Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 325 of 345
Found at i:109325686 original size:81 final size:81
Alignment explanation
Indices: 109325515--109325678 Score: 260
Period size: 81 Copynumber: 2.0 Consensus size: 81
109325505 TTGGAGGAAG
*
109325515 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGG
1 TGTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGG
109325580 CTATGCCACAATTATC
66 CTATGCCACAATTATC
* * *
109325596 TGTCCTAGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTG
1 TGTCCTAGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTG
*
109325660 GCTCTGCCACAA-TATC
65 GCTATGCCACAATTATC
109325676 TGT
1 TGT
109325679 ATCTAGTGAC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
80 9 0.12
81 68 0.88
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (81 bp):
TGTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGG
CTATGCCACAATTATC
Found at i:109327607 original size:32 final size:31
Alignment explanation
Indices: 109327571--109327643 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
109327561 ACGAAGCAAC
* *
109327571 AATTTAACTCTTTTTTAAAATGTTGATGGCCA
1 AATTTAACTCTTTTTTAAAA-GTTGAAGACCA
* * *
109327603 AATTTAATTTTTTTTTTTAAAGTTGAAGACCA
1 AATTTAA-CTCTTTTTTAAAAGTTGAAGACCA
109327635 AATTTAACT
1 AATTTAACT
109327644 TTAAAAAAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
31 1 0.03
32 23 0.68
33 10 0.29
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.47
Consensus pattern (31 bp):
AATTTAACTCTTTTTTAAAAGTTGAAGACCA
Found at i:109329210 original size:3 final size:3
Alignment explanation
Indices: 109329204--109329229 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
109329194 TTTTTACCCC
109329204 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
109329230 ACAAGTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:109335714 original size:17 final size:17
Alignment explanation
Indices: 109335692--109335728 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
109335682 CATCAAAACC
109335692 TCTAATAAAAACATCAA
1 TCTAATAAAAACATCAA
109335709 TCTAATAAAAACATCAA
1 TCTAATAAAAACATCAA
109335726 TCT
1 TCT
109335729 CTAAGCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TCTAATAAAAACATCAA
Found at i:109341603 original size:25 final size:25
Alignment explanation
Indices: 109341574--109341624 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
109341564 ATTGAAAATG
*
109341574 AGAAATCAAAAAGTAAAAAG-AAGAA
1 AGAAAGCAAAAA-TAAAAAGAAAGAA
*
109341599 AGAAAGGAAAAATAAAAAGAAAGAA
1 AGAAAGCAAAAATAAAAAGAAAGAA
109341624 A
1 A
109341625 AAGAAGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (25 bp):
AGAAAGCAAAAATAAAAAGAAAGAA
Found at i:109341617 original size:17 final size:18
Alignment explanation
Indices: 109341583--109341632 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
109341573 GAGAAATCAA
*
109341583 AAAGTAAAAAGAAGAAAG
1 AAAGGAAAAAGAAGAAAG
*
109341601 AAAGGAAAAATAA-AAAG
1 AAAGGAAAAAGAAGAAAG
109341618 AAA-GAAAAAGAAGAA
1 AAAGGAAAAAGAAGAA
109341633 TAAGAAGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 8 0.29
17 9 0.32
18 11 0.39
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (18 bp):
AAAGGAAAAAGAAGAAAG
Found at i:109341640 original size:22 final size:21
Alignment explanation
Indices: 109341591--109341641 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
109341581 AAAAAGTAAA
*
109341591 AAGAAGAAAGAAAGGAAAAAT
1 AAGAAGAAAGAAAAGAAAAAT
* *
109341612 AAAAAGAAAGAAAAAGAAGAAT
1 AAGAAGAAAG-AAAAGAAAAAT
109341634 AAGAAGAA
1 AAGAAGAA
109341642 GCAAATGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (21 bp):
AAGAAGAAAGAAAAGAAAAAT
Found at i:109348699 original size:30 final size:30
Alignment explanation
Indices: 109348663--109348723 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
109348653 GAGTTTTCAA
**
109348663 GATCCACACGAGCAAGCCACATGCCCATGT
1 GATCCACACGAGCAAGCCACACACCCATGT
*
109348693 GATCCACACGGGCAAGCCACACACCCATGT
1 GATCCACACGAGCAAGCCACACACCCATGT
109348723 G
1 G
109348724 CCAGCCCGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.38, G:0.21, T:0.11
Consensus pattern (30 bp):
GATCCACACGAGCAAGCCACACACCCATGT
Found at i:109353539 original size:30 final size:30
Alignment explanation
Indices: 109353503--109353562 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
109353493 TATTTTATTA
*
109353503 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
109353533 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
109353563 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:109354270 original size:35 final size:35
Alignment explanation
Indices: 109354225--109354294 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
109354215 CGAGTTGAAT
*
109354225 TTTTAAATTCAAATAACTCAAATGATTCAAATAAA
1 TTTTAAATTCAAATAACTCAAATAATTCAAATAAA
* *
109354260 TTTTGAATTCAAATAACTCGAATAATTCAAATAAA
1 TTTTAAATTCAAATAACTCAAATAATTCAAATAAA
109354295 CTAAATATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.34
Consensus pattern (35 bp):
TTTTAAATTCAAATAACTCAAATAATTCAAATAAA
Found at i:109354301 original size:18 final size:18
Alignment explanation
Indices: 109354230--109354293 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
109354220 TGAATTTTTA
109354230 AATTCAAATAACTCAAAT
1 AATTCAAATAACTCAAAT
* * **
109354248 GATTCAAATAAAT--TTT
1 AATTCAAATAACTCAAAT
*
109354264 GAATTCAAATAACTCGAAT
1 -AATTCAAATAACTCAAAT
109354283 AATTCAAATAA
1 AATTCAAATAA
109354294 ACTAAATATC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
16 1 0.03
17 11 0.31
18 22 0.63
19 1 0.03
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (18 bp):
AATTCAAATAACTCAAAT
Found at i:109355985 original size:28 final size:28
Alignment explanation
Indices: 109355954--109356012 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
109355944 AAACAGATAT
* *
109355954 AGAACATATCAGATACAGTTACAAATAC
1 AGAACATATCAAATACAGCTACAAATAC
* *
109355982 AGAACATATTAAATACAGCTACAAATTC
1 AGAACATATCAAATACAGCTACAAATAC
109356010 AGA
1 AGA
109356013 TACAAATGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.51, C:0.17, G:0.10, T:0.22
Consensus pattern (28 bp):
AGAACATATCAAATACAGCTACAAATAC
Found at i:109356712 original size:63 final size:63
Alignment explanation
Indices: 109356618--109356763 Score: 197
Period size: 63 Copynumber: 2.3 Consensus size: 63
109356608 TCAAATTCCA
* * *
109356618 AAAACAGTGAGTTACACAGCCTGGACACACGC-CTGTGTCTCTAGCCCATGTGACCTT-AATTC
1 AAAATAGTGAGTTACACGGCCTAGACACACGCTC-GTGTCTCTAGCCCATGTGACCTTAAATTC
* * * *
109356680 ACAAATAGTGAGTTACACGGTCTAGACGCACGCTCGTGTCTCTAGCCCGTGTGACTTTAAATTC
1 A-AAATAGTGAGTTACACGGCCTAGACACACGCTCGTGTCTCTAGCCCATGTGACCTTAAATTC
109356744 AAAATAGTGAGTTACACGGC
1 AAAATAGTGAGTTACACGGC
109356764 TTGCCACACT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
62 1 0.01
63 65 0.89
64 7 0.10
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (63 bp):
AAAATAGTGAGTTACACGGCCTAGACACACGCTCGTGTCTCTAGCCCATGTGACCTTAAATTC
Found at i:109356810 original size:29 final size:29
Alignment explanation
Indices: 109356757--109356813 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
109356747 ATAGTGAGTT
* *
109356757 ACACGGCTTGCCACACTGCCATGTGGCTC
1 ACACGGCTTGCCAAACGGCCATGTGGCTC
* *
109356786 ACACGGCTTGGCAAACGGCCGTGTGGCT
1 ACACGGCTTGCCAAACGGCCATGTGGCT
109356814 TTAACAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.30, T:0.19
Consensus pattern (29 bp):
ACACGGCTTGCCAAACGGCCATGTGGCTC
Found at i:109357175 original size:23 final size:23
Alignment explanation
Indices: 109357137--109357186 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
109357127 AATTTTAACG
*
109357137 AAAAGAACTCAAAACAATCAACAA
1 AAAAGAACTCAAAACAAGCAA-AA
*
109357161 AAAAGAAC-CACAACAAGCAAAA
1 AAAAGAACTCAAAACAAGCAAAA
109357183 AAAA
1 AAAA
109357187 TATGGAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 10 0.42
24 8 0.33
ACGTcount: A:0.70, C:0.20, G:0.06, T:0.04
Consensus pattern (23 bp):
AAAAGAACTCAAAACAAGCAAAA
Found at i:109359304 original size:22 final size:22
Alignment explanation
Indices: 109359260--109359304 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
109359250 TGTCTTAAGG
* * * *
109359260 AATTATCAGCATTCTTTGGAAT
1 AATTACCACCATTCTTCGAAAT
109359282 AATTACCACCATTCTTCGAAAT
1 AATTACCACCATTCTTCGAAAT
109359304 A
1 A
109359305 TATTCACTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (22 bp):
AATTACCACCATTCTTCGAAAT
Found at i:109363732 original size:22 final size:20
Alignment explanation
Indices: 109363687--109363740 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
109363677 CCTTTTTTCC
109363687 ATTTTTAT-CCTTTTTTTTT
1 ATTTTTATCCCTTTTTTTTT
* *
109363706 CTTTTTCTCCCTTATTTCTTTT
1 ATTTTTATCCCTT-TTT-TTTT
*
109363728 ATTTTTTTCCCTT
1 ATTTTTATCCCTT
109363741 CTCTCCTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 6 0.21
20 4 0.14
21 3 0.11
22 15 0.54
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTATCCCTTTTTTTTT
Found at i:109364239 original size:14 final size:14
Alignment explanation
Indices: 109364220--109364254 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
109364210 TAACATAAAG
* *
109364220 AAATAAAGAAATAA
1 AAATAAACAAACAA
109364234 AAATAAACAAACAA
1 AAATAAACAAACAA
109364248 AAATAAA
1 AAATAAA
109364255 TCAATAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (14 bp):
AAATAAACAAACAA
Found at i:109364710 original size:18 final size:18
Alignment explanation
Indices: 109364689--109364725 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
109364679 ATCGTGGATT
109364689 GAATATCGAATGTGGAAC
1 GAATATCGAATGTGGAAC
109364707 GAATATCGAATGTGGAAC
1 GAATATCGAATGTGGAAC
109364725 G
1 G
109364726 GAGTAGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.22
Consensus pattern (18 bp):
GAATATCGAATGTGGAAC
Found at i:109366543 original size:21 final size:21
Alignment explanation
Indices: 109366517--109366564 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
109366507 GAGATTAAAG
*
109366517 AAAGAAAGTCCAGAAAACTTT
1 AAAGAAAGTACAGAAAACTTT
*
109366538 AAAG-AAGTACAGAAAATTTT
1 AAAGAAAGTACAGAAAACTTT
109366558 AAAGAAA
1 AAAGAAA
109366565 ATCAATAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.19
Consensus pattern (21 bp):
AAAGAAAGTACAGAAAACTTT
Found at i:109369959 original size:21 final size:21
Alignment explanation
Indices: 109369933--109369977 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
109369923 CTGAGACATG
*
109369933 GGCGTGTCTGGAGCCGTGTGA
1 GGCGTGTCTGGAGCCATGTGA
* *
109369954 GGCGTGTTTGGGGCCATGTGA
1 GGCGTGTCTGGAGCCATGTGA
109369975 GGC
1 GGC
109369978 ACACGGCCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.18, G:0.49, T:0.24
Consensus pattern (21 bp):
GGCGTGTCTGGAGCCATGTGA
Found at i:109370902 original size:15 final size:16
Alignment explanation
Indices: 109370870--109370900 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
109370860 TGAAAAGCAT
109370870 TTACAAAGAAAAAGGG
1 TTACAAAGAAAAAGGG
109370886 TTACAAAGAAAAAGG
1 TTACAAAGAAAAAGG
109370901 TTTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.23, T:0.13
Consensus pattern (16 bp):
TTACAAAGAAAAAGGG
Found at i:109375069 original size:29 final size:29
Alignment explanation
Indices: 109375028--109375083 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
109375018 AACTTTTATA
109375028 AAAAACTAGTCCATGTATGTCAGAATGTT
1 AAAAACTAGTCCATGTATGTCAGAATGTT
*
109375057 AAAAACTAGTCCATGTATGTTAGAATG
1 AAAAACTAGTCCATGTATGTCAGAATG
109375084 AGATATGCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (29 bp):
AAAAACTAGTCCATGTATGTCAGAATGTT
Found at i:109381432 original size:26 final size:26
Alignment explanation
Indices: 109381403--109381476 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
109381393 TTCGTATTTA
109381403 GGTTGCTCACACAAGCTTCAGATCAG
1 GGTTGCTCACACAAGCTTCAGATCAG
* * * *
109381429 GGTTGCTCATACAAGCTT-AGTTTGAT
1 GGTTGCTCACACAAGCTTCAG-ATCAG
*
109381455 GATTGCTCACACAAGCTTCAGA
1 GGTTGCTCACACAAGCTTCAGA
109381477 ATATCCACAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.05
26 35 0.90
27 2 0.05
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
GGTTGCTCACACAAGCTTCAGATCAG
Found at i:109382431 original size:15 final size:17
Alignment explanation
Indices: 109382385--109382435 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
109382375 GGAAGTATAT
109382385 GAAGTTTTGGTTATTAGG
1 GAAG-TTTGGTTATTAGG
*
109382403 GAAGTTTGGATTATTGGG
1 GAAGTTTGG-TTATTAGG
109382421 GAAG-TT-GTTATTAGG
1 GAAGTTTGGTTATTAGG
109382436 ATAATTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 7 0.23
18 15 0.50
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (17 bp):
GAAGTTTGGTTATTAGG
Found at i:109383379 original size:28 final size:28
Alignment explanation
Indices: 109383339--109383392 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
109383329 TTTATTGAGT
109383339 TAGTATCACCCTCAACCGAGTCACCAAC
1 TAGTATCACCCTCAACCGAGTCACCAAC
109383367 TAGTATCACCCTCAACCGAGTCACCA
1 TAGTATCACCCTCAACCGAGTCACCA
109383393 CCTCAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.39, G:0.11, T:0.19
Consensus pattern (28 bp):
TAGTATCACCCTCAACCGAGTCACCAAC
Found at i:109386774 original size:14 final size:14
Alignment explanation
Indices: 109386739--109386774 Score: 51
Period size: 11 Copynumber: 2.8 Consensus size: 14
109386729 TCAATCCTTC
109386739 TATAATTCTTCAAA
1 TATAATTCTTCAAA
109386753 TAT-A--CTTCAAA
1 TATAATTCTTCAAA
109386764 TATAATTCTTC
1 TATAATTCTTC
109386775 CATAGGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 1 0.05
14 7 0.37
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAATTCTTCAAA
Found at i:109388429 original size:19 final size:19
Alignment explanation
Indices: 109388407--109388494 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 19
109388397 TAATAATAAT
109388407 ATAAAATAATAATATGTAC
1 ATAAAATAATAATATGTAC
*
109388426 ATAAAAATACATATTTATATGTGC
1 AT-AAAATA-ATA---ATATGTAC
*
109388450 ATATAATAA-AAGTATGTA-
1 ATAAAATAATAA-TATGTAC
*
109388468 ATAATAATAATAATATCTAC
1 ATAA-AATAATAATATGTAC
109388488 AATAAAA
1 -ATAAAA
109388495 GAAAATATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 19
0.69 0.06 0.24
Matches are distributed among these distances:
18 4 0.07
19 17 0.31
20 10 0.19
21 8 0.15
22 1 0.02
23 5 0.09
24 9 0.17
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (19 bp):
ATAAAATAATAATATGTAC
Found at i:109388809 original size:11 final size:11
Alignment explanation
Indices: 109388782--109388826 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
109388772 ATTGCATTAA
*
109388782 AAAATATATAC
1 AAAATATATAT
*
109388793 ATAATATATAT
1 AAAATATATAT
*
109388804 AAAATACATAT
1 AAAATATATAT
*
109388815 AATATATATAT
1 AAAATATATAT
109388826 A
1 A
109388827 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:109389570 original size:21 final size:20
Alignment explanation
Indices: 109389502--109389571 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
109389492 ATATGTATAT
*
109389502 AAAAAGAAAGAAATAAAAAAA
1 AAAAAGAAAGAAA-AAAGAAA
**
109389523 CAAAAAGAAAGAAAAAAGATT
1 -AAAAAGAAAGAAAAAAGAAA
**
109389544 CGAAAGAAAAGAAAAAAGAAA
1 AAAAAG-AAAGAAAAAAGAAA
109389565 AAAAAGA
1 AAAAAGA
109389572 TGCAAACCTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
20 5 0.13
21 20 0.53
22 13 0.34
ACGTcount: A:0.79, C:0.03, G:0.14, T:0.04
Consensus pattern (20 bp):
AAAAAGAAAGAAAAAAGAAA
Found at i:109390565 original size:88 final size:88
Alignment explanation
Indices: 109390459--109390760 Score: 312
Period size: 89 Copynumber: 3.5 Consensus size: 88
109390449 ACGTGAGTAA
* * * * *
109390459 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAA-TA-GAATTTGCAAAACAGATT-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAATTT-AAAAAAACATTA
*
109390521 TTGAAAATACCTCGGCATGTGACCCG
65 TTGAAAATACCTCAGC--GTGACCCG
*
109390547 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGTATAAATTTAAAAAAACATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAATTTAAAAAAACATT-A
* * *
109390612 TTGAAAATATCTTAGCGTGCCCCG
65 TTGAAAATACCTCAGCGTGACCCG
** * * *
109390636 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATGAA-TTAAACAGA-A--AT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAATTTAAAAAAACATTAT
* * **
109390697 TGAAAATACCTCAACGTGTCTTG
66 TGAAAATACCTCAGCGTGACCCG
* ** *
109390720 AGGCTCAACTAATTTCTCGCAATATGAGTTGAGTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
109390761 CAAAAATTAA
Statistics
Matches: 184, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
84 56 0.30
87 1 0.01
88 47 0.26
89 62 0.34
90 5 0.03
91 13 0.07
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAATTTAAAAAAACATTAT
TGAAAATACCTCAGCGTGACCCG
Found at i:109390743 original size:84 final size:86
Alignment explanation
Indices: 109390459--109390760 Score: 315
Period size: 84 Copynumber: 3.5 Consensus size: 86
109390449 ACGTGAGTAA
* **
109390459 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAATA-GAATTTGCAAAACAGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATGAATTT--AAAACAGAAAT
* *
109390522 TGAAAATACCTCGGCATGTGACCCG
64 TGAAAATACCTC--AACGTGACCCG
* * * **
109390547 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGTATAAATTTAAAAAAACATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATGAATTT---AAAACAGAAA
* * * *
109390612 TTGAAAATATCTTAGCGTGCCCCG
63 TTGAAAATACCTCAACGTGACCCG
*
109390636 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATGAA-TT-AAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATGAATTTAAAACAGAAATTG
* **
109390699 AAAATACCTCAACGTGTCTTG
66 AAAATACCTCAACGTGACCCG
* ** *
109390720 AGGCTCAACTAATTTCTCGCAATATGAGTTGAGTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
109390761 CAAAAATTAA
Statistics
Matches: 179, Mismatches: 32, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
84 62 0.35
88 38 0.21
89 57 0.32
90 5 0.03
91 17 0.09
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATGAATTTAAAACAGAAATTG
AAAATACCTCAACGTGACCCG
Found at i:109390809 original size:71 final size:71
Alignment explanation
Indices: 109390687--109390827 Score: 185
Period size: 71 Copynumber: 2.0 Consensus size: 71
109390677 AACATGAATT
* * ** **
109390687 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGA
1 AAACAAAAATTGAAAATACCTCAACATGTCCCGAGGCTCAACTAACCTCTCGCAATATGAGTTGA
109390752 GTTTTG
66 GTTTTG
* *
109390758 AAACAAAAATT-AACAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACAAAAATTGAA-AATACCTCAACATGTCCCGAGGCTCAACTAACCTCTCGCAATATGAGTTG
*
109390822 ATTTTT
65 AGTTTT
109390828 TTGAAAAGCA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
70 2 0.03
71 58 0.97
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (71 bp):
AAACAAAAATTGAAAATACCTCAACATGTCCCGAGGCTCAACTAACCTCTCGCAATATGAGTTGA
GTTTTG
Found at i:109390915 original size:92 final size:91
Alignment explanation
Indices: 109390758--109391028 Score: 311
Period size: 89 Copynumber: 3.0 Consensus size: 91
109390748 TTGAGTTTTG
* *
109390758 AAACAAAAATT-AACAATACCTC-AGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAACAGAAATTGAA-AATACCTCGA-CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
109390819 TTGATTTTTTTGAAAAGCATAAATTAAA
64 TTGATTTTTTTGAAAAACATAAATTAAA
** * * ** *
109390847 AAACATTAATTGAAAATACCTCGGCATGTGATCCTGAGGCTCAATTCACCTCTAACAATATGAAT
1 AAACAGAAATTGAAAATACCTCGACATGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
109390912 TGA--TTTTTGAAAAACATAAATTGAA
65 TGATTTTTTTGAAAAACATAAATTAAA
* * * *
109390937 AAACGGAAATTGTAAATACCTCGACATGTGACCTAAGGTTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCGACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
** *
109391002 GATTTTTTTGATGAACAGAAATTAAA
66 GATTTTTTTGAAAAACATAAATTAAA
109391028 A
1 A
109391029 CTACCTCAGC
Statistics
Matches: 150, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
89 52 0.35
90 48 0.32
91 19 0.13
92 31 0.21
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (91 bp):
AAACAGAAATTGAAAATACCTCGACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAAACATAAATTAAA
Found at i:109391009 original size:90 final size:91
Alignment explanation
Indices: 109390791--109391028 Score: 300
Period size: 90 Copynumber: 2.6 Consensus size: 91
109390781 GCATGTCCCG
* **
109390791 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTAAAAAACATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTAAAAAACAGAAA
* *
109390856 TTGAAAATACCTCGGCATGTGATCCTG
65 TTGAAAATACCTCGACATGTGATCCTA
* ** * * *
109390883 AGGCTCAATTCACCTCTAACAATATGAATTGA-TTTTTGAAAAACATAAATTGAAAAACGGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAAAACAGAAAT
*
109390947 TGTAAATACCTCGACATGTGA-CCTA
66 TGAAAATACCTCGACATGTGATCCTA
* ** *
109390972 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTAAAA
109391029 CTACCTCAGC
Statistics
Matches: 123, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
89 30 0.24
90 46 0.37
91 19 0.15
92 28 0.23
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (91 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAAAACAGAAAT
TGAAAATACCTCGACATGTGATCCTA
Found at i:109391067 original size:75 final size:74
Alignment explanation
Indices: 109390972--109391176 Score: 297
Period size: 74 Copynumber: 2.8 Consensus size: 74
109390962 ATGTGACCTA
*
109390972 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAACTACCTCA
1 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAACAGAAATTAAAA-TACCTCA
*
109391037 GCGTGTCCTG
65 ACGTGTCCTG
* * *
109391047 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAAAATAGATTGAAAATACCTCA
1 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAACAGAAATT-AAAATACCTCA
*
109391111 ACGTGTCTTG
65 ACGTGTCCTG
* * *
109391121 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-TTAAACAGAAATAAAAA
1 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAACAGAAATTAAAA
109391177 ATATCAAAAT
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
73 4 0.03
74 67 0.58
75 45 0.39
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (74 bp):
AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAACAGAAATTAAAATACCTCAA
CGTGTCCTG
Found at i:109407286 original size:26 final size:25
Alignment explanation
Indices: 109407251--109407360 Score: 139
Period size: 26 Copynumber: 4.2 Consensus size: 25
109407241 AATGAAATTC
*
109407251 TTATCATGAAACATTTACCCAACTCA
1 TTATCATGAAACATTTACCTAAC-CA
*
109407277 TTCTCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
109407303 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
* *
109407329 TTATAATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
109407355 TTATCA
1 TTATCA
109407361 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 2 0.03
26 73 0.96
27 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:109409765 original size:15 final size:15
Alignment explanation
Indices: 109409733--109409778 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
109409723 ATTTATCTAT
109409733 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
109409750 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
109409765 TTATATTTTTATTT
1 TTATATTTCTATTT
109409779 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:109409771 original size:23 final size:23
Alignment explanation
Indices: 109409745--109409811 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
109409735 ATATTTCTAC
109409745 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
109409768 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
109409790 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
109409811 T
1 T
109409812 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:109409952 original size:25 final size:25
Alignment explanation
Indices: 109409917--109409995 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
109409907 TATAACGCTC
*
109409917 ATTTCAA-ATTTTTATACATTATTT
1 ATTTCAATATTTTTATACATTATAT
* *
109409941 ACTTT-AATATTTTCATATATTATAT
1 A-TTTCAATATTTTTATACATTATAT
* *
109409966 ATTTCAATTTTTTTTACACATTATAT
1 ATTTCAA-TATTTTTATACATTATAT
109409992 ATTT
1 ATTT
109409996 TGAATTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 6 0.14
25 20 0.45
26 18 0.41
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTCAATATTTTTATACATTATAT
Found at i:109413969 original size:31 final size:31
Alignment explanation
Indices: 109413929--109413992 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
109413919 AGTTTATATC
*
109413929 TTTATAATTTTTAA-AAAATTAAATTA-AATT
1 TTTATAA-TTTTAATAAAATTAAAATATAATT
*
109413959 TTTATCAATTTTAATAAGATTAAAATATAATT
1 TTTAT-AATTTTAATAAAATTAAAATATAATT
109413991 TT
1 TT
109413993 ACTTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 11 0.38
31 12 0.41
32 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (31 bp):
TTTATAATTTTAATAAAATTAAAATATAATT
Found at i:109419640 original size:3 final size:3
Alignment explanation
Indices: 109419634--109419658 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
109419624 AGAAAAAATG
109419634 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
109419659 CATTAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:109420291 original size:34 final size:34
Alignment explanation
Indices: 109420252--109420319 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
109420242 ATTAACAAAC
109420252 ACTAAATTATTTTATTTTTAAAAGAGAATAATTT
1 ACTAAATTATTTTATTTTTAAAAGAGAATAATTT
109420286 ACTAAATTATTTTATTTTTAAAAGAGAATAATTT
1 ACTAAATTATTTTATTTTTAAAAGAGAATAATTT
109420320 GCTTAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (34 bp):
ACTAAATTATTTTATTTTTAAAAGAGAATAATTT
Found at i:109420825 original size:176 final size:176
Alignment explanation
Indices: 109420531--109420883 Score: 688
Period size: 176 Copynumber: 2.0 Consensus size: 176
109420521 CATTAAAATG
109420531 AACCAACTACCCCAATTACCTGTCTCCATTGCTTTAAATTTGGGTTAAAGTATCTGAGGCGACTT
1 AACCAACTACCCCAATTACCTGTCTCCATTGCTTTAAATTTGGGTTAAAGTATCTGAGGCGACTT
109420596 ATCAAATTAGTTATTGTTAGATTTGTTAACAAATCGGGCTATTCGTTTAGGTATGAAGGTTTATT
66 ATCAAATTAGTTATTGTTAGATTTGTTAACAAATCGGGCTATTCGTTTAGGTATGAAGGTTTATT
*
109420661 TGTAAAATGAGAGGGTTTAGTAAAAAATATAAAATTCGAAAAATAA
131 TGTAAAATGAGAGGGTTTAGTAAAAAATATAAAACTCGAAAAATAA
109420707 AACCAACTACCCCAATTACCTGTCTCCATTGCTTTAAATTTGGGTTAAAGTATCTGAGGCGACTT
1 AACCAACTACCCCAATTACCTGTCTCCATTGCTTTAAATTTGGGTTAAAGTATCTGAGGCGACTT
109420772 ATCAAATTAGTTATTGTTAGATTTGTTAACAAATCGGGCTATTCGTTTAGGTATGAAGGTTTATT
66 ATCAAATTAGTTATTGTTAGATTTGTTAACAAATCGGGCTATTCGTTTAGGTATGAAGGTTTATT
*
109420837 TGTAAAATGAGAGGGTTTAGTAAAAAATATAAAGCTCGAAAAATAA
131 TGTAAAATGAGAGGGTTTAGTAAAAAATATAAAACTCGAAAAATAA
109420883 A
1 A
109420884 TTTGAGTAAA
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 175 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (176 bp):
AACCAACTACCCCAATTACCTGTCTCCATTGCTTTAAATTTGGGTTAAAGTATCTGAGGCGACTT
ATCAAATTAGTTATTGTTAGATTTGTTAACAAATCGGGCTATTCGTTTAGGTATGAAGGTTTATT
TGTAAAATGAGAGGGTTTAGTAAAAAATATAAAACTCGAAAAATAA
Found at i:109421181 original size:38 final size:39
Alignment explanation
Indices: 109421137--109421216 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 39
109421127 AAAAATTATA
* *
109421137 TTTAATACAATAAAATATTTATTATATTTAT-TTGTGTT
1 TTTAATACAATAAAATATTTATTATATTAATATAGTGTT
*
109421175 TTTAATATAATAAAATATTTATTATATTAATATAGTGTT
1 TTTAATACAATAAAATATTTATTATATTAATATAGTGTT
109421214 TTT
1 TTT
109421217 TTAATATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 29 0.76
39 9 0.24
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (39 bp):
TTTAATACAATAAAATATTTATTATATTAATATAGTGTT
Found at i:109433590 original size:29 final size:30
Alignment explanation
Indices: 109433517--109433576 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
109433507 AGAACCAAAT
109433517 TATACATAAATAAATTTAAAAGAATATATA
1 TATACATAAATAAATTTAAAAGAATATATA
*
109433547 TATATATAAAATAAATTTAAGAGAGAATAT
1 TATACAT-AAATAAATTTAA-A-AGAATAT
109433577 TTACATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.23
31 12 0.46
32 1 0.04
33 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (30 bp):
TATACATAAATAAATTTAAAAGAATATATA
Found at i:109436489 original size:22 final size:22
Alignment explanation
Indices: 109436449--109436490 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
109436439 TTCATTTTTA
*
109436449 TATAACTAATTTGTCAAATATT
1 TATAACTAATTTGTAAAATATT
* *
109436471 TATAATTAATTTTTAAAATA
1 TATAACTAATTTGTAAAATA
109436491 ATGGAAAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
TATAACTAATTTGTAAAATATT
Found at i:109437863 original size:21 final size:21
Alignment explanation
Indices: 109437839--109437895 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
109437829 ATATAAGAAA
109437839 ATAAAAATATATAAAATTATC
1 ATAAAAATATATAAAATTATC
* * *
109437860 ATAAAAATAAATAATATTTTC
1 ATAAAAATATATAAAATTATC
109437881 ATAAATAATAATATA
1 ATAAA-AAT-ATATA
109437896 TCTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 23 0.77
22 3 0.10
23 4 0.13
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAAATATATAAAATTATC
Found at i:109438771 original size:133 final size:134
Alignment explanation
Indices: 109438622--109438888 Score: 527
Period size: 133 Copynumber: 2.0 Consensus size: 134
109438612 AAACAAATAT
109438622 TAAAACAAATAAAAATGATACTAAAACAATTCTTAAAATAATACACAAATTGACAATATAATAAA
1 TAAAACAAATAAAAATGATACTAAAACAATTCTTAAAATAATACACAAATTGACAATATAATAAA
109438687 AAATGGTTATATTAAAAATTTAAAATGATTAAAAATAAAATAAAAA-ATATATTAATATATAATT
66 AAATGGTTATATTAAAAATTTAAAATGATTAAAAATAAAATAAAAATATATATTAATATATAATT
109438751 CAGG
131 CAGG
109438755 TAAAACAAATAAAAATGATACTAAAACAATTCTTAAAATAATACACAAATTGACAATATAATAAA
1 TAAAACAAATAAAAATGATACTAAAACAATTCTTAAAATAATACACAAATTGACAATATAATAAA
109438820 AAATGGTTATATTAAAAATTTAAAATGATTAAAAATAAAATAAAAATATATATTAATATATAATT
66 AAATGGTTATATTAAAAATTTAAAATGATTAAAAATAAAATAAAAATATATATTAATATATAATT
109438885 CAGG
131 CAGG
109438889 CCGGGCCCGG
Statistics
Matches: 133, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
133 111 0.83
134 22 0.17
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (134 bp):
TAAAACAAATAAAAATGATACTAAAACAATTCTTAAAATAATACACAAATTGACAATATAATAAA
AAATGGTTATATTAAAAATTTAAAATGATTAAAAATAAAATAAAAATATATATTAATATATAATT
CAGG
Found at i:109442114 original size:20 final size:19
Alignment explanation
Indices: 109442068--109442115 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
109442058 AAAATTGAAA
*
109442068 TACTTTTTTTAATAATTTT
1 TACTTTTTATAATAATTTT
* *
109442087 TCAATTTTTATATATCATTTT
1 T-ACTTTTTATA-ATAATTTT
109442108 TACTTTTT
1 TACTTTTT
109442116 TAAATTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 14 0.61
21 8 0.35
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (19 bp):
TACTTTTTATAATAATTTT
Found at i:109442153 original size:37 final size:37
Alignment explanation
Indices: 109442073--109442162 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 37
109442063 TGAAATACTT
* *
109442073 TTTTTAATAATTTTTCAATTTTTATATATCATTTTTAC
1 TTTTT-ATAATTTTTCAATTTTTATATATCATATATAC
*
109442111 TTTTT-TAAATTTTTCGAATTATTTATATATTATATATA-
1 TTTTTAT-AATTTTTC-AATT-TTTATATATCATATATAC
109442149 TTTTTATAATTTTT
1 TTTTTATAATTTTT
109442163 AAGCAATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
36 1 0.02
37 8 0.18
38 21 0.47
39 15 0.33
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (37 bp):
TTTTTATAATTTTTCAATTTTTATATATCATATATAC
Found at i:109450251 original size:41 final size:41
Alignment explanation
Indices: 109450170--109450429 Score: 380
Period size: 41 Copynumber: 6.4 Consensus size: 41
109450160 GTTTTATTAA
* *
109450170 AAAACGCCGCTAAAA-ACTGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* * *
109450210 AAAACACCGCTAAAAGACAGAGCTTTAACGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* * *
109450251 AAAACGCTGCTAAAAGACAGAGCTTTGGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* * *
109450292 -AAACGCCGCTAAAAGACAGAGCAGTAGTGGCACTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* *
109450332 AAAACGCCGCTAAAAGACAGAGTAGTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
109450373 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGTT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
109450414 AAAACGCCGCTAAAAG
1 AAAACGCCGCTAAAAG
109450430 TCATATAAAT
Statistics
Matches: 197, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
40 48 0.24
41 149 0.76
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
Found at i:109450310 original size:81 final size:82
Alignment explanation
Indices: 109450170--109450429 Score: 382
Period size: 81 Copynumber: 3.2 Consensus size: 82
109450160 GTTTTATTAA
* * * *
109450170 AAAACGCCGCTAAAA-ACTGAGCAATAGCGGCGCTTTTGGTAAAACACCGCTAAAAGACAGAGCT
1 AAAACGCCGCTAAAAGACAGAGCTATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
*
109450234 TTAACGGCGCTTTTGGT
66 TTAGCGGCGCTTTTGGT
* * *
109450251 AAAACGCTGCTAAAAGACAGAGCTTTGGCGGCGCTTTTGGT-AAACGCCGCTAAAAGACAGAGCA
1 AAAACGCCGCTAAAAGACAGAGCTATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
* * *
109450315 GTAGTGGCACTTTTGGT
66 TTAGCGGCGCTTTTGGT
109450332 AAAACGCCGCTAAAAGACAGAG-TAGTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGC
1 AAAACGCCGCTAAAAGACAGAGCTA-TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGC
*
109450396 ATTAGCGGCGCTTTTGTT
65 ATTAGCGGCGCTTTTGGT
109450414 AAAACGCCGCTAAAAG
1 AAAACGCCGCTAAAAG
109450430 TCATATAAAT
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.01
81 84 0.53
82 73 0.46
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (82 bp):
AAAACGCCGCTAAAAGACAGAGCTATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
TTAGCGGCGCTTTTGGT
Found at i:109450336 original size:122 final size:123
Alignment explanation
Indices: 109450170--109450429 Score: 391
Period size: 122 Copynumber: 2.1 Consensus size: 123
109450160 GTTTTATTAA
* *
109450170 AAAACGCCGCTAAAA-ACTGAGCAATAGCGGCGCTTTTGGTAAAACACCGCTAAAAGACAGAGCT
1 AAAACGCCGCTAAAAGACAGAGCAATAGCGGCACTTTTGGTAAAACACCGCTAAAAGACAGAG-T
* * * *
109450234 -TTAACGGCGCTTTTGGTAAAACGCTGCTAAAAGACAGAGCTTTGGCGGCGCTTTTGGT
65 AGTAACGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* * *
109450292 -AAACGCCGCTAAAAGACAGAGCAGTAGTGGCACTTTTGGTAAAACGCCGCTAAAAGACAGAGTA
1 AAAACGCCGCTAAAAGACAGAGCAATAGCGGCACTTTTGGTAAAACACCGCTAAAAGACAGAGTA
* *
109450356 GTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGTT
66 GTAACGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
109450414 AAAACGCCGCTAAAAG
1 AAAACGCCGCTAAAAG
109450430 TCATATAAAT
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
121 15 0.12
122 94 0.76
123 15 0.12
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (123 bp):
AAAACGCCGCTAAAAGACAGAGCAATAGCGGCACTTTTGGTAAAACACCGCTAAAAGACAGAGTA
GTAACGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
Found at i:109451414 original size:7 final size:7
Alignment explanation
Indices: 109451355--109451500 Score: 62
Period size: 7 Copynumber: 20.6 Consensus size: 7
109451345 GAGTTGCTAT
*
109451355 TTTAAGG
1 TTTATGG
109451362 TTTATGG
1 TTTATGG
*
109451369 ATTATGG
1 TTTATGG
*
109451376 ATTATGGG
1 TTTAT-GG
109451384 TTTATGG
1 TTTATGG
*
109451391 ATTATGG
1 TTTATGG
**
109451398 TTTACAG
1 TTTATGG
109451405 TTTATGG
1 TTTATGG
*
109451412 TTTAAGG
1 TTTATGG
* **
109451419 GTTGGGG
1 TTTATGG
*
109451426 TTTAAGG
1 TTTATGG
109451433 TTTA-GG
1 TTTATGG
*
109451439 TGTTAGGG
1 T-TTATGG
* *
109451447 GTTAGGG
1 TTTATGG
*
109451454 GTTATGG
1 TTTATGG
*
109451461 GTTATGG
1 TTTATGG
*
109451468 ATTTAAGG
1 -TTTATGG
*
109451476 GTTAT-G
1 TTTATGG
*
109451482 TTGTATGA
1 TT-TATGG
*
109451490 TTTAAGG
1 TTTATGG
109451497 TTTA
1 TTTA
109451501 GGGGATAAAA
Statistics
Matches: 107, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
6 5 0.05
7 87 0.81
8 15 0.14
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.45
Consensus pattern (7 bp):
TTTATGG
Found at i:109451641 original size:14 final size:14
Alignment explanation
Indices: 109451622--109451659 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
109451612 GTTTGCAGGT
*
109451622 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
109451636 AAAATGATTTCTGG
1 AAAATGATTTCTGG
109451650 AAAATGATTT
1 AAAATGATTT
109451660 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:109452235 original size:22 final size:23
Alignment explanation
Indices: 109452209--109452273 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
109452199 AAATTTTTAA
*
109452209 AAAAATTTATTTAAAATT-AATAT
1 AAAAA-TTATTAAAAATTCAATAT
109452232 AAAAGA-TA-TAAAAATTCAATAT
1 AAAA-ATTATTAAAAATTCAATAT
* *
109452254 AAAAATTATAAAAAAGTCAA
1 AAAAATTATTAAAAATTCAA
109452274 AAATTAGCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
21 8 0.23
22 13 0.37
23 13 0.37
24 1 0.03
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (23 bp):
AAAAATTATTAAAAATTCAATAT
Found at i:109452346 original size:38 final size:40
Alignment explanation
Indices: 109452278--109452386 Score: 177
Period size: 38 Copynumber: 2.8 Consensus size: 40
109452268 AGTCAAAAAT
109452278 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
* * *
109452318 TAGTGGCGTTTAT-AT-AAAACGCCGCAAAAGGCAATCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
109452356 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
109452387 AGTAATTTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
38 33 0.52
39 4 0.06
40 26 0.41
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.18
Consensus pattern (40 bp):
TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
Found at i:109452566 original size:20 final size:18
Alignment explanation
Indices: 109452551--109452586 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
109452541 TATTTCTCTC
*
109452551 CCCCGATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
*
109452569 TCCCAATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
109452587 TCTCAGCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (18 bp):
CCCCAATTCCCTTTTCTT
Found at i:109452693 original size:35 final size:34
Alignment explanation
Indices: 109452611--109452694 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
109452601 TGACTAAGCC
* * *
109452611 ATTTGCCTAAATCATAGTTCCCTCGAAACCCTCA
1 ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
* *
109452645 TTTTCTCCCAAATCATAGTTCCCCCAAAACCC-CAAA
1 ATTTC-CCTAAATCATAGTTCCCCCAAAACCCTC--A
109452681 ATTTCCCTAAATCA
1 ATTTCCCTAAATCA
109452695 AACCCATTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
34 4 0.10
35 31 0.77
36 5 0.12
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.29
Consensus pattern (34 bp):
ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
Found at i:109458330 original size:32 final size:32
Alignment explanation
Indices: 109458293--109458356 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
109458283 TTTTATTTTT
* *
109458293 TTATTAAATTAGTTAGGCTATTTTTAGTAAAC
1 TTATTAAATTAATTAAGCTATTTTTAGTAAAC
109458325 TTATTAAATTAATTAAGCTATTTTTAGTAAAC
1 TTATTAAATTAATTAAGCTATTTTTAGTAAAC
109458357 CCCATGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (32 bp):
TTATTAAATTAATTAAGCTATTTTTAGTAAAC
Found at i:109458923 original size:15 final size:14
Alignment explanation
Indices: 109458897--109458983 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
109458887 TATTTTAATA
*
109458897 CTATTATTATTTAT
1 CTATTTTTATTTAT
109458911 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
109458926 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
109458940 ACTATTATTATGTT-T
1 -CTATTTTTAT-TTAT
109458955 CTATTTATTATATT-T
1 CTATTT-TTAT-TTAT
* *
109458970 TTATTTCTATTTAT
1 CTATTTTTATTTAT
109458984 AGACTAATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
13 2 0.03
14 21 0.36
15 34 0.58
16 2 0.03
ACGTcount: A:0.25, C:0.08, G:0.01, T:0.66
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:109458936 original size:14 final size:15
Alignment explanation
Indices: 109458904--109458937 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
109458894 ATACTATTAT
*
109458904 TATTTATCTAATTTT
1 TATTTATCTAATTTA
109458919 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
109458933 TATTT
1 TATTT
109458938 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:109458936 original size:29 final size:29
Alignment explanation
Indices: 109458904--109458962 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
109458894 ATACTATTAT
*
109458904 TATTTAT-CTAATTTTTAT-TTATCTATTTA
1 TATTTATACT-ATTATTATGTT-TCTATTTA
*
109458933 TATTTCTACTATTATTATGTTTCTATTTA
1 TATTTATACTATTATTATGTTTCTATTTA
109458962 T
1 T
109458963 TATATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.64
Consensus pattern (29 bp):
TATTTATACTATTATTATGTTTCTATTTA
Found at i:109462581 original size:20 final size:21
Alignment explanation
Indices: 109462553--109462594 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
109462543 TTTTAATTTA
*
109462553 TTTATAATCTAATAACAAAAT
1 TTTATAATCAAATAACAAAAT
*
109462574 TTTA-AATCAAATAATAAAAT
1 TTTATAATCAAATAACAAAAT
109462594 T
1 T
109462595 AACAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTATAATCAAATAACAAAAT
Found at i:109477943 original size:16 final size:17
Alignment explanation
Indices: 109477919--109477951 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
109477909 ATTTTCTTCG
109477919 CTTTATTTTTCT-TTTT
1 CTTTATTTTTCTATTTT
*
109477935 CTTTTTTTTTCTATTTT
1 CTTTATTTTTCTATTTT
109477952 AGAATACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
CTTTATTTTTCTATTTT
Found at i:109483224 original size:34 final size:34
Alignment explanation
Indices: 109483185--109483275 Score: 121
Period size: 34 Copynumber: 2.7 Consensus size: 34
109483175 CACACACATG
**
109483185 ATAAGCATGTCT-TTTGCTACTGTATTGATTTGTT
1 ATAAGCATGT-TATTTGCTACTGTATTGATTCATT
* *
109483219 ATAAGCATGTTAATTGCTACAGTATTGATTCATT
1 ATAAGCATGTTATTTGCTACTGTATTGATTCATT
*
109483253 ATAAGCATATTATTTGCTACTGT
1 ATAAGCATGTTATTTGCTACTGT
109483276 TTCTAGCTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
33 1 0.02
34 48 0.98
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
ATAAGCATGTTATTTGCTACTGTATTGATTCATT
Found at i:109483428 original size:21 final size:22
Alignment explanation
Indices: 109483402--109483444 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
109483392 AATATTTTCT
*
109483402 TTAAAAA-ATAATTTTAATCCC
1 TTAAAAAGATAATTTCAATCCC
*
109483423 TTAAAAAGTTAATTTCAATCCC
1 TTAAAAAGATAATTTCAATCCC
109483445 ACACATGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAAAAGATAATTTCAATCCC
Found at i:109483704 original size:94 final size:94
Alignment explanation
Indices: 109483587--109483760 Score: 249
Period size: 94 Copynumber: 1.9 Consensus size: 94
109483577 AACTCCCATG
* ** * *
109483587 CTCATATTTACCCTATAAATAAGTGTTAGTTTCTTCACTATTTTTATTAAAAAAATAGTTTTAAT
1 CTCACATTTACCCTATAAATAAGTGACAATTTCTTCACTATTTTTATTAAAAAAATAATTTTAAT
109483652 CCCACATTGACTAGAAAACACTCGCACAT
66 CCCACATTGACTAGAAAACACTCGCACAT
* * * **
109483681 CTCACATTTACCTTATAATTAAGTGACAATTTTTTCACTATTTTTATTAAAAAGTTAATTTTAAT
1 CTCACATTTACCCTATAAATAAGTGACAATTTCTTCACTATTTTTATTAAAAAAATAATTTTAAT
*
109483746 CTCACATTGACTAGA
66 CCCACATTGACTAGA
109483761 TAATACTCTC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (94 bp):
CTCACATTTACCCTATAAATAAGTGACAATTTCTTCACTATTTTTATTAAAAAAATAATTTTAAT
CCCACATTGACTAGAAAACACTCGCACAT
Found at i:109484046 original size:35 final size:34
Alignment explanation
Indices: 109483977--109484047 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 34
109483967 ATGTTTACAC
* *
109483977 TTACCCTATAAGTAGTATCAATTTCTTCACTATT
1 TTACCCTATAAATAGTATAAATTTCTTCACTATT
* * *
109484011 TTACCCTATAAATAAGTGTAAATTTTTTCATTATT
1 TTACCCTATAAAT-AGTATAAATTTCTTCACTATT
109484046 TT
1 TT
109484048 TATTAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
34 12 0.39
35 19 0.61
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (34 bp):
TTACCCTATAAATAGTATAAATTTCTTCACTATT
Found at i:109487015 original size:12 final size:12
Alignment explanation
Indices: 109486998--109487027 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
109486988 AATATCATAT
109486998 TACATGATTTAA
1 TACATGATTTAA
109487010 TACATGATTTAA
1 TACATGATTTAA
*
109487022 TGCATG
1 TACATG
109487028 TTGCTCTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (12 bp):
TACATGATTTAA
Found at i:109491990 original size:24 final size:25
Alignment explanation
Indices: 109491950--109491996 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
109491940 CTGCGTTTAA
109491950 TTCACTTCTCCCACTTT-TCTTCCT
1 TTCACTTCTCCCACTTTGTCTTCCT
*
109491974 TTCAC-TCTCCCCTCTTTGTCTTC
1 TTCACTTCT-CCCACTTTGTCTTC
109491997 GAAAAATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 12 0.60
25 5 0.25
ACGTcount: A:0.06, C:0.43, G:0.02, T:0.49
Consensus pattern (25 bp):
TTCACTTCTCCCACTTTGTCTTCCT
Found at i:109492797 original size:160 final size:157
Alignment explanation
Indices: 109492445--109492807 Score: 421
Period size: 160 Copynumber: 2.3 Consensus size: 157
109492435 TTTATTTCTT
* * * ** *
109492445 AATTGGATATAAAGAAGTTAACTTTTGCAGAATTAAAATTAAAAAACTTGTTTAGAGGAATTTAT
1 AATTGGATTTAAAGAAGAT-ACTCTTAAAGAATTAAAATTAAAAAACTTGTTTAGAGAAATTTAT
* *
109492510 TTTTTTTCTTGTTTATTTATGAGATGTATGATAGTAGACAACATGAAAATGAGCTTGTTTTGCTT
65 TTTTTTTCTTGTTTATTTATGAGATGTATGATAGTAGACAACATGAAAATGAACTTGTTTTACTT
109492575 TAATACTTGAATTTTCTCTGTGTGTGTCC
130 TAATACTTGAATTTTCTCTGTGTGTG-CC
* * * *
109492604 AATTGGATTTAGAGAAGATACTTTTAAAGAATTAAAATTAAAAACCTAGTTTTTCAGAGAAATTT
1 AATTGGATTTAAAGAAGATACTCTTAAAGAATTAAAATTAAAAAACT--TGTTT-AGAGAAATTT
* * * * *
109492669 ATTTATTTATTCTTGTTTATTTATGAGAT-TCGTGATAGTAGATAGCATGAACTATGAATTTGTT
63 ATTT-TTT-TTCTTGTTTATTTATGAGATGT-ATGATAGTAGACAACATGAA-AATGAACTTGTT
*
109492733 TTACTGTTAATGCTTG-ATTTT-TCTGT-TGTG-C
124 TTACT-TTAATACTTGAATTTTCTCTGTGTGTGCC
* *
109492764 AATTGGATTTAAAGAAGATGCTCTTAAAGAATTAAAAATAAAAA
1 AATTGGATTTAAAGAAGATACTCTTAAAGAATTAAAATTAAAAA
109492808 TGGTAATACT
Statistics
Matches: 176, Mismatches: 20, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
158 25 0.14
159 16 0.09
160 45 0.26
161 13 0.07
162 8 0.05
163 42 0.24
164 18 0.10
165 9 0.05
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (157 bp):
AATTGGATTTAAAGAAGATACTCTTAAAGAATTAAAATTAAAAAACTTGTTTAGAGAAATTTATT
TTTTTTCTTGTTTATTTATGAGATGTATGATAGTAGACAACATGAAAATGAACTTGTTTTACTTT
AATACTTGAATTTTCTCTGTGTGTGCC
Found at i:109493243 original size:11 final size:12
Alignment explanation
Indices: 109493222--109493247 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
109493212 TAATCTAGTC
109493222 TTTCTTTTTTTT
1 TTTCTTTTTTTT
109493234 TTTCTTTTTTTT
1 TTTCTTTTTTTT
109493246 TT
1 TT
109493248 ATGTTGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:109496280 original size:19 final size:20
Alignment explanation
Indices: 109496252--109496291 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
109496242 AAAAAGTTAA
*
109496252 ATATTTATTT-ATATTGGAT
1 ATATTCATTTCATATTGGAT
109496271 ATATTCATTTCCATATTGGAT
1 ATATTCATTT-CATATTGGAT
109496292 TAGTGTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (20 bp):
ATATTCATTTCATATTGGAT
Found at i:109496541 original size:21 final size:20
Alignment explanation
Indices: 109496495--109496541 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
109496485 CTTATTAGGA
*
109496495 TTTTTTATGAGATTTTAAAT
1 TTTTTTATAAGATTTTAAAT
109496515 TATTTTTATAAG-TTTTGATAAT
1 T-TTTTTATAAGATTTT-A-AAT
109496537 TTTTT
1 TTTTT
109496542 AGCATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 5 0.22
21 14 0.61
22 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (20 bp):
TTTTTTATAAGATTTTAAAT
Found at i:109498877 original size:51 final size:51
Alignment explanation
Indices: 109498796--109498926 Score: 208
Period size: 51 Copynumber: 2.6 Consensus size: 51
109498786 CAGATCACAT
* * *
109498796 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGTTAAAACTACCAC
1 TTATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAACTACCAC
* **
109498847 TTATCACTTGTCACTTGTCACTAATTAGATAAGTGTAGCTAAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAACTACCAC
109498898 TTATCACTTGTCACTTGTCACTGATTAGA
1 TTATCACTTGTCACTTGTCACTGATTAGA
109498927 AGTACTCAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.36
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAACTACCAC
Found at i:109504791 original size:72 final size:72
Alignment explanation
Indices: 109504694--109504842 Score: 246
Period size: 72 Copynumber: 2.1 Consensus size: 72
109504684 TAATAACATT
* * *
109504694 AGTGGTTCAATACCGTGTTCCATTTTTGATCTTGTGAACCTTACTTCACTTGATTTGTCATCGAA
1 AGTGGTCCAATACCGTATTCCATTTTTGATCTTGTGAACCTTACTTCACTTGATTTGTCATCAAA
109504759 CAACTTG
66 CAACTTG
109504766 AGTGGTCCAATACCAG-ATTCCATTTTTGATCTTGTGAACCTTACTTCACTTGATTTGTCATCAA
1 AGTGGTCCAATACC-GTATTCCATTTTTGATCTTGTGAACCTTACTTCACTTGATTTGTCATCAA
*
109504830 ACGACTTG
65 ACAACTTG
109504838 AGTGG
1 AGTGG
109504843 GGGCATCAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 71 0.99
73 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (72 bp):
AGTGGTCCAATACCGTATTCCATTTTTGATCTTGTGAACCTTACTTCACTTGATTTGTCATCAAA
CAACTTG
Found at i:109507102 original size:25 final size:25
Alignment explanation
Indices: 109507074--109507129 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
109507064 TAATATAAAT
* *
109507074 TATTTGAAATATAATATATTTGTAA
1 TATTTGAAATATAATACATTTATAA
*
109507099 TATTTTG-AATATATTACATTTATAA
1 TA-TTTGAAATATAATACATTTATAA
109507124 -ATTTGA
1 TATTTGA
109507130 CAGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.15
24 1 0.04
25 17 0.65
26 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (25 bp):
TATTTGAAATATAATACATTTATAA
Found at i:109513238 original size:107 final size:105
Alignment explanation
Indices: 109513004--109513362 Score: 285
Period size: 107 Copynumber: 3.4 Consensus size: 105
109512994 CTTACTCTTG
* * ** *
109513004 AGCAATAACATGAAGAATTATAATGCCTTGGTCATGTTGTCAGCATCGAGTAAGCAGCAATAAGT
1 AGCAATAACATGAAGAAATATAATGCCTTGGTCATGCTGTCAGCATCGAGTAAGCAAAAATAAGC
* *
109513069 ATGCAATGTAATGTATCCCTTCCTAGGCGATCCACGAGTA
66 ATGCAATGTAATGTACCCCTGCCTAGGCGATCCACGAGTA
* * * *
109513109 AGCAGTAACGTGAAGAAATATAATGTCTTGGTCATGCTGTCTA-CATTGAGTAAGCAAAAATAAG
1 AGCAATAACATGAAGAAATATAATGCCTTGGTCATGCTGTC-AGCATCGAGTAAGCAAAAATAAG
* * * * *
109513173 CATGCAAACCT-TGATGTACCCCTGGCTAGGTGATGCATGAGTA
65 CATGC-AA--TGTAATGTACCCCTGCCTAGGCGATCCACGAGTA
* * * * * * * *
109513216 AGCAATAACATGAAGAAATATAATGCATTTGTCGTGTTATCTA-CATCAAGTAAG-AAGTAATGA
1 AGCAATAACATGAAGAAATATAATGCCTTGGTCATGCTGTC-AGCATCGAGTAAGCAA-AAATAA
* * ** * * * * * *
109513279 GTATAGGAAACTGACGAACCCCTTCCTAGGCGATGCACAAGTA
64 GCAT-GCAATGTAATGTACCCCTGCCTAGGCGATCCACGAGTA
* * * *
109513322 AGCAATGACATAAAGAAATATAATGCTTTGGTCATGTTGTC
1 AGCAATAACATGAAGAAATATAATGCCTTGGTCATGCTGTC
109513363 CACATCAAGT
Statistics
Matches: 203, Mismatches: 44, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
105 58 0.29
106 65 0.32
107 78 0.38
108 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (105 bp):
AGCAATAACATGAAGAAATATAATGCCTTGGTCATGCTGTCAGCATCGAGTAAGCAAAAATAAGC
ATGCAATGTAATGTACCCCTGCCTAGGCGATCCACGAGTA
Found at i:109513338 original size:106 final size:106
Alignment explanation
Indices: 109513004--109513419 Score: 324
Period size: 106 Copynumber: 3.9 Consensus size: 106
109512994 CTTACTCTTG
* * * * * ** *
109513004 AGCAATAACATGAAGAATTATAATGCCTTGGTCATGTTGT-CAGCATCGAGTAAGCAGCAATAAG
1 AGCAATAACATAAAGAAATATAATGCTTTGGTCATGTTATCCA-CATCAAGTAAGCAATAATGAG
** * * * * * *
109513068 TATGC-AATGTAATGTATCCCTTCCTAGGCGATCCACGAGTA
65 TATGCGAAACTGACGAACCCCTTCCTAGGCGATGCACAAGTA
* * * * * * ** * *
109513109 AGCAGTAACGTGAAGAAATATAATG-TCTTGGTCATGCTGTCTACATTGAGTAAGCAAAAATAAG
1 AGCAATAACATAAAGAAATATAATGCT-TTGGTCATGTTATCCACATCAAGTAAGCAATAATGAG
* * * ** * **
109513173 CATGC-AAACCTTGATGTACCCCTGGCTAGGTGATGCATGAGTA
65 TATGCGAAA-C-TGACGAACCCCTTCCTAGGCGATGCACAAGTA
* * *
109513216 AGCAATAACATGAAGAAATATAATGCATTT-GTCGTGTTATCTACATCAAGTAAG-AAGTAATGA
1 AGCAATAACATAAAGAAATATAATGC-TTTGGTCATGTTATCCACATCAAGTAAGCAA-TAATGA
109513279 GTATAG-GAAACTGACGAACCCCTTCCTAGGCGATGCACAAGTA
64 GTAT-GCGAAACTGACGAACCCCTTCCTAGGCGATGCACAAGTA
* * * *
109513322 AGCAATGACATAAAGAAATATAATGCTTTGGTCATGTTGTCCACATCAAGTAGGCAATAATGGGT
1 AGCAATAACATAAAGAAATATAATGCTTTGGTCATGTTATCCACATCAAGTAAGCAATAATGAGT
* * *
109513387 ATGCGAACCTGATGTACCCCTTCCTAGGCGATG
66 ATGCGAAACTGACGAACCCCTTCCTAGGCGATG
109513420 AACAGGAACA
Statistics
Matches: 253, Mismatches: 46, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
105 62 0.25
106 107 0.42
107 77 0.30
108 6 0.02
109 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (106 bp):
AGCAATAACATAAAGAAATATAATGCTTTGGTCATGTTATCCACATCAAGTAAGCAATAATGAGT
ATGCGAAACTGACGAACCCCTTCCTAGGCGATGCACAAGTA
Found at i:109521157 original size:18 final size:18
Alignment explanation
Indices: 109521134--109521171 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
109521124 TATTGTTATC
109521134 ATGAATCAGAATTTTAAT
1 ATGAATCAGAATTTTAAT
109521152 ATGAATCAGAATTTTAAT
1 ATGAATCAGAATTTTAAT
109521170 AT
1 AT
109521172 TTTTGATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (18 bp):
ATGAATCAGAATTTTAAT
Found at i:109524765 original size:16 final size:14
Alignment explanation
Indices: 109524730--109524760 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
109524720 TTTACTTTAT
*
109524730 AAAATATTCATATA
1 AAAAAATTCATATA
109524744 AAAAAATTCATATA
1 AAAAAATTCATATA
109524758 AAA
1 AAA
109524761 CAAAAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAATTCATATA
Found at i:109525084 original size:152 final size:162
Alignment explanation
Indices: 109524914--109525325 Score: 567
Period size: 152 Copynumber: 2.5 Consensus size: 162
109524904 AAGGAACCAT
109524914 CATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCT
1 CATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCT
109524979 AAAACATCAAATTAAAAAAAAAA-G-A-AGGAAACAGT-AAC-C-ACGAACAAAACGAAAGAATC
66 AAAACATCAAATTAAAAAAAAAAGGAAGAGGAAACAGTAAACGCAACGAACAAAACGAAAGAATC
109525038 AAAATCCAGGAAACACAAACAAATGGA-TTA-A
131 AAAATCCAGGAAACACAAACAAAT-GATTTATA
*
109525069 -ATCA-T-AAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCT
1 CATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCT
*
109525131 AAAACATCATATTATAAAAAAAAAAAGGAAGAGGAAACAGTAACAACGAGTCAACGAACAAAACG
66 AAAACATCA-A--ATTAAAAAAAAAAGGAAGAGGAAACAGT-A-AAC--G-CAACGAACAAAACG
* *
109525196 AAAGATTCAAAATCTAGGAAACACAAACAAATGATTTATA
123 AAAGAATCAAAATCCAGGAAACACAAACAAATGATTTATA
** * * *
109525236 TCATAATTCAAAAAATAAACATTGTATAGATCTTCGAAACTAACATAAAAATGCAAATAAGATCC
1 -CATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCC
109525301 TAAAACATCAAATTATAAAAAAAAA
65 TAAAACATCAAATTA-AAAAAAAAA
109525326 AAAGAAAAAA
Statistics
Matches: 225, Mismatches: 11, Indels: 28
0.85 0.04 0.11
Matches are distributed among these distances:
152 66 0.29
153 2 0.01
154 3 0.01
155 12 0.05
156 1 0.00
157 1 0.00
158 10 0.04
161 3 0.01
165 3 0.01
166 45 0.20
167 1 0.00
168 3 0.01
169 12 0.05
170 2 0.01
171 61 0.27
ACGTcount: A:0.58, C:0.14, G:0.09, T:0.19
Consensus pattern (162 bp):
CATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCT
AAAACATCAAATTAAAAAAAAAAGGAAGAGGAAACAGTAAACGCAACGAACAAAACGAAAGAATC
AAAATCCAGGAAACACAAACAAATGATTTATA
Found at i:109525303 original size:171 final size:164
Alignment explanation
Indices: 109524912--109525407 Score: 624
Period size: 171 Copynumber: 3.0 Consensus size: 164
109524902 AAAAGGAACC
109524912 ATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATC
1 ATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATC
*
109524977 CTAAAACATCAA--ATTAAAAAAAAAAG-AAGGAAACAGT--AAC---C-ACGAACAAAACGAAA
66 CTAAAACATCAATTATAAAAAAAAAAAGAAAGGAAACAGTAAAACAGTCAACGAACAAAACGAAA
*
109525033 GAATCAAAATCCAGGAAACACAAACAAATGGATTA
131 GATTCAAAATCCAGGAAACACAAACAAAT-GATTA
*
109525068 A--ATCA-T-AAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATC
1 ATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATC
109525129 CTAAAACATCATATTATAAAAAAAAAAAGGAAGAGGAAACAGTAACAACGAGTCAACGAACAAAA
66 CTAAAACATCA-ATTATAAAAAAAAAAA-GAA-AGGAAACAGTAA-AAC-AGTCAACGAACAAAA
*
109525194 CGAAAGATTCAAAATCTAGGAAACACAAACAAATGATTTA
126 CGAAAGATTCAAAATCCAGGAAACACAAACAAATGA-TTA
** * * *
109525234 TATCATAATTCAAAAAATAAACATTGTATAGATCTTCGAAACTAACATAAAAATGCAAATAAGAT
1 -ATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAAT
** * *
109525299 CCTAAAACATCAAATTATAAAAAAAAAAAAGAAAAAAAAGAG-AGGAAACAGTAACAACGAAAAA
65 CCTAAAACATC-AATTAT-AAAAAAAAAAAGAAAGGAAACAGTA--AAACAGT--CAACGAACAA
*
109525363 AACGAAAGATTCAAAATCCAGGAAATACACAACAAATGAATTA
124 AACGAAAGATTCAAAATCCAGGAAACACA-AACAAATG-ATTA
109525406 AT
1 AT
109525408 AGATAAAAAA
Statistics
Matches: 296, Mismatches: 16, Indels: 41
0.84 0.05 0.12
Matches are distributed among these distances:
152 66 0.22
153 2 0.01
154 3 0.01
155 12 0.04
156 2 0.01
157 1 0.00
158 10 0.03
161 3 0.01
165 3 0.01
166 45 0.15
167 1 0.00
169 7 0.02
170 10 0.03
171 107 0.36
172 23 0.08
173 1 0.00
ACGTcount: A:0.59, C:0.14, G:0.10, T:0.18
Consensus pattern (164 bp):
ATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATC
CTAAAACATCAATTATAAAAAAAAAAAGAAAGGAAACAGTAAAACAGTCAACGAACAAAACGAAA
GATTCAAAATCCAGGAAACACAAACAAATGATTA
Found at i:109526849 original size:16 final size:16
Alignment explanation
Indices: 109526799--109526850 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
109526789 GAATGGAAAT
* *
109526799 AAAATTGGAAAGATAG
1 AAAATTAGAAGGATAG
*
109526815 AAAATTA-AAGGGGTAG
1 AAAATTAGAA-GGATAG
*
109526831 AAAATTAGAAGGATGG
1 AAAATTAGAAGGATAG
109526847 AAAA
1 AAAA
109526851 CATAAATCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 2 0.07
16 25 0.86
17 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (16 bp):
AAAATTAGAAGGATAG
Found at i:109527878 original size:17 final size:17
Alignment explanation
Indices: 109527852--109527906 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 17
109527842 GATTTGGTCT
* *
109527852 TTATATTTTAATTTTTA
1 TTATAATTTAATTATTA
109527869 TTATAATTTAA-TATTA
1 TTATAATTTAATTATTA
*
109527885 AT-TAATTTAATTATT-
1 TTATAATTTAATTATTA
109527900 TTATAAT
1 TTATAAT
109527907 ATTATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 9 0.28
16 13 0.41
17 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATAATTTAATTATTA
Found at i:109529170 original size:29 final size:29
Alignment explanation
Indices: 109529137--109529196 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
109529127 AATTTGATCT
* *
109529137 TATTTTTTTAATGTTATTAATTAGTTTAA
1 TATTTTTATAATGTTATTAATTAGTTAAA
*
109529166 TATTTTTATGATGTTATTAATTAGTTAAA
1 TATTTTTATAATGTTATTAATTAGTTAAA
109529195 TA
1 TA
109529197 GTTAATATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (29 bp):
TATTTTTATAATGTTATTAATTAGTTAAA
Found at i:109530472 original size:33 final size:34
Alignment explanation
Indices: 109530430--109530514 Score: 127
Period size: 38 Copynumber: 2.4 Consensus size: 34
109530420 CAACAAGTGA
109530430 TATTAAAATTATTATG-TTTTTGAAATATAAAAT
1 TATTAAAATTATTATGTTTTTTGAAATATAAAAT
109530463 TATTAAAATTATTATGTTATTTTTTTGAAATATAAAAT
1 TATTAAAATTATTATG----TTTTTTGAAATATAAAAT
109530501 TATTAAAATTATTA
1 TATTAAAATTATTA
109530515 ATTTCCAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
33 16 0.34
38 31 0.66
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.51
Consensus pattern (34 bp):
TATTAAAATTATTATGTTTTTTGAAATATAAAAT
Found at i:109530493 original size:38 final size:38
Alignment explanation
Indices: 109530441--109530514 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
109530431 ATTAAAATTA
109530441 TTATGTTTTTGAAATATAAAATTATTAAAATTATTATG
1 TTATGTTTTTGAAATATAAAATTATTAAAATTATTATG
*
109530479 TTATTTTTTTGAAATATAAAATTATTAAAATTATTA
1 TTATGTTTTTGAAATATAAAATTATTAAAATTATTA
109530515 ATTTCCAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (38 bp):
TTATGTTTTTGAAATATAAAATTATTAAAATTATTATG
Found at i:109534235 original size:17 final size:17
Alignment explanation
Indices: 109534191--109534241 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
109534181 GTTTTCAAAT
*
109534191 AAACAATGGGGAAGAAG
1 AAACAATGGGAAAGAAG
**
109534208 AAATTAT-GGAAAGAAG
1 AAACAATGGGAAAGAAG
109534224 AAACAATGGGAAAGAAG
1 AAACAATGGGAAAGAAG
109534241 A
1 A
109534242 TCAAAGACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.57, C:0.04, G:0.29, T:0.10
Consensus pattern (17 bp):
AAACAATGGGAAAGAAG
Found at i:109534326 original size:9 final size:9
Alignment explanation
Indices: 109534314--109534372 Score: 51
Period size: 9 Copynumber: 7.3 Consensus size: 9
109534304 AAATTGGAAA
109534314 TTAATAATT
1 TTAATAATT
109534323 TTAATAATT
1 TTAATAATT
109534332 TT-AT-ATT
1 TTAATAATT
109534339 TTAA-AA--
1 TTAATAATT
*
109534345 -AAATAA-T
1 TTAATAATT
*
109534352 ATAATAATT
1 TTAATAATT
109534361 TTAATAATT
1 TTAATAATT
109534370 TTA
1 TTA
109534373 TATTTCAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
5 2 0.05
6 2 0.05
7 5 0.12
8 9 0.22
9 23 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TTAATAATT
Found at i:109534352 original size:33 final size:36
Alignment explanation
Indices: 109534315--109534402 Score: 110
Period size: 38 Copynumber: 2.5 Consensus size: 36
109534305 AATTGGAAAT
*
109534315 TAATAATTTTAATAATTTTATATTTTAAAAAAATAATA
1 TAATAATTTTAATAATTTTATA-TTT-CAAAAATAATA
*
109534353 TAATAATTTTAATAATTTTATATTTC-AAAA-GA-A
1 TAATAATTTTAATAATTTTATATTTCAAAAATAATA
*
109534386 TAATAGTTTTAATAATT
1 TAATAATTTTAATAATT
109534403 ATAAAATCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
33 17 0.36
34 1 0.02
35 4 0.09
37 3 0.06
38 22 0.47
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (36 bp):
TAATAATTTTAATAATTTTATATTTCAAAAATAATA
Found at i:109534365 original size:38 final size:38
Alignment explanation
Indices: 109534315--109534390 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
109534305 AATTGGAAAT
*
109534315 TAATAATTTTAATAATTTTATATTTTAAAAAAATAATA
1 TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
*
109534353 TAATAATTTTAATAATTTTATATTTCAAAAGAATAATA
1 TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
109534391 GTTTTAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (38 bp):
TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
Found at i:109534906 original size:30 final size:30
Alignment explanation
Indices: 109534846--109534907 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
109534836 AGTTTATATC
** *
109534846 TTTATAATTTTTAAAGGATTAAATTAAATT
1 TTTATAATTTTTAAAGGACCAAAGTAAATT
*
109534876 TTTATAA-TTTTAAAGGGCCAAAGTACAATT
1 TTTATAATTTTTAAAGGACCAAAGTA-AATT
109534906 TT
1 TT
109534908 ACTTTTACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGACCAAAGTAAATT
Found at i:109538856 original size:157 final size:157
Alignment explanation
Indices: 109538690--109538999 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
109538680 ATAAGAATAT
*
109538690 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* * *
109538755 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
109538820 TAATAATTTACCAAAACAAATTTTTGG
131 TAATAATTTACCAAAACAAATTTTTGG
* *
109538847 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
109538912 AAATATGATTAAAATATTCATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
109538977 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
109539000 ATGCTAAGGG
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTTTGG
Found at i:109539147 original size:16 final size:16
Alignment explanation
Indices: 109539126--109539193 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
109539116 GTTGATTTGC
109539126 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
109539142 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
109539158 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
109539174 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
109539190 TACA
1 TACA
109539194 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:109539679 original size:18 final size:20
Alignment explanation
Indices: 109539658--109539696 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
109539648 TAATGTTACA
109539658 ATTTT-ATTTT-AATAATAT
1 ATTTTAATTTTAAATAATAT
109539676 ATTTTAAATTTTAAATAATAT
1 ATTTT-AATTTTAAATAATAT
109539697 TCTTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
20 5 0.28
21 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTAATTTTAAATAATAT
Found at i:109539706 original size:20 final size:21
Alignment explanation
Indices: 109539662--109539708 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
109539652 GTTACAATTT
*
109539662 TATTTT-AATAATATATTTTA
1 TATTTTAAATAATATATCTTA
*
109539682 AATTTTAAATAATAT-TCTTA
1 TATTTTAAATAATATATCTTA
109539702 TATTTTA
1 TATTTTA
109539709 TTAAAACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTAAATAATATATCTTA
Found at i:109539767 original size:22 final size:23
Alignment explanation
Indices: 109539741--109539797 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
109539731 TTTAATAATA
*
109539741 AATATAATTATAAATT-TTTT-AC
1 AATATAAATAT-AATTATTTTAAC
*
109539763 AATATGAAATATAATTATTTTAAT
1 AATAT-AAATATAATTATTTTAAC
109539787 AATATAAATAT
1 AATATAAATAT
109539798 GAGCATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 9 0.30
23 15 0.50
24 6 0.20
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
AATATAAATATAATTATTTTAAC
Found at i:109545212 original size:18 final size:19
Alignment explanation
Indices: 109545189--109545232 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
109545179 TTAAAATTTT
109545189 ATTTTAATATTT-TTA-TAC
1 ATTTTAAT-TTTATTAGTAC
109545207 ATTTTAATTTTATTATGTAC
1 ATTTTAATTTTATTA-GTAC
109545227 ATTTTA
1 ATTTTA
109545233 TTGCCTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 11 0.48
20 9 0.39
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTTAATTTTATTAGTAC
Found at i:109545832 original size:21 final size:21
Alignment explanation
Indices: 109545794--109545837 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
109545784 GAGATTAACT
* * *
109545794 AAATTTATCATATTAAATTAA
1 AAATTTATCAAATAAAATCAA
*
109545815 AAATTTATGAAATAAAATCAA
1 AAATTTATCAAATAAAATCAA
109545836 AA
1 AA
109545838 TAAAAATTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATTTATCAAATAAAATCAA
Found at i:109548404 original size:19 final size:17
Alignment explanation
Indices: 109548367--109548406 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
109548357 TTTGTCATAC
*
109548367 TTATATATATATGTATA
1 TTATATATATATATATA
109548384 TTATATATATTATATAGTA
1 TTATATATA-TATATA-TA
109548403 TTAT
1 TTAT
109548407 TAATAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 5 0.25
19 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTATATATATATATATA
Found at i:109548733 original size:17 final size:17
Alignment explanation
Indices: 109548711--109548773 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
109548701 TTAAATATTT
109548711 TATTTTTATTATGTATA
1 TATTTTTATTATGTATA
* * *
109548728 TATTTTTAATACGGATA
1 TATTTTTATTATGTATA
*
109548745 CATTTTTTATTACTCGTATA
1 TA-TTTTTATTA-T-GTATA
109548765 TATATTTTA
1 TAT-TTTTA
109548774 ATATTGTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 15 0.44
18 8 0.24
19 1 0.03
20 10 0.29
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (17 bp):
TATTTTTATTATGTATA
Found at i:109548785 original size:35 final size:33
Alignment explanation
Indices: 109548696--109548786 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 33
109548686 TACTGTGTAA
*
109548696 ATATTTTAAATATTTTA-TTTTTATTATGTATAT
1 ATATTTT-AATATTGTATTTTTTATTATGTATAT
**
109548729 AT-TTTTAATACGGATACATTTTTTATTACTCGTATAT
1 ATATTTTAATATTG-T--ATTTTTTATTA-T-GTATAT
109548766 ATATTTTAATATTGTATTTTT
1 ATATTTTAATATTGTATTTTT
109548787 ATTGTTATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
31 4 0.09
32 5 0.11
33 2 0.04
34 1 0.02
35 15 0.33
36 1 0.02
37 9 0.20
38 9 0.20
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.59
Consensus pattern (33 bp):
ATATTTTAATATTGTATTTTTTATTATGTATAT
Found at i:109549127 original size:3 final size:3
Alignment explanation
Indices: 109549119--109549169 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
109549109 AATTTTACTT
* * * * *
109549119 TTA TTA TTA CTA CTA -TA TTA TTA TTA TTA TCA TTA TCA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
109549166 TTA T
1 TTA T
109549170 CATATTTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:109549383 original size:3 final size:3
Alignment explanation
Indices: 109549375--109549428 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
109549365 TATCTCTAAC
109549375 TAT TAT TAT TAT T-T TA- TAT ATAT TAT TAT CTA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT
*
109549419 TAC TAT TAT T
1 TAT TAT TAT T
109549429 CTTTATTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 33 0.75
4 5 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:109553260 original size:5 final size:6
Alignment explanation
Indices: 109553245--109553269 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
109553235 TACTTTATAA
109553245 TTTTTG TTTTTG TTTTTG TTTTTG T
1 TTTTTG TTTTTG TTTTTG TTTTTG T
109553270 AAATCTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:109553906 original size:20 final size:21
Alignment explanation
Indices: 109553867--109553909 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
109553857 TTTATTTTAT
109553867 TTTATAAAAAAAATTAAAAAA
1 TTTATAAAAAAAATTAAAAAA
**
109553888 TTTATAAATTAAA-TAAAAAA
1 TTTATAAAAAAAATTAAAAAA
109553908 TT
1 TT
109553910 GGATTGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTATAAAAAAAATTAAAAAA
Found at i:109559406 original size:14 final size:14
Alignment explanation
Indices: 109559387--109559415 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
109559377 TTCCTCTTGT
109559387 ATCATCCAATCAAC
1 ATCATCCAATCAAC
109559401 ATCATCCAATCAAC
1 ATCATCCAATCAAC
109559415 A
1 A
109559416 GTAGCGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (14 bp):
ATCATCCAATCAAC
Found at i:109563778 original size:17 final size:17
Alignment explanation
Indices: 109563755--109563793 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
109563745 TTTGATTAGA
109563755 ATAATTTCTATTTAAAAT
1 ATAATTT-TATTTAAAAT
*
109563773 -TAATTTTTTTTAAAAT
1 ATAATTTTATTTAAAAT
109563789 ATAAT
1 ATAAT
109563794 ATACTAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAATTTTATTTAAAAT
Found at i:109563937 original size:38 final size:40
Alignment explanation
Indices: 109563852--109563939 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 40
109563842 TAAAAAGTAT
* *
109563852 TTATATTAAAAACACTATTATAAATATAATAAATGGTTTA
1 TTATATTAAAAACACTATAATAAATATAATAAATGATTTA
*
109563892 TTATATTAAAAACAC-A-AATAAATATAATTAAT-ATTCTA
1 TTATATTAAAAACACTATAATAAATATAATAAATGATT-TA
*
109563930 TTGTATTAAA
1 TTATATTAAA
109563940 TATAGATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 2 0.05
38 25 0.58
39 1 0.02
40 15 0.35
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (40 bp):
TTATATTAAAAACACTATAATAAATATAATAAATGATTTA
Found at i:109564078 original size:14 final size:15
Alignment explanation
Indices: 109564060--109564111 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 15
109564050 TAAATATATA
109564060 AATATTATTTAACAT
1 AATATTATTTAACAT
*
109564075 -ATA-TAATTAACAT
1 AATATTATTTAACAT
109564088 AATATTATTTTATAACAT
1 AATATTA--TT-TAACAT
109564106 AATATT
1 AATATT
109564112 TAGATTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 9 0.30
14 6 0.20
15 2 0.07
17 1 0.03
18 12 0.40
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTATTTAACAT
Found at i:109577449 original size:27 final size:29
Alignment explanation
Indices: 109577407--109577461 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
109577397 TTTGTAAAGC
*
109577407 AGGGGACAAAATTGTAAAATA-AAAAAAT
1 AGGGGACAAAACTGTAAAATATAAAAAAT
109577435 AGGGG-CAAAACTGTAAAATATAAAAAA
1 AGGGGACAAAACTGTAAAATATAAAAAA
109577462 ATTGGGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.60, C:0.05, G:0.18, T:0.16
Consensus pattern (29 bp):
AGGGGACAAAACTGTAAAATATAAAAAAT
Found at i:109582887 original size:24 final size:24
Alignment explanation
Indices: 109582839--109582887 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
109582829 TAACCAATAT
*
109582839 TTTTTAATATATATATTTTATGAA
1 TTTTTAATATATATATTTGATGAA
*
109582863 TTTTTAATA-ATTTATTTGATCGAA
1 TTTTTAATATATATATTTGAT-GAA
109582887 T
1 T
109582888 AAGAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (24 bp):
TTTTTAATATATATATTTGATGAA
Found at i:109586278 original size:24 final size:24
Alignment explanation
Indices: 109586251--109586296 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
109586241 AGTCAAATAA
* *
109586251 ATTATGCTAATAAATGCTAAATGT
1 ATTATACTAATAAATACTAAATGT
109586275 ATTATACTAATAAATACTAAAT
1 ATTATACTAATAAATACTAAAT
109586297 CTTCTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (24 bp):
ATTATACTAATAAATACTAAATGT
Found at i:109601427 original size:19 final size:19
Alignment explanation
Indices: 109601391--109601427 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
109601381 TAACTAGGCT
* *
109601391 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
109601410 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
109601428 GAAAAATGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:109601928 original size:31 final size:32
Alignment explanation
Indices: 109601879--109601942 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
109601869 ATATTAAATA
*
109601879 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
109601910 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
109601942 A
1 A
109601943 CAAATGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:109601992 original size:142 final size:140
Alignment explanation
Indices: 109601739--109602032 Score: 310
Period size: 142 Copynumber: 2.1 Consensus size: 140
109601729 AGAACAAAAT
* * *
109601739 ATATTTATTAATTAAATAATTAAATAATGAGATTTTTGTTTGATAAATAAATTAAATAATGACAA
1 ATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAATGACAA
* * * * * * ** * * *
109601804 TTGCAATAAATTTATTGGTACAAATGTGAAAGTATAAGTGTGTACAATTGTAATATTAATATTTG
66 ATGCAATAAATTTAGTGGTAC-AATGTGAAAATACAAATGTATACAAAAGTAAAATAAATA-TTA
109601869 A-TATTAAATAAG
129 ATTATTAAAT-AG
* * * *
109601881 ATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATATATTAAATTATGACAA
1 ATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAATGACAA
*
109601946 ATGTATAGTAAAATTT-GT-G-AC-ATGTGTAATAATACAAATGTATACAAAAGTAAAATAAATA
66 ATGCA-A-T-AAATTTAGTGGTACAATGTG-AA-AATACAAATGTATACAAAAGTAAAATAAATA
109602007 TTAATTATTAAATAG
126 TTAATTATTAAATAG
109602022 ATATTTATTAA
1 ATATTTATTAA
109602033 CTTATTATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
140 5 0.04
141 18 0.14
142 94 0.74
143 2 0.02
144 2 0.02
145 6 0.05
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (140 bp):
ATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAATGACAA
ATGCAATAAATTTAGTGGTACAATGTGAAAATACAAATGTATACAAAAGTAAAATAAATATTAAT
TATTAAATAG
Found at i:109602534 original size:23 final size:21
Alignment explanation
Indices: 109602486--109602526 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
109602476 TTTGGAAAAA
109602486 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
109602508 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
109602527 AGTGAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Done.