTTTATC
*
51551541 GATGGCTTGAGATCCAAACACGTGTTGCGGATTCTTTGAAGCTTGTGTGAACAGCATCGAATCAT
1 GATGGCTTGAGATCC-AACACGTGTTGCGGATTCTTTGAAGCTTGTGTGAACAGCATCAAATCAT
51551606 TCTTTATC
65 TCTTTATC
* * ** *
51551614 GATGGCTTAAGATCCAGCACGTGTTGCGGATTCTCGGAAGCTTGTTTGAACAGCATCAA
1 GATGGCTTGAGATCCAACACGTGTTGCGGATTCTTTGAAGCTTGTGTGAACAGCATCAA
51551673 TAAAGCTTAT
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
72 54 0.46
73 64 0.54
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (72 bp):
GATGGCTTGAGATCCAACACGTGTTGCGGATTCTTTGAAGCTTGTGTGAACAGCATCAAATCATT
CTTTATC
Found at i:51552936 original size:36 final size:36
Alignment explanation
Indices: 51552896--51552967 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
51552886 ATTTTTTTTA
* **
51552896 TTTGTTAAGATTTTTCTAAACATTGAAGCTAATAAT
1 TTTGTTAAGATTTTTATAAACATCAAAGCTAATAAT
51552932 TTTGTTAAGATTTTTATAAACATCAAAGCTAATAAT
1 TTTGTTAAGATTTTTATAAACATCAAAGCTAATAAT
51552968 GTTATCGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (36 bp):
TTTGTTAAGATTTTTATAAACATCAAAGCTAATAAT
Found at i:51557602 original size:3 final size:3
Alignment explanation
Indices: 51557594--51557621 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
51557584 TCCAAAAAAT
51557594 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
51557622 CCAAACCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:51567345 original size:40 final size:40
Alignment explanation
Indices: 51567288--51567389 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
51567278 TAACGATAAA
* *
51567288 TCGGCTATGTT-TAGCACTTAGTATGAAATTTGAGATAACT
1 TCGGCTAT-TTATGGCACTTAGTATGAAATTTGAAATAACT
* ** *
51567328 TCGGCTATTTATGGCACTTAGTGTGCGATTTGAAATAGCT
1 TCGGCTATTTATGGCACTTAGTATGAAATTTGAAATAACT
*
51567368 TCGGCTATATATGGCACTTAGT
1 TCGGCTATTTATGGCACTTAGT
51567390 GTACGAGAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.04
40 52 0.96
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (40 bp):
TCGGCTATTTATGGCACTTAGTATGAAATTTGAAATAACT
Found at i:51567390 original size:40 final size:41
Alignment explanation
Indices: 51567317--51567474 Score: 176
Period size: 41 Copynumber: 3.9 Consensus size: 41
51567307 AGTATGAAAT
* * * *
51567317 TTGAGATAACTTCGGCTATTTATGGCACTTAGTGTGCGA-T
1 TTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGA
*
51567357 TTGAAATAGCTTCGGCTATATATGGCACTTAGTGTACGAGA
1 TTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGA
* * * * *
51567398 ATGAGATAGTTTCGGCTATGTAAGGCACTTAGTGTGCGAGA
1 TTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGA
* *
51567439 TT-ATAATAGCTTCGGCTATACAATGGCAATTAGTGT
1 TTGA-AATAGCTTCGGCTATA-TATGGCACTTAGTGT
51567475 ACGAAACATT
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 36 0.37
41 49 0.51
42 12 0.12
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (41 bp):
TTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGA
Found at i:51567425 original size:81 final size:83
Alignment explanation
Indices: 51567318--51567478 Score: 229
Period size: 81 Copynumber: 2.0 Consensus size: 83
51567308 GTATGAAATT
* * * *
51567318 TGAGATAACTTCGGCTATTTATGGCACTTAGTGTGCGA-TTTGA-AATAGCTTCGGCTATA-TAT
1 TGAGATAACTTCGGCTATGTAAGGCACTTAGTGTGCGAGATT-ATAATAGCTTCGGCTATACAAT
*
51567380 GGCACTTAGTGTACGAGAA
65 GGCAATTAGTGTACGAGAA
**
51567399 TGAGATAGTTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATAATAGCTTCGGCTATACAATG
1 TGAGATAACTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATAATAGCTTCGGCTATACAATG
51567464 GCAATTAGTGTACGA
66 GCAATTAGTGTACGA
51567479 AACATTGAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 35 0.50
82 18 0.26
83 17 0.24
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (83 bp):
TGAGATAACTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATAATAGCTTCGGCTATACAATG
GCAATTAGTGTACGAGAA
Found at i:51568749 original size:18 final size:18
Alignment explanation
Indices: 51568728--51568763 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
51568718 TTAGTCATAT
*
51568728 TTATTGTTGAAAATAAGA
1 TTATTGTTAAAAATAAGA
51568746 TTATTGTTAAAAATAAGA
1 TTATTGTTAAAAATAAGA
51568764 AATTGAATTG
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:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (18 bp):
TTATTGTTAAAAATAAGA
Found at i:51568768 original size:17 final size:18
Alignment explanation
Indices: 51568730--51568768 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
51568720 AGTCATATTT
* *
51568730 ATTGTTGAAAATAAGATT
1 ATTGTTAAAAATAAGATA
51568748 ATTGTTAAAAATAAGA-A
1 ATTGTTAAAAATAAGATA
51568765 ATTG
1 ATTG
51568769 AATTGAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (18 bp):
ATTGTTAAAAATAAGATA
Found at i:51572872 original size:9 final size:9
Alignment explanation
Indices: 51572858--51572900 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
51572848 GTTTTCAAAT
51572858 TCGAATAAC
1 TCGAATAAC
51572867 TCGAATAAC
1 TCGAATAAC
*
51572876 TCGAATAAT
1 TCGAATAAC
*
51572885 TCGAATAAT
1 TCGAATAAC
51572894 TCGAATA
1 TCGAATA
51572901 TCAAATTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:51573440 original size:9 final size:9
Alignment explanation
Indices: 51573426--51573454 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
51573416 AATTTCACAT
51573426 TTTATATTA
1 TTTATATTA
51573435 TTTATATTA
1 TTTATATTA
51573444 TTTATATTA
1 TTTATATTA
51573453 TT
1 TT
51573455 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:51575114 original size:26 final size:26
Alignment explanation
Indices: 51575078--51575129 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
51575068 ATGGGAGATT
* * *
51575078 TTCCTTTTTTTTTTTTCTTTCTTTCC
1 TTCCTTCTTTTCTTTCCTTTCTTTCC
51575104 TTCCTTCTTTTCTTTCCTTTCTTTCC
1 TTCCTTCTTTTCTTTCCTTTCTTTCC
51575130 CTTTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (26 bp):
TTCCTTCTTTTCTTTCCTTTCTTTCC
Found at i:51575140 original size:26 final size:22
Alignment explanation
Indices: 51575077--51575140 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 22
51575067 CATGGGAGAT
51575077 TTTCCTTTTTTTTTTTTCTTTC
1 TTTCCTTTTTTTTTTTTCTTTC
*
51575099 TTTCCTTCCTTCTTTTCTTTCCTTTC
1 TTTCCTT--TT-TTTT-TTTTCTTTC
* *
51575125 TTTCCCTTTTATTTTT
1 TTTCCTTTTTTTTTTT
51575141 GCTGCCCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 10 0.29
23 3 0.09
24 4 0.11
25 4 0.11
26 14 0.40
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTCCTTTTTTTTTTTTCTTTC
Found at i:51578804 original size:21 final size:21
Alignment explanation
Indices: 51578780--51578823 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
51578770 GATTCATTCT
51578780 AAATCTACCAAATA-TATTAAA
1 AAATCTACCAAATATTA-TAAA
*
51578801 AAATCTATCAAATATTATAAA
1 AAATCTACCAAATATTATAAA
51578822 AA
1 AA
51578824 TGAAACATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATCTACCAAATATTATAAA
Found at i:51586802 original size:91 final size:91
Alignment explanation
Indices: 51586698--51586884 Score: 365
Period size: 91 Copynumber: 2.1 Consensus size: 91
51586688 TCCCATTGGA
51586698 GCCATTTCTTCTTAAACTGCTTTGTTTCATGTTTCAGCTTTTCTTTATTCGTGCTGCTGTATTTC
1 GCCATTTCTTCTTAAACTGCTTTGTTTCATGTTTCAGCTTTTCTTTATTCGTGCTGCTGTATTTC
51586763 TCTTGCCATGCTACATCATGGCCTGG
66 TCTTGCCATGCTACATCATGGCCTGG
*
51586789 GCCATTTCTTCTTAAATTGCTTTGTTTCATGTTTCAGCTTTTCTTTATTCGTGCTGCTGTATTTC
1 GCCATTTCTTCTTAAACTGCTTTGTTTCATGTTTCAGCTTTTCTTTATTCGTGCTGCTGTATTTC
51586854 TCTTGCCATGCTACATCATGGCCTGG
66 TCTTGCCATGCTACATCATGGCCTGG
51586880 GCCAT
1 GCCAT
51586885 CAGTATATTA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 95 1.00
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (91 bp):
GCCATTTCTTCTTAAACTGCTTTGTTTCATGTTTCAGCTTTTCTTTATTCGTGCTGCTGTATTTC
TCTTGCCATGCTACATCATGGCCTGG
Found at i:51593469 original size:24 final size:24
Alignment explanation
Indices: 51593424--51593474 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
51593414 TGAGAGTTAT
*
51593424 ATATCGAGTAGCTCAAGTGAGACA
1 ATATCGAGTAGCTCAAGAGAGACA
* *
51593448 ATATCGAG-ATGCTCATGAGAGATA
1 ATATCGAGTA-GCTCAAGAGAGACA
51593472 ATA
1 ATA
51593475 ATGGGACGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.24
Consensus pattern (24 bp):
ATATCGAGTAGCTCAAGAGAGACA
Found at i:51596094 original size:45 final size:43
Alignment explanation
Indices: 51596041--51596190 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 43
51596031 TATGTGTTCT
51596041 CGTGTAAGACCACGTCTGGGAC-GATGGCATCAATATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACAG-TGGCATC--TATATGTGATTA
* * * *
51596086 CGTGTAAGACCATGTCTAGGACATTGACATCGTAT-T-TGATT-
1 CGTGTAAGACCACGTCTGGGACAGTGGCATC-TATATGTGATTA
* *
51596127 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGAGA-TA
1 CGTGTAAGACCAC-GTCTGGGACAGTGGCATCTATATGTGATTA
*
51596169 GCATGTAAGACCACGTCTGGGA
1 -CGTGTAAGACCACGTCTGGGA
51596191 TGTTGGTATT
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
40 2 0.02
41 28 0.33
42 7 0.08
43 19 0.22
44 4 0.05
45 26 0.30
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACAGTGGCATCTATATGTGATTA
Found at i:51598458 original size:103 final size:104
Alignment explanation
Indices: 51598279--51598543 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 104
51598269 AACCGTTATT
* * * * *
51598279 GGTGGATCTCGCACTTAGCACCACCACTTAATCAGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
51598344 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
51598382 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
51598447 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
51598486 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
51598544 TTATGTACAA
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 82 0.55
104 66 0.45
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:51598905 original size:30 final size:29
Alignment explanation
Indices: 51598871--51598935 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
51598861 TAATCCACCA
51598871 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
51598901 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
51598931 CCCAA
1 CCCAA
51598936 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:51598909 original size:31 final size:30
Alignment explanation
Indices: 51598878--51598935 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
51598868 CCACCCAACT
51598878 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
51598908 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
51598936 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:51608465 original size:68 final size:68
Alignment explanation
Indices: 51608381--51608508 Score: 184
Period size: 68 Copynumber: 1.9 Consensus size: 68
51608371 TCCCCAAGTC
* *
51608381 AAGTACTTCGTCTTCTCATGCACTTAGCTTTTCAAAGCTTTTGGCCTGCCCAGGTCACATACTTC
1 AAGTACTTCGTCTTCTCAAGCACTTAGCTTTTCAAAGCTTTTGACCTGCCCAGGTCACATACTTC
51608446 TTA
66 TTA
* * * * **
51608449 AAGTACTTTGTCTTCTCAAGCGCTTGGCTTTTTAAAGCTTTTGACCTGCTTAGGTCACAT
1 AAGTACTTCGTCTTCTCAAGCACTTAGCTTTTCAAAGCTTTTGACCTGCCCAGGTCACAT
51608509 TCACCTTCTC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 52 1.00
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.38
Consensus pattern (68 bp):
AAGTACTTCGTCTTCTCAAGCACTTAGCTTTTCAAAGCTTTTGACCTGCCCAGGTCACATACTTC
TTA
Found at i:51611794 original size:17 final size:16
Alignment explanation
Indices: 51611768--51611806 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
51611758 TTTTGATTGA
*
51611768 TTATTTTTTGAATGTT
1 TTATTTTTTGAATATT
51611784 TTATATTTTTGAATATT
1 TTAT-TTTTTGAATATT
51611801 TTATTT
1 TTATTT
51611807 ATAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (16 bp):
TTATTTTTTGAATATT
Found at i:51623756 original size:21 final size:22
Alignment explanation
Indices: 51623730--51623771 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
51623720 TTCGTGTAAC
*
51623730 TAAATTGTATATT-TATATGTT
1 TAAATTGAATATTATATATGTT
*
51623751 TAAATTGAATGTTATATATGT
1 TAAATTGAATATTATATATGT
51623772 GAATTGTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
TAAATTGAATATTATATATGTT
Found at i:51624282 original size:25 final size:24
Alignment explanation
Indices: 51624156--51624298 Score: 101
Period size: 24 Copynumber: 5.8 Consensus size: 24
51624146 TGGCTATCCA
* * **
51624156 GAGCTTCCCGTTAATGACTTTTCG
1 GAGCTTCCCGTTAATGGCTCTTAT
* *
51624180 GAGCTACCCGTTATTGGCTCTTAT
1 GAGCTTCCCGTTAATGGCTCTTAT
*
51624204 GAGCTTCCTGATT-ATGGCTCTTAT
1 GAGCTTCCCG-TTAATGGCTCTTAT
* * **
51624228 GAGCTTCCCG-TAATACAGCCCGGAT
1 GAGCTTCCCGTTAAT--GGCTCTTAT
* *
51624253 AAGCTTCCCGTTACATGGCTCATAT
1 GAGCTTCCCGTTA-ATGGCTCTTAT
*
51624278 GAGCTTCCTGTTATATGGCTC
1 GAGCTTCCCGTTA-ATGGCTC
51624299 GAGAGAAGGC
Statistics
Matches: 91, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 45 0.49
25 39 0.43
26 2 0.02
27 2 0.02
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTAT
Found at i:51625489 original size:26 final size:27
Alignment explanation
Indices: 51625460--51625510 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
51625450 TTTGAATGGG
* *
51625460 CACACGGCCTGA-GACACGGGTGTGCT
1 CACACAGCCTGACCACACGGGTGTGCT
51625486 CACACAGCCTGACCACACGGGTGTG
1 CACACAGCCTGACCACACGGGTGTG
51625511 TGTCCCCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.22, C:0.33, G:0.31, T:0.14
Consensus pattern (27 bp):
CACACAGCCTGACCACACGGGTGTGCT
Found at i:51635845 original size:50 final size:50
Alignment explanation
Indices: 51635730--51635978 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
51635720 GATAATAACA
* * ** * *
51635730 TGCCAAAGCCATGTCCCAGACATGGTCTTACATAGGATTTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * *
51635781 TGCCCATGCCATGTCCCAAACATGATCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
51635831 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
51635881 TGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
*
51635936 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
51635979 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
50 93 0.55
51 30 0.18
53 4 0.02
55 2 0.01
56 40 0.24
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:51644430 original size:24 final size:24
Alignment explanation
Indices: 51644319--51644431 Score: 86
Period size: 25 Copynumber: 4.6 Consensus size: 24
51644309 GTCTCGTTCT
51644319 ATGGCTCTTCGTGAGCTTCCCGAATA
1 ATGGCTCTTCG-GAGCTTCCCG-ATA
* * *
51644345 AAGGCTCTTTGTGAGCTTCCTGAT-
1 ATGGCTCTTCG-GAGCTTCCCGATA
* *
51644369 ATGGCTCGTT-TGAACTTCCCGATA
1 ATGGCTC-TTCGGAGCTTCCCGATA
* * * *
51644393 TATGGCTATCCGGAGCTTCCAGTTA
1 -ATGGCTCTTCGGAGCTTCCCGATA
51644418 ATGGCTCTTCGGAG
1 ATGGCTCTTCGGAG
51644432 TTACCTGTTA
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
23 10 0.15
24 19 0.28
25 20 0.29
26 19 0.28
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.33
Consensus pattern (24 bp):
ATGGCTCTTCGGAGCTTCCCGATA
Found at i:51644462 original size:24 final size:24
Alignment explanation
Indices: 51644435--51644490 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
51644425 TTCGGAGTTA
*
51644435 CCTGTTATTGGCTCGTATGAGCTT
1 CCTGTTATTAGCTCGTATGAGCTT
*
51644459 CCTGATTA-TAGCTCTTATGAGCTT
1 CCTG-TTATTAGCTCGTATGAGCTT
*
51644483 CCCGTTAT
1 CCTGTTAT
51644491 ACAGCCCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 21 0.78
25 3 0.11
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (24 bp):
CCTGTTATTAGCTCGTATGAGCTT
Found at i:51667192 original size:48 final size:48
Alignment explanation
Indices: 51667045--51667182 Score: 204
Period size: 48 Copynumber: 2.9 Consensus size: 48
51667035 AGAGCCTGAC
* ** *
51667045 TACCCGTTTGGGTTAAACCTACATGAACAATAAATAATAGTGCCTAGT
1 TACCCGTTAGGGTTAAACCTACACAAATAATAAATAATAGTGCCTAGT
* *
51667093 TACCCGTTAGGGTTAAACCTACACAAATAATAAATAATAGCGCCTGGT
1 TACCCGTTAGGGTTAAACCTACACAAATAATAAATAATAGTGCCTAGT
* *
51667141 TACCCGTTAGGGTTAAACTTACACAAATAATGAATAATAGTG
1 TACCCGTTAGGGTTAAACCTACACAAATAATAAATAATAGTG
51667183 TTCAGTTACC
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (48 bp):
TACCCGTTAGGGTTAAACCTACACAAATAATAAATAATAGTGCCTAGT
Found at i:51668619 original size:24 final size:22
Alignment explanation
Indices: 51668602--51668892 Score: 234
Period size: 24 Copynumber: 12.6 Consensus size: 22
51668592 TTTTATATGT
51668602 TATAATGCTGTCCATTTTGA-G
1 TATAATGCTGTCCATTTTGATG
* *
51668623 CATATTGATGCTGTCCAATTTGATG
1 --TA-TAATGCTGTCCATTTTGATG
*
51668648 TATAATGTTGTCCATTTTGA-G
1 TATAATGCTGTCCATTTTGATG
*
51668669 TATATTGATGCTGTCCAATTTGATG
1 TATA---ATGCTGTCCATTTTGATG
51668694 TATAATGCTGTCCATTTTGA-G
1 TATAATGCTGTCCATTTTGATG
* *
51668715 CATATTGATGCTGTCCAATTTGATG
1 --TA-TAATGCTGTCCATTTTGATG
*
51668740 TATAATGCTGTCCAATTTGA-G
1 TATAATGCTGTCCATTTTGATG
* *
51668761 CATATTAAAGCTGTCCAATTTGATG
1 --TA-TAATGCTGTCCATTTTGATG
*
51668786 TATAATGCTATCCATTTTGA-G
1 TATAATGCTGTCCATTTTGATG
* * *
51668807 CAAATTGATGCTGTCCAATTTGATG
1 --TA-TAATGCTGTCCATTTTGATG
51668832 TATAATGCTGTCCATTTTGA-G
1 TATAATGCTGTCCATTTTGATG
*
51668853 CATATTAATGCTGTCCAATTTGATG
1 --TA-TAATGCTGTCCATTTTGATG
*
51668878 TATAAATGCGGTCCA
1 TAT-AATGCTGTCCA
51668893 AAACAGGGTA
Statistics
Matches: 221, Mismatches: 24, Indels: 46
0.76 0.08 0.16
Matches are distributed among these distances:
21 9 0.04
22 79 0.36
23 28 0.13
24 95 0.43
25 10 0.05
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (22 bp):
TATAATGCTGTCCATTTTGATG
Found at i:51668660 original size:46 final size:46
Alignment explanation
Indices: 51668602--51668892 Score: 492
Period size: 46 Copynumber: 6.3 Consensus size: 46
51668592 TTTTATATGT
51668602 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* *
51668648 TATAATGTTGTCCATTTTGAGTATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
51668694 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * *
51668740 TATAATGCTGTCCAATTTGAGCATATTAAAGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* *
51668786 TATAATGCTATCCATTTTGAGCAAATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
*
51668832 TATAATGCTGTCCATTTTGAGCATATTAATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
*
51668878 TATAAATGCGGTCCA
1 TAT-AATGCTGTCCA
51668893 AAACAGGGTA
Statistics
Matches: 228, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
46 218 0.96
47 10 0.04
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (46 bp):
TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
Found at i:51673628 original size:41 final size:41
Alignment explanation
Indices: 51673571--51673809 Score: 297
Period size: 41 Copynumber: 5.8 Consensus size: 41
51673561 GAATATAATA
* * *
51673571 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTG-A-TACATTT
51673612 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
51673653 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
* * *
51673694 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
* * * *
51673735 CAGACTATATGTCTAGCAGGCTAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACAT--TT
* * *
51673776 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
51673810 ATCTGTTTAA
Statistics
Matches: 178, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 5 0.03
41 170 0.96
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
Found at i:51673792 original size:123 final size:123
Alignment explanation
Indices: 51673581--51673809 Score: 331
Period size: 123 Copynumber: 1.9 Consensus size: 123
51673571 CAGACGTTAC
*
51673581 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
* * *
51673646 TACATTTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTTCAGACTATAT
66 TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
* *
51673704 GTCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTATAAGTCTAGCAGGCTAAATGCCGGT
*
51673767 G-TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 GATACAT--ATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGA
51673810 ATCTGTTTAA
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
121 3 0.03
122 5 0.05
123 87 0.92
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
Found at i:51681266 original size:41 final size:41
Alignment explanation
Indices: 51681209--51681447 Score: 297
Period size: 41 Copynumber: 5.8 Consensus size: 41
51681199 GAATATAATA
* * *
51681209 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTG-A-TACATTT
51681250 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
51681291 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
* * *
51681332 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
* * * *
51681373 CAGACTATATGTCTAGCAGGCTAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACAT--TT
* * *
51681414 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
51681448 ATCTGTTTAA
Statistics
Matches: 178, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 5 0.03
41 170 0.96
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
Found at i:51681430 original size:123 final size:123
Alignment explanation
Indices: 51681219--51681447 Score: 331
Period size: 123 Copynumber: 1.9 Consensus size: 123
51681209 CAGACGTTAC
*
51681219 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
* * *
51681284 TACATTTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTTCAGACTATAT
66 TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
* *
51681342 GTCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTATAAGTCTAGCAGGCTAAATGCCGGT
*
51681405 G-TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 GATACAT--ATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGA
51681448 ATCTGTTTAA
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
121 3 0.03
122 5 0.05
123 87 0.92
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
Found at i:51685791 original size:40 final size:40
Alignment explanation
Indices: 51685747--51685835 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
51685737 GCGATGTTTA
* *
51685747 GCACTTAGTATAAAATTCGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTATAAAATTCGAAATAGCTTCGGCTATATATG
* *** *
51685787 GCACTTAGTGTGCGATTTGAAATAGCTTCGGCTATATATG
1 GCACTTAGTATAAAATTCGAAATAGCTTCGGCTATATATG
51685827 GCACTTAGT
1 GCACTTAGT
51685836 GTGCGAGACT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (40 bp):
GCACTTAGTATAAAATTCGAAATAGCTTCGGCTATATATG
Found at i:51685836 original size:40 final size:41
Alignment explanation
Indices: 51685768--51685904 Score: 179
Period size: 41 Copynumber: 3.4 Consensus size: 41
51685758 AAAATTCGAG
* *
51685768 ATAGCTTCGGCTATTTATGGCACTTAGTGTGCGA-TTTGAA
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAA
* *
51685808 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGACTGAG
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAA
** * *
51685849 ATAGCTTCGGCTATGCAAGGCACTTGGTGTGCGAGATT-ATA
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGA-A
51685890 ATAGCTTCGGCTATA
1 ATAGCTTCGGCTATA
51685905 CGATGACAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 34 0.40
41 50 0.60
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (41 bp):
ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAA
Found at i:51687851 original size:50 final size:50
Alignment explanation
Indices: 51687709--51688005 Score: 285
Period size: 50 Copynumber: 5.8 Consensus size: 50
51687699 GATAATAACA
* * * *
51687709 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCT-CGG
* * * * * *
51687758 TGCCAATGTCATATCCTAGATATGGTCTTACATGGGAGT-TCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-TCTCTCATCTCGG
* * **
51687808 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGATCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
* * *
51687858 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
* * * *
51687908 TGCCAACGTCATGTCCAAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA--TCTC-TCATCTC--G-G
* * *
51687964 TGCCAATGTCATGTCCCAGACAAGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
51688006 TTACCCAAAT
Statistics
Matches: 206, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.00
49 39 0.19
50 119 0.58
52 3 0.01
53 6 0.03
54 4 0.02
56 34 0.17
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
Found at i:51689409 original size:46 final size:46
Alignment explanation
Indices: 51689351--51689457 Score: 160
Period size: 46 Copynumber: 2.3 Consensus size: 46
51689341 TTTTATATGT
* *
51689351 TATAATGATGTCCATTTTGTGCATATTGATGCTATCCAATTTGATG
1 TATAATGATGTCCATTTTGAGCATATTAATGCTATCCAATTTGATG
* *
51689397 TATAATGCTGTCCATTTTGAGCATATTAATGCTGTCCAATTTGATG
1 TATAATGATGTCCATTTTGAGCATATTAATGCTATCCAATTTGATG
*
51689443 TATAAATGTTGTCCA
1 TAT-AATGATGTCCA
51689458 AAACAAGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 45 0.82
47 10 0.18
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (46 bp):
TATAATGATGTCCATTTTGAGCATATTAATGCTATCCAATTTGATG
Found at i:51689440 original size:24 final size:24
Alignment explanation
Indices: 51689353--51689440 Score: 92
Period size: 24 Copynumber: 3.8 Consensus size: 24
51689343 TTATATGTTA
* * *
51689353 TAATGATGTCCATTTTGTGCATAT
1 TAATGCTGTCCAATTTGAGCATAT
* *
51689377 TGATGCTATCCAATTTGATG--TA-
1 TAATGCTGTCCAATTTGA-GCATAT
*
51689399 TAATGCTGTCCATTTTGAGCATAT
1 TAATGCTGTCCAATTTGAGCATAT
51689423 TAATGCTGTCCAATTTGA
1 TAATGCTGTCCAATTTGA
51689441 TGTATAAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 1 0.02
22 15 0.29
23 4 0.08
24 30 0.59
25 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (24 bp):
TAATGCTGTCCAATTTGAGCATAT
Found at i:51689455 original size:23 final size:22
Alignment explanation
Indices: 51689379--51689458 Score: 90
Period size: 24 Copynumber: 3.5 Consensus size: 22
51689369 GTGCATATTG
*
51689379 ATGCTATCCAATTTGATGTATA
1 ATGCTGTCCAATTTGATGTATA
*
51689401 ATGCTGTCCATTTTGA-GCATATTA
1 ATGCTGTCCAATTTGATG--TA-TA
51689425 ATGCTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTAT-A
*
51689448 ATGTTGTCCAA
1 ATGCTGTCCAA
51689459 AACAAGGTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.02
22 15 0.31
23 15 0.31
24 17 0.35
25 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (22 bp):
ATGCTGTCCAATTTGATGTATA
Found at i:51697140 original size:24 final size:24
Alignment explanation
Indices: 51697113--51697191 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
51697103 AAATGAAGTA
51697113 TGTTGAAAAGAGTTATACGCCAAT
1 TGTTGAAAAGAGTTATACGCCAAT
* *
51697137 TGTTTAAAATGA---A-ATG--AAGT
1 TGTTGAAAA-GAGTTATACGCCAA-T
51697157 ATGTTGAAAAGAGTTATACGCCAAT
1 -TGTTGAAAAGAGTTATACGCCAAT
*
51697182 TGTTTAAAAG
1 TGTTGAAAAG
51697192 TTTATGCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
19 2 0.05
20 3 0.07
21 10 0.24
22 1 0.02
23 1 0.02
24 19 0.46
25 3 0.07
26 2 0.05
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.32
Consensus pattern (24 bp):
TGTTGAAAAGAGTTATACGCCAAT
Found at i:51697159 original size:45 final size:45
Alignment explanation
Indices: 51697095--51697190 Score: 183
Period size: 45 Copynumber: 2.1 Consensus size: 45
51697085 AAAACCTTTA
51697095 TTAAAATAAAATGAAGTATGTTGAAAAGAGTTATACGCCAATTGT
1 TTAAAATAAAATGAAGTATGTTGAAAAGAGTTATACGCCAATTGT
*
51697140 TTAAAATGAAATGAAGTATGTTGAAAAGAGTTATACGCCAATTGT
1 TTAAAATAAAATGAAGTATGTTGAAAAGAGTTATACGCCAATTGT
51697185 TTAAAA
1 TTAAAA
51697191 GTTTATGCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (45 bp):
TTAAAATAAAATGAAGTATGTTGAAAAGAGTTATACGCCAATTGT
Found at i:51699388 original size:2 final size:2
Alignment explanation
Indices: 51699381--51699412 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
51699371 TTTTCACACG
*
51699381 CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
51699413 TTGCGGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Done.