Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 239 of 770
Found at i:71594263 original size:138 final size:138
Alignment explanation
Indices: 71594121--71594430 Score: 530
Period size: 138 Copynumber: 2.2 Consensus size: 138
71594111 ATGTCTTGAG
*
71594121 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCATAGCCGATGCATGTCCCAGAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCATAGCCAATGCATGTCCCAGAT
**
71594186 ATGTCTTACATTGGCTTACGTCTCAAGGCCAATGCATGTCCTGGACATGTCTTACACTAGCACTC
66 ATGTCTTACATTGGCTTACGTCTCAAGGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTC
71594251 ATCTCAAT
131 ATCTCAAT
71594259 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCATAGCCAATGCATGTCCCAGAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCATAGCCAATGCATGTCCCAGAT
* *
71594324 ATGTCTTACATTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTC
66 ATGTCTTACATTGGCTTACGTCTCAAGGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTC
*
71594389 GTCTCAAT
131 ATCTCAAT
* * * *
71594397 GCTGACGCTATATCCCAGACATGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
71594431 GCTCTCATAA
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 162 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (138 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCATAGCCAATGCATGTCCCAGAT
ATGTCTTACATTGGCTTACGTCTCAAGGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTC
ATCTCAAT
Found at i:71595859 original size:13 final size:14
Alignment explanation
Indices: 71595833--71595861 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
71595823 ACTAACGACG
71595833 AATTAAACCATTAT
1 AATTAAACCATTAT
71595847 AATTAAA-CATTAT
1 AATTAAACCATTAT
71595860 AA
1 AA
71595862 ATATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:71597621 original size:27 final size:27
Alignment explanation
Indices: 71597584--71597675 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
71597574 ATTACCAAAG
* *
71597584 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
71597611 TACGCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
71597638 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
71597665 TACCCTCGATT
1 TACCCTCGATT
71597676 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:71597697 original size:27 final size:26
Alignment explanation
Indices: 71597667--71597809 Score: 110
Period size: 27 Copynumber: 5.3 Consensus size: 26
71597657 TACCGTTTTA
**
71597667 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
71597694 CCCT-ATAGGGTAGAATTACCAAAATAC
1 CCCTGATTGTG-A-AATTACCAAAATAC
* *
71597721 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * *
71597748 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
71597774 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTGAAATTACCAAAATAC
71597802 CCCTGATT
1 CCCTGATT
71597810 TACAAAATTA
Statistics
Matches: 91, Mismatches: 19, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
25 4 0.04
26 6 0.07
27 74 0.81
28 5 0.05
29 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:71597748 original size:54 final size:54
Alignment explanation
Indices: 71597665--71597808 Score: 143
Period size: 54 Copynumber: 2.7 Consensus size: 54
71597655 ATTACCGTTT
* * **
71597665 TACCCTCGA-TTGTGAAATTACTGAAATACCCCT-ATAGGGT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGAT-GGGTGA-AATTACCAAAA
* * * ** *
71597718 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATGGGTGAAATTACCAAAA
71597772 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGAT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGAT
71597809 TTACAAAATT
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
52 1 0.01
53 5 0.07
54 64 0.88
55 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATGGGTGAAATTACCAAAA
Found at i:71597810 original size:27 final size:27
Alignment explanation
Indices: 71597707--71597844 Score: 138
Period size: 27 Copynumber: 5.1 Consensus size: 27
71597697 TATAGGGTAG
71597707 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * *
71597734 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
71597761 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
71597788 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
71597815 AATTA-CAGAAATACCCTTGACTTTCTAA
1 AATTACCA-AAATACCCCTGA-TTTGTAA
71597843 AA
1 AA
71597845 ATTATAGAAA
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.05
27 75 0.82
28 11 0.12
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:71597817 original size:81 final size:81
Alignment explanation
Indices: 71597674--71597829 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
71597664 TTACCCTCGA
* * * **
71597674 TTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCCTAGTTTGTAAAATTA
1 TTGTGAAATTACCGAAATACCCCAATAGGGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA
71597739 CCA-AAATACCACTGGT
66 -CAGAAATACCACTGGT
**
71597755 TTGTGAAATTACCGAAATACCCTCAAT-TTGTAAAATTACCAAAATACCCCT-GATTTACAAAAT
1 TTGTGAAATTACCGAAATACCC-CAATAGGGTAAAATTACCAAAATACCCCTAG-TTTACAAAAT
71597818 TACAGAAATACC
64 TACAGAAATACC
71597830 CTTGACTTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
80 3 0.05
81 59 0.91
82 3 0.05
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (81 bp):
TTGTGAAATTACCGAAATACCCCAATAGGGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA
CAGAAATACCACTGGT
Found at i:71597818 original size:54 final size:55
Alignment explanation
Indices: 71597707--71597887 Score: 165
Period size: 54 Copynumber: 3.3 Consensus size: 55
71597697 TATAGGGTAG
* * * ***
71597707 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
*
71597761 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
* * * * *
71597815 AATTACAGAAATACCCT-TGACTTTCTAAAAATTA-TAGAAATACCA-TTAGTTTACAA
1 AATTACCGAAATACCCTCT-AATTTGT-AAAATTACCA-AAATACCACTGA-TTTACAA
**
71597871 AATTACTAAAATACCCT
1 AATTACCGAAATACCCT
71597888 TGGTTTGTAG
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
54 61 0.58
55 9 0.08
56 36 0.34
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (55 bp):
AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:71597882 original size:27 final size:28
Alignment explanation
Indices: 71597842--71597893 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
71597832 TGACTTTCTA
*
71597842 AAAATTA-TAGAAATACCATTAGTTTAC
1 AAAATTACTAGAAATACCCTTAGTTTAC
*
71597869 AAAATTACTA-AAATACCCTTGGTTT
1 AAAATTACTAGAAATACCCTTAGTTT
71597894 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (28 bp):
AAAATTACTAGAAATACCCTTAGTTTAC
Found at i:71598003 original size:27 final size:26
Alignment explanation
Indices: 71597947--71598010 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
71597937 TCCCCTAATA
* *
71597947 GGTAAAAAGACCGTAAAACCCTTTAG
1 GGTAAAATGACCGTAAAACCCTGTAG
* * *
71597973 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAA-AACCCTGTAG
71598000 GGTAAAATGAC
1 GGTAAAATGAC
71598011 GAATATGTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 14 0.45
27 17 0.55
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
GGTAAAATGACCGTAAAACCCTGTAG
Found at i:71599120 original size:30 final size:30
Alignment explanation
Indices: 71599086--71599163 Score: 113
Period size: 31 Copynumber: 2.6 Consensus size: 30
71599076 TACAGTAAAG
71599086 GCTTCGGCCAGTGATATGATTTATGAAAAA
1 GCTTCGGCCAGTGATATGATTTATGAAAAA
* * *
71599116 GCTTCAGCCCAGTGATATGATTTATTAAAAG
1 GCTTC-GGCCAGTGATATGATTTATGAAAAA
71599147 GCTTCGGCCAGT-ATATG
1 GCTTCGGCCAGTGATATG
71599164 TCGAGACTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 5 0.12
30 11 0.26
31 27 0.63
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (30 bp):
GCTTCGGCCAGTGATATGATTTATGAAAAA
Found at i:71599213 original size:33 final size:34
Alignment explanation
Indices: 71599169--71599233 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
71599159 ATATGTCGAG
*
71599169 ACTGAATTAGGGCTTAGGCCCATACTGTACTGTT
1 ACTGAATTAGGGCTTAGGCCCAGACTGTACTGTT
* *
71599203 ACTGAA-TAGGGCTTTGGCCCAGATTGTACTG
1 ACTGAATTAGGGCTTAGGCCCAGACTGTACTG
71599234 ACACTGTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 22 0.79
34 6 0.21
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (34 bp):
ACTGAATTAGGGCTTAGGCCCAGACTGTACTGTT
Found at i:71601278 original size:25 final size:25
Alignment explanation
Indices: 71601249--71601296 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
71601239 CTATAACATG
* * *
71601249 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
71601274 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
71601297 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:71601380 original size:11 final size:11
Alignment explanation
Indices: 71601344--71601399 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
71601334 CATGGTATGT
71601344 ATGATATGCAC
1 ATGATATGCAC
* *
71601355 ATGACATG--T
1 ATGATATGCAC
71601364 ATGATATGCAC
1 ATGATATGCAC
*
71601375 ATGATATG--T
1 ATGATATGCAC
71601384 ATGATATGCAC
1 ATGATATGCAC
71601395 ATGAT
1 ATGAT
71601400 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:71601399 original size:20 final size:20
Alignment explanation
Indices: 71601333--71601399 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
71601323 ATTTTGATAA
*
71601333 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
71601353 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
71601373 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71601393 ACATGAT
1 ACATGAT
71601400 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71601504 original size:24 final size:23
Alignment explanation
Indices: 71601448--71601599 Score: 223
Period size: 24 Copynumber: 6.4 Consensus size: 23
71601438 GAGGAAGTGA
*
71601448 AAAAGGGCTTGTGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
71601471 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
71601494 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
71601518 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
71601542 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
71601566 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
71601590 AAAAGAGGCT
1 AAAAG-GGCT
71601600 AGGCCTCCTG
Statistics
Matches: 120, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 42 0.35
24 74 0.62
25 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:71601517 original size:47 final size:46
Alignment explanation
Indices: 71601448--71601599 Score: 223
Period size: 47 Copynumber: 3.2 Consensus size: 46
71601438 GAGGAAGTGA
*
71601448 AAAAGGGCTTGTGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
71601494 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
71601542 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA-T
71601590 AAAAGAGGCT
1 AAAAG-GGCT
71601600 AGGCCTCCTG
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
47 64 0.67
48 27 0.28
49 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:71601564 original size:71 final size:71
Alignment explanation
Indices: 71601448--71601599 Score: 259
Period size: 71 Copynumber: 2.1 Consensus size: 71
71601438 GAGGAAGTGA
*
71601448 AAAAGGGCTTGTGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
71601513 GTTATC
66 GTTATC
* *
71601519 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
71601584 GTTATT
66 GTTATC
71601590 AAAAGAGGCT
1 AAAAG-GGCT
71601600 AGGCCTCCTG
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 72 0.95
72 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:71601859 original size:29 final size:31
Alignment explanation
Indices: 71601805--71601866 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
71601795 CGTTTACAGT
71601805 AAAGGCTTCGGCCCAGTAATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATGTGA
**
71601835 AAAGGCTTCGG-CCAGTGTTATGAAATGTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATGTGA
71601865 AA
1 AA
71601867 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATGTGA
Found at i:71607056 original size:6 final size:6
Alignment explanation
Indices: 71607028--71607145 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
71607018 AAGAAACATT
* * *
71607028 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATTAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
71607077 ATCAGA ATCA-A TATCAGGTA A-C-GA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
71607127 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
71607146 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
4 2 0.02
5 8 0.09
6 65 0.75
7 7 0.08
8 4 0.05
9 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:71607074 original size:31 final size:30
Alignment explanation
Indices: 71607036--71607145 Score: 134
Period size: 31 Copynumber: 3.6 Consensus size: 30
71607026 TTATCAGAAC
*
71607036 TAGAATCAAAATCAGAATCAGAATTAGGTGA
1 TAGAATCAAAATCAGAATCAGAATCAGGT-A
*
71607067 TAGAATCAGAATCAGAATCA-ATATCAGGTA
1 TAGAATCAAAATCAGAATCAGA-ATCAGGTA
*
71607097 -ACGAATCAAAATCAGAATCAGTATCAGGTAA
1 TA-GAATCAAAATCAGAATCAGAATCAGGT-A
*
71607128 CAGAATCAAAATCAGAAT
1 TAGAATCAAAATCAGAAT
71607146 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
29 1 0.01
30 26 0.37
31 42 0.60
32 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (30 bp):
TAGAATCAAAATCAGAATCAGAATCAGGTA
Found at i:71607347 original size:26 final size:27
Alignment explanation
Indices: 71607302--71607357 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
71607292 GTCACAGAGT
* *
71607302 CACCAGATATAGATATTGTGGCAAAGC
1 CACCAGATACAGATAATGTGGCAAAGC
71607329 CACCAGA-ACAGATAATGTGGCAAAGC
1 CACCAGATACAGATAATGTGGCAAAGC
71607355 CAC
1 CAC
71607358 TTAACAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAAGC
Found at i:71607552 original size:22 final size:22
Alignment explanation
Indices: 71607517--71607579 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
71607507 CAAATATGTT
71607517 TGGCACACAA-CCATAATCAGGA
1 TGGCACA-AAGCCATAATCAGGA
* * *
71607539 TGGCACAGAGCCAT-ATGTAGGT
1 TGGCACAAAGCCATAAT-CAGGA
*
71607561 TGACACAAAGCCATAATCA
1 TGGCACAAAGCCATAATCA
71607580 AAAGGCTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
21 3 0.09
22 27 0.84
23 2 0.06
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (22 bp):
TGGCACAAAGCCATAATCAGGA
Found at i:71608065 original size:27 final size:27
Alignment explanation
Indices: 71608007--71608272 Score: 331
Period size: 27 Copynumber: 10.0 Consensus size: 27
71607997 GGGGCAAAAT
* * * *
71608007 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71608033 GGTAATTCCACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71608060 AGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71608087 GATAATTCTA-CCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71608113 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71608140 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
71608167 ATTAATTCTA-CTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71608193 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71608220 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
71608247 GGTATTTCTACCCTACAATGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
71608273 TAGTAATTTT
Statistics
Matches: 207, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
26 61 0.29
27 146 0.71
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:71608065 original size:53 final size:53
Alignment explanation
Indices: 71608008--71608280 Score: 311
Period size: 53 Copynumber: 5.1 Consensus size: 53
71607998 GGGCAAAATG
* * * * *
71608008 GTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACCCTACAGGGATATTTTA
1 GTAATTCTACCCTACAGGGGTAT-TCGGTAATTCTACCCTACAGGGGTATTTTA
* *
71608061 GTAATTCTACCCTACAGGGGTATTGCGATAATTCTA-CCTACAGGGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATT-CGGTAATTCTACCCTACAGGGGTATTTTA
**
71608113 GATAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTGCA
1 G-TAATTCTACCCTACAGGGGTATT-CGGTAATTCTACCCTACAGGGGTATTTTA
* * **
71608168 TTAATTCTA-CTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTA-TTCGGTAATTCTACCCTACAGGGGTATTTTA
* * **
71608221 GTAATTTTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAATGGTATTTTA
1 GTAATTCTACCCTACAGGGGTA-TTCGGTAATTCTACCCTACAGGGGTATTTTA
71608275 GTAATT
1 GTAATT
71608281 TTGTAAATCG
Statistics
Matches: 189, Mismatches: 24, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
52 4 0.02
53 104 0.55
54 80 0.42
55 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (53 bp):
GTAATTCTACCCTACAGGGGTATTCGGTAATTCTACCCTACAGGGGTATTTTA
Found at i:71608128 original size:80 final size:80
Alignment explanation
Indices: 71608025--71608272 Score: 345
Period size: 80 Copynumber: 3.1 Consensus size: 80
71608015 TACCCCACAA
* * * **
71608025 GGTATCTCGGTAATTCCACCCTACAGGGATATTTTAGTAATTCTACCCTACAGGGGTATTGCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGAT
71608090 AATTCTACCTACAGG
66 AATTCTACCTACAGG
* *
71608105 GGTATTTCGATAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTGC-AT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGA-
*
71608169 TAATTCTACTTACAGG
65 TAATTCTACCTACAGG
* * *
71608185 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGAT
* **
71608250 ATTTCTACCCTACAAT
66 AATTCTA-CCTACAGG
71608266 GGTATTT
1 GGTATTT
71608273 TAGTAATTTT
Statistics
Matches: 148, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.01
80 135 0.91
81 12 0.08
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (80 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGAT
AATTCTACCTACAGG
Found at i:71608360 original size:27 final size:27
Alignment explanation
Indices: 71608330--71608394 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
71608320 GGTACTTTGG
71608330 TAATTTTACAAGTCGAGAGTATTTCAA
1 TAATTTTACAAGTCGAGAGTATTTCAA
* * *
71608357 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGAGTATTTCAA
*
71608384 TAATTTCACAA
1 TAATTTTACAA
71608395 ATCAGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGAGTATTTCAA
Found at i:71608403 original size:27 final size:27
Alignment explanation
Indices: 71608373--71608659 Score: 353
Period size: 27 Copynumber: 10.6 Consensus size: 27
71608363 TACAGGTCGA
** *
71608373 GGGTATTTCAGTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
71608400 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
71608427 GGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
71608454 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
71608481 GGGTATTTTTGGTAATTTTATAAACAAA
1 GGGTA-TTTTGGTAATTTTACAAACTAG
* *
71608509 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
71608536 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
71608563 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * *
71608590 TGGTATTTTGGTGA-TTTATAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
71608616 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
71608643 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
71608660 GGTAAATTAA
Statistics
Matches: 223, Mismatches: 34, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 20 0.09
27 178 0.80
28 25 0.11
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:71608433 original size:81 final size:81
Alignment explanation
Indices: 71608319--71608659 Score: 348
Period size: 81 Copynumber: 4.2 Consensus size: 81
71608309 TGTAAATTAA
* * * * * ** * *
71608319 GGGTACTTTGGTAATTTTAC-AAGTCGAGAGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAATAATTTTACAAATCAAGGGTATTTTA
*
71608383 GTAATTTCACAAA-TCAG
65 GTAATTTTACAAACT-AG
* * *
71608400 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAATCAAGGGTATTTTAG
71608465 TAATTTTACAAACTAG
66 TAATTTTACAAACTAG
* * * * * * *
71608481 GGGTATTTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTG
1 GGGTA-TTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAATCAAGGGTATTTTA
** * *
71608546 GTAATTTTGTAAACCAA
65 GTAATTTTACAAACTAG
* * ** * *
71608563 GGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTGGTGA-TTTATAAA-CTAAGGGTATTTTA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAATC-AAGGGTATTTTA
71608626 GTAATTTTACAAACTAG
65 GTAATTTTACAAACTAG
71608643 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
71608660 GGTAAATTAA
Statistics
Matches: 220, Mismatches: 36, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.00
80 47 0.21
81 96 0.44
82 76 0.35
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAATCAAGGGTATTTTAG
TAATTTTACAAACTAG
Found at i:71608539 original size:109 final size:107
Alignment explanation
Indices: 71608400--71608659 Score: 421
Period size: 109 Copynumber: 2.4 Consensus size: 107
71608390 CACAAATCAG
* *
71608400 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
*
71608465 TAATTTTACAAACTAGGGGTATTTTTGGTAATTTTATAAACAAA
66 TAATTTTACAAACCAGGGGTA-TTTTGGTAA-TTTATAAACAAA
* **
71608509 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
* * *
71608574 TAATTTTACAAACCAGTGGTATTTTGGTGATTTATAAACTAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTATAAACAAA
71608616 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
71608660 GGTAAATTAA
Statistics
Matches: 141, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
107 54 0.38
108 8 0.06
109 79 0.56
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (107 bp):
GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
TAATTTTACAAACCAGGGGTATTTTGGTAATTTATAAACAAA
Found at i:71611651 original size:30 final size:29
Alignment explanation
Indices: 71611557--71611658 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
71611547 TATAGTGAAT
* * *
71611557 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
71611586 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
71611614 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
71611644 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
71611659 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:71619541 original size:30 final size:29
Alignment explanation
Indices: 71619447--71619548 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
71619437 TATAGTGAAT
* * *
71619447 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
71619476 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
71619504 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
71619534 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
71619549 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:71622058 original size:17 final size:18
Alignment explanation
Indices: 71622036--71622069 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71622026 CACATCGAAG
71622036 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
71622053 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
71622070 CTTCCATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:71623242 original size:29 final size:28
Alignment explanation
Indices: 71623175--71623269 Score: 118
Period size: 29 Copynumber: 3.3 Consensus size: 28
71623165 AAGTCTACAT
* * *
71623175 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCAAATC
*
71623203 TCATTCATATGGCCCATTAGGTCCAAATC
1 ACATTCATATGGCCCATTAGG-CCAAATC
*
71623232 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGG-CCAAATC
*
71623261 AAATTCATA
1 ACATTCATA
71623270 GTCATGCTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCAAATC
Found at i:71625523 original size:79 final size:80
Alignment explanation
Indices: 71625385--71625594 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 80
71625375 CCTTCGGAAT
* * * * * ***
71625385 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC-AAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
71625448 -AATTGCCTTCGGGTC
66 GAA-TGCCTTCGGGTC
* ** * *
71625463 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCC-GATATAACAACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
71625527 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * * *
71625542 TTAGCCCGTATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
71625595 CATTCCAATG
Statistics
Matches: 107, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
78 4 0.04
79 91 0.85
80 12 0.11
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGTC
Found at i:71625542 original size:39 final size:40
Alignment explanation
Indices: 71625389--71625594 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
71625379 CGGAATTTAA
* * * * *
71625389 CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC-AAGC
1 CCGGATATAATAACTCGCACAATTGCCTTCGGGTCTTAGC
* * * *
71625428 CCGGTTATAGTGACTCGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTCGCACAATTGCCTTCGGGTCTTAGC
* ** * *
71625468 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTCGCACAATTGCCTTCGGGTCTTAGC
*
71625508 CC-GATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
71625547 CCGTATATAATTACTAGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAATAACTCGCACAATTGCCTTCGGGTCTTAGC
71625587 CCGGATAT
1 CCGGATAT
71625595 CATTCCAATG
Statistics
Matches: 138, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
39 63 0.46
40 75 0.54
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:71633483 original size:40 final size:40
Alignment explanation
Indices: 71633396--71633607 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
71633386 CCTTCGGAAT
* * *
71633396 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
71633435 -GAAGCCCGGTTATAGTGACTCGCACAATTGCCTTCGGGTC
1 TTAA-CCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* ** *
71633475 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * *
71633515 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
71633555 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
*
71633595 TTAGCCCGGATAT
1 TTAACCCGGATAT
71633608 CATTCCAATG
Statistics
Matches: 144, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
38 2 0.01
40 140 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
Found at i:71633521 original size:80 final size:80
Alignment explanation
Indices: 71633396--71633607 Score: 248
Period size: 80 Copynumber: 2.7 Consensus size: 80
71633386 CCTTCGGAAT
* * * ** * ***
71633396 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
71633460 -AATTGCCTTCGGGTC
66 GAA-TGCCTTCGGGTC
* ** * *
71633475 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
71633540 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * *
71633555 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
71633608 CATTCCAATG
Statistics
Matches: 110, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 4 0.04
80 104 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGTC
Found at i:71637678 original size:139 final size:136
Alignment explanation
Indices: 71637474--71637758 Score: 452
Period size: 139 Copynumber: 2.1 Consensus size: 136
71637464 TGAGTTAAAT
71637474 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTTTT-CTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
71637539 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
65 GAGTGAGTTCGAATG-TTAACAAAAAGGAAA-TTTGTG-C--TGA-TTCTTGTTGTTATGTGTG-
* *
71637604 GTGTGCATG-AGTA
123 GTGTGAATGAAGCA
71637617 TTCGGCCATGCATGTTG-TTT-TTGGTGA-TGTTTTGATGTTGTTGTGATGAAAGCATGGAGATG
1 TTCGGCCATGCATGTTGTTTTCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGATG
71637679 AGTGAGTTCGAATGTTAACAAAAAGGAAATTTGTGCTGATTCTTGTTGTTATGTGTGGTGTGAAT
66 AGTGAGTTCGAATGTTAACAAAAAGGAAATTTGTGCTGATTCTTGTTGTTATGTGTGGTGTGAAT
71637744 GAAGCA
131 GAAGCA
71637750 TTCGGCCAT
1 TTCGGCCAT
71637759 ATGGGGTATA
Statistics
Matches: 139, Mismatches: 2, Indels: 12
0.91 0.01 0.08
Matches are distributed among these distances:
132 8 0.06
133 30 0.22
134 3 0.02
136 1 0.01
137 6 0.04
138 15 0.11
139 49 0.35
140 7 0.05
142 3 0.02
143 17 0.12
ACGTcount: A:0.22, C:0.09, G:0.29, T:0.39
Consensus pattern (136 bp):
TTCGGCCATGCATGTTGTTTTCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGATG
AGTGAGTTCGAATGTTAACAAAAAGGAAATTTGTGCTGATTCTTGTTGTTATGTGTGGTGTGAAT
GAAGCA
Found at i:71638328 original size:29 final size:29
Alignment explanation
Indices: 71638242--71638361 Score: 154
Period size: 29 Copynumber: 4.2 Consensus size: 29
71638232 TGACGAGATT
* * *
71638242 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* *
71638271 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
71638300 GGCACTAAGTGTGCATGCTGGAAAAATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * *
71638329 --CACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
71638356 GGCACT
1 GGCACT
71638362 GGGTGTGCGA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
27 24 0.29
29 59 0.71
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:71638369 original size:56 final size:58
Alignment explanation
Indices: 71638242--71638361 Score: 154
Period size: 56 Copynumber: 2.1 Consensus size: 58
71638232 TGACGAGATT
* ** ** *
71638242 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAATATATAACACTAAGTGTGCAAGCTGGAAAAATAA
* *
71638300 GGCACTAAGTGTGCATGCTGGAAA-A-ATAACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAATATATAACACTAAGTGTGCAAGCTGGAAAAATAA
71638356 GGCACT
1 GGCACT
71638362 GGGTGTGCGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
56 30 0.56
57 1 0.02
58 23 0.43
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTGGAAATATATAACACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:71645925 original size:29 final size:29
Alignment explanation
Indices: 71645888--71646019 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
71645878 GTGACGAGAT
* *
71645888 TGGCGCTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
71645917 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
71645946 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
** * **
71645975 TAACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
71646004 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
71646020 AGCTCGAAGG
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:71649608 original size:79 final size:81
Alignment explanation
Indices: 71649466--71649648 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
71649456 TACTCGTTCA
* * *
71649466 AATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGA
* *
71649530 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* * **
71649546 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGTACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* *
71649608 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
71649625 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
71649649 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 28 0.32
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:71649648 original size:40 final size:40
Alignment explanation
Indices: 71649464--71649648 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
71649454 GCTACTCGTT
* * *
71649464 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
71649504 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
71649544 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
71649583 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
71649624 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71649649 CATCATTCGA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 77 0.64
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:71657423 original size:49 final size:49
Alignment explanation
Indices: 71657363--71657809 Score: 770
Period size: 49 Copynumber: 9.1 Consensus size: 49
71657353 GTATGAGATA
71657363 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
71657412 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
71657461 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
71657510 AATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
71657559 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
71657608 AATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
71657657 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
71657706 AATATATGTGATAAGGCCTAATGGCCGA-CTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
71657754 TACATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
71657803 TATATAT
1 TATATAT
71657810 ATGTGGTAAA
Statistics
Matches: 376, Mismatches: 21, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 44 0.12
49 332 0.88
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:71657933 original size:37 final size:36
Alignment explanation
Indices: 71657883--71657964 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 36
71657873 AGAAATATGT
71657883 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTACG
1 TCCGGGT-AGACCCGATGACTACGTGTGGAGATTACG
*
71657920 TCCGGGTACGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTA-GACCCGATGACTACGTGTGGAGATTACG
71657957 TCCGGGTA
1 TCCGGGTA
71657965 AGACTTCGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (36 bp):
TCCGGGTAGACCCGATGACTACGTGTGGAGATTACG
Found at i:71659844 original size:40 final size:40
Alignment explanation
Indices: 71659796--71659879 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
71659786 GAGAGTGATA
71659796 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGG
71659836 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGG
71659876 TATC
1 TATC
71659880 GCATTCGTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGG
Found at i:71659886 original size:22 final size:22
Alignment explanation
Indices: 71659858--71659901 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
71659848 GTTCCGAAGA
71659858 GCATTCGTGCTAGTGAGGTATC
1 GCATTCGTGCTAGTGAGGTATC
*
71659880 GCATTCGTGCTAGTGATGTATC
1 GCATTCGTGCTAGTGAGGTATC
71659902 CGGACTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (22 bp):
GCATTCGTGCTAGTGAGGTATC
Found at i:71659915 original size:62 final size:62
Alignment explanation
Indices: 71659818--71659941 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
71659808 GTTCCGAAGA
71659818 GCATTCGTGCTAGTGAGGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGTATC
1 GCATTCGTGCTAGTGAGGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGTATC
* * *
71659880 GCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCTAGTGATGTATC
1 GCATTCGTGCTAGTGAGGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGTATC
71659942 CGGACTAAGT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (62 bp):
GCATTCGTGCTAGTGAGGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGTATC
Found at i:71659935 original size:40 final size:40
Alignment explanation
Indices: 71659880--71660002 Score: 210
Period size: 40 Copynumber: 3.1 Consensus size: 40
71659870 GTGAGGTATC
*
71659880 GCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAGGA
1 GCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGA
71659920 GCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGA
1 GCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGA
* * *
71659960 GCATTCGTGCTAGTGATGTATCCGGGCTAGGTCCCGAAGA
1 GCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGA
71660000 GCA
1 GCA
71660003 ATCATGCTGG
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
GCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGA
Found at i:71659965 original size:102 final size:102
Alignment explanation
Indices: 71659789--71659981 Score: 350
Period size: 102 Copynumber: 1.9 Consensus size: 102
71659779 GAGAATTGAG
71659789 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGTATCCGGACTAAGTTCCG
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGTATCCGGACTAAGTTCCG
71659854 AAGAGCATTCGTGCTAGTGAGGTATCGCATTCGTGCT
66 AAGAGCATTCGTGCTAGTGAGGTATCGCATTCGTGCT
* * *
71659891 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGTATCCGGACTAAGTTCCG
*
71659956 AAGAGCATTCGTGCTAGTGATGTATC
66 AAGAGCATTCGTGCTAGTGAGGTATC
71659982 CGGGCTAGGT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 87 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (102 bp):
AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGTATCCGGACTAAGTTCCG
AAGAGCATTCGTGCTAGTGAGGTATCGCATTCGTGCT
Found at i:71660843 original size:40 final size:40
Alignment explanation
Indices: 71660747--71660857 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 40
71660737 CGAATGGTAT
* * * * *
71660747 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAAA
* * *
71660788 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAA
71660828 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
71660858 ATCACTATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 36 0.60
41 24 0.40
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAA
Found at i:71660870 original size:40 final size:39
Alignment explanation
Indices: 71660747--71660885 Score: 136
Period size: 40 Copynumber: 3.5 Consensus size: 39
71660737 CGAATGGTAT
* * *
71660747 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TCACTAAA
* * * *
71660787 TCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAATCA-CTAAA
*
71660828 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTA-AA
* *
71660868 CCGAGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
71660886 ACAATCGAGA
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 49 0.60
41 30 0.37
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTAAA
Found at i:71663635 original size:49 final size:49
Alignment explanation
Indices: 71663575--71663924 Score: 610
Period size: 49 Copynumber: 7.1 Consensus size: 49
71663565 GTATGAGATA
*
71663575 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
* *
71663624 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
*
71663673 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
* *
71663722 AATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
*
71663771 TATATATGTGATAAGGCCTAATGGCCGACCTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
* *
71663820 AATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
*
71663869 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
71663918 TATATAT
1 TATATAT
71663925 ATGTGGTAAA
Statistics
Matches: 289, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 289 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
Found at i:71664057 original size:37 final size:37
Alignment explanation
Indices: 71663998--71664116 Score: 204
Period size: 37 Copynumber: 3.2 Consensus size: 37
71663988 AGAAATATGT
71663998 TCCGGGTGA-GACCCGATGACTACGTGTGGAGATTACG
1 TCCGGGT-ACGACCCGATGACTACGTGTGGAGATTACG
*
71664035 TCCAGGTACGACCCGATGACTACGTGTGGAGATTACG
1 TCCGGGTACGACCCGATGACTACGTGTGGAGATTACG
*
71664072 TCCGGGTACGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTACGACCCGATGACTACGTGTGGAGATTACG
71664109 TCCGGGTA
1 TCCGGGTA
71664117 AGACTTCGTA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
36 1 0.01
37 77 0.99
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.23
Consensus pattern (37 bp):
TCCGGGTACGACCCGATGACTACGTGTGGAGATTACG
Found at i:71666638 original size:17 final size:18
Alignment explanation
Indices: 71666616--71666649 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71666606 CACATCAAAG
71666616 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
71666633 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
71666650 CTTCCTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:71667826 original size:29 final size:29
Alignment explanation
Indices: 71667764--71667853 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
71667754 TACATCCATG
* *
71667764 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
71667792 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
71667821 CGTATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
71667850 CATA
1 CATA
71667854 GTCATGTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.24
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:71670306 original size:48 final size:47
Alignment explanation
Indices: 71670240--71670533 Score: 160
Period size: 47 Copynumber: 6.3 Consensus size: 47
71670230 GCCATGTTCT
*
71670240 AGACATGGTCTTACACTAGCTCTCGTGTATACGTGCTGATGCATGTCCC
1 AGACAT-GTCTTACACTAGCTCTCATG-ATACGTGCTGATGCATGTCCC
* * * ** *
71670289 AGACATGTCTTACACTAG----CACGAAACTTAGCCAATGCATGTCTC
1 AGACATGTCTTACACTAGCTCTCATGATACGT-GCTGATGCATGTCCC
* * ** * * * *
71670333 AGACACGTCTTACACTGGCTAACATCATCAAG-GCCGATGCATGTCCT
1 AGACATGTCTTACACTAGCTCTCATGAT-ACGTGCTGATGCATGTCCC
* * *
71670380 AGACATGTCTTACACTGGCACTCACCT-CTA--TGCTGATGCCATGTCCC
1 AGACATGTCTTACACTAGCTCTCA--TGATACGTGCTGATG-CATGTCCC
* * * *
71670427 AGACGTGGTCTTACACGAGCTATCATGATGCG-GCTGATGCATGTCCC
1 AGACAT-GTCTTACACTAGCTCTCATGATACGTGCTGATGCATGTCCC
* * * * * *
71670474 AAACACGTCTTACACTAGCCCTCAT-CT-CAATGCCGATGCCATGTCCC
1 AGACATGTCTTACACTAGCTCTCATGATAC-GTGCTGATG-CATGTCCC
71670521 AGACATGGTCTTA
1 AGACAT-GTCTTA
71670534 TACTGGCTTT
Statistics
Matches: 185, Mismatches: 42, Indels: 37
0.70 0.16 0.14
Matches are distributed among these distances:
43 4 0.02
44 31 0.17
45 1 0.01
46 29 0.16
47 69 0.37
48 43 0.23
49 8 0.04
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
AGACATGTCTTACACTAGCTCTCATGATACGTGCTGATGCATGTCCC
Found at i:71670423 original size:47 final size:45
Alignment explanation
Indices: 71670277--71670540 Score: 182
Period size: 47 Copynumber: 5.7 Consensus size: 45
71670267 TATACGTGCT
* ** *
71670277 GATGCATGTCCCAGACATGTCTTACACTAGCACGAAACT-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-TCACTCAATGCC
* * * *
71670321 AATGCATGTCTCAGACACGTCTTACACTGGCTAACATCA-TCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC--AC-TCACTCAATGCC
* * *
71670368 GATGCATGTCCTAGACATGTCTTACACTGGCACTCACCTCTATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA-CTCAATGCC
* *
71670414 GATGCCATGTCCCAGACGTGGTCTTACAC-GAGCTA-TCA-T-GATGCGGC
1 GATG-CATGTCCCAGACAT-GTCTTACACTG-GC-ACTCACTCAATGC--C
* * * *
71670461 TGATGCATGTCCCAAACACGTCTTACACTAGCCCTCATCTCAATGCC
1 -GATGCATGTCCCAGACATGTCTTACACTGGCACTCA-CTCAATGCC
*
71670508 GATGCCATGTCCCAGACATGGTCTTATACTGGC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC
71670541 TTTCACATAA
Statistics
Matches: 171, Mismatches: 29, Indels: 36
0.72 0.12 0.15
Matches are distributed among these distances:
44 30 0.18
45 7 0.04
46 32 0.19
47 67 0.39
48 30 0.18
49 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCACTCAATGCC
Found at i:71670469 original size:94 final size:93
Alignment explanation
Indices: 71670230--71670533 Score: 303
Period size: 94 Copynumber: 3.2 Consensus size: 93
71670220 AGTTGCCGCA
* * * * *
71670230 GCCATGTTCTAGACATGGTCTTACACTAGCTCTCGTGTATACGTGCTGATGCATGTCCCAGACAT
1 GCCATGTCCCAGACATGGTCTTACACGAGCTATCATG-AT-CG-GCTGATGCATGTCCCAGACAT
** *
71670295 GTCTTACACTAGCACGAAACT-TA-GCCAAT
63 GTCTTACACTAGCACTCAACTCTATGCCGAT
* * * * * *
71670324 G-CATGTCTCAGACA-CGTCTTACACTG-GCTAACATCATCAAGGCCGATGCATGTCCTAGACAT
1 GCCATGTCCCAGACATGGTCTTACAC-GAGCTATCATGATC--GGCTGATGCATGTCCCAGACAT
* * *
71670386 GTCTTACACTGGCACTCACCTCTATGCTGAT
63 GTCTTACACTAGCACTCAACTCTATGCCGAT
* * *
71670417 GCCATGTCCCAGACGTGGTCTTACACGAGCTATCATGATGCGGCTGATGCATGTCCCAAACACGT
1 GCCATGTCCCAGACATGGTCTTACACGAGCTATCATGAT-CGGCTGATGCATGTCCCAGACATGT
* * *
71670482 CTTACACTAGCCCTCATCTCAATGCCGAT
65 CTTACACTAGCACTCAACTCTATGCCGAT
71670511 GCCATGTCCCAGACATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTA
71670534 TACTGGCTTT
Statistics
Matches: 169, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
90 1 0.01
91 38 0.22
92 17 0.10
93 15 0.09
94 79 0.47
95 18 0.11
96 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (93 bp):
GCCATGTCCCAGACATGGTCTTACACGAGCTATCATGATCGGCTGATGCATGTCCCAGACATGTC
TTACACTAGCACTCAACTCTATGCCGAT
Found at i:71674037 original size:15 final size:15
Alignment explanation
Indices: 71674019--71674049 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
71674009 TAAAAAATTC
71674019 CAATACAAAACATAT
1 CAATACAAAACATAT
*
71674034 CAATCCAAAACATAT
1 CAATACAAAACATAT
71674049 C
1 C
71674050 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:71683341 original size:27 final size:27
Alignment explanation
Indices: 71683311--71683395 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
71683301 CTAATGGCCG
71683311 ATGTGATGAATGTGAAAATGTATACAT
1 ATGTGATGAATGTGAAAATGTATACAT
** * **
71683338 ATGTGATG-A-G-GCCTAATG---GCCG
1 ATGTGATGAATGTG-AAAATGTATACAT
71683360 ATGTGATGAATGTGAAAATGTATACAT
1 ATGTGATGAATGTGAAAATGTATACAT
71683387 ATGTGATGA
1 ATGTGATGA
71683396 GGCCTAATGG
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
22 9 0.22
23 1 0.02
24 6 0.15
25 6 0.15
26 1 0.02
27 18 0.44
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAATGTATACAT
Found at i:71683359 original size:49 final size:49
Alignment explanation
Indices: 71683285--71683633 Score: 635
Period size: 49 Copynumber: 7.1 Consensus size: 49
71683275 GTACATAATA
*
71683285 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
71683334 ACATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
71683383 ACATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
71683432 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
71683481 ACATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
71683530 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * *
71683579 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
71683628 ATATAT
1 ATATAT
71683634 ATGTGGTAAA
Statistics
Matches: 292, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 292 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (49 bp):
ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:71683757 original size:37 final size:36
Alignment explanation
Indices: 71683702--71683788 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 36
71683692 AACTTGGAAA
*
71683702 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGAGTGGAGAT
71683740 TATGTCCGGGTACGACCCGATGACTACGAGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGAGTGGAGAT
*
71683777 TATGTTCGGGTA
1 TATGTCCGGGTA
71683789 AGACTTCGTA
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:0.18, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGAGTGGAGAT
Found at i:71695261 original size:50 final size:50
Alignment explanation
Indices: 71695202--71695305 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
71695192 ACATACTCAA
71695202 TCAAAATAAACTAACACAAAGGCTAGTCTATACATGCCATAAGTTAGAAT
1 TCAAAATAAACTAACACAAAGGCTAGTCTATACATGCCATAAGTTAGAAT
71695252 TCAAAATAAACTAACACAAAGGCTAGTCTATACATGCCATAAGTTAGAAT
1 TCAAAATAAACTAACACAAAGGCTAGTCTATACATGCCATAAGTTAGAAT
71695302 TCAA
1 TCAA
71695306 CTTATAAAGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (50 bp):
TCAAAATAAACTAACACAAAGGCTAGTCTATACATGCCATAAGTTAGAAT
Found at i:71706165 original size:40 final size:40
Alignment explanation
Indices: 71706112--71706214 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 40
71706102 TGACTAAGAA
*
71706112 TGGCACTTAGTGTGCGGTTTGAAATAGCTTCGACTAAATG
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGACTAAATG
* * *
71706152 TGGCATTTGGTGTGCGATTTGAGATAGCTTCGACTATATATATATG
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGAC----TA-A-ATG
71706198 TGGCACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
71706215 AATATTGAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
40 30 0.59
44 2 0.04
45 1 0.02
46 18 0.35
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGAAATAGCTTCGACTAAATG
Found at i:71706232 original size:28 final size:28
Alignment explanation
Indices: 71706201--71706268 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
71706191 ATATATGTGG
71706201 CACTTAGTGTGCGAAATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTGAGAATGA
* * * *
71706229 CACTTGGTGTGTGAGATATTGAGTATGA
1 CACTTAGTGTGCGAAATATTGAGAATGA
*
71706257 AACTTAGTGTGC
1 CACTTAGTGTGC
71706269 TAGACATCGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.32
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTGAGAATGA
Found at i:71710440 original size:46 final size:46
Alignment explanation
Indices: 71710294--71710510 Score: 154
Period size: 46 Copynumber: 4.7 Consensus size: 46
71710284 GGTGCTAATG
* * * *
71710294 GCATATCCCAGACATGGTTTTACACTGGCTCATATCTCAAGTCGAT
1 GCATATCCCAGACATGGTCTTACACTGGCTTACATCTCAAGCCGAT
* * * * *
71710340 GCCATATCCTAGACATGGTCTTACACTGAC-TATCATTTCGTAGCCAAT
1 G-CATATCCCAGACATGGTCTTACACTGGCTTA-CATCTC-AAGCCGAT
* * * *
71710388 GTATGTCCTAGACAT-GTCTTACACTGGCTTACGTCTCAAGGCCGAT
1 GCATATCCCAGACATGGTCTTACACTGGCTTACATCTCAA-GCCGAT
* * * * * *
71710434 GCATGTCCCAAACAT-GTCTTACACTAGCACTA-ATCTCGATGCCAAT
1 GCATATCCCAGACATGGTCTTACACTGGC-TTACATCTC-AAGCCGAT
* *
71710480 GCCATTTCCAAGACATGGTCTTACACTGGCT
1 G-CATATCCCAGACATGGTCTTACACTGGCT
71710511 CTTATAATGT
Statistics
Matches: 133, Mismatches: 29, Indels: 17
0.74 0.16 0.09
Matches are distributed among these distances:
45 1 0.01
46 57 0.43
47 57 0.43
48 18 0.14
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (46 bp):
GCATATCCCAGACATGGTCTTACACTGGCTTACATCTCAAGCCGAT
Found at i:71714875 original size:27 final size:26
Alignment explanation
Indices: 71714832--71715097 Score: 241
Period size: 27 Copynumber: 10.0 Consensus size: 26
71714822 ATAATGACTA
71714832 AAATACCCCCATA-GGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGA-CG
*
71714858 AAATACCCCCATAGGGT-AAATGACCT
1 AAATACCCCCATAGGGTAAAATGA-CG
* * * *
71714884 AAATACCCCTATATGATAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGA-CG
71714911 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGA-CG
*
71714938 AAATACCCCCATAGGGTAAAATAACTG
1 AAATACCCCCATAGGGTAAAATGAC-G
*
71714965 GAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAC-G
** * *
71714992 AAATACCTTCATAGGATAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGA-CG
* *
71715019 AAATACGCCCAT-GGGATAAAATGACTA
1 AAATACCCCCATAGGG-TAAAATGAC-G
* * * *
71715046 AAATACCTCTATAAGGTAAAATGACT
1 AAATACCCCCATAGGGTAAAATGACG
** *
71715072 ATAATACCCCTGTAAGGTAAAATGAC
1 A-AATACCCCCATAGGGTAAAATGAC
71715098 TGATTTGCCC
Statistics
Matches: 201, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
26 38 0.19
27 161 0.80
28 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (26 bp):
AAATACCCCCATAGGGTAAAATGACG
Found at i:71714958 original size:54 final size:54
Alignment explanation
Indices: 71714832--71715097 Score: 272
Period size: 54 Copynumber: 5.0 Consensus size: 54
71714822 ATAATGACTA
*
71714832 AAATACCCCCATA-GGTAAAATGA-TCGAAATACCCCCATAGGGT-AAATGACCT
1 AAATACCCCCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATGACCG
* * * **
71714884 AAATACCCCTATATGATAAAATGACCAAAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCG
* * *
71714938 AAATACCCCCATAGGGTAAAATAACTGGAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCG
** * * * **
71714992 AAATACCTTCATAGGATAAAATGATTGAAATACGCCCAT-GGGATAAAATGACTA
1 AAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGG-TAAAATGACCG
* * * ** *
71715046 AAATACCTCTATAAGGTAAAATGACT-ATAATACCCCTGTAAGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGACTGA-AATACCCCCATAGGGTAAAATGAC
71715098 TGATTTGCCC
Statistics
Matches: 178, Mismatches: 30, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
52 12 0.07
53 30 0.17
54 134 0.75
55 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (54 bp):
AAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCG
Found at i:71715012 original size:81 final size:79
Alignment explanation
Indices: 71714824--71715096 Score: 307
Period size: 81 Copynumber: 3.4 Consensus size: 79
71714814 GGGTCGAAAT
*
71714824 AATGACTAAAATACCCCCATAGGTAAAATGATCGAAATACCCCCATAGGGT-AAATGACCTAAAT
1 AATGACTAAAATACCCCCATAGGTAAAATGATCGAAATACCCCCATAGGGTAAAAT-AACTAAAT
* *
71714888 ACCCCTATATGATAA
65 ACCCCTATAAGGTAA
* * *
71714903 AATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACTGGAA
1 AATGACTAAAATACCCCCATA-GGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACT-AAA
* *
71714968 TACCCCCATAGGGTAA
64 TACCCCTATAAGGTAA
* ** * * *
71714984 AATGACTGAAATACCTTCATAGGATAAAATGATTGAAATACGCCCAT-GGGATAAAATGACTAAA
1 AATGACTAAAATACCCCCATAGG-TAAAATGATCGAAATACCCCCATAGGG-TAAAATAACT-AA
*
71715048 ATACCTCTATAAGGTAA
63 ATACCCCTATAAGGTAA
* **
71715065 AATGACTATAATACCCCTGTAAGGTAAAATGA
1 AATGACTAAAATACCCCCAT-AGGTAAAATGA
71715097 CTGATTTGCC
Statistics
Matches: 162, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
79 20 0.12
80 37 0.23
81 102 0.63
82 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.21
Consensus pattern (79 bp):
AATGACTAAAATACCCCCATAGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTAAATA
CCCCTATAAGGTAA
Found at i:71721025 original size:21 final size:21
Alignment explanation
Indices: 71720999--71721042 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
71720989 GCGCGCAAAG
71720999 CACACACCGCACTTACCTTGT
1 CACACACCGCACTTACCTTGT
71721020 CACACACCGCACTTACCTTGT
1 CACACACCGCACTTACCTTGT
71721041 CA
1 CA
71721043 TTGGGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.43, G:0.09, T:0.23
Consensus pattern (21 bp):
CACACACCGCACTTACCTTGT
Found at i:71729340 original size:80 final size:80
Alignment explanation
Indices: 71729256--71729404 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
71729246 TATGGTAACC
* * * *
71729256 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
71729320 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
71729336 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
71729401 CCGG
66 CCGG
71729405 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:71729346 original size:40 final size:38
Alignment explanation
Indices: 71729297--71729404 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
71729287 ATCACGATTT
*
71729297 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
71729337 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
71729377 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
71729405 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:71733296 original size:14 final size:14
Alignment explanation
Indices: 71733277--71733305 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
71733267 CTCATTCGGA
71733277 AAGCAGTCTTTGGC
1 AAGCAGTCTTTGGC
71733291 AAGCAGTCTTTGGC
1 AAGCAGTCTTTGGC
71733305 A
1 A
71733306 CATCAGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (14 bp):
AAGCAGTCTTTGGC
Found at i:71733728 original size:20 final size:20
Alignment explanation
Indices: 71733703--71733740 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
71733693 GTTTATTCGC
*
71733703 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
71733723 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
71733741 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:71735401 original size:28 final size:28
Alignment explanation
Indices: 71735369--71735437 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
71735359 GCGTAGATCA
71735369 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
71735397 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
71735425 CGATA-TACCCCTA
1 CGAAATTACCCCTA
71735438 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:71741739 original size:20 final size:20
Alignment explanation
Indices: 71741714--71741751 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
71741704 GTTTATTCGC
*
71741714 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
71741734 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
71741752 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:71747005 original size:13 final size:13
Alignment explanation
Indices: 71746987--71747011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71746977 TTAGCCAAAT
71746987 ACAAATATGTTTA
1 ACAAATATGTTTA
71747000 ACAAATATGTTT
1 ACAAATATGTTT
71747012 TAGCAGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
ACAAATATGTTTA
Found at i:71749409 original size:15 final size:16
Alignment explanation
Indices: 71749388--71749424 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
71749378 TGATATATTA
71749388 ACATATTAATAAGTTT
1 ACATATTAATAAGTTT
71749404 -CATATTAATAAGTTT
1 ACATATTAATAAGTTT
71749419 ACATAT
1 ACATAT
71749425 ATAACCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (16 bp):
ACATATTAATAAGTTT
Found at i:71749819 original size:20 final size:21
Alignment explanation
Indices: 71749786--71749824 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
71749776 AGGACATTTG
*
71749786 TTTTTTTTTAAATTTTTATAC
1 TTTTATTTTAAATTTTTATAC
71749807 TTTTATTTT-AATTTTTAT
1 TTTTATTTTAAATTTTTAT
71749825 TGTCAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTATTTTAAATTTTTATAC
Found at i:71751028 original size:19 final size:20
Alignment explanation
Indices: 71750986--71751040 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
71750976 TTGGGCCTTA
71750986 CCCATATCAACACAGTTGGG
1 CCCATATCAACACAGTTGGG
* *
71751006 CCCATTTCAATACAGTT-GG
1 CCCATATCAACACAGTTGGG
* *
71751025 CCCATAACAAAACAGT
1 CCCATATCAACACAGT
71751041 CTTATATGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.22
Consensus pattern (20 bp):
CCCATATCAACACAGTTGGG
Found at i:71751378 original size:26 final size:27
Alignment explanation
Indices: 71751331--71751396 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
71751321 CAAAATTAAC
* * *
71751331 CCTAGGGGTATAACGGTCATTTT-ACA
1 CCTAGGGGTAAAATGGTAATTTTCACA
*
71751357 CCTAGGGGTAAAATGGTAATTTTCATA
1 CCTAGGGGTAAAATGGTAATTTTCACA
*
71751384 CTTA-GGGTAAAAT
1 CCTAGGGGTAAAAT
71751397 TCATTATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 29 0.85
27 5 0.15
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (27 bp):
CCTAGGGGTAAAATGGTAATTTTCACA
Found at i:71754504 original size:29 final size:29
Alignment explanation
Indices: 71754464--71754566 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
71754454 GTTGAGAGAT
*
71754464 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
71754493 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
71754522 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
71754551 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71754567 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:71762524 original size:29 final size:29
Alignment explanation
Indices: 71762491--71762593 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
71762481 GTTGAGAGAT
*
71762491 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
71762520 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
71762549 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
71762578 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71762594 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:71769371 original size:70 final size:70
Alignment explanation
Indices: 71769284--71769802 Score: 840
Period size: 70 Copynumber: 7.2 Consensus size: 70
71769274 CAAGTGACAG
*
71769284 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
71769349 GTTTC
66 GTTTC
*
71769354 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
71769419 GTTTC
66 GTTTC
*
71769424 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
71769489 AATTTATGTTTC
59 AATTTATGTTTC
*
71769501 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
71769566 GTTTC
66 GTTTC
*
71769571 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
71769636 GTTTC
66 GTTTC
*
71769641 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
71769706 AATTTATGTTTC
59 AATTTATGTTTC
*
71769718 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
71769783 GTTTC
66 GTTTC
71769788 AAAAATCAACTCATA
1 -AAAATCAACTCATA
71769803 GGTGAGTTGA
Statistics
Matches: 422, Mismatches: 12, Indels: 29
0.91 0.03 0.06
Matches are distributed among these distances:
70 266 0.63
71 18 0.04
72 2 0.00
75 2 0.00
76 4 0.01
77 130 0.31
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:71769500 original size:77 final size:77
Alignment explanation
Indices: 71769408--71769780 Score: 603
Period size: 77 Copynumber: 5.0 Consensus size: 77
71769398 GTTGAGGTAA
*
71769408 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
71769473 GGTAATTTCAAT
66 GGTAATTTCAAT
*
71769485 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
71769550 GG-----T-AA-
66 GGTAATTTCAAT
*
71769555 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
71769620 GG-----T-AA-
66 GGTAATTTCAAT
*
71769625 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
71769690 GGTAATTTCAAT
66 GGTAATTTCAAT
*
71769702 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
71769767 GGTAATTTCAAT
66 GGTAATTTCAAT
71769779 TT
1 TT
71769781 ATGTTTCAAA
Statistics
Matches: 281, Mismatches: 8, Indels: 14
0.93 0.03 0.05
Matches are distributed among these distances:
70 133 0.47
71 2 0.01
72 1 0.00
75 1 0.00
76 2 0.01
77 142 0.51
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
GGTAATTTCAAT
Found at i:71769547 original size:147 final size:140
Alignment explanation
Indices: 71769284--71769802 Score: 840
Period size: 147 Copynumber: 3.6 Consensus size: 140
71769274 CAAGTGACAG
*
71769284 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
71769349 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
71769414 TTTATGTTTC
131 TTTATGTTTC
*
71769424 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
*
71769489 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
71769554 ATTTCAATTTATGTTTC
124 ATTTCAATTTATGTTTC
*
71769571 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
71769636 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
71769701 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
*
71769718 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
71769783 GTTTCAAAAATCAACTCATA
66 GTTTC-AAAATCAACTCATA
71769803 GGTGAGTTGA
Statistics
Matches: 354, Mismatches: 10, Indels: 22
0.92 0.03 0.06
Matches are distributed among these distances:
140 114 0.32
141 2 0.01
142 1 0.00
145 2 0.01
146 4 0.01
147 217 0.61
148 14 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (140 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTC
Found at i:71769659 original size:217 final size:217
Alignment explanation
Indices: 71769284--71769802 Score: 1011
Period size: 217 Copynumber: 2.4 Consensus size: 217
71769274 CAAGTGACAG
* *
71769284 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
71769349 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
71769414 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAAT
131 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAAT
71769479 TTCAATTTTCAATTTATGTTTC
196 TTCAATTTTCAATTTATGTTTC
71769501 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
71769566 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
71769631 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAAT
131 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAAT
71769696 TTCAATTTTCAATTTATGTTTC
196 TTCAATTTTCAATTTATGTTTC
71769718 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
71769783 GTTTCAAAAATCAACTCATA
66 GTTTC-AAAATCAACTCATA
71769803 GGTGAGTTGA
Statistics
Matches: 299, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
217 285 0.95
218 14 0.05
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (217 bp):
AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAAT
TTCAATTTTCAATTTATGTTTC
Found at i:71769856 original size:147 final size:142
Alignment explanation
Indices: 71769284--71769903 Score: 644
Period size: 147 Copynumber: 4.3 Consensus size: 142
71769274 CAAGTGACAG
*
71769284 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
* * *
71769349 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AA
66 GTTTCAAAATCAACTCA-ATT----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAA
71769408 TTT-CAATTTATGTTTC
126 TTTCCAATTTATGTTTC
*
71769424 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
* * *
71769489 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG--
59 AATTTATGTTTCAAAATCAACTCA-AT----TGAGGTGAGTTGAGCCTCAAAACACGCTGAGGTA
71769552 ---T-AATTT-CAATTTATGTTTC
119 ATTTCAATTTCCAATTTATGTTTC
*
71769571 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
71769636 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCA-ATT----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAA
*
71769701 TTTTCAATTTATGTTTC
126 TTTCCAATTTATGTTTC
*
71769718 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
**** *
71769783 GTTTCAAAAATCAACTC-A-T-AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTC
66 GTTTC-AAAATCAACTCAATTGAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCA-----
* *
71769845 TACTTTCCAATTCCTGTTTTTC
125 -A-TTTCCAATT--TATGTTTC
*
71769867 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
71769904 GTTAATTTCT
Statistics
Matches: 426, Mismatches: 21, Indels: 56
0.85 0.04 0.11
Matches are distributed among these distances:
140 142 0.33
141 2 0.00
142 1 0.00
145 3 0.01
146 9 0.02
147 218 0.51
148 11 0.03
149 6 0.01
150 34 0.08
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (142 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCAATTGAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCC
AATTTATGTTTC
Found at i:71769945 original size:54 final size:52
Alignment explanation
Indices: 71769853--71770007 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
71769843 TCTACTTTCC
* *
71769853 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
71769907 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
71769958 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
71770007 A
1 A
71770008 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:71770760 original size:35 final size:35
Alignment explanation
Indices: 71770714--71770819 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
71770704 CACTTGCCTC
71770714 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
71770749 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
71770784 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
71770819 T
1 T
71770820 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:71771263 original size:33 final size:33
Alignment explanation
Indices: 71771221--71771295 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
71771211 AGAGGGGAAG
*
71771221 CAAAAAAAAAAATCCAGCAAAAAA-TTCCAGCA
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
**
71771253 CCAAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 -CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
71771287 -AAAAAAAAA
1 CAAAAAAAAA
71771296 CCAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 9 0.24
33 21 0.55
34 8 0.21
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (33 bp):
CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:71772173 original size:2 final size:2
Alignment explanation
Indices: 71772101--71772157 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
71772091 ATCATTTCTA
* * *
71772101 AT AT GT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
71772141 AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT
71772158 GCCATTAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:71772336 original size:2 final size:2
Alignment explanation
Indices: 71772319--71772355 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
71772309 GTGTATATTT
* *
71772319 TA TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
71772356 TTTTGCACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:71773481 original size:44 final size:44
Alignment explanation
Indices: 71773423--71773765 Score: 169
Period size: 44 Copynumber: 7.6 Consensus size: 44
71773413 CTTGAGTGTA
71773423 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTG
* * * * *** *
71773467 CTCCATTGTAACTTCAGGGAGATAAGGCTGGTGGTTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTG
* * * * ** *
71773511 CTTCGCTGCAACTTCAGGAAAATAAGA-TTCGCCGT-A-TTTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT----GTAACTTCAACCTG
** * * *
71773556 CTCCGTTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTG
* * * *
71773600 CTCCACTGCAACTTCAGGGAGATAACATTTGTAATCTGT-AGCTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAA-CT-TCAAC-CTG
* * * * * **
71773646 ATTTACTCTACTGTAACTTCAGAGAGATAAGA-TCTGCT-ATTTGTAGTCTG
1 -----CTCCACTGCAACTTCAGGGAGATAAGACT-TG-TAACTT-CAACCTG
* * * *
71773696 CCCCACTGCAACTTCAAGGG-GATAAGACTAGTAAATTCAACCTA
1 CTCCACTGCAACTTC-AGGGAGATAAGACTTGTAACTTCAACCTG
*
71773740 CTCCAGTGCAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
71773766 GTTTGAGATA
Statistics
Matches: 220, Mismatches: 56, Indels: 46
0.68 0.17 0.14
Matches are distributed among these distances:
42 2 0.01
43 6 0.03
44 112 0.51
45 57 0.26
46 7 0.03
47 2 0.01
49 1 0.00
50 4 0.02
51 28 0.13
52 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTG
Found at i:71773775 original size:12 final size:12
Alignment explanation
Indices: 71773758--71773782 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71773748 CAACTTCAGG
71773758 GAGATAAGGTTT
1 GAGATAAGGTTT
71773770 GAGATAAGGTTT
1 GAGATAAGGTTT
71773782 G
1 G
71773783 GTATTTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (12 bp):
GAGATAAGGTTT
Found at i:71773836 original size:44 final size:44
Alignment explanation
Indices: 71773785--71774069 Score: 214
Period size: 44 Copynumber: 6.1 Consensus size: 44
71773775 AAGGTTTGGT
*
71773785 ATTTGTAACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 ATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
71773829 ATTTGTAATCTGTAGCTTTGATCTACTCTACTGTAACTTCAGAGAGATAAG
1 ATTTGTAA-CT-T--C---AATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
71773880 ATCTTCT-ATTTGTAGTCTGC-CGCACTGCAACTTCAGGGAGATAAG
1 AT-TTGTAACTT-CAATCTGCTC-CACTGCAACTTCAGGGAGATAAG
* * * * *
71773925 ACTAGGAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
1 ATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-------G
71773976 ATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 ATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
71774020 ACTAGTAACTTCAACCTACTCCATTGCAACTTCAGGGAGATAAG
1 ATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
*
71774064 GTTTGT
1 ATTTGT
71774070 GGATTCACCG
Statistics
Matches: 186, Mismatches: 37, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
44 79 0.42
45 31 0.17
46 1 0.01
48 2 0.01
49 1 0.01
50 1 0.01
51 68 0.37
52 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
ATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:71774007 original size:51 final size:51
Alignment explanation
Indices: 71773924--71774070 Score: 191
Period size: 51 Copynumber: 3.0 Consensus size: 51
71773914 AGGGAGATAA
*
71773924 GACTAGGAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGT
1 GACTAGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGT
* * * *
71773975 GATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-------
1 GACTAGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGT
*
71774019 GACTAGTAACTTCAACCTACTCCATTGCAACTTCAGGGAGATAAGGTTTGT
1 GACTAGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGT
71774070 G
1 G
71774071 GATTCACCGA
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
44 39 0.49
51 40 0.51
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (51 bp):
GACTAGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGT
Found at i:71774020 original size:95 final size:95
Alignment explanation
Indices: 71773770--71774070 Score: 341
Period size: 95 Copynumber: 3.2 Consensus size: 95
71773760 GATAAGGTTT
* *
71773770 GAGATAAGGTTTG-GTATTTGTAACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
1 GAGATAAGGTTTGTG-ATTTGTAACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG
* * * * *
71773834 TAATCTGTAGCTTTGATCTACTCTACTGTAACTTCAGA
65 TAA-CT-T--C---AACCTACTCCACTGCAACTTCAGG
* *
71773872 GAGATAAGATCTTCT-ATTTG-----T-AGTCTGC-CGCACTGCAACTTCAGGGAGATAAGACTA
1 GAGATAAGGT-TTGTGATTTGTAACTTCAGTCTGCTC-CACTGCAACTTCAGGGAGATAAGACTA
*
71773929 GGAACTTCAACCTACTCCACTGCAACTTCAGG
64 GTAACTTCAACCTACTCCACTGCAACTTCAGG
*
71773961 GAGATAAGGTTTGTGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGT
1 GAGATAAGGTTTGTGATTTGTAACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGT
*
71774026 AACTTCAACCTACTCCATTGCAACTTCAGG
66 AACTTCAACCTACTCCACTGCAACTTCAGG
71774056 GAGATAAGGTTTGTG
1 GAGATAAGGTTTGTG
71774071 GATTCACCGA
Statistics
Matches: 173, Mismatches: 15, Indels: 29
0.80 0.07 0.13
Matches are distributed among these distances:
88 3 0.02
89 33 0.19
92 1 0.01
94 2 0.01
95 81 0.47
96 36 0.21
97 1 0.01
102 14 0.08
103 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (95 bp):
GAGATAAGGTTTGTGATTTGTAACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGT
AACTTCAACCTACTCCACTGCAACTTCAGG
Found at i:71775372 original size:47 final size:48
Alignment explanation
Indices: 71775294--71775389 Score: 185
Period size: 47 Copynumber: 2.0 Consensus size: 48
71775284 GTATATTGTT
71775294 TCTTTAAATCTCTCTTTTACTTTAGATTCTTATTTATTATTTTTAAAA
1 TCTTTAAATCTCTCTTTTACTTTAGATTCTTATTTATTATTTTTAAAA
71775342 TCTTTAAATCTCTC-TTTACTTTAGATTCTTATTTATTATTTTTAAAA
1 TCTTTAAATCTCTCTTTTACTTTAGATTCTTATTTATTATTTTTAAAA
71775389 T
1 T
71775390 TGACTTATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 34 0.71
48 14 0.29
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.58
Consensus pattern (48 bp):
TCTTTAAATCTCTCTTTTACTTTAGATTCTTATTTATTATTTTTAAAA
Found at i:71775402 original size:28 final size:28
Alignment explanation
Indices: 71775371--71775433 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
71775361 TTTAGATTCT
71775371 TATTTA-TTATTTTTAAAATTGACTTATA
1 TATTTATTTA-TTTTAAAATTGACTTATA
**
71775399 TA-TTATTTATTTTAAAATTGTTTTATA
1 TATTTATTTATTTTAAAATTGACTTATA
71775426 TATCTTAT
1 TAT-TTAT
71775434 GTTAAACTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 21 0.70
28 5 0.17
29 4 0.13
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
TATTTATTTATTTTAAAATTGACTTATA
Found at i:71775438 original size:25 final size:26
Alignment explanation
Indices: 71775383--71775439 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
71775373 TTTATTATTT
*
71775383 TTAAAATTGACTTATATATTATTTATT
1 TTAAAATTGA-TTATATATTATTTATG
*
71775410 TTAAAATTG-TTTTATA-TATCTTATG
1 TTAAAATTGATTATATATTAT-TTATG
71775435 TTAAA
1 TTAAA
71775440 CTCTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 3 0.11
25 15 0.56
27 9 0.33
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (26 bp):
TTAAAATTGATTATATATTATTTATG
Found at i:71775515 original size:26 final size:26
Alignment explanation
Indices: 71775463--71775521 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
71775453 TTTAAAATGG
***
71775463 TTTTAT-TATTATTTACTTTAGGTTT
1 TTTTATATATTATTTACTTTACACTT
*
71775488 TTTTATATATTATTTATTTTACACTT
1 TTTTATATATTATTTACTTTACACTT
*
71775514 TTGTATAT
1 TTTTATAT
71775522 GTGTATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (26 bp):
TTTTATATATTATTTACTTTACACTT
Found at i:71775635 original size:52 final size:49
Alignment explanation
Indices: 71775579--71775676 Score: 115
Period size: 52 Copynumber: 1.9 Consensus size: 49
71775569 TTTTTAATTT
* * * *
71775579 GCTTTGTGTAATATAGATTTTAAAATTTTTTTACATTATTTATTTTAAACTC
1 GCTTTATGTAATATACATTTT-AAATTGTTTT--ATTATTTACTTTAAACTC
* *
71775631 GCTTTATGTATTATTCATTTTAAATTGTTTTATTATTTACTTTAAA
1 GCTTTATGTAATATACATTTTAAATTGTTTTATTATTTACTTTAAA
71775677 ATTTTATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
49 14 0.35
51 9 0.22
52 17 0.43
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (49 bp):
GCTTTATGTAATATACATTTTAAATTGTTTTATTATTTACTTTAAACTC
Found at i:71775925 original size:49 final size:49
Alignment explanation
Indices: 71775821--71775942 Score: 122
Period size: 49 Copynumber: 2.5 Consensus size: 49
71775811 ATTGTTGATA
* * * *
71775821 TTAAATTTCTTTTTCACATTATTTATTTTAAATTCATTTATTATCATTT
1 TTAAATTTGTTTTACATATTATTTATTTTAAATTCATTTATAATCATTT
* * * **
71775870 TAAAATTTGTTTTACATTTTATTTATTTTAATTTGC-TTTATAATTTTTT
1 TTAAATTTGTTTTACATATTATTTATTTTAAATT-CATTTATAATCATTT
* *
71775919 TTAAA-TTGTTATATATATTATTTA
1 TTAAATTTGTTTTACATATTATTTA
71775943 ATTCATTGGT
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
48 16 0.27
49 42 0.71
50 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (49 bp):
TTAAATTTGTTTTACATATTATTTATTTTAAATTCATTTATAATCATTT
Found at i:71777450 original size:53 final size:53
Alignment explanation
Indices: 71777387--71777493 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
71777377 AAATATCCAT
* *
71777387 TAATTTTGCCATTGAATCAATTTGATTTAAAATTTTAATCAGATTTAGTGGAA
1 TAATTCTGCCATTGAATCAATTTGATTTAAAATTTTAATCAAATTTAGTGGAA
71777440 TAATTCTGCCATTGAATCAATTTGATTTAAAATTTTAATCAAATTTAGTGGAA
1 TAATTCTGCCATTGAATCAATTTGATTTAAAATTTTAATCAAATTTAGTGGAA
71777493 T
1 T
71777494 CAAATCAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.43
Consensus pattern (53 bp):
TAATTCTGCCATTGAATCAATTTGATTTAAAATTTTAATCAAATTTAGTGGAA
Found at i:71778016 original size:2 final size:2
Alignment explanation
Indices: 71778011--71778039 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
71778001 CAAAAAAAAA
71778011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71778040 AAAGTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71778361 original size:2 final size:2
Alignment explanation
Indices: 71778354--71778390 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
71778344 AATAAATGAT
71778354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
71778391 CGATTTTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:71781814 original size:2 final size:2
Alignment explanation
Indices: 71781771--71781802 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
71781761 TAATTTAGGA
71781771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71781803 CTTTCCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71788200 original size:12 final size:12
Alignment explanation
Indices: 71788183--71788223 Score: 82
Period size: 12 Copynumber: 3.4 Consensus size: 12
71788173 CTACACTGGT
71788183 GTGTGGCTGGCC
1 GTGTGGCTGGCC
71788195 GTGTGGCTGGCC
1 GTGTGGCTGGCC
71788207 GTGTGGCTGGCC
1 GTGTGGCTGGCC
71788219 GTGTG
1 GTGTG
71788224 CGAGACACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.00, C:0.22, G:0.51, T:0.27
Consensus pattern (12 bp):
GTGTGGCTGGCC
Found at i:71788442 original size:18 final size:18
Alignment explanation
Indices: 71788415--71788459 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
71788405 AATCTGGGCT
71788415 TGTGGG-CCACATAGG-CA
1 TGTGGGCCCACA-AGGACA
*
71788432 TGTGGGCCCACACGGACA
1 TGTGGGCCCACAAGGACA
71788450 TGTGGGCCCA
1 TGTGGGCCCA
71788460 TATTTCTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.20, C:0.29, G:0.36, T:0.16
Consensus pattern (18 bp):
TGTGGGCCCACAAGGACA
Found at i:71790328 original size:37 final size:37
Alignment explanation
Indices: 71790273--71790433 Score: 279
Period size: 37 Copynumber: 4.3 Consensus size: 37
71790263 TACGAAGTCT
71790273 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
*
71790310 TACCTGGACATAATCTCCACACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
*
71790347 TACCCGGACATAATCTCCATACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
71790384 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC-
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
71790420 TCACCCGGAACATA
1 T-ACCCGG-ACATA
71790434 TTTCTAAGTT
Statistics
Matches: 118, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
36 1 0.01
37 112 0.95
38 5 0.04
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
Found at i:71790567 original size:49 final size:49
Alignment explanation
Indices: 71790502--71790752 Score: 430
Period size: 49 Copynumber: 5.1 Consensus size: 49
71790492 TTTACCACAT
* *
71790502 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCCC
1 ATATATATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
71790551 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
71790600 ATATATATACAGTTTCACATTCATCACCTCGGCCATTAGGCCTTATCAC
1 ATATATATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
71790649 ATATGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
71790698 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
71790747 ATATAT
1 ATATAT
71790753 TATTATGTAC
Statistics
Matches: 193, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 193 1.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (49 bp):
ATATATATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:71794536 original size:2 final size:2
Alignment explanation
Indices: 71794529--71794557 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
71794519 CATATCAATA
71794529 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71794558 CACATACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71796052 original size:31 final size:30
Alignment explanation
Indices: 71796007--71796074 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
71795997 TATCTAATTT
*
71796007 TTTTGTCCAATTTGGAACCCAAACTTGACAA
1 TTTT-TCCAATTTGGAACACAAACTTGACAA
* * *
71796038 TTTTTCCTAATTTGGTACATAAACTTGACAC
1 TTTTTCC-AATTTGGAACACAAACTTGACAA
71796069 TTTTTC
1 TTTTTC
71796075 TTAAGTTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (30 bp):
TTTTTCCAATTTGGAACACAAACTTGACAA
Found at i:71796092 original size:31 final size:31
Alignment explanation
Indices: 71796027--71796094 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
71796017 TTTGGAACCC
* *
71796027 AAACTTGACAATTTTTCCTAATTTGGTACAT
1 AAACTTGACAATTTTTCCTAAGTTGATACAT
* * *
71796058 AAACTTGACACTTTTTCTTAAGTTGATACTT
1 AAACTTGACAATTTTTCCTAAGTTGATACAT
71796089 AAACTT
1 AAACTT
71796095 TTTCGGGATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (31 bp):
AAACTTGACAATTTTTCCTAAGTTGATACAT
Found at i:71803000 original size:58 final size:59
Alignment explanation
Indices: 71802933--71803051 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 59
71802923 TAAAAGCCTG
71802933 AAAACCGATTGAAAAGGGG-TACCATTTTTGAAAAACATAGAAGAAAATATACAAAAAA
1 AAAACCGATTGAAAAGGGGTTACCATTTTTGAAAAACATAGAAGAAAATATACAAAAAA
* * * * *
71802991 AAAATCGATTGTAAAGGGGTTCCCCTTTTTGAAAAATATAGAAGAAAATATACAAAAAA
1 AAAACCGATTGAAAAGGGGTTACCATTTTTGAAAAACATAGAAGAAAATATACAAAAAA
71803050 AA
1 AA
71803052 GATTGAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 17 0.31
59 38 0.69
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.22
Consensus pattern (59 bp):
AAAACCGATTGAAAAGGGGTTACCATTTTTGAAAAACATAGAAGAAAATATACAAAAAA
Found at i:71803922 original size:4 final size:4
Alignment explanation
Indices: 71803913--71803950 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
71803903 AATTGAGTCT
* *
71803913 TTTA TTTA TTTA TTTA TTTA CTTA TTTA CTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
71803951 AGTTTTTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:71804115 original size:2 final size:2
Alignment explanation
Indices: 71804110--71804139 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
71804100 TATTTATCTC
71804110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71804140 TTTACACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.