Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 100 of 128
Found at i:33233182 original size:24 final size:24
Alignment explanation
Indices: 33233155--33233202 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
33233145 AGTAACTCAT
33233155 TTCCTTAAAAAAACAAATTACGGG
1 TTCCTTAAAAAAACAAATTACGGG
*
33233179 TTCCTTCAAAAAACAAATTACGGG
1 TTCCTTAAAAAAACAAATTACGGG
33233203 CTACCAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (24 bp):
TTCCTTAAAAAAACAAATTACGGG
Found at i:33233920 original size:8 final size:8
Alignment explanation
Indices: 33233907--33233937 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
33233897 ACAAATATTT
33233907 AATAATAA
1 AATAATAA
33233915 AATAATAA
1 AATAATAA
33233923 AATAATAA
1 AATAATAA
33233931 AATAATA
1 AATAATA
33233938 TATTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:33240658 original size:84 final size:82
Alignment explanation
Indices: 33240552--33240963 Score: 422
Period size: 84 Copynumber: 4.9 Consensus size: 82
33240542 CAAAGGATCC
* * * *
33240552 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGTAACC
1 CGGTGGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGGGGAATCAACACTTAGCAACC
*
33240617 CCTTTCACAATCAAGGATA
65 CCTTT-ACAATCAATGATA
* * * * *
33240636 CGGTGGGATCAGCACTTAGCAACCACCTTATAATCAATGATATGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGGGGAATCAACACTTAGCAACC
*
33240701 CCTTTCACAATCAAAGATA
65 CCTTT-ACAATCAATGATA
* * *
33240720 CGG-GGAATCAGCACATAGCAACCCTTTTCACAATCAAGGATACGGTGGAATCAACACTTAGCAA
1 CGGTGGAATCAGCACATAGCAACCC-CTT-ATAATCAATGATACGG-GGAATCAACACTTAGCAA
*
33240784 CCACC-TTATAATCAATGATA
63 CC-CCTTTACAATCAATGATA
* * * *
33240804 CGG-GGAATCAGCACATACCAACCCCTTTCACAATCAAGGATACGGTGGAATCAGCACTTAGCAA
1 CGGTGGAATCAGCACATAGCAACCCC-TT-ATAATCAATGATACGG-GGAATCAACACTTAGCAA
* *
33240868 CCACC-TTATAATCAATGTTA
63 CC-CCTTTACAATCAATGATA
* * * * *
33240888 CGGT-GAATCAACACATAGCAACCCCTTTTTGATCAATGATTCGGGGAATCTACACTTAGCAACC
1 CGGTGGAATCAGCACATAGCAACCCC-TTATAATCAATGATACGGGGAATCAACACTTAGCAACC
*
33240952 CC-TTACATTCAA
65 CCTTTACAATCAA
33240964 AGAATCCCGG
Statistics
Matches: 291, Mismatches: 31, Indels: 15
0.86 0.09 0.04
Matches are distributed among these distances:
81 10 0.03
82 19 0.07
83 31 0.11
84 209 0.72
85 20 0.07
86 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (82 bp):
CGGTGGAATCAGCACATAGCAACCCCTTATAATCAATGATACGGGGAATCAACACTTAGCAACCC
CTTTACAATCAATGATA
Found at i:33240725 original size:126 final size:126
Alignment explanation
Indices: 33240510--33240955 Score: 521
Period size: 126 Copynumber: 3.5 Consensus size: 126
33240500 CCATTACACA
* ** * ** * *
33240510 GTGGAATCAACACTTAGCAACCACCTCATGTTCAAAGGATCCCGGTGGAATCAACACTTAGCAAC
1 GTGGAATCAACACTTAGCAACCACCTTATAATC-AATGAT-ATGG-GGAATCAGCACATAGCAAC
* * * *
33240575 CACC-TT-ATAATCAATGATACGGGGAATCAACACATAGTAACCCCTTTCACAATCAAGGATACG
63 C-CCTTTCACAATCAAAGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
* *
33240638 GTGGGATCAGCACTTAGCAACCACCTTATAATCAATGATATGGGGAATCAGCACATAGCAACCCC
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATATGGGGAATCAGCACATAGCAACCCC
*
33240703 TTTCACAATCAAAGATACGGGGAATCAGCACATAGCAACCCTTTTCACAATCAAGGATACG
66 TTTCACAATCAAAGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
* *
33240764 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATACCAACCCC
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATATGGGGAATCAGCACATAGCAACCCC
* * * * *
33240829 TTTCACAATCAAGGATACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAATGTTACG
66 TTTCACAATCAAAGATACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACG
* * * *
33240890 GT-GAATCAACACATAGCAACC-CCTTTTTGATCAATGAT-TCGGGGAATCTA-CACTTAGCAAC
1 GTGGAATCAACACTTAGCAACCACC-TTATAATCAATGATAT-GGGGAATC-AGCACATAGCAAC
33240951 CCCTT
63 CCCTT
33240956 ACATTCAAAG
Statistics
Matches: 280, Mismatches: 31, Indels: 17
0.85 0.09 0.05
Matches are distributed among these distances:
124 4 0.01
125 72 0.26
126 149 0.53
127 26 0.09
128 29 0.10
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (126 bp):
GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATATGGGGAATCAGCACATAGCAACCCC
TTTCACAATCAAAGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
Found at i:33249953 original size:45 final size:45
Alignment explanation
Indices: 33249904--33249995 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
33249894 TCGGCCATGG
* *
33249904 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
* * *
33249949 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
33249994 TG
1 TG
33249996 GTGTCTTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
Found at i:33252566 original size:20 final size:20
Alignment explanation
Indices: 33252543--33252616 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
33252533 ATGAGCCGAA
* *
33252543 TTGAGCTCGAATGTGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
33252563 TTGAGCTCGGATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
*
33252583 TTGAGCTCGAATGAACTAAC
1 TTGAGCTCGAATGAGCTAAC
33252603 TTGAGCTCGAATGA
1 TTGAGCTCGAATGA
33252617 ACAAAAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:33255189 original size:11 final size:11
Alignment explanation
Indices: 33255173--33255225 Score: 79
Period size: 11 Copynumber: 4.6 Consensus size: 11
33255163 ATACAAACTC
*
33255173 TTTTTTTTGAA
1 TTTTTTTTCAA
33255184 TTTTTTTTTCAAA
1 -TTTTTTTTC-AA
33255197 TTTTTTTTCAA
1 TTTTTTTTCAA
33255208 TTTTTTTTCAA
1 TTTTTTTTCAA
33255219 TTTTTTT
1 TTTTTTT
33255226 AAAATAGCGT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
11 20 0.51
12 17 0.44
13 2 0.05
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:33255190 original size:12 final size:12
Alignment explanation
Indices: 33255173--33255225 Score: 81
Period size: 12 Copynumber: 4.5 Consensus size: 12
33255163 ATACAAACTC
*
33255173 TTTTTTTTGAAT
1 TTTTTTTTCAAT
*
33255185 TTTTTTTTCAAA
1 TTTTTTTTCAAT
33255197 TTTTTTTTCAA-
1 TTTTTTTTCAAT
33255208 TTTTTTTTCAAT
1 TTTTTTTTCAAT
33255220 TTTTTT
1 TTTTTT
33255226 AAAATAGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 11 0.29
12 27 0.71
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:33256835 original size:10 final size:10
Alignment explanation
Indices: 33256810--33256874 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
33256800 GTTCAAGCTT
33256810 AATGAGC-CG
1 AATGAGCTCG
33256819 AATTGAGCTCG
1 AA-TGAGCTCG
33256830 AATGAGCT-G
1 AATGAGCTCG
*
33256839 ACTTGAGCTCG
1 A-ATGAGCTCG
33256850 AATGAGCT--
1 AATGAGCTCG
33256858 AACTTGAGCTCG
1 AA--TGAGCTCG
33256870 AATGA
1 AATGA
33256875 ACTAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
8 2 0.04
9 4 0.09
10 32 0.70
11 6 0.13
12 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (10 bp):
AATGAGCTCG
Found at i:33256835 original size:20 final size:21
Alignment explanation
Indices: 33256810--33256894 Score: 106
Period size: 20 Copynumber: 4.2 Consensus size: 21
33256800 GTTCAAGCTT
33256810 AATGAGCCGAA-TTGAGCTCG
1 AATGAGCCGAACTTGAGCTCG
*
33256830 AATGAGCTG-ACTTGAGCTCG
1 AATGAGCCGAACTTGAGCTCG
*
33256850 AATGAG-CTAACTTGAGCTCG
1 AATGAGCCGAACTTGAGCTCG
* *
33256870 AATGA-ACTAACTTGAGCTCG
1 AATGAGCCGAACTTGAGCTCG
33256890 AATGA
1 AATGA
33256895 ACTAAAAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.02
20 58 0.98
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (21 bp):
AATGAGCCGAACTTGAGCTCG
Found at i:33256895 original size:20 final size:20
Alignment explanation
Indices: 33256821--33256899 Score: 131
Period size: 20 Copynumber: 4.0 Consensus size: 20
33256811 ATGAGCCGAA
* *
33256821 TTGAGCTCGAATGAGCTGAC
1 TTGAGCTCGAATGAACTAAC
*
33256841 TTGAGCTCGAATGAGCTAAC
1 TTGAGCTCGAATGAACTAAC
33256861 TTGAGCTCGAATGAACTAAC
1 TTGAGCTCGAATGAACTAAC
33256881 TTGAGCTCGAATGAACTAA
1 TTGAGCTCGAATGAACTAA
33256900 AAAATGAGCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAACTAAC
Found at i:33263989 original size:23 final size:23
Alignment explanation
Indices: 33263957--33264000 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33263947 AAAAATGCTA
*
33263957 AAAATCATTTAAAATTAAAAAAT
1 AAAATAATTTAAAATTAAAAAAT
* *
33263980 AAAATAATTTGAATTTAAAAA
1 AAAATAATTTAAAATTAAAAA
33264001 TATATATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATAATTTAAAATTAAAAAAT
Found at i:33267965 original size:21 final size:21
Alignment explanation
Indices: 33267936--33267984 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
33267926 GTTTCTAATA
* *
33267936 TCACCGCTATAGTATCCAATC
1 TCACCGCTACAGTAACCAATC
* *
33267957 TCACTGCTACAGTAACTAATC
1 TCACCGCTACAGTAACCAATC
33267978 TCACCGC
1 TCACCGC
33267985 CACCGCTGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.27
Consensus pattern (21 bp):
TCACCGCTACAGTAACCAATC
Found at i:33273493 original size:25 final size:25
Alignment explanation
Indices: 33273465--33273512 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
33273455 TATGTGTGTC
*
33273465 TATGTTCCAATTGCTCTACCACATA
1 TATGTTCCAATTGCTCCACCACATA
33273490 TATGTTCCAATTGCTCCACCACA
1 TATGTTCCAATTGCTCCACCACA
33273513 ATAAAAGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.33
Consensus pattern (25 bp):
TATGTTCCAATTGCTCCACCACATA
Found at i:33281759 original size:18 final size:18
Alignment explanation
Indices: 33281736--33281798 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
33281726 TGATCATTGG
33281736 AATGTGATGTTATGGTGA
1 AATGTGATGTTATGGTGA
* *
33281754 AATGTGATGTTATGCTTA
1 AATGTGATGTTATGGTGA
33281772 ATTTCATGTGATGTTATGGTGA
1 A----ATGTGATGTTATGGTGA
33281794 AATGT
1 AATGT
33281799 TAACATGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 21 0.57
22 16 0.43
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.43
Consensus pattern (18 bp):
AATGTGATGTTATGGTGA
Found at i:33283449 original size:6 final size:6
Alignment explanation
Indices: 33283438--33283490 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
33283428 TAACTTAACC
* * * * *
33283438 ATTTTT ATTTTT ATTTTT ATTATA ATTTTT GTTTTT AGTTTA ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
33283486 ATTTT
1 ATTTT
33283491 CTAATATTTC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:33283465 original size:18 final size:18
Alignment explanation
Indices: 33283444--33283490 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
33283434 AACCATTTTT
33283444 ATTTTTATTTTTA-TTATA
1 ATTTTTATTTTTAGTT-TA
*
33283462 ATTTTTGTTTTTAGTTTA
1 ATTTTTATTTTTAGTTTA
33283480 ATTTTTATTTT
1 ATTTTTATTTT
33283491 CTAATATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
ATTTTTATTTTTAGTTTA
Found at i:33287466 original size:16 final size:17
Alignment explanation
Indices: 33287433--33287476 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
33287423 GCTTAGATTT
33287433 TATTTTTATTTTAAGTTA
1 TATTTTTATTTT-AGTTA
*
33287451 TATTATTATTTT-GTTA
1 TATTTTTATTTTAGTTA
33287467 TATTTTTATT
1 TATTTTTATT
33287477 ATATTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 13 0.54
18 11 0.46
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
TATTTTTATTTTAGTTA
Found at i:33289092 original size:24 final size:24
Alignment explanation
Indices: 33289065--33289116 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
33289055 AGTTTATTTG
*
33289065 TTTTCCTTTTA-GTTTAATTTTAAT
1 TTTTCATTTTATGTTT-ATTTTAAT
* *
33289089 TTTTTATTTTATGTTTATTTTTAT
1 TTTTCATTTTATGTTTATTTTAAT
33289113 TTTT
1 TTTT
33289117 AGTTATTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTTCATTTTATGTTTATTTTAAT
Found at i:33289093 original size:25 final size:24
Alignment explanation
Indices: 33289071--33289116 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
33289061 TTTGTTTTCC
33289071 TTTTA-GTTTAATTTTAATTTTTTA
1 TTTTATGTTT-ATTTTAATTTTTTA
*
33289095 TTTTATGTTTATTTTTATTTTT
1 TTTTATGTTTATTTTAATTTTT
33289117 AGTTATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTATGTTTATTTTAATTTTTTA
Found at i:33293815 original size:19 final size:19
Alignment explanation
Indices: 33293768--33293817 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
33293758 TTATATAGCC
33293768 ATTAACTTAAGTAAAGTAAT
1 ATTAA-TTAAGTAAAGTAAT
**
33293788 ATTTTTTAAGTAAAGT-AT
1 ATTAATTAAGTAAAGTAAT
33293806 AGTTAATTAAGT
1 A-TTAATTAAGT
33293818 TAATTAGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (19 bp):
ATTAATTAAGTAAAGTAAT
Found at i:33293839 original size:22 final size:21
Alignment explanation
Indices: 33293808--33293852 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
33293798 TAAAGTATAG
*
33293808 TTAATTAAGT-TAATTAGCAAA
1 TTAATTAAGTATAAATAG-AAA
33293829 TTAATCTAAGTATAAATAGAAA
1 TTAAT-TAAGTATAAATAGAAA
33293851 TT
1 TT
33293853 CAAGTGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 10 0.48
23 6 0.29
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (21 bp):
TTAATTAAGTATAAATAGAAA
Found at i:33297102 original size:22 final size:23
Alignment explanation
Indices: 33297053--33297102 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
33297043 ATCAATTCAA
*
33297053 ACCATTTCAAACTACCAAACATT
1 ACCATTTCAAACTACCAAACAAT
*
33297076 ACCATTT-AAAC-ACCAATCAAT
1 ACCATTTCAAACTACCAAACAAT
33297097 AGCCAT
1 A-CCAT
33297103 ATGCATATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
22 8 0.33
23 7 0.29
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.24
Consensus pattern (23 bp):
ACCATTTCAAACTACCAAACAAT
Found at i:33297748 original size:13 final size:13
Alignment explanation
Indices: 33297732--33297764 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
33297722 ATCCATTTCA
*
33297732 CATTTCATATTTT
1 CATTTCACATTTT
33297745 CATTTCACATTTT
1 CATTTCACATTTT
33297758 CATTTCA
1 CATTTCA
33297765 AGTATCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (13 bp):
CATTTCACATTTT
Found at i:33297774 original size:13 final size:13
Alignment explanation
Indices: 33297758--33297814 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
33297748 TTCACATTTT
*
33297758 CATTTCAAGTATC
1 CATTTCAAATATC
*
33297771 CATTTCAAATATG
1 CATTTCAAATATC
* *
33297784 CATTTCATATAAC
1 CATTTCAAATATC
* *
33297797 CATTTTACAT-TC
1 CATTTCAAATATC
33297809 CATTTC
1 CATTTC
33297815 CACCAGATGA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
12 6 0.17
13 29 0.83
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.42
Consensus pattern (13 bp):
CATTTCAAATATC
Found at i:33297897 original size:25 final size:25
Alignment explanation
Indices: 33297857--33297917 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
33297847 ACCTGGGAAC
33297857 AATGCTCACACAAGCTATGACGGTA
1 AATGCTCACACAAGCTATGACGGTA
* ** *
33297882 TATGCTCACATGAGCTATGACTGTA
1 AATGCTCACACAAGCTATGACGGTA
33297907 AATGCTCACAC
1 AATGCTCACAC
33297918 GAACTGTGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (25 bp):
AATGCTCACACAAGCTATGACGGTA
Found at i:33301836 original size:17 final size:17
Alignment explanation
Indices: 33301814--33301847 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33301804 AAGAGAGTTG
33301814 TGAGAGAGGATGA-GAGA
1 TGAGAG-GGATGATGAGA
33301831 TGAGAGGGATGATGAGA
1 TGAGAGGGATGATGAGA
33301848 AATGAGCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.47, T:0.15
Consensus pattern (17 bp):
TGAGAGGGATGATGAGA
Found at i:33316367 original size:17 final size:18
Alignment explanation
Indices: 33316347--33316382 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
33316337 CATAAAAATA
33316347 TAATGAAAAT-AATTTTT
1 TAATGAAAATAAATTTTT
*
33316364 TAATTAAAATAAATTTTT
1 TAATGAAAATAAATTTTT
33316382 T
1 T
33316383 CTCGTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TAATGAAAATAAATTTTT
Found at i:33318352 original size:11 final size:11
Alignment explanation
Indices: 33318336--33318383 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
33318326 ATTACATCTT
33318336 TTAAATGTGTC
1 TTAAATGTGTC
*
33318347 TTAAATATGT-
1 TTAAATGTGTC
33318357 TT-AATGTGTC
1 TTAAATGTGTC
* *
33318367 TTAAAAGTGTT
1 TTAAATGTGTC
33318378 TTAAAT
1 TTAAAT
33318384 TTTGTTCAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 6 0.20
10 4 0.13
11 20 0.67
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (11 bp):
TTAAATGTGTC
Found at i:33326693 original size:8 final size:8
Alignment explanation
Indices: 33326680--33326708 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
33326670 TTTTAAATGA
33326680 TATTTTAT
1 TATTTTAT
33326688 TATTTTAT
1 TATTTTAT
33326696 TATTTTAT
1 TATTTTAT
33326704 TATTT
1 TATTT
33326709 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:33329128 original size:27 final size:27
Alignment explanation
Indices: 33329056--33329240 Score: 141
Period size: 27 Copynumber: 6.9 Consensus size: 27
33329046 ATCTGGACTT
* * *
33329056 AAATACCCCCGAAGGGTAAAATGATCA
1 AAATACCCTCGATGGGTAAAATGATCG
** * *
33329083 AAATACCCTTAAAGAGTAAAATGATCG
1 AAATACCCTCGATGGGTAAAATGATCG
33329110 AAATACCCTCGATGGGTAAAATGA-CTG
1 AAATACCCTCGATGGGTAAAATGATC-G
* *
33329137 GAATACCTTCGATGGGTAAAATGA-CTG
1 AAATACCCTCGATGGGTAAAATGATC-G
* * *
33329164 AAATGCCC-CCATAGGGTGAAATGATCG
1 AAATACCCTCGAT-GGGTAAAATGATCG
* *
33329191 AAATACCCTC-TTAGGGTAGAAT-ACTC-
1 AAATACCCTCGAT-GGGTAAAATGA-TCG
33329217 AAATACCCTC-ATAGGGTAAAATGA
1 AAATACCCTCGAT-GGGTAAAATGA
33329241 CCATAATACC
Statistics
Matches: 130, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
26 25 0.19
27 103 0.79
28 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (27 bp):
AAATACCCTCGATGGGTAAAATGATCG
Found at i:33329167 original size:54 final size:55
Alignment explanation
Indices: 33329051--33329241 Score: 164
Period size: 54 Copynumber: 3.5 Consensus size: 55
33329041 TCGATATCTG
* * * * * *
33329051 GACTTAAATACCCCCGA-AGGGTAAAATGA-TCAAAATACCCTTAAAGAGTAAAAT
1 GACTGAAATACCCTC-ATAGGGTAAAATGACTCGAAATACCCTCATAGGGTAAAAT
* *
33329105 GA-TCGAAATACCCTCGAT-GGGTAAAATGACT-GGAATACCTTCGAT-GGGTAAAAT
1 GACT-GAAATACCCTC-ATAGGGTAAAATGACTCGAAATACCCTC-ATAGGGTAAAAT
* * * * *
33329159 GACTGAAATGCCCCCATAGGGTGAAATGA-TCGAAATACCCTCTTAGGGTAGAAT
1 GACTGAAATACCCTCATAGGGTAAAATGACTCGAAATACCCTCATAGGGTAAAAT
*
33329213 -ACTCAAATACCCTCATAGGGTAAAATGAC
1 GACTGAAATACCCTCATAGGGTAAAATGAC
33329242 CATAATACCC
Statistics
Matches: 109, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
53 29 0.27
54 77 0.71
55 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (55 bp):
GACTGAAATACCCTCATAGGGTAAAATGACTCGAAATACCCTCATAGGGTAAAAT
Found at i:33329252 original size:27 final size:27
Alignment explanation
Indices: 33329068--33329360 Score: 120
Period size: 27 Copynumber: 10.9 Consensus size: 27
33329058 ATACCCCCGA
* * * *
33329068 AGGGTAAAATGATCAAAATACCCTTAA
1 AGGGTAAAATGACCATAATACCCTCAT
* *
33329095 AGAGTAAAATGATCGA-AATACCCTCGAT
1 AGGGTAAAATGA-CCATAATACCCTC-AT
*** *
33329123 -GGGTAAAATGACTGGAATACCTTCGAT
1 AGGGTAAAATGACCATAATACCCTC-AT
* * *
33329150 -GGGTAAAATGACTGA-AATGCCCCCAT
1 AGGGTAAAATGAC-CATAATACCCTCAT
* * *
33329176 AGGGTGAAATGATCGA-AATACCCTCTT
1 AGGGTAAAATGA-CCATAATACCCTCAT
*
33329203 AGGGTAGAAT-ACTCA-AATACCCTCAT
1 AGGGTAAAATGAC-CATAATACCCTCAT
**
33329229 AGGGTAAAATGACCATAATACCCTTGT
1 AGGGTAAAATGACCATAATACCCTCAT
* * *** *
33329256 AGAGTAAAATAATTGTAATAACCCT-GT
1 AGGGTAAAATGACCATAAT-ACCCTCAT
* * * *
33329283 AGAGTAAAATGACCGTAATGCCC-CTGT
1 AGGGTAAAATGACCATAATACCCTC-AT
* * *
33329310 AGGGTAAAATGATCGTAATGCCC-CTAT
1 AGGGTAAAATGACCATAATACCCTC-AT
* * *
33329337 AAGGTAAAATGACCGTAATGCCCT
1 AGGGTAAAATGACCATAATACCCT
33329361 GGTGGGTAAA
Statistics
Matches: 214, Mismatches: 39, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 29 0.14
27 176 0.82
28 8 0.04
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
AGGGTAAAATGACCATAATACCCTCAT
Found at i:33329293 original size:54 final size:54
Alignment explanation
Indices: 33329221--33329360 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 54
33329211 ATACTCAAAT
* * * *
33329221 ACCCTCATAGGGTAAAATGACCATAATACCCTTGTAGAGTAAAATAATTGTAATA
1 ACCCT-ATAAGGTAAAATGACCGTAATGCCCTTGTAGAGTAAAATAATCGTAATA
* * * * *
33329276 ACCCTGT-AGAGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATG
1 ACCCTATAAG-GTAAAATGACCGTAATGCCCTTGTAGAGTAAAATAATCGTAATA
*
33329330 CCCCTATAAGGTAAAATGACCGTAATGCCCT
1 ACCCTATAAGGTAAAATGACCGTAATGCCCT
33329361 GGTGGGTAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
53 1 0.01
54 63 0.89
55 7 0.10
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (54 bp):
ACCCTATAAGGTAAAATGACCGTAATGCCCTTGTAGAGTAAAATAATCGTAATA
Found at i:33329691 original size:32 final size:32
Alignment explanation
Indices: 33329647--33329893 Score: 202
Period size: 32 Copynumber: 7.7 Consensus size: 32
33329637 GTTGCAATGC
* *
33329647 TACTGATTGCTTTGTGCCAATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
*
33329679 TACTGATGGCTTTGTACCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * **
33329711 TACTGATGGCTTTATGCCGATCATATTAATGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* *
33329743 TACTGATGG-TTGTGTGCCGATCAT-TTCACTGT
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACCGT
* **
33329775 TACTGATGGCTGTGTGCCGATCATA--ACATT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * *
33329805 ACTACTAATGGTTTTGTACCGATCAT-GTTA-CGAT
1 --TACTGATGGCTTTGTGCCGATCATAG-TACCG-T
* ***
33329839 TACTGATGGCTGTGTGCCGATCATA-TCACTAC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
*
33329871 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
33329894 CATTACTGTA
Statistics
Matches: 174, Mismatches: 28, Indels: 26
0.76 0.12 0.11
Matches are distributed among these distances:
30 3 0.02
31 5 0.03
32 163 0.94
33 1 0.01
34 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCGT
Found at i:33329734 original size:64 final size:62
Alignment explanation
Indices: 33329647--33329885 Score: 225
Period size: 64 Copynumber: 3.7 Consensus size: 62
33329637 GTTGCAATGC
* * * *
33329647 TACTGATTGCTTTGTGCCAATCATAGTACCGTTACTGATGGCTTTGTACCGATCATAGTACCGT
1 TACTGATGGCTGTGTGCCGATCATA-TACTGTTACTGATGGCTTTGTACCGATCAT-GTACCGT
* * * * * *
33329711 TACTGATGGCTTTATGCCGATCATATTAATGTTACTGATGG-TTGTGTGCCGATCATTTCACTGT
1 TACTGATGGCTGTGTGCCGATCATA-TACTGTTACTGATGGCTT-TGTACCGATCATGT-ACCGT
* *
33329775 TACTGATGGCTGTGTGCCGATCATA-ACAT-TACTACTAATGGTTTTGTACCGATCATGTTA-CG
1 TACTGATGGCTGTGTGCCGATCATATAC-TGT--TACTGATGGCTTTGTACCGATCATG-TACCG
33329837 AT
62 -T
**
33329839 TACTGATGGCTGTGTGCCGATCATATCACTACTACTGATGGCTTTGT
1 TACTGATGGCTGTGTGCCGATCATAT-ACTGTTACTGATGGCTTTGT
33329886 GCCAATCACA
Statistics
Matches: 145, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
62 2 0.01
63 5 0.03
64 132 0.91
65 4 0.03
66 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (62 bp):
TACTGATGGCTGTGTGCCGATCATATACTGTTACTGATGGCTTTGTACCGATCATGTACCGT
Found at i:33329940 original size:22 final size:22
Alignment explanation
Indices: 33329915--33329969 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
33329905 TTATGGATTG
*
33329915 TAGCCATTCTGTTTATAGCT-T
1 TAGCCATTCTGTTTACAGCTCT
* * *
33329936 ATAGCTATCCTATTTACAGCTCT
1 -TAGCCATTCTGTTTACAGCTCT
33329959 TAGCCATTCTG
1 TAGCCATTCTG
33329970 ACTACTGGCA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.42
Consensus pattern (22 bp):
TAGCCATTCTGTTTACAGCTCT
Found at i:33334025 original size:42 final size:42
Alignment explanation
Indices: 33333941--33334083 Score: 180
Period size: 42 Copynumber: 3.4 Consensus size: 42
33333931 GGCTCAGTAC
** * **
33333941 CTAGCAGGCTTGTTGCCAATGAAAT-CTTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAATAAATTCAGACTTTACGT
*
33333982 CTAGCAGGCTTAATGCCGATGAAGTAAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAATAAATTCAGACTTTACGT
* * * *
33334024 CTAGCAGGCTTAATGCTGGTGAAATAAATTCGGACTATACGT
1 CTAGCAGGCTTAATGCCGATGAAATAAATTCAGACTTTACGT
*
33334066 CTAGCAGGCTTAAAGCCG
1 CTAGCAGGCTTAATGCCG
33334084 GTGTACTGAA
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 21 0.24
42 67 0.76
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCGATGAAATAAATTCAGACTTTACGT
Found at i:33336231 original size:21 final size:19
Alignment explanation
Indices: 33336185--33336259 Score: 132
Period size: 19 Copynumber: 3.8 Consensus size: 19
33336175 AATCTTCAAG
33336185 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33336204 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33336223 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
33336244 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
33336260 AGATATGATT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
19 35 0.65
21 19 0.35
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33336281 original size:23 final size:22
Alignment explanation
Indices: 33336185--33336282 Score: 95
Period size: 19 Copynumber: 4.7 Consensus size: 22
33336175 AATCTTCAAG
33336185 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
33336204 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
33336226 -ATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
33336244 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
33336266 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
33336283 GATTTAATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.03
19 28 0.42
21 15 0.22
22 10 0.15
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:33344897 original size:48 final size:48
Alignment explanation
Indices: 33344837--33344932 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
33344827 AACACACCAT
*
33344837 TTGTGGACAAGCCACCATATAAATATCGATAAACAACCAAATAA-CACA
1 TTGTGGACAAGCCACCACATAAATATCGAT-AACAACCAAATAATCACA
* * * *
33344885 TTGTGGATAAGCCACCACATAATTGTCGATAACAACCACATAATCACA
1 TTGTGGACAAGCCACCACATAAATATCGATAACAACCAAATAATCACA
33344933 AATAAACTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
47 12 0.29
48 30 0.71
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.21
Consensus pattern (48 bp):
TTGTGGACAAGCCACCACATAAATATCGATAACAACCAAATAATCACA
Found at i:33344924 original size:21 final size:22
Alignment explanation
Indices: 33344884--33344928 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
33344874 CAAATAACAC
* *
33344884 ATTGTGGATAAGCCACCACATA
1 ATTGTCGATAAGCAACCACATA
33344906 ATTGTCGATAA-CAACCACATA
1 ATTGTCGATAAGCAACCACATA
33344927 AT
1 AT
33344929 CACAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (22 bp):
ATTGTCGATAAGCAACCACATA
Found at i:33357262 original size:18 final size:18
Alignment explanation
Indices: 33357240--33357283 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
33357230 TTTTCTCTCA
*
33357240 CTTTTTCGATCTCTTTTT
1 CTTTTTCAATCTCTTTTT
* * *
33357258 GTTTTGCAATTTCTTTTT
1 CTTTTTCAATCTCTTTTT
33357276 CTTTTTCA
1 CTTTTTCA
33357284 TTTTCGTTTT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.07, T:0.66
Consensus pattern (18 bp):
CTTTTTCAATCTCTTTTT
Found at i:33357288 original size:18 final size:18
Alignment explanation
Indices: 33357251--33357308 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
33357241 TTTTTCGATC
* * *
33357251 TCTTTTTGTTTTGCAATT
1 TCTTTTTCTTTTTCATTT
33357269 TCTTTTTCTTTTTCATTT
1 TCTTTTTCTTTTTCATTT
*
33357287 TCGTTTTCTTGTTT--TTT
1 TCTTTTTCTT-TTTCATTT
33357304 TCTTT
1 TCTTT
33357309 CAATTTCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 7 0.21
18 24 0.71
19 3 0.09
ACGTcount: A:0.05, C:0.14, G:0.07, T:0.74
Consensus pattern (18 bp):
TCTTTTTCTTTTTCATTT
Found at i:33357321 original size:6 final size:6
Alignment explanation
Indices: 33357267--33357308 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
33357257 TGTTTTGCAA
* * *
33357267 TTTCTT TTTCTT TTTCAT TTTCGT TTTCTT GTT-TT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
33357309 CAATTTCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:33357359 original size:21 final size:21
Alignment explanation
Indices: 33357304--33357351 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
33357294 CTTGTTTTTT
33357304 TCTTTCAATTTCTTTTTCCAC
1 TCTTTCAATTTCTTTTTCCAC
33357325 TCTTTCAATTTCTTTTTCCAC
1 TCTTTCAATTTCTTTTTCCAC
33357346 TCTTTC
1 TCTTTC
33357352 TTTTTCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.58
Consensus pattern (21 bp):
TCTTTCAATTTCTTTTTCCAC
Found at i:33357389 original size:22 final size:21
Alignment explanation
Indices: 33357348--33357389 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
33357338 TTTTCCACTC
*
33357348 TTTCTTTTTCTTCTCTTTCAA
1 TTTCTTTTCCTTCTCTTTCAA
*
33357369 TTTCTTGTTCCTTTTCTTTCA
1 TTTCTT-TTCCTTCTCTTTCA
33357390 TCTTTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTCTTTTCCTTCTCTTTCAA
Found at i:33360621 original size:55 final size:56
Alignment explanation
Indices: 33360536--33360646 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 56
33360526 AAAACTTTTT
33360536 ACATTCATCAATTCATACTTGCACAAATTCATGGATTTTCCACAAAGCGTTAATTG
1 ACATTCATCAATTCATACTTGCACAAATTCATGGATTTTCCACAAAGCGTTAATTG
33360592 ACATTCATC-ATTCATACTTGCACAAATTCATGGATTTTCCACAAAGCGTTAATTG
1 ACATTCATCAATTCATACTTGCACAAATTCATGGATTTTCCACAAAGCGTTAATTG
33360647 GTGCACAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 46 0.84
56 9 0.16
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (56 bp):
ACATTCATCAATTCATACTTGCACAAATTCATGGATTTTCCACAAAGCGTTAATTG
Found at i:33362542 original size:15 final size:16
Alignment explanation
Indices: 33362519--33362559 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
33362509 CTCACAAGAC
*
33362519 TTTTCACTTC-TTTTT
1 TTTTCACTTCGATTTT
*
33362534 TTTTTACTTCGATTTT
1 TTTTCACTTCGATTTT
33362550 TTTTCACTTC
1 TTTTCACTTC
33362560 AAATACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.10, C:0.20, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTTCACTTCGATTTT
Found at i:33362646 original size:28 final size:26
Alignment explanation
Indices: 33362606--33362672 Score: 68
Period size: 28 Copynumber: 2.6 Consensus size: 26
33362596 TCATGAAATC
*
33362606 CTCTTCTCTTTTTT-TTCAATTTTTTT
1 CTCTTCTCTTTTTTGCTC-ATTTTTTT
33362632 CTCTCTCTCTTTTTTTGCTCATTTTTTT
1 CTCT-TCTC-TTTTTTGCTCATTTTTTT
*
33362660 CACTT-T-TTTTTTG
1 CTCTTCTCTTTTTTG
33362673 AATTTTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 7 0.19
26 5 0.14
27 5 0.14
28 17 0.47
29 2 0.06
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.70
Consensus pattern (26 bp):
CTCTTCTCTTTTTTGCTCATTTTTTT
Found at i:33362656 original size:27 final size:26
Alignment explanation
Indices: 33362606--33362660 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 26
33362596 TCATGAAATC
33362606 CTCTTCTCTTTTTTTTCAATTTTTTT
1 CTCTTCTCTTTTTTTTCAATTTTTTT
33362632 CTCTCTCTCTTTTTTTGCTC-ATTTTTTT
1 CTCT-TCTCTTTTTTT--TCAATTTTTTT
33362660 C
1 C
33362661 ACTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 4 0.15
27 11 0.42
28 9 0.35
29 2 0.08
ACGTcount: A:0.05, C:0.24, G:0.02, T:0.69
Consensus pattern (26 bp):
CTCTTCTCTTTTTTTTCAATTTTTTT
Found at i:33365160 original size:24 final size:22
Alignment explanation
Indices: 33365108--33365162 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
33365098 TTCGGCTACT
*
33365108 GATGTGTTCACACAACAATTAAA
1 GATG-GTTCACACAAAAATTAAA
*
33365131 -AGGGTTCACACTAAAACATTAAA
1 GATGGTTCACAC-AAAA-ATTAAA
33365154 GATGGTTCA
1 GATGGTTCA
33365163 TGAATTCGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 8 0.31
22 5 0.19
23 6 0.23
24 7 0.27
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (22 bp):
GATGGTTCACACAAAAATTAAA
Found at i:33365850 original size:27 final size:27
Alignment explanation
Indices: 33365820--33365871 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
33365810 TCATTGAAGC
*
33365820 ATCTTCATTGCTGTCCATGCATGTATT
1 ATCTTCAATGCTGTCCATGCATGTATT
33365847 ATCTTCAATGCTGTCCATGCATGTA
1 ATCTTCAATGCTGTCCATGCATGTA
33365872 CCTACAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (27 bp):
ATCTTCAATGCTGTCCATGCATGTATT
Found at i:33367978 original size:18 final size:18
Alignment explanation
Indices: 33367957--33367991 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33367947 TTTTTATTTT
33367957 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
33367975 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
33367992 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:33368042 original size:18 final size:18
Alignment explanation
Indices: 33368021--33368105 Score: 55
Period size: 18 Copynumber: 4.4 Consensus size: 18
33368011 TTTTCTCTCA
33368021 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
** *
33368039 CTTTAGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
33368057 CATTTTCTCGCTCGCGCTCTTTTT
1 C-TTTT-TCGAT----TTCTTTTT
33368081 CTTTTTC-ACTTTCTTTTT
1 CTTTTTCGA-TTTCTTTTT
33368099 CTTTTTC
1 CTTTTTC
33368106 TTCTTTTTCA
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
18 30 0.60
19 3 0.06
20 2 0.04
22 3 0.06
23 4 0.08
24 8 0.16
ACGTcount: A:0.07, C:0.24, G:0.06, T:0.64
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:33368119 original size:6 final size:6
Alignment explanation
Indices: 33368074--33368107 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
33368064 TCGCTCGCGC
**
33368074 TCTTTT TCTTTT TCACTT TCTTTT TCTTTT TCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT
33368108 CTTTTTCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:33372461 original size:22 final size:18
Alignment explanation
Indices: 33372423--33372477 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 18
33372413 ATAACAATGT
33372423 TAACAA-TATACTAAAATA
1 TAACAATTA-ACTAAAATA
33372441 TTAATCATATTAATCTAAAATA
1 -TAA-CA-ATTAA-CTAAAATA
33372463 TAACAATTAACTAAA
1 TAACAATTAACTAAA
33372478 GGAAAAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
18 5 0.16
19 8 0.25
20 4 0.12
21 5 0.16
22 10 0.31
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (18 bp):
TAACAATTAACTAAAATA
Found at i:33375728 original size:22 final size:23
Alignment explanation
Indices: 33375703--33375754 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
33375693 TCGACAAGCC
33375703 ACCACATAATTGTC-GATAAA-TG
1 ACCACATAATT-TCAGATAAACTG
*
33375725 ACCACCTAATTTCAGATAAACTG
1 ACCACATAATTTCAGATAAACTG
33375748 -CCACATA
1 ACCACATA
33375755 TCTTCCTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (23 bp):
ACCACATAATTTCAGATAAACTG
Found at i:33378277 original size:54 final size:54
Alignment explanation
Indices: 33378167--33378306 Score: 244
Period size: 54 Copynumber: 2.6 Consensus size: 54
33378157 GCATGCCTTA
33378167 GGTCTAGCACATCTGCTATTCTGGATTTGCAACTCAACTAGCATGCCCTACCAGT
1 GGTCTAGCACATCTGCTATTCTGG-TTTGCAACTCAACTAGCATGCCCTACCAGT
* * *
33378222 GGTCTAGCACATATGCTATTCTGGTTTGCAACTCAACTAGCATGCCTTACTAGT
1 GGTCTAGCACATCTGCTATTCTGGTTTGCAACTCAACTAGCATGCCCTACCAGT
33378276 GGTCTAGCACATCTGCTATTCTGGTTTGCAA
1 GGTCTAGCACATCTGCTATTCTGGTTTGCAA
33378307 ATAACAAGCC
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
54 58 0.72
55 23 0.28
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (54 bp):
GGTCTAGCACATCTGCTATTCTGGTTTGCAACTCAACTAGCATGCCCTACCAGT
Found at i:33379914 original size:63 final size:63
Alignment explanation
Indices: 33379847--33380049 Score: 152
Period size: 63 Copynumber: 3.1 Consensus size: 63
33379837 AAATTCATAT
33379847 ATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTTTACCGAAATTA
1 ATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTTTACCGAAATTA
* * * * * *
33379910 ATTAA-TATAATTGTTT--ATATTAATA--AA-TTCGGTAA-TATATAATTAATATTTTGTA-TG
1 ATTAATTAT-ATTCTTTCCAAAATAATATTAATTTC--CAAGTCT-T--TT-ATATTTT-TACCG
33379967 AATCAAATTCATA
58 ----AAA-T--TA
33379980 TATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTTTACCGAAATTA
1 -ATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTTTACCGAAATTA
33380044 ATTAAT
1 ATTAAT
33380050 ATAATTGTTT
Statistics
Matches: 104, Mismatches: 12, Indels: 48
0.63 0.07 0.29
Matches are distributed among these distances:
58 3 0.03
59 4 0.04
60 3 0.03
61 7 0.07
62 5 0.05
63 25 0.24
64 4 0.04
66 1 0.01
67 6 0.06
68 1 0.01
70 4 0.04
71 19 0.18
72 5 0.05
73 7 0.07
74 3 0.03
75 4 0.04
76 3 0.03
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.47
Consensus pattern (63 bp):
ATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTTTACCGAAATTA
Found at i:33379918 original size:71 final size:71
Alignment explanation
Indices: 33379838--33380052 Score: 184
Period size: 71 Copynumber: 3.1 Consensus size: 71
33379828 GTATGAATCA
*
33379838 AATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTTTACC
1 AATTAATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTTTACC
33379903 GAAATT
66 GAAATT
** ** ** * ** *
33379909 AATTAATATAATTGTTTATATT-AAT---AAAT--TCGGTAATAT---A-TAATTAATATTTTGT
1 AATTAATAT-ATTAATTATATTCTTTCCAAAATAAT-ATTAATTTCCAAGTCTTTTATATTTT-T
* *
33379964 A-TG-AATCA
63 ACCGAAAT-T
*
33379972 AATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTTTACC
1 AATTAATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTTTACC
33380037 GAAATT
66 GAAATT
33380043 AATTAATATA
1 AATTAATATA
33380053 ATTGTTTATA
Statistics
Matches: 101, Mismatches: 27, Indels: 32
0.63 0.17 0.20
Matches are distributed among these distances:
62 13 0.13
63 20 0.20
64 3 0.03
66 5 0.05
67 10 0.10
68 5 0.05
70 3 0.03
71 29 0.29
72 13 0.13
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (71 bp):
AATTAATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTTTACC
GAAATT
Found at i:33380011 original size:134 final size:136
Alignment explanation
Indices: 33379767--33380129 Score: 631
Period size: 134 Copynumber: 2.7 Consensus size: 136
33379757 TGTTAACCTT
* *
33379767 AATTAATCAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTAT
1 AATTAATTAATATAATTGTTTATATTAATAAATTTGGT-AAATATATA-AATTAATATTTTGTAT
33379832 GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATT
64 GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATT
33379897 TTTACCGA
129 TTTACCGA
*
33379905 AATTAATTAATATAATTGTTTATATTAATAAATTCGGT-AATATAT-AATTAATATTTTGTATGA
1 AATTAATTAATATAATTGTTTATATTAATAAATTTGGTAAATATATAAATTAATATTTTGTATGA
33379968 ATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTT
66 ATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTT
33380033 TACCGA
131 TACCGA
*
33380039 AATTAATTAATATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTTTAT
1 AATTAATTAATATAATTGTTTATATTAATAAATTTGGT-AAATATATA-AATTAATATTTTGTAT
*
33380104 GAATCGAATTCATATATTAATTATAT
64 GAATCAAATTCATATATTAATTATAT
33380130 ATATATTCTC
Statistics
Matches: 215, Mismatches: 6, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
134 126 0.59
136 14 0.07
138 75 0.35
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (136 bp):
AATTAATTAATATAATTGTTTATATTAATAAATTTGGTAAATATATAAATTAATATTTTGTATGA
ATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAAGTCTTTTATATTTT
TACCGA
Found at i:33380289 original size:12 final size:12
Alignment explanation
Indices: 33380272--33380297 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33380262 CTTCGTTTCA
33380272 ACTAAATACAAT
1 ACTAAATACAAT
33380284 ACTAAATACAAT
1 ACTAAATACAAT
33380296 AC
1 AC
33380298 AAGACCCTAT
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:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (12 bp):
ACTAAATACAAT
Found at i:33382254 original size:12 final size:12
Alignment explanation
Indices: 33382230--33382271 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
33382220 CATTTACTTA
33382230 ATTTTAGGTTTTT
1 ATTTTA-GTTTTT
33382243 ATTTTAGTTTTT
1 ATTTTAGTTTTT
*
33382255 ATTTTAGTTTTC
1 ATTTTAGTTTTT
33382267 ATTTT
1 ATTTT
33382272 CTTTCCAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 22 0.79
13 6 0.21
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (12 bp):
ATTTTAGTTTTT
Found at i:33384917 original size:20 final size:20
Alignment explanation
Indices: 33384894--33384936 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
33384884 ACTTGATGAA
* *
33384894 AGGTATCGATACTTTTTTAT
1 AGGTATCAAAACTTTTTTAT
*
33384914 AGGTATCAAAACTTTTTTTT
1 AGGTATCAAAACTTTTTTAT
33384934 AGG
1 AGG
33384937 GGGTTGCGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (20 bp):
AGGTATCAAAACTTTTTTAT
Found at i:33388060 original size:12 final size:12
Alignment explanation
Indices: 33388029--33388061 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
33388019 CATTCATATG
33388029 TCCAAAACACAT
1 TCCAAAACACAT
33388041 T-C-AAACACAT
1 TCCAAAACACAT
33388051 TCCAAAACACA
1 TCCAAAACACA
33388062 CCAAATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.47
11 2 0.11
12 8 0.42
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (12 bp):
TCCAAAACACAT
Found at i:33388755 original size:15 final size:15
Alignment explanation
Indices: 33388721--33388765 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
33388711 TATTATTTTT
33388721 ATAACCTTTTCCATCA
1 ATAACCTTTT-CATCA
*
33388737 ATAACCTTTTCATCG
1 ATAACCTTTTCATCA
*
33388752 ATAACTTTTTCATC
1 ATAACCTTTTCATC
33388766 CTTTTCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.42
Consensus pattern (15 bp):
ATAACCTTTTCATCA
Found at i:33400313 original size:13 final size:12
Alignment explanation
Indices: 33400264--33400306 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
33400254 CTTTCTCTTC
33400264 TTTTTTTCAATT
1 TTTTTTTCAATT
*
33400276 TTTTTTTCAAAT
1 TTTTTTTCAATT
*
33400288 TTTTTTTGAATT
1 TTTTTTTCAATT
33400300 TTTTTTT
1 TTTTTTT
33400307 TGAATTTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTTTCAATT
Found at i:33401850 original size:77 final size:77
Alignment explanation
Indices: 33401684--33401839 Score: 240
Period size: 77 Copynumber: 2.0 Consensus size: 77
33401674 AAGAAGTTGA
*
33401684 AAATGTGCAGCTCGTCTCTAAGCTCTTTGCTATCATTTTCCTCAATTCAGCCCACCATTGCTAAA
1 AAATGTTCAGCTCGTCTCTAAGCTCTTTGCTATCATTTTCCTCAATTCAGCCCACCATTGCTAAA
33401749 ATAGCATCTTTG
66 ATAGCATCTTTG
* * * *** *
33401761 AAATGTTCAGCTCGTTTCTAGGCTCTTTGCTATCATTTTCCTTAATTCCTTCCACCATTGCTGAA
1 AAATGTTCAGCTCGTCTCTAAGCTCTTTGCTATCATTTTCCTCAATTCAGCCCACCATTGCTAAA
33401826 ATAGCATCTTTG
66 ATAGCATCTTTG
33401838 AA
1 AA
33401840 TCGTTTAGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.38
Consensus pattern (77 bp):
AAATGTTCAGCTCGTCTCTAAGCTCTTTGCTATCATTTTCCTCAATTCAGCCCACCATTGCTAAA
ATAGCATCTTTG
Found at i:33405646 original size:15 final size:15
Alignment explanation
Indices: 33405606--33405677 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
33405596 TATTATTTGT
*
33405606 ATAACCTTTTCAATCA
1 ATAACCTTTTC-ATCG
33405622 ATAACCTTTTCATCG
1 ATAACCTTTTCATCG
*
33405637 ATAGCCTTTTCATCG
1 ATAACCTTTTCATCG
* *
33405652 GTAACCTTTTTCATCA
1 ATAACC-TTTTCATCG
*
33405668 ATAACATTTT
1 ATAACCTTTT
33405678 AATCCTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
15 25 0.52
16 23 0.48
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.42
Consensus pattern (15 bp):
ATAACCTTTTCATCG
Found at i:33406792 original size:10 final size:9
Alignment explanation
Indices: 33406761--33406822 Score: 58
Period size: 10 Copynumber: 6.9 Consensus size: 9
33406751 TTTTTATGTT
*
33406761 TTAAATATA
1 TTAATTATA
33406770 TTAA-TATA
1 TTAATTATA
*
33406778 TTATTTA-A
1 TTAATTATA
33406786 TTATATTATA
1 TTA-ATTATA
33406796 TTATATTATA
1 TTA-ATTATA
33406806 TTATATTATA
1 TTA-ATTATA
33406816 TT-ATTAT
1 TTAATTAT
33406823 GTAAAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
8 16 0.33
9 9 0.19
10 23 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTAATTATA
Found at i:33406795 original size:5 final size:5
Alignment explanation
Indices: 33406766--33406819 Score: 80
Period size: 5 Copynumber: 11.6 Consensus size: 5
33406756 ATGTTTTAAA
33406766 TATAT TA-A- TATAT TAT-T TA-AT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
33406812 TATAT TAT
1 TATAT TAT
33406820 TATGTAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.04
4 8 0.18
5 35 0.78
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:33407994 original size:39 final size:41
Alignment explanation
Indices: 33407949--33408043 Score: 104
Period size: 45 Copynumber: 2.3 Consensus size: 41
33407939 TGCCGACTAT
* *
33407949 TGTTACTGTTAT-C-GATTCGGCACTTTGTGTGTCGAATAC
1 TGTTACTGTTATACAAATTCAGCACTTTGTGTGTCGAATAC
* *
33407988 TGTTACTGCTATTGTTACAAATTCAGCACTTTGTGTGTTGAATAC
1 TGTTACTG---TT-ATACAAATTCAGCACTTTGTGTGTCGAATAC
33408033 TGTTACTGTTA
1 TGTTACTGTTA
33408044 CTGTTACTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
39 8 0.18
42 4 0.09
43 1 0.02
44 1 0.02
45 31 0.69
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (41 bp):
TGTTACTGTTATACAAATTCAGCACTTTGTGTGTCGAATAC
Found at i:33408019 original size:45 final size:45
Alignment explanation
Indices: 33407963--33408050 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
33407953 ACTGTTATCG
* *
33407963 ATTCGGCACTTTGTGTGTCGAATACTGTTACTGCTATTGTTACAA
1 ATTCAGCACTTTGTGTGTCGAATACTGTTACTGCTACTGTTACAA
* *
33408008 ATTCAGCACTTTGTGTGTTGAATACTGTTACTGTTACTGTTAC
1 ATTCAGCACTTTGTGTGTCGAATACTGTTACTGCTACTGTTAC
33408051 TGTTACTGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (45 bp):
ATTCAGCACTTTGTGTGTCGAATACTGTTACTGCTACTGTTACAA
Found at i:33408041 original size:6 final size:6
Alignment explanation
Indices: 33408030--33408079 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
33408020 GTGTGTTGAA
* *
33408030 TACTGT TACTGT TACTGT TACTGT TACTGC TACCGT TACTGAT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT
33408079 T
1 T
33408080 TACTAGTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:33415299 original size:29 final size:29
Alignment explanation
Indices: 33415257--33415328 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
33415247 TGTGTTAGAA
*
33415257 AGAAAATGAGAGAAGAAAAATATGTTGAG
1 AGAAAATGAGAGAAGAAAAAGATGTTGAG
* *
33415286 AGAAAATGGGAGAAGAAAAAGATGTTGGG
1 AGAAAATGAGAGAAGAAAAAGATGTTGAG
*
33415315 AGAAATTGAGAGAA
1 AGAAAATGAGAGAA
33415329 TTTTGATAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.53, C:0.00, G:0.32, T:0.15
Consensus pattern (29 bp):
AGAAAATGAGAGAAGAAAAAGATGTTGAG
Found at i:33418260 original size:24 final size:25
Alignment explanation
Indices: 33418228--33418287 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
33418218 TGATTTAGAA
* *
33418228 TTCGGTTTTA-TTTAAAAT-ATTTAT
1 TTCGATTTTATTTTAAAATGATTT-C
*
33418252 TTCGATTTTAATTTTAAATTGATTTC
1 TTCGATTTT-ATTTTAAAATGATTTC
33418278 TTCGATTTTA
1 TTCGATTTTA
33418288 CCTTAGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 8 0.27
25 2 0.07
26 16 0.53
27 4 0.13
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.58
Consensus pattern (25 bp):
TTCGATTTTATTTTAAAATGATTTC
Found at i:33418267 original size:26 final size:26
Alignment explanation
Indices: 33418238--33418287 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
33418228 TTCGGTTTTA
*
33418238 TTTAAAAT-ATTTATTTCGATTTTAAT
1 TTTAAAATGATTT-CTTCGATTTTAAT
*
33418264 TTTAAATTGATTTCTTCGATTTTA
1 TTTAAAATGATTTCTTCGATTTTA
33418288 CCTTAGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTAAAATGATTTCTTCGATTTTAAT
Found at i:33418564 original size:23 final size:23
Alignment explanation
Indices: 33418538--33418612 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
33418528 TCGAGATTTT
33418538 TTTATCACCCCTAATTGCATCAA
1 TTTATCACCCCTAATTGCATCAA
** * * **
33418561 TTTATC-GTCCAAATTCGAGAT-TT
1 TTTATCACCCCTAATT-G-CATCAA
33418584 TTTATCACCCCTAATTGCATCAA
1 TTTATCACCCCTAATTGCATCAA
33418607 TTTATC
1 TTTATC
33418613 GTCCATTTTA
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
22 8 0.22
23 20 0.56
24 8 0.22
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (23 bp):
TTTATCACCCCTAATTGCATCAA
Found at i:33418596 original size:46 final size:47
Alignment explanation
Indices: 33418524--33418617 Score: 181
Period size: 46 Copynumber: 2.0 Consensus size: 47
33418514 GAAACCCATT
33418524 AAATTCGAGATTTTTTTATCACCCCTAATTGCATCAATTTATCGTCC
1 AAATTCGAGATTTTTTTATCACCCCTAATTGCATCAATTTATCGTCC
33418571 AAATTCGAGA-TTTTTTATCACCCCTAATTGCATCAATTTATCGTCC
1 AAATTCGAGATTTTTTTATCACCCCTAATTGCATCAATTTATCGTCC
33418617 A
1 A
33418618 TTTTATATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 37 0.79
47 10 0.21
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (47 bp):
AAATTCGAGATTTTTTTATCACCCCTAATTGCATCAATTTATCGTCC
Found at i:33430859 original size:12 final size:12
Alignment explanation
Indices: 33430839--33430874 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
33430829 ATTACTCAAC
*
33430839 TATTTTTATTAT
1 TATTGTTATTAT
33430851 TATTGTTATTAT
1 TATTGTTATTAT
*
33430863 TAATGTTATTAT
1 TATTGTTATTAT
33430875 AACTATTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (12 bp):
TATTGTTATTAT
Found at i:33434150 original size:49 final size:49
Alignment explanation
Indices: 33434093--33434196 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
33434083 TCATGTGTTA
* * * *
33434093 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
33434142 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
33434191 TAATTT
1 TAATTT
33434197 GTTTTTTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
Found at i:33436669 original size:84 final size:80
Alignment explanation
Indices: 33436521--33436678 Score: 199
Period size: 84 Copynumber: 1.9 Consensus size: 80
33436511 TTATATTGAG
* * *
33436521 TATAAGTATGAAATTATATTTATATATATATGTTAAATTCGAATATGTATGTGTATACAGGTATA
1 TATAAGTATGAAATTATATGTATATATATATGTTAAATTCGAATATGTATATATATACAGGTATA
*
33436586 AGTTCTTGTTTCGAA
66 AGATCTTGTTTCGAA
* * * *
33436601 TATAAGTATAGAATTATATATATGTATATATATTTGTTAGATTCGAATATGTATATATGTACATG
1 TATAAGTAT-GAA--AT-TATATGTATATATATATGTTAAATTCGAATATGTATATATATACAGG
*
33436666 TATAGGATCTTGT
62 TATAAGATCTTGT
33436679 ATTGAAATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 9 0.14
81 3 0.05
83 2 0.03
84 51 0.78
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.44
Consensus pattern (80 bp):
TATAAGTATGAAATTATATGTATATATATATGTTAAATTCGAATATGTATATATATACAGGTATA
AGATCTTGTTTCGAA
Found at i:33443523 original size:69 final size:69
Alignment explanation
Indices: 33443409--33443544 Score: 209
Period size: 69 Copynumber: 2.0 Consensus size: 69
33443399 GCAAAATCGA
* *
33443409 TATAAATATATTATTTATATTATAAATTCACTTAATAATAATGTTAATTTCAGTTATAAAATAAA
1 TATAAATATATTAGTTATATTATAAATTCACTTAATAATAATGTTAATATCAGTTATAAAATAAA
33443474 TGTG
66 TGTG
* * * * *
33443478 TATAAGTATATTAGTTGTATTATAAATTCACTTAATGATACTGTTAATATCAGTTATGAAATAAA
1 TATAAATATATTAGTTATATTATAAATTCACTTAATAATAATGTTAATATCAGTTATAAAATAAA
33443543 TG
66 TG
33443545 CTTATATATA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (69 bp):
TATAAATATATTAGTTATATTATAAATTCACTTAATAATAATGTTAATATCAGTTATAAAATAAA
TGTG
Found at i:33449096 original size:54 final size:54
Alignment explanation
Indices: 33449002--33449113 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
33448992 TCCAAATGCC
* *
33449002 CAATAATTTTCTTTTGAACAGTAGTCTCCCACTGATCAGTAGCTTCCCCTTGAA
1 CAATAATTTTCTTTTGAACAGTAGTCTCCCACTGAACAGTAGCTTCCCCTTAAA
* * ** *
33449056 CAATAGTTTT-TTTTGGAACAGTAGTTTCCCTTTTAACAGTAGCTTCCCCTTAAA
1 CAATAATTTTCTTTT-GAACAGTAGTCTCCCACTGAACAGTAGCTTCCCCTTAAA
33449110 CAAT
1 CAAT
33449114 GGTGTTATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 4 0.08
54 46 0.92
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (54 bp):
CAATAATTTTCTTTTGAACAGTAGTCTCCCACTGAACAGTAGCTTCCCCTTAAA
Found at i:33449111 original size:18 final size:18
Alignment explanation
Indices: 33449072--33449111 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33449062 TTTTTTTTGG
* * *
33449072 AACAGTAGTTTCCCTTTT
1 AACAGTAGCTTCCCCTTA
33449090 AACAGTAGCTTCCCCTTA
1 AACAGTAGCTTCCCCTTA
33449108 AACA
1 AACA
33449112 ATGGTGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (18 bp):
AACAGTAGCTTCCCCTTA
Found at i:33456317 original size:24 final size:24
Alignment explanation
Indices: 33456289--33456340 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33456279 TTTCTAGAAA
* **
33456289 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAACATAATAT
33456313 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATTAACATAATAT
33456337 ATTT
1 ATTT
33456341 GAATTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:33458014 original size:19 final size:19
Alignment explanation
Indices: 33457986--33458034 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
33457976 TGCAGGTCTT
33457986 GAGTGGAGGCAACTCGTTG
1 GAGTGGAGGCAACTCGTTG
*
33458005 GAGTGAAGGCAACTCGTTG
1 GAGTGGAGGCAACTCGTTG
33458024 GAGTGGAGGCA
1 GAGTGGAGGCA
33458035 CTATTGTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.24, C:0.14, G:0.43, T:0.18
Consensus pattern (19 bp):
GAGTGGAGGCAACTCGTTG
Found at i:33458474 original size:13 final size:12
Alignment explanation
Indices: 33458452--33458480 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33458442 TGCAAAATTA
33458452 AGAAAGAAAAAG
1 AGAAAGAAAAAG
33458464 AGAAAGAAAAA-
1 AGAAAGAAAAAG
33458475 AGAAAG
1 AGAAAG
33458481 GAGACGCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:33461712 original size:17 final size:17
Alignment explanation
Indices: 33461690--33461728 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
33461680 GCTAAGAACG
33461690 TCCTAGCCCTCAATTCT
1 TCCTAGCCCTCAATTCT
33461707 TCCTAGCCCTCAATTCT
1 TCCTAGCCCTCAATTCT
33461724 TCCTA
1 TCCTA
33461729 TCTTAGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.41, G:0.05, T:0.36
Consensus pattern (17 bp):
TCCTAGCCCTCAATTCT
Found at i:33464934 original size:50 final size:50
Alignment explanation
Indices: 33464845--33464986 Score: 194
Period size: 50 Copynumber: 2.8 Consensus size: 50
33464835 NNNNNNNNNN
* * **
33464845 AATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
* * ** * *
33464895 CATGCTATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
33464945 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
33464987 ACCTCAATAA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
Found at i:33473028 original size:50 final size:50
Alignment explanation
Indices: 33472912--33473144 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
33472902 TATAATAAAC
* ** * *
33472912 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--T
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGT
* * * * ** *
33472961 GCCAATGCCATATCCCAGATATTGTCTTACATGGGAGTTCTCATATCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * * *
33473011 GCCTATGCCATGTCCCAGACATGGTCTTAAAGGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
*
33473061 GCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
33473111 GCCAACGCCATGTCCCAGACATGGTCTTACATGG
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGG
33473145 NNNNNNNNNN
Statistics
Matches: 159, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 120 0.75
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
Found at i:33475031 original size:56 final size:50
Alignment explanation
Indices: 33474813--33475058 Score: 242
Period size: 50 Copynumber: 4.8 Consensus size: 50
33474803 GATAATAAAC
* ** * * *
33474813 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGT-ACT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGT
* * * ** * *
33474862 GCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGT
* * **
33474912 GCCCATGCCATGTCTCAGACATGGTCTTATGTGGGACCTCTCATCTCAGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGT
* * *
33474962 GCCAACGCGATGTCCCAGGCATGGTCTTACATGGGACCTCTCATAACCTCAATGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTC-A-G-T
*
33475018 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33475059 TAACCCAAAT
Statistics
Matches: 158, Mismatches: 32, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
49 38 0.24
50 77 0.49
53 3 0.02
54 1 0.01
55 1 0.01
56 38 0.24
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGT
Found at i:33475983 original size:169 final size:169
Alignment explanation
Indices: 33475703--33476042 Score: 608
Period size: 169 Copynumber: 2.0 Consensus size: 169
33475693 GTATTTTTAC
*
33475703 AAATATGAACCCTTGGTGAAATTATTGCTAGAATAAGCTAAATCAAATTACCGGGGCTTCAAAAA
1 AAATATGAACCCTAGGTGAAATTATTGCTAGAATAAGCTAAATCAAATTACCGGGGCTTCAAAAA
33475768 CGTAAAGAACATTAAAAACGGGGCTTGGAATCACTTACTATGGAGCTTAGAAGCTTGAAAACCCT
66 CGTAAAGAACATTAAAAACGGGGCTTGGAATCACTTACTATGGAGCTTAGAAGCTTGAAAACCCT
*
33475833 AACTATGACTTCCCCCTTGCTAATTTCGGCCAAATGAAG
131 AACTATGACTTCCCCCTTGCTAAATTCGGCCAAATGAAG
*
33475872 AAATATGAACCCTAGGTTAAATTATTGCTAGAATAAGCTAAATCAAATTACCGGGGCTTCAAAAA
1 AAATATGAACCCTAGGTGAAATTATTGCTAGAATAAGCTAAATCAAATTACCGGGGCTTCAAAAA
* * *
33475937 CGTAAAGAACATTAAAAACGGGGCTTGGGATCACTTACTGTGGAGCTTGGAAGCTTGAAAACCCT
66 CGTAAAGAACATTAAAAACGGGGCTTGGAATCACTTACTATGGAGCTTAGAAGCTTGAAAACCCT
* *
33476002 AACTATGGCTTCTCCCTTGCTAAATTCGGCCAAATGAAG
131 AACTATGACTTCCCCCTTGCTAAATTCGGCCAAATGAAG
33476041 AA
1 AA
33476043 GATGACCACA
Statistics
Matches: 163, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
169 163 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (169 bp):
AAATATGAACCCTAGGTGAAATTATTGCTAGAATAAGCTAAATCAAATTACCGGGGCTTCAAAAA
CGTAAAGAACATTAAAAACGGGGCTTGGAATCACTTACTATGGAGCTTAGAAGCTTGAAAACCCT
AACTATGACTTCCCCCTTGCTAAATTCGGCCAAATGAAG
Found at i:33483333 original size:93 final size:93
Alignment explanation
Indices: 33483174--33483359 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
33483164 TGAACATTAC
33483174 ATGTTATAAGTACAAGTATTATGATTAACAAGTATATGTTTAGCTTTTGGAGTTTAATGAAATTT
1 ATGTTATAAGTACAAGTATTATGATTAACAAGTATATGTTTAGCTTTTGGAGTTTAATGAAATTT
33483239 ATTCGATATTTGATTATCCCCCTACATG
66 ATTCGATATTTGATTATCCCCCTACATG
*
33483267 ATGTTATAAGTACAAGTATTATGATTAATAAGTATATGTTTAGCTTTTGGAGTTTAATGAAATTT
1 ATGTTATAAGTACAAGTATTATGATTAACAAGTATATGTTTAGCTTTTGGAGTTTAATGAAATTT
33483332 ATTCGATATTTGATTATCCCCCTACATG
66 ATTCGATATTTGATTATCCCCCTACATG
33483360 CAGGTTAGGT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (93 bp):
ATGTTATAAGTACAAGTATTATGATTAACAAGTATATGTTTAGCTTTTGGAGTTTAATGAAATTT
ATTCGATATTTGATTATCCCCCTACATG
Found at i:33502779 original size:9 final size:9
Alignment explanation
Indices: 33502767--33502800 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
33502757 AGATTTGAAA
33502767 TCTTGATTT
1 TCTTGATTT
33502776 TCTTGA--T
1 TCTTGATTT
33502783 TCTTGATTT
1 TCTTGATTT
33502792 TCTTGATTT
1 TCTTGATTT
33502801 CCAAGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
9 16 0.70
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (9 bp):
TCTTGATTT
Found at i:33502788 original size:16 final size:16
Alignment explanation
Indices: 33502767--33502799 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33502757 AGATTTGAAA
33502767 TCTTGATTTTCTTGAT
1 TCTTGATTTTCTTGAT
33502783 TCTTGATTTTCTTGAT
1 TCTTGATTTTCTTGAT
33502799 T
1 T
33502800 TCCAAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.64
Consensus pattern (16 bp):
TCTTGATTTTCTTGAT
Found at i:33506620 original size:42 final size:43
Alignment explanation
Indices: 33506521--33506683 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 43
33506511 AGCTCGTACA
* ** * *
33506521 ATGCCAACGTCCCAGATGTGGTCTTACTTGTAATCAAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATAACG
* * *
33506564 ATGCCACTGTCCCAGACAAGGTCTTACATGAAATCATAT-ACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATAACG
* *
33506606 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAGT--CG
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AAA--TCAAATAACG
* ** *
33506650 ATGCCAACGTCCCAGATGTGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAAT
33506684 AATATATCGG
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 30 0.30
43 37 0.37
44 29 0.29
45 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATAACG
Found at i:33511917 original size:20 final size:19
Alignment explanation
Indices: 33511862--33511906 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
33511852 CATTTCATTG
*
33511862 AGCTCCAATTAGCTCATTTCC
1 AGCTCC-ATGAGCTCATTT-C
*
33511883 AGCTCCATGAACTCATTTC
1 AGCTCCATGAGCTCATTTC
33511902 AGCTC
1 AGCTC
33511907 ATTTGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.31
Consensus pattern (19 bp):
AGCTCCATGAGCTCATTTC
Found at i:33516027 original size:21 final size:21
Alignment explanation
Indices: 33515985--33516027 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
33515975 CTGATTCTAG
*
33515985 TGTGGATGCATCTGGCTTTGT
1 TGTGGATGCATCTGGCTGTGT
33516006 TGTGGATGCATCTGAG-TGTGT
1 TGTGGATGCATCTG-GCTGTGT
33516027 T
1 T
33516028 AATTGTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.12, C:0.12, G:0.35, T:0.42
Consensus pattern (21 bp):
TGTGGATGCATCTGGCTGTGT
Found at i:33520331 original size:14 final size:14
Alignment explanation
Indices: 33520312--33520339 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33520302 GTATGGAGTG
33520312 AGCCTATTATCTCA
1 AGCCTATTATCTCA
33520326 AGCCTATTATCTCA
1 AGCCTATTATCTCA
33520340 TCCAACTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
AGCCTATTATCTCA
Found at i:33524199 original size:25 final size:24
Alignment explanation
Indices: 33524065--33524195 Score: 149
Period size: 25 Copynumber: 5.3 Consensus size: 24
33524055 ACCACGACTT
* *
33524065 GTATGAGCTTACCAATTTTAGCTC
1 GTATGAGCTTACCGATTCTAGCTC
*
33524089 GTGA-GAGCTTACCGATTTTAGCTC
1 GT-ATGAGCTTACCGATTCTAGCTC
33524113 GTGA-GAGCTTACCGATTCTCAGCTC
1 GT-ATGAGCTTACCGATTCT-AGCTC
*
33524138 GTATGAGCTTACCGATTTCCAGCTC
1 GTATGAGCTTACCGA-TTCTAGCTC
* *
33524163 GTAAGAGCATACCGATTCATAGCTC
1 GTATGAGCTTACCGATTC-TAGCTC
33524188 GTATGAGC
1 GTATGAGC
33524196 ATACATGTAT
Statistics
Matches: 95, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
24 43 0.45
25 49 0.52
26 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (24 bp):
GTATGAGCTTACCGATTCTAGCTC
Found at i:33544446 original size:41 final size:42
Alignment explanation
Indices: 33544395--33544476 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 42
33544385 TTTAATATAA
33544395 AATATTAAATATAAAATA-TATTCCAAATTACTAG-AATCTTT
1 AATATTAAATATAAAATACT-TTCCAAATTACTAGAAATCTTT
**
33544436 AATATTAAATATAAAATACTTTGTAAATTACTAGAAATCTT
1 AATATTAAATATAAAATACTTTCCAAATTACTAGAAATCTT
33544477 ATCGCACGCG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 30 0.81
42 7 0.19
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.39
Consensus pattern (42 bp):
AATATTAAATATAAAATACTTTCCAAATTACTAGAAATCTTT
Found at i:33545259 original size:6 final size:6
Alignment explanation
Indices: 33545236--33545269 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
33545226 CTCCTTGCAT
* *
33545236 AAAATA AAATTT AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
33545270 AGCTTAAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:33571171 original size:192 final size:191
Alignment explanation
Indices: 33570844--33571228 Score: 632
Period size: 192 Copynumber: 2.0 Consensus size: 191
33570834 GAACACATTA
33570844 CAATTACATTGAAAAATTTCAGATTTGCTTTGAGTGAAAATTCTCTTTGAGTTCTTCAAGAATTT
1 CAATTACATTGAAAAATTTCAGATTTGCTTTGAGTGAAAATTCTCTTTGAGTTCTTCAAG-ATTT
*
33570909 TCTCTTGAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTTTATTGTGGGAGTCATCTTCAGCCT
65 TCGCTTGAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTTTATTGTGGGAGTCATCTTCAGCCT
** * * *
33570974 TCTTCTTGCTGTTG-TTTTACATCGGAGGGGAGATTCGAGCCGTTTGAAGGGAGTTGTGGAAT
130 TCTTCTTGCCATTGATCTT-CATCGGAGGGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAAT
33571036 CAATTACATTGAAAAATTTCAGATTTGCTTTGAGTGAAAATTCTCTTTGAGTTCTTC-AG-TTCT
1 CAATTACATTGAAAAATTTCAGATTTGCTTTGAGTGAAAATTCTCTTTGAGTTCTTCAAGATT-T
33571099 TCAAGCTTGAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTTTATTGTGGGAGTCATCTTCAGC
65 TC--GCTTGAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTTTATTGTGGGAGTCATCTTCAGC
* *
33571164 CTTCTTCTTGCCATTGATCTTCATTGGAGGGGATATTAGAGCCGTTTGAAGGGAGTTGTGAAAT
128 CTTCTTCTTGCCATTGATCTTCATCGGAGGGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAAT
33571228 C
1 C
33571229 TTTCAGGATT
Statistics
Matches: 181, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
189 2 0.01
190 3 0.02
191 2 0.01
192 171 0.94
193 3 0.02
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (191 bp):
CAATTACATTGAAAAATTTCAGATTTGCTTTGAGTGAAAATTCTCTTTGAGTTCTTCAAGATTTT
CGCTTGAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTTTATTGTGGGAGTCATCTTCAGCCTT
CTTCTTGCCATTGATCTTCATCGGAGGGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAAT
Found at i:33582077 original size:32 final size:32
Alignment explanation
Indices: 33582033--33582094 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
33582023 GTACCTTTTT
*
33582033 GCTATCTCTAAAAGGATGCCTTTATGGCTAAG
1 GCTATCTCTAAAAGGAAGCCTTTATGGCTAAG
*
33582065 GCTATC-CTTAAAAGGAAGCCTTTGTGGCTA
1 GCTATCTC-TAAAAGGAAGCCTTTATGGCTA
33582095 TCTCTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (32 bp):
GCTATCTCTAAAAGGAAGCCTTTATGGCTAAG
Found at i:33582134 original size:29 final size:29
Alignment explanation
Indices: 33582072--33582134 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
33582062 AAGGCTATCC
* ** *
33582072 TTAAAAGGAAGCCTTTGTGGCTATCTCTA
1 TTAAAAGAAAGCCTTTGTGGAAAACTCTA
33582101 TTAAAAGAAAGCCTTTGTGGAAAACT-TA
1 TTAAAAGAAAGCCTTTGTGGAAAACTCTA
33582129 TCTAAA
1 T-TAAA
33582135 GAGGAACGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (29 bp):
TTAAAAGAAAGCCTTTGTGGAAAACTCTA
Found at i:33592928 original size:10 final size:10
Alignment explanation
Indices: 33592913--33592937 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33592903 GCTCGCTTAG
33592913 TTTCCTACAT
1 TTTCCTACAT
33592923 TTTCCTACAT
1 TTTCCTACAT
33592933 TTTCC
1 TTTCC
33592938 CGAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTCCTACAT
Found at i:33595737 original size:23 final size:23
Alignment explanation
Indices: 33595711--33595754 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
33595701 TAAATATTGT
33595711 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
*
33595734 TTTATTATTATTTTACTTAGA
1 TTTATTAATATTTTACTTAGA
33595755 AAATGGTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:33600104 original size:27 final size:27
Alignment explanation
Indices: 33599666--33600093 Score: 511
Period size: 27 Copynumber: 15.9 Consensus size: 27
33599656 CAAGACCCCA
*
33599666 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
33599693 AAATA-ACTCGTAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
33599719 AAATACCCCCGTAAGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
33599746 AAATACCCCCATAGGGTAAAATAATCG
1 AAATACCCCCATAGGGTAAAATGACCG
**
33599773 AAATACCCCCATAGGGTAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
33599800 AAATAACCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
*
33599827 AAATACCCCCGTAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
33599854 AAATACCCCTATAGGGTAAAATGACCT
1 AAATACCCCCATAGGGTAAAATGACCG
*
33599881 AAATACCCCCATATGGTAAAATG-CTCG
1 AAATACCCCCATAGGGTAAAATGAC-CG
* * *
33599908 AAATACCTCTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
**
33599935 AAATACCCCCATAGGGT-AAATGACAA
1 AAATACCCCCATAGGGTAAAATGACCG
** * *
33599961 AAATACCTTCGTAAGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
**
33599988 AAATACCCCCATAGGGTAAAATGACAA
1 AAATACCCCCATAGGGTAAAATGACCG
** * *
33600015 AAATACCTTCGTAAGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
33600042 AAATACCCCCGTAAGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
33600069 AAATACCCCCATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
33600094 TATTATACCC
Statistics
Matches: 340, Mismatches: 57, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
26 42 0.12
27 298 0.88
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:33600482 original size:28 final size:28
Alignment explanation
Indices: 33600444--33600583 Score: 181
Period size: 28 Copynumber: 5.0 Consensus size: 28
33600434 CACTGTACTG
33600444 GTTACTGTATTGGGCTAAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* * *
33600472 GTTACTATATTGGGCTAAGTCCGACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* * *
33600500 GATACTGTATTGGGCTAAAGCCAACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* * *
33600528 ATTACAGTATTAGGCTAAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* *
33600556 GTTACTGCATCGGGCTAAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
33600584 ATACTGTTAC
Statistics
Matches: 93, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 93 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (28 bp):
GTTACTGTATTGGGCTAAGGCCCACACT
Found at i:33601177 original size:12 final size:12
Alignment explanation
Indices: 33601160--33601184 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33601150 GGCGTTCATT
33601160 CGGTTAACCGAC
1 CGGTTAACCGAC
33601172 CGGTTAACCGAC
1 CGGTTAACCGAC
33601184 C
1 C
33601185 CGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:33601356 original size:9 final size:9
Alignment explanation
Indices: 33601342--33601386 Score: 81
Period size: 9 Copynumber: 5.0 Consensus size: 9
33601332 TTTGGTTAAA
33601342 AATTAACCG
1 AATTAACCG
33601351 AATTAACCG
1 AATTAACCG
*
33601360 AATTACCCG
1 AATTAACCG
33601369 AATTAACCG
1 AATTAACCG
33601378 AATTAACCG
1 AATTAACCG
33601387 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:33602153 original size:75 final size:75
Alignment explanation
Indices: 33602015--33602164 Score: 230
Period size: 75 Copynumber: 2.0 Consensus size: 75
33602005 AAGGAAAACC
* * *
33602015 AAGATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAAGCTATTACATTCTTTCC
1 AAGATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGCAATTACATGCTTTCC
*
33602080 AAAAGAATAT
66 AAAAAAATAT
* *
33602090 AAGATTATTCCCTTATTAATAGAGAAGACAAATGGAAATTTAGAAAAATG-AATTATATGCTTTC
1 AAGATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAA-GCAATTACATGCTTTC
33602154 CAAAAAAATAT
65 CAAAAAAATAT
33602165 TAATTTCCAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 67 0.99
76 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (75 bp):
AAGATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGCAATTACATGCTTTCC
AAAAAAATAT
Found at i:33610333 original size:13 final size:13
Alignment explanation
Indices: 33610315--33610342 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33610305 ATTGAAATGA
33610315 TGAAGAAGGGGTC
1 TGAAGAAGGGGTC
33610328 TGAAGAAGGGGTC
1 TGAAGAAGGGGTC
33610341 TG
1 TG
33610343 TAAGGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.46, T:0.18
Consensus pattern (13 bp):
TGAAGAAGGGGTC
Found at i:33611127 original size:18 final size:18
Alignment explanation
Indices: 33611100--33611163 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
33611090 TTCGGTCCTC
*
33611100 ATAGACTTTTTTACTGTA
1 ATAGATTTTTTTACTGTA
33611118 ATAGA-TTTTTTACTGCTA
1 ATAGATTTTTTTACTG-TA
33611136 ATAGATTTTTATTCACTGTA
1 ATAGATTTTT-TT-ACTGTA
33611156 ATAGATTT
1 ATAGATTT
33611164 CATTAATTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.24
18 12 0.29
19 4 0.10
20 12 0.29
21 4 0.10
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (18 bp):
ATAGATTTTTTTACTGTA
Found at i:33614194 original size:9 final size:9
Alignment explanation
Indices: 33614180--33614229 Score: 82
Period size: 9 Copynumber: 5.6 Consensus size: 9
33614170 TTGCAAAAAG
33614180 GACGATGAC
1 GACGATGAC
33614189 GACGATGAC
1 GACGATGAC
*
33614198 AACGATGAC
1 GACGATGAC
33614207 GACGATGAC
1 GACGATGAC
*
33614216 GATGATGAC
1 GACGATGAC
33614225 GACGA
1 GACGA
33614230 GGTTTCTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.36, C:0.20, G:0.32, T:0.12
Consensus pattern (9 bp):
GACGATGAC
Found at i:33615318 original size:9 final size:9
Alignment explanation
Indices: 33615302--33615345 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
33615292 TTTTGTTACA
33615302 ACAATTAAT
1 ACAATTAAT
*
33615311 ATAATTAAT
1 ACAATTAAT
33615320 ACAATT-A-
1 ACAATTAAT
33615327 ACAATTAAT
1 ACAATTAAT
33615336 ACAATTAAT
1 ACAATTAAT
33615345 A
1 A
33615346 ATTTGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 6 0.19
8 2 0.06
9 23 0.74
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (9 bp):
ACAATTAAT
Found at i:33615334 original size:16 final size:16
Alignment explanation
Indices: 33615313--33615348 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
33615303 CAATTAATAT
33615313 AATTAATACAATTAAC
1 AATTAATACAATTAAC
*
33615329 AATTAATACAATTAAT
1 AATTAATACAATTAAC
33615345 AATT
1 AATT
33615349 TGATAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTAATACAATTAAC
Found at i:33615439 original size:16 final size:16
Alignment explanation
Indices: 33615418--33615459 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
33615408 AATAATTTGA
*
33615418 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
33615434 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
33615450 TATTTTTAAT
1 TAATTTTAAT
33615460 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Done.