Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 69 of 74
Found at i:13591400 original size:23 final size:23
Alignment explanation
Indices: 13591374--13591426 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
13591364 GTTATGGAAA
13591374 AGCTTGACTTTTTTAAGTGTGGG
1 AGCTTGACTTTTTTAAGTGTGGG
** *
13591397 AGCTTAGGGTTTTTTAGGTGTGGG
1 AGCTT-GACTTTTTTAAGTGTGGG
13591421 AGCTTG
1 AGCTTG
13591427 GGGTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.15, C:0.08, G:0.36, T:0.42
Consensus pattern (23 bp):
AGCTTGACTTTTTTAAGTGTGGG
Found at i:13591417 original size:24 final size:24
Alignment explanation
Indices: 13591382--13591458 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
13591372 AAAGCTTGAC
*
13591382 TTTTTTAAGTGTGGGAGCTTAGGG
1 TTTTTTAGGTGTGGGAGCTTAGGG
*
13591406 TTTTTTAGGTGTGGGAGCTTGGGG
1 TTTTTTAGGTGTGGGAGCTTAGGG
*
13591430 TTTTTTAGGCGTGGAAGAGC-TAGGG
1 TTTTTTAGGTGTGG--GAGCTTAGGG
13591455 TTTT
1 TTTT
13591459 AGTGTGTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
24 35 0.74
25 8 0.17
26 4 0.09
ACGTcount: A:0.14, C:0.05, G:0.39, T:0.42
Consensus pattern (24 bp):
TTTTTTAGGTGTGGGAGCTTAGGG
Found at i:13592662 original size:25 final size:24
Alignment explanation
Indices: 13592612--13592687 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
13592602 ATTTCTTTTT
*
13592612 ATTAAAATAGATCAAAAAATTAAA
1 ATTAAAATAAATCAAAAAATTAAA
* *
13592636 ATTAAAACTAAATTAAAAAATTTAA
1 ATTAAAA-TAAATCAAAAAATTAAA
* *
13592661 ATCAAATTACAATTC--AAAATTAAA
1 ATTAAAATA-AA-TCAAAAAATTAAA
13592685 ATT
1 ATT
13592688 TTGAATTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
24 19 0.46
25 21 0.51
26 1 0.02
ACGTcount: A:0.62, C:0.07, G:0.01, T:0.30
Consensus pattern (24 bp):
ATTAAAATAAATCAAAAAATTAAA
Found at i:13598258 original size:63 final size:63
Alignment explanation
Indices: 13598141--13598323 Score: 176
Period size: 64 Copynumber: 2.9 Consensus size: 63
13598131 CAATAATTTT
* *
13598141 AATTTTTTGTAAGAGATTATTCAAAGTGTTTTTGACAAAAA-ATGCTTTCAATAAT-TC-CTTCC
1 AATTTTTTGTAAGA-ATTATTGAAAGTGTTTTTGACAAAAACA--CCTTCAATAATCTCTC-TCC
13598203 AA
62 AA
* * * * *
13598205 ATTTTTTTGTACGAATTATTGAAGGCGTTTTTGATCAAAAACACCTTCTATAATCTCTCTCCAA
1 AATTTTTTGTAAGAATTATTGAAAGTGTTTTTGA-CAAAAACACCTTCAATAATCTCTCTCCAA
* * * *
13598269 AATTTTTTG-AATGGATTATTGAATGTGTTTTTGGCTAAAAACACCTTGAATAATC
1 AATTTTTTGTAA-GAATTATTGAAAGTGTTTTTGAC-AAAAACACCTTCAATAATC
13598324 CCTTAATAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
63 28 0.29
64 68 0.69
65 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (63 bp):
AATTTTTTGTAAGAATTATTGAAAGTGTTTTTGACAAAAACACCTTCAATAATCTCTCTCCAA
Found at i:13598763 original size:65 final size:63
Alignment explanation
Indices: 13598667--13598842 Score: 163
Period size: 65 Copynumber: 2.7 Consensus size: 63
13598657 TGAAGGTGTT
* *** *
13598667 TTGAAGGTGTTTTTGTACCAAAAATGGCTTCAATAATTCATTCAAAAAATTTTAGAGAAGGATTA
1 TTGAAGGTGTTTTTG-GCCAAAAACACCTTCAATAATTCATTCAAAAAATTTTAGA-AAGAATTA
* * * * * *
13598732 TTGAAGGTGTTTTTGGCCGAAAAACACCTTCAATAATCCTTCTCTAAAATTTTTTGAATGAATTA
1 TTGAAGGTGTTTTTGGCC-AAAAACACCTTCAATAATTCAT-TCAAAAAATTTTAGAAAGAATTA
*** *
13598797 TTGAAGCCATTTTTGGTACAAAAACACCTTCAATAATCTCATTCAA
1 TTGAAGGTGTTTTTGG-CCAAAAACACCTTCAATAAT-TCATTCAA
13598843 TTTTTTGTAA
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
64 2 0.02
65 72 0.81
66 15 0.17
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (63 bp):
TTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATTCATTCAAAAAATTTTAGAAAGAATTA
Found at i:13602646 original size:7 final size:7
Alignment explanation
Indices: 13602634--13602675 Score: 75
Period size: 7 Copynumber: 5.9 Consensus size: 7
13602624 AATTGGAGAA
13602634 AAAAATC
1 AAAAATC
13602641 AAAAATC
1 AAAAATC
13602648 AAAAAATC
1 -AAAAATC
13602656 AAAAATC
1 AAAAATC
13602663 AAAAATC
1 AAAAATC
13602670 AAAAAT
1 AAAAAT
13602676 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATC
Found at i:13602653 original size:15 final size:15
Alignment explanation
Indices: 13602633--13602675 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
13602623 CAATTGGAGA
13602633 AAAAAATCAAAAATC
1 AAAAAATCAAAAATC
13602648 AAAAAATCAAAAATC
1 AAAAAATCAAAAATC
13602663 -AAAAATCAAAAAT
1 AAAAAATCAAAAAT
13602676 AAAGAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAATCAAAAATC
Found at i:13604777 original size:90 final size:87
Alignment explanation
Indices: 13604655--13604824 Score: 205
Period size: 90 Copynumber: 1.9 Consensus size: 87
13604645 ATCGATAAGA
* * * * * * *
13604655 TTTAAATTTAATTTAATTAGTATTGATGAGATTTAAGTATAGTTTAAATGACACCAATAAGATTT
1 TTTAAATTCAATTTAACTAGCATCGATAAGATTTAAGTATAATTTAAATCACACC-A-AA-ATTT
13604720 AAATCTAATTTAACTGGTATTAAAT
63 AAATCTAATTTAACTGGTATTAAAT
* * * *
13604745 TTTAAATTCAATTTAACTAGCATCGATAAGATTTAAGTCTAATTTAATTCACATCAAATTTTAAA
1 TTTAAATTCAATTTAACTAGCATCGATAAGATTTAAGTATAATTTAAATCACACCAAAATTTAAA
*
13604810 TCTAATTTAATTGGT
66 TCTAATTTAACTGGT
13604825 GCTTTAAACT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
87 20 0.29
88 2 0.03
89 1 0.01
90 45 0.66
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (87 bp):
TTTAAATTCAATTTAACTAGCATCGATAAGATTTAAGTATAATTTAAATCACACCAAAATTTAAA
TCTAATTTAACTGGTATTAAAT
Found at i:13604789 original size:31 final size:31
Alignment explanation
Indices: 13604643--13604819 Score: 104
Period size: 31 Copynumber: 5.9 Consensus size: 31
13604633 CAGTTTTACT
* *
13604643 GCATCGATAAGATTTAAATTTAATTTAATTA
1 GCATCGATAAGATTTAAATCTAATTTAACTA
* * * * * * *
13604674 GTATTGATGAGATTTAAGTATAGTTTAAAT-
1 GCATCGATAAGATTTAAATCTAATTTAACTA
* * *
13604704 GACACCAATAAGATTTAAATCTAATTTAACTG
1 G-CATCGATAAGATTTAAATCTAATTTAACTA
*
13604736 GTAT---TAA-ATTTTAAAT-TCAATTTAACTA
1 GCATCGATAAGA-TTTAAATCT-AATTTAACTA
* *
13604764 GCATCGATAAGATTTAAGTCTAATTTAATTCA
1 GCATCGATAAGATTTAAATCTAATTTAACT-A
*
13604796 -CATC-A-AA-TTTTAAATCTAATTTAA
1 GCATCGATAAGATTTAAATCTAATTTAA
13604820 TTGGTGCTTT
Statistics
Matches: 112, Mismatches: 24, Indels: 23
0.70 0.15 0.14
Matches are distributed among these distances:
27 2 0.02
28 37 0.33
29 2 0.02
30 2 0.02
31 65 0.58
32 4 0.04
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (31 bp):
GCATCGATAAGATTTAAATCTAATTTAACTA
Found at i:13605634 original size:20 final size:18
Alignment explanation
Indices: 13605598--13605666 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 18
13605588 GGGATAAAAA
*
13605598 TTATTTTTTTTAA-TATT
1 TTATTATTTTTAATTATT
13605615 TTATTATTTTTATACTTATT
1 TTATTATTTTTA-A-TTATT
*
13605635 TTTTTAATATTTTAATTATT
1 TTATT-AT-TTTTAATTATT
*
13605655 TATAGTATTTTT
1 T-TATTATTTTT
13605667 CATTTCAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 11 0.26
18 1 0.02
19 4 0.10
20 16 0.38
21 5 0.12
22 5 0.12
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (18 bp):
TTATTATTTTTAATTATT
Found at i:13609331 original size:2 final size:2
Alignment explanation
Indices: 13609324--13609348 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13609314 CTCAAGTGCG
13609324 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13609349 TTATGGGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13609779 original size:2 final size:2
Alignment explanation
Indices: 13609772--13609808 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13609762 TCATGTTTTC
13609772 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13609809 AGAATAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13610770 original size:2 final size:2
Alignment explanation
Indices: 13610763--13610802 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
13610753 AGTTTCCACA
* *
13610763 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13610803 CTAAAGAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:13612217 original size:2 final size:2
Alignment explanation
Indices: 13612210--13612244 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13612200 ATTAGGGCCT
13612210 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13612245 CTTGACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13614509 original size:2 final size:2
Alignment explanation
Indices: 13614504--13614539 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13614494 ACACACACAC
13614504 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
13614540 GATCTTGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13614752 original size:22 final size:21
Alignment explanation
Indices: 13614727--13614767 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
13614717 TTTAATAATT
13614727 TTAAAATGAATATAAAAATTAA
1 TTAAAATGAAT-TAAAAATTAA
*
13614749 TTAAAATTAATTAAAAATT
1 TTAAAATGAATTAAAAATT
13614768 TTGAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TTAAAATGAATTAAAAATTAA
Found at i:13614753 original size:11 final size:11
Alignment explanation
Indices: 13614729--13614767 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
13614719 TAATAATTTT
*
13614729 AAAATGAATATA
1 AAAATTAAT-TA
13614741 AAAATTAATT-
1 AAAATTAATTA
13614751 AAAATTAATTA
1 AAAATTAATTA
13614762 AAAATT
1 AAAATT
13614768 TTGAGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 10 0.40
11 7 0.28
12 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:13616301 original size:13 final size:14
Alignment explanation
Indices: 13616285--13616325 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
13616275 AGAAAATTTT
13616285 GTGAAAAA-AAAAA
1 GTGAAAAATAAAAA
13616298 GTGAAATAATAAAAA
1 GTGAAA-AATAAAAA
*
13616313 AT-AAAAATAAAAA
1 GTGAAAAATAAAAA
13616326 CAAAAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 14 0.56
14 5 0.20
15 6 0.24
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.15
Consensus pattern (14 bp):
GTGAAAAATAAAAA
Found at i:13616904 original size:170 final size:169
Alignment explanation
Indices: 13616569--13616907 Score: 617
Period size: 169 Copynumber: 2.0 Consensus size: 169
13616559 TTGTTTAAAA
* *
13616569 AATATATTTTAATAAGTGATCAATTACACCTAATAAAAAAATATGGATGACAATTTTTTTTTAAA
1 AATATATTTTAATAAGTGATCAATCACACCTAATAAAAAAATATGGAAGACAATTTTTTTTTAAA
*
13616634 TTCATCTAATGATCACAAAACTATTATCACAATATAACTATTAGTTAATTATGAATCAAATTCAA
66 TTCATCTAATGATCACAAAACTATTATAACAATATAACTATTAGTTAATTATGAATCAAATTCAA
13616699 ATTAAATGAATTTGACTATTAATCAACTTAAAAATTCAT
131 ATTAAATGAATTTGACTATTAATCAACTTAAAAATTCAT
13616738 AATATATTTTAATAAGTGATCAATCACACCTAATAAAAAAATATGGAAGA-AATTTTTTTTTTAA
1 AATATATTTTAATAAGTGATCAATCACACCTAATAAAAAAATATGGAAGACAA-TTTTTTTTTAA
*
13616802 ATTCATCTAATGGTCACAAAACTATTATAACAATATTAACTATTAGTTAATTATGAATCAAATTC
65 ATTCATCTAATGATCACAAAACTATTATAACAATA-TAACTATTAGTTAATTATGAATCAAATTC
13616867 AAATTAAATGAATTTGACTATTAATCAACTTAAAAATTCAT
129 AAATTAAATGAATTTGACTATTAATCAACTTAAAAATTCAT
13616908 TAATTTATAA
Statistics
Matches: 164, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
168 2 0.01
169 92 0.56
170 70 0.43
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (169 bp):
AATATATTTTAATAAGTGATCAATCACACCTAATAAAAAAATATGGAAGACAATTTTTTTTTAAA
TTCATCTAATGATCACAAAACTATTATAACAATATAACTATTAGTTAATTATGAATCAAATTCAA
ATTAAATGAATTTGACTATTAATCAACTTAAAAATTCAT
Found at i:13618772 original size:21 final size:21
Alignment explanation
Indices: 13618748--13618804 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
13618738 GGGATTTTAG
13618748 TTTTAGGGTTTAGGGTTTTGA
1 TTTTAGGGTTTAGGGTTTTGA
* *
13618769 TTTTAGGGTTTAGGATTTTTA
1 TTTTAGGGTTTAGGGTTTTGA
*
13618790 TTTTAGGGCTTAGGG
1 TTTTAGGGTTTAGGG
13618805 CTTAGGGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.16, C:0.02, G:0.32, T:0.51
Consensus pattern (21 bp):
TTTTAGGGTTTAGGGTTTTGA
Found at i:13618849 original size:22 final size:22
Alignment explanation
Indices: 13618808--13618857 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
13618798 CTTAGGGCTT
* *
13618808 AGGGTTTTGATTTTAAGGTTTTG
1 AGGG-TTTAATTTTAAGGTTTAG
*
13618831 AGGGTTTAATTTTAGGGTTTAG
1 AGGGTTTAATTTTAAGGTTTAG
13618853 AGGGT
1 AGGGT
13618858 GTAGGGTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (22 bp):
AGGGTTTAATTTTAAGGTTTAG
Found at i:13618913 original size:50 final size:51
Alignment explanation
Indices: 13618758--13618924 Score: 144
Period size: 50 Copynumber: 3.3 Consensus size: 51
13618748 TTTTAGGGTT
* * * * * * *
13618758 TAGGGTTTTGATTTTAGGGTTT-AGGATTTTTATTTTAGGGCTTAG--GGCT
1 TAGGGTTTTGATTTTAGGGTTTGAGG-GTTTAAATTTAAGGTTTAGAAGACA
* * * * ***
13618807 TAGGGTTTTGATTTTAAGGTTTTGAGGGTTTAATTTTAGGGTTTAGAGGGTG
1 TAGGGTTTTGATTTT-AGGGTTTGAGGGTTTAAATTTAAGGTTTAGAAGACA
* *
13618859 TAGGGTTTCGATTTTAGGGTTTG-GGGTTTAAATTTAAGGTTTGGAAGACA
1 TAGGGTTTTGATTTTAGGGTTTGAGGGTTTAAATTTAAGGTTTAGAAGACA
13618909 TAGGGTTTTGATTTTA
1 TAGGGTTTTGATTTTA
13618925 AAACGCAAAC
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
49 15 0.15
50 57 0.58
51 10 0.10
52 16 0.16
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (51 bp):
TAGGGTTTTGATTTTAGGGTTTGAGGGTTTAAATTTAAGGTTTAGAAGACA
Found at i:13622177 original size:47 final size:47
Alignment explanation
Indices: 13622092--13622184 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 47
13622082 AGAGAAAACA
* * * *
13622092 TCTTGAATAATTCCCAAAAAAATTGAAGGGTATTATTCAAGGCATTT
1 TCTTAAATAATTCCCAAAAAAATTGAAAGATATGATTCAAGGCATTT
* *
13622139 TCTTAAATAA-TCCTAAAAGAAATTGAAAGATATGATTCAATGCATT
1 TCTTAAATAATTCCCAAAA-AAATTGAAAGATATGATTCAAGGCATT
13622185 ATTTGGCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 7 0.18
47 32 0.82
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (47 bp):
TCTTAAATAATTCCCAAAAAAATTGAAAGATATGATTCAAGGCATTT
Found at i:13622401 original size:61 final size:58
Alignment explanation
Indices: 13622144--13622391 Score: 230
Period size: 60 Copynumber: 4.2 Consensus size: 58
13622134 CATTTTCTTA
* * * * * *
13622144 AATAATCCTAAAAGAAATTGAAAGATATGATTCAATGCATTATTTGGC-AAAACACTTTA
1 AATAATCCCAAAA-AAATTGAAAGAGATTATTCAAGGCATT-TTTGGCAAAAACACCTTG
* * * * *
13622203 AATAATCCCAAAAAAATTAAAAGGGATTATTCATGGTATTTTTTGGTAAAAACACCTTG
1 AATAATCCCAAAAAAATTGAAAGAGATTATTCAAGGCA-TTTTTGGCAAAAACACCTTG
* * * **
13622262 AATAATCCTAAAAATAATTGAACA-AGATTATTTAAGGTATATTTTGGCAAAAACTTCTTG
1 AATAATCCCAAAAA-AATTGAA-AGAGATTATTCAAGGCAT-TTTTGGCAAAAACACCTTG
* * *
13622322 AATAATTGCCAAAAAAAATTGAATGAGATTATTCAAGGCATTTTCTGGCAAAAACGCCTTG
1 AATAA-T-CCCAAAAAAATTGAAAGAGATTATTCAAGGCATTTT-TGGCAAAAACACCTTG
13622383 AATAATCCC
1 AATAATCCC
13622392 TAGCAAAAAT
Statistics
Matches: 154, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
58 23 0.15
59 39 0.25
60 43 0.28
61 42 0.27
62 7 0.05
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (58 bp):
AATAATCCCAAAAAAATTGAAAGAGATTATTCAAGGCATTTTTGGCAAAAACACCTTG
Found at i:13622482 original size:125 final size:127
Alignment explanation
Indices: 13622330--13622570 Score: 344
Period size: 125 Copynumber: 1.9 Consensus size: 127
13622320 TGAATAATTG
*
13622330 CCAAAAAAAATTGAATGAGATTATTCAAGGCATTTTCTGGCAAAAACGCCTTGAATAATCCCTAG
1 CCAAAAAAAATTGAATGAGATTATTCAAGGCATTTTCTGGCAAAAACGCATTGAATAATCCCTAG
* * *
13622395 CAAAAATGCCTTAAGTAAT-C-TAAAAAAATTTGAATGAGATTATTCAAGGCATTTATAATC
66 CAAAAATGCCTTAAATAATCCAAAAAAAAAATTGAATGAGATTATTCAAGGCATTTATAATC
* ** * * * *
13622455 CCAAAATAAATTGAAGTGA-ATTATTCAAGGTGTTTTCTGGTAAAAATGCATTTAATAATCGCTA
1 CCAAAAAAAATTGAA-TGAGATTATTCAAGGCATTTTCTGGCAAAAACGCATTGAATAATCCCTA
*
13622519 GCAAAAATGCCTTAAATAATCCAAAAAAAAAATTGAATGGGATTATTCAAGG
65 GCAAAAATGCCTTAAATAATCCAAAAAAAAAATTGAATGAGATTATTCAAGG
13622571 TGTTCATTTA
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
125 71 0.70
126 4 0.04
127 26 0.26
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (127 bp):
CCAAAAAAAATTGAATGAGATTATTCAAGGCATTTTCTGGCAAAAACGCATTGAATAATCCCTAG
CAAAAATGCCTTAAATAATCCAAAAAAAAAATTGAATGAGATTATTCAAGGCATTTATAATC
Found at i:13622592 original size:72 final size:71
Alignment explanation
Indices: 13622503--13622641 Score: 206
Period size: 72 Copynumber: 1.9 Consensus size: 71
13622493 GGTAAAAATG
* * * * *
13622503 CATTTAATAATCGCTAGCAAAAATGCCTTAAATAATCCAAAAAAAAAATTGAATGGGATTATTCA
1 CATTTAATAATCCCTAGCAAAAAAGCCTTAAATAAT-CAAAAAAAAAATTAAAAGAGATTATTCA
13622568 AGGTGTT
65 AGGTGTT
* *
13622575 CATTTAATAATCCCTAGCAAAAAAGCCTTGAATAATCATAAAAAAAATTAAAAGAGATTATTCAA
1 CATTTAATAATCCCTAGCAAAAAAGCCTTAAATAATCAAAAAAAAAATTAAAAGAGATTATTCAA
13622640 GG
66 GG
13622642 CATTTTCTAG
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
71 27 0.45
72 33 0.55
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.27
Consensus pattern (71 bp):
CATTTAATAATCCCTAGCAAAAAAGCCTTAAATAATCAAAAAAAAAATTAAAAGAGATTATTCAA
GGTGTT
Found at i:13622682 original size:25 final size:25
Alignment explanation
Indices: 13622648--13622696 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
13622638 AAGGCATTTT
13622648 CTAGTAAAAATGACTTGAATAATCC
1 CTAGTAAAAATGACTTGAATAATCC
*
13622673 CTAGTAAAAATGCCTTGAATAATC
1 CTAGTAAAAATGACTTGAATAATC
13622697 TCAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (25 bp):
CTAGTAAAAATGACTTGAATAATCC
Found at i:13622838 original size:60 final size:60
Alignment explanation
Indices: 13622766--13622939 Score: 184
Period size: 60 Copynumber: 2.9 Consensus size: 60
13622756 TAATCTCAAA
* * *
13622766 AAAAAATT--ATAGGGGATTATTCAAGCGTTTTCTATTAAAAATACCTTGAATAATCT-TC
1 AAAAAATTGAATA-GGGATTATTCAAGCATTTTCTACTAAAAATACCTTGAATAATCTACC
*
13622824 AAAAAATTGAATA-GGATTATTTAAGGCATTTTCTAGC-AAAAA-AGCCTTGAATAAT-TACC
1 AAAAAATTGAATAGGGATTATTCAA-GCATTTTCTA-CTAAAAATA-CCTTGAATAATCTACC
* *
13622883 AAAAAAGTTGAA-AGAGATTATTCAAGATATTTTCTACTAAAAATACCTTGAATAATC
1 AAAAAA-TTGAATAGGGATTATTCAAG-CATTTTCTACTAAAAATACCTTGAATAATC
13622940 CCTAGCAAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 21
0.78 0.06 0.17
Matches are distributed among these distances:
58 20 0.21
59 35 0.36
60 41 0.42
61 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (60 bp):
AAAAAATTGAATAGGGATTATTCAAGCATTTTCTACTAAAAATACCTTGAATAATCTACC
Found at i:13622950 original size:85 final size:87
Alignment explanation
Indices: 13622856--13623028 Score: 212
Period size: 87 Copynumber: 2.0 Consensus size: 87
13622846 AAGGCATTTT
* **
13622856 CTAGCAAAAA-AGCCTTGAATAAT-TACCAAAAAA-GTTGAAAGAGATTATTCAA-GATATTTTC
1 CTAGCAAAAATA-CCTTGAATAATCCAAAAAAAAATGTTGAAAGAGATTATTCAATG-TATTTTC
* *
13622917 TACTAAAAA-TACCTTGAATAATCC
64 TA-GAAAAAGCACCTTGAATAATCC
* * *
13622941 CTAGCAAAAATACCTTGAATAATCCAAAAAAAAATTTTGAACGGGATTATTCAATGTATTTTCTA
1 CTAGCAAAAATACCTTGAATAATCCAAAAAAAAATGTTGAAAGAGATTATTCAATGTATTTTCTA
13623006 GAAAAAGCACCTTGAATAATCC
66 GAAAAAGCACCTTGAATAATCC
13623028 C
1 C
13623029 CAAAAAAATT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
85 21 0.28
86 13 0.17
87 40 0.53
88 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (87 bp):
CTAGCAAAAATACCTTGAATAATCCAAAAAAAAATGTTGAAAGAGATTATTCAATGTATTTTCTA
GAAAAAGCACCTTGAATAATCC
Found at i:13622974 original size:25 final size:25
Alignment explanation
Indices: 13622921--13622974 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
13622911 ATTTTCTACT
** **
13622921 AAAAATACCTTGAATAATCCCTAGC
1 AAAAATACCTTGAATAATCCAAAAA
13622946 AAAAATACCTTGAATAATCCAAAAA
1 AAAAATACCTTGAATAATCCAAAAA
13622971 AAAA
1 AAAA
13622975 TTTTGAACGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.20
Consensus pattern (25 bp):
AAAAATACCTTGAATAATCCAAAAA
Found at i:13623071 original size:147 final size:144
Alignment explanation
Indices: 13622802--13623086 Score: 319
Period size: 147 Copynumber: 2.0 Consensus size: 144
13622792 GTTTTCTATT
*** * *
13622802 AAAAATACCTTGAATAATCTTCAAAAAATTGAATAGGATTATTTAAGGCATTTTCTAGCAAAAAA
1 AAAAATACCTTGAATAATCAAAAAAAAATTGAACAGGATTATTCAAGGCATTTTCTAGCAAAAAA
* * * * *
13622867 GCCTTGAATAATTACCAAAAAAGTTGAAAGAGATTATTCAAGATATTTTCTACTAAAAATACCTT
66 GCCTTGAATAATCACCAAAAAAATTGAAAGAGATTATTCAAGATATTTCCGACTAAAAACACCTT
13622932 GAATAATCCCTAGC
131 GAATAATCCCTAGC
* * *
13622946 AAAAATACCTTGAATAATCCAAAAAAAAATTTTGAACGGGATTATTCAATGTATTTTCTAG--AA
1 AAAAATACCTTGAATAAT-CAAAAAAAAA--TTGAACAGGATTATTCAAGGCATTTTCTAGCAAA
* * *
13623009 AAAGCACCTTGAATAATCCCCAAAAAAATTGAAATG-GATTATTTAAGGCT-TTCTCCGA-TAAA
63 AAAG--CCTTGAATAATCACCAAAAAAATTGAAA-GAGATTATTCAA-GATATT-TCCGACTAAA
13623071 AACACCTTGAATAATC
123 AACACCTTGAATAATC
13623087 TCCAAAAAAA
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
144 18 0.15
145 13 0.11
147 80 0.68
148 6 0.05
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (144 bp):
AAAAATACCTTGAATAATCAAAAAAAAATTGAACAGGATTATTCAAGGCATTTTCTAGCAAAAAA
GCCTTGAATAATCACCAAAAAAATTGAAAGAGATTATTCAAGATATTTCCGACTAAAAACACCTT
GAATAATCCCTAGC
Found at i:13623098 original size:268 final size:266
Alignment explanation
Indices: 13622588--13623095 Score: 611
Period size: 268 Copynumber: 1.9 Consensus size: 266
13622578 TTAATAATCC
* * *
13622588 CTAGCAAAAAAGCCTTGAATAATCATAAAAAAAATTAAAAGAGATTATTCAAGGCATTTTCTAGT
1 CTAGCAAAAAAGCCTTGAATAATCACAAAAAAAATTAAAAGAGATTATTCAAGACATTTTCTACT
* *
13622653 AAAAATGACTTGAATAATCCCTAGTAAAAATGCCTTGAATAATCTCAAAAAAATTTGAACAAGAT
66 AAAAATGACTTGAATAATCCCTAGCAAAAATACCTTGAATAATCTCAAAAAAATTTGAACAAGAT
* * * * * * *
13622718 TATTCAAGGCATTTTTTTTTTGGTGAAAACGCCTTAAATAATCTCAAAAAAAAATTATAGGGGAT
131 TATTCAA-G-ATGTATTTTCTAGTAAAAACACCTTAAATAATCTCAAAAAAAAATTATAAGGGAT
* * *
13622783 TATTCAAGCGTTTTCTATTAAAAATACCTTGAATAATCTTCAAAAAATTGAATAGGATTATTTAA
194 TATTCAAGCGTTTTCGATTAAAAACACCTTGAATAATCTCCAAAAAATTGAATAGGATTATTTAA
13622848 GGCATTTT
259 GGCATTTT
* * * * *
13622856 CTAGCAAAAAAGCCTTGAATAATTACCAAAAAAGTTGAAAGAGATTATTCAAGATATTTTCTACT
1 CTAGCAAAAAAGCCTTGAATAATCACAAAAAAAATTAAAAGAGATTATTCAAGACATTTTCTACT
*
13622921 AAAAAT-ACCTTGAATAATCCCTAGCAAAAATACCTTGAATAATC-CAAAAAAAAATTTTGAACG
66 AAAAATGA-CTTGAATAATCCCTAGCAAAAATACCTTGAATAATCTC--AAAAAAA-TTTGAACA
* * ** *
13622984 GGATTATTC-A-ATGTATTTTCTAG-AAAAAGCACCTTGAATAATC-CCCAAAAAAATTGA-AAT
127 AGATTATTCAAGATGTATTTTCTAGTAAAAA-CACCTTAAATAATCTCAAAAAAAAATT-ATAAG
*
13623044 GGATTATTTAAG-GCTTTCTCCGA-TAAAAACACCTTGAATAATCTCCAAAAAA
190 GGATTATTCAAGCG-TTT-T-CGATTAAAAACACCTTGAATAATCTCCAAAAAA
13623096 AATAAATGAA
Statistics
Matches: 204, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
264 1 0.00
265 29 0.14
266 50 0.25
267 4 0.02
268 97 0.48
269 8 0.04
270 15 0.07
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (266 bp):
CTAGCAAAAAAGCCTTGAATAATCACAAAAAAAATTAAAAGAGATTATTCAAGACATTTTCTACT
AAAAATGACTTGAATAATCCCTAGCAAAAATACCTTGAATAATCTCAAAAAAATTTGAACAAGAT
TATTCAAGATGTATTTTCTAGTAAAAACACCTTAAATAATCTCAAAAAAAAATTATAAGGGATTA
TTCAAGCGTTTTCGATTAAAAACACCTTGAATAATCTCCAAAAAATTGAATAGGATTATTTAAGG
CATTTT
Found at i:13623132 original size:60 final size:59
Alignment explanation
Indices: 13623006--13623117 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 59
13622996 GTATTTTCTA
* * * *
13623006 GAAAAAGCACCTTGAATAATCCCCAAAAAAATTGAAATGGATTATTTAAGGCTTTCTCC
1 GAAAAAACACCTTGAATAATCCCCAAAAAAAATGAAATGAATTATTCAAGGCTTTCTCC
*
13623065 GATAAAAACACCTTGAATAATCTCCAAAAAAAAT-AAATGAAATTATTCAAGGC
1 GA-AAAAACACCTTGAATAATCCCCAAAAAAAATGAAATG-AATTATTCAAGGC
13623118 ATTTTTGTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
59 7 0.15
60 39 0.85
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (59 bp):
GAAAAAACACCTTGAATAATCCCCAAAAAAAATGAAATGAATTATTCAAGGCTTTCTCC
Found at i:13623550 original size:18 final size:19
Alignment explanation
Indices: 13623518--13623553 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13623508 TATTGCTAAC
13623518 CACTACATTGCTTGACTTT
1 CACTACATTGCTTGACTTT
*
13623537 CACTA-ATTGTTTGACTT
1 CACTACATTGCTTGACTT
13623554 CAAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (19 bp):
CACTACATTGCTTGACTTT
Found at i:13624708 original size:9 final size:9
Alignment explanation
Indices: 13624694--13624718 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13624684 TAATCGAGCG
13624694 AGCTCGAGT
1 AGCTCGAGT
13624703 AGCTCGAGT
1 AGCTCGAGT
13624712 AGCTCGA
1 AGCTCGA
13624719 ATTCGATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (9 bp):
AGCTCGAGT
Found at i:13626094 original size:18 final size:19
Alignment explanation
Indices: 13626061--13626097 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
13626051 ATATATATTG
13626061 ATATTTTAATAATTAAAAT
1 ATATTTTAATAATTAAAAT
13626080 ATATTTTAA-AATTAAAAT
1 ATATTTTAATAATTAAAAT
13626098 TAAATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTTTAATAATTAAAAT
Found at i:13626602 original size:59 final size:59
Alignment explanation
Indices: 13626467--13626615 Score: 149
Period size: 59 Copynumber: 2.5 Consensus size: 59
13626457 CTGGAGAAAA
* * * **
13626467 AGAAAACACCTTGAATAATCTTTAAAAAAGAATTGAAGGGTATTATTCAAGATGTTTTCTAG
1 AGAAAACACATTGAATAA--TTTCAAAAA-AATTGAAAGGTATTATTCAAGACATTTTCTAG
** * * *
13626529 AGAAAATGCTTTGAATAATTTCAAAAAAATTGAAAGGTATTATTCAAGGCATTTTCTGG
1 AGAAAACACATTGAATAATTTCAAAAAAATTGAAAGGTATTATTCAAGACATTTTCTAG
*
13626588 CA-AAAACACATTGAATAA-TCCAAAAAAA
1 -AGAAAACACATTGAATAATTTCAAAAAAA
13626616 AAATTAAACG
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
58 9 0.12
59 40 0.55
60 9 0.12
62 15 0.21
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (59 bp):
AGAAAACACATTGAATAATTTCAAAAAAATTGAAAGGTATTATTCAAGACATTTTCTAG
Found at i:13636049 original size:20 final size:17
Alignment explanation
Indices: 13636014--13636046 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
13636004 GCACGAGTAA
13636014 TAATTATATATATAATT
1 TAATTATATATATAATT
13636031 TAATTATA-ATATAATT
1 TAATTATATATATAATT
13636047 AATAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTATATATATAATT
Found at i:13641358 original size:43 final size:44
Alignment explanation
Indices: 13641296--13641382 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 44
13641286 ATTCTGTAAG
**
13641296 AAATAAAAAAAAGCTCACATATAACACGTATTTATCCCCCAAAC
1 AAATAAAAAAAAGCTCACATATAACAAATATTTATCCCCCAAAC
13641340 AAAT-AAAAAAAGCTCACATATAACAAATATTTATCCCCCAAAC
1 AAATAAAAAAAAGCTCACATATAACAAATATTTATCCCCCAAAC
13641383 TGCTTTCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 37 0.90
44 4 0.10
ACGTcount: A:0.52, C:0.24, G:0.03, T:0.21
Consensus pattern (44 bp):
AAATAAAAAAAAGCTCACATATAACAAATATTTATCCCCCAAAC
Found at i:13642916 original size:22 final size:22
Alignment explanation
Indices: 13642890--13642945 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
13642880 GGGGTTTTAG
13642890 GTTTTGAATTTTAAAAATTAAA
1 GTTTTGAATTTTAAAAATTAAA
13642912 GTTTTGAATTTTAAAAATTAAA
1 GTTTTGAATTTTAAAAATTAAA
13642934 GTTTTGAATTTT
1 GTTTTGAATTTT
13642946 GGATTTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
GTTTTGAATTTTAAAAATTAAA
Found at i:13642993 original size:22 final size:22
Alignment explanation
Indices: 13642967--13643010 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13642957 TTTTGGTTCG
*
13642967 GGTTTTAAGGGTTTG-AAGGTTT
1 GGTTTTAA-GATTTGAAAGGTTT
13642989 GGTTTTAAGATTTGAAAGGTTT
1 GGTTTTAAGATTTGAAAGGTTT
13643011 AGGGTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (22 bp):
GGTTTTAAGATTTGAAAGGTTT
Found at i:13643016 original size:29 final size:29
Alignment explanation
Indices: 13642984--13643273 Score: 112
Period size: 30 Copynumber: 9.6 Consensus size: 29
13642974 AGGGTTTGAA
* *
13642984 GGTTTGGTTTTAAGATTTGAAAGGTTTAG
1 GGTTTGATTTTAAGGTTTGAAAGGTTTAG
* *
13643013 GGTTTTGATTTTAGGGTTTAAAAGGTTTTAAG
1 GG-TTTGATTTTAAGGTTTGAAAGG-TTT-AG
** * *
13643045 ATTTTGATTTT-AGGATTCAAAGGGTTTAG
1 GGTTTGATTTTAAGGTTTGAAA-GGTTTAG
* * *
13643074 TGTTTTGATTTT-AGAGTTTGGAGGGTTTAG
1 -GGTTTGATTTTAAG-GTTTGAAAGGTTTAG
* *
13643104 AGTTTTGATTTT-AGAATTT-AAAGGGTTTTAG
1 -GGTTTGATTTTAAG-GTTTGAAA-GG-TTTAG
** * *
13643135 GGTTTAAAGGGTTTATGGTTTGGAAGGTTTAG
1 GGTTT---GATTTTAAGGTTTGAAAGGTTTAG
* * *
13643167 AGCTTT-AGTTTTAGGGTTTG-GAGGATTTAAG
1 -GGTTTGA-TTTTAAGGTTTGAAAGG-TTT-AG
* *
13643198 GTTTTGATTTTAAGGTTTGGAAGGTTTAG
1 GGTTTGATTTTAAGGTTTGAAAGGTTTAG
* *
13643227 GGTTT-AGTTTTAGGGTTT-AGAGGGTTTAG
1 GGTTTGA-TTTTAAGGTTTGA-AAGGTTTAG
*
13643256 GGTTT-AGTTTTAGGGTTT
1 GGTTTGA-TTTTAAGGTTT
13643274 TGATTTTAAG
Statistics
Matches: 204, Mismatches: 36, Indels: 42
0.72 0.13 0.15
Matches are distributed among these distances:
28 1 0.00
29 50 0.25
30 101 0.50
31 29 0.14
32 7 0.03
33 13 0.06
34 3 0.01
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (29 bp):
GGTTTGATTTTAAGGTTTGAAAGGTTTAG
Found at i:13643025 original size:30 final size:30
Alignment explanation
Indices: 13642986--13643231 Score: 126
Period size: 30 Copynumber: 8.1 Consensus size: 30
13642976 GGTTTGAAGG
*
13642986 TTTGGTTTTAAGATTTGAAAGGTTTAGGGT
1 TTTGATTTTAAGATTTGAAAGGTTTAGGGT
* * * * *
13643016 TTTGATTTTAGGGTTTAAAAGGTTTTAAGAT
1 TTTGATTTTAAGATTTGAAAGG-TTTAGGGT
* * *
13643047 TTTGATTTTAGGA-TTCAAAGGGTTTAGTGT
1 TTTGATTTTAAGATTTGAAA-GGTTTAGGGT
* * *
13643077 TTTGATTTT-AGAGTTTGGAGGGTTTAGAGT
1 TTTGATTTTAAGA-TTTGAAAGGTTTAGGGT
13643107 TTTGATTTT-AGAATTT-AAAGGGTTTTAGGGT
1 TTTGATTTTAAG-ATTTGAAA-GG-TTTAGGGT
* ** * * * * *
13643138 TTAAAGGGTTTATGGTTTGGAAGGTTTAGAGC
1 TT--TGATTTTAAGATTTGAAAGGTTTAGGGT
* * * *
13643170 TTT-AGTTTTAGGGTTTG-GAGGATTTAAGGT
1 TTTGA-TTTTAAGATTTGAAAGG-TTTAGGGT
* *
13643200 TTTGATTTTAAGGTTTGGAAGGTTTAGGGT
1 TTTGATTTTAAGATTTGAAAGGTTTAGGGT
13643230 TT
1 TT
13643232 AGTTTTAGGG
Statistics
Matches: 163, Mismatches: 38, Indels: 30
0.71 0.16 0.13
Matches are distributed among these distances:
29 6 0.04
30 100 0.61
31 37 0.23
32 8 0.05
33 9 0.06
34 3 0.02
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (30 bp):
TTTGATTTTAAGATTTGAAAGGTTTAGGGT
Found at i:13643079 original size:61 final size:60
Alignment explanation
Indices: 13643006--13643139 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 60
13642996 AGATTTGAAA
* * *
13643006 GGTTTAGGGTTTTGATTTTAGGGTTTAAAAGGTTTTA-AGATTTTGATTTTAGGATTCAAAG
1 GGTTTAGGGTTTTGATTTTAGAGTTT-AAAGGGTTTAGAG-TTTTGATTTTAGAATTCAAAG
* ** *
13643067 GGTTTAGTGTTTTGATTTTAGAGTTTGGAGGGTTTAGAGTTTTGATTTTAGAATTTAAAG
1 GGTTTAGGGTTTTGATTTTAGAGTTTAAAGGGTTTAGAGTTTTGATTTTAGAATTCAAAG
13643127 GGTTTTAGGGTTT
1 GG-TTTAGGGTTT
13643140 AAAGGGTTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 28 0.44
61 35 0.56
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (60 bp):
GGTTTAGGGTTTTGATTTTAGAGTTTAAAGGGTTTAGAGTTTTGATTTTAGAATTCAAAG
Found at i:13643092 original size:14 final size:14
Alignment explanation
Indices: 13643069--13643118 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
13643059 ATTCAAAGGG
*
13643069 TTTAGTGTTTTGAT
1 TTTAGAGTTTTGAT
* *
13643083 TTTAGAGTTTGGAGGG
1 TTTAGAGTTTTGA--T
13643099 TTTAGAGTTTTGAT
1 TTTAGAGTTTTGAT
13643113 TTTAGA
1 TTTAGA
13643119 ATTTAAAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 17 0.59
16 12 0.41
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TTTAGAGTTTTGAT
Found at i:13643134 original size:17 final size:17
Alignment explanation
Indices: 13643112--13643148 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13643102 AGAGTTTTGA
13643112 TTTTAGAATTTAAAGGG
1 TTTTAGAATTTAAAGGG
**
13643129 TTTTAGGGTTTAAAGGG
1 TTTTAGAATTTAAAGGG
13643146 TTT
1 TTT
13643149 ATGGTTTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (17 bp):
TTTTAGAATTTAAAGGG
Found at i:13643200 original size:16 final size:15
Alignment explanation
Indices: 13643144--13643303 Score: 57
Period size: 16 Copynumber: 10.8 Consensus size: 15
13643134 GGGTTTAAAG
*
13643144 GGTTTATGGTTTGGAA
1 GGTTTAAGGTTTGG-A
*
13643160 GGTTTAGAGCTTT--A
1 GGTTTA-AGGTTTGGA
* *
13643174 GTTTTAGGGTTTGGA
1 GGTTTAAGGTTTGGA
*
13643189 GGATTTAAGGTTTTGA
1 GG-TTTAAGGTTTGGA
*
13643205 -TTTTAAGGTTTGGAA
1 GGTTTAAGGTTTGG-A
*
13643220 GGTTTAGGGTTT--A
1 GGTTTAAGGTTTGGA
* * *
13643233 GTTTTAGGGTTTAGA
1 GGTTTAAGGTTTGGA
*
13643248 GGGTTTAGGGTTT--A
1 -GGTTTAAGGTTTGGA
* * *
13643262 GTTTTAGGGTTTTGA
1 GGTTTAAGGTTTGGA
* * *
13643277 -TTTTAAGGGTTAGA
1 GGTTTAAGGTTTGGA
13643291 GGGTTTAAGGTTT
1 -GGTTTAAGGTTT
13643304 TGATTTTAGG
Statistics
Matches: 111, Mismatches: 20, Indels: 26
0.71 0.13 0.17
Matches are distributed among these distances:
13 27 0.24
14 29 0.26
15 5 0.05
16 46 0.41
17 4 0.04
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (15 bp):
GGTTTAAGGTTTGGA
Found at i:13643232 original size:7 final size:7
Alignment explanation
Indices: 13643220--13643365 Score: 71
Period size: 7 Copynumber: 20.0 Consensus size: 7
13643210 AGGTTTGGAA
13643220 GGTTTAG
1 GGTTTAG
13643227 GGTTTA-
1 GGTTTAG
*
13643233 GTTTTAG
1 GGTTTAG
13643240 GGTTTAGAG
1 GGTTT--AG
13643249 GGTTTAG
1 GGTTTAG
13643256 GGTTTA-
1 GGTTTAG
*
13643262 GTTTTAG
1 GGTTTAG
*
13643269 GGTTTTG
1 GGTTTAG
**
13643276 ATTTTAAG
1 GGTTT-AG
*
13643284 GGTTAGAG
1 GGTT-TAG
*
13643292 GGTTTAA
1 GGTTTAG
*
13643299 GGTTTTG
1 GGTTTAG
**
13643306 ATTTTAG
1 GGTTTAG
13643313 GGTTTAG
1 GGTTTAG
13643320 AAGGTTTAG
1 --GGTTTAG
*
13643329 GGTTTTG
1 GGTTTAG
**
13643336 ATTTTAGG
1 GGTTTA-G
*
13643344 GGTTAGAG
1 GGTT-TAG
13643352 GGTTTAG
1 GGTTTAG
*
13643359 GGCTTAG
1 GGTTTAG
13643366 TTTTTTTTTT
Statistics
Matches: 100, Mismatches: 29, Indels: 20
0.67 0.19 0.13
Matches are distributed among these distances:
6 10 0.10
7 58 0.58
8 17 0.17
9 15 0.15
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:13643244 original size:59 final size:59
Alignment explanation
Indices: 13643146--13643273 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
13643136 GTTTAAAGGG
* * *
13643146 TTTATGGTTTGGAAGGTTTAGAGCTTTAGTTTTAGGGTTTGGAGGATTTAAGGTTTTGAT
1 TTTAAGGTTTGGAAGGTTTAGAGCTTTAGTTTTAGGGTTTAGAGGATTTAAGGTTTAG-T
* * *
13643206 TTTAAGGTTTGGAAGGTTTAG-GGTTTAGTTTTAGGGTTTAGAGGGTTTAGGGTTTAGT
1 TTTAAGGTTTGGAAGGTTTAGAGCTTTAGTTTTAGGGTTTAGAGGATTTAAGGTTTAGT
*
13643264 TTTAGGGTTT
1 TTTAAGGTTT
13643274 TGATTTTAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 10 0.16
59 31 0.51
60 20 0.33
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.47
Consensus pattern (59 bp):
TTTAAGGTTTGGAAGGTTTAGAGCTTTAGTTTTAGGGTTTAGAGGATTTAAGGTTTAGT
Found at i:13643281 original size:43 final size:43
Alignment explanation
Indices: 13643222--13643319 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
13643212 GTTTGGAAGG
*
13643222 TTTAGGGTTTAGTTTT-AGGGTTTAGAGGGTTTAGGGTTTAG-T
1 TTTAGGGTTTAGTTTTAAGGG-TTAGAGGGTTTAAGGTTTAGAT
* *
13643264 TTTAGGGTTTTGATTTTAAGGGTTAGAGGGTTTAAGGTTTTGAT
1 TTTAGGGTTTAG-TTTTAAGGGTTAGAGGGTTTAAGGTTTAGAT
13643308 TTTAGGGTTTAG
1 TTTAGGGTTTAG
13643320 AAGGTTTAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 11 0.22
43 22 0.45
44 16 0.33
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (43 bp):
TTTAGGGTTTAGTTTTAAGGGTTAGAGGGTTTAAGGTTTAGAT
Found at i:13643305 original size:30 final size:30
Alignment explanation
Indices: 13643264--13643360 Score: 151
Period size: 30 Copynumber: 3.2 Consensus size: 30
13643254 AGGGTTTAGT
13643264 TTTAGGGTTTTGATTTTAAGGGTTAGAGGG
1 TTTAGGGTTTTGATTTTAAGGGTTAGAGGG
* *
13643294 TTTAAGGTTTTGATTTT-AGGGTTTAGAAGG
1 TTTAGGGTTTTGATTTTAAGGG-TTAGAGGG
*
13643324 TTTAGGGTTTTGATTTTAGGGGTTAGAGGG
1 TTTAGGGTTTTGATTTTAAGGGTTAGAGGG
13643354 TTTAGGG
1 TTTAGGG
13643361 CTTAGTTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
29 4 0.07
30 53 0.88
31 3 0.05
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (30 bp):
TTTAGGGTTTTGATTTTAAGGGTTAGAGGG
Found at i:13643687 original size:3 final size:3
Alignment explanation
Indices: 13643679--13643709 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13643669 TTATTTTACA
13643679 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13643710 TAACACGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13643805 original size:12 final size:12
Alignment explanation
Indices: 13643758--13643817 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
13643748 AAGTTTAAAA
*
13643758 ATCATTTTTATT
1 ATCATTATTATT
**
13643770 ATGGTTATTATT
1 ATCATTATTATT
13643782 ATCATTATTATT
1 ATCATTATTATT
* *
13643794 GTTATTATTATT
1 ATCATTATTATT
*
13643806 AATCACTATTAT
1 -ATCATTATTAT
13643818 GAAACAACAA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
12 29 0.78
13 8 0.22
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (12 bp):
ATCATTATTATT
Found at i:13648802 original size:23 final size:23
Alignment explanation
Indices: 13648750--13648802 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
13648740 TTAAGAGCTT
13648750 ACTTTGATCTAATAAAAGTATAAA
1 ACTTT-ATCTAATAAAAGTATAAA
*
13648774 AATTTATCTAA-ATAAAGTGAT-AA
1 ACTTTATCTAATA-AAAGT-ATAAA
13648797 ACTTTA
1 ACTTTA
13648803 AGGAAGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.04
23 18 0.72
24 6 0.24
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (23 bp):
ACTTTATCTAATAAAAGTATAAA
Found at i:13651738 original size:63 final size:65
Alignment explanation
Indices: 13651671--13651841 Score: 154
Period size: 64 Copynumber: 2.7 Consensus size: 65
13651661 TTTTTGTAAG
* *
13651671 GGATTATTTAAAGTATTTAT-GACCAAAAAAACCTTTAATAATCCC-CTCTAAAAGTTTTTGCAT
1 GGATTATTGAAAGTATTTATGGACCAAAAAAACCTTCAATAATCCCTCTCTAAAAGTTTTTGCAT
* * * * * ** * *
13651734 GGATTATTGAAGGTGTTTTTGGTCGAAAAACGCCTTCAATAATCCCTCTCTAAAATTTTTTGAAT
1 GGATTATTGAAAGTATTTATGGACCAAAAAAACCTTCAATAATCCCTCTCTAAAAGTTTTTGCAT
** * *
13651799 AAATTATTG-AAGCCATTTTTGG--CAAAAAACACCTTCAATAATC
1 GGATTATTGAAAG-TATTTATGGACCAAAAAA-ACCTTCAATAATC
13651842 TCATTTAATT
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
63 21 0.25
64 34 0.40
65 30 0.35
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (65 bp):
GGATTATTGAAAGTATTTATGGACCAAAAAAACCTTCAATAATCCCTCTCTAAAAGTTTTTGCAT
Found at i:13651777 original size:64 final size:64
Alignment explanation
Indices: 13651694--13651841 Score: 183
Period size: 65 Copynumber: 2.3 Consensus size: 64
13651684 TATTTATGAC
* * ** ***
13651694 CAAAAAA-ACCTTTAATAATCCC-CTCTAAAAGTTTTTGCATGGATTATTGAAGGTGTTTTTGG
1 CAAAAAACACCTTCAATAATCCCTCTCTAAAAGTTTTTGAATAAATTATTGAAGCCATTTTTGG
* * *
13651756 TCGAAAAACGCCTTCAATAATCCCTCTCTAAAATTTTTTGAATAAATTATTGAAGCCATTTTTGG
1 -CAAAAAACACCTTCAATAATCCCTCTCTAAAAGTTTTTGAATAAATTATTGAAGCCATTTTTGG
13651821 CAAAAAACACCTTCAATAATC
1 CAAAAAACACCTTCAATAATC
13651842 TCATTTAATT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
63 6 0.08
64 32 0.45
65 33 0.46
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (64 bp):
CAAAAAACACCTTCAATAATCCCTCTCTAAAAGTTTTTGAATAAATTATTGAAGCCATTTTTGG
Found at i:13652960 original size:84 final size:84
Alignment explanation
Indices: 13652800--13652966 Score: 203
Period size: 84 Copynumber: 2.0 Consensus size: 84
13652790 TGACTTGTAA
* * *
13652800 TTACATTTGAAGGTTGTACAACTTTCAACTCTAAAAGAAATTTAGCTTAAAAGACTTACGAATCT
1 TTACATTTGAAAGTTGTACAAATCTCAACTCTAAAAGAAATTTAGCTTAAAAGACTTACGAATCT
* *
13652865 TGCTCAGAAGACATAGAGT
66 TACCCAGAAGACATAGAGT
* * * * *
13652884 TTACATTTGAAAGTTTTATAAATCTCGACTCTAAAAGAGATTTAGTTTGAAAA-ACTTACGAATC
1 TTACATTTGAAAGTTGTACAAATCTCAACTCTAAAAGAAATTTAGCTT-AAAAGACTTACGAATC
*
13652948 TTACCC-GAAAGACTTAGAG
65 TTACCCAG-AAGACATAGAG
13652967 ATTATGTCCG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
83 1 0.01
84 65 0.93
85 4 0.06
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (84 bp):
TTACATTTGAAAGTTGTACAAATCTCAACTCTAAAAGAAATTTAGCTTAAAAGACTTACGAATCT
TACCCAGAAGACATAGAGT
Found at i:13653959 original size:59 final size:59
Alignment explanation
Indices: 13653887--13654006 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
13653877 TTGTCAATAG
* *
13653887 TCATATGATTTCCACCATTTCTATAAAGCTTAGAAAGCCTAATTACCCATAATGGTAGA
1 TCATATGATTTCCACCATTTCTATAAAGCTTAGAAAGCCTAATTACCAATAAGGGTAGA
*
13653946 TCATATGATTTCCATCATTTCTATAAAGCTTAGAAAGCCTAATTACCAATAAGGGTAGA
1 TCATATGATTTCCACCATTTCTATAAAGCTTAGAAAGCCTAATTACCAATAAGGGTAGA
13654005 TC
1 TC
13654007 TTAATGCTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (59 bp):
TCATATGATTTCCACCATTTCTATAAAGCTTAGAAAGCCTAATTACCAATAAGGGTAGA
Found at i:13655726 original size:6 final size:7
Alignment explanation
Indices: 13655709--13655758 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
13655699 AATTGGAGAA
13655709 AAAAATC
1 AAAAATC
13655716 AAAAATC
1 AAAAATC
**
13655723 AAAAAAAGG
1 --AAAAATC
13655732 AAAAATC
1 AAAAATC
13655739 AAAAATC
1 AAAAATC
13655746 AAAAATC
1 AAAAATC
13655753 AAAAAT
1 AAAAAT
13655759 AAAGGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 32 0.86
9 5 0.14
ACGTcount: A:0.74, C:0.10, G:0.04, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:13655745 original size:30 final size:32
Alignment explanation
Indices: 13655709--13655768 Score: 106
Period size: 30 Copynumber: 1.9 Consensus size: 32
13655699 AATTGGAGAA
13655709 AAAAATCAAAAATC-AAAA-AAAGGAAAAATC
1 AAAAATCAAAAATCAAAAATAAAGGAAAAATC
13655739 AAAAATCAAAAATCAAAAATAAAGGAAAAA
1 AAAAATCAAAAATCAAAAATAAAGGAAAAA
13655769 AAGAATGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 14 0.50
31 4 0.14
32 10 0.36
ACGTcount: A:0.75, C:0.08, G:0.07, T:0.10
Consensus pattern (32 bp):
AAAAATCAAAAATCAAAAATAAAGGAAAAATC
Found at i:13657769 original size:31 final size:30
Alignment explanation
Indices: 13657686--13657769 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
13657676 ATTTTAAAAA
* * *
13657686 GATGAGATTTAAGTCAGTTTTATTGGCATC
1 GATGAGATTTAAGTCAGTTTAACTAGCATC
* * * *
13657716 GATAAGATTTAAATCCAATTTAACTAGTATC
1 GATGAGATTTAAGT-CAGTTTAACTAGCATC
13657747 GATGAGATTTAAGTACAGTTTAA
1 GATGAGATTTAAGT-CAGTTTAA
13657770 ATGGCACCAA
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
30 12 0.29
31 30 0.71
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.37
Consensus pattern (30 bp):
GATGAGATTTAAGTCAGTTTAACTAGCATC
Found at i:13657825 original size:28 final size:28
Alignment explanation
Indices: 13657780--13657892 Score: 77
Period size: 28 Copynumber: 3.9 Consensus size: 28
13657770 ATGGCACCAA
* * *
13657780 TAAAATTTAAGTCTAATTTAATTGATAT
1 TAAATTTTAAATCCAATTTAATTGATAT
*
13657808 TAAATTTTAAATCCAATTTAACTAGCATCGA-
1 TAAATTTTAAATCCAATTTAA-TTG-AT--AT
* * *
13657839 TAAGA-TTTAAGTCTAATTTAATTCATAT
1 TAA-ATTTTAAATCCAATTTAATTGATAT
* * *
13657867 CAAATTTTAAATTCAATTTAGTTGAT
1 TAAATTTTAAATCCAATTTAATTGAT
13657893 GCTTTAAACT
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
27 2 0.03
28 36 0.56
29 4 0.06
30 3 0.05
31 17 0.27
32 2 0.03
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (28 bp):
TAAATTTTAAATCCAATTTAATTGATAT
Found at i:13657857 original size:31 final size:31
Alignment explanation
Indices: 13657711--13657859 Score: 119
Period size: 31 Copynumber: 4.9 Consensus size: 31
13657701 AGTTTTATTG
*
13657711 GCATCGATAAGATTTAAATCCAATTTAACTA
1 GCATCGATAAGATTTAAGTCCAATTTAACTA
* * * * * *
13657742 GTATCGATGAGATTTAAGTACAGTTTAAATG
1 GCATCGATAAGATTTAAGTCCAATTTAACTA
* * * * *
13657773 GCACCAATAAAATTTAAGTCTAATTTAA-TT
1 GCATCGATAAGATTTAAGTCCAATTTAACTA
*
13657803 G-AT--ATTAA-ATTTTAAATCCAATTTAACTA
1 GCATCGA-TAAGA-TTTAAGTCCAATTTAACTA
*
13657832 GCATCGATAAGATTTAAGTCTAATTTAA
1 GCATCGATAAGATTTAAGTCCAATTTAA
13657860 TTCATATCAA
Statistics
Matches: 89, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
27 2 0.02
28 17 0.19
29 3 0.03
30 4 0.04
31 61 0.69
32 2 0.02
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (31 bp):
GCATCGATAAGATTTAAGTCCAATTTAACTA
Found at i:13658695 original size:17 final size:18
Alignment explanation
Indices: 13658675--13658723 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
13658665 TATTATTCTT
13658675 TTTTTAATATTTTATT-A
1 TTTTTAATATTTTATTAA
*
13658692 TTTTT-ATACTTTTTTTAA
1 TTTTTAATA-TTTTATTAA
13658710 TATTTTAAT-TTTTA
1 T-TTTTAATATTTTA
13658724 CAGTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 3 0.12
17 11 0.42
18 6 0.23
19 4 0.15
20 2 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTAATATTTTATTAA
Found at i:13658703 original size:28 final size:28
Alignment explanation
Indices: 13658659--13658723 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
13658649 GGGATAAAAA
* *
13658659 TTATT-TTATTATTCTTTTTTTAATATT
1 TTATTATTTTTATACTTTTTTTAATATT
13658686 TTATTATTTTTATACTTTTTTTAATATT
1 TTATTATTTTTATACTTTTTTTAATATT
13658714 TTA--ATTTTTA
1 TTATTATTTTTA
13658724 CAGTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 7 0.20
27 5 0.14
28 23 0.66
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (28 bp):
TTATTATTTTTATACTTTTTTTAATATT
Found at i:13661822 original size:2 final size:2
Alignment explanation
Indices: 13661817--13661850 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13661807 AGTGTGTATG
13661817 TA TA TA 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
13661851 AATGGGCAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13662971 original size:2 final size:2
Alignment explanation
Indices: 13662964--13662994 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13662954 TCATGTTTTC
13662964 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13662995 AAAGAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13663964 original size:2 final size:2
Alignment explanation
Indices: 13663959--13663995 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13663949 ATATATATAT
13663959 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13663996 AAGGATGAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13664949 original size:17 final size:19
Alignment explanation
Indices: 13664924--13664962 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
13664914 TTTCGGAATT
13664924 TTAAATTT-ATTTTTTA-A
1 TTAAATTTAATTTTTTATA
*
13664941 TTAACTTTAATTTTTTATA
1 TTAAATTTAATTTTTTATA
13664960 TTA
1 TTA
13664963 TCTTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTAAATTTAATTTTTTATA
Found at i:13666663 original size:26 final size:26
Alignment explanation
Indices: 13666605--13666656 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
13666595 TTTTGATTTG
* *
13666605 AATTTAAATAATTATCAAAAATATTA
1 AATTTGAATAATTATCAAAAAAATTA
*
13666631 AATTTGAATAATTTATTAAAAAAATT
1 AATTTGAATAA-TTATCAAAAAAATT
13666657 TATTTGATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
AATTTGAATAATTATCAAAAAAATTA
Found at i:13666771 original size:2 final size:2
Alignment explanation
Indices: 13666764--13666791 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13666754 TATAAGTTGT
13666764 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
13666792 GATTATACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13667462 original size:9 final size:8
Alignment explanation
Indices: 13667440--13667465 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13667430 TAAATAAATT
13667440 TTAAAAAA
1 TTAAAAAA
13667448 TTAAAAAA
1 TTAAAAAA
13667456 TTAAAAAA
1 TTAAAAAA
13667464 TT
1 TT
13667466 CACACAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TTAAAAAA
Found at i:13669940 original size:12 final size:13
Alignment explanation
Indices: 13669925--13669954 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13669915 GACTATTCAA
13669925 TTTTTT-TTTCTT
1 TTTTTTATTTCTT
13669937 TTTTTTATTTCTT
1 TTTTTTATTTCTT
13669950 TTTTT
1 TTTTT
13669955 CTTATGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTATTTCTT
Found at i:13672739 original size:6 final size:6
Alignment explanation
Indices: 13672728--13672845 Score: 57
Period size: 6 Copynumber: 18.8 Consensus size: 6
13672718 AGTATCAACA
* *
13672728 AAAAAG AAAAAG AAATGAG AAATAAG AAAAGATG TACAAAAA AAAAAG
1 AAAAAG AAAAAG AAA-AAG AAA-AAG AAAA-A-G -A-AAAAG AAAAAG
* * *
13672776 GAAAAG AAACAAAG TAAAAG TAAAAA- AAAAAA AAAAAG AAAAA- AAAAA-
1 AAAAAG -AA-AAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
*
13672824 AAAAA- AAAACA- AAAGAG AAAAA
1 AAAAAG AAAA-AG AAAAAG AAAAA
13672846 AATAAAATTT
Statistics
Matches: 90, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
5 20 0.22
6 41 0.46
7 19 0.21
8 5 0.06
9 2 0.02
10 3 0.03
ACGTcount: A:0.80, C:0.03, G:0.13, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:13672803 original size:1 final size:1
Alignment explanation
Indices: 13672797--13672852 Score: 67
Period size: 1 Copynumber: 56.0 Consensus size: 1
13672787 AAGTAAAAGT
* * * * *
13672797 AAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAACAAAAGAGAAAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13672853 TTTAAATTGA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.91, C:0.02, G:0.05, T:0.02
Consensus pattern (1 bp):
A
Found at i:13672804 original size:24 final size:24
Alignment explanation
Indices: 13672765--13672852 Score: 88
Period size: 25 Copynumber: 3.6 Consensus size: 24
13672755 AAAGATGTAC
* *
13672765 AAAAAAAAAAGGAAAAGAAACAAAG
1 AAAAAAAAAA-AAAAAAAAACAAAG
**
13672790 TAAAAGTAAAAAAAAAAAAA-AAAG
1 -AAAAAAAAAAAAAAAAAAACAAAG
13672814 AAAAAAAAAAAAAAAAAAACAAAAG
1 AAAAAAAAAAAAAAAAAAAC-AAAG
* *
13672839 AGAAAAAAATAAAA
1 AAAAAAAAAAAAAA
13672853 TTTAAATTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
23 17 0.33
24 4 0.08
25 23 0.44
26 8 0.15
ACGTcount: A:0.85, C:0.02, G:0.09, T:0.03
Consensus pattern (24 bp):
AAAAAAAAAAAAAAAAAAACAAAG
Found at i:13672821 original size:27 final size:27
Alignment explanation
Indices: 13672791--13672852 Score: 92
Period size: 25 Copynumber: 2.4 Consensus size: 27
13672781 GAAACAAAGT
*
13672791 AAAAGTAAAAAAAAAAAAAAAAGA-AA
1 AAAAATAAAAAAAAAAAAAAAAGAGAA
*
13672817 AAAAA-AAAAAAAAAAACAAAAGAGAA
1 AAAAATAAAAAAAAAAAAAAAAGAGAA
13672843 AAAAATAAAA
1 AAAAATAAAA
13672853 TTTAAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 17 0.53
26 11 0.34
27 4 0.12
ACGTcount: A:0.89, C:0.02, G:0.06, T:0.03
Consensus pattern (27 bp):
AAAAATAAAAAAAAAAAAAAAAGAGAA
Found at i:13672822 original size:20 final size:20
Alignment explanation
Indices: 13672797--13672852 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 20
13672787 AAGTAAAAGT
*
13672797 AAAAAAAAAAAAAAAAGAAA
1 AAAAAAAAAAAAAAAACAAA
13672817 AAAAAAAAAAAAAAAACAAA
1 AAAAAAAAAAAAAAAACAAA
13672837 AGAGAAAAAAATAAAA
1 A-A-AAAAAAA-AAAA
13672853 TTTAAATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 20 0.62
21 1 0.03
22 7 0.22
23 4 0.12
ACGTcount: A:0.91, C:0.02, G:0.05, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAACAAA
Found at i:13673827 original size:34 final size:33
Alignment explanation
Indices: 13673765--13673853 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 33
13673755 ACCTAAAAAT
* *
13673765 CTTTGTGAACCTTGCATCTTTGCAAATCTAGAAC
1 CTTTGTGAAACTTGAATC-TTGCAAATCTAGAAC
* * *
13673799 CTTTGTGAAACTTGAAATCTTGCGAATCTTGCAC
1 CTTTGTGAAACTTG-AATCTTGCAAATCTAGAAC
*
13673833 CTTTGCGAAACTTGGAATCTT
1 CTTTGTGAAACTT-GAATCTT
13673854 AAGAATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
34 43 0.91
35 4 0.09
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (33 bp):
CTTTGTGAAACTTGAATCTTGCAAATCTAGAAC
Found at i:13673990 original size:85 final size:85
Alignment explanation
Indices: 13673822--13673990 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
13673812 GAAATCTTGC
* * *
13673822 GAATCTTGCACCTTTGCGAAACTTGGAATCTTAAGAATTTTTTTTCTTATGAACCTGAAAATCCT
1 GAATCTAGAACCTTTGCGAAACTTGAAATCTTAAGAATTTTTTTTCTTATGAACCTGAAAATCCT
* *
13673887 TGCGAACCTTGTATCTTTGT
66 TGCGAACCTTGCACCTTTGT
* * * ** * *
13673907 GAATCTAGAACCTTTGTG-AACTTGAAATCTTACGATTTTTTCTTTCTTATGAATTTGAAAGTCT
1 GAATCTAGAACCTTTGCGAAACTTGAAATCTTAAGAATTTTT-TTTCTTATGAACCTGAAAATCC
* *
13673971 TTGTGAATCTTGCACCTTTG
65 TTGCGAACCTTGCACCTTTG
13673991 CAAAACTTGA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
84 20 0.29
85 49 0.71
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (85 bp):
GAATCTAGAACCTTTGCGAAACTTGAAATCTTAAGAATTTTTTTTCTTATGAACCTGAAAATCCT
TGCGAACCTTGCACCTTTGT
Found at i:13674022 original size:69 final size:68
Alignment explanation
Indices: 13673916--13674263 Score: 387
Period size: 69 Copynumber: 5.1 Consensus size: 68
13673906 TGAATCTAGA
** * * * * * *
13673916 ACCTTTGTGAACTTGAAATCTTACG-ATTTTTTCTTTCTTATGAATTTGAAAGTCTTTGTGAATC
1 ACCTTTGAAAACTTAAAATCTTACGAATCTTTT-TTTCTTATGAATCTGAAAGTCCTTGCGAACC
13673980 TTGC
65 TTGC
* * * *
13673984 ACCTTTGCAAAACTTGAAATCTTACGAATCTTTTTTTCTTGTGAATCTGAAAATCCTTGCAAACC
1 ACCTTTG-AAAACTTAAAATCTTACGAATCTTTTTTTCTTATGAATCTGAAAGTCCTTGCGAACC
13674049 TTGC
65 TTGC
* * *
13674053 ACCTTTGTGAAACTTAAAATCTTACGAATCTTTCTTTCTTATGAATCTGAAAGTCCTTGCAAACC
1 ACCTTTG-AAAACTTAAAATCTTACGAATCTTTTTTTCTTATGAATCTGAAAGTCCTTGCGAACC
13674118 TTGC
65 TTGC
* * * *
13674122 ACCTTTTTAAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATCTGAAAGTCTTTGCGAACC
1 ACC-TTTGAAAACTTAAAATCTTACGAATCTTTTTTTCTTATGAATCTGAAAGTCCTTGCGAACC
13674187 TTGC
65 TTGC
** * *** *
13674191 ACCTTATG-AAACTTAAAA-CTTGTGAATCTTTCTTTCTTGCAAATTTGAAAGTCCTTGCGAACC
1 ACCTT-TGAAAACTTAAAATCTTACGAATCTTTTTTTCTTATGAATCTGAAAGTCCTTGCGAACC
13674254 TTGC
65 TTGC
*
13674258 ATCTTT
1 ACCTTT
13674264 TTAAATTTAG
Statistics
Matches: 243, Mismatches: 33, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
66 1 0.00
67 45 0.19
68 19 0.08
69 169 0.70
70 9 0.04
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.41
Consensus pattern (68 bp):
ACCTTTGAAAACTTAAAATCTTACGAATCTTTTTTTCTTATGAATCTGAAAGTCCTTGCGAACCT
TGC
Found at i:13674061 original size:35 final size:35
Alignment explanation
Indices: 13674022--13674127 Score: 99
Period size: 35 Copynumber: 3.1 Consensus size: 35
13674012 TCTTTTTTTC
13674022 TTGTGAATCTGAAAATCCTTGCAAACCTTGCACCT
1 TTGTGAATCTGAAAATCCTTGCAAACCTTGCACCT
* * * * * * **
13674057 TTGTGAAACTTAAAAT-CTTACGAATCTTTC-TTT
1 TTGTGAATCTGAAAATCCTTGCAAACCTTGCACCT
* *
13674090 CTTATGAATCTGAAAGTCCTTGCAAACCTTGCACCT
1 -TTGTGAATCTGAAAATCCTTGCAAACCTTGCACCT
13674126 TT
1 TT
13674128 TTAAAACTTA
Statistics
Matches: 50, Mismatches: 18, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
33 1 0.02
34 22 0.44
35 26 0.52
36 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (35 bp):
TTGTGAATCTGAAAATCCTTGCAAACCTTGCACCT
Found at i:13674121 original size:138 final size:138
Alignment explanation
Indices: 13673916--13674263 Score: 459
Period size: 138 Copynumber: 2.5 Consensus size: 138
13673906 TGAATCTAGA
* * * * * *
13673916 ACCTTTGTG-AACTTGAAATCTTACGATTTTTTCTTTCTTATGAATTTGAAAGTCTTTGTGAATC
1 ACCTTTGTGAAACTTAAAATCTTACGAATCTTTCTTTCTTATGAATTTGAAAGTCCTTGCGAACC
* * **
13673980 TTGCACCTTTGCAAAACTTGAAATCTTACGAATCTTTTTTTCTTGTGAATCTGAAAATCCTTGCA
66 TTGCACCTTTGCAAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATCTGAAAATCCTTGCA
13674045 AACCTTGC
131 AACCTTGC
* *
13674053 ACCTTTGTGAAACTTAAAATCTTACGAATCTTTCTTTCTTATGAATCTGAAAGTCCTTGCAAACC
1 ACCTTTGTGAAACTTAAAATCTTACGAATCTTTCTTTCTTATGAATTTGAAAGTCCTTGCGAACC
** * * *
13674118 TTGCACCTTTTTAAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATCTGAAAGTCTTTGCG
66 TTGCACCTTTGCAAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATCTGAAAATCCTTGCA
13674183 AACCTTGC
131 AACCTTGC
* ** ***
13674191 ACC-TTATGAAACTTAAAA-CTTGTGAATCTTTCTTTCTTGCAAATTTGAAAGTCCTTGCGAACC
1 ACCTTTGTGAAACTTAAAATCTTACGAATCTTTCTTTCTTATGAATTTGAAAGTCCTTGCGAACC
*
13674254 TTGCATCTTT
66 TTGCACCTTT
13674264 TTAAATTTAG
Statistics
Matches: 184, Mismatches: 26, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
136 47 0.26
137 23 0.12
138 114 0.62
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.41
Consensus pattern (138 bp):
ACCTTTGTGAAACTTAAAATCTTACGAATCTTTCTTTCTTATGAATTTGAAAGTCCTTGCGAACC
TTGCACCTTTGCAAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATCTGAAAATCCTTGCA
AACCTTGC
Found at i:13674298 original size:136 final size:138
Alignment explanation
Indices: 13673916--13674305 Score: 349
Period size: 138 Copynumber: 2.8 Consensus size: 138
13673906 TGAATCTAGA
* * * * ** * * ** *
13673916 ACCTTTGTG-AACTTGAAATCTTACGATTTTTTCTTTCTTATGAATTTGAAAGTCTTTGTGAATC
1 ACCTTTATGAAACTTAAAATCTTACGAATCTTTCTTTCTTACAAATCTGAAAGTCCTTGCAAACC
** * * * **** **
13673980 TTGCACCTTTGCAAAACTTGAAATCTTACGAATCTTTTTTTCTTGTGAATCTGAAAATCCTTGCA
66 TTGCACCTTTTTAAAACTTAAAAGCTTACGAATATTGAAATCTTACGAATCTGAAAATCCTTGCA
13674045 AACCTTGC
131 AACCTTGC
* **
13674053 ACCTTTGTGAAACTTAAAATCTTACGAATCTTTCTTTCTTATGAATCTGAAAGTCCTTGCAAACC
1 ACCTTTATGAAACTTAAAATCTTACGAATCTTTCTTTCTTACAAATCTGAAAGTCCTTGCAAACC
* **** * * *
13674118 TTGCACCTTTTTAAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATCTGAAAGTCTTTGCG
66 TTGCACCTTTTTAAAACTTAAAAGCTTACGAATATTGAAATCTTACGAATCTGAAAATCCTTGCA
13674183 AACCTTGC
131 AACCTTGC
** * * *
13674191 ACC-TTATGAAACTTAAAA-CTTGTGAATCTTTCTTTCTTGCAAATTTGAAAGTCCTTGCGAACC
1 ACCTTTATGAAACTTAAAATCTTACGAATCTTTCTTTCTTACAAATCTGAAAGTCCTTGCAAACC
* * * *
13674254 TTGCATCTTTTT-AAATTTAGAAGCTTTACGAA-ACTTGAAATCTTACAAATCT
66 TTGCACCTTTTTAAAACTTAAAAGC-TTACGAATA-TTGAAATCTTACGAATCT
13674306 TTCTTTCTTA
Statistics
Matches: 216, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
135 10 0.05
136 69 0.32
137 23 0.11
138 114 0.53
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (138 bp):
ACCTTTATGAAACTTAAAATCTTACGAATCTTTCTTTCTTACAAATCTGAAAGTCCTTGCAAACC
TTGCACCTTTTTAAAACTTAAAAGCTTACGAATATTGAAATCTTACGAATCTGAAAATCCTTGCA
AACCTTGC
Found at i:13674370 original size:86 final size:86
Alignment explanation
Indices: 13674198--13674423 Score: 229
Period size: 86 Copynumber: 2.6 Consensus size: 86
13674188 TGCACCTTAT
*** * * * ** * *
13674198 GAAACTTAAAA-CTTGTGAATCTTTCTTTCTTGCAAATTTGAAAGTCCTTGCGAACCTTGCATCT
1 GAAACTTAAAATCTTACAAATCTTTCTTTCTTGCAAATCTGAAAGTCTTTGCAAACCAGGAACCT
* * * * *
13674262 TTTTAAATTTAGAAGCTTTAC
66 TTGTAAATCTAAAACCTCTAC
* * *
13674283 GAAACTTGAAATCTTACAAATCTTTCTTTCTTACAAATCTGAAAGTCTTTGCAAATCAGGAACCT
1 GAAACTTAAAATCTTACAAATCTTTCTTTCTTGCAAATCTGAAAGTCTTTGCAAACCAGGAACCT
13674348 TTGTAAATCTAAAACCTCTAC
66 TTGTAAATCTAAAACCTCTAC
** * * **
13674369 GAAGTTTAAAATCTTACGAATCTTTCATTCTTGCAAATCTGAAAACCTTTGCAAA
1 GAAACTTAAAATCTTACAAATCTTTCTTTCTTGCAAATCTGAAAGTCTTTGCAAA
13674424 GATTGAATTT
Statistics
Matches: 114, Mismatches: 26, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
85 10 0.09
86 104 0.91
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (86 bp):
GAAACTTAAAATCTTACAAATCTTTCTTTCTTGCAAATCTGAAAGTCTTTGCAAACCAGGAACCT
TTGTAAATCTAAAACCTCTAC
Found at i:13675284 original size:15 final size:15
Alignment explanation
Indices: 13675264--13675316 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
13675254 CATGGGAGAA
13675264 AAAAAAAGATTATGC
1 AAAAAAAGATTATGC
*
13675279 AAAAAAA-ACTCT-TGAT
1 AAAAAAAGA-T-TATG-C
13675295 AAAAAAAGATTATGC
1 AAAAAAAGATTATGC
13675310 AAAAAAA
1 AAAAAAA
13675317 ATCTTTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 1 0.03
15 18 0.58
16 11 0.35
17 1 0.03
ACGTcount: A:0.64, C:0.08, G:0.09, T:0.19
Consensus pattern (15 bp):
AAAAAAAGATTATGC
Found at i:13675284 original size:16 final size:16
Alignment explanation
Indices: 13675263--13675317 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
13675253 GCATGGGAGA
13675263 AAAAAAAAGATTATGC
1 AAAAAAAAGATTATGC
*
13675279 AAAAAAAA-CTCT-TG-
1 AAAAAAAAGAT-TATGC
13675293 ATAAAAAAAGATTATGC
1 A-AAAAAAAGATTATGC
13675310 AAAAAAAA
1 AAAAAAAA
13675318 TCTTTAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 1 0.03
15 11 0.34
16 19 0.59
17 1 0.03
ACGTcount: A:0.65, C:0.07, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAAAAAGATTATGC
Found at i:13675302 original size:31 final size:30
Alignment explanation
Indices: 13675264--13675331 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 30
13675254 CATGGGAGAA
*
13675264 AAAAAAAGATTATGCAAAAAAAACTCTTGAT
1 AAAAAAAGATTATGCAAAAAAAA-TCTTGAG
*
13675295 AAAAAAAGATTATGCAAAAAAAATCTTTAG
1 AAAAAAAGATTATGCAAAAAAAATCTTGAG
13675325 AAAAAAA
1 AAAAAAA
13675332 AAAAAGATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 12 0.34
31 23 0.66
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.21
Consensus pattern (30 bp):
AAAAAAAGATTATGCAAAAAAAATCTTGAG
Found at i:13675788 original size:5 final size:5
Alignment explanation
Indices: 13675778--13675820 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
13675768 TTCTTCCCTT
13675778 TTTTA TTTTA TTTTTA TTTTCTAA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA -TTTTA -TTT-T-A TTTTA TTTTA TTTTA TTTT
13675821 TAAACCAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 20 0.57
6 10 0.29
7 4 0.11
8 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:13677031 original size:32 final size:31
Alignment explanation
Indices: 13676978--13677106 Score: 87
Period size: 32 Copynumber: 3.8 Consensus size: 31
13676968 TGATTTTTTG
* * *
13676978 TTATTAGATAATAATTCAATAAATAAAATTTA
1 TTATTATATAATAAATAAATAAAT-AAATTTA
* *
13677010 TTATTATATAATAAATAAATAACTTCTATTTTTAATTTT
1 TTATTATATAATAAATAAATAA-----A---TAAATTTA
*
13677049 TTATTATATAACATTAATAAATAAATAAATATTA
1 TTATTATAT-A-ATAAATAAATAAATAAAT-TTA
*
13677083 TTATTATATAATAAATTAATAAAT
1 TTATTATATAATAAATAAATAAAT
13677107 TTATTTTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 22
0.70 0.09 0.20
Matches are distributed among these distances:
32 31 0.41
33 5 0.07
34 11 0.14
36 1 0.01
37 1 0.01
39 14 0.18
40 2 0.03
41 11 0.14
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (31 bp):
TTATTATATAATAAATAAATAAATAAATTTA
Found at i:13677081 original size:28 final size:28
Alignment explanation
Indices: 13677050--13677111 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
13677040 TTTAATTTTT
13677050 TATTATATAACAT-TAATAAATAAATAAA
1 TATTAT-TAACATATAATAAATAAATAAA
** *
13677078 TATTATTATTATATAATAAATTAATAAA
1 TATTATTAACATATAATAAATAAATAAA
13677106 T-TTATT
1 TATTATT
13677112 TTATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
TATTATTAACATATAATAAATAAATAAA
Found at i:13681474 original size:2 final size:2
Alignment explanation
Indices: 13681467--13681512 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
13681457 TGCAAGCAGA
13681467 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
13681509 AT AT
1 AT AT
13681513 GAAAAGGAAT
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:13681710 original size:2 final size:2
Alignment explanation
Indices: 13681703--13681730 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13681693 GATCCTGTTT
13681703 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
13681731 AAATAAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13681967 original size:2 final size:2
Alignment explanation
Indices: 13681955--13681984 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13681945 GTTTGATTTG
*
13681955 AT AT AT TT 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
13681985 GAATTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:13684660 original size:2 final size:2
Alignment explanation
Indices: 13684647--13684681 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
13684637 GCACGTACAC
* *
13684647 AT AT AC AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13684682 ATCATAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13684866 original size:193 final size:192
Alignment explanation
Indices: 13684666--13685029 Score: 416
Period size: 193 Copynumber: 1.9 Consensus size: 192
13684656 TATATATGTA
*
13684666 TATATATATAT-ATATAATCA-T-AA-TTAAATTGAAACCATGATAAATTAACATTTAATAAATT
1 TATATATATATGA-ATAATCATTAAATTTAAATAGAAA--A-GATAAATTAACATTTAATAAATT
* ** * * * **
13684727 TGAATTTTAAATGTATGCTAAACTTTT-AATTTTTTGATAGATTTTGATTTAAATTTAAATAATT
62 CGAATTCAAAATGTATAC-AAAATTTTCAA-TCTCAGATAGATTTTGATTTAAATTTAAATAATT
* *
13684791 ATAC-AAAATATTAGATTTAAATAATTTAGTAAATAAAATTATTTGACAGAAAATAAAATTTTAT
125 AT-CTAAAATATTAAATTTAAATAATTTAGTAAAGAAAATTATTTGACAGAAAATAAAATTTTAT
13684855 TAAG
189 TAAG
* ** * ** *
13684859 TATATATATTTGGAATTGTGATTAAATTTAAATAGAAAAGATAAATTATGATTTAATATATTCGA
1 TATATATATAT-GAATAATCATTAAATTTAAATAGAAAAGATAAATTAACATTTAATAAATTCGA
*
13684924 ATTCAAAATTTATACAAAATTTTCAATCTCAGATAGATTTTGATTTAAATTTAAATAATTATCTA
65 ATTCAAAATGTATACAAAATTTTCAATCTCAGATAGATTTTGATTTAAATTTAAATAATTATCTA
* * *
13684989 AAATATTAAATTTGAATAATTTATTAAAGAAATTTATTTGA
130 AAATATTAAATTTAAATAATTTAGTAAAGAAAATTATTTGA
13685030 TAAATAAAAT
Statistics
Matches: 142, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
192 1 0.01
193 87 0.61
194 39 0.27
195 3 0.02
196 2 0.01
197 10 0.07
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (192 bp):
TATATATATATGAATAATCATTAAATTTAAATAGAAAAGATAAATTAACATTTAATAAATTCGAA
TTCAAAATGTATACAAAATTTTCAATCTCAGATAGATTTTGATTTAAATTTAAATAATTATCTAA
AATATTAAATTTAAATAATTTAGTAAAGAAAATTATTTGACAGAAAATAAAATTTTATTAAG
Found at i:13685621 original size:17 final size:17
Alignment explanation
Indices: 13685595--13685627 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13685585 TACTTTGATC
*
13685595 ATTAAGATGATCTTATT
1 ATTAAAATGATCTTATT
13685612 ATTAAAATGATCTTAT
1 ATTAAAATGATCTTAT
13685628 CATTCGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (17 bp):
ATTAAAATGATCTTATT
Found at i:13686931 original size:32 final size:32
Alignment explanation
Indices: 13686888--13687014 Score: 94
Period size: 32 Copynumber: 3.8 Consensus size: 32
13686878 TGATTTTTTG
*
13686888 TTATTAGATAATAAATTAATAAATAAAATTTA
1 TTATTATATAATAAATTAATAAATAAAATTTA
* * ** *
13686920 TTATTATATAATAAATAAATAACTTCTATTTTA
1 TTATTATATAATAAATTAATAA-ATAAAATTTA
* *
13686953 TT-TTTTATTGTATAACATTAATAAATAAATAAATTTTA
1 TTATTATA-T-AATAA-ATTAATAAAT--A-AAA-TTTA
*
13686991 ATATTATATAATAAATTAATAAAT
1 TTATTATATAATAAATTAATAAAT
13687015 TATTTTATTT
Statistics
Matches: 70, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
32 24 0.34
33 9 0.13
34 5 0.07
35 7 0.10
36 10 0.14
37 5 0.07
38 6 0.09
39 4 0.06
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (32 bp):
TTATTATATAATAAATTAATAAATAAAATTTA
Found at i:13687016 original size:20 final size:20
Alignment explanation
Indices: 13686980--13687017 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13686970 TTAATAAATA
*
13686980 AATAAATTTTAATATTATAT
1 AATAAATTATAATATTATAT
13687000 AATAAATTAATAA-ATTAT
1 AATAAATT-ATAATATTAT
13687018 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAAATTATAATATTATAT
Found at i:13689671 original size:26 final size:26
Alignment explanation
Indices: 13689625--13689676 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
13689615 TTATTTATTA
13689625 TTTAAAAAAAAAAGACCAAAA-AAAAT
1 TTTAAAAAAAAAAGA-CAAAATAAAAT
13689651 TTTAAGAAAAAAGAAGA-AAAATAAAA
1 TTTAA-AAAAAA-AAGACAAAATAAAA
13689677 AAGGAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 9 0.39
27 10 0.43
28 4 0.17
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (26 bp):
TTTAAAAAAAAAAGACAAAATAAAAT
Found at i:13689865 original size:39 final size:36
Alignment explanation
Indices: 13689820--13689893 Score: 94
Period size: 39 Copynumber: 2.0 Consensus size: 36
13689810 ATTATATAAT
* *
13689820 AAATAAAATTTATTTTTTTATTATATAACATTAATAAAC
1 AAATAAAATTTATTATTATA-TA-ATAA-ATTAATAAAC
*
13689859 AAATAAATTTTATTATTATATAATAAATTAATAAA
1 AAATAAAATTTATTATTATATAATAAATTAATAAA
13689894 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 9 0.28
37 4 0.12
38 2 0.06
39 17 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (36 bp):
AAATAAAATTTATTATTATATAATAAATTAATAAAC
Found at i:13689901 original size:32 final size:32
Alignment explanation
Indices: 13689770--13689908 Score: 124
Period size: 32 Copynumber: 4.4 Consensus size: 32
13689760 TTTTCTTTTG
* * *
13689770 ATTTTTTTATTAGATAATAAATTAATGAATAA
1 ATTTTATTATTATATAATAAATTAATAAATAA
* * **
13689802 AATCTATTATTATATAATAAA-T-A-AAATTT
1 ATTTTATTATTATATAATAAATTAATAAATAA
* * * *
13689831 ATTTTTTTATTATATAACATTAATAAACAAATAA
1 ATTTTATTATTATAT-A-ATAAATTAATAAATAA
*
13689865 ATTTTATTATTATATAATAAATTAATAAATAT
1 ATTTTATTATTATATAATAAATTAATAAATAA
13689897 ATTTTATT-TTAT
1 ATTTTATTATTAT
13689909 TTTTTGTTAT
Statistics
Matches: 83, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
29 15 0.18
30 2 0.02
31 9 0.11
32 37 0.45
33 2 0.02
34 18 0.22
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (32 bp):
ATTTTATTATTATATAATAAATTAATAAATAA
Found at i:13690055 original size:15 final size:15
Alignment explanation
Indices: 13690018--13690062 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
13690008 TACTGTTACA
* *
13690018 ATAATTAATTTTATT
1 ATAATTAATTTCATC
**
13690033 ATTTTTAATTTCATC
1 ATAATTAATTTCATC
13690048 ATAATTAATTTCATC
1 ATAATTAATTTCATC
13690063 GTTCGTCGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (15 bp):
ATAATTAATTTCATC
Found at i:13692820 original size:2 final size:2
Alignment explanation
Indices: 13692815--13692839 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13692805 ATATATTGTA
13692815 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13692840 AAAGATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13694401 original size:23 final size:23
Alignment explanation
Indices: 13694356--13694410 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
13694346 TCAATTTTCT
* *
13694356 TTAATTTGTTTTATGCCTTTTGTC
1 TTAATTT-TTTTATGCCTCTTGTA
* *
13694380 TTAATTTTTTTCTTCCTCTTGTA
1 TTAATTTTTTTATGCCTCTTGTA
*
13694403 TTTATTTT
1 TTAATTTT
13694411 ACCTATTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (23 bp):
TTAATTTTTTTATGCCTCTTGTA
Found at i:13694645 original size:78 final size:79
Alignment explanation
Indices: 13694561--13694728 Score: 179
Period size: 75 Copynumber: 2.1 Consensus size: 79
13694551 TTTTCGTTTG
*
13694561 ATTTTTTGTTATTAGATAAAAAATT-A-ATAAATAAAATTTATTATTATATAAT-A-AATAAATA
1 ATTTTTTGTTATT-G-TAAAAAATTAATATAAATAAAATTTAATATTATATAATAATAATAAATA
13694622 ACTTCTATTTTATTTTT
64 A-TTCTATTTTATTTTT
* * *
13694639 A--TTTT-TTATTGTATAACATTAATATAAATAAATTTTAATATTATATAATAAATTAATAAATA
1 ATTTTTTGTTATTGTAAAAAATTAATATAAATAAAATTTAATATTATATAAT-AA-TAATAAATA
*
13694701 ATTTTATTTTATTTTT
64 ATTCTATTTTATTTTT
13694717 ATTAATTTTGTT
1 ATT--TTTTGTT
13694729 CTAATACTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
73 7 0.09
74 2 0.03
75 29 0.39
76 4 0.05
77 1 0.01
78 16 0.22
79 9 0.12
82 4 0.05
83 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (79 bp):
ATTTTTTGTTATTGTAAAAAATTAATATAAATAAAATTTAATATTATATAATAATAATAAATAAT
TCTATTTTATTTTT
Found at i:13702386 original size:2 final size:2
Alignment explanation
Indices: 13702379--13702417 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13702369 TGCAAGCATA
13702379 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13702418 AGATTCTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13703056 original size:3 final size:3
Alignment explanation
Indices: 13703048--13703072 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13703038 CCAAAAACAT
13703048 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
13703073 AACACTTTTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13703968 original size:17 final size:18
Alignment explanation
Indices: 13703943--13703976 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13703933 TTTCGGAATT
13703943 TTAAATTT-ATTTTTTAA
1 TTAAATTTAATTTTTTAA
*
13703960 TTAACTTTAATTTTTTA
1 TTAAATTTAATTTTTTA
13703977 TATTTTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTAAATTTAATTTTTTAA
Found at i:13705665 original size:26 final size:26
Alignment explanation
Indices: 13705607--13705658 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
13705597 TTTTGATTTG
* *
13705607 AATTTAAATAATTATCAAAAATATTA
1 AATTTGAATAATTATCAAAAAAATTA
*
13705633 AATTTGAATAATTTATTAAAAAAATT
1 AATTTGAATAA-TTATCAAAAAAATT
13705659 TATTTGATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
AATTTGAATAATTATCAAAAAAATTA
Found at i:13705773 original size:2 final size:2
Alignment explanation
Indices: 13705766--13705791 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13705756 TATAAGTTGT
13705766 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
13705792 GATTATACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13706461 original size:9 final size:8
Alignment explanation
Indices: 13706439--13706464 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13706429 TAAATAAATT
13706439 TTAAAAAA
1 TTAAAAAA
13706447 TTAAAAAA
1 TTAAAAAA
13706455 TTAAAAAA
1 TTAAAAAA
13706463 TT
1 TT
13706465 CACACAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TTAAAAAA
Found at i:13711772 original size:29 final size:28
Alignment explanation
Indices: 13711738--13711808 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
13711728 AAAAAAAGGG
* * *
13711738 AAAAAAAACAAAGCAAAAAGCAAAAAAAA
1 AAAAAAAAAAAAGAAAAAAAC-AAAAAAA
*
13711767 AAAAAAAAAAAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAGAAAAAAACAAAAAAA
13711795 AAAAAAAAAAAAGA
1 AAAAAAAAAAAAGA
13711809 GAGAAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 20 0.54
29 17 0.46
ACGTcount: A:0.90, C:0.06, G:0.04, T:0.00
Consensus pattern (28 bp):
AAAAAAAAAAAAGAAAAAAACAAAAAAA
Found at i:13711817 original size:1 final size:1
Alignment explanation
Indices: 13711759--13711806 Score: 87
Period size: 1 Copynumber: 48.0 Consensus size: 1
13711749 AGCAAAAAGC
*
13711759 AAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13711807 GAGAGAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.98, C:0.02, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13712797 original size:34 final size:34
Alignment explanation
Indices: 13712759--13712826 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
13712749 TGCATCTTTG
*
13712759 CAAATCTAGAACCTTTGTGAAACTTAAAATCTTA
1 CAAATCTAGAACCTTTGCGAAACTTAAAATCTTA
* * **
13712793 CAAATCTTGCACCTTTGCGAAACTTGGAATCTTA
1 CAAATCTAGAACCTTTGCGAAACTTAAAATCTTA
13712827 AGAATTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (34 bp):
CAAATCTAGAACCTTTGCGAAACTTAAAATCTTA
Found at i:13712940 original size:56 final size:57
Alignment explanation
Indices: 13712875--13712983 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
13712865 CCTTGTATCT
** *
13712875 TTGTGAATCTAGAACCTTTG-TGAACTTGAAATCTTACG-ATTTTTTCTTTCTTGTCC
1 TTGTGAATCTAGAACCTTTGCAAAACTTGAAATCTTACGAATCTTTT-TTTCTTGTCC
* *
13712931 TTGTGAATCTTGCACCTTTGCAAAACTTGAAATCTTACGAATCTTTTTTTCTT
1 TTGTGAATCTAGAACCTTTGCAAAACTTGAAATCTTACGAATCTTTTTTTCTT
13712984 ATGAATATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 18 0.39
57 22 0.48
58 6 0.13
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (57 bp):
TTGTGAATCTAGAACCTTTGCAAAACTTGAAATCTTACGAATCTTTTTTTCTTGTCC
Found at i:13713015 original size:69 final size:68
Alignment explanation
Indices: 13712939--13713223 Score: 367
Period size: 69 Copynumber: 4.2 Consensus size: 68
13712929 CCTTGTGAAT
* * * * * *
13712939 CTTGCACCTTTGCAAAACTTGAAATCTTACGAATCTTTTTTTCTTATGAATATGAAAATCCTTGC
1 CTTGCACCTTTG-TAAACTTAAAATCTTACGAATCTTTCTTTCTTACGAATCTGAAAGTCCTTGC
13713004 AAAC
65 AAAC
*
13713008 CTTGCACCTTTGTGAAACTTAAAATCTTACGAATCTTTCTTTCTTACGAATCTGAAAGTCCTTAC
1 CTTGCACCTTTGT-AAACTTAAAATCTTACGAATCTTTCTTTCTTACGAATCTGAAAGTCCTTGC
13713073 AAAC
65 AAAC
* * * *
13713077 CTTGCACCTTTTTTAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATCTGAAAGTCTTTGC
1 CTTGCACC-TTTGTAAACTTAAAATCTTACGAATCTTTCTTTCTTACGAATCTGAAAGTCCTTGC
*
13713142 GAAC
65 AAAC
** *
13713146 CTTGCACC-TTGTGAAACTTAAAA-CTTGTGAATCTTTCTTTCTTACGAATTTGAAAGTCCTTGC
1 CTTGCACCTTTGT-AAACTTAAAATCTTACGAATCTTTCTTTCTTACGAATCTGAAAGTCCTTGC
*
13713209 GAAC
65 AAAC
*
13713213 CTTGCATCTTT
1 CTTGCACCTTT
13713224 TTGAATTTAG
Statistics
Matches: 191, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
67 48 0.25
68 12 0.06
69 127 0.66
70 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (68 bp):
CTTGCACCTTTGTAAACTTAAAATCTTACGAATCTTTCTTTCTTACGAATCTGAAAGTCCTTGCA
AAC
Found at i:13713119 original size:138 final size:136
Alignment explanation
Indices: 13712939--13713225 Score: 412
Period size: 138 Copynumber: 2.1 Consensus size: 136
13712929 CCTTGTGAAT
** * * *
13712939 CTTGCACCTTTGCAAAACTTGAAATCTTACGAATCTTTTTTTCTTATGAATATGAAAATCCTTGC
1 CTTGCACCTTTTTAAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATATGAAAATCCTTGC
13713004 AAACCTTGCACCTTTGTGAAACTTAAAATCTTACGAATCTTTCTTTCTTACGAATCTGAAAGTCC
66 AAACCTTGCACC-TTGTGAAACTTAAAA-CTTACGAATCTTTCTTTCTTACGAATCTGAAAGTCC
13713069 TTACAAAC
129 TTACAAAC
* * * *
13713077 CTTGCACCTTTTTTAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATCTGAAAGTCTTTGC
1 CTTGCACCTTTTTAAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATATGAAAATCCTTGC
* ** *
13713142 GAACCTTGCACCTTGTGAAACTTAAAACTTGTGAATCTTTCTTTCTTACGAATTTGAAAGTCCTT
66 AAACCTTGCACCTTGTGAAACTTAAAACTTACGAATCTTTCTTTCTTACGAATCTGAAAGTCCTT
* *
13713207 GCGAAC
131 ACAAAC
*
13713213 CTTGCATCTTTTT
1 CTTGCACCTTTTT
13713226 GAATTTAGAA
Statistics
Matches: 133, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
136 51 0.38
137 15 0.11
138 67 0.50
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (136 bp):
CTTGCACCTTTTTAAAACTTAAAATCTTACGAATATTTTTTTCTTACGAATATGAAAATCCTTGC
AAACCTTGCACCTTGTGAAACTTAAAACTTACGAATCTTTCTTTCTTACGAATCTGAAAGTCCTT
ACAAAC
Found at i:13713258 original size:136 final size:138
Alignment explanation
Indices: 13712980--13713265 Score: 337
Period size: 136 Copynumber: 2.1 Consensus size: 138
13712970 AATCTTTTTT
* *
13712980 TCTTATGAATATGAAAATCCTTGCAAACCTTGCACCTTTGTGAAACTTAAAATCTTACGAATCTT
1 TCTTACGAATCTGAAAATCCTTGCAAACCTTGCACCTTTGTGAAACTTAAAATCTTACGAATCTT
*
13713045 TCTTTCTTACGAATCTGAAAGTCCTTACAAACCTTGCACCTTTTTTAAACTTAAAATCTTACGAA
66 TCTTTCTTACGAATCTGAAAGTCCTTACAAACCTTGCACCTTTTTTAAACTTAAAACCTTACGAA
* ****
13713110 TATTTTTT
131 AATTGAAA
* * * **
13713118 TCTTACGAATCTGAAAGTCTTTGCGAACCTTGCACC-TTGTGAAACTTAAAA-CTTGTGAATCTT
1 TCTTACGAATCTGAAAATCCTTGCAAACCTTGCACCTTTGTGAAACTTAAAATCTTACGAATCTT
* * * * * * *
13713181 TCTTTCTTACGAATTTGAAAGTCCTTGCGAACCTTGCATC-TTTTTGAATTTAGAACCTTTAC-A
66 TCTTTCTTACGAATCTGAAAGTCCTTACAAACCTTGCACCTTTTTTAAACTTAAAACC-TTACGA
13713244 AAACTTGAAA
130 AAA-TTGAAA
*
13713254 TCTTACAAATCT
1 TCTTACGAATCT
13713266 TTCTTTCTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
135 16 0.13
136 63 0.50
137 15 0.12
138 31 0.25
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (138 bp):
TCTTACGAATCTGAAAATCCTTGCAAACCTTGCACCTTTGTGAAACTTAAAATCTTACGAATCTT
TCTTTCTTACGAATCTGAAAGTCCTTACAAACCTTGCACCTTTTTTAAACTTAAAACCTTACGAA
AATTGAAA
Found at i:13713324 original size:86 final size:86
Alignment explanation
Indices: 13713175--13713360 Score: 192
Period size: 86 Copynumber: 2.2 Consensus size: 86
13713165 AAAACTTGTG
* * * ** * * * * * * *
13713175 AATCTTTCTTTCTTACGAATTTGAAAGTCCTTGCGAACCTTGCATCTTTTTGAATTTAGAACCTT
1 AATCTTTCTTTCTTACGAATCTAAAAGTCCTTGCAAACCAGGAACCTTTGTAAATCTAAAACCTC
*
13713240 TACAAAACTTGAAATCTTACA
66 TACAAAACTTAAAATCTTACA
* *
13713261 AATCTTTCTTTCTTACGAATCTAAAAGTCTTTGCAAATCAGGAACCTTTGTAAATCTAAAACCTC
1 AATCTTTCTTTCTTACGAATCTAAAAGTCCTTGCAAACCAGGAACCTTTGTAAATCTAAAACCTC
* ** *
13713326 TACGAAGTTTAAAATCTTACG
66 TACAAAACTTAAAATCTTACA
*
13713347 AATCTTTCATTCTT
1 AATCTTTCTTTCTT
13713361 GCAAATTTGA
Statistics
Matches: 80, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (86 bp):
AATCTTTCTTTCTTACGAATCTAAAAGTCCTTGCAAACCAGGAACCTTTGTAAATCTAAAACCTC
TACAAAACTTAAAATCTTACA
Done.