Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 245 of 325
Found at i:76804318 original size:22 final size:22
Alignment explanation
Indices: 76804290--76804335 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
76804280 AGACAAAATG
*
76804290 GGCTTATCTCAGTATTTCACAC
1 GGCTTATCTCAATATTTCACAC
*
76804312 GGCTTATCTCAATATTTCTCAC
1 GGCTTATCTCAATATTTCACAC
76804334 GG
1 GG
76804336 TCTAGGCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (22 bp):
GGCTTATCTCAATATTTCACAC
Found at i:76807008 original size:20 final size:20
Alignment explanation
Indices: 76806983--76807056 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
76806973 CACGGTCTAT
*
76806983 CCACACGGGTGTGTCCCAAA
1 CCACACGGGCGTGTCCCAAA
76807003 CCACACGGGCGTGTCCCAAA
1 CCACACGGGCGTGTCCCAAA
76807023 CCACACGGGCGTGTCCCAAA
1 CCACACGGGCGTGTCCCAAA
* *
76807043 TCACACGAGCGTGT
1 CCACACGGGCGTGT
76807057 GACCCCTGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.24, C:0.36, G:0.26, T:0.14
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAA
Found at i:76823153 original size:40 final size:40
Alignment explanation
Indices: 76823108--76823273 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
76823098 CGGAATATAA
76823108 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
76823148 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
76823188 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
76823228 CCGGATATAATTTCCAGCATAATTGTCTTC-GG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
76823266 CCGGATAT
1 CCGGATAT
76823274 CATTCAATTT
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
38 13 0.12
39 3 0.03
40 90 0.85
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:76828204 original size:71 final size:71
Alignment explanation
Indices: 76828118--76828281 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
76828108 CGATTTGTCT
76828118 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
76828183 CTTTCA
66 CTTTCA
76828189 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
76828254 CTTTCA
66 CTTTCA
76828260 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
76828282 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:76828319 original size:71 final size:70
Alignment explanation
Indices: 76828118--76828315 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
76828108 CGATTTGTCT
* * * *
76828118 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
76828183 CTTTCA
65 CTTTCA
* * * *
76828189 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
76828254 CTTTCA
65 CTTTCA
* *
76828260 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
76828316 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:76851656 original size:25 final size:25
Alignment explanation
Indices: 76851623--76851682 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
76851613 TAGCTCTCAT
*
76851623 GAGCATCCCGATATATGGCCCTCT-C
1 GAGCTTCCCGATATATGGCCCT-TGC
* **
76851648 GAGCTTCCCGTTATATGGTTCTTGC
1 GAGCTTCCCGATATATGGCCCTTGC
76851673 GAGCTTCCCG
1 GAGCTTCCCG
76851683 TTAATAGTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.15, C:0.32, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCCCTTGC
Found at i:76851700 original size:24 final size:25
Alignment explanation
Indices: 76851647--76851694 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
76851637 ATGGCCCTCT
*
76851647 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGTTCTTG
76851672 CGAGCTTCCCGTTA-ATAGTTCTT
1 CGAGCTTCCCGTTATATAGTTCTT
76851695 CGGAGCATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGTTCTTG
Found at i:76851801 original size:26 final size:26
Alignment explanation
Indices: 76851769--76851837 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
76851759 CCCAATATAT
76851769 GGCTCTTCGTGAGCTTCCTAATTAAA
1 GGCTCTTCGTGAGCTTCCTAATTAAA
* * * * *
76851795 GGTTCTTTGTGAGCTTTCTGATTAAT
1 GGCTCTTCGTGAGCTTCCTAATTAAA
*
76851821 GGCTCTCCG-GAGCTTCC
1 GGCTCTTCGTGAGCTTCC
76851838 CAATAGTGGC
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
25 7 0.21
26 27 0.79
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCTAATTAAA
Found at i:76851998 original size:74 final size:73
Alignment explanation
Indices: 76851805--76852009 Score: 234
Period size: 74 Copynumber: 2.8 Consensus size: 73
76851795 GGTTCTTTGT
* * * *
76851805 GAGCTTTCTGATTAATGGCTCTCCGGAGCTTCCCAATAGTGGCTCGCTTAAACTTCCCAATATAA
1 GAGCTTTCTGATTAATGGCTCTTCGGAGCTTCCCGATATTGGCTCGCTTGAACTT-CCAATATAA
* * *
76851870 GGTTATTCG
65 GGCTATCCA
*
76851879 GAGCTTTCTGATTAATGGCTC-TCTGGAGCTTCCCGATATTAGCTCGCTTGAACTTCCAGATATA
1 GAGCTTTCTGATTAATGGCTCTTC-GGAGCTTCCCGATATTGGCTCGCTTGAACTTCCA-ATATA
*
76851943 TGGCTATCCA
64 AGGCTATCCA
* * * * *
76851953 GAGCTTTCTAATTAATGGCTCTTCAGAG-TTACCCGTTATTGGCTCGCATGAGCTTCC
1 GAGCTTTCTGATTAATGGCTCTTCGGAGCTT-CCCGATATTGGCTCGCTTGAACTTCC
76852010 TAATTATGGC
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
73 6 0.05
74 104 0.93
75 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (73 bp):
GAGCTTTCTGATTAATGGCTCTTCGGAGCTTCCCGATATTGGCTCGCTTGAACTTCCAATATAAG
GCTATCCA
Found at i:76854937 original size:42 final size:41
Alignment explanation
Indices: 76854782--76854937 Score: 170
Period size: 42 Copynumber: 3.7 Consensus size: 41
76854772 TACCATACCA
*
76854782 ATGCCATATCACAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATC-CAGATATGGTCTTACACG-AAGTCTCGTATCG
* * * * *
76854824 ATGCCAATAGCCCAGCTATAGTCTTACACAAAGTCTCATATCG
1 ATGCC-ATA-TCCAGATATGGTCTTACACGAAGTCTCGTATCG
* *
76854867 ATGTCATATCCTAGATATGGTCTTACACGAAGTCTCGTATTG
1 ATGCCATATCC-AGATATGGTCTTACACGAAGTCTCGTATCG
*
76854909 ATGCCATATTCCAAATATGGTCTTACACG
1 ATGCCATA-TCCAGATATGGTCTTACACG
76854938 TAATCTCAGT
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 58 0.62
43 33 0.35
44 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCAGATATGGTCTTACACGAAGTCTCGTATCG
Found at i:76858046 original size:40 final size:40
Alignment explanation
Indices: 76857947--76858124 Score: 196
Period size: 40 Copynumber: 4.5 Consensus size: 40
76857937 AACCGAGTTT
* * * * *
76857947 CTTCGGAATTTAG-CCGGATATAATCCACAAGCACAATTTC
1 CTTCGGGACTTAGCCCGGATATAAT-CACTAGCACAAATGC
* * * * ** * *
76857987 CTTCGGGTCTTAACTCGGATTTGGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
* *
76858027 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
*
76858067 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
76858107 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
76858125 GTATCATTCA
Statistics
Matches: 115, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
40 108 0.94
41 7 0.06
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:76862563 original size:43 final size:43
Alignment explanation
Indices: 76862515--76862627 Score: 190
Period size: 43 Copynumber: 2.6 Consensus size: 43
76862505 TACCGAGATG
* * *
76862515 TGATTACATGTAAGACCATGTCTGGGACATTTGCATTGTATTT
1 TGATTACATGTAAGACCATATCTGGGACATATGCATGGTATTT
*
76862558 TGATTACATGTAAGACCATATGTGGGACATATGCATGGTATTT
1 TGATTACATGTAAGACCATATCTGGGACATATGCATGGTATTT
76862601 TGATTACATGTAAGACCATATCTGGGA
1 TGATTACATGTAAGACCATATCTGGGA
76862628 TATGGCATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (43 bp):
TGATTACATGTAAGACCATATCTGGGACATATGCATGGTATTT
Found at i:76863313 original size:29 final size:29
Alignment explanation
Indices: 76863280--76863336 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
76863270 AATGATGTAT
76863280 AATGGATGAGAAATGGCATGTTGTGGCTA
1 AATGGATGAGAAATGGCATGTTGTGGCTA
76863309 AATGGATGAGAAATGGCATGTTGTGGCT
1 AATGGATGAGAAATGGCATGTTGTGGCT
76863337 TAGTTTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.35, T:0.28
Consensus pattern (29 bp):
AATGGATGAGAAATGGCATGTTGTGGCTA
Found at i:76863723 original size:30 final size:30
Alignment explanation
Indices: 76863683--76863743 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
76863673 GTGGCTCAAT
* **
76863683 CGTGTGTGACACATTGCATTGGTACATGGC
1 CGTGTATGACACACGGCATTGGTACATGGC
*
76863713 CGTGTATGACACACGGCCTTGGTACATGGC
1 CGTGTATGACACACGGCATTGGTACATGGC
76863743 C
1 C
76863744 ATGTGTCTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.26
Consensus pattern (30 bp):
CGTGTATGACACACGGCATTGGTACATGGC
Found at i:76870033 original size:23 final size:23
Alignment explanation
Indices: 76870019--76870064 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
76870009 ATTTTGATTG
76870019 AAATATAATATTTATTTCTTTAA
1 AAATATAATATTTATTTCTTTAA
*
76870042 AAATATAATATTTATAT-TTTAA
1 AAATATAATATTTATTTCTTTAA
76870064 A
1 A
76870065 TAATTCAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATATAATATTTATTTCTTTAA
Found at i:76874739 original size:17 final size:18
Alignment explanation
Indices: 76874705--76874742 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
76874695 AAATAAAAAT
**
76874705 AAATAAATTAAATTTAAA
1 AAATAAATTAAACCTAAA
76874723 AAAT-AATTAAACCTAAA
1 AAATAAATTAAACCTAAA
76874740 AAA
1 AAA
76874743 AATAAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAATTAAACCTAAA
Found at i:76879861 original size:20 final size:20
Alignment explanation
Indices: 76879836--76879875 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
76879826 AAACAACACT
76879836 TAGCAAAACTTTAAGAGAAA
1 TAGCAAAACTTTAAGAGAAA
76879856 TAGCAAAACTTTAAGAGAAA
1 TAGCAAAACTTTAAGAGAAA
76879876 ACCTCTTTTT
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:0.55, C:0.10, G:0.15, T:0.20
Consensus pattern (20 bp):
TAGCAAAACTTTAAGAGAAA
Found at i:76896024 original size:40 final size:40
Alignment explanation
Indices: 76895979--76896146 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
76895969 CGGAATATAA
76895979 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
76896019 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
76896059 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
76896099 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
76896139 CCGGATAT
1 CCGGATAT
76896147 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:76903991 original size:40 final size:40
Alignment explanation
Indices: 76903946--76904113 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
76903936 CGGAATATAA
76903946 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
76903986 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
76904026 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
76904066 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
76904106 CCGGATAT
1 CCGGATAT
76904114 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:76904096 original size:80 final size:80
Alignment explanation
Indices: 76903962--76904111 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
76903952 ATAATCACGT
*
76903962 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
76904026 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
76904042 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
76904105 CCCGGAT
64 CCCGGAT
76904112 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:76911977 original size:40 final size:38
Alignment explanation
Indices: 76911932--76912058 Score: 132
Period size: 40 Copynumber: 3.3 Consensus size: 38
76911922 CGGAATATAA
76911932 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAT-AC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
76911972 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAT-ACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
76912012 CCGGATGTACTA--GCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATACTGCACAAATGCCTTCGGGTCTTAGC
76912048 CCGGATATAAT
1 CCGGATATAAT
76912059 TTCCAGCATA
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
36 29 0.40
39 1 0.01
40 42 0.58
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (38 bp):
CCGGATATAATACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:76919963 original size:40 final size:40
Alignment explanation
Indices: 76919918--76920085 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
76919908 CGGAATATAA
76919918 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
76919958 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
76919998 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
76920038 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
76920078 CCGGATAT
1 CCGGATAT
76920086 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:76920068 original size:80 final size:80
Alignment explanation
Indices: 76919934--76920083 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
76919924 ATAATCACGT
*
76919934 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
76919998 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
76920014 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
76920077 CCCGGAT
64 CCCGGAT
76920084 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:76929134 original size:28 final size:28
Alignment explanation
Indices: 76929103--76929157 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
76929093 ATATTAATGG
76929103 GGTATAGGAAAAGTCTCATAACTTATGA
1 GGTATAGGAAAAGTCTCATAACTTATGA
* * *
76929131 GGTATAGGAAGAGTTTTATAACTTATG
1 GGTATAGGAAAAGTCTCATAACTTATG
76929158 GGGTTAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (28 bp):
GGTATAGGAAAAGTCTCATAACTTATGA
Found at i:76930042 original size:27 final size:27
Alignment explanation
Indices: 76929999--76930051 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
76929989 TAGTTATTAG
* * *
76929999 TATAAATTATTTATATATTTTTTAGTA
1 TATAAATCATTTATATAATTTATAGTA
76930026 TATAAATCATATT-TATAATTTATAGT
1 TATAAATCAT-TTATATAATTTATAGT
76930052 TGAAGGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
TATAAATCATTTATATAATTTATAGTA
Found at i:76930516 original size:28 final size:28
Alignment explanation
Indices: 76930477--76930543 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
76930467 ATACATGATC
76930477 ATTTA-AATAAATAAATAACAATTTATT
1 ATTTATAATAAATAAATAACAATTTATT
76930504 ATTTATAATAAATAAATAACAATTTATT
1 ATTTATAATAAATAAATAACAATTTATT
76930532 ATTTATAATAAA
1 ATTTATAATAAA
76930544 AAAACATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
27 5 0.13
28 34 0.87
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
ATTTATAATAAATAAATAACAATTTATT
Found at i:76931581 original size:22 final size:22
Alignment explanation
Indices: 76931555--76931605 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
76931545 ATATTAGTTG
76931555 ACTAAATTAAAC-TAAAAATATT
1 ACTAAATTAAACATAAAAATA-T
* *
76931577 ACTAAATTTATCATAAAAATAT
1 ACTAAATTAAACATAAAAATAT
76931599 A-TAAATT
1 ACTAAATT
76931606 CTATAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 12 0.46
23 8 0.31
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (22 bp):
ACTAAATTAAACATAAAAATAT
Found at i:76934447 original size:18 final size:18
Alignment explanation
Indices: 76934424--76934461 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
76934414 TGCCAGGTGC
* *
76934424 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTCATAT
76934442 GTATCCTAACCCTCATAT
1 GTATCCTAACCCTCATAT
76934460 GT
1 GT
76934462 TTCATTTTCC
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:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (18 bp):
GTATCCTAACCCTCATAT
Found at i:76934959 original size:21 final size:22
Alignment explanation
Indices: 76934930--76934994 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 22
76934920 TAGTTTTATA
*
76934930 TTTTTAATAA-AATAGAAGTTC
1 TTTTGAATAAGAATAGAAGTTC
76934951 TTTTGAATAAGGCAATAGAAGTTC
1 TTTTGAATAA-G-AATAGAAGTTC
*
76934975 TTTTGAGTAAGGCAATAGAA
1 TTTTGAATAA-G-AATAGAA
76934995 ATAATGCAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 9 0.23
24 30 0.77
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.35
Consensus pattern (22 bp):
TTTTGAATAAGAATAGAAGTTC
Found at i:76934972 original size:24 final size:24
Alignment explanation
Indices: 76934940--76934994 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
76934930 TTTTTAATAA
76934940 AATAGAAGTTCTTTTGAATAAGGC
1 AATAGAAGTTCTTTTGAATAAGGC
*
76934964 AATAGAAGTTCTTTTGAGTAAGGC
1 AATAGAAGTTCTTTTGAATAAGGC
76934988 AATAGAA
1 AATAGAA
76934995 ATAATGCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (24 bp):
AATAGAAGTTCTTTTGAATAAGGC
Found at i:76938272 original size:126 final size:126
Alignment explanation
Indices: 76938039--76938632 Score: 694
Period size: 126 Copynumber: 4.6 Consensus size: 126
76938029 GGCCAAACAT
* * * * *
76938039 GAACTACTATTGAAAAAGAGTGTCCACGTGA-GAGCTTTTTGCAGT-AATTTTGCTGATAGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCATGT-ATGAGCTTTTTTCA-TCAATTTTGCTGATAGTGCA
* * * *
76938102 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACATCTTCTTAAAATTATTTTTTTAG
64 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* *
76938165 GAACTACTGTAGAAAAAGAGCGTCCATGTATGAGTTTTTTTCATCAACTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCATGTATGAGCTTTTTTCATCAATTTTGCTGATAGTGCATC
* * * *
76938230 CTGCTTGAAGCGTTTTTGACATTATTTGTTTAGAAACGTCTTCTTAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
76938291 GAACTACTGTAGAAAAAGAGCGTCCATGTATGAGCTTTTTTCATCAATTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCATGTATGAGCTTTTTTCATCAATTTTGCTGATAGTGCATC
* *
76938356 CTGCTTGAAGCGTTTTTGACATTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * *
76938417 GAACTACTGTAGAAAAAGAGCGTCTACGTGTGAGCTTTTTT-ATCAATTTTGCAGATAGTGCATT
1 GAACTACTGTAGAAAAAGAGCGTCCATGTATGAGCTTTTTTCATCAATTTTGCTGATAGTGCA--
* ** * **
76938481 TTGCGTGCATTCTGCTTTAAGTATTTTTGACACCATTTGTTCAGAATTGTCTTCTCAAAATTATT
64 -----T-C---CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATT
*
76938546 TTTTTAG
120 TTTTCAG
* * * * *
76938553 GAACTACTCTAGAAAAAGAGTGTCCATCTGA-GAGCTTTTTTTCAGT-AATTTTGTTGACAGTGC
1 GAACTACTGTAGAAAAAGAGCGTCCATGT-ATGAGC-TTTTTTCA-TCAATTTTGCTGATAGTGC
* *
76938616 AACCTACTTGAAGCGTT
63 ATCCTGCTTGAAGCGTT
76938633 ATCTTCTCAA
Statistics
Matches: 407, Mismatches: 44, Indels: 33
0.84 0.09 0.07
Matches are distributed among these distances:
125 22 0.05
126 269 0.66
127 10 0.02
130 1 0.00
132 1 0.00
133 1 0.00
136 80 0.20
137 6 0.01
138 16 0.04
139 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCATGTATGAGCTTTTTTCATCAATTTTGCTGATAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:76938593 original size:136 final size:136
Alignment explanation
Indices: 76938349--76938593 Score: 348
Period size: 136 Copynumber: 1.8 Consensus size: 136
76938339 TTTGCTGATA
* ** *
76938349 GTGCATCCTGCTTGAAGCGTTTTTGACATTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTT
1 GTGCATCCTGCTTGAAGCATTTTTGACACCATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTT
* * *
76938414 CAGGAACTACTGTAGAAAAAGAGCGTCTACGTGTGAGCTTTTTTATCAATTTTGCAGATAGTGCA
66 CAGGAACTACTCTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTATCAATTTTGCAGATAGTGCA
76938479 TTTTGC
131 TTTTGC
* * * **
76938485 GTGCATTCTGCTTTAAGTATTTTTGACACCATTTGTTCAGAATTGTCTTCTCAAAATTATTTTTT
1 GTGCATCCTGCTTGAAGCATTTTTGACACCATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTT
* *
76938550 TAGGAACTACTCTAGAAAAAGAGTGTCCATC-TGAGAGCTTTTTT
66 CAGGAACTACTCTAGAAAAAGAGCGTCCA-CGTGAGAGCTTTTTT
76938594 TCAGTAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
136 93 0.99
137 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (136 bp):
GTGCATCCTGCTTGAAGCATTTTTGACACCATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTT
CAGGAACTACTCTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTATCAATTTTGCAGATAGTGCA
TTTTGC
Found at i:76938776 original size:33 final size:34
Alignment explanation
Indices: 76938729--76938838 Score: 111
Period size: 34 Copynumber: 3.3 Consensus size: 34
76938719 AAAACACAAT
* * * *
76938729 ATTATTTTTTTTAAAAA-ATTAAATCCAAATTTA
1 ATTAATTTTCTTAAAAACACTAAACCCAAATTTA
76938762 ATTAATTTTCTTAAAAACACTAAACCCAAATTTA
1 ATTAATTTTCTTAAAAACACTAAACCCAAATTTA
* *
76938796 ATTAATTAATT-TT-AAACCCCTAAA-CCATAATTTA
1 ATTAATT--TTCTTAAAAACACTAAACCCA-AATTTA
76938830 ATTAATTTT
1 ATTAATTTT
76938839 TAAAAAAGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
32 2 0.03
33 18 0.27
34 43 0.64
35 2 0.03
36 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.43
Consensus pattern (34 bp):
ATTAATTTTCTTAAAAACACTAAACCCAAATTTA
Found at i:76939503 original size:19 final size:19
Alignment explanation
Indices: 76939457--76939495 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
76939447 CTTTATATAT
76939457 ATTATTTTAATTTTTTAAA
1 ATTATTTTAATTTTTTAAA
*
76939476 AATATTTTTATATTTTTTAA
1 ATTA-TTTTA-ATTTTTTAA
76939496 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 5 0.29
21 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTATTTTAATTTTTTAAA
Found at i:76939778 original size:2 final size:2
Alignment explanation
Indices: 76939771--76939851 Score: 103
Period size: 2 Copynumber: 41.0 Consensus size: 2
76939761 CCACTGTTTT
*
76939771 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
76939812 TT TT TGA T- TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
76939852 ATTGAGGGAG
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
1 2 0.03
2 69 0.96
3 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76943919 original size:34 final size:35
Alignment explanation
Indices: 76943880--76943956 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
76943870 TGAACATTTA
*
76943880 ATAAGCATAACT-TTTGCTATTGA-ATCG-ATCTGTT
1 ATAAGCATAACTATTTGCTATT-ATATCGAAT-TATT
*
76943914 ATAAGCAT-ATTATTTGCTATTATATCGAATTATT
1 ATAAGCATAACTATTTGCTATTATATCGAATTATT
76943948 ATAAGCATA
1 ATAAGCATA
76943957 TTAATTGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
33 3 0.08
34 32 0.86
35 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (35 bp):
ATAAGCATAACTATTTGCTATTATATCGAATTATT
Found at i:76945674 original size:14 final size:14
Alignment explanation
Indices: 76945655--76945688 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
76945645 TGACAGAATA
76945655 TGAGGTTGAATTCT
1 TGAGGTTGAATTCT
76945669 TGAGGTTGAATTCT
1 TGAGGTTGAATTCT
76945683 TGAGGT
1 TGAGGT
76945689 CAACTGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.21, C:0.06, G:0.32, T:0.41
Consensus pattern (14 bp):
TGAGGTTGAATTCT
Found at i:76954021 original size:14 final size:14
Alignment explanation
Indices: 76954002--76954029 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
76953992 TATTTGGCTC
76954002 TCTTGTATGGTAAG
1 TCTTGTATGGTAAG
76954016 TCTTGTATGGTAAG
1 TCTTGTATGGTAAG
76954030 GTATACAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
TCTTGTATGGTAAG
Found at i:76962124 original size:20 final size:20
Alignment explanation
Indices: 76962101--76962171 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
76962091 GGTCAACTCA
76962101 CCAGTAATGCAGATAAACTG
1 CCAGTAATGCAGATAAACTG
* *
76962121 CCAGTAGA-GCAAACAAGA-TG
1 CCAGTA-ATGCAGATAA-ACTG
76962141 CCAGTAATGCAGATAAACTG
1 CCAGTAATGCAGATAAACTG
*
76962161 CTAGTAATGCA
1 CCAGTAATGCA
76962172 AACAAGTTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.05
20 38 0.90
21 2 0.05
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (20 bp):
CCAGTAATGCAGATAAACTG
Found at i:76962145 original size:40 final size:40
Alignment explanation
Indices: 76962101--76962188 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
76962091 GGTCAACTCA
76962101 CCAGTAATGCAGATAAACTGCCAGTAGA-GCAAACAAGATG
1 CCAGTAATGCAGATAAACTGCCAGTA-ATGCAAACAAGATG
* *
76962141 CCAGTAATGCAGATAAACTGCTAGTAATGCAAACAAGTTG
1 CCAGTAATGCAGATAAACTGCCAGTAATGCAAACAAGATG
*
76962181 CCAATAAT
1 CCAGTAAT
76962189 ATGGACATGC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (40 bp):
CCAGTAATGCAGATAAACTGCCAGTAATGCAAACAAGATG
Found at i:76969616 original size:8 final size:8
Alignment explanation
Indices: 76969603--76969627 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
76969593 TAAAATAAAA
76969603 TAAATTTT
1 TAAATTTT
76969611 TAAATTTT
1 TAAATTTT
76969619 TAAATTTT
1 TAAATTTT
76969627 T
1 T
76969628 GGCTTGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TAAATTTT
Found at i:76973989 original size:12 final size:12
Alignment explanation
Indices: 76973972--76973996 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76973962 TTCAACTCAG
76973972 CTATAAGTGAAC
1 CTATAAGTGAAC
76973984 CTATAAGTGAAC
1 CTATAAGTGAAC
76973996 C
1 C
76973997 ATCATTAGAT
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:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (12 bp):
CTATAAGTGAAC
Found at i:76976735 original size:94 final size:94
Alignment explanation
Indices: 76976574--76976762 Score: 378
Period size: 94 Copynumber: 2.0 Consensus size: 94
76976564 TATGCCTAAA
76976574 GTGCTTAAATTGAAAGTAGGGACTAAACCGAATAAGTCGCAAAACTTGCATTCTAGAAGTTTTTA
1 GTGCTTAAATTGAAAGTAGGGACTAAACCGAATAAGTCGCAAAACTTGCATTCTAGAAGTTTTTA
76976639 GTATGAAATTGTTTTGGAATATTAATGAG
66 GTATGAAATTGTTTTGGAATATTAATGAG
76976668 GTGCTTAAATTGAAAGTAGGGACTAAACCGAATAAGTCGCAAAACTTGCATTCTAGAAGTTTTTA
1 GTGCTTAAATTGAAAGTAGGGACTAAACCGAATAAGTCGCAAAACTTGCATTCTAGAAGTTTTTA
76976733 GTATGAAATTGTTTTGGAATATTAATGAG
66 GTATGAAATTGTTTTGGAATATTAATGAG
76976762 G
1 G
76976763 AGGTCTTACA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.33
Consensus pattern (94 bp):
GTGCTTAAATTGAAAGTAGGGACTAAACCGAATAAGTCGCAAAACTTGCATTCTAGAAGTTTTTA
GTATGAAATTGTTTTGGAATATTAATGAG
Found at i:76977378 original size:30 final size:30
Alignment explanation
Indices: 76977332--76977388 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
76977322 ATCCCGAGCC
76977332 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
* * * *
76977362 TAGGGGTAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAATGTAAATATGCAAAA
76977389 AATTGAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAGTT
Found at i:76977859 original size:46 final size:46
Alignment explanation
Indices: 76977809--76978077 Score: 295
Period size: 46 Copynumber: 5.8 Consensus size: 46
76977799 TGGTTGAGCA
76977809 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
76977855 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
76977900 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
76977948 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
76977993 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
76978041 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76978078 GCGGGTTACA
Statistics
Matches: 189, Mismatches: 15, Indels: 38
0.78 0.06 0.16
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 8 0.04
46 90 0.48
47 58 0.31
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:76977965 original size:93 final size:93
Alignment explanation
Indices: 76977806--76978070 Score: 496
Period size: 93 Copynumber: 2.8 Consensus size: 93
76977796 GGATGGTTGA
76977806 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
76977871 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
76977899 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
76977964 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
76977992 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
76978056 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
76978071 CTTATGGGCG
Statistics
Matches: 169, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 2 0.01
93 167 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:76985555 original size:40 final size:39
Alignment explanation
Indices: 76985510--76985675 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 39
76985500 CGGAATATAA
76985510 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* ** *
76985550 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCAC-AATGCCTTCGGGTCTTAGC
* ** * *
76985590 CCGGATGTAGCCACTAGCACATTGCCTTC-GGTCTTAAC
1 CCGGATATAATCACTAGCACAATGCCTTCGGGTCTTAGC
** * * *
76985628 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAA-TGCCTTCGGG-TCTTAGC
76985668 CCGGATAT
1 CCGGATAT
76985676 CATTCAATTT
Statistics
Matches: 99, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
38 22 0.22
39 15 0.15
40 61 0.62
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:76991904 original size:46 final size:46
Alignment explanation
Indices: 76991854--76992122 Score: 286
Period size: 46 Copynumber: 5.8 Consensus size: 46
76991844 TGGTTGAGCA
76991854 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
76991900 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
76991945 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
76991993 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
76992038 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
76992086 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76992123 GCGGGTTACA
Statistics
Matches: 187, Mismatches: 17, Indels: 38
0.77 0.07 0.16
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 8 0.04
46 89 0.48
47 57 0.30
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:76992010 original size:93 final size:93
Alignment explanation
Indices: 76991851--76992115 Score: 487
Period size: 93 Copynumber: 2.8 Consensus size: 93
76991841 GGATGGTTGA
76991851 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
76991916 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
76991944 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
76992009 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
76992037 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
76992101 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
76992116 CTTATGGGCG
Statistics
Matches: 167, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
92 2 0.01
93 165 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:76994607 original size:13 final size:13
Alignment explanation
Indices: 76994589--76994622 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
76994579 TGGGACACGG
76994589 CCGTGTGGGCAGA
1 CCGTGTGGGCAGA
*
76994602 CCGTGTGGGCAGG
1 CCGTGTGGGCAGA
76994615 CCGTGTGG
1 CCGTGTGG
76994623 TCACTCATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.24, G:0.50, T:0.18
Consensus pattern (13 bp):
CCGTGTGGGCAGA
Found at i:76997035 original size:5 final size:5
Alignment explanation
Indices: 76997027--76997053 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
76997017 GATGCCATCC
76997027 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
76997054 TTTAAATTTT
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:77002358 original size:29 final size:29
Alignment explanation
Indices: 77002319--77002393 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
77002309 GGTTGAGAGA
* *
77002319 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
77002348 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
77002377 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
77002394 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:77010258 original size:29 final size:29
Alignment explanation
Indices: 77010219--77010293 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
77010209 GGTTGAGAGA
* *
77010219 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
77010248 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
77010277 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
77010294 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:77013827 original size:57 final size:57
Alignment explanation
Indices: 77013739--77013851 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
77013729 ATTTCTAGAC
77013739 CAAATTTTAACATGACACTAATGACCTCATAAATATTAAATAATTAATATTTATAGT
1 CAAATTTTAACATGACACTAATGACCTCATAAATATTAAATAATTAATATTTATAGT
77013796 CAAATTTTAACATGACACTAATGACCTCATAAATATTAAATAATTAATATTTATAG
1 CAAATTTTAACATGACACTAATGACCTCATAAATATTAAATAATTAATATTTATAG
77013852 ACTCACACAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.36
Consensus pattern (57 bp):
CAAATTTTAACATGACACTAATGACCTCATAAATATTAAATAATTAATATTTATAGT
Found at i:77017707 original size:11 final size:11
Alignment explanation
Indices: 77017660--77017707 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
77017650 GTTTTCTCTA
*
77017660 TATTTTGCTAC
1 TATTTTGCTAT
* *
77017671 CATTTTACTAT
1 TATTTTGCTAT
*
77017682 TATGTTGCTAT
1 TATTTTGCTAT
*
77017693 TATTTTGTTAT
1 TATTTTGCTAT
77017704 TATT
1 TATT
77017708 GTTTGGATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:77017770 original size:30 final size:30
Alignment explanation
Indices: 77017736--77017798 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
77017726 ATTTATTTTA
*
77017736 TTGTTAATTTTCTTGTTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
77017766 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
77017796 TTG
1 TTG
77017799 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:77029157 original size:44 final size:43
Alignment explanation
Indices: 77029107--77029194 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 43
77029097 AGGTCAAATG
77029107 ATATTAAAATAACCTACACTAATCAGAGTTTAAATGGGAAACTA
1 ATATTAAAATAACCTACACTAATCAGA-TTTAAATGGGAAACTA
* *
77029151 ATATTAAAATAACCTACACTAATCAGATTTAAGTGGTAAACTA
1 ATATTAAAATAACCTACACTAATCAGATTTAAATGGGAAACTA
77029194 A
1 A
77029195 AAACAGAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 15 0.36
44 27 0.64
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (43 bp):
ATATTAAAATAACCTACACTAATCAGATTTAAATGGGAAACTA
Found at i:77032706 original size:50 final size:50
Alignment explanation
Indices: 77032631--77032757 Score: 220
Period size: 50 Copynumber: 2.6 Consensus size: 50
77032621 AAATGCCGAC
* *
77032631 GCCATGTCCCAGACATGGTTTTACACTGGGTTTCATCTATCGGTGTCGAT
1 GCCATGTCCCAGACATGGTTTTACACTGGGTCTCATCTATCAGTGTCGAT
*
77032681 GCCATATCCCAGACATGGTTTTACACTGGGTCTCATCTATCAGTGTCGAT
1 GCCATGTCCCAGACATGGTTTTACACTGGGTCTCATCTATCAGTGTCGAT
77032731 GCCATGTCCCAGACA-GGTTTTACACTG
1 GCCATGTCCCAGACATGGTTTTACACTG
77032758 ACACACCACA
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 12 0.16
50 61 0.84
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.31
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTTTTACACTGGGTCTCATCTATCAGTGTCGAT
Found at i:77040522 original size:48 final size:47
Alignment explanation
Indices: 77040456--77040624 Score: 175
Period size: 48 Copynumber: 3.6 Consensus size: 47
77040446 AAGCTGACAC
* * * *
77040456 CATGTCCCAAACAGGTCTTACACTAGCTTGCATATCGCGAGGTC-AGTG
1 CATGTCCCAGACATGTCTTACACTAGCTT-CATATCGCAAGGCCGA-TG
* * * *
77040504 CATGTCCCAGACATGTCTTACACTGGC-TC-TCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCAT-ATCGCAAGGCCGATG
* *
77040550 CATGTCCTAGACATGTCTTACACT-GACTTAAATATCGCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAG-CTT-CATATCGCAAGGCCGATG
77040598 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
77040625 ACACATATCA
Statistics
Matches: 100, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 33 0.33
47 3 0.03
48 60 0.60
49 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCATATCGCAAGGCCGATG
Found at i:77046855 original size:28 final size:28
Alignment explanation
Indices: 77046815--77046913 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
77046805 GCAATAAGCC
*
77046815 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
77046843 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
77046871 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
77046900 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77046914 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:77056343 original size:17 final size:18
Alignment explanation
Indices: 77056305--77056344 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
77056295 GAATTAAACG
* *
77056305 GTTCACATAGAATAGGCA
1 GTTCACATAAAATAGACA
77056323 GTTCACATAAAATA-ACA
1 GTTCACATAAAATAGACA
77056340 GTTCA
1 GTTCA
77056345 TAAACTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (18 bp):
GTTCACATAAAATAGACA
Found at i:77057679 original size:2 final size:2
Alignment explanation
Indices: 77057672--77057697 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
77057662 AAATGAATCG
77057672 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
77057698 GTTATTATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77060772 original size:18 final size:18
Alignment explanation
Indices: 77060749--77060796 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
77060739 GGTTTGGAAA
*
77060749 ATTAATACAGTTCACCAT
1 ATTAATACAGTTCACCAG
* *
77060767 ATTAATACAGATCACTAG
1 ATTAATACAGTTCACCAG
*
77060785 ATTAACACAGTT
1 ATTAATACAGTT
77060797 TTCCATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (18 bp):
ATTAATACAGTTCACCAG
Found at i:77065148 original size:22 final size:22
Alignment explanation
Indices: 77065109--77065155 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
77065099 GGGATATCGT
*
77065109 GATATCCAACTCTGGGTATCAC
1 GATATCCAACTCTAGGTATCAC
* * *
77065131 GATATCCAATTTTAGGTATCGC
1 GATATCCAACTCTAGGTATCAC
77065153 GAT
1 GAT
77065156 CCATGTGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (22 bp):
GATATCCAACTCTAGGTATCAC
Found at i:77067309 original size:11 final size:11
Alignment explanation
Indices: 77067293--77067321 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
77067283 AAAATTCAAA
77067293 AATTATTTTTC
1 AATTATTTTTC
77067304 AATTATTTTTC
1 AATTATTTTTC
77067315 AATTATT
1 AATTATT
77067322 CAAAAATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (11 bp):
AATTATTTTTC
Found at i:77070964 original size:40 final size:39
Alignment explanation
Indices: 77070858--77070986 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
77070848 TGCTGGAAAT
* * * *
77070858 TATATCCGGGTTAAGACCCGAAGGCAAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
77070898 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
77070938 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
77070978 TATATCCGG
1 TATATCCGG
77070987 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 3 0.04
40 72 0.94
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:77076566 original size:23 final size:22
Alignment explanation
Indices: 77076533--77076595 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 22
77076523 AAGTAAAAAG
77076533 TAATAATAGAATAAAAAGAATAA
1 TAATAATAG-ATAAAAAGAATAA
* *
77076556 TAAT-A-AGAGAAAAATAATAA
1 TAATAATAGATAAAAAGAATAA
77076576 TAATCAATAGATAAAAAGAA
1 TAAT-AATAGATAAAAAGAA
77076596 AAGAACCTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 15 0.45
21 2 0.06
22 2 0.06
23 14 0.42
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.21
Consensus pattern (22 bp):
TAATAATAGATAAAAAGAATAA
Found at i:77076769 original size:5 final size:5
Alignment explanation
Indices: 77076752--77076793 Score: 70
Period size: 5 Copynumber: 8.8 Consensus size: 5
77076742 ATAAAGATAA
77076752 TAAAT TAAA- TAAAT TAAAT TAAAT TAAAT TAAAT T-AAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
77076794 AATCAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.23
5 27 0.77
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TAAAT
Found at i:77076776 original size:10 final size:10
Alignment explanation
Indices: 77076752--77076793 Score: 70
Period size: 9 Copynumber: 4.4 Consensus size: 10
77076742 ATAAAGATAA
77076752 TAAATTAAA-
1 TAAATTAAAT
77076761 TAAATTAAAT
1 TAAATTAAAT
77076771 TAAATTAAAT
1 TAAATTAAAT
77076781 TAAATT-AAT
1 TAAATTAAAT
77076790 TAAA
1 TAAA
77076794 AATCAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAATTAAAT
Found at i:77089075 original size:49 final size:49
Alignment explanation
Indices: 77088970--77089187 Score: 162
Period size: 49 Copynumber: 4.5 Consensus size: 49
77088960 AAATGCTGAC
* * ** **
77088970 GCCATGTCCCAGATATGGTCTTACACTGGCTAGCACAT-T-GAAATCGAT
1 GCCATGTCCCAGA-AAGGTCTTACACTGACTCTCACATATAGAAGCCGAT
* * * * * * *
77089018 GCCGTGTCCTAGACAGGTCTTACATTGACTTTCATATATCGAAGCCGAT
1 GCCATGTCCCAGAAAGGTCTTACACTGACTCTCACATATAGAAGCCGAT
* * ** *
77089067 GCCATGTCCCAGAAAGGTCTTACACTGGCTCTCACCTATAGGTGTCGAT
1 GCCATGTCCCAGAAAGGTCTTACACTGACTCTCACATATAGAAGCCGAT
* * * *
77089116 GCCATGTCCCAGATAGGTCTTACACTGA--CACACA-AT--AAGCTGAC
1 GCCATGTCCCAGAAAGGTCTTACACTGACTCTCACATATAGAAGCCGAT
77089160 GCCATGTCCCAGACACAGGTCTTACACT
1 GCCATGTCCCAGA-A-AGGTCTTACACT
77089188 AGCTTGTATA
Statistics
Matches: 133, Mismatches: 33, Indels: 10
0.76 0.19 0.06
Matches are distributed among these distances:
44 16 0.12
46 14 0.11
47 21 0.16
48 12 0.09
49 70 0.53
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (49 bp):
GCCATGTCCCAGAAAGGTCTTACACTGACTCTCACATATAGAAGCCGAT
Found at i:77089237 original size:47 final size:46
Alignment explanation
Indices: 77089162--77089285 Score: 133
Period size: 46 Copynumber: 2.6 Consensus size: 46
77089152 AAGCTGACGC
* * * *
77089162 CATGTCCCAGACACAGGTCTTACACTAGCT-TGTATATCCGAGGCCAATG
1 CATGTCCCAG--ACATGTCTTACACTAGCTCT-CATCT-CAAGGCCAATG
* **
77089211 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCAATG
*
77089257 CATGTCCCAGACATGTCTTACACTGGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
77089286 ATATACCACC
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 35 0.53
47 20 0.30
48 1 0.02
49 10 0.15
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCAATG
Found at i:77091224 original size:12 final size:11
Alignment explanation
Indices: 77091185--77091257 Score: 50
Period size: 12 Copynumber: 6.9 Consensus size: 11
77091175 CTGTCCATTT
77091185 TTTTATT-TT-
1 TTTTATTATTA
77091194 TTTTATTATTA
1 TTTTATTATTA
77091205 TCTTTATTATTA
1 T-TTTATTATTA
*
77091217 TTTCTA-T-TTC
1 TTT-TATTATTA
*
77091227 TTTTCTTA-T-
1 TTTTATTATTA
*
77091236 TTTTATTGTTA
1 TTTTATTATTA
77091247 TTGTTATTATT
1 TT-TTATTATT
77091258 TTAAGTATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
9 14 0.28
10 10 0.20
11 6 0.12
12 20 0.40
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:77091289 original size:21 final size:22
Alignment explanation
Indices: 77091265--77091310 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
77091255 ATTTTAAGTA
77091265 TTATTCCTGGTTTTT-ATTTAT
1 TTATTCCTGGTTTTTAATTTAT
* * *
77091286 TTATTCTTGTTTTTTAATTTTT
1 TTATTCCTGGTTTTTAATTTAT
77091308 TTA
1 TTA
77091311 ATTTGATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.72
Consensus pattern (22 bp):
TTATTCCTGGTTTTTAATTTAT
Found at i:77093266 original size:37 final size:37
Alignment explanation
Indices: 77093203--77093345 Score: 223
Period size: 37 Copynumber: 3.9 Consensus size: 37
77093193 AGCTCAGATG
* * *
77093203 AAATCTCCACACGAAGTTATCTGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
77093240 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
77093277 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
77093314 TAATCTCCACACGTAATCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
77093346 AGAATATATT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:77093549 original size:48 final size:48
Alignment explanation
Indices: 77093490--77093726 Score: 420
Period size: 48 Copynumber: 4.9 Consensus size: 48
77093480 TATACACACG
* * * * *
77093490 TCTCCTACATATTTCACACTAGCCCTTCGACTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
*
77093538 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
77093586 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
77093634 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
77093682 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC
77093727 ATATATTTAT
Statistics
Matches: 183, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 183 1.00
ACGTcount: A:0.29, C:0.30, G:0.06, T:0.35
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
Found at i:77096842 original size:6 final size:6
Alignment explanation
Indices: 77096826--77096869 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
77096816 AGTCCATTTG
* *
77096826 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
77096870 ATTAGACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:77099190 original size:40 final size:40
Alignment explanation
Indices: 77099131--77099299 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
77099121 CGGGACTTTA
* * *
77099131 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
77099171 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
77099211 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
77099251 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
77099291 CCCGGATAT
1 CCCGGATAT
77099300 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:77102649 original size:23 final size:23
Alignment explanation
Indices: 77102613--77102658 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
77102603 CGATCAATCA
* * *
77102613 ACCTAGATTTTGTTTTTCATACT
1 ACCTAGAGTCTGTTGTTCATACT
*
77102636 ACCTAGAGTCTGTTGTTCTTACT
1 ACCTAGAGTCTGTTGTTCATACT
77102659 CTCGAAAGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (23 bp):
ACCTAGAGTCTGTTGTTCATACT
Found at i:77103996 original size:26 final size:24
Alignment explanation
Indices: 77103960--77104021 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 24
77103950 AATTAGAATG
77103960 TAAAAATTAAACAA-AACAAAATTATAA
1 TAAAAA-TAAA-AATAACAAAA-T-TAA
*
77103987 TAAAAATAAAAATAACTAAATTAA
1 TAAAAATAAAAATAACAAAATTAA
77104011 TAAAAAATAAA
1 T-AAAAATAAA
77104022 GTGTTCATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.12
25 12 0.38
26 10 0.31
27 6 0.19
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (24 bp):
TAAAAATAAAAATAACAAAATTAA
Found at i:77110486 original size:27 final size:27
Alignment explanation
Indices: 77109957--77110485 Score: 645
Period size: 27 Copynumber: 19.6 Consensus size: 27
77109947 AAAGTACTCC
* *
77109957 CGATTTACAGAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
77109984 C-ACTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
77110011 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
77110038 CGATTTACAAAATTACCATTTTACACT
1 CGATTTACAGAATTACCGTTTTACCCT
**
77110065 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
77110092 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
77110119 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
77110146 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
77110173 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
77110200 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
77110227 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
77110254 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
77110281 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
77110307 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
77110335 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
77110362 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
77110389 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
77110416 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
77110443 TGATTCACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
77110470 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
77110486 TAAAATACCC
Statistics
Matches: 439, Mismatches: 53, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.01
27 429 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:77110509 original size:27 final size:27
Alignment explanation
Indices: 77110464--77110549 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
77110454 ATTACTGTTT
* ** *
77110464 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* * * **
77110491 TACCCTTAGTTTGTGAAATTACCGCAA
1 TACCCTCAATTTGTAAAATTACCAAAA
*
77110518 TACCCTCAATTTGTAAAACTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
77110545 TACCC
1 TACCC
77110550 CTGTATGGTA
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:77111823 original size:9 final size:9
Alignment explanation
Indices: 77111811--77111887 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
77111801 TTTGATAAAC
77111811 ATGATATGT
1 ATGATATGT
*
77111820 ATGATATGCAC
1 ATGATATG--T
77111831 ATGATATGT
1 ATGATATGT
*
77111840 ATGATATGCAC
1 ATGATATG--T
* *
77111851 ATGACACGT
1 ATGATATGT
*
77111860 ATGATATGCAC
1 ATGATATG--T
77111871 ATGATATGT
1 ATGATATGT
77111880 ATGATATG
1 ATGATATG
77111888 CACACGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (9 bp):
ATGATATGT
Found at i:77111836 original size:11 final size:11
Alignment explanation
Indices: 77111820--77111891 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
77111810 CATGATATGT
77111820 ATGATATGCAC
1 ATGATATGCAC
*
77111831 ATGATATG--T
1 ATGATATGCAC
77111840 ATGATATGCAC
1 ATGATATGCAC
* **
77111851 ATGACA--CGT
1 ATGATATGCAC
77111860 ATGATATGCAC
1 ATGATATGCAC
*
77111871 ATGATATG--T
1 ATGATATGCAC
77111880 ATGATATGCAC
1 ATGATATGCAC
77111891 A
1 A
77111892 CGAGATGTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:77111899 original size:20 final size:20
Alignment explanation
Indices: 77111809--77111891 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
77111799 ATTTTGATAA
77111809 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
77111829 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
77111849 ACATGACACGTATGATATGC
1 ACATGATATGTATGATATGC
77111869 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
77111889 ACA
1 ACA
77111892 CGAGATGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:77111974 original size:23 final size:23
Alignment explanation
Indices: 77111944--77112156 Score: 345
Period size: 23 Copynumber: 9.1 Consensus size: 23
77111934 AGGAAGTGCA
77111944 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
77111967 AAAGGGCTTATGTCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
77111990 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
77112013 AAATGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
77112037 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
77112061 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
77112084 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
77112107 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
77112130 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
77112154 AAA
1 AAA
77112157 AGAGGCTAGG
Statistics
Matches: 179, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
23 113 0.63
24 66 0.37
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:77112102 original size:94 final size:93
Alignment explanation
Indices: 77111942--77112177 Score: 366
Period size: 94 Copynumber: 2.5 Consensus size: 93
77111932 GGAGGAAGTG
* *
77111942 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGTCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
*
77112007 GTTATTAAATGGCTTATGCCCCAGTTAT
66 GTTATTAAAGGGCTTATGCCCCAGTTAT
77112035 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCC
*
77112100 AGTTATTAAAGGGCTTATGCCCTAGTTAT
65 AGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
77112129 TAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
77112178 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
93 24 0.18
94 96 0.73
95 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (93 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
GTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:77114246 original size:47 final size:48
Alignment explanation
Indices: 77114171--77114347 Score: 193
Period size: 47 Copynumber: 3.8 Consensus size: 48
77114161 ATTTGAGTGT
* * *
77114171 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACAATATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGAGATGA
* * * * *
77114217 GAGCCAATGTAATACCATGTCTGGGACATGGCATCGG-CATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCA-CGAGATGA
* * *
77114265 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGAGATGA
* *
77114311 TAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGG
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG
77114348 TACCTTACCC
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
46 35 0.33
47 43 0.40
48 29 0.27
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGAGATGA
Found at i:77114332 original size:94 final size:94
Alignment explanation
Indices: 77114171--77114347 Score: 273
Period size: 94 Copynumber: 1.9 Consensus size: 94
77114161 ATTTGAGTGT
* *
77114171 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAATATGAGAGCCAATGTAATACCATG
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGATGAGAGCCAATGTAAGACCATG
*
77114236 TCTGGGACATGGCATCGGCATTGAGACGA
66 TCTAGGACATGGCATCGGCATTGAGACGA
* * * * * *
77114265 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGATGAGAGCCAATGTAAGACCATG
77114330 TCTAGGACATGGCATCGG
66 TCTAGGACATGGCATCGG
77114348 TACCTTACCC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGATGAGAGCCAATGTAAGACCATG
TCTAGGACATGGCATCGGCATTGAGACGA
Found at i:77117870 original size:46 final size:46
Alignment explanation
Indices: 77117803--77118021 Score: 235
Period size: 46 Copynumber: 4.7 Consensus size: 46
77117793 TGTAACCGGC
* * * *
77117803 CCATAAGCGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
77117849 CCATAAGTGAACTTAGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * *
77117895 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * *
77117942 CCATAAGTGAACTCGAACTCAACTTAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
77117988 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTTGGACTCAACTCAACGAGTTC
77118022 AGTAACGCCA
Statistics
Matches: 142, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
45 2 0.01
46 105 0.74
47 33 0.23
48 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:77117937 original size:93 final size:93
Alignment explanation
Indices: 77117810--77117980 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
77117800 GGCCCATAAG
* * *
77117810 CGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTTAG-ACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAAC-TAGAACTCAACTC
77117874 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
* * *
77117903 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTTA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTAGAACTCAACTCA
77117968 ACGAGTTCGGATG
66 ACGAGTTCGGATG
77117981 TTCGCATCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTAGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:77118441 original size:24 final size:24
Alignment explanation
Indices: 77118409--77118479 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
77118399 CTGTCAGGAG
*
77118409 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGATGATAAGGGAT
77118433 AGGATTTAGGAGATGATAAGGGAT
1 AGGATTTAGGAGATGATAAGGGAT
77118457 AGGATTTAGGAGCA-GATAAGGGA
1 AGGATTTAGGAG-ATGATAAGGGA
77118480 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
24 44 0.98
25 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.38, T:0.24
Consensus pattern (24 bp):
AGGATTTAGGAGATGATAAGGGAT
Found at i:77118491 original size:48 final size:48
Alignment explanation
Indices: 77118409--77118502 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
77118399 CTGTCAGGAG
** *
77118409 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGATGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGATGATCAAGGGAT
*
77118457 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGATGATCAAGG
77118503 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.37, T:0.22
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGATGATCAAGGGAT
Found at i:77119935 original size:27 final size:27
Alignment explanation
Indices: 77119895--77120006 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
77119885 AGGAAGCGTC
*
77119895 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
77119922 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
77119949 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
77119977 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
77120003 CTGG
1 CTGG
77120007 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:77120001 original size:54 final size:54
Alignment explanation
Indices: 77119895--77120006 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
77119885 AGGAAGCGTC
* *
77119895 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
77119949 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
77120003 CTGG
1 CTGG
77120007 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:77126287 original size:24 final size:24
Alignment explanation
Indices: 77126255--77126325 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
77126245 CTGTCAGGAG
77126255 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
77126279 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
77126303 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
77126326 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:77126337 original size:48 final size:48
Alignment explanation
Indices: 77126255--77126348 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
77126245 CTGTCAGGAG
** * *
77126255 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
77126303 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
77126349 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:77127785 original size:27 final size:27
Alignment explanation
Indices: 77127745--77127856 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
77127735 AGGAAGCGTC
*
77127745 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
77127772 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
77127799 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
77127827 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
77127853 CTGG
1 CTGG
77127857 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:77127851 original size:54 final size:54
Alignment explanation
Indices: 77127745--77127856 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
77127735 AGGAAGCGTC
* *
77127745 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
77127799 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
77127853 CTGG
1 CTGG
77127857 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:77128741 original size:34 final size:34
Alignment explanation
Indices: 77128699--77128767 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
77128689 CTTAGAATGA
77128699 AAAAATGTTTTAACGTTTTGATGTGGCACGTCGG
1 AAAAATGTTTTAACGTTTTGATGTGGCACGTCGG
77128733 AAAAATGTTTTAACGTTTTGATGTGGCACGTCGG
1 AAAAATGTTTTAACGTTTTGATGTGGCACGTCGG
77128767 A
1 A
77128768 TCCGGTCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (34 bp):
AAAAATGTTTTAACGTTTTGATGTGGCACGTCGG
Found at i:77138321 original size:2 final size:2
Alignment explanation
Indices: 77138314--77138338 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
77138304 TGGCTTTGAT
77138314 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
77138339 GCGCGCGCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77140976 original size:23 final size:23
Alignment explanation
Indices: 77140950--77141000 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
77140940 ATAATTTCAA
*
77140950 AAAAAATTTAAAATAAAA-AATGT
1 AAAAAATTCAAAA-AAAAGAATGT
* *
77140973 AAAAAGTTCAAAAAAAAGAATTT
1 AAAAAATTCAAAAAAAAGAATGT
77140996 AAAAA
1 AAAAA
77141001 TTGCAACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.22
Consensus pattern (23 bp):
AAAAAATTCAAAAAAAAGAATGT
Found at i:77145019 original size:2 final size:2
Alignment explanation
Indices: 77145012--77145055 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
77145002 CTTGAAGTAG
*
77145012 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77145054 AT
1 AT
77145056 GCGCGTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77147608 original size:21 final size:20
Alignment explanation
Indices: 77147580--77147618 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
77147570 ATTGAAAACA
77147580 TTCAAAAAGTCTAAGAAAAG
1 TTCAAAAAGTCTAAGAAAAG
* *
77147600 TTCACAAAATTCTAGGAAA
1 TTCA-AAAAGTCTAAGAAA
77147619 CAGGGGTCAC
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:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (20 bp):
TTCAAAAAGTCTAAGAAAAG
Found at i:77148785 original size:40 final size:40
Alignment explanation
Indices: 77148741--77148817 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
77148731 ATGGGTTTAA
* *
77148741 GGGTACCAAAGTACAAACATGGGCACGTATGTGCAAATAG
1 GGGTACCAAAGTACAAACAGGGGCACATATGTGCAAATAG
*
77148781 GGGTACCGAAGTACAAACAGGGGCACATATGTGCAAA
1 GGGTACCAAAGTACAAACAGGGGCACATATGTGCAAA
77148818 CATTCAACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.29, T:0.16
Consensus pattern (40 bp):
GGGTACCAAAGTACAAACAGGGGCACATATGTGCAAATAG
Found at i:77148802 original size:20 final size:20
Alignment explanation
Indices: 77148741--77148803 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
77148731 ATGGGTTTAA
* *
77148741 GGGTACCAAAGTACAAACAT
1 GGGTACCGAAGTACAAACAG
* * * *
77148761 GGGCA-CGTATGTGCAAATAG
1 GGGTACCG-AAGTACAAACAG
77148781 GGGTACCGAAGTACAAACAG
1 GGGTACCGAAGTACAAACAG
77148801 GGG
1 GGG
77148804 CACATATGTG
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.90
21 2 0.06
ACGTcount: A:0.37, C:0.17, G:0.32, T:0.14
Consensus pattern (20 bp):
GGGTACCGAAGTACAAACAG
Found at i:77148817 original size:20 final size:20
Alignment explanation
Indices: 77148754--77148819 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
77148744 TACCAAAGTA
* *
77148754 CAAACATGGGCACGTATGTG
1 CAAACAGGGGCACATATGTG
* * ** * *
77148774 CAAATAGGGGTACCGAAGTA
1 CAAACAGGGGCACATATGTG
77148794 CAAACAGGGGCACATATGTG
1 CAAACAGGGGCACATATGTG
77148814 CAAACA
1 CAAACA
77148820 TTCAACAATT
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.15
Consensus pattern (20 bp):
CAAACAGGGGCACATATGTG
Found at i:77149693 original size:38 final size:38
Alignment explanation
Indices: 77149642--77149717 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
77149632 ATAAAGAAAG
*
77149642 GAATACCTAAATAATTTTGGCTTGGAGCTAGTAATATA
1 GAATACCTAAATAATTTTGGCTTGAAGCTAGTAATATA
77149680 GAATACCTAAATAATTTTGGCTTGAAGCTAGTAATATA
1 GAATACCTAAATAATTTTGGCTTGAAGCTAGTAATATA
77149718 ACTATGTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (38 bp):
GAATACCTAAATAATTTTGGCTTGAAGCTAGTAATATA
Found at i:77153400 original size:2 final size:2
Alignment explanation
Indices: 77153395--77153430 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
77153385 AAAGAATAGA
77153395 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
77153431 GAGTAATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:77158038 original size:36 final size:36
Alignment explanation
Indices: 77157998--77158069 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
77157988 TAAATTAAAG
77157998 TATGTAAGAAAGTGAGGACTAATCTAGCAATTTCAA
1 TATGTAAGAAAGTGAGGACTAATCTAGCAATTTCAA
77158034 TATGTAAGAAAGTGAGGACTAATCTAGCAATTTCAA
1 TATGTAAGAAAGTGAGGACTAATCTAGCAATTTCAA
77158070 ATGATAGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (36 bp):
TATGTAAGAAAGTGAGGACTAATCTAGCAATTTCAA
Found at i:77163399 original size:31 final size:31
Alignment explanation
Indices: 77163361--77163423 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
77163351 TAAATAGACA
77163361 TAGTCTATTCCTCTTGTATTGAATTCAAAAT
1 TAGTCTATTCCTCTTGTATTGAATTCAAAAT
77163392 TAGTCTATTCCTCTTGTATTGAATTCAAAAT
1 TAGTCTATTCCTCTTGTATTGAATTCAAAAT
77163423 T
1 T
77163424 TTTGACATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.46
Consensus pattern (31 bp):
TAGTCTATTCCTCTTGTATTGAATTCAAAAT
Found at i:77169754 original size:25 final size:25
Alignment explanation
Indices: 77169726--77169776 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
77169716 CCCAATACTT
* * **
77169726 AGCTTGCATGAGCTTCTTGTTATTC
1 AGCTAGCATAAGCTTCCCGTTATTC
77169751 AGCTAGCATAAGCTTCCCGTTATTC
1 AGCTAGCATAAGCTTCCCGTTATTC
77169776 A
1 A
77169777 TCTCGGAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (25 bp):
AGCTAGCATAAGCTTCCCGTTATTC
Found at i:77172183 original size:40 final size:38
Alignment explanation
Indices: 77172139--77172318 Score: 132
Period size: 40 Copynumber: 4.6 Consensus size: 38
77172129 ACTCGTTCAA
*
77172139 ATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAG
1 ATGCCTTC-GGACTTAGCCCGGTT-TAGTAACTCGCACAG
* * * *
77172179 ATGCCTT-TGTCTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTCGGACTTAGCCCGG-TTTAGTAACTCGCACAG
* * *
77172217 ATGCCTTCGGATCTTAGTCCGAATTTAGTAACTCACAC-G
1 ATGCCTTCGGA-CTTAGCCCG-GTTTAGTAACTCGCACAG
* * * *
77172256 AATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACA-
1 -ATGCCTTCGGA-CTTAGCCCGG-TTTAGTAAC-TCGCACAG
*
77172297 AAGCCTTCGGGACTTAGCCCGG
1 ATGCCTTC-GGACTTAGCCCGG
77172319 ACATCATTCG
Statistics
Matches: 112, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
38 30 0.27
39 3 0.03
40 72 0.64
41 7 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (38 bp):
ATGCCTTCGGACTTAGCCCGGTTTAGTAACTCGCACAG
Found at i:77172207 original size:38 final size:40
Alignment explanation
Indices: 77172139--77172272 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
77172129 ACTCGTTCAA
* *
77172139 ATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAG
1 ATGCCTTC-GGATCTTAACCCGGATT-TAGTAACTCGCACAG
* *
77172179 ATGCCTT-TG-TCTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAG
** * *
77172217 ATGCCTTCGGATCTTAGTCCGAATTTAGTAACTCACAC-G
1 ATGCCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAG
77172256 AATGCCTTCGGATCTTA
1 -ATGCCTTCGGATCTTA
77172273 GTCCGGATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
38 30 0.38
39 3 0.04
40 46 0.58
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (40 bp):
ATGCCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAG
Found at i:77177070 original size:29 final size:29
Alignment explanation
Indices: 77177028--77177084 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
77177018 TCTCTATTAT
* * *
77177028 ATGTGAGCATTAGTGGTAGACTTTGTTAC
1 ATGTGAGCACTAGTGGCAGAATTTGTTAC
*
77177057 ATGTGAGCCCTAGTGGCAGAATTTGTTA
1 ATGTGAGCACTAGTGGCAGAATTTGTTA
77177085 TATATGGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (29 bp):
ATGTGAGCACTAGTGGCAGAATTTGTTAC
Found at i:77178457 original size:2 final size:2
Alignment explanation
Indices: 77178445--77178486 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
77178435 TAAATATACC
77178445 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
77178487 AATAGCATGC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77179334 original size:18 final size:18
Alignment explanation
Indices: 77179311--77179347 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
77179301 TGAATTCTTC
*
77179311 TAACTTGGGTAGCAATGA
1 TAACTTAGGTAGCAATGA
77179329 TAACTTAGGTAGCAATGA
1 TAACTTAGGTAGCAATGA
77179347 T
1 T
77179348 GTATTGCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (18 bp):
TAACTTAGGTAGCAATGA
Found at i:77183771 original size:19 final size:21
Alignment explanation
Indices: 77183743--77183790 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
77183733 TAATAACCAT
77183743 AAAAAT-AAACAT-AGTTTA-
1 AAAAATAAAACATAAGTTTAC
77183761 AAAAATAAAACATAAGTTTAC
1 AAAAATAAAACATAAGTTTAC
77183782 AAAAATAAA
1 AAAAATAAA
77183791 TAAAAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.22
19 6 0.22
20 6 0.22
21 9 0.33
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.23
Consensus pattern (21 bp):
AAAAATAAAACATAAGTTTAC
Found at i:77194502 original size:21 final size:21
Alignment explanation
Indices: 77194478--77194520 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
77194468 TCTTCTTCAA
77194478 CAAACTCCCCTTCTCCTTCTC
1 CAAACTCCCCTTCTCCTTCTC
77194499 CAAACTCCCCTTCTCCTTCTC
1 CAAACTCCCCTTCTCCTTCTC
77194520 C
1 C
77194521 CTTTTTCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.53, G:0.00, T:0.33
Consensus pattern (21 bp):
CAAACTCCCCTTCTCCTTCTC
Found at i:77197861 original size:35 final size:35
Alignment explanation
Indices: 77197822--77197894 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
77197812 GGTATGTGAT
77197822 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
77197857 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
77197892 ATA
1 ATA
77197895 AAGAATGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:77198241 original size:18 final size:19
Alignment explanation
Indices: 77198206--77198247 Score: 68
Period size: 18 Copynumber: 2.2 Consensus size: 19
77198196 CGAACATTTG
77198206 GTTTGTTTTTAAGTTCAACT
1 GTTTGTTTTT-AGTTCAACT
77198226 GTTTGTTTTT-GTTCAACT
1 GTTTGTTTTTAGTTCAACT
77198244 GTTT
1 GTTT
77198248 AAATTGCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.55
20 10 0.45
ACGTcount: A:0.14, C:0.10, G:0.17, T:0.60
Consensus pattern (19 bp):
GTTTGTTTTTAGTTCAACT
Done.