Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 33
Found at i:2886191 original size:59 final size:59
Alignment explanation
Indices: 2886058--2886170 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
2886048 TTAGTTGGTG
* * * *
2886058 ACCATTTTGTAACTTTTAATAGTTGAGGGACTCAACAAAATATTGCCCTATAATCAGGA
1 ACCATTTTGTAACTTTTAATAGTTGAGGGAATCAAAAAAACAGTGCCCTATAATCAGGA
2886117 ACCATTTTGTAACTTTTAATAGTTGAGGGAAT-AAAAAAAGCAGTGCCCTATAAT
1 ACCATTTTGTAACTTTTAATAGTTGAGGGAATCAAAAAAA-CAGTGCCCTATAAT
2886171 TGGGTATCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 6 0.12
59 43 0.88
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (59 bp):
ACCATTTTGTAACTTTTAATAGTTGAGGGAATCAAAAAAACAGTGCCCTATAATCAGGA
Found at i:2887567 original size:22 final size:21
Alignment explanation
Indices: 2887525--2887568 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2887515 TCACATTACT
* * *
2887525 ATTTAAAAGAACACAAGATAA
1 ATTTAAAAAAAAACAACATAA
2887546 ATTTAAAAAAAAACTAACATAA
1 ATTTAAAAAAAAAC-AACATAA
2887568 A
1 A
2887569 ACTGATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.66, C:0.09, G:0.05, T:0.20
Consensus pattern (21 bp):
ATTTAAAAAAAAACAACATAA
Found at i:2887603 original size:25 final size:25
Alignment explanation
Indices: 2887553--2887604 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
2887543 TAAATTTAAA
* *
2887553 AAAAAACTAACATAAAACTGATAAT
1 AAAAAACTAACATAAAAATGAAAAT
*
2887578 AAAAAACTAATCCTAAAAAT-AAAAT
1 AAAAAACTAA-CATAAAAATGAAAAT
2887603 AA
1 AA
2887605 TCTTGGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (25 bp):
AAAAAACTAACATAAAAATGAAAAT
Found at i:2889811 original size:29 final size:29
Alignment explanation
Indices: 2889769--2889827 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2889759 ATTTTCACCT
2889769 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
*
2889798 AACTAAATTGATGTAAGCAATGGCATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
2889827 A
1 A
2889828 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:2893125 original size:15 final size:15
Alignment explanation
Indices: 2893105--2893136 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2893095 TAAAATGATA
2893105 AATGGGAGAAGTGTT
1 AATGGGAGAAGTGTT
2893120 AATGGGAGAAGTGTT
1 AATGGGAGAAGTGTT
2893135 AA
1 AA
2893137 AGTAAGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.25
Consensus pattern (15 bp):
AATGGGAGAAGTGTT
Found at i:2898602 original size:75 final size:76
Alignment explanation
Indices: 2898488--2898687 Score: 262
Period size: 75 Copynumber: 2.6 Consensus size: 76
2898478 GACCGTTGAA
* * *
2898488 CAGGGGGGAATCGGTACC-CC-ATTGGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCG
1 CAGGGGGGAATCGGTTCCTCCTA-T-GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCG
**
2898551 GAACAAAAATGTT
64 GAACAAAAACATT
* *
2898564 TAGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
* * *
2898628 GCCAAACCATT
66 ACAAAAACATT
*
2898639 CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA
2898688 ATCTGTAATT
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
75 66 0.61
76 39 0.36
77 3 0.03
78 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.23
Consensus pattern (76 bp):
CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
ACAAAAACATT
Found at i:2899324 original size:17 final size:17
Alignment explanation
Indices: 2899302--2899345 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
2899292 TTCATAAATC
*
2899302 CAAAATCCAACAATCCA
1 CAAAATCCAACAACCCA
*
2899319 CAAAATCAAACAACCCA
1 CAAAATCCAACAACCCA
2899336 -AAATATCCAA
1 CAAA-ATCCAA
2899346 AATGTTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.57, C:0.32, G:0.00, T:0.11
Consensus pattern (17 bp):
CAAAATCCAACAACCCA
Found at i:2901304 original size:21 final size:21
Alignment explanation
Indices: 2901278--2901317 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2901268 CAGAACCCCA
*
2901278 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2901299 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2901318 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2901346 original size:20 final size:21
Alignment explanation
Indices: 2901300--2901360 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
2901290 TTCCCCTGTG
2901300 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
2901323 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
2901343 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
2901361 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:2907109 original size:75 final size:76
Alignment explanation
Indices: 2907021--2907221 Score: 244
Period size: 75 Copynumber: 2.6 Consensus size: 76
2907011 GACCGTTGAA
* * * *
2907021 CAGGGGGGAATCGGTACCCCCT-TGGTGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGG
1 CAGGGGGGAATCGGTTCCTCCTATGG-GGGGGATCGGTTCCCTCCGAGCATACTGAAAATCTCGG
**
2907085 AACAAAAATGTT
65 AACAAAAACATT
* * * *
2907097 TA-GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCAAGCATTCTGAAAATCTCGGA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGAAAATCTCGGA
* * *
2907161 GCCAAACCATT
66 ACAAAAACATT
*
2907172 CAGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGG-ATCGGTTCCCTCCGAGCA
2907222 ATCTGTAATT
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
75 58 0.55
76 31 0.30
77 16 0.15
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.23
Consensus pattern (76 bp):
CAGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGAAAATCTCGGA
ACAAAAACATT
Found at i:2910118 original size:23 final size:23
Alignment explanation
Indices: 2910092--2910148 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
2910082 GAAAATGTAT
*
2910092 CATAAATACAGAAGAAAACGTGC
1 CATAAAGACAGAAGAAAACGTGC
** * *
2910115 CATAAAGGTAGAAGAAAATGTGT
1 CATAAAGACAGAAGAAAACGTGC
2910138 CATAAAGACAG
1 CATAAAGACAG
2910149 TTATTAAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.51, C:0.12, G:0.21, T:0.16
Consensus pattern (23 bp):
CATAAAGACAGAAGAAAACGTGC
Found at i:2916886 original size:14 final size:14
Alignment explanation
Indices: 2916862--2916897 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2916852 ACTTTGGTAA
2916862 AATTT-ATTTTTTT
1 AATTTAATTTTTTT
2916875 AATTTAATTTTTTT
1 AATTTAATTTTTTT
*
2916889 AATATAATT
1 AATTTAATT
2916898 AATAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
AATTTAATTTTTTT
Found at i:2916978 original size:154 final size:157
Alignment explanation
Indices: 2916726--2917026 Score: 466
Period size: 154 Copynumber: 1.9 Consensus size: 157
2916716 TTAAATTAAC
* *
2916726 TTTTTAATATAATTAATAATTTTGATTTTATTTAATGATTATATAGAAATATTATTAATTATATT
1 TTTTTAATATAATTAATAATTTTGAATTTATTTAATGATTATATAGAAACATTATTAATTATATT
* * * *
2916791 AAAAAAATAAAATTATACTTCGGTTATATAAAAGTTGAATATAGTTTAAAAT-TCAAATCATACT
66 -AAAAAATAAAATTATAATTCGGTTATATAAAAGTTAAATATAGTTTAAAATCTCAAACCAAACT
*
2916855 TTGGTAAAATTTATTTTTTTAATTTAATT
130 TTAGTAAAA-TTATTTTTTTAATTTAATT
*
2916884 TTTTTAATATAATTAATAATTTT-AATTTATTTAATGATTATAT-TAAACATTATTAATTATATT
1 TTTTTAATATAATTAATAATTTTGAATTTATTTAATGATTATATAGAAACATTATTAATTATATT
* *
2916947 -AAAAATAAAATTATAATTTGGTTATATAAAAGTTAAATATAGTTTAAAATCTGAAACCAAACTT
66 AAAAAATAAAATTATAATTCGGTTATATAAAAGTTAAATATAGTTTAAAATCTCAAACCAAACTT
2917011 TAGTAAAATTATTTTT
131 TAGTAAAATTATTTTT
2917027 CAAATTTTAT
Statistics
Matches: 132, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
154 55 0.42
155 17 0.13
156 18 0.14
157 19 0.14
158 23 0.17
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (157 bp):
TTTTTAATATAATTAATAATTTTGAATTTATTTAATGATTATATAGAAACATTATTAATTATATT
AAAAAATAAAATTATAATTCGGTTATATAAAAGTTAAATATAGTTTAAAATCTCAAACCAAACTT
TAGTAAAATTATTTTTTTAATTTAATT
Found at i:2920950 original size:130 final size:127
Alignment explanation
Indices: 2920792--2921085 Score: 367
Period size: 128 Copynumber: 2.3 Consensus size: 127
2920782 CGATCTTTTG
2920792 CGGCGTTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTATAGAACAAACGCC
1 CGGCGTTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTT-TAGAACAAACGCC
** ** * * ** *
2920857 GCAAAAGGTCATGATCTATAGCGGCGTTTATAGA-ACAAACGCCGCAAAAGGTCGAGATCTATAG
65 GCAAAAGGTCA-GATAAATAGCAACATTTATAGACACAAACGACGCAAAAGGT-GAGATAAATAA
* * *
2920921 CTGCGTTTTGTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAAACGCC
1 CGGCGTTTT-TGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTAGAACAAACGCC
* * * * * *
2920986 GCCAAAGGTTAGATAAATAGCAACATTTTTTGACACAAACGACGCAAAATGTTAGATAAATAA
65 GCAAAAGGTCAGATAAATAGCAACATTTATAGACACAAACGACGCAAAAGGTGAGATAAATAA
2921049 CGGCGTTTTTGGACACAAACGCCGCAAAAGGTC-AGAT
1 CGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCGAGAT
2921086 ATCTAGTGGT
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
127 8 0.06
128 49 0.34
129 44 0.31
130 42 0.29
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (127 bp):
CGGCGTTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTAGAACAAACGCCG
CAAAAGGTCAGATAAATAGCAACATTTATAGACACAAACGACGCAAAAGGTGAGATAAATAA
Found at i:2921102 original size:43 final size:42
Alignment explanation
Indices: 2920764--2921085 Score: 349
Period size: 43 Copynumber: 7.5 Consensus size: 42
2920754 TGAGAACCAA
* * * * *
2920764 AAACGCCGCCATAGGTCTCGATCTTTTGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* *
2920807 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTATAGAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* *
2920850 AAACGCCGCAAAAGGTCATGATCTATAGCGGCGTTTATAGAAC
1 AAACGCCGCAAAAGGTCA-GATCTATAGCGGCGTTTTTGGAAC
*
2920893 AAACGCCGCAAAAGGTCGAGATCTATAGCTGCGTTTTGTGGAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTT-TGGAAC
2920937 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGG-AC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* * ** ** * *
2920979 AAACGCCGCCAAAGGTTAGATAAATAGCAACATTTTTTGACAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
* * * ** *
2921022 AAACGACGCAAAATGTTAGATAAATAACGGCGTTTTTGGACAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
2921065 AAACGCCGCAAAAGGTCAGAT
1 AAACGCCGCAAAAGGTCAGAT
2921086 ATCTAGTGGT
Statistics
Matches: 243, Mismatches: 31, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
41 16 0.07
42 18 0.07
43 167 0.69
44 42 0.17
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
Found at i:2921245 original size:18 final size:19
Alignment explanation
Indices: 2921210--2921246 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2921200 CTTTATATAA
*
2921210 TTAACAACAACCATAAATT
1 TTAACAACAACAATAAATT
2921229 TTAACAACAA-AATAAATT
1 TTAACAACAACAATAAATT
2921247 AAAATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (19 bp):
TTAACAACAACAATAAATT
Found at i:2923617 original size:2 final size:2
Alignment explanation
Indices: 2923610--2923681 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
2923600 CATGCATGCA
2923610 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2923652 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2923682 CGCATGAAGG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2925689 original size:43 final size:41
Alignment explanation
Indices: 2925640--2925776 Score: 127
Period size: 42 Copynumber: 3.3 Consensus size: 41
2925630 TGTATCACGC
* *
2925640 TACTTTAGTGGTGTTTTTAAGTAAAAACACCACTAAATACTCG
1 TACTTTAGTGGTGTTTTTAAG-ACAAAC-CCACTAAAGACTCG
* * * *
2925683 TACTTTAGAGGTGTTTTTTAA-ACAAACGCCACTATAGAGTAG
1 TACTTTAGTGGTG-TTTTTAAGACAAAC-CCACTAAAGACTCG
* *
2925725 TACTTTAGTGGCG-TTTTAAGCACAAACGCAGCTAAAGACTCG
1 TACTTTAGTGGTGTTTTTAAG-ACAAACCCA-CTAAAGACTCG
2925767 TA-TTTAGTGG
1 TACTTTAGTGG
2925777 CATTTTTATA
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
40 6 0.08
41 10 0.13
42 42 0.55
43 12 0.16
44 7 0.09
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (41 bp):
TACTTTAGTGGTGTTTTTAAGACAAACCCACTAAAGACTCG
Found at i:2925750 original size:42 final size:40
Alignment explanation
Indices: 2925698--2925822 Score: 110
Period size: 41 Copynumber: 3.1 Consensus size: 40
2925688 TAGAGGTGTT
2925698 TTTTAA-ACAAACGCCACTATAGAGTAGTACTTTAGTGGCG
1 TTTTAACACAAACG-CACTATAGAGTAGTACTTTAGTGGCG
* * * *
2925738 TTTTAAGCACAAACGCAGCTAAAGACTCGTA-TTTAGTGGCA
1 TTTTAA-CACAAACGCA-CTATAGAGTAGTACTTTAGTGGCG
* * * * * *
2925779 TTTTTATATAAACGTCGCGATAGAGTAGTACTTTAATGGCG
1 TTTTAACACAAACG-CACTATAGAGTAGTACTTTAGTGGCG
2925820 TTT
1 TTT
2925823 GTGCTTAAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
40 21 0.32
41 28 0.42
42 17 0.26
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (40 bp):
TTTTAACACAAACGCACTATAGAGTAGTACTTTAGTGGCG
Found at i:2925923 original size:83 final size:83
Alignment explanation
Indices: 2925805--2926029 Score: 276
Period size: 83 Copynumber: 2.7 Consensus size: 83
2925795 GCGATAGAGT
* * * *
2925805 AGTACTTTAATGGCGTTTGTGCTTAAAATGACACTAAAGTACGATTATTTAGCGGCGTTTGT-AG
1 AGTA-TTTAGTGGCGTTTGTGCTTAAAATGACACTAAAGTACTACTCTTTAGCGGCGTTTGTGA-
* *
2925869 AAAAATGCCTCTAAAGTACA
64 AAAAATGCCACGAAAGTACA
* * * *
2925889 AGTATTTAGTGGCATTTTTGCTTAAAAT-ACCACTAAAGTACTAGTCTTTAGTGGCGTTTGTGAA
1 AGTATTTAGTGGCGTTTGTGCTTAAAATGA-CACTAAAGTACTACTCTTTAGCGGCGTTTGTGAA
*
2925953 AAAATGCCACGAAAGTACG
65 AAAATGCCACGAAAGTACA
* * *
2925972 AGT-TTTAGCGGCGTTTGTACTTAAAATGACACTAAAGTACTACTCTATAGCGGCGTTT
1 AGTATTTAGTGGCGTTTGTGCTTAAAATGACACTAAAGTACTACTCTTTAGCGGCGTTT
2926030 TTTAAACAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
82 47 0.39
83 69 0.57
84 5 0.04
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (83 bp):
AGTATTTAGTGGCGTTTGTGCTTAAAATGACACTAAAGTACTACTCTTTAGCGGCGTTTGTGAAA
AAATGCCACGAAAGTACA
Found at i:2925928 original size:42 final size:42
Alignment explanation
Indices: 2925805--2926011 Score: 183
Period size: 41 Copynumber: 5.0 Consensus size: 42
2925795 GCGATAGAGT
*
2925805 AGTACTTTAATGGCGTTTGTGCTTAAAATGA-CACTAAAGTACG
1 AGTA-TTTAGTGGCGTTTGTGCTTAAAAT-ACCACTAAAGTACG
* * * * * *
2925848 ATTATTTAGCGGCGTTTGTAG--AAAAATGCCTCTAAAGTACA
1 AGTATTTAGTGGCGTTTGT-GCTTAAAATACCACTAAAGTACG
* * *
2925889 AGTATTTAGTGGCATTTTTGCTTAAAATACCACTAAAGTACT
1 AGTATTTAGTGGCGTTTGTGCTTAAAATACCACTAAAGTACG
* ** * *
2925931 AGTCTTTAGTGGCGTTTGTG-AAAAAATGCCACGAAAGTACG
1 AGTATTTAGTGGCGTTTGTGCTTAAAATACCACTAAAGTACG
* *
2925972 AGT-TTTAGCGGCGTTTGTACTTAAAATGA-CACTAAAGTAC
1 AGTATTTAGTGGCGTTTGTGCTTAAAAT-ACCACTAAAGTAC
2926012 TACTCTATAG
Statistics
Matches: 129, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
40 15 0.12
41 64 0.50
42 46 0.36
43 4 0.03
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.32
Consensus pattern (42 bp):
AGTATTTAGTGGCGTTTGTGCTTAAAATACCACTAAAGTACG
Found at i:2934668 original size:20 final size:20
Alignment explanation
Indices: 2934645--2934716 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
2934635 CTCCATGAAC
2934645 AGTATCAGTATTGTTCTTGT
1 AGTATCAGTATTGTTCTTGT
2934665 AGTATCAGTATTGTTCTTGT
1 AGTATCAGTATTGTTCTTGT
2934685 AGTATCAGTATTGTTCTTGT
1 AGTATCAGTATTGTTCTTGT
*
2934705 AGTATCAATATT
1 AGTATCAGTATT
2934717 ATTATACTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.49
Consensus pattern (20 bp):
AGTATCAGTATTGTTCTTGT
Found at i:2935749 original size:43 final size:42
Alignment explanation
Indices: 2935693--2935977 Score: 161
Period size: 43 Copynumber: 6.6 Consensus size: 42
2935683 ATATGTAACA
*
2935693 ATATATAGCGGCGTTTTTTCAACAAACACCGCAATAGGCTTTG
1 ATATTTAGCGGCGTTTTTTCAACAAACACCGCAATAGG-TTTG
* * ** *
2935736 ATATTTAGCGGCG-TTTGTCATAAAAATGCCGTAATAGGTATTG
1 ATATTTAGCGGCGTTTTTTCA-ACAAACACCGCAATAGGT-TTG
* * * ** *
2935779 A-AGTTTAGCAGCGTTTTTCCCGA-AAATGCCGCAATAGGTATTA
1 ATA-TTTAGCGGCGTTTTT-TCAACAAACACCGCAATAGGT-TTG
* ** *
2935822 AGATTTAGCGATGTTTTTT-AACAAACGA-TGCAATAGGTTTTG
1 ATATTTAGCGGCGTTTTTTCAACAAAC-ACCGCAATAGG-TTTG
* * *
2935864 ATATTTAGCGGAGTTTTTCTC-ACAAACACCGCAATTGTTTTTG
1 ATATTTAGCGGCGTTTTT-TCAACAAACACCGCAATAG-GTTTG
* * ** *
2935907 ATATTTAGTGGCG-TTTTTCATACATATGCCACAATAGGTGTTG
1 ATATTTAGCGGCGTTTTTTCA-ACAAACACCGCAATAGGT-TTG
* *
2935950 ATATTTAACGGTGTTTTTTTCACACAAA
1 ATATTTAGCGGCG-TTTTTTCA-ACAAA
2935978 GGACTCAATA
Statistics
Matches: 184, Mismatches: 40, Indels: 34
0.71 0.16 0.13
Matches are distributed among these distances:
41 3 0.02
42 42 0.23
43 122 0.66
44 5 0.03
45 12 0.07
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (42 bp):
ATATTTAGCGGCGTTTTTTCAACAAACACCGCAATAGGTTTG
Found at i:2945485 original size:42 final size:42
Alignment explanation
Indices: 2945426--2945518 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
2945416 ATAATAGTTC
*
2945426 GCGGCGTTTGTAAACCAAACGCCACCA-CATGCCAACTCTATT
1 GCGGCGTTTGTAAACCAAACGCCACCATAAT-CCAACTCTATT
*
2945468 GCGGCGTTTGTAAACCAAACGCCACTATAATCCAACTCTATT
1 GCGGCGTTTGTAAACCAAACGCCACCATAATCCAACTCTATT
*
2945510 GCGGTGTTT
1 GCGGCGTTT
2945519 ACTCAAAAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 45 0.96
43 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (42 bp):
GCGGCGTTTGTAAACCAAACGCCACCATAATCCAACTCTATT
Found at i:2947179 original size:42 final size:42
Alignment explanation
Indices: 2947132--2947312 Score: 161
Period size: 42 Copynumber: 4.3 Consensus size: 42
2947122 TAAAAAAACC
* * * * *
2947132 CTATTACGACGTTTGAGTTATAAACGCCGCTAATTTACCACT
1 CTATTACGACGTTTGTGGTATAAACACCGCAAAATTACCACT
* * * *
2947174 CTATTACGACATTTGTGGTATAAACACTGCTAAATCACCACT
1 CTATTACGACGTTTGTGGTATAAACACCGCAAAATTACCACT
* ** * *
2947216 CTATTATGATATTTGTGGTATAAACATCGCAAAATTACAACT
1 CTATTACGACGTTTGTGGTATAAACACCGCAAAATTACCACT
* * * *
2947258 CTATTACGGCGTTTG-GGCTA-AAACGCCACAAAATTTA-TACT
1 CTATTACGACGTTTGTGG-TATAAACACCGCAAAA-TTACCACT
2947299 CTATTACGACGTTT
1 CTATTACGACGTTT
2947313 TTACAATAAA
Statistics
Matches: 114, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
41 28 0.25
42 86 0.75
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (42 bp):
CTATTACGACGTTTGTGGTATAAACACCGCAAAATTACCACT
Found at i:2950688 original size:29 final size:29
Alignment explanation
Indices: 2950597--2950688 Score: 77
Period size: 29 Copynumber: 3.1 Consensus size: 29
2950587 TCATACTTTG
* *
2950597 AGGATGAAATTAGAATATTCAAAAGTTTA
1 AGGATAAAATTAGAATATTCAAATGTTTA
2950626 AGGACTAGTTTAAA-T-GAATATT---ATGGTTTA
1 AGGA-TA----AAATTAGAATATTCAAAT-GTTTA
2950656 AGGATAAAATTAGAATATTCAAATGTTTA
1 AGGATAAAATTAGAATATTCAAATGTTTA
2950685 AGGA
1 AGGA
2950689 CCAATTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 22
0.68 0.03 0.30
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 7 0.14
29 16 0.32
30 12 0.24
32 7 0.14
33 1 0.02
34 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (29 bp):
AGGATAAAATTAGAATATTCAAATGTTTA
Found at i:2953839 original size:38 final size:37
Alignment explanation
Indices: 2953774--2953892 Score: 138
Period size: 36 Copynumber: 3.2 Consensus size: 37
2953764 TTATATAATA
* *
2953774 ATATAATATA-ATTTTTTTAAATAT-TTTTTTGAAAAT
1 ATATAATATATA-TTTTTTAAAAATCGTTTTTGAAAAT
* **
2953810 ATATAATATATCA-TTTTTAGAAA-CGTTTTTGAAAGC
1 ATATAATATAT-ATTTTTTAAAAATCGTTTTTGAAAAT
2953846 ATATAATATATATTTTTTAAAAATCGGTTTTTGAAAAT
1 ATATAATATATATTTTTTAAAAATC-GTTTTTGAAAAT
2953884 ATATAATAT
1 ATATAATAT
2953893 GGTTTTGAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
35 1 0.01
36 47 0.68
37 1 0.01
38 20 0.29
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (37 bp):
ATATAATATATATTTTTTAAAAATCGTTTTTGAAAAT
Found at i:2954068 original size:5 final size:5
Alignment explanation
Indices: 2954033--2954083 Score: 63
Period size: 5 Copynumber: 10.6 Consensus size: 5
2954023 ATAGTTTTTT
*
2954033 TATTA TATT- TATTA TA-TA TTATTA -CTTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA
2954081 TAT
1 TAT
2954084 ATTTTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 9 0.22
5 29 0.73
6 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:2954084 original size:12 final size:12
Alignment explanation
Indices: 2954017--2954091 Score: 59
Period size: 12 Copynumber: 6.3 Consensus size: 12
2954007 AAAAATATAG
*
2954017 TATTATATAGTTT
1 TATTATATA-TTA
*
2954030 TTTTATTATATT-
1 TATTA-TATATTA
2954042 TATTATATATTA
1 TATTATATATTA
*
2954054 TTACT-TATATTA
1 -TATTATATATTA
2954066 TA-T-TATATTA
1 TATTATATATTA
*
2954076 TATTATATATTT
1 TATTATATATTA
2954088 TATT
1 TATT
2954092 TATTTCATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
10 10 0.19
11 9 0.17
12 21 0.40
13 9 0.17
14 4 0.08
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (12 bp):
TATTATATATTA
Found at i:2954084 original size:17 final size:16
Alignment explanation
Indices: 2954033--2954095 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 16
2954023 ATAGTTTTTT
2954033 TATTATATTTATTATA
1 TATTATATTTATTATA
*
2954049 TATTATTACTTA-TATTA
1 TATTA-TATTTATTA-TA
2954066 TATTATATTATATTATA
1 TATTATATT-TATTATA
*
2954083 TATTTTATTTATT
1 TATTATATTTATT
2954096 TCATTTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 14 0.35
17 24 0.60
18 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTATATTTATTATA
Found at i:2955327 original size:18 final size:17
Alignment explanation
Indices: 2955304--2955372 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 17
2955294 TCCTTTAAAT
2955304 TTTTATTTATTTATTTCA
1 TTTTATTTATTT-TTTCA
2955322 TTTTATTTATTTTTTCA
1 TTTTATTTATTTTTTCA
**
2955339 TTCTCT-TTTAATTTTAACA
1 TT-T-TATTT-ATTTTTTCA
*
2955358 TGTTATTTATTTTTT
1 TTTTATTTATTTTTT
2955373 TAATATATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 13 0.31
18 20 0.48
19 9 0.21
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.71
Consensus pattern (17 bp):
TTTTATTTATTTTTTCA
Found at i:2955444 original size:6 final size:6
Alignment explanation
Indices: 2955423--2955454 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2955413 ATTTTCTCCA
2955423 TTTTA- TTTTA- TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
2955455 CTCTTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:2970790 original size:40 final size:37
Alignment explanation
Indices: 2970754--2970908 Score: 156
Period size: 38 Copynumber: 4.2 Consensus size: 37
2970744 TAATATAATG
2970754 TAGTTTTTGAAAATATTTTTTGAAAACATATAATATA
1 TAGTTTTTGAAAATATTTTTTGAAAACATATAATATA
** *
2970791 TAGTTTTTAGAAAACGTTTTTTGAAAGCATATAATATA
1 TAGTTTTT-GAAAATATTTTTTGAAAACATATAATATA
* * *
2970829 TAGTTTTTAAAAATCGA-TTTTTGAAAATACAT-A-ATA
1 TAGTTTTTGAAAAT--ATTTTTTGAAAACATATAATATA
* * * *
2970865 T-GGTTTTGAAAATATTTTTTAAAAAACATCTATTATA
1 TAGTTTTTGAAAATATTTTTT-GAAAACATATAATATA
2970902 TAGTTTT
1 TAGTTTT
2970909 AAAAACACAT
Statistics
Matches: 93, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
33 1 0.01
34 5 0.05
35 16 0.17
36 4 0.04
37 17 0.18
38 50 0.54
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.45
Consensus pattern (37 bp):
TAGTTTTTGAAAATATTTTTTGAAAACATATAATATA
Found at i:2970912 original size:23 final size:23
Alignment explanation
Indices: 2970881--2970941 Score: 97
Period size: 23 Copynumber: 2.6 Consensus size: 23
2970871 TGAAAATATT
2970881 TTTTAAAAA-ACATCTATTATATAG
1 TTTTAAAAACACA--TATTATATAG
2970905 TTTTAAAAACACATATTATATAG
1 TTTTAAAAACACATATTATATAG
2970928 TTTTAAAAACACAT
1 TTTTAAAAACACAT
2970942 TTTTGAAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 24 0.67
24 9 0.25
25 3 0.08
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (23 bp):
TTTTAAAAACACATATTATATAG
Found at i:2970971 original size:28 final size:29
Alignment explanation
Indices: 2970925--2970979 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
2970915 ACATATTATA
*
2970925 TAGTTTTAAAAACACA-TTTTTGAAAACC
1 TAGTTTTAAAAAAACATTTTTTGAAAACC
*
2970953 TAGTTTTAAAAAAATATTTTTTGAAAA
1 TAGTTTTAAAAAAACATTTTTTGAAAA
2970980 TGTATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (29 bp):
TAGTTTTAAAAAAACATTTTTTGAAAACC
Found at i:2971054 original size:28 final size:27
Alignment explanation
Indices: 2971006--2971068 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
2970996 TGAAAACATA
2971006 ATATTATATAGTTTTTATTATATTTATTAT
1 ATATTAT-TAGTTTTTATTATA-TTA-TAT
2971036 ATATTATTA-TTTATT-TTATATTATAT
1 ATATTATTAGTTT-TTATTATATTATAT
2971062 AT-TTATT
1 ATATTATT
2971069 TCATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
25 5 0.16
26 5 0.16
27 3 0.09
28 8 0.25
29 4 0.12
30 7 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
ATATTATTAGTTTTTATTATATTATAT
Found at i:2971065 original size:14 final size:14
Alignment explanation
Indices: 2971006--2971065 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 14
2970996 TGAAAACATA
2971006 ATATTATATAGTTTT
1 ATATTATATA-TTTT
2971021 -TATTATATTTATTATAT
1 ATATTATA--TATT-T-T
*
2971038 ATTATTATTTATTTT
1 A-TATTATATATTTT
2971053 ATATTATATATTT
1 ATATTATATATTT
2971066 ATTTCATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
14 18 0.49
15 4 0.11
16 4 0.11
17 5 0.14
19 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATATTATATATTTT
Found at i:2971074 original size:5 final size:4
Alignment explanation
Indices: 2971019--2971087 Score: 50
Period size: 4 Copynumber: 15.8 Consensus size: 4
2971009 TTATATAGTT
*
2971019 TTTA TTATA TTTA TTATA TATTA -TTA TTTA TTTTA TATTA TATA TTTA
1 TTTA TT-TA TTTA TT-TA T-TTA TTTA TTTA -TTTA T-TTA TTTA TTTA
*
2971067 TTTCA TTTTA TTTT TTTA TTT
1 TTT-A -TTTA TTTA TTTA TTT
2971088 CAGGTTCAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
3 3 0.06
4 27 0.51
5 19 0.36
6 4 0.08
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:2972243 original size:29 final size:29
Alignment explanation
Indices: 2972201--2972268 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
2972191 TTTTAGCATC
*
2972201 AATTTAATCCATAGATTTCAATTTGTTCT
1 AATTTGATCCATAGATTTCAATTTGTTCT
2972230 AATTTGATCCATAGATTTCAATTTGTTCT
1 AATTTGATCCATAGATTTCAATTTGTTCT
2972259 AATTTGATCC
1 AATTTGATCC
2972269 TTTAAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (29 bp):
AATTTGATCCATAGATTTCAATTTGTTCT
Found at i:2972343 original size:8 final size:8
Alignment explanation
Indices: 2972330--2972373 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
2972320 GTTCTTCATT
2972330 TTTTTATA
1 TTTTTATA
2972338 TTTTTATA
1 TTTTTATA
*
2972346 TTTTT-TC
1 TTTTTATA
*
2972353 TTTTAATA
1 TTTTTATA
2972361 TTTTTTATA
1 -TTTTTATA
2972370 TTTT
1 TTTT
2972374 ATTTTTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 5 0.17
8 18 0.60
9 7 0.23
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:2972356 original size:15 final size:15
Alignment explanation
Indices: 2972338--2972387 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
2972328 TTTTTTTATA
2972338 TTTTTATATTTTTTC
1 TTTTTATATTTTTTC
* *
2972353 TTTTAATATTTTTTA
1 TTTTTATATTTTTTC
*
2972368 TATTTTATTTTTTTTC
1 T-TTTTATATTTTTTC
2972384 TTTT
1 TTTT
2972388 AAAATTTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATATTTTTTC
Found at i:2972364 original size:22 final size:23
Alignment explanation
Indices: 2972330--2972378 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2972320 GTTCTTCATT
* * *
2972330 TTTTTATATTTTTATATTTTTTC
1 TTTTAATATTTTTATATATTTTA
2972353 TTTTAATATTTTT-TATATTTTA
1 TTTTAATATTTTTATATATTTTA
2972375 TTTT
1 TTTT
2972379 TTTTCTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTAATATTTTTATATATTTTA
Found at i:2972374 original size:31 final size:32
Alignment explanation
Indices: 2972329--2972394 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
2972319 TGTTCTTCAT
*
2972329 TTTTTTATATTTTTATATTTTTTCTTTTAATA
1 TTTTTTATATTTTTATATTTTTTCTTTTAAAA
*
2972361 TTTTTTATA-TTTTATTTTTTTTCTTTTAAAA
1 TTTTTTATATTTTTATATTTTTTCTTTTAAAA
2972392 TTT
1 TTT
2972395 AATATTGTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 23 0.72
32 9 0.28
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (32 bp):
TTTTTTATATTTTTATATTTTTTCTTTTAAAA
Found at i:2972380 original size:24 final size:23
Alignment explanation
Indices: 2972327--2972380 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
2972317 CATGTTCTTC
*
2972327 ATTTTTTTATATTTTTATATTTT
1 ATTTTTTAATATTTTTATATTTT
2972350 -TTCTTTTAATATTTTTTATATTTT
1 ATT-TTTTAATA-TTTTTATATTTT
2972374 ATTTTTT
1 ATTTTTT
2972381 TTCTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 7 0.26
24 16 0.59
25 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (23 bp):
ATTTTTTAATATTTTTATATTTT
Found at i:2972387 original size:14 final size:14
Alignment explanation
Indices: 2972339--2972388 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
2972329 TTTTTTATAT
*
2972339 TTTTATATTTTTTC
1 TTTTATTTTTTTTC
*
2972353 TTTTAATATTTTTTATA
1 TTTT-AT-TTTTTT-TC
2972370 TTTTATTTTTTTTC
1 TTTTATTTTTTTTC
2972384 TTTTA
1 TTTTA
2972389 AAATTTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 10 0.33
15 8 0.27
16 7 0.23
17 5 0.17
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTTTTTTC
Found at i:2975550 original size:5 final size:5
Alignment explanation
Indices: 2975540--2975564 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2975530 TTGGTATTAA
2975540 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
2975565 GCTGATGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2984743 original size:3 final size:3
Alignment explanation
Indices: 2984737--2984778 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
2984727 CAAGAAGATC
*
2984737 ATG ATG ATG ATG ATGG A-G ATG ATG ATG ATG ATC ATG ATG ATG
1 ATG ATG ATG ATG AT-G ATG ATG ATG ATG ATG ATG ATG ATG ATG
2984779 TTAATGGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:2987442 original size:21 final size:21
Alignment explanation
Indices: 2987391--2987442 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2987381 TATGCCATCT
*
2987391 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
*
2987412 CCACCA-GGTTACATGCCTAGC
1 CC-GCAGGGTTACATGCCTAGC
2987433 CCGCAGGGTT
1 CCGCAGGGTT
2987443 TTATGACACC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.19, C:0.35, G:0.25, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:2987995 original size:34 final size:34
Alignment explanation
Indices: 2987951--2988023 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
2987941 TTAAATGTTT
* * *
2987951 TTAATATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
* *
2987985 TTAAAATACAAATTATGGTATTCAAAATTTAACA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
2988019 TTAAA
1 TTAAA
2988024 TTCAACTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCAAAATTTAAAA
Found at i:2988261 original size:23 final size:22
Alignment explanation
Indices: 2988232--2988339 Score: 82
Period size: 23 Copynumber: 5.0 Consensus size: 22
2988222 TTATCCCTTC
*
2988232 ACATTTATTCAATTTATCCATA
1 ACATTTATCCAATTTATCCATA
* *
2988254 ACATTTTATCCAATATATTCA-A
1 ACA-TTTATCCAATTTATCCATA
* *
2988276 ACA---A-CCAATTGATCACTTA
1 ACATTTATCCAATTTATC-CATA
* **
2988295 ACATTTATTCAATTTATTAATA
1 ACATTTATCCAATTTATCCATA
2988317 ACATTTTATCCAATTTATCCATA
1 ACA-TTTATCCAATTTATCCATA
2988340 TGTATAATTT
Statistics
Matches: 63, Mismatches: 15, Indels: 15
0.68 0.16 0.16
Matches are distributed among these distances:
17 7 0.11
18 2 0.03
19 4 0.06
22 13 0.21
23 37 0.59
ACGTcount: A:0.39, C:0.19, G:0.01, T:0.42
Consensus pattern (22 bp):
ACATTTATCCAATTTATCCATA
Found at i:2988739 original size:128 final size:130
Alignment explanation
Indices: 2988425--2989301 Score: 1178
Period size: 138 Copynumber: 6.6 Consensus size: 130
2988415 CCATCCATCT
*** * *
2988425 ATAGTTCCCCGGGGGACATGAGTGACATAATATAACAATGATAACATATTCTATGATAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
2988490 CAAAGGCGCACCCCCGGGAACGCGCTTTCACCACTTTTCCAAGTCCCCTCAGAAATAATAGGTAC
66 CGAAGGCG------C--GAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
2988555 TAACATGA
123 TGACATGA
*
2988563 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
2988628 TGAAGGCGCG-A-GCGCTTTCACCACTTAGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGA
66 CGAAGGCGCGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGA
*
2988691 ATAGTTCCCTGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
2988756 CAAAGGAGCCCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGCAC
66 CGAA-G-G------CGCGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
2988821 TGACATGA
123 TGACATGA
*
2988829 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
2988894 CGAAGGCGCG-A-GCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGA
66 CGAAGGCGCGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGA
2988957 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* ** *
2989022 CAAAGGCGCCCCCCCGGGAATACGCTTTCACCACTTTTCCAAGTCCCCTCAG-----ATAGGTAC
66 CGAAGGCG------C--GAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
2989082 TGACATGA
123 TGACATGA
* *
2989090 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGATAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
2989155 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
66 CGAA-G-GCG----C--GAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
2989220 CGACATGA
123 TGACATGA
* *
2989228 ATAGTTCCTCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
2989293 CGAAGGCGC
66 CGAAGGCGC
2989302 CCCCCGGGAA
Statistics
Matches: 675, Mismatches: 37, Indels: 60
0.87 0.05 0.08
Matches are distributed among these distances:
128 236 0.35
129 3 0.00
130 5 0.01
132 2 0.00
133 121 0.18
134 2 0.00
135 3 0.00
136 8 0.01
137 4 0.01
138 291 0.43
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (130 bp):
ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
CGAAGGCGCGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGA
Found at i:2988901 original size:266 final size:266
Alignment explanation
Indices: 2988425--2989322 Score: 1457
Period size: 266 Copynumber: 3.4 Consensus size: 266
2988415 CCATCCATCT
*** * *
2988425 ATAGTTCCCCGGGGGACATGAGTGACATAATATAACAATGATAACATATTCTATGATAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
2988490 CAAAGGCGCACCCCCGGGAACGCGCTTTCACCACTTTTCCAAGTCCCCTCAGAAATAATAGGTAC
66 CAAAGGCGCCCCCCCGGGAACGCGCTTTCACCACTTTTCCAAGTCCCCTCAGAAATAATAGGTAC
*
2988555 TAACATGAATAGTTCCCCGGGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTGAC
131 TGACATGAATAGTTCCCCGGGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTGAC
* *
2988620 AAAATAATTGAAGGCGCGAGCGCTTTCACCACTTAGCCAAGTCCCCTCAGAAATAATAGGTACTG
196 AAAATAATCGAAGGCGCGAGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTG
2988685 ACATGA
261 ACATGA
*
2988691 ATAGTTCCCTGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
2988756 CAAAGGAGCCCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGCAC
66 CAAAGGCGCCCCCCCGGGAACGCGCTTTCACCACTTTTCCAAGTCCCCTCAGAAATAATAGGTAC
2988821 TGACATGAATAGTTCCCCGGGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTGAC
131 TGACATGAATAGTTCCCCGGGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTGAC
2988886 AAAATAATCGAAGGCGCGAGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTG
196 AAAATAATCGAAGGCGCGAGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTG
2988951 ACATGA
261 ACATGA
2988957 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
**
2989022 CAAAGGCGCCCCCCCGGGAATACGCTTTCACCACTTTTCCAAGTCCCCTCAG-----ATAGGTAC
66 CAAAGGCGCCCCCCCGGGAACGCGCTTTCACCACTTTTCCAAGTCCCCTCAGAAATAATAGGTAC
* * *
2989082 TGACATGAATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGAT
131 TGACATGAATAGTTCCCCGGGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTGAC
2989147 AAAATAATCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATA
196 AAAATAATCGAA-G-GCG----C--G-A-GCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATA
*
2989212 ATAGGTACCGACATGA
251 ATAGGTACTGACATGA
* *
2989228 ATAGTTCCTCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
2989293 CGAAGGCG-CCCCCCGGGAACGCGCCTTCAC
66 CAAAGGCGCCCCCCCGGGAACGCGCTTTCAC
2989323 ATGAATAGTA
Statistics
Matches: 593, Mismatches: 29, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
261 81 0.14
262 1 0.00
263 3 0.01
266 365 0.62
267 1 0.00
269 1 0.00
270 20 0.03
271 121 0.20
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (266 bp):
ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
CAAAGGCGCCCCCCCGGGAACGCGCTTTCACCACTTTTCCAAGTCCCCTCAGAAATAATAGGTAC
TGACATGAATAGTTCCCCGGGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTGAC
AAAATAATCGAAGGCGCGAGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTG
ACATGA
Found at i:2989119 original size:133 final size:134
Alignment explanation
Indices: 2988906--2989322 Score: 640
Period size: 133 Copynumber: 3.1 Consensus size: 134
2988896 AAGGCGCGAG
2988906 CGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGGG
1 CGCTTTCACCACTTTGCCAAGTCCCCTCAG----AATAGGTACTGACATGAATAGTTCCCCGGGG
* *
2988971 GACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATCAAAGGCGCCCCCC
62 GACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAATCGAAGGCGCCCCCC
*
2989036 CGGGAATA
127 CGGGAACA
*
2989044 CGCTTTCACCACTTTTCCAAGTCCCCTCAG-ATAGGTACTGACATGAATAGTTCCCCGGGGGACA
1 CGCTTTCACCACTTTGCCAAGTCCCCTCAGAATAGGTACTGACATGAATAGTTCCCCGGGGGACA
* *
2989108 TGAGTGACATAATAGGGCAATGATAACATATTCTATGATAAAATAATCGAAGGCGCGCCCCCGGG
66 TGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAATCGAAGGCGCCCCCCCGGG
*
2989173 AACG
131 AACA
* *
2989177 CGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACCGACATGAATAGTTCCTCGGGG
1 CGCTTTCACCACTTTGCCAAGTCCCCTCAG----AATAGGTACTGACATGAATAGTTCCCCGGGG
*
2989242 GACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAATCGAAGGCG-CCCCC
62 GACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAATCGAAGGCGCCCCCC
*
2989306 CGGGAACG
127 CGGGAACA
*
2989314 CGCCTTCAC
1 CGCTTTCAC
2989323 ATGAATAGTA
Statistics
Matches: 260, Mismatches: 14, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
133 126 0.48
137 20 0.08
138 114 0.44
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (134 bp):
CGCTTTCACCACTTTGCCAAGTCCCCTCAGAATAGGTACTGACATGAATAGTTCCCCGGGGGACA
TGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAATCGAAGGCGCCCCCCCGGG
AACA
Found at i:2990191 original size:21 final size:21
Alignment explanation
Indices: 2990165--2990214 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2990155 TTTATTATTG
2990165 GAGGAACCCTCATCTCCACCA
1 GAGGAACCCTCATCTCCACCA
*
2990186 GAGGAACCCTCATCTTCACCA
1 GAGGAACCCTCATCTCCACCA
*
2990207 GAAGAACC
1 GAGGAACC
2990215 TCTTCAGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.38, G:0.16, T:0.14
Consensus pattern (21 bp):
GAGGAACCCTCATCTCCACCA
Found at i:2992451 original size:22 final size:23
Alignment explanation
Indices: 2992423--2992470 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
2992413 TTTATGATAT
*
2992423 TTATTTAATATAATAATTAA-TA
1 TTATTTAATATAAAAATTAATTA
*
2992445 TTATTTATTATAAAAATTAATTA
1 TTATTTAATATAAAAATTAATTA
2992468 TTA
1 TTA
2992471 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTATTTAATATAAAAATTAATTA
Found at i:2992465 original size:26 final size:25
Alignment explanation
Indices: 2992397--2992467 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 25
2992387 TTTTTTAATT
* *
2992397 TTTATTTAAAAATTATTTTATGATA
1 TTTATTTAAAAATTAATTAATGATA
2992422 TTTATTTAATATAA-TAATTAAT-ATTA
1 TTTATTTAA-A-AATTAATTAATGA-TA
2992448 TTTATTATAAAAATTAATTA
1 TTTATT-TAAAAATTAATTA
2992468 TTAATTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 12 0.31
26 22 0.56
27 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
TTTATTTAAAAATTAATTAATGATA
Found at i:2993086 original size:61 final size:60
Alignment explanation
Indices: 2992992--2993109 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 60
2992982 AGAAATACCA
* * * **
2992992 ACGTGACATCTGATTCAGCAAAACCCATATAAAGCGCATCCCCGGGGATGCGCCTTTCAC
1 ACGTGACATCCGACTCAGCAAAACCCAGATAAAGCGCATCCCCGAAGATGCGCCTTTCAC
* * * *
2993052 ACGTGGCATCCGACTCAGCATAAACCCAGGTAAAGTGCGTCCCCGAAGATGCGCCTTT
1 ACGTGACATCCGACTCAGCA-AAACCCAGATAAAGCGCATCCCCGAAGATGCGCCTTT
2993110 GTGCCACCTC
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
60 17 0.35
61 31 0.65
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.19
Consensus pattern (60 bp):
ACGTGACATCCGACTCAGCAAAACCCAGATAAAGCGCATCCCCGAAGATGCGCCTTTCAC
Found at i:2999360 original size:6 final size:6
Alignment explanation
Indices: 2999349--2999375 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2999339 AATTGATTTT
2999349 TTATAA TTATAA TTATAA TTATAA TTA
1 TTATAA TTATAA TTATAA TTATAA TTA
2999376 CTATATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:3006342 original size:21 final size:21
Alignment explanation
Indices: 3006312--3006373 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
3006302 AACTAGAGGA
* *
3006312 GAAAAAGAAGCAGGAAGAATC
1 GAAAATGAAGCAGGAAGAAGC
3006333 GAAAATGAAGCAGGAAGAAGC
1 GAAAATGAAGCAGGAAGAAGC
3006354 GAAAATGAAGCAGGAAGAAG
1 GAAAATGAAGCAGGAAGAAG
3006374 AGGAGAGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.55, C:0.08, G:0.32, T:0.05
Consensus pattern (21 bp):
GAAAATGAAGCAGGAAGAAGC
Found at i:3008376 original size:6 final size:6
Alignment explanation
Indices: 3008338--3008434 Score: 87
Period size: 6 Copynumber: 16.7 Consensus size: 6
3008328 CGCTCGGTCC
* *
3008338 TTTTAT TTATT-T ATTTTAT TTCTA- TTTT-G TTTTAT TTTTAT TTTTAT
1 TTTTAT TT-TTAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * *
3008385 TTTTAT TTTTA- TTTT-T TTTTGT TTTTAT TTTTAT TTATGT TATTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
3008431 TTTT
1 TTTT
3008435 GTAGAATTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
5 15 0.20
6 54 0.73
7 5 0.07
ACGTcount: A:0.15, C:0.01, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:3008392 original size:34 final size:34
Alignment explanation
Indices: 3008338--3008420 Score: 114
Period size: 34 Copynumber: 2.4 Consensus size: 34
3008328 CGCTCGGTCC
3008338 TTTTATTTATT-TATTTTATTTCTATTTTGTTTTAT
1 TTTTATTT-TTAT-TTTTATTTCTATTTTGTTTTAT
* * *
3008373 TTTTATTTTTATTTTTATTTTTATTTTTTTTTGT
1 TTTTATTTTTATTTTTATTTCTATTTTGTTTTAT
3008407 TTTTATTTTTATTT
1 TTTTATTTTTATTT
3008421 ATGTTATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
34 35 0.80
35 9 0.20
ACGTcount: A:0.14, C:0.01, G:0.02, T:0.82
Consensus pattern (34 bp):
TTTTATTTTTATTTTTATTTCTATTTTGTTTTAT
Found at i:3008398 original size:40 final size:40
Alignment explanation
Indices: 3008338--3008434 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 40
3008328 CGCTCGGTCC
3008338 TTTTATTTATT-TATTTTATTTCTATTTTG-TTTTATTTTTAT
1 TTTTATTT-TTAT-TTTTATTT-TATTTTGTTTTTATTTTTAT
*
3008379 TTTTATTTTTATTTTTATTTTTTTTTGTTTTTATTTTTAT
1 TTTTATTTTTATTTTTATTTTATTTTGTTTTTATTTTTAT
* * *
3008419 TTATGTTATTATTTTT
1 TTTTATTTTTATTTTT
3008435 GTAGAATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
39 6 0.12
40 35 0.70
41 9 0.18
ACGTcount: A:0.15, C:0.01, G:0.03, T:0.80
Consensus pattern (40 bp):
TTTTATTTTTATTTTTATTTTATTTTGTTTTTATTTTTAT
Found at i:3008431 original size:34 final size:34
Alignment explanation
Indices: 3008338--3008434 Score: 108
Period size: 34 Copynumber: 2.8 Consensus size: 34
3008328 CGCTCGGTCC
*
3008338 TTTTATTTATTTATTT-TATT-TCTATTTTGTTTTAT
1 TTTTA-TT-TTTATTTATATTAT-TATTTTTTTTTAT
* * *
3008373 TTTTATTTTTATTTTTATTTTTATTTTTTTTTGT
1 TTTTATTTTTATTTATATTATTATTTTTTTTTAT
*
3008407 TTTTATTTTTATTTATGTTATTATTTTT
1 TTTTATTTTTATTTATATTATTATTTTT
3008435 GTAGAATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.13
34 42 0.76
35 6 0.11
ACGTcount: A:0.15, C:0.01, G:0.03, T:0.80
Consensus pattern (34 bp):
TTTTATTTTTATTTATATTATTATTTTTTTTTAT
Found at i:3020416 original size:21 final size:20
Alignment explanation
Indices: 3020382--3020420 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3020372 CATCAAGGTC
3020382 TTTGTTGAAGCCATGAAATCT
1 TTTGTTGAAGCCAT-AAATCT
3020403 TTTGTTG-AGACCATAAAT
1 TTTGTTGAAG-CCATAAAT
3020421 TCCTGCAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (20 bp):
TTTGTTGAAGCCATAAATCT
Found at i:3025478 original size:21 final size:20
Alignment explanation
Indices: 3025454--3025503 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
3025444 ATATGAACAT
3025454 TATCGATACTGAT-TGAAGTAG
1 TATCGATACTGATGTGAAG--G
* *
3025475 TATCGATATTGATGTGGAGG
1 TATCGATACTGATGTGAAGG
3025495 TATCGATAC
1 TATCGATAC
3025504 CAAGAGTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.36
21 12 0.48
22 4 0.16
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (20 bp):
TATCGATACTGATGTGAAGG
Found at i:3026047 original size:30 final size:30
Alignment explanation
Indices: 3025990--3026048 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
3025980 TTATTAGTAT
* *
3025990 GTGAACATGTTATATGTGCATTGATTCTAA
1 GTGAAAATGTTATATGTGAATTGATTCTAA
3026020 GTGAAAATGTTATATGTGAATAT-ATTCTA
1 GTGAAAATGTTATATGTGAAT-TGATTCTA
3026049 TGCGAATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.41
Consensus pattern (30 bp):
GTGAAAATGTTATATGTGAATTGATTCTAA
Found at i:3026247 original size:24 final size:24
Alignment explanation
Indices: 3026195--3026250 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
3026185 CCTTCGAGAC
* *
3026195 AATTCTATGTGGCACTTTGGTGCA
1 AATTCTATGTGGCACTTCGGGGCA
* *
3026219 TATTCTATGTGGCACTTCGGGGTA
1 AATTCTATGTGGCACTTCGGGGCA
3026243 AATTCTAT
1 AATTCTAT
3026251 ACGGCAGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.39
Consensus pattern (24 bp):
AATTCTATGTGGCACTTCGGGGCA
Found at i:3032975 original size:21 final size:22
Alignment explanation
Indices: 3032951--3032991 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3032941 GGTTCTAGGC
*
3032951 GGTCCTTCGGGACA-TCTATGT
1 GGTCCTTCGAGACATTCTATGT
3032972 GGTCCTTCGAGACATTCTAT
1 GGTCCTTCGAGACATTCTAT
3032992 ATAGAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (22 bp):
GGTCCTTCGAGACATTCTATGT
Found at i:3033246 original size:18 final size:18
Alignment explanation
Indices: 3033203--3033248 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
3033193 TAAAAGGGAT
3033203 TAATGATAATAATATTGA
1 TAATGATAATAATATTGA
* *
3033221 TAACGATAATAATGTTGA
1 TAATGATAATAATATTGA
*
3033239 TGATGATAAT
1 TAATGATAAT
3033249 GATGATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (18 bp):
TAATGATAATAATATTGA
Found at i:3033500 original size:2 final size:2
Alignment explanation
Indices: 3033495--3033540 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3033485 TTTGTATTGC
3033495 AT AT AT AT AT 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 AT AT AT AT AT
3033537 AT AT
1 AT AT
3033541 TGTTATATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3039792 original size:21 final size:21
Alignment explanation
Indices: 3039735--3039793 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
3039725 ATGAATCGGA
*
3039735 TGAA-TAGTATCGATACTGAT
1 TGAAGTAGTATCGATATTGAT
*
3039755 TGAAGTAATATCGATATTGAT
1 TGAAGTAGTATCGATATTGAT
3039776 TGAAGTAGTATCGATATT
1 TGAAGTAGTATCGATATT
3039794 AATGTGCAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (21 bp):
TGAAGTAGTATCGATATTGAT
Found at i:3040317 original size:15 final size:15
Alignment explanation
Indices: 3040297--3040361 Score: 69
Period size: 15 Copynumber: 4.3 Consensus size: 15
3040287 ATTTTATTAG
*
3040297 TATGTGAACATGTTA
1 TATGTGAAAATGTTA
*
3040312 TATGTG-AATTGATTA
1 TATGTGAAAATG-TTA
* *
3040327 TACGTGAAAATGTTC
1 TATGTGAAAATGTTA
*
3040342 TATGTGAAAATGTTC
1 TATGTGAAAATGTTA
3040357 TATGT
1 TATGT
3040362 TAATGTGGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
14 3 0.07
15 35 0.83
16 4 0.10
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (15 bp):
TATGTGAAAATGTTA
Found at i:3040557 original size:24 final size:24
Alignment explanation
Indices: 3040484--3040563 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 24
3040474 GAGTCGAGGG
*
3040484 TTCTACGTGGTCCTTCGAG-AC-AA
1 TTCTACGTGGTACTTC-AGTACAAA
* * * ** *
3040507 TTCTATGTGGCACTACAGTGTATA
1 TTCTACGTGGTACTTCAGTACAAA
3040531 TTCTACGTGGTACTTCAGTACAAA
1 TTCTACGTGGTACTTCAGTACAAA
3040555 TTCTACGTG
1 TTCTACGTG
3040564 ACAGTTTTGA
Statistics
Matches: 42, Mismatches: 13, Indels: 3
0.72 0.22 0.05
Matches are distributed among these distances:
22 2 0.05
23 12 0.29
24 28 0.67
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (24 bp):
TTCTACGTGGTACTTCAGTACAAA
Found at i:3045786 original size:36 final size:35
Alignment explanation
Indices: 3045712--3045786 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 35
3045702 TCCCCTGTTC
* **
3045712 TTTTATTTATTTATTTTTGTTTATTTTTGTTTTTA
1 TTTTATTTATTTATTTTTGTTTAATTTTGTTTAGA
3045747 TTTTAATTTATGTTA-TTTTGTTATAATTTT-TTTAGA
1 TTTT-ATTTAT-TTATTTTTGTT-TAATTTTGTTTAGA
3045783 TTTT
1 TTTT
3045787 TACAAGCCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 4 0.12
36 21 0.62
37 9 0.26
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.75
Consensus pattern (35 bp):
TTTTATTTATTTATTTTTGTTTAATTTTGTTTAGA
Found at i:3049541 original size:54 final size:54
Alignment explanation
Indices: 3049453--3049925 Score: 664
Period size: 54 Copynumber: 8.8 Consensus size: 54
3049443 CCAAAATGGA
* * * *
3049453 AATTCATAAACTTATTATGAATTCCAT-AGATTGCACACATAGTGTCGATGA-GGT
1 AATTCACAAACTCATTATGAATTCCGTGAG-TTGCACACTTAGTGTCGAT-ACGGT
* * *
3049507 AATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTGTCGATACGGT
1 AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTAGTGTCGATACGGT
* * * *
3049561 AATTCACAAACTCATTATGAATTCCGTGAGTTGTACACTCAGCGTCGATACAGT
1 AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTAGTGTCGATACGGT
*
3049615 AATTCACAAACTCATTATGAATTTCGTGAGTTGCACACTTAGTGTCGATACGGT
1 AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTAGTGTCGATACGGT
* * *
3049669 AATTCACAAACTAATTATGAATTACGTGAGTTGCACACTTAGTGCCGATACGGT
1 AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTAGTGTCGATACGGT
* ** *
3049723 AATTCACAAACTCAATAAAAATTCCATGAGTTGCACACTTAGTGTCGATACGGT
1 AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTAGTGTCGATACGGT
* * * *
3049777 AATTCAAAAACTCATTATGAATTCCATGAGTTGCACACTTAGTGCCGATATGGT
1 AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTAGTGTCGATACGGT
3049831 AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTAGTG-CTGATACGGT
1 AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTAGTGTC-GATACGGT
* * *
3049885 AATTCACAAGCTCATTATGAATTACGTGGGTTGCACACTTA
1 AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTA
3049926 CTGCTGATAG
Statistics
Matches: 379, Mismatches: 37, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
53 2 0.01
54 376 0.99
55 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (54 bp):
AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTAGTGTCGATACGGT
Found at i:3050694 original size:23 final size:23
Alignment explanation
Indices: 3050668--3050713 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3050658 AATACTAAGA
3050668 ATCACACACAAATTTCAAACATG
1 ATCACACACAAATTTCAAACATG
3050691 ATCACACACAAATTTCAAACATG
1 ATCACACACAAATTTCAAACATG
3050714 TTTTCAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.04, T:0.22
Consensus pattern (23 bp):
ATCACACACAAATTTCAAACATG
Found at i:3055926 original size:54 final size:54
Alignment explanation
Indices: 3055612--3055925 Score: 479
Period size: 54 Copynumber: 5.8 Consensus size: 54
3055602 CCGAAATGGA
* * * * *
3055612 AATTCATAAACTTATTATGAATTCCATG-GATTGCACACATAGTGTCGATACGGT
1 AATTCACAAACTCATTATGAATTTCGTGAG-TTGCACACTTAGTGTCGATACGGT
* *
3055666 AATTCACAAACTCATTATGAATTTCATGAGTTGCACACTTAGTGTCGACACGGT
1 AATTCACAAACTCATTATGAATTTCGTGAGTTGCACACTTAGTGTCGATACGGT
*
3055720 AATTCACAAACTCATTATGAATTTCGTGAGTTGCACACTTAGTATCGATACGGT
1 AATTCACAAACTCATTATGAATTTCGTGAGTTGCACACTTAGTGTCGATACGGT
*
3055774 AATTCACAAACTCATTATGAATTCCGTGAGTTGCACACTTAGTGTCGATACGGT
1 AATTCACAAACTCATTATGAATTTCGTGAGTTGCACACTTAGTGTCGATACGGT
* *
3055828 AATTCACAAACTCGTTATGAA-TTCTGTGAGTTGCACACTTAGTGCCGATACGGT
1 AATTCACAAACTCATTATGAATTTC-GTGAGTTGCACACTTAGTGTCGATACGGT
* *
3055882 AATTCACAAACTCATTATGAATTTCGTGGGCTGCACACTTAGTG
1 AATTCACAAACTCATTATGAATTTCGTGAGTTGCACACTTAGTG
3055926 CTGATAGTAC
Statistics
Matches: 241, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
53 2 0.01
54 235 0.98
55 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (54 bp):
AATTCACAAACTCATTATGAATTTCGTGAGTTGCACACTTAGTGTCGATACGGT
Found at i:3056652 original size:20 final size:21
Alignment explanation
Indices: 3056609--3056652 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
3056599 AAACTAACTT
** *
3056609 ACATCCATAAATCTCCTTATA
1 ACATCCATAAATCTCCAAAGA
3056630 ACATCCA-AAATCTCCAAAGA
1 ACATCCATAAATCTCCAAAGA
3056650 ACA
1 ACA
3056653 CTCAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACATCCATAAATCTCCAAAGA
Found at i:3070516 original size:132 final size:133
Alignment explanation
Indices: 3070278--3070550 Score: 512
Period size: 132 Copynumber: 2.1 Consensus size: 133
3070268 GAAATTCCAC
3070278 TATTGAATTGCAACACCAAATTCACGTTGTGACATATGTAGGTATGAAAATTTGCAAGAACTCTC
1 TATTGAATTGCAACACCAAATTCACGTTGTGACATATGTAGGTATGAAAATTTGCAAGAACTCTC
*
3070343 TCATTGTGATGAAATGGTAGAGAAAGGCTATCAAATTTTTTGTTCTGTTCGGTCAATAAACACGT
66 TCATAGTGATGAAATGGTAGAGAAAGGCTATCAAATTTTTTGTTCTGTTCGGTCAATAAACACGT
3070408 CTT
131 CTT
*
3070411 TATTGAATTGCAACACCAAATTCACGTTGTGACATATGTAGGTATG-GAATTTGCAAGAACTCTC
1 TATTGAATTGCAACACCAAATTCACGTTGTGACATATGTAGGTATGAAAATTTGCAAGAACTCTC
*
3070475 TCATAGTGATGAAATGGTAGAGAAAGGCTATCAAATTTTTTGTTTTGTTCGGTCAATAAACACGT
66 TCATAGTGATGAAATGGTAGAGAAAGGCTATCAAATTTTTTGTTCTGTTCGGTCAATAAACACGT
3070540 CTT
131 CTT
3070543 TATTGAAT
1 TATTGAAT
3070551 CAACAATTTT
Statistics
Matches: 137, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
132 91 0.66
133 46 0.34
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (133 bp):
TATTGAATTGCAACACCAAATTCACGTTGTGACATATGTAGGTATGAAAATTTGCAAGAACTCTC
TCATAGTGATGAAATGGTAGAGAAAGGCTATCAAATTTTTTGTTCTGTTCGGTCAATAAACACGT
CTT
Found at i:3079240 original size:31 final size:29
Alignment explanation
Indices: 3079195--3079324 Score: 104
Period size: 31 Copynumber: 4.3 Consensus size: 29
3079185 AAATTTCAAT
3079195 AAAG-TTAATAATTATTTTATAATAATTTGA
1 AAAGTTTAATAATTATTTTATAAT-ATTT-A
* *
3079225 AAAGTTTAATGATTATTTT-TGCAATCGTTTA
1 AAAGTTTAATAATTATTTTAT--AAT-ATTTA
*
3079256 ATAAATTTAATGAA-TATTTTATAATTATTTAA
1 A-AAGTTTAAT-AATTATTTTATAA-TATTT-A
**
3079288 AAAAATTAATAATTATTTTATAATATTTA
1 AAAGTTTAATAATTATTTTATAATATTTA
*
3079317 AATGTTTA
1 AAAGTTTA
3079325 CTGACAAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
29 6 0.07
30 12 0.15
31 38 0.47
32 23 0.28
33 2 0.02
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (29 bp):
AAAGTTTAATAATTATTTTATAATATTTA
Found at i:3079266 original size:9 final size:10
Alignment explanation
Indices: 3079252--3079317 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 10
3079242 TTTGCAATCG
3079252 TTTAATAA-A
1 TTTAATAATA
3079261 TTTAATGAATA
1 TTTAAT-AATA
*
3079272 TTTTATAATTA
1 TTTAATAA-TA
*
3079283 TTTAA-AAAA
1 TTTAATAATA
*
3079292 ATTAATAATTA
1 TTTAATAA-TA
*
3079303 TTTTATAATA
1 TTTAATAATA
3079313 TTTAA
1 TTTAA
3079318 ATGTTTACTG
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
9 11 0.25
10 14 0.32
11 19 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (10 bp):
TTTAATAATA
Found at i:3085940 original size:15 final size:17
Alignment explanation
Indices: 3085906--3085945 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
3085896 TATGGTTTAT
3085906 ATATGATAAATAAGAAG
1 ATATGATAAATAAGAAG
3085923 ATATGA-AAATAA-AAG
1 ATATGATAAATAAGAAG
*
3085938 ATAAGATA
1 ATATGATA
3085946 TGTGACTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (17 bp):
ATATGATAAATAAGAAG
Found at i:3088304 original size:30 final size:30
Alignment explanation
Indices: 3088190--3088493 Score: 181
Period size: 30 Copynumber: 10.2 Consensus size: 30
3088180 CAAACCAAAA
** * * *
3088190 TAAAATACCAAAAATAAGAATTTAAGGGAC
1 TAAAATAGTAAAAATAAAAACTTAAAGGAC
** * *
3088220 TAAAATA-TGATTAATAGAAATTTAAAGGAC
1 TAAAATAGT-AAAAATAAAAACTTAAAGGAC
* * * * * *
3088250 T-GAACAGTAAATACAGAAAGTTAAAGGAC
1 TAAAATAGTAAAAATAAAAACTTAAAGGAC
*
3088279 TAAAATAGTAAAAATAAAAACTTAAAAGAC
1 TAAAATAGTAAAAATAAAAACTTAAAGGAC
*
3088309 TAAAATAGCAAAAATAAAAACTTAAAGGAC
1 TAAAATAGTAAAAATAAAAACTTAAAGGAC
** * * *
3088339 TAAAATAGTATTAATAGAAACTAAAAGGGC
1 TAAAATAGTAAAAATAAAAACTTAAAGGAC
* * * *
3088369 CAAAATAATAAAAATAGAAACTT-AAGGTTC
1 TAAAATAGTAAAAATAAAAACTTAAAGG-AC
* * *
3088399 T-AAATA--ACAAATACAGATATTTAAAGGAC
1 TAAAATAGTAAAAATA-A-AAACTTAAAGGAC
** ** * *
3088428 TAAAATAACAAAAATGGACATTTAAAGGAC
1 TAAAATAGTAAAAATAAAAACTTAAAGGAC
* *
3088458 TAAAATAAG-AAAAACAAGAACTTAAAGGAC
1 TAAAAT-AGTAAAAATAAAAACTTAAAGGAC
3088488 TAAAAT
1 TAAAAT
3088494 GGTATTAATA
Statistics
Matches: 212, Mismatches: 51, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
27 6 0.03
29 35 0.17
30 165 0.78
31 1 0.00
32 5 0.02
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (30 bp):
TAAAATAGTAAAAATAAAAACTTAAAGGAC
Found at i:3088385 original size:149 final size:149
Alignment explanation
Indices: 3088232--3088513 Score: 361
Period size: 149 Copynumber: 1.9 Consensus size: 149
3088222 AAATATGATT
* * ** **
3088232 AATAGAAATTTAAAGG-ACTGAACAGTAAATACAGAAAGTTAAAGGACTAAAATAGTAAAAATAA
1 AATAGAAACTT-AAGGTACTAAACAACAAATACAGAAAGTTAAAGGACTAAAATAACAAAAATAA
* *
3088296 AAACTTAAAAGACTAAAAT-AGCAAAAATAAAAACTTAAAGGACTAAAATAGTATTAATAGAAAC
65 AAACTTAAAAGACTAAAATAAG-AAAAACAAAAACTTAAAGGACTAAAATAGTATTAATAGAAAA
3088360 TAAAAGGGCCAAAATAATAAA
129 TAAAAGGGCCAAAATAATAAA
* * * * **
3088381 AATAGAAACTTAAGGTTCTAAATAACAAATACAGATATTTAAAGGACTAAAATAACAAAAATGGA
1 AATAGAAACTTAAGGTACTAAACAACAAATACAGAAAGTTAAAGGACTAAAATAACAAAAATAAA
* * * * *
3088446 CATTTAAAGGACTAAAATAAGAAAAACAAGAACTTAAAGGACTAAAATGGTATTAATAGAAAATA
66 AACTTAAAAGACTAAAATAAGAAAAACAAAAACTTAAAGGACTAAAATAGTATTAATAGAAAATA
3088511 AAA
131 AAA
3088514 TGGCTAAACA
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
148 4 0.04
149 106 0.95
150 2 0.02
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.21
Consensus pattern (149 bp):
AATAGAAACTTAAGGTACTAAACAACAAATACAGAAAGTTAAAGGACTAAAATAACAAAAATAAA
AACTTAAAAGACTAAAATAAGAAAAACAAAAACTTAAAGGACTAAAATAGTATTAATAGAAAATA
AAAGGGCCAAAATAATAAA
Found at i:3088553 original size:149 final size:147
Alignment explanation
Indices: 3088258--3088559 Score: 333
Period size: 149 Copynumber: 2.0 Consensus size: 147
3088248 ACTGAACAGT
**
3088258 AAATACAGAAAGTTAAAGGACTAAAATAGTAAAAATAAAAACTTAAAAGACTAAAATAGCAAAAA
1 AAATACAGAAAGTTAAAGGACTAAAATAACAAAAATAAAAACTTAAAAGACTAAAATAGCAAAAA
* *
3088323 TAAAAACTTAAAGGACTAAAATAGTATTAATAGAAACTAAAAGGGCCAAAATAATAAAAATAGAA
66 CAAAAACTTAAAGGACTAAAATAGTATTAATAGAAAATAAAAGGGCCAAAATAATAAAAATA-AA
** * *
3088388 ACTTAAGGTTCTAAATAAC
130 ACTTAA-GACCCAAATAAA
* * ** * * *
3088407 AAATACAGATATTTAAAGGACTAAAATAACAAAAATGGACATTTAAAGGACTAAAATAAG-AAAA
1 AAATACAGAAAGTTAAAGGACTAAAATAACAAAAATAAAAACTTAAAAGACTAAAAT-AGCAAAA
* * * *
3088471 ACAAGAACTTAAAGGACTAAAATGGTATTAATAGAAAATAAAATGGCTAAACATTAATTACAAAA
65 ACAAAAACTTAAAGGACTAAAATAGTATTAATAGAAAATAAAAGGGCCAAA-A-TAA-TA-AAAA
3088536 T-AAAC-TACA-ACCCAAATAAA
126 TAAAACTTA-AGACCCAAATAAA
3088556 AAAT
1 AAAT
3088560 GTGAAATAAT
Statistics
Matches: 128, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
149 108 0.84
150 5 0.04
151 8 0.06
152 2 0.02
153 5 0.04
ACGTcount: A:0.59, C:0.10, G:0.11, T:0.21
Consensus pattern (147 bp):
AAATACAGAAAGTTAAAGGACTAAAATAACAAAAATAAAAACTTAAAAGACTAAAATAGCAAAAA
CAAAAACTTAAAGGACTAAAATAGTATTAATAGAAAATAAAAGGGCCAAAATAATAAAAATAAAA
CTTAAGACCCAAATAAA
Found at i:3089318 original size:3 final size:3
Alignment explanation
Indices: 3089305--3089381 Score: 61
Period size: 3 Copynumber: 26.3 Consensus size: 3
3089295 TGTATGTAAA
* * *
3089305 AAT AAT AAAT AAT -AT GAT AAT AAT GAT AAT AAT AAA AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
3089350 AA- AAC GAT AAT GAT AAC AAT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3089382 TTTTTTTGAG
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
2 6 0.10
3 49 0.84
4 3 0.05
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3089751 original size:131 final size:131
Alignment explanation
Indices: 3089578--3089905 Score: 417
Period size: 131 Copynumber: 2.5 Consensus size: 131
3089568 GTCGTCTAAA
* * * * *
3089578 GGTGACACGGCTCTTACGTGATGAGGAGATCTAGTCGGGGGATGACACAGTTCCTATGTGATGAG
1 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAG
* * * *
3089643 CATGATATGCCATCTTTAGG-GATGATAACACGGTTCCTACGTGATGAGGATGACTAGTTATCTA
66 CATGACAGGCCAACTTTAGGAGATGATAACACGGTTCCTACGTGATGAGGACGACTAGTTATC-A
3089707 GG
130 GG
* * *
3089709 GGTGACACGGCCCCTACGTGATGAGGAGGTATGGTCGGGGGATGACACGGTTCCTACGTGATAAG
1 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAG
* * * * *
3089774 GATGGCAGGCCAACTTTTGGAATGATGATAACATGGTTCCTACGTGATGAGGACGACTGGTTATC
66 CATGACAGGCCAACTTTAGG-A-GATGATAACACGGTTCCTACGTGATGAGGACGACTAGTTATC
3089839 AGG
129 AGG
* * ** *
3089842 GGTGACACGGCTCCTACGTGATAAAGAGGTCTGGTC-CTGGATGACACGGTTCCTACGCGATGAG
1 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAG
3089906 GACGGTATAC
Statistics
Matches: 169, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
131 71 0.42
132 24 0.14
133 35 0.21
134 39 0.23
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.25
Consensus pattern (131 bp):
GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAG
CATGACAGGCCAACTTTAGGAGATGATAACACGGTTCCTACGTGATGAGGACGACTAGTTATCAG
G
Found at i:3089766 original size:40 final size:42
Alignment explanation
Indices: 3089580--3089777 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 42
3089570 CGTCTAAAGG
* * *
3089580 TGACACGGCTCTTACGTGATGAGGA-GATCT-AGTC-GGGGGA
1 TGACACGGTTCCTACGTGATGAGGATGATATGA-TCTGGGGGA
* * * *
3089620 TGACACAGTTCCTATGTGATGAGCATGATATGCCATCTTTAGGGATGA
1 TGACACGGTTCCTACGTGATGAGGATGATATG--ATC--T-GGG-GGA
* * *
3089668 TAACACGGTTCCTACGTGATGAGGATGACTAGTTATCTAGGGG-
1 TGACACGGTTCCTACGTGATGAGGATGA-TA-TGATCTGGGGGA
** * *
3089711 TGACACGGCCCCTACGTGATGAGGA-GGTATGGTC-GGGGGA
1 TGACACGGTTCCTACGTGATGAGGATGATATGATCTGGGGGA
*
3089751 TGACACGGTTCCTACGTGATAAGGATG
1 TGACACGGTTCCTACGTGATGAGGATG
3089778 GCAGGCCAAC
Statistics
Matches: 121, Mismatches: 24, Indels: 25
0.71 0.14 0.15
Matches are distributed among these distances:
39 4 0.03
40 45 0.37
41 7 0.06
42 1 0.01
43 24 0.20
44 2 0.02
45 2 0.02
46 1 0.01
47 3 0.02
48 29 0.24
49 2 0.02
50 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (42 bp):
TGACACGGTTCCTACGTGATGAGGATGATATGATCTGGGGGA
Found at i:3090017 original size:31 final size:31
Alignment explanation
Indices: 3089933--3090009 Score: 111
Period size: 32 Copynumber: 2.5 Consensus size: 31
3089923 ACGGATAATG
*
3089933 GTTTCAAGAGAAACCGACTCAAAGATGATTTT
1 GTTTCAAGAGAAACAGACTCAAAGAT-ATTTT
3089965 GTTTCAAGAGAAACAGACTCAAAGAT-TTTGT
1 GTTTCAAGAGAAACAGACTCAAAGATATTT-T
*
3089996 GTTTCCAGAGAAAC
1 GTTTCAAGAGAAAC
3090010 TGCCTCAAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
30 3 0.07
31 14 0.33
32 25 0.60
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (31 bp):
GTTTCAAGAGAAACAGACTCAAAGATATTTT
Found at i:3090179 original size:63 final size:63
Alignment explanation
Indices: 3089960--3090185 Score: 199
Period size: 65 Copynumber: 3.5 Consensus size: 63
3089950 CTCAAAGATG
* * * *
3089960 ATTTTGTTTCAAGAGAAACAGACTCAAAGATTTTGTGTTTCCAGAGAAACTGCCTCAAGGGAGAC
1 ATTTTGTTTCAAGAGAAACATACTCAAAGATTTT-T-TTT-AAAAGAAACTGTCTCAA--GAGAC
3090025 AAA
61 AAA
* * * ** * *
3090028 A-TTTGTTTAAATAGAAACGAT-CTCAAAGGTTGGTTTTAAAAGAAACTATCTCAAGAAAGATAA
1 ATTTTGTTTCAAGAGAAAC-ATACTCAAAGATTTTTTTTAAAAGAAACTGTCTCAAG--AGACAA
3090091 A
63 A
* * * *
3090092 ACTTTGTTTTC-ATAGAAACATACTCAAAGATTTTTTTTAAAAGAAATTGTCTTAAGAGACAAA
1 ATTTTG-TTTCAAGAGAAACATACTCAAAGATTTTTTTTAAAAGAAACTGTCTCAAGAGACAAA
3090155 ATTTTGTTTCCAA-AGAAACATACTCAAAGAT
1 ATTTTGTTT-CAAGAGAAACATACTCAAAGAT
3090186 GGGTTATGTC
Statistics
Matches: 130, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
62 4 0.03
63 30 0.23
64 23 0.18
65 43 0.33
66 4 0.03
67 24 0.18
68 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (63 bp):
ATTTTGTTTCAAGAGAAACATACTCAAAGATTTTTTTTAAAAGAAACTGTCTCAAGAGACAAA
Found at i:3091438 original size:18 final size:19
Alignment explanation
Indices: 3091415--3091455 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
3091405 CTTCTTGTCC
*
3091415 CTTTTTCTTT-ATTTTTTT
1 CTTTTTATTTGATTTTTTT
3091433 CTTTTTATTTGATTTTTTT
1 CTTTTTATTTGATTTTTTT
3091452 CTTT
1 CTTT
3091456 GTTTCTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.80
Consensus pattern (19 bp):
CTTTTTATTTGATTTTTTT
Found at i:3095392 original size:30 final size:30
Alignment explanation
Indices: 3095304--3095539 Score: 212
Period size: 30 Copynumber: 8.0 Consensus size: 30
3095294 TATGATTAAA
* * * * *
3095304 AGAAATTTAAAGGACT-AAACAGTAAATAC
1 AGAAACTTAAAGGACTAAAATAGCAAAAAT
* * *
3095333 AAAAAGTTAAAGGACCAAAATAG-AAAAAT
1 AGAAACTTAAAGGACTAAAATAGCAAAAAT
3095362 AGAAACTTAAAGGACTAAAATAGCAAAAAT
1 AGAAACTTAAAGGACTAAAATAGCAAAAAT
3095392 AGAAACTTAAAGGACTAAAATAGCAAAAAT
1 AGAAACTTAAAGGACTAAAATAGCAAAAAT
* * ****
3095422 TGAAACTTAAAGGACTAAAATGGCATTGTT
1 AGAAACTTAAAGGACTAAAATAGCAAAAAT
* * *
3095452 AGAAACTAAAAGG-GTCAAAATAGAAAAAAT
1 AGAAACTTAAAGGACT-AAAATAGCAAAAAT
* *
3095482 AAAAACTT-AAGGATCT-AAATAGCAAATAT
1 AGAAACTTAAAGGA-CTAAAATAGCAAAAAT
* * * *
3095511 ATACATTTAAAGGACTAAAATAACAAAAA
1 AGAAACTTAAAGGACTAAAATAGCAAAAA
3095540 CAGCTAAATG
Statistics
Matches: 166, Mismatches: 34, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
29 60 0.36
30 105 0.63
31 1 0.01
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.19
Consensus pattern (30 bp):
AGAAACTTAAAGGACTAAAATAGCAAAAAT
Found at i:3095412 original size:59 final size:59
Alignment explanation
Indices: 3095280--3095532 Score: 219
Period size: 59 Copynumber: 4.3 Consensus size: 59
3095270 GAATAAGCAT
* ** * * * * * *
3095280 TTAAGGGACTAAAATATGATTAAA-AGAAATTTAAAGGACTAAACAGTAAATACAAAAAG
1 TTAAAGGACTAAAATA-GAAAAAATAGAAACTTAAAGGACTAAATAGCAAATATAGAAAC
* *
3095339 TTAAAGGACCAAAATAG-AAAAATAGAAACTTAAAGGACTAAAATAGCAAAAATAGAAAC
1 TTAAAGGACTAAAATAGAAAAAATAGAAACTTAAAGGACT-AAATAGCAAATATAGAAAC
* * * * *
3095398 TTAAAGGACTAAAATAGCAAAAATTGAAACTTAAAGGACTAAAATGGC-ATTGTTAGAAAC
1 TTAAAGGACTAAAATAGAAAAAATAGAAACTTAAAGGACT-AAATAGCAAAT-ATAGAAAC
* * * * * *
3095458 TAAAAGG-GTCAAAATAGAAAAAATAAAAACTT-AAGGATCTAAATAGCAAATATATACAT
1 TTAAAGGACT-AAAATAGAAAAAATAGAAACTTAAAGGA-CTAAATAGCAAATATAGAAAC
3095517 TTAAAGGACTAAAATA
1 TTAAAGGACTAAAATA
3095533 ACAAAAACAG
Statistics
Matches: 156, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
57 3 0.02
58 16 0.10
59 72 0.46
60 65 0.42
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (59 bp):
TTAAAGGACTAAAATAGAAAAAATAGAAACTTAAAGGACTAAATAGCAAATATAGAAAC
Found at i:3097092 original size:3 final size:3
Alignment explanation
Indices: 3097079--3097162 Score: 109
Period size: 3 Copynumber: 28.3 Consensus size: 3
3097069 TGTATGTAAA
* * *
3097079 AAT AAT AAAT AAT -AT GAT AAT AAT GAT AAT AAT AAT AAT AA- AAC
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
3097123 GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3097163 TTTTTTTGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
2 4 0.06
3 65 0.90
4 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3097641 original size:20 final size:20
Alignment explanation
Indices: 3097598--3097645 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3097588 TTGGTTGGCT
* *
3097598 CTGAATGAAACCATTCGACT
1 CTGAATGAAACCATTCAACA
* *
3097618 CTGAATTAAACCATTTAACA
1 CTGAATGAAACCATTCAACA
3097638 CTGAATGA
1 CTGAATGA
3097646 TGAACCGTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (20 bp):
CTGAATGAAACCATTCAACA
Found at i:3099008 original size:23 final size:23
Alignment explanation
Indices: 3098890--3099000 Score: 177
Period size: 23 Copynumber: 4.8 Consensus size: 23
3098880 AATAACATAT
*
3098890 TAGGTACCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
3098913 TATGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
* *
3098936 TAGGTAGCACATATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
3098959 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
3098982 TAGGTAGCACTTATATAAT
1 TAGGTAGCGCTTATATAAT
3099001 AAAATAGGAT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 80 1.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:3099057 original size:87 final size:87
Alignment explanation
Indices: 3098959--3099189 Score: 356
Period size: 87 Copynumber: 2.7 Consensus size: 87
3098949 TATAATGTAA
*
3098959 TAGGTAGCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGATAATTACTGGAAAC
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGTTAATTACTGGAAAC
*
3099024 ATTATCAAGCACAATAACATAT
66 ATTATCAAACACAATAACATAT
* * * *
3099046 TAGGTACCGCTTATATAATATAATAAGTAGCGCTTATATAATAAAATAGGTTAATTACTGGAAAC
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGTTAATTACTGGAAAC
*
3099111 ATTATCAAATACAATAACATAT
66 ATTATCAAACACAATAACATAT
* * *
3099133 TATGTAGCGCTTATATAACGTAATAGGTAGCGA-TTATATAATAAAATATGTTAATTA
1 TAGGTAGCGCTTATATAATGTAATAGGTAGC-ACTTATATAATAAAATAGGTTAATTA
3099190 TTTAATTTGT
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 129 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.32
Consensus pattern (87 bp):
TAGGTAGCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGTTAATTACTGGAAAC
ATTATCAAACACAATAACATAT
Found at i:3099063 original size:23 final size:23
Alignment explanation
Indices: 3099037--3099086 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
3099027 ATCAAGCACA
* *
3099037 ATAACATATTAGGTACCGCTTAT
1 ATAACATAATAAGTACCGCTTAT
* *
3099060 ATAATATAATAAGTAGCGCTTAT
1 ATAACATAATAAGTACCGCTTAT
3099083 ATAA
1 ATAA
3099087 TAAAATAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (23 bp):
ATAACATAATAAGTACCGCTTAT
Found at i:3099076 original size:156 final size:155
Alignment explanation
Indices: 3098812--3099096 Score: 498
Period size: 156 Copynumber: 1.8 Consensus size: 155
3098802 ATGTAAGGTA
* *
3098812 GCTTATATAATGTAATAGCAGCGCTTATATAATAAAATAGGTTAATTACTGGAAACATTATCAAG
1 GCTTATATAATGTAATAGCAGCACTTATATAATAAAATAGGATAATTACTGGAAACATTATCAAG
* * **
3098877 CACAATAACATATTAGGTACCGCTTATATAATGTAATATGTAGCGCTTATATAATGTAATAGGTA
66 CACAATAACATATTAGGTACCGCTTATATAATATAATAAGTAGCGCTTATATAATAAAATAGGTA
3098942 GCACATATATAATGTAATAGGTAGC
131 GCACATATATAATGTAATAGGTAGC
*
3098967 GCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGATAATTACTGGAAACATTATCAA
1 GCTTATATAATGTAATA-GCAGCACTTATATAATAAAATAGGATAATTACTGGAAACATTATCAA
3099032 GCACAATAACATATTAGGTACCGCTTATATAATATAATAAGTAGCGCTTATATAATAAAATAGGT
65 GCACAATAACATATTAGGTACCGCTTATATAATATAATAAGTAGCGCTTATATAATAAAATAGGT
3099097 TAATTACTGG
Statistics
Matches: 122, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
155 17 0.14
156 105 0.86
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (155 bp):
GCTTATATAATGTAATAGCAGCACTTATATAATAAAATAGGATAATTACTGGAAACATTATCAAG
CACAATAACATATTAGGTACCGCTTATATAATATAATAAGTAGCGCTTATATAATAAAATAGGTA
GCACATATATAATGTAATAGGTAGC
Found at i:3099151 original size:23 final size:23
Alignment explanation
Indices: 3099124--3099173 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
3099114 ATCAAATACA
* * *
3099124 ATAACATATTATGTAGCGCTTAT
1 ATAACATAATAGGTAGCGATTAT
*
3099147 ATAACGTAATAGGTAGCGATTAT
1 ATAACATAATAGGTAGCGATTAT
3099170 ATAA
1 ATAA
3099174 TAAAATATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGATTAT
Found at i:3099180 original size:23 final size:23
Alignment explanation
Indices: 3099136--3099180 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
3099126 AACATATTAT
* **
3099136 GTAGCGCTTATATAACGTAATAG
1 GTAGCGATTATATAACAAAATAG
*
3099159 GTAGCGATTATATAATAAAATA
1 GTAGCGATTATATAACAAAATA
3099181 TGTTAATTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (23 bp):
GTAGCGATTATATAACAAAATAG
Found at i:3099576 original size:30 final size:30
Alignment explanation
Indices: 3099523--3099581 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3099513 ATTATTAAAT
3099523 ATTATCTATAATTTTATAAATAAAAATTATG
1 ATTATCTATAATTTTATAAAT-AAAATTATG
*
3099554 ATTAT-TATATTTATTA-AAATAAAATTAT
1 ATTATCTATAATT-TTATAAATAAAATTAT
3099582 AAATCTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
30 10 0.38
31 8 0.31
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
ATTATCTATAATTTTATAAATAAAATTATG
Found at i:3099725 original size:20 final size:20
Alignment explanation
Indices: 3099700--3099747 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
3099690 TTATAATTAT
*
3099700 AATGTAATAGGTAAATTTAC
1 AATGTAACAGGTAAATTTAC
3099720 AATGTAACAGGTAAATTTAC
1 AATGTAACAGGTAAATTTAC
3099740 AATGTAAC
1 AATGTAAC
3099748 CAATATACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTAACAGGTAAATTTAC
Found at i:3100233 original size:20 final size:21
Alignment explanation
Indices: 3100210--3100283 Score: 102
Period size: 20 Copynumber: 3.7 Consensus size: 21
3100200 AATACAATAA
3100210 AATAATATTTATTAAC-AAAT
1 AATAATATTTATTAACAAAAT
*
3100230 AATATTA-TTATTAACAAAAT
1 AATAATATTTATTAACAAAAT
*
3100250 AATATTATTTATTAACAAAAT
1 AATAATATTTATTAACAAAAT
3100271 AAT-ATATTT-TTAA
1 AATAATATTTATTAA
3100284 AATATTAGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
19 12 0.24
20 22 0.44
21 16 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
AATAATATTTATTAACAAAAT
Found at i:3100394 original size:30 final size:31
Alignment explanation
Indices: 3100327--3100412 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 31
3100317 TCAATATTAT
* *
3100327 TATTAAAATATATTTATAATTTTATAAACAAAA
1 TATTATAAT-TATTTAT-TTTTTATAAACAAAA
* *
3100360 TATTATGATTA-TTATTTTTTA-AAATAAAA
1 TATTATAATTATTTATTTTTTATAAACAAAA
*
3100389 TTATTATAATTATTTATTATTTAT
1 -TATTATAATTATTTATTTTTTAT
3100413 TATAATAAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
29 7 0.16
30 15 0.34
31 13 0.30
32 2 0.05
33 7 0.16
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (31 bp):
TATTATAATTATTTATTTTTTATAAACAAAA
Found at i:3100719 original size:21 final size:21
Alignment explanation
Indices: 3100669--3100719 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
3100659 GTGCACGCAT
* *
3100669 AAAGTGTCGATACATTTATTA
1 AAAGTATCTATACATTTATTA
3100690 AAAGTATCTATACATTTATTA
1 AAAGTATCTATACATTTATTA
3100711 AAAGTATCT
1 AAAGTATCT
3100720 GTTGAGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (21 bp):
AAAGTATCTATACATTTATTA
Found at i:3102162 original size:17 final size:18
Alignment explanation
Indices: 3102140--3102202 Score: 96
Period size: 17 Copynumber: 3.7 Consensus size: 18
3102130 ATAAATCCAA
3102140 ACAA-ATTCAAACATTCC
1 ACAATATTCAAACATTCC
3102157 ACAA-ATTCAAACATTCC
1 ACAATATTCAAACATTCC
*
3102174 AAAATATTCAAACATTCC
1 ACAATATTCAAACATTCC
3102192 A-AATATTCAAA
1 ACAATATTCAAA
3102203 TGTTAAAACA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
17 30 0.68
18 14 0.32
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (18 bp):
ACAATATTCAAACATTCC
Found at i:3102165 original size:35 final size:35
Alignment explanation
Indices: 3102135--3102202 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
3102125 CATTCATAAA
3102135 TCCAAACAAATTCAAACATTCCACAA-ATTCAAACAT
1 TCCAAA-AAATTCAAACATTCCA-AATATTCAAACAT
*
3102171 TCCAAAATATTCAAACATTCCAAATATTCAAA
1 TCCAAAAAATTCAAACATTCCAAATATTCAAA
3102203 TGTTAAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 2 0.07
35 22 0.73
36 6 0.20
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (35 bp):
TCCAAAAAATTCAAACATTCCAAATATTCAAACAT
Found at i:3104199 original size:20 final size:20
Alignment explanation
Indices: 3104170--3104207 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3104160 CCCCTTAAAA
*
3104170 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
3104190 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
3104208 TGCACCAAAA
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:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:3104332 original size:20 final size:22
Alignment explanation
Indices: 3104292--3104333 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
3104282 CATATATTGA
*
3104292 AAATTAATCATGTTCAACAATT
1 AAATTAATCATGTTAAACAATT
3104314 AAATTAATC-T-TTAAACAATT
1 AAATTAATCATGTTAAACAATT
3104334 TGAACATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 1 0.05
22 9 0.47
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATTAATCATGTTAAACAATT
Found at i:3110145 original size:197 final size:198
Alignment explanation
Indices: 3109794--3110274 Score: 749
Period size: 197 Copynumber: 2.4 Consensus size: 198
3109784 TTTTCAACAG
* *
3109794 TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTACTCTG
1 TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTACCCGG
* *
3109859 TAGAAATATATTAGTTTTATGAGAAAATATATCTACATAATGTATCGACACATTTTAAGTTTGTG
66 TAGAAATATATCAGTTTTATGAGAAAATATATCTACATAATGTATCAACACATTTTAAGTTTGTG
*
3109924 TCGATACTTTTTTCCAGAATGAATGTCCAACGAGGTGCACACATAAAGTGTCGATACATTTATTA
131 TCGATACTTTTTTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTA--A
3109989 AA-AA
194 AATAA
*
3109993 TATCGATCCC-AAAA-ATCGAAACCGATAATTATAATGTATTAGGTAAATTTACAATGTACCCGG
1 TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTACCCGG
* *
3110056 TAGAAATATATCGGTTTTATGAGAAAATA-AGTCTACATAATGTATCAACACGTTTTAAGTTTGT
66 TAGAAATATATCAGTTTTATGAGAAAATATA-TCTACATAATGTATCAACACATTTTAAGTTTGT
*
3110120 GTCGATACTTTTTTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATGCATTTAAA
130 GTCGATACTTTTTTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAAA
**
3110185 ATTG
195 ATAA
**
3110189 TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTGTAATGTTA-CCG
1 TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATG-TACCCG
* *
3110253 ATATAAATATA-CAGTTTTATGA
65 GTAGAAATATATCAGTTTTATGA
3110275 TAGAATAGGT
Statistics
Matches: 260, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
195 3 0.01
196 11 0.04
197 179 0.69
198 55 0.21
199 12 0.05
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (198 bp):
TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTACCCGG
TAGAAATATATCAGTTTTATGAGAAAATATATCTACATAATGTATCAACACATTTTAAGTTTGTG
TCGATACTTTTTTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAAAA
TAA
Found at i:3110388 original size:23 final size:23
Alignment explanation
Indices: 3110362--3110412 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
3110352 CCAGTAATTA
** *
3110362 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAACGCT
3110385 ACCTATTACATTATATAAACGCT
1 ACCTATTACATTATATAAACGCT
3110408 ACCTA
1 ACCTA
3110413 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGCT
Found at i:3110408 original size:87 final size:86
Alignment explanation
Indices: 3110287--3110499 Score: 374
Period size: 87 Copynumber: 2.5 Consensus size: 86
3110277 GAATAGGTCA
*
3110287 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGCTTGATAATATTT
3110352 CCAGTAATTAACCTATTTTATT
66 CCAGTAATTAACCTATTTTA-T
*
3110374 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGCTTGATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGCTTGATAATATTT
*
3110439 TCAGTAATTAACCTATTTTAT
66 CCAGTAATTAACCTATTTTAT
*
3110460 -TATAAGTGCTACCTATTACATTATATAAACGCTACCTAAT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAAT
3110500 CTATATTTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
85 39 0.32
86 1 0.01
87 82 0.67
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.40
Consensus pattern (86 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGCTTGATAATATTT
CCAGTAATTAACCTATTTTAT
Found at i:3115658 original size:2 final size:2
Alignment explanation
Indices: 3115647--3115679 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3115637 TCTCATTAAT
3115647 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3115680 ATTTTTCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3128884 original size:24 final size:23
Alignment explanation
Indices: 3128832--3128885 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
3128822 TTAAATACAT
* *
3128832 ATAT-AATATTACTTATGATTAT
1 ATATCAATATTACTTATGATGAC
* *
3128854 ATGTCAATATTATCTTTTGATGAC
1 ATATCAATATTA-CTTATGATGAC
3128878 ATATCAAT
1 ATATCAAT
3128886 GACCAAATAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 3 0.12
23 7 0.28
24 15 0.60
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (23 bp):
ATATCAATATTACTTATGATGAC
Found at i:3129891 original size:20 final size:20
Alignment explanation
Indices: 3129862--3129900 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3129852 AGGGATCATA
*
3129862 TATGATCATATAGATGCATT
1 TATGAGCATATAGATGCATT
*
3129882 TATGAGCATATAGTTGCAT
1 TATGAGCATATAGATGCAT
3129901 GTGGTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (20 bp):
TATGAGCATATAGATGCATT
Found at i:3133113 original size:70 final size:70
Alignment explanation
Indices: 3133000--3133139 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
3132990 CCACAAAGAC
3133000 CATGCTACAAGACCATAGGACCTCCATAAAAAACCAAGGAACTTTACTTCACAGCCACAACTCAT
1 CATGCTACAAGACCATAGGACCTCCATAAAAAACCAAGGAACTTTACTTCACAGCCACAACTCAT
3133065 CTCTG
66 CTCTG
3133070 CATGCTACAAGACCATAGGACCTCCATAAAAAACCAAGGAACTTTACTTCACAGCCACAACTCAT
1 CATGCTACAAGACCATAGGACCTCCATAAAAAACCAAGGAACTTTACTTCACAGCCACAACTCAT
3133135 CTCTG
66 CTCTG
3133140 AGGGCGTTGG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.20
Consensus pattern (70 bp):
CATGCTACAAGACCATAGGACCTCCATAAAAAACCAAGGAACTTTACTTCACAGCCACAACTCAT
CTCTG
Found at i:3135088 original size:95 final size:96
Alignment explanation
Indices: 3134890--3135130 Score: 294
Period size: 95 Copynumber: 2.5 Consensus size: 96
3134880 GATTCAATCA
* *
3134890 GTATCGATACCGAT-G-A-GGTAGTATCGATACCATGGTTAGGCTATCGATACCAAGGAAACATC
1 GTATCGATACC-ATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGGAAACATC
* *
3134952 GAACCAAATTTTTGTATCGATACCGAAAGAGC
65 GAACCAAATATTGGTATCGATACCGAAAGAGC
* * *
3134984 CTATCGATACCATAGTATGGTAGTATCGATACCATGGCAAGGGTATCGATACC-AGGTAACATCG
1 GTATCGATACCATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGGAAACATCG
* * * * *
3135048 AATCTAAA-ATTGGTATCGATACCGGAGGGGG
66 AA-CCAAATATTGGTATCGATACCGAAAGAGC
* * *
3135079 GTATCGATACCATAATATAGTAGTATCGATACCATGGTAGGGGTATCGATAC
1 GTATCGATACCATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATAC
3135131 TGAAGAACAA
Statistics
Matches: 126, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
93 2 0.02
94 11 0.09
95 77 0.61
96 36 0.29
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (96 bp):
GTATCGATACCATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGGAAACATCG
AACCAAATATTGGTATCGATACCGAAAGAGC
Found at i:3135703 original size:79 final size:79
Alignment explanation
Indices: 3135567--3135796 Score: 372
Period size: 79 Copynumber: 2.9 Consensus size: 79
3135557 GTATGGGCAC
* * *
3135567 TATGTGTGCATTATTGGCATGAAAGGATGACATAGCTGAAATGCATATGGGTGCATTATCAACAT
1 TATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATTGGTGCATTATCAACAT
3135632 AAAAGAATAATGCA
66 AAAAGAATAATGCA
*
3135646 TATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATTGGTGCATTATCAATAT
1 TATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATTGGTGCATTATCAACAT
*
3135711 AAAATAATAATGCA
66 AAAAGAATAATGCA
* * * *
3135725 TATGGGTGCATTATTTGCATGAAAGGATGTCATAGTTGTAATGCATA-TGGTGCATTATCAGCAT
1 TATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATTGGTGCATTATCAACAT
3135789 AAAAGAAT
66 AAAAGAAT
3135797 GCCATAATTG
Statistics
Matches: 140, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
78 22 0.16
79 118 0.84
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (79 bp):
TATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATTGGTGCATTATCAACAT
AAAAGAATAATGCA
Found at i:3135813 original size:45 final size:44
Alignment explanation
Indices: 3135719--3135825 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
3135709 ATAAAATAAT
** * * * * *
3135719 AATGCATATGGGTGCATTATTTGCATGAAAGGATGTCATAGTTGT
1 AATGCATAT-GGTGCATTATCAGCATAAAAGAATGCCATAATTGA
3135764 AATGCATATGGTGCATTATCAGCATAAAAGAATGCCATAATTGGA
1 AATGCATATGGTGCATTATCAGCATAAAAGAATGCCATAATT-GA
3135809 AATGCATAATGGTGCAT
1 AATGCAT-ATGGTGCAT
3135826 GATAAACATG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 27 0.51
45 17 0.32
46 9 0.17
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (44 bp):
AATGCATATGGTGCATTATCAGCATAAAAGAATGCCATAATTGA
Done.