Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 198 of 433
Found at i:62457468 original size:40 final size:39
Alignment explanation
Indices: 62457340--62457490 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
62457330 ATAACCATGT
* * *
62457340 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
62457380 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
62457420 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
62457459 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
62457491 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:62457474 original size:80 final size:79
Alignment explanation
Indices: 62457324--62457490 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
62457314 CGGAATATAA
*
62457324 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
62457389 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
62457404 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
62457466 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
62457483 CCGGATAT
1 CCGGATAT
62457491 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:62460723 original size:46 final size:45
Alignment explanation
Indices: 62460670--62460845 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
62460660 TATTTGGGCA
62460670 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
62460716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
62460763 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
62460809 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCAATTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62460846 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:62460825 original size:93 final size:93
Alignment explanation
Indices: 62460666--62460837 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
62460656 AGGATATTTG
* *
62460666 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62460731 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
62460759 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62460824 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62460838 AATTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:62464664 original size:24 final size:24
Alignment explanation
Indices: 62464636--62464721 Score: 145
Period size: 24 Copynumber: 3.6 Consensus size: 24
62464626 TGACTTTGGT
*
62464636 ACTATGTGTGCGGACTTGTATGGC
1 ACTATGTGTGCGGAATTGTATGGC
62464660 ACTATGTGTGCGGAATTGTATGGC
1 ACTATGTGTGCGGAATTGTATGGC
* *
62464684 ACTATGTGTGCGGATTTATATGGC
1 ACTATGTGTGCGGAATTGTATGGC
62464708 ACTATGTGTGCGGA
1 ACTATGTGTGCGGA
62464722 TTGGAATGTC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.34
Consensus pattern (24 bp):
ACTATGTGTGCGGAATTGTATGGC
Found at i:62464707 original size:48 final size:47
Alignment explanation
Indices: 62464636--62464768 Score: 160
Period size: 48 Copynumber: 2.8 Consensus size: 47
62464626 TGACTTTGGT
* *
62464636 ACTATGTGTGCGGACTTGTATGGCACTATGTGTGCGGAATT-GTATGGC
1 ACTATGTGTGCGGA-TTATATGGCACTATGTGTGCGG-ATTGGAATGGC
*
62464684 ACTATGTGTGCGGATTTATATGGCACTATGTGTGCGGATTGGAATGTC
1 ACTATGTGTGCGGA-TTATATGGCACTATGTGTGCGGATTGGAATGGC
* * * *
62464732 AATATGTATGTGGATTACTAAGGCACTATGTGTGCGG
1 ACTATGTGTGCGGATTA-TATGGCACTATGTGTGCGG
62464769 GCTAACATGG
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 6 0.08
48 69 0.92
ACGTcount: A:0.22, C:0.13, G:0.32, T:0.34
Consensus pattern (47 bp):
ACTATGTGTGCGGATTATATGGCACTATGTGTGCGGATTGGAATGGC
Found at i:62464722 original size:24 final size:24
Alignment explanation
Indices: 62464636--62464768 Score: 144
Period size: 24 Copynumber: 5.5 Consensus size: 24
62464626 TGACTTTGGT
* *
62464636 ACTATGTGTGCGGACTTGTATGGC
1 ACTATGTGTGCGGATTTATATGGC
* *
62464660 ACTATGTGTGCGGAATTGTATGGC
1 ACTATGTGTGCGGATTTATATGGC
62464684 ACTATGTGTGCGGATTTATATGGC
1 ACTATGTGTGCGGATTTATATGGC
* *
62464708 ACTATGTGTGCGGATTGGA-ATGTC
1 ACTATGTGTGCGGATT-TATATGGC
* * * *
62464732 AATATGTATGTGGA-TTACTAAGGC
1 ACTATGTGTGCGGATTTA-TATGGC
62464756 ACTATGTGTGCGG
1 ACTATGTGTGCGG
62464769 GCTAACATGG
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 89 0.97
25 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.32, T:0.34
Consensus pattern (24 bp):
ACTATGTGTGCGGATTTATATGGC
Found at i:62465799 original size:16 final size:14
Alignment explanation
Indices: 62465767--62465793 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62465757 TAAGAGTACT
62465767 TTTTGAGGGATGTA
1 TTTTGAGGGATGTA
62465781 TTTTGAGGGATGT
1 TTTTGAGGGATGT
62465794 GTATTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (14 bp):
TTTTGAGGGATGTA
Found at i:62473601 original size:27 final size:27
Alignment explanation
Indices: 62473570--62473679 Score: 127
Period size: 28 Copynumber: 4.1 Consensus size: 27
62473560 TGGCTGCCAT
* *
62473570 AACAGATA-TTGTGACAGAGTCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
* *
62473596 ATACAGATA--TATGGCTGAGCCACCAG
1 A-ACAGATATTTGTGGCAGAGCCACCAG
*
62473622 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
*
62473649 AAACAGATATTTGTGGCATAGCCACCAG
1 -AACAGATATTTGTGGCAGAGCCACCAG
62473677 AAC
1 AAC
62473680 GCTTCCTCCA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.10
26 15 0.21
27 24 0.33
28 27 0.37
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
AACAGATATTTGTGGCAGAGCCACCAG
Found at i:62490029 original size:29 final size:28
Alignment explanation
Indices: 62489962--62490033 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
62489952 AAAATTGTAC
* * *
62489962 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
62489990 AGCACTAAGTGTGCGAG-CTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG--AATATAT
62490019 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
62490034 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:62502732 original size:15 final size:15
Alignment explanation
Indices: 62502700--62502728 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62502690 ATTTTATATG
62502700 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
62502715 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
62502729 ATTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:62502921 original size:21 final size:22
Alignment explanation
Indices: 62502887--62502927 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
62502877 TCATGACCTT
* *
62502887 ATTATATAATGGTTTTATATTA
1 ATTATATAAAGGTTATATATTA
62502909 ATTA-ATAAAGGTTATATAT
1 ATTATATAAAGGTTATATAT
62502928 GTAAAATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTATATAAAGGTTATATATTA
Found at i:62504950 original size:34 final size:34
Alignment explanation
Indices: 62504907--62504985 Score: 149
Period size: 34 Copynumber: 2.3 Consensus size: 34
62504897 GTACTTGCAC
62504907 ATATATATATTTATGCACATGATGTGTTGGTATG
1 ATATATATATTTATGCACATGATGTGTTGGTATG
*
62504941 ATATATATATTTATGCCCATGATGTGTTGGTATG
1 ATATATATATTTATGCACATGATGTGTTGGTATG
62504975 ATATATATATT
1 ATATATATATT
62504986 ATCTCAAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (34 bp):
ATATATATATTTATGCACATGATGTGTTGGTATG
Found at i:62507981 original size:40 final size:39
Alignment explanation
Indices: 62507751--62507974 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 39
62507741 CGAATGATGT
* * *
62507751 CCGGGCTAAGTCCCGAAGG-ATTTGTGCTAATTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTA-AA
* * *
62507791 CTGGACTAAGAT-CCGAAGGCATTTGTGCGAGGTACTAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
62507830 TACGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
62507871 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62507909 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62507950 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
62507975 AACGAGTAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
39 34 0.22
40 109 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62507993 original size:119 final size:120
Alignment explanation
Indices: 62507750--62507981 Score: 267
Period size: 119 Copynumber: 1.9 Consensus size: 120
62507740 TCGAATGATG
* * * *
62507750 TCCGGGCTAAGTCCCGAAGGATTTGTGCTAATTGACTATATCTGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGATTGGTGCGAATTGACTAAATCCGGACTAAGATCCGAAGGCATTT
* **
62507815 GTGCGAGGTACTAAATACGGACTAAGATCCGAAGGTATTTGTGCGAGTTACTAAT
66 GTGCGAGGTACTAAATACGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAT
* **
62507870 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTT-ACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGG-ATTGGTGCGAATTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
62507932 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGT
64 TTGTGCGAGGTACTA-AATACGGACTAAGAT-CCGAAGGCATTTGAACGAGT
62507982 AGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
118 2 0.02
119 69 0.73
120 23 0.24
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGATTGGTGCGAATTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGGTACTAAATACGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAT
Found at i:62507996 original size:79 final size:77
Alignment explanation
Indices: 62507757--62508007 Score: 249
Period size: 79 Copynumber: 3.2 Consensus size: 77
62507747 ATGTCCGGGC
* * * *
62507757 TAAGTCCCGAAGGATTTGTGCTAATTGACTATATCTGGACTAAGAT-CCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGATTTGTGCGAGTT-ACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGA
* *
62507821 GGTACTAAATACGGAC
64 -GTACTAAATCCGG-T
*
62507837 TAAGAT-CCGAAGGTATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCG
1 TAAG-TCCCGAAGG-ATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
62507899 AGTTACTAAATCCGGGT
63 AG-TACTAAATCC-GGT
* * **
62507916 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGG-ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
62507981 TAGCTATATCCGGT
65 TA-CTAAATCCGGT
* *
62507995 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
62508008 TACGTGATTC
Statistics
Matches: 145, Mismatches: 16, Indels: 21
0.80 0.09 0.12
Matches are distributed among these distances:
78 2 0.01
79 80 0.55
80 51 0.35
81 12 0.08
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (77 bp):
TAAGTCCCGAAGGATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
ACTAAATCCGGT
Found at i:62516093 original size:40 final size:40
Alignment explanation
Indices: 62515865--62516086 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
62515855 AATGATGTCT
* * *
62515865 GGGCTAAGTCCCGAAGGC-TTTGTGCTAATTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTAAATCC
* *
62515905 GGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* * *
62515945 GGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
62515985 GGGCTAAG-CCCGAAGGCATTAGTGCGAGTTACTAAATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
62516024 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
62516064 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
62516087 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 114 0.71
41 14 0.09
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:62516108 original size:79 final size:79
Alignment explanation
Indices: 62515869--62516119 Score: 262
Period size: 79 Copynumber: 3.2 Consensus size: 79
62515859 ATGTCTGGGC
* * * *
62515869 TAAGTCCCGAAGGC-TTTGTGCTAATTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCT
1 TAAGTCCCGAAGGCATTTGTGCGAGTT-ACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
62515932 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGG-T
* *
62515949 TAAGAT-CCGAAGGTATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTAGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
*
62516011 AGTTACTAAATTCGGGT
64 AGTTACTAAA-TCCGGT
* * **
62516028 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
62516093 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
62516107 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
62516120 TACGTGATTC
Statistics
Matches: 144, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
78 1 0.01
79 81 0.56
80 51 0.35
81 11 0.08
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Found at i:62518287 original size:40 final size:40
Alignment explanation
Indices: 62518242--62518409 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
62518232 CGGAATATAA
62518242 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
62518282 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
62518322 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
62518362 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
62518402 CCGGATAT
1 CCGGATAT
62518410 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:62518392 original size:80 final size:80
Alignment explanation
Indices: 62518258--62518407 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
62518248 ATAACCACGT
* *
62518258 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
62518323 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
62518338 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
62518401 CCCGGAT
64 CCCGGAT
62518408 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:62526348 original size:40 final size:40
Alignment explanation
Indices: 62526215--62526371 Score: 156
Period size: 40 Copynumber: 3.9 Consensus size: 40
62526205 ACCGGATATA
* * *
62526215 ACCATGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG
1 ACCA-GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATC
* **
62526256 ACTC-GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCC
1 AC-CAGCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATC
* * *
62526296 ACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATT
1 ACCAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAATC
* * * *
62526336 TCCAGCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 ACCAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
62526372 CATTCAATTT
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 88 0.93
41 4 0.04
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
ACCAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAATC
Found at i:62526354 original size:80 final size:80
Alignment explanation
Indices: 62526220--62526369 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
62526210 ATATAACCAT
* *
62526220 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
62526285 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
62526300 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
62526363 CCCGGAT
64 CCCGGAT
62526370 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:62534022 original size:68 final size:70
Alignment explanation
Indices: 62533950--62534147 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
62533940 ACACCCTGTA
* * * *
62533950 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
62534012 ATAAAT
65 ATAAAT
*
62534018 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
62534083 ATAAAT
65 ATAAAT
*
62534089 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
62534148 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:62534061 original size:41 final size:41
Alignment explanation
Indices: 62534016--62534133 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
62534006 TGAAAGATAA
62534016 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
62534057 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62534087 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62534128 ATGTAG
1 ATGTAG
62534134 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:62534073 original size:71 final size:71
Alignment explanation
Indices: 62533984--62534147 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62533974 GAGATGTATC
62533984 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62534049 AGGACA
66 AGGACA
62534055 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62534120 AGGACA
66 AGGACA
62534126 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
62534148 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:62538929 original size:30 final size:30
Alignment explanation
Indices: 62538895--62538954 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
62538885 ATTTAATACG
62538895 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
62538925 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
62538955 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:62541697 original size:46 final size:45
Alignment explanation
Indices: 62541647--62541822 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
62541637 TGGTTGAGCA
*
62541647 TCCGAACTCGTTGAGTTGAGTCGGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
62541693 TCCGAACTTGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
62541738 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAAG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
62541786 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62541823 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:62541803 original size:93 final size:93
Alignment explanation
Indices: 62541644--62541815 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
62541634 GGATGGTTGA
* * * *
62541644 GCATCCGAACTCGTTGAGTTGAGTCGGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCGAACTCGTTGAGT
*
62541709 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
62541737 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAAGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCGAACTCGTTGAGT
62541802 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62541816 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62548034 original size:40 final size:39
Alignment explanation
Indices: 62547869--62548052 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
62547859 AAATTGAATG
* * *
62547869 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
62547909 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
62547949 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
62547989 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
62548028 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
62548053 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:62548077 original size:80 final size:81
Alignment explanation
Indices: 62547909--62548097 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
62547899 GCTGGAAATT
* * * *
62547909 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
62547974 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
62547990 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
62548053 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
62548069 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
62548098 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:62556151 original size:40 final size:39
Alignment explanation
Indices: 62555986--62556169 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
62555976 AAATTGAATG
* * *
62555986 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
62556026 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
62556066 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
62556106 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
62556145 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
62556170 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:62556194 original size:80 final size:81
Alignment explanation
Indices: 62556026--62556214 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
62556016 GCTGGAAATT
* * * *
62556026 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
62556091 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
62556107 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
62556170 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
62556186 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
62556215 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:62561938 original size:40 final size:40
Alignment explanation
Indices: 62561916--62562137 Score: 365
Period size: 40 Copynumber: 5.5 Consensus size: 40
62561906 ATGGTCAGTA
62561916 GCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTC
*
62561956 GCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
*
62561996 GCACAAATGCCTTCGGGACTTAGCCTGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
*
62562036 GCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
* * *
62562076 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
*
62562116 GCACAAATGTCTTCGGGACTTA
1 GCACAAATGCCTTCGGGACTTA
62562138 ACCCCGTTAG
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
40 169 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
Found at i:62568888 original size:40 final size:39
Alignment explanation
Indices: 62568708--62568888 Score: 154
Period size: 40 Copynumber: 4.6 Consensus size: 39
62568698 GACTCGCTCA
** * ** *
62568708 AATGCCTTCGGGACGAAGCCTGG-TTATAGCGACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCAC
* *
62568747 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
* *
62568787 AATGCCTTCGGG-CTTAGCCC-GATTTATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
* * * *
62568824 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCAC
*
62568865 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62568889 CATCATTCGA
Statistics
Matches: 114, Mismatches: 20, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 16 0.14
38 16 0.14
39 18 0.16
40 55 0.48
41 9 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
Found at i:62574489 original size:40 final size:40
Alignment explanation
Indices: 62574435--62574688 Score: 341
Period size: 40 Copynumber: 6.3 Consensus size: 40
62574425 CCCGCACAAG
* * * *
62574435 GCCTTCGGGTCTTAGTCCGG-ATATGGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAAT
* * *
62574475 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
* *
62574515 GCCTTCGGGGCTTAGCCCAGAATTAGTAACTCA-CACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACT-AGCACAAAT
*
62574555 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
* *
62574595 GCCTTCGGGGCTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
* *
62574635 GCCTTCGGGACTTAGCCCGGAATTAATCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
*
62574675 GTCTTCGGGACTTA
1 GCCTTCGGGACTTA
62574689 ACCCCGTTAG
Statistics
Matches: 190, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
40 189 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
Found at i:62576137 original size:41 final size:41
Alignment explanation
Indices: 62576092--62576209 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
62576082 TGAAAGATAA
62576092 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
62576133 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62576163 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62576204 ATGTAG
1 ATGTAG
62576210 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:62576141 original size:71 final size:71
Alignment explanation
Indices: 62576060--62576223 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
62576050 GAGATGTATC
*
62576060 CCATGTAGACAAGAGAGTTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62576125 AGGACA
66 AGGACA
62576131 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62576196 AGGACA
66 AGGACA
62576202 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
62576224 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:62583838 original size:40 final size:40
Alignment explanation
Indices: 62583741--62583922 Score: 127
Period size: 40 Copynumber: 4.6 Consensus size: 40
62583731 GAATCACGTA
* * *
62583741 CCTTCGGGAT-TTAA-CCGGATATAGCGACTCGCTCGATTG
1 CCTTCGGG-TCTTAACCCGGATATAGTGATTCGCACGATTG
* * * * *
62583780 TCTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTG
1 CCTTCGGGTCTTAACCCGGATATAGTGATTCGCACGATTG
* * * * *
62583820 CCTTCGGGTCTTAACCCGGATTTGGTAACTT-GCACAAATG
1 CCTTCGGGTCTTAACCCGGATATAGTGA-TTCGCACGATTG
* * * * * **
62583860 CCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAATTG
1 CCTTCGGGTCTTAACCCGGATATAGTGATTCGCACGATTG
* *
62583900 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAACCCGGATAT
62583923 CATTCCAATG
Statistics
Matches: 112, Mismatches: 27, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
39 10 0.09
40 100 0.89
41 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAGTGATTCGCACGATTG
Found at i:62591840 original size:40 final size:40
Alignment explanation
Indices: 62591743--62591924 Score: 127
Period size: 40 Copynumber: 4.6 Consensus size: 40
62591733 GAATCACGTA
* * *
62591743 CCTTCGGGAT-TTAA-CCGGATATAGCGACTCGCTCGATTG
1 CCTTCGGG-TCTTAACCCGGATATAGTGATTCGCACGATTG
* * * * *
62591782 TCTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTG
1 CCTTCGGGTCTTAACCCGGATATAGTGATTCGCACGATTG
* * * * *
62591822 CCTTCGGGTCTTAACCCGGATTTGGTAACTT-GCACAAATG
1 CCTTCGGGTCTTAACCCGGATATAGTGA-TTCGCACGATTG
* * * * * **
62591862 CCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAATTG
1 CCTTCGGGTCTTAACCCGGATATAGTGATTCGCACGATTG
* *
62591902 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAACCCGGATAT
62591925 CATTCCAATG
Statistics
Matches: 112, Mismatches: 27, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
39 10 0.09
40 100 0.89
41 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAGTGATTCGCACGATTG
Found at i:62601193 original size:19 final size:20
Alignment explanation
Indices: 62601171--62601209 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62601161 TATGTCGACA
*
62601171 AATTTAAG-TTATACATATG
1 AATTTAAGATGATACATATG
*
62601190 AATTTATGATGATACATATG
1 AATTTAAGATGATACATATG
62601210 TAAAGTATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (20 bp):
AATTTAAGATGATACATATG
Found at i:62601245 original size:2 final size:2
Alignment explanation
Indices: 62601238--62601265 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
62601228 TGGTATTTAG
62601238 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
62601266 GATTATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62605090 original size:30 final size:29
Alignment explanation
Indices: 62605049--62605142 Score: 136
Period size: 30 Copynumber: 3.2 Consensus size: 29
62605039 TAAGTAGTTG
62605049 AAGCTAG-TTAAATCCTACACTTAGTGCCA
1 AAGCTAGTTTAAATCC-ACACTTAGTGCCA
* *
62605078 AAGTTAGTTTAAATTGCACACTTAGTGCCA
1 AAGCTAGTTTAAA-TCCACACTTAGTGCCA
62605108 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATC-CACACTTAGTGCCA
62605138 AAGCT
1 AAGCT
62605143 TTCGGTTCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
29 7 0.12
30 49 0.84
31 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (29 bp):
AAGCTAGTTTAAATCCACACTTAGTGCCA
Found at i:62612312 original size:30 final size:29
Alignment explanation
Indices: 62612274--62612363 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 29
62612264 CAGTCGAAGG
* *
62612274 TAGTTAAATCACACACTTAGTGCCAAAGT
1 TAGTTAAATCGCACACTTAGTGCCAAAGC
62612303 TAGTATAAATCGCACACTTAGTGCCAAAGC
1 TAGT-TAAATCGCACACTTAGTGCCAAAGC
*
62612333 TAGTTTAAATCGCACATTTAGTGCCAAAGC
1 TAG-TTAAATCGCACACTTAGTGCCAAAGC
62612363 T
1 T
62612364 TCCAATTCAT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
29 4 0.07
30 51 0.91
31 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (29 bp):
TAGTTAAATCGCACACTTAGTGCCAAAGC
Found at i:62618190 original size:49 final size:49
Alignment explanation
Indices: 62618128--62618396 Score: 333
Period size: 49 Copynumber: 5.2 Consensus size: 49
62618118 ATGTATGAGA
*
62618128 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
**
62618177 CGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
62618226 TATATTTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATAAG-G
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA-AAGTG
*
62618275 CCTAATGGCCGATGTGATGAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTA
1 --T-AT-----A--T-AT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTG
*
62618339 TATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
62618388 TATATATAT
1 TATATATAT
62618397 ATGTGGTAAA
Statistics
Matches: 193, Mismatches: 10, Indels: 34
0.81 0.04 0.14
Matches are distributed among these distances:
49 99 0.51
50 6 0.03
51 36 0.19
52 2 0.01
53 2 0.01
54 1 0.01
56 1 0.01
57 1 0.01
59 1 0.01
60 1 0.01
61 2 0.01
62 39 0.20
63 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:62618271 original size:31 final size:31
Alignment explanation
Indices: 62618233--62618331 Score: 198
Period size: 31 Copynumber: 3.2 Consensus size: 31
62618223 GTGTATATTT
62618233 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
62618264 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
62618295 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
62618326 ATGTGA
1 ATGTGA
62618332 AAATGTATAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (31 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:62618353 original size:51 final size:51
Alignment explanation
Indices: 62618295--62618416 Score: 199
Period size: 51 Copynumber: 2.4 Consensus size: 51
62618285 GATGTGATGA
*
62618295 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATAT
1 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATAT
*
62618346 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
1 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATAT
* * *
62618397 ATGTGGTAAAGCCGAATGGC
1 ATGTGATAAGGCCTAATGGC
62618417 TAATGTGAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.29
Consensus pattern (51 bp):
ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATAT
Found at i:62618525 original size:37 final size:36
Alignment explanation
Indices: 62618465--62618551 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 36
62618455 AACTTGGAAA
*
62618465 TATGTTCCGGGTGAGACCTGATGACTACATGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACATGTGGAGAT
*
62618503 TATGTCCGGGTATGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACATGTGGAGAT
62618540 TATGTCCGGGTA
1 TATGTCCGGGTA
62618552 AGACTTCGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.89
38 4 0.09
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACATGTGGAGAT
Found at i:62620492 original size:40 final size:40
Alignment explanation
Indices: 62620444--62620644 Score: 321
Period size: 40 Copynumber: 5.0 Consensus size: 40
62620434 GAGAGTGATA
62620444 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
62620484 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
* *
62620524 TATCCGGACTAAGTTCCAAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
*
62620564 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
* * * * * *
62620604 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
62620644 T
1 T
62620645 GTATTCGGGC
Statistics
Matches: 151, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 151 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
Found at i:62620845 original size:25 final size:25
Alignment explanation
Indices: 62620804--62620855 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
62620794 TGTGTAAAAA
*
62620804 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGCGTG
* *
62620829 TGAATG-ATTAGAGGCACTGTGCGTG
1 TGAATGAATAAGA-GCACTATGCGTG
62620854 TG
1 TG
62620856 TAAATCCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGCGTG
Found at i:62621465 original size:40 final size:41
Alignment explanation
Indices: 62621375--62621481 Score: 155
Period size: 40 Copynumber: 2.6 Consensus size: 41
62621365 AATGGTATCC
* *
62621375 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCT
1 GGGCTAATTCCCGAAGGCATTTGTGCTAAGTGACTAAATCT
*
62621416 GGG-TCAATTCCCGAAGGCATTTGTGC-AAGTTACTAAATCT
1 GGGCT-AATTCCCGAAGGCATTTGTGCTAAGTGACTAAATCT
*
62621456 GGGCTAATTCCCGAAGGCAATTGTGC
1 GGGCTAATTCCCGAAGGCATTTGTGC
62621482 GAATCACTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
40 37 0.62
41 23 0.38
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
GGGCTAATTCCCGAAGGCATTTGTGCTAAGTGACTAAATCT
Found at i:62621500 original size:40 final size:41
Alignment explanation
Indices: 62621371--62621551 Score: 142
Period size: 40 Copynumber: 4.5 Consensus size: 41
62621361 TTCGAATGGT
* ** * *
62621371 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAAGTCACTAA
* * *
62621412 ATCTGGG-TCAATTCCCGAAGGCATTTGTGC-AAGTTACTAA
1 ATCCGGGCT-AATTCCCGAAGGCAATTGTGCGAAGTCACTAA
*
62621452 ATCTGGGCTAATTCCCGAAGGCAATTGTGCGAA-TCACTATA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAAGTCACTA-A
* * * * *
62621493 A-CCGGGCT-ATGTCCCGAAGACAATCGAGCG-AGTCGCTAT
1 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAAGTCACTAA
* *
62621532 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGCTAATTCCCGAAGG
62621552 TACGTGATTC
Statistics
Matches: 117, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
39 15 0.13
40 72 0.62
41 30 0.26
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAAGTCACTAA
Found at i:62624292 original size:49 final size:49
Alignment explanation
Indices: 62624232--62624420 Score: 351
Period size: 49 Copynumber: 3.9 Consensus size: 49
62624222 GTATTAGATA
62624232 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCG
62624281 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCG
**
62624330 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCG
*
62624379 TATTTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
62624421 TAAGGCCTAA
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 137 1.00
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCG
Found at i:62624422 original size:31 final size:31
Alignment explanation
Indices: 62624384--62624451 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
62624374 GTGTATATTT
62624384 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
62624415 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
62624446 ATGTGA
1 ATGTGA
62624452 AAGTGCGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (31 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:62624430 original size:80 final size:80
Alignment explanation
Indices: 62624335--62624500 Score: 296
Period size: 80 Copynumber: 2.1 Consensus size: 80
62624325 GTGCGTATAT
* *
62624335 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATTTATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATATGTGATAAGGCCTAA
62624400 TGGCCGATGTGATGA
66 TGGCCGATGTGATGA
*
62624415 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCGTATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATATGTGATAAGGCCTAA
*
62624480 TGGCTGATGTGATGA
66 TGGCCGATGTGATGA
62624495 ATGTGA
1 ATGTGA
62624501 AAATGTATAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.30
Consensus pattern (80 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATATGTGATAAGGCCTAA
TGGCCGATGTGATGA
Found at i:62624467 original size:129 final size:131
Alignment explanation
Indices: 62624286--62624551 Score: 491
Period size: 129 Copynumber: 2.0 Consensus size: 131
62624276 GTGCGTATAT
62624286 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCGTATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCGTATATATGTGATAAGGCCTAA
* *
62624351 TGGCCGATGTGATGAATGTGAAAGTGTATAT-T-TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
62624414 A
131 A
62624415 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCGTATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCGTATATATGTGATAAGGCCTAA
*
62624480 TGGCTGATGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
66 TGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
62624545 A
131 A
62624546 ATGTGA
1 ATGTGA
62624552 AAGTGTATAT
Statistics
Matches: 132, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
129 94 0.71
130 1 0.01
131 37 0.28
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (131 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCGTATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
A
Found at i:62624468 original size:49 final size:49
Alignment explanation
Indices: 62624415--62624565 Score: 239
Period size: 49 Copynumber: 3.0 Consensus size: 49
62624405 GATGTGATGA
**
62624415 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
62624464 ATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAATGTATATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTGTATATAT
*
62624515 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
62624564 AT
1 AT
62624566 ATGTGGTAAA
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
49 46 0.49
50 6 0.06
51 41 0.44
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (49 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:62624534 original size:51 final size:51
Alignment explanation
Indices: 62624415--62624585 Score: 247
Period size: 51 Copynumber: 3.4 Consensus size: 51
62624405 GATGTGATGA
***
62624415 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTGCGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATAT
*
62624464 ATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAATGTATATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATAT
* *
62624515 ATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATAT
* * *
62624566 ATGTGGTAAAGCCGAATGGC
1 ATGTGATAAGGCCTAATGGC
62624586 TAATGTGAAT
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
49 35 0.32
50 3 0.03
51 72 0.65
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (51 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATAT
Found at i:62624689 original size:37 final size:36
Alignment explanation
Indices: 62624634--62624720 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
62624624 AACTTGGAAA
62624634 TATGTTCCGGGTGAGACCCGATGACTACGTGTAGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTAGAGAT
*
62624672 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTAGAGAT
62624709 TATGTCCGGGTA
1 TATGTCCGGGTA
62624721 AGACTTCGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTAGAGAT
Found at i:62627199 original size:31 final size:31
Alignment explanation
Indices: 62627161--62627224 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
62627151 CAAATCCAAA
62627161 GTAGAAACAATTATTTTATGATTATTAGGAG
1 GTAGAAACAATTATTTTATGATTATTAGGAG
62627192 GTAGAAACAATTATTTTATGATTATTAGGAG
1 GTAGAAACAATTATTTTATGATTATTAGGAG
62627223 GT
1 GT
62627225 CTATGATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (31 bp):
GTAGAAACAATTATTTTATGATTATTAGGAG
Found at i:62631763 original size:80 final size:80
Alignment explanation
Indices: 62631679--62631827 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
62631669 TATGGTAACC
* * * *
62631679 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
62631743 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
62631759 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
62631824 CCGG
66 CCGG
62631828 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:62631769 original size:40 final size:38
Alignment explanation
Indices: 62631720--62631827 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
62631710 ATCACGATTT
*
62631720 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
62631760 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
62631800 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
62631828 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:62647255 original size:28 final size:28
Alignment explanation
Indices: 62647199--62647306 Score: 132
Period size: 28 Copynumber: 3.9 Consensus size: 28
62647189 CTGCCAGAAT
* * * *
62647199 AGATA-TTGTGACAGAGTCACTAGATAC
1 AGATATTTGTGGCAGAGCCACCAGAAAC
*
62647226 AGATAATTGTGGCAG-GACCACCAGAAAC
1 AGATATTTGTGGCAGAG-CCACCAGAAAC
*
62647254 AGATATTTGTGGCAGAGCCACCAG-ATC
1 AGATATTTGTGGCAGAGCCACCAGAAAC
62647281 AGATATTTGTGGCAGAGCCACCAGAA
1 AGATATTTGTGGCAGAGCCACCAGAA
62647307 TGCTACCTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
27 32 0.45
28 38 0.54
29 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (28 bp):
AGATATTTGTGGCAGAGCCACCAGAAAC
Found at i:62647278 original size:22 final size:24
Alignment explanation
Indices: 62647252--62647303 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 24
62647242 ACCACCAGAA
62647252 ACAGATATTTGTGGCAGAGCCACC
1 ACAGATATTTGTGGCAGAGCCACC
62647276 AGATCAGATATTTGTGGCAGAGCCACC
1 --A-CAGATATTTGTGGCAGAGCCACC
62647303 A
1 A
62647304 GAATGCTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 1 0.04
26 1 0.04
27 23 0.92
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (24 bp):
ACAGATATTTGTGGCAGAGCCACC
Found at i:62647284 original size:55 final size:55
Alignment explanation
Indices: 62647199--62647306 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
62647189 CTGCCAGAAT
* *
62647199 AGATATTGTGACAGAGTCACTAGATACAGATAATTGTGGCAG-GACCACCAGAAAC
1 AGATATTGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAG-CCACCAGAAAC
* *
62647254 AGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACCAGAA
1 AGATA-TTGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCACCAGAA
62647307 TGCTACCTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 29 0.62
56 18 0.38
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (55 bp):
AGATATTGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCACCAGAAAC
Found at i:62650301 original size:39 final size:39
Alignment explanation
Indices: 62650237--62650352 Score: 189
Period size: 39 Copynumber: 3.0 Consensus size: 39
62650227 AGTGATGAAG
*
62650237 TATATCCGGACTTAAAGT-CGACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCG-CAGGCTATGTGCTGGAAT
62650276 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
62650315 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
62650353 ATATGTCTGA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
39 71 0.97
40 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:62650376 original size:78 final size:78
Alignment explanation
Indices: 62650237--62650380 Score: 175
Period size: 78 Copynumber: 1.8 Consensus size: 78
62650227 AGTGATGAAG
* * * * **
62650237 TATATCCGGACTTAAAGTCGACAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGC
1 TATAACCGGACTTAAAGTCGACAGGCTACGTGCTGGAAATATATCCGGACTAAAGCCCCGCAGGC
62650302 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * *
62650315 TATAACCGGACTTAAGGTCCG-CAGGCTACGTGCTGGAAATATGT-CTGAGCTAAAGCCCCGCAG
1 TATAACCGGACTTAAAGT-CGACAGGCTACGTGCTGGAAATATATCCGGA-CTAAAGCCCCGCAG
62650378 GCT
64 GCT
62650381 TCGAGCTGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
77 3 0.05
78 50 0.91
79 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TATAACCGGACTTAAAGTCGACAGGCTACGTGCTGGAAATATATCCGGACTAAAGCCCCGCAGGC
TATGTGCTGGAAT
Found at i:62650389 original size:78 final size:78
Alignment explanation
Indices: 62650237--62650400 Score: 174
Period size: 78 Copynumber: 2.1 Consensus size: 78
62650227 AGTGATGAAG
* * * * **
62650237 TATATCCGGACTTAAAGTCGACAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGC
1 TATAACCGGACTTAAAGTCGACAGGCTACGTGCTGGAAATATATCCGGACTAAAGCCCCGCAGGC
*
62650302 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * *
62650315 TATAACCGGACTTAAGGTCCG-CAGGCTACGTGCTGGAAATATGT-CTGAGCTAAAGCCCCGCAG
1 TATAACCGGACTTAAAGT-CGACAGGCTACGTGCTGGAAATATATCCGGA-CTAAAGCCCCGCAG
*
62650378 GCT-TCGAGCTGGTAT
64 GCTAT-GAGCTGGAAT
62650393 TAT-ACCGG
1 TATAACCGG
62650401 GTTTAAATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
77 9 0.12
78 61 0.85
79 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
TATAACCGGACTTAAAGTCGACAGGCTACGTGCTGGAAATATATCCGGACTAAAGCCCCGCAGGC
TATGAGCTGGAAT
Found at i:62652520 original size:40 final size:40
Alignment explanation
Indices: 62652450--62652745 Score: 474
Period size: 40 Copynumber: 7.5 Consensus size: 40
62652440 AAGCCAAGTA
* * * * *
62652450 CCTTCGGGATTTA-ACCGAATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
62652489 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
62652529 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
62652569 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
62652609 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
62652649 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
62652689 CCTTCGGGACTTAGCCCGAATATAGTAACT--CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
62652727 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
62652746 TTATCATCCA
Statistics
Matches: 243, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
38 26 0.11
39 12 0.05
40 205 0.84
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:62657930 original size:40 final size:40
Alignment explanation
Indices: 62657832--62658048 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
62657822 TGGATGATAA
*
62657832 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
62657873 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
62657913 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62657953 CCGGGCTAAGTCCCGAAGGAAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62657993 CC-GGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
62658031 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
62658049 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
37 3 0.02
38 27 0.17
39 16 0.10
40 83 0.53
41 24 0.15
42 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:62659859 original size:39 final size:39
Alignment explanation
Indices: 62659846--62660008 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
62659836 TTATGGTAAC
* *
62659846 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
62659886 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
62659925 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
62659964 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
62660003 CGCACA
1 CGCACA
62660009 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:62667812 original size:39 final size:39
Alignment explanation
Indices: 62667752--62667904 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
62667742 ACGCCCACAA
*
62667752 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* * *
62667792 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACCATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
62667831 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
62667870 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
62667905 TTCATACACA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.92
40 8 0.08
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:62670688 original size:66 final size:68
Alignment explanation
Indices: 62670612--62670761 Score: 225
Period size: 71 Copynumber: 2.2 Consensus size: 68
62670602 TAGTACCACT
*
62670612 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
62670674 CACG
65 CACG
62670678 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
62670743 ATCACG
63 ATCACG
*
62670749 CATGTGACCTAGC
1 CATGCGACCTAGC
62670762 TACTACGGGT
Statistics
Matches: 76, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
66 13 0.17
67 6 0.08
68 1 0.01
69 1 0.01
71 55 0.72
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:62678177 original size:66 final size:68
Alignment explanation
Indices: 62678101--62678250 Score: 225
Period size: 71 Copynumber: 2.2 Consensus size: 68
62678091 TAGTACCACT
*
62678101 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
62678163 CACG
65 CACG
62678167 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
62678232 ATCACG
63 ATCACG
*
62678238 CATGTGACCTAGC
1 CATGCGACCTAGC
62678251 TACTACAGGG
Statistics
Matches: 76, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
66 13 0.17
67 6 0.08
68 1 0.01
69 1 0.01
71 55 0.72
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:62678286 original size:71 final size:71
Alignment explanation
Indices: 62678119--62678279 Score: 234
Period size: 71 Copynumber: 2.3 Consensus size: 71
62678109 CTAGCCGATT
62678119 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
** *
62678184 TTTATC
66 TACAGC
* * *
62678190 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTAC-
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
*
62678254 TACAGGG
66 TACA-GC
*
62678261 TGTCTCGTAGCTTTCTTGT
1 TGTCTCGTAGCTCTCTTGT
62678280 ACACATGATG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
70 2 0.03
71 77 0.97
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (71 bp):
TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
TACAGC
Found at i:62684337 original size:47 final size:49
Alignment explanation
Indices: 62684274--62684441 Score: 165
Period size: 47 Copynumber: 3.6 Consensus size: 49
62684264 ATTATGAGAA
62684274 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCCAGA-A-GGGGG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACA-CCAGATATGGGGG
* * *
62684322 CTAGTGTAAGA-CATGTCTGGGACAT-GCAT--A-AGCCATATTATGAGGG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACA-CCAGA-TATGGGGG
** * * *
62684368 CCAGTGTAAGATAATGTCTGGGACATGGCATCGGCA-CAGAGATGGGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCAGATATGGGGG
*
62684416 CCAGAGTAAGA-CATGTCTGGGACATG
1 CCAGTGTAAGACCATGTCTGGGACATG
62684442 CATTGGCCTT
Statistics
Matches: 99, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 1 0.01
46 18 0.18
47 41 0.41
48 29 0.29
49 3 0.03
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (49 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCAGATATGGGGG
Found at i:62684391 original size:94 final size:92
Alignment explanation
Indices: 62684230--62684587 Score: 357
Period size: 94 Copynumber: 3.8 Consensus size: 92
62684220 TTTGTGCGCC
* * * *
62684230 AGTGTAAGACATGTCTGGGATATGCTTCAGCTACATTATGAGAACCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
*
62684295 GACATGGCATCGACATCCAGAAGGGGGCT
66 GACATGGCATCGACA--CAGAAGGGTGCT
* * * **
62684324 AGTGTAAGACATGTCTGGGACATGCATAAGCCATATTATGAGGGCCAGTGTAAGATAATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
62684389 GACATGGCATCGGCACAGAGATGGGTGCC
66 GACATGGCATCGACACAGA-A-GGGTGCT
* ** *** * *
62684418 AGAGTAAGACATGTCTGGGACATGCATTGGCCTTGTCA-GAGATAGCCAGTGTAAGA-CGTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAG--AGCCAGTGTAAGACCATGTCT
* * * *
62684481 GGGACA-CGCATC-AGCAAAG-AGTTGTACT
64 GGGACATGGCATCGA-CACAGAAG-GGTGCT
*
62684509 AGTGTAAGACATGTCTGGGACATGCATCAGCACACATATATGAGATCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAGAGCCAGTGTAAGACCATGTCT
*
62684574 GAGACATGGCATCG
64 GGGACATGGCATCG
62684588 GCAATATATC
Statistics
Matches: 214, Mismatches: 38, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
90 1 0.00
91 32 0.15
92 18 0.08
93 25 0.12
94 126 0.59
95 12 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACACAGAAGGGTGCT
Found at i:62686269 original size:19 final size:19
Alignment explanation
Indices: 62686245--62686286 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
62686235 TTCAAGTCAT
62686245 ATAAATCAAGCAAACATCA
1 ATAAATCAAGCAAACATCA
62686264 ATAAATCAAGCAAACATCA
1 ATAAATCAAGCAAACATCA
62686283 ATAA
1 ATAA
62686287 CATGTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.19, G:0.05, T:0.17
Consensus pattern (19 bp):
ATAAATCAAGCAAACATCA
Found at i:62689995 original size:31 final size:31
Alignment explanation
Indices: 62689954--62690032 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
62689944 TTTAACAGTT
* *
62689954 ACTGGACCGAAGCCTTTTCATAAATTATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
62689985 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
62690016 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
62690033 ACTGTAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:62690103 original size:42 final size:42
Alignment explanation
Indices: 62690056--62690147 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
62690046 TGGCCCATAG
* ** *
62690056 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
62690098 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
62690140 GCCCATTT
1 GCCCATTT
62690148 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:62690363 original size:26 final size:26
Alignment explanation
Indices: 62690292--62690440 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
62690282 CCTCTTTAAT
*
62690292 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
62690317 AACTGAGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
62690342 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
62690368 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
62690394 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
62690420 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
62690441 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 30 0.27
26 82 0.73
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:62690398 original size:52 final size:52
Alignment explanation
Indices: 62690292--62690440 Score: 266
Period size: 52 Copynumber: 2.9 Consensus size: 52
62690282 CCTCTTTAAT
* *
62690292 AACTAGGGCA-AAGCCCTTTTCGGTAAACTGAGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
62690342 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
62690394 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
62690441 GCACTTCCTC
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 9 0.09
51 24 0.25
52 62 0.65
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:62691278 original size:27 final size:26
Alignment explanation
Indices: 62691242--62691323 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
62691232 AGGGCATATT
* *
62691242 CGTCATTTTACCATACAGGGG-TATTA
1 CGTCACTTTACCCTACAGGGGCT-TTA
*
62691268 CTGTCACTTTACCCTATAGGGGCTTTA
1 C-GTCACTTTACCCTACAGGGGCTTTA
*
62691295 CGATCACTTTACCCTACAAGGGCTTTA
1 CG-TCACTTTACCCTACAGGGGCTTTA
62691322 CG
1 CG
62691324 GTCTTTTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.04
27 45 0.94
28 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (26 bp):
CGTCACTTTACCCTACAGGGGCTTTA
Found at i:62691421 original size:27 final size:28
Alignment explanation
Indices: 62691388--62691473 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 28
62691378 GTAAATCTAC
62691388 AAGCCAAGGGTATTTCAGTAATTTTGTA
1 AAGCCAAGGGTATTTCAGTAATTTTGTA
* *
62691416 AA-CCAATGATATTTCTA-TAATTTT-TAGA
1 AAGCCAAGGGTATTTC-AGTAATTTTGT--A
* **
62691444 AAGTCAAGGGTATTTTTGTAATTTTGTA
1 AAGCCAAGGGTATTTCAGTAATTTTGTA
62691472 AA
1 AA
62691474 TTAGGGGTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
26 1 0.02
27 18 0.40
28 9 0.20
29 16 0.36
30 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (28 bp):
AAGCCAAGGGTATTTCAGTAATTTTGTA
Found at i:62691485 original size:56 final size:55
Alignment explanation
Indices: 62691392--62691521 Score: 129
Period size: 56 Copynumber: 2.4 Consensus size: 55
62691382 ATCTACAAGC
* * *
62691392 CAAGGGTATTTCAGTAATTTTGTAAACCAATGATATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTTTAGTAATTTTGTAAACCAAGGATATTT-TGATAA-TTTTACAAAGT
* ** * * * *
62691448 CAAGGGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTTAGTAATTTTGTAAACCAAGGATATTTTGATAATTTTACAAAGT
*
62691503 C-AGGGTATTTTGGTAATTT
1 CAAGGGTATTTTAGTAATTT
62691522 CACAAACCAG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 17 0.27
55 11 0.18
56 34 0.55
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (55 bp):
CAAGGGTATTTTAGTAATTTTGTAAACCAAGGATATTTTGATAATTTTACAAAGT
Found at i:62691491 original size:27 final size:27
Alignment explanation
Indices: 62691451--62691570 Score: 134
Period size: 27 Copynumber: 4.4 Consensus size: 27
62691441 AGAAAGTCAA
* ** *
62691451 GGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
62691478 GGGTATTTTGGTAATTTTACAAATTCA-
1 GGGTATTTTGGTAATTTTACAAACT-AG
* *
62691505 GGGTATTTTGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
62691532 TGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
62691559 TGGTATTTTGGT
1 GGGTATTTTGGT
62691571 GATTCTACCC
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 79 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.46
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:62691590 original size:81 final size:81
Alignment explanation
Indices: 62691452--62691607 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
62691442 GAAAGTCAAG
* * * * **
62691452 GGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTCAGGGTATTTTGGT
1 GGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTCTACAAATTCAGGGTATTTCAGT
62691517 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* * **
62691533 GGTATTTTGGTAATTTTATAAACTAGTGGTATTTTGGTGATTCTAC-CCTAT-AGGGGTATTTCA
1 GGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTCTACAAAT-TCA-GGGTATTTCA
62691596 GTAATTTCACAA
64 GTAATTTCACAA
62691608 TCGAGGGTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.97
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.44
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTCTACAAATTCAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:62691652 original size:26 final size:26
Alignment explanation
Indices: 62691597--62691680 Score: 107
Period size: 26 Copynumber: 3.2 Consensus size: 26
62691587 GGTATTTCAG
**
62691597 TAATTTCACAATCGAGGGTAAAACGG
1 TAATTTCACAATCGAGGGTAAAACAA
62691623 TAATTTCACAATCGAGGGTAAAACAA
1 TAATTTCACAATCGAGGGTAAAACAA
* *
62691649 TAATTTTGTA-AATCAAGGGTAAAACAA
1 TAA-TTT-CACAATCGAGGGTAAAACAA
62691676 TAATT
1 TAATT
62691681 CTATAAATCG
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 29 0.56
27 22 0.42
28 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (26 bp):
TAATTTCACAATCGAGGGTAAAACAA
Found at i:62691670 original size:27 final size:27
Alignment explanation
Indices: 62691606--62691696 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
62691596 GTAATTTCAC
** *
62691606 AATCGAGGGTAAAACGGTAATT-TCA-C
1 AATCGAGGGTAAAACAATAATTCT-ATA
* *
62691632 AATCGAGGGTAAAACAATAATTTTGTA
1 AATCGAGGGTAAAACAATAATTCTATA
*
62691659 AATCAAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACAATAATTCTATA
62691686 AATCGAGGGTA
1 AATCGAGGGTA
62691697 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 20 0.36
27 35 0.64
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (27 bp):
AATCGAGGGTAAAACAATAATTCTATA
Found at i:62694495 original size:48 final size:48
Alignment explanation
Indices: 62694424--62694745 Score: 319
Period size: 48 Copynumber: 6.7 Consensus size: 48
62694414 TGACACGTGT
* *
62694424 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTA-T
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATG-AGA
* * * *
62694472 GCCAGTGTAAGACCATGTTTGGGACATGGCATCAGTATTGATATGTGT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGA
* * * * * * *
62694520 GCTAATGTAAGATCATGTCTGGGACATGGCATTAGCCA--CATCATGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCA-TCGGCATTGAT-ATGAGA
* * * *
62694568 GCCAGTGTAAGACCATGTTTGGAATATGGCATCGACGA-TGTTATGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATTGATATGAGA
* *
62694616 GCCAGTGTAAGACCATGTTTAGGACATGGCATCGGCATTGAGATGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGA
* * * * * * * *
62694664 GCTAGAGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGA
* *
62694712 GCCAATGTAAGACCATGTTTGGAACATGGCATCG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG
62694746 ACAATTCACT
Statistics
Matches: 223, Mismatches: 45, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
47 6 0.03
48 214 0.96
49 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGA
Found at i:62694684 original size:144 final size:144
Alignment explanation
Indices: 62694424--62694748 Score: 417
Period size: 144 Copynumber: 2.3 Consensus size: 144
62694414 TGACACGTGT
* * * *
62694424 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTATGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATATGTAAGCCAGTGTAAGACCATG
* * * * * *
62694489 TTTGGGACATGGCATCAGTATTGATATGTGTGCTAATGTAAGATCATGTCTGGGACATGGCATTA
66 TTTAGGACATGGCATCAGCATTGAGATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCA-TA
62694554 G-CCAC-ATCATGAGA
130 GACCACGA-CATGAGA
* *
62694568 GCCAGTGTAAGACCATGTTTGGAATATGGCATCGACGA-TGTTATG-AGAGCCAGTGTAAGACCA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGAC-ATTGATATGTA-AGCCAGTGTAAGACCA
*
62694631 TGTTTAGGACATGGCATCGGCATTGAGATGAGAGCTAGA-GTAAGACCATGTCTGGGACATGGCA
64 TGTTTAGGACATGGCATCAGCATTGAGATGAGAGCTA-ATGTAAGACCATGTCTGGGACATGGCA
* * *
62694695 TCGACCTCGACATGTGA
128 TAGACCACGACATGAGA
*
62694712 GCCAATGTAAGACCATGTTTGGAACATGGCATCGACA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACA
62694749 ATTCACTCTT
Statistics
Matches: 158, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
143 4 0.03
144 151 0.96
145 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (144 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATATGTAAGCCAGTGTAAGACCATG
TTTAGGACATGGCATCAGCATTGAGATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATAG
ACCACGACATGAGA
Found at i:62695013 original size:18 final size:18
Alignment explanation
Indices: 62694990--62695024 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62694980 GGTTATACTT
*
62694990 GTGATATATAAGCATGTA
1 GTGATATATAACCATGTA
*
62695008 GTGATATTTAACCATGT
1 GTGATATATAACCATGT
62695025 TCACCAGAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGATATATAACCATGTA
Found at i:62696180 original size:25 final size:25
Alignment explanation
Indices: 62696148--62696196 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
62696138 ACTTCAAGAT
62696148 AAGCTCTTATACAGAGGAGAAATAA
1 AAGCTCTTATACAGAGGAGAAATAA
* *
62696173 AAGCTCTTGTACAGAGGAGGAATA
1 AAGCTCTTATACAGAGGAGAAATA
62696197 GACCCTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.20
Consensus pattern (25 bp):
AAGCTCTTATACAGAGGAGAAATAA
Found at i:62701179 original size:36 final size:36
Alignment explanation
Indices: 62701132--62701203 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
62701122 AATTTTTTGA
*
62701132 CTTCAAATTTGTTGTTCTAAAACCATTGTTCCGTTT
1 CTTCAAATTTGTGGTTCTAAAACCATTGTTCCGTTT
62701168 CTTCAAATTTGTGGTTCTAAAACCATTGTTCCGTTT
1 CTTCAAATTTGTGGTTCTAAAACCATTGTTCCGTTT
62701204 AGGCCCTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.46
Consensus pattern (36 bp):
CTTCAAATTTGTGGTTCTAAAACCATTGTTCCGTTT
Found at i:62702209 original size:14 final size:14
Alignment explanation
Indices: 62702190--62702217 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62702180 TAGGATGAGC
62702190 ATTCAATTAGCAGA
1 ATTCAATTAGCAGA
62702204 ATTCAATTAGCAGA
1 ATTCAATTAGCAGA
62702218 TAAAACTATA
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:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
ATTCAATTAGCAGA
Found at i:62708449 original size:29 final size:29
Alignment explanation
Indices: 62708410--62708488 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
62708400 CTTAATAATC
*
62708410 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
62708440 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
62708469 AGCCCGCACACTTTGTGCCA
1 AACCCGCACACTTAGTGCCA
62708489 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:62710918 original size:40 final size:40
Alignment explanation
Indices: 62710873--62711002 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
62710863 CGGAATATAA
62710873 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
62710913 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
62710953 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
62710993 CCGGATATAA
1 CCGGATATAA
62711003 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:62711017 original size:40 final size:39
Alignment explanation
Indices: 62710889--62711039 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
62710879 ATAACCATGT
* * *
62710889 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
62710929 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
62710969 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
62711008 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
62711040 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:62711023 original size:80 final size:79
Alignment explanation
Indices: 62710873--62711039 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
62710863 CGGAATATAA
*
62710873 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
62710938 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
62710953 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
62711015 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
62711032 CCGGATAT
1 CCGGATAT
62711040 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:62719772 original size:29 final size:29
Alignment explanation
Indices: 62719733--62719811 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
62719723 CTTAATAATC
*
62719733 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
62719763 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
62719792 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
62719812 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:62722128 original size:52 final size:52
Alignment explanation
Indices: 62722050--62722154 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
62722040 TACTATATTA
62722050 TTGTTATATTGAAGTCTCAACCCGAGGGTTAAGTACATACTTGTAAAAATTT
1 TTGTTATATTGAAGTCTCAACCCGAGGGTTAAGTACATACTTGTAAAAATTT
62722102 TTGTTATATTGAAGTCTCAACCCGAGGGTTAAGTACATACTTGTAAAAATTT
1 TTGTTATATTGAAGTCTCAACCCGAGGGTTAAGTACATACTTGTAAAAATTT
62722154 T
1 T
62722155 ATCATTCACC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (52 bp):
TTGTTATATTGAAGTCTCAACCCGAGGGTTAAGTACATACTTGTAAAAATTT
Found at i:62730024 original size:37 final size:37
Alignment explanation
Indices: 62729974--62730064 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
62729964 TTATTACGAA
62729974 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
62730011 GTCTTACCCGGACATAATCTCCACACGTAGTCATTGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
62730048 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
62730065 TTTCCAAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 46 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:62730163 original size:48 final size:48
Alignment explanation
Indices: 62730104--62730303 Score: 364
Period size: 48 Copynumber: 4.2 Consensus size: 48
62730094 TGTTACAACA
*
62730104 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
62730152 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
62730200 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
62730248 TTCACATTAGCCATTCAGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
62730296 TTCACATT
1 TTCACATT
62730304 CATCACATCG
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 147 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:62730350 original size:18 final size:18
Alignment explanation
Indices: 62730319--62730354 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
62730309 CATCGGCCAT
*
62730319 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
62730337 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
62730355 CATATCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:62730359 original size:123 final size:123
Alignment explanation
Indices: 62730216--62730461 Score: 474
Period size: 123 Copynumber: 2.0 Consensus size: 123
62730206 TTAGCCCTTC
62730216 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCAGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCAGCTTTACCACATATAC
62730281 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
62730339 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCAGCTTTACCACATATAC
62730404 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
62730462 TACACCTTCA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (123 bp):
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCAGCTTTACCACATATAC
ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:62730525 original size:96 final size:97
Alignment explanation
Indices: 62730418--62730757 Score: 556
Period size: 96 Copynumber: 3.5 Consensus size: 97
62730408 CACACATATG
* *
62730418 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
62730483 TCGGCCATTAGGCCTTATCAC-ATATATACTC
66 TTGGCCATTAGGCCTTATCACAATATATACAC
*
62730514 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
62730579 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TTGGCCATTAGGCCTTATCACA-ATATATACAC
62730612 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACACTTTCACATTCATCA
*
62730677 CATTGGCCATTAGGCCGTATCACATATATATATACAC
64 CATTGGCCATTAGGCCTTATCAC--A-ATATATACAC
*
62730714 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
62730758 CATCTCATAC
Statistics
Matches: 230, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
96 82 0.36
98 46 0.20
100 54 0.23
102 48 0.21
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (97 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACAATATATACAC
Found at i:62730676 original size:51 final size:49
Alignment explanation
Indices: 62730418--62730757 Score: 567
Period size: 49 Copynumber: 6.9 Consensus size: 49
62730408 CACACATATG
*
62730418 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
62730467 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
62730514 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
62730563 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
62730612 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
62730663 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
62730714 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
62730758 CATCTCATAC
Statistics
Matches: 279, Mismatches: 8, Indels: 8
0.95 0.03 0.03
Matches are distributed among these distances:
47 44 0.16
49 136 0.49
51 99 0.35
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:62736011 original size:46 final size:46
Alignment explanation
Indices: 62735944--62736112 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
62735934 TGTAACCCGC
*
62735944 CCATAAGTGAACTCGGACTCAACTCAACGATCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGATCTCAGGCATTCGCAT
* *
62735990 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGATCTCAGGCATTCGC-A--T
* *** *
62736036 ACATCTCTCGAACTCGGACTCAACTCAACGAGT-TCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGA-TCTCAGGCATTCGCAT
62736083 CCATAAGTGAACTCGGACTCAACTCAACGA
1 CCATAAGTGAACTCGGACTCAACTCAACGA
62736113 GTTCGGATAC
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 60 0.59
47 29 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGATCTCAGGCATTCGCAT
Found at i:62736064 original size:93 final size:93
Alignment explanation
Indices: 62735952--62736120 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
62735942 GCCCATAAGT
* *
62735952 GAACTCGGACTCAACTCAACGA-TCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGT-TCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
62736016 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
62736045 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
62736110 CGAGTTCGGAT
66 CGAGCTCGGAT
62736121 ACCAAAATCC
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:62739571 original size:144 final size:144
Alignment explanation
Indices: 62739306--62739580 Score: 372
Period size: 144 Copynumber: 1.9 Consensus size: 144
62739296 TAACACCTGT
* * * * * *
62739306 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCACTGTAAGAATATG
1 GCCAATGTAAGACCATGTCTGGAACATGGCATCGGCAATGATATGAGAGCCACTGTAAGAACATG
** * * *
62739371 CTTGGGACATGGCATCGTTATTGATATGTGTGCTAGTGTAAAACCATGTCTGGGACATAGCATCG
66 CTTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAAACCATGTCTGGGACATAGCATCG
62739436 ATCACATCATAAGA
131 ATCACATCATAAGA
* * * * *
62739450 GCCAATGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGTGAGAGCCAGTGTAAGACCATG
1 GCCAATGTAAGACCATGTCTGGAACATGGCATCGGCAATGATATGAGAGCCACTGTAAGAACATG
* *
62739515 -TCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
66 CT-TGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAAACCATGTCTGGGACATAGCATC
62739579 GA
130 GA
62739581 CCTCGACATG
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
143 1 0.01
144 111 0.99
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (144 bp):
GCCAATGTAAGACCATGTCTGGAACATGGCATCGGCAATGATATGAGAGCCACTGTAAGAACATG
CTTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAAACCATGTCTGGGACATAGCATCG
ATCACATCATAAGA
Found at i:62739603 original size:48 final size:48
Alignment explanation
Indices: 62739306--62739579 Score: 293
Period size: 48 Copynumber: 5.7 Consensus size: 48
62739296 TAACACCTGT
* *
62739306 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGA
* ** ** * *
62739354 GCCACTGTAAGAATATG-CTTGGGACATGGCATCGTTATTGATATGTGT
1 GCCAGTGTAAGACCATGTC-TGGGACATGGCATCGGCATTGATATGAGA
* * * ** *
62739402 GCTAGTGTAAAACCATGTCTGGGACATAGCATC-G-ATCACATCATAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAT-ATGAGA
* * * * * *
62739450 GCCAATGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGA
*
62739498 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGA
*
62739546 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
62739580 ACCTCGACAT
Statistics
Matches: 183, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
46 2 0.01
47 3 0.02
48 174 0.95
49 3 0.02
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGA
Found at i:62741862 original size:27 final size:28
Alignment explanation
Indices: 62741806--62741875 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
62741796 AAACTTGTAC
62741806 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
62741834 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
62741861 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
62741876 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:62741886 original size:27 final size:27
Alignment explanation
Indices: 62741806--62741887 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
62741796 AAACTTGTAC
* *
62741806 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
62741834 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
62741861 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
62741888 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:62746172 original size:40 final size:40
Alignment explanation
Indices: 62745934--62746158 Score: 380
Period size: 40 Copynumber: 5.6 Consensus size: 40
62745924 GGATTGATAC
* *
62745934 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
62745973 TTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
62746014 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
62746054 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
62746094 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
62746134 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
62746159 AGCTAGTAGC
Statistics
Matches: 174, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 173 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:62750968 original size:28 final size:29
Alignment explanation
Indices: 62750870--62750968 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
62750860 TCACAAATTG
* *
62750870 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
62750899 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
62750927 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
62750955 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62750969 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:62756773 original size:19 final size:19
Alignment explanation
Indices: 62756749--62756790 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
62756739 TTTATACATG
62756749 TTATTGATGTTTGCTTGAT
1 TTATTGATGTTTGCTTGAT
62756768 TTATTGATGTTTGCTTGAT
1 TTATTGATGTTTGCTTGAT
62756787 TTAT
1 TTAT
62756791 ATGACTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.05, G:0.19, T:0.60
Consensus pattern (19 bp):
TTATTGATGTTTGCTTGAT
Found at i:62758641 original size:47 final size:45
Alignment explanation
Indices: 62758441--62758804 Score: 209
Period size: 47 Copynumber: 7.8 Consensus size: 45
62758431 TGGGATATAT
* ** * *
62758441 TGCCGATGCCATGTCTCAGACATGGTCTTACACTGGATCTCATATATGTG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGG--C-CCCATCTCTG
* * ** * *
62758491 TGCTGATGCATGTCCCAGACATGTCTTACACTAG-TACAACTCTT
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCCCCATCTCTG
* * * *
62758535 TGCTGATGCGTGTCCCAGACACGTCTTACACTGG--CTATCTCTG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCCCCATCTCTG
* * *
62758578 ACAAGGCCAATGCATGTCCCAGACATGTCTTACTCTGGCACCCATCTCTG
1 ----TGCCGATGCATGTCCCAGACATGTCTTACACTGGC-CCCATCTCTG
* * *
62758628 TGCCGATGCCATGTCCCAGACATTATCTTACACTGGCCCTCATAATATG
1 TGCCGATG-CATGTCCCAGACA-TGTCTTACACTGGCCC-CAT-CTCTG
** * *
62758677 -GCTTATGCATGTCCCAGACATGTCTTACACTAGCCCCCT-TCTGG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCCCCATCTCT-G
* * * **
62758721 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCAT-AATG
1 -TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGG-CCCCATCTCTG
* * *
62758769 TAGCTGAAGCATATCCCAGACATGTCTTACACTGGC
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGC
62758805 GCACAAATCA
Statistics
Matches: 247, Mismatches: 49, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
43 7 0.03
44 36 0.15
45 2 0.01
46 36 0.15
47 84 0.34
48 47 0.19
49 20 0.08
50 15 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCCCCATCTCTG
Found at i:62758693 original size:94 final size:94
Alignment explanation
Indices: 62758441--62758801 Score: 376
Period size: 94 Copynumber: 3.9 Consensus size: 94
62758431 TGGGATATAT
* * *
62758441 TGCCGATGCCATGTCTCAGACATGGTCTTACACTGGATCTCATATATGTGTGCTGATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATATG-GCTGATGCATGTCC
* * *
62758506 CAGACATGTCTTACACTAGTA--CAACTCTT
64 CAGACATGTCTTACACTAGCACCCATCTCTG
* * * * * * **
62758535 TGCTGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-TGACAAGGCCAATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAATATGGCTGATGCATGTCC
* *
62758597 CAGACATGTCTTACTCTGGCACCCATCTCTG
64 CAGACATGTCTTACACTAGCACCCATCTCTG
** * *
62758628 TGCCGATGCCATGTCCCAGACATTATCTTACACTGGCCCTCATAATATGGCTTATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCA
*
62758693 GACATGTCTTACACTAGC-CCCCT-TCTGG
66 GACATGTCTTACACTAGCACCCATCTCT-G
* * * * * *
62758721 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAATGTAGCTGAAGCATATCCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCC
62758786 AGACATGTCTTACACT
65 AGACATGTCTTACACT
62758802 GGCGCACAAA
Statistics
Matches: 219, Mismatches: 39, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
91 30 0.14
92 17 0.08
93 33 0.15
94 127 0.58
95 12 0.05
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACCCATCTCTG
Found at i:62764828 original size:67 final size:71
Alignment explanation
Indices: 62764750--62764907 Score: 173
Period size: 67 Copynumber: 2.3 Consensus size: 71
62764740 CATCATGTGT
* * * ** * *
62764750 ACAAGAAAGCTACGAGACACCCTGTA-GTAGCTAGGTCACATGCGTGATACGAAGTG-A-TC-CC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACC
62764811 ATGTAG
66 ATGTAG
* * * *
62764817 ACAAGAGAGCTACGTGA-AAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACAC
62764881 CATGTAG
65 CATGTAG
62764888 ACAAGAGAGCTACGAGACAA
1 ACAAGAGAGCTACGAGACAA
62764908 ATCGGCTAGG
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
66 3 0.04
67 42 0.58
68 1 0.01
70 1 0.01
71 24 0.33
72 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.18
Consensus pattern (71 bp):
ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACC
ATGTAG
Found at i:62774086 original size:41 final size:40
Alignment explanation
Indices: 62773958--62774109 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
62773948 GGATATAGCT
* * * *
62773958 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
* *
62773997 ACTCACACAAATACCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
*
62774037 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATGTAATA
62774078 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
62774110 TTATCATCCA
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 6 0.06
40 56 0.55
41 39 0.39
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
Found at i:62774099 original size:81 final size:79
Alignment explanation
Indices: 62773958--62774109 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 79
62773948 GGATATAGCT
* *
62773958 ACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATACCTTCGGGACTTA
1 ACTCGCACAATGCCTTCGGGACATAGCCCGGATATAATAACTCACACAAATACCTTCGGGACTTA
62774023 GCCCGGATGTAATA
66 GCCCGGATGTAATA
* * * * *
62774037 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGAATGTAATAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCAC-AATGCCTTCGGGACATAGCCCGG-ATATAATAACTCACACAAATACCTTCGGGACT
62774102 TAGCCCGG
64 TAGCCCGG
62774110 TTATCATCCA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
79 7 0.11
80 21 0.33
81 36 0.56
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (79 bp):
ACTCGCACAATGCCTTCGGGACATAGCCCGGATATAATAACTCACACAAATACCTTCGGGACTTA
GCCCGGATGTAATA
Done.